Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_062584
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: 150177
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Found at i:5964 original size:27 final size:27
Alignment explanation
Indices: 5932--6020 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
5922 ATAGAAAGAA
5932 ATATATTCTTATTATACAATACAATAT
1 ATATATTCTTATTATACAATACAATAT
* * * * * *
5959 ATATATTTTTGAATCTTCAAGTA-AAGAA
1 ATATATTCTT-ATTATACAA-TACAATAT
5987 ATATATTCTTATTATACAATACAATAT
1 ATATATTCTTATTATACAATACAATAT
6014 ATATATT
1 ATATATT
6021 TTTGAATCTT
Statistics
Matches: 47, Mismatches: 12, Indels: 6
0.72 0.18 0.09
Matches are distributed among these distances:
26 2 0.04
27 25 0.53
28 18 0.38
29 2 0.04
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (27 bp):
ATATATTCTTATTATACAATACAATAT
Left flanking sequence: Indices 5432 -- 5931
CGGATCCTTTCTATTTTCCATATATTTACGAAGTTGTTCTGGTTGATTGGCATTAACCCTAGATC
CTTGCCCCTAAGAAATGAATTAATACTTGCGGCTCGAGCTCCATCATGGACTATTTACAACCCCG
ACAAAAAACGAAGGGTTCAAGTGTAACAGAACAAACAATGTCGAGCCAAGAGCACCTCATTTCTA
GACAAATCTAAAATGGTGGGTGTAAAAATCCACAACGGGTCGTATCCTTCAAGTCGCACGTTGCT
TTCTACCACATCGTTTCAAACGGAGTTTTACCATAACATTCCTCTAATTTGGAACCGGTATGGAA
TTGATTCAATTATGGAATCATGAATAGTCATTGGTTCGGCTGTTCATAGACACCGCAATCCACAT
TTTTTCTTCTATATATGATACACGAAACAATTTTTTCTGAAAAAATCTTAGCAAAACAACACTCT
TAACATATTTAACAGACTAATAGAATATATAGATAATAGAAAGAA
Right flanking sequence: Indices 6021 -- 6520
TTTGAATCTTCAAGTGACTTAATAAGATAAATTAAATGATTTCCTACTTTGTCAAAGATTCCACG
TAGAGGGAATCATTAAAAATACTAAAAAAAAGATTTCTAAATGAAATGAACTATTTGAATTAAAC
ATCATTATTTAATTCACTTTAATTTGATCGGGTTTGAAGAAAATTGGACAATAAGCATCGCCTTT
CTTTATAGCTTTATAGAAAAACCAGCCTTTCTTTTTGAATTGACTCGTCACTAATTTCAAATAAA
AATTTGAAATAGATCAAAGAAATAAATAAGAAAAAAGAAATCCTTTTTTCATGAGATGTATAAAA
AAATAATGTAAGCTAATATTTGAATTTTGATTCTTTTAATCAGATTACGAAAATCAAAATAAAAA
AAAATAGGTAAGGTTTCTCCTATCTATCAGATAGACTGCTACACTGAACTGTTGTCACTGTTTGT
TATAGATATTTTATATAAATATCTAATATGAACTGTAAAATGCGG
Found at i:5988 original size:55 final size:55
Alignment explanation
Indices: 5926--6035 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
5916 TAGATAATAG
5926 AAAGAAATATATTCTTATTATACAATACAATATATATATTTTTGAATCTTCAAGT
1 AAAGAAATATATTCTTATTATACAATACAATATATATATTTTTGAATCTTCAAGT
5981 AAAGAAATATATTCTTATTATACAATACAATATATATATTTTTGAATCTTCAAGT
1 AAAGAAATATATTCTTATTATACAATACAATATATATATTTTTGAATCTTCAAGT
6036 GACTTAATAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.42
Consensus pattern (55 bp):
AAAGAAATATATTCTTATTATACAATACAATATATATATTTTTGAATCTTCAAGT
Left flanking sequence: Indices 5426 -- 5925
TCAAATCGGATCCTTTCTATTTTCCATATATTTACGAAGTTGTTCTGGTTGATTGGCATTAACCC
TAGATCCTTGCCCCTAAGAAATGAATTAATACTTGCGGCTCGAGCTCCATCATGGACTATTTACA
ACCCCGACAAAAAACGAAGGGTTCAAGTGTAACAGAACAAACAATGTCGAGCCAAGAGCACCTCA
TTTCTAGACAAATCTAAAATGGTGGGTGTAAAAATCCACAACGGGTCGTATCCTTCAAGTCGCAC
GTTGCTTTCTACCACATCGTTTCAAACGGAGTTTTACCATAACATTCCTCTAATTTGGAACCGGT
ATGGAATTGATTCAATTATGGAATCATGAATAGTCATTGGTTCGGCTGTTCATAGACACCGCAAT
CCACATTTTTTCTTCTATATATGATACACGAAACAATTTTTTCTGAAAAAATCTTAGCAAAACAA
CACTCTTAACATATTTAACAGACTAATAGAATATATAGATAATAG
Right flanking sequence: Indices 6036 -- 6535
GACTTAATAAGATAAATTAAATGATTTCCTACTTTGTCAAAGATTCCACGTAGAGGGAATCATTA
AAAATACTAAAAAAAAGATTTCTAAATGAAATGAACTATTTGAATTAAACATCATTATTTAATTC
ACTTTAATTTGATCGGGTTTGAAGAAAATTGGACAATAAGCATCGCCTTTCTTTATAGCTTTATA
GAAAAACCAGCCTTTCTTTTTGAATTGACTCGTCACTAATTTCAAATAAAAATTTGAAATAGATC
AAAGAAATAAATAAGAAAAAAGAAATCCTTTTTTCATGAGATGTATAAAAAAATAATGTAAGCTA
ATATTTGAATTTTGATTCTTTTAATCAGATTACGAAAATCAAAATAAAAAAAAATAGGTAAGGTT
TCTCCTATCTATCAGATAGACTGCTACACTGAACTGTTGTCACTGTTTGTTATAGATATTTTATA
TAAATATCTAATATGAACTGTAAAATGCGGGACGTGATAATTTGT
Found at i:53225 original size:18 final size:18
Alignment explanation
Indices: 53202--53237 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
53192 GATTTACATA
53202 TACAACATATACCACCCT
1 TACAACATATACCACCCT
53220 TACAACATATACCACCCT
1 TACAACATATACCACCCT
53238 CAAGAGGGAA
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:0.39, C:0.39, G:0.00, T:0.22
Consensus pattern (18 bp):
TACAACATATACCACCCT
Left flanking sequence: Indices 52702 -- 53201
AACCAGAAGTAGTAGGATTAATTCTCATAATAATAATAAATAAAAAAATATGTCGAAATTAATTA
TCGAATTCAAAATAAATGTCCAATAGTATGTCGATCGGTTAATTCAATAACAAATGGGAGTTAGC
ACTCCACTTTGTTGGTGCTCTCCAATCGAATCCAATTCAATCGTTTATTCTTCAATTCAATGATT
CAATGAGTAAATTTTCAAACCCAACCAAGCTGTTTTTTAAAGTTCAAATGGATGAATAAAGGTCT
TGCGAAAGTTTTTCATTTATCTATCATTATAGACAACCCCATCTATATTATAGAAAAGATTCTAT
GGAATTCGAACCCAAACTCTATTTCCATTACGATTCATTATTTCTATCTTATTGGCTTTTCTTAT
TTTTTAGTTCAGCATATTGATTTAGGTCTATAGCCTCTTTGTTTTTTTATACCCTTTCATTATCA
TTTCATAGACGAATTACGCCTATTTTCGCATCTAGGATTTACATA
Right flanking sequence: Indices 53238 -- 53737
CAAGAGGGAATTTTTTATTAGTTAGGTTAGGTATTTTGATTCCAAAAAAGATCAAAAAGAAAAAT
GGGGTTGCGCTATATATATGAAAGAGTATACAATAATGATGTGTTTGGTAAATCAAATACCATGG
TCTAATAATCAAACATTCTGATTAGTTGATAATATTAGTATTTAGTATTAGTTGGGAAGTTTGTG
AAAGATTCCTGGGAAAGGTTTCATTAACGCCCAATTCATTCGTGTCGAGTAGACCTTGTTGTTGT
CAGAATTCTTAATTCATGAGTTGTAGGGAGGGATTTATGTCACCACAAACAGAGACTAAAGCAAG
TGTTGGATTCAAAGCGGGTGTTAAAGAGTACAAATTGACTTATTATACTCCTGAATATGAAACCA
AAGATACTGATATCTTGGCAGCATTCCGAGTAACTCCTCAACCTGGAGTTCCGCCTGAAGAAGCA
GGGGCCGCGGTAGCTGCCGAATCTTCTACTGGTACATGGACAACT
Found at i:57173 original size:16 final size:16
Alignment explanation
Indices: 57152--57183 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
57142 CAATTTACTC
57152 AAGTAGAGTATACTAA
1 AAGTAGAGTATACTAA
57168 AAGTAGAGTATACTAA
1 AAGTAGAGTATACTAA
57184 GTTTCATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.06, G:0.19, T:0.25
Consensus pattern (16 bp):
AAGTAGAGTATACTAA
Left flanking sequence: Indices 56652 -- 57151
TTGGGGTTATGGATTTTCAGTTTATGGGAGGCAGTATGGGATCCGTAGTCGGGGAGAAAATCACC
CGTTTGATTGAGTACGCTACCAATCAATTTCTGCCACTTATTATAGTGTGCGCTTCGGGGGGGGC
GCGCATGCAAGAAGGGAGTTTGAGCCTGATGCAAATGGCTAAAATATCGTCTGCTTTATATGATT
ATCAATCAAATAAAAAGTTATTTTATGTATCAATCCTTACATCTCCTACTACTGGCGGGGTAACA
GCTAGTTTTGGTATGTTGGGAGATATTATTATTGCCGAACCAAATTCCTACATTGCATTTGCGGG
TAAAAGAGTAATTGAACAAACATTGAATAAGACATTACCCGAAGGTTCACAAGCGGCCGAATATT
TATTCCAGAAGGGCTTATTTGACCTAATCGTACCGCGTAATCTTTTGAAAAGCATTCTGAGTGAG
TTATTTAAGTTCCACGCCTTCTTTCCTTTGAATTCCAATTTACTC
Right flanking sequence: Indices 57184 -- 57683
GTTTCATTTTTTTATTTGTAGCAAACAAGTATTTAGCTTATCAGAATCTTAGCTTATCGGAATCA
AAGTAACTAAAAAGGGAGTTTTTTTTAGCCACCTAAGATCTAATTGTAGAAAGAATCAAAATAAA
AAGTTCCGGATAACTCTTTCTTTATTAATTAAATTGGAAGCCAAGAACAAAACACAAAGAAACGA
AGAAAATGGATTATCAATGGATTATCATATGTATCTTTCATGTAGATGTAGATAGATGAATAAGT
CCATTTATTTAATTCTACATTCCTTGGACTTTTTCCTTATTCTATATACTCACTTAGATCTTTAA
TTAAAAACTGTCAAATTGAATTAATTAATAATAACTACAATTACTAATTATAATTAGTATAAATA
TAACATATGATATTAAAAAAAATAAGAACAGGTACAAATAATAAACCGAGGTACCCCATTTTATG
ACAACTTTCAACTTTCCCTCTATTTTTGTGCCTTTAGTAGGCCTA
Found at i:57237 original size:16 final size:16
Alignment explanation
Indices: 57216--57247 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
57206 AAACAAGTAT
57216 TTAGCTTATCAGAATC
1 TTAGCTTATCAGAATC
*
57232 TTAGCTTATCGGAATC
1 TTAGCTTATCAGAATC
57248 AAAGTAACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.38
Consensus pattern (16 bp):
TTAGCTTATCAGAATC
Left flanking sequence: Indices 56716 -- 57215
CCGTTTGATTGAGTACGCTACCAATCAATTTCTGCCACTTATTATAGTGTGCGCTTCGGGGGGGG
CGCGCATGCAAGAAGGGAGTTTGAGCCTGATGCAAATGGCTAAAATATCGTCTGCTTTATATGAT
TATCAATCAAATAAAAAGTTATTTTATGTATCAATCCTTACATCTCCTACTACTGGCGGGGTAAC
AGCTAGTTTTGGTATGTTGGGAGATATTATTATTGCCGAACCAAATTCCTACATTGCATTTGCGG
GTAAAAGAGTAATTGAACAAACATTGAATAAGACATTACCCGAAGGTTCACAAGCGGCCGAATAT
TTATTCCAGAAGGGCTTATTTGACCTAATCGTACCGCGTAATCTTTTGAAAAGCATTCTGAGTGA
GTTATTTAAGTTCCACGCCTTCTTTCCTTTGAATTCCAATTTACTCAAGTAGAGTATACTAAAAG
TAGAGTATACTAAGTTTCATTTTTTTATTTGTAGCAAACAAGTAT
Right flanking sequence: Indices 57248 -- 57747
AAAGTAACTAAAAAGGGAGTTTTTTTTAGCCACCTAAGATCTAATTGTAGAAAGAATCAAAATAA
AAAGTTCCGGATAACTCTTTCTTTATTAATTAAATTGGAAGCCAAGAACAAAACACAAAGAAACG
AAGAAAATGGATTATCAATGGATTATCATATGTATCTTTCATGTAGATGTAGATAGATGAATAAG
TCCATTTATTTAATTCTACATTCCTTGGACTTTTTCCTTATTCTATATACTCACTTAGATCTTTA
ATTAAAAACTGTCAAATTGAATTAATTAATAATAACTACAATTACTAATTATAATTAGTATAAAT
ATAACATATGATATTAAAAAAAATAAGAACAGGTACAAATAATAAACCGAGGTACCCCATTTTAT
GACAACTTTCAACTTTCCCTCTATTTTTGTGCCTTTAGTAGGCCTAGTATTTCCAGCAATTGCAA
TGGCTTCTTTATTTCTTCATGTTCAAAAAAACAAGATTGTTTAGA
Found at i:86527 original size:24 final size:22
Alignment explanation
Indices: 86499--86592 Score: 68
Period size: 21 Copynumber: 4.2 Consensus size: 22
86489 ACAAAAAAGA
*
86499 TTTGTCTAAGCCACTTCGTTTCTT
1 TTTGTCCAAGCCACTTC-TTT-TT
*
86523 TTTGTCCAAGTCACTTC-TTTT
1 TTTGTCCAAGCCACTTCTTTTT
*** *
86544 TTTGTCCAAGTTGCTT-TTCTT
1 TTTGTCCAAGCCACTTCTTTTT
*
86565 TTTGTCGAA-CTCACTTCCTTTTT
1 TTTGTCCAAGC-CACTT-CTTTTT
86588 TTTGT
1 TTTGT
86593 GTGAGTTTCG
Statistics
Matches: 56, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
21 30 0.54
22 2 0.04
23 9 0.16
24 15 0.27
ACGTcount: A:0.12, C:0.22, G:0.12, T:0.54
Consensus pattern (22 bp):
TTTGTCCAAGCCACTTCTTTTT
Left flanking sequence: Indices 85999 -- 86498
TTGGAAGACCCAAAACAAAAAATAGTGGTATTTGCTAGCAACAACATAATGGAGGCAGTCAATCA
ATATAGATTGATCCGAAATCTGATTCAAATCCAATATAGTACCTATGGGTACATAAGAAATGTAT
TGAATCAATTCTTTTTAATGAATCGATCCGATCGTAATTTCGAATATGGAATTCAAAGGGATCAA
ATAGGAAAGGATACTCTGAATCATAGAACTATAATGAAATATACGATCAACCAACATTTATCAAA
TTTGAAAAAGAGTCAGAAGAAACGGTTCGATCCTCTTATCTTGATTTCTCGAACCGACGAGAGAT
TCATGAATCGGGATCCTGATGCATATAGATACAAATGGTCCAATGGGAGCAAGAATTTCCAGGAA
CATTTGGAACATTTCGTTTCTGAGCAGAAGAGCCATTTTCAAATAGTGTTCGATCAATTACGTAT
TAATCAATATTTGATTGATTGGTCTGAGGTTATCGACAAAAAAGA
Right flanking sequence: Indices 86593 -- 87092
GTGAGTTTCGGGAATATCCCCATTCATGGGTCCGAGATCTACATCTATGAATTGAAAGGCCCGAA
TGATCAACTCTGCAATCAGTTGTTAGAATCAATAGGTCTTCAAATTGTTCATTTGAAAAAATGGA
AACCCTTCTTATTGGATGATCATGATACTTCCCAAAAATGGAAATTCTTGATCAATGGAGGAACG
CCCTTTTTGTTCAATAAGATACCAAAGTGGATGATTGACTCATTCCATACTAGAAATAATCGCAG
GAAATCATTTGATAACGCGGATTCCTATTTCTCAATGATATTCCACAATCAAGACAATTGGCTGA
ATCCCGTGAAACCATTCCATAGAAGTTCATTGATATCTTCTTTTTATAAAGCAAATCGACTTCGA
TTCTTGAATAATCCACATCACTTCTGCTTCTACTGTAACACAAGATTCCCCTTTTCTGTAGAAAA
GGCCTGTATCAATAATTATGATTTTACGTATGGACAATTCCTCAA
Found at i:86567 original size:23 final size:21
Alignment explanation
Indices: 86521--86589 Score: 77
Period size: 21 Copynumber: 3.2 Consensus size: 21
86511 ACTTCGTTTC
86521 TTTTTGTCCAAGTCACTTCTT
1 TTTTTGTCCAAGTCACTTCTT
**
86542 TTTTTGTCCAAGTTGCTT-TT
1 TTTTTGTCCAAGTCACTTCTT
* *
86562 CTTTTTGTCGAACTCACTTCCTT
1 -TTTTTGTCCAAGTCACTT-CTT
86585 TTTTT
1 TTTTT
86590 TGTGTGAGTT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
20 2 0.05
21 30 0.77
22 5 0.13
23 2 0.05
ACGTcount: A:0.12, C:0.22, G:0.10, T:0.57
Consensus pattern (21 bp):
TTTTTGTCCAAGTCACTTCTT
Left flanking sequence: Indices 86021 -- 86520
TAGTGGTATTTGCTAGCAACAACATAATGGAGGCAGTCAATCAATATAGATTGATCCGAAATCTG
ATTCAAATCCAATATAGTACCTATGGGTACATAAGAAATGTATTGAATCAATTCTTTTTAATGAA
TCGATCCGATCGTAATTTCGAATATGGAATTCAAAGGGATCAAATAGGAAAGGATACTCTGAATC
ATAGAACTATAATGAAATATACGATCAACCAACATTTATCAAATTTGAAAAAGAGTCAGAAGAAA
CGGTTCGATCCTCTTATCTTGATTTCTCGAACCGACGAGAGATTCATGAATCGGGATCCTGATGC
ATATAGATACAAATGGTCCAATGGGAGCAAGAATTTCCAGGAACATTTGGAACATTTCGTTTCTG
AGCAGAAGAGCCATTTTCAAATAGTGTTCGATCAATTACGTATTAATCAATATTTGATTGATTGG
TCTGAGGTTATCGACAAAAAAGATTTGTCTAAGCCACTTCGTTTC
Right flanking sequence: Indices 86590 -- 87089
TGTGTGAGTTTCGGGAATATCCCCATTCATGGGTCCGAGATCTACATCTATGAATTGAAAGGCCC
GAATGATCAACTCTGCAATCAGTTGTTAGAATCAATAGGTCTTCAAATTGTTCATTTGAAAAAAT
GGAAACCCTTCTTATTGGATGATCATGATACTTCCCAAAAATGGAAATTCTTGATCAATGGAGGA
ACGCCCTTTTTGTTCAATAAGATACCAAAGTGGATGATTGACTCATTCCATACTAGAAATAATCG
CAGGAAATCATTTGATAACGCGGATTCCTATTTCTCAATGATATTCCACAATCAAGACAATTGGC
TGAATCCCGTGAAACCATTCCATAGAAGTTCATTGATATCTTCTTTTTATAAAGCAAATCGACTT
CGATTCTTGAATAATCCACATCACTTCTGCTTCTACTGTAACACAAGATTCCCCTTTTCTGTAGA
AAAGGCCTGTATCAATAATTATGATTTTACGTATGGACAATTCCT
Found at i:88938 original size:18 final size:18
Alignment explanation
Indices: 88905--88994 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
88895 AAGGTTTTCT
88905 TATTGATGATA-T--CGA
1 TATTGATGATAGTGACGA
88920 TATTGATGATAGTGACGA
1 TATTGATGATAGTGACGA
88938 TATTGATGATAGTGACGA
1 TATTGATGATAGTGACGA
*
88956 TATTGATCATAGTGACGA
1 TATTGATGATAGTGACGA
*
88974 TATTGATGATAGTGCCGA
1 TATTGATGATAGTGACGA
88992 TAT
1 TAT
88995 CGATCGTGAC
Statistics
Matches: 69, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
15 11 0.16
16 1 0.01
18 57 0.83
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (18 bp):
TATTGATGATAGTGACGA
Left flanking sequence: Indices 88405 -- 88904
GTCGCGAACAGTGATTCGATTGATGATGAAGAAAGAGAATTCTTGGTTCAGTTCTCCGCCTTAAC
GACAGAAAAAAGGATTGATCAAATTCTATTGAGTCTGACTCATAGTGATCATTTATCAAAGAATG
ACTCTGGTTATCAAATGATTGAACAACCGGGAGCAATTTACTTACGATACTTAGTTGACATTCAT
AAAAAGTATCTATTGAATTATGAGTTCAATACATCCTCTTTAGCAGAAAGACGGGTATTCCTTGC
TCATTATCAGACAATCACTTATTCACAAACTTCGCGTGGGACTAATACTTTGCATTTCCCATCTC
ATGGAAAACCCTTTTCGCTCCGCTTAGCCTTATCCCCCTCTAAGGGGATTTTAGTGATAGGTTCT
ATAGGAACTGGACGATCCTATTTGGTCAAATACCTAGCGACAAACTCCTATGTTCCTTTCATTAC
GGTATTTTTGAACAAGTTCCTGGATAACAAGCCTAAAGGTTTTCT
Right flanking sequence: Indices 88995 -- 89494
CGATCGTGACCTTGATACGGAGCTGGAACTGCTAACTATGATGAATGCGCTAACTATGGATATGA
TGCCGGAAATAGACCGATTTTATATCATCCTTCAATTTGAATTGGCAAAAGCAATGTCTCCCTGC
ATAATATGGATTCCAAACATTCATGATCTGGATGTGAATGAGTCGAATTACTTATCCCTCGGTCT
ATTAGCGAACCATCTCTCTGAAAGATGTTCCACTAGAAATATTCTTGTTATTGCTTCGACTCATA
TTCCCCAAAAAGTGGATCCCGCTCTAATAGCTCCGAATAAATTAAATATGTGCATTAAGATACGA
AGGCTTCTTATTCGACAACAACGAAAGCACTTTTTCACTCTTTCATATACTAGGGGATTTCACTT
GGAAAATAAAATGTTCCATACTAACGGATTCGGGTCCATAACCATGGGTTCCAATGCAAGAGATC
TTGTAGCACTTACCAATGAGGCCCTATCGATTAGTATTACACAGA
Found at i:88939 original size:9 final size:9
Alignment explanation
Indices: 88917--88993 Score: 66
Period size: 9 Copynumber: 8.6 Consensus size: 9
88907 TTGATGATAT
*
88917 CGATATTGA
1 CGATAGTGA
*
88926 TGATAGTGA
1 CGATAGTGA
*
88935 CGATATTGA
1 CGATAGTGA
*
88944 TGATAGTGA
1 CGATAGTGA
*
88953 CGATATTGA
1 CGATAGTGA
88962 TC-ATAGTGA
1 -CGATAGTGA
*
88971 CGATATTGA
1 CGATAGTGA
* *
88980 TGATAGTGC
1 CGATAGTGA
88989 CGATA
1 CGATA
88994 TCGATCGTGA
Statistics
Matches: 52, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
8 1 0.02
9 50 0.96
10 1 0.02
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (9 bp):
CGATAGTGA
Left flanking sequence: Indices 88417 -- 88916
GATTCGATTGATGATGAAGAAAGAGAATTCTTGGTTCAGTTCTCCGCCTTAACGACAGAAAAAAG
GATTGATCAAATTCTATTGAGTCTGACTCATAGTGATCATTTATCAAAGAATGACTCTGGTTATC
AAATGATTGAACAACCGGGAGCAATTTACTTACGATACTTAGTTGACATTCATAAAAAGTATCTA
TTGAATTATGAGTTCAATACATCCTCTTTAGCAGAAAGACGGGTATTCCTTGCTCATTATCAGAC
AATCACTTATTCACAAACTTCGCGTGGGACTAATACTTTGCATTTCCCATCTCATGGAAAACCCT
TTTCGCTCCGCTTAGCCTTATCCCCCTCTAAGGGGATTTTAGTGATAGGTTCTATAGGAACTGGA
CGATCCTATTTGGTCAAATACCTAGCGACAAACTCCTATGTTCCTTTCATTACGGTATTTTTGAA
CAAGTTCCTGGATAACAAGCCTAAAGGTTTTCTTATTGATGATAT
Right flanking sequence: Indices 88994 -- 89493
TCGATCGTGACCTTGATACGGAGCTGGAACTGCTAACTATGATGAATGCGCTAACTATGGATATG
ATGCCGGAAATAGACCGATTTTATATCATCCTTCAATTTGAATTGGCAAAAGCAATGTCTCCCTG
CATAATATGGATTCCAAACATTCATGATCTGGATGTGAATGAGTCGAATTACTTATCCCTCGGTC
TATTAGCGAACCATCTCTCTGAAAGATGTTCCACTAGAAATATTCTTGTTATTGCTTCGACTCAT
ATTCCCCAAAAAGTGGATCCCGCTCTAATAGCTCCGAATAAATTAAATATGTGCATTAAGATACG
AAGGCTTCTTATTCGACAACAACGAAAGCACTTTTTCACTCTTTCATATACTAGGGGATTTCACT
TGGAAAATAAAATGTTCCATACTAACGGATTCGGGTCCATAACCATGGGTTCCAATGCAAGAGAT
CTTGTAGCACTTACCAATGAGGCCCTATCGATTAGTATTACACAG
Found at i:91967 original size:12 final size:12
Alignment explanation
Indices: 91950--91974 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
91940 ATTTTTTTTT
91950 GATTTTATTCCA
1 GATTTTATTCCA
91962 GATTTTATTCCA
1 GATTTTATTCCA
91974 G
1 G
91975 TTAGTAAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.12, T:0.48
Consensus pattern (12 bp):
GATTTTATTCCA
Left flanking sequence: Indices 91450 -- 91949
CCTATTCCATGAATATGATATCTATCTAGTGTGATGTACGGAATATATGACAAAGGTGGAGTATT
TCTATTGATCAGTCATATAGACCCGAGTTGGACATCCAATTGCTTCGATTTGAATTATCCGGAGA
ATGCCTTATGTATATATCATAAAGATGGCCAATCAAACCTATTTTAGTTCTCGATTCAATAGAAG
CTCAAAGAGGTGAATAGGCCCCCCCCCAAAAAAAAAATAACGAGAGATATGGAAAAAGCAGGTCC
AATTACGCCTATTCCTAATCCTAAATTAAATGGAATGGAACGACGTAGGGATCCATATGTAAACA
TAGTATCTATTTAGATACGCTCGAATGGCTCCTTGAGAATGTATATAACCCTATCCCGGCCCGGT
CCGGTATGGGATGAACTTATAATCATGGAATCGACTCGATCATCAGATTATAAGTTCATAACCCT
AGCCCATTCCCGTTTTGGTCGGAACAGATCTACTAATTTTTTTTT
Right flanking sequence: Indices 91975 -- 92474
TTAGTAAGAAGAGTCTTGAACTAAGAAATAGATCCTAGAAGCTAAAAAAGGGTATCCTGAGCAAT
TGCAATAATCGGGTTCATTGATATTCCTGGTATAGTAGATGCTATCACACATACAATCATACTCA
ATTCGATGGAATTGTTTGATCTTAAAGGAGATCTTCTATAATTTCGCACGTGAGGGGTGATTTCT
TGGTTTCGTCCAGTCATTAATAACTTGATTATTTTTAGATAATAGTAGATAGAAACAACGCTTGT
AAGGAGTCCTATTAAAACCAAGGAATATAGGCCTGCCCGCCATCCACACCAGAATAAATAGAGTT
TTCCGAAAAAACCTGCTAGTGGAGGAAGACCTCCTAGGGATAAGAGACATAGGGCTAAAGAGAGA
GCCAAAAAAGGATCTTTCGTGTATAATCCTGCATAATCTCGAATGTTATCAGTTCCGGTACGTAG
ACCAAATAATACAATGCAAGCAAAAGCTCCTACATTCATGGAGAT
Found at i:96726 original size:18 final size:18
Alignment explanation
Indices: 96703--96740 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
96693 AGGACAGTTC
96703 TTTTCTATTATATTAGTA
1 TTTTCTATTATATTAGTA
*
96721 TTTTCTATTCTATTAGTA
1 TTTTCTATTATATTAGTA
96739 TT
1 TT
96741 CAATTAGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.08, G:0.05, T:0.63
Consensus pattern (18 bp):
TTTTCTATTATATTAGTA
Left flanking sequence: Indices 96203 -- 96702
TTTTTCCCTCTCTTTTTTTTTTATCATTTATCATTCCTTAAGTCCCATAGGTTTGATCCTGTAGA
ATTTGACCATTGAACGAAGGGTACGAAATAAATCTGATTGATTTTTCGATCAAAAGGACTATGTG
AAATCTTCGGTTTTTACTCTGCCTCTATCCCTATCCCATAGGTACAGAATCAAGAGAGAACCTTT
TCTTCTGTATGAATCGATCTTATTCCATTCCAATCCCTTCCCGATACCCCCCAAGGAAAATAAAA
TATCGAATTGGATGGAGCCCAAATTGACGGGTTAGTGTAAGCTTATCCATGCAGTTATGCACTCT
TCGAATAGGAATCCGTTTTCTGAAAGATCCTGGCTTTCGTACTTTGGTGGGTCTCCGAGATCCTT
TCGATGACCTATGTTGTGTTGATGTTGAAGGGATATCTATCTAATCCGATCGGTTGCGTAAAGCC
CGCGATAGCAACGGAACCGGGGAAAGTATACAGAAAGGACAGTTC
Right flanking sequence: Indices 96741 -- 97240
CAATTAGTTAGTGATTTAAATTAGTTAGTGATCCTGGCTTAGTGAGTCTTTTCTTCCGTGATGAA
CTGTTAGCACCAGCCCTACATTTTGTCTCCGCGGGCCGAGGAGAAAAGGGGCTCGGCGTGTACAC
GAGAGAAGCAAGGAGGTCAACCTCTTTCAAATATAAAATATACAACATGGGTTCTGGCAATGCAA
TGCAGTTGGACTCTCATGTCGATCCGAATGAATCATCCTTTCCGCGTAGGTAAATCTTTGCCTGC
TAGGCAAGAGGCTAGCAAATTACAAATTATGTCTCGGTAGGGCATGTATTTCTATTACTATGAAA
TTCATAAATGAAGTAGTTAATGGTGGCGTTACCATTATCCTTTTTGTAGTGACGAATCTTGTATG
TGTTCTTAAGACTTAAGAAAAGTAATTTGTTTCCTTTTCGGGGTCTCAAAGGGGCGTGGAAACAC
ATAAGAACTCTTGAATGGAAAGGGGATGTAACTCCAGTTCCTTCG
Found at i:107370 original size:25 final size:24
Alignment explanation
Indices: 107329--107378 Score: 57
Period size: 25 Copynumber: 2.0 Consensus size: 24
107319 AAACTAATAG
*
107329 AAATAGAAAAACGGATACACAAGAA
1 AAATAGAAAAACAGATA-ACAAGAA
*
107354 AAATAGAAGAAA-AGATAAGAAGAA
1 AAATAGAA-AAACAGATAACAAGAA
107378 A
1 A
107379 TACGGCCACC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 7 0.32
25 12 0.55
26 3 0.14
ACGTcount: A:0.68, C:0.06, G:0.18, T:0.08
Consensus pattern (24 bp):
AAATAGAAAAACAGATAACAAGAA
Left flanking sequence: Indices 106829 -- 107328
CTGGATACGGCAAAATCATTCTATTAGATCGAATAAGTACATTCGATCTAATAAGTACCTTGTAT
CAGAATTGAGAAATTCTATCGCCCGGATCTTTAGTATTCTCTTATTTATTACCTGTGTCTACTAT
TTAGGCAGAATACCGTCACCCCTTTTTACTAAGAAACTGAAAGAAACCTCAAAAACGGAAGAAAG
AGATGTAGAAATAGAAACAGCTTACGAAATGAAAGGGACTAAACAGGAACAAGAGGGGTCCAAAA
AAGAAGATCCTTCTCCTTCCTTTTTTGCGGAAGAAAAGGCGGATCTGAACAAAATCGATGAAATG
GAAGAAACCCAAGTGAATGGAAAGGGAAATGAATTCCACTTTCGATTTACAGAGACAGACTCTAA
AAATAGACCCGTTTCTGAAGAGTCTTATCTATATCTAATGAATATGAATGAGAATCAGGACAATT
CAAGATTCAAAATAAATGATTCAAAAACGGAAAAGAAACTAATAG
Right flanking sequence: Indices 107379 -- 107878
TACGGCCACCCCCTATATTTTTGCTACCTTCTCCTACAAAGAAACTCATGACACCAATCCCGTTG
GCAATTCCATCAATTATTTGTCTATCAAAAAAATGCGTTAATTTTGCCAATTTTCTTATTCCTCC
GGTAAAGGATGTTGTATAAAAAGTATCCATATAAGCCCGATTATATGACCAATCATATAGAGCGT
TTATAAATTTATCCCAATGTTTTCTTTTCGGACCTAACTTAACAAATGAATTTATTAAATCAAAA
TTTTTAAAAGACAAATAGGTGGGTTTATATAAAAAAGACGCGATAAATATTCCGAAATAAGCTAT
ACTGACTGACAAAGTTGCAGTTTTAAAAAATTCATACCAATTTATCGAATCTTTTAATTTTTCAT
GTAAAAAGTTAATAGGGGGTTCTAACCATTTGGTTAATATATCCAAATCTGTTCTAAAAGGAAGT
CCTATGGATCCAACAAAAAAAGTAAATAGGACTAATATAAGTAAA
Found at i:119839 original size:22 final size:22
Alignment explanation
Indices: 119796--119844 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
119786 CCCTATAATT
*
119796 ATATATATATTATATATATAAG
1 ATATATATATAATATATATAAG
* *
119818 GTATATATA-AATAGTATTTAAG
1 ATATATATATAATA-TATATAAG
119840 ATATA
1 ATATA
119845 CAGAAAAAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 3 0.14
22 19 0.86
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (22 bp):
ATATATATATAATATATATAAG
Left flanking sequence: Indices 119296 -- 119795
TGCGCAAACCTCTCTGAGATGAAAAGTCTTTTTTGTGCAATTCCAAATGTGAAGTAAGCCTCCTT
ATCTTAGTGGTGAAACTTAATATTTGAAATTCAACAGACCCTCTATTTTCTTCGTTTTCTTGTTG
AGAAATAATTGAAATGACTGAACTTTTTCCCATAAAAAAATTCTCCTTTTTCTTTGTACAAATAT
GGATTTTACCGATCAGTAATAATAATGCTCTTAAATTCTATGTGGTATATACAAAAATTTAATCC
AAATAACTCCTAATTTTCTGAATTCAAACCACCCAATCGAATTTGAAATTCGATTTATATAGAAA
TAGAAAATGATGGGTGCAGTCTCGCATCGAAGACCTCAAATTAAGAAACTTCTGTTAATTCATTT
CGAGATCTAATTGAGATATTATTCATAGTCATTTCATATTGGATACTAGAATGAGATGTGAGACA
AGAAAAGCACGTGATCGTTATATTAATTTCATATACCCTATAATT
Right flanking sequence: Indices 119845 -- 120344
CAGAAAAAGTGTATTATTCACAGAATTTCAATCGCGGATACAGATATATTCTTAACATGCTGAAA
CGGCTGCCATTATTGGTATTAAAACAATAACGATTCATACAAGCTAAATCTTCTAATCGATAATT
AGGCCAAAGAAAGAGTTTTAATTTCATTAATTTATTTTTTTCTATATCAAGATGATTATTGTTAG
GCGAAACTCGGCTGCTCTTTGTTACGTTCTTTTCATTCCAAAATAATGGATTTCCCTCTATAAAA
TTTCTATTCTTTGAACTGAAACAAATTAGAATTCTCGCTTTTCTACGACGTTTAAACGATAAAAT
ATTTTCTGGAACAAGTAAACCAAAATTATTTTTGTTTCTATTTTCGCTTATTCTTTGATGTGGTA
AAATAGTTTCATCAAAATTTTTCTTAGAAATATATCTTTGCTCTTGATATTTTTGATTAATTTGA
TGCTTACTCTTATGAAGCAACGAAATACCTAGCGTTTGGTACATA
Found at i:123045 original size:13 final size:14
Alignment explanation
Indices: 123027--123074 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
123017 CACTTTTTCC
123027 TTTC-TTTTGTTCT
1 TTTCTTTTTGTTCT
*
123040 TTTCTTTTTTTTCT
1 TTTCTTTTTGTTCT
*
123054 TCTCTTTTTGTT-T
1 TTTCTTTTTGTTCT
*
123067 GTTCTTTT
1 TTTCTTTT
123075 GTATACTCTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
13 11 0.38
14 18 0.62
ACGTcount: A:0.00, C:0.15, G:0.06, T:0.79
Consensus pattern (14 bp):
TTTCTTTTTGTTCT
Left flanking sequence: Indices 122527 -- 123026
TCTTTTTACTCTTTTCTATTTGTTTTTTTAATTCCTTTAAAATGGGTTTAAAAAAAGAAGGACGT
TTTCGGGGTGGACCAAAAGGAAGGTCCGCTTCCATACCCCAAATTGTTAAAAAACAAAAATCATC
TTTTTCTTTTTTCATTAGATCTTCCTGAAAGGATCGTGATTTTGATTTGCGCCAAGGTTTCAGAC
AGAAAGGAAACAATATTTTTATCTGGATACCGTCCGTCAACCAACTTTTTGGAAATTCTGTTTCG
GATAATGGAACACCGTTATAGGTACATTTAAGATGTATCTCTCTATCCCATTCCTGGAAATCCTC
AGCCCATTCAGGAAGTTGGAATAGAAGTATACGGCCAATATTTTTTGTAATTATTAACAAAGGTA
ATAGAATGCTTTTTCTAAAAATAGATTGAGTTATTAACATACAACCTCTTATTACTTGCGCAAGT
TGAATGCTATCCCAAGCCTCTGCTATCCCCATTCGCACTTTTTCC
Right flanking sequence: Indices 123075 -- 123574
GTATACTCTACCATTTTGAATGTTTCTCCGTTACACACCCAATTTCGAAAAATTACTTTAATAAA
TCCGGATATATCAAAAGAAAAAAGGGAGGATTTTTGCAGTCTTTCAAAAAAAAGGGGCGAATGGG
CATTTGCTTGAAACAATTCTGAAATAACTATTTTACGCCTTTGAACTCGCATAGAACCTTTGATT
ATATCTCGGCGAAAGTCTGATTGTTGTGAATAACGTATCAAAGCTACTTCATCTAGTTGATCGGG
CATTTTAGTATCCATAATAGTAGAATCACTACTCGTCGTGTTAGCAGTAAAAATCACTACACGTT
TGCCGTTTCTTGAACGAATTTGATGATCTACCGGTACGTCTTCTTGATATTCTCCTGATTGTTGT
TCTAAATCGGTAATTAATCTGTATGACCATCGAGGTATTGCTTTACTGATTTCTTTTATTCTAAT
TAATTTTCTGCTAATTTTTTGACCATCAGGATCAGTTACAATTTT
Found at i:123053 original size:14 final size:14
Alignment explanation
Indices: 123020--123062 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
123010 CCATTCGCAC
*
123020 TTTTTCCTTTC-TT
1 TTTTTCTTTTCTTT
*
123033 TTGTTCTTTTCTTT
1 TTTTTCTTTTCTTT
*
123047 TTTTTCTTCTCTTT
1 TTTTTCTTTTCTTT
123061 TT
1 TT
123063 GTTTGTTCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
13 9 0.36
14 16 0.64
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (14 bp):
TTTTTCTTTTCTTT
Left flanking sequence: Indices 122520 -- 123019
AAATACTTCTTTTTACTCTTTTCTATTTGTTTTTTTAATTCCTTTAAAATGGGTTTAAAAAAAGA
AGGACGTTTTCGGGGTGGACCAAAAGGAAGGTCCGCTTCCATACCCCAAATTGTTAAAAAACAAA
AATCATCTTTTTCTTTTTTCATTAGATCTTCCTGAAAGGATCGTGATTTTGATTTGCGCCAAGGT
TTCAGACAGAAAGGAAACAATATTTTTATCTGGATACCGTCCGTCAACCAACTTTTTGGAAATTC
TGTTTCGGATAATGGAACACCGTTATAGGTACATTTAAGATGTATCTCTCTATCCCATTCCTGGA
AATCCTCAGCCCATTCAGGAAGTTGGAATAGAAGTATACGGCCAATATTTTTTGTAATTATTAAC
AAAGGTAATAGAATGCTTTTTCTAAAAATAGATTGAGTTATTAACATACAACCTCTTATTACTTG
CGCAAGTTGAATGCTATCCCAAGCCTCTGCTATCCCCATTCGCAC
Right flanking sequence: Indices 123063 -- 123562
GTTTGTTCTTTTGTATACTCTACCATTTTGAATGTTTCTCCGTTACACACCCAATTTCGAAAAAT
TACTTTAATAAATCCGGATATATCAAAAGAAAAAAGGGAGGATTTTTGCAGTCTTTCAAAAAAAA
GGGGCGAATGGGCATTTGCTTGAAACAATTCTGAAATAACTATTTTACGCCTTTGAACTCGCATA
GAACCTTTGATTATATCTCGGCGAAAGTCTGATTGTTGTGAATAACGTATCAAAGCTACTTCATC
TAGTTGATCGGGCATTTTAGTATCCATAATAGTAGAATCACTACTCGTCGTGTTAGCAGTAAAAA
TCACTACACGTTTGCCGTTTCTTGAACGAATTTGATGATCTACCGGTACGTCTTCTTGATATTCT
CCTGATTGTTGTTCTAAATCGGTAATTAATCTGTATGACCATCGAGGTATTGCTTTACTGATTTC
TTTTATTCTAATTAATTTTCTGCTAATTTTTTGACCATCAGGATC
Found at i:123059 original size:27 final size:26
Alignment explanation
Indices: 123020--123074 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
123010 CCATTCGCAC
*
123020 TTTTTCCTTTC-TTTTGTTCTTTTCTT
1 TTTTTCCTTTCTTTTTGTT-TGTTCTT
*
123046 TTTTTTCTTCTCTTTTTGTTTGTTCTT
1 TTTTTCCTT-TCTTTTTGTTTGTTCTT
123073 TT
1 TT
123075 GTATACTCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 8 0.32
27 10 0.40
28 7 0.28
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.78
Consensus pattern (26 bp):
TTTTTCCTTTCTTTTTGTTTGTTCTT
Left flanking sequence: Indices 122520 -- 123019
AAATACTTCTTTTTACTCTTTTCTATTTGTTTTTTTAATTCCTTTAAAATGGGTTTAAAAAAAGA
AGGACGTTTTCGGGGTGGACCAAAAGGAAGGTCCGCTTCCATACCCCAAATTGTTAAAAAACAAA
AATCATCTTTTTCTTTTTTCATTAGATCTTCCTGAAAGGATCGTGATTTTGATTTGCGCCAAGGT
TTCAGACAGAAAGGAAACAATATTTTTATCTGGATACCGTCCGTCAACCAACTTTTTGGAAATTC
TGTTTCGGATAATGGAACACCGTTATAGGTACATTTAAGATGTATCTCTCTATCCCATTCCTGGA
AATCCTCAGCCCATTCAGGAAGTTGGAATAGAAGTATACGGCCAATATTTTTTGTAATTATTAAC
AAAGGTAATAGAATGCTTTTTCTAAAAATAGATTGAGTTATTAACATACAACCTCTTATTACTTG
CGCAAGTTGAATGCTATCCCAAGCCTCTGCTATCCCCATTCGCAC
Right flanking sequence: Indices 123075 -- 123574
GTATACTCTACCATTTTGAATGTTTCTCCGTTACACACCCAATTTCGAAAAATTACTTTAATAAA
TCCGGATATATCAAAAGAAAAAAGGGAGGATTTTTGCAGTCTTTCAAAAAAAAGGGGCGAATGGG
CATTTGCTTGAAACAATTCTGAAATAACTATTTTACGCCTTTGAACTCGCATAGAACCTTTGATT
ATATCTCGGCGAAAGTCTGATTGTTGTGAATAACGTATCAAAGCTACTTCATCTAGTTGATCGGG
CATTTTAGTATCCATAATAGTAGAATCACTACTCGTCGTGTTAGCAGTAAAAATCACTACACGTT
TGCCGTTTCTTGAACGAATTTGATGATCTACCGGTACGTCTTCTTGATATTCTCCTGATTGTTGT
TCTAAATCGGTAATTAATCTGTATGACCATCGAGGTATTGCTTTACTGATTTCTTTTATTCTAAT
TAATTTTCTGCTAATTTTTTGACCATCAGGATCAGTTACAATTTT
Found at i:124540 original size:216 final size:216
Alignment explanation
Indices: 124166--124597 Score: 864
Period size: 216 Copynumber: 2.0 Consensus size: 216
124156 AACCAGGAGG
124166 ATATGTAAAAGAGATTCTTTTTTTTCCATCACTTTGACATATGTCAAAAAAATATTGTGACGTTT
1 ATATGTAAAAGAGATTCTTTTTTTTCCATCACTTTGACATATGTCAAAAAAATATTGTGACGTTT
124231 CGTTTCTGACAACCCCGTTAAATTTATTATTTTTTATGTAGCGAAATGGTCGATTCCATCGTTTC
66 CGTTTCTGACAACCCCGTTAAATTTATTATTTTTTATGTAGCGAAATGGTCGATTCCATCGTTTC
124296 AAATCAAAAAGAAGAGTTAGAAGAGGTTTTTCTATTTCTATTAGTTTCTTTTCCGTTTTTGAATC
131 AAATCAAAAAGAAGAGTTAGAAGAGGTTTTTCTATTTCTATTAGTTTCTTTTCCGTTTTTGAATC
124361 ATTTATTTTGAATCTTGAATT
196 ATTTATTTTGAATCTTGAATT
124382 ATATGTAAAAGAGATTCTTTTTTTTCCATCACTTTGACATATGTCAAAAAAATATTGTGACGTTT
1 ATATGTAAAAGAGATTCTTTTTTTTCCATCACTTTGACATATGTCAAAAAAATATTGTGACGTTT
124447 CGTTTCTGACAACCCCGTTAAATTTATTATTTTTTATGTAGCGAAATGGTCGATTCCATCGTTTC
66 CGTTTCTGACAACCCCGTTAAATTTATTATTTTTTATGTAGCGAAATGGTCGATTCCATCGTTTC
124512 AAATCAAAAAGAAGAGTTAGAAGAGGTTTTTCTATTTCTATTAGTTTCTTTTCCGTTTTTGAATC
131 AAATCAAAAAGAAGAGTTAGAAGAGGTTTTTCTATTTCTATTAGTTTCTTTTCCGTTTTTGAATC
124577 ATTTATTTTGAATCTTGAATT
196 ATTTATTTTGAATCTTGAATT
124598 GTCCTGATTC
Statistics
Matches: 216, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
216 216 1.00
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.44
Consensus pattern (216 bp):
ATATGTAAAAGAGATTCTTTTTTTTCCATCACTTTGACATATGTCAAAAAAATATTGTGACGTTT
CGTTTCTGACAACCCCGTTAAATTTATTATTTTTTATGTAGCGAAATGGTCGATTCCATCGTTTC
AAATCAAAAAGAAGAGTTAGAAGAGGTTTTTCTATTTCTATTAGTTTCTTTTCCGTTTTTGAATC
ATTTATTTTGAATCTTGAATT
Left flanking sequence: Indices 123666 -- 124165
AATTCTGATTCTCTAACAAATTTGCTAATGAAAGTTAAAAAATTAACAATTTCCGTTGATAATGG
TTTTTTATCGAATTTATTTTTTTTCTGTTTAAATTCTCGATAATCGGCATCTGAAAGAAGTATAC
CATGAATCCTATTTATCTCAAATTTATCTATGATATTTTCTATCAAAGTATTTTTTAAAGTTGAA
GATGAAAGGTTTTTGTAAATTGTTTTCCGATATGATCCGTTGAGGAAAGGATCATATACCCTTGA
CAAGTATTCTTTTGTAGAATTTTCATTACACAGTCGACTTCTTGTTTCCAGTACACTTAAAGAAA
TAGCTTCTTTGTCTAGAGCTTTAATTCTATTTTGAAATTCGTTGTTGAAACTTTTCCCTTTTTGT
TTGTTGGTATAAACCCAAGGATTGTAAAGTGCATTACATAATAATTTTTCGAAAAGAGGCGGAGA
TATCCTTTTTTTTAGCATTTCCACAAAAATGGATAAACCAGGAGG
Right flanking sequence: Indices 124598 -- 125097
GTCCTGATTCTCATTCATATTCATTAGATATAGATAAGACTCTTCAGAAACGGGTCTATTTTTAG
AGTCTGTCTCTGTAAATCGAAAGTGGAATTCATTTCCCTTTCCATTCACTTGGGTTTCTTCCATT
TCATCGATTTTGTTCAGATCCGCCTTTTCTTCCGCAAAAAAGGAAGGAGAAGGATCTTCTTTTTT
GGACCCCTCTTGTTCCTGTTTAGTCCCTTTCATTTCGTAAGCTGTTTCTATTTCTACATCTCTTT
CTTCCGTTTTTGAGGTTTCTTTCAGTTTCTTAGTAAAAAGGGGTGACGGTATTCTGCCTAAATAG
TAGACACAGGTAATAAATAAGAGAATACTAAAGATCCGGGCGATAGAATTTCTCAATTCTGATAC
AAGGTACTTATTAGATCGAATGTACTTATTCGATCTAATAGAATGATTTTGCCGTATCCAGACTA
ATACCAATCCAAGCCATTTCATGAATAAAATGTGACCAATTAACC
Found at i:135160 original size:18 final size:18
Alignment explanation
Indices: 135137--135174 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
135127 TAACTAATTG
135137 AATACTAATAGAATAGAA
1 AATACTAATAGAATAGAA
*
135155 AATACTAATATAATAGAA
1 AATACTAATAGAATAGAA
135173 AA
1 AA
135175 GAACTGTCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.63, C:0.05, G:0.08, T:0.24
Consensus pattern (18 bp):
AATACTAATAGAATAGAA
Left flanking sequence: Indices 134637 -- 135136
CGAAGGAACTGGAGTTACATCCCCTTTCCATTCAAGAGTTCTTATGTGTTTCCACGCCCCTTTGA
GACCCCGAAAAGGAAACAAATTACTTTTCTTAAGTCTTAAGAACACATACAAGATTCGTCACTAC
AAAAAGGATAATGGTAACGCCACCATTAACTACTTCATTTATGAATTTCATAGTAATAGAAATAC
ATGCCCTACCGAGACATAATTTGTAATTTGCTAGCCTCTTGCCTAGCAGGCAAAGATTTACCTAC
GCGGAAAGGATGATTCATTCGGATCGACATGAGAGTCCAACTGCATTGCATTGCCAGAACCCATG
TTGTATATTTTATATTTGAAAGAGGTTGACCTCCTTGCTTCTCTCGTGTACACGCCGAGCCCCTT
TTCTCCTCGGCCCGCGGAGACAAAATGTAGGGCTGGTGCTAACAGTTCATCACGGAAGAAAAGAC
TCACTAAGCCAGGATCACTAACTAATTTAAATCACTAACTAATTG
Right flanking sequence: Indices 135175 -- 135674
GAACTGTCCTTTCTGTATACTTTCCCCGGTTCCGTTGCTATCGCGGGCTTTACGCAACCGATCGG
ATTAGATAGATATCCCTTCAACATCAACACAACATAGGTCATCGAAAGGATCTCGGAGACCCACC
AAAGTACGAAAGCCAGGATCTTTCAGAAAACGGATTCCTATTCGAAGAGTGCATAACTGCATGGA
TAAGCTTACACTAACCCGTCAATTTGGGCTCCATCCAATTCGATATTTTATTTTCCTTGGGGGGT
ATCGGGAAGGGATTGGAATGGAATAAGATCGATTCATACAGAAGAAAAGGTTCTCTCTTGATTCT
GTACCTATGGGATAGGGATAGAGGCAGAGTAAAAACCGAAGATTTCACATAGTCCTTTTGATCGA
AAAATCAATCAGATTTATTTCGTACCCTTCGTTCAATGGTCAAATTCTACAGGATCAAACCTATG
GGACTTAAGGAATGATAAATGATAAAAAAAAAAGAGAGGGAAAAA
Found at i:139920 original size:12 final size:12
Alignment explanation
Indices: 139903--139927 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
139893 TTCTTACTAA
139903 CTGGAATAAAAT
1 CTGGAATAAAAT
139915 CTGGAATAAAAT
1 CTGGAATAAAAT
139927 C
1 C
139928 AAAAAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (12 bp):
CTGGAATAAAAT
Left flanking sequence: Indices 139403 -- 139902
ATCTCCATGAATGTAGGAGCTTTTGCTTGCATTGTATTATTTGGTCTACGTACCGGAACTGATAA
CATTCGAGATTATGCAGGATTATACACGAAAGATCCTTTTTTGGCTCTCTCTTTAGCCCTATGTC
TCTTATCCCTAGGAGGTCTTCCTCCACTAGCAGGTTTTTTCGGAAAACTCTATTTATTCTGGTGT
GGATGGCGGGCAGGCCTATATTCCTTGGTTTTAATAGGACTCCTTACAAGCGTTGTTTCTATCTA
CTATTATCTAAAAATAATCAAGTTATTAATGACTGGACGAAACCAAGAAATCACCCCTCACGTGC
GAAATTATAGAAGATCTCCTTTAAGATCAAACAATTCCATCGAATTGAGTATGATTGTATGTGTG
ATAGCATCTACTATACCAGGAATATCAATGAACCCGATTATTGCAATTGCTCAGGATACCCTTTT
TTAGCTTCTAGGATCTATTTCTTAGTTCAAGACTCTTCTTACTAA
Right flanking sequence: Indices 139928 -- 140427
AAAAAAAAATTAGTAGATCTGTTCCGACCAAAACGGGAATGGGCTAGGGTTATGAACTTATAATC
TGATGATCGAGTCGATTCCATGATTATAAGTTCATCCCATACCGGACCGGGCCGGGATAGGGTTA
TATACATTCTCAAGGAGCCATTCGAGCGTATCTAAATAGATACTATGTTTACATATGGATCCCTA
CGTCGTTCCATTCCATTTAATTTAGGATTAGGAATAGGCGTAATTGGACCTGCTTTTTCCATATC
TCTCGTTATTTTTTTTTTGGGGGGGGGCCTATTCACCTCTTTGAGCTTCTATTGAATCGAGAACT
AAAATAGGTTTGATTGGCCATCTTTATGATATATACATAAGGCATTCTCCGGATAATTCAAATCG
AAGCAATTGGATGTCCAACTCGGGTCTATATGACTGATCAATAGAAATACTCCACCTTTGTCATA
TATTCCGTACATCACACTAGATAGATATCATATTCATGGAATAGG
Found at i:142904 original size:18 final size:18
Alignment explanation
Indices: 142883--142972 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
142873 GTCACGATCG
*
142883 ATATCGGCACTATCATCA
1 ATATCGTCACTATCATCA
*
142901 ATATCGTCACTATGATCA
1 ATATCGTCACTATCATCA
142919 ATATCGTCACTATCATCA
1 ATATCGTCACTATCATCA
142937 ATATCGTCACTATCATCA
1 ATATCGTCACTATCATCA
142955 ATATCG--A-TATCATCA
1 ATATCGTCACTATCATCA
142970 ATA
1 ATA
142973 AGAAAACCTT
Statistics
Matches: 69, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
15 11 0.16
16 1 0.01
18 57 0.83
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (18 bp):
ATATCGTCACTATCATCA
Left flanking sequence: Indices 142383 -- 142882
TCTGTGTAATACTAATCGATAGGGCCTCATTGGTAAGTGCTACAAGATCTCTTGCATTGGAACCC
ATGGTTATGGACCCGAATCCGTTAGTATGGAACATTTTATTTTCCAAGTGAAATCCCCTAGTATA
TGAAAGAGTGAAAAAGTGCTTTCGTTGTTGTCGAATAAGAAGCCTTCGTATCTTAATGCACATAT
TTAATTTATTCGGAGCTATTAGAGCGGGATCCACTTTTTGGGGAATATGAGTCGAAGCAATAACA
AGAATATTTCTAGTGGAACATCTTTCAGAGAGATGGTTCGCTAATAGACCGAGGGATAAGTAATT
CGACTCATTCACATCCAGATCATGAATGTTTGGAATCCATATTATGCAGGGAGACATTGCTTTTG
CCAATTCAAATTGAAGGATGATATAAAATCGGTCTATTTCCGGCATCATATCCATAGTTAGCGCA
TTCATCATAGTTAGCAGTTCCAGCTCCGTATCAAGGTCACGATCG
Right flanking sequence: Indices 142973 -- 143472
AGAAAACCTTTAGGCTTGTTATCCAGGAACTTGTTCAAAAATACCGTAATGAAAGGAACATAGGA
GTTTGTCGCTAGGTATTTGACCAAATAGGATCGTCCAGTTCCTATAGAACCTATCACTAAAATCC
CCTTAGAGGGGGATAAGGCTAAGCGGAGCGAAAAGGGTTTTCCATGAGATGGGAAATGCAAAGTA
TTAGTCCCACGCGAAGTTTGTGAATAAGTGATTGTCTGATAATGAGCAAGGAATACCCGTCTTTC
TGCTAAAGAGGATGTATTGAACTCATAATTCAATAGATACTTTTTATGAATGTCAACTAAGTATC
GTAAGTAAATTGCTCCCGGTTGTTCAATCATTTGATAACCAGAGTCATTCTTTGATAAATGATCA
CTATGAGTCAGACTCAATAGAATTTGATCAATCCTTTTTTCTGTCGTTAAGGCGGAGAACTGAAC
CAAGAATTCTCTTTCTTCATCATCAATCGAATCACTGTTCGCGAC
Found at i:142905 original size:9 final size:9
Alignment explanation
Indices: 142893--142959 Score: 71
Period size: 9 Copynumber: 7.4 Consensus size: 9
142883 ATATCGGCAC
142893 TATCATCAA
1 TATCATCAA
* *
142902 TATCGTCAC
1 TATCATCAA
*
142911 TATGATCAA
1 TATCATCAA
* *
142920 TATCGTCAC
1 TATCATCAA
142929 TATCATCAA
1 TATCATCAA
* *
142938 TATCGTCAC
1 TATCATCAA
142947 TATCATCAA
1 TATCATCAA
142956 TATC
1 TATC
142960 GATATCATCA
Statistics
Matches: 44, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
9 44 1.00
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.34
Consensus pattern (9 bp):
TATCATCAA
Left flanking sequence: Indices 142393 -- 142892
ACTAATCGATAGGGCCTCATTGGTAAGTGCTACAAGATCTCTTGCATTGGAACCCATGGTTATGG
ACCCGAATCCGTTAGTATGGAACATTTTATTTTCCAAGTGAAATCCCCTAGTATATGAAAGAGTG
AAAAAGTGCTTTCGTTGTTGTCGAATAAGAAGCCTTCGTATCTTAATGCACATATTTAATTTATT
CGGAGCTATTAGAGCGGGATCCACTTTTTGGGGAATATGAGTCGAAGCAATAACAAGAATATTTC
TAGTGGAACATCTTTCAGAGAGATGGTTCGCTAATAGACCGAGGGATAAGTAATTCGACTCATTC
ACATCCAGATCATGAATGTTTGGAATCCATATTATGCAGGGAGACATTGCTTTTGCCAATTCAAA
TTGAAGGATGATATAAAATCGGTCTATTTCCGGCATCATATCCATAGTTAGCGCATTCATCATAG
TTAGCAGTTCCAGCTCCGTATCAAGGTCACGATCGATATCGGCAC
Right flanking sequence: Indices 142960 -- 143459
GATATCATCAATAAGAAAACCTTTAGGCTTGTTATCCAGGAACTTGTTCAAAAATACCGTAATGA
AAGGAACATAGGAGTTTGTCGCTAGGTATTTGACCAAATAGGATCGTCCAGTTCCTATAGAACCT
ATCACTAAAATCCCCTTAGAGGGGGATAAGGCTAAGCGGAGCGAAAAGGGTTTTCCATGAGATGG
GAAATGCAAAGTATTAGTCCCACGCGAAGTTTGTGAATAAGTGATTGTCTGATAATGAGCAAGGA
ATACCCGTCTTTCTGCTAAAGAGGATGTATTGAACTCATAATTCAATAGATACTTTTTATGAATG
TCAACTAAGTATCGTAAGTAAATTGCTCCCGGTTGTTCAATCATTTGATAACCAGAGTCATTCTT
TGATAAATGATCACTATGAGTCAGACTCAATAGAATTTGATCAATCCTTTTTTCTGTCGTTAAGG
CGGAGAACTGAACCAAGAATTCTCTTTCTTCATCATCAATCGAAT
Found at i:145376 original size:24 final size:22
Alignment explanation
Indices: 145285--145378 Score: 75
Period size: 21 Copynumber: 4.2 Consensus size: 22
145275 CGAAACTCAC
* *
145285 ACAAAAAAAAGGAAGTGAGTTCG
1 ACAAAAAAAA-GAAGTGACTTAG
* ** *
145308 ACAAAAAGAA-AAGCAACTTGG
1 ACAAAAAAAAGAAGTGACTTAG
*
145329 AC-AAAAAAAGAAGTGACTTGG
1 ACAAAAAAAAGAAGTGACTTAG
*
145350 ACAAAAAGAAACGAAGTGGCTTAG
1 ACAAAAA-AAA-GAAGTGACTTAG
145374 ACAAA
1 ACAAA
145379 TCTTTTTTGT
Statistics
Matches: 57, Mismatches: 10, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
20 6 0.11
21 20 0.35
22 4 0.07
23 12 0.21
24 15 0.26
ACGTcount: A:0.54, C:0.12, G:0.22, T:0.12
Consensus pattern (22 bp):
ACAAAAAAAAGAAGTGACTTAG
Left flanking sequence: Indices 144785 -- 145284
TTGAGGAATTGTCCATACGTAAAATCATAATTATTGATACAGGCCTTTTCTACAGAAAAGGGGAA
TCTTGTGTTACAGTAGAAGCAGAAGTGATGTGGATTATTCAAGAATCGAAGTCGATTTGCTTTAT
AAAAAGAAGATATCAATGAACTTCTATGGAATGGTTTCACGGGATTCAGCCAATTGTCTTGATTG
TGGAATATCATTGAGAAATAGGAATCCGCGTTATCAAATGATTTCCTGCGATTATTTCTAGTATG
GAATGAGTCAATCATCCACTTTGGTATCTTATTGAACAAAAAGGGCGTTCCTCCATTGATCAAGA
ATTTCCATTTTTGGGAAGTATCATGATCATCCAATAAGAAGGGTTTCCATTTTTTCAAATGAACA
ATTTGAAGACCTATTGATTCTAACAACTGATTGCAGAGTTGATCATTCGGGCCTTTCAATTCATA
GATGTAGATCTCGGACCCATGAATGGGGATATTCCCGAAACTCAC
Right flanking sequence: Indices 145379 -- 145878
TCTTTTTTGTCGATAACCTCAGACCAATCAATCAAATATTGATTAATACGTAATTGATCGAACAC
TATTTGAAAATGGCTCTTCTGCTCAGAAACGAAATGTTCCAAATGTTCCTGGAAATTCTTGCTCC
CATTGGACCATTTGTATCTATATGCATCAGGATCCCGATTCATGAATCTCTCGTCGGTTCGAGAA
ATCAAGATAAGAGGATCGAACCGTTTCTTCTGACTCTTTTTCAAATTTGATAAATGTTGGTTGAT
CGTATATTTCATTATAGTTCTATGATTCAGAGTATCCTTTCCTATTTGATCCCTTTGAATTCCAT
ATTCGAAATTACGATCGGATCGATTCATTAAAAAGAATTGATTCAATACATTTCTTATGTACCCA
TAGGTACTATATTGGATTTGAATCAGATTTCGGATCAATCTATATTGATTGACTGCCTCCATTAT
GTTGTTGCTAGCAAATACCACTATTTTTTGTTTTGGGTCTTCCAA
Done.