Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_017855
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: 281132
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Found at i:3297 original size:18 final size:18
Alignment explanation
Indices: 3267--3304 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
3257 TGATTTTTAT
3267 ATTAAAAAAAAGAAA-AA
1 ATTAAAAAAAAGAAAGAA
*
3284 ATTACAAAAGAAGAAAGAA
1 ATTA-AAAAAAAGAAAGAA
3303 AT
1 AT
3305 GGCAAGATCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 10 0.56
19 4 0.22
ACGTcount: A:0.74, C:0.03, G:0.11, T:0.13
Consensus pattern (18 bp):
ATTAAAAAAAAGAAAGAA
Left flanking sequence: Indices 2767 -- 3266
CAATTCCTCCCAGTATGGAATGAGTAAAGAATCAAGCTACAAGTCTCGATCTATACGAAACGCAC
TTGTTTTTTTGATTTCGGTTTCATTGATAGCAGAATATCCTGACTCTATAGGGGCGCTAGCGCTT
GACTAATAGAATCTCAAAGGGGCCTGAATGAAACTTAACTTAATAGGCTGCTACTCTAGGCTCGC
TTCTTCAAGCTCCGCCCCTTATTGAAAACGGCCTAGCTAACGAGCAATCTTTCTAAAGTGCTAAC
GCGTCTTATATTAGAATCTTAGTAAAGCAACCTTTCGCGCTAGGCGCTCACGTTTTTTGTCTGGG
TGGAAGCAGGCGGCAGGGCTTGCTTAACCGGATACACGGAATTGGGATCTCTGTCGCATGCAAAT
CTTTCTATCGGGAAAGCCTCGCTTATTCACTTATTCAAAGGGCTAATTCTTTATGACCCTTTTTG
CTCATAAGTAAGCATTGGTAGGAGCGGCGGGATGATGATTTTTAT
Right flanking sequence: Indices 3305 -- 3804
GGCAAGATCCGTTGAGATCGATTCAAATTGGGCATACAGAATCTTTTTCATTTTATGAGACTATA
TGCATGCAAGATGTATTGGGGGTACAAAAAGAATCCTTTTCTTTACAGTCGTATCTACTGTGATA
AGAAAGCGCTCTTAGTTCAGTTCGGTAGAGCGCGGGTCTCCAAAACCTGATGTCGTAGGTTCAAA
TCCTACAGAGCGTGATTCCGTTCTTGTTAGGTCTAATTACAATGAAAGAACTTCACTAACTTGAA
CAGCAACCTTCATTTTACCTCCTGCGGATTCAAGAAAGGAGGAAGTCAATAAAAAAAAAGAGATG
TTAATTAATCAAAGGTCCAACCGATCGCCGCGTCTGTATTGTAAATATGCAGTTACGAATAATCA
AAAAAGTAATAGGAATTAGACCTAACACGATTCCAAATAAAATATAAAAACTTCAATCATTTAAA
TTAGTTTGAAAGGAGAAAAAAGAAAACTACGACTAGTCAGGAATT
Found at i:24582 original size:42 final size:42
Alignment explanation
Indices: 24523--24617 Score: 174
Period size: 42 Copynumber: 2.3 Consensus size: 42
24513 ACTACCTACA
24523 TATCATATC-ATCTTATTCAGAAGAATCAGACCCTTGTAGTTC
1 TATCA-ATCTATCTTATTCAGAAGAATCAGACCCTTGTAGTTC
24565 TATCAATCTATCTTATTCAGAAGAATCAGACCCTTGTAGTTC
1 TATCAATCTATCTTATTCAGAAGAATCAGACCCTTGTAGTTC
24607 TATCAATCTAT
1 TATCAATCTAT
24618 AAGCTTACAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
41 3 0.06
42 49 0.94
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.37
Consensus pattern (42 bp):
TATCAATCTATCTTATTCAGAAGAATCAGACCCTTGTAGTTC
Left flanking sequence: Indices 24023 -- 24522
TTCGTCGTTTTCTTGCCGGAGTTCGCTAGCCGTTCAATCCGATCTTCCGGCAGAAGAGCGCGGCT
CGAGACTACTCTTTCAATTCAATCAAAATGAAAGGCAAGCAGGAATTTCACCCACTAATAGGCCA
GCTGCATAATCACGTATGTAAGCAAGTAATCCCCCTCTTTCGCAGGAAGCATTACTTATTTCTTC
AGAGTTGAAGAAAAGGCTACCGATTTCCCACTGACTATTATGCTATTATGTAAGGGCTTGCCCCT
TGGATGATAAATTCATGGCTAAGTTAGTCCGTAGTAGGAAGCTTTCAATTCAAGTACTTTTTTTC
TATACTAAAGGCCAAGGGGAAGTTGAGGCTGGATGGACACCGGTCTAGACCACACCTACATGGAC
TTTAAATTGACTTCTGATCGTGACTTTTGTTTACTTTACCCGGTTCCTAACGCTGCCCATGAGTA
CTTCTGGGGGGGTCGCATCCGGCTATAAACACCGAACTACCTACA
Right flanking sequence: Indices 24618 -- 25117
AAGCTTACAATATTCGATATAGACTCTATTTTAAATTTGGAATACAGATAAGATCAGAAAAGCCA
TCATTAGAGCAAACAATGCAATAGCCTCTGTCAGCGCAAAGCCTAAAATGGCATAACCAAATAAT
TGTTTTGCCAATGATGGATTGCGTGCTACAGAATGAATCAAAGAACTGAAAACGTTTCCAATTCC
AATAGCAGCTCCCGCCAAAGCAATTGTAGCAGCTCCGGCACCTATTGATTTTGCACCTTCTAACA
TAATGTATGTATCTAATAATAAAATTCTTTGTCTAATTAGAGAATTCTCGTCACGCTTTTTTCTT
TTATTTGTTTTAGAGTCACAATTTGATAGACTCTTCCCCTCCTCTCGTCATAAAGCTATCTTTCA
CTCACTTAACACTAACTTAATCCTTTTTCTTTCTTTTTTGTCGAATCTTAACCATGAAAGTCAGT
CAATGTTGGCTTCATTTCTTCACCGGGCTTGGACCATGTCTCCCG
Found at i:43262 original size:71 final size:71
Alignment explanation
Indices: 43174--43335 Score: 324
Period size: 71 Copynumber: 2.3 Consensus size: 71
43164 TGAAAAACAA
43174 GAATGTTTTCGTTTCATATATATGGAAAAGCTAGCAATGCCATTTCCCTACCGATAAGCTATAAC
1 GAATGTTTTCGTTTCATATATATGGAAAAGCTAGCAATGCCATTTCCCTACCGATAAGCTATAAC
43239 TTGAAC
66 TTGAAC
43245 GAATGTTTTCGTTTCATATATATGGAAAAGCTAGCAATGCCATTTCCCTACCGATAAGCTATAAC
1 GAATGTTTTCGTTTCATATATATGGAAAAGCTAGCAATGCCATTTCCCTACCGATAAGCTATAAC
43310 TTGAAC
66 TTGAAC
43316 GAATGTTTTCGTTTCATATA
1 GAATGTTTTCGTTTCATATA
43336 GCTGCAAAAC
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (71 bp):
GAATGTTTTCGTTTCATATATATGGAAAAGCTAGCAATGCCATTTCCCTACCGATAAGCTATAAC
TTGAAC
Left flanking sequence: Indices 42674 -- 43173
GACAATTAAGATTCATAAGAGGAAGAACTGGCTTTTCAGCTGAAAGGAGGTGGAAGCTCTACTAA
GACGGATTGGAATGGACCCCAATCTCCTGACATATATCATTCGTATACTCTTAGCAACTAAGCAA
GTCAACTACCAGACAACTCAGCCTGGGTCTGGAAGTATGCTAATTTCGTATAAGAAAGAGAACTA
GAGCTCAGGGTAATGGCTAGTTTAGAGTCCTGTTCTATGGCAAGAGAGTCTACCTCGGGTGAGGG
GGCAAAGCCACTCGACTGTAAGGAGAGGGATACGATCGATAGGGAGCAGTCCTACAGACTTGTAT
TCTTTATTAGCAGTTTCTGCTTTAGATGCATTATTAGTTCAAGATGCTATAGTCTCGCAATAAAG
CTAGTTAGGATACGAACGATATATGCGCTAAGCAAGAAGGAAAGCTGTTAGAGCTCTATAGCAGT
AAAACCTACCAATGGGTTTACCCTAGGGATAAGCTTGAAAAACAA
Right flanking sequence: Indices 43336 -- 43835
GCTGCAAAACCTACCCTTTTGCTTCAACTTGCAACTATATAGAAACTATGCAATGCAATACTTGC
TACTATAAAGCAGAATGAAAATGATTTTAATCTCCAGGCAGCTTCAACTAGAAAAGCAGCATAAA
CCGAAACAGAAGAGGGATACCTTTTGAAAACGGCATTCTCCCTTGACTCTAGAAACATACAAAAA
CATTTCAAATGAAAAACTCTCCAAGAGCTGCGGAACTAACGACTCTATTAGAAAGTAGAATTAGC
CACTTTTACACGAATTTTCAAGTGGATGAGATCGGTCGAGTGGTCTCAGTTGGAGATGGGATTGC
ACGTGTTTATGGATTGAACGAGATTCAAGCTGGTGAAATGGTTGAATTTGCCAGCGGCGTCAAAG
GAATAGCCTTGAATCTTGAGAATGAAAATGTCGGGATTGTTGTCTTTGGTAGTGATACTGCTATT
AAAGAAGGAGATCTTGTCAAGCGCACTGGATCTATTGTGGATGTT
Found at i:65247 original size:36 final size:37
Alignment explanation
Indices: 65187--65259 Score: 121
Period size: 36 Copynumber: 1.9 Consensus size: 37
65177 TTGCTAGAGC
65187 AGCTATCATTGTCACCAGAGCTAGTTGAAGAATGGTTAG
1 AGCTATCATTG--ACCAGAGCTAGTTGAAGAATGGTTAG
65226 AGCTATCATTG-CCAGAGCTAGTTGAAGAATGGTT
1 AGCTATCATTGACCAGAGCTAGTTGAAGAATGGTT
65260 CTCAGAAGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
36 23 0.68
39 11 0.32
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (37 bp):
AGCTATCATTGACCAGAGCTAGTTGAAGAATGGTTAG
Left flanking sequence: Indices 64687 -- 65186
CTGAATCAAACGGCGTATCTAATTCTTTCTTCTTCTTTTCTTTCAGAACCTCCGGCAAGTAATAA
AGTGTTATAGAAGCTAGCTAGCAACTCTATATTTATCTACTCTTTCTATAAGACCTACGGTGCAT
AAGAAAGATCGTATATAAGAAACTACCTATGGATCATCTAGGTCTTTGATTCGTTCTTGCACCCG
CTCCCGGGCATCAGAAGTAGTAGAAGAAGTGTTGTTGCCACCAGAGCTCTCATTGCCAGAGCTAG
AGCAGCTATCGTTATCAGAAGTAGTCTTGGTGCCAGAGCTAGAGGTAGGCGAAGAAGTGCTATAA
GGTGCATCATAAGAAGTCTTTGTATCATAGTTGTTGCCATCATAGCTATCAGAAGAAGTGCTATA
AGGTGCATTAGTAGAAGTTGTATCCCGTTCTCTTTGCACACGTTCTGTATCATAGTAGTCCCGCG
CAGAGGTAGAAGTTGTATCTGCTGTATCATAGTTGTTGCTAGAGC
Right flanking sequence: Indices 65260 -- 65759
CTCAGAAGTAGTATTGGGCGAAGAAGTGCTATTCCTGAAAGCGAGTGAGTAGACCTATATACGGT
ATACGAACGATAGAAGACAAAGAAAAGAAAGAAGTGCTAGCTGGTGTCGCCTTCTCTCTTACTTA
TCTATTCCCATCCATCTTCCCTGGAAGGAAGCCTAATGGTATGATTTCAGATCATGCTTGGGGCG
CTTCCGACTGTCTTAGTGCTTTTGAAGTATCCATTGAAATATCTCTTTCAGTGCCCGGTTTCCAC
AAAGCATTGCCCTTCGTAGCTGCATTAGGAGACATTAGATAGACTCCGGTGATACACTAAGAGAG
TCGGCTAGGTAGTACACAATGAGGATTCCCCGCCTGACATCTAGGAAAGCTCCTTTCTGCTGTGC
TTGCCACTACTGCCTAATAGGGTTTTCGAGTAGAATAAGTAGGCTTTTTCGGTTGAAGCTCTCCT
CGAACCATTTCTGATGATTGAGCCTTTCCTGAGTTAGTGAGAAAA
Found at i:75340 original size:12 final size:12
Alignment explanation
Indices: 75323--75362 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
75313 ATCCGCGCTC
75323 GGGAAGATGAAG
1 GGGAAGATGAAG
75335 GGGAAGATGAAG
1 GGGAAGATGAAG
* * *
75347 GGTAGGATGGAG
1 GGGAAGATGAAG
75359 GGGA
1 GGGA
75363 GGTACCGGGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.55, T:0.10
Consensus pattern (12 bp):
GGGAAGATGAAG
Left flanking sequence: Indices 74823 -- 75322
CATCGGGTATGATCACTGCTAGCAATCCAGTTAGTTAGGTCTCTCTTCGCGGGAGTAGGTAGTTT
CTTATATACGATCTTTCTTATGCACCGTAGGTTCTGAAAGATGCTCGACCAGCGGGAAAGGAGTC
TATCTATCTGGCTTTGAATCCATTCTATGGCTAATCTTTAGCGTTCTATCGCGATTATGAGATCG
CATGGGTTTTACCATTACCCTACATTCAAGCCTAAACTACGGATGTCAGCTAAAGAGAGCTACCA
TTGGAACTTCTAAGAGCATCAAGTATCGCTCGCTGTCAGGTAAGGCATAAAAGTGGAACGTCATA
TCCGAGTTTGGGGTACAAAGTGCATTTTTTCCAACAACAAGTCCCGATTGCCCTATCTCTTAAGG
GTAGCATTTGGCTAGAAAGACCGAACTACCTACATATCCTCTTCTGAAGAAGAATCAGACCCTCT
GTAGTTCTATCAATCTATAAGCCGATTTAACAAGAATCCGCGCTC
Right flanking sequence: Indices 75363 -- 75862
GGTACCGGGCAATCAAAGAAAGAAGCCAGCTTAAAAGCACCCTGGTCGAAGCAAAGCGCATGCGA
TGAGGGGAAGAGATGACCAGCAGATTTCAGCACAGGGTAGACAGTGGTATGGAGGTCAGCAGGGA
CAGTGGCGTGGACAGAATCAGAATAGGGGAGGTCAGTCAGCTTATGGTCGAAATCAGTATGGAGG
TCAGAGGCAGAATCAGCAGTTTCAGCAGCAGCAGCCTAGACAGTGGCAGAATCGTCAACAGGGGC
AAGGCCATTATTAAGTGTATGGGGGCAATCCTAATATGATTCCAGTTGCTCCTTTACTACATGTG
GTGGACATCATCCGGGGAAGCCTTGTTATAGACAGACTGGAGCATGTTTCTTGTGTGGTAGTATG
GCACATAGGGCAAAGGATTGTACAGTGTCGCGTAACACTGGTGGTGGAGGAAGTGGCAGTGGAGG
TCAGCAGAATCAACAGAATCCTTCAGGCAGAGTGTTTGCATTGAC
Found at i:79143 original size:22 final size:22
Alignment explanation
Indices: 79117--79182 Score: 132
Period size: 22 Copynumber: 3.0 Consensus size: 22
79107 TGACCGGGCC
79117 CACTTTCTTTTATCGCCTTATT
1 CACTTTCTTTTATCGCCTTATT
79139 CACTTTCTTTTATCGCCTTATT
1 CACTTTCTTTTATCGCCTTATT
79161 CACTTTCTTTTATCGCCTTATT
1 CACTTTCTTTTATCGCCTTATT
79183 GAAGCAAAGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.14, C:0.27, G:0.05, T:0.55
Consensus pattern (22 bp):
CACTTTCTTTTATCGCCTTATT
Left flanking sequence: Indices 78617 -- 79116
TGAGCTCTTTAAAAGAAAAAAGAGAAATGTCCCGGGAATTCAGTCTAAGTCTGAGTCACCTGAGT
CTAATTCGGAGTCTGATAATGAGAGGTGTAGAAAGAGAGCAGAAGACTCTACCATCTCGGGAATC
TTTCTTCAAGATACTTTCTTTCAAGTCAAGACAAGCAAGGAAGGGTAAATCATAGATAGTAATTC
CACTGGCACCTTTCTCGACCGGCCCGCCAGGACTTGGAGCTTTATATATAATTAGATTTTCCTCT
TTCTCGGGAAGCATATAAAAGAAAAGGTCGAGGTTCTGAAAGAAGAGTTGGCGAAGTAAACAATT
CCATCTTCCAACAGTAGCTGCTGGTTCTCGACTCCGCTATGACTCTTATCGAATCCACCCCCTTT
TTCATACCATACAAGGAATTTCGACTGAGAATGACACCTTATTCGCTCTGCTACAACGAACGAAA
TAGCAGACCATTGAGGGCGGCTCAAACCATCCTTTTGACCGGGCC
Right flanking sequence: Indices 79183 -- 79682
GAAGCAAAGTGGTGGAAACAGGTGATGAGTCTGGGAAGTCAGTGCATTTAGAGTTCACTTCTTTT
GGACTTTTATGGAGTCGAGCTACTTTGCGAAAGAACGTCAGAGAGTGAGAGTGAAGCTTTGCCCC
GAGAGGATATCTATACAGTCTTCTTTCTATCCTTCTACCTGACCTGCTCTATAAAGGAATGCTTC
TAGGAGTTGGAGATCAACCAGCTCTGATAGAAGAAATGTAATTTCTTAGTTCTCAACTTAGGAAC
CTGGCACCTAGATATTGACCTAAACCAATCGCACTAACCGCGGGTCTTCTTTCTTTATCAAATGA
TTCGCCTGAACCACATATTAAGATTACATCAAGTAATCCCACGACAAGCATTAGGGTAGGGGACA
TTTTATTTTGTTTTGATTATTCGGTCTCGCCAGCCTTCCTCTTGGCTAAGCTCCGCTTGCTCCAA
ACCATGAGATCCAAGAAGGGGGTGGACAAAGAAGCTTCGTCGGAT
Found at i:96947 original size:71 final size:71
Alignment explanation
Indices: 96859--97020 Score: 324
Period size: 71 Copynumber: 2.3 Consensus size: 71
96849 TGAAAAACAA
96859 GAATGTTTTCGTTTCATATATATGGAAAAGCTAGCAATGCCATTTCCCTACCGATAAGCTATAAC
1 GAATGTTTTCGTTTCATATATATGGAAAAGCTAGCAATGCCATTTCCCTACCGATAAGCTATAAC
96924 TTGAAC
66 TTGAAC
96930 GAATGTTTTCGTTTCATATATATGGAAAAGCTAGCAATGCCATTTCCCTACCGATAAGCTATAAC
1 GAATGTTTTCGTTTCATATATATGGAAAAGCTAGCAATGCCATTTCCCTACCGATAAGCTATAAC
96995 TTGAAC
66 TTGAAC
97001 GAATGTTTTCGTTTCATATA
1 GAATGTTTTCGTTTCATATA
97021 GCTGCAAAAC
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (71 bp):
GAATGTTTTCGTTTCATATATATGGAAAAGCTAGCAATGCCATTTCCCTACCGATAAGCTATAAC
TTGAAC
Left flanking sequence: Indices 96359 -- 96858
GACAATTAAGATTCATAAGAGGAAGAACTGGCTTTTCAGCTGAAAGGAGGTGGAAGCTCTACTAA
GACGGATTGGAATGGACCCCAATCTCCTGACATATATCATTCGTATACTCTTAGCAACTAAGCAA
GTCAACTACCAGACAACTCAGCCTGGGTCTGGAAGTATGCTAATTTCGTATAAGAAAGAGAACTA
GAGCTCAGGGTAATGGCTAGTTTAGAGTCCTGTTCTATGGCAAGAGAGTCTACCTCGGGTGAGGG
GGCAAAGCCACTCGACTGTAAGGAGAGGGATACGATCGATAGGGAGCAGTCCTACAGACTTGTAT
TCTTTATTAGCAGTTTCTGCTTTAGATGCATTATTAGTTCAAGATGCTATAGTCTCGCAATAAAG
CTAGTTAGGATACGAACGATATATGCGCTAAGCAAGAAGGAAAGCTGTTAGAGCTCTATAGCAGT
AAAACCTACCAATGGGTTTACCCTAGGGATAAGCTTGAAAAACAA
Right flanking sequence: Indices 97021 -- 97520
GCTGCAAAACCTACCCTTTTGCTTCAACTTGCAACTATATAGAAACTATGCAATGCAATACTTGC
TACTATAAAGCAGAATGAAAATGATTTTAATCTCCAGGCAGCTTCAACTAGAAAAGCAGCATAAA
CCGAAACAGAAGAGGGATACCTTTTGAAAACGGCATTCTCCCTTGACTCTAGAAACATACAAAAA
CATTTCAAATGAAAAACTCTCCAAGAGCTGCGGAACTAACGACTCTATTAGAAAGTAGAATTAGC
CACTTTTACACGAATTTTCAAGTGGATGAGATCGGTCGAGTGGTCTCAGTTGGAGATGGGATTGC
ACGTGTTTATGGATTGAACGAGATTCAAGCTGGTGAAATGGTTGAATTTGCCAGCGGCGTCAAAG
GAATAGCCTTGAATCTTGAGAATGAAAATGTCGGGATTGTTGTCTTTGGTAGTGATACTGCTATT
AAAGAAGGAGATCTTGTCAAGCGCACTGGATCTATTGTGGATGTT
Found at i:104480 original size:27 final size:27
Alignment explanation
Indices: 104442--104517 Score: 143
Period size: 27 Copynumber: 2.8 Consensus size: 27
104432 ATATCCGATC
104442 AGTTGGTTCCCCGCTGACTGGAAGATG
1 AGTTGGTTCCCCGCTGACTGGAAGATG
104469 AGTTGGTTCCCCGCTGACTGGAAGATG
1 AGTTGGTTCCCCGCTGACTGGAAGATG
*
104496 AGTTGGTTTCCCGCTGACTGGA
1 AGTTGGTTCCCCGCTGACTGGA
104518 CTCACAAATA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.17, C:0.22, G:0.33, T:0.28
Consensus pattern (27 bp):
AGTTGGTTCCCCGCTGACTGGAAGATG
Left flanking sequence: Indices 103942 -- 104441
GAAGAAGAGATGTCGATCCGAAACCAGAAGAAGAGGAGTAATCGGACGGGCCACCACATCCAGCC
ATCGCTGGGAATAGGGAATCGATCGATTCACGTAATGGAGCTGATGAAAGACTATCCCTAGCGAG
TGAGGAATAGATGAAAGAACCGTACCATTTGTTTGCGGAGGGATTTGATCAGCTATCCGGATACC
CTGCTACTCCACTCCGATCTCTCACCCCTTCCCAATCACCTCAATATCTATAATCAACCATCTCC
TCCTCCCCCACCACCGTATCCTTAGCAGTCGAGTAAAGACCTGAACCCGCTGACGGAAGTGATAG
TGATCGATTATCCACAGGTGGGTGAGCGAAGAAAGAGATGAATAAGATGGCTGGCTGCTTTATCC
GGCCGGAAGTAGGTGATTCTAGACCGGCTGGTGACTTCTTCCTTATTCTATATAATAAGCAAGTC
AACTACCATCCCTCTTTGGCTATTCGTTAATACATATATCCGATC
Right flanking sequence: Indices 104518 -- 105017
CTCACAAATAGTTCATTCAGCAGTAGGGGTTCGAATCCTCTATAAATTATTAGTGTGTTTTACGG
CTGTGACCGAACGCGACTCGAGGAACTGGCAAAACGGGTTCGAGGGTCGAATATGAGAGTTTGCT
TTTGTTTTCTGTTTATAAGAGTGGTCTGATCCCTTATTTGATCAAACCGCTCCTGGTGTTAGTCA
TTAATGGTCGGCTTAATTAGTACCCTTTCGGTATGTGTTGCGAACACTTTCATTTTTAGCTTCTC
ATCTTCTCTGTGGCAGGGTTACTAGCAGTAGACTTTTCAACCATTTTTGCTCGTGCTAGTGCCCC
CAGAAATTCTTGGATTTCTCGCAATATGAGATTGAATGCCATAACTCTTATTTGTATTTTACTTC
TTATTGGTGCTGTTGGGAAATCTGCACAGATAGTTATTTATAATTGAACAAAAGCGAGGAGCGAA
GGCCGCACGCAGAGTCTAGCCACTACTAGACGACGAGTCTTATGA
Found at i:113396 original size:18 final size:18
Alignment explanation
Indices: 113373--113408 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
113363 AGAACACCAC
113373 AACAGTAACCACCTTTTT
1 AACAGTAACCACCTTTTT
113391 AACAGTAACCACCTTTTT
1 AACAGTAACCACCTTTTT
113409 GGGGTTAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.28, G:0.06, T:0.33
Consensus pattern (18 bp):
AACAGTAACCACCTTTTT
Left flanking sequence: Indices 112873 -- 113372
CTTCTGGCATCACCGAAAGGATCGAAACCACATTCGTAGGCCGACAGTTTGTCTGGATAGGTCGA
ACTATTGGAAGCAAATAGAAAAGGAACACCGAGTGGGATCAAAGAAACTAGCGGACTGATCACTA
AATAGATACAAATAGGTGCAAATTCTGACATCACCACAGCCCACTTGGTTCTATCGCTCCTTGCT
CGCGGAGCGGCATACCGGAAAAAAGAAGGATTCAATCCAGCCCGTAGGTTATCCCTACAGCTACC
TTGTTGCGAACGAAAGCCAAGCCCCCTTATGGGTCGCGGCGGACTAGGTCGAAGAAGAAGTGCTC
GTTCATGTCGTCACCCCAATTAGAAGAATTACGATGGTACGGAACAATGAAGTTACGTAATCCTT
TATTAAGTATTAAGGGCGTTGACATTGGCGTCCGGCGACTGATAAGAAGACTCCTGCTGAGCAAT
TGTAGCAGCTCTGGCACCCATTGACTGCCGCTGTTAGAACACCAC
Right flanking sequence: Indices 113409 -- 113908
GGGGTTAATGCTTTCAATGGTGAATCGAGGAAAAGATTTCCTTTTACGAGAGTGCCTGAAAGGCA
GAAAAGTAAGAAAGCCTGCGATGGCTACTGAATAACCTCCTTTGATTTTACGACAAATAAGGCCT
TTTACCTTTGTATTCGTTCGCCAAATCTTGTTCAGTTTCATCCAAGCTCGGTTTTTTCTGAATCT
TCGTGGAAGAAGAAGAAGCGGTTCACCAGCCACTAGATCTGTGGATCCCACCAATTTATTAAACC
TGGCGGCTGCTCGCTCTTTGATCAGCGATTCACCGGCCACTAGATCGATGAAGAATCTCTCCAAA
ATATGCTTTTTGATCAGTGATTCACCGGCCACTAGATCCAGGGATCCCACCTTATTCTCAAACCT
GGTGGTTCGGTTGATTGGCACTCCTGTAGGCTCATCTTGCATACAAATTCTGGGGGTCCCAAGTC
CTGCATCCATCAAGAAAATGTCTTCCCTTAAGCGTAAAACTTCAG
Found at i:114595 original size:21 final size:23
Alignment explanation
Indices: 114549--114604 Score: 80
Period size: 21 Copynumber: 2.5 Consensus size: 23
114539 ATAATGGGCC
114549 CTGGGAGCTATCTGCCCCAACAAG
1 CTGGGAGCTATCTGCCCC-ACAAG
114573 CTGGGAGCTATCTG-CCC-CAAG
1 CTGGGAGCTATCTGCCCCACAAG
*
114594 CTGCGAGCTAT
1 CTGGGAGCTAT
114605 AATAGTCATA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
21 14 0.45
23 3 0.10
24 14 0.45
ACGTcount: A:0.21, C:0.32, G:0.27, T:0.20
Consensus pattern (23 bp):
CTGGGAGCTATCTGCCCCACAAG
Left flanking sequence: Indices 114049 -- 114548
CGCTAGCTATAATTGCTATAATACTAATTATAATAATTGAAGACGGTTGACAATATAGGGACTCC
AGCGGGGATGGAACGAAACTACCGAATTGACTTACATACCAATCGTGCTTTGGTACGCTCAGCCC
CATACGGGGGGCATAATCCATATACCACTCATGGTATTCTCTATTAAGTAGAAAGTGCAGCTTTC
CCGTGAGTAAATCCGCAGAAGTCATGTCCAATTCCCGTTGGAGAGACTGGATATATGCCGGCTGG
ATTGTACCATTAAAAAATTCATGCCGCTGCACAACCAAAAACTTATTGAACTTCGATAGCGCTGA
TATCGTATGAGGATCACTTATTTCACCCGGGATCCAAACAGACCCGGAAATGAAATTAGGTGCTC
TATAGACCGAAGATAACATAGAATAAGGAACCGGCACCCCTTGCAGAACAATATTTGTATGTGGA
ACCATGAGTTAGCTTTTCAAATCTCTATATAAAATATAATGGGCC
Right flanking sequence: Indices 114605 -- 115104
AATAGTCATAGCTCCATAAGTATAAAATATAATGGGCGATGCGAGCTATCTGCCCCAACAAGCTG
GGAGCTATCTGCCCCAAGCTGCGAGCTATCTGCCCCTGCCCCAAAGAGTAGGTCGTTCTTGTATA
TGCTCACTAATTCGTATATCCCCAAGGAACTCTTTCCTCTTTTTTCAAAAAGCCGCTCCACAGTG
GTAAAGTTTCATCTTGTGTGTTCGCCGAAGTGACAATAGTCGCGTTGAACCCTCGAATATGTTCG
AAGATCTCGAAATGCTCTCCCAGTTCCGGGGATAATTCGCAAAACTCCGTTTCCATCGAGAATTG
AATGGAGTTTTCCCGTATTTCGACCGGAGAATCTAACAGAGACATTACTGTGGAGATTCTGAACA
AAAAATGAGACATTCCATGCCCTCGGAGAGCGCTTTGTCGTGCTAGGTCTAGGTTACTGACAGAC
CCCTTATTTGAGCCCAAGAATGGATTGGATCGAAACGACTTTCCT
Found at i:114679 original size:24 final size:22
Alignment explanation
Indices: 114644--114705 Score: 90
Period size: 21 Copynumber: 2.8 Consensus size: 22
114634 TAATGGGCGA
114644 TGCGAGCTATCTGCCCCAACAAGC
1 TGCGAGCTATCTGCCCC--CAAGC
*
114668 TGGGAGCTATCTG-CCCCAAGC
1 TGCGAGCTATCTGCCCCCAAGC
114689 TGCGAGCTATCTGCCCC
1 TGCGAGCTATCTGCCCC
114706 TGCCCCAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 17 0.49
22 3 0.09
23 3 0.09
24 12 0.34
ACGTcount: A:0.19, C:0.37, G:0.24, T:0.19
Consensus pattern (22 bp):
TGCGAGCTATCTGCCCCCAAGC
Left flanking sequence: Indices 114144 -- 114643
CTTACATACCAATCGTGCTTTGGTACGCTCAGCCCCATACGGGGGGCATAATCCATATACCACTC
ATGGTATTCTCTATTAAGTAGAAAGTGCAGCTTTCCCGTGAGTAAATCCGCAGAAGTCATGTCCA
ATTCCCGTTGGAGAGACTGGATATATGCCGGCTGGATTGTACCATTAAAAAATTCATGCCGCTGC
ACAACCAAAAACTTATTGAACTTCGATAGCGCTGATATCGTATGAGGATCACTTATTTCACCCGG
GATCCAAACAGACCCGGAAATGAAATTAGGTGCTCTATAGACCGAAGATAACATAGAATAAGGAA
CCGGCACCCCTTGCAGAACAATATTTGTATGTGGAACCATGAGTTAGCTTTTCAAATCTCTATAT
AAAATATAATGGGCCCTGGGAGCTATCTGCCCCAACAAGCTGGGAGCTATCTGCCCCAAGCTGCG
AGCTATAATAGTCATAGCTCCATAAGTATAAAATATAATGGGCGA
Right flanking sequence: Indices 114706 -- 115205
TGCCCCAAAGAGTAGGTCGTTCTTGTATATGCTCACTAATTCGTATATCCCCAAGGAACTCTTTC
CTCTTTTTTCAAAAAGCCGCTCCACAGTGGTAAAGTTTCATCTTGTGTGTTCGCCGAAGTGACAA
TAGTCGCGTTGAACCCTCGAATATGTTCGAAGATCTCGAAATGCTCTCCCAGTTCCGGGGATAAT
TCGCAAAACTCCGTTTCCATCGAGAATTGAATGGAGTTTTCCCGTATTTCGACCGGAGAATCTAA
CAGAGACATTACTGTGGAGATTCTGAACAAAAAATGAGACATTCCATGCCCTCGGAGAGCGCTTT
GTCGTGCTAGGTCTAGGTTACTGACAGACCCCTTATTTGAGCCCAAGAATGGATTGGATCGAAAC
GACTTTCCTGTCGAAGCCCTTATTTTCTGTATTAATTTTTGACCGCACGGAATCTCCATAGCAAA
TTTTCCATTTTTTATTATGAAATCTGAAGGTGCCGCCTTTGGTAC
Found at i:162238 original size:36 final size:36
Alignment explanation
Indices: 162198--162289 Score: 132
Period size: 36 Copynumber: 2.6 Consensus size: 36
162188 AGTAGAAGAA
162198 TCATAAGAAGT-GCTATCATAGTAGCTGCCATTGCTC
1 TCATAAGAA-TAGCTATCATAGTAGCTGCCATTGCTC
**
162234 TCATAATCATAGCTATCATAGTAGCTGCCATTGCTC
1 TCATAAGAATAGCTATCATAGTAGCTGCCATTGCTC
**
162270 TCATAATCATAGCTATCATA
1 TCATAAGAATAGCTATCATA
162290 AGAAGGCACG
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
35 1 0.02
36 52 0.98
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (36 bp):
TCATAAGAATAGCTATCATAGTAGCTGCCATTGCTC
Left flanking sequence: Indices 161698 -- 162197
AACAAAAAATTAAGAGCTAACGCCTGGCGGGCTTCTCTGGCTTTCTCTTTGTCTGCTTCTTAATT
GACTCTTATGAGCGAGTTTCCAGTCGATAGTGGACCATACTAATGCATATGCGGGATTACCGGAA
TAGCAACTACCACAGGTAGCATGTCTATCATAGTCCTAATCTTGCGATAGAGTCTAAGCAGGTTG
GGTTTTGCCGGAGCTAGAAGAATTCCTCCAACCCTCTAGCTCTTTCAGCTTTTCTAGTGTTATAA
CGTGGCTAAGGTGTCACTACTTTGATCTTCTTGGGTGTCTACTACGGGTCATCTAGGTCTTTGTT
GCGCTTAAAGATATCTTCAAGATGCTCGACTGTTGAAGGTGCGGGTTCTTCAAGATGGTAGCCCA
GTGCTTTCTCTGTTTGTTCTTGCGTATAATCAGTCTTATCTTCTCTTTCTCTTCTAGAATCATTT
GTATCCCGCTCTCGCGCACTTCTATCAATGGTATTAGTAGAAGAA
Right flanking sequence: Indices 162290 -- 162789
AGAAGGCACGAATTCAGCTTGAAAAGATCTTATATATCCACTTTCTGGTGGGGGTACAGCCAATT
CAAGATCTTTCTATGGTTGCGGATCGAGATTGGCTTATGTTCCAATTCTATGTTAAAAATACCTT
CCTGAACGGGGACCTACAGTAATAAGTTTACATGAGTCCTCCCCCCGGTTGTGTAAGAGGGAGGA
GAACAAGGTTTGCAGACTTTAAAAGCCATCTATGGGCTCAAGCAGTCTCCCCAGTAAGCTTCTAA
GAATGCTTTGGTTACAGCAGAGTCACTCTGGGGTCTCAGAAAAGAAAGGAGAAACTCTGCCTCGG
TGGGAAGTCTCGGGAGAAAGTAAGCAAGACTTTAGATGCGGACATAGCTCATGGCGAAAGGAAAG
GCCTTGAATCACTCCTTTGCAGTTCCTACCGAGTGAGTGGTATCGTGTCGAAGGCGAGGTAACTT
CTTTCTTATAAGACCTACGGTAAGAAAGAGAATAAGTAAAGGATG
Found at i:165779 original size:6 final size:6
Alignment explanation
Indices: 165768--165795 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
165758 AATGGCGCCC
165768 TCTACT TCTACT TCTACT TCTACT TCTA
1 TCTACT TCTACT TCTACT TCTACT TCTA
165796 ACTAAAGGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.32, G:0.00, T:0.50
Consensus pattern (6 bp):
TCTACT
Left flanking sequence: Indices 165268 -- 165767
TCCGGCATTTGAATAAATCTTCTATTACTTACTGCCTTTTAGGGCTTTTTGCAAAGAATGGTTAG
GACAGAGCATAGCCCCTTTGAAGGAGGACTCTATAGAGGAGTCGAGTTCAAGGCATCAATAGTCG
TCCTTTCCTTCACCCAATCTCATGAGAAGCAAGCCCAGCAGGCCCTGCCTTAACCTGTCCCCAGA
CAGCCAGCCCTCACCAGGCTGCTGGCATTGCTAAATGCTCCGATACGAAGCAAGCTCTCCCGAAT
ACGACAGATGCGGAAGTGGGGAAGCCGGAAGTTACTAAATAAGTCGGAGGAAGAAAGTAGTTGGA
CAACTGTATACACGAGGGTACATTAGTATTCTGGGAATTGGCAACATTGACAGAAAGGAGAGGGG
GTAGGAAAACCTTTTATAGGTGTAGCTATACTAAAGTAGTCGGCCGTTCCCGTAACCAAGTTTTT
ATTTCTCACTTCTACTTTTTATGAAGTGTGGGGCAAATGGCGCCC
Right flanking sequence: Indices 165796 -- 166295
ACTAAAGGCGAAGAACCGGCATTGCAAGCAAATAGAGAGCCCCCGCCCGTTTGAGCCATTGCGAG
CCGGAAAGCGTACCGGCAGTTTGAGTCGCGAAAGGGCTAATAGAACTTAATTATATTATATTTTT
ATCATTTTAATAATAATAATCTAGAATTTAATAATAATATTATATAAACAATAATCCAAAAATTC
CTTTTTTTATCCAATTGTTCATTCCTGGGAAGAGGAAGAAGCAGATAGAGCAAAGGCCTCCTCTT
TCCGCCCGCTCTTCCCGAAGTGAGCGAATTGCATGTAGAGATCCGTAGGGGCTTATAGTTTAATT
GGTTGAAACGTACCGCTCATAACGGTTATATTGTAGGTTCGAGCCCTACTAAGCCTACCACCCTC
TTCTCTTCACCTGATACAAGGCAGTCGAAGTCCCCGCCGCCCTGCAGATCTCAATCTAGCGACGG
GCACCTGGAACCACACTGCTGCCGCTGCCCTTCGGGCACGCCTCC
Found at i:208940 original size:18 final size:18
Alignment explanation
Indices: 208917--208952 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
208907 AGAACACCAC
208917 AACAGTAACCACCTTTTT
1 AACAGTAACCACCTTTTT
208935 AACAGTAACCACCTTTTT
1 AACAGTAACCACCTTTTT
208953 GGGGTTAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.28, G:0.06, T:0.33
Consensus pattern (18 bp):
AACAGTAACCACCTTTTT
Left flanking sequence: Indices 208417 -- 208916
CTTCTGGCATCACCGAAAGGATCGAAACCACATTCGTAGGCCGACAGTTTGTCTGGATAGGTCGA
ACTATTGGAAGCAAATAGAAAAGGAACACCGAGTGGGATCAAAGAAACTAGCGGACTGATCACTA
AATAGATACAAATAGGTGCAAATTCTGACATCACCACAGCCCACTTGGTTCTATCGCTCCTTGCT
CGCGGAGCGGCATACCGGAAAAAAGAAGGATTCAATCCAGCCCGTAGGTTATCCCTACAGCTACC
TTGTTGCGAACGAAAGCCAAGCCCCCTTATGGGTCGCGGCGGACTAGGTCGAAGAAGAAGTGCTC
GTTCATGTCGTCACCCCAATTAGAAGAATTACGATGGTACGGAACAATGAAGTTACGTAATCCTT
TATTAAGTATTAAGGGCGTTGACATTGGCGTCCGGCGACTGATAAGAAGACTCCTGCTGAGCAAT
TGTAGCAGCTCTGGCACCCATTGACTGCCGCTGTTAGAACACCAC
Right flanking sequence: Indices 208953 -- 209452
GGGGTTAATGCTTTCAATGGTGAATCGAGGAAAAGATTTCCTTTTACGAGAGTGCCTGAAAGGCA
GAAAAGTAAGAAAGCCTGCGATGGCTACTGAATAACCTCCTTTGATTTTACGACAAATAAGGCCT
TTTACCTTTGTATTCGTTCGCCAAATCTTGTTCAGTTTCATCCAAGCTCGGTTTTTTCTGAATCT
TCGTGGAAGAAGAAGAAGCGGTTCACCAGCCACTAGATCTGTGGATCCCACCAATTTATTAAACC
TGGCGGCTGCTCGCTCTTTGATCAGCGATTCACCGGCCACTAGATCGATGAAGAATCTCTCCAAA
ATATGCTTTTTGATCAGTGATTCACCGGCCACTAGATCCAGGGATCCCACCTTATTCTCAAACCT
GGTGGTTCGGTTGATTGGCACTCCTGTAGGCTCATCTTGCATACAAATTCTGGGGGTCCCAAGTC
CTGCATCCATCAAGAAAATGTCTTCCCTTAAGCGTAAAACTTCAG
Found at i:210139 original size:21 final size:23
Alignment explanation
Indices: 210093--210148 Score: 80
Period size: 21 Copynumber: 2.5 Consensus size: 23
210083 ATAATGGGCC
210093 CTGGGAGCTATCTGCCCCAACAAG
1 CTGGGAGCTATCTGCCCC-ACAAG
210117 CTGGGAGCTATCTG-CCC-CAAG
1 CTGGGAGCTATCTGCCCCACAAG
*
210138 CTGCGAGCTAT
1 CTGGGAGCTAT
210149 AATAGTCATA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
21 14 0.45
23 3 0.10
24 14 0.45
ACGTcount: A:0.21, C:0.32, G:0.27, T:0.20
Consensus pattern (23 bp):
CTGGGAGCTATCTGCCCCACAAG
Left flanking sequence: Indices 209593 -- 210092
CGCTAGCTATAATTGCTATAATACTAATTATAATAATTGAAGACGGTTGACAATATAGGGACTCC
AGCGGGGATGGAACGAAACTACCGAATTGACTTACATACCAATCGTGCTTTGGTACGCTCAGCCC
CATACGGGGGGCATAATCCATATACCACTCATGGTATTCTCTATTAAGTAGAAAGTGCAGCTTTC
CCGTGAGTAAATCCGCAGAAGTCATGTCCAATTCCCGTTGGAGAGACTGGATATATGCCGGCTGG
ATTGTACCATTAAAAAATTCATGCCGCTGCACAACCAAAAACTTATTGAACTTCGATAGCGCTGA
TATCGTATGAGGATCACTTATTTCACCCGGGATCCAAACAGACCCGGAAATGAAATTAGGTGCTC
TATAGACCGAAGATAACATAGAATAAGGAACCGGCACCCCTTGCAGAACAATATTTGTATGTGGA
ACCATGAGTTAGCTTTTCAAATCTCTATATAAAATATAATGGGCC
Right flanking sequence: Indices 210149 -- 210648
AATAGTCATAGCTCCATAAGTATAAAATATAATGGGCGATGCGAGCTATCTGCCCCAACAAGCTG
GGAGCTATCTGCCCCAAGCTGCGAGCTATCTGCCCCTGCCCCAAAGAGTAGGTCGTTCTTGTATA
TGCTCACTAATTCGTATATCCCCAAGGAACTCTTTCCTCTTTTTTCAAAAAGCCGCTCCACAGTG
GTAAAGTTTCATCTTGTGTGTTCGCCGAAGTGACAATAGTCGCGTTGAACCCTCGAATATGTTCG
AAGATCTCGAAATGCTCTCCCAGTTCCGGGGATAATTCGCAAAACTCCGTTTCCATCGAGAATTG
AATGGAGTTTTCCCGTATTTCGACCGGAGAATCTAACAGAGACATTACTGTGGAGATTCTGAACA
AAAAATGAGACATTCCATGCCCTCGGAGAGCGCTTTGTCGTGCTAGGTCTAGGTTACTGACAGAC
CCCTTATTTGAGCCCAAGAATGGATTGGATCGAAACGACTTTCCT
Found at i:210223 original size:24 final size:22
Alignment explanation
Indices: 210188--210249 Score: 90
Period size: 21 Copynumber: 2.8 Consensus size: 22
210178 TAATGGGCGA
210188 TGCGAGCTATCTGCCCCAACAAGC
1 TGCGAGCTATCTGCCCC--CAAGC
*
210212 TGGGAGCTATCTG-CCCCAAGC
1 TGCGAGCTATCTGCCCCCAAGC
210233 TGCGAGCTATCTGCCCC
1 TGCGAGCTATCTGCCCC
210250 TGCCCCAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 17 0.49
22 3 0.09
23 3 0.09
24 12 0.34
ACGTcount: A:0.19, C:0.37, G:0.24, T:0.19
Consensus pattern (22 bp):
TGCGAGCTATCTGCCCCCAAGC
Left flanking sequence: Indices 209688 -- 210187
CTTACATACCAATCGTGCTTTGGTACGCTCAGCCCCATACGGGGGGCATAATCCATATACCACTC
ATGGTATTCTCTATTAAGTAGAAAGTGCAGCTTTCCCGTGAGTAAATCCGCAGAAGTCATGTCCA
ATTCCCGTTGGAGAGACTGGATATATGCCGGCTGGATTGTACCATTAAAAAATTCATGCCGCTGC
ACAACCAAAAACTTATTGAACTTCGATAGCGCTGATATCGTATGAGGATCACTTATTTCACCCGG
GATCCAAACAGACCCGGAAATGAAATTAGGTGCTCTATAGACCGAAGATAACATAGAATAAGGAA
CCGGCACCCCTTGCAGAACAATATTTGTATGTGGAACCATGAGTTAGCTTTTCAAATCTCTATAT
AAAATATAATGGGCCCTGGGAGCTATCTGCCCCAACAAGCTGGGAGCTATCTGCCCCAAGCTGCG
AGCTATAATAGTCATAGCTCCATAAGTATAAAATATAATGGGCGA
Right flanking sequence: Indices 210250 -- 210749
TGCCCCAAAGAGTAGGTCGTTCTTGTATATGCTCACTAATTCGTATATCCCCAAGGAACTCTTTC
CTCTTTTTTCAAAAAGCCGCTCCACAGTGGTAAAGTTTCATCTTGTGTGTTCGCCGAAGTGACAA
TAGTCGCGTTGAACCCTCGAATATGTTCGAAGATCTCGAAATGCTCTCCCAGTTCCGGGGATAAT
TCGCAAAACTCCGTTTCCATCGAGAATTGAATGGAGTTTTCCCGTATTTCGACCGGAGAATCTAA
CAGAGACATTACTGTGGAGATTCTGAACAAAAAATGAGACATTCCATGCCCTCGGAGAGCGCTTT
GTCGTGCTAGGTCTAGGTTACTGACAGACCCCTTATTTGAGCCCAAGAATGGATTGGATCGAAAC
GACTTTCCTGTCGAAGCCCTTATTTTCTGTATTAATTTTTGACCGCACGGAATCTCCATAGCAAA
TTTTCCATTTTTTATTATGAAATCTGAAGGTGCCGCCTTTGGTAC
Found at i:221648 original size:13 final size:13
Alignment explanation
Indices: 221630--221655 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
221620 ACTTCACTCG
221630 CTAGGGGATGGGA
1 CTAGGGGATGGGA
221643 CTAGGGGATGGGA
1 CTAGGGGATGGGA
221656 TTCATTCACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.54, T:0.15
Consensus pattern (13 bp):
CTAGGGGATGGGA
Left flanking sequence: Indices 221130 -- 221629
GATGATTCACTTGTCCCCTTGTCCATAGGGACCTCGTGGCATACAACCGAAACGACTCCCGCTAG
ATAGCCGCCCCTTTCTCTCTTTTTACAGCCTCGTGGACGGACGAAAGAAGGGAAGTTACAGAACT
GGACAGTGAAGGCTCGCGAAGTAGACAGCAAGCAGCAAGCAACAGCTTCTCAGCCCCCTTTTCTA
TTAGTCAAGCGCTAACGAGCAAGAAAACGGATGTGCTAACGAGCGAGCGAAGTATACGTAACGAG
GCATTAGAGCAACGGCTTTCAGCGCAATCCGTTGCTTGTTGCCCCTTTCTCTAAGAAGAAGGTCC
GCTTTGAAGCTGGCTGCTCTGCTATACTATACTAGTTGTAGGGCGCTAGCGCTTGACTAATAGAA
TCTCAAGTATAGGGACTCTATCATGATCTTACGAAGCTAAAGATATAAAAATGGAAGAACGCGCT
CTTTTGCTCGCCCCTCTCTCTAAAGGGGCGTAAGTACTTCACTCG
Right flanking sequence: Indices 221656 -- 222155
TTCATTCACTTGCATTCCTGCTAGCACTACAAAAAGCTCCGGTCTTAACGCCCCTACTACTGCTG
TGCAGCCTTTCCTCGGGTTCGTAGAGTCGGGTTTCCCGTTTACCCACAACGGAGGAGCCGCCCCC
ACCAGGCAGGCGGCCACGGGTCATAACGCACTCTTCGCACAACAAATCCACTTTGAAGTTGACTT
ATTCGCTCGGCCAATCGTCGGAATGTGTACGAGATACCATAAGGGCCCAATATCTCAATAGCACC
TTTGTCTAAAGCTTCGAATGAGACTTCATATCCGAAACGCAGGAACGATCTGACTAGAAAGTCAT
TCAAAACTTGATCGAAGAACCAGCGTTTATTGAAGAAGCTATAGAGTCGATTACAAAAAGTACTA
GTTTGAAAGGCTCGTTGGAATTGATCCGCTACGGGATTTACATTATACGCAACAGAAGCACCTGA
AGTACTAAACGGAATAGGTATTAGTTTGGTAATGGTTGGAGCAGC
Found at i:256322 original size:18 final size:18
Alignment explanation
Indices: 256299--256334 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
256289 AGAACACCAC
256299 AACAGTAACCACCTTTTT
1 AACAGTAACCACCTTTTT
256317 AACAGTAACCACCTTTTT
1 AACAGTAACCACCTTTTT
256335 GGGGTTAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.28, G:0.06, T:0.33
Consensus pattern (18 bp):
AACAGTAACCACCTTTTT
Left flanking sequence: Indices 255799 -- 256298
CTTCTGGCATCACCGAAAGGATCGAAACCACATTCGTAGGCCGACAGTTTGTCTGGATAGGTCGA
ACTATTGGAAGCAAATAGAAAAGGAACACCGAGTGGGATCAAAGAAACTAGCGGACTGATCACTA
AATAGATACAAATAGGTGCAAATTCTGACATCACCACAGCCCACTTGGTTCTATCGCTCCTTGCT
CGCGGAGCGGCATACCGGAAAAAAGAAGGATTCAATCCAGCCCGTAGGTTATCCCTACAGCTACC
TTGTTGCGAACGAAAGCCAAGCCCCCTTATGGGTCGCGGCGGACTAGGTCGAAGAAGAAGTGCTC
GTTCATGTCGTCACCCCAATTAGAAGAATTACGATGGTACGGAACAATGAAGTTACGTAATCCTT
TATTAAGTATTAAGGGCGTTGACATTGGCGTCCGGCGACTGATAAGAAGACTCCTGCTGAGCAAT
TGTAGCAGCTCTGGCACCCATTGACTGCCGCTGTTAGAACACCAC
Right flanking sequence: Indices 256335 -- 256834
GGGGTTAATGCTTTCAATGGTGAATCGAGGAAAAGATTTCCTTTTACGAGAGTGCCTGAAAGGCA
GAAAAGTAAGAAAGCCTGCGATGGCTACTGAATAACCTCCTTTGATTTTACGACAAATAAGGCCT
TTTACCTTTGTATTCGTTCGCCAAATCTTGTTCAGTTTCATCCAAGCTCGGTTTTTTCTGAATCT
TCGTGGAAGAAGAAGAAGCGGTTCACCAGCCACTAGATCTGTGGATCCCACCAATTTATTAAACC
TGGCGGCTGCTCGCTCTTTGATCAGCGATTCACCGGCCACTAGATCGATGAAGAATCTCTCCAAA
ATATGCTTTTTGATCAGTGATTCACCGGCCACTAGATCCAGGGATCCCACCTTATTCTCAAACCT
GGTGGTTCGGTTGATTGGCACTCCTGTAGGCTCATCTTGCATACAAATTCTGGGGGTCCCAAGTC
CTGCATCCATCAAGAAAATGTCTTCCCTTAAGCGTAAAACTTCAG
Found at i:257521 original size:21 final size:23
Alignment explanation
Indices: 257475--257530 Score: 80
Period size: 21 Copynumber: 2.5 Consensus size: 23
257465 ATAATGGGCC
257475 CTGGGAGCTATCTGCCCCAACAAG
1 CTGGGAGCTATCTGCCCC-ACAAG
257499 CTGGGAGCTATCTG-CCC-CAAG
1 CTGGGAGCTATCTGCCCCACAAG
*
257520 CTGCGAGCTAT
1 CTGGGAGCTAT
257531 AATAGTCATA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
21 14 0.45
23 3 0.10
24 14 0.45
ACGTcount: A:0.21, C:0.32, G:0.27, T:0.20
Consensus pattern (23 bp):
CTGGGAGCTATCTGCCCCACAAG
Left flanking sequence: Indices 256975 -- 257474
CGCTAGCTATAATTGCTATAATACTAATTATAATAATTGAAGACGGTTGACAATATAGGGACTCC
AGCGGGGATGGAACGAAACTACCGAATTGACTTACATACCAATCGTGCTTTGGTACGCTCAGCCC
CATACGGGGGGCATAATCCATATACCACTCATGGTATTCTCTATTAAGTAGAAAGTGCAGCTTTC
CCGTGAGTAAATCCGCAGAAGTCATGTCCAATTCCCGTTGGAGAGACTGGATATATGCCGGCTGG
ATTGTACCATTAAAAAATTCATGCCGCTGCACAACCAAAAACTTATTGAACTTCGATAGCGCTGA
TATCGTATGAGGATCACTTATTTCACCCGGGATCCAAACAGACCCGGAAATGAAATTAGGTGCTC
TATAGACCGAAGATAACATAGAATAAGGAACCGGCACCCCTTGCAGAACAATATTTGTATGTGGA
ACCATGAGTTAGCTTTTCAAATCTCTATATAAAATATAATGGGCC
Right flanking sequence: Indices 257531 -- 258030
AATAGTCATAGCTCCATAAGTATAAAATATAATGGGCGATGCGAGCTATCTGCCCCAACAAGCTG
GGAGCTATCTGCCCCAAGCTGCGAGCTATCTGCCCCTGCCCCAAAGAGTAGGTCGTTCTTGTATA
TGCTCACTAATTCGTATATCCCCAAGGAACTCTTTCCTCTTTTTTCAAAAAGCCGCTCCACAGTG
GTAAAGTTTCATCTTGTGTGTTCGCCGAAGTGACAATAGTCGCGTTGAACCCTCGAATATGTTCG
AAGATCTCGAAATGCTCTCCCAGTTCCGGGGATAATTCGCAAAACTCCGTTTCCATCGAGAATTG
AATGGAGTTTTCCCGTATTTCGACCGGAGAATCTAACAGAGACATTACTGTGGAGATTCTGAACA
AAAAATGAGACATTCCATGCCCTCGGAGAGCGCTTTGTCGTGCTAGGTCTAGGTTACTGACAGAC
CCCTTATTTGAGCCCAAGAATGGATTGGATCGAAACGACTTTCCT
Found at i:257605 original size:24 final size:22
Alignment explanation
Indices: 257570--257631 Score: 90
Period size: 21 Copynumber: 2.8 Consensus size: 22
257560 TAATGGGCGA
257570 TGCGAGCTATCTGCCCCAACAAGC
1 TGCGAGCTATCTGCCCC--CAAGC
*
257594 TGGGAGCTATCTG-CCCCAAGC
1 TGCGAGCTATCTGCCCCCAAGC
257615 TGCGAGCTATCTGCCCC
1 TGCGAGCTATCTGCCCC
257632 TGCCCCAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 17 0.49
22 3 0.09
23 3 0.09
24 12 0.34
ACGTcount: A:0.19, C:0.37, G:0.24, T:0.19
Consensus pattern (22 bp):
TGCGAGCTATCTGCCCCCAAGC
Left flanking sequence: Indices 257070 -- 257569
CTTACATACCAATCGTGCTTTGGTACGCTCAGCCCCATACGGGGGGCATAATCCATATACCACTC
ATGGTATTCTCTATTAAGTAGAAAGTGCAGCTTTCCCGTGAGTAAATCCGCAGAAGTCATGTCCA
ATTCCCGTTGGAGAGACTGGATATATGCCGGCTGGATTGTACCATTAAAAAATTCATGCCGCTGC
ACAACCAAAAACTTATTGAACTTCGATAGCGCTGATATCGTATGAGGATCACTTATTTCACCCGG
GATCCAAACAGACCCGGAAATGAAATTAGGTGCTCTATAGACCGAAGATAACATAGAATAAGGAA
CCGGCACCCCTTGCAGAACAATATTTGTATGTGGAACCATGAGTTAGCTTTTCAAATCTCTATAT
AAAATATAATGGGCCCTGGGAGCTATCTGCCCCAACAAGCTGGGAGCTATCTGCCCCAAGCTGCG
AGCTATAATAGTCATAGCTCCATAAGTATAAAATATAATGGGCGA
Right flanking sequence: Indices 257632 -- 258131
TGCCCCAAAGAGTAGGTCGTTCTTGTATATGCTCACTAATTCGTATATCCCCAAGGAACTCTTTC
CTCTTTTTTCAAAAAGCCGCTCCACAGTGGTAAAGTTTCATCTTGTGTGTTCGCCGAAGTGACAA
TAGTCGCGTTGAACCCTCGAATATGTTCGAAGATCTCGAAATGCTCTCCCAGTTCCGGGGATAAT
TCGCAAAACTCCGTTTCCATCGAGAATTGAATGGAGTTTTCCCGTATTTCGACCGGAGAATCTAA
CAGAGACATTACTGTGGAGATTCTGAACAAAAAATGAGACATTCCATGCCCTCGGAGAGCGCTTT
GTCGTGCTAGGTCTAGGTTACTGACAGACCCCTTATTTGAGCCCAAGAATGGATTGGATCGAAAC
GACTTTCCTGTCGAAGCCCTTATTTTCTGTATTAATTTTTGACCGCACGGAATCTCCATAGCAAA
TTTTCCATTTTTTATTATGAAATCTGAAGGTGCCGCCTTTGGTAC
Found at i:269030 original size:13 final size:13
Alignment explanation
Indices: 269012--269037 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
269002 ACTTCACTCG
269012 CTAGGGGATGGGA
1 CTAGGGGATGGGA
269025 CTAGGGGATGGGA
1 CTAGGGGATGGGA
269038 TTCATTCACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.54, T:0.15
Consensus pattern (13 bp):
CTAGGGGATGGGA
Left flanking sequence: Indices 268512 -- 269011
GATGATTCACTTGTCCCCTTGTCCATAGGGACCTCGTGGCATACAACCGAAACGACTCCCGCTAG
ATAGCCGCCCCTTTCTCTCTTTTTACAGCCTCGTGGACGGACGAAAGAAGGGAAGTTACAGAACT
GGACAGTGAAGGCTCGCGAAGTAGACAGCAAGCAGCAAGCAACAGCTTCTCAGCCCCCTTTTCTA
TTAGTCAAGCGCTAACGAGCAAGAAAACGGATGTGCTAACGAGCGAGCGAAGTATACGTAACGAG
GCATTAGAGCAACGGCTTTCAGCGCAATCCGTTGCTTGTTGCCCCTTTCTCTAAGAAGAAGGTCC
GCTTTGAAGCTGGCTGCTCTGCTATACTATACTAGTTGTAGGGCGCTAGCGCTTGACTAATAGAA
TCTCAAGTATAGGGACTCTATCATGATCTTACGAAGCTAAAGATATAAAAATGGAAGAACGCGCT
CTTTTGCTCGCCCCTCTCTCTAAAGGGGCGTAAGTACTTCACTCG
Right flanking sequence: Indices 269038 -- 269537
TTCATTCACTTGCATTCCTGCTAGCACTACAAAAAGCTCCGGTCTTAACGCCCCTACTACTGCTG
TGCAGCCTTTCCTCGGGTTCGTAGAGTCGGGTTTCCCGTTTACCCACAACGGAGGAGCCGCCCCC
ACCAGGCAGGCGGCCACGGGTCATAACGCACTCTTCGCACAACAAATCCACTTTGAAGTTGACTT
ATTCGCTCGGCCAATCGTCGGAATGTGTACGAGATACCATAAGGGCCCAATATCTCAATAGCACC
TTTGTCTAAAGCTTCGAATGAGACTTCATATCCGAAACGCAGGAACGATCTGACTAGAAAGTCAT
TCAAAACTTGATCGAAGAACCAGCGTTTATTGAAGAAGCTATAGAGTCGATTACAAAAAGTACTA
GTTTGAAAGGCTCGTTGGAATTGATCCGCTACGGGATTTACATTATACGCAACAGAAGCACCTGA
AGTACTAAACGGAATAGGTATTAGTTTGGTAATGGTTGGAGCAGC
Done.