Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: MH410147
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: 426495
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Found at i:5450 original size:18 final size:19
Alignment explanation
Indices: 5427--5464 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
5417 GGAAGTGAAA
5427 TAGAGAAGGAGTTC-GACT
1 TAGAGAAGGAGTTCTGACT
5445 TAGAGAAGGAGTTCTGACT
1 TAGAGAAGGAGTTCTGACT
5464 T
1 T
5465 CGAGTTCTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.32, C:0.11, G:0.32, T:0.26
Consensus pattern (19 bp):
TAGAGAAGGAGTTCTGACT
Left flanking sequence: Indices 4927 -- 5426
AATTCTATTATCTTCTCTTGCTTGTCCTCATAGATGCGAATATCAGTCTCAATCGACTTCAGTGG
TGGGGCAAGTATCTTAACGAATGGGAATCACATTTGTTCCCAGAGTACGAGACAGCTACTCTGAC
CCCCTCAGTATTAGTATAGACTTCAGGAGACCAAAAAAGTGATCAGGAATAGCGGCCTTAAGGGC
CAATAGTTGAGGCCTTATCTTCTCTTTCAAACTTCCTAAGTTGATCCCTTTCGTGAGGCAAGCTG
GATACTACTGGACCTTGTTACGACTTAACTCCAGTCAAAAGATCGTAGCGTAGAGGGAATCCAAG
GAAAGACATCTATGCTAGTTCACCTCCGTCAGTCTAGAGCGCCTCTCGCGCCCAATAGACTTTTA
TCGAAAAAAGGCTTTCTTTTAAGGTTTAAGTTTTCTCAAATCGCCCAGCAGCCTCTAGAAGGCCT
TACTGTATTCCTTCTCTTACAAGACATAAATAATAGGAAGTGAAA
Right flanking sequence: Indices 5465 -- 5964
CGAGTTCTGAGTTTGTAGTTTTTCTATTCTAGAATAGTAGATCCCAGGGAAAAAGTCCTTCTAAC
GTCTCTTGTTGGAATGATAAATTTTATTTTCAATGAAAAGAGGGTCCTTGTTCTTTCGCATGTAG
AAAGGAGAAGAGTTAAAGAGATTACCTAGCTCACATTTCTATTTCTGGCTGGGGGAAGGCTGAAC
TTGCTTTGCCATCATGCTTCCGCCGCAAGACTCTTGGAAAGTCTCATTTGCAGTAAAGGATCCAT
TTCTGATGGAGCTAATTGCTTCATATATGGAAATTACAGTTGTAACTGAGTCCGGAGAGAATGTA
TTGCCAAACAAAGGACTGCCACCTGTACCCTATTTTCTTAAATTTCTACTTGGATGACCTAGATC
GGGCTTTTCAATGCGATTTCTTTCCAGGAGCTAGATACGGCGAAGAAGGACTTCTTCCCTTCCTT
TCCCAAAAAGAGTAGAAGTGCACTATTCAACAAATCACAGAGCTA
Found at i:42682 original size:20 final size:20
Alignment explanation
Indices: 42657--42696 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
42647 CGTAGAGGTC
*
42657 CCCTTTGCCATTCTGTATAA
1 CCCTTTACCATTCTGTATAA
42677 CCCTTTACCATTCTGTATAA
1 CCCTTTACCATTCTGTATAA
42697 ATGGGCTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.23, C:0.30, G:0.07, T:0.40
Consensus pattern (20 bp):
CCCTTTACCATTCTGTATAA
Left flanking sequence: Indices 42157 -- 42656
CTACGTCGGTTGGTTAAATTTGGAATTCTTTTTTGGATGTCTTGTATCCGCGAAAAGATCATTTC
TTTCGATAGATAGAGGGCCACCTTCTTATATTTCTACATCTAGGATTCGACTTGTATCATGGATA
CTAATTGGAACTGAACCATTATGGCAAGGAAAGGTTTGATTCAGCGGGAGAAGAAGAGGAATAAA
TTAGAACAGAAATATCATTTGATTCGTCAATCCTCAAAAAAAAGAAATAAGCAAAGTTCCGTCAT
TGAGTGAGAAATGGGAAATTTATAGAAAGTTACAATCCCCACCACGGAATAGCGCAGCTACACGC
CTTCATCGACGTTGTTTTGCGACTGGACGGCCGAGAGCTAATTATCGAGACTTTGGACTATCCGG
ACATATACTTCGTGAAATGGTTGATGCATGTTTGTTGCCAGGAGCAACAAGATCGAGTTGGTAAG
GATTAACTCTTGATTTCTATTCTAGGGTCGGTGATCGTAGAGGTC
Right flanking sequence: Indices 42697 -- 43196
ATGGGCTATCCTATTTGTACAGATATGGTAAAGGGTTATACAGAACTTGGTTATCTATTAGTTTT
CAGTTCTTCTCTTCATCGCGGGGTAGAGCAGTTTGGTAGCTCGCAAGGCTCATAACCTTGAGGTC
ACGGGTTCCAATCCTGTCTCCGCAACATCTTGTTTGTCAAAAAATTGTAGATTTCACTTTGTTAA
GTTAACTAGTAATTAATTACCGCTTTGGGGGAGGAATCCTCGAAGTGGTCCCTCATCTCCTCTTT
CCGGTTCTTCAAGAGTTATAGGCTACTCTACCAATCAAAAGAAAAGAAGGCTCGAAGGCTTGAGA
ATTTGCCCTACTCAATTTATAAAATTGAGCGGGAATGACAAATAAGAGCTTTTGCCAGTTTCAAG
TCCGGGAATCCTCTTTCATCCGCCCTAAGGGGTAACCTCACTGCTTGCATTCCCTTCTGTATTGG
ATTTCGGGTTTGAATCGCCGAATAAGGGCTAATACGAAGATAAAG
Found at i:44318 original size:15 final size:16
Alignment explanation
Indices: 44298--44333 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
44288 AGAGCACCTT
44298 TAGTACGCCATTTTA-
1 TAGTACGCCATTTTAC
44313 TAGTACGCCATTTTAC
1 TAGTACGCCATTTTAC
44329 TAGTA
1 TAGTA
44334 TAAGGTAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (16 bp):
TAGTACGCCATTTTAC
Left flanking sequence: Indices 43798 -- 44297
TGCAAACCAGGAGAATTTTCTAATTGAATACATGGGGCGGAATTGGCTATTTGCTGTGCTTGTGA
AATTGGGCCAGGGCCTATACCCGCGAAGAGGGCTGCTCAACTCCTAAAGAAGGACATACGGACCG
ATCATGGAATGCTAAGAGATGATCAAGCTAGAGACCTAAGGAGAAGAAAGATCTACGCTACGATT
CATGGGCAGGTAAAACAGATATTTTTTCCCGAGCAAGAACTTCTATCAGTTGGAGTTCGAGTGGA
AGGCACTTGCCCGCGATTCAAGTACACTAAATGCGGTATCAATACATGGCCAACCAACTTCGTAG
CTCGATCTTATACTTTTTTTATAGGTAACGGATTTCGACTTACACAAGTTGGGAGATTCCATTCA
CGAAGGAAGTCTTTGAAAAAGAGAATGCGAGACAGAATTGGTTAGTTGTCCAGTCCAGTTTGGTA
TCCAAATCTCCCTTACTTTGTTAACTGACGTAAGGAGAGCACCTT
Right flanking sequence: Indices 44334 -- 44833
TAAGGTAGTGTATCGAGGGGCTCTAAGCGATCAAGGAGCTTAATGCGTCTTTATGGCATAACCCG
GAAAGACTTTTCTTAGTCTTTCTCCTATTACTATCGCACCCTTTACGCTACCGCACAACTAACCG
TTGCTTGGTTAGTCGGATCAATTTCACTCTCGAAGTTGGGAAGAATCCACTGAAAATGCGAGGGG
TGCGAAGCACGAAGCATGACATTTTGTTTGAACGAATCATCGAAGGGAAAGGTCGACGAGACAGC
AGAGGGGCCGTAGGCGGTTACCTTGAGATGGGGAGATGGTTTGACCGCTTATATTTATACACGTG
TCACTGTCAGATCGAAATTCTATATCATCCTAAAAATGCAGAGGAAGAAAAAAAAGCCCTCGTTA
GGCCGAAAAGGGTTCGGCGCTAGGGCAAGCTCTTTAAACCATGGGGAAGGCTCATCGAAGGCCTA
GGGCATTATCTGACTCAAAAAAAAAGGGCTCGAGAAGGCTTGGGC
Found at i:110940 original size:24 final size:22
Alignment explanation
Indices: 110853--110942 Score: 76
Period size: 21 Copynumber: 4.1 Consensus size: 22
110843 ACTCACACAG
* *
110853 AAAAAAGGAAGTGAGTTAGACA
1 AAAAAAAGAAGTGACTTAGACA
* ** *
110875 AAAAGAA-AAGCAACTTGGAC-
1 AAAAAAAGAAGTGACTTAGACA
*
110895 AAAAAAAGAAGTGACTTGGACA
1 AAAAAAAGAAGTGACTTAGACA
*
110917 AAAAGAAAGGAAGTGGCTTAGACA
1 AAAA-AAA-GAAGTGACTTAGACA
110941 AA
1 AA
110943 TCTTTTTTGT
Statistics
Matches: 53, Mismatches: 11, Indels: 6
0.76 0.16 0.09
Matches are distributed among these distances:
20 6 0.11
21 20 0.38
22 9 0.17
23 3 0.06
24 15 0.28
ACGTcount: A:0.54, C:0.09, G:0.24, T:0.12
Consensus pattern (22 bp):
AAAAAAAGAAGTGACTTAGACA
Left flanking sequence: Indices 110353 -- 110852
CATACGTAAAATCATAATTATTGATACGGGCCTTTTCCACAGAAAAGGGGAATCTTGTGTTCCAA
TAGAAGCAGAAGTGATGTGGATTATTCAAGAATCGAAGTCGATTTGCTTTATAAAAAGAAGATAT
CAATGAACTTCTATGAAATGGTTTCACGGGATTCAGCCAATTGTCTTGATCGTGGAATATCATTG
AGAAATAGGAATCCGTGTTATCAAAGGATTTCCTGCGATTATTTCTAGTATGGAATGAGTCAATC
ATCCACTTTGGTATCTTATTGAACAAAAATGGTGATATTGTTCCTCCATTGATCAAGAATTTATA
TTTTTGGGAAGTATCATGATCATCCAATAAGAAGGGTTTCCATTTTTTCAAATGAACAATTTGAA
GACCTATTGATTCTAACAACTGATTGCAGAGTTGATCATTCGGACCTTTCAATTCATAGATGTAG
ATCATCTCGGACCTATGAAAGGGGATATTCCCGAAACTCACACAG
Right flanking sequence: Indices 110943 -- 111442
TCTTTTTTGTCGATAACCTCAGACCAATCAATCGAATATTGATTAATACGTAATCGATCAAACAT
TACTTGAAGGCGGCTCTTCTGCTCAGAAACGAAATGTTCCTGGAAATTCTTGCTCCCATTGGACT
GGACCATTTGTATCTATATGCATCAGGATTCCGATTCATGGATCTCTCGGTTCGAGAAATCCAAA
TAAGGGGATCGAACCATTTCTTCTGACTCTTTTTCAAATTCGATAAATGTTGGTTGATCCTATAT
TTCATTATAGTTCTATGATTCAGAGTATCCTTTCCTATTTGATCCCTTTGAATTCCATATTCGAA
GTTGCGATCGGATCTATTCATTAAAAAGAATCGATTCAATACATTTCTTATGTACCCAGAGGTAC
TATATGGGATTTGAATCTGATTTCGGATCAATCTGTATTGATTGACTGCCTCCATTATGTTGTTG
CTAGCAAATACCACTCTTTTTGGTTGTGGATCTTCCAAATCATTC
Found at i:119418 original size:29 final size:31
Alignment explanation
Indices: 119381--119451 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
119371 CAATTCAATT
119381 TAAAATTAATT-AT-TTATT-AT-TTAATCAA
1 TAAAATTAATTAATATTATTAATATTAAT-AA
119409 TAATAATTAATTAATATTATTAATATTAATAA
1 TAA-AATTAATTAATATTATTAATATTAATAA
*
119441 TAAAATAAATT
1 TAAAATTAATT
119452 GGAAATAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
28 3 0.08
29 8 0.22
30 2 0.05
31 12 0.32
32 7 0.19
33 5 0.14
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (31 bp):
TAAAATTAATTAATATTATTAATATTAATAA
Left flanking sequence: Indices 118881 -- 119380
ACATCGGTCAAGGTTTCGCGATTACCCTGTCTCACGCGAATCGTTTACCTATAACTATTCAATAT
CCCTACGAAAAACTAATTACGTCGGAACGTTTCCGGGGCCGAATTCACTTTGAATTTGATAAATG
CATTGCTTGTGAAGTATGCGTTCGTGTATGTCCTATAGATCCACCTGTTGTAGATTGGAAATTGG
AAAGTGATATTCGAAAGAAACGATTGTTTAATTACAGTATTTTTTTTTTAATCTGTATATTTTGT
GGTAATTGCGTTGAGTATTGTCCAACAAATTGTTTATCAATGACTGAAGAATATGAACTTTCAAG
TTATGATCGTCACGAATTGAATTCTAATCAAATTGCTTTGGGTCGGTTACCAACGTCAGTAATTG
ATGATTACACAATTCGCACAATTTCGAATTCGCCTCCAATAGAAATAAAATATAAAATAGTTAAA
CTTAAACCTCTCAATTCAAAAAAATCCCCAATTAACAATTCAATT
Right flanking sequence: Indices 119452 -- 119951
GGAAATAAATGAAATTAGGTTGCATCTCTCAAAATAAGGCTTTGAAAAAGTTGTTTAAACTTGTC
ATTTCATTTTGATGAAAAATGTATTTCTATATTTAGATTTTCTATTTATATTAGAGTAATATATA
TATTTTCAAACAATTTTCCAGATATTGAATGATTAGGGCTAATAACACTATATATATCAACCCGC
CCGCATCTGTTCCAATTTTATTTATTTAATTACGTTTAAGTTAAGAAGTATCATAAACAAAAAAA
AAATGGAGTTACTTCTTTTTTCCTGGTCAGGTCAATAAAATCATGAAATATTGAGATTTGGATTT
TATGGATTTACCCGGGCCAATGCATGATTTTATTTTAGTCTTTCTGGGATCGGGTCTGATCTTAG
GAGGTCTAGGAGTAGTATTACTTCCCAATCCCATTTTTTCGGCCTTTTCGTTAGGATTGGTTCTT
GTTTGTATATCCTTATTCTATATTCTATTGAGTTCTTATTTTGTA
Found at i:126873 original size:26 final size:27
Alignment explanation
Indices: 126835--126886 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
126825 GAAACTTATT
*
126835 CATTCCAGCATTAGTTATCCCATCTTC
1 CATTCCAGCATTACTTATCCCATCTTC
* *
126862 CATTGCAG-ATTACTTATTCCATCTT
1 CATTCCAGCATTACTTATCCCATCTT
126887 TCGCAACAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.23, C:0.29, G:0.08, T:0.40
Consensus pattern (27 bp):
CATTCCAGCATTACTTATCCCATCTTC
Left flanking sequence: Indices 126335 -- 126834
TCGGCGAGATGGATAAAAGTATGTGTTATGATCCAAACTCAAAATGAATAGGGATGTCGATTCAT
ATCAATTAATTTATTCAAGAGAGACTCATCCAAATTAATCATGTGCCAGGAACCTGATTGGAACT
GGTGACACGAGGATTTTCAGTCCTCTGCTCTACCAGCTGAGCTATCCCGACTAAGTCCCAATGTA
GCATCCTCATTTTATTAGAGGGCGGGGGTCTATGTCAATTAAAAGGGCGAAAGAAGATTCAAAAG
TTTTATCTAGGTACTGGAATTTCTTGGATCTTAAAAAAGACGACTTTTTCAGTTTCAGTATGAGT
AATGATATCGATTGTAAATCATTCAAATGGGGATTTCTTGCTCAAAGATGTATATCTTAGATATA
AGATATAATAAGACATTTCCGCCCAGATCTATTTCAAAAAGAATAGGGCGAGTGTATAAGGACAC
TGACGCAAGGAAAGTGGGTTTAGAGGTTATATATAGAAACTTATT
Right flanking sequence: Indices 126887 -- 127386
TCGCAACAAAAAGAGAACATGCCAAAAAAGCGTAAAACGGCAACGATGACTTTTTTTGATGATCG
AGCCAAGTTCCGAATTCGTGTGAAAGAATCTTGTTCCCGGTGATGTAATACCTACCTACCATTTT
CGACCTCGTTTTCTTGTCTCTTTTTGGTCACCGTATTACATTTATGCTGTCCGCTAAAAAGCGCC
TCGATCCACCCCTACTAAATCGATCGCCCCTGAAGCTATAGCATGCTTTATTGGCTAAAGCCCCT
TCTTTCTTAGAAAACGATTCTGGTTCAAGTCTCATTCGAAAGCATTCGAAAGGAAGTAGGCGTCA
TCTACGACTTTACCTTCATGTCTTAGGCATAAGACTAGGTTCACTTAGAAATCGGATAGATCGTC
GAAAGAATACTAAAAGTGCGGGATTTTAGACACCAACAAAGAGGGGTTGATCCTCGCTTCCAAGA
AATGCTTATTTACGAGAATAGCCAAAAAGGCGGTATCAAAAAGAA
Found at i:136526 original size:15 final size:13
Alignment explanation
Indices: 136491--136517 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
136481 TGAGTATTAC
136491 TTTATTAGGTCTA
1 TTTATTAGGTCTA
136504 TTTATTAGGTCTA
1 TTTATTAGGTCTA
136517 T
1 T
136518 ATATATTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.07, G:0.15, T:0.56
Consensus pattern (13 bp):
TTTATTAGGTCTA
Left flanking sequence: Indices 135991 -- 136490
TTGGGACTGCTACCGAAAAGACATCAACTAAAGGCTCTGGCTCGGCTGCTTCTTTGAGTGAGACC
ACACCAACCCCTTTCCCCCCAACCTTCGAGCCAATTCGAGCCCACCTTCTATTCTACGCCCTCAG
CAGACCTTAGATCTTCTTCGCCAACCATCCTTGCCAGCCAACCTTCCGGAACCCATCGGTCCATC
AGTCAGTAGCTATTCAGTCCCTATCCCGTAACCAGTCGTTGGCCCTATCCCCCGTCGTTGGCCTA
AGGCCCTTCTTCCTTGCCTTATTAGTGTAGGGCAGCCGAGAACAATTATTAGTCTAGGGCCTTAG
CGACTTTACTACTAATCAGATCAAGATCAGGTGTCCCTTCACTCTCCTCCCCTCCGGTGAAATAA
GAAAATTCATGTACTTAATTTAGCAATATCTCGAACCATACCCTACCATAAAACGTAACCCTACC
TTAGCATCTCCCAAGCGCTGCCGTCTTTCGATCTGTGAGTATTAC
Right flanking sequence: Indices 136518 -- 137017
ATATATTAGTAGGTATGATTGATGTCTTTTTCGCTCTACAGGGTCTCGCGAAGGGCACCGAACTA
CTAAGACAGAGACTTACTAGCAACTGACTTACTATCGTTTGTGCCTTCCTCCGGACCGGAGCCGA
TTGTAGGAGAAGAATCAGCAGAAGAAGCAGCATCAGCATCAGTAGAAGAAGTTTCTGTTGCCGAA
TCAGTTTCGGAATCAGTTGAATAGGAATCAGTTTCATGGACAGAATCAGTTGCAGTATTTGATGA
AGTTTCAGAATCAGTTTCAGGGTAAGCGGAATCCGCAGAAGCAGAAGTTGGAGAAGTAGGAGAAG
GTAGAATTAGTCATTTAATGAGGAATGAAAAACGGTAGTTTTTCTTTACTGACATCGGGGTCTCA
GGCTCTATCCCGTCTCGTCTCATGGCACCTACAAGTGGGTCTTTTCCCGGGATTTATGCTTGAAA
ACCCGTAGGGTTTCATTAATCATCAATATTGCTTCCTAAAGTGGA
Found at i:150316 original size:13 final size:13
Alignment explanation
Indices: 150298--150322 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
150288 GCCGCACATA
150298 CGTTTTCTTGCTC
1 CGTTTTCTTGCTC
150311 CGTTTTCTTGCT
1 CGTTTTCTTGCT
150323 GGCACGAACG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.28, G:0.16, T:0.56
Consensus pattern (13 bp):
CGTTTTCTTGCTC
Left flanking sequence: Indices 149798 -- 150297
GTCTTAATCTTTCCCTAGCTCAAGTTCAGTTACTTCCGGGGAGAAATCCTTCTTATTGAACCCCA
GGAGAGTGGGGGGACATTTACTAACCGGGCAACTAAGGCCTTTTCGAATACCCATGGGCTGAGAA
TCGGCCTTTTCCAAACCAAAGAATTACAGCTGCTTTTCTACTCCCGCTGTTACAGCTAAAGCATA
TTCAGATAACTCCATACCCTCTCCCTCTGGTCGAGATACTTCATACCCTCATATCAAGGTAGGCC
GGCCTTATTAAGAAGGAAATTAGACATTATCGAAGCTTAGCCACTGCTTCCACCGCTCCTTTCGC
TTAGAATGATTTCATACCTGCTTTCTTCTTTGCTCACTGAACTGGAGCTTGAGCTTAAGGATTTC
TGGTTGATTTATCTCCAGCGCGTTATGTATTCTATTATATTACCAGTTCGTTCGACTTCTCCTCT
CGCTTCGCTCGAGCAGCTACGCACGTGGTGCGTTAGCCGCACATA
Right flanking sequence: Indices 150323 -- 150822
GGCACGAACGAGAAGAAGAAGGAATCCGTCAGCAATCTTCCTCCTGCGCTAACGATAGAAAGCCA
GCCAACAAGCAAGGACCTTGCCTTAGACAGGGCCTTAGACGGGTTAGGGGTTCAAGCCTACAGCT
AACGAGCAGGCAGGGCAGGCTCATACTAATAAGTGTAACTCACCCTATTAAGAGGAGAGGCCTAG
AAAGGCGAGAAGGCCACCAAAACGTGCCTATACCAGTGTCGGTTATATTGAGGTTTTCTTTTCCT
TAGCCAAAGACGAATACCGCCTGTAGCCAGCCCCTTTAAACCTCAAAGAGACCTTCAGGCAACCG
AGGAACCACTATTCAAGACCACGCAGGCCGACAGCCGTTAGAGAAGAAGAGAGAGGCACCAAAGC
TAGTTACCAGTACCCCGACAGCTGCCACCTGATCAAACCGGGAAAGCGGAAACCGTGCCATCTTT
AACCCCTGTTTTGGTTTTGTGCCCTTTAGGCATCTCTTTAGGGAT
Found at i:153050 original size:23 final size:23
Alignment explanation
Indices: 153004--153052 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
152994 AAGCGCTAAT
* **
153004 CTAAGGATAGTTTCATTCCTTCC
1 CTAAGGATAGTTTCAATCAATCC
153027 CTAAGGATAGTTTCAATCAATCC
1 CTAAGGATAGTTTCAATCAATCC
153050 CTA
1 CTA
153053 TAGGGATGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (23 bp):
CTAAGGATAGTTTCAATCAATCC
Left flanking sequence: Indices 152504 -- 153003
GCAGCGGAAAAAGCAGTATCGACGGATCTACAGTGTTCTAAAAGCTCTCTATCCAATAGCCGCTT
ATGGCCTCCCTTCCTCTGTCAAAGTCATCGATGTGCAACAATTAGAAGAGAAGCCATAAAGCGAG
AAAAACCCCTTAGAAAATCCCCCAGCCCAGTATGGAAGAGGCAAAAGCCAGTTTCTTTCGTAGTG
ACGAATCACCAAAGACTACAGCTGTGTCTACAAGCGGGAAAGCAGCGCTAAATCCGTATCGACAT
CGACTAAATCCGTCTCGCGTAAACCTGTATCGACTACATCTGCCCTACCCTTTACTTGACTTTAC
CGGTCTTAAGCTTAAGCTAACTCTTTCCCGACTGGAAGGAACTCTAGAGTAGCTCCTTAGCTGCT
AACTGGCTGGACAAGCGGCTCTCGTGGCTTTCTTTCCTTCTTGAGAATAGCCCTTTTCTTTGAAA
GTAGTCCCCAGAGGTGTGGACTAAAGGAATAGCACAAGCGCTAAT
Right flanking sequence: Indices 153053 -- 153552
TAGGGATGAAAAGAGAGCGTCTAAACAGAGTCCTGTGGGGATATAGAAACCCTCTCTTCGACTCT
TCTGCTGATCGTAGACCATCCTGTGATTTCAAATCAACAGATTCATTGAGCAATTCTTGAGTAAA
CTAATAGAATTCAAAGAATTAGCGTAGTCAAGCTAAAGAGCCCTCTACTGGCCTTCTCTCTGCTC
GTCTAGCTTGCGATACTGATTCTTCTATGGGGATTCTTGTCTTGAAAAGAGGTTAAAGAAAGGAG
TAGGGCAGCTGCATTCTATAATGCTAGGAAGAGTGAAGAGTTAGCTTCTAGCTCTAGCTCTGGCC
TTAGTGCGGGTGAAAGCCTATTCACTCCTACCATTACATTAAAAAGCGTGCAAGAATTGCGGAGG
GGCTTTTTTAAGCCTTCCATTGTTGGCAGTAAGGTACAATCCCCTTTTGTATTAATCTTTCCATC
TGCCACCAGTCTTGCAGGTCTTTCACCATTTGCTTTTCCTTTAGC
Found at i:159802 original size:20 final size:21
Alignment explanation
Indices: 159764--159803 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
159754 GGCCCCTGAT
*
159764 AAAAAGAAAAAAGCTGAAATC
1 AAAAAGAAAAAAGCAGAAATC
*
159785 AAAAAGAAAGAAG-AGAAAT
1 AAAAAGAAAAAAGCAGAAAT
159804 TGGGCCATCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.70, C:0.05, G:0.17, T:0.07
Consensus pattern (21 bp):
AAAAAGAAAAAAGCAGAAATC
Left flanking sequence: Indices 159264 -- 159763
TGAATCTCCGCTATTTGAATATGGAACATCATAACAACGAATAGGAATAAAACGGCTATAGCTCC
TATATGAACTACTGGGAAGATCATAGCGAAGAAGTCGAGACCTAACAAAAGAAGTAAACCTGAAG
TGTTGCGAAAGACTGGGATGGGAAACAAAACAGAATGTACCGGATTTTTAGCACGTACAACCATC
AAACCAGAGACCAAAGCAGGGCTAGACAAAACAGAAAGTATCATAGTACGTCGTCCTTCCCTGAA
ATGGAACTTTCATGCTAGTTCTTGCTCCAGCATGAAAGTCGATCTATTACGACCAGCGCGGTTGT
TCGTATTTCATTTTCTTCTTCCAAGCCAAGCCCTTCTTAGAAAGCACTCACTGAGTTACTTACGG
AATCTCAAATCTCTCTCGACGCCGAGAATTTTTTATGTGCCCAGGTCGATTAGAGGTTCGGCTTC
CTTCTCCCCCACCCACCTTTTCTTTTAGCGTCCTGGGCCCCTGAT
Right flanking sequence: Indices 159804 -- 160303
TGGGCCATCTTTCCCGAGGGAGGCCGCCTTCTCTCAGGCCCGCAGTCTTCTACTTCTAGTCGACT
GCTCTATGACGGGCTTCCCTCTTTCCTGGGCTCTGCTCGCTCGTCTACGCTCCAACCCAGCAAGT
AATAATTGAAATCCAAATTTCCTTGCGATTTCAAACTTGTCGTCAAAAAAAAGGCAATCAATTAG
AATCAAGAAATAAATGGAAATAGTAAATCAAGATCTAGATGGGTTCCTATCTTTATCTCTATCCA
CGGAGATACCTATCTATATGGAGAGAGATCTATCTATGAATCAATCTATACTATCCTCTATCCGG
ATAGATATGTCCCTATGAGGGACTACGCCGATCTTTATATGTTTTGGCCACGTCCGTTTCCGCTC
CGAAGAAGAAGGTTTGTATCTTTCAATCTTATGTCGTGAGGGATGTGACCTATGTTAGGTCCATA
AGATACCACAGCTTTTGGTGTTCTATGATTCACCTCCGAATAATG
Found at i:247955 original size:14 final size:14
Alignment explanation
Indices: 247936--247962 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
247926 GCGGATAAAT
247936 CAAAGAAAATGAAC
1 CAAAGAAAATGAAC
247950 CAAAGAAAATGAA
1 CAAAGAAAATGAA
247963 ATTTTTAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.11, G:0.15, T:0.07
Consensus pattern (14 bp):
CAAAGAAAATGAAC
Left flanking sequence: Indices 247436 -- 247935
CTGTCTTAAGTGCTCTGCTAGCTGAAGCCTTAGGAGCAGTCCTTTACAGAACAGTTGAGCCTTTA
TATACGAAAGGAGACGAGCTAACAAGCGAACAAGGGTCTGACTCGATCATAGAGAGAGAGTCTGA
AAGAGTTCATGAACTTAGCGTAACTGAAATTCTCTGATCCGATCTTCTGAACATTGCTTTAATCC
CAAGGGAAAGCAAAAAGGACCCAACCGTACTACTTTCCGCCTTAGTTTTGCTTGTAGCTTGGTTG
ATAACCGGTTCGAGAGCTGAAGCCAAGTCGCGTGCATAAAGAAATTCTTCGCTAAAATACACACC
TACGAATTTACCTGTTGGGAAAAGTAAAGTATTCTTATGATCTCTATAGCTAAATGAAAATATCG
TATTATAGTCATAGAAACAATATACGTGTCCCATGTCTTTGTTGGAAAAAAGCCAACAACCCGTA
TTTAAATGAAAAGTCTTTCTCTTTTTTTGGGAGGAGCGGATAAAT
Right flanking sequence: Indices 247963 -- 248462
ATTTTTAGAATGGCTATTTCTCACAATTGCTCCTTGTGATGCAGCGGAACCATGGCAATTAGGAT
TTCAAGACGCAGCAACACCTATGATGCAAGGAATAATAGACTTACATCACGATATCTTTTTCTTC
CTCATTCTTATTTTGGTTTTCGTATTATGGATCTTGGTTCGCACTTTATGGCATTTCCACTATAA
AAAGAATCCAATTCCGCAAAGGATTGTTCATGGAACTACTATCGAGATTCTTTGGACCATATTCC
CTAGTATCATCCTGATGTTCATTGCTATACCATCATTTGCTCTGTTATACTCAATGGACGAGGTA
GTAGTAGATCCAGCCATTACTATCAAAGCTATTGGACATCAATGGTATCGGAGTGCGCCCCTTCA
CGAGGGTGATTTAAGTGCAACGAAATGCCTTAAAGTTGAATATGGTTCGCGAAGCATCTGGCTTA
CCGGTAATCTCCCATTCCCGCCGTCGAGAGACTTTAATAACTATA
Found at i:333923 original size:2 final size:2
Alignment explanation
Indices: 333916--333947 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
333906 AGGGCTATGC
333916 TA TA TA TA T- TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
333948 GAAGCAGCGT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Left flanking sequence: Indices 333416 -- 333915
GAAAATATAGATAGATACATCTTTGAAGGGGTCGTACGATCGATTGCTTTTTCACTGCCGGGCAG
GCATAACTAGTAACTTTACTCTTTCTAAACCCCCTTAGATGAGGCAAAGGCCGGAGCTGCTACAA
TAGCTTTAGCGGGAGCTGGAGGAAATAACACTGATAGATGGACGTGAGAAAGCTCTTTTATAATT
ATAAAATTTTTGTCTGGTATCGTGTGGTATATGGGCGGGAGGAGAATAAGAGTCTCGTCTCATCT
TTCAGCTGGAGTTAAGGCTCTCCTGTAAGAACTCTGGAAGGAATTGGTAGACAAAGCATAATGCT
TCTTACAAGCGAAAGAAAGATTAGCTCGATCCCAGGAGCGTAGATGGAATCTGTCGAGGAGCACT
TCTCGGGGTAGCATCGCCCAGGTTGAGAAGGAATCGCTTAGGTTTCTTCGGAACCAGAAGAATAG
GAATGATTACTTGACGTAATCTCAATATCAGAAAAAGGGCTATGC
Right flanking sequence: Indices 333948 -- 334447
GAAGCAGCGTCTCTATCTCTTAGTGAGCTAGCCGCTACTATAGTTTTAAGGGATTTGTGCAATGA
ATTCTTTTCTGCCAGTTTCGAGTGGGAGTCTAAATCAACCCATTTTAAAGCAAGATAGACCAAAC
GACTTTACTGTAGGAAGAATCCCAGAAGAGGTGATACACTGATTCTGGATGCAACTCACAAAGAC
AGCAAGTTTCATCATCAATAACTCTATCGTATTGAGAGCTCTTTTGATCCCATCCATTCCTTTAT
CGTCTGATCCAGTGATTAGTTAAGTTAGAAGAATGGAATTACTTCCATATGCGGGCAGATATGCA
TTAACAAGCTTATTGAAGGGAAGTTCCCCGCTCTCGAATAAAAAAGTAAGCTGACTATCCCGCAG
TGAGCGCTACCTAAGCACTGTTGAAGGCACTCAGAGAAGAGTGGAAAGAGTCCTAAGAGGGCTTC
TCACTAAGACTTTCGACTCCGATGCCTTTGAATCCGTTGATTGAA
Found at i:372094 original size:14 final size:14
Alignment explanation
Indices: 372075--372101 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
372065 TACTTGTGAT
372075 TTCATTTTCTTTGG
1 TTCATTTTCTTTGG
372089 TTCATTTTCTTTG
1 TTCATTTTCTTTG
372102 ATTTATCCGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.15, G:0.11, T:0.67
Consensus pattern (14 bp):
TTCATTTTCTTTGG
Left flanking sequence: Indices 371575 -- 372074
ATCCTAAACAAATAGAATCCCTTCCGGTCGGGAAGATGCAGATAAAAAAAAAGGCCAATAGCCTG
CTTCTACGGCATAAGCTTTAAAGAAGAAGAGAGCTATCATTTCATAAGAAAAATTTGTTGTTTAA
ATCTCAAAGGTATAGGTTAAATTTGGAACAGTAGTCATTTCAATCTTTTTTTTCGAAAGAAAAAT
CCGTCAATAAATGACGAACTCCATTATACAGATGATAGGACAGGGCTAAGGCAGTAATCTCGACG
GCGATTAGGATGAGCTTTGATGAATAAAAGAAGAATAGGTAGAAATTTTCATAGGTGAAGCAAAT
CAAACCTATTTTAAGACAAAGAAGATAAAAAAACAAAACTATAGTGACTAGGGAAGCTCCGGAAA
TTCTATGGGAAATTGGAAACGTCGAAGTGAGCTGTGGCTTATAAATAGGAAGATGAGGAGATAAC
GGGCGAAGGATATGCAATTTCTTATTATTAGAATTTACTTGTGAT
Right flanking sequence: Indices 372102 -- 372601
ATTTATCCGCTCCTCCCAAAAAAAGAGAAAGACTTTTCATTTAAATACGGGTTGTTGGCTTTTTT
CCAACAAAGACATGGGACACGTATATTGTTTCTATGACTATAATACGATATTTTCATTGATCGTA
GCTCAATTGTGACAACAGCCGATAAGCAAGCACGCTTTGCTTCCTTAGCTCGCCCTTCTATTTCA
TAGCCTCTTCTTCTTTGTTTCGCATCTGCTCTGAGGGTACATTGGCCTTGGCTCTCCCTTCAGAA
GGGTTACATAAGAAAAAGACTATTATACTTAGTCTATTGACTCGGGTACTTTGGGCTTTTTCCTC
GCCCTTGTGGCCTATATAAGCTCTGGTTGTTCCAGGTTCTCGGCACTATTTGTCCGTCCATCTGG
GCGATCTTGTAAGCTCCGTTCCCTCGATTTTCACTATGAACGTTCCCAGTTCGCCGCAAACTCCC
CCTCTTTTTCTTCATCTCGACCTTCCCCCCCTCTATCGCTGCCTA
Found at i:424434 original size:24 final size:24
Alignment explanation
Indices: 424407--424455 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
424397 TGAACTACTA
424407 ACATTAGGGGTACTGGACTATCGG
1 ACATTAGGGGTACTGGACTATCGG
424431 ACATTAGGGGTACTGGACTATCGG
1 ACATTAGGGGTACTGGACTATCGG
424455 A
1 A
424456 AAGGTTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (24 bp):
ACATTAGGGGTACTGGACTATCGG
Left flanking sequence: Indices 423907 -- 424406
AGGATTCCGTTCACGAGGGGTGAGTTTACCGAAAGGAAGGAAGAGTCATAGGATGTGTAGTAGTA
GCATAAGAAAGCATGCCCAATCGCTATGGCGAGCTGGAATGAACGAACGGAATACTTGGAGTGAG
AACTAGAGTAGCTGTATAAGAGACGGGTCGGTGGGCAAGTGAGTACCTGCCCAGACATGTATCAA
AAACCAATTACAATCACGCCACCGGATGACCTAAAGATTGCGTGGTTACGCCTTAGGAACCGGAG
AGGCATATGAATCTCTTTCCTTCTTCTTTATAACCGAGAGATAGGATACCTATGAATGAAGGGTC
CAACCTTAGCGGCCCTTAGCGCCCTCTCCTTTCAGTCGAGTTACTACGTTCCTGCATCTCTCTAT
CCCGGTTCAATAGAGTAATTGGTATTCCCATCTCCCGGTTCATGTTACCTATTCTCTGATCCGGA
TTCGTGTACTTCTTGCTTGTCTTTCTCTTTCAACTTGAACTACTA
Right flanking sequence: Indices 424456 -- 424955
AAGGTTAAAAGCTCTGATAACCTCTCCTTTCCTTTACAGTTGAGTTAGTTCAGTTCTTTCCTCAC
CTTTACTGTCTTGTTAGTTCCTTTACCCTTAAACAAAGACTTAGTTAGAGTAATGTCATCCTTTA
CTAGCGATTAAAAAGAAAGTAATTAAAGGCGTGGAACTTGCATCTCTACTATAGCTGTAAAAGGG
ATTCATGTCTTCCGGAAGTATTGGATCAAGGTAAGCTTTAGAGCTTTCAATGACTTCTAGATCAA
GGTAAGCTTTAGAGCTTTCAATGACTTCTATGTAGCCAATAGTGCCTCTTCAAGCTGTTGAATAT
AGATAGGAGATCCACTTCAAGTAATACGCTTTCCTTCTAATGCCAGTCAATCCATGGTAGAGCAA
AGGATTCAAGATATGCCAGTCGGTAGAGCAAAGGATTCAAGATATCCCATTCGGATAGTCTAGTT
CAAGTCTTTCTATTGGATCGGATAGTCTAGTTCAAGTCTTTCTAT
Found at i:424721 original size:36 final size:36
Alignment explanation
Indices: 424674--424745 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
424664 GGAAGTATTG
424674 GATCAAGGTAAGCTTTAGAGCTTTCAATGACTTCTA
1 GATCAAGGTAAGCTTTAGAGCTTTCAATGACTTCTA
424710 GATCAAGGTAAGCTTTAGAGCTTTCAATGACTTCTA
1 GATCAAGGTAAGCTTTAGAGCTTTCAATGACTTCTA
424746 TGTAGCCAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (36 bp):
GATCAAGGTAAGCTTTAGAGCTTTCAATGACTTCTA
Left flanking sequence: Indices 424174 -- 424673
TGAATCTCTTTCCTTCTTCTTTATAACCGAGAGATAGGATACCTATGAATGAAGGGTCCAACCTT
AGCGGCCCTTAGCGCCCTCTCCTTTCAGTCGAGTTACTACGTTCCTGCATCTCTCTATCCCGGTT
CAATAGAGTAATTGGTATTCCCATCTCCCGGTTCATGTTACCTATTCTCTGATCCGGATTCGTGT
ACTTCTTGCTTGTCTTTCTCTTTCAACTTGAACTACTAACATTAGGGGTACTGGACTATCGGACA
TTAGGGGTACTGGACTATCGGAAAGGTTAAAAGCTCTGATAACCTCTCCTTTCCTTTACAGTTGA
GTTAGTTCAGTTCTTTCCTCACCTTTACTGTCTTGTTAGTTCCTTTACCCTTAAACAAAGACTTA
GTTAGAGTAATGTCATCCTTTACTAGCGATTAAAAAGAAAGTAATTAAAGGCGTGGAACTTGCAT
CTCTACTATAGCTGTAAAAGGGATTCATGTCTTCCGGAAGTATTG
Right flanking sequence: Indices 424746 -- 425245
TGTAGCCAATAGTGCCTCTTCAAGCTGTTGAATATAGATAGGAGATCCACTTCAAGTAATACGCT
TTCCTTCTAATGCCAGTCAATCCATGGTAGAGCAAAGGATTCAAGATATGCCAGTCGGTAGAGCA
AAGGATTCAAGATATCCCATTCGGATAGTCTAGTTCAAGTCTTTCTATTGGATCGGATAGTCTAG
TTCAAGTCTTTCTATTGGATTTTTTGATGTATATCTAAGGGGGATTGGGACTCTAAAAAGATATG
AGACCTCGTAATGAGCTAATTGTAATGAGCTAATCCCGTATAACCTCCTAAAAAGAAAGAAGTAT
GAGACTTTAGCATAGAACCAGTACACCTACACTCATAAATCCTGTCTATTTCTTTTTTTAAATAA
TAGAAAGAAACTTCACGGATTGACTGAAGGCAAGGAAGGATAAATCGGCAATCTAGACACTCTAG
TGGAAGTGGACTTCTATATATATAAAAGGATAACCATGTTCCTTA
Found at i:424874 original size:31 final size:31
Alignment explanation
Indices: 424836--424899 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
424826 GTCAATCCAT
*
424836 GGTAGAGCAAAGGATTCAAGATATGCCAGTC
1 GGTAGAGCAAAGGATTCAAGATATCCCAGTC
*
424867 GGTAGAGCAAAGGATTCAAGATATCCCATTC
1 GGTAGAGCAAAGGATTCAAGATATCCCAGTC
424898 GG
1 GG
424900 ATAGTCTAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.20
Consensus pattern (31 bp):
GGTAGAGCAAAGGATTCAAGATATCCCAGTC
Left flanking sequence: Indices 424336 -- 424835
TCATGTTACCTATTCTCTGATCCGGATTCGTGTACTTCTTGCTTGTCTTTCTCTTTCAACTTGAA
CTACTAACATTAGGGGTACTGGACTATCGGACATTAGGGGTACTGGACTATCGGAAAGGTTAAAA
GCTCTGATAACCTCTCCTTTCCTTTACAGTTGAGTTAGTTCAGTTCTTTCCTCACCTTTACTGTC
TTGTTAGTTCCTTTACCCTTAAACAAAGACTTAGTTAGAGTAATGTCATCCTTTACTAGCGATTA
AAAAGAAAGTAATTAAAGGCGTGGAACTTGCATCTCTACTATAGCTGTAAAAGGGATTCATGTCT
TCCGGAAGTATTGGATCAAGGTAAGCTTTAGAGCTTTCAATGACTTCTAGATCAAGGTAAGCTTT
AGAGCTTTCAATGACTTCTATGTAGCCAATAGTGCCTCTTCAAGCTGTTGAATATAGATAGGAGA
TCCACTTCAAGTAATACGCTTTCCTTCTAATGCCAGTCAATCCAT
Right flanking sequence: Indices 424900 -- 425399
ATAGTCTAGTTCAAGTCTTTCTATTGGATCGGATAGTCTAGTTCAAGTCTTTCTATTGGATTTTT
TGATGTATATCTAAGGGGGATTGGGACTCTAAAAAGATATGAGACCTCGTAATGAGCTAATTGTA
ATGAGCTAATCCCGTATAACCTCCTAAAAAGAAAGAAGTATGAGACTTTAGCATAGAACCAGTAC
ACCTACACTCATAAATCCTGTCTATTTCTTTTTTTAAATAATAGAAAGAAACTTCACGGATTGAC
TGAAGGCAAGGAAGGATAAATCGGCAATCTAGACACTCTAGTGGAAGTGGACTTCTATATATATA
AAAGGATAACCATGTTCCTTAGTAACTCAAAAAGAGAAGATCCATTCAAGGGCTTTATTCAATAG
TCCTACCTAAAGAAAGGCAGACGTAAGCGGGCTTGGCTTCTTGGATTTATTTGACTCTCCTTTGC
TTTCCTTACGACGAGCACATCTACTTTTTATTATGAAGGTTGTGA
Found at i:424933 original size:32 final size:32
Alignment explanation
Indices: 424896--424960 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
424886 GATATCCCAT
424896 TCGGATAGTCTAGTTCAAGTCTTTCTATTGGA
1 TCGGATAGTCTAGTTCAAGTCTTTCTATTGGA
424928 TCGGATAGTCTAGTTCAAGTCTTTCTATTGGA
1 TCGGATAGTCTAGTTCAAGTCTTTCTATTGGA
424960 T
1 T
424961 TTTTTGATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.42
Consensus pattern (32 bp):
TCGGATAGTCTAGTTCAAGTCTTTCTATTGGA
Left flanking sequence: Indices 424396 -- 424895
TTGAACTACTAACATTAGGGGTACTGGACTATCGGACATTAGGGGTACTGGACTATCGGAAAGGT
TAAAAGCTCTGATAACCTCTCCTTTCCTTTACAGTTGAGTTAGTTCAGTTCTTTCCTCACCTTTA
CTGTCTTGTTAGTTCCTTTACCCTTAAACAAAGACTTAGTTAGAGTAATGTCATCCTTTACTAGC
GATTAAAAAGAAAGTAATTAAAGGCGTGGAACTTGCATCTCTACTATAGCTGTAAAAGGGATTCA
TGTCTTCCGGAAGTATTGGATCAAGGTAAGCTTTAGAGCTTTCAATGACTTCTAGATCAAGGTAA
GCTTTAGAGCTTTCAATGACTTCTATGTAGCCAATAGTGCCTCTTCAAGCTGTTGAATATAGATA
GGAGATCCACTTCAAGTAATACGCTTTCCTTCTAATGCCAGTCAATCCATGGTAGAGCAAAGGAT
TCAAGATATGCCAGTCGGTAGAGCAAAGGATTCAAGATATCCCAT
Right flanking sequence: Indices 424961 -- 425460
TTTTTGATGTATATCTAAGGGGGATTGGGACTCTAAAAAGATATGAGACCTCGTAATGAGCTAAT
TGTAATGAGCTAATCCCGTATAACCTCCTAAAAAGAAAGAAGTATGAGACTTTAGCATAGAACCA
GTACACCTACACTCATAAATCCTGTCTATTTCTTTTTTTAAATAATAGAAAGAAACTTCACGGAT
TGACTGAAGGCAAGGAAGGATAAATCGGCAATCTAGACACTCTAGTGGAAGTGGACTTCTATATA
TATAAAAGGATAACCATGTTCCTTAGTAACTCAAAAAGAGAAGATCCATTCAAGGGCTTTATTCA
ATAGTCCTACCTAAAGAAAGGCAGACGTAAGCGGGCTTGGCTTCTTGGATTTATTTGACTCTCCT
TTGCTTTCCTTACGACGAGCACATCTACTTTTTATTATGAAGGTTGTGAGCTCATTCGATCTCGC
CTGAAGAAGAGCAAAAAGAAGAAGCAGGAGGAGAATTCTTTGCGC
Found at i:425032 original size:14 final size:14
Alignment explanation
Indices: 425013--425039 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
425003 ATGAGACCTC
425013 GTAATGAGCTAATT
1 GTAATGAGCTAATT
425027 GTAATGAGCTAAT
1 GTAATGAGCTAAT
425040 CCCGTATAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.33
Consensus pattern (14 bp):
GTAATGAGCTAATT
Left flanking sequence: Indices 424513 -- 425012
TTCCTCACCTTTACTGTCTTGTTAGTTCCTTTACCCTTAAACAAAGACTTAGTTAGAGTAATGTC
ATCCTTTACTAGCGATTAAAAAGAAAGTAATTAAAGGCGTGGAACTTGCATCTCTACTATAGCTG
TAAAAGGGATTCATGTCTTCCGGAAGTATTGGATCAAGGTAAGCTTTAGAGCTTTCAATGACTTC
TAGATCAAGGTAAGCTTTAGAGCTTTCAATGACTTCTATGTAGCCAATAGTGCCTCTTCAAGCTG
TTGAATATAGATAGGAGATCCACTTCAAGTAATACGCTTTCCTTCTAATGCCAGTCAATCCATGG
TAGAGCAAAGGATTCAAGATATGCCAGTCGGTAGAGCAAAGGATTCAAGATATCCCATTCGGATA
GTCTAGTTCAAGTCTTTCTATTGGATCGGATAGTCTAGTTCAAGTCTTTCTATTGGATTTTTTGA
TGTATATCTAAGGGGGATTGGGACTCTAAAAAGATATGAGACCTC
Right flanking sequence: Indices 425040 -- 425539
CCCGTATAACCTCCTAAAAAGAAAGAAGTATGAGACTTTAGCATAGAACCAGTACACCTACACTC
ATAAATCCTGTCTATTTCTTTTTTTAAATAATAGAAAGAAACTTCACGGATTGACTGAAGGCAAG
GAAGGATAAATCGGCAATCTAGACACTCTAGTGGAAGTGGACTTCTATATATATAAAAGGATAAC
CATGTTCCTTAGTAACTCAAAAAGAGAAGATCCATTCAAGGGCTTTATTCAATAGTCCTACCTAA
AGAAAGGCAGACGTAAGCGGGCTTGGCTTCTTGGATTTATTTGACTCTCCTTTGCTTTCCTTACG
ACGAGCACATCTACTTTTTATTATGAAGGTTGTGAGCTCATTCGATCTCGCCTGAAGAAGAGCAA
AAAGAAGAAGCAGGAGGAGAATTCTTTGCGCTTGAGCCCTTGACAAAAGATCTTAACCTTTGAGA
GCTGCACTGGGGCCCCACCTCTGAAGGCGCACCATCTTTGGTACC
Found at i:426446 original size:22 final size:22
Alignment explanation
Indices: 426421--426470 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
426411 CAATGTGAGA
426421 AAAAGTATCATTGATATATGAT
1 AAAAGTATCATTGATATATGAT
426443 AAAAGTATCATTGATATATGAT
1 AAAAGTATCATTGATATATGAT
426465 AAAAGT
1 AAAAGT
426471 GAAGTAAACG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.48, C:0.04, G:0.14, T:0.34
Consensus pattern (22 bp):
AAAAGTATCATTGATATATGAT
Left flanking sequence: Indices 425921 -- 426420
TCTATGAAAGCCCTTGATCCAAGAAGGTAGTGGGCATGTTCACTCGGTCGAGAGAGACCAGAGGA
GTCTAGAGAGTCCGAGGCCTCGGTCTTATCCCTCTTTCTTACATTCTTGAACCTCCAATCCAATC
AATCAACTTGTCTACTTGCTTATCGGCATTATCTAAAAGAATTACGTTATGGTCTTGAACTCTCG
ATATATCATATGTAATGAATGCTCGAGGTAAGCTTGTCTTTTCGGAAGAGGTGGGTGGGAGTGGG
GCAGGCAAAGAAAGTAACAATCATACCCGATATTCAGAGCGCCGGAGATAGAAGCGGCGGCAGCC
ATAAAGTCAAGTGGAGAATTTCCATCCATTTGCTGTCTCCTTCGCTACCGGGGTCATAATTACGA
AATTTGCCAGGTTCAGTTCTGACTATAGCTGCAACCTATCTCATATTGGTGTTCAGTCTACCGCA
CCGTGGGTACAAGATCAAAATCATGCAAAGCATTCCAATGTGAGA
Right flanking sequence: Indices 426471 -- 426495
GAAGTAAACGGACCGGTCAAAGGGA
Done.