Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_057502
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: 155155
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Found at i:9492 original size:10 final size:10
Alignment explanation
Indices: 9465--9494 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
9455 GCCTATAAAT
9465 AAAAAAAGAA
1 AAAAAAAGAA
*
9475 AAAGAAAGAA
1 AAAAAAAGAA
9485 AAAAAAAGAA
1 AAAAAAAGAA
9495 GACATCTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Left flanking sequence: Indices 8965 -- 9464
ATCTATTCTCTTTTTTTTTTCCAAAAAAAATAATCTTGGAGATTGTGTAATGCTTACTCTGAAAC
TCTTCGTTTATACCGTAGTGATATTTTTTGTTTCTCTCTTCATCTTTGGATTCCTATCTAATGAT
CCAGGACGTAATCCTGGACGTGAAGAATAAAATCCAAAGGGTTTTTCCTTGGTTCATTTTCAAAT
TTTCTTAGGATTTTTTCTATTCCACACGTTTAACTAAGATTTCAAAAATTTGAAAAATAAATAAA
TAAATCAAGTCATCAACGGAACCGGAAAGAGAGGGATTCGAACCCTCGGTACGAATAACTCGTAC
AACGGATTAGCAATCCGACGCTTTAGTCCACTCAGCCATCTCTCCCAATTGAAAAAGAGAATTAC
TACATTACACATAATGTAAGGAGTCTTTCTTTACTCTATTCTATAGAGATATACAAATCAGGAAT
TTCTTTTAGATTAGATAAAGGAAGGGCTCGAACGAGCCTATAAAT
Right flanking sequence: Indices 9495 -- 9994
GACATCTTTGTGTTGATTTTGTTCGAAAGGCCCTTCTTATTCTGATGGCCTGGCCTGGTCAGTAC
CTAGCCGGGCCCCTTTTTTTGTTCCAACGAATTATAGATAAATAATGATTTATTTGATTTGAAAA
CAAAAATGCTTGTTATTTATTATATTCAATTGAATATAAAATATTCAAGCAACAACAAAAAGAAG
AAAGACTATTTACATTCTTTTTCTTTTTCTATTTGAATTTTAGTTTCATTTTCGGAACTAAAAAA
GAAACTATCGATTTTTCCACAATGCATTTTTCTGTTATGATTTTAGTGTTTTTTGTGATCCGTAG
CTATCAAAACTTCTTAAGCAAAAGATAAAACTTTAATTTAAATAAAATGAACCCTCCTTTCAGAA
TCTCATTAAATTGTAAATCCCCCCCACGAAAAATTGCAACACTCTAATTTTTATGATTCTTTGAT
GATCCAATCCTATCTTGATCATGCCCAATTATCCTGTTCGACAAA
Found at i:16478 original size:19 final size:19
Alignment explanation
Indices: 16454--16493 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
16444 CTTGAATCGG
16454 ATATTTGAAATACCAACTA
1 ATATTTGAAATACCAACTA
* *
16473 ATATTTGGAATACTAACTA
1 ATATTTGAAATACCAACTA
16492 AT
1 AT
16494 CACATAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.35
Consensus pattern (19 bp):
ATATTTGAAATACCAACTA
Left flanking sequence: Indices 15954 -- 16453
TAAAGCCAAAGCAACGGTAGTATTTATATCATTCGTGGGTGCGGCTAACTCTCCATGAGGTAATT
GTATGATTTTCCAAGGTAAAAGAGCTCCTGACCAATTAGAAACAAAAATAAATAGAAACATAGTT
CCAATAAAAGGAACCCAAGGGCCATATTCTTCTCCAATTTGAGTTTTACTCACATCTCGAATGAA
TTCAAGAACATATTCGAAGAAATTCTGACCCCCAGTCGGAATGGTTTGTGGGTTCCGAACAGCTA
TAGTAGCTGAACCTAATAAGATAGCAATTACAACCCAAGAAGTAATAAGTACTTGGCCATGGACT
TGGAAACCCCCTATTTGCCAATAGAAATGTTGGCCTACTTCCACAGCGGATATATCGTATAACCC
TTTTAGTGTGTTGATGGAACATGATAACACATTCATATTGCCCTCTGAAAAAAATAGAACTTTAA
ACAAAATTATTTTGATTCAACCATCTCTTTGCCTACTTGAATCGG
Right flanking sequence: Indices 16494 -- 16993
CACATAATATCCCCAGTTATTTTTATCTCTTTTTTAAAATTAAGAAATAATAACCGATTCCATAA
ATCTATCGGATTTTTGAAGTAAATTATTTATCTTATTATTAATCAAGGATTTCTTATATAGCTAG
AACGACCCTCACAAATTGCGAATACTAATTTGTTAAGAATTAAGCGGATTGAAGATATAGCGTCA
TCATTCGCTGGAATCGAAATATCTGCAAGATCAGGGTCACAATTTGTATCGATTAAACAAATTGT
TGGAATTCCCAAAGTGATACACTCTCGCAGGGCCGTATATTCTTCGTGCTGATCAACGATAATTA
CAATATCGGGTAACCCTGTCATATATTTAATCCCGCCCAGATATGTTTGCAAGCGAGATAATTGC
CTTTTCAACATAGCTGCATCCCTTTTCGGAAGACGGTTGAGTCTTCCTGTTTTTTGTTCCATTCT
CAAGTCCCTGAACTTATGAAGTCTCGTTTCTGTAGTGGACCAATT
Found at i:52467 original size:11 final size:10
Alignment explanation
Indices: 52443--52482 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
52433 AGTCTACTTA
52443 TTTTTATTTC
1 TTTTTATTTC
52453 TTTTTATTTC
1 TTTTTATTTC
52463 TTTTTATTTC
1 TTTTTATTTC
*
52473 GATTTTATTT
1 -TTTTTATTT
52483 AGTTAGTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 20 0.71
11 8 0.29
ACGTcount: A:0.12, C:0.07, G:0.03, T:0.78
Consensus pattern (10 bp):
TTTTTATTTC
Left flanking sequence: Indices 51943 -- 52442
CACGAAAATTAAAGCTTCTATAAATACAGATACACCCAATACATCGAAACTCATTGCCCATGGAT
AAAGAAAAACCGTTTCAACATCAAAAACAACAAAAACGAGAGCAAACATATAATAACGGATTCGA
AATTGTAACCAAGCGTCGCCCATTGGTTCTATACCCGATTCATAACTAGAAAGTTTCTCCGGCCC
TTTCCTAATCGGGGCTAAAATCCCGGAAATGAAAAATGCCAAAATAGGAATAAGACTTGATATTA
TTAGAAATGCCCAAAAAATATCATATTCGTAAAGCAAAAACATAGACGCACTCCTATGAACGTGG
AAAATATACCGGATGGGTCGATTCGAATTGAAATTGTCAAGTCATCCATAACTGTTTAGTCAAAA
CAAGAATTCATTTTGACCAAACCATCTAGTTTCCTTTGTTTATTGTGGGGCATATCTCATTTCAA
GATTCATCGACTGACTTGACTGGAATCCTATTTCCAGTCTACTTA
Right flanking sequence: Indices 52483 -- 52982
AGTTAGTATAACTCTAACTATTACTTTTATACAAATTCTCTTGTTTTCACCTAGGATTCTTGCTA
AAGAAACCTAGTTCCAAATAAAAAGAAAATAGAATTCTTATTTTGTGTTTAGAATTTCTAACTTA
TTATTTTTAAAATTATATATATTATTCTAAATTCTTTAGAGATTTCTATTTTTTTTTTAGGAATA
GAATCTGGAGTTTGTCGTTTTTTTCTTAGTGATTTCGAATGGAACAAGTATTCAAATGTAAGAGA
ATGGATAGGTATTTTGATTTCTAATATCTTAGTGTTGGTATATTCCTTTTATTTTATTAGAGGGG
TTTCTCTTGATTGAATACAGAAAAAGAAGACCATCCCCTTTGTGCTTCGATAGGTCTAGGTAAGG
TATACGAAGAAAAAGCCTATTTGACATTGTTGACAATGAAACTTACCAAAGAGATTCGTTTCTCA
ACAAACTTTGGCTTGTCCACAAATACAGCAGGTCATTCCCTAGAT
Found at i:56480 original size:13 final size:13
Alignment explanation
Indices: 56462--56487 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
56452 ATCAGTTAAT
56462 TCAATAAGAAATG
1 TCAATAAGAAATG
56475 TCAATAAGAAATG
1 TCAATAAGAAATG
56488 GGAGTTAGCA
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:0.54, C:0.08, G:0.15, T:0.23
Consensus pattern (13 bp):
TCAATAAGAAATG
Left flanking sequence: Indices 55962 -- 56461
GCAGATCTATGAATAGGAGATGTTGTACGAATATCTACAGGACCTAAATTATCAACAGGCTCTCC
AAGCACGTTGAAAATTCGTCCCAGAGTCGCTCCACCGACCGGAACACTTAGAGGAGCTCCTGTGT
CAATCACTTCCATTCCTCTCATCAGACCATCTGTAGCACTCATAGCTACAGCTCTAACTCGATTA
TTTCCTAATAATTGCTGTACCTCACAAGTCACATTAATTGCTTGACTAACAGTATCTCGACCTTT
AACTACCAGAGCGTTATAAATATTAGGCATCTTGCCCGGCGGAAAGGCTACATCTAGTACCGGAC
CGATTATTTGGACGATACGGCCCAGGTTTTGTTTTTCAAGCGTGGAAACCCCAGAACCAGAAGTA
GTAGGATTAATTCTCATAATAATTAATAATAAACAAAATATGTCGAAATTTTTTTTTGCGAAAAT
TATCGAATTCAAAATAAAGGTCCGATAGCACGGAGATCAGTTAAT
Right flanking sequence: Indices 56488 -- 56987
GGAGTTAGCACTCGATTTCGTTGGTACCATTCAATCGAATCCAATTCAATTGTTTACTTATTCAT
CCACTTGCAATTTTCAAAATAGCTTGGTTGAACTTGAAAATTGCAAGTGGATGAATAAGAATCTT
GAGAAAGTTTTTCATTTGTCTATAATGATAGACAATCCCATCTATATTATAGAAAATATTCTATC
GAATTCGAACCTGAACTCTATTTACATTAGGATTCATTATTTCTATATCATCGGTGCTTCGTATT
TTTTATTTCAGCATATCGATTTACGCTTACGCCTAGCCTATATTTTTTCTTTTCGTTTTTTTATA
CCCTTTCATAGACGAATTCCGCATATTTTCACATCTAGGATTTACATATACAACATATATCACTG
TCAAGAGGGAATTTCTTATTAGTTAGGTTAGGTATTTCGATTCCAAAAAAGGTAAAAAAAAATTG
GGTTGCGCTATATATATGAAAGAGTATACAATAATGATGTATTTG
Found at i:58756 original size:19 final size:19
Alignment explanation
Indices: 58729--58770 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
58719 ACAAGATTTG
*
58729 AAATACAAAATCTAAGACT-
1 AAATAC-AAATCGAAGACTC
*
58748 AAATCCAAATCGAAGACTC
1 AAATACAAATCGAAGACTC
58767 AAAT
1 AAAT
58771 GTTTCTATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.55, C:0.19, G:0.07, T:0.19
Consensus pattern (19 bp):
AAATACAAATCGAAGACTC
Left flanking sequence: Indices 58229 -- 58728
GATCGAAGTCGCGGTATTTATTTCACTCAAGATTGGGTCTCTCTACCAGGTGTTCTGCCCGTGGC
TTCAGGGGGTATTCACGTTTGGCATATGCCTGCTCTGACCGAGATCTTTGGGGATGATTCCGTAC
TACAGTTCGGTGGAGGAACTTTAGGGCACCCTTGGGGTAATGCGCCAGGTGCTGTAGCTAACCGA
GTAGCTCTAGAAGCATGTGTAAAAGCTCGTAATGAAGGACGTGATCTTGCTTCTGAGGGTAATGT
AATTATCCGTGAGGCTAGCAAATGGAGTCCTGAACTAGCTGCTGCTTGTGAGGTATGGAAAGAGA
TCAAATTTGAGTTTGCCGCAATGGATACTCTATAAGTAAGATAACAAGTAATTACCCTCCGTTCT
CTTAATTGAAAACTCGGCCCAATCTTTTACTAAAAGGATTGAGCCGAATACAAAGATTCTATTGC
ATGTATTTTGGCTAAATCTATACTTCTCCAGATATACAAGATTTG
Right flanking sequence: Indices 58771 -- 59270
GTTTCTATTGTTGTTTTGGATCCACAATTAATCCTATGGATCTTTAGGATTGGTATATTTTTTCT
ATATCCTGTAGTTTCCCTGAATCGAGCGAAGTATCACAAATCTTTCTACCCATCCTGTATATTGT
CCTTTTCGTTCCGTGTTGGAATAGAACCTTAATTTATTACTTGTTATTAGTTAGTTATTAGACGA
GATTTTACGAAAAAAAATTCTTTCTAGGAGAGAACAAATATTTTTTTTTTGATGCGAAGACATAG
GAGAAACTACTCTTTTTCATTATATTTAGAATGAAAAGGGATTCCATCATATTCATATATAGTGA
AGTCTTACCCCGGATTCCCACAAAAGAAAATTATTTTTCACACTTATTATTAGTTAATAATGATA
GTGAGTGGATTCCTATGTTTATTCTGATAGGAAATTAAAATATTCAAATAAAGAATTTTGGATCG
AATGACTATTCATCTATTGTATTTTTATGCAAACAAATAGGGGGG
Found at i:61889 original size:21 final size:21
Alignment explanation
Indices: 61863--61907 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
61853 ACTCCTAAAG
61863 GTTCACATCAAACTAGTGCTA
1 GTTCACATCAAACTAGTGCTA
61884 GTTCACATCAAACTAGTGCTA
1 GTTCACATCAAACTAGTGCTA
61905 GTT
1 GTT
61908 GATGAGAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (21 bp):
GTTCACATCAAACTAGTGCTA
Left flanking sequence: Indices 61363 -- 61862
ATTATAATTATTATAAGATATTTATTTTTTATAAAAAATAAATAATAGCAGGTACAAATAGTAAA
TCGAGGTACCCATTTTATGACAACTTTCAATTTCCCCTCTATTTTTGTGCCTTTAGTAGGCCTAG
TATTTCCGGCAATTGCAATGGCTTCTTTATCTCTTCATGTTCAAAAAAACAAGATTGTTTAGATC
TGATGGGACCCAATCTCATCCGTTTTTTTTTTCAAAACTTAGACTTGTAGCATAACACAGATATC
TATTTCGAAAAATATGGTCTAACGTGTAATTTCCGCCGAACATAAAGGAAAAAGTTCTTATGCCT
GCAGAAAAGGATCTATGGGTAAATGAATTCTAGCTAGTTTCAAATAGATCAGGATCGCTGGATGG
CTAAAATGTAAAGTCGGTGGATCTATAGGTATATCAATATGTATAGTGGGCTCATATGAAGGGTA
TGTTATTATTTTAGATCTAACCAATTTGATGAATTACTCCTAAAG
Right flanking sequence: Indices 61908 -- 62407
GATGAGAGTTACTTCGGAAACAAAAAAAAGTAAAGTCAAATTCATTTGGGGTATTCTCTCAATTC
CAATAAAATGCAATCAGATCAAGTATGAGTTGGCGATCAGAAGATATATGGATAGAACTTATAAC
GGGGTCTCGAAAACTAAGTAATTTATGCTGGGCCCTTATCCTTTTTTTAGGTTCATTAGGATTCT
TATTGGTTGGAACTTCCAGTTATCTTGGTAGAAATTTGATATCTTTTTTTCCGTCTCAGCAAATC
ATTTTTTTTCCACAAGGGATCGTGATGTCTTTCTACGGGATCGCGGGTCTCTTTATTAGTTCCTA
TTTGTGGTGCACAATTTCCTGGAATGTAGGTAGTGGTTATGATCGATTCGATAGAAAGGAAGGGA
TAGTGTGTATTTTTCGTTGGGGATTTCCTGGAAAAAATCGTCGCATATTCCTCCGATTCCTTATA
AAAGATATTCAGTCCGTTAGAATAGAAGTTAAAGAGGGTATTTAT
Found at i:79478 original size:17 final size:15
Alignment explanation
Indices: 79446--79476 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
79436 ATTGAATCAT
79446 TCATATATGTGTATA
1 TCATATATGTGTATA
79461 TCATATATGTGTATA
1 TCATATATGTGTATA
79476 T
1 T
79477 ATAGGCAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.48
Consensus pattern (15 bp):
TCATATATGTGTATA
Left flanking sequence: Indices 78946 -- 79445
TGTTCCAACCGTCGCGTAAGCCCTATACAGAAGATAGGCTGGTTCACTTGAAGAGATTCTTTTCT
ATGATCAGACCGAATCATGTTGTACATGAGCAGGCTCCGTAAGATCCAGTATAATTATAATAAGT
GAAATGGATAAACTAAAACATAATCTTTATCTATTTCACTTACTTAATACTTAAAATTGAATAGT
ATGGAAATGCATTTATTTCCTCTGCATTGCTATGATCGATAATACTATCGGAGTGAAACAAGGGA
TTTAAAGAAAAACATAGGCTAGACTAGATTAGTAACAAGTAAACCTTTTGTGTGTATCTCCAAAT
ATTTTGGAGATAAATACCAATCGTAAGGTCTGAGACGACCCAGAAAGCACTCGATCATATCATGA
TCAACTTTGTAAGCCAACTTGGGTATTGAGTATTTACTTAGAACCGAATTTTTTGCAATGGGTAG
TTGCAATTCCGGAAAAAGAGTCAAATTTTTCTTACATTGAATCAT
Right flanking sequence: Indices 79477 -- 79976
ATAGGCAACATATAGATTTTTTATGGATTCATTTGGTTCTTTTGAATCTTGCTCGAGCCGGATGA
TAAAAAATTATCATGTCCGGTTCCTTCGGGGGATGGATCTATAAGAATTCACCTATCCCAATAAC
AAAAAAACCTGATTTGAATGATCCTGTATTAAGAGCTAAATTGGCTAAAGGTATGGGTCATAATT
ATTACGGAGAACCCGCATGGCCCAATGATCTTTTATATATTTTTCCAGTAGTAATTCTAGGTACT
ATTGCATGTAACGTAGGCTTAGCGGTTCTAGAACCATCAATGATTGGTGAACCGGCAGATCCGTT
TGCAACCCCTTTGGAAATATTACCTGAATGGTATTTCTTTCCCGTATTTCAAATACTTCGTACAG
TGCCCAATAAATTATTGGGTGTTCTTTTAATGGTTTCAGTACCTGCGGGATTATTAACAGTACCC
TTTTTAGAGAATGTTAATAAATTCCAAAATCCATTTCGTCGTCCA
Found at i:91159 original size:24 final size:22
Alignment explanation
Indices: 91131--91185 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 22
91121 ACAAAAAAGA
*
91131 TTTGTCTAAGCCACTTCGTTTCTT
1 TTTGTCCAAGCCACTTC-TTT-TT
*
91155 TTTGTCCAAGTCACTTC-TTTT
1 TTTGTCCAAGCCACTTCTTTTT
91176 TTTGTCCAAG
1 TTTGTCCAAG
91186 TTGCTTTTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 12 0.41
22 2 0.07
24 15 0.52
ACGTcount: A:0.15, C:0.24, G:0.13, T:0.49
Consensus pattern (22 bp):
TTTGTCCAAGCCACTTCTTTTT
Left flanking sequence: Indices 90631 -- 91130
TGCGGGAATGATTTGGAAGATCCAAAACCAAAAATAGTGGTATTTGCTAGCAACAACATAATGGA
GGCAGTCAATCAATATAGATTGATCCGAAATCTGATTCAAATCCAATATAGTACCTATGGGTACA
TAAGAAATGTATTGCATCGATTCTTTTTAATGAATCGATCCGATCGCAACTTCGAATATGGAATT
CAAAGGGATCAAATAGGAAAGGATACTCTGAATCATAGAACTATAATGAAATATACGATCAACCA
ACATTTATCGAATTTGAAAAAGAGTCAGTTCGATCCTCTTATCTTGATTTCTCGAACCGAGAAAT
CCATGAATCGGGATCCTGATGCATATAGATACAAATGGTCCAATGGGAGCAAGAATTTCCAGGAA
CATTTGGAACATTTCGTTTCTGAGCAGAAGAGCCGTTTGCAAGTAGTGTTCGATCAATTACGTAT
TAATCAATATTCGATTGATTGGTCTGAGGTTATCGACAAAAAAGA
Right flanking sequence: Indices 91186 -- 91685
TTGCTTTTCTTTTTGTCTAACTCACTTCCTTTTTTCTGTGTGAGTTTCGGGAATATCCCCATTCA
TAGGTCCGAGATCTACATCTATGAATTGAAAGGTCCGAATGATCAACTCTGCAATCAGTTGTTAG
AATCAATAGGTCTTCAAATTGTTCATTTGAAAAAATGGAAACCCTTCTTATTGGATGATCATGAT
ACTTCCCGAAAATCGAAATTCTTGATCAATGGAGGAACAATATCACCCTTTTTGTTCAATAAGAT
CCCAAAGTGGATGATTGACTCATTCCATACTAGAAATAATCGCAGGAAATCCTTTGATAACACGG
ATTCCTATTTCTCAATGATATCCCACAATCAAGACAATTGGCTGAATCCCGTGAAACCATTTCAT
AGAAGTTCATTGATATCTTCTTTTTATAAAGCAAATCGACTTCGATTCTTGAATAATCCACATCA
CTTCTGCTTCTATTGTAACACAAGATTCCCCTTTTCTGTGGAAAA
Found at i:91199 original size:23 final size:21
Alignment explanation
Indices: 91153--91220 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
91143 ACTTCGTTTC
91153 TTTTTGTCCAAGTCACTTCTT
1 TTTTTGTCCAAGTCACTTCTT
**
91174 TTTTTGTCCAAGTTGCTT-TT
1 TTTTTGTCCAAGTCACTTCTT
* * *
91194 CTTTTTGTCTAACTCACTTCCT
1 -TTTTTGTCCAAGTCACTTCTT
91216 TTTTT
1 TTTTT
91221 CTGTGTGAGT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
20 2 0.05
21 35 0.92
22 1 0.03
ACGTcount: A:0.12, C:0.22, G:0.09, T:0.57
Consensus pattern (21 bp):
TTTTTGTCCAAGTCACTTCTT
Left flanking sequence: Indices 90653 -- 91152
CAAAACCAAAAATAGTGGTATTTGCTAGCAACAACATAATGGAGGCAGTCAATCAATATAGATTG
ATCCGAAATCTGATTCAAATCCAATATAGTACCTATGGGTACATAAGAAATGTATTGCATCGATT
CTTTTTAATGAATCGATCCGATCGCAACTTCGAATATGGAATTCAAAGGGATCAAATAGGAAAGG
ATACTCTGAATCATAGAACTATAATGAAATATACGATCAACCAACATTTATCGAATTTGAAAAAG
AGTCAGTTCGATCCTCTTATCTTGATTTCTCGAACCGAGAAATCCATGAATCGGGATCCTGATGC
ATATAGATACAAATGGTCCAATGGGAGCAAGAATTTCCAGGAACATTTGGAACATTTCGTTTCTG
AGCAGAAGAGCCGTTTGCAAGTAGTGTTCGATCAATTACGTATTAATCAATATTCGATTGATTGG
TCTGAGGTTATCGACAAAAAAGATTTGTCTAAGCCACTTCGTTTC
Right flanking sequence: Indices 91221 -- 91720
CTGTGTGAGTTTCGGGAATATCCCCATTCATAGGTCCGAGATCTACATCTATGAATTGAAAGGTC
CGAATGATCAACTCTGCAATCAGTTGTTAGAATCAATAGGTCTTCAAATTGTTCATTTGAAAAAA
TGGAAACCCTTCTTATTGGATGATCATGATACTTCCCGAAAATCGAAATTCTTGATCAATGGAGG
AACAATATCACCCTTTTTGTTCAATAAGATCCCAAAGTGGATGATTGACTCATTCCATACTAGAA
ATAATCGCAGGAAATCCTTTGATAACACGGATTCCTATTTCTCAATGATATCCCACAATCAAGAC
AATTGGCTGAATCCCGTGAAACCATTTCATAGAAGTTCATTGATATCTTCTTTTTATAAAGCAAA
TCGACTTCGATTCTTGAATAATCCACATCACTTCTGCTTCTATTGTAACACAAGATTCCCCTTTT
CTGTGGAAAAGGCCCGTATCTATAATTATGATTTTACGTATGGAC
Found at i:93563 original size:15 final size:17
Alignment explanation
Indices: 93543--93624 Score: 87
Period size: 18 Copynumber: 4.8 Consensus size: 17
93533 AAGGTTTTCT
93543 TATTGATGATA-T-CAA
1 TATTGATGATAGTACAA
*
93558 TATTGATGATAGTGACGA
1 TATTGATGATAGT-ACAA
93576 TATTGATGATAGTGACAA
1 TATTGATGATAGT-ACAA
* *
93594 TATTGATGCTAGTGACGA
1 TATTGATGATAGT-ACAA
*
93612 TATTGATGCTAGT
1 TATTGATGATAGT
93625 GACGATATCG
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
15 11 0.18
16 1 0.02
18 48 0.80
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (17 bp):
TATTGATGATAGTACAA
Left flanking sequence: Indices 93043 -- 93542
GTCGCGAACAGTGATTCGATTGATGATGAAGAAAGAGAATTCTTGGTTCAGTTCTCCGCCTTAAC
GACAGAAAAAAGGATTGATCAAATTCTATTGAGTCTGACTCATAGTGATCATTTATCAAAGAATG
ACTCTGGTTATCAAATGATTGAACAACCGGGAGCAATTTACTTACGATACTTAGTTGACATTCAT
AAAAAGTATCTATTGAATTATGAGTTCAATACATCCTGTTTAGCAGAAAGACGGGTATTCCTTGC
TCATTATCAGACAATCACTTATTCACAAACTTCGTGTGGGACTAATACTTTTCATTTCCCATCTC
ATGGAAAACCCTTTTCGCTCCGCTTAGCCTTATCCCCCTCTAGGGGGATTTTAGTGATAGGTTCT
ATAGGAACTGGACGATCCTATTTGGTCAAATACCTAGCGACAAACTCCTATGTTCCTTTCATTAC
GGTATTTCTGAACAAGTTCCTGGATAACAAGCCTAAAGGTTTTCT
Right flanking sequence: Indices 93625 -- 94124
GACGATATCGATCGTGACCTTGATACGGAGCTGGAACTGCTAACTATGATGAATGCGCTAACTAT
GGATATGATGCCGGAAATAGACCGATTTTATATCACCCTTCAATTCGAATTAGCAAAAGCAATGT
CTCCTTGCATAATATGGATTCCAAACATTCATGATCTGGATGTGAATGAGTCGAATTACTTATCC
CTCGGTCTATTAGTGAACCATCTCTCTGAAAGATGTTCCACTAGAAATATTCTTGTTATTGCTTC
GACTCATATTCCCAAAAAAGTGGATCCCGCTCTAATAGCTCCGAATAAATTAAATACGTGCATTA
AGATACGAAGGCTTCTTATTCCACAACAACAAAAGCACTTTTTCACTCTTTCATATACTAGGGGA
TTTCACTTGGAAAAGAAAATGTTCCATACTAATGGATTCGGGTCCATAACCATGGGTTCCAATGC
ACGAGATCTTGTAGCACTTACCAATGAGGCCCTATCGATTAGTAT
Found at i:93578 original size:18 final size:18
Alignment explanation
Indices: 93557--93632 Score: 125
Period size: 18 Copynumber: 4.2 Consensus size: 18
93547 GATGATATCA
93557 ATATTGATGATAGTGACG
1 ATATTGATGATAGTGACG
*
93575 ATATTGATGATAGTGACA
1 ATATTGATGATAGTGACG
*
93593 ATATTGATGCTAGTGACG
1 ATATTGATGATAGTGACG
*
93611 ATATTGATGCTAGTGACG
1 ATATTGATGATAGTGACG
93629 ATAT
1 ATAT
93633 CGATCGTGAC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 55 1.00
ACGTcount: A:0.33, C:0.08, G:0.25, T:0.34
Consensus pattern (18 bp):
ATATTGATGATAGTGACG
Left flanking sequence: Indices 93057 -- 93556
TTCGATTGATGATGAAGAAAGAGAATTCTTGGTTCAGTTCTCCGCCTTAACGACAGAAAAAAGGA
TTGATCAAATTCTATTGAGTCTGACTCATAGTGATCATTTATCAAAGAATGACTCTGGTTATCAA
ATGATTGAACAACCGGGAGCAATTTACTTACGATACTTAGTTGACATTCATAAAAAGTATCTATT
GAATTATGAGTTCAATACATCCTGTTTAGCAGAAAGACGGGTATTCCTTGCTCATTATCAGACAA
TCACTTATTCACAAACTTCGTGTGGGACTAATACTTTTCATTTCCCATCTCATGGAAAACCCTTT
TCGCTCCGCTTAGCCTTATCCCCCTCTAGGGGGATTTTAGTGATAGGTTCTATAGGAACTGGACG
ATCCTATTTGGTCAAATACCTAGCGACAAACTCCTATGTTCCTTTCATTACGGTATTTCTGAACA
AGTTCCTGGATAACAAGCCTAAAGGTTTTCTTATTGATGATATCA
Right flanking sequence: Indices 93633 -- 94132
CGATCGTGACCTTGATACGGAGCTGGAACTGCTAACTATGATGAATGCGCTAACTATGGATATGA
TGCCGGAAATAGACCGATTTTATATCACCCTTCAATTCGAATTAGCAAAAGCAATGTCTCCTTGC
ATAATATGGATTCCAAACATTCATGATCTGGATGTGAATGAGTCGAATTACTTATCCCTCGGTCT
ATTAGTGAACCATCTCTCTGAAAGATGTTCCACTAGAAATATTCTTGTTATTGCTTCGACTCATA
TTCCCAAAAAAGTGGATCCCGCTCTAATAGCTCCGAATAAATTAAATACGTGCATTAAGATACGA
AGGCTTCTTATTCCACAACAACAAAAGCACTTTTTCACTCTTTCATATACTAGGGGATTTCACTT
GGAAAAGAAAATGTTCCATACTAATGGATTCGGGTCCATAACCATGGGTTCCAATGCACGAGATC
TTGTAGCACTTACCAATGAGGCCCTATCGATTAGTATTACACAGA
Found at i:93586 original size:9 final size:9
Alignment explanation
Indices: 93557--93619 Score: 54
Period size: 9 Copynumber: 7.0 Consensus size: 9
93547 GATGATATCA
93557 ATATTGATG
1 ATATTGATG
* *
93566 ATAGTGACG
1 ATATTGATG
93575 ATATTGATG
1 ATATTGATG
* **
93584 ATAGTGACA
1 ATATTGATG
93593 ATATTGATG
1 ATATTGATG
* * *
93602 CTAGTGACG
1 ATATTGATG
93611 ATATTGATG
1 ATATTGATG
93620 CTAGTGACGA
Statistics
Matches: 38, Mismatches: 16, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
9 38 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.35
Consensus pattern (9 bp):
ATATTGATG
Left flanking sequence: Indices 93057 -- 93556
TTCGATTGATGATGAAGAAAGAGAATTCTTGGTTCAGTTCTCCGCCTTAACGACAGAAAAAAGGA
TTGATCAAATTCTATTGAGTCTGACTCATAGTGATCATTTATCAAAGAATGACTCTGGTTATCAA
ATGATTGAACAACCGGGAGCAATTTACTTACGATACTTAGTTGACATTCATAAAAAGTATCTATT
GAATTATGAGTTCAATACATCCTGTTTAGCAGAAAGACGGGTATTCCTTGCTCATTATCAGACAA
TCACTTATTCACAAACTTCGTGTGGGACTAATACTTTTCATTTCCCATCTCATGGAAAACCCTTT
TCGCTCCGCTTAGCCTTATCCCCCTCTAGGGGGATTTTAGTGATAGGTTCTATAGGAACTGGACG
ATCCTATTTGGTCAAATACCTAGCGACAAACTCCTATGTTCCTTTCATTACGGTATTTCTGAACA
AGTTCCTGGATAACAAGCCTAAAGGTTTTCTTATTGATGATATCA
Right flanking sequence: Indices 93620 -- 94119
CTAGTGACGATATCGATCGTGACCTTGATACGGAGCTGGAACTGCTAACTATGATGAATGCGCTA
ACTATGGATATGATGCCGGAAATAGACCGATTTTATATCACCCTTCAATTCGAATTAGCAAAAGC
AATGTCTCCTTGCATAATATGGATTCCAAACATTCATGATCTGGATGTGAATGAGTCGAATTACT
TATCCCTCGGTCTATTAGTGAACCATCTCTCTGAAAGATGTTCCACTAGAAATATTCTTGTTATT
GCTTCGACTCATATTCCCAAAAAAGTGGATCCCGCTCTAATAGCTCCGAATAAATTAAATACGTG
CATTAAGATACGAAGGCTTCTTATTCCACAACAACAAAAGCACTTTTTCACTCTTTCATATACTA
GGGGATTTCACTTGGAAAAGAAAATGTTCCATACTAATGGATTCGGGTCCATAACCATGGGTTCC
AATGCACGAGATCTTGTAGCACTTACCAATGAGGCCCTATCGATT
Found at i:93601 original size:36 final size:36
Alignment explanation
Indices: 93543--93632 Score: 132
Period size: 36 Copynumber: 2.6 Consensus size: 36
93533 AAGGTTTTCT
93543 TATTGATGATA-T--CAATATTGATGATAGTGACGA
1 TATTGATGATAGTGACAATATTGATGATAGTGACGA
*
93576 TATTGATGATAGTGACAATATTGATGCTAGTGACGA
1 TATTGATGATAGTGACAATATTGATGATAGTGACGA
* *
93612 TATTGATGCTAGTGACGATAT
1 TATTGATGATAGTGACAATAT
93633 CGATCGTGAC
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
33 11 0.22
34 1 0.02
36 39 0.76
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (36 bp):
TATTGATGATAGTGACAATATTGATGATAGTGACGA
Left flanking sequence: Indices 93043 -- 93542
GTCGCGAACAGTGATTCGATTGATGATGAAGAAAGAGAATTCTTGGTTCAGTTCTCCGCCTTAAC
GACAGAAAAAAGGATTGATCAAATTCTATTGAGTCTGACTCATAGTGATCATTTATCAAAGAATG
ACTCTGGTTATCAAATGATTGAACAACCGGGAGCAATTTACTTACGATACTTAGTTGACATTCAT
AAAAAGTATCTATTGAATTATGAGTTCAATACATCCTGTTTAGCAGAAAGACGGGTATTCCTTGC
TCATTATCAGACAATCACTTATTCACAAACTTCGTGTGGGACTAATACTTTTCATTTCCCATCTC
ATGGAAAACCCTTTTCGCTCCGCTTAGCCTTATCCCCCTCTAGGGGGATTTTAGTGATAGGTTCT
ATAGGAACTGGACGATCCTATTTGGTCAAATACCTAGCGACAAACTCCTATGTTCCTTTCATTAC
GGTATTTCTGAACAAGTTCCTGGATAACAAGCCTAAAGGTTTTCT
Right flanking sequence: Indices 93633 -- 94132
CGATCGTGACCTTGATACGGAGCTGGAACTGCTAACTATGATGAATGCGCTAACTATGGATATGA
TGCCGGAAATAGACCGATTTTATATCACCCTTCAATTCGAATTAGCAAAAGCAATGTCTCCTTGC
ATAATATGGATTCCAAACATTCATGATCTGGATGTGAATGAGTCGAATTACTTATCCCTCGGTCT
ATTAGTGAACCATCTCTCTGAAAGATGTTCCACTAGAAATATTCTTGTTATTGCTTCGACTCATA
TTCCCAAAAAAGTGGATCCCGCTCTAATAGCTCCGAATAAATTAAATACGTGCATTAAGATACGA
AGGCTTCTTATTCCACAACAACAAAAGCACTTTTTCACTCTTTCATATACTAGGGGATTTCACTT
GGAAAAGAAAATGTTCCATACTAATGGATTCGGGTCCATAACCATGGGTTCCAATGCACGAGATC
TTGTAGCACTTACCAATGAGGCCCTATCGATTAGTATTACACAGA
Found at i:109421 original size:31 final size:31
Alignment explanation
Indices: 109383--109443 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
109373 CATCTATTTT
109383 CATTGTTCAAATCTTTGACAACACGAAAAAC
1 CATTGTTCAAATCTTTGACAACACGAAAAAC
* *
109414 CATTGTTCAACTCTTTGACAACATGAAAAA
1 CATTGTTCAAATCTTTGACAACACGAAAAA
109444 ACCAAAAGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (31 bp):
CATTGTTCAAATCTTTGACAACACGAAAAAC
Left flanking sequence: Indices 108883 -- 109382
GTTGGGCTGTTCGCCCATTAAAGCGGTACGTGAGCTGGGTTCAGAACGTCGTGAGACAGTTCGGT
CCATATCTGGTGTGGGCGTTAGAGCATTGAGAGGACCTTTCCCTAGTACGAGAGGACCGGGAAGG
ACGCACCTCTGGTGTACCAGTTATCGTGCCCACGGTAAACGCTGGGTAGCCAAGTGCGGAGCGGA
TAACTGCTGAAAGCATCTAAGTAGTAAGCCCACCCCAAGATGAGTGCTCTCCTATTCCGACTTCC
CCAGAGCTTCCGGTAGCACAGCCGAGACAGCGACGGGTTCTCTGCCCCTGCGGGGATGGAGCGAC
AGAAGTTTTGAGAATTCAAGAGAAGGTCACGGCGAGACGAGCCGTTTATCATTACGATAGGTGTC
AAGTGGAAGTGCAGTGATGTATGCAGCTGAGGCATCCTAACAGACCGGTAGACTTGAACCTTGTT
CCTACATGACCTGATCAATTCGATCAGGCACTCGCCATCTATTTT
Right flanking sequence: Indices 109444 -- 109943
ACCAAAAGCTCTGCCCTCCCTCTCTATCGGATGGAAGGGCAGAGGCCTTTGGTGTCCCCTCCAGT
CAAGAATTGGGGCCTCACAATCACTAGCCAATAGGCTTTTCTCTCATGCCTTTCTTCGTTCATGG
TTCGATATTCTGGTGTCCTAGGCGTAGAGGAACCACACCAATCCATCCCGAACTTGGTGGTTAAA
CTCTACTGCGGTGACGATACTGTAGGGGAGGTCCTGCGGAAAAATAGCTCGACGCCAGGATGATA
AAAAGCTTAACACCTCTCATTCTTATTCCTTTTTCAACGAAAAAAATGAAAAATAAAAAGGTCGT
CTTATTCAAAACCCCAATTATGACATCCCTTCTCTCCCACTTCACACCTCGGAACGCACCGTTCT
TATAGAGATAAACGCGCTTTCACATCTTCTTAACCCGAAATGAAATGGCTGGGGAGGGGAGAGGA
AAGGTTCCTTTTTTTTGAGGGTACTCCCGGGAACAGATCCAGTGG
Found at i:113734 original size:21 final size:20
Alignment explanation
Indices: 113693--113731 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
113683 CCTGTTATCC
*
113693 AATAAAAACCTAAAATTCCT
1 AATAAAAACCTAAAATCCCT
113713 AATAATAAACC-AAAATCCC
1 AATAA-AAACCTAAAATCCC
113732 CTACACGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.56, C:0.23, G:0.00, T:0.21
Consensus pattern (20 bp):
AATAAAAACCTAAAATCCCT
Left flanking sequence: Indices 113193 -- 113692
AATAATAGATCCAGACCCTAAAAATAATAATGCTTTGGAATAAGCATGAGTAATCAAATGAAATA
AAGCACTTCGATAAGATCCCATTCCTAGAGCTAACATCATATAACCCAATTGAGACATGGTCGAA
TAGGCTAAACCCCTCTTAATGTCTTTTTGAGCAAGAGCTAAAGTAGCTCCTAATAATACTGTTAT
TATTCCTATGAACGAGATTAAATTCATTATGTAAGGTATAACTATAAAAAGAGGAAGAAGGCGAG
CTACAAGAAAAATTCCCGCTGCTACCATAGTAGCAGCATGTATAAGAGCCGAAATAGGAGTAGGT
CCCTCCATAGCATCAGGTAACCATACATGAAGGGGAAATTGTGCAGATTTCGCAACTGCACCGGT
AAATAATAGAGCAGCACACAAAGTAACAAATGAAGAATTGACTTTATTATTATAAATCAAGTTAT
TTAATATTTCGAATAAATCCCGAAATTCGAAACTACCTGTTATCC
Right flanking sequence: Indices 113732 -- 114231
CTACACGATTAGTTACAAACGCTTTTTGACAAGCATTTGCCGCAATAGGTCGTGTGAACCAAAAC
CCTATTAATAGATAGGAACACATTCCAACCAATTCCCAAAAAATATAAATTTGTATCAAATTGGA
ACTAGTAACTAATCCTAACATGGAAGTACTGAAAAAACTCATATAAGCAAAAAATCTCAAGTATC
CTTGATCATGAGCCATATAATTATCACTATAAATAAGAACCATAATTCCAACAGTAGTGATTAAA
ATTGACATAATAGAAGTAAGTGGATCGATCAAGTAGCCGAATTCTAAAGAAAAATCATTATTGAT
GGTCCAAGACCATACATATTGATAGATACAACTACTATTTATTTGCTGAATAGACAGATTAATTG
AAAAAATCATGACTATACTTAACAATAAAATACTCGGAAAGGCCCACATACGACGAAGATTTTTT
GTTGCCGTCGGAAAAAGAAGAAGTCCGACTCCTATTAACATAGGA
Found at i:128158 original size:14 final size:14
Alignment explanation
Indices: 128136--128174 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
128126 TCGCGCTCCC
*
128136 CTTTCTTTTGTTCT
1 CTTTTTTTTGTTCT
*
128150 CTTTTTTTTCTTCT
1 CTTTTTTTTGTTCT
128164 CTTTTTGTTTG
1 CTTTTT-TTTG
128175 CTCTTCTGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 18 0.86
15 3 0.14
ACGTcount: A:0.00, C:0.18, G:0.08, T:0.74
Consensus pattern (14 bp):
CTTTTTTTTGTTCT
Left flanking sequence: Indices 127636 -- 128135
AATTTTCCAATTTTTTTTTCGAGTTCCTTAAAAATGGGTTCAAAAAAAGAGGGTCGTTTTCGGGG
AGAACCAAAAGGAAGTTCGGTTTCCATTCCCAAAACTGTTAAAAAACAAAAATCATCTTTTTCTT
TTTTCTTTTTCATTATTAGATCTTTATGAGAGAATCGGAGTTTAGATCTGTACCAAGGTTTCAGA
CAGAAAGGAAATAATATTTTTATCTGAATACCATCTGTCAACCAATTTTGTGGAAATTCTGTTTC
GGACAATTGAACACCATTATAGGTACATTTAACATGCATCTCCCTATTCCATTCCTCTAAATCCT
CATACCATTCAGGAAGTTGCAATAGTAGCATACGTCCAATATTTTTAGCTATTATCAATGAAGGT
AATATAATATATTTTCTAAAAATAGATTGAGTTATTAACATGTAACCCCTTATTACTTGCGCAAA
TGGAATGGTATCCCAGGTCTCTGCTATCCCTATTTTCGCGCTCCC
Right flanking sequence: Indices 128175 -- 128674
CTCTTCTGTATACTCTACAATTTTGAATGCTGACCCCCTCCCTACCCAATTTCTAAAAATTTGTT
TAATTGGCCCAGAGATATCAAAAGAAAAAAGAAGGGATTTTTTTATTCTGTCCAAAAAAAGAGGG
GAATGCACATTTGCTTGAAACAGTTCCCAAATAACTATTTTACGCCTTTGAGCACGTATAGAACC
TTTTATTATGCCTCGCCTAAAATCTGATTGTTGTGAATAGCGTAGCAAAGCTACTTCGTATGTTT
GATCAGGAGGATTAGTATCCTCAGTATGCTCCTCGTTACCAGTAAAAATTACTACACGTTTGGCT
TTTCTTGAACGAAGTTCAAGATCTAATGGTCCGTTTTCTTTATATTCTTCTGCTTCGTATTCCAA
ATCGCTGGTTAATTTGTATAACCAGCGAGGTACTTTTTTACTGATTTCTTTTATTCTAATCGATT
TTTTACTAATTTTTTGAACATTAGTATCAGTTATAATTCTATTTT
Found at i:132142 original size:31 final size:31
Alignment explanation
Indices: 132100--132160 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
132090 AGCTTTTGGT
132100 TTTTTCATGTTGTCAAAGAGTTGAACAATGG
1 TTTTTCATGTTGTCAAAGAGTTGAACAATGG
* *
132131 TTTTTCGTGTTGTCAAAGATTTGAACAATG
1 TTTTTCATGTTGTCAAAGAGTTGAACAATG
132161 AAAATAGATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (31 bp):
TTTTTCATGTTGTCAAAGAGTTGAACAATGG
Left flanking sequence: Indices 131600 -- 132099
CCACTGGATCTGTTCCCGGGAGTACCCTCAAAAAAAAGGAACCTTTCCTCTCCCCTCCCCAGCCA
TTTCATTTCGGGTTAAGAAGATGTGAAAGCGCGTTTATCTCTATAAGAACGGTGCGTTCCGAGGT
GTGAAGTGGGAGAGAAGGGATGTCATAATTGGGGTTTTGAATAAGACGACCTTTTTATTTTTCAT
TTTTTTCGTTGAAAAAGGAATAAGAATGAGAGGTGTTAAGCTTTTTATCATCCTGGCGTCGAGCT
ATTTTTCCGCAGGACCTCCCCTACAGTATCGTCACCGCAGTAGAGTTTAACCACCAAGTTCGGGA
TGGATTGGTGTGGTTCCTCTACGCCTAGGACACCAGAATATCGAACCATGAACGAAGAAAGGCAT
GAGAGAAAAGCCTATTGGCTAGTGATTGTGAGGCCCCAATTCTTGACTGGAGGGGACACCAAAGG
CCTCTGCCCTTCCATCCGATAGAGAGGGAGGGCAGAGCTTTTGGT
Right flanking sequence: Indices 132161 -- 132660
AAAATAGATGGCGAGTGCCTGATCGAATTGATCAGGTCATGTAGGAACAAGGTTCAAGTCTACCG
GTCTGTTAGGATGCCTCAGCTGCATACATCACTGCACTTCCACTTGACACCTATCGTAATGATAA
ACGGCTCGTCTCGCCGTGACCTTCTCTTGAATTCTCAAAACTTCTGTCGCTCCATCCCCGCAGGG
GCAGAGAACCCGTCGCTGTCTCGGCTGTGCTACCGGAAGCTCTGGGGAAGTCGGAATAGGAGAGC
ACTCATCTTGGGGTGGGCTTACTACTTAGATGCTTTCAGCAGTTATCCGCTCCGCACTTGGCTAC
CCAGCGTTTACCGTGGGCACGATAACTGGTACACCAGAGGTGCGTCCTTCCCGGTCCTCTCGTAC
TAGGGAAAGGTCCTCTCAATGCTCTAACGCCCACACCAGATATGGACCGAACTGTCTCACGACGT
TCTGAACCCAGCTCACGTACCGCTTTAATGGGCGAACAGCCCAAC
Found at i:140129 original size:23 final size:23
Alignment explanation
Indices: 140084--140129 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
140074 ATCACTAACT
* * *
140084 AATACTAATCTAATATAATAGAA
1 AATACTAATATAATAGAAAAGAA
140107 AATACTAATATAATAGAAAAGAA
1 AATACTAATATAATAGAAAAGAA
140130 CTATCTTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.61, C:0.07, G:0.07, T:0.26
Consensus pattern (23 bp):
AATACTAATATAATAGAAAAGAA
Left flanking sequence: Indices 139584 -- 140083
CCCTATCGGAAATAGGATTGACTAGCGATTCCGAAGGAACTGGAGTTACATCTCTTTTCCATTTC
CATTCAAGAGTTCTTATGTGTTTCCACGCCCTTTGAGACCCCGAAAAATGGACAAATTCCTTTTC
TTAAGAACACATACAAGATTCGTCACTACAAGAAGGATAATGGTAACCCCACCATGAACTACTTC
ATTTATGAATTTCATAGTAATAGAAATACATGTCCTACCGAGACGGAATTTGTAACTTGCTCTCC
TCTTGCCTAGCAGGCAAAGATTGACCTCCGCGGAAAGGATGATTCATTCGGATCGACATGAGAGT
CCAACTACATTGCATTGCCAGAATCCATGTTGTATATTTGAAAGAGGTTGACCTCCTTGCTTCTC
TCATGTACACGCCGAACCCCTTTTCTCCTCGGTCCACAGAGACAAAATGTAGGACTGGTGCCAAC
AGTTCATCACGGAAGAAAGGACTCACTAAGCCGGGATCACTAACT
Right flanking sequence: Indices 140130 -- 140629
CTATCTTTTCTGTATACTTTCCCCGGTTCCGTTGCTATCGCGGGCTTTACGCAATCGATCGGATT
AGATAGATATCCCTTCAACACAACATAGGTCATCGAAAGGATCTCGGAGACCCACCAAAGTACGA
AAGCCAGGATCTTTCAGAAAACGGATTCCTATTCGAAGAGTGCATAACCGCATGGATAAGCTCAC
ACTAACCCGTCAATTTGGGATCCATTCGATATTTTCCTTGGGAGGTATCGGGAAGGAATTGGAAT
GGAATAAGATCGATTCATACAGAAGAAAAGGTTCTCTATTGATTCAAACACTGTACCTATGGGAT
AGGGATAGAGGAAGAGGAAAAAACCGAAGATTTCACATAGTACTTTTGATCGAAAAATCAATCAG
ATTGATTTCGTACCCTTCGTTCAATGAGAAAATGGGTCAAATTCTACAGGATCAAACCTATGGGA
CTTAAGGAATGATATAAAAAAAAAGAGAGGGAAAAATATTAAATA
Found at i:147932 original size:18 final size:18
Alignment explanation
Indices: 147911--147986 Score: 125
Period size: 18 Copynumber: 4.2 Consensus size: 18
147901 GTCACGATCG
147911 ATATCGTCACTAGCATCA
1 ATATCGTCACTAGCATCA
147929 ATATCGTCACTAGCATCA
1 ATATCGTCACTAGCATCA
* *
147947 ATATTGTCACTATCATCA
1 ATATCGTCACTAGCATCA
*
147965 ATATCGTCACTATCATCA
1 ATATCGTCACTAGCATCA
147983 ATAT
1 ATAT
147987 TGATATCATC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 55 1.00
ACGTcount: A:0.34, C:0.25, G:0.08, T:0.33
Consensus pattern (18 bp):
ATATCGTCACTAGCATCA
Left flanking sequence: Indices 147411 -- 147910
TCTGTGTAATACTAATCGATAGGGCCTCATTGGTAAGTGCTACAAGATCTCGTGCATTGGAACCC
ATGGTTATGGACCCGAATCCATTAGTATGGAACATTTTCTTTTCCAAGTGAAATCCCCTAGTATA
TGAAAGAGTGAAAAAGTGCTTTTGTTGTTGTGGAATAAGAAGCCTTCGTATCTTAATGCACGTAT
TTAATTTATTCGGAGCTATTAGAGCGGGATCCACTTTTTTGGGAATATGAGTCGAAGCAATAACA
AGAATATTTCTAGTGGAACATCTTTCAGAGAGATGGTTCACTAATAGACCGAGGGATAAGTAATT
CGACTCATTCACATCCAGATCATGAATGTTTGGAATCCATATTATGCAAGGAGACATTGCTTTTG
CTAATTCGAATTGAAGGGTGATATAAAATCGGTCTATTTCCGGCATCATATCCATAGTTAGCGCA
TTCATCATAGTTAGCAGTTCCAGCTCCGTATCAAGGTCACGATCG
Right flanking sequence: Indices 147987 -- 148486
TGATATCATCAATAAGAAAACCTTTAGGCTTGTTATCCAGGAACTTGTTCAGAAATACCGTAATG
AAAGGAACATAGGAGTTTGTCGCTAGGTATTTGACCAAATAGGATCGTCCAGTTCCTATAGAACC
TATCACTAAAATCCCCCTAGAGGGGGATAAGGCTAAGCGGAGCGAAAAGGGTTTTCCATGAGATG
GGAAATGAAAAGTATTAGTCCCACACGAAGTTTGTGAATAAGTGATTGTCTGATAATGAGCAAGG
AATACCCGTCTTTCTGCTAAACAGGATGTATTGAACTCATAATTCAATAGATACTTTTTATGAAT
GTCAACTAAGTATCGTAAGTAAATTGCTCCCGGTTGTTCAATCATTTGATAACCAGAGTCATTCT
TTGATAAATGATCACTATGAGTCAGACTCAATAGAATTTGATCAATCCTTTTTTCTGTCGTTAAG
GCGGAGAACTGAACCAAGAATTCTCTTTCTTCATCATCAATCGAA
Found at i:147978 original size:9 final size:9
Alignment explanation
Indices: 147912--147978 Score: 53
Period size: 9 Copynumber: 7.4 Consensus size: 9
147902 TCACGATCGA
147912 TATCGTCAC
1 TATCGTCAC
* * *
147921 TAGCATCAA
1 TATCGTCAC
147930 TATCGTCAC
1 TATCGTCAC
* * *
147939 TAGCATCAA
1 TATCGTCAC
*
147948 TATTGTCAC
1 TATCGTCAC
* *
147957 TATCATCAA
1 TATCGTCAC
147966 TATCGTCAC
1 TATCGTCAC
147975 TATC
1 TATC
147979 ATCAATATTG
Statistics
Matches: 40, Mismatches: 18, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
9 40 1.00
ACGTcount: A:0.31, C:0.27, G:0.09, T:0.33
Consensus pattern (9 bp):
TATCGTCAC
Left flanking sequence: Indices 147412 -- 147911
CTGTGTAATACTAATCGATAGGGCCTCATTGGTAAGTGCTACAAGATCTCGTGCATTGGAACCCA
TGGTTATGGACCCGAATCCATTAGTATGGAACATTTTCTTTTCCAAGTGAAATCCCCTAGTATAT
GAAAGAGTGAAAAAGTGCTTTTGTTGTTGTGGAATAAGAAGCCTTCGTATCTTAATGCACGTATT
TAATTTATTCGGAGCTATTAGAGCGGGATCCACTTTTTTGGGAATATGAGTCGAAGCAATAACAA
GAATATTTCTAGTGGAACATCTTTCAGAGAGATGGTTCACTAATAGACCGAGGGATAAGTAATTC
GACTCATTCACATCCAGATCATGAATGTTTGGAATCCATATTATGCAAGGAGACATTGCTTTTGC
TAATTCGAATTGAAGGGTGATATAAAATCGGTCTATTTCCGGCATCATATCCATAGTTAGCGCAT
TCATCATAGTTAGCAGTTCCAGCTCCGTATCAAGGTCACGATCGA
Right flanking sequence: Indices 147979 -- 148478
ATCAATATTGATATCATCAATAAGAAAACCTTTAGGCTTGTTATCCAGGAACTTGTTCAGAAATA
CCGTAATGAAAGGAACATAGGAGTTTGTCGCTAGGTATTTGACCAAATAGGATCGTCCAGTTCCT
ATAGAACCTATCACTAAAATCCCCCTAGAGGGGGATAAGGCTAAGCGGAGCGAAAAGGGTTTTCC
ATGAGATGGGAAATGAAAAGTATTAGTCCCACACGAAGTTTGTGAATAAGTGATTGTCTGATAAT
GAGCAAGGAATACCCGTCTTTCTGCTAAACAGGATGTATTGAACTCATAATTCAATAGATACTTT
TTATGAATGTCAACTAAGTATCGTAAGTAAATTGCTCCCGGTTGTTCAATCATTTGATAACCAGA
GTCATTCTTTGATAAATGATCACTATGAGTCAGACTCAATAGAATTTGATCAATCCTTTTTTCTG
TCGTTAAGGCGGAGAACTGAACCAAGAATTCTCTTTCTTCATCAT
Found at i:147993 original size:15 final size:16
Alignment explanation
Indices: 147937--148000 Score: 67
Period size: 18 Copynumber: 3.8 Consensus size: 16
147927 CAATATCGTC
*
147937 ACTAGCATCAATATTG
1 ACTATCATCAATATTG
*
147953 TCACTATCATCAATATCGTC
1 --ACTATCATCAATAT--TG
147973 ACTATCATCAATATTG
1 ACTATCATCAATATTG
147989 A-TATCATCAATA
1 ACTATCATCAATA
148001 AGAAAACCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
15 11 0.27
16 2 0.05
18 27 0.66
20 1 0.02
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.34
Consensus pattern (16 bp):
ACTATCATCAATATTG
Left flanking sequence: Indices 147437 -- 147936
TCATTGGTAAGTGCTACAAGATCTCGTGCATTGGAACCCATGGTTATGGACCCGAATCCATTAGT
ATGGAACATTTTCTTTTCCAAGTGAAATCCCCTAGTATATGAAAGAGTGAAAAAGTGCTTTTGTT
GTTGTGGAATAAGAAGCCTTCGTATCTTAATGCACGTATTTAATTTATTCGGAGCTATTAGAGCG
GGATCCACTTTTTTGGGAATATGAGTCGAAGCAATAACAAGAATATTTCTAGTGGAACATCTTTC
AGAGAGATGGTTCACTAATAGACCGAGGGATAAGTAATTCGACTCATTCACATCCAGATCATGAA
TGTTTGGAATCCATATTATGCAAGGAGACATTGCTTTTGCTAATTCGAATTGAAGGGTGATATAA
AATCGGTCTATTTCCGGCATCATATCCATAGTTAGCGCATTCATCATAGTTAGCAGTTCCAGCTC
CGTATCAAGGTCACGATCGATATCGTCACTAGCATCAATATCGTC
Right flanking sequence: Indices 148001 -- 148500
AGAAAACCTTTAGGCTTGTTATCCAGGAACTTGTTCAGAAATACCGTAATGAAAGGAACATAGGA
GTTTGTCGCTAGGTATTTGACCAAATAGGATCGTCCAGTTCCTATAGAACCTATCACTAAAATCC
CCCTAGAGGGGGATAAGGCTAAGCGGAGCGAAAAGGGTTTTCCATGAGATGGGAAATGAAAAGTA
TTAGTCCCACACGAAGTTTGTGAATAAGTGATTGTCTGATAATGAGCAAGGAATACCCGTCTTTC
TGCTAAACAGGATGTATTGAACTCATAATTCAATAGATACTTTTTATGAATGTCAACTAAGTATC
GTAAGTAAATTGCTCCCGGTTGTTCAATCATTTGATAACCAGAGTCATTCTTTGATAAATGATCA
CTATGAGTCAGACTCAATAGAATTTGATCAATCCTTTTTTCTGTCGTTAAGGCGGAGAACTGAAC
CAAGAATTCTCTTTCTTCATCATCAATCGAATCACTGTTCGCGAC
Found at i:150410 original size:24 final size:22
Alignment explanation
Indices: 150323--150412 Score: 76
Period size: 21 Copynumber: 4.1 Consensus size: 22
150313 ACTCACACAG
* *
150323 AAAAAAGGAAGTGAGTTAGACA
1 AAAAAAAGAAGTGACTTAGACA
* ** *
150345 AAAAGAA-AAGCAACTTGGAC-
1 AAAAAAAGAAGTGACTTAGACA
*
150365 AAAAAAAGAAGTGACTTGGACA
1 AAAAAAAGAAGTGACTTAGACA
*
150387 AAAAGAAACGAAGTGGCTTAGACA
1 AAAA-AAA-GAAGTGACTTAGACA
150411 AA
1 AA
150413 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:0.10, G:0.23, T:0.12
Consensus pattern (22 bp):
AAAAAAAGAAGTGACTTAGACA
Left flanking sequence: Indices 149823 -- 150322
GTCCATACGTAAAATCATAATTATAGATACGGGCCTTTTCCACAGAAAAGGGGAATCTTGTGTTA
CAATAGAAGCAGAAGTGATGTGGATTATTCAAGAATCGAAGTCGATTTGCTTTATAAAAAGAAGA
TATCAATGAACTTCTATGAAATGGTTTCACGGGATTCAGCCAATTGTCTTGATTGTGGGATATCA
TTGAGAAATAGGAATCCGTGTTATCAAAGGATTTCCTGCGATTATTTCTAGTATGGAATGAGTCA
ATCATCCACTTTGGGATCTTATTGAACAAAAAGGGTGATATTGTTCCTCCATTGATCAAGAATTT
CGATTTTCGGGAAGTATCATGATCATCCAATAAGAAGGGTTTCCATTTTTTCAAATGAACAATTT
GAAGACCTATTGATTCTAACAACTGATTGCAGAGTTGATCATTCGGACCTTTCAATTCATAGATG
TAGATCTCGGACCTATGAATGGGGATATTCCCGAAACTCACACAG
Right flanking sequence: Indices 150413 -- 150912
TCTTTTTTGTCGATAACCTCAGACCAATCAATCGAATATTGATTAATACGTAATTGATCGAACAC
TACTTGCAAACGGCTCTTCTGCTCAGAAACGAAATGTTCCAAATGTTCCTGGAAATTCTTGCTCC
CATTGGACCATTTGTATCTATATGCATCAGGATCCCGATTCATGGATTTCTCGGTTCGAGAAATC
AAGATAAGAGGATCGAACTGACTCTTTTTCAAATTCGATAAATGTTGGTTGATCGTATATTTCAT
TATAGTTCTATGATTCAGAGTATCCTTTCCTATTTGATCCCTTTGAATTCCATATTCGAAGTTGC
GATCGGATCGATTCATTAAAAAGAATCGATGCAATACATTTCTTATGTACCCATAGGTACTATAT
TGGATTTGAATCAGATTTCGGATCAATCTATATTGATTGACTGCCTCCATTATGTTGTTGCTAGC
AAATACCACTATTTTTGGTTTTGGATCTTCCAAATCATTCCCGCA
Done.