Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_067639
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 949915
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Warning! 7 characters in sequence are not A, C, G, or T
Found at i:14396 original size:18 final size:18
Alignment explanation
Indices: 14373--14407 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14363 GACTGCAGAA
*
14373 CTGATTCTAATCCTTGAG
1 CTGATTCGAATCCTTGAG
*
14391 CTGATTGGAATCCTTGA
1 CTGATTCGAATCCTTGA
14408 ATTCGCCCAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (18 bp):
CTGATTCGAATCCTTGAG
Left flanking sequence: Indices 13873 -- 14372
CGGACAACCAAAGAATTGCATTGCATATGTAACGGTTTCATCCGCGACGACTGATCTAAGAGTAT
AGAATAGAGGGTAACGCGGGTGGAATAATAAAGATAGGAAAGAATGTTCCCTACCTAACCGTATA
CTAAGAACTATAGGGTGGAGGACGGCATAGAGAAAACAAACACTAGCCGAACAACCAGTAGAGCG
GGGATAACGTACGAAACCGATAGTGAGAGCTAGCTGAGCAATAGCACAAAAAAGAGGTCACGTTC
GAACGGTAAGCTACAACTAAGAAATATGTATATAATATAGAAGAGCATTTCCGCGGCCTGTAACA
CAATCGTTTCGGATCCCCGCAAGCATGCGCTTCTGATTAGAAGGGTGGTTTACATGATCCGCTCG
AAACTCGAGATGTCCTATTTTCTTATAGGAAACTGCCCATTTAATCGATCTTGAGATTGAGGCGC
TAGCCAGAGCCTCTTTGAAGATCTGGCCTCGCATGGACTGCAGAA
Right flanking sequence: Indices 14408 -- 14907
ATTCGCCCAGGGAAGAGGTATCATATACAGTTCAGACGATTTTGAAGACGATCAGACGAGAAATG
AGATTCTAACTAAGAGGGTTGCTGCAAAATACGCTTTTTACGCAATAAAGAAGAGTGAGCAGAGT
GGCTGTTGGTTTCGTTGAAGACGTGAAGGCGAGAACTCTCACCTCTGCCAGTGGGACTCAAAAAC
CATTGATTTCAGATTTCATTGGAGAATGAAAGTGAAACTGATTAAATCATAATAAGGATCGTGCG
CCTAATCCTCATAAGCTTCCGATTCGATTAGGGAAGTTCTTTATTCTTTATTTGGGATCGGATTC
AAGCTCATCAGAGTCAAGCTCAGAGGGGAAGGTTGGAGAAGTCCATTGTCTTTGGCTTATTCGCT
TCCAACCGTTGAATGAAAGCGAAAGTGGCTTTTTCAATCCCCCATCGTGGGGTAGAACTCTGATT
GGAAAGACCGATGCGTCTCAGGCTCAATCTTGGGCTTGCCTGGCA
Found at i:29139 original size:20 final size:20
Alignment explanation
Indices: 29111--29150 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
29101 GTTAGGTAAG
29111 GAAGGGAAGATACCATCCTA
1 GAAGGGAAGATACCATCCTA
* *
29131 GAAGTGAAGCTACCATCCTA
1 GAAGGGAAGATACCATCCTA
29151 CAGGTAAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (20 bp):
GAAGGGAAGATACCATCCTA
Left flanking sequence: Indices 28611 -- 29110
AGCAGAAGCGGAAACCTATTATACTTTATATGCATTGCAGCTCTTGGAGTCTAAGACTTCTAACT
CTTTAGCCTCATTGGACTCAAGGACTTAGATGAGCTAACGGTAAGAATAAAAACCTGACTTTAGG
AAGGAAGGGGAGAAAGGAAGAACTATCTAACTATTAGATGAATGAGAGTGATTATATGACCATCT
TGATTCAACCAAAAGGCCCATAGGACCTATAATGGGGGAGTAGCTGAGGCTATCTAAACTCTCGT
TTAAATGCTTTAGAGAGGCCCCTTGAGGACAACTTCTTACAGGGTTTTCTTACCTTACTATATCA
TACTACTTTCACTGGCCTTTGGACTGAAGAGAAAGGGCATTCTAGCCCCTCTCTCTCATAACAGA
AGAGAGCAACTACAGGAACTCTCTTAACTTACTGCCTTAGCCATAGCTTCATACTAGCTACTAGG
AGAGACTTCGATGCACTCACCTTAGAGAACTTATAGTTAGGTAAG
Right flanking sequence: Indices 29151 -- 29650
CAGGTAAGATCTATCTCTTCTCCTGCCTTGCTCTAACCTTCAAGGAAAAGGAAGGAGAAACTACA
GGAAACTCTTAGACGCAAGGCTGCCTCACTCATATCACTGTACTAAAGGCAATCACAAACAAGAA
GAGGTGAGTCCTTAGTACACTCCAAGTACAGGAAGGACACTTTAGCTACATATTACTCCCAAAGG
AAAGAAGAAAGATCCAATCTAATCTATTCTTTTCTTTCCTAGCTTCCCCAACCAGCTAGCTACTA
GGAAAGAAGAGAGCTACTAGCAAGAGAGGGATAGATAGAAGGGCTTATAAGGCATTCTAGAGGGA
TATAAACCTGCAGGAGCAAACTTATTCTCCTCAAATTGCATTGAGATCTTGGAGTCTAATAAGAA
CTACAGGACGAGAGAATGATATTAACATCACTAGGAGAAGCGTCCGGGTTGTAAGAGGCACTTGA
AGACAGTACCTAGCGCCTACAGACTGCTTAAGGGAATAAGACCTT
Found at i:36854 original size:15 final size:16
Alignment explanation
Indices: 36824--36856 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
36814 AGCTACTAAA
*
36824 TCATAGCTGCGAGAGC
1 TCATAGCCGCGAGAGC
36840 TCATAGCCG-GAGAGC
1 TCATAGCCGCGAGAGC
36855 TC
1 TC
36857 GGAACTCTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.24, C:0.27, G:0.30, T:0.18
Consensus pattern (16 bp):
TCATAGCCGCGAGAGC
Left flanking sequence: Indices 36324 -- 36823
GCTAGAAGACACTTGGCTTCCTTAGGGACGATTAGGGAAGAGAAAAGAAGGTAAAGGAAGGAGGG
ATTCCATTAGTAGACTGGAGCTAGACCTTCAGCAGATACCAATTCAACGGATTGACCGGACTTCG
CCAAAGCCGCAGCCAACAACTCCTTACTTGCTCTCAACGCGTTACTCGTTGCTTGCCATAAACCT
TTGAACTTCAACAGACTCAGCCGGGGATAACAACTAGGGACTACTTCCCTGAGCCCCTAAACCTT
GGCGTTTAGCAGATAACAACTACCAGATGCCTGAGCTTACAGGGCATAGCTCTAACGACTAGAGG
AGCATAGAGACCGAATTTAGGCATACAAGGAGACAGGAAGCCTTCAGGAAAGGGGCTAAACTAAC
AATTTAAGCAATAAGAGAAGCCAACCCATAGAAACTAAATCCAGAGGGTTACGGACACCAGGGGG
CGGTCCGAGGGGTCCTCAACTCAATGATGGGGCTTAGCTACTAAA
Right flanking sequence: Indices 36857 -- 37356
GGAACTCTAGCTACCAACTCATAGAGACCTTGGGATCATAGCGTACTTGATAAAGACCGTCAACA
GCTGCAAGCACAGGAGAGGAGAACGGAAGCAACTTAGCCGTGAAATGAGCCTTTCAACGGAAACC
ACTTACTGGATCCTCTTTAAAGAGGGATTGAAAAGAAGATAGACAAGGAAGAAGAAGTTGGATTA
CTTACTTGAGAAAGCACTTCAGCAGATACCAACTGATTGAACAGACAGGCTCCTTAATGACCGGA
ATGCGCTTTAGCTACAAACTTCTTACTTGCTTAGCCCTGGGGCAGCTACCTCCTTACTAGCATTC
GCTCTTGCCGAAGCTACCGACTCGTTAATGGATATAACCAGAGGTGCTTGCCCTAAAACTTCGAA
CTTCAACTGCTTCCAACGACGAGTTACTGGCTATAGCTCATAGGGCTTACTCCTACTCTTCTAAA
CTGGAGTCTTCAAAAGCATATCCCATTATTTACTGATAGAAAAGA
Found at i:56651 original size:21 final size:21
Alignment explanation
Indices: 56625--56679 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
56615 CCCCCGTTGG
*
56625 TTGTTGGGTTTGACCAACCAC
1 TTGTTGGGCTTGACCAACCAC
* * **
56646 TTGTTGAGCTTGGCCCGCCAC
1 TTGTTGGGCTTGACCAACCAC
56667 TTGTTGGGCTTGA
1 TTGTTGGGCTTGA
56680 TTGTTCACAC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.13, C:0.24, G:0.29, T:0.35
Consensus pattern (21 bp):
TTGTTGGGCTTGACCAACCAC
Left flanking sequence: Indices 56125 -- 56624
TCTCCTGTTGGCGAATCCCCTTGCTATTGTTCTTTTATAAATATATCCCATTCCTGCCTGTCTTG
CGGCACATGCGGTACCAGCTCTTGTTCTTGATGTGGCTCTTTCGGAAGTTGCGGAAGATAGTATA
GATGCTCCTGTTCTTTCTGCGGCAGTTGTGGATGCGCTTTCCTTTTTAGTATCCCGGTGCAGCTG
TCTTGTTTAAGCTATGGATCTTATATAGAGAAGGAGTGTGAAAGCTAGCTCTTGAAAGCAGTGCG
AGTTAGGCGCGAATCCCTTTATTTAGAAAGCAAAGCAATCCTTTAGGTAGTCAATCTATCCACAA
ATTCCTTTATTTTAATAGATATCCCCGCCCGCTTTTTGCCGTCCAACCTGGAATCAAATCTATGC
CGCCGGGTGTCTTCTCTTTCTCCTAGTTAGCAGACGAAGACGCGTCTTATCGTCTGCATCTAGAA
CTACTTCTAACTCAAGAACGCATTCTCCAGAGGTGCCCCCGTTGG
Right flanking sequence: Indices 56680 -- 57179
TTGTTCACACCAACCATACGTGCCGTCAAATTGGCAACTTCAGCTTCTTTTTCTTCCAATCGCCT
CCGCAGTTGTGCCAGCTCTTCTTCTATAGTGTTGTTAGCAGGTGGAGGAACAAAGTGTGATGTGG
AGGCAGCATCCGCTGCTGCGACCATAACTGACACCGTTTTAGGAAGAAATTCGTCGGATACGCTT
CTCGGAGATGGAAGTGGAGTGATTTCAGGAGAGATAACCGGGGTAGAAGCCTCCGAGAAACCTGA
TGAGGGGATTATCGGGAACTCCTCCTCAGCAACAAAAAGATTTAGAGAGAGAAAAAGGGGTTTGG
AGATCAGAGAGAGGAAGTAGGCTTTAGAGAAAAAGTCCCTCTTGTGCCGGTAGTAGGGAAAGCAG
CTGAGATAGAGAGAGCAGTTCTCCCTTAAAGTCCTTTATGGATTTTGAGTCGGGAATAGGGCTGT
GGCTTAGATCCCCTGATCGAGTAATGGGGTTTGTTTTTCTCTCGT
Found at i:65688 original size:19 final size:19
Alignment explanation
Indices: 65664--65704 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
65654 ACCCCGGGAA
65664 AATCATTCTTCTAGGAACG
1 AATCATTCTTCTAGGAACG
*
65683 AATCATTCTTCTAGGAATG
1 AATCATTCTTCTAGGAACG
65702 AAT
1 AAT
65705 AATAGGGAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (19 bp):
AATCATTCTTCTAGGAACG
Left flanking sequence: Indices 65164 -- 65663
AATAAAAACCTAACTTGAAGAAGCAATTCCCTACTTCGGTAGCTCAGCCTTAATCAGTATAGGGG
CGAGTCCAGTCCTTAATCAAGCGCTTTCTATCTATCTTTCATATTGAGTGCTCTCAGAGGTGCAT
GCCTTGACCCCTTTGCGGATGTCGCAGCACAAGCCTGACTTGTAAGTGAATCTCCAGACCGTCTT
TGTCCTCGCTTAGACCCTTATTGATTAGATTAGGGCACACTGCCTTAGTCAATAGGGGGAAGATC
TTGTACATAACATATATGGATACCGAGCAGAATACTCTCTTGAGCTCTTGCTTTGCTTTAGGGCT
TCTTAGTGATCAACCTTTCGCAGCCGCTTTCCTCTTCCGAACCAAGCTAAAGTAAGCAAGCTACC
TTTTGTCGAGCTTTAGCTTTCGCCTTCCTATCTTTCATTGAGTCCACGCTTTCGCTTTAACACCT
TCTTCTTATATGAAGATAGTTTAATATTTGAATAAACCCCGGGAA
Right flanking sequence: Indices 65705 -- 66204
AATAGGGAACTAATTGGCAGAAGGTGGTGCTCTTCTCTTATACGTAGTGCAGTTCTCTCCCTGTT
GAGGCTTTTCCCGTCCTTCCTTTTCTTTTAGAGTTTCAACTCCGCTTCTACTGACTTAAGAGCTT
TTTAGGAATCCTTTCTTTCTGCTTACTAACTATACTGGGCTAAGTTGGTTGCTCCCGAGAGTTCA
CATCATCATCAGTACTGGATAACTCTGAGCTCCAATCTGATCTCTTGCCTTTCCGAATTTCCAAT
AACTTTCAGTCCCTTCCCTCTTAGAGACATTTTCATTTGATCCTCGCTCGCCCTAATCAATAGGG
GGCTAGGCGTCCTCACTTTCATTTTGTCTGTAATCGAGTCAGTCCCGCCAGGAAAGATTCATTCT
TTTGAACCATGGCTCAAAACTACTACTACTAATTCACAAAGACTAAAGAAACTACTTTCCCCTTG
CTAACCAAGCGACTCCTATCTCCTATCTGAAGCTGCCAGCCACTC
Found at i:79377 original size:30 final size:30
Alignment explanation
Indices: 79336--79392 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
79326 AGAGCTGGAT
* *
79336 CTGTTAATCTTCTTATCCTTTCCCTTCTTA
1 CTGTTAATCTTCTTAGCCTTACCCTTCTTA
*
79366 CTGTTACTCTTCTTAGCCTTACCCTTC
1 CTGTTAATCTTCTTAGCCTTACCCTTC
79393 GACTTCTTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.12, C:0.33, G:0.05, T:0.49
Consensus pattern (30 bp):
CTGTTAATCTTCTTAGCCTTACCCTTCTTA
Left flanking sequence: Indices 78836 -- 79335
CGGTTGGTTTCTTCTGGTTAGAGCTAGTATCTGTTCCAAACAAGGAGAACCTACCTTCTTCTTTC
TATGCACGAGTCATCTTCCTCTAACCGCTAACCACTTGAACAAGAAAAGGATAGAACACCAGCTA
CAGTGACATAATCCGATCTTGGTCGCATTACTTCGAGGGGAAGAAGATAGCTCTCGAGGGATACT
TAGTGATTAGGCGAGCTACCCTTCATTCAGTCGATTATGGATTGAGCTAGTCTTACGGCTTATAC
ACCTATTCCAAAAACATAAATTAGACAATAGACAGAGAACAAGATCCCCCCTGCGGGATACCGAA
AAGGCTGTTAAAGGTTATTTTCATCCCCCTGCTTGAGTCAGTGCGCGAATCCTTCCAACTATAGC
TAGCTTCCTTCTTTCGTTTTGACTTATTTTCTTATTTCTTTGTTGCCTTACTGCATTTTGGAAGT
TCATGATCATTTTCTTCTTTCTTTGTTACAACTTCAGAGCTGGAT
Right flanking sequence: Indices 79393 -- 79892
GACTTCTTAGCCTCTTTAGCCATCCTGACCGACCTGACTTTAGACCCCCTAAACGAGGAGTAAGC
GTTGAAGAGGTCTAAAGACTTCCAAAAGAAAAGCCAAATCGGTCTATCAGAAGACGACCCACACT
GCTCGAGTCTAGTATACTCTGATCGGGGCTACCTTACTATAGGAATTCAGCACGGCAGATATAGA
CTAAAACAATTCCATTTCCTATCTCGAATCCAAAGAACAGGCTGGTGTGTGTCAATAAGAAAACG
AATCTTCTGTCCAGTCCATGAAAGGTATATCGTTTGTACGTGCCTCTCAAAAGAAGTGAACCAAA
AGAAAAAACAGTATACGCAATGGCGGCTTAGTTGCTACCGTACCGCTCAGAAGTCTCAATCCCTA
TCCCGGATTTTAGAGAGTAAAGGCGTTAATTTTACTTTGGAAATGGAAACAAGCACTATGCCACT
GACGCTTCATACACAGAAAGCCTTGTCTTTATTATCTAAAGCAAT
Found at i:83164 original size:16 final size:18
Alignment explanation
Indices: 83134--83166 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
83124 CACCAACAAA
83134 AGAATAGACTATCAAACC
1 AGAATAGACTATCAAACC
83152 AGAA-AGACT-TCAAAC
1 AGAATAGACTATCAAAC
83167 GAAAACCAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.52, C:0.21, G:0.12, T:0.15
Consensus pattern (18 bp):
AGAATAGACTATCAAACC
Left flanking sequence: Indices 82634 -- 83133
TGGAATAAGCTCCGTTCCTATTTCCCTTGGTGTGTAGCTTAGCTAGCGAAGGTCCAAGTGGAAAT
GACAGAAAATCCACTGACGCTTACTCTGATGCCTTTGCTCAGTCAACTCCTTCAATAACTACAGG
TGCATCCCCAGGGACCCATAAACAACTAAATCACTTGCTTAATCTACTGCTTAACCGACTGATGC
TGCTGGATATACTACTGCTGATGCTGGTGTTGCTATCTTAGCTGCTTGCTGGTGTTTCCTTTTTC
ATTTTATATAGGCAGAAGAGGAGATGCGCTAAAATACAGAGAGGCTCTCTAACCTCTTACTTCTC
AGGTATCTTTGCCACGGGAAGAAGGATTATCGGATACTTGGATCTGGAGAATCCAACCACTGGAC
ATCAAGCCCGGTCTGGTGCACATCGAGCCGGAGATGAAGGGACGGATACTAGCCTTTACACTCCT
AAAGTTGACTGGCGAGGTCTCTCGAGCCTGCTGACCACCAACAAA
Right flanking sequence: Indices 83167 -- 83666
GAAAACCAAGATCGTAGACTTTTTATTCGGTTTCACCTTTAATCAAATGTCTTAAATCTGTGTTC
TCTCAATCAATAGGACGGCTGCTAACGGGTAGGCTGTTCCTAGACACCTAGGGTGGACTTCTATG
GTTCACACTGCGCACAACCGGACTTACTAGACTCAAGAGTACCTAACTCTAACGGAAACGATCAA
TCCCGTTGCCACATCGAAACCCCGTAAAATTGATTAAAACTCGATTTCCCTTCTAACGAGCCCAC
TTTTCAGTGACAACTTGTCAAAACCCCGTATTTTTAGCCTCAATTGCTTTTCCACTCATAAGAGT
TCAATCAGTCTTTAGGCCAATTTTAAGGGGTTTTCTACCTTTAATTTAATAGTAAGGATGGGGCG
ACACTGAGGATGTCTATTCACGAAGAGAGGATTGACCTCAGGAATAGATAGAGCCAATCAACACT
TGTTGAAAAAACAAATGAAGTTGTAAACCCCACTTCTGTGAATTT
Found at i:99506 original size:29 final size:29
Alignment explanation
Indices: 99464--99519 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
99454 GTACTGAGCT
*
99464 AAGGGGAAGCCTTTCAATCCAAGCAAGTA
1 AAGGCGAAGCCTTTCAATCCAAGCAAGTA
* *
99493 AAGGCGAAGCCTTTCAGTCCATGCAAG
1 AAGGCGAAGCCTTTCAATCCAAGCAAG
99520 CCAGTATCGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (29 bp):
AAGGCGAAGCCTTTCAATCCAAGCAAGTA
Left flanking sequence: Indices 98964 -- 99463
TAACTATCTGTAGTAGTATGTAGTATCGGTTAGGAGTCGGAAGTAGGAAGTAGTAGTAGAGTCAG
TCACAGTCTAGTAGTGATATCATTTCTATGGGCATTTTCATGTAGACAGAATGGCAGTTTAAAGT
GAGTAGAATAAGGTGGACACTAGAGAACGGGCTCCCTCTAGTTAGAAGGCTTTCTTTTTGCCTTC
TCTTTCGTGTTGCTAAGTAAAGGAAGTCCCATCCCGCAAGCCAAGCAAGGGGCCATGCGGTCACG
CCGCCCCACTCTGAGAACTGAAGTCAGTCCCCCTTTCCTGTCGGTCGACATTTCAACTCAACGAA
TGAATACCTTCGGTCGGAAGAGCTGGAGTTATGGAACCTAGCTCCTGCCGTCCGGCCCACGATCA
ACAAGATAATGAATGAAGGCGGGGGAAGGGAAGGAAGTAAGATACGTACTAGCAACCCGAAGGCA
TCCTTGTTCTTTGTGTTCTTTGGCAGGACAGATGGGTACTGAGCT
Right flanking sequence: Indices 99520 -- 100019
CCAGTATCGCCACTACGATTGAGAGAACTTCCTCTTTCCGGAAAGAGGGGGAAACTCCCCCAGCC
AAGACAGGCAAGACTCGATCCCTCCTAGGCCGGTGTCAAACCCTCCACCTAAGTTGATCAAAAAG
CACACTGTGAGTACCACATGGGCACGCCGGGACACTGGACTGATAGATGCTACAACCTAAGGCAC
AAGATTCAAGACTTGATTGACCAGCACTTATTGGAATTCCAGGAAGGAGGAAGCAACCCCGTCAT
TACAAAGAATCCATCCCCTACGCGTGGAATCAACGAGACCGGACCATCCAACAGTGCAGACTAGC
CCTCTTTTCCAAGAAGCTCAGACATTATCGGTTCATCAACATTTTTCTGCCGACTGGAAGTTAAT
AGCAGACGAAGACGAAGATGCATCGACAGACGCATACGCAAACACCGGGGAATCTCTCGTACTGT
ATCGATCGGTCATCCGTGAACTCTCGCATCTGTTTAGCGAATCGA
Found at i:112080 original size:24 final size:24
Alignment explanation
Indices: 112053--112124 Score: 135
Period size: 24 Copynumber: 3.0 Consensus size: 24
112043 GGGCGAGGCT
112053 CCGGCGCAGGCTCAGCAGGAGGGG
1 CCGGCGCAGGCTCAGCAGGAGGGG
112077 CCGGCGCAGGCTCAGCAGGAGGGG
1 CCGGCGCAGGCTCAGCAGGAGGGG
*
112101 CCGGCTCAGGCTCAGCAGGAGGGG
1 CCGGCGCAGGCTCAGCAGGAGGGG
112125 GGCCGTTGAG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.17, C:0.29, G:0.49, T:0.06
Consensus pattern (24 bp):
CCGGCGCAGGCTCAGCAGGAGGGG
Left flanking sequence: Indices 111553 -- 112052
CGGATAGGAGTATCGGGAGGGAAACAAGCCTGGACAATTGAATGAAAGGTCGAGGACGCGGATCT
TTTCTGTTTCAGATCTTGGATCATGGTGTTCAATTGTTCCATTTCCATTTTTTCTCTCATGTGGA
AATCCCGGCAGTTCCTATAGGACGCAGCAATCTTTTTTTTTCACTAAAAAAATCAAAAAGAGCTT
CATCGGTTTCACAGCTTCCATTCAAAATGGAATGATTCCTCTTCAATGAATGACTAAAGGGCATA
CGTCCGGGGGCATAATCGGATGCCAGCCGAGCGGGGTCGACCGTATAGATCGACTTTTTTAATCC
GCTTAGAGCCCTCCTCCGCCCCTCCGCCTCTTTTCGCGCCTCTCCATGTCTTTCTGAATACACTT
ATCCATTTCCCCCTCCCAATAATTGAGCATCCCTTTATAATAGCGAAGGCGTTTAACGGTTTTTT
TGAGCTCTTCCTGCTCCTTCGATAATGAGAAAAAAGGGCGAGGCT
Right flanking sequence: Indices 112125 -- 112624
GGCCGTTGAGATCTAGCCCCGGCTCAGGAGCTGGAGGTTGGTTTAGATCGAGCTCCGGGCGCCCC
GAACTCGAAGGCCCGGCATCGCTTCCGCCGCCTCCAACGGAAAGAGGGAGTCTGTCCATGGAAGA
CAGAATCCAATCGATCCAGTCCACAAACAAAGAAAGGAGCGATCCAAGTAAAGCCCCATGCAAGC
ATCAGGAACGAAATCAAGAAGAAAATAAAGTGAATAAATTATTATTAGAATCGCTTTTCTTTCCA
TAGCGCAAGTCCTTCCAGTATTTATAGAATGAGCACTGTAAACTATCTGCTTCAAAAAGATAGTT
GTAAGAATGAAACTTCTTCGATCGGAATACGGATGAGATCAAAAAGGCCATCATTGGGGCAAACG
ATGCAATAGCTTCGGTTAGAGCAAAGCCCATATTCCTTTCCTGAGAGTCCTCTTTTCTTCGAAGT
ACTGCTTGCCATGGCCAGTTGTTCCAGTTGTCATCTTTATCTGAG
Found at i:163058 original size:29 final size:30
Alignment explanation
Indices: 162996--163059 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
162986 AACAACAAAC
*
162996 AACTACCTAGCTACAGGAGGAGAACTACAG
1 AACTACCTAGCTACAGGAGGAGAACTACAA
163026 AACTA-CTAGCTACTAGGA-GAGGAACT-CAA
1 AACTACCTAGCTAC-AGGAGGA-GAACTACAA
163055 AACTA
1 AACTA
163060 GCTACAACTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
29 17 0.55
30 14 0.45
ACGTcount: A:0.42, C:0.22, G:0.20, T:0.16
Consensus pattern (30 bp):
AACTACCTAGCTACAGGAGGAGAACTACAA
Left flanking sequence: Indices 162496 -- 162995
TATCTCCTACATTCGACTAGCTACCATGGCTAGATCTAATTAGTTCTGTTCTGTCCTTGTTTGAT
AGATTGGTAGATAGATGCCCTACTGGCTTAGTTAGGTACTTACCTCAGGTATTGGATTACAGGAG
CAGAGCTGGCTCTATCCATACCATATAGGGAAGACGCAGATTGCTAATTGTTGTTGTTGCGTCTT
CCGTCTGCTAGGAGAGATCAAACTAGTCAATCCAGGGAAGATATAATAAAGAAGGAAGAGAAGAT
GGTTTAGGATTCGACTGATTTCGAAAGCTAATGAAAAGAGTCTATCAATCGGGAAAGGATAGATC
TAAGAGGCTAGGCTAACACTATCAAGGCAGGAAAGAGACATTCGCATACTAGCTATCACAAACTA
GATGCTTACAGTCCTCTCCCAGTGCAGTAAGTAATAAATACATCTAGAAAGAAGATATTCTCTAG
CCTAGAGGAAAGAGAACTACTAGAATAGGAATGCCAACAACAAAC
Right flanking sequence: Indices 163060 -- 163559
GCTACAACTAGCTACTAGCTACATGGTTTAGGAAGAGAAGACAGCTCCTATCCGAGCAAGCCTAA
CTCGTTGTGCTGATCGGACAAGCAGTATGTATTGATCGAAGCGGGTGTAAGGAGTTCCCCAACTG
ATCGAAGCGAGGGAGACGGGAAAGGCGAGAGGAGCGGGTGAGGTTTACGGATTGAAAGCAAGCGG
AGCGAGGAAGCAGGGAAGGACAGGCTTTGTGGGTTCCTCCCCTTAAGGTAAGGCGCGCTGCCCGA
CCGACCGAGCAAGTAGGTTCTTTTCTCGAACGCAAGGATTGATTTTTCGGAGTGAACGAGATAGA
TTCGAAAGCAAAGGCACATTGAGTACCCAACCATAAGTCATCCCTTGAAACCCTCTCGCCACGAC
AGATTCACATCCTTAACGAACGTACAAATAAATCAACGAACCATCCCGTCGGGAGATGATATACT
ACTATTGAGTTTCGAACAGACAGACAAGCTATGGTCGAGTTACTT
Found at i:190708 original size:22 final size:22
Alignment explanation
Indices: 190660--190709 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
190650 AACGGGGGAT
* *
190660 CTTTCTTTCTTTATTTATTTAT
1 CTTTCTTTCTTTATTTATCTAC
*
190682 TTTTCTTTCTTTTATTTATCT-C
1 CTTTCTTTC-TTTATTTATCTAC
190704 CTTTCT
1 CTTTCT
190710 CAACTCCTGG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.10, C:0.18, G:0.00, T:0.72
Consensus pattern (22 bp):
CTTTCTTTCTTTATTTATCTAC
Left flanking sequence: Indices 190160 -- 190659
CTAAGACAGGAGTTTCGTGGAAAATAAAAACCTTTATCGGATTTGAAGCGATGACTTACGCCTAT
TTCTTAGGACGTTTAAAGAGCGTGACTCTACCGCTTAGTTAAAATAAAAGGGCCCATTTGATTCA
ATTCATGAATTAGCCCACTATGAGTCTACTGCATTTATAAATATATATATATATTTATATAATAT
ATTATAGATTCTTTTTATTATTAAATTAATATTAATTTAATAATAATATAGTATATCATTCGTGT
CTCTGTTACAATACGGCGAAACTAAATGGTTCGAATGAAATAAATAAATAATAATTTTGAGGCTG
TACACCTAATTTTCCTGGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGTCAAGGCGGAAGCT
GCGGGTTCGAGTCCCGTCAGTCCCGACGGATCCAATAAATACATCAATTCAACTCTCTCTTTTCT
GTGAAAAGGGGGACAGGGAGCAGAATTAAATTCCCAACGGGGGAT
Right flanking sequence: Indices 190710 -- 191209
CAACTCCTGGTGCTGCTACTCTTCAACTCCATACTAACATTACTGGGTATTCCCATTCAAATTCC
TATCATCATCGTCGCAGCTTGCGAGTTTGAGGAGGATAAGGTCGATTCGATGGAGGTGCAGCAAG
CCCTCCCCCCGGTGCCGGAAGTTTCTGAGCCACTACCACTAGCTGAGGAGCCTGTTCCTCCTTTG
TTTGAAATACAAGCTTCTGAGGTCAACCAAGAGGACATCTGGAGGGAGTTGGAGCAGCAGGAGCA
ACCGGCGCCAACGGGTGGAGCTAAGCTAACAAGGCCTCACATATGCGAAGGCTTACCCCATTGGA
AAATCCGGTAGCTGATCTTATTATCGACTTACGAAAATCCGAACGTATGAGGGTACCCTCACCTA
ATAAGATTCAACGAATCGTCGAAATGCTCGAAGAAGAGTATGGTCTGGAAAAGCTACGCACGATC
AAAAAGCACAACCAACGATATGGCGGAAATAGTCTATTTTACAGG
Found at i:218348 original size:18 final size:18
Alignment explanation
Indices: 218325--218362 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
218315 CTTGCCTTAC
218325 AAGGTGAAAAGACAATCG
1 AAGGTGAAAAGACAATCG
* *
218343 AAGGTGAAAGGCCAATCG
1 AAGGTGAAAAGACAATCG
218361 AA
1 AA
218363 AGAGGGGCGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.47, C:0.13, G:0.29, T:0.11
Consensus pattern (18 bp):
AAGGTGAAAAGACAATCG
Left flanking sequence: Indices 217825 -- 218324
GCTGGGGTTGAACCCCATATCCTCCATATATTTACGTATGAGGGGACTTTCCCAGATTTCGGATC
GGTACTCTTGAGGCCAGACTTGGTTTCCCTCCTGGTCGACAGTCACCGCTACCAATGTGTCAGGG
GGTCCTATAAATGGACTGGGATCTTGGATTATCTGACAAGAAATTGACTGCTCCGTGGTTCGGGA
GTGGATTGGTGTTTACATTAGGCTGATTAGCCGGGTTCTACAACTGCATGGCATTCTACTTTCGT
CCTCTTTAGAGGGGAGGGGTTACATAAAAATGGATAAAAGTTTCACCCACGAGATGTTCAGCAGA
GACGACCCAGGTAAGCAAAAGATTGACGAAGGGAGGGACGTCATAGGGATGCTAACGGCATTCTA
AGCTCTCGATCCATACACGAAAGCAACTGGGTAGAATGGTGTCCAGGGGGTAGAAGGGAGATAGA
AGACGAAGTAGGGAAGCTCCAACAGAGGGGGTATGCTTGCCTTAC
Right flanking sequence: Indices 218363 -- 218862
AGAGGGGCGCGGCCGGACCACACATGTGTTGTGGATAAGGAGGGGATCTCCTGTGAGGACCGTGT
ATAGGTTGAGATTCCAAGGCAAATGAAGAAGAAGCATCGAATGCTAGTCCGACTAGCAAAGATGC
AACCATGCTACCGCTACCACAGTAGAGAAGGGAAAGCGAACCGGAAACCGAACCACAGAGAAAGT
CAAGCCCAGTAGAGCGAAGGTAAAGGCACCAGAGCGAGATGGAGATCATCCAGTTCCATTTGACG
GGGCGAAAGCATCACTAGTAGCACCTATTTCAATAGCACCGACCCTATTTACTTAGTTGGAGAAT
AAGTTGCAGATTCAGTGGATTCATACCCAGTTGATGATGCTAATGATCCAGTTTACGTTGACTCA
GCAGAAGAGAAATTCAATCCAAATCATAAGCCATCTACCGATCTAGCTCAGTAAACTAAGCGATG
CTAACAAGCAGGATATAAAGAAGTGGAAACTAAACCACCCAGCTC
Found at i:219614 original size:17 final size:18
Alignment explanation
Indices: 219592--219626 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
219582 GTTAACGATA
219592 CAACGATTTTGA-CCGCT
1 CAACGATTTTGATCCGCT
219609 CAACGATTTTGATCCGCT
1 CAACGATTTTGATCCGCT
219627 ATCACTAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (18 bp):
CAACGATTTTGATCCGCT
Left flanking sequence: Indices 219092 -- 219591
GATTGGGATAGAGGGAGGAGTCGAGCTAGGGTAGATTACAGCTACTTCCTCTTCATTTCTTTCTT
CCTCTGCTAAAAAGTATCCCCTCATATACTTTCCCTTGCCTTCTTATCTCAGGGTGTGAGGCAAG
GAATGGAAACCCGTATTGTAATAGTACGCACAAGGAACTCTCTTTAAGGAAGAGTAAGCACCAAG
ATCTGGGACTGAACCTGGCGTCTTTTTCCAAGCTGTCTACGTACCCTTTGTTAAGGGAGCAAGTC
GCACGTAGTTATCTATCATTTCATCGATTAGCCTGTGGTGTGGTACACGTCCCGGGTACAATCTG
CACGTGGAGCTGAATTAGGTCGCCGTTTGTTCCATAATCTCTACCAAAGGGTTATGCCGGTCATA
TAGAAGACCAACACAATCTCAACAAAGATCAATAGATACAAAGATTTCGCGGAACTATTCTTTCG
CTCCACTATCACAAAAAGCGGATACACTTTCGTTTGTTAACGATA
Right flanking sequence: Indices 219627 -- 220126
ATCACTAAGACAAATCCGAAAACAATCACATCGTCATCTCTTTTTGGTAACGCTTTTTGTGGTTT
GTTCGATCGATCAACTCGTTCCTTACTAGAAGCAATTCTACCGAGCAACCATCAACGATCAACAG
ACAACTCTACTTATGATATTTCCACATCAACGATCAACAGATCTCTATTTACCACATTTCCTTCA
CAGGACATCACAACTTCTCTATTTACGATACAACTTCCCTATTGGAGATCTTTCCCCATCACCGA
TCCATCAACAGACACCTATTCCTCTATTGATCACCAGACACCTCTTTCTCTATTGGAGATCTTTC
TGTACAAAGTCACACTGACGGAGCTACCCTTGGTAAAAGGTCGCACTATAGCGGATGCTTCCCTC
GGGTTTTAGACCACGCTTTCGTAGCGGATTGACATTTCCAATTTCATCTTATGATTGTTTAGCCA
ATGACGGATTTCTAGACACAGAATGAATAGAGTAACTTCGAAGGA
Found at i:219816 original size:38 final size:39
Alignment explanation
Indices: 219741--219817 Score: 93
Period size: 38 Copynumber: 2.0 Consensus size: 39
219731 ACCGAGCAAC
** *
219741 CATCAACGATCAACAGACAACTCTACTTATGATATTTCCA
1 CATCAACGATCAACAGA-AACTCTACTTACCACATTTCCA
* *
219781 CATCAACGATCAACAG-ATCTCTATTTACCACATTTCC
1 CATCAACGATCAACAGAAACTCTACTTACCACATTTCC
219818 TTCACAGGAC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
38 16 0.50
40 16 0.50
ACGTcount: A:0.35, C:0.30, G:0.06, T:0.29
Consensus pattern (39 bp):
CATCAACGATCAACAGAAACTCTACTTACCACATTTCCA
Left flanking sequence: Indices 219241 -- 219740
AATAGTACGCACAAGGAACTCTCTTTAAGGAAGAGTAAGCACCAAGATCTGGGACTGAACCTGGC
GTCTTTTTCCAAGCTGTCTACGTACCCTTTGTTAAGGGAGCAAGTCGCACGTAGTTATCTATCAT
TTCATCGATTAGCCTGTGGTGTGGTACACGTCCCGGGTACAATCTGCACGTGGAGCTGAATTAGG
TCGCCGTTTGTTCCATAATCTCTACCAAAGGGTTATGCCGGTCATATAGAAGACCAACACAATCT
CAACAAAGATCAATAGATACAAAGATTTCGCGGAACTATTCTTTCGCTCCACTATCACAAAAAGC
GGATACACTTTCGTTTGTTAACGATACAACGATTTTGACCGCTCAACGATTTTGATCCGCTATCA
CTAAGACAAATCCGAAAACAATCACATCGTCATCTCTTTTTGGTAACGCTTTTTGTGGTTTGTTC
GATCGATCAACTCGTTCCTTACTAGAAGCAATTCTACCGAGCAAC
Right flanking sequence: Indices 219818 -- 220317
TTCACAGGACATCACAACTTCTCTATTTACGATACAACTTCCCTATTGGAGATCTTTCCCCATCA
CCGATCCATCAACAGACACCTATTCCTCTATTGATCACCAGACACCTCTTTCTCTATTGGAGATC
TTTCTGTACAAAGTCACACTGACGGAGCTACCCTTGGTAAAAGGTCGCACTATAGCGGATGCTTC
CCTCGGGTTTTAGACCACGCTTTCGTAGCGGATTGACATTTCCAATTTCATCTTATGATTGTTTA
GCCAATGACGGATTTCTAGACACAGAATGAATAGAGTAACTTCGAAGGAAAACTATACCGATACC
AACTCCTGCTGAAGCAATTAGAGCAGCTCAGGCACCAATTCATTTCACAACTTAGAAAGAACATC
TTTCCCTTGGAACGCATGAGCTACTAATCTCTCTTCCAACCATTTCATGACGGATGAGGAGGCAC
CTATTCCTCTAACCAGGCCTTTCGAATGCAATACATTCTAGAAGC
Found at i:219926 original size:26 final size:26
Alignment explanation
Indices: 219890--219941 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
219880 TCACCGATCC
219890 ATCAACAGACACCTATTCCTCTATTG
1 ATCAACAGACACCTATTCCTCTATTG
* * *
219916 ATCACCAGACACCTCTTTCTCTATTG
1 ATCAACAGACACCTATTCCTCTATTG
219942 GAGATCTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.27, C:0.33, G:0.08, T:0.33
Consensus pattern (26 bp):
ATCAACAGACACCTATTCCTCTATTG
Left flanking sequence: Indices 219390 -- 219889
TGTGGTACACGTCCCGGGTACAATCTGCACGTGGAGCTGAATTAGGTCGCCGTTTGTTCCATAAT
CTCTACCAAAGGGTTATGCCGGTCATATAGAAGACCAACACAATCTCAACAAAGATCAATAGATA
CAAAGATTTCGCGGAACTATTCTTTCGCTCCACTATCACAAAAAGCGGATACACTTTCGTTTGTT
AACGATACAACGATTTTGACCGCTCAACGATTTTGATCCGCTATCACTAAGACAAATCCGAAAAC
AATCACATCGTCATCTCTTTTTGGTAACGCTTTTTGTGGTTTGTTCGATCGATCAACTCGTTCCT
TACTAGAAGCAATTCTACCGAGCAACCATCAACGATCAACAGACAACTCTACTTATGATATTTCC
ACATCAACGATCAACAGATCTCTATTTACCACATTTCCTTCACAGGACATCACAACTTCTCTATT
TACGATACAACTTCCCTATTGGAGATCTTTCCCCATCACCGATCC
Right flanking sequence: Indices 219942 -- 220441
GAGATCTTTCTGTACAAAGTCACACTGACGGAGCTACCCTTGGTAAAAGGTCGCACTATAGCGGA
TGCTTCCCTCGGGTTTTAGACCACGCTTTCGTAGCGGATTGACATTTCCAATTTCATCTTATGAT
TGTTTAGCCAATGACGGATTTCTAGACACAGAATGAATAGAGTAACTTCGAAGGAAAACTATACC
GATACCAACTCCTGCTGAAGCAATTAGAGCAGCTCAGGCACCAATTCATTTCACAACTTAGAAAG
AACATCTTTCCCTTGGAACGCATGAGCTACTAATCTCTCTTCCAACCATTTCATGACGGATGAGG
AGGCACCTATTCCTCTAACCAGGCCTTTCGAATGCAATACATTCTAGAAGCGCAAAGCCCAAAAT
GGCATAACCAAGAGGGGAAGATAGATAATATCCTGGTCTCGTTCCACAAATAAGCTTACTTTTCC
TAAGCGAAGGCAAGCCAGCTCGTGCTTCTTCAGGCTTTCGTTCAG
Found at i:319615 original size:18 final size:18
Alignment explanation
Indices: 319592--319626 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
319582 GACTGCAGAA
*
319592 CTGATTCTAATCCTTGAG
1 CTGATTCGAATCCTTGAG
*
319610 CTGATTGGAATCCTTGA
1 CTGATTCGAATCCTTGA
319627 ATTCGCCCAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (18 bp):
CTGATTCGAATCCTTGAG
Left flanking sequence: Indices 319092 -- 319591
CGGACAACCAAAGAATTGCATTGCATATGTAACGGTTTCATCCGCGACGACTGATCTAAGAGTAT
AGAATAGAGGGTAACGCGGGTGGAATAATAAAGATAGGAAAGAATGTTCCCTACCTAACCGTATA
CTAAGAACTATAGGGTGGAGGACGGCATAGAGAAAACAAACACTAGCCGAACAACCAGTAGAGCG
GGGATAACGTACGAAACCGATAGTGAGAGCTAGCTGAGCAATAGCACAAAAAAGAGGTCACGTTC
GAACGGTAAGCTACAACTAAGAAATATGTATATAATATAGAAGAGCATTTCCGCGGCCTGTAACA
CAATCGTTTCGGATCCCCGCAAGCATGCGCTTCTGATTAGAAGGGTGGTTTACATGATCCGCTCG
AAACTCGAGATGTCCTATTTTCTTATAGGAAACTGCCCATTTAATCGATCTTGAGATTGAGGCGC
TAGCCAGAGCCTCTTTGAAGATCTGGCCTCGCATGGACTGCAGAA
Right flanking sequence: Indices 319627 -- 320126
ATTCGCCCAGGGAAGAGGTATCATATACAGTTCAGACGATTTTGAAGACGATCAGACGAGAAATG
AGATTCTAACTAAGAGGGTTGCTGCAAAATACGCTTTTTACGCAATAAAGAAGAGTGAGCAGAGT
GGCTGTTGGTTTCGTTGAAGACGTGAAGGCGAGAACTCTCACCTCTGCCAGTGGGACTCAAAAAC
CATTGATTTCAGATTTCATTGGAGAATGAAAGTGAAACTGATTAAATCATAATAAGGATCGTGCG
CCTAATCCTCATAAGCTTCCGATTCGATTAGGGAAGTTCTTTATTCTTTATTTGGGATCGGATTC
AAGCTCATCAGAGTCAAGCTCAGAGGGGAAGGTTGGAGAAGTCCATTGTCTTTGGCTTATTCGCT
TCCAACCGTTGAATGAAAGCGAAAGTGGCTTTTTCAATCCCCCATCGTGGGGTAGAACTCTGATT
GGAAAGACCGATGCGTCTCAGGCTCAATCTTGGGCTTGCCTGGCA
Found at i:334358 original size:20 final size:20
Alignment explanation
Indices: 334330--334369 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
334320 GTTAGGTAAG
334330 GAAGGGAAGATACCATCCTA
1 GAAGGGAAGATACCATCCTA
* *
334350 GAAGTGAAGCTACCATCCTA
1 GAAGGGAAGATACCATCCTA
334370 CAGGTAAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (20 bp):
GAAGGGAAGATACCATCCTA
Left flanking sequence: Indices 333830 -- 334329
AGCAGAAGCGGAAACCTATTATACTTTATATGCATTGCAGCTCTTGGAGTCTAAGACTTCTAACT
CTTTAGCCTCATTGGACTCAAGGACTTAGATGAGCTAACGGTAAGAATAAAAACCTGACTTTAGG
AAGGAAGGGGAGAAAGGAAGAACTATCTAACTATTAGATGAATGAGAGTGATTATATGACCATCT
TGATTCAACCAAAAGGCCCATAGGACCTATAATGGGGGAGTAGCTGAGGCTATCTAAACTCTCGT
TTAAATGCTTTAGAGAGGCCCCTTGAGGACAACTTCTTACAGGGTTTTCTTACCTTACTATATCA
TACTACTTTCACTGGCCTTTGGACTGAAGAGAAAGGGCATTCTAGCCCCTCTCTCTCATAACAGA
AGAGAGCAACTACAGGAACTCTCTTAACTTACTGCCTTAGCCATAGCTTCATACTAGCTACTAGG
AGAGACTTCGATGCACTCACCTTAGAGAACTTATAGTTAGGTAAG
Right flanking sequence: Indices 334370 -- 334869
CAGGTAAGATCTATCTCTTCTCCTGCCTTGCTCTAACCTTCAAGGAAAAGGAAGGAGAAACTACA
GGAAACTCTTAGACGCAAGGCTGCCTCACTCATATCACTGTACTAAAGGCAATCACAAACAAGAA
GAGGTGAGTCCTTAGTACACTCCAAGTACAGGAAGGACACTTTAGCTACATATTACTCCCAAAGG
AAAGAAGAAAGATCCAATCTAATCTATTCTTTTCTTTCCTAGCTTCCCCAACCAGCTAGCTACTA
GGAAAGAAGAGAGCTACTAGCAAGAGAGGGATAGATAGAAGGGCTTATAAGGCATTCTAGAGGGA
TATAAACCTGCAGGAGCAAACTTATTCTCCTCAAATTGCATTGAGATCTTGGAGTCTAATAAGAA
CTACAGGACGAGAGAATGATATTAACATCACTAGGAGAAGCGTCCGGGTTGTAAGAGGCACTTGA
AGACAGTACCTAGCGCCTACAGACTGCTTAAGGGAATAAGACCTT
Found at i:342073 original size:15 final size:16
Alignment explanation
Indices: 342043--342075 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
342033 AGCTACTAAA
*
342043 TCATAGCTGCGAGAGC
1 TCATAGCCGCGAGAGC
342059 TCATAGCCG-GAGAGC
1 TCATAGCCGCGAGAGC
342074 TC
1 TC
342076 GGAACTCTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.24, C:0.27, G:0.30, T:0.18
Consensus pattern (16 bp):
TCATAGCCGCGAGAGC
Left flanking sequence: Indices 341543 -- 342042
GCTAGAAGACACTTGGCTTCCTTAGGGACGATTAGGGAAGAGAAAAGAAGGTAAAGGAAGGAGGG
ATTCCATTAGTAGACTGGAGCTAGACCTTCAGCAGATACCAATTCAACGGATTGACCGGACTTCG
CCAAAGCCGCAGCCAACAACTCCTTACTTGCTCTCAACGCGTTACTCGTTGCTTGCCATAAACCT
TTGAACTTCAACAGACTCAGCCGGGGATAACAACTAGGGACTACTTCCCTGAGCCCCTAAACCTT
GGCGTTTAGCAGATAACAACTACCAGATGCCTGAGCTTACAGGGCATAGCTCTAACGACTAGAGG
AGCATAGAGACCGAATTTAGGCATACAAGGAGACAGGAAGCCTTCAGGAAAGGGGCTAAACTAAC
AATTTAAGCAATAAGAGAAGCCAACCCATAGAAACTAAATCCAGAGGGTTACGGACACCAGGGGG
CGGTCCGAGGGGTCCTCAACTCAATGATGGGGCTTAGCTACTAAA
Right flanking sequence: Indices 342076 -- 342575
GGAACTCTAGCTACCAACTCATAGAGACCTTGGGATCATAGCGTACTTGATAAAGACCGTCAACA
GCTGCAAGCACAGGAGAGGAGAACGGAAGCAACTTAGCCGTGAAATGAGCCTTTCAACGGAAACC
ACTTACTGGATCCTCTTTAAAGAGGGATTGAAAAGAAGATAGACAAGGAAGAAGAAGTTGGATTA
CTTACTTGAGAAAGCACTTCAGCAGATACCAACTGATTGAACAGACAGGCTCCTTAATGACCGGA
ATGCGCTTTAGCTACAAACTTCTTACTTGCTTAGCCCTGGGGCAGCTACCTCCTTACTAGCATTC
GCTCTTGCCGAAGCTACCGACTCGTTAATGGATATAACCAGAGGTGCTTGCCCTAAAACTTCGAA
CTTCAACTGCTTCCAACGACGAGTTACTGGCTATAGCTCATAGGGCTTACTCCTACTCTTCTAAA
CTGGAGTCTTCAAAAGCATATCCCATTATTTACTGATAGAAAAGA
Found at i:361870 original size:21 final size:21
Alignment explanation
Indices: 361844--361898 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
361834 CCCCCGTTGG
*
361844 TTGTTGGGTTTGACCAACCAC
1 TTGTTGGGCTTGACCAACCAC
* * **
361865 TTGTTGAGCTTGGCCCGCCAC
1 TTGTTGGGCTTGACCAACCAC
361886 TTGTTGGGCTTGA
1 TTGTTGGGCTTGA
361899 TTGTTCACAC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.13, C:0.24, G:0.29, T:0.35
Consensus pattern (21 bp):
TTGTTGGGCTTGACCAACCAC
Left flanking sequence: Indices 361344 -- 361843
TCTCCTGTTGGCGAATCCCCTTGCTATTGTTCTTTTATAAATATATCCCATTCCTGCCTGTCTTG
CGGCACATGCGGTACCAGCTCTTGTTCTTGATGTGGCTCTTTCGGAAGTTGCGGAAGATAGTATA
GATGCTCCTGTTCTTTCTGCGGCAGTTGTGGATGCGCTTTCCTTTTTAGTATCCCGGTGCAGCTG
TCTTGTTTAAGCTATGGATCTTATATAGAGAAGGAGTGTGAAAGCTAGCTCTTGAAAGCAGTGCG
AGTTAGGCGCGAATCCCTTTATTTAGAAAGCAAAGCAATCCTTTAGGTAGTCAATCTATCCACAA
ATTCCTTTATTTTAATAGATATCCCCGCCCGCTTTTTGCCGTCCAACCTGGAATCAAATCTATGC
CGCCGGGTGTCTTCTCTTTCTCCTAGTTAGCAGACGAAGACGCGTCTTATCGTCTGCATCTAGAA
CTACTTCTAACTCAAGAACGCATTCTCCAGAGGTGCCCCCGTTGG
Right flanking sequence: Indices 361899 -- 362398
TTGTTCACACCAACCATACGTGCCGTCAAATTGGCAACTTCAGCTTCTTTTTCTTCCAATCGCCT
CCGCAGTTGTGCCAGCTCTTCTTCTATAGTGTTGTTAGCAGGTGGAGGAACAAAGTGTGATGTGG
AGGCAGCATCCGCTGCTGCGACCATAACTGACACCGTTTTAGGAAGAAATTCGTCGGATACGCTT
CTCGGAGATGGAAGTGGAGTGATTTCAGGAGAGATAACCGGGGTAGAAGCCTCCGAGAAACCTGA
TGAGGGGATTATCGGGAACTCCTCCTCAGCAACAAAAAGATTTAGAGAGAGAAAAAGGGGTTTGG
AGATCAGAGAGAGGAAGTAGGCTTTAGAGAAAAAGTCCCTCTTGTGCCGGTAGTAGGGAAAGCAG
CTGAGATAGAGAGAGCAGTTCTCCCTTAAAGTCCTTTATGGATTTTGAGTCGGGAATAGGGCTGT
GGCTTAGATCCCCTGATCGAGTAATGGGGTTTGTTTTTCTCTCGT
Found at i:370907 original size:19 final size:19
Alignment explanation
Indices: 370883--370923 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
370873 ACCCCGGGAA
370883 AATCATTCTTCTAGGAACG
1 AATCATTCTTCTAGGAACG
*
370902 AATCATTCTTCTAGGAATG
1 AATCATTCTTCTAGGAACG
370921 AAT
1 AAT
370924 AATAGGGAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (19 bp):
AATCATTCTTCTAGGAACG
Left flanking sequence: Indices 370383 -- 370882
AATAAAAACCTAACTTGAAGAAGCAATTCCCTACTTCGGTAGCTCAGCCTTAATCAGTATAGGGG
CGAGTCCAGTCCTTAATCAAGCGCTTTCTATCTATCTTTCATATTGAGTGCTCTCAGAGGTGCAT
GCCTTGACCCCTTTGCGGATGTCGCAGCACAAGCCTGACTTGTAAGTGAATCTCCAGACCGTCTT
TGTCCTCGCTTAGACCCTTATTGATTAGATTAGGGCACACTGCCTTAGTCAATAGGGGGAAGATC
TTGTACATAACATATATGGATACCGAGCAGAATACTCTCTTGAGCTCTTGCTTTGCTTTAGGGCT
TCTTAGTGATCAACCTTTCGCAGCCGCTTTCCTCTTCCGAACCAAGCTAAAGTAAGCAAGCTACC
TTTTGTCGAGCTTTAGCTTTCGCCTTCCTATCTTTCATTGAGTCCACGCTTTCGCTTTAACACCT
TCTTCTTATATGAAGATAGTTTAATATTTGAATAAACCCCGGGAA
Right flanking sequence: Indices 370924 -- 371423
AATAGGGAACTAATTGGCAGAAGGTGGTGCTCTTCTCTTATACGTAGTGCAGTTCTCTCCCTGTT
GAGGCTTTTCCCGTCCTTCCTTTTCTTTTAGAGTTTCAACTCCGCTTCTACTGACTTAAGAGCTT
TTTAGGAATCCTTTCTTTCTGCTTACTAACTATACTGGGCTAAGTTGGTTGCTCCCGAGAGTTCA
CATCATCATCAGTACTGGATAACTCTGAGCTCCAATCTGATCTCTTGCCTTTCCGAATTTCCAAT
AACTTTCAGTCCCTTCCCTCTTAGAGACATTTTCATTTGATCCTCGCTCGCCCTAATCAATAGGG
GGCTAGGCGTCCTCACTTTCATTTTGTCTGTAATCGAGTCAGTCCCGCCAGGAAAGATTCATTCT
TTTGAACCATGGCTCAAAACTACTACTACTAATTCACAAAGACTAAAGAAACTACTTTCCCCTTG
CTAACCAAGCGACTCCTATCTCCTATCTGAAGCTGCCAGCCACTC
Found at i:384596 original size:30 final size:30
Alignment explanation
Indices: 384555--384611 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
384545 AGAGCTGGAT
* *
384555 CTGTTAATCTTCTTATCCTTTCCCTTCTTA
1 CTGTTAATCTTCTTAGCCTTACCCTTCTTA
*
384585 CTGTTACTCTTCTTAGCCTTACCCTTC
1 CTGTTAATCTTCTTAGCCTTACCCTTC
384612 GACTTCTTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.12, C:0.33, G:0.05, T:0.49
Consensus pattern (30 bp):
CTGTTAATCTTCTTAGCCTTACCCTTCTTA
Left flanking sequence: Indices 384055 -- 384554
CGGTTGGTTTCTTCTGGTTAGAGCTAGTATCTGTTCCAAACAAGGAGAACCTACCTTCTTCTTTC
TATGCACGAGTCATCTTCCTCTAACCGCTAACCACTTGAACAAGAAAAGGATAGAACACCAGCTA
CAGTGACATAATCCGATCTTGGTCGCATTACTTCGAGGGGAAGAAGATAGCTCTCGAGGGATACT
TAGTGATTAGGCGAGCTACCCTTCATTCAGTCGATTATGGATTGAGCTAGTCTTACGGCTTATAC
ACCTATTCCAAAAACATAAATTAGACAATAGACAGAGAACAAGATCCCCCCTGCGGGATACCGAA
AAGGCTGTTAAAGGTTATTTTCATCCCCCTGCTTGAGTCAGTGCGCGAATCCTTCCAACTATAGC
TAGCTTCCTTCTTTCGTTTTGACTTATTTTCTTATTTCTTTGTTGCCTTACTGCATTTTGGAAGT
TCATGATCATTTTCTTCTTTCTTTGTTACAACTTCAGAGCTGGAT
Right flanking sequence: Indices 384612 -- 385111
GACTTCTTAGCCTCTTTAGCCATCCTGACCGACCTGACTTTAGACCCCCTAAACGAGGAGTAAGC
GTTGAAGAGGTCTAAAGACTTCCAAAAGAAAAGCCAAATCGGTCTATCAGAAGACGACCCACACT
GCTCGAGTCTAGTATACTCTGATCGGGGCTACCTTACTATAGGAATTCAGCACGGCAGATATAGA
CTAAAACAATTCCATTTCCTATCTCGAATCCAAAGAACAGGCTGGTGTGTGTCAATAAGAAAACG
AATCTTCTGTCCAGTCCATGAAAGGTATATCGTTTGTACGTGCCTCTCAAAAGAAGTGAACCAAA
AGAAAAAACAGTATACGCAATGGCGGCTTAGTTGCTACCGTACCGCTCAGAAGTCTCAATCCCTA
TCCCGGATTTTAGAGAGTAAAGGCGTTAATTTTACTTTGGAAATGGAAACAAGCACTATGCCACT
GACGCTTCATACACAGAAAGCCTTGTCTTTATTATCTAAAGCAAT
Found at i:388383 original size:16 final size:18
Alignment explanation
Indices: 388353--388385 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
388343 CACCAACAAA
388353 AGAATAGACTATCAAACC
1 AGAATAGACTATCAAACC
388371 AGAA-AGACT-TCAAAC
1 AGAATAGACTATCAAAC
388386 GAAAACCAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.52, C:0.21, G:0.12, T:0.15
Consensus pattern (18 bp):
AGAATAGACTATCAAACC
Left flanking sequence: Indices 387853 -- 388352
TGGAATAAGCTCCGTTCCTATTTCCCTTGGTGTGTAGCTTAGCTAGCGAAGGTCCAAGTGGAAAT
GACAGAAAATCCACTGACGCTTACTCTGATGCCTTTGCTCAGTCAACTCCTTCAATAACTACAGG
TGCATCCCCAGGGACCCATAAACAACTAAATCACTTGCTTAATCTACTGCTTAACCGACTGATGC
TGCTGGATATACTACTGCTGATGCTGGTGTTGCTATCTTAGCTGCTTGCTGGTGTTTCCTTTTTC
ATTTTATATAGGCAGAAGAGGAGATGCGCTAAAATACAGAGAGGCTCTCTAACCTCTTACTTCTC
AGGTATCTTTGCCACGGGAAGAAGGATTATCGGATACTTGGATCTGGAGAATCCAACCACTGGAC
ATCAAGCCCGGTCTGGTGCACATCGAGCCGGAGATGAAGGGACGGATACTAGCCTTTACACTCCT
AAAGTTGACTGGCGAGGTCTCTCGAGCCTGCTGACCACCAACAAA
Right flanking sequence: Indices 388386 -- 388885
GAAAACCAAGATCGTAGACTTTTTATTCGGTTTCACCTTTAATCAAATGTCTTAAATCTGTGTTC
TCTCAATCAATAGGACGGCTGCTAACGGGTAGGCTGTTCCTAGACACCTAGGGTGGACTTCTATG
GTTCACACTGCGCACAACCGGACTTACTAGACTCAAGAGTACCTAACTCTAACGGAAACGATCAA
TCCCGTTGCCACATCGAAACCCCGTAAAATTGATTAAAACTCGATTTCCCTTCTAACGAGCCCAC
TTTTCAGTGACAACTTGTCAAAACCCCGTATTTTTAGCCTCAATTGCTTTTCCACTCATAAGAGT
TCAATCAGTCTTTAGGCCAATTTTAAGGGGTTTTCTACCTTTAATTTAATAGTAAGGATGGGGCG
ACACTGAGGATGTCTATTCACGAAGAGAGGATTGACCTCAGGAATAGATAGAGCCAATCAACACT
TGTTGAAAAAACAAATGAAGTTGTAAACCCCACTTCTGTGAATTT
Found at i:404725 original size:29 final size:29
Alignment explanation
Indices: 404683--404738 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
404673 GTACTGAGCT
*
404683 AAGGGGAAGCCTTTCAATCCAAGCAAGTA
1 AAGGCGAAGCCTTTCAATCCAAGCAAGTA
* *
404712 AAGGCGAAGCCTTTCAGTCCATGCAAG
1 AAGGCGAAGCCTTTCAATCCAAGCAAG
404739 CCAGTATCGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (29 bp):
AAGGCGAAGCCTTTCAATCCAAGCAAGTA
Left flanking sequence: Indices 404183 -- 404682
TAACTATCTGTAGTAGTATGTAGTATCGGTTAGGAGTCGGAAGTAGGAAGTAGTAGTAGAGTCAG
TCACAGTCTAGTAGTGATATCATTTCTATGGGCATTTTCATGTAGACAGAATGGCAGTTTAAAGT
GAGTAGAATAAGGTGGACACTAGAGAACGGGCTCCCTCTAGTTAGAAGGCTTTCTTTTTGCCTTC
TCTTTCGTGTTGCTAAGTAAAGGAAGTCCCATCCCGCAAGCCAAGCAAGGGGCCATGCGGTCACG
CCGCCCCACTCTGAGAACTGAAGTCAGTCCCCCTTTCCTGTCGGTCGACATTTCAACTCAACGAA
TGAATACCTTCGGTCGGAAGAGCTGGAGTTATGGAACCTAGCTCCTGCCGTCCGGCCCACGATCA
ACAAGATAATGAATGAAGGCGGGGGAAGGGAAGGAAGTAAGATACGTACTAGCAACCCGAAGGCA
TCCTTGTTCTTTGTGTTCTTTGGCAGGACAGATGGGTACTGAGCT
Right flanking sequence: Indices 404739 -- 405238
CCAGTATCGCCACTACGATTGAGAGAACTTCCTCTTTCCGGAAAGAGGGGGAAACTCCCCCAGCC
AAGACAGGCAAGACTCGATCCCTCCTAGGCCGGTGTCAAACCCTCCACCTAAGTTGATCAAAAAG
CACACTGTGAGTACCACATGGGCACGCCGGGACACTGGACTGATAGATGCTACAACCTAAGGCAC
AAGATTCAAGACTTGATTGACCAGCACTTATTGGAATTCCAGGAAGGAGGAAGCAACCCCGTCAT
TACAAAGAATCCATCCCCTACGCGTGGAATCAACGAGACCGGACCATCCAACAGTGCAGACTAGC
CCTCTTTTCCAAGAAGCTCAGACATTATCGGTTCATCAACATTTTTCTGCCGACTGGAAGTTAAT
AGCAGACGAAGACGAAGATGCATCGACAGACGCATACGCAAACACCGGGGAATCTCTCGTACTGT
ATCGATCGGTCATCCGTGAACTCTCGCATCTGTTTAGCGAATCGA
Found at i:417299 original size:24 final size:24
Alignment explanation
Indices: 417272--417343 Score: 135
Period size: 24 Copynumber: 3.0 Consensus size: 24
417262 GGGCGAGGCT
417272 CCGGCGCAGGCTCAGCAGGAGGGG
1 CCGGCGCAGGCTCAGCAGGAGGGG
417296 CCGGCGCAGGCTCAGCAGGAGGGG
1 CCGGCGCAGGCTCAGCAGGAGGGG
*
417320 CCGGCTCAGGCTCAGCAGGAGGGG
1 CCGGCGCAGGCTCAGCAGGAGGGG
417344 GGCCGTTGAG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.17, C:0.29, G:0.49, T:0.06
Consensus pattern (24 bp):
CCGGCGCAGGCTCAGCAGGAGGGG
Left flanking sequence: Indices 416772 -- 417271
CGGATAGGAGTATCGGGAGGGAAACAAGCCTGGACAATTGAATGAAAGGTCGAGGACGCGGATCT
TTTCTGTTTCAGATCTTGGATCATGGTGTTCAATTGTTCCATTTCCATTTTTTCTCTCATGTGGA
AATCCCGGCAGTTCCTATAGGACGCAGCAATCTTTTTTTTTCACTAAAAAAATCAAAAAGAGCTT
CATCGGTTTCACAGCTTCCATTCAAAATGGAATGATTCCTCTTCAATGAATGACTAAAGGGCATA
CGTCCGGGGGCATAATCGGATGCCAGCCGAGCGGGGTCGACCGTATAGATCGACTTTTTTAATCC
GCTTAGAGCCCTCCTCCGCCCCTCCGCCTCTTTTCGCGCCTCTCCATGTCTTTCTGAATACACTT
ATCCATTTCCCCCTCCCAATAATTGAGCATCCCTTTATAATAGCGAAGGCGTTTAACGGTTTTTT
TGAGCTCTTCCTGCTCCTTCGATAATGAGAAAAAAGGGCGAGGCT
Right flanking sequence: Indices 417344 -- 417843
GGCCGTTGAGATCTAGCCCCGGCTCAGGAGCTGGAGGTTGGTTTAGATCGAGCTCCGGGCGCCCC
GAACTCGAAGGCCCGGCATCGCTTCCGCCGCCTCCAACGGAAAGAGGGAGTCTGTCCATGGAAGA
CAGAATCCAATCGATCCAGTCCACAAACAAAGAAAGGAGCGATCCAAGTAAAGCCCCATGCAAGC
ATCAGGAACGAAATCAAGAAGAAAATAAAGTGAATAAATTATTATTAGAATCGCTTTTCTTTCCA
TAGCGCAAGTCCTTCCAGTATTTATAGAATGAGCACTGTAAACTATCTGCTTCAAAAAGATAGTT
GTAAGAATGAAACTTCTTCGATCGGAATACGGATGAGATCAAAAAGGCCATCATTGGGGCAAACG
ATGCAATAGCTTCGGTTAGAGCAAAGCCCATATTCCTTTCCTGAGAGTCCTCTTTTCTTCGAAGT
ACTGCTTGCCATGGCCAGTTGTTCCAGTTGTCATCTTTATCTGAG
Found at i:507589 original size:15 final size:15
Alignment explanation
Indices: 507571--507612 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
507561 CCGGAAGAGG
507571 AGGTACCGGCTGAGA
1 AGGTACCGGCTGAGA
* * *
507586 AGGTCCCGCCTGAGG
1 AGGTACCGGCTGAGA
507601 AGGTACCGGCTG
1 AGGTACCGGCTG
507613 TGGCTGTATG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.19, C:0.26, G:0.40, T:0.14
Consensus pattern (15 bp):
AGGTACCGGCTGAGA
Left flanking sequence: Indices 507071 -- 507570
GGCGATAAGCCTACCTTTGAAAGGAGCCAGGAAAGCAAGCCTTTAAGCCAGAAGTGCCGCTGTGC
CAGTGGAAATCTACCAGTACCCGTTGAAGTTAGATCCGCTTCAGCATCATCAACAGACGGAGAAG
AAATGGACAAAATGTTATTTGCGGACTCGCCTCAGGATGGAGAGGAAGCTACTGTGGAAGAAGGC
AGTTGTTGAGCAAGTGACATTGGTTGAAGTTCAATATGAATATGCATCATCAACTGGAGAAGATG
AAGATTCCGCTGAAGATATCGAGTTAGAGCACGGATTTCAATTGTTCTCTTACAGTTCCTCCACC
AAACTGTAGTACAGAAGGAATAGCCGTGACGCGTTCGGTCGCCAAGCCCGCCTCTCTCTCTCGTT
GTTGCGCGCCTTTACTCTACAGAACCAGCATAGCTCGCAGACGAGCACGCTAATGAGGCTCGGAA
TGAAAAAGCCCTTGGTTGGGGAGGGGAGGAAGGGGCCGGAAGAGG
Right flanking sequence: Indices 507613 -- 508112
TGGCTGTATGGAGGATTCCCCCTGGTCAAACTGTGGTGGACTACGGGGGGATCTCATAAGCGCTC
GGAGCGTATCCCGAGCAGACGAAGAGTTATCCGATGAGGAAACAGACATTATTAAATCACTAGTT
AAGACAGCAAAACAAATCCAATTTTGCAACATCGAAAGAATGGAAATGCGAGAGATGTGCAATAA
AAATAAAGTTACGCTATAGACTAAAAAAAAAAAATAAGCTTTGTATTTAGACCTGCAATTATAAA
ATATTATATTATAGACAACAATACAAACTAATAAAAGAAAAATAAAACGAGATAAGAATTTATTT
TTGTTAGAAATGACTTCCGCTCCGAAAAAGAAGGAGGATTCCTCGCCCGCGTTTCGCGCGATACC
ATAAAGATTAGAATATTTGTTTTTCTTCTCTTAACATCAGTTTCACTTATCTTTCATCCACTCTC
CGATCGGCAGCGTGCGGGGCGGGTCGACGTCCGGGAGCTCTGCCC
Found at i:509503 original size:20 final size:20
Alignment explanation
Indices: 509465--509503 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
509455 TTGGGCTCAC
*
509465 AACCCATTATAATATTAAAG
1 AACCCATTATAATACTAAAG
* *
509485 AACCGATTATATTACTAAA
1 AACCCATTATAATACTAAA
509504 TAGGTTGTAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.31
Consensus pattern (20 bp):
AACCCATTATAATACTAAAG
Left flanking sequence: Indices 508965 -- 509464
TTTGACTTCCATTTTATAATAGATTTCGAATTAACGTTGTCTTGTCCGAGACCTGAGTTCGATCG
TGCGAGAGTAGCGTTCGATCATGCGACACTACGGCTATTCCTATGATTAGTCTTAGAAGACCGAA
ATGCCATTAAATTAAAGTTCCACTGAGCCCGCTCTTAGTCTCATAATCAACCCTGAACAGCTGGT
TCTAGAGCTTCCGACCAAGAGCCCTGGCCCTCTGAGCTCTTGAAGGTAGGCTGCTTTTTCGTCCT
TCATGCCCCATTTAATAGAAGTATAGATTGCCCGAAGGCTTCTTTGTCCTACAAGGCGTAGTCTC
AACCGTTTACTCTTTCTGAGGTAAATATAGATGGAACAATAGAAATAGAAATAGAAAAGGAAAGC
GCGGGCCTTTCATCTTTGTTTGCAGAGCCCCTTTCTTTATCTCGATCTGCCGGAGCGGTGTCCTC
ACCTTAAGAAGGAATGCAAGAATGGCGGGATCGGATTGGGCTCAC
Right flanking sequence: Indices 509504 -- 510003
TAGGTTGTAGAAAAAGAGCGGTTGATACCATACCAGGAGAGGGAAGAAAAGTCACTTAGCGAGCT
AGAAGACCTATAAAGTAAAGGCTCGAGAGACCTCTTAAAACAAACTAACTCACGTGGGGGGAAAG
ATTGAATATTTGAATACAACACCAGATGATAGCCAGATCCGGATAACCTCACTTGAGGAATAAAT
GCACTACTTCTTTCTTGATCAGGAGGGCCGTTCTCGTACAATACTGTTATTTATCTTTCTATTGC
AGAATGGACCGCTACTCGTGATGGACTGAGACTCTTCTCTTGCCTTGAGCTTGAGGAAGATCCGC
GGATACACAACTCATTCTGTAACGAAAGTGGTTGGTAGTAGAAGACTAATACCAGAGAGCATATG
AGGCACATCCAGCTACAAGAGCTAAGAGAAAGGTAGGACCTTAGCCTAGTGAGTGACTTTCTTCA
ATTCAAGAAGAGGGAGAAAAGGCTGACGTGTGCTTCCAGCCTCAC
Found at i:514890 original size:5 final size:5
Alignment explanation
Indices: 514880--514904 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
514870 AGGGCCTTTT
514880 ATTAG ATTAG ATTAG ATTAG ATTAG
1 ATTAG ATTAG ATTAG ATTAG ATTAG
514905 TAGGGCGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
ATTAG
Left flanking sequence: Indices 514380 -- 514879
TCGCATTGAAGACGCTCCACTCGTTCGTAAGCACAATGGACTCGCGGTGAGTATGGTATGGAAGA
AGGATAGGGTCAGCAGGCCTTTCTATCTCTTGCATTCATCTTCTCTTTATTCTTTTACTCTTTCT
TCAGTGTAGGGCTTTTACTCCGTTTGCAGGCTTGAAAGGGGCAACCGCCCTCAAGACTAGAACGA
AGGTAGAGCCTTATTCTATTCCTTCGCCTATGAGACATCTACTTAGTTGTACATCGGTACTCGGA
CACCCAATCCCATCCCCTATCCTATCCTATGACTAGAAAGAAAGAAAGACAAAGATTCCCATTAG
CTGAAAGTAGGTCTACAGGGTGAAGACTCTCTATCGTCAGATCGTTGGCATTCTGGTTTTGACGC
CAAGAATCAGAAAAAAGGGCACCTTTCTTTTAGTCGAACAGCTCTACCAAAATAGGTCAGTAGAG
TACCCGCTCGAGTGAAAGTTCAACGAATCCGAGATAGGGCCTTTT
Right flanking sequence: Indices 514905 -- 515404
TAGGGCGAAGGGTCAACCTTAGTTTAGTGCTCAGGGTGGAATAACCTTATAGACTTCTAACTGAA
TCAATGTCTAAGACTTCTAAAGTGAATCAATCTAAAGTAAAATCCTTGGCCACCTGATGAGCATC
ACTCTCTTTGAGAAATGATGTGCGCTACACCGCTAGCCTTCTTCCATACAGCCATCGGAATCTCC
AGCTTACCAGGACAGATGCCCCTTTCTTAGTTTTTATATTGAATTCTTATCCTGTCTATCTCTCT
TTTAAGCGCTTAATAAGATTCTGGATTTGGAACTACAGCCTTAGCCCTAGTAGCGGAGACTGAAG
ACTTTGGATTTGAAGAATAAAGTCCCCATCGGCTTTAGGAAGGGCCTTACCTCCAAGATCTCAGT
TTGCGCCAGGAGCCGATTGCTCTTAAGGAGAAAGCGATGGAACATAGTAGTGAATTTATCTCTCT
CTACCGATCCGCTTTCGGTTAAGTCAAAAGAAGGGACTCTTAAGT
Found at i:553393 original size:26 final size:26
Alignment explanation
Indices: 553363--553414 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
553353 CTACGACTGA
553363 TCATATTAGCATGGCTATGTCCTAAG
1 TCATATTAGCATGGCTATGTCCTAAG
* *
553389 TCATATTAGCCTGGGTATGTCCTAAG
1 TCATATTAGCATGGCTATGTCCTAAG
553415 CTTAAACTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (26 bp):
TCATATTAGCATGGCTATGTCCTAAG
Left flanking sequence: Indices 552863 -- 553362
CCTTTTTGAGGATTTGTCACCGACTGGGCCCATATGAGGTCGATAGATTCCATGAAATTCAGGAA
GCGATTAGGCATCGAACCGTTCGTTCCTTAATCGACGAGCCTTGGGTTCGGGGGAACGACCCTGC
TAGCACGCAATCCGTACTCCTTTCATATATCGTAATCGCGGGATCTATACTACTAGCCTTCTTCT
TTTTATTAGTCATACCCGTACCTCAGCTACTTGACTTGGATCCCGCTCTCATTCTAGACCCTCAT
CAGGTGGATATCATAAAAGAAACGGCCTCTAATAGCGGTTGTCCAGAGATTCACCCAGCAGTAAA
GGAAAGAATAGCAAATCTCTACAGCTTTGCAGGAGCATGGGAATAGTGCACTAGCAGACGAAGAA
GAAGGTCAGACTACCACAACTGAACAAAGAGCCCTAGGAGGGGCAATAGCGATAGGGTTTATGAT
AGTGACATTCGTCGGTGGTCTATGGTTAGCTGGTTCTACGACTGA
Right flanking sequence: Indices 553415 -- 553914
CTTAAACTGAGAGTTAGCAGCATAAACGTATGTCCTAAGCTACGGAGGGATCAGGTCCCATTTCC
ATCTAGGTTAGAAGTTAGAATTGAATAGATCAACTAGAGTTCATAATTGTATAAAAGCGAAGCAT
AAAAGGAGTCTGAAAGCAGAGCTATACCTTTGGAGGGAAGGTAAAGGTATTAGGCTTAGTCTTTC
TTCCCCTAGGAACAGGGAATTCCTGTTGAATGACTAAGGTGTGCCCCCGATCTGTTTGAGAGAAC
CGGAAATGAGTGGTTACGAAAGCAGATAAGCTGCAAGAGGGTTGCTGGTCGCTAGACAGCTTATA
CCTACCTATTCTTCTCCTCCGGTCTAAAGTCCCAAGACCGGTCTTCCACTTTCCTACTAAATCTC
TCTGGCATCTATACTATCTTCCGCAACTTCCACCTCTCAATAAAACAGCAAAACTGCTATTTTCA
AGGCAGGGCTATCTATTTCAATTGTTGTTCTATCTTTCTTCATCT
Found at i:582433 original size:17 final size:18
Alignment explanation
Indices: 582401--582438 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
582391 GGAAGAGCTT
* *
582401 CTTCTCCTTCCTTGGCTG
1 CTTCTCCTTACTTGGCAG
582419 CTTCTCC-TACTTGGCAG
1 CTTCTCCTTACTTGGCAG
582436 CTT
1 CTT
582439 TTATCACTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.05, C:0.37, G:0.16, T:0.42
Consensus pattern (18 bp):
CTTCTCCTTACTTGGCAG
Left flanking sequence: Indices 581901 -- 582400
GTTGTATCATTATCCGAGCTATAGGTAGTTCATAGCTCAACGTAGTTGTTCCTATCCTAGCGATT
TCCTAATAAAGAGTCCAACTGCCTGCTTGAACTGCTGTACAGAAGGAGCTATGAATATTAGCCAA
CCGCCTACTTGAAAGTGGAAGTTGTTTTGCTAACTGCCTACTCGCCTGCTTGGAAAGAAGGAAAG
ATAGGATTGGGCAATTCCGCCGGTTCCATCGCCTGGAATCTCGTCATCTGAGAAGGAGATAACAT
TGGGGGACATAACTATTCCCACCATGTTCTGGAGTGCATCTGGAGAAATGTCATTCGGGACATGT
GCTTCTTTCAGAATGGAGAGCAGAGCGTCCCTGTGTTTGTCTGAAGTAAGGAGCAGCGAGAGAAT
GTTGATATGAGCTGGAGTCTTCTTCAGCTGCTCGACGACATCGTACTCACTCTTCTTCAAGACCC
TGAGCACTTCTGCAGTCTCTTTTTCTGTTAAAGGGGGAAGAGCTT
Right flanking sequence: Indices 582439 -- 582938
TTATCACTTTTAAGTAAAACTTATTATTTTTTGATTGGCTTTTACGACAGGAATAGCCTTATTGT
AATCCTTTTTCAAAAAAGTCTATCAAAACAGATTCAATGTTGTAGGGAACCGGCTCTGTATGCTG
CTAGTGCACGGGATAGAAAGCCATCATATGGAGCGTCTTCGTCTTGTCTTTTGTGTTGCGAGTGC
ATGCGTCCACCCCAGTCAACGGTTGGCAGGGCTTTCACAGGTACCTTGTACGTAGTTAAGGTGAA
GCTTTGTTTGATTTGATCCCGAACCGCCCGATCCCTATTTAGAAGCCCAGACCCCCTTTGCTCAT
GAAGACATACTACCAACTGGATTCCTTTTATAATGGACCCACTTGATAATGAAGAAAGAGGGTTG
CAACCAAAATGCTAAGTACGGGGACTAGGTTACGACGTTGGAAGACAAAGGGCTACTCCGTATTC
TTCCTAACCATCAGTTCGTATCGCAACTAAGAATCTATTTTCTTT
Found at i:595411 original size:5 final size:5
Alignment explanation
Indices: 595401--595425 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
595391 CTTCGCCCTA
595401 CTAAT CTAAT CTAAT CTAAT CTAAT
1 CTAAT CTAAT CTAAT CTAAT CTAAT
595426 AAAAGGCCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (5 bp):
CTAAT
Left flanking sequence: Indices 594901 -- 595400
ACTTAAGAGTCCCTTCTTTTGACTTAACCGAAAGCGGATCGGTAGAGAGAGATAAATTCACTACT
ATGTTCCATCGCTTTCTCCTTAAGAGCAATCGGCTCCTGGCGCAAACTGAGATCTTGGAGGTAAG
GCCCTTCCTAAAGCCGATGGGGACTTTATTCTTCAAATCCAAAGTCTTCAGTCTCCGCTACTAGG
GCTAAGGCTGTAGTTCCAAATCCAGAATCTTATTAAGCGCTTAAAAGAGAGATAGACAGGATAAG
AATTCAATATAAAAACTAAGAAAGGGGCATCTGTCCTGGTAAGCTGGAGATTCCGATGGCTGTAT
GGAAGAAGGCTAGCGGTGTAGCGCACATCATTTCTCAAAGAGAGTGATGCTCATCAGGTGGCCAA
GGATTTTACTTTAGATTGATTCACTTTAGAAGTCTTAGACATTGATTCAGTTAGAAGTCTATAAG
GTTATTCCACCCTGAGCACTAAACTAAGGTTGACCCTTCGCCCTA
Right flanking sequence: Indices 595426 -- 595925
AAAAGGCCCTATCTCGGATTCGTTGAACTTTCACTCGAGCGGGTACTCTACTGACCTATTTTGGT
AGAGCTGTTCGACTAAAAGAAAGGTGCCCTTTTTTCTGATTCTTGGCGTCAAAACCAGAATGCCA
ACGATCTGACGATAGAGAGTCTTCACCCTGTAGACCTACTTTCAGCTAATGGGAATCTTTGTCTT
TCTTTCTTTCTAGTCATAGGATAGGATAGGGGATGGGATTGGGTGTCCGAGTACCGATGTACAAC
TAAGTAGATGTCTCATAGGCGAAGGAATAGAATAAGGCTCTACCTTCGTTCTAGTCTTGAGGGCG
GTTGCCCCTTTCAAGCCTGCAAACGGAGTAAAAGCCCTACACTGAAGAAAGAGTAAAAGAATAAA
GAGAAGATGAATGCAAGAGATAGAAAGGCCTGCTGACCCTATCCTTCTTCCATACCATACTCACC
GCGAGTCCATTGTGCTTACGAACGAGTGGAGCGTCTTCAATGCGA
Found at i:602734 original size:15 final size:15
Alignment explanation
Indices: 602693--602738 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
602683 CATACAGCCA
602693 CAGCCGGTACCTCCT
1 CAGCCGGTACCTCCT
* * *
602708 CAGGCGGGACCTTCT
1 CAGCCGGTACCTCCT
602723 CAGCCGGTACCTCCT
1 CAGCCGGTACCTCCT
602738 C
1 C
602739 TTCCGGCCCC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.13, C:0.43, G:0.24, T:0.20
Consensus pattern (15 bp):
CAGCCGGTACCTCCT
Left flanking sequence: Indices 602193 -- 602692
GGGCAGAGCTCCCGGACGTCGACCCGCCCCGCACGCTGCCGATCGGAGAGTGGATGAAAGATAAG
TGAAACTGATGTTAAGAGAAGAAAAACAAATATTCTAATCTTTATGGTATCGCGCGAAACGCGGG
CGAGGAATCCTCCTTCTTTTTCGGAGCGGAAGTCATTTCTAACAAAAATAAATTCTTATCTCGTT
TTATTTTTCTTTTATTAGTTTGTATTGTTGTCTATAATATAATATTTTATAATTGCAGGTCTAAA
TACAAAGCTTATTTTTTTTTTTTAGTCTATAGCGTAACTTTATTTTTATTGCACATCTCTCGCAT
TTCCATTCTTTCGATGTTGCAAAATTGGATTTGTTTTGCTGTCTTAACTAGTGATTTAATAATGT
CTGTTTCCTCATCGGATAACTCTTCGTCTGCTCGGGATACGCTCCGAGCGCTTATGAGATCCCCC
CGTAGTCCACCACAGTTTGACCAGGGGGAATCCTCCATACAGCCA
Right flanking sequence: Indices 602739 -- 603238
TTCCGGCCCCTTCCTCCCCTCCCCAACCAAGGGCTTTTTCATTCCGAGCCTCATTAGCGTGCTCG
TCTGCGAGCTATGCTGGTTCTGTAGAGTAAAGGCGCGCAACAACGAGAGAGAGAGGCGGGCTTGG
CGACCGAACGCGTCACGGCTATTCCTTCTGTACTACAGTTTGGTGGAGGAACTGTAAGAGAACAA
TTGAAATCCGTGCTCTAACTCGATATCTTCAGCGGAATCTTCATCTTCTCCAGTTGATGATGCAT
ATTCATATTGAACTTCAACCAATGTCACTTGCTCAACAACTGCCTTCTTCCACAGTAGCTTCCTC
TCCATCCTGAGGCGAGTCCGCAAATAACATTTTGTCCATTTCTTCTCCGTCTGTTGATGATGCTG
AAGCGGATCTAACTTCAACGGGTACTGGTAGATTTCCACTGGCACAGCGGCACTTCTGGCTTAAA
GGCTTGCTTTCCTGGCTCCTTTCAAAGGTAGGCTTATCGCCGAGG
Found at i:658393 original size:13 final size:14
Alignment explanation
Indices: 658362--658394 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
658352 TCATACCCTA
658362 AAGTTGCAGAGATGC
1 AAGTTGCAGAGA-GC
658377 AAGTTGCAGAG-GC
1 AAGTTGCAGAGAGC
658390 AAGTT
1 AAGTT
658395 CCAACCGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
15 11 0.61
ACGTcount: A:0.33, C:0.12, G:0.33, T:0.21
Consensus pattern (14 bp):
AAGTTGCAGAGAGC
Left flanking sequence: Indices 657862 -- 658361
CCGACGATTCTACGGCCGGAAAGAGAGAGAGCAGTGTGATTGGCTCTATAATTGAAATAATGGAA
ATGCTCTGTCGTAGAGCTTCGCTAGCAGTGTCGAGCTTTGCTCGCGATTCAACTGGAACTAAGGA
CCTGAATGGAATTTCAGAGCTCTCACGCTGCTATCTAAAGAATGAAGAAACCGCTACTGAACGAG
AGCGAGTGAAGTGAGTAAGCCCCTTTAGAGTTAGAGATAGGGGCGAGCCAAAGAGAAGTTGTAGC
AAGGAGCTACTAAGGAGTGACTGTGTTGAAGCTTCAAACGTAGAGCTCGCGACGACTTCGAGCGA
ACTCCACGAGTGTGCCGAAAAAGACTAAAAAGAATCTGCGTTCAGTAAATCGCAATTCTTTTTGT
GTGTCGGGCAGTTAAGATTCGTCGCGTGATTGTCCGGGCGAGGTATAAAGCCAAAACAAGTTGGA
GTTCCCCGCCATCACCTCGCCTAGATACGGGGGCTTCATACCCTA
Right flanking sequence: Indices 658395 -- 658894
CCAACCGAGGTAGGAGATCCATCATATCCATACGAACAAACCAGCACAGGTAGCAGTGGTTGCCT
TTACGTTTATAGGGGGCTCGACTTTCCCCTTTGTCACTATCTCGCCCAGCATATCTGCCGAGAGC
AGGAGCATATCCAAGTCTCATATTCAGTTGAATCAGATCTAGCAGCGCTCACTACTGAGACGAAA
GAAAGGAGCAAGATACGGCCAAAAAAAAAGCCGGAGATTCTCGCGCAGGAACAAGCGTAGGCCTG
TAGCGTGCCCTTCACCCAAAAAGAAATGCTTTTCTTGGCGAAGCGAGGAAGCACAGTTGCGCGCC
TCTCCATAGCCCCTCTATACTCTATAGGCTATTAGTACCAAGCGCAAGCGCCTGATTTGGAAGCT
TGCTGTGTAATTTCATAAATAAACAAAAGTGTGTGAACCTCAGCGAGTCCGGGTTTCAAACTAGC
CTCCTAGACTGAACCGACCTTTTTATTTTAATAGGGTATAACTAT
Found at i:677435 original size:27 final size:27
Alignment explanation
Indices: 677405--677456 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
677395 GACAGCGACG
677405 AAGG-TATGGGCAGCAGAGACAGCAGCC
1 AAGGCTAT-GGCAGCAGAGACAGCAGCC
*
677432 AAGGCTATGGTAGCAGAGACAGCAG
1 AAGGCTATGGCAGCAGAGACAGCAG
677457 ATCCAGAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.35, C:0.19, G:0.37, T:0.10
Consensus pattern (27 bp):
AAGGCTATGGCAGCAGAGACAGCAGCC
Left flanking sequence: Indices 676905 -- 677404
ACAATCCGGATTTTCAAGCGGGAACTACTTCTCTGTGTTAGGGTAGGATCCTTTATATCGAACAA
GGAAGTCATCCTCAAAGGCGGCCCTCCAATTCGAATTCCTAAAGTAGGTCCATATCGAGATCAAG
TTGGCCGGGTTCCAAGGGTGATTGCAGTTTACCGAGTTTAAGTGGAAGCATCTGTTTAAGCACCC
GTAGTTTCAGTAGCATTTGACCCAGTGCTAGTTGTTTCAAATCCAATTCCAGGTCAAGAACCAGT
GAATATGCCGGGTGATTCAATTTACCTCATTTATTCATAATCAGCACCAGTCAAGCCCCGCGTTC
TTTCCTGTCCCAGGTTCTATTCGCCTGGTTACAAATCCAAAACCAGAGCCTGTTAATCGAGTACC
CATCATTTATTCAGCCACCATCTCACTAAGTATCCTTTACAGATCAAGATCAAGTAGTTGACCTC
ACAAAAGCAGCAGAGACAGTAGTCGCATAGGTGAAGACAGCGACG
Right flanking sequence: Indices 677457 -- 677956
ATCCAGAAGTAGATGCTAAAGCGTAATTACGTAGAGAATATCACGCCAAAAACTAGACCATTGTA
GTCGTTATCTAGGCCGACCTGTACTAATTAAGGGAATTCACCCCTTATCAATGTGGAGGAAAGAC
TCGGTGCATCATGAGGGAGCTCTGCTCTAGGGTTACCAAGGAAATTTACTTAGGCAGATCTCATA
AGGTGCTTCATACGGCATCCTCCGGGAGAGATACGGCACTTCAGGGTCAGGGTCAGGCCTACATC
ATCTCTCTAGGGGGATTCTCCCTTCGGTGCAAGGTTAGGTCCGAAAGAGAGAGTGCTTTTTATTT
TTTACTTCAGTCATATAAATAAAGTGCTTCTGGTTGAAAAACAAGGATTCGGAAGTCTGCCAAGG
TGGCCTAACTGACCTTTAGCCCAAAGTAAAGAATGAAAGGTAAGGTACGAAGTCGCTTGTCCGCA
TCGGGCAAGGTTACCGAGGGGATAACTCCGAGAATGAGGTGGTCT
Found at i:752855 original size:22 final size:21
Alignment explanation
Indices: 752826--752866 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
752816 AAACCTACTA
*
752826 TTTATCCTACTATAGTATAGG
1 TTTATCCTACTATACTATAGG
752847 TTTAGTCCTACTATACTATA
1 TTTA-TCCTACTATACTATA
752867 TAGTTATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.44
Consensus pattern (21 bp):
TTTATCCTACTATACTATAGG
Left flanking sequence: Indices 752326 -- 752825
AAGGGATTCGAACCGGACCAATTCTTGTAGCTGTGAGTGAAGCATTACAATAATTGGCTCGACCC
TGATCGAGTTGCATTTCTCGATCACTAGATAAATGATATATCAAAGGCCTGACGACCGCAGGCTT
TTCAAAACAAATACTTCAAGAGATATCGGCTAAACGAAAAGGGGATTTGTGCTTTCCTCTTAAAG
TAGGGGTTGGACCAATAAGATACGTCACAAGTGGCCTTACTCTCTTTGTTTCGGAATGAGGATGG
GAAGCAGCGCCTTCCACTCCAATAAATGATAGGACAGCTTTTGGTGCCTACTCTCGCAGAACGGA
ATGAAAGCTTAGACCTTACTAAAGGGGGGGTTTTACTTCTTTTGATAGGCTTTTATGGGAGCTAT
ATGTTATTTTAATTTTTTCGAGATATGATAACCTTTCTATTATATCCAATAAATCCAAGTCCTAT
ATATTCAAGAGACGTGGCCACCACTAAAGAAAGGGAAACCTACTA
Right flanking sequence: Indices 752867 -- 753366
TAGTTATAGTACTGGAAAAGCGGAGGGAGGGGCCTAAGCTGATGAAAGCGTAAAAGAAATAATAC
AAATCAAGTTAACATTTTCTCTTTAGCGATCTTTAGAAATCGTGGATTGGTGTTCCGTAGTATAT
TATTCGCAAGTGAAGTAAGTAGTTCACTTTGGGCGGGCATCTCTTGAGGGGACGAGCGTGCAACT
ACAACAAGTAACTGTCTTTCTGTTCCCGATCCCAGAGTGAAGGTATGAGAATTCATATACCGAAT
TACAAGAGTCGGGACTACTTGGTCGTACCCTCATCCTAGCCTCCGCGGATTGGAAAGTGAGAAAT
CTCTCTCCTTCGCCCCTTTCCATCAAAAACCACAAGGTAGATACACCTTTTAATGGGACGAGGTT
TATGTGATCGGAGCTTACAAAATGGAAGGCGCAGCTGTTGGTTCTGATTCCGATCCCGGACTTTT
GGCTACCTTACTAAAACTAAAAAGGAGGTCAGGGCAGCCCATTAT
Found at i:752876 original size:24 final size:22
Alignment explanation
Indices: 752826--752876 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
752816 AAACCTACTA
* *
752826 TTTA-TCCTACTATAGTATAGG
1 TTTAGTCCTACTATACTATAAG
752847 TTTAGTCCTACTATACTATATAG
1 TTTAGTCCTACTATACTATA-AG
752870 TTATAGT
1 TT-TAGT
752877 ACTGGAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 4 0.16
22 14 0.56
23 3 0.12
24 4 0.16
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (22 bp):
TTTAGTCCTACTATACTATAAG
Left flanking sequence: Indices 752326 -- 752825
AAGGGATTCGAACCGGACCAATTCTTGTAGCTGTGAGTGAAGCATTACAATAATTGGCTCGACCC
TGATCGAGTTGCATTTCTCGATCACTAGATAAATGATATATCAAAGGCCTGACGACCGCAGGCTT
TTCAAAACAAATACTTCAAGAGATATCGGCTAAACGAAAAGGGGATTTGTGCTTTCCTCTTAAAG
TAGGGGTTGGACCAATAAGATACGTCACAAGTGGCCTTACTCTCTTTGTTTCGGAATGAGGATGG
GAAGCAGCGCCTTCCACTCCAATAAATGATAGGACAGCTTTTGGTGCCTACTCTCGCAGAACGGA
ATGAAAGCTTAGACCTTACTAAAGGGGGGGTTTTACTTCTTTTGATAGGCTTTTATGGGAGCTAT
ATGTTATTTTAATTTTTTCGAGATATGATAACCTTTCTATTATATCCAATAAATCCAAGTCCTAT
ATATTCAAGAGACGTGGCCACCACTAAAGAAAGGGAAACCTACTA
Right flanking sequence: Indices 752877 -- 753376
ACTGGAAAAGCGGAGGGAGGGGCCTAAGCTGATGAAAGCGTAAAAGAAATAATACAAATCAAGTT
AACATTTTCTCTTTAGCGATCTTTAGAAATCGTGGATTGGTGTTCCGTAGTATATTATTCGCAAG
TGAAGTAAGTAGTTCACTTTGGGCGGGCATCTCTTGAGGGGACGAGCGTGCAACTACAACAAGTA
ACTGTCTTTCTGTTCCCGATCCCAGAGTGAAGGTATGAGAATTCATATACCGAATTACAAGAGTC
GGGACTACTTGGTCGTACCCTCATCCTAGCCTCCGCGGATTGGAAAGTGAGAAATCTCTCTCCTT
CGCCCCTTTCCATCAAAAACCACAAGGTAGATACACCTTTTAATGGGACGAGGTTTATGTGATCG
GAGCTTACAAAATGGAAGGCGCAGCTGTTGGTTCTGATTCCGATCCCGGACTTTTGGCTACCTTA
CTAAAACTAAAAAGGAGGTCAGGGCAGCCCATTATATATGGGAAA
Found at i:804949 original size:17 final size:18
Alignment explanation
Indices: 804917--804954 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
804907 GGAAGAGCTT
* *
804917 CTTCTCCTTCCTTGGCTG
1 CTTCTCCTTACTTGGCAG
804935 CTTCTCC-TACTTGGCAG
1 CTTCTCCTTACTTGGCAG
804952 CTT
1 CTT
804955 TTATCACTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.05, C:0.37, G:0.16, T:0.42
Consensus pattern (18 bp):
CTTCTCCTTACTTGGCAG
Left flanking sequence: Indices 804417 -- 804916
GTTGTATCATTATCCGAGCTATAGGTAGTTCATAGCTCAACGTAGTTGTTCCTATCCTAGCGATT
TCCTAATAAAGAGTCCAACTGCCTGCTTGAACTGCTGTACAGAAGGAGCTATGAATATTAGCCAA
CCGCCTACTTGAAAGTGGAAGTTGTTTTGCTAACTGCCTACTCGCCTGCTTGGAAAGAAGGAAAG
ATAGGATTGGGCAATTCCGCCGGTTCCATCGCCTGGAATCTCGTCATCTGAGAAGGAGATAACAT
TGGGGGACATAACTATTCCCACCATGTTCTGGAGTGCATCTGGAGAAATGTCATTCGGGACATGT
GCTTCTTTCAGAATGGAGAGCAGAGCGTCCCTGTGTTTGTCTGAAGTAAGGAGCAGCGAGAGAAT
GTTGATATGAGCTGGAGTCTTCTTCAGCTGCTCGACGACATCGTACTCACTCTTCTTCAAGACCC
TGAGCACTTCTGCAGTCTCTTTTTCTGTTAAAGGGGGAAGAGCTT
Right flanking sequence: Indices 804955 -- 805454
TTATCACTTTTAAGTAAAACTTATTATTTTTTGATTGGCTTTTACGACAGGAATAGCCTTATTGT
AATCCTTTTTCAAAAAAGTCTATCAAAACAGATTCAATGTTGTAGGGAACCGGCTCTGTATGCTG
CTAGTGCACGGGATAGAAAGCCATCATATGGAGCGTCTTCGTCTTGTCTTTTGTGTTGCGAGTGC
ATGCGTCCACCCCAGTCAACGGTTGGCAGGGCTTTCACAGGTACCTTGTACGTAGTTAAGGTGAA
GCTTTGTTTGATTTGATCCCGAACCGCCCGATCCCTATTTAGAAGCCCAGACCCCCTTTGCTCAT
GAAGACATACTACCAACTGGATTCCTTTTATAATGGACCCACTTGATAATGAAGAAAGAGGGTTG
CAACCAAAATGCTAAGTACGGGGACTAGGTTACGACGTTGGAAGACAAAGGGCTACTCCGTATTC
TTCCTAACCATCAGTTCGTATCGCAACTAAGAATCTATTTTCTTT
Found at i:888056 original size:14 final size:14
Alignment explanation
Indices: 888020--888058 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
888010 ATCTGGCTAA
888020 TTCTA-TATACTTC
1 TTCTATTATACTTC
888033 TATCTAATTATACTTC
1 T-TCT-ATTATACTTC
888049 TTCTATTATA
1 TTCTATTATA
888059 AAGGCGAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 1 0.04
14 9 0.39
15 4 0.17
16 9 0.39
ACGTcount: A:0.28, C:0.18, G:0.00, T:0.54
Consensus pattern (14 bp):
TTCTATTATACTTC
Left flanking sequence: Indices 887520 -- 888019
AATGGTTTAAGCTTGGAAGCAACCTGCTATCTATCGATAGGCGAGAACAGACTGCTATTGGCTGC
TTCGCCTATCTATTCTATTATGGCCGGCTTGGAGACATCAGAGGAAGACCATCATCTCTATCCGG
GTACGATCATAGCTTCATTCATTCGTTGAACCTTGGGGATAATCATTAGCATTGAAGTCAATCAC
CACACCACCTCTATCATACATACGACATTAGACGACGCGAGAGTGCATGGTCAACACACACCTAA
AGCGCCTACGTTCCGCTTGCAGCCAATACAACCACAACCTAACTTGCACGAGATTCAACTATACT
TAGCCCCGCTACTGGTAGTCCCGGGGGGACGGCATCCTCCTATAATAGTTAGCAGTACTGAACAA
GCGAGTCATCGGTCCGGGGAAAGAAAAGGACCGCCTTTGAAAAAAAAAAGGAACTCGCTAGGCCT
TCGGAACAAAGGCGATTCTGTTCATGCTTCAGACGATCTGGCTAA
Right flanking sequence: Indices 888059 -- 888558
AAGGCGAACCTATAGGCCTGTTTTAGCGCCTTTCCAAAGGTAACCGGTTGACTTTGGAAAGGCTA
CTAAGGACCGGGTGAAGAATGAAAAACGTCCGCTAACGCCCACGGGATAAGATCTTTTTTAGATC
AGCAACGAATATCTTGTATCTATGAAGAAAGATTTCTCCCCGGGTTCAGACCCTGAATGCCATAC
CTTGCTGAAGGCGATTCACGAGAGAATCGCGCACAGTTCCGTTTGACCGAGATGTGAATGCCCGT
GACCTTCTCGGTATAGTGATGGATTTCATGGCCGACGTCTAACCGGCACGAATACGCCGACATGA
AACGAGTTCCCCGCGGAGCATTTTTTCTTTCGTCCTCGGACGTTCGGACGTTTTGTTCGATTACG
GCACTTGCGTTTTCATGCCCCTCGCGATTGATTGGGAGAAAGAGCGAAAGCGAGAAAGATGGATT
GTTATCCATCGGAAATCGATAGGAATTCCCCGGGGATTGCCTTCT
Found at i:898206 original size:39 final size:39
Alignment explanation
Indices: 898151--898229 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
898141 CCCATCCTTC
*
898151 AATATCATGATTGGGTCGACCAGGCCAGATCATGAGTGA
1 AATATCATGATCGGGTCGACCAGGCCAGATCATGAGTGA
898190 AATATCATGATCGGGTCGACCAGGCCAGATCATGAGTGA
1 AATATCATGATCGGGTCGACCAGGCCAGATCATGAGTGA
898229 A
1 A
898230 TAGAAAATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.32, C:0.19, G:0.28, T:0.22
Consensus pattern (39 bp):
AATATCATGATCGGGTCGACCAGGCCAGATCATGAGTGA
Left flanking sequence: Indices 897651 -- 898150
CTCTCAGCGATTCTTTTCTCCGCGAATCACCCCTTCCCAACCAGCCCGCCCGATCGATCTTGTAA
GATCGGCTAATTCAAAGGGATTAATCTGGTCCGAAGTTGTCGGAACGAATCGTTTGCTTTATCGA
ACAAAGCTTTATTAGGGGGTCTTGGTTGGCCCCCTATTTTCAACCATTACAGCTGGCGTCGACCA
GCTTTGCGATACGGACGGACACGAAGAAGAACGCAGGCAGCGGAAATGCAAAAGAGAAGAGCAAA
GATTCCCGACCCAGAGCATGTTATTGACTCAACCACAAATCTGTTGAATGAAGGTAGCTTGCTTA
CTCTCAGCCACTAGTTAGAAGGAAATCCCTTGACTTCGCTTATGCCCTTATGCAGTAAAGAAAGC
AAGTGAGGCGGGCTAAGATTCCATTCGAAGTAACGTAAGAGGATTCGATCTTGCACCGTCTTCAA
CTCTTCTCGGGATCCGGAGTTTTTCGAGAAAAGGTCCCATCCTTC
Right flanking sequence: Indices 898230 -- 898729
TAGAAAATATAAAATGTACATAGCTGTTCCAGCTGAAATACTTGGAATAATTCTACCACTTCTAC
TGGGAGTAGCCTTTTTAGTGCTAGCTGAACGTAAAGTAATGGCTTTTGTGCAACGTCGAAAGGGT
CCTGATGTAGTGGGATCGTTTGGATTGTTACAACCTCTAGCAGATGGTTTGAAATTGATTCTAAA
AGAACCTATTTCACCAAGTAGTGCTAATTTCTCCCTTTTTAGAATGGCTCCAGTGGCTACATTTA
TGTTAAGTCTGGTCGCTCGGGCCGTTGTACCTTTTGATTATGGTATGGTATTGTCAGATCCGAAC
ATAGGGCTACTTTATTTGTTTGCCATATCTTCGCTAGGTGTTTATGGAATTATTATAGCAGGTCG
GTCTAGTAATTAGGGGGCGGCCGTTCGGTCGCCTATGATACTAGGACCAATAGGTCAAAAATGGG
TTTGTGCCGCAGGTGTTGAACGATCTACTCTACACAGGTGTGGGC
Done.