Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 15 of 170
Found at i:4307582 original size:13 final size:13
Alignment explanation
Indices: 4307564--4307588 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4307554 ATGACGTGAC
4307564 TTCTTGTAAAAGT
1 TTCTTGTAAAAGT
4307577 TTCTTGTAAAAG
1 TTCTTGTAAAAG
4307589 GGGCTAGATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (13 bp):
TTCTTGTAAAAGT
Found at i:4309628 original size:32 final size:33
Alignment explanation
Indices: 4309587--4309648 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
4309577 TGCAATAGAT
*
4309587 TTGCGACGT-GCTGTATCATACAGCTAATAGGC
1 TTGCAACGTGGCTGTATCATACAGCTAATAGGC
* *
4309619 TTGCAACGTGGCTGTGTTATACAGCTAATA
1 TTGCAACGTGGCTGTATCATACAGCTAATA
4309649 TTCGTCATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 8 0.31
33 18 0.69
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (33 bp):
TTGCAACGTGGCTGTATCATACAGCTAATAGGC
Found at i:4312569 original size:21 final size:21
Alignment explanation
Indices: 4312543--4312583 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4312533 AGACGAGCAA
* *
4312543 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
4312564 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
4312584 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:4318522 original size:25 final size:26
Alignment explanation
Indices: 4318494--4318542 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
4318484 TTCCTCTAAC
4318494 GTTTTCTTCTTCTTTC-TTTCTTTAT
1 GTTTTCTTCTTCTTTCATTTCTTTAT
* *
4318519 GTTTTGTTTTTCTTTCATTTCTTT
1 GTTTTCTTCTTCTTTCATTTCTTT
4318543 TCATTTATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.04, C:0.16, G:0.06, T:0.73
Consensus pattern (26 bp):
GTTTTCTTCTTCTTTCATTTCTTTAT
Found at i:4319706 original size:20 final size:20
Alignment explanation
Indices: 4319669--4319706 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4319659 TCTGTTCTGA
*
4319669 TAGCTTGACTGCAAATATAG
1 TAGCTTGACTACAAATATAG
*
4319689 TAGCTTGACTACATATAT
1 TAGCTTGACTACAAATAT
4319707 CTGATCTGGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (20 bp):
TAGCTTGACTACAAATATAG
Found at i:4323585 original size:10 final size:10
Alignment explanation
Indices: 4323546--4323597 Score: 50
Period size: 10 Copynumber: 4.9 Consensus size: 10
4323536 AGCAATTTAA
4323546 TTTTTTTTCT
1 TTTTTTTTCT
* *
4323556 TTTATGTTCT
1 TTTTTTTTCT
*
4323566 TTTAACTTTTCTT
1 TTT--TTTTTC-T
4323579 TTTTTTTTCT
1 TTTTTTTTCT
4323589 TTTTTTTTC
1 TTTTTTTTC
4323598 CTTCTCTTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
10 21 0.62
11 5 0.15
12 4 0.12
13 4 0.12
ACGTcount: A:0.06, C:0.12, G:0.02, T:0.81
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:4323588 original size:11 final size:11
Alignment explanation
Indices: 4323572--4323596 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4323562 TTCTTTTAAC
4323572 TTTTCTTTTTT
1 TTTTCTTTTTT
4323583 TTTTCTTTTTT
1 TTTTCTTTTTT
4323594 TTT
1 TTT
4323597 CCTTCTCTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:4328210 original size:16 final size:16
Alignment explanation
Indices: 4328189--4328219 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4328179 ATTTATGCAA
*
4328189 AATAAAGATATATATT
1 AATAAAAATATATATT
4328205 AATAAAAATATATAT
1 AATAAAAATATATAT
4328220 GCCAAGATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (16 bp):
AATAAAAATATATATT
Found at i:4335047 original size:32 final size:32
Alignment explanation
Indices: 4335011--4335072 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 32
4335001 AAATAAACAC
4335011 ATAATTATTCATTT-AATA-TTATAATTATTTAA
1 ATAA-TATT-ATTTAAATAGTTATAATTATTTAA
4335043 ATAATATTATTTAAATAGTTATAATTATTT
1 ATAATATTATTTAAATAGTTATAATTATTT
4335073 TTCAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
30 4 0.14
31 8 0.29
32 16 0.57
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (32 bp):
ATAATATTATTTAAATAGTTATAATTATTTAA
Found at i:4335051 original size:14 final size:14
Alignment explanation
Indices: 4335011--4335059 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 14
4335001 AAATAAACAC
4335011 ATAATTATTCATTTAA
1 ATAA-TATT-ATTTAA
*
4335027 TATTATAATTATTTAA
1 -ATAAT-ATTATTTAA
4335043 ATAATATTATTTAA
1 ATAATATTATTTAA
4335057 ATA
1 ATA
4335060 GTTATAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
14 12 0.41
15 4 0.14
16 7 0.24
17 6 0.21
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (14 bp):
ATAATATTATTTAA
Found at i:4340630 original size:29 final size:29
Alignment explanation
Indices: 4340588--4340654 Score: 109
Period size: 29 Copynumber: 2.3 Consensus size: 29
4340578 TGTTTAGATG
*
4340588 TAATT-CATTACTTAAGTAACTCAATAAAA
1 TAATTACA-TACTTAAGTAACCCAATAAAA
4340617 TAATTACATACTTAAGTAACCCAATAAAA
1 TAATTACATACTTAAGTAACCCAATAAAA
4340646 TAATTACAT
1 TAATTACAT
4340655 GTAGAAAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
29 34 0.94
30 2 0.06
ACGTcount: A:0.49, C:0.15, G:0.03, T:0.33
Consensus pattern (29 bp):
TAATTACATACTTAAGTAACCCAATAAAA
Found at i:4344470 original size:6 final size:6
Alignment explanation
Indices: 4344459--4344547 Score: 169
Period size: 6 Copynumber: 14.8 Consensus size: 6
4344449 TGAAGGCACA
4344459 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
*
4344507 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT GTATG
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATG
4344548 ACTATATAAT
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
6 82 1.00
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (6 bp):
ATATGT
Found at i:4349101 original size:52 final size:52
Alignment explanation
Indices: 4349039--4349140 Score: 150
Period size: 52 Copynumber: 2.0 Consensus size: 52
4349029 ATAATGAGGA
* * ** *
4349039 TAATTAAATTAGATATTATAATAATAGTATAAGGTGAGATAAAAAGTAAATT
1 TAATAAAATTAAATATTATAATAATAGTATAAAATGAGATAAAAAATAAATT
*
4349091 TAATAAAATTAAATATTATAATAATATTATAAAATGAGATAAAAAATAAA
1 TAATAAAATTAAATATTATAATAATAGTATAAAATGAGATAAAAAATAAA
4349141 CTAAATCTTC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (52 bp):
TAATAAAATTAAATATTATAATAATAGTATAAAATGAGATAAAAAATAAATT
Found at i:4350054 original size:36 final size:36
Alignment explanation
Indices: 4350007--4350075 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
4349997 AATTAATATT
4350007 ATGATCACTTTCTGATACTTAAATCAATCTATAAAC
1 ATGATCACTTTCTGATACTTAAATCAATCTATAAAC
* *
4350043 ATGATCACTTTCTGTTACTTAAATTAATCTATA
1 ATGATCACTTTCTGATACTTAAATCAATCTATA
4350076 GACAGAGAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.36, C:0.17, G:0.06, T:0.41
Consensus pattern (36 bp):
ATGATCACTTTCTGATACTTAAATCAATCTATAAAC
Found at i:4351904 original size:22 final size:22
Alignment explanation
Indices: 4351856--4351909 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
4351846 ATATCCAAAT
*
4351856 AATAATGACAAAATAGTAGCAA
1 AATAATAACAAAATAGTAGCAA
* *
4351878 TATAATAACAAAATGGTTA-CAA
1 AATAATAACAAAATAG-TAGCAA
*
4351900 AATAACAACA
1 AATAATAACA
4351910 GAAAATAAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 24 0.92
23 2 0.08
ACGTcount: A:0.59, C:0.11, G:0.09, T:0.20
Consensus pattern (22 bp):
AATAATAACAAAATAGTAGCAA
Found at i:4354539 original size:107 final size:106
Alignment explanation
Indices: 4354354--4354556 Score: 300
Period size: 107 Copynumber: 1.9 Consensus size: 106
4354344 TGGATTAAGA
* * * * **
4354354 TTTAAGAGGATATTTGGCTATTTGGTCAAACGAGAAATTGAAACCCAGCACACTAGGGCACATTT
1 TTTAAAAGGATATTTGACTATTTGATCAAACGAAAAAACGAAACCCAGCACACTAGGGCACATTT
*
4354419 TCTCGAATTTCCAAACGCAAAACATTGCCTTACTTCAAAAT
66 TCTCGAATCTCCAAACGCAAAACATTGCCTTACTTCAAAAT
* *
4354460 TTTAAAAGGATATTTGACTATTTGAT-AGAACGAAAAAAACGAAACCCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTGACTATTTGATCA-AACG-AAAAAACGAAACCCAGCACACTAGGGCACAT
4354524 TTTCTCGAATCTCCAAACGCAAAACATTGCCTT
64 TTTCTCGAATCTCCAAACGCAAAACATTGCCTT
4354557 TATTATTTTT
Statistics
Matches: 86, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
105 1 0.01
106 27 0.31
107 58 0.67
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (106 bp):
TTTAAAAGGATATTTGACTATTTGATCAAACGAAAAAACGAAACCCAGCACACTAGGGCACATTT
TCTCGAATCTCCAAACGCAAAACATTGCCTTACTTCAAAAT
Found at i:4355108 original size:12 final size:12
Alignment explanation
Indices: 4355093--4355124 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
4355083 TAATGAAAAT
4355093 ATAAATAAAGAA
1 ATAAATAAAGAA
4355105 ATAAATAAAGAA
1 ATAAATAAAGAA
*
4355117 ATGAATAA
1 ATAAATAA
4355125 GGCTATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (12 bp):
ATAAATAAAGAA
Found at i:4355357 original size:26 final size:25
Alignment explanation
Indices: 4355319--4355368 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
4355309 AATATTTAAA
*
4355319 AAGAGATATAGATATATATACATAAT
1 AAGAGATAAAGATATATATA-ATAAT
* *
4355345 AAGATATAAAGATATTTATAATAA
1 AAGAGATAAAGATATATATAATAA
4355369 GGTATATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (25 bp):
AAGAGATAAAGATATATATAATAAT
Found at i:4355360 original size:46 final size:48
Alignment explanation
Indices: 4355291--4355385 Score: 117
Period size: 48 Copynumber: 2.0 Consensus size: 48
4355281 AAAACGTATG
*
4355291 TACATATATAAGCTAGAAAATATTTA-AA-AAGAG-ATATAGATATATA
1 TACATATATAAGATAGAAAATATTTATAATAAG-GTATATAGATATATA
* *
4355337 TACATA-ATAAGATATAAAGATATTTATAATAAGGTATATATATATATA
1 TACATATATAAGATAGAAA-ATATTTATAATAAGGTATATAGATATATA
4355385 T
1 T
4355386 GAAAATTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
45 10 0.24
46 13 0.31
47 3 0.07
48 16 0.38
ACGTcount: A:0.53, C:0.03, G:0.09, T:0.35
Consensus pattern (48 bp):
TACATATATAAGATAGAAAATATTTATAATAAGGTATATAGATATATA
Found at i:4355381 original size:22 final size:22
Alignment explanation
Indices: 4355330--4355382 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
4355320 AGAGATATAG
4355330 ATATATATACATAATAAGATAT
1 ATATATATACATAATAAGATAT
* * ** *
4355352 AAAGATATTTATAATAAGGTAT
1 ATATATATACATAATAAGATAT
4355374 ATATATATA
1 ATATATATA
4355383 TATGAAAATT
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.38
Consensus pattern (22 bp):
ATATATATACATAATAAGATAT
Found at i:4357020 original size:10 final size:10
Alignment explanation
Indices: 4357005--4357031 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
4356995 ATGTAGGTTT
4357005 AAGTGCAGTG
1 AAGTGCAGTG
4357015 AAGTGCAGTG
1 AAGTGCAGTG
4357025 AAGTGCA
1 AAGTGCA
4357032 TTATCCTCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.33, C:0.11, G:0.37, T:0.19
Consensus pattern (10 bp):
AAGTGCAGTG
Found at i:4357300 original size:29 final size:29
Alignment explanation
Indices: 4357231--4357301 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 29
4357221 TAATTATAAA
* *
4357231 TAAATTTACATATAATAACATTAAAAATT
1 TAAATCTACATAAAATAACATTAAAAATT
* * *
4357260 AAAATC-ATATAAAATAAACATT-TAAATT
1 TAAATCTACATAAAAT-AACATTAAAAATT
4357288 TAAATCTACATAAA
1 TAAATCTACATAAA
4357302 GAAACAAAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
28 17 0.52
29 16 0.48
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (29 bp):
TAAATCTACATAAAATAACATTAAAAATT
Found at i:4358214 original size:29 final size:30
Alignment explanation
Indices: 4358150--4358227 Score: 86
Period size: 30 Copynumber: 2.6 Consensus size: 30
4358140 TTAATAGTTA
* *
4358150 ATATTTTTATAATTTTTAAAGAATAAAATT
1 ATATTTTTATTATTTTTAAAGAACAAAATT
* * * *
4358180 AAATTTTTATTATTTTTGAGGACCAAAA-T
1 ATATTTTTATTATTTTTAAAGAACAAAATT
*
4358209 ATATTTTTATTATTATTAA
1 ATATTTTTATTATTTTTAA
4358228 TTTAAAATTT
Statistics
Matches: 39, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
29 17 0.44
30 22 0.56
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (30 bp):
ATATTTTTATTATTTTTAAAGAACAAAATT
Found at i:4360712 original size:36 final size:36
Alignment explanation
Indices: 4360665--4360735 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
4360655 GTAGGTGTTG
4360665 ATAACATAAATCAAAGAGAATCTAGAGAGGATGGAA
1 ATAACATAAATCAAAGAGAATCTAGAGAGGATGGAA
*
4360701 ATAACATAAATCAAATAGAATCTAGAGAGGATGGA
1 ATAACATAAATCAAAGAGAATCTAGAGAGGATGGA
4360736 TTAATCTGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.52, C:0.08, G:0.21, T:0.18
Consensus pattern (36 bp):
ATAACATAAATCAAAGAGAATCTAGAGAGGATGGAA
Found at i:4363694 original size:21 final size:21
Alignment explanation
Indices: 4363653--4363694 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4363643 TAACAGTAAT
* *
4363653 AGTAATATTAATTATTGTAAC
1 AGTAATATTAATTACTATAAC
*
4363674 AGTAATATTAGTTACTATAAC
1 AGTAATATTAATTACTATAAC
4363695 GGTGATGATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (21 bp):
AGTAATATTAATTACTATAAC
Found at i:4365042 original size:22 final size:22
Alignment explanation
Indices: 4364995--4365039 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
4364985 TTGCAATCTT
*
4364995 AGATATGATATGTAATCTTAGA
1 AGATATGATATGTAATCTCAGA
*
4365017 AGATATGATTTTGTAATCTCAGA
1 AGATATGA-TATGTAATCTCAGA
4365040 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (22 bp):
AGATATGATATGTAATCTCAGA
Found at i:4365049 original size:22 final size:23
Alignment explanation
Indices: 4365005--4365049 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
4364995 AGATATGATA
* *
4365005 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTCAGAAGATATAATTT
*
4365028 TGTAATCTCAG-AGATTTAATTT
1 TGTAATCTCAGAAGATATAATTT
4365050 GTAGATACCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (23 bp):
TGTAATCTCAGAAGATATAATTT
Found at i:4365239 original size:19 final size:21
Alignment explanation
Indices: 4365215--4365253 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
4365205 TGTTTTCTTT
*
4365215 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
4365234 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
4365254 TTAAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:4365484 original size:3 final size:3
Alignment explanation
Indices: 4365476--4365515 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
4365466 ATTAATTTTG
4365476 TTA TTA TTA TTA TTA TTA -TA TTA TATA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA T
4365516 ACCTACATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.86
4 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:4365512 original size:21 final size:20
Alignment explanation
Indices: 4365476--4365516 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 20
4365466 ATTAATTTTG
4365476 TTATTATTATTATTATTATA
1 TTATTATTATTATTATTATA
4365496 TTATATATTATTATTATTATA
1 TTAT-TATTATTATTATTATA
4365517 CCTACATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTATTATTATTATTATTATA
Found at i:4372116 original size:44 final size:44
Alignment explanation
Indices: 4372066--4372209 Score: 107
Period size: 44 Copynumber: 3.3 Consensus size: 44
4372056 AATAGCAGAT
4372066 CTTGCCTTCCTGCACCGACAGCGAATCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGCACCGACAGCGAATCAGATCGAAGACACCAGC
* *** * * * * * * * *
4372110 CTTGCCTCCCTAG-GTTG-CAGCGGAGCAG-GCTAAAAATAGCAGAT
1 CTTGCCTTCCT-GCACCGACAGCGAATCAGATC-GAAGACACCAG-C
*
4372154 TTTGCCTTCCTGCACCGACAGCGAAGT-AGATCGAAGACACCAGC
1 CTTGCCTTCCTGCACCGACAGCGAA-TCAGATCGAAGACACCAGC
4372198 CTTGCCTTCCTG
1 CTTGCCTTCCTG
4372210 GGTTGCAGTG
Statistics
Matches: 67, Mismatches: 26, Indels: 14
0.63 0.24 0.13
Matches are distributed among these distances:
42 1 0.01
43 17 0.25
44 32 0.48
45 16 0.24
46 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.23, T:0.20
Consensus pattern (44 bp):
CTTGCCTTCCTGCACCGACAGCGAATCAGATCGAAGACACCAGC
Found at i:4372319 original size:88 final size:88
Alignment explanation
Indices: 4371876--4372286 Score: 651
Period size: 88 Copynumber: 4.7 Consensus size: 88
4371866 AGCAGATCAG
* *
4371876 TAAAAATAGCAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
4371941 CCCTGGGTTGCAGCGGAGCAGGC
66 CCCTGGGTTGCAGCGGAGCAGGC
* * * * * * *
4371964 TAAAAATAGCAGATCTTACCTTCCTGCACCGACAACGAAGTAGGTTGAAGACACTAGCCTTACCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
4372029 CCCTGGGTTGCAGCGGAGCAGGC
66 CCCTGGGTTGCAGCGGAGCAGGC
*
4372052 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAATCAGATCGAAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
*
4372117 CCCTAGGTTGCAGCGGAGCAGGC
66 CCCTGGGTTGCAGCGGAGCAGGC
* *
4372140 TAAAAATAGCAGATTTTGCCTTCCTGCACCGACAGCGAAGTAGATCGAAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* * *
4372205 TCCTGGGTTGCAGTGGAGCAGGT
66 CCCTGGGTTGCAGCGGAGCAGGC
* * *
4372228 TAAAAATAGCAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGATGACCCCAGCC
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCC
4372287 CTATCTCCCT
Statistics
Matches: 293, Mismatches: 30, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 293 1.00
ACGTcount: A:0.28, C:0.29, G:0.24, T:0.19
Consensus pattern (88 bp):
TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
CCCTGGGTTGCAGCGGAGCAGGC
Found at i:4372352 original size:44 final size:44
Alignment explanation
Indices: 4372286--4372617 Score: 419
Period size: 44 Copynumber: 7.7 Consensus size: 44
4372276 TGACCCCAGC
4372286 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * *
4372330 CTTATCTCCCTGGACAGTAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * *
4372374 CCTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTGAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * *
4372418 TCTATCTCCCTGGGCAGCAGTGGAATAGATT-AA-A----GAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
*
4372456 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * *
4372500 CCTATCTCCCTGGTCAGCAGTGGAATAGATTGAAGATTGT-AGGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGA-AT
* * * * *
4372544 CCTATCTCCCTAGTCAACAGTGGAATAGGTTGAAGATCGTGAAC
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
*
4372588 CCTATCTCCCTGAG-CAGCAGTGGAGTAGGT
1 CCTATCTCCCTG-GTCAGCAGTGGAATAGGT
4372618 GGAAAATAGC
Statistics
Matches: 252, Mismatches: 27, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
38 32 0.13
39 2 0.01
40 1 0.00
42 1 0.00
43 3 0.01
44 211 0.84
45 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
Found at i:4372461 original size:38 final size:38
Alignment explanation
Indices: 4372413--4372535 Score: 147
Period size: 38 Copynumber: 3.1 Consensus size: 38
4372403 TTGAAGATTG
* *
4372413 AGAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTAA
1 AGAATCCTATCTCCCTGGACAGCAGTGGAATAGATTAA
*
4372451 AGAATCCTATCTCCCTGGACAGCAGTGGAATAGGTTAAA
1 AGAATCCTATCTCCCTGGACAGCAGTGGAATAGATT-AA
* *
4372490 GATTGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGATTGA
1 -A----GAATCCTATCTCCCTGGACAGCAGTGGAATAGATTAA
4372533 AGA
1 AGA
4372536 TTGTAGGTCC
Statistics
Matches: 73, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
38 35 0.48
39 2 0.03
40 1 0.01
42 1 0.01
43 1 0.01
44 33 0.45
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (38 bp):
AGAATCCTATCTCCCTGGACAGCAGTGGAATAGATTAA
Found at i:4372494 original size:126 final size:129
Alignment explanation
Indices: 4372286--4372617 Score: 431
Period size: 126 Copynumber: 2.6 Consensus size: 129
4372276 TGACCCCAGC
* * *
4372286 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAATCTTATCTCCCTGGACAGTAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGATTAAAGA---TGAATCCTATCTCCCTGGACAGCAGT
* *
4372351 GGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTG-AG
63 GGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGATTGAAGATTGTAG
4372415 AAT
128 -AT
* *
4372418 TCTATCTCCCTGGGCAGCAGTGGAATAGATT-AA-A-GAATCCTATCTCCCTGGACAGCAGTGGA
1 CCTATCTCCCTGGTCAGCAGTGGAATAGATTAAAGATGAATCCTATCTCCCTGGACAGCAGTGGA
*
4372480 ATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGATTGAAGATTGTAGGT
66 ATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGATTGAAGATTGTAGAT
* * * * *
4372544 CCTATCTCCCTAGTCAACAGTGGAATAGGTTGAAGATCGTGAACCCTATCTCCCT-GAGCAGCAG
1 CCTATCTCCCTGGTCAGCAGTGGAATAGATTAAAGA---TGAATCCTATCTCCCTGGA-CAGCAG
*
4372608 TGGAGTAGGT
62 TGGAATAGGT
4372618 GGAAAATAGC
Statistics
Matches: 177, Mismatches: 15, Indels: 16
0.85 0.07 0.08
Matches are distributed among these distances:
126 110 0.62
127 4 0.02
128 1 0.01
130 1 0.01
131 4 0.02
132 57 0.32
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (129 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGATTAAAGATGAATCCTATCTCCCTGGACAGCAGTGGA
ATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGATTGAAGATTGTAGAT
Found at i:4372568 original size:170 final size:170
Alignment explanation
Indices: 4372286--4372611 Score: 501
Period size: 170 Copynumber: 1.9 Consensus size: 170
4372276 TGACCCCAGC
* * *
4372286 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAATCTTATCTCCCTGGACAGTAGT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGACAGCAGT
* * ** *
4372351 GGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTGAGA
66 GGAATAGATTAAAGATTGTGAATCCTATCTCCCTAGTCAACAGTGGAATAGGTTGAAGATCGAGA
** *
4372416 ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGAAT
131 ACCCTATCTCCCTGAGCAGCAGTGGAATAGATTAAAGAAT
*
4372456 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGACAGCAGT
* * *
4372521 GGAATAGATTGAAGATTGT-AGGTCCTATCTCCCTAGTCAACAGTGGAATAGGTTGAAGATCGTG
66 GGAATAGATTAAAGATTGTGA-ATCCTATCTCCCTAGTCAACAGTGGAATAGGTTGAAGATCGAG
4372585 AACCCTATCTCCCTGAGCAGCAGTGGA
130 AACCCTATCTCCCTGAGCAGCAGTGGA
4372612 GTAGGTGGAA
Statistics
Matches: 140, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
169 1 0.01
170 139 0.99
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (170 bp):
CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGACAGCAGT
GGAATAGATTAAAGATTGTGAATCCTATCTCCCTAGTCAACAGTGGAATAGGTTGAAGATCGAGA
ACCCTATCTCCCTGAGCAGCAGTGGAATAGATTAAAGAAT
Found at i:4372857 original size:50 final size:50
Alignment explanation
Indices: 4372820--4372945 Score: 180
Period size: 50 Copynumber: 2.5 Consensus size: 50
4372810 ACAGTGGAGT
* *
4372820 AGATTGAAGCCGCAACGGCGAATCTTACTGCCCTGGCAGTGTAATGGAAC
1 AGATTGAAACCACAACGGCGAATCTTACTGCCCTGGCAGTGTAATGGAAC
* * * *
4372870 AGATTGAAACTACGATGGCGAATCTTACTGCCCTGGCGGTGTAATGGAAC
1 AGATTGAAACCACAACGGCGAATCTTACTGCCCTGGCAGTGTAATGGAAC
* *
4372920 AGATTGAAACTACGACGGCGAATCTT
1 AGATTGAAACCACAACGGCGAATCTT
4372946 GTTTCCCTGA
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 69 1.00
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.22
Consensus pattern (50 bp):
AGATTGAAACCACAACGGCGAATCTTACTGCCCTGGCAGTGTAATGGAAC
Found at i:4372954 original size:50 final size:50
Alignment explanation
Indices: 4372834--4372945 Score: 206
Period size: 50 Copynumber: 2.2 Consensus size: 50
4372824 TGAAGCCGCA
4372834 ACGGCGAATCTTACTGCCCTGGCAGTGTAATGGAACAGATTGAAACTACG
1 ACGGCGAATCTTACTGCCCTGGCAGTGTAATGGAACAGATTGAAACTACG
* *
4372884 ATGGCGAATCTTACTGCCCTGGCGGTGTAATGGAACAGATTGAAACTACG
1 ACGGCGAATCTTACTGCCCTGGCAGTGTAATGGAACAGATTGAAACTACG
4372934 ACGGCGAATCTT
1 ACGGCGAATCTT
4372946 GTTTCCCTGA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 59 1.00
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (50 bp):
ACGGCGAATCTTACTGCCCTGGCAGTGTAATGGAACAGATTGAAACTACG
Found at i:4373533 original size:19 final size:19
Alignment explanation
Indices: 4373509--4373623 Score: 167
Period size: 19 Copynumber: 5.8 Consensus size: 19
4373499 AATCTTCGAG
4373509 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
4373528 GATATGCAATATTAGATAT
1 GATATGCAATCTTAGATAT
4373547 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
4373568 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
4373589 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
4373608 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
4373624 AGATATGATT
Statistics
Matches: 91, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
19 52 0.57
21 39 0.43
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:4373555 original size:21 final size:21
Alignment explanation
Indices: 4373510--4373612 Score: 160
Period size: 21 Copynumber: 5.1 Consensus size: 21
4373500 ATCTTCGAGG
4373510 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
*
4373529 ATATGCAATATTAGATATGAT
1 ATATGCAATCTTAGATATGAT
4373550 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
4373571 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
*
4373590 ATATGTAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
4373611 AT
1 AT
4373613 GTAATCTTAG
Statistics
Matches: 77, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
19 36 0.47
21 41 0.53
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.39
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:4373562 original size:40 final size:38
Alignment explanation
Indices: 4373509--4373630 Score: 167
Period size: 40 Copynumber: 3.2 Consensus size: 38
4373499 AATCTTCGAG
*
4373509 GATATGCAATCTTAGATATGATATGCAATATTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCTTAGATAT
4373547 GATATATGCAATCTTAGATATGATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATATG--ATATGCAATCTTAGATAT
* *
4373589 GATATGTAATCTTAGATATGATATGTAATCTTAGA-A-
1 GATATGCAATCTTAGATATGATATGCAATCTTAGATAT
4373625 GATATG
1 GATATG
4373631 ATTTTGTAAT
Statistics
Matches: 77, Mismatches: 3, Indels: 10
0.86 0.03 0.11
Matches are distributed among these distances:
36 6 0.08
37 1 0.01
38 15 0.19
40 37 0.48
42 18 0.23
ACGTcount: A:0.39, C:0.07, G:0.16, T:0.38
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGCAATCTTAGATAT
Found at i:4373646 original size:61 final size:60
Alignment explanation
Indices: 4373510--4373623 Score: 185
Period size: 61 Copynumber: 1.9 Consensus size: 60
4373500 ATCTTCGAGG
4373510 ATATGCAATCTTAGATATGATATGCAATATTAGATATGATATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATATTAGATATGA-ATATGCAATCTTAGATATGAT
* * *
4373571 ATATGCAATCTTAGATATGATATGTAATCTTAGATATG-ATATGTAATCTTAGA
1 ATATGCAATCTTAGATATGATATGCAATATTAGATATGAATATGCAATCTTAGA
4373624 AGATATGATT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
59 14 0.28
61 36 0.72
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.39
Consensus pattern (60 bp):
ATATGCAATCTTAGATATGATATGCAATATTAGATATGAATATGCAATCTTAGATATGAT
Found at i:4373656 original size:22 final size:22
Alignment explanation
Indices: 4373602--4373660 Score: 66
Period size: 23 Copynumber: 2.7 Consensus size: 22
4373592 ATGTAATCTT
* *
4373602 AGATATGATATGTAATCTTAGA
1 AGATATAATTTGTAATCTTAGA
*
4373624 AGATATGATTTTGTAATCTTAG-
1 AGATAT-AATTTGTAATCTTAGA
*
4373646 AGATTTAATTTGTAA
1 AGATATAATTTGTAA
4373661 ATACCCTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 8 0.26
22 11 0.35
23 12 0.39
ACGTcount: A:0.37, C:0.03, G:0.17, T:0.42
Consensus pattern (22 bp):
AGATATAATTTGTAATCTTAGA
Found at i:4373659 original size:21 final size:23
Alignment explanation
Indices: 4373583--4373660 Score: 71
Period size: 19 Copynumber: 3.7 Consensus size: 23
4373573 ATGCAATCTT
*
4373583 AGATATG-ATATGTAATCTT---
1 AGATATGAATTTGTAATCTTAGA
*
4373602 AGATATG-ATATGTAATCTTAGA
1 AGATATGAATTTGTAATCTTAGA
*
4373624 AGATATGATTTTGTAATCTTAG-
1 AGATATGAATTTGTAATCTTAGA
*
4373646 AGAT-TTAATTTGTAA
1 AGATATGAATTTGTAA
4373661 ATACCCTTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
19 19 0.37
21 9 0.18
22 11 0.22
23 12 0.24
ACGTcount: A:0.37, C:0.04, G:0.17, T:0.42
Consensus pattern (23 bp):
AGATATGAATTTGTAATCTTAGA
Found at i:4373844 original size:19 final size:21
Alignment explanation
Indices: 4373820--4373858 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
4373810 ACTGTTTTAT
*
4373820 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
4373839 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
4373859 TTAAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:4374087 original size:3 final size:3
Alignment explanation
Indices: 4374079--4374112 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
4374069 ATTAATTTTG
4374079 TTA TTA TTA TTA TTA -TA TTA TATA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA T
4374113 ACCTACATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 24 0.83
4 3 0.10
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:4374109 original size:18 final size:17
Alignment explanation
Indices: 4374079--4374113 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
4374069 ATTAATTTTG
4374079 TTATTATTATTATTATA
1 TTATTATTATTATTATA
4374096 TTATATATTATTATTATA
1 TTAT-TATTATTATTATA
4374114 CCTACATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TTATTATTATTATTATA
Found at i:4374201 original size:29 final size:31
Alignment explanation
Indices: 4374140--4374201 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
4374130 CATATGCATG
* *
4374140 TTAATATATATACATATATATTTTAAACGTT
1 TTAATATATATACATATATATTATAAACATT
*
4374171 TTAATATATATACATAT-TA-TATAAATATT
1 TTAATATATATACATATATATTATAAACATT
4374200 TT
1 TT
4374202 TTTATTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 9 0.32
30 2 0.07
31 17 0.61
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.50
Consensus pattern (31 bp):
TTAATATATATACATATATATTATAAACATT
Found at i:4377068 original size:21 final size:20
Alignment explanation
Indices: 4377044--4377082 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
4377034 TTTGGTCTCT
*
4377044 GGTTTATGGTTTAAAGGTTGG
1 GGTTTAAGGTTT-AAGGTTGG
4377065 GGTTTAAGGTTTAAGGTT
1 GGTTTAAGGTTTAAGGTT
4377083 AATATGTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.44
Consensus pattern (20 bp):
GGTTTAAGGTTTAAGGTTGG
Found at i:4379675 original size:12 final size:12
Alignment explanation
Indices: 4379658--4379692 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
4379648 TTGAATGTTT
4379658 ATTAAATATGTA
1 ATTAAATATGTA
4379670 ATTAAATATGTA
1 ATTAAATATGTA
*
4379682 ATTAAAAATGT
1 ATTAAATATGT
4379693 TTCCATGGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (12 bp):
ATTAAATATGTA
Found at i:4380352 original size:9 final size:9
Alignment explanation
Indices: 4380307--4380653 Score: 146
Period size: 9 Copynumber: 39.6 Consensus size: 9
4380297 ACATTTGGTT
4380307 AATTACATA
1 AATTACATA
* * *
4380316 ACTTATAGA
1 AATTACATA
*
4380325 AATTAAATA
1 AATTACATA
*
4380334 ACTT-CATA
1 AATTACATA
4380342 AATTACATA
1 AATTACATA
4380351 AATTA-AGT-
1 AATTACA-TA
*
4380359 AATT-CTGGTA
1 AATTAC--ATA
*
4380369 ACTTACATA
1 AATTACATA
*
4380378 AATTAAATA
1 AATTACATA
** *
4380387 TCTTGCATA
1 AATTACATA
*
4380396 ACTTACATA
1 AATTACATA
*
4380405 AATTA-AGA
1 AATTACATA
*
4380413 ATTTACATA
1 AATTACATA
*
4380422 ACTTACATA
1 AATTACATA
*
4380431 AATTAAATA
1 AATTACATA
** *
4380440 TCTTGCATA
1 AATTACATA
*
4380449 ACTTACATA
1 AATTACATA
* *
4380458 AATTA-GTT
1 AATTACATA
4380466 AATTA-A-A
1 AATTACATA
**
4380473 TCTTACATA
1 AATTACATA
4380482 AATTA-ATA
1 AATTACATA
*
4380490 AATTAAATA
1 AATTACATA
*
4380499 ACTTACA-A
1 AATTACATA
*
4380507 ACTTACATA
1 AATTACATA
4380516 AATTA-AGT-
1 AATTACA-TA
*
4380524 ATTTACATA
1 AATTACATA
*
4380533 ACTTACATA
1 AATTACATA
*
4380542 AATTAAAT-
1 AATTACATA
** *
4380550 TCTTGCATA
1 AATTACATA
*
4380559 ACTTACATA
1 AATTACATA
*
4380568 AATTAAATTA
1 AATTACA-TA
**
4380578 TCTTACATA
1 AATTACATA
4380587 AATTACATA
1 AATTACATA
*
4380596 AATTAAATA
1 AATTACATA
** *
4380605 TCTTGCAT-
1 AATTACATA
4380613 AATTACATA
1 AATTACATA
*
4380622 AATTAAATA
1 AATTACATA
**
4380631 TCTTACATA
1 AATTACATA
*
4380640 ACTTACATA
1 AATTACATA
4380649 AATTA
1 AATTA
4380654 AATATCTTAC
Statistics
Matches: 244, Mismatches: 76, Indels: 36
0.69 0.21 0.10
Matches are distributed among these distances:
7 3 0.01
8 55 0.23
9 176 0.72
10 9 0.04
11 1 0.00
ACGTcount: A:0.48, C:0.12, G:0.03, T:0.37
Consensus pattern (9 bp):
AATTACATA
Found at i:4380371 original size:53 final size:53
Alignment explanation
Indices: 4380309--4380675 Score: 426
Period size: 53 Copynumber: 6.8 Consensus size: 53
4380299 ATTTGGTTAA
* * * *
4380309 TTACATAACTTATAGAAATTAAATAACTT-CATAAATTACATAAATTAAGTAAT
1 TTACATAACTTACATAAATTAAATATCTTGCATAACTTACATAAATTAAG-AAT
**
4380362 TCT-GGTAACTTACATAAATTAAATATCTTGCATAACTTACATAAATTAAGAAT
1 T-TACATAACTTACATAAATTAAATATCTTGCATAACTTACATAAATTAAGAAT
*
4380415 TTACATAACTTACATAAATTAAATATCTTGCATAACTTACATAAATTAGTTAATTAAAT
1 TTACATAACTTACATAAATTAAATATCTTGCATAACTTACAT-AA--A-TTAA--GAAT
* * * *
4380474 CTTACATAAATTA-ATAAATTAAATAACTTACA-AACTTACATAAATTAAGTAT
1 -TTACATAACTTACATAAATTAAATATCTTGCATAACTTACATAAATTAAGAAT
4380526 TTACATAACTTACATAAATTAAAT-TCTTGCATAACTTACATAAATTAA-ATTAT
1 TTACATAACTTACATAAATTAAATATCTTGCATAACTTACATAAATTAAGA--AT
*
4380579 CTTACATAAATTACATAAATTAAATATCTTGCATAA-TTACATAAATTAA-ATAT
1 -TTACATAACTTACATAAATTAAATATCTTGCATAACTTACATAAATTAAGA-AT
* *
4380632 CTTACATAACTTACATAAATTAAATATCTTACATTACTTACATA
1 -TTACATAACTTACATAAATTAAATATCTTGCATAACTTACATA
4380676 GCTTACATTA
Statistics
Matches: 275, Mismatches: 22, Indels: 33
0.83 0.07 0.10
Matches are distributed among these distances:
51 16 0.06
52 30 0.11
53 101 0.37
54 70 0.25
55 11 0.04
56 1 0.00
57 6 0.02
58 9 0.03
59 20 0.07
60 11 0.04
ACGTcount: A:0.47, C:0.13, G:0.03, T:0.37
Consensus pattern (53 bp):
TTACATAACTTACATAAATTAAATATCTTGCATAACTTACATAAATTAAGAAT
Found at i:4380377 original size:27 final size:27
Alignment explanation
Indices: 4380312--4380675 Score: 406
Period size: 26 Copynumber: 13.5 Consensus size: 27
4380302 TGGTTAATTA
* * *
4380312 CATAACTTATAGAAATTAAATAACTT-
1 CATAACTTACATAAATTAAATATCTTG
* *
4380338 CATAAATTACATAAATTAAGTAAT-TCTG
1 CATAACTTACATAAATTAAAT-ATCT-TG
*
4380366 -GTAACTTACATAAATTAAATATCTTG
1 CATAACTTACATAAATTAAATATCTTG
*
4380392 CATAACTTACATAAATTAAGA-AT-TTA
1 CATAACTTACATAAATTAA-ATATCTTG
4380418 CATAACTTACATAAATTAAATATCTTG
1 CATAACTTACATAAATTAAATATCTTG
*
4380445 CATAACTTACATAAATTAGTTAATTAAATCTTA
1 CATAACTTACATAAATTA---AA-T--ATCTTG
* * *
4380478 CATAAATTA-ATAAATTAAATAACTTA
1 CATAACTTACATAAATTAAATATCTTG
* *
4380504 CA-AACTTACATAAATTAAGTAT-TTA
1 CATAACTTACATAAATTAAATATCTTG
4380529 CATAACTTACATAAATTAAAT-TCTTG
1 CATAACTTACATAAATTAAATATCTTG
*
4380555 CATAACTTACATAAATTAAATTATCTTA
1 CATAACTTACATAAATTAAA-TATCTTG
*
4380583 CATAAATTACATAAATTAAATATCTTG
1 CATAACTTACATAAATTAAATATCTTG
*
4380610 CATAA-TTACATAAATTAAATATCTTA
1 CATAACTTACATAAATTAAATATCTTG
*
4380636 CATAACTTACATAAATTAAATATCTTA
1 CATAACTTACATAAATTAAATATCTTG
*
4380663 CATTACTTACATA
1 CATAACTTACATA
4380676 GCTTACATTA
Statistics
Matches: 294, Mismatches: 24, Indels: 39
0.82 0.07 0.11
Matches are distributed among these distances:
25 12 0.04
26 127 0.43
27 104 0.35
28 25 0.09
29 2 0.01
30 2 0.01
31 1 0.00
32 8 0.03
33 13 0.04
ACGTcount: A:0.47, C:0.13, G:0.03, T:0.37
Consensus pattern (27 bp):
CATAACTTACATAAATTAAATATCTTG
Found at i:4380673 original size:9 final size:9
Alignment explanation
Indices: 4380632--4380692 Score: 54
Period size: 9 Copynumber: 6.8 Consensus size: 9
4380622 AATTAAATAT
*
4380632 CTTACATAA
1 CTTACATTA
*
4380641 CTTACATAA
1 CTTACATTA
* *
4380650 ATTA-AATA
1 CTTACATTA
4380658 TCTTACATTA
1 -CTTACATTA
4380668 CTTACA-TA
1 CTTACATTA
4380676 GCTTACATTA
1 -CTTACATTA
4380686 CTTACAT
1 CTTACAT
4380693 GGGGCAATAC
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
8 4 0.09
9 34 0.79
10 5 0.12
ACGTcount: A:0.39, C:0.20, G:0.02, T:0.39
Consensus pattern (9 bp):
CTTACATTA
Found at i:4380680 original size:18 final size:18
Alignment explanation
Indices: 4380369--4380692 Score: 114
Period size: 18 Copynumber: 18.4 Consensus size: 18
4380359 AATTCTGGTA
* *
4380369 ACTTACATAAATTA-AAT
1 ACTTACATAACTTACATT
* *
4380386 ATCTTGCATAACTTACATA
1 A-CTTACATAACTTACATT
* * * *
4380405 AATTA-AGAATTTACATA
1 ACTTACATAACTTACATT
* *
4380422 ACTTACATAAATTA-AAT
1 ACTTACATAACTTACATT
* *
4380439 ATCTTGCATAACTTACATA
1 A-CTTACATAACTTACATT
* ** *
4380458 AATTAGTTAA-TTA-AAT
1 ACTTACATAACTTACATT
* *
4380474 -CTTACATAAATTA-ATA
1 ACTTACATAACTTACATT
* * *
4380490 AATTAAATAACTTACA-A
1 ACTTACATAACTTACATT
* *
4380507 ACTTACATAAATTA-AGT
1 ACTTACATAACTTACATT
* *
4380524 ATTTACATAACTTACATA
1 ACTTACATAACTTACATT
* * * * *
4380542 AATTAAAT-TCTTGCATA
1 ACTTACATAACTTACATT
* *
4380559 ACTTACATAAATTAAATT
1 ACTTACATAACTTACATT
* *
4380577 ATCTTACATAAATTACATA
1 A-CTTACATAACTTACATT
* * * *
4380596 AATTAAATATCTTGCA-T
1 ACTTACATAACTTACATT
* * *
4380613 AATTACATAAATTA-AAT
1 ACTTACATAACTTACATT
*
4380630 ATCTTACATAACTTACATA
1 A-CTTACATAACTTACATT
* * *
4380649 AATTAAATATCTTACATT
1 ACTTACATAACTTACATT
*
4380667 ACTTACATAGCTTACATT
1 ACTTACATAACTTACATT
4380685 ACTTACAT
1 ACTTACAT
4380693 GGGGCAATAC
Statistics
Matches: 219, Mismatches: 73, Indels: 29
0.68 0.23 0.09
Matches are distributed among these distances:
15 6 0.03
16 7 0.03
17 79 0.36
18 105 0.48
19 22 0.10
ACGTcount: A:0.46, C:0.14, G:0.02, T:0.38
Consensus pattern (18 bp):
ACTTACATAACTTACATT
Found at i:4386253 original size:21 final size:21
Alignment explanation
Indices: 4386196--4386264 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
4386186 CAGCAATTTA
** *
4386196 AAGCAGAGGTGGCAGCGAGGG
1 AAGCAGAGGCCGCAGCGAGAG
* *
4386217 AAGAAGA-GCCTACAGCGAGAG
1 AAGCAGAGGCC-GCAGCGAGAG
4386238 AAGCAGAGGCCGCAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
4386259 AAGCAG
1 AAGCAG
4386265 CGAGAGAAGC
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
20 1 0.03
21 35 0.90
22 3 0.08
ACGTcount: A:0.36, C:0.19, G:0.42, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCCGCAGCGAGAG
Found at i:4386266 original size:12 final size:12
Alignment explanation
Indices: 4386229--4386288 Score: 63
Period size: 12 Copynumber: 5.2 Consensus size: 12
4386219 GAAGAGCCTA
4386229 CAGCGAGAGAAG
1 CAGCGAGAGAAG
**
4386241 CA--GAG-GCCG
1 CAGCGAGAGAAG
4386250 CAGCGAGAGAAG
1 CAGCGAGAGAAG
4386262 CAGCGAGAGAAG
1 CAGCGAGAGAAG
* *
4386274 CAGCAATAGAAG
1 CAGCGAGAGAAG
4386286 CAG
1 CAG
4386289 AGGTTCGAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 4 0.10
10 3 0.08
11 3 0.08
12 29 0.74
ACGTcount: A:0.40, C:0.20, G:0.38, T:0.02
Consensus pattern (12 bp):
CAGCGAGAGAAG
Found at i:4386850 original size:43 final size:43
Alignment explanation
Indices: 4386752--4386972 Score: 320
Period size: 43 Copynumber: 5.2 Consensus size: 43
4386742 CTTTTTGAAC
* * *
4386752 AAGCGTCGCTAAAGAACATGATCTTTAGTGGCG-TTTGTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTCT
* * * *
4386794 AAGCGTCGCTAAAGAACATGATATTTAGGGGTGTTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTCT
* *
4386837 AAGCGCCGCTAAAGAACATGATCTTTAGGGGCGTTTTTTTTCA
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTCT
4386880 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTCT
* *
4386922 AAGCGCCGCTAAAGAACATGATCTTTAGCAGCGTTTTTTTATGT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT-TCT
4386966 AAGCGCC
1 AAGCGCC
4386973 ACAAAAGTTA
Statistics
Matches: 164, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
42 70 0.43
43 85 0.52
44 9 0.05
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (43 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTCT
Found at i:4386959 original size:85 final size:86
Alignment explanation
Indices: 4386752--4386961 Score: 316
Period size: 85 Copynumber: 2.5 Consensus size: 86
4386742 CTTTTTGAAC
* * * * *
4386752 AAGCGTCGCTAAAGAACATGATCTTTAGTGGCG-TTTGTTTCTAAGCGTCGCTAAAGAACATGAT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTCAAAGCGCCGCTAAAGAACATGAT
* *
4386816 ATTTAGGGGTGTTTTTTTTCT
66 ATTTAGCGGCGTTTTTTTTCT
*
4386837 AAGCGCCGCTAAAGAACATGATCTTTAGGGGCGTTTTTTTTCAAAGCGCCGCTAAAGAACATGAT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTCAAAGCGCCGCTAAAGAACATGAT
*
4386902 CTTTAGCGGCG-TTTTTTTCT
66 ATTTAGCGGCGTTTTTTTTCT
*
4386922 AAGCGCCGCTAAAGAACATGATCTTTAGCAGCGTTTTTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
4386962 ATGTAAGCGC
Statistics
Matches: 114, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
85 78 0.68
86 36 0.32
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (86 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTCAAAGCGCCGCTAAAGAACATGAT
ATTTAGCGGCGTTTTTTTTCT
Found at i:4391114 original size:18 final size:18
Alignment explanation
Indices: 4391070--4391114 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
4391060 GCAATAAGAA
4391070 AATGTTTTGAAATTGAAT
1 AATGTTTTGAAATTGAAT
* *
4391088 AACGATTTGTAAA-TGAAT
1 AATGTTTTG-AAATTGAAT
4391106 AATGTTTTG
1 AATGTTTTG
4391115 GAAACGAACG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 19 0.86
19 3 0.14
ACGTcount: A:0.38, C:0.02, G:0.18, T:0.42
Consensus pattern (18 bp):
AATGTTTTGAAATTGAAT
Found at i:4393176 original size:25 final size:26
Alignment explanation
Indices: 4393122--4393176 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
4393112 TACTGGATTT
*
4393122 TGTTTAATGATGCTTTATTTGATACA
1 TGTTTAATGATGCTTTATTAGATACA
*
4393148 -GTTTAATG-TGCTTT-TTAGATCATA
1 TGTTTAATGATGCTTTATTAGAT-ACA
4393172 TGTTT
1 TGTTT
4393177 CAGATGAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 5 0.20
24 8 0.32
25 12 0.48
ACGTcount: A:0.24, C:0.07, G:0.16, T:0.53
Consensus pattern (26 bp):
TGTTTAATGATGCTTTATTAGATACA
Found at i:4394324 original size:46 final size:46
Alignment explanation
Indices: 4394274--4394561 Score: 270
Period size: 46 Copynumber: 6.4 Consensus size: 46
4394264 TTAATAGAGA
4394274 TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG
1 TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG
* * *
4394320 TGTTAAAATG-TAGCAAATTGAAGTATTTAAATGCTGTGAATTGAAG
1 TGTTAAAGTGCT-GCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG
*
4394366 TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAAG
1 TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG
* * * * * *
4394412 TGTTTTAAGTACTG---A--G--GTGTATAAATGTTGTTAATTG-GG
1 TG-TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG
* * * *
4394451 ATGTTAAAGTGTTGTAAGTTGAGGTGTTTAAATGCTGTAAATTGAAG
1 -TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG
* * * * * * * * *
4394498 TGTTTAATTGTTGTAAATTGAGGTGCTGAAATGATGTAAATCGAAG
1 TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG
*
4394544 TGTTTAAGTGCTGCAAAT
1 TGTTAAAGTGCTGCAAAT
4394562 AATATATGAT
Statistics
Matches: 200, Mismatches: 30, Indels: 24
0.79 0.12 0.09
Matches are distributed among these distances:
39 9 0.05
40 21 0.10
42 1 0.00
44 2 0.01
45 1 0.00
46 155 0.77
47 11 0.05
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.38
Consensus pattern (46 bp):
TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG
Found at i:4394416 original size:23 final size:23
Alignment explanation
Indices: 4394288--4394550 Score: 220
Period size: 23 Copynumber: 11.7 Consensus size: 23
4394278 AAAGTGCTGC
*
4394288 AAATTGAAGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAAATGTTGT
* * *
4394311 AAATTGAAGTGTTAAAATGTAGC
1 AAATTGAAGTGTTTAAATGTTGT
* *
4394334 AAATTGAAGTATTTAAATGCTGT
1 AAATTGAAGTGTTTAAATGTTGT
* * *
4394357 GAATTGAAGTG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAAA-TGTTGT
4394380 AAATTGAAGTGTTTAAATGTTGT
1 AAATTGAAGTGTTTAAATGTTGT
*
4394403 AAATTGAAGTGTTTTAA----GT
1 AAATTGAAGTGTTTAAATGTTGT
* * *
4394422 --ACTGAGGTGTATAAATGTTGT
1 AAATTGAAGTGTTTAAATGTTGT
* *
4394443 TAATTG-GGATG-TTAAAGTGTTGT
1 AAATTGAAG-TGTTTAAA-TGTTGT
* * *
4394466 AAGTTGAGGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAAATGTTGT
*
4394489 AAATTGAAGTGTTTAATTGTTGT
1 AAATTGAAGTGTTTAAATGTTGT
* * * *
4394512 AAATTGAGGTGCTGAAATGATGT
1 AAATTGAAGTGTTTAAATGTTGT
*
4394535 AAATCGAAGTGTTTAA
1 AAATTGAAGTGTTTAA
4394551 GTGCTGCAAA
Statistics
Matches: 190, Mismatches: 38, Indels: 24
0.75 0.15 0.10
Matches are distributed among these distances:
17 11 0.06
19 2 0.01
21 2 0.01
22 11 0.06
23 152 0.80
24 12 0.06
ACGTcount: A:0.34, C:0.03, G:0.25, T:0.38
Consensus pattern (23 bp):
AAATTGAAGTGTTTAAATGTTGT
Found at i:4396134 original size:28 final size:28
Alignment explanation
Indices: 4396060--4396134 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 28
4396050 TTTGGGCCAA
* * * *
4396060 AGCCCTATACAACAACAGCGTGGGCCTT
1 AGCCCAATACAATAACAGTGTGGCCCTT
*
4396088 AGCCCAATACAGTAACAGTGTGGCCCTT
1 AGCCCAATACAATAACAGTGTGGCCCTT
4396116 AGCCCAATACAATAACAGT
1 AGCCCAATACAATAACAGT
4396135 ATAATGCAGT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.19
Consensus pattern (28 bp):
AGCCCAATACAATAACAGTGTGGCCCTT
Found at i:4396271 original size:26 final size:26
Alignment explanation
Indices: 4396242--4396316 Score: 105
Period size: 26 Copynumber: 2.9 Consensus size: 26
4396232 ACCAATATCC
* * *
4396242 CAGCAAAGCTGCCAGTAATAGTGATG
1 CAGCAAAGCTGCCAGTAACAGTAACG
*
4396268 CAGCAAAGCTACCAGTAACAGTAACG
1 CAGCAAAGCTGCCAGTAACAGTAACG
*
4396294 CAGCAAAGTTGCCAGTAACAGTA
1 CAGCAAAGCTGCCAGTAACAGTA
4396317 TATGTGGCAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.16
Consensus pattern (26 bp):
CAGCAAAGCTGCCAGTAACAGTAACG
Found at i:4396518 original size:27 final size:27
Alignment explanation
Indices: 4396479--4396741 Score: 237
Period size: 27 Copynumber: 9.7 Consensus size: 27
4396469 TCAACTCCTA
** *
4396479 AGGGTATAACAGTCATTTTACCTTTTG
1 AGGGTATTTCAGTCATTTTACCCTTTG
* *
4396506 GGGGTATTGCAGTCATTTTA-CC-TTG
1 AGGGTATTTCAGTCATTTTACCCTTTG
* **
4396531 CTAGGGTATTTCAGTCATTCTACCCTGCG
1 --AGGGTATTTCAGTCATTTTACCCTTTG
* * *
4396560 AGGGTATTTCAGTTAATTTACCTTTTG
1 AGGGTATTTCAGTCATTTTACCCTTTG
**
4396587 -GAGGTATTTTGGTCATTTTACCCTTTG
1 AG-GGTATTTCAGTCATTTTACCCTTTG
*
4396614 AGGGTATTTCAGTCATTTTACCCTTTA
1 AGGGTATTTCAGTCATTTTACCCTTTG
* * *
4396641 AGGATATTTCGGTCATTTTACCCTTCG
1 AGGGTATTTCAGTCATTTTACCCTTTG
* * * *
4396668 AGGGTATTTCGGTTATTTTACCATTCG
1 AGGGTATTTCAGTCATTTTACCCTTTG
* *
4396695 GGGGTATTTC-GATCATTTTACCTTTTG
1 AGGGTATTTCAG-TCATTTTACCCTTTG
* *
4396722 AGGGTATTTCGGTTATTTTA
1 AGGGTATTTCAGTCATTTTA
4396742 GGCCCATTAC
Statistics
Matches: 192, Mismatches: 36, Indels: 16
0.79 0.15 0.07
Matches are distributed among these distances:
25 3 0.02
26 3 0.02
27 181 0.94
28 4 0.02
29 1 0.01
ACGTcount: A:0.19, C:0.16, G:0.21, T:0.44
Consensus pattern (27 bp):
AGGGTATTTCAGTCATTTTACCCTTTG
Found at i:4396649 original size:81 final size:81
Alignment explanation
Indices: 4396493--4396741 Score: 263
Period size: 81 Copynumber: 3.1 Consensus size: 81
4396483 TATAACAGTC
* * * *
4396493 ATTTTACCTTTTGGGGGTATTGCAGTCATTTTA-CC-TTGCTAGGGTATTTCAGTCATTCTACCC
1 ATTTTACCTTTTGGAGGTATTTCGGTCATTTTACCCTTTG--AGGGTATTTCAGTCATTTTACCC
** *
4396556 TGCGAGGGTATTTCAGTT
64 TTTGAGGGTATTTCGGTT
* *
4396574 AATTTACCTTTTGGAGGTATTTTGGTCATTTTACCCTTTGAGGGTATTTCAGTCATTTTACCCTT
1 ATTTTACCTTTTGGAGGTATTTCGGTCATTTTACCCTTTGAGGGTATTTCAGTCATTTTACCCTT
* * *
4396639 TAAGGATATTTCGGTC
66 TGAGGGTATTTCGGTT
* * * * * * *
4396655 ATTTTACC-CTTCGAGGGTATTTCGGTTATTTTACCATTCGGGGGTATTTC-GATCATTTTACCT
1 ATTTTACCTTTTGGA-GGTATTTCGGTCATTTTACCCTTTGAGGGTATTTCAG-TCATTTTACCC
4396718 TTTGAGGGTATTTCGGTT
64 TTTGAGGGTATTTCGGTT
4396736 ATTTTA
1 ATTTTA
4396742 GGCCCATTAC
Statistics
Matches: 140, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
80 5 0.04
81 130 0.93
82 2 0.01
83 3 0.02
ACGTcount: A:0.18, C:0.16, G:0.20, T:0.45
Consensus pattern (81 bp):
ATTTTACCTTTTGGAGGTATTTCGGTCATTTTACCCTTTGAGGGTATTTCAGTCATTTTACCCTT
TGAGGGTATTTCGGTT
Found at i:4401167 original size:21 final size:21
Alignment explanation
Indices: 4401126--4401168 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
4401116 AATAAAGTAG
*
4401126 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
4401147 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
4401168 A
1 A
4401169 AATTCATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:4401209 original size:38 final size:37
Alignment explanation
Indices: 4401147--4401228 Score: 105
Period size: 38 Copynumber: 2.2 Consensus size: 37
4401137 TTTTTATAGT
*
4401147 ATTA-TATATTATGATTTTAGTAAATTCATA-ATAATA
1 ATTATTATATTATAATTTTAGTAAATT-ATATATAATA
* *
4401183 ATTATTATATTCATAATTTTATTAAATTATATTTAATA
1 ATTATTATATT-ATAATTTTAGTAAATTATATATAATA
4401221 ATTATTAT
1 ATTATTAT
4401229 GTTAAAATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
36 4 0.10
37 9 0.22
38 27 0.68
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (37 bp):
ATTATTATATTATAATTTTAGTAAATTATATATAATA
Found at i:4401475 original size:46 final size:44
Alignment explanation
Indices: 4401386--4401482 Score: 119
Period size: 46 Copynumber: 2.2 Consensus size: 44
4401376 ATTACAACAT
4401386 CATTACATTCAACCACACACAAGAATACTATTACAGTTATATTC
1 CATTACATTCAACCACACACAAGAATACTATTACAGTTATATTC
*
4401430 CATTCCATTCAACCA-A-ACAATTGAATTACTAATTACAGCTT-TATTC
1 CATTACATTCAACCACACACAA--GAA-TACT-ATTACAG-TTATATTC
4401476 CATTACA
1 CATTACA
4401483 GCTCTATTCA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
42 4 0.09
43 1 0.02
44 17 0.37
45 4 0.09
46 18 0.39
47 2 0.04
ACGTcount: A:0.39, C:0.25, G:0.04, T:0.32
Consensus pattern (44 bp):
CATTACATTCAACCACACACAAGAATACTATTACAGTTATATTC
Found at i:4401482 original size:16 final size:16
Alignment explanation
Indices: 4401461--4401515 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
4401451 TGAATTACTA
*
4401461 ATTACAGCTTTATTCC
1 ATTACAGCTCTATTCC
*
4401477 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
4401493 ATAACAGCTCTATTCC
1 ATTACAGCTCTATTCC
4401509 ATTACAG
1 ATTACAG
4401516 TGAACCAAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.36
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:4402947 original size:15 final size:15
Alignment explanation
Indices: 4402929--4402957 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4402919 TTATAATTAA
4402929 AAATTTATATTTATC
1 AAATTTATATTTATC
4402944 AAATTTATATTTAT
1 AAATTTATATTTAT
4402958 ATTTAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.55
Consensus pattern (15 bp):
AAATTTATATTTATC
Found at i:4406584 original size:16 final size:15
Alignment explanation
Indices: 4406549--4406585 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
4406539 CAAAATCAAG
4406549 ATTTTTACAACATCC
1 ATTTTTACAACATCC
* *
4406564 ATTTTTACAATATTC
1 ATTTTTACAACATCC
4406579 ATTTTTA
1 ATTTTTA
4406586 TTTAAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.51
Consensus pattern (15 bp):
ATTTTTACAACATCC
Found at i:4408133 original size:22 final size:23
Alignment explanation
Indices: 4408106--4408154 Score: 82
Period size: 22 Copynumber: 2.1 Consensus size: 23
4408096 TATATTTTAT
4408106 TTCAAATGTTTCATATT-TACAC
1 TTCAAATGTTTCATATTATACAC
4408128 TTCAAATGTTTCATATTCATACAC
1 TTCAAATGTTTCATATT-ATACAC
4408152 TTC
1 TTC
4408155 TCGATATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 17 0.68
24 8 0.32
ACGTcount: A:0.31, C:0.20, G:0.04, T:0.45
Consensus pattern (23 bp):
TTCAAATGTTTCATATTATACAC
Found at i:4410731 original size:12 final size:12
Alignment explanation
Indices: 4410716--4410754 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
4410706 TTAAAACATA
4410716 ATTATAAATATC
1 ATTATAAATATC
* *
4410728 ATTA-AAACATA
1 ATTATAAATATC
4410739 ATTATAAATATC
1 ATTATAAATATC
4410751 ATTA
1 ATTA
4410755 ATAACATCAC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (12 bp):
ATTATAAATATC
Found at i:4410731 original size:23 final size:23
Alignment explanation
Indices: 4410705--4410761 Score: 105
Period size: 23 Copynumber: 2.4 Consensus size: 23
4410695 ATAGAAATAA
4410705 ATTAAAACATAATTATAAATATC
1 ATTAAAACATAATTATAAATATC
4410728 ATTAAAACATAATTATAAATATC
1 ATTAAAACATAATTATAAATATC
4410751 ATTAATAACAT
1 ATTAA-AACAT
4410762 CACAATAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 28 0.85
24 5 0.15
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (23 bp):
ATTAAAACATAATTATAAATATC
Found at i:4412252 original size:20 final size:20
Alignment explanation
Indices: 4412215--4412253 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4412205 AATTTAGCTT
**
4412215 TTTTTATTTTTATTTTAATA
1 TTTTTATTTTTAACTTAATA
*
4412235 TTTTTGTTTTTAACTTAAT
1 TTTTTATTTTTAACTTAAT
4412254 TTTGATATTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (20 bp):
TTTTTATTTTTAACTTAATA
Found at i:4416133 original size:43 final size:43
Alignment explanation
Indices: 4416058--4416277 Score: 198
Period size: 43 Copynumber: 5.1 Consensus size: 43
4416048 GAACGATGCT
* * * * *
4416058 TTTAGCGACGTTTGTGAAAAAAAAC-CCGCTAAAAGTCATTCTC
1 TTTAGAGACGTTTGTG-ATAAAAGCGCCACTAAAGGTCATTCTC
* * *
4416101 TATAGAGACGTTTGTGATAAAAGCGCCACTAAAGGTTATGCTC
1 TTTAGAGACGTTTGTGATAAAAGCGCCACTAAAGGTCATTCTC
* ** * * *
4416144 TTTAGCGGTGTTTGTGATAAAAGCGCCGCTAAAGGTTATTTTC
1 TTTAGAGACGTTTGTGATAAAAGCGCCACTAAAGGTCATTCTC
*
4416187 TTTA-ACGACGTTTGTGATAAAAGCGCCACTAAAGGTCAAGT-TC
1 TTTAGA-GACGTTTGTGATAAAAGCGCCACTAAAGGTC-ATTCTC
* **
4416230 TTTAGCAG-TGTTTGTGATAAAAGCGCCGTTAAAGGTCATGT-TC
1 TTTAG-AGACGTTTGTGATAAAAGCGCCACTAAAGGTCAT-TCTC
4416273 TTTAG
1 TTTAG
4416278 CCGCTTAAAA
Statistics
Matches: 146, Mismatches: 25, Indels: 12
0.80 0.14 0.07
Matches are distributed among these distances:
42 7 0.05
43 135 0.92
44 3 0.02
45 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (43 bp):
TTTAGAGACGTTTGTGATAAAAGCGCCACTAAAGGTCATTCTC
Found at i:4416157 original size:86 final size:87
Alignment explanation
Indices: 4416053--4416268 Score: 244
Period size: 86 Copynumber: 2.5 Consensus size: 87
4416043 CTAAAGAACG
**
4416053 ATGCT-TTTAGCGACGTTTGTGAAAAAAAAC-CCGCTAAAAGTCATTCTCTATAGA-GACGTTTG
1 ATGCTCTTTAGCGGTGTTTGTGAAAAAAAACGCCGCTAAAAGTCATTCTCTATA-ACGACGTTTG
*
4416115 TGATAAAAGCGCCACTAAAGGTT
65 TGATAAAAGCGCCACTAAAGGTC
* * * * * *
4416138 ATGCTCTTTAGCGGTGTTTGTG-ATAAAAGCGCCGCTAAAGGTTATTTTCTTTAACGACGTTTGT
1 ATGCTCTTTAGCGGTGTTTGTGAAAAAAAACGCCGCTAAAAGTCATTCTCTATAACGACGTTTGT
4416202 GATAAAAGCGCCACTAAAGGTC
66 GATAAAAGCGCCACTAAAGGTC
* * * * * * *
4416224 AAGTTCTTTAGCAGTGTTTGTG-ATAAAAGCGCCGTTAAAGGTCAT
1 ATGCTCTTTAGCGGTGTTTGTGAAAAAAAACGCCGCTAAAAGTCAT
4416269 GTTCTTTAGC
Statistics
Matches: 114, Mismatches: 14, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
85 12 0.11
86 102 0.89
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (87 bp):
ATGCTCTTTAGCGGTGTTTGTGAAAAAAAACGCCGCTAAAAGTCATTCTCTATAACGACGTTTGT
GATAAAAGCGCCACTAAAGGTC
Found at i:4416274 original size:86 final size:86
Alignment explanation
Indices: 4416107--4416276 Score: 277
Period size: 86 Copynumber: 2.0 Consensus size: 86
4416097 TCTCTATAGA
* * *
4416107 GACGTTTGTGATAAAAGCGCCACTAAAGGTTATGCTCTTTAGCGGTGTTTGTGATAAAAGCGCCG
1 GACGTTTGTGATAAAAGCGCCACTAAAGGTCAAGCTCTTTAGCAGTGTTTGTGATAAAAGCGCCG
* *
4416172 CTAAAGGTTATTTTCTTTAAC
66 CTAAAGGTCATGTTCTTTAAC
*
4416193 GACGTTTGTGATAAAAGCGCCACTAAAGGTCAAGTTCTTTAGCAGTGTTTGTGATAAAAGCGCCG
1 GACGTTTGTGATAAAAGCGCCACTAAAGGTCAAGCTCTTTAGCAGTGTTTGTGATAAAAGCGCCG
*
4416258 TTAAAGGTCATGTTCTTTA
66 CTAAAGGTCATGTTCTTTA
4416277 GCCGCTTAAA
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
86 77 1.00
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.33
Consensus pattern (86 bp):
GACGTTTGTGATAAAAGCGCCACTAAAGGTCAAGCTCTTTAGCAGTGTTTGTGATAAAAGCGCCG
CTAAAGGTCATGTTCTTTAAC
Found at i:4416278 original size:43 final size:42
Alignment explanation
Indices: 4416110--4416278 Score: 221
Period size: 43 Copynumber: 4.0 Consensus size: 42
4416100 CTATAGAGAC
* *
4416110 GTTTGTGATAAAAGCGCCACTAAAGGTTATGCTCTTTAGCGGT
1 GTTTGTGATAAAAGCGCCACTAAAGGTCATGTTCTTTAGC-GT
* * * * *
4416153 GTTTGTGATAAAAGCGCCGCTAAAGGTTATTTTCTTTAACGAC
1 GTTTGTGATAAAAGCGCCACTAAAGGTCATGTTCTTTAGCG-T
*
4416196 GTTTGTGATAAAAGCGCCACTAAAGGTCAAGTTCTTTAGCAGT
1 GTTTGTGATAAAAGCGCCACTAAAGGTCATGTTCTTTAGC-GT
**
4416239 GTTTGTGATAAAAGCGCCGTTAAAGGTCATGTTCTTTAGC
1 GTTTGTGATAAAAGCGCCACTAAAGGTCATGTTCTTTAGC
4416279 CGCTTAAAAG
Statistics
Matches: 110, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
42 1 0.01
43 108 0.98
44 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (42 bp):
GTTTGTGATAAAAGCGCCACTAAAGGTCATGTTCTTTAGCGT
Found at i:4419500 original size:20 final size:20
Alignment explanation
Indices: 4419475--4419513 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
4419465 TGCATGTCGT
4419475 TAATTATTTATCCTTTGTGC
1 TAATTATTTATCCTTTGTGC
4419495 TAATTATTTATCCTTTGTG
1 TAATTATTTATCCTTTGTG
4419514 TTGTCAAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.21, C:0.13, G:0.10, T:0.56
Consensus pattern (20 bp):
TAATTATTTATCCTTTGTGC
Found at i:4420155 original size:13 final size:12
Alignment explanation
Indices: 4420132--4420194 Score: 55
Period size: 12 Copynumber: 5.4 Consensus size: 12
4420122 AATAATTTTA
4420132 TATTAAAATTAT
1 TATTAAAATTAT
4420144 TATT-AAA-TAT
1 TATTAAAATTAT
4420154 TATTAATAATTA-
1 TATTAA-AATTAT
*
4420166 TATTAAGAA-TGT
1 TATTAA-AATTAT
4420178 TATT-AAATTAT
1 TATTAAAATTAT
4420189 ATATTA
1 -TATTA
4420195 TTTTATTAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 13
0.72 0.05 0.23
Matches are distributed among these distances:
10 9 0.22
11 8 0.20
12 22 0.54
13 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (12 bp):
TATTAAAATTAT
Found at i:4420159 original size:22 final size:23
Alignment explanation
Indices: 4420132--4420194 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 23
4420122 AATAATTTTA
4420132 TATTAAAATTATTATTA-AATAT
1 TATTAAAATTATTATTAGAATAT
*
4420154 TATTAATAATTA-TATTAAGAATGT
1 TATTAA-AATTATTATT-AGAATAT
4420178 TATT-AAATTATATATTA
1 TATTAAAATTAT-TATTA
4420195 TTTTATTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
22 15 0.43
23 8 0.23
24 12 0.34
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (23 bp):
TATTAAAATTATTATTAGAATAT
Found at i:4420273 original size:61 final size:57
Alignment explanation
Indices: 4420157--4420293 Score: 157
Period size: 61 Copynumber: 2.3 Consensus size: 57
4420147 TAAATATTAT
* * * *
4420157 TAATAATTATATTAAGAATGTTATTAAATTATATATTATTTTATTAAATTGTATTTAA
1 TAATAATTATATTAA-AATATGATTAAATTATATATTATTTTATTAAAATATATTTAA
* *
4420215 TAATAATTATGTTAAAATATGATTAAATTATTTATTTTTATTTTTATTAAAATATATTTAA
1 TAATAATTATATTAAAATATGATTAAATTA--TA-TATTA-TTTTATTAAAATATATTTAA
* *
4420276 CAATAATCATATTAAAAT
1 TAATAATTATATTAAAAT
4420294 TTAATAACAA
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
57 13 0.20
58 14 0.21
59 2 0.03
60 4 0.06
61 33 0.50
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (57 bp):
TAATAATTATATTAAAATATGATTAAATTATATATTATTTTATTAAAATATATTTAA
Found at i:4420306 original size:25 final size:26
Alignment explanation
Indices: 4420259--4420310 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
4420249 TTTTTATTTT
*
4420259 TATTAAAATATATTTAACAATAATCA
1 TATTAAAATATATATAACAATAATCA
*
4420285 TATTAAAATTTA-ATAACAATAATCA
1 TATTAAAATATATATAACAATAATCA
4420310 T
1 T
4420311 CTACCTACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 13 0.54
26 11 0.46
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (26 bp):
TATTAAAATATATATAACAATAATCA
Found at i:4420476 original size:16 final size:16
Alignment explanation
Indices: 4420455--4420524 Score: 61
Period size: 16 Copynumber: 4.4 Consensus size: 16
4420445 TGAATTACTG
*
4420455 ATTACAACTATATTCC
1 ATTACAACTCTATTCC
**
4420471 ATTACAACTCTATTTT
1 ATTACAACTCTATTCC
* * *
4420487 TTTACAGCTCTATTCA
1 ATTACAACTCTATTCC
*
4420503 ATTACAA-TTTAATTCC
1 ATTACAACTCT-ATTCC
4420519 ATTACA
1 ATTACA
4420525 GTGAACCAAA
Statistics
Matches: 42, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
15 2 0.05
16 40 0.95
ACGTcount: A:0.34, C:0.21, G:0.01, T:0.43
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:4423892 original size:15 final size:15
Alignment explanation
Indices: 4423869--4423898 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4423859 AAATAATAGT
4423869 TATAATGTTTTTATC
1 TATAATGTTTTTATC
*
4423884 TATATTGTTTTTATC
1 TATAATGTTTTTATC
4423899 CCTCAACAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.63
Consensus pattern (15 bp):
TATAATGTTTTTATC
Found at i:4427490 original size:14 final size:15
Alignment explanation
Indices: 4427473--4427505 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
4427463 AAATTTTAAG
4427473 AAAAAAATAAAA-AT
1 AAAAAAATAAAACAT
*
4427487 AAAAATATAAAACAT
1 AAAAAAATAAAACAT
4427502 AAAA
1 AAAA
4427506 CTTTTATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (15 bp):
AAAAAAATAAAACAT
Found at i:4430084 original size:39 final size:39
Alignment explanation
Indices: 4429954--4430089 Score: 100
Period size: 39 Copynumber: 3.5 Consensus size: 39
4429944 TATAGACATG
4429954 TATAT-AGATATGTATA-A-AAATTATGAAATATAAAAATA
1 TATATAAG-TATGTATATATAAATTAT-AAATATAAAAATA
* * * * * * * *
4429992 TATATAGGTACGTATATGTATA-TACATATTACAAAAATG
1 TATATAAGTATGTATATATAAATTATA-AATATAAAAATA
** * * *
4430031 TATGCACGTTTGTATATATAAATTATAAGTATAAAAATA
1 TATATAAGTATGTATATATAAATTATAAATATAAAAATA
4430070 TATATAAGTATGTATATATA
1 TATATAAGTATGTATATATA
4430090 TAAATCAAAG
Statistics
Matches: 70, Mismatches: 23, Indels: 9
0.69 0.23 0.09
Matches are distributed among these distances:
38 13 0.19
39 52 0.74
40 5 0.07
ACGTcount: A:0.49, C:0.04, G:0.10, T:0.38
Consensus pattern (39 bp):
TATATAAGTATGTATATATAAATTATAAATATAAAAATA
Found at i:4430868 original size:21 final size:22
Alignment explanation
Indices: 4430822--4430868 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
4430812 GAAAAATAAA
* *
4430822 AAAAATCGAATACAAACAGTCG
1 AAAAATCGAAAACAAACAGTAG
*
4430844 -AAAATCGAAAACAAAGAG-AG
1 AAAAATCGAAAACAAACAGTAG
4430864 AAAAA
1 AAAAA
4430869 AAATAATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.64, C:0.13, G:0.15, T:0.09
Consensus pattern (22 bp):
AAAAATCGAAAACAAACAGTAG
Found at i:4434665 original size:12 final size:12
Alignment explanation
Indices: 4434648--4434672 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4434638 CAGAAAAATA
4434648 CCCCAAATAAAG
1 CCCCAAATAAAG
4434660 CCCCAAATAAAG
1 CCCCAAATAAAG
4434672 C
1 C
4434673 TTTAAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.36, G:0.08, T:0.08
Consensus pattern (12 bp):
CCCCAAATAAAG
Found at i:4437244 original size:16 final size:15
Alignment explanation
Indices: 4437209--4437244 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
4437199 CAAAATCAAG
4437209 ATTTTTACAACATCC
1 ATTTTTACAACATCC
* *
4437224 ATTTTTACAATATTC
1 ATTTTTACAACATCC
4437239 ATTTTT
1 ATTTTT
4437245 CTTTAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTTTACAACATCC
Found at i:4440972 original size:16 final size:15
Alignment explanation
Indices: 4440937--4440972 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
4440927 CAAAATCAAG
4440937 ATTTTTACAACATCC
1 ATTTTTACAACATCC
* *
4440952 ATTTTTACAATATTC
1 ATTTTTACAACATCC
4440967 ATTTTT
1 ATTTTT
4440973 CTTTAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTTTACAACATCC
Found at i:4443815 original size:15 final size:15
Alignment explanation
Indices: 4443790--4443824 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
4443780 GACTCTATTT
*
4443790 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
4443804 TAATTAATATTAAGA
1 TAATTAATATTAAGA
4443819 TAATTA
1 TAATTA
4443825 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:4448913 original size:56 final size:56
Alignment explanation
Indices: 4448775--4448927 Score: 161
Period size: 56 Copynumber: 2.7 Consensus size: 56
4448765 TTCCCAATTT
* *
4448775 ATATGTATACATACTTATACATATATTCTTTATATTCTATATACATTTTTATTTCCAT
1 ATATATATACATACTTATACATATA-T-TTTATATTCTATATACATTTTTATTTCCAG
** * *
4448833 ATATATATACATACGCACT-CATATATTTT-TGTT-TATATACATCTTTCTATTTTCACG
1 ATATATATACATACTTA-TACATATATTTTATATTCTATATACAT-TTT-TATTTCCA-G
*
4448890 A-ATATATACATACTTATATATATATTTTATATTCTATA
1 ATATATATACATACTTATACATATATTTTATATTCTATA
4448928 ATTTTTATGT
Statistics
Matches: 78, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
54 9 0.12
55 7 0.09
56 32 0.41
57 5 0.06
58 24 0.31
59 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.03, T:0.50
Consensus pattern (56 bp):
ATATATATACATACTTATACATATATTTTATATTCTATATACATTTTTATTTCCAG
Found at i:4452572 original size:8 final size:7
Alignment explanation
Indices: 4452541--4452573 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
4452531 GTGGAGGCAA
4452541 AAAAACC
1 AAAAACC
4452548 AAAAACC
1 AAAAACC
4452555 AAAAACC
1 AAAAACC
4452562 AAAAACAC
1 AAAAAC-C
4452570 AAAA
1 AAAA
4452574 CTAAAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 20 0.80
8 5 0.20
ACGTcount: A:0.76, C:0.24, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAACC
Found at i:4452613 original size:7 final size:7
Alignment explanation
Indices: 4452540--4452615 Score: 50
Period size: 7 Copynumber: 10.9 Consensus size: 7
4452530 AGTGGAGGCA
4452540 AAAAAAC
1 AAAAAAC
*
4452547 CAAAAAC
1 AAAAAAC
*
4452554 CAAAAAC
1 AAAAAAC
*
4452561 CAAAAAC
1 AAAAAAC
*
4452568 ACAAAAC
1 AAAAAAC
*
4452575 TAAAATA-
1 -AAAAAAC
*
4452582 AAAGAAC
1 AAAAAAC
4452589 AAAATAGAC
1 AAAA-A-AC
4452598 -AAAAA-
1 AAAAAAC
4452603 AAAAAAC
1 AAAAAAC
4452610 AAAAAA
1 AAAAAA
4452616 AACCTCTACT
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
6 10 0.18
7 35 0.64
8 8 0.15
9 2 0.04
ACGTcount: A:0.78, C:0.16, G:0.03, T:0.04
Consensus pattern (7 bp):
AAAAAAC
Found at i:4453445 original size:45 final size:45
Alignment explanation
Indices: 4453392--4453478 Score: 131
Period size: 45 Copynumber: 1.9 Consensus size: 45
4453382 TTTATTTATT
4453392 TTTTGTATTTT-GACAAAATACGCCATCTTGATTAATTTATTCTCA
1 TTTTGTATTTTAG-CAAAATACGCCATCTTGATTAATTTATTCTCA
** *
4453437 TTTTGTATTTTAGCAAAATTTGCTATCTTGATTAATTTATTC
1 TTTTGTATTTTAGCAAAATACGCCATCTTGATTAATTTATTC
4453479 ATTTAGAGCT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
45 37 0.97
46 1 0.03
ACGTcount: A:0.28, C:0.13, G:0.09, T:0.51
Consensus pattern (45 bp):
TTTTGTATTTTAGCAAAATACGCCATCTTGATTAATTTATTCTCA
Found at i:4453637 original size:108 final size:108
Alignment explanation
Indices: 4453448--4453643 Score: 293
Period size: 108 Copynumber: 1.8 Consensus size: 108
4453438 TTTGTATTTT
*
4453448 AGCAAAATTTGCTATCTTGATTAATTTATTCATTTAGAGCTTTGCTCTCAACAAATTTTCATCTT
1 AGCAAAATTTGCTATCTTGATTAATTTATTCATTTAGAGCTTTGCTCTCAACAAAATTTCATCTT
*
4453513 ATCTATTATGATAATCTTTTTCATCTTATACATCTCGTATCTC
66 ATCCATTATGATAATCTTTTTCATCTTATACATCTCGTATCTC
* * ** * * *
4453556 AGCAAAATTTGCTATCTTGATTGATTTGTTTGTTTAGAGCTTTTCTTTCAACAAAATTTCATTTT
1 AGCAAAATTTGCTATCTTGATTAATTTATTCATTTAGAGCTTTGCTCTCAACAAAATTTCATCTT
* *
4453621 GTCCATTTTGATAATCTTTTTCA
66 ATCCATTATGATAATCTTTTTCA
4453644 AGCATTTTTC
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
108 77 1.00
ACGTcount: A:0.27, C:0.16, G:0.09, T:0.48
Consensus pattern (108 bp):
AGCAAAATTTGCTATCTTGATTAATTTATTCATTTAGAGCTTTGCTCTCAACAAAATTTCATCTT
ATCCATTATGATAATCTTTTTCATCTTATACATCTCGTATCTC
Found at i:4454210 original size:44 final size:43
Alignment explanation
Indices: 4454162--4454922 Score: 409
Period size: 44 Copynumber: 17.3 Consensus size: 43
4454152 GTATTGACGT
* * *
4454162 GAAGTAGATCGAAGATTATAAGTCCTGTCTTCTTATATTGGTAG
1 GAAGTAGATCGAAGA-TACAAGTCTTGTCTTCCTATATTGGTAG
* * *
4454206 GAAGTGGATCGAAGATGCAGGTCTTGTCTTCCTATATTGGTAG
1 GAAGTAGATCGAAGATACAAGTCTTGTCTTCCTATATTGGTAG
* * * * * *
4454249 GAAGTGGATCGAGGAAAGC-AGATCTTGTCTTCATGTATTGG-CG
1 GAAGTAGATCGAAGATA-CAAG-TCTTGTCTTCCTATATTGGTAG
** * *
4454292 TGAAGTAGATCGAAGATGGTAGGTCCTGTCTTCCTATATTGGTAG
1 -GAAGTAGATCGAAGAT-ACAAGTCTTGTCTTCCTATATTGGTAG
* * * * * * *
4454337 AAAGTGGATTGAAGATGC-AGATCTTGTCTTCCCATACTGGTGG
1 GAAGTAGATCGAAGATACAAG-TCTTGTCTTCCTATATTGGTAG
* * * *
4454380 TGAAGTAGATCGAAGAAAGC-AGATCTTGTCTTCATGTATTGG-CG
1 -GAAGTAGATCGAAGATA-CAAG-TCTTGTCTTCCTATATTGGTAG
** * *
4454424 TGAAGTAGATCGAAGATGGTAGGTCCTGTCTTCCTATATTGGTAG
1 -GAAGTAGATCGAAGAT-ACAAGTCTTGTCTTCCTATATTGGTAG
* * * * *
4454469 GAAATGGATCGAAGATGCAGGTCATGTCTTCCTATATTGGTAG
1 GAAGTAGATCGAAGATACAAGTCTTGTCTTCCTATATTGGTAG
* * * * * *
4454512 GAAGTAGATCAAAGAAAGCAAATCTTGTCTTCATGTATTGG-CG
1 GAAGTAGATCGAAGATA-CAAGTCTTGTCTTCCTATATTGGTAG
** * * *
4454555 TGAAGTAGATCGTTGATAGCAGGTCCTGTCTTCTTATATTGGTAG
1 -GAAGTAGATCGAAGATA-CAAGTCTTGTCTTCCTATATTGGTAG
* * * *
4454600 GAAGTGGATCGAAAATAC-AGATCTTGTCTTCCTATACTGGTGG
1 GAAGTAGATCGAAGATACAAG-TCTTGTCTTCCTATATTGGTAG
* * * * * *
4454643 CGAAGTAGATCAAAGAAAGC-AGATCCTGTCTTCATGTATTGG-CG
1 -GAAGTAGATCGAAGATA-CAAG-TCTTGTCTTCCTATATTGGTAG
* ** * *
4454687 TGAAGTAGATCGAAAATGGTAGGTCCTT-TCTTCTTATATTGGTAG
1 -GAAGTAGATCGAAGAT-ACAAGT-CTTGTCTTCCTATATTGGTAG
* * * * * *
4454732 GAAGT-GTATCGAATATGCAAATCTTGTCTTCCCATACTGGTGG
1 GAAGTAG-ATCGAAGATACAAGTCTTGTCTTCCTATATTGGTAG
* * * *
4454775 CGAAGTAGATCAAAGAAAGC-AGATCTTGTCTTCATGTATTGGCGTA-
1 -GAAGTAGATCGAAGATA-CAAG-TCTTGTCTTCCTATATT-G-GTAG
* * *
4454821 -AAGTAGATCGAAGATAGCAGGCCCTGTCTTCCTATATTGGTAG
1 GAAGTAGATCGAAGATA-CAAGTCTTGTCTTCCTATATTGGTAG
* * * * * *
4454864 GAAGTGGATCGAAGATGCATA-TATTGTCTTCCCATACTGGTGG
1 GAAGTAGATCGAAGATACA-AGTCTTGTCTTCCTATATTGGTAG
*
4454907 CGAAGTGGATCGAAGA
1 -GAAGTAGATCGAAGA
4454923 AAACAGATCT
Statistics
Matches: 544, Mismatches: 138, Indels: 70
0.72 0.18 0.09
Matches are distributed among these distances:
42 8 0.01
43 151 0.28
44 319 0.59
45 63 0.12
46 1 0.00
47 2 0.00
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.31
Consensus pattern (43 bp):
GAAGTAGATCGAAGATACAAGTCTTGTCTTCCTATATTGGTAG
Found at i:4454439 original size:132 final size:132
Alignment explanation
Indices: 4454132--4454933 Score: 1167
Period size: 132 Copynumber: 6.1 Consensus size: 132
4454122 TGAAGACATT
* ** * *
4454132 AAAGCAGATCTTGTCTTCATGTATTGACGTGAAGTAGATCGAAGATTATAAGTCCTGTCTTCTTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGGTAGGTCCTGTCTTCCTA
* * * * * *
4454197 TATTGGTAGGAAGTGGATCGAAGATGCAGGTCTTGTCTTCCTATATTGGTAG-GAAGTGGATCGA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAA
*
4454261 GG
131 AG
4454263 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGGTAGGTCCTGTCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGGTAGGTCCTGTCTTCCTA
* * * *
4454328 TATTGGTAGAAAGTGGATTGAAGATGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAA
4454393 AG
131 AG
4454395 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGGTAGGTCCTGTCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGGTAGGTCCTGTCTTCCTA
* * * * * *
4454460 TATTGGTAGGAAATGGATCGAAGATGCAGGTCATGTCTTCCTATATTGGTAG-GAAGTAGATCAA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAA
4454524 AG
131 AG
* ** * * *
4454526 AAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGTTGATAGCAGGTCCTGTCTTCTTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGGTAGGTCCTGTCTTCCTA
* * *
4454591 TATTGGTAGGAAGTGGATCGAAAATACAGATCTTGTCTTCCTATACTGGTGGCGAAGTAGATCAA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAA
4454656 AG
131 AG
* * * *
4454658 AAAGCAGATCCTGTCTTCATGTATTGGCGTGAAGTAGATCGAAAATGGTAGGTCCTTTCTTCTTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGGTAGGTCCTGTCTTCCTA
* * *
4454723 TATTGGTAGGAAGTGTATCGAATATGCAAATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAA
4454788 AG
131 AG
* * * *
4454790 AAAGCAGATCTTGTCTTCATGTATTGGCGTAAAGTAGATCGAAGATAGCAGGCCCTGTCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGGTAGGTCCTGTCTTCCTA
* * * *
4454855 TATTGGTAGGAAGTGGATCGAAGATGCATATATTGTCTTCCCATACTGGTGGCGAAGTGGATCGA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAA
4454920 AG
131 AG
*
4454922 AAAACAGATCTT
1 AAAGCAGATCTT
4454934 ATCTCTCTGA
Statistics
Matches: 606, Mismatches: 63, Indels: 3
0.90 0.09 0.00
Matches are distributed among these distances:
131 223 0.37
132 383 0.63
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (132 bp):
AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGGTAGGTCCTGTCTTCCTA
TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAA
AG
Found at i:4454599 original size:263 final size:263
Alignment explanation
Indices: 4454132--4454933 Score: 1244
Period size: 263 Copynumber: 3.0 Consensus size: 263
4454122 TGAAGACATT
* ** *
4454132 AAAGCAGATCTTGTCTTCATGTATTGACGTGAAGTAGATCGAAGATTATAAGTCCTGTCTTCTTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGGTAGGTCCTGTCTTCTTA
* * *
4454197 TATTGGTAGGAAGTGGATCGAAGATGCAGGTCTTGTCTTCCTATATTGGTAGGAAGTGGATCGAG
66 TATTGGTAGGAAGTGGATCGAAGATGCAGGTCTTGTCTTCCTATATTGGTAGGAAGTAGATCAAA
* *
4454262 GAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGGTAGGTCCTGTCTTCCT
131 GAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCT
* * *
4454327 ATATTGGTAGAAAGTGGATTGAAGATGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCG
196 ATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCG
4454392 AAG
261 AAG
*
4454395 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGGTAGGTCCTGTCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGGTAGGTCCTGTCTTCTTA
* *
4454460 TATTGGTAGGAAATGGATCGAAGATGCAGGTCATGTCTTCCTATATTGGTAGGAAGTAGATCAAA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGGTCTTGTCTTCCTATATTGGTAGGAAGTAGATCAAA
* ** *
4454525 GAAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGTTGATAGCAGGTCCTGTCTTCTT
131 GAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCT
* * * *
4454590 ATATTGGTAGGAAGTGGATCGAAAATACAGATCTTGTCTTCCTATACTGGTGGCGAAGTAGATCA
196 ATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCG
4454655 AAG
261 AAG
* * *
4454658 AAAGCAGATCCTGTCTTCATGTATTGGCGTGAAGTAGATCGAAAATGGTAGGTCCTTTCTTCTTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGGTAGGTCCTGTCTTCTTA
* * ** * * *
4454723 TATTGGTAGGAAGTGTATCGAATATGCAAATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGGTCTTGTCTTCCTATATTGGTAG-GAAGTAGATCAA
* *
4454788 AGAAAGCAGATCTTGTCTTCATGTATTGGCGTAAAGTAGATCGAAGATAGCAGGCCCTGTCTTCC
130 AGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCC
* * *
4454853 TATATTGGTAGGAAGTGGATCGAAGATGCATATATTGTCTTCCCATACTGGTGGCGAAGTGGATC
195 TATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC
4454918 GAAG
260 GAAG
*
4454922 AAAACAGATCTT
1 AAAGCAGATCTT
4454934 ATCTCTCTGA
Statistics
Matches: 487, Mismatches: 51, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
263 344 0.71
264 143 0.29
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (263 bp):
AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGGTAGGTCCTGTCTTCTTA
TATTGGTAGGAAGTGGATCGAAGATGCAGGTCTTGTCTTCCTATATTGGTAGGAAGTAGATCAAA
GAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCT
ATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCG
AAG
Found at i:4455080 original size:50 final size:50
Alignment explanation
Indices: 4455019--4455278 Score: 173
Period size: 50 Copynumber: 5.2 Consensus size: 50
4455009 TACGATGGCA
* *
4455019 AATCTTGCTTCCCCGACATTGCAATTTAAAAGATTGAAGCCACAACGGCG
1 AATCTTACTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGCG
* * * ***** * * * *
4455069 AATCTTACTTCCCAGGCGA-TGCAGTGGGGCAGATTAAAGCTACGATGGCG
1 AATCTTACTTCCCCGAC-ATTGCAATTAAAAAGATTGAAGCCACAACGGCG
* * * * *
4455119 AATCTTGCTTCCTCAACATTGCAATTAAAAAGATTGAAGCCGCAACGGTG
1 AATCTTACTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGCG
** **** * ** * *
4455169 AATCTTACTTCCTTGGTGGTGC-AGTAGATCAGATTGAAGCTACGACGGCG
1 AATCTTACTTCCCCGACATTGCAATTA-AAAAGATTGAAGCCACAACGGCG
* * * * *
4455219 AATCTTGCTTCCCTGACATTGCAATTAAAAAGATTGAAGCCGCAATGGTG
1 AATCTTACTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGCG
4455269 AATCTTACTT
1 AATCTTACTT
4455279 TCCTGGTGGT
Statistics
Matches: 147, Mismatches: 59, Indels: 8
0.69 0.28 0.04
Matches are distributed among these distances:
49 4 0.03
50 139 0.95
51 4 0.03
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (50 bp):
AATCTTACTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGCG
Found at i:4455156 original size:100 final size:100
Alignment explanation
Indices: 4454981--4455352 Score: 476
Period size: 100 Copynumber: 3.7 Consensus size: 100
4454971 CCTTATCTCT
* * *
4454981 CTGGCGATGCAGTGGGGCAGATTAAAGCTACGATGGCAAATCTTGCTTCCCCGACATTGCAATTT
1 CTGGCGATGCAGTGGAGCAGATTAAAGCTACGATGGCGAATCTTGCTTCCCCGACATTGCAATTA
* *
4455046 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCC
66 AAAAGATTGAAGCCGCAACGGTGAATCTTACTTCC
* * * *
4455081 CAGGCGATGCAGTGGGGCAGATTAAAGCTACGATGGCGAATCTTGCTTCCTCAACATTGCAATTA
1 CTGGCGATGCAGTGGAGCAGATTAAAGCTACGATGGCGAATCTTGCTTCCCCGACATTGCAATTA
4455146 AAAAGATTGAAGCCGCAACGGTGAATCTTACTTCC
66 AAAAGATTGAAGCCGCAACGGTGAATCTTACTTCC
* * * * * * * *
4455181 TTGGTGGTGCAGTAGATCAGATTGAAGCTACGACGGCGAATCTTGCTTCCCTGACATTGCAATTA
1 CTGGCGATGCAGTGGAGCAGATTAAAGCTACGATGGCGAATCTTGCTTCCCCGACATTGCAATTA
* *
4455246 AAAAGATTGAAGCCGCAATGGTGAATCTTACTTTC
66 AAAAGATTGAAGCCGCAACGGTGAATCTTACTTCC
* * * * * * * * *
4455281 CTGGTGGTACAGTGGAACTGATTGAAGCTACAATGGCGAATCGTGC-TCCCCGACATTACAATTA
1 CTGGCGATGCAGTGGAGCAGATTAAAGCTACGATGGCGAATCTTGCTTCCCCGACATTGCAATTA
*
4455345 AAAGGATT
66 AAAAGATT
4455353 AAAACCACCG
Statistics
Matches: 240, Mismatches: 32, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
99 23 0.10
100 217 0.90
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (100 bp):
CTGGCGATGCAGTGGAGCAGATTAAAGCTACGATGGCGAATCTTGCTTCCCCGACATTGCAATTA
AAAAGATTGAAGCCGCAACGGTGAATCTTACTTCC
Found at i:4455530 original size:132 final size:132
Alignment explanation
Indices: 4455362--4455659 Score: 366
Period size: 132 Copynumber: 2.3 Consensus size: 132
4455352 TAAAACCACC
* * *
4455362 GATCTTATCTCCGTAAGCAGTAGTGGAGTAGATCGAAGATGGC-GTATTTTACCTCCCTAAGATT
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAG-ATTTTACCTCACTAAGATT
* * * ** * **** *
4455426 ACAGTGGAGTACATTGAAGCTAGTAGT-TCTATCTCCCTGGGCAGCAGTGGAATAGGTTGAAGAT
65 ACAGTGGAGTACATTAAAGCCAGCAGTCT-TATCTCCCTAAGCAGCAGTGGAACAGACAAAAGAA
**
4455490 TGTA
129 ACTA
* * *
4455494 GATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGATGGCAGATTTTACCTCATTGAGATTA
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCACTAAGATTA
* *
4455559 CAGTGGAGTACATTAAAGCCAGCAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAAC
66 CAGTGGAGTACATTAAAGCCAGCAGTCTTATCTCCCTAAGCAGCAGTGGAACAGACAAAAGAAAC
4455624 TA
131 TA
*
4455626 GATCTTATCTCCCTAAGTAGTAGTGGAGCAGATC
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
4455660 ACATCAAGTC
Statistics
Matches: 141, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
132 139 0.99
133 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (132 bp):
GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCACTAAGATTA
CAGTGGAGTACATTAAAGCCAGCAGTCTTATCTCCCTAAGCAGCAGTGGAACAGACAAAAGAAAC
TA
Found at i:4455532 original size:44 final size:44
Alignment explanation
Indices: 4455362--4455871 Score: 251
Period size: 44 Copynumber: 11.8 Consensus size: 44
4455352 TAAAACCACC
* * *
4455362 GATCTTATCTCCGTAAGCAGTAGTGGAGTAGATCGAAGATGGC-
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTGCA
* * * * * * * * *
4455405 GTATTTTACCTCCCTAAG-ATTACAGTGGAGTACATTGAAGCTAGTA
1 G-ATCTTATCTCCCTAAGCAGT--AGTGGAGCAGATCGAAGATTGCA
* ** * ** * * *
4455451 GTTC-TATCTCCCTGGGCAGCAGTGGAATAGGTTGAAGATTGTA
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTGCA
* *
4455494 GATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGATGGCA
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTGCA
* * ** * * * * ** ***
4455538 GATTTTACCTCATTGAG-ATTACAGTGGAGTACATTAAAGCCAGCA
1 GATCTTATCTCCCTAAGCAGT--AGTGGAGCAGATCGAAGATTGCA
* **
4455583 G-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAAAAGA-AACTA
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GAAGATTGC-A
* *
4455626 GATCTTATCTCCCTAAGTAGTAGTGGAGCAGATC--ACA-T-CA
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTGCA
***
4455666 -AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAAACA
1 GA-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG-AAGATTGCA
*
4455710 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC--ACA-T-CA
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTGCA
* * ***
4455750 -AGTTTTATCCCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACCACA
1 GA-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG-AAG--ATTGCA
* *
4455796 GATCTTATCTCCCTAAGCAGTAGTAGAGCAGATC---GCTT-CA
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTGCA
4455836 -AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAA
1 GA-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA
4455872 AGAAAACCAA
Statistics
Matches: 358, Mismatches: 74, Indels: 71
0.71 0.15 0.14
Matches are distributed among these distances:
39 6 0.02
40 91 0.25
41 1 0.00
42 9 0.03
43 42 0.12
44 137 0.38
45 40 0.11
46 30 0.08
47 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.25
Consensus pattern (44 bp):
GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTGCA
Found at i:4455673 original size:40 final size:40
Alignment explanation
Indices: 4455582--4455868 Score: 274
Period size: 40 Copynumber: 6.8 Consensus size: 40
4455572 TAAAGCCAGC
* * *
4455582 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACT
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGAC--AA-CATCA
*
4455625 AGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATC-ACATCA
1 AG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAACATCA
* **
4455666 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAAA
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGAC--AACATCA
4455708 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-ACATCA
1 -AG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAACATCA
* * * *
4455750 AGTTTTATCCCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCA
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGAC---A-ACATCA
* * *
4455794 CAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATC-GCTTCA
1 -AG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAACATCA
4455836 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGAC
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGAC
4455869 GAAAGAAAAC
Statistics
Matches: 205, Mismatches: 23, Indels: 36
0.78 0.09 0.14
Matches are distributed among these distances:
39 3 0.01
40 86 0.42
41 8 0.04
42 9 0.04
43 4 0.02
44 63 0.31
45 4 0.02
46 27 0.13
47 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (40 bp):
AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAACATCA
Found at i:4455690 original size:84 final size:85
Alignment explanation
Indices: 4455582--4455893 Score: 504
Period size: 84 Copynumber: 3.7 Consensus size: 85
4455572 TAAAGCCAGC
* * *
4455582 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAG-AAACTAGATCTTATCTCCCTAAGTAG
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAAACCAGATCTTATCTCCCTAAGCAG
4455646 TAGTGGAGCAGATCACATCA
66 TAGTGGAGCAGATCACATCA
4455666 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAAA-CAGATCTTATCTCCCTAAGCAG
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAAACCAGATCTTATCTCCCTAAGCAG
4455730 TAGTGGAGCAGATCACATCA
66 TAGTGGAGCAGATCACATCA
* * *
4455750 AGTTTTATCCCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCACAGATCTTATCTCCCTAAGCA
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAAAC-CAGATCTTATCTCCCTAAGCA
* * *
4455815 GTAGTAGAGCAGATCGCTTCA
65 GTAGTGGAGCAGATCACATCA
*
4455836 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAAACCA-ATCCTATCTCCCT
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAAACCAGATCTTATCTCCCT
4455894 GAACTTGCAG
Statistics
Matches: 212, Mismatches: 13, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
84 128 0.60
85 5 0.02
86 79 0.37
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (85 bp):
AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAAACCAGATCTTATCTCCCTAAGCAG
TAGTGGAGCAGATCACATCA
Found at i:4455839 original size:170 final size:168
Alignment explanation
Indices: 4455586--4455893 Score: 510
Period size: 170 Copynumber: 1.8 Consensus size: 168
4455576 GCCAGCAGTC
* * * *
4455586 TTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACTAGATCTTATCTCCCTAAGTAGTAGTG
1 TTATCCCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTA
*
4455651 GAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAAA-CAGATCT
66 GAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAAACCA-ATCC
4455715 TATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTT
130 TATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTT
*
4455754 TTATCCCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCACAGATCTTATCTCCCTAAGCAGTAG
1 TTATCCCCCTAAGCAGTAGTGGAGCAGACAAAAGAAA-C-CAGATCTTATCTCCCTAAGCAGTAG
* *
4455819 TAGAGCAGATCGCTTCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAAACCAATC
64 TAGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAAACCAATC
4455884 CTATCTCCCT
129 CTATCTCCCT
4455894 GAACTTGCAG
Statistics
Matches: 129, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
168 35 0.27
169 1 0.01
170 91 0.71
171 2 0.02
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (168 bp):
TTATCCCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTA
GAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAAACCAATCCT
ATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTT
Found at i:4459157 original size:5 final size:5
Alignment explanation
Indices: 4459138--4459184 Score: 53
Period size: 5 Copynumber: 9.6 Consensus size: 5
4459128 GCAACCCAAT
* *
4459138 TTTTA TTTT- TATTTA TTTTA TTTTA TTTTA TTTT- CTTTA ATTTA TTT
1 TTTTA TTTTA T-TTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT
4459185 ATTACTTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
4 4 0.11
5 31 0.86
6 1 0.03
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:4459401 original size:22 final size:22
Alignment explanation
Indices: 4459373--4459422 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
4459363 GCCCAGAATG
* *
4459373 CCTGCAGCCAAACTACCC-TATT
1 CCTGCAGCC-AACCACCCTTATC
4459395 CCTGCAGCCAACCACCCTTATC
1 CCTGCAGCCAACCACCCTTATC
4459417 CCTGCA
1 CCTGCA
4459423 CCTAAGCACC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.24, C:0.46, G:0.10, T:0.20
Consensus pattern (22 bp):
CCTGCAGCCAACCACCCTTATC
Found at i:4460556 original size:101 final size:101
Alignment explanation
Indices: 4460367--4460556 Score: 249
Period size: 101 Copynumber: 1.9 Consensus size: 101
4460357 AAGAACATGT
* * *
4460367 TGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCTCGTCAAAAGGTTCGATGTG
1 TGGGCTGAGTAACCGGAGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCGATATG
* * *
4460432 TTCTTAAGAAAAAATTATAATAAACTAGGAGTCTGC
66 TCCTAAAGAAAAAATAATAATAAACTAGGAGTCTGC
* * *
4460468 TGGGTTGAGTAACCGGAGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTTAAAAGGTTCAGTATA
1 TGGGCTGAGTAACCGGAGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTC-G-ATA
* *
4460533 T-TCCTAAAGCATAAATAAT-ATAAA
64 TGTCCTAAAGAAAAAATAATAATAAA
4460557 TAATAAATAA
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
101 59 0.78
102 14 0.18
103 3 0.04
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (101 bp):
TGGGCTGAGTAACCGGAGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCGATATG
TCCTAAAGAAAAAATAATAATAAACTAGGAGTCTGC
Found at i:4461193 original size:15 final size:15
Alignment explanation
Indices: 4461173--4461202 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4461163 TATTTTAACT
*
4461173 ATATTAGGATAATTA
1 ATATTAAGATAATTA
4461188 ATATTAAGATAATTA
1 ATATTAAGATAATTA
4461203 TTAAGGATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:4462551 original size:30 final size:31
Alignment explanation
Indices: 4462515--4462574 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
4462505 CTTATTATGA
4462515 AAAGTCAAAGATAT-GAGTATC-AAATATTGG
1 AAAGTCAAAGATATAG-GTATCGAAATATTGG
4462545 AAAGTCAAAGATATAGGTATCGAAATATTG
1 AAAGTCAAAGATATAGGTATCGAAATATTG
4462575 ACATAAGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 19 0.68
31 9 0.32
ACGTcount: A:0.47, C:0.07, G:0.20, T:0.27
Consensus pattern (31 bp):
AAAGTCAAAGATATAGGTATCGAAATATTGG
Found at i:4467145 original size:30 final size:31
Alignment explanation
Indices: 4467111--4467174 Score: 112
Period size: 30 Copynumber: 2.1 Consensus size: 31
4467101 ATCCATATTA
*
4467111 TGGAAAGTCAAAGATATGGGTATC-AAATAT
1 TGGAAAGTCAAAGATATGAGTATCGAAATAT
4467141 TGGAAAGTCAAAGATATGAGTATCGAAATAT
1 TGGAAAGTCAAAGATATGAGTATCGAAATAT
4467172 TGG
1 TGG
4467175 CATAAGAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 23 0.72
31 9 0.28
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.27
Consensus pattern (31 bp):
TGGAAAGTCAAAGATATGAGTATCGAAATAT
Found at i:4467151 original size:15 final size:16
Alignment explanation
Indices: 4467109--4467158 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 16
4467099 TCATCCATAT
4467109 TATGGAAAGTCAAAGA
1 TATGGAAAGTCAAAGA
** *
4467125 TATGGGTA-TCAAATA
1 TATGGAAAGTCAAAGA
4467140 T-TGGAAAGTCAAAGA
1 TATGGAAAGTCAAAGA
4467155 TATG
1 TATG
4467159 AGTATCGAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
14 4 0.15
15 14 0.54
16 8 0.31
ACGTcount: A:0.44, C:0.06, G:0.24, T:0.26
Consensus pattern (16 bp):
TATGGAAAGTCAAAGA
Found at i:4468116 original size:14 final size:14
Alignment explanation
Indices: 4468097--4468124 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4468087 GAAAAGTTGT
4468097 GCAGAACAAGCTGC
1 GCAGAACAAGCTGC
4468111 GCAGAACAAGCTGC
1 GCAGAACAAGCTGC
4468125 TTTTAGCTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.29, G:0.29, T:0.07
Consensus pattern (14 bp):
GCAGAACAAGCTGC
Found at i:4468670 original size:13 final size:13
Alignment explanation
Indices: 4468616--4468681 Score: 71
Period size: 13 Copynumber: 5.1 Consensus size: 13
4468606 TTTAAACCAA
4468616 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
4468629 A-TTTCTCAAAAGC
1 ACTTT-TCAAAAGC
* * * *
4468642 ACATTTCTAGATC
1 ACTTTTCAAAAGC
*
4468655 ACTTTTCAAAAAC
1 ACTTTTCAAAAGC
4468668 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
4468681 A
1 A
4468682 TTGCCAAACT
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
12 3 0.07
13 37 0.88
14 2 0.05
ACGTcount: A:0.39, C:0.23, G:0.06, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:4472919 original size:29 final size:29
Alignment explanation
Indices: 4472877--4472949 Score: 119
Period size: 29 Copynumber: 2.5 Consensus size: 29
4472867 CTACACTTGG
*
4472877 AACAAAATGTAAGAAATCCATTTGCATTA
1 AACAAAATGTAAGAAATCCATGTGCATTA
* *
4472906 AACAAAATGTAAGAAATCTATGTGTATTA
1 AACAAAATGTAAGAAATCCATGTGCATTA
4472935 AACAAAATGTAAGAA
1 AACAAAATGTAAGAA
4472950 CACATGTGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.52, C:0.10, G:0.12, T:0.26
Consensus pattern (29 bp):
AACAAAATGTAAGAAATCCATGTGCATTA
Done.