Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold60
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3815296
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 18690 characters in sequence are not A, C, G, or T
File 12 of 21
Found at i:1757966 original size:16 final size:16
Alignment explanation
Indices: 1757945--1757986 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
1757935 AAATTATTTA
1757945 ATTAAA-AAACTTAAAT
1 ATTAAATAAA-TTAAAT
*
1757961 ATTAAATATATTAAAT
1 ATTAAATAAATTAAAT
*
1757977 ATTTAATAAA
1 ATTAAATAAA
1757987 AATTATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 20 0.91
17 2 0.09
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (16 bp):
ATTAAATAAATTAAAT
Found at i:1761307 original size:87 final size:87
Alignment explanation
Indices: 1761161--1761332 Score: 308
Period size: 87 Copynumber: 2.0 Consensus size: 87
1761151 GGACTATGAT
* *
1761161 TATTCTTTGGACATGTGGAGCCTTGGTTGCATGTTTGCTGGAATGGTAAGTATACCATTATTCTA
1 TATTCTTTGGACATGTGGAACCTTGGTTGCATGTTTGCTGGAATGGTAAGAATACCATTATTCTA
*
1761226 GATTCAATGTGTTAAACTTTAC
66 GATTCAATGTATTAAACTTTAC
1761248 TATTCTTTGGACATGTGGAACCTTGGTTGCATGTTTGCTGGAATGGTAAGAATACCATTATTCTA
1 TATTCTTTGGACATGTGGAACCTTGGTTGCATGTTTGCTGGAATGGTAAGAATACCATTATTCTA
*
1761313 GTTTCAATGTATTAAACTTT
66 GATTCAATGTATTAAACTTT
1761333 CGTTTGAAAG
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 81 1.00
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.41
Consensus pattern (87 bp):
TATTCTTTGGACATGTGGAACCTTGGTTGCATGTTTGCTGGAATGGTAAGAATACCATTATTCTA
GATTCAATGTATTAAACTTTAC
Found at i:1763121 original size:69 final size:70
Alignment explanation
Indices: 1762990--1763132 Score: 243
Period size: 69 Copynumber: 2.1 Consensus size: 70
1762980 CCGTCTTCGG
* * * *
1762990 TTTTAGGCAGTTGTTTGAAGGGTTGTCTTATGGAATATTTACTGTCATTATTATTCGCCTAAGCA
1 TTTTAGGCAGTTGTTTGAAGGGTTGTCTTAAGAAATATTTACTATCATTATTATTCACCTAAGCA
1763055 ACTTA
66 ACTTA
1763060 TTTTAGGCAGTTGTTTGAAGGGTTGTC-TAAGAAATATTTACTATCATTATTATTCACCTAAGCA
1 TTTTAGGCAGTTGTTTGAAGGGTTGTCTTAAGAAATATTTACTATCATTATTATTCACCTAAGCA
1763124 ACTTA
66 ACTTA
1763129 TTTT
1 TTTT
1763133 GTTGTGCGCT
Statistics
Matches: 69, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
69 42 0.61
70 27 0.39
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.43
Consensus pattern (70 bp):
TTTTAGGCAGTTGTTTGAAGGGTTGTCTTAAGAAATATTTACTATCATTATTATTCACCTAAGCA
ACTTA
Found at i:1764906 original size:23 final size:23
Alignment explanation
Indices: 1764846--1764915 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
1764836 TAATTTATTT
*
1764846 TTAAATTAAAT-ATTTAATTAAA
1 TTAAATTAAATAAATTAATTAAA
** *
1764868 TTTTATCAAA-ACAATTAATTAAA
1 TTAAATTAAATA-AATTAATTAAA
*
1764891 TTAAATTAAATAAATTTAATAAAA
1 TTAAATTAAATAAA-TTAATTAAA
1764915 T
1 T
1764916 CAATTTCAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
22 7 0.19
23 19 0.53
24 10 0.28
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (23 bp):
TTAAATTAAATAAATTAATTAAA
Found at i:1768610 original size:2 final size:2
Alignment explanation
Indices: 1768603--1768647 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
1768593 ATATCCGAAG
* *
1768603 TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1768645 TA T
1 TA T
1768648 CACAGTGTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:1769038 original size:3 final size:3
Alignment explanation
Indices: 1769030--1769063 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
1769020 TTCTCATTTG
1769030 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1769064 ATTTTTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1769212 original size:34 final size:34
Alignment explanation
Indices: 1769174--1769243 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 34
1769164 AATTGTAAGA
1769174 AATAATTTATATTACTTAAACTCTTTAATTTTTT
1 AATAATTTATATTACTTAAACTCTTTAATTTTTT
* * * * *
1769208 AATAATTTATGTTATTTAGACTTTTTATTTTTTT
1 AATAATTTATATTACTTAAACTCTTTAATTTTTT
1769242 AA
1 AA
1769244 AATATTCATG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.59
Consensus pattern (34 bp):
AATAATTTATATTACTTAAACTCTTTAATTTTTT
Found at i:1774081 original size:2 final size:2
Alignment explanation
Indices: 1774074--1774136 Score: 81
Period size: 2 Copynumber: 31.5 Consensus size: 2
1774064 AGTTTGTTTG
* *
1774074 TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
1774116 CA CA CA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
1774137 CTGCTATCAT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (2 bp):
TA
Found at i:1775946 original size:2 final size:2
Alignment explanation
Indices: 1775939--1775975 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
1775929 AGAATTATCC
*
1775939 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1775976 GTAAGAATGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1778494 original size:15 final size:16
Alignment explanation
Indices: 1778454--1778492 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
1778444 ATTTAAGTTA
*
1778454 AATTTAAAATAAATTT
1 AATTTAAAATTAATTT
1778470 -ATTTAAAATTAATTT
1 AATTTAAAATTAATTT
1778485 AATTTAAA
1 AATTTAAA
1778493 TTTATTCATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
AATTTAAAATTAATTT
Found at i:1780573 original size:20 final size:19
Alignment explanation
Indices: 1780548--1780587 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1780538 TTAATTTTAT
1780548 ATTAAAAATTATATTATTAA
1 ATTAAAAA-TATATTATTAA
* *
1780568 ATTAAATATATATTTTTAA
1 ATTAAAAATATATTATTAA
1780587 A
1 A
1780588 ATATTTACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTAAAAATATATTATTAA
Found at i:1788192 original size:18 final size:19
Alignment explanation
Indices: 1788151--1788192 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
1788141 TTTAAAAAAT
*
1788151 AAAAATGATTTCTTAATTT
1 AAAAATGATTTCTTAATTA
* *
1788170 TAAAATTATTT-TTAATTA
1 AAAAATGATTTCTTAATTA
1788188 AAAAA
1 AAAAA
1788193 ATTGTAGTGA
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (19 bp):
AAAAATGATTTCTTAATTA
Found at i:1788601 original size:19 final size:18
Alignment explanation
Indices: 1788560--1788603 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
1788550 TATAATATAT
1788560 ATAAATTTTAAATTTTAA
1 ATAAATTTTAAATTTTAA
* *
1788578 ATAAATTTTTATTTTTAA
1 ATAAATTTTAAATTTTAA
1788596 ATTAAATT
1 A-TAAATT
1788604 AAAATAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 17 0.74
19 6 0.26
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATAAATTTTAAATTTTAA
Found at i:1789107 original size:4 final size:4
Alignment explanation
Indices: 1789100--1789124 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
1789090 TTTTAGTTGC
1789100 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
1789125 ACATTGGAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:1789379 original size:15 final size:16
Alignment explanation
Indices: 1789359--1789388 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1789349 TTTAAATTTA
1789359 TTAAAAT-ATTATATT
1 TTAAAATAATTATATT
1789374 TTAAAATAATTATAT
1 TTAAAATAATTATAT
1789389 GATATTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTAAAATAATTATATT
Found at i:1793600 original size:24 final size:23
Alignment explanation
Indices: 1793522--1793606 Score: 59
Period size: 24 Copynumber: 3.6 Consensus size: 23
1793512 GATTAAATCG
*
1793522 ATTTAAATTTATTTTAATAAA-TA
1 ATTTAAATTTA-ATTAATAAATTA
* *
1793545 TATTT-AATTTATTTATTTAAATTTA
1 -ATTTAAATTTAATTA-ATAAA-TTA
*
1793570 A-TAAAATTTAATTAGATAAATTA
1 ATTTAAATTTAATTA-ATAAATTA
*
1793593 ATTTAAATATAATT
1 ATTTAAATTTAATT
1793607 TTTTTGTCAA
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
22 4 0.08
23 15 0.31
24 28 0.57
25 2 0.04
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (23 bp):
ATTTAAATTTAATTAATAAATTA
Found at i:1795653 original size:30 final size:30
Alignment explanation
Indices: 1795619--1795678 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
1795609 AAATAAATAA
* *
1795619 TAATTTTT-TAATTTATCAAATTATATTATT
1 TAATTTTTATAATTAAT-AAATTAAATTATT
*
1795649 TAATTTTTATTATTAATAAATTAAATTATT
1 TAATTTTTATAATTAATAAATTAAATTATT
1795679 AATGTTAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 20 0.77
31 6 0.23
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (30 bp):
TAATTTTTATAATTAATAAATTAAATTATT
Found at i:1795881 original size:23 final size:22
Alignment explanation
Indices: 1795842--1795885 Score: 54
Period size: 25 Copynumber: 1.9 Consensus size: 22
1795832 TAATAATACA
1795842 ATTTTATAAAATTAAATATTTATT
1 ATTTTATAAAA-TAAAT-TTTATT
1795866 ATTTATATAAAA-AAATTTTA
1 ATTT-TATAAAATAAATTTTA
1795886 CCTCATTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 4 0.21
23 4 0.21
24 4 0.21
25 7 0.37
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATTTTATAAAATAAATTTTATT
Found at i:1799901 original size:2 final size:2
Alignment explanation
Indices: 1799894--1799949 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
1799884 GAAACAGGGA
1799894 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1799936 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
1799950 CCTTCGGATC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1802423 original size:32 final size:32
Alignment explanation
Indices: 1802387--1802449 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
1802377 TTTATATTAT
1802387 AAAAAATTAAAAATT-AATTAAAATTAAATAAA
1 AAAAAATT-AAAATTCAATTAAAATTAAATAAA
** *
1802419 AAAAAATTTTAATTCAATTCAAATTAAATAA
1 AAAAAATTAAAATTCAATTAAAATTAAATAA
1802450 TTATTATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 4 0.15
32 23 0.85
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (32 bp):
AAAAAATTAAAATTCAATTAAAATTAAATAAA
Found at i:1802529 original size:16 final size:16
Alignment explanation
Indices: 1802397--1802550 Score: 54
Period size: 16 Copynumber: 9.6 Consensus size: 16
1802387 AAAAAATTAA
1802397 AAATT-AATTAAAATT
1 AAATTAAATTAAAATT
**
1802412 AAA-TAAAAAAAAATTT
1 AAATTAAATTAAAA-TT
* * *
1802428 TAATTCAATTCAAATT
1 AAATTAAATTAAAATT
***
1802444 AAA-TAATTATTATTTTT
1 AAATTAA--ATTAAAATT
*
1802461 AAATTATAAATAAATATT
1 AAATTA-AATTAAA-ATT
*
1802479 AAATTGAA-TAAAA-T
1 AAATTAAATTAAAATT
* *
1802493 ATAATT-AATTATTATTT
1 A-AATTAAATTA-AAATT
*
1802510 AAATT-CATTAAAATT
1 AAATTAAATTAAAATT
1802525 AAAATTAAATT-AAATT
1 -AAATTAAATTAAAATT
*
1802541 AAATCAAATT
1 AAATTAAATT
1802551 TTCTTGTTCA
Statistics
Matches: 100, Mismatches: 25, Indels: 28
0.65 0.16 0.18
Matches are distributed among these distances:
14 5 0.05
15 30 0.30
16 31 0.31
17 24 0.24
18 9 0.09
19 1 0.01
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.41
Consensus pattern (16 bp):
AAATTAAATTAAAATT
Found at i:1802530 original size:47 final size:45
Alignment explanation
Indices: 1802446--1802539 Score: 102
Period size: 47 Copynumber: 2.0 Consensus size: 45
1802436 TTCAAATTAA
*
1802446 ATAATTATTATTTTTAAATTATAAATAAATATTAAATTGAATAAAAT
1 ATAATTATTATTTTTAAATTAT--ATAAATATTAAATTAAATAAAAT
*
1802493 ATAATTAATTATTATTTAAATTCAT-TAAA-ATTAAAATTAAATTAAAT
1 ATAATT-ATTATT-TTTAAATT-ATATAAATATT-AAATTAAATAAAAT
1802540 TAAATCAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
46 3 0.07
47 22 0.54
48 6 0.15
49 8 0.20
50 2 0.05
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (45 bp):
ATAATTATTATTTTTAAATTATATAAATATTAAATTAAATAAAAT
Found at i:1802793 original size:2 final size:2
Alignment explanation
Indices: 1802786--1802820 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
1802776 TCGTCGTTGA
*
1802786 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1802821 GAACAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:1803394 original size:2 final size:2
Alignment explanation
Indices: 1803387--1803442 Score: 85
Period size: 2 Copynumber: 27.5 Consensus size: 2
1803377 CCCCCAGGTA
* *
1803387 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AC ACT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
1803430 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
1803443 CGCACACATG
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
2 50 0.98
3 1 0.02
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:1803448 original size:23 final size:23
Alignment explanation
Indices: 1803387--1803449 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 23
1803377 CCCCCAGGTA
* * *
1803387 ATATATATATATATATA-TATAT
1 ATATATATATACACACACTATAT
*
1803409 ATATATATATATACACACTATAT
1 ATATATATATACACACACTATAT
*
1803432 ATATATATATACGCACAC
1 ATATATATATACACACAC
1803450 ATGCACACAC
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
22 15 0.42
23 21 0.58
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.40
Consensus pattern (23 bp):
ATATATATATACACACACTATAT
Found at i:1803449 original size:25 final size:25
Alignment explanation
Indices: 1803402--1803450 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
1803392 TATATATATA
* *
1803402 TATATATATATATATATATACACAC
1 TATATATATATATATACACACACAC
*
1803427 TATATATATATATATACGCACACA
1 TATATATATATATATACACACACA
1803451 TGCACACACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.47, C:0.14, G:0.02, T:0.37
Consensus pattern (25 bp):
TATATATATATATATACACACACAC
Found at i:1804920 original size:23 final size:23
Alignment explanation
Indices: 1804893--1804936 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
1804883 ATTGATATTG
1804893 TATAACATTTACTATAA-ATTATA
1 TATAACATTTA-TATAATATTATA
1804916 TATAACATTTATATAATATTA
1 TATAACATTTATATAATATTA
1804937 ATGTATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAACATTTATATAATATTATA
Found at i:1804928 original size:11 final size:11
Alignment explanation
Indices: 1804893--1804931 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
1804883 ATTGATATTG
1804893 TATAACATTTA
1 TATAACATTTA
1804904 CTATAA-ATTATA
1 -TATAACATT-TA
1804916 TATAACATTTA
1 TATAACATTTA
1804927 TATAA
1 TATAA
1804932 TATTAATGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.44
Consensus pattern (11 bp):
TATAACATTTA
Found at i:1805584 original size:23 final size:24
Alignment explanation
Indices: 1805536--1805589 Score: 58
Period size: 23 Copynumber: 2.2 Consensus size: 24
1805526 AATTTAATTT
1805536 AATAATATTAAATATAATTACATAAA
1 AATAATA--AAATATAATTACATAAA
*
1805562 TATAATAAAATAT-ATTA-ATTAAA
1 AATAATAAAATATAATTACA-TAAA
1805585 AATAA
1 AATAA
1805590 CATGATACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
22 1 0.04
23 12 0.48
24 6 0.24
26 6 0.24
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (24 bp):
AATAATAAAATATAATTACATAAA
Found at i:1805631 original size:16 final size:16
Alignment explanation
Indices: 1805610--1805667 Score: 73
Period size: 15 Copynumber: 3.6 Consensus size: 16
1805600 ATATATGTTT
1805610 TAAAATATTTATAATA
1 TAAAATATTTATAATA
*
1805626 TAAAAT-TTTATTATA
1 TAAAATATTTATAATA
* *
1805641 TTAAATTTTTATAAATA
1 TAAAATATTTAT-AATA
1805658 TAAAATATTT
1 TAAAATATTT
1805668 TAAACATAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
15 13 0.37
16 11 0.31
17 11 0.31
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TAAAATATTTATAATA
Found at i:1805641 original size:15 final size:15
Alignment explanation
Indices: 1805610--1805663 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 15
1805600 ATATATGTTT
1805610 TAAAATATTTATAATA
1 TAAAAT-TTTATAATA
*
1805626 TAAAATTTTATTATA
1 TAAAATTTTATAATA
*
1805641 TTAAATTTTTATAAATA
1 -TAAAATTTTAT-AATA
1805658 TAAAAT
1 TAAAAT
1805664 ATTTTAAACA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 8 0.25
16 21 0.66
17 3 0.09
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TAAAATTTTATAATA
Found at i:1805951 original size:24 final size:25
Alignment explanation
Indices: 1805924--1805982 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 25
1805914 CTAATTTTAA
1805924 TTTAATTTAATTTAAAATAATAT-T
1 TTTAATTTAATTTAAAATAATATAT
1805948 TTTAA---AA--TAAAATAATATAT
1 TTTAATTTAATTTAAAATAATATAT
1805968 TTT-ATTTATATTTAA
1 TTTAATTTA-ATTTAA
1805983 TTATAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 13
0.68 0.00 0.32
Matches are distributed among these distances:
19 12 0.43
20 4 0.14
21 2 0.07
22 1 0.04
23 1 0.04
24 5 0.18
25 3 0.11
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
TTTAATTTAATTTAAAATAATATAT
Found at i:1806062 original size:7 final size:7
Alignment explanation
Indices: 1806050--1806075 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
1806040 AATTCAATTC
1806050 AATTTTA
1 AATTTTA
1806057 AATTTTA
1 AATTTTA
1806064 AATTTTA
1 AATTTTA
1806071 AATTT
1 AATTT
1806076 AATTTTCCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
AATTTTA
Found at i:1806479 original size:15 final size:15
Alignment explanation
Indices: 1806459--1806491 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
1806449 ACCTTGACAC
1806459 AAATTAAGTTTAGAG
1 AAATTAAGTTTAGAG
1806474 AAATTAAGTTTAGAG
1 AAATTAAGTTTAGAG
1806489 AAA
1 AAA
1806492 GAGATTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.18, T:0.30
Consensus pattern (15 bp):
AAATTAAGTTTAGAG
Found at i:1806911 original size:2 final size:2
Alignment explanation
Indices: 1806856--1806892 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
1806846 TAAGTTAAAG
*
1806856 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1806893 CGAGAATAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1807698 original size:25 final size:25
Alignment explanation
Indices: 1807670--1807730 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
1807660 TTTTTTTATG
1807670 ATATAAATTAAATAA-TATAAAAATA
1 ATATAAATTAAATAATTA-AAAAATA
* * *
1807695 ATATATATTACATAGTTAAAAAATA
1 ATATAAATTAAATAATTAAAAAATA
* *
1807720 AAATAAGTTAA
1 ATATAAATTAA
1807731 GCAAAGTTTG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
25 26 0.93
26 2 0.07
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (25 bp):
ATATAAATTAAATAATTAAAAAATA
Found at i:1808009 original size:12 final size:11
Alignment explanation
Indices: 1807983--1808013 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
1807973 TGAAATAAAA
1807983 TAAAATTTATT
1 TAAAATTTATT
1807994 TAAAATTTATT
1 TAAAATTTATT
*
1808005 TTAAATTTA
1 TAAAATTTA
1808014 ATCAAATCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TAAAATTTATT
Found at i:1825448 original size:52 final size:52
Alignment explanation
Indices: 1825369--1825471 Score: 145
Period size: 52 Copynumber: 2.0 Consensus size: 52
1825359 ATTTACTTGA
* *
1825369 GAACTAAACTTGATATGATCGGCAGATGGTACCATGGAGAGTGTATTTTCAT
1 GAACTAAACTTGATATGATCGGCAGATGGTACCATGGAAAGTGTATATTCAT
* * *
1825421 GAACTAAACTTGATTTGA-CATGTAGATGGTACCATGGAAAGTGTATATTCA
1 GAACTAAACTTGATATGATC-GGCAGATGGTACCATGGAAAGTGTATATTCA
1825472 CGAATCATAA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
51 1 0.02
52 44 0.98
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (52 bp):
GAACTAAACTTGATATGATCGGCAGATGGTACCATGGAAAGTGTATATTCAT
Found at i:1827039 original size:32 final size:33
Alignment explanation
Indices: 1826979--1827056 Score: 113
Period size: 32 Copynumber: 2.4 Consensus size: 33
1826969 TAAAAATAAA
* * *
1826979 ATATAAAATTAATATATTAATATCTTAAAATTT
1 ATATAATATAAATATATTAATATATTAAAATTT
1827012 ATATAATATAAAT-TATTAATATATTAAAATTT
1 ATATAATATAAATATATTAATATATTAAAATTT
1827044 ATATAAATATAAA
1 ATAT-AATATAAA
1827057 AAATTTAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
32 22 0.54
33 19 0.46
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (33 bp):
ATATAATATAAATATATTAATATATTAAAATTT
Found at i:1827045 original size:18 final size:18
Alignment explanation
Indices: 1826993--1827063 Score: 55
Period size: 18 Copynumber: 4.1 Consensus size: 18
1826983 AAAATTAATA
*
1826993 TATTAATATCTTAAAATT
1 TATTAATATATTAAAATT
1827011 TA-T-ATA-A-TATAAA-T
1 TATTAATATATTA-AAATT
1827025 TATTAATATATTAAAATT
1 TATTAATATATTAAAATT
*
1827043 TATATAA-ATATAAAAAATT
1 TAT-TAATATAT-TAAAATT
1827062 TA
1 TA
1827064 AAATAAAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 15
0.72 0.03 0.25
Matches are distributed among these distances:
14 5 0.12
15 4 0.09
16 6 0.14
17 5 0.12
18 12 0.28
19 11 0.26
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (18 bp):
TATTAATATATTAAAATT
Found at i:1830516 original size:3 final size:3
Alignment explanation
Indices: 1830510--1830538 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1830500 TTTTTTTCAG
1830510 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1830539 CTTGTTGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1832054 original size:24 final size:23
Alignment explanation
Indices: 1832001--1832054 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
1831991 ATAAAACTAA
* * *
1832001 ATAATAATAAAATAAAAGATATT
1 ATAATATTTAAATAAAAAATATT
*
1832024 TTAATATTTAAATAAAAAATAATT
1 ATAATATTTAAATAAAAAAT-ATT
*
1832048 ATCATAT
1 ATAATAT
1832055 AATTTCTCTT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (23 bp):
ATAATATTTAAATAAAAAATATT
Found at i:1833112 original size:17 final size:17
Alignment explanation
Indices: 1833092--1833125 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1833082 AAATTTTAAA
1833092 ATATTAATATTAAATAT
1 ATATTAATATTAAATAT
* *
1833109 ATATTTATATTTAATAT
1 ATATTAATATTAAATAT
1833126 TTTTTATTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATATTAATATTAAATAT
Found at i:1834057 original size:15 final size:15
Alignment explanation
Indices: 1834037--1834083 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
1834027 TCTCTACCAA
*
1834037 CTTCGTCACCACCTG
1 CTTCGTCACCACCGG
*
1834052 CTTCGTCACCAACGG
1 CTTCGTCACCACCGG
*
1834067 CTTCATCACCACCGG
1 CTTCGTCACCACCGG
1834082 CT
1 CT
1834084 GCGGCTCCAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.17, C:0.45, G:0.15, T:0.23
Consensus pattern (15 bp):
CTTCGTCACCACCGG
Found at i:1836280 original size:2 final size:2
Alignment explanation
Indices: 1836268--1836306 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
1836258 TATGTGTCCC
* *
1836268 TG TG TG CG TG TG TG TG TG TG TG TG TG TG TG TT TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1836307 ATATATATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.03, G:0.46, T:0.51
Consensus pattern (2 bp):
TG
Found at i:1837114 original size:2 final size:2
Alignment explanation
Indices: 1837107--1837141 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1837097 GGTGAGATTA
1837107 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1837142 AATTGCAAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1837856 original size:17 final size:17
Alignment explanation
Indices: 1837836--1837868 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1837826 TAAAATAAAA
*
1837836 AAATAATTATATTAGAG
1 AAATAATAATATTAGAG
1837853 AAATAATAATATTAGA
1 AAATAATAATATTAGA
1837869 AATAAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (17 bp):
AAATAATAATATTAGAG
Found at i:1838934 original size:23 final size:22
Alignment explanation
Indices: 1838908--1838986 Score: 63
Period size: 23 Copynumber: 3.5 Consensus size: 22
1838898 AACTTAAAAT
1838908 TTTAATTATTTATATTATTATTA
1 TTTAATTA-TTATATTATTATTA
* *
1838931 TTTAATTA-AATATATATTTTTA
1 TTTAATTATTATAT-TATTATTA
* * *
1838953 ATTATTTATTATATTTAATATTTA
1 TTTAATTATTATA-TTATTA-TTA
1838977 TTTAA-TATTA
1 TTTAATTATTA
1838987 AAATTATTTT
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
21 4 0.09
22 13 0.30
23 19 0.44
24 7 0.16
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTAATTATTATATTATTATTA
Found at i:1838965 original size:19 final size:19
Alignment explanation
Indices: 1838907--1838968 Score: 63
Period size: 19 Copynumber: 3.1 Consensus size: 19
1838897 AAACTTAAAA
1838907 TTTTAATTATTTATATTATTAT
1 TTTTAATTA-TT-TATTA-TAT
**
1838929 TATTTAATTAAATA-TATAT
1 T-TTTAATTATTTATTATAT
1838948 TTTTAATTATTTATTATAT
1 TTTTAATTATTTATTATAT
1838967 TT
1 TT
1838969 AATATTTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
18 10 0.29
19 11 0.32
20 2 0.06
21 2 0.06
22 1 0.03
23 8 0.24
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTAATTATTTATTATAT
Found at i:1838987 original size:17 final size:17
Alignment explanation
Indices: 1838917--1838978 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 17
1838907 TTTTAATTAT
1838917 TTATATTATTATTATTTAA
1 TTAT-TTATTA-TATTTAA
** *
1838936 TTAAATATATATTTTTAA
1 TTATTTAT-TATATTTAA
1838954 TTATTTATTATATTTAA
1 TTATTTATTATATTTAA
1838971 -TATTTATT
1 TTATTTATT
1838979 TAATATTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
16 8 0.22
17 8 0.22
18 15 0.42
19 5 0.14
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TTATTTATTATATTTAA
Found at i:1839010 original size:21 final size:20
Alignment explanation
Indices: 1838952--1839011 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
1838942 ATATATTTTT
*
1838952 AATTATTTA-TT-ATATT-T
1 AATTATTTATTTAATATTAA
1838969 AA-TATTTATTTAATATTAA
1 AATTATTTATTTAATATTAA
1838988 AATTATTT-TTTAACTATCTAA
1 AATTATTTATTTAA-TAT-TAA
1839009 AAT
1 AAT
1839012 CTGAATTAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
16 6 0.17
17 4 0.11
18 5 0.14
19 7 0.19
20 8 0.22
21 6 0.17
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (20 bp):
AATTATTTATTTAATATTAA
Found at i:1841932 original size:24 final size:25
Alignment explanation
Indices: 1841904--1841955 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 25
1841894 TCATATTATT
1841904 TATTATTAT-TATAAA-TATAAGAAA
1 TATTATTATAT-TAAATTATAAGAAA
*
1841928 TATTATTATATTAAATTATAATAAA
1 TATTATTATATTAAATTATAAGAAA
1841953 TAT
1 TAT
1841956 CAATAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 13 0.52
25 12 0.48
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
TATTATTATATTAAATTATAAGAAA
Found at i:1843160 original size:3 final size:3
Alignment explanation
Indices: 1843154--1843180 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1843144 CCTTCTTCAC
1843154 CTG CTG CTG CTG CTG CTG CTG CTG CTG
1 CTG CTG CTG CTG CTG CTG CTG CTG CTG
1843181 TCCCTCCTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.33, T:0.33
Consensus pattern (3 bp):
CTG
Found at i:1843570 original size:2 final size:2
Alignment explanation
Indices: 1843563--1843596 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
1843553 TTCAATCTTC
*
1843563 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1843597 GTATGTACGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1843601 original size:12 final size:12
Alignment explanation
Indices: 1843566--1843603 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
1843556 AATCTTCATA
*
1843566 TATATATATATA
1 TATATATATATG
1843578 TATATATATATG
1 TATATATATATG
*
1843590 TATATATGTATG
1 TATATATATATG
1843602 TA
1 TA
1843604 CGTATGTACT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATATATATATG
Found at i:1844844 original size:2 final size:2
Alignment explanation
Indices: 1844837--1844864 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1844827 TCATGGAAAG
1844837 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1844865 TTTATTTCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1849321 original size:2 final size:2
Alignment explanation
Indices: 1849314--1849338 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1849304 TTTATGTATG
1849314 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1849339 TGATAACCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1850004 original size:9 final size:9
Alignment explanation
Indices: 1849990--1850051 Score: 65
Period size: 9 Copynumber: 6.9 Consensus size: 9
1849980 TAAACACGAA
1849990 ATATTTAAT
1 ATATTTAAT
**
1849999 ATATTTTTT
1 ATATTTAAT
*
1850008 ATATTTAAA
1 ATATTTAAT
1850017 AT-TTTAAT
1 ATATTTAAT
1850025 ATATTTAAT
1 ATATTTAAT
1850034 A-ATTTATATT
1 ATATTTA-A-T
1850044 ATATTTAA
1 ATATTTAA
1850052 ATTTATATTA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
8 12 0.28
9 23 0.53
10 3 0.07
11 5 0.12
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
ATATTTAAT
Found at i:1850011 original size:18 final size:18
Alignment explanation
Indices: 1849990--1850051 Score: 83
Period size: 18 Copynumber: 3.4 Consensus size: 18
1849980 TAAACACGAA
1849990 ATATTTAATATATTTT-TT
1 ATATTTAATA-ATTTTATT
*
1850008 ATATTTAA-AATTTTAAT
1 ATATTTAATAATTTTATT
1850025 ATATTTAATAATTTATATT
1 ATATTTAATAATTT-TATT
1850044 ATATTTAA
1 ATATTTAA
1850052 ATTTATATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
16 5 0.13
17 10 0.26
18 13 0.33
19 11 0.28
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
ATATTTAATAATTTTATT
Found at i:1850029 original size:17 final size:18
Alignment explanation
Indices: 1850007--1850077 Score: 74
Period size: 17 Copynumber: 3.9 Consensus size: 18
1849997 ATATATTTTT
1850007 TATATTTAAAATTT-TAA
1 TATATTTAAAATTTATAA
*
1850024 TATATTTAATAATTTATAT
1 TATATTTAA-AATTTATAA
*
1850043 TATATTT-AAATTTATAT
1 TATATTTAAAATTTATAA
* *
1850060 TACTATTAAAAATATATA
1 TA-TATTTAAAATTTATA
1850078 TGTATAAATT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
17 20 0.43
18 10 0.21
19 17 0.36
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (18 bp):
TATATTTAAAATTTATAA
Found at i:1850078 original size:36 final size:36
Alignment explanation
Indices: 1850006--1850083 Score: 88
Period size: 36 Copynumber: 2.1 Consensus size: 36
1849996 AATATATTTT
* *
1850006 TTATATTTAAAATTTTAATATATTTAATAATTTATA
1 TTATATTTAAAATTTTAATATATTTAAAAATATATA
*
1850042 TTATATTT-AAATTTATATTACTA-TTAAAAATATATA
1 TTATATTTAAAATTT-TAATA-TATTTAAAAATATATA
1850078 TGTATA
1 T-TATA
1850084 AATTACCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
35 6 0.17
36 24 0.67
37 6 0.17
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (36 bp):
TTATATTTAAAATTTTAATATATTTAAAAATATATA
Found at i:1850691 original size:22 final size:22
Alignment explanation
Indices: 1850666--1850707 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
1850656 AAAATATATT
*
1850666 TATTTTTTTAATATTTAAAAAA
1 TATTTATTTAATATTTAAAAAA
* *
1850688 TATTTATTTATTTTTTAAAA
1 TATTTATTTAATATTTAAAA
1850708 TTTAATTAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TATTTATTTAATATTTAAAAAA
Found at i:1850702 original size:29 final size:28
Alignment explanation
Indices: 1850655--1850712 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 28
1850645 CAATTTTATT
*
1850655 AAAAATATATTTATTTTTTTAATATTTA
1 AAAAATATATTTATTTTTTTAAAATTTA
1850683 AAAAATATTTATTTA-TTTTTTAAAATTTA
1 AAAAATA--TATTTATTTTTTTAAAATTTA
1850712 A
1 A
1850713 TTAAAAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 7 0.26
29 14 0.52
30 6 0.22
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (28 bp):
AAAAATATATTTATTTTTTTAAAATTTA
Found at i:1850802 original size:17 final size:15
Alignment explanation
Indices: 1850779--1850818 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
1850769 ATAAATATAC
1850779 TTTTTATTAATATTAA
1 TTTTTATTAATATT-A
*
1850795 TATTTTATTATTATTA
1 T-TTTTATTAATATTA
1850811 TTTTTATT
1 TTTTTATT
1850819 TAAAAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 7 0.32
16 3 0.14
17 12 0.55
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTTATTAATATTA
Found at i:1850878 original size:22 final size:23
Alignment explanation
Indices: 1850846--1850906 Score: 74
Period size: 22 Copynumber: 2.7 Consensus size: 23
1850836 TAAAATATTT
1850846 ATTATTAAATTAATATTAAAATAA
1 ATTATT-AATTAATATTAAAATAA
* *
1850870 ATT-TTAATTATTATTAAATTAA
1 ATTATTAATTAATATTAAAATAA
1850892 ATTATT-ATTAA-ATTA
1 ATTATTAATTAATATTA
1850907 TATTCTAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
21 4 0.12
22 22 0.67
23 4 0.12
24 3 0.09
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
ATTATTAATTAATATTAAAATAA
Found at i:1850894 original size:16 final size:16
Alignment explanation
Indices: 1850844--1850906 Score: 74
Period size: 16 Copynumber: 3.9 Consensus size: 16
1850834 TATAAAATAT
1850844 TTATTATTAAATTAATA
1 TTATTATTAAATTAA-A
* * *
1850861 TTA-AAATAAATTTTAA
1 TTATTATTAAA-TTAAA
1850877 TTATTATTAAATTAAA
1 TTATTATTAAATTAAA
1850893 TTATTATTAAATTA
1 TTATTATTAAATTA
1850907 TATTCTAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
16 27 0.71
17 11 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTATTATTAAATTAAA
Found at i:1851566 original size:57 final size:53
Alignment explanation
Indices: 1851505--1851619 Score: 155
Period size: 52 Copynumber: 2.1 Consensus size: 53
1851495 TAAGTAAGTG
1851505 TATTTTATATTAAATTTTAAGAGAAAAAAATATTATTCAAAAT-TTAAA-AAATAAATA
1 TATTTTATATTAAATTTT-----AAAAAAATATTA-TCAAAATCTTAAACAAATAAATA
1851562 TATTTTATATTAAATTTTAAAAAAATATTATCAAAATCTTAAACAAATAAATA
1 TATTTTATATTAAATTTTAAAAAAATATTATCAAAATCTTAAACAAATAAATA
1851615 -ATTTT
1 TATTTT
1851620 TTTTTTTTCA
Statistics
Matches: 56, Mismatches: 0, Indels: 9
0.86 0.00 0.14
Matches are distributed among these distances:
51 7 0.12
52 22 0.39
53 9 0.16
57 18 0.32
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (53 bp):
TATTTTATATTAAATTTTAAAAAAATATTATCAAAATCTTAAACAAATAAATA
Found at i:1854159 original size:2 final size:2
Alignment explanation
Indices: 1854152--1854179 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1854142 AGGTAATTCT
1854152 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1854180 GTTTTCTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:1859074 original size:2 final size:2
Alignment explanation
Indices: 1859067--1859094 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1859057 ATATTAATAG
1859067 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1859095 GATGCTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1860116 original size:33 final size:31
Alignment explanation
Indices: 1860058--1860133 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 31
1860048 ATTTAAAAGT
* *
1860058 AATATAATAAATATGATATATAATAAATTTA
1 AATATGATTAATATGATATATAATAAATTTA
1860089 AATATGATTAATATGATTTATATAATAAATTTA
1 AATATGATTAATATGA--TATATAATAAATTTA
1860122 ATATATGTATTA
1 A-ATATG-ATTA
1860134 TATTTATAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
31 14 0.36
33 16 0.41
34 5 0.13
35 4 0.10
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.43
Consensus pattern (31 bp):
AATATGATTAATATGATATATAATAAATTTA
Found at i:1860879 original size:26 final size:26
Alignment explanation
Indices: 1860835--1860897 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 26
1860825 ATTTTTTAAA
* * *
1860835 TAAGTAATAAATTAAAAAGATCTTTT
1 TAAGTAAAAAAGTAAAAAGATATTTT
* *
1860861 TAAGTAAAAAAGTAGAAAGTTATTTT
1 TAAGTAAAAAAGTAAAAAGATATTTT
*
1860887 TAA-TATAAAAG
1 TAAGTAAAAAAG
1860898 ATGGGTATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
25 7 0.23
26 24 0.77
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.35
Consensus pattern (26 bp):
TAAGTAAAAAAGTAAAAAGATATTTT
Found at i:1865620 original size:5 final size:5
Alignment explanation
Indices: 1865610--1865644 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
1865600 AAATATGTAT
* *
1865610 TCAAA TCAAA TCAAA TTAAA TCAAA TTAAA TCAAA
1 TCAAA TCAAA TCAAA TCAAA TCAAA TCAAA TCAAA
1865645 CTGATCCAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.60, C:0.14, G:0.00, T:0.26
Consensus pattern (5 bp):
TCAAA
Found at i:1865625 original size:10 final size:10
Alignment explanation
Indices: 1865610--1865644 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
1865600 AAATATGTAT
*
1865610 TCAAATCAAA
1 TCAAATTAAA
1865620 TCAAATTAAA
1 TCAAATTAAA
1865630 TCAAATTAAA
1 TCAAATTAAA
1865640 TCAAA
1 TCAAA
1865645 CTGATCCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.60, C:0.14, G:0.00, T:0.26
Consensus pattern (10 bp):
TCAAATTAAA
Found at i:1868680 original size:23 final size:23
Alignment explanation
Indices: 1868653--1868699 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
1868643 ATTTAACTTA
1868653 AATTATCATTTAATTA-AATAAAT
1 AATTATCATTTAATTATAA-AAAT
*
1868676 AATTATTATTTAATTATAAAAAT
1 AATTATCATTTAATTATAAAAAT
1868699 A
1 A
1868700 TATAAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 20 0.91
24 2 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (23 bp):
AATTATCATTTAATTATAAAAAT
Found at i:1872509 original size:2 final size:2
Alignment explanation
Indices: 1872504--1872531 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1872494 CACACCAAAT
1872504 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1872532 ACTTATTAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1876882 original size:2 final size:2
Alignment explanation
Indices: 1876875--1876908 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1876865 CCACCCAACA
1876875 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1876909 GTAAATAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1877882 original size:22 final size:22
Alignment explanation
Indices: 1877837--1877905 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
1877827 GACTCGAATT
*
1877837 ATTATTTAAATA-TAATAT--T
1 ATTATTTAAATATTAATATAAA
*
1877856 TTTATTTAAAT-TTAATTATAAA
1 ATTATTTAAATATTAA-TATAAA
*
1877878 ATTATATAAATATTAATATAAA
1 ATTATTTAAATATTAATATAAA
1877900 A-TATTT
1 ATTATTT
1877906 TTTATTTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
19 13 0.32
20 3 0.08
21 4 0.10
22 16 0.40
23 4 0.10
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTATTTAAATATTAATATAAA
Found at i:1878405 original size:13 final size:13
Alignment explanation
Indices: 1878389--1878414 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1878379 TATTATTTTT
1878389 AAATATATAATAA
1 AAATATATAATAA
1878402 AAATATATAATAA
1 AAATATATAATAA
1878415 TTTTTTAATC
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAATATATAATAA
Found at i:1878749 original size:2 final size:2
Alignment explanation
Indices: 1878744--1878780 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
1878734 AAATTCAAGT
1878744 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1878781 AGGAAGTTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1878994 original size:3 final size:3
Alignment explanation
Indices: 1878986--1879020 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
1878976 AATTGAATAA
1878986 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1879021 CAGTGTACAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:1880642 original size:22 final size:22
Alignment explanation
Indices: 1880617--1880662 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
1880607 TATTTCATCC
1880617 AACAAAAAATTAGTATTCTTTG
1 AACAAAAAATTAGTATTCTTTG
*
1880639 AACATAAAATTAGTATTCTTTG
1 AACAAAAAATTAGTATTCTTTG
1880661 AA
1 AA
1880663 TTTGAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.37
Consensus pattern (22 bp):
AACAAAAAATTAGTATTCTTTG
Found at i:1883240 original size:21 final size:20
Alignment explanation
Indices: 1883211--1883253 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
1883201 TTTTTTTTCA
* *
1883211 AATATAAAAAATTTTATTTT
1 AATATAAAAAATTATAATTT
1883231 AATATAAAAAAATTATAATTT
1 AATAT-AAAAAATTATAATTT
1883252 AA
1 AA
1883254 AAAAATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AATATAAAAAATTATAATTT
Found at i:1883254 original size:16 final size:16
Alignment explanation
Indices: 1883230--1883264 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
1883220 AATTTTATTT
1883230 TAATATAAAAAAATTA
1 TAATATAAAAAAATTA
*
1883246 TAATTTAAAAAAATTA
1 TAATATAAAAAAATTA
1883262 TAA
1 TAA
1883265 ATTTTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
TAATATAAAAAAATTA
Found at i:1883273 original size:16 final size:17
Alignment explanation
Indices: 1883235--1883273 Score: 62
Period size: 16 Copynumber: 2.3 Consensus size: 17
1883225 TATTTTAATA
1883235 TAAAAAAATTAT-AATT
1 TAAAAAAATTATAAATT
1883251 TAAAAAAATTATAAATTT
1 TAAAAAAATTATAAA-TT
1883269 TAAAA
1 TAAAA
1883274 TTTAAATTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 12 0.57
17 2 0.10
18 7 0.33
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TAAAAAAATTATAAATT
Found at i:1884247 original size:18 final size:18
Alignment explanation
Indices: 1884212--1884250 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
1884202 ATATGCAAAT
* *
1884212 AAAATATAATTATTTAAA
1 AAAATATAAATATATAAA
*
1884230 AAAATTTAAATATATAAA
1 AAAATATAAATATATAAA
1884248 AAA
1 AAA
1884251 TTAAACATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAATATAAATATATAAA
Found at i:1884434 original size:26 final size:26
Alignment explanation
Indices: 1884376--1884448 Score: 101
Period size: 27 Copynumber: 2.7 Consensus size: 26
1884366 CAAAAGTTAC
* *
1884376 CTTTTGTGTTTATTAAAAATAGTGGTT
1 CTTTT-TGTTTGTAAAAAATAGTGGTT
*
1884403 CTTTTTTGTTTGTAAAAAATAGTTGTT
1 C-TTTTTGTTTGTAAAAAATAGTGGTT
1884430 CTTTTTGTTTGTAAAAAAT
1 CTTTTTGTTTGTAAAAAAT
1884449 GGTGACTTGT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 18 0.43
27 20 0.48
28 4 0.10
ACGTcount: A:0.27, C:0.04, G:0.15, T:0.53
Consensus pattern (26 bp):
CTTTTTGTTTGTAAAAAATAGTGGTT
Found at i:1884461 original size:24 final size:24
Alignment explanation
Indices: 1884408--1884477 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 24
1884398 TGGTTCTTTT
* * *
1884408 TTGTTTGTAAAAAATAGTTGTTCTTT
1 TTGTTTGTAAAAAAT-GGTG-ACTTG
1884434 TTGTTTGTAAAAAATGGTGACTTG
1 TTGTTTGTAAAAAATGGTGACTTG
* *
1884458 TTGTTTGTCAAAATTGGTGA
1 TTGTTTGTAAAAAATGGTGA
1884478 TTAATTTTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
24 21 0.54
25 3 0.08
26 15 0.38
ACGTcount: A:0.27, C:0.04, G:0.21, T:0.47
Consensus pattern (24 bp):
TTGTTTGTAAAAAATGGTGACTTG
Found at i:1888939 original size:27 final size:27
Alignment explanation
Indices: 1888909--1888981 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
1888899 CAAAAGCCAC
* *
1888909 CCTTTGTGTTTGTCAAAAATAATGGTT
1 CCTTTTTGTTTGTCAAAAATAATGATT
* * *
1888936 CCTTTTTATTTGTCAAAAATAGTTATT
1 CCTTTTTGTTTGTCAAAAATAATGATT
1888963 -CTTTTTGTTTGTCAAAAAT
1 CCTTTTTGTTTGTCAAAAAT
1888982 GGTGACTTGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
26 18 0.45
27 22 0.55
ACGTcount: A:0.27, C:0.11, G:0.12, T:0.49
Consensus pattern (27 bp):
CCTTTTTGTTTGTCAAAAATAATGATT
Found at i:1888966 original size:26 final size:27
Alignment explanation
Indices: 1888917--1888981 Score: 87
Period size: 26 Copynumber: 2.4 Consensus size: 27
1888907 ACCCTTTGTG
*
1888917 TTTGTCAAAAATAATGGTTCCTTTTTA
1 TTTGTCAAAAATAATGATTCCTTTTTA
* * *
1888944 TTTGTCAAAAATAGTTATT-CTTTTTG
1 TTTGTCAAAAATAATGATTCCTTTTTA
1888970 TTTGTCAAAAAT
1 TTTGTCAAAAAT
1888982 GGTGACTTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 18 0.53
27 16 0.47
ACGTcount: A:0.31, C:0.09, G:0.11, T:0.49
Consensus pattern (27 bp):
TTTGTCAAAAATAATGATTCCTTTTTA
Found at i:1888999 original size:24 final size:25
Alignment explanation
Indices: 1888944--1889009 Score: 80
Period size: 24 Copynumber: 2.6 Consensus size: 25
1888934 TTCCTTTTTA
* * *
1888944 TTTGTCAAAAATAGTTATTCTTTTTG
1 TTTGTCAAAAATGGTGA-TCTTGTTG
1888970 TTTGTCAAAAATGGTGA-CTTGTTG
1 TTTGTCAAAAATGGTGATCTTGTTG
*
1888994 TTTGTCAAAATTGGTG
1 TTTGTCAAAAATGGTG
1889010 GCTAATTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
24 21 0.58
26 15 0.42
ACGTcount: A:0.26, C:0.08, G:0.20, T:0.47
Consensus pattern (25 bp):
TTTGTCAAAAATGGTGATCTTGTTG
Found at i:1889733 original size:23 final size:23
Alignment explanation
Indices: 1889686--1889736 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
1889676 TATTATCTGG
*
1889686 ATTTTACATTTTATTAGTATCAAT
1 ATTTTACATTTTATTA-TATAAAT
1889710 ATTTTACATTTATATT-TATAAAT
1 ATTTTACATTT-TATTATATAAAT
1889733 ATTT
1 ATTT
1889737 AAATATAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 10 0.40
24 11 0.44
25 4 0.16
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (23 bp):
ATTTTACATTTTATTATATAAAT
Found at i:1889745 original size:14 final size:14
Alignment explanation
Indices: 1889726--1889770 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
1889716 CATTTATATT
1889726 TATAAATATTTAAA
1 TATAAATATTTAAA
*
1889740 TATAAATA-TAAAA
1 TATAAATATTTAAA
* *
1889753 TATTAATTTTTAAA
1 TATAAATATTTAAA
1889767 TATA
1 TATA
1889771 TAAAAAATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TATAAATATTTAAA
Found at i:1894025 original size:24 final size:23
Alignment explanation
Indices: 1893957--1894025 Score: 83
Period size: 20 Copynumber: 3.1 Consensus size: 23
1893947 GGTTGGATAC
* *
1893957 AAAT-TTTAAAATATTTATATTT
1 AAATATTTAAAAAATTTAAATTT
1893979 AAATATTT-AAAAA-TT-AATTT
1 AAATATTTAAAAAATTTAAATTT
1893999 AAATATTTAAAAAATTTAAAATTT
1 AAATATTTAAAAAATTT-AAATTT
1894023 AAA
1 AAA
1894026 ATATATTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
20 12 0.30
21 7 0.17
22 10 0.25
23 3 0.08
24 8 0.20
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
AAATATTTAAAAAATTTAAATTT
Found at i:1894041 original size:36 final size:36
Alignment explanation
Indices: 1893975--1894044 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 36
1893965 AAATATTTAT
1893975 ATTTAAATATTTAAAAATTAATTTAAATATTTAAAAA
1 ATTTAAATATTTAAAAATTAATTT-AATATTTAAAAA
*
1894012 ATTTAAA-ATTTAAAATATATTATTT-ATATTTAA
1 ATTTAAATATTTAAAA-AT-TAATTTAATATTTAA
1894045 TATTTTTATG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
36 16 0.53
37 9 0.30
38 5 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (36 bp):
ATTTAAATATTTAAAAATTAATTTAATATTTAAAAA
Found at i:1894440 original size:21 final size:22
Alignment explanation
Indices: 1894394--1894440 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
1894384 AAATAGTAGC
*
1894394 ATTTCTTTATTTAGTTACTTTA
1 ATTTCTTTATTTAGTTAATTTA
*
1894416 ATTT-TTTATTT-TTTAATTTA
1 ATTTCTTTATTTAGTTAATTTA
1894436 TATTT
1 -ATTT
1894441 AATATTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 7 0.32
21 11 0.50
22 4 0.18
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.70
Consensus pattern (22 bp):
ATTTCTTTATTTAGTTAATTTA
Found at i:1894449 original size:13 final size:13
Alignment explanation
Indices: 1894431--1894457 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1894421 TTATTTTTTA
1894431 ATTTATATTTAAT
1 ATTTATATTTAAT
1894444 ATTTATATTTAAT
1 ATTTATATTTAAT
1894457 A
1 A
1894458 AATATTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATTTATATTTAAT
Found at i:1894474 original size:14 final size:14
Alignment explanation
Indices: 1894455--1894498 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
1894445 TTTATATTTA
1894455 ATAAATATTTAAAT
1 ATAAATATTTAAAT
*
1894469 ATAAATA-TAAAAT
1 ATAAATATTTAAAT
* *
1894482 ATAATTTTTTAAAT
1 ATAAATATTTAAAT
1894496 ATA
1 ATA
1894499 TAAATTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
ATAAATATTTAAAT
Found at i:1894501 original size:16 final size:16
Alignment explanation
Indices: 1894476--1894508 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
1894466 AATATAAATA
1894476 TAAAATAT-AATTTTT
1 TAAAATATAAATTTTT
1894491 TAAATATATAAATTTTT
1 TAAA-ATATAAATTTTT
1894508 T
1 T
1894509 TGAAAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 4 0.25
17 8 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TAAAATATAAATTTTT
Found at i:1894568 original size:2 final size:2
Alignment explanation
Indices: 1894561--1894590 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1894551 AATTTAAATA
1894561 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1894591 TCCTTCAGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1896675 original size:120 final size:119
Alignment explanation
Indices: 1896433--1896651 Score: 341
Period size: 120 Copynumber: 1.8 Consensus size: 119
1896423 ATATTTTTTT
* * * *
1896433 AAAAAATAAAAAGCTAATATACTTGTAGATAGGAGTTCTTCTACAATCTTTATATTATAATGAGA
1 AAAAAATAAAAAACTAACATACTTGTAGATAAGAGTTCTTCTACAATCTTTATATTATAATGACA
* * *
1896498 AATGCATTTTAATTTCTTTATTGTTAAACTAAGCAAGAAATAAGTATTTTTGAA
66 AATGCATTTTAATTTCTTCATTATTAAACGAAGCAAGAAATAAGTATTTTTGAA
*
1896552 AAAAAATAAAAAAATTAACATACTTGTAGATAAGAGTTCTTCTACAATCTTTATATTATAATGAC
1 AAAAAAT-AAAAAACTAACATACTTGTAGATAAGAGTTCTTCTACAATCTTTATATTATAATGAC
*
1896617 AAATGCATTTTAGTTTC-TCATTATTAAACGAAGCA
65 AAATGCATTTTAATTTCTTCATTATTAAACGAAGCA
1896652 TTTTCATTCT
Statistics
Matches: 90, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
119 22 0.24
120 68 0.76
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.37
Consensus pattern (119 bp):
AAAAAATAAAAAACTAACATACTTGTAGATAAGAGTTCTTCTACAATCTTTATATTATAATGACA
AATGCATTTTAATTTCTTCATTATTAAACGAAGCAAGAAATAAGTATTTTTGAA
Found at i:1896871 original size:22 final size:24
Alignment explanation
Indices: 1896846--1896891 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
1896836 AAGCTATATC
1896846 AATATT-TAAATAA-ATTTTATTT
1 AATATTATAAATAATATTTTATTT
* *
1896868 AATATTATTAATAATTTTTTATTT
1 AATATTATAAATAATATTTTATTT
1896892 TCTTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 6 0.30
23 6 0.30
24 8 0.40
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
AATATTATAAATAATATTTTATTT
Found at i:1899043 original size:2 final size:2
Alignment explanation
Indices: 1899036--1899063 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1899026 TTTGTACTCT
1899036 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1899064 CTACAGAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1902835 original size:2 final size:2
Alignment explanation
Indices: 1902830--1902861 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1902820 ATGCTCAGGA
1902830 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1902862 TAAAGAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1905761 original size:36 final size:35
Alignment explanation
Indices: 1905721--1905790 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 35
1905711 AAATAATTAA
*
1905721 TTATTATTTAACATTAATAT-GTTTTTAATTTATTTT
1 TTATTATTTAACATAAATATAG-TTTTAA-TTATTTT
*
1905757 TTATTATTTAATATAAATATAGTTTTAATTATTT
1 TTATTATTTAACATAAATATAGTTTTAATTATTT
1905791 GTCATTATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
35 6 0.19
36 24 0.77
37 1 0.03
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.61
Consensus pattern (35 bp):
TTATTATTTAACATAAATATAGTTTTAATTATTTT
Found at i:1906419 original size:22 final size:21
Alignment explanation
Indices: 1906394--1906458 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
1906384 GACATATTTG
*
1906394 CATATCATTTTTATTATATATA
1 CATAT-ATTTTTACTATATATA
* * *
1906416 CATATAATTATGCTATATATA
1 CATATATTTTTACTATATATA
*
1906437 CGTATTATTTTTACTATATATA
1 CATA-TATTTTTACTATATATA
1906459 TATTACTTTA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
21 15 0.44
22 19 0.56
ACGTcount: A:0.37, C:0.09, G:0.03, T:0.51
Consensus pattern (21 bp):
CATATATTTTTACTATATATA
Found at i:1908551 original size:21 final size:22
Alignment explanation
Indices: 1908517--1908567 Score: 79
Period size: 21 Copynumber: 2.4 Consensus size: 22
1908507 TTTAAAAAAA
1908517 TTTAAAAAATTAAT-AATTATTT
1 TTTAAAAAATTAATAAATTA-TT
1908539 TTTAAAAAA-TAATAAATTATT
1 TTTAAAAAATTAATAAATTATT
1908560 TTTAAAAA
1 TTTAAAAA
1908568 TTTTAGGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.50
22 14 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TTTAAAAAATTAATAAATTATT
Found at i:1908786 original size:23 final size:23
Alignment explanation
Indices: 1908758--1908801 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
1908748 CATAAGAAAA
**
1908758 TTTAAAAATAATTAATTATTTAT
1 TTTAAAAATAAAAAATTATTTAT
*
1908781 TTTAAAAGTAAAAAATTATTT
1 TTTAAAAATAAAAAATTATTT
1908802 TTAAAATTCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
TTTAAAAATAAAAAATTATTTAT
Found at i:1909769 original size:2 final size:2
Alignment explanation
Indices: 1909762--1909805 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
1909752 AAAAGAGATT
1909762 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1909803 TA T
1 TA T
1909806 CAATAAAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1910848 original size:18 final size:18
Alignment explanation
Indices: 1910825--1910859 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1910815 TAATAAATTA
1910825 AAAATAAA-AAAATATTTT
1 AAAATAAATAAAA-ATTTT
1910843 AAAATAAATAAAAATTT
1 AAAATAAATAAAAATTT
1910860 ACATATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAATAAATAAAAATTTT
Found at i:1911644 original size:3 final size:3
Alignment explanation
Indices: 1911638--1911739 Score: 66
Period size: 3 Copynumber: 33.7 Consensus size: 3
1911628 CTAATTATTA
* ** * *
1911638 AAT AAT AAT AAT AAT AAT AAT AA- AGGT GCT AAT TAT TA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
** * *
1911682 AAT AAT AAT AAT AAT AAT AAT GAAGGT GCT AAT TAT TA- AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT -AA--T AAT AAT AAT AAT AAT AAT AAT
1911729 AAT AAT AAT AA
1 AAT AAT AAT AA
1911740 AAGAATCACT
Statistics
Matches: 79, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
2 3 0.04
3 73 0.92
4 2 0.03
6 1 0.01
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1911672 original size:38 final size:40
Alignment explanation
Indices: 1911628--1911744 Score: 177
Period size: 41 Copynumber: 2.9 Consensus size: 40
1911618 CAAAAGGATA
1911628 CTAATTATTAAATAATAATAATAATAATAAT-A-AAGGTG
1 CTAATTATTAAATAATAATAATAATAATAATAAGAAGGTG
1911666 CTAATTATTAAATAATAATAATAATAATAATAATAATGAAGGTG
1 CTAATTATT--A-AATAATAATAATAATAATAATAA-GAAGGTG
1911710 CTAATTATTAAATAATAATAATAATAATAA-AAGAA
1 CTAATTATTAAATAATAATAATAATAATAATAAGAA
1911745 TCACTAATTT
Statistics
Matches: 73, Mismatches: 0, Indels: 11
0.87 0.00 0.13
Matches are distributed among these distances:
38 9 0.12
39 3 0.04
40 3 0.04
41 41 0.56
42 2 0.03
44 15 0.21
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (40 bp):
CTAATTATTAAATAATAATAATAATAATAATAAGAAGGTG
Found at i:1911701 original size:44 final size:44
Alignment explanation
Indices: 1911638--1911739 Score: 195
Period size: 44 Copynumber: 2.3 Consensus size: 44
1911628 CTAATTATTA
1911638 AATAATAATAATAATAATAATAAAGGTGCTAATTATTAAATAAT
1 AATAATAATAATAATAATAATAAAGGTGCTAATTATTAAATAAT
*
1911682 AATAATAATAATAATAATAATGAAGGTGCTAATTATTAAATAAT
1 AATAATAATAATAATAATAATAAAGGTGCTAATTATTAAATAAT
1911726 AATAATAATAATAA
1 AATAATAATAATAA
1911740 AAGAATCACT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 57 1.00
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (44 bp):
AATAATAATAATAATAATAATAAAGGTGCTAATTATTAAATAAT
Found at i:1912189 original size:30 final size:30
Alignment explanation
Indices: 1912135--1912205 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 30
1912125 TAAAAAAAAA
* *
1912135 TTTAGATTATTTTACTTTATTTAAATAAATT
1 TTTATATT-TTTTACTTTACTTAAATAAATT
*
1912166 TTTATATTTTTTATTTTACTTAAATAAATT
1 TTTATATTTTTTACTTTACTTAAATAAATT
1912196 TTTATCATTT
1 TTTAT-ATTT
1912206 GTGCTTAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 25 0.69
31 11 0.31
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.62
Consensus pattern (30 bp):
TTTATATTTTTTACTTTACTTAAATAAATT
Found at i:1912228 original size:29 final size:28
Alignment explanation
Indices: 1912150--1912228 Score: 67
Period size: 30 Copynumber: 2.9 Consensus size: 28
1912140 ATTATTTTAC
* * *
1912150 TTTATTTAAATAAATTTTTATATTTTTTAT
1 TTTACTTAAATAAA-TTTTAT-TTTATCAT
1912180 TTTACTTAAATAAA---T-TTTTATCAT
1 TTTACTTAAATAAATTTTATTTTATCAT
*
1912204 TTGTGCTTAAATAAATTTTATTTTA
1 TT-TACTTAAATAAATTTTATTTTA
1912229 AATAAAAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
24 8 0.20
25 12 0.30
26 1 0.03
28 1 0.03
29 5 0.12
30 13 0.32
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.59
Consensus pattern (28 bp):
TTTACTTAAATAAATTTTATTTTATCAT
Found at i:1912600 original size:31 final size:29
Alignment explanation
Indices: 1912527--1912600 Score: 96
Period size: 28 Copynumber: 2.5 Consensus size: 29
1912517 AGTGTAAATT
*
1912527 TAAAATTAAATATTTATTTAAATATAATAA
1 TAAAATTAAAT-TTTATTTAAATAAAATAA
*
1912557 -AAAATAAAATTTTATTTAAATAAAATAA
1 TAAAATTAAATTTTATTTAAATAAAATAA
1912585 TAAAATTTAAGATTTT
1 TAAAA-TTAA-ATTTT
1912601 TTTTTTTAGC
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
28 17 0.45
29 13 0.34
30 3 0.08
31 5 0.13
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (29 bp):
TAAAATTAAATTTTATTTAAATAAAATAA
Found at i:1915780 original size:17 final size:17
Alignment explanation
Indices: 1915760--1915819 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
1915750 GGAATCACAG
*
1915760 ATTTTTTAAAAATTATA
1 ATTTTTTAAAAATTACA
*
1915777 ATTTTTTAAGAATTACA
1 ATTTTTTAAAAATTACA
* * *
1915794 AATTTTT-ATAATCACA
1 ATTTTTTAAAAATTACA
1915810 GATTTTTTAA
1 -ATTTTTTAA
1915820 CCCATCACAG
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
16 7 0.20
17 27 0.77
18 1 0.03
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (17 bp):
ATTTTTTAAAAATTACA
Found at i:1919107 original size:17 final size:17
Alignment explanation
Indices: 1919063--1919109 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
1919053 AATCAATATC
1919063 AATTATAAA-TTTTAAA
1 AATTATAAATTTTTAAA
* * * *
1919079 AATCACAGATTTTTAAG
1 AATTATAAATTTTTAAA
1919096 AATTATAAATTTTT
1 AATTATAAATTTTT
1919110 GTAATCATAG
Statistics
Matches: 23, Mismatches: 7, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
16 6 0.26
17 17 0.74
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (17 bp):
AATTATAAATTTTTAAA
Found at i:1919148 original size:18 final size:19
Alignment explanation
Indices: 1919113--1919148 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1919103 AATTTTTGTA
*
1919113 ATCATAGATTTTTCAACCC
1 ATCACAGATTTTTCAACCC
1919132 ATCACAGATTTTT-AACC
1 ATCACAGATTTTTCAACC
1919149 TCATTAATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.33, C:0.25, G:0.06, T:0.36
Consensus pattern (19 bp):
ATCACAGATTTTTCAACCC
Found at i:1927910 original size:10 final size:10
Alignment explanation
Indices: 1927895--1927926 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
1927885 ATAAATATAA
1927895 TAAAAATTAT
1 TAAAAATTAT
1927905 TAAAAA-TAT
1 TAAAAATTAT
1927914 TAAAAATT-T
1 TAAAAATTAT
1927923 TAAA
1 TAAA
1927927 TATAAATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 14 0.67
10 7 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TAAAAATTAT
Found at i:1931061 original size:2 final size:2
Alignment explanation
Indices: 1931050--1931079 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1931040 ATACACAACT
1931050 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1931080 TACTTACTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.