Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 182 of 208
Found at i:57191676 original size:20 final size:21
Alignment explanation
Indices: 57191638--57191676 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
57191628 AATATTTTTA
* *
57191638 AAAACAATTATAATTAGATGG
1 AAAACAATTAAAATCAGATGG
57191659 AAAA-AATTAAAATCAGAT
1 AAAACAATTAAAATCAGAT
57191677 AAAATAAACG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.59, C:0.05, G:0.10, T:0.26
Consensus pattern (21 bp):
AAAACAATTAAAATCAGATGG
Found at i:57191925 original size:16 final size:16
Alignment explanation
Indices: 57191894--57191926 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
57191884 AAATTTAATG
57191894 ATTTAATTAAATATTT
1 ATTTAATTAAATATTT
57191910 ATTTATATTAAA-ATTT
1 ATTTA-ATTAAATATTT
57191926 A
1 A
57191927 AGCACGTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTTAATTAAATATTT
Found at i:57203953 original size:21 final size:21
Alignment explanation
Indices: 57203923--57203964 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
57203913 GCATGCCCAT
57203923 ATTATTTTATAT-TTTTTAAA
1 ATTATTTTATATATTTTTAAA
57203943 ATTATATTTATATGATTTTTAA
1 ATTAT-TTTATAT-ATTTTTAA
57203965 TTTAATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
21 7 0.37
23 7 0.37
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (21 bp):
ATTATTTTATATATTTTTAAA
Found at i:57203985 original size:23 final size:22
Alignment explanation
Indices: 57203925--57203991 Score: 57
Period size: 23 Copynumber: 3.0 Consensus size: 22
57203915 ATGCCCATAT
* *
57203925 TATTTTATATTTTTTAAAATTA
1 TATTTAATATTTTTTAAATTTA
57203947 TATTT-ATATGATTTTT-AATTTAA
1 TATTTAATAT--TTTTTAAATTT-A
*
57203970 TATTTAATAATTTTTTGAATTT
1 TATTTAAT-ATTTTTTAAATTT
57203992 TTAAAATTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
21 4 0.11
22 9 0.24
23 16 0.42
24 7 0.18
25 2 0.05
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (22 bp):
TATTTAATATTTTTTAAATTTA
Found at i:57206576 original size:9 final size:9
Alignment explanation
Indices: 57206553--57206590 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
57206543 AGAATAGTAT
57206553 TAATAATGA
1 TAATAATGA
57206562 -AA-AATGA
1 TAATAATGA
57206569 TAATAATGA
1 TAATAATGA
*
57206578 TAATAATAA
1 TAATAATGA
57206587 TAAT
1 TAAT
57206591 GAAGGTCAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
7 5 0.19
8 4 0.15
9 17 0.65
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.32
Consensus pattern (9 bp):
TAATAATGA
Found at i:57207982 original size:17 final size:17
Alignment explanation
Indices: 57207962--57207994 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
57207952 TATTTGGACT
*
57207962 TTTTATTTATTTTTTGG
1 TTTTATTTATTATTTGG
57207979 TTTTATTTATTATTTG
1 TTTTATTTATTATTTG
57207995 TATTTGGTCT
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:0.15, C:0.00, G:0.09, T:0.76
Consensus pattern (17 bp):
TTTTATTTATTATTTGG
Found at i:57209070 original size:20 final size:20
Alignment explanation
Indices: 57209022--57209070 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
57209012 GTTGTTAAAT
*
57209022 AAATTTATAATTTATAACTA
1 AAATTTTTAATTTATAACTA
* * *
57209042 AAATATTTAATTTTTTACTA
1 AAATTTTTAATTTATAACTA
*
57209062 TAATTTTTA
1 AAATTTTTA
57209071 TTCTTAATTA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (20 bp):
AAATTTTTAATTTATAACTA
Found at i:57209498 original size:16 final size:16
Alignment explanation
Indices: 57209477--57209529 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
57209467 AAATTATACA
57209477 AAAAATAATTAATTAC
1 AAAAATAATTAATTAC
*
57209493 AAAAATAA-T-A-T-G
1 AAAAATAATTAATTAC
57209505 AAAAATAAATTAATTAC
1 AAAAAT-AATTAATTAC
*
57209522 AACAATAA
1 AAAAATAA
57209530 ACATTTGCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 10
0.69 0.07 0.24
Matches are distributed among these distances:
12 6 0.21
13 3 0.10
14 2 0.07
15 2 0.07
16 11 0.38
17 5 0.17
ACGTcount: A:0.66, C:0.06, G:0.02, T:0.26
Consensus pattern (16 bp):
AAAAATAATTAATTAC
Found at i:57209664 original size:62 final size:62
Alignment explanation
Indices: 57209564--57209687 Score: 239
Period size: 62 Copynumber: 2.0 Consensus size: 62
57209554 CGTTGCCTGG
57209564 CATATTGGCAACACCAGACTAAAATGTGATAACCAAAAATATTCAAAGACTTGATATATAAA
1 CATATTGGCAACACCAGACTAAAATGTGATAACCAAAAATATTCAAAGACTTGATATATAAA
*
57209626 CATATTGGCAACACCAGACTAAAATGTGATAACTAAAAATATTCAAAGACTTGATATATAAA
1 CATATTGGCAACACCAGACTAAAATGTGATAACCAAAAATATTCAAAGACTTGATATATAAA
57209688 TTTTTCATTG
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.25
Consensus pattern (62 bp):
CATATTGGCAACACCAGACTAAAATGTGATAACCAAAAATATTCAAAGACTTGATATATAAA
Found at i:57209700 original size:24 final size:24
Alignment explanation
Indices: 57209673--57209720 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
57209663 AATATTCAAA
57209673 GACTTGATATATAAATTTTTCATT
1 GACTTGATATATAAATTTTTCATT
*
57209697 GACTTGATATGTAAATTTTTCATT
1 GACTTGATATATAAATTTTTCATT
57209721 TTGATTAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.08, G:0.10, T:0.50
Consensus pattern (24 bp):
GACTTGATATATAAATTTTTCATT
Found at i:57214607 original size:26 final size:28
Alignment explanation
Indices: 57214572--57214624 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 28
57214562 GGTAATTTTC
57214572 TTTCATTTGCTTAATCCATGAC-ATGCT
1 TTTCATTTGCTTAATCCATGACTATGCT
*
57214599 TTTCA-TTGCTTAATTCATGACTATGC
1 TTTCATTTGCTTAATCCATGACTATGC
57214625 AATGATTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.23, C:0.21, G:0.11, T:0.45
Consensus pattern (28 bp):
TTTCATTTGCTTAATCCATGACTATGCT
Found at i:57216868 original size:14 final size:14
Alignment explanation
Indices: 57216849--57216877 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
57216839 CCGTTCCGAG
57216849 TATGTCTGTAAGCA
1 TATGTCTGTAAGCA
57216863 TATGTCTGTAAGCA
1 TATGTCTGTAAGCA
57216877 T
1 T
57216878 GTTTGTAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.38
Consensus pattern (14 bp):
TATGTCTGTAAGCA
Found at i:57219372 original size:31 final size:29
Alignment explanation
Indices: 57219334--57219407 Score: 103
Period size: 29 Copynumber: 2.5 Consensus size: 29
57219324 ACTACTAAAA
* *
57219334 TAGTCACTTTTGTTTGACTCAGGTTACATTT
1 TAGTCACTTATGTTTGA--AAGGTTACATTT
*
57219365 TAGTCACTTATGTTTGAAATGTTACATTT
1 TAGTCACTTATGTTTGAAAGGTTACATTT
57219394 TAGTCACTTATGTT
1 TAGTCACTTATGTT
57219408 ATCACGTTGT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
29 24 0.60
31 16 0.40
ACGTcount: A:0.23, C:0.14, G:0.15, T:0.49
Consensus pattern (29 bp):
TAGTCACTTATGTTTGAAAGGTTACATTT
Found at i:57219426 original size:31 final size:29
Alignment explanation
Indices: 57219359--57219432 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
57219349 GACTCAGGTT
* *
57219359 ACATTTTAGTCACTTATGTTTGAAATGTT
1 ACATTTTAGTCACTTATGTTTCAAATGTA
**
57219388 ACATTTTAGTCACTTATGTTATCACGTTGTA
1 ACATTTTAGTCACTTATGTT-TCA-AATGTA
57219419 ACATTTTAGTCACT
1 ACATTTTAGTCACT
57219433 GAGCTGTTAG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 20 0.51
30 2 0.05
31 17 0.44
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (29 bp):
ACATTTTAGTCACTTATGTTTCAAATGTA
Found at i:57227462 original size:14 final size:14
Alignment explanation
Indices: 57227437--57227474 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
57227427 TAACATTATG
57227437 TTAAAA-ATTAAAA
1 TTAAAATATTAAAA
57227450 TTAAAATATTAAAA
1 TTAAAATATTAAAA
*
57227464 TTTAAAT-TTAA
1 TTAAAATATTAA
57227475 GCTGAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
TTAAAATATTAAAA
Found at i:57230269 original size:25 final size:27
Alignment explanation
Indices: 57230221--57230277 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
57230211 TCTTTTCTAA
*
57230221 TTTTTGGCAATTCTACCGATAATGTTTT
1 TTTTTGGCAATTCTA-CGATAATGTCTT
*
57230249 TTTTTGGCAATTCTA-TA-AATGTCTT
1 TTTTTGGCAATTCTACGATAATGTCTT
57230274 TTTT
1 TTTT
57230278 CTTATGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 11 0.41
26 1 0.04
28 15 0.56
ACGTcount: A:0.21, C:0.12, G:0.12, T:0.54
Consensus pattern (27 bp):
TTTTTGGCAATTCTACGATAATGTCTT
Found at i:57231927 original size:57 final size:54
Alignment explanation
Indices: 57231814--57231920 Score: 135
Period size: 58 Copynumber: 1.9 Consensus size: 54
57231804 GGTTTTTTAA
* *
57231814 TTTTTTGTCATCTAATTATGAAAAGTTACAAAATAATCATTTAATTATTAATAT
1 TTTTTTGTCATCTAATTATGAAAAGTTACAAAATAATCATTCAACTATTAATAT
*
57231868 TTTTTTGTCAGTACTAAATTAT-AATAAGTTACAAAAATGATCATTCAACTATT
1 TTTTTTGTCA-T-CT-AATTATGAA-AAGTTAC-AAAATAATCATTCAACTATT
57231921 CTATTTTGTC
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
54 10 0.22
55 1 0.02
56 4 0.09
57 13 0.29
58 17 0.38
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (54 bp):
TTTTTTGTCATCTAATTATGAAAAGTTACAAAATAATCATTCAACTATTAATAT
Found at i:57232029 original size:31 final size:32
Alignment explanation
Indices: 57231989--57232062 Score: 89
Period size: 31 Copynumber: 2.3 Consensus size: 32
57231979 TACGTTTGTC
* *
57231989 AGTT-GGTGACCAAAAAAGACAAAATTG-AAT
1 AGTTGGGTGACCAAAAAAAACAAAAATGAAAT
* *
57232019 AGTTGGGTGACTAAAAAAAAGAAAAATGATAAT
1 AGTTGGGTGACCAAAAAAAACAAAAATGA-AAT
57232052 AGTTGGGTGAC
1 AGTTGGGTGAC
57232063 ATTTATTGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 4 0.11
31 19 0.51
33 14 0.38
ACGTcount: A:0.47, C:0.07, G:0.24, T:0.22
Consensus pattern (32 bp):
AGTTGGGTGACCAAAAAAAACAAAAATGAAAT
Found at i:57232053 original size:33 final size:33
Alignment explanation
Indices: 57232000--57232062 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
57231990 GTTGGTGACC
57232000 AAAAAAGACAAAATTGAATAGTTGGGTGACTAA
1 AAAAAAGACAAAATTGAATAGTTGGGTGACTAA
57232033 AAAAAAGA-AAAA-TGATAATAGTTGGGTGAC
1 AAAAAAGACAAAATTG--AATAGTTGGGTGAC
57232063 ATTTATTGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
31 2 0.07
32 4 0.14
33 22 0.79
ACGTcount: A:0.52, C:0.05, G:0.22, T:0.21
Consensus pattern (33 bp):
AAAAAAGACAAAATTGAATAGTTGGGTGACTAA
Found at i:57239807 original size:19 final size:20
Alignment explanation
Indices: 57239782--57239829 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
57239772 AAATGATAAA
57239782 AATAAAAATCAATAAAATTT
1 AATAAAAATCAATAAAATTT
* *
57239802 -ATAAAAATGAATAAATTTT
1 AATAAAAATCAATAAAATTT
57239821 AATAAAAAT
1 AATAAAAAT
57239830 ATTTAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (20 bp):
AATAAAAATCAATAAAATTT
Found at i:57239825 original size:20 final size:19
Alignment explanation
Indices: 57239782--57239848 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 19
57239772 AAATGATAAA
*
57239782 AATAAAAATCAATAAAATTT
1 AATAAAAAT-AATAAATTTT
57239802 -ATAAAAATGAATAAATTTT
1 AATAAAAAT-AATAAATTTT
*
57239821 AATAAAAATATTTAAATTTT
1 AATAAAAATA-ATAAATTTT
*
57239841 ATTAAAAA
1 AATAAAAA
57239849 ATAGAAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
19 18 0.44
20 23 0.56
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (19 bp):
AATAAAAATAATAAATTTT
Found at i:57239905 original size:18 final size:18
Alignment explanation
Indices: 57239874--57239933 Score: 86
Period size: 18 Copynumber: 3.3 Consensus size: 18
57239864 AAAAATCGTA
57239874 AAAATTGT-AAAATATAT
1 AAAATTGTAAAAATATAT
57239891 AAAATTGTAAAAATATAT
1 AAAATTGTAAAAATATAT
* *
57239909 AAAAATGTCAAAAAAATAT
1 AAAATTGT-AAAAATATAT
57239928 AAAATT
1 AAAATT
57239934 ATTCCAACTA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
17 8 0.21
18 16 0.42
19 14 0.37
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (18 bp):
AAAATTGTAAAAATATAT
Found at i:57239995 original size:21 final size:21
Alignment explanation
Indices: 57239971--57240026 Score: 71
Period size: 19 Copynumber: 2.8 Consensus size: 21
57239961 ATAAAGTAGT
57239971 AAGAAAATTATAAAAAATGTA
1 AAGAAAATTATAAAAAATGTA
**
57239992 AAG-AAA-TATAAAATTTGTA
1 AAGAAAATTATAAAAAATGTA
*
57240011 AAAAAAATTATAAAAA
1 AAGAAAATTATAAAAA
57240027 TTATCTTACC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 13 0.45
20 6 0.21
21 10 0.34
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (21 bp):
AAGAAAATTATAAAAAATGTA
Found at i:57240253 original size:20 final size:20
Alignment explanation
Indices: 57240228--57240270 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
57240218 TTTATAAAAG
57240228 TTTACAATCTTTATAATTTT
1 TTTACAATCTTTATAATTTT
*
57240248 TTTACAATTTTTATAATTTT
1 TTTACAATCTTTATAATTTT
57240268 TTT
1 TTT
57240271 TGTCACATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTACAATCTTTATAATTTT
Found at i:57244217 original size:38 final size:38
Alignment explanation
Indices: 57244158--57244251 Score: 152
Period size: 38 Copynumber: 2.5 Consensus size: 38
57244148 TGTTGCTCTG
* * *
57244158 TAAATCCTGTAGATAATCATTTTCATGGTGTCGCTTCA
1 TAAAGCCTGTAGATAACCATTTTCATGGTGTCGCTCCA
*
57244196 TAGAGCCTGTAGATAACCATTTTCATGGTGTCGCTCCA
1 TAAAGCCTGTAGATAACCATTTTCATGGTGTCGCTCCA
57244234 TAAAGCCTGTAGATAACC
1 TAAAGCCTGTAGATAACC
57244252 GTACCACGAT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 51 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (38 bp):
TAAAGCCTGTAGATAACCATTTTCATGGTGTCGCTCCA
Found at i:57249639 original size:24 final size:24
Alignment explanation
Indices: 57249609--57249658 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
57249599 ATTTGTTGGC
57249609 AAAATCAGGGTTCTTTCGATCTCA
1 AAAATCAGGGTTCTTTCGATCTCA
57249633 AAAATCAGGGTTCTTTCGATCTCA
1 AAAATCAGGGTTCTTTCGATCTCA
57249657 AA
1 AA
57249659 TGCCTTTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (24 bp):
AAAATCAGGGTTCTTTCGATCTCA
Found at i:57251345 original size:105 final size:105
Alignment explanation
Indices: 57251186--57251383 Score: 263
Period size: 105 Copynumber: 1.9 Consensus size: 105
57251176 ACCATTAACT
** **
57251186 AATGTATTATACGTGACATTATTAGGCTCAATGCCTCGCTTTATCATTGCGTCAACAATATCCT-
1 AATGTATTATACGTGACAACATTAGGCTCAATGCCTCGCTTTATCATCACGTCAACAATAT-CTA
*
57251250 CAGCTTCAGAGATCATCCCTTCCTTGCAATGTGAATCAACC
65 CAGCTTCAGAAATCATCCCTTCCTTGCAATGTGAATCAACC
* * * * *
57251291 AATGTATTATACGTGACAACATTAGGCTCAATGCCTTGCTTTCTCATCATGTCAACAGTCTCTAC
1 AATGTATTATACGTGACAACATTAGGCTCAATGCCTCGCTTTATCATCACGTCAACAATATCTAC
* * *
57251356 AGCTTTAGAAATCCTTCCTTCCTTGCAA
66 AGCTTCAGAAATCATCCCTTCCTTGCAA
57251384 AGAGCATCAA
Statistics
Matches: 79, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
104 2 0.03
105 77 0.97
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (105 bp):
AATGTATTATACGTGACAACATTAGGCTCAATGCCTCGCTTTATCATCACGTCAACAATATCTAC
AGCTTCAGAAATCATCCCTTCCTTGCAATGTGAATCAACC
Found at i:57251393 original size:105 final size:105
Alignment explanation
Indices: 57251186--57251414 Score: 262
Period size: 105 Copynumber: 2.2 Consensus size: 105
57251176 ACCATTAACT
** **
57251186 AATGTATTATACGTGACATTATTAGGCTCAATGCCTCGCTTTATCATTGCGTCAACAATATCCTC
1 AATGTATTATACGTGACAACATTAGGCTCAATGCCTCGCTTTATCATCACGTCAACAATATCCTC
* * *
57251251 AGCTTCAGAGATCATCCCTTCCTTGCAATGTGAATCAACC
66 AGCTTCAGAAATCATCCCTTCCTTGCAAAGAGAATCAACC
* * * * *
57251291 AATGTATTATACGTGACAACATTAGGCTCAATGCCTTGCTTTCTCATCATGTCAACAGTCT-CTA
1 AATGTATTATACGTGACAACATTAGGCTCAATGCCTCGCTTTATCATCACGTCAACAATATCCT-
* * * * *
57251355 CAGCTTTAGAAATCCTTCCTTCCTTGCAAAGAGCATCAATC
65 CAGCTTCAGAAATCATCCCTTCCTTGCAAAGAGAATCAACC
* * *
57251396 AATATAGTATATGTGACAA
1 AATGTATTATACGTGACAA
57251415 TATCAAGTGA
Statistics
Matches: 103, Mismatches: 20, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
104 2 0.02
105 101 0.98
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (105 bp):
AATGTATTATACGTGACAACATTAGGCTCAATGCCTCGCTTTATCATCACGTCAACAATATCCTC
AGCTTCAGAAATCATCCCTTCCTTGCAAAGAGAATCAACC
Found at i:57252304 original size:66 final size:66
Alignment explanation
Indices: 57252198--57252343 Score: 265
Period size: 66 Copynumber: 2.2 Consensus size: 66
57252188 ATGGTGTTAG
* **
57252198 AAGAAGAAGAAAAAGAGTGGAAATTAGAAAGAAGGCTTCCAGCATTAACAACGGAACTAAGAATA
1 AAGAAGAAGGAAGCGAGTGGAAATTAGAAAGAAGGCTTCCAGCATTAACAACGGAACTAAGAATA
57252263 A
66 A
57252264 AAGAAGAAGGAAGCGAGTGGAAATTAGAAAGAAGGCTTCCAGCATTAACAACGGAACTAAGAATA
1 AAGAAGAAGGAAGCGAGTGGAAATTAGAAAGAAGGCTTCCAGCATTAACAACGGAACTAAGAATA
57252329 A
66 A
57252330 AAGAAGAAGGAAGC
1 AAGAAGAAGGAAGC
57252344 TTACCCATAT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 77 1.00
ACGTcount: A:0.51, C:0.11, G:0.25, T:0.12
Consensus pattern (66 bp):
AAGAAGAAGGAAGCGAGTGGAAATTAGAAAGAAGGCTTCCAGCATTAACAACGGAACTAAGAATA
A
Found at i:57252946 original size:18 final size:18
Alignment explanation
Indices: 57252906--57252952 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
57252896 AAAAAATAAA
*
57252906 AAATAATTTTTAAATATTT
1 AAAT-ATTTATAAATATTT
57252925 AAATATTTATAAAT-TTT
1 AAATATTTATAAATATTT
57252942 CAAAT-TTTATA
1 -AAATATTTATA
57252953 TTTTTAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 9 0.35
18 13 0.50
19 4 0.15
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
AAATATTTATAAATATTT
Found at i:57252952 original size:17 final size:17
Alignment explanation
Indices: 57252910--57252952 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
57252900 AATAAAAAAT
57252910 AATTTT-TAAATATTTA
1 AATTTTATAAATATTTA
57252926 AATATTTATAAAT-TTTCA
1 AAT-TTTATAAATATTT-A
57252944 AATTTTATA
1 AATTTTATA
57252953 TTTTTAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 3 0.12
17 12 0.50
18 9 0.38
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (17 bp):
AATTTTATAAATATTTA
Found at i:57252989 original size:19 final size:19
Alignment explanation
Indices: 57252952--57252989 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
57252942 CAAATTTTAT
*
57252952 ATTTTTAAAAAATTATAAA
1 ATTTTTAAAAAAATATAAA
*
57252971 ATTTTTAAAAAAATCTAAA
1 ATTTTTAAAAAAATATAAA
57252990 GAATATATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (19 bp):
ATTTTTAAAAAAATATAAA
Found at i:57253569 original size:11 final size:11
Alignment explanation
Indices: 57253553--57253620 Score: 50
Period size: 11 Copynumber: 6.1 Consensus size: 11
57253543 AATTAGTACC
57253553 TTAATTAATTT
1 TTAATTAATTT
57253564 TTAATT-ATTT
1 TTAATTAATTT
* * *
57253574 TACAAGTATTTTT
1 T-TAATTA-ATTT
* *
57253587 TTAATTAGTACT
1 TTAATTAAT-TT
57253599 TTAATTAATTT
1 TTAATTAATTT
57253610 TTAATT-ATTT
1 TTAATTAATTT
57253620 T
1 T
57253621 GCAAGTATTT
Statistics
Matches: 44, Mismatches: 9, Indels: 9
0.71 0.15 0.15
Matches are distributed among these distances:
10 10 0.23
11 17 0.39
12 13 0.30
13 4 0.09
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (11 bp):
TTAATTAATTT
Found at i:57253570 original size:23 final size:23
Alignment explanation
Indices: 57253543--57253616 Score: 73
Period size: 23 Copynumber: 3.2 Consensus size: 23
57253533 ATGCTAATTC
*
57253543 AATTAGTACCTTAATTAATTTTT
1 AATTAGTACTTTAATTAATTTTT
* *
57253566 AATTA-T--TTTACAAGTATTTTTTT
1 AATTAGTACTTT--AATTA-ATTTTT
57253589 AATTAGTACTTTAATTAATTTTT
1 AATTAGTACTTTAATTAATTTTT
57253612 AATTA
1 AATTA
57253617 TTTTGCAAGT
Statistics
Matches: 40, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
20 2 0.05
22 5 0.12
23 25 0.62
24 5 0.12
26 3 0.08
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.55
Consensus pattern (23 bp):
AATTAGTACTTTAATTAATTTTT
Found at i:57253610 original size:46 final size:46
Alignment explanation
Indices: 57253543--57253650 Score: 198
Period size: 46 Copynumber: 2.3 Consensus size: 46
57253533 ATGCTAATTC
57253543 AATTAGTACCTTAATTAATTTTTAATTATTTTACAAGTATTTTTTT
1 AATTAGTACCTTAATTAATTTTTAATTATTTTACAAGTATTTTTTT
* *
57253589 AATTAGTACTTTAATTAATTTTTAATTATTTTGCAAGTATTTTTTT
1 AATTAGTACCTTAATTAATTTTTAATTATTTTACAAGTATTTTTTT
57253635 AATTAGTACCTTAATT
1 AATTAGTACCTTAATT
57253651 CGAAGGGTTG
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 59 1.00
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.56
Consensus pattern (46 bp):
AATTAGTACCTTAATTAATTTTTAATTATTTTACAAGTATTTTTTT
Found at i:57253633 original size:23 final size:22
Alignment explanation
Indices: 57253561--57253639 Score: 81
Period size: 23 Copynumber: 3.5 Consensus size: 22
57253551 CCTTAATTAA
57253561 TTTTTAATTATTTTACAAGTATT
1 TTTTTAATTATTTT-CAAGTATT
* *
57253584 TTTTTAATTAGTACTTT-AATTA-A
1 TTTTTAATTA-T--TTTCAAGTATT
57253607 TTTTTAATTATTTTGCAAGTATT
1 TTTTTAATTATTTT-CAAGTATT
57253630 TTTTTAATTA
1 TTTTTAATTA
57253640 GTACCTTAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
20 3 0.07
22 5 0.11
23 30 0.65
24 5 0.11
26 3 0.07
ACGTcount: A:0.30, C:0.04, G:0.05, T:0.61
Consensus pattern (22 bp):
TTTTTAATTATTTTCAAGTATT
Found at i:57266912 original size:33 final size:33
Alignment explanation
Indices: 57266872--57266940 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
57266862 GAAACACCAT
*
57266872 CACCACCCACAAATATTGAACCACAT-ATTGAAC
1 CACCACCCACAAATACTGAACCACATGA-TGAAC
57266905 CACCACCCACAAATACTGAACCACATGATGAAC
1 CACCACCCACAAATACTGAACCACATGATGAAC
57266938 CAC
1 CAC
57266941 ATATTGAACC
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 33 0.97
34 1 0.03
ACGTcount: A:0.42, C:0.36, G:0.07, T:0.14
Consensus pattern (33 bp):
CACCACCCACAAATACTGAACCACATGATGAAC
Found at i:57273677 original size:19 final size:19
Alignment explanation
Indices: 57273653--57273746 Score: 77
Period size: 19 Copynumber: 4.8 Consensus size: 19
57273643 ATGATAAAAA
57273653 ATAAAAATCAATAAAATTT
1 ATAAAAATCAATAAAATTT
* *
57273672 ATAAAAATGAATAAATTTT
1 ATAAAAATCAATAAAATTT
*
57273691 AATAAAAAT-ATTTAAAATTT
1 -ATAAAAATCA-ATAAAATTT
* *
57273711 ATTAAAAAATAGAATAAAA-CT
1 A-T-AAAAAT-CAATAAAATTT
57273732 ATAAAAATC-ATAAAA
1 ATAAAAATCAATAAAA
57273747 ATTGTAAAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
17 6 0.10
19 25 0.40
20 17 0.27
21 8 0.13
22 5 0.08
23 1 0.02
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (19 bp):
ATAAAAATCAATAAAATTT
Found at i:57273746 original size:39 final size:36
Alignment explanation
Indices: 57273637--57273755 Score: 100
Period size: 39 Copynumber: 3.1 Consensus size: 36
57273627 TGACATGTGG
*
57273637 TAAAAAATG-ATAAAAAATAAAAATCAATAAAATTTA
1 TAAAAAATGAATAAAATATAAAAATC-ATAAAATTTA
*
57273673 T-AAAAATGAATAAATTTTAATAAAAAT-ATTTAAAATTTA
1 TAAAAAATGAATAAA--AT-ATAAAAATCA--TAAAATTTA
* *
57273712 TTAAAAAATAGAATAAAACTATAAAAATCATAAAAATTG
1 -TAAAAAAT-GAATAAAA-TATAAAAATCATAAAATTTA
57273751 TAAAA
1 TAAAA
57273756 TATATAGAAC
Statistics
Matches: 67, Mismatches: 5, Indels: 20
0.73 0.05 0.22
Matches are distributed among these distances:
35 7 0.10
36 6 0.09
37 1 0.01
38 5 0.07
39 24 0.36
40 9 0.13
41 8 0.12
42 7 0.10
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (36 bp):
TAAAAAATGAATAAAATATAAAAATCATAAAATTTA
Found at i:57273792 original size:20 final size:18
Alignment explanation
Indices: 57273733--57273800 Score: 77
Period size: 18 Copynumber: 3.8 Consensus size: 18
57273723 AATAAAACTA
*
57273733 TAAAAATCATA-AAAATTG
1 TAAAAAT-ATATAAAAATG
* *
57273751 T-AAAATATATAGAACTG
1 TAAAAATATATAAAAATG
57273768 TAAAAATATATAAAAATG
1 TAAAAATATATAAAAATG
*
57273786 TAAAAAAATATAAAA
1 TAAAAATATATAAAA
57273801 TTTTTCCCAC
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
16 3 0.07
17 11 0.26
18 29 0.67
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (18 bp):
TAAAAATATATAAAAATG
Found at i:57274079 original size:10 final size:10
Alignment explanation
Indices: 57274066--57274137 Score: 60
Period size: 10 Copynumber: 7.4 Consensus size: 10
57274056 TTTTGATACA
57274066 TTTTATAATT
1 TTTTATAATT
*
57274076 TTTTATGA-T
1 TTTTATAATT
**
57274085 TTTTATAAAA
1 TTTTATAATT
*
57274095 GTTTATAA-T
1 TTTTATAATT
*
57274104 CTTTATAATT
1 TTTTATAATT
*
57274114 TTTT-TACAAT
1 TTTTATA-ATT
57274124 TTTTATAATT
1 TTTTATAATT
57274134 TTTT
1 TTTT
57274138 TGTCACACGT
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
9 17 0.35
10 30 0.61
11 2 0.04
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (10 bp):
TTTTATAATT
Found at i:57274099 original size:29 final size:30
Alignment explanation
Indices: 57274067--57274137 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 30
57274057 TTTGATACAT
*
57274067 TTTATAATTTTTTATGATTTTTATA-AAAG
1 TTTATAATTTTTTATAATTTTTATACAAAG
* * **
57274096 TTTATAA-TCTTTATAATTTTTTTACAATT
1 TTTATAATTTTTTATAATTTTTATACAAAG
57274125 TTTATAATTTTTT
1 TTTATAATTTTTT
57274138 TGTCACACGT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
28 14 0.41
29 16 0.47
30 4 0.12
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (30 bp):
TTTATAATTTTTTATAATTTTTATACAAAG
Found at i:57274138 original size:20 final size:19
Alignment explanation
Indices: 57274066--57274137 Score: 81
Period size: 19 Copynumber: 3.7 Consensus size: 19
57274056 TTTTGATACA
*
57274066 TTTTATAATTTTTTATGAT
1 TTTTATAATTTTTTATAAT
***
57274085 TTTTATAAAAGTTTATAAT
1 TTTTATAATTTTTTATAAT
* *
57274104 CTTTATAATTTTTTTACAAT
1 TTTTATAA-TTTTTTATAAT
57274124 TTTTATAATTTTTT
1 TTTTATAATTTTTT
57274138 TGTCACACGT
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
19 28 0.67
20 14 0.33
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (19 bp):
TTTTATAATTTTTTATAAT
Found at i:57277988 original size:38 final size:38
Alignment explanation
Indices: 57277915--57277995 Score: 101
Period size: 38 Copynumber: 2.1 Consensus size: 38
57277905 CTGTACAGCT
* * * *
57277915 TGTAGATAATCATTTTCATGGTTTCGCTTCGTAGAGCC
1 TGTAGATAACCATTTCCATGGTTTCGCTCCATAGAGCC
57277953 TGTAGATAACCATTTCCATGGTGTT-GCTCCATAGAGCC
1 TGTAGATAACCATTTCCATGGT-TTCGCTCCATAGAGCC
*
57277991 CGTAG
1 TGTAG
57277996 GCAACCATAC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 35 0.95
39 2 0.05
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (38 bp):
TGTAGATAACCATTTCCATGGTTTCGCTCCATAGAGCC
Found at i:57280447 original size:13 final size:13
Alignment explanation
Indices: 57280429--57280479 Score: 52
Period size: 12 Copynumber: 3.9 Consensus size: 13
57280419 TTTTTATATT
57280429 TTTATTCATTTTC
1 TTTATTCATTTTC
*
57280442 TTTATTCA-TTTA
1 TTTATTCATTTTC
57280454 TTTATTTACATTTTC
1 TTTA-TT-CATTTTC
*
57280469 ATTATT-ATTTT
1 TTTATTCATTTT
57280480 GAGAGAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
12 12 0.38
13 10 0.31
14 4 0.12
15 6 0.19
ACGTcount: A:0.22, C:0.10, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTATTCATTTTC
Found at i:57284294 original size:13 final size:12
Alignment explanation
Indices: 57284272--57284304 Score: 57
Period size: 13 Copynumber: 2.7 Consensus size: 12
57284262 TAGTGGAGGC
57284272 AAAAAAAAAACA
1 AAAAAAAAAACA
57284284 AAAAAACAAAACA
1 AAAAAA-AAAACA
57284297 AAAAAAAA
1 AAAAAAAA
57284305 CCTCTACCGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAACA
Found at i:57284754 original size:14 final size:14
Alignment explanation
Indices: 57284735--57284761 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
57284725 ACTTGAAAAA
57284735 AAAAAGAAAAGAAG
1 AAAAAGAAAAGAAG
57284749 AAAAAGAAAAGAA
1 AAAAAGAAAAGAA
57284762 AAAGGAGAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAGAAG
Found at i:57287016 original size:27 final size:28
Alignment explanation
Indices: 57286955--57287017 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 28
57286945 AATATTTAGA
57286955 TTATATTATTTTAATATTTAATAAAATTT
1 TTATATTATTTT-ATATTTAATAAAATTT
* *
57286984 TATATATT-TTTT-TATTTATTGAAAGTTT
1 T-TATATTATTTTATATTTAAT-AAAATTT
57287012 TTATAT
1 TTATAT
57287018 AGTTATCTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
27 12 0.40
28 7 0.23
29 5 0.17
30 6 0.20
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (28 bp):
TTATATTATTTTATATTTAATAAAATTT
Found at i:57287609 original size:9 final size:10
Alignment explanation
Indices: 57287570--57287620 Score: 52
Period size: 10 Copynumber: 5.2 Consensus size: 10
57287560 TATATTGTAG
57287570 TTTTATAATT
1 TTTTATAATT
*
57287580 TTTAAATAA-T
1 TTT-TATAATT
*
57287590 TTTCATAATT
1 TTTTATAATT
57287600 TTTTAT-ATT
1 TTTTATAATT
*
57287609 TCTTATAATT
1 TTTTATAATT
57287619 TT
1 TT
57287621 CTAAAAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
9 12 0.36
10 17 0.52
11 4 0.12
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTTATAATT
Found at i:57287616 original size:19 final size:20
Alignment explanation
Indices: 57287570--57287625 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
57287560 TATATTGTAG
57287570 TTTTATAATTTTTAAATAAT
1 TTTTATAATTTTTAAATAAT
* *
57287590 TTTCATAATTTTT-TAT-AT
1 TTTTATAATTTTTAAATAAT
57287608 TTCTTATAATTTTCTAAA
1 TT-TTATAATTTT-TAAA
57287626 AAAAATTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
18 4 0.14
19 11 0.38
20 13 0.45
21 1 0.03
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTATAATTTTTAAATAAT
Found at i:57287686 original size:20 final size:20
Alignment explanation
Indices: 57287663--57287712 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
57287653 TAATTTTTTT
*
57287663 ATAACATTTATTAA-TTTCTA
1 ATAAC-TTTAATAACTTTCTA
*
57287683 ATAACTTTAATAACTTTTTA
1 ATAACTTTAATAACTTTCTA
*
57287703 ATAATTTTAA
1 ATAACTTTAA
57287713 AATTTTTCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (20 bp):
ATAACTTTAATAACTTTCTA
Found at i:57287704 original size:11 final size:10
Alignment explanation
Indices: 57287669--57287763 Score: 58
Period size: 11 Copynumber: 9.6 Consensus size: 10
57287659 TTTTATAACA
*
57287669 TTTATTAATT
1 TTTAATAATT
* *
57287679 TCTAATAA-C
1 TTTAATAATT
57287688 TTTAATAACTT
1 TTTAATAA-TT
57287699 TTTAATAA-T
1 TTTAATAATT
57287708 TTTAA-AATT
1 TTTAATAATT
*
57287717 TTTCTATAATT
1 TTT-AATAATT
*
57287728 TTCT-ATAATCG
1 TT-TAATAAT-T
57287739 TTT-ATAA-T
1 TTTAATAATT
57287747 TTTAATAATAT
1 TTTAATAAT-T
57287758 TTTAAT
1 TTTAAT
57287764 TATTAAAAAT
Statistics
Matches: 67, Mismatches: 8, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
8 5 0.07
9 21 0.31
10 17 0.25
11 23 0.34
12 1 0.01
ACGTcount: A:0.37, C:0.06, G:0.01, T:0.56
Consensus pattern (10 bp):
TTTAATAATT
Found at i:57287718 original size:8 final size:9
Alignment explanation
Indices: 57287669--57287755 Score: 52
Period size: 10 Copynumber: 9.0 Consensus size: 9
57287659 TTTTATAACA
*
57287669 TTTATTAAT
1 TTTAATAAT
*
57287678 TTCTAATAAC
1 TT-TAATAAT
57287688 TTTAATAACTT
1 TTTAATAA--T
57287699 TTTAATAAT
1 TTTAATAAT
57287708 TTTAA-AATT
1 TTTAATAA-T
*
57287717 TTTCTATAAT
1 TTT-AATAAT
*
57287727 TTTCTATAAT
1 TTT-AATAAT
57287737 CGTTT-ATAAT
1 --TTTAATAAT
57287747 TTTAATAAT
1 TTTAATAAT
57287756 ATTTTAATTA
Statistics
Matches: 65, Mismatches: 4, Indels: 18
0.75 0.05 0.21
Matches are distributed among these distances:
8 5 0.08
9 23 0.35
10 24 0.37
11 10 0.15
12 3 0.05
ACGTcount: A:0.37, C:0.07, G:0.01, T:0.55
Consensus pattern (9 bp):
TTTAATAAT
Found at i:57287761 original size:19 final size:18
Alignment explanation
Indices: 57287658--57287761 Score: 66
Period size: 19 Copynumber: 5.3 Consensus size: 18
57287648 ATTTCTAATT
* *
57287658 TTTTTATAACATTTATTAA
1 TTTTTATAA-TTTTAATAA
* *
57287677 TTTCTAATAACTTTAATAA
1 TTT-TTATAATTTTAATAA
57287696 CTTTTTAATAATTTTAA-AA
1 -TTTTT-ATAATTTTAATAA
*
57287715 TTTTTCTATAATTTTCTATAA
1 -TTTT-TATAATTTT-AATAA
*
57287736 TCGTTTATAATTTTAATAA
1 T-TTTTATAATTTTAATAA
57287755 TATTTTA
1 T-TTTTA
57287762 ATTATTAAAA
Statistics
Matches: 67, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
19 34 0.51
20 29 0.43
21 4 0.06
ACGTcount: A:0.37, C:0.07, G:0.01, T:0.56
Consensus pattern (18 bp):
TTTTTATAATTTTAATAA
Found at i:57288792 original size:62 final size:62
Alignment explanation
Indices: 57288695--57288824 Score: 251
Period size: 62 Copynumber: 2.1 Consensus size: 62
57288685 TTGAATATCC
57288695 ACATTAGTAGGACAACCCTCAACTCATATCTTACAAACAATAAGGTGAAGTTATTATTACTG
1 ACATTAGTAGGACAACCCTCAACTCATATCTTACAAACAATAAGGTGAAGTTATTATTACTG
*
57288757 ACATTAGTAGGCCAACCCTCAACTCATATCTTACAAACAATAAGGTGAAGTTATTATTACTG
1 ACATTAGTAGGACAACCCTCAACTCATATCTTACAAACAATAAGGTGAAGTTATTATTACTG
57288819 ACATTA
1 ACATTA
57288825 ACTATTTGCA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
62 67 1.00
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.29
Consensus pattern (62 bp):
ACATTAGTAGGACAACCCTCAACTCATATCTTACAAACAATAAGGTGAAGTTATTATTACTG
Found at i:57289744 original size:30 final size:30
Alignment explanation
Indices: 57289708--57289773 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
57289698 TCAACTCTTC
57289708 TTAGTTGAATTAATATGATGGCGGTCAAAA
1 TTAGTTGAATTAATATGATGGCGGTCAAAA
*
57289738 TTAGTTGAATTAATCTGATGGCGGTCAAAA
1 TTAGTTGAATTAATATGATGGCGGTCAAAA
57289768 TTAGTT
1 TTAGTT
57289774 TCAGGTTTGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (30 bp):
TTAGTTGAATTAATATGATGGCGGTCAAAA
Found at i:57290366 original size:62 final size:62
Alignment explanation
Indices: 57290262--57290450 Score: 252
Period size: 62 Copynumber: 3.0 Consensus size: 62
57290252 GAAGAAAAGG
* * *
57290262 TAAGGGGAAGTCATTATCACTGACATTAGTAGGCCAAACCTCAACTAATTTCTTCCAAATAA
1 TAAGGTGAAGTTATTATCACTGACATTAGTAGGCCAACCCTCAACTAATTTCTTCCAAATAA
* * * * * *
57290324 TAAGGTGAAGTTATTATGACTGACATTAGTAGGACAACCCTCAACTCATATCTTACAAACAA
1 TAAGGTGAAGTTATTATCACTGACATTAGTAGGCCAACCCTCAACTAATTTCTTCCAAATAA
* * ** *
57290386 TAAGGTGAAGTTATTCTTACTGATGTTAGTAGGCCTACCCTCAACTAATTTCTTCCAAATAA
1 TAAGGTGAAGTTATTATCACTGACATTAGTAGGCCAACCCTCAACTAATTTCTTCCAAATAA
57290448 TAA
1 TAA
57290451 CTATTTGCAG
Statistics
Matches: 108, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
62 108 1.00
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.30
Consensus pattern (62 bp):
TAAGGTGAAGTTATTATCACTGACATTAGTAGGCCAACCCTCAACTAATTTCTTCCAAATAA
Found at i:57294385 original size:65 final size:64
Alignment explanation
Indices: 57294262--57294385 Score: 180
Period size: 65 Copynumber: 2.0 Consensus size: 64
57294252 AAGGTAAGGG
* *
57294262 GAAGTTATTATCACCGACATTAGTAGGCCAACCCTCAAATTCGTATATCTTCCAAATAATAAGAT
1 GAAGTTATTATCACCGACAGTAGTAGGCCAACCCTCAAACTCG-ATATCTTCCAAATAATAAGAT
* * *
57294327 GAAGTTATTATGACTGACAGTAGTAGGCCAACCCTC-AACTC-ATTTCTTCCAAATAATAA
1 GAAGTTATTATCACCGACAGTAGTAGGCCAACCCTCAAACTCGATATCTTCCAAATAATAA
57294386 CTATTTGCAG
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
62 17 0.31
64 4 0.07
65 33 0.61
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (64 bp):
GAAGTTATTATCACCGACAGTAGTAGGCCAACCCTCAAACTCGATATCTTCCAAATAATAAGAT
Found at i:57296067 original size:22 final size:23
Alignment explanation
Indices: 57296043--57296091 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
57296033 ATTAAATAAT
57296043 AAATAACAAATATTATTTTCATA
1 AAATAACAAATATTATTTTCATA
57296066 AAATAACAAATATTATTTT-A-A
1 AAATAACAAATATTATTTTCATA
57296087 AAATA
1 AAATA
57296092 TTTTTATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 6 0.23
22 1 0.04
23 19 0.73
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (23 bp):
AAATAACAAATATTATTTTCATA
Found at i:57297853 original size:55 final size:55
Alignment explanation
Indices: 57297756--57297860 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 55
57297746 GTTTTTTTAA
* * *
57297756 TTTTTTAGTCACCTAATTATGAAAAGTTACAAAATAGTCATTCAATTATTAGTAT
1 TTTTTTAGTCACCAAATTATGAAAAGTTACAAAATAGCCATTCAACTATTAGTAT
57297811 TTTTTTA-TCACCAAATTAT-AATAAGTTACAAAA-ATGACCATTCAACTATT
1 TTTTTTAGTCACCAAATTATGAA-AAGTTACAAAATA-G-CCATTCAACTATT
57297861 CCATTTTGTC
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
53 3 0.07
54 23 0.52
55 18 0.41
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (55 bp):
TTTTTTAGTCACCAAATTATGAAAAGTTACAAAATAGCCATTCAACTATTAGTAT
Found at i:57297967 original size:31 final size:33
Alignment explanation
Indices: 57297925--57297999 Score: 102
Period size: 31 Copynumber: 2.4 Consensus size: 33
57297915 TTTACGTTGT
* **
57297925 TAGTT-GGTGACCAAAAAAGA-CAAAATTA-AA
1 TAGTTGGGTGACCAAAAAAGAGAAAAAAAATAA
57297955 TAGTTGGGTGACCAAAAAAGAGAAAAAAAATAA
1 TAGTTGGGTGACCAAAAAAGAGAAAAAAAATAA
57297988 TAGTTGGGTGAC
1 TAGTTGGGTGAC
57298000 ATTTATTGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
30 5 0.13
31 15 0.38
32 5 0.13
33 14 0.36
ACGTcount: A:0.49, C:0.08, G:0.23, T:0.20
Consensus pattern (33 bp):
TAGTTGGGTGACCAAAAAAGAGAAAAAAAATAA
Found at i:57299925 original size:29 final size:29
Alignment explanation
Indices: 57299892--57299950 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
57299882 TATATTTTAC
57299892 TATAATTATATAACAATA-TTCAAATTTTG
1 TATAATTATATAACAA-AGTTCAAATTTTG
* *
57299921 TATAATTGTATTACAAAGTTCAAATTTTG
1 TATAATTATATAACAAAGTTCAAATTTTG
57299950 T
1 T
57299951 TATGTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 1 0.04
29 26 0.96
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.46
Consensus pattern (29 bp):
TATAATTATATAACAAAGTTCAAATTTTG
Found at i:57300518 original size:88 final size:87
Alignment explanation
Indices: 57300294--57300518 Score: 229
Period size: 88 Copynumber: 2.6 Consensus size: 87
57300284 TTTTTTTTAT
* * * * * *
57300294 TCAATTGAGTACTTAAATTTTCAAAATGTATAAAAAGGA-CTTCAAATTTTTTCAAAAAAATAAA
1 TCAATTGGGTACTTAAA-CTTCAAAATGCATAAAAA-GACCCTCAAACTTTTTCAAAAAAACAAA
* * *
57300358 TTAAGCTTCTACTTTTTTTTCCAC
64 TTAAGCTCCAACTTTTTTCTCCAC
* * * * ** * *
57300382 TCAATTGGGTACTTGAGCTGCAAAATGCATGAAAAAGGCGGTCGAACTTTTTCAAAAAAACCAAT
1 TCAATTGGGTACTTAAACTTCAAAATGCAT-AAAAAGACCCTCAAACTTTTTCAAAAAAACAAAT
57300447 TAAGCTCCAACTTTTTTCT-CAC
65 TAAGCTCCAACTTTTTTCTCCAC
*
57300469 TCAATTGGGTACTTAAACTATCAAATTGCATAAAGAAGACCCTCAAACTT
1 TCAATTGGGTACTTAAACT-TCAAAATGCATAAA-AAGACCCTCAAACTT
57300519 AAAAAAAAAA
Statistics
Matches: 109, Mismatches: 24, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
87 34 0.31
88 75 0.69
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.33
Consensus pattern (87 bp):
TCAATTGGGTACTTAAACTTCAAAATGCATAAAAAGACCCTCAAACTTTTTCAAAAAAACAAATT
AAGCTCCAACTTTTTTCTCCAC
Found at i:57300767 original size:20 final size:19
Alignment explanation
Indices: 57300724--57300770 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
57300714 AATGATAAAA
57300724 AATAAAAATCAATAAATTT
1 AATAAAAATCAATAAATTT
* * *
57300743 CATAAAAATGATTAAATTTT
1 AATAAAAATCAATAAA-TTT
57300763 AATAAAAA
1 AATAAAAA
57300771 ATATTTAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (19 bp):
AATAAAAATCAATAAATTT
Found at i:57300778 original size:21 final size:22
Alignment explanation
Indices: 57300746--57300793 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
57300736 TAAATTTCAT
*
57300746 AAAAATGATTAAATTTTA-ATA
1 AAAAATGATTAAAATTTATATA
*
57300767 AAAAAT-ATTTAAAATTTATTTA
1 AAAAATGA-TTAAAATTTATATA
57300789 AAAAA
1 AAAAA
57300794 AAGAATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 1 0.04
21 15 0.65
22 7 0.30
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (22 bp):
AAAAATGATTAAAATTTATATA
Found at i:57300851 original size:18 final size:18
Alignment explanation
Indices: 57300808--57300873 Score: 71
Period size: 18 Copynumber: 3.6 Consensus size: 18
57300798 ATAAAACTAT
57300808 AAAATAATAAAAAT-TATAA
1 AAAAT-ATAAAAATGTA-AA
* * *
57300827 AACATATAGAACTGTAAA
1 AAAATATAAAAATGTAAA
*
57300845 AATATATAAAAATGTAAA
1 AAAATATAAAAATGTAAA
57300863 AAAATATAAAA
1 AAAATATAAAA
57300874 TTATTCCCAA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
18 33 0.85
19 6 0.15
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (18 bp):
AAAATATAAAAATGTAAA
Found at i:57300963 original size:19 final size:19
Alignment explanation
Indices: 57300914--57300965 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
57300904 AAGTAGTAAG
*
57300914 AAAATTATAAAAA-ATGTA
1 AAAATTATAAAAATTTGTA
**
57300932 AAGAAACAT-AAAATTTGTA
1 AA-AATTATAAAAATTTGTA
57300951 AAAATTATAAAAATT
1 AAAATTATAAAAATT
57300966 ATCGTACCAA
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (19 bp):
AAAATTATAAAAATTTGTA
Found at i:57305335 original size:38 final size:38
Alignment explanation
Indices: 57305293--57305399 Score: 151
Period size: 38 Copynumber: 2.8 Consensus size: 38
57305283 CTCTTTTGAA
* *
57305293 GTGTCGCTCTGTAGAACTTGTAGATAATCATTTTCATG
1 GTGTCGCTCTGTAGAGCTTGTAGATAACCATTTTCATG
* *
57305331 GTGTCGCTTTGTAGAGCCTGTAGATAACCATTTTCATG
1 GTGTCGCTCTGTAGAGCTTGTAGATAACCATTTTCATG
** *
57305369 GTGTCGCTCCATAGAGCTCGTAGATAACCAT
1 GTGTCGCTCTGTAGAGCTTGTAGATAACCAT
57305400 ACCATGATGT
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 60 1.00
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (38 bp):
GTGTCGCTCTGTAGAGCTTGTAGATAACCATTTTCATG
Found at i:57306112 original size:51 final size:50
Alignment explanation
Indices: 57305995--57306309 Score: 513
Period size: 51 Copynumber: 6.2 Consensus size: 50
57305985 CTTGCGTATG
*
57305995 ATCACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAAGCTACCACTT
1 ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTT
** * * *
57306045 ATCACTTGCCATTTGTCACTGATCAAATAAGTGTAGCTGAAGCTATCACTT
1 ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTT
**
57306096 ATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
1 ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTT
* *
57306147 ATCACTTGTCATTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
1 ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTT
57306198 ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTT
1 ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTT
57306248 ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTT
1 ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTT
57306298 ATCACTTATCAC
1 ATCACTTATCAC
57306310 AGATCAGAAG
Statistics
Matches: 250, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
50 107 0.43
51 143 0.57
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (50 bp):
ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTT
Found at i:57306315 original size:43 final size:43
Alignment explanation
Indices: 57306200--57306317 Score: 155
Period size: 50 Copynumber: 2.6 Consensus size: 43
57306190 TACCACTTAT
* *
57306200 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTAC
1 CACTTATCACTTATCACAGATCAGATAAGTGTAGCTAAGCTAC
57306243 CACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTAC
1 CACTTATCACTTATCA-----CA--GATCAGATAAGTGTAGCTAAGCTAC
57306293 CACTTATCACTTATCACAGATCAGA
1 CACTTATCACTTATCACAGATCAGA
57306318 AGTACTCAAA
Statistics
Matches: 66, Mismatches: 2, Indels: 14
0.80 0.02 0.17
Matches are distributed among these distances:
43 22 0.33
45 2 0.03
48 1 0.02
50 41 0.62
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.31
Consensus pattern (43 bp):
CACTTATCACTTATCACAGATCAGATAAGTGTAGCTAAGCTAC
Found at i:57307557 original size:150 final size:150
Alignment explanation
Indices: 57307286--57307585 Score: 591
Period size: 150 Copynumber: 2.0 Consensus size: 150
57307276 AGACTCATCA
57307286 AGGATTCTAATCATATAAATTATAACTCATAATTATTTTTTAAAACTTTTTAATGATTTTCCAAA
1 AGGATTCTAATCATATAAATTATAACTCATAATTATTTTTTAAAACTTTTTAATGATTTTCCAAA
57307351 GTCATAACAGGGGAACTCAAAATCATTCTGACATTGTCTTACAAAATTAATTATATCTCATGATT
66 GTCATAACAGGGGAACTCAAAATCATTCTGACATTGTCTTACAAAATTAATTATATCTCATGATT
57307416 TTCAATTTCATTACTTACAC
131 TTCAATTTCATTACTTACAC
57307436 AGGATTCTAATCATATAAATTATAACTCATAATTATTTTTTAAAACTTTTTAATGATTTTCCAAA
1 AGGATTCTAATCATATAAATTATAACTCATAATTATTTTTTAAAACTTTTTAATGATTTTCCAAA
57307501 GTCATAACAGGGGAACTCAAAATCATTCTGACATTGTCTTACAAAATTAATTATATCTCATGATT
66 GTCATAACAGGGGAACTCAAAATCATTCTGACATTGTCTTACAAAATTAATTATATCTCATGATT
*
57307566 TTCAATTTCATTGCTTACAC
131 TTCAATTTCATTACTTACAC
57307586 CATCTCTTCT
Statistics
Matches: 149, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
150 149 1.00
ACGTcount: A:0.37, C:0.15, G:0.08, T:0.40
Consensus pattern (150 bp):
AGGATTCTAATCATATAAATTATAACTCATAATTATTTTTTAAAACTTTTTAATGATTTTCCAAA
GTCATAACAGGGGAACTCAAAATCATTCTGACATTGTCTTACAAAATTAATTATATCTCATGATT
TTCAATTTCATTACTTACAC
Found at i:57313317 original size:57 final size:58
Alignment explanation
Indices: 57313214--57313332 Score: 161
Period size: 57 Copynumber: 2.1 Consensus size: 58
57313204 ATATCAGGGG
* * *
57313214 CTAAATTGGACTAAAAAAATTCATACCCCAATTTGTGAACAATTACCAATTTCAAGGA
1 CTAAATTGGACAAAAAAAATTCATACCCCAATGTGTGAACAATTACCAAGTTCAAGGA
* **
57313272 CTAACTTGGACAAAAAAAATTCA-ACCTTAATGTG-GAAACAATTACCAAGTTCAAGGA
1 CTAAATTGGACAAAAAAAATTCATACCCCAATGTGTG-AACAATTACCAAGTTCAAGGA
57313329 CTAA
1 CTAA
57313333 TTTAAAAAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
56 1 0.02
57 32 0.59
58 21 0.39
ACGTcount: A:0.45, C:0.18, G:0.12, T:0.25
Consensus pattern (58 bp):
CTAAATTGGACAAAAAAAATTCATACCCCAATGTGTGAACAATTACCAAGTTCAAGGA
Found at i:57315063 original size:20 final size:20
Alignment explanation
Indices: 57315038--57315077 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
57315028 TATTATTTCA
57315038 ATAAAATAT-TTAAATTATAT
1 ATAAAATATATT-AATTATAT
57315058 ATAAAATATATTAATTATAT
1 ATAAAATATATTAATTATAT
57315078 TTTATTAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATAAAATATATTAATTATAT
Found at i:57316125 original size:27 final size:28
Alignment explanation
Indices: 57316081--57316144 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 28
57316071 AATATTTAGA
57316081 TTATATTATTTTAATATTTAAT-AAAATT
1 TTATA-TATTTTAATATTTAATGAAAATT
** * *
57316109 TTATATATTTTTTTATTTATTGAAAGTT
1 TTATATATTTTAATATTTAATGAAAATT
57316137 TT-TATATT
1 TTATATATT
57316145 GTTATCTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 19 0.61
28 12 0.39
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (28 bp):
TTATATATTTTAATATTTAATGAAAATT
Found at i:57316819 original size:21 final size:19
Alignment explanation
Indices: 57316769--57316837 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 19
57316759 TAAAAAAAAT
* * *
57316769 TAATACTTTAATACCTTTC
1 TAATAATTTTATAACTTTC
*
57316788 TAAT-TTTTTATAACATTTC
1 TAATAATTTTATAAC-TTTC
*
57316807 TAATAACTTTTATAACTTTT
1 TAATAA-TTTTATAACTTTC
57316827 TAATAATTTTA
1 TAATAATTTTA
57316838 ATTCTTTTCT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
18 7 0.17
19 17 0.40
20 9 0.21
21 9 0.21
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.54
Consensus pattern (19 bp):
TAATAATTTTATAACTTTC
Found at i:57316847 original size:40 final size:39
Alignment explanation
Indices: 57316803--57316878 Score: 93
Period size: 39 Copynumber: 1.9 Consensus size: 39
57316793 TTTTATAACA
*
57316803 TTTCTAATAACTTT-TATAA-CTTTTTAATAATTTTAATTCT
1 TTTCTAA-AACTTTCTATAATC-GTTT-ATAATTTTAATTCT
*
57316843 TTTCTAAAATTTTCTATAATCGTTTATAATTTTAAT
1 TTTCTAAAACTTTCTATAATCGTTTATAATTTTAAT
57316879 AATATTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
39 16 0.50
40 15 0.47
41 1 0.03
ACGTcount: A:0.33, C:0.09, G:0.01, T:0.57
Consensus pattern (39 bp):
TTTCTAAAACTTTCTATAATCGTTTATAATTTTAATTCT
Found at i:57320334 original size:18 final size:18
Alignment explanation
Indices: 57320291--57320334 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
57320281 TGCTCGGGGA
57320291 ATTTTTTATTTTTATTTT
1 ATTTTTTATTTTTATTTT
*
57320309 ATTATTTTA-TTTTGTTTT
1 ATT-TTTTATTTTTATTTT
57320327 ATCTTTTT
1 AT-TTTTT
57320335 GTGTGAACTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 17 0.74
19 6 0.26
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (18 bp):
ATTTTTTATTTTTATTTT
Found at i:57325673 original size:33 final size:33
Alignment explanation
Indices: 57325609--57325673 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
57325599 TGTAAAAATG
*
57325609 TAGAAAATAAAAATGATTTTTCAGAAATAAAAA
1 TAGAAAATAAAAATGATTTTTCAAAAATAAAAA
*
57325642 TAGATAATGAAAAAT-ATTTTT-AAAAACTAAAA
1 TAGAAAAT-AAAAATGATTTTTCAAAAA-TAAAA
57325674 CGAGTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 4 0.14
33 18 0.64
34 6 0.21
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.29
Consensus pattern (33 bp):
TAGAAAATAAAAATGATTTTTCAAAAATAAAAA
Found at i:57325985 original size:21 final size:22
Alignment explanation
Indices: 57325959--57326004 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
57325949 TACTTACTTA
*
57325959 AAAAATACTATATTTTT-TTAC
1 AAAAATAATATATTTTTATTAC
*
57325980 AAAAATAATATGTTTTTATTAC
1 AAAAATAATATATTTTTATTAC
57326002 AAA
1 AAA
57326005 GGGTAAACCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (22 bp):
AAAAATAATATATTTTTATTAC
Found at i:57328592 original size:20 final size:21
Alignment explanation
Indices: 57328546--57328592 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
57328536 ACGTGATTTT
*
57328546 TTTTTTACTTTTTTTTGAAAA
1 TTTTTTACTTTTTTATGAAAA
*
57328567 TGTTTTA-TTTTTTAT-AATAA
1 TTTTTTACTTTTTTATGAA-AA
57328587 TTTTTT
1 TTTTTT
57328593 TACTCGTCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 2 0.09
20 14 0.64
21 6 0.27
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.70
Consensus pattern (21 bp):
TTTTTTACTTTTTTATGAAAA
Found at i:57333001 original size:105 final size:104
Alignment explanation
Indices: 57332829--57333035 Score: 272
Period size: 105 Copynumber: 2.0 Consensus size: 104
57332819 CCATTAACTA
*
57332829 ATGTATTATACATGACAACATTAGGCTCAATGCCTTGCTTTATCATTGCGTCAACAAAATTCTCA
1 ATGTATTATACATGACAACATCAGGCTCAATGCCTTGCTTTATCATTGCGTCAAC-AAATTCTCA
* * *
57332894 GCTTCAGAGACCATCCCTTCCTTGCAATGCGCATCAACCT
65 GCTTCAGAAACCATCCCTTCCTTGCAAAGAGCATCAACCT
* * * * *
57332934 ATGTATTATACGTGACAACATCAGGCTCAATGCCTTGCTTTCTCATTGTGTCAAC-GATCTGTAC
1 ATGTATTATACATGACAACATCAGGCTCAATGCCTTGCTTTATCATTGCGTCAACAAAT-TCT-C
* * *
57332998 AGCTTTAGAAATCATTCCTTCCTTGCAAAGAGCATCAA
64 AGCTTCAGAAACCATCCCTTCCTTGCAAAGAGCATCAA
57333036 TCAATAAAGT
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
103 2 0.02
104 2 0.02
105 84 0.95
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (104 bp):
ATGTATTATACATGACAACATCAGGCTCAATGCCTTGCTTTATCATTGCGTCAACAAATTCTCAG
CTTCAGAAACCATCCCTTCCTTGCAAAGAGCATCAACCT
Found at i:57333054 original size:105 final size:104
Alignment explanation
Indices: 57332835--57333061 Score: 249
Period size: 105 Copynumber: 2.2 Consensus size: 104
57332825 ACTAATGTAT
* *
57332835 TATACATGACAACATTAGGCTCAATGCCTTGCTTTATCATTGCGTCAACAAAATTCTCAGCTTCA
1 TATACGTGACAACATCAGGCTCAATGCCTTGCTTTATCATTGCGTCAAC-AAATTCTCAGCTTCA
* * * * ** *
57332900 GAGACCATCCCTTCCTTGCAATGCGCATCAACCTATGTAT
65 GAAACCATCCCTTCCTTGCAAAGAGCATCAACCAATAAAG
* * * * *
57332940 TATACGTGACAACATCAGGCTCAATGCCTTGCTTTCTCATTGTGTCAAC-GATCTGTACAGCTTT
1 TATACGTGACAACATCAGGCTCAATGCCTTGCTTTATCATTGCGTCAACAAAT-TCT-CAGCTTC
* * *
57333004 AGAAATCATTCCTTCCTTGCAAAGAGCATCAATCAATAAAG
64 AGAAACCATCCCTTCCTTGCAAAGAGCATCAACCAATAAAG
* *
57333045 TATATGTGACAATATCA
1 TATACGTGACAACATCA
57333062 AGTGAAATAT
Statistics
Matches: 101, Mismatches: 19, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
103 2 0.02
104 2 0.02
105 97 0.96
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (104 bp):
TATACGTGACAACATCAGGCTCAATGCCTTGCTTTATCATTGCGTCAACAAATTCTCAGCTTCAG
AAACCATCCCTTCCTTGCAAAGAGCATCAACCAATAAAG
Found at i:57334171 original size:6 final size:6
Alignment explanation
Indices: 57334160--57334185 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
57334150 ATAAAATTTA
57334160 TTAAAT TTAAAT TTAAAT TTAAAT TT
1 TTAAAT TTAAAT TTAAAT TTAAAT TT
57334186 TTAGACTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTAAAT
Found at i:57334786 original size:17 final size:17
Alignment explanation
Indices: 57334766--57334945 Score: 69
Period size: 17 Copynumber: 10.8 Consensus size: 17
57334756 AACATGAATT
*
57334766 TTTTTAAAACACGAGAA
1 TTTTTAAAACACGAAAA
* * *
57334783 -TTTTGAAGCACAAAAA
1 TTTTTAAAACACGAAAA
*
57334799 TTTTTGAAACACGAAAA
1 TTTTTAAAACACGAAAA
*
57334816 TTTTTTAAAATAC-AAAA
1 -TTTTTAAAACACGAAAA
*
57334833 -ATTT---A-A--AAAA
1 TTTTTAAAACACGAAAA
* * *
57334843 TTTGTGAAACACGAGAAT
1 TTTTTAAAACACGA-AAA
*
57334861 TTTTTGAAAACATGAAAA
1 TTTTT-AAAACACGAAAA
*
57334879 --TTTGAAACACGAGAAA
1 TTTTTAAAACACGA-AAA
*
57334895 TTTTTTTGAAACAC-AAGAA
1 --TTTTTAAAACACGAA-AA
*
57334914 TTTTTGAAAACATGAAAA
1 TTTTT-AAAACACGAAAA
*
57334932 TTTTTGAAACACGA
1 TTTTTAAAACACGA
57334946 TTCTTTTTTT
Statistics
Matches: 122, Mismatches: 22, Indels: 38
0.67 0.12 0.21
Matches are distributed among these distances:
10 4 0.03
11 3 0.02
12 1 0.01
14 1 0.01
15 11 0.09
16 18 0.15
17 31 0.25
18 31 0.25
19 12 0.10
20 10 0.08
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.31
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:57334800 original size:16 final size:16
Alignment explanation
Indices: 57334767--57334819 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
57334757 ACATGAATTT
* * *
57334767 TTTTAAAACACGAGAA
1 TTTTGAAACACAAAAA
*
57334783 TTTTGAAGCACAAAAA
1 TTTTGAAACACAAAAA
*
57334799 TTTTTGAAACACGAAAA
1 -TTTTGAAACACAAAAA
57334816 TTTT
1 TTTT
57334820 TTAAAATACA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
16 16 0.53
17 14 0.47
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.32
Consensus pattern (16 bp):
TTTTGAAACACAAAAA
Found at i:57334820 original size:18 final size:18
Alignment explanation
Indices: 57334752--57334945 Score: 93
Period size: 18 Copynumber: 10.6 Consensus size: 18
57334742 CGTGATCTGA
* *
57334752 TTGAAACATG-AATTTTT
1 TTGAAACACGAAAATTTT
* *
57334769 TTAAAACACGAGAA--TT
1 TTGAAACACGAAAATTTT
* *
57334785 TTGAAGCAC-AAAAATTT
1 TTGAAACACGAAAATTTT
57334802 TTGAAACACGAAAATTTT
1 TTGAAACACGAAAATTTT
* * *
57334820 TTAAAATACAAAAATTTAAAAAATT
1 TTGAAACACGAAAA-TT------TT
*
57334845 TGTGAAACACGAGAATTTT
1 T-TGAAACACGAAAATTTT
*
57334864 TTGAAAACATGAAAA---T
1 TTG-AAACACGAAAATTTT
57334880 TTGAAACACGAGAAATTTTT
1 TTGAAACACGA-AAA-TTTT
57334900 TTGAAACAC-AAGAA-TTT
1 TTGAAACACGAA-AATTTT
*
57334917 TTGAAAACATGAAAA-TTT
1 TTG-AAACACGAAAATTTT
57334935 TTGAAACACGA
1 TTGAAACACGA
57334946 TTCTTTTTTT
Statistics
Matches: 135, Mismatches: 21, Indels: 42
0.68 0.11 0.21
Matches are distributed among these distances:
15 10 0.07
16 16 0.12
17 31 0.23
18 35 0.26
19 19 0.14
20 10 0.07
25 5 0.04
26 9 0.07
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.31
Consensus pattern (18 bp):
TTGAAACACGAAAATTTT
Found at i:57334884 original size:16 final size:17
Alignment explanation
Indices: 57334863--57334934 Score: 51
Period size: 16 Copynumber: 4.2 Consensus size: 17
57334853 ACGAGAATTT
57334863 TTTGAAA-ACATGAAAA
1 TTTGAAACACATGAAAA
*
57334879 TTTGAAACACGA-GAAATTTT
1 TTTGAAACAC-ATGAAA---A
* **
57334899 TTTGAAACACAAGAATT
1 TTTGAAACACATGAAAA
57334916 TTTGAAA-ACATGAAAA
1 TTTGAAACACATGAAAA
57334932 TTT
1 TTT
57334935 TTGAAACACG
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
16 16 0.36
17 14 0.31
18 1 0.02
19 1 0.02
20 13 0.29
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.32
Consensus pattern (17 bp):
TTTGAAACACATGAAAA
Found at i:57334904 original size:20 final size:18
Alignment explanation
Indices: 57334840--57334945 Score: 96
Period size: 18 Copynumber: 5.9 Consensus size: 18
57334830 AAAATTTAAA
*
57334840 AAATTTGTGAAACACGAG
1 AAATTTTTGAAACACGAG
*
57334858 AATTTTTTGAAA-AC-ATG
1 AAATTTTTGAAACACGA-G
*
57334875 AAA-ATTTGAAACACGAG
1 AAATTTTTGAAACACGAG
*
57334892 AAATTTTTTTGAAACACAAG
1 AAA--TTTTTGAAACACGAG
*
57334912 -AATTTTTGAAAACATGA-
1 AAATTTTTG-AAACACGAG
57334929 AAATTTTTGAAACACGA
1 AAATTTTTGAAACACGA
57334946 TTCTTTTTTT
Statistics
Matches: 71, Mismatches: 9, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
16 8 0.11
17 24 0.34
18 25 0.35
19 2 0.03
20 12 0.17
ACGTcount: A:0.46, C:0.09, G:0.14, T:0.30
Consensus pattern (18 bp):
AAATTTTTGAAACACGAG
Found at i:57335248 original size:16 final size:15
Alignment explanation
Indices: 57335222--57335255 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
57335212 TTATTTATTG
57335222 AAATTAATTAAATTA
1 AAATTAATTAAATTA
57335237 AAATTGAATTAAATTA
1 AAATT-AATTAAATTA
57335253 AAA
1 AAA
57335256 GTATAAATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (15 bp):
AAATTAATTAAATTA
Found at i:57335793 original size:4 final size:4
Alignment explanation
Indices: 57335786--57335841 Score: 59
Period size: 4 Copynumber: 15.0 Consensus size: 4
57335776 TTCTTTCCCT
*
57335786 TTTC TTTC TTTT TTTC TTTC TTT- TTTC -TTC TTTC TTTC -TTC TCTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T-TTC
57335832 -TTC -TTC TTTC
1 TTTC TTTC TTTC
57335842 CCTTCGACCT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
3 15 0.33
4 27 0.60
5 3 0.07
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTC
Found at i:57335794 original size:30 final size:29
Alignment explanation
Indices: 57335760--57335845 Score: 93
Period size: 30 Copynumber: 2.9 Consensus size: 29
57335750 TCAACCGATT
57335760 TTTCTATTTTTTCTTTTTCTTTCCCTTTTC
1 TTTCT-TTTTTTCTTTTTCTTTCCCTTTTC
* *
57335790 TTTCTTTTTTTCTTTCTT-TTTTCTTCTTTC
1 TTTCTTTTTTTCTTT-TTCTTTCCCT-TTTC
* * *
57335820 TTTCTTCTCTTCTTCTTCTTTCCCTT
1 TTTCTTTTTTTCTTTTTCTTTCCCTT
57335846 CGACCTTGCT
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
29 18 0.39
30 28 0.61
ACGTcount: A:0.01, C:0.26, G:0.00, T:0.73
Consensus pattern (29 bp):
TTTCTTTTTTTCTTTTTCTTTCCCTTTTC
Found at i:57335799 original size:11 final size:11
Alignment explanation
Indices: 57335769--57335841 Score: 69
Period size: 11 Copynumber: 6.4 Consensus size: 11
57335759 TTTTCTATTT
57335769 TTTC-TTTTTC
1 TTTCTTTTTTC
**
57335779 TTTCCCTTTTC
1 TTTCTTTTTTC
57335790 TTTCTTTTTTTC
1 TTTC-TTTTTTC
57335802 TTTCTTTTTTC
1 TTTCTTTTTTC
57335813 -TTCTTTCTTTC
1 TTTCTTT-TTTC
57335824 TTCTCTTCTTCTTC
1 TT-TCTT-TT-TTC
57335838 TTTC
1 TTTC
57335842 CCTTCGACCT
Statistics
Matches: 53, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
10 10 0.19
11 20 0.38
12 10 0.19
13 7 0.13
14 6 0.11
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTCTTTTTTC
Found at i:57336113 original size:21 final size:21
Alignment explanation
Indices: 57336089--57336133 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
57336079 GCCGCTGCTG
* *
57336089 TTTTGATTTTGTTTATTTTTT
1 TTTTGATTCTATTTATTTTTT
*
57336110 TTTTGCTTCTATTTATTTTTT
1 TTTTGATTCTATTTATTTTTT
57336131 TTT
1 TTT
57336134 GGTTGCTATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.09, C:0.04, G:0.07, T:0.80
Consensus pattern (21 bp):
TTTTGATTCTATTTATTTTTT
Found at i:57336493 original size:13 final size:13
Alignment explanation
Indices: 57336477--57336522 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 13
57336467 AGTATTCAAT
57336477 CCAACCCAATTAC
1 CCAACCCAATTAC
*
57336490 CCAACTCAATTAC
1 CCAACCCAATTAC
57336503 CCAACCC-A--AC
1 CCAACCCAATTAC
57336513 CCAACCCAAT
1 CCAACCCAAT
57336523 CATAAAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
10 9 0.31
11 1 0.03
12 1 0.03
13 18 0.62
ACGTcount: A:0.39, C:0.48, G:0.00, T:0.13
Consensus pattern (13 bp):
CCAACCCAATTAC
Found at i:57336635 original size:9 final size:9
Alignment explanation
Indices: 57336618--57336702 Score: 118
Period size: 9 Copynumber: 9.4 Consensus size: 9
57336608 TGTATGATTC
*
57336618 AATTAGGTT
1 AATTCGGTT
57336627 AATTCGGTT
1 AATTCGGTT
57336636 AATTCGGTT
1 AATTCGGTT
*
57336645 AATTCGGGT
1 AATTCGGTT
57336654 AATTCGGTT
1 AATTCGGTT
*
57336663 AAGTT-GGGT
1 AA-TTCGGTT
57336672 AATTCGGTT
1 AATTCGGTT
*
57336681 AATTTGGTT
1 AATTCGGTT
57336690 AATTCGGTT
1 AATTCGGTT
57336699 AATT
1 AATT
57336703 TTTAACCAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
8 2 0.03
9 63 0.94
10 2 0.03
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.44
Consensus pattern (9 bp):
AATTCGGTT
Found at i:57337067 original size:30 final size:29
Alignment explanation
Indices: 57337027--57337138 Score: 111
Period size: 29 Copynumber: 3.9 Consensus size: 29
57337017 TCTAAGTGTA
*
57337027 AATTTT-GGAAAATTTGGGGTCAAAAATGT
1 AATTTTAGGAAAGTTTGGGGTC-AAAATGT
** *
57337056 AATTTTAGGAAAGTTAAGGGTTAAAATGT
1 AATTTTAGGAAAGTTTGGGGTCAAAATGT
*
57337085 AATTTTAAGAAAGTTTAGGGGTCAAAATG-
1 AATTTTAGGAAAGTTT-GGGGTCAAAATGT
* ** *
57337114 AAATTTAAAAAAGTTAGGGGTCAAA
1 AATTTTAGGAAAGTTTGGGGTCAAA
57337139 GTGCAAATTT
Statistics
Matches: 70, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
28 9 0.13
29 40 0.57
30 21 0.30
ACGTcount: A:0.43, C:0.03, G:0.23, T:0.31
Consensus pattern (29 bp):
AATTTTAGGAAAGTTTGGGGTCAAAATGT
Found at i:57337148 original size:59 final size:58
Alignment explanation
Indices: 57337014--57337148 Score: 130
Period size: 58 Copynumber: 2.3 Consensus size: 58
57337004 CAAAACCTTT
* * * **
57337014 GGGTCTAAGTGTAAATTTTGGAAAATTTGGGGTCAAAAATGTAATTTTAGGAAAGTTAA
1 GGGTCAAAGTG-AAATTTTAGAAAATTTGGGGTCAAAAATGTAAATTTAAAAAAGTTAA
* * * * *
57337073 GGGTTAAAATGTAATTTTAAGAAAGTTTAGGGGTC-AAAATG-AAATTTAAAAAAGTTAG
1 GGGTCAAAGTGAAATTTT-AGAAAATTT-GGGGTCAAAAATGTAAATTTAAAAAAGTTAA
57337131 GGGTCAAAGTGCAAATTT
1 GGGTCAAAGTG-AAATTT
57337149 CTTAAAAAAC
Statistics
Matches: 60, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
58 28 0.47
59 26 0.43
60 6 0.10
ACGTcount: A:0.40, C:0.04, G:0.24, T:0.32
Consensus pattern (58 bp):
GGGTCAAAGTGAAATTTTAGAAAATTTGGGGTCAAAAATGTAAATTTAAAAAAGTTAA
Found at i:57337301 original size:12 final size:12
Alignment explanation
Indices: 57337284--57337322 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
57337274 TCTATCAACA
*
57337284 AAAATTACAAAT
1 AAAATTAAAAAT
57337296 AAAATTAAAAAAT
1 AAAATT-AAAAAT
*
57337309 AAAAATAAAAAT
1 AAAATTAAAAAT
57337321 AA
1 AA
57337323 TTTTTAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAATTAAAAAT
Found at i:57337347 original size:25 final size:24
Alignment explanation
Indices: 57337319--57337379 Score: 72
Period size: 26 Copynumber: 2.5 Consensus size: 24
57337309 AAAAATAAAA
57337319 ATAATTTTTAAATATTT-AAATATTT
1 ATAATTTTTAAAT-TTTCAAAT-TTT
*
57337344 ATAAATTTATAAATTTTCAAATTTT
1 AT-AATTTTTAAATTTTCAAATTTT
57337369 AT-ATTTTTAAA
1 ATAATTTTTAAA
57337380 AAATTTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 8 0.25
25 10 0.31
26 14 0.44
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (24 bp):
ATAATTTTTAAATTTTCAAATTTT
Found at i:57337394 original size:25 final size:25
Alignment explanation
Indices: 57337328--57337394 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 25
57337318 AATAATTTTT
*
57337328 AAATATTTAAATATTTATAAATTT-AT
1 AAAT-TTTAAA-ATTTATAAATTTAAA
* **
57337354 AAATTTTCAAATTTTATATTTTTAAA
1 AAATTTT-AAAATTTATAAATTTAAA
57337380 AAATTTTAAAATTTA
1 AAATTTTAAAATTTA
57337395 AAAAAAATCT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
25 19 0.56
26 15 0.44
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (25 bp):
AAATTTTAAAATTTATAAATTTAAA
Found at i:57337398 original size:18 final size:18
Alignment explanation
Indices: 57337362--57337400 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
57337352 ATAAATTTTC
* * *
57337362 AAATTTTATATTTTTAAA
1 AAATTTTAAAATTTAAAA
57337380 AAATTTTAAAATTTAAAA
1 AAATTTTAAAATTTAAAA
57337398 AAA
1 AAA
57337401 ATCTAAAGAA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAATTTTAAAATTTAAAA
Found at i:57337679 original size:26 final size:23
Alignment explanation
Indices: 57337642--57337696 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 23
57337632 GTATATCACA
*
57337642 ATTAT-AACATTACATAATATAAAT
1 ATTATAAACATT--ATAAAATAAAT
57337666 ATTATAAACAATTATAAAATAAAT
1 ATTATAAAC-ATTATAAAATAAAT
57337690 A-TATAAA
1 ATTATAAA
57337697 GAGATGAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 6 0.21
24 16 0.57
25 3 0.11
26 3 0.11
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (23 bp):
ATTATAAACATTATAAAATAAAT
Found at i:57338387 original size:22 final size:23
Alignment explanation
Indices: 57338342--57338387 Score: 78
Period size: 21 Copynumber: 2.1 Consensus size: 23
57338332 CTTGAAAATA
57338342 TTTAAAATATATTTTAATTATTT
1 TTTAAAATATATTTTAATTATTT
57338365 TTTAAAA-ATA-TTTAATTATTT
1 TTTAAAATATATTTTAATTATTT
57338386 TT
1 TT
57338388 GGAAGTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 13 0.57
22 3 0.13
23 7 0.30
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TTTAAAATATATTTTAATTATTT
Found at i:57339072 original size:30 final size:30
Alignment explanation
Indices: 57339025--57339174 Score: 132
Period size: 30 Copynumber: 5.0 Consensus size: 30
57339015 ATTTTTTTTG
*
57339025 CATTTTGACCCCTAAACTTTTCTAAAATTA
1 CATTTTAACCCCTAAACTTTTCTAAAATTA
*
57339055 TC-TTTTAACCCCCAAAC-TTTCTTAAAATTA
1 -CATTTTAACCCCTAAACTTTTC-TAAAATTA
* * *
57339085 CAGTTCAACCTCTAAACTTTTCT-AAATTA
1 CATTTTAACCCCTAAACTTTTCTAAAATTA
* * *
57339114 CATTTTGACCCCTAAA-ATTTCTTGAAATTA
1 CATTTTAACCCCTAAACTTTTC-TAAAATTA
*
57339144 CA-TTTAGACCCTTAAAC-TTTCTCAAAATTA
1 CATTTTA-ACCCCTAAACTTTTCT-AAAATTA
57339174 C
1 C
57339175 GTTTCAGCCC
Statistics
Matches: 97, Mismatches: 14, Indels: 17
0.76 0.11 0.13
Matches are distributed among these distances:
28 4 0.04
29 28 0.29
30 60 0.62
31 5 0.05
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.39
Consensus pattern (30 bp):
CATTTTAACCCCTAAACTTTTCTAAAATTA
Found at i:57339160 original size:59 final size:58
Alignment explanation
Indices: 57339025--57339189 Score: 163
Period size: 59 Copynumber: 2.8 Consensus size: 58
57339015 ATTTTTTTTG
* * *
57339025 CATTTTGACCCCTAAACTTTTCTAAAATTATCTTTTAACCCCCAAACTTTCTTAAAATTA
1 CATTTAGACCCTTAAACTTTTCT-AAATTA-CTTTTAACCCCCAAAATTTCTTAAAATTA
* * * *
57339085 CAGTTCA-A-CCTCTAAACTTTTCTAAATTACATTTTGACCCCTAAAATTTCTTGAAATTA
1 CA-TTTAGACCCT-TAAACTTTTCTAAATTAC-TTTTAACCCCCAAAATTTCTTAAAATTA
* * * *
57339144 CATTTAGACCCTTAAACTTTCTCAAAATTACGTTTCAGCCCCAAAA
1 CATTTAGACCCTTAAACTTT-TCTAAATTACTTTTAACCCCCAAAA
57339190 GTTTTGCTGC
Statistics
Matches: 86, Mismatches: 13, Indels: 13
0.77 0.12 0.12
Matches are distributed among these distances:
58 4 0.05
59 54 0.63
60 26 0.30
61 2 0.02
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.37
Consensus pattern (58 bp):
CATTTAGACCCTTAAACTTTTCTAAATTACTTTTAACCCCCAAAATTTCTTAAAATTA
Found at i:57349738 original size:34 final size:35
Alignment explanation
Indices: 57349698--57349775 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 35
57349688 AGCATATATT
* * *
57349698 TATACTTATCAAT-TACATGTGCCGAATGCACATA
1 TATACTTATCAATCCACATATGCCGAATGCACACA
* *
57349732 TATACTTGT-AATCCACATATGCCGAATGCATACA
1 TATACTTATCAATCCACATATGCCGAATGCACACA
*
57349766 TATATTTATC
1 TATACTTATC
57349776 CAACAATTTC
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
33 3 0.09
34 32 0.91
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.35
Consensus pattern (35 bp):
TATACTTATCAATCCACATATGCCGAATGCACACA
Found at i:57349988 original size:41 final size:41
Alignment explanation
Indices: 57349938--57350042 Score: 149
Period size: 41 Copynumber: 2.5 Consensus size: 41
57349928 TTAATTTAAA
**
57349938 CAGATTCACCGGCACTTAGCCTGTTAGGCTTA-AAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCCAGGCTTATAA-CCTGATT
57349980 CAGATCACCGGCACTTAGCCTGCCAGGCTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCCAGGCTTATAACCTGATT
* *
57350021 CAGATCACTGGCATTTAGCCTG
1 CAGATCACCGGCACTTAGCCTG
57350043 ATTCAGATCA
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
41 52 0.90
42 6 0.10
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.27
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCCAGGCTTATAACCTGATT
Found at i:57350048 original size:25 final size:25
Alignment explanation
Indices: 57350014--57350067 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
57350004 AGGCTTATAA
*
57350014 CCTGATTCAGATCACTGGCATTTAG
1 CCTGATTCAGATCACTGGCACTTAG
57350039 CCTGATTCAGATCACTGGCACTTAG
1 CCTGATTCAGATCACTGGCACTTAG
57350064 CCTG
1 CCTG
57350068 TTAGGCTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (25 bp):
CCTGATTCAGATCACTGGCACTTAG
Found at i:57350052 original size:66 final size:66
Alignment explanation
Indices: 57349971--57350104 Score: 214
Period size: 66 Copynumber: 2.0 Consensus size: 66
57349961 TTAGGCTTAA
* *
57349971 AGCCTGATTCAGATCACCGGCACTTAGCCTGCCAGGCTTATAACCTGATTCAGATCACTGGCATT
1 AGCCTGATTCAGATCACCGGCACTTAGCCTGCCAGGCTTATAACCTGATTCAGATCACCGGCACT
57350036 T
66 T
* ** *
57350037 AGCCTGATTCAGATCACTGGCACTTAGCCTGTTAGGCTTATAACCTGGTTCAGATCACCGGCACT
1 AGCCTGATTCAGATCACCGGCACTTAGCCTGCCAGGCTTATAACCTGATTCAGATCACCGGCACT
57350102 T
66 T
57350103 AG
1 AG
57350105 TCTGTTAGGC
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (66 bp):
AGCCTGATTCAGATCACCGGCACTTAGCCTGCCAGGCTTATAACCTGATTCAGATCACCGGCACT
T
Found at i:57350101 original size:41 final size:41
Alignment explanation
Indices: 57350039--57350242 Score: 311
Period size: 41 Copynumber: 5.0 Consensus size: 41
57350029 TGGCATTTAG
*
57350039 CCTGATTCAGATCACTGGCACTTAGCCTGTTAGGCTTATAA
1 CCTGATTCAGATCACCGGCACTTAGCCTGTTAGGCTTATAA
* *
57350080 CCTGGTTCAGATCACCGGCACTTAGTCTGTTAGGCTTATAA
1 CCTGATTCAGATCACCGGCACTTAGCCTGTTAGGCTTATAA
* * * *
57350121 CCTGATTCAGTTCACCGGCACTTAGCTTGCTAGGCTTATAG
1 CCTGATTCAGATCACCGGCACTTAGCCTGTTAGGCTTATAA
*
57350162 CCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAA
1 CCTGATTCAGATCACCGGCACTTAGCCTGTTAGGCTTATAA
*
57350203 CCT-AGTTCAGATCACCGGCACTTAGCCTGTTAGACTTATA
1 CCTGA-TTCAGATCACCGGCACTTAGCCTGTTAGGCTTATA
57350243 GTCTGAAATG
Statistics
Matches: 148, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 1 0.01
41 147 0.99
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.30
Consensus pattern (41 bp):
CCTGATTCAGATCACCGGCACTTAGCCTGTTAGGCTTATAA
Found at i:57350146 original size:107 final size:108
Alignment explanation
Indices: 57349938--57350146 Score: 323
Period size: 107 Copynumber: 1.9 Consensus size: 108
57349928 TTAATTTAAA
57349938 CAGATTCACCGGCACTTAGCCTGTTAGGCTTAAAGCCTGATTCAGATCACCGGCACTTAGCCTGC
1 CAGATTCACCGGCACTTAGCCTGTTAGGCTTAAAGCCTGATTCAGATCACCGGCACTTAGCCTGC
* *
57350003 CAGGCTTATAACCTGATTCAGATCACTGGCATTTAGCCTGATT
66 CAGGCTTATAACCTGATTCAGATCACCGGCACTTAGCCTGATT
* * *
57350046 CAGA-TCACTGGCACTTAGCCTGTTAGGCTTATAA-CCTGGTTCAGATCACCGGCACTTAGTCTG
1 CAGATTCACCGGCACTTAGCCTGTTAGGCTTA-AAGCCTGATTCAGATCACCGGCACTTAGCCTG
** *
57350109 TTAGGCTTATAACCTGATTCAGTTCACCGGCACTTAGC
65 CCAGGCTTATAACCTGATTCAGATCACCGGCACTTAGC
57350147 TTGCTAGGCT
Statistics
Matches: 92, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
107 86 0.93
108 6 0.07
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (108 bp):
CAGATTCACCGGCACTTAGCCTGTTAGGCTTAAAGCCTGATTCAGATCACCGGCACTTAGCCTGC
CAGGCTTATAACCTGATTCAGATCACCGGCACTTAGCCTGATT
Found at i:57350791 original size:76 final size:77
Alignment explanation
Indices: 57350649--57350792 Score: 175
Period size: 76 Copynumber: 1.9 Consensus size: 77
57350639 ATGTACATAT
* * * *
57350649 ATACATATTCGAATCTAACATAAATACATATATAATTTTATACTTACATTCGAAACAAGTACTTA
1 ATACATATTCGAATCTAACAT-AATACATATATAATTTCATACTTACACTCGAAACAAGCAATTA
57350714 TACTTGTATACAC
65 TACTTGTATACAC
* * * * *
57350727 ATACATTTTCGAATTTAACGT-ATACATATATAATTTCATACTTATACTC-AATATAAGCAATTA
1 ATACATATTCGAATCTAACATAATACATATATAATTTCATACTTACACTCGAA-ACAAGCAATTA
57350790 TAC
65 TAC
57350793 ATAAATATAC
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
75 2 0.04
76 36 0.64
78 18 0.32
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.38
Consensus pattern (77 bp):
ATACATATTCGAATCTAACATAATACATATATAATTTCATACTTACACTCGAAACAAGCAATTAT
ACTTGTATACAC
Found at i:57355421 original size:38 final size:37
Alignment explanation
Indices: 57355369--57355449 Score: 126
Period size: 37 Copynumber: 2.2 Consensus size: 37
57355359 ATTTGCCGGC
*
57355369 TTACTGATTAGGCACTTATGTGCCGACTACTGTTACTG
1 TTACTGATTAGGCACTT-TGTGCCGAATACTGTTACTG
* *
57355407 TTACTGATTCGGCACTTTGTGTCGAATACTGTTACTG
1 TTACTGATTAGGCACTTTGTGCCGAATACTGTTACTG
57355444 TTACTG
1 TTACTG
57355450 TTACCGACTC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
37 24 0.60
38 16 0.40
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.40
Consensus pattern (37 bp):
TTACTGATTAGGCACTTTGTGCCGAATACTGTTACTG
Found at i:57355488 original size:45 final size:45
Alignment explanation
Indices: 57355396--57355593 Score: 301
Period size: 45 Copynumber: 4.4 Consensus size: 45
57355386 ATGTGCCGAC
*
57355396 TACTGTTACTGTTACTGATTCGGCAC-TT-TGTGTCGAATACTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTGT
*
57355439 TACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTGT
*
57355484 TACTGTTACTGTTATCGATTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTGT
* * * *
57355529 TACCGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAATACTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTGT
* *
57355574 TACTGCTACTGTTACTGATT
1 TACTGTTACTGTTACCGATT
57355594 ACTGTATACT
Statistics
Matches: 141, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
43 24 0.17
44 2 0.01
45 115 0.82
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (45 bp):
TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTGT
Found at i:57363968 original size:105 final size:105
Alignment explanation
Indices: 57363774--57363986 Score: 259
Period size: 105 Copynumber: 2.0 Consensus size: 105
57363764 GCCATTAACT
* * *
57363774 AATGTATTATACGTGACAACATTAGGCTCAATGCCTCGCTTTATCATTTCGTCAACAATACCCTC
1 AATGTACTATACGTGACAACATCAGGCTCAATGCCTCGCTTTATCATGTCGTCAACAATACCCTC
* * *
57363839 AGCTTTAGAGACCATCCCTACCTTGCAATGCGCATCAACC
66 AGCTTTAGAAACCATCCCTACCTTGCAAAGAGCATCAACC
* * * *
57363879 AATGTACTATACGTGACAACATCAGGCTCAATGCCTTGCTTTCTCATCGT-GTCAACGAT-CTCT
1 AATGTACTATACGTGACAACATCAGGCTCAATGCCTCGCTTTATCAT-GTCGTCAACAATACCCT
* * * * *
57363942 ACAGCTTTAGAAATCGTTCCTTCCTTGCAAAGAGCATCAATC
65 -CAGCTTTAGAAACCATCCCTACCTTGCAAAGAGCATCAACC
57363984 AAT
1 AAT
57363987 AACGTATATG
Statistics
Matches: 91, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
104 3 0.03
105 87 0.96
106 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.30
Consensus pattern (105 bp):
AATGTACTATACGTGACAACATCAGGCTCAATGCCTCGCTTTATCATGTCGTCAACAATACCCTC
AGCTTTAGAAACCATCCCTACCTTGCAAAGAGCATCAACC
Found at i:57366596 original size:14 final size:14
Alignment explanation
Indices: 57366559--57366589 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
57366549 CCAAAAAACT
57366559 AAATCATTTTCCAG
1 AAATCATTTTCCAG
57366573 AAATCATTTTCCAG
1 AAATCATTTTCCAG
57366587 AAA
1 AAA
57366590 ATATTTTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.19, G:0.06, T:0.32
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:57368501 original size:47 final size:47
Alignment explanation
Indices: 57368437--57368566 Score: 190
Period size: 47 Copynumber: 2.8 Consensus size: 47
57368427 GTGCGAATAA
* *
57368437 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTC-AGAGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTAG-GAGAAGT
* *
57368484 TACCTTGATTTGTCTACGGGCCATGGTATAGGTACTCTAGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTAGGAGAAGT
**
57368531 TACCTTGATTTGGCTATAGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
57368567 TATCGATTGA
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
47 73 0.97
48 2 0.03
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTAGGAGAAGT
Found at i:57374094 original size:27 final size:28
Alignment explanation
Indices: 57374044--57374098 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
57374034 ACACACAGAG
*
57374044 ATGTGTCTGGATTTTTTATTTTTTATTT
1 ATGTGTATGGATTTTTTATTTTTTATTT
57374072 ATGTGTATGGATTTTTTA-TTTTTATTT
1 ATGTGTATGGATTTTTTATTTTTTATTT
57374099 TTTATATTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 9 0.35
28 17 0.65
ACGTcount: A:0.16, C:0.02, G:0.15, T:0.67
Consensus pattern (28 bp):
ATGTGTATGGATTTTTTATTTTTTATTT
Found at i:57375916 original size:12 final size:12
Alignment explanation
Indices: 57375899--57375925 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
57375889 AATTTTTTTT
57375899 AAAAAATTATTA
1 AAAAAATTATTA
57375911 AAAAAATTATTA
1 AAAAAATTATTA
57375923 AAA
1 AAA
57375926 TGCATGTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AAAAAATTATTA
Found at i:57377278 original size:20 final size:23
Alignment explanation
Indices: 57377233--57377291 Score: 81
Period size: 24 Copynumber: 2.7 Consensus size: 23
57377223 ATCCATGTAC
57377233 ATTTTAAATATATATTTTTAGTAA
1 ATTTTAAATATATATTTTTAG-AA
57377257 ATTTTAAATA-AT-TTTTTA-AA
1 ATTTTAAATATATATTTTTAGAA
57377277 ATTTT-AATATATATT
1 ATTTTAAATATATATT
57377292 AACGTGTCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
19 4 0.12
20 9 0.27
21 2 0.06
22 6 0.18
23 2 0.06
24 10 0.30
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
ATTTTAAATATATATTTTTAGAA
Done.