Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 132 of 145
Found at i:44211624 original size:15 final size:15
Alignment explanation
Indices: 44211604--44211640 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
44211594 CTGCTTACAA
44211604 GGACTTGTAATTCAT
1 GGACTTGTAATTCAT
44211619 GGACTTGTAATTCAT
1 GGACTTGTAATTCAT
44211634 GGACTTG
1 GGACTTG
44211641 ATCCATGATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.38
Consensus pattern (15 bp):
GGACTTGTAATTCAT
Found at i:44212548 original size:56 final size:55
Alignment explanation
Indices: 44212462--44212568 Score: 169
Period size: 56 Copynumber: 1.9 Consensus size: 55
44212452 TATTCATTGA
* *
44212462 ATGATAAATCATCAATTTTAATTTGAATAGTGTTTATGAACAATTAAATTTGTAAG
1 ATGATAAATCATCAATTTTAATTTGAATAGTGCTCATGAACAATT-AATTTGTAAG
* *
44212518 ATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTG
1 ATGATAAATCATCAATTTTAATTTGAATAGTGCTCATGAACAATTAATTTG
44212569 CAATATATAA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
55 6 0.13
56 41 0.87
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.41
Consensus pattern (55 bp):
ATGATAAATCATCAATTTTAATTTGAATAGTGCTCATGAACAATTAATTTGTAAG
Found at i:44213594 original size:13 final size:14
Alignment explanation
Indices: 44213568--44213600 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
44213558 CTTAAAATAA
44213568 ATATATTATAAAAT
1 ATATATTATAAAAT
44213582 ATATATT-TAAAAT
1 ATATATTATAAAAT
*
44213595 AAATAT
1 ATATAT
44213601 ATGGCTTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATATTATAAAAT
Found at i:44217259 original size:29 final size:30
Alignment explanation
Indices: 44217226--44217283 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
44217216 AGAGACTAAA
* *
44217226 TTAGTCTCTATATTATT-AAATGAATCAAT
1 TTAGTCTCTACATTATTAAAAAGAATCAAT
* *
44217255 TTAGTTTTTACATTATTAAAAAGAATCAA
1 TTAGTCTCTACATTATTAAAAAGAATCAA
44217284 ACAAGTCTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (30 bp):
TTAGTCTCTACATTATTAAAAAGAATCAAT
Found at i:44217747 original size:21 final size:21
Alignment explanation
Indices: 44217723--44217762 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
44217713 ATTTTTTTAA
44217723 AAAAAT-TTATTATATCCCTAT
1 AAAAATCTTATTA-ATCCCTAT
*
44217744 AAAACTCTTATTAATCCCT
1 AAAAATCTTATTAATCCCT
44217763 TAATCCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAAATCTTATTAATCCCTAT
Found at i:44218871 original size:13 final size:13
Alignment explanation
Indices: 44218855--44218879 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44218845 TGCTTTATTG
44218855 TTTTTCTTTTTTC
1 TTTTTCTTTTTTC
44218868 TTTTTCTTTTTT
1 TTTTTCTTTTTT
44218880 TACATTTACT
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:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTCTTTTTTC
Found at i:44221857 original size:23 final size:23
Alignment explanation
Indices: 44221830--44221874 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
44221820 AAAATAACAA
44221830 ATTAAATTTTTTCTCCTGAAAAC
1 ATTAAATTTTTTCTCCTGAAAAC
*
44221853 ATTAAATTTTTTCTCTTGAAAA
1 ATTAAATTTTTTCTCCTGAAAA
44221875 AATACAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.36, C:0.13, G:0.04, T:0.47
Consensus pattern (23 bp):
ATTAAATTTTTTCTCCTGAAAAC
Found at i:44221883 original size:24 final size:23
Alignment explanation
Indices: 44221828--44221883 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
44221818 AAAAAATAAC
*
44221828 AAATTAAATTTTTTCTCCTGAAA
1 AAATCAAATTTTTTCTCCTGAAA
* * *
44221851 ACATTAAATTTTTTCTCTTGAAA
1 AAATCAAATTTTTTCTCCTGAAA
44221874 AAATACAAAT
1 AAAT-CAAAT
44221884 CCAACTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 24 0.86
24 4 0.14
ACGTcount: A:0.43, C:0.12, G:0.04, T:0.41
Consensus pattern (23 bp):
AAATCAAATTTTTTCTCCTGAAA
Found at i:44222421 original size:21 final size:22
Alignment explanation
Indices: 44222397--44222446 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
44222387 AGCAATTAAC
*
44222397 TATTTTTTAAAA-AATTTAAAA
1 TATTTTTAAAAATAATTTAAAA
* *
44222418 TA-TTTTAAAAATAATTTGATA
1 TATTTTTAAAAATAATTTAAAA
44222439 TATTTTTA
1 TATTTTTA
44222447 TAATTTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 8 0.33
21 11 0.46
22 5 0.21
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
TATTTTTAAAAATAATTTAAAA
Found at i:44224378 original size:4 final size:4
Alignment explanation
Indices: 44224369--44224941 Score: 1146
Period size: 4 Copynumber: 143.2 Consensus size: 4
44224359 TTCCCGATAT
44224369 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
44224417 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
44224465 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
44224513 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
44224561 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
44224609 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
44224657 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
44224705 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
44224753 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
44224801 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
44224849 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
44224897 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
44224942 ATGTATATAG
Statistics
Matches: 569, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 569 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:44225067 original size:2 final size:2
Alignment explanation
Indices: 44225060--44225086 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
44225050 AGCATAATGC
44225060 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
44225087 GAATAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:44244509 original size:58 final size:58
Alignment explanation
Indices: 44244398--44244511 Score: 165
Period size: 58 Copynumber: 2.0 Consensus size: 58
44244388 TTAAAAGTAG
* * * ***
44244398 AAGCCCAGAATTCAATACCCAGGTCGGTTCATATCTTAGGTATTCATGGGTAAAATCC
1 AAGCCCAAAATTCAATACCCAGGTCGGTTCATATCTCAGCTATTCAAAAGTAAAATCC
*
44244456 AAGCCCAAAATTCAATACCCAGGTCGGTTTATATCTCAGCTATTCAAAAGTAAAAT
1 AAGCCCAAAATTCAATACCCAGGTCGGTTCATATCTCAGCTATTCAAAAGTAAAAT
44244512 TTAAGTTTTA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 49 1.00
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (58 bp):
AAGCCCAAAATTCAATACCCAGGTCGGTTCATATCTCAGCTATTCAAAAGTAAAATCC
Found at i:44246217 original size:110 final size:107
Alignment explanation
Indices: 44246011--44246229 Score: 359
Period size: 110 Copynumber: 2.0 Consensus size: 107
44246001 ACTCATATTA
*
44246011 TATCATTCAGATTTCAACATTAGTGAATTTCTTCTCCATTGCCTATGGTTTTTCCCAAAAGGGTT
1 TATCATTCAGATTTCAACATTAGTGAATTTCTTCTCCA-TGCCCATGGTTTTTCCCAAAAGGGTT
44246076 TCCACGTAAAATCTATATGTTTTATTTTTCTTTTCTTATTGTT
65 TCCACGTAAAATCTATATGTTTTATTTTTCTTTTCTTATTGTT
*
44246119 TATCATTCAGTTTTCAACATTAGTGAATTTCTTCTACTCA-GCCCATGGTTTTTTTCCCAAAAGG
1 TATCATTCAGATTTCAACATTAGTGAATTTCTTCT-C-CATGCCCATGG--TTTTTCCCAAAAGG
*
44246183 GTTTCCACGTAAAATCTATGTGTTTTATTTTTCTTTTCTTATTGTT
62 GTTTCCACGTAAAATCTATATGTTTTATTTTTCTTTTCTTATTGTT
44246229 T
1 T
44246230 TACGATCATT
Statistics
Matches: 104, Mismatches: 3, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
108 41 0.39
109 1 0.01
110 62 0.60
ACGTcount: A:0.22, C:0.18, G:0.11, T:0.48
Consensus pattern (107 bp):
TATCATTCAGATTTCAACATTAGTGAATTTCTTCTCCATGCCCATGGTTTTTCCCAAAAGGGTTT
CCACGTAAAATCTATATGTTTTATTTTTCTTTTCTTATTGTT
Found at i:44248256 original size:26 final size:25
Alignment explanation
Indices: 44248220--44248427 Score: 101
Period size: 24 Copynumber: 8.4 Consensus size: 25
44248210 ACAACTTTTA
*
44248220 TGAGCGTCCCGATATATGGCTCTTCG
1 TGAGCTTCCCGAT-TATGGCTCTTCG
* * *
44248246 TGAGCTTCCCGATTAAAGGCTTTTTG
1 TGAGCTTCCCGATT-ATGGCTCTTCG
* ** *
44248272 TGAACTTCCTAATTAATGGCTCTCCG
1 TGAGCTTCCCGATT-ATGGCTCTTCG
44248298 -GAGCTTCCCGA-TATTGGCTCATT--
1 TGAGCTTCCCGATTA-TGGCTC-TTCG
* * * *
44248321 TAAACTTCCCGATATATGACTATTCG
1 TGAGCTTCCCGAT-TATGGCTCTTCG
* *
44248347 -GAACTTCCTGATTAATGGCTCTTCG
1 TGAGCTTCCCGATT-ATGGCTCTTCG
* * *
44248372 -GAGCTACCCG-TTATTGGCTCAT-A
1 TGAGCTTCCCGATTA-TGGCTCTTCG
** *
44248395 TGAGCTTCTTGATTATGGCTCTT-A
1 TGAGCTTCCCGATTATGGCTCTTCG
44248419 TGAGCTTCC
1 TGAGCTTCC
44248428 TATTATACAA
Statistics
Matches: 137, Mismatches: 33, Indels: 26
0.70 0.17 0.13
Matches are distributed among these distances:
23 2 0.01
24 51 0.37
25 43 0.31
26 41 0.30
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (25 bp):
TGAGCTTCCCGATTATGGCTCTTCG
Found at i:44248371 original size:25 final size:25
Alignment explanation
Indices: 44248226--44248391 Score: 99
Period size: 25 Copynumber: 6.6 Consensus size: 25
44248216 TTTATGAGCG
*
44248226 TCCCGA-TATATGGCTCTTCGTGAGCT
1 TCCCGATTA-ATGGCTCTTCG-GAACT
* * *
44248252 TCCCGATTAAAGGCTTTTTGTGAACT
1 TCCCGATTAATGGCTCTTCG-GAACT
** * *
44248278 TCCTAATTAATGGCTCTCCGGAGCT
1 TCCCGATTAATGGCTCTTCGGAACT
* **
44248303 TCCCGA-TATTGGCTCATT-TAAACT
1 TCCCGATTAATGGCTC-TTCGGAACT
* *
44248327 TCCCGA-TATATGACTATTCGGAACT
1 TCCCGATTA-ATGGCTCTTCGGAACT
* *
44248352 TCCTGATTAATGGCTCTTCGGAGCT
1 TCCCGATTAATGGCTCTTCGGAACT
* *
44248377 ACCCG-TTATTGGCTC
1 TCCCGATTAATGGCTC
44248392 ATATGAGCTT
Statistics
Matches: 105, Mismatches: 30, Indels: 12
0.71 0.20 0.08
Matches are distributed among these distances:
24 30 0.29
25 38 0.36
26 35 0.33
27 2 0.02
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.35
Consensus pattern (25 bp):
TCCCGATTAATGGCTCTTCGGAACT
Found at i:44248490 original size:25 final size:25
Alignment explanation
Indices: 44248418--44248490 Score: 65
Period size: 25 Copynumber: 2.9 Consensus size: 25
44248408 TATGGCTCTT
* * * * *
44248418 ATGAGCTTCCTATTATACAACCCAG
1 ATGAGCTTCCTGTTATATAGCTCAC
* * * *
44248443 ATAAGCTTCCCGTTACATGGCTCAC
1 ATGAGCTTCCTGTTATATAGCTCAC
44248468 ATGAGCTTCCTGTTATATAGCTC
1 ATGAGCTTCCTGTTATATAGCTC
44248491 GAGAGAGAGT
Statistics
Matches: 35, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (25 bp):
ATGAGCTTCCTGTTATATAGCTCAC
Found at i:44253252 original size:25 final size:25
Alignment explanation
Indices: 44253224--44253298 Score: 93
Period size: 25 Copynumber: 3.1 Consensus size: 25
44253214 TAGCGCACTT
*
44253224 TCTGATTATTAGCACGTTAGTGCTC
1 TCTGATTATTAGCACATTAGTGCTC
*
44253249 TCTGATTATTAGCACATTAGTGTTC
1 TCTGATTATTAGCACATTAGTGCTC
* *
44253274 TCTG--TA-TAGCACTTTAGTTCTC
1 TCTGATTATTAGCACATTAGTGCTC
44253296 TCT
1 TCT
44253299 ATTTAATAGT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
22 16 0.36
23 2 0.04
25 27 0.60
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.44
Consensus pattern (25 bp):
TCTGATTATTAGCACATTAGTGCTC
Found at i:44256453 original size:68 final size:68
Alignment explanation
Indices: 44256327--44256473 Score: 190
Period size: 68 Copynumber: 2.2 Consensus size: 68
44256317 TCAAAACTGC
* * * *
44256327 ACATAAACTTTGATTGAACGTGCAATTGTCACAGGGTTAGAAATCTGTGGCTCATGACACGATGC
1 ACATAAACTTTGATTGAACGTGCAATTGTCACAGGGTTAGAAATATGTGCCTCATGACACAATCC
44256392 TAT
66 TAT
* * * *
44256395 ACATGAACTTTGATTGAAC-TCGCGATTGTCACGGGGTTAGAAATATGTCGCCT-GTGACACAAT
1 ACATAAACTTTGATTGAACGT-GCAATTGTCACAGGGTTAGAAATATGT-GCCTCATGACACAAT
44256458 CCTAT
64 CCTAT
44256463 ACATAAACTTT
1 ACATAAACTTT
44256474 AGTTTTGTAT
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
67 1 0.01
68 64 0.94
69 3 0.04
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (68 bp):
ACATAAACTTTGATTGAACGTGCAATTGTCACAGGGTTAGAAATATGTGCCTCATGACACAATCC
TAT
Found at i:44257280 original size:20 final size:21
Alignment explanation
Indices: 44257245--44257286 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
44257235 ACTCAAAACA
*
44257245 ATAATATTATTTAATGCATTT
1 ATAATATTAATTAATGCATTT
*
44257266 ATAATA-TAATTAATGTATTT
1 ATAATATTAATTAATGCATTT
44257286 A
1 A
44257287 CAATGACTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (21 bp):
ATAATATTAATTAATGCATTT
Found at i:44257543 original size:16 final size:17
Alignment explanation
Indices: 44257511--44257544 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
44257501 TTTTAAATAT
44257511 TTATATATTTTCCATTAA
1 TTATATATTTT-CATTAA
44257529 TTATATATTTT-ATTAA
1 TTATATATTTTCATTAA
44257545 AAGTAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
18 11 0.69
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (17 bp):
TTATATATTTTCATTAA
Found at i:44258280 original size:18 final size:18
Alignment explanation
Indices: 44258249--44258284 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
44258239 AGAGGTAAAC
44258249 CCTTTGTTTCTTTTAATT
1 CCTTTGTTTCTTTTAATT
* *
44258267 CCTTTTTTTTTTTTAATT
1 CCTTTGTTTCTTTTAATT
44258285 TGATTTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.14, G:0.03, T:0.72
Consensus pattern (18 bp):
CCTTTGTTTCTTTTAATT
Found at i:44258711 original size:90 final size:90
Alignment explanation
Indices: 44258549--44258713 Score: 231
Period size: 90 Copynumber: 1.8 Consensus size: 90
44258539 ACCAACTAAG
* * * * *
44258549 TTAAGCCCCATGTTCATTTGATCATGTTTATATATGCATGTTTGTATGTATGCATAAATAACTTT
1 TTAAACCCCATGTTCATTTGATCATGTTTATATATACACGTGTGGATGTATGCATAAATAACTTT
44258614 CTGGATTTCAACTTTAAGTGATACT
66 CTGGATTTCAACTTTAAGTGATACT
* * * * **
44258639 TTAAACCCTATGTTCATTTGATCATGTTTATATATACGCGTGTGGATGTTTGCATATATAGTTTT
1 TTAAACCCCATGTTCATTTGATCATGTTTATATATACACGTGTGGATGTATGCATAAATAACTTT
44258704 CTGGATTTCA
66 CTGGATTTCA
44258714 TTCTTGTTTA
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
90 64 1.00
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.44
Consensus pattern (90 bp):
TTAAACCCCATGTTCATTTGATCATGTTTATATATACACGTGTGGATGTATGCATAAATAACTTT
CTGGATTTCAACTTTAAGTGATACT
Found at i:44265505 original size:38 final size:38
Alignment explanation
Indices: 44265463--44265536 Score: 148
Period size: 38 Copynumber: 1.9 Consensus size: 38
44265453 GTATAAATTT
44265463 ATACTAAAATCATATAATACCACCTTAGTAACAAACTA
1 ATACTAAAATCATATAATACCACCTTAGTAACAAACTA
44265501 ATACTAAAATCATATAATACCACCTTAGTAACAAAC
1 ATACTAAAATCATATAATACCACCTTAGTAACAAAC
44265537 AAATTGTTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.50, C:0.22, G:0.03, T:0.26
Consensus pattern (38 bp):
ATACTAAAATCATATAATACCACCTTAGTAACAAACTA
Found at i:44265619 original size:3 final size:3
Alignment explanation
Indices: 44265611--44265646 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
44265601 GTTGAAAATT
44265611 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
44265647 TATTTATAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:44265916 original size:54 final size:55
Alignment explanation
Indices: 44265852--44265976 Score: 182
Period size: 54 Copynumber: 2.3 Consensus size: 55
44265842 CCATTCTAAA
** *
44265852 TGAGAATCAAATTCCAATTATCAAAGAATCAAATTC-TATTCTAATTATCATATT-
1 TGAGAATCAAATTCCAAACATCAAAGAATCAAA-TCATATTCTAATGATCATATTC
*
44265906 TGAGAATCAAATTCCAAACATTAAAGAATCAAATCATATTCTAATGATCATATTC
1 TGAGAATCAAATTCCAAACATCAAAGAATCAAATCATATTCTAATGATCATATTC
*
44265961 TCAGAATCAAATTCCA
1 TGAGAATCAAATTCCA
44265977 TTTTAAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
53 2 0.03
54 47 0.73
55 15 0.23
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (55 bp):
TGAGAATCAAATTCCAAACATCAAAGAATCAAATCATATTCTAATGATCATATTC
Found at i:44266880 original size:7 final size:7
Alignment explanation
Indices: 44266868--44266898 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
44266858 ATAAGAACAA
44266868 ATTTATT
1 ATTTATT
44266875 ATTTATT
1 ATTTATT
44266882 ATTTATT
1 ATTTATT
44266889 ATTTATT
1 ATTTATT
44266896 ATT
1 ATT
44266899 AAAGGAAGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
ATTTATT
Found at i:44268912 original size:53 final size:54
Alignment explanation
Indices: 44268854--44268958 Score: 171
Period size: 53 Copynumber: 2.0 Consensus size: 54
44268844 GAGATTGTTA
*
44268854 AAAAAACAAAAGATAA-AAAAA-AAGTTAATTCTAATCCTTTTGTTTGT-TTTTC
1 AAAAAA-AAAAGAAAAGAAAAAGAAGTTAATTCTAATCCTTTTGTTTGTATTTTC
44268906 AAAAAAAAAAGAAAAGAAAAAGAAGTTAATTCTAATCCTTTTGTTTGTATTTT
1 AAAAAAAAAAGAAAAGAAAAAGAAGTTAATTCTAATCCTTTTGTTTGTATTTT
44268959 TTTTAAAAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
51 8 0.16
52 11 0.22
53 26 0.53
54 4 0.08
ACGTcount: A:0.48, C:0.08, G:0.10, T:0.35
Consensus pattern (54 bp):
AAAAAAAAAAGAAAAGAAAAAGAAGTTAATTCTAATCCTTTTGTTTGTATTTTC
Found at i:44271867 original size:23 final size:24
Alignment explanation
Indices: 44271841--44271919 Score: 81
Period size: 24 Copynumber: 3.2 Consensus size: 24
44271831 TAATATTGAC
44271841 ATTTTAAATTTTATTATTATA-AT
1 ATTTTAAATTTTATTATTATATAT
44271864 ATTTTTAAAATTTT-TTATTATATAT
1 A-TTTT-AAATTTTATTATTATATAT
* *
44271889 TTTTTAAATATTTATGTATTTTTATAT
1 ATTTTAAAT-TTTAT-TA-TTATATAT
44271916 ATTT
1 ATTT
44271920 CTTTAACTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
23 5 0.11
24 19 0.41
25 10 0.22
26 2 0.04
27 10 0.22
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (24 bp):
ATTTTAAATTTTATTATTATATAT
Found at i:44271869 original size:24 final size:24
Alignment explanation
Indices: 44271842--44271908 Score: 91
Period size: 23 Copynumber: 2.7 Consensus size: 24
44271832 AATATTGACA
44271842 TTTTAAATTTTATTATTATAATATT
1 TTTTAAATTTTATTATTAT-ATATT
*
44271867 TTTAAAATTTT-TTATTATATATT
1 TTTTAAATTTTATTATTATATATT
44271890 TTTTAAATATTTATGTATT
1 TTTTAAAT-TTTAT-TATT
44271909 TTTATATATT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
23 12 0.32
24 10 0.27
25 11 0.30
26 4 0.11
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (24 bp):
TTTTAAATTTTATTATTATATATT
Found at i:44272263 original size:20 final size:21
Alignment explanation
Indices: 44272238--44272322 Score: 68
Period size: 20 Copynumber: 4.0 Consensus size: 21
44272228 CTAAAGCTCA
44272238 TAAAATTTT-TTATAAAATTC
1 TAAAATTTTCTTATAAAATTC
** * *
44272258 TAAAATTTTACCAATCTAAA-GC
1 TAAAATTTT-CTTAT-AAAATTC
*
44272280 TCATAAATTTTTTTATAAAATTC
1 T-A-AAATTTTCTTATAAAATTC
44272303 TAAAATTTTCTT-TAAAATTC
1 TAAAATTTTCTTATAAAATTC
44272323 CAAACAAACA
Statistics
Matches: 49, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
20 17 0.35
21 9 0.18
22 8 0.16
23 8 0.16
24 7 0.14
ACGTcount: A:0.42, C:0.11, G:0.01, T:0.46
Consensus pattern (21 bp):
TAAAATTTTCTTATAAAATTC
Found at i:44272271 original size:45 final size:45
Alignment explanation
Indices: 44272221--44272311 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
44272211 AAAACAACCA
44272221 TACCAATCTAAAGCTCATAAAATTTTTTATAAAATTCTAAAATTT
1 TACCAATCTAAAGCTCATAAAATTTTTTATAAAATTCTAAAATTT
*
44272266 TACCAATCTAAAGCTCATAAATTTTTTTATAAAATTCTAAAATTT
1 TACCAATCTAAAGCTCATAAAATTTTTTATAAAATTCTAAAATTT
44272311 T
1 T
44272312 CTTTAAAATT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.43, C:0.13, G:0.02, T:0.42
Consensus pattern (45 bp):
TACCAATCTAAAGCTCATAAAATTTTTTATAAAATTCTAAAATTT
Found at i:44278569 original size:25 final size:25
Alignment explanation
Indices: 44278511--44278569 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 25
44278501 TCCCCATATT
* *
44278511 ATTTTTTACATTTTTATATTATTTA
1 ATTTTTTATATTTTTATATTATTAA
*
44278536 A--TTTAATATTTTTAT-TTATTAAA
1 ATTTTTTATATTTTTATATTATT-AA
44278559 ATTTTTTATAT
1 ATTTTTTATAT
44278570 AATTATTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
22 5 0.19
23 14 0.52
25 8 0.30
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (25 bp):
ATTTTTTATATTTTTATATTATTAA
Found at i:44281785 original size:11 final size:11
Alignment explanation
Indices: 44281771--44281856 Score: 53
Period size: 11 Copynumber: 8.2 Consensus size: 11
44281761 TTTTTTATTT
44281771 TTTTTCTTTCC
1 TTTTTCTTTCC
*
44281782 TTTTTTTTTCTC
1 TTTTTCTTTC-C
44281794 TTTTTTCTTT-C
1 -TTTTTCTTTCC
*
44281805 TTTGTC-TTCC
1 TTTTTCTTTCC
44281815 TTCTTT-TTT-C
1 TT-TTTCTTTCC
44281825 --TTTCTTT-C
1 TTTTTCTTTCC
*
44281833 TTTCTTCTTTCT
1 TTT-TTCTTTCC
44281845 TTTTTC-TTCC
1 TTTTTCTTTCC
44281855 TT
1 TT
44281857 CTCCGTTCAG
Statistics
Matches: 59, Mismatches: 6, Indels: 21
0.69 0.07 0.24
Matches are distributed among these distances:
7 3 0.05
8 4 0.07
9 2 0.03
10 15 0.25
11 23 0.39
12 4 0.07
13 8 0.14
ACGTcount: A:0.00, C:0.23, G:0.01, T:0.76
Consensus pattern (11 bp):
TTTTTCTTTCC
Found at i:44281788 original size:15 final size:14
Alignment explanation
Indices: 44281768--44281849 Score: 65
Period size: 15 Copynumber: 5.4 Consensus size: 14
44281758 TATTTTTTTA
44281768 TTTTTTTTCTTTCCTT
1 TTTTTTTTCTTT-C-T
*
44281784 TTTTTTTCTCTTTTT
1 TTTTTTT-TCTTTCT
*
44281799 TCTTTCTTTGTCTTCCT
1 T-TTT-TTT-TCTTTCT
*
44281816 TCTTTTTTCTTTCT
1 TTTTTTTTCTTTCT
*
44281830 TTCTTTCTTCTTTCT
1 TT-TTTTTTCTTTCT
44281845 TTTTT
1 TTTTT
44281850 CTTCCTTCTC
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
14 10 0.19
15 18 0.33
16 12 0.22
17 14 0.26
ACGTcount: A:0.00, C:0.21, G:0.01, T:0.78
Consensus pattern (14 bp):
TTTTTTTTCTTTCT
Found at i:44281804 original size:4 final size:4
Alignment explanation
Indices: 44281773--44281852 Score: 71
Period size: 4 Copynumber: 20.5 Consensus size: 4
44281763 TTTTATTTTT
* * *
44281773 TTTC TTTCC TTT- TTT- TTTC TCTTT TTTC TTTC TTTG TCTTC CTTC TTT-
1 TTTC TTT-C TTTC TTTC TTTC T-TTC TTTC TTTC TTTC T-TTC TTTC TTTC
44281821 TTTC TTTC TTTC TTTC -TTC TTTC TTT- TTTC TT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT
44281853 CCTTCTCCGT
Statistics
Matches: 63, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
3 15 0.24
4 39 0.62
5 9 0.14
ACGTcount: A:0.00, C:0.23, G:0.01, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:44281815 original size:33 final size:33
Alignment explanation
Indices: 44281760--44281838 Score: 99
Period size: 33 Copynumber: 2.4 Consensus size: 33
44281750 TGTTAATTTA
* * *
44281760 TTTTTTTATTT-TTTTTCTTTCCTTTTTTTTTC
1 TTTTTTTCTTTCTTTGTCTTTCCTTCTTTTTTC
44281792 TCTTTTTTCTTTCTTTGTC-TTCCTTCTTTTTTC
1 T-TTTTTTCTTTCTTTGTCTTTCCTTCTTTTTTC
*
44281825 TTTCTTTCTTTCTT
1 TTTTTTTCTTTCTT
44281839 CTTTCTTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
32 13 0.32
33 23 0.56
34 5 0.12
ACGTcount: A:0.01, C:0.19, G:0.01, T:0.78
Consensus pattern (33 bp):
TTTTTTTCTTTCTTTGTCTTTCCTTCTTTTTTC
Found at i:44281843 original size:7 final size:7
Alignment explanation
Indices: 44281809--44281858 Score: 55
Period size: 7 Copynumber: 7.0 Consensus size: 7
44281799 TCTTTCTTTG
*
44281809 TCTTCCT
1 TCTTTCT
*
44281816 TCTTTTT
1 TCTTTCT
44281823 TCTTTCTT
1 TCTTTC-T
44281831 TCTTTCT
1 TCTTTCT
44281838 TCTTTCT
1 TCTTTCT
*
44281845 TTTTTCT
1 TCTTTCT
*
44281852 TCCTTCT
1 TCTTTCT
44281859 CCGTTCAGCA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
7 29 0.81
8 7 0.19
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (7 bp):
TCTTTCT
Found at i:44282493 original size:30 final size:30
Alignment explanation
Indices: 44282408--44282539 Score: 103
Period size: 30 Copynumber: 4.4 Consensus size: 30
44282398 ATAGGGCTAT
* *
44282408 AATGTAATTTAT-GGAAAGTTAAGGGGTCAA
1 AATGTAATTTATAGAAAAGTT-TGGGGTCAA
* * * *
44282438 AGTGTGATTTA-A-AAAAATTTCGGGGTTAA
1 AATGTAATTTATAGAAAAGTTT-GGGGTCAA
44282467 AATGTAATTTATAGAAAAGTTTGGGGTCAA
1 AATGTAATTTATAGAAAAGTTTGGGGTCAA
* * * *
44282497 AATATAATTT-TTGAAAAGATCATGGGCT-AA
1 AATGTAATTTATAGAAAAG-T-TTGGGGTCAA
44282527 AATGTAATTTATA
1 AATGTAATTTATA
44282540 TTTTTTGTTT
Statistics
Matches: 79, Mismatches: 16, Indels: 13
0.73 0.15 0.12
Matches are distributed among these distances:
29 28 0.35
30 38 0.48
31 13 0.16
ACGTcount: A:0.41, C:0.04, G:0.21, T:0.34
Consensus pattern (30 bp):
AATGTAATTTATAGAAAAGTTTGGGGTCAA
Found at i:44283851 original size:21 final size:20
Alignment explanation
Indices: 44283825--44283884 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
44283815 TTTTTTTGCT
44283825 TTGAATCCTGAATCCCAAATC
1 TTGAATCCTGAA-CCCAAATC
* *
44283846 TTGAATCCTAAAACTCAAATC
1 TTGAATCCT-GAACCCAAATC
* *
44283867 TTAAATCATGAACCCAAA
1 TTGAATCCTGAACCCAAA
44283885 AGGTTTAAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
20 7 0.22
21 23 0.72
22 2 0.06
ACGTcount: A:0.42, C:0.25, G:0.07, T:0.27
Consensus pattern (20 bp):
TTGAATCCTGAACCCAAATC
Found at i:44285266 original size:2 final size:2
Alignment explanation
Indices: 44285259--44285285 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
44285249 CATACAACAT
44285259 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
44285286 GTAACCCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:44288150 original size:38 final size:37
Alignment explanation
Indices: 44288095--44288194 Score: 110
Period size: 38 Copynumber: 2.6 Consensus size: 37
44288085 TATTTTATTT
*
44288095 AAATTTTTTTTTGAAACACGAAAACTTTAGAAACACC
1 AAATTTTTTTTTAAAACACGAAAACTTTAGAAACACC
* ** * *
44288132 AAATTCTTTTTTTAAAACACGATATTTTTTGAAACACG
1 AAATT-TTTTTTTAAAACACGAAAACTTTAGAAACACC
* *
44288170 AGAATTTTTTTTCAAAACACAAAAA
1 A-AATTTTTTTTTAAAACACGAAAA
44288195 TTGTAAAACA
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
37 5 0.10
38 42 0.82
39 4 0.08
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (37 bp):
AAATTTTTTTTTAAAACACGAAAACTTTAGAAACACC
Found at i:44288250 original size:18 final size:18
Alignment explanation
Indices: 44288139--44288866 Score: 315
Period size: 18 Copynumber: 39.6 Consensus size: 18
44288129 ACCAAATTCT
* * *
44288139 TTTTTTAAAACACGATAT
1 TTTTTGAAAACACGAAAA
*
44288157 TTTTTG-AAACACGAGAATTT
1 TTTTTGAAAACACGA-AA--A
*
44288177 TTTTTCAAAACAC-AAAA
1 TTTTTGAAAACACGAAAA
* * *
44288194 ATTGT-AAAACACGAACA
1 TTTTTGAAAACACGAAAA
* *
44288211 TTTGTG-AAACACGAGAAT
1 TTTTTGAAAACACGA-AAA
*
44288229 TTTTTGAAAACATGAAAA
1 TTTTTGAAAACACGAAAA
*
44288247 TTTTTG-AAACACGGAAATT
1 TTTTTGAAAACAC-GAAA-A
**
44288266 TTTTTAGAAAACACGAATTT
1 TTTTT-GAAAACACGAA-AA
* *
44288286 TTTTTTAAAATCACTG-GAA
1 TTTTTGAAAA-CAC-GAAAA
44288305 TTTTTGAAAACACG-AAA
1 TTTTTGAAAACACGAAAA
*
44288322 TCTTTG-AAACACCG-AAA
1 TTTTTGAAAACA-CGAAAA
**
44288339 TTTTTGAAAACACGACGA
1 TTTTTGAAAACACGAAAA
44288357 TTTTTG-AAACAC-AAAA
1 TTTTTGAAAACACGAAAA
* *
44288373 TTTTTTTGAAAATACGAAGATTTT
1 --TTTTTGAAAACACGAA-A---A
*
44288397 TTTTTGAAAACACGAACA
1 TTTTTGAAAACACGAAAA
* * *
44288415 TTTGTG-AAACACGGGAAT
1 TTTTTGAAAACAC-GAAAA
*
44288433 TTTTTGAAAACATGAAAA
1 TTTTTGAAAACACGAAAA
*
44288451 TTTTTG-AAACACGGAAATT
1 TTTTTGAAAACAC-GAAA-A
**
44288470 TTTTTAGAAAACACGAATT
1 TTTTT-GAAAACACGAAAA
* * *
44288489 TTTTTTAAATTCACCG-GAA
1 TTTTTGAAA-ACA-CGAAAA
44288508 TTTTTGAAAACACG-AAA
1 TTTTTGAAAACACGAAAA
*
44288525 TCTTTG-AAACACCG-AAA
1 TTTTTGAAAACA-CGAAAA
* **
44288542 TTTTTGAAAACAGGAGGA
1 TTTTTGAAAACACGAAAA
**
44288560 TTTTTG-AAACAC-AATTTT
1 TTTTTGAAAACACGAA--AA
* *
44288578 TTTTTGAAAATACGAAGATTTTT
1 TTTTTGAAAACACGAA-A----A
*
44288601 TTTTTGAAAACACGGAAA
1 TTTTTGAAAACACGAAAA
*
44288619 TTTTT-AAAACAC-AGGAA
1 TTTTTGAAAACACGA-AAA
* *
44288636 TTATTG-AAACACCG-GAA
1 TTTTTGAAAACA-CGAAAA
**
44288653 TTTTTGAAAACACGAGGA
1 TTTTTGAAAACACGAAAA
*
44288671 TTTTTGAAAACACGAAATTT
1 TTTTTGAAAACACGAAA--A
* * *
44288691 TTTTTTAAAACGCAAAAA
1 TTTTTGAAAACACGAAAA
*
44288709 TTTTT-AAAACACGAGAATTTTTT
1 TTTTTGAAAACACGA-AA-----A
*
44288732 TTTTTGAAAACATGAAAA
1 TTTTTGAAAACACGAAAA
*
44288750 -TTTTGGAAACACCG-AAA
1 TTTTTGAAAACA-CGAAAA
* *
44288767 -TCTTGAAAACACGAAGA
1 TTTTTGAAAACACGAAAA
**
44288784 TTTTTGAAAACACGAAGG
1 TTTTTGAAAACACGAAAA
*
44288802 TTTTTGAAAACACGAAGAT
1 TTTTTGAAAACACGAA-AA
*
44288821 TTTTTG-AAACACGATAAT
1 TTTTTGAAAACACGA-AAA
*
44288839 TTTTTAAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
44288857 ATTTTGAAAA
1 TTTTTGAAAA
44288867 ATAATTTTTT
Statistics
Matches: 547, Mismatches: 97, Indels: 132
0.70 0.12 0.17
Matches are distributed among these distances:
16 22 0.04
17 152 0.28
18 185 0.34
19 78 0.14
20 44 0.08
21 20 0.04
22 16 0.03
23 22 0.04
24 8 0.01
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.34
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:44288305 original size:22 final size:21
Alignment explanation
Indices: 44288264--44288309 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
44288254 AACACGGAAA
44288264 TTTTTTTAGAAAACACGAATT
1 TTTTTTTAGAAAACACGAATT
*
44288285 TTTTTTTA-AAATCACTGGAATT
1 TTTTTTTAGAAAACAC--GAATT
44288307 TTT
1 TTT
44288310 GAAAACACGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 6 0.27
21 8 0.36
22 8 0.36
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.50
Consensus pattern (21 bp):
TTTTTTTAGAAAACACGAATT
Found at i:44288401 original size:22 final size:22
Alignment explanation
Indices: 44288373--44288417 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
44288363 AAACACAAAA
* *
44288373 TTTTTTTGAAAATACGAAGATT
1 TTTTTTTGAAAACACGAACATT
44288395 TTTTTTTGAAAACACGAACATT
1 TTTTTTTGAAAACACGAACATT
44288417 T
1 T
44288418 GTGAAACACG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.44
Consensus pattern (22 bp):
TTTTTTTGAAAACACGAACATT
Found at i:44288423 original size:110 final size:110
Alignment explanation
Indices: 44288140--44288855 Score: 330
Period size: 111 Copynumber: 6.5 Consensus size: 110
44288130 CCAAATTCTT
* * * * *
44288140 TTTTTAAAACACG-ATA-TTTTTTG-AAACACGAGAATTTTTTTTCAAAACACAAAAATTGT-AA
1 TTTTTGAAACACGAAAATTTTTTTGAAAACACGAG-ATTTTTTTTTAAAACACGAAATTTGTGAA
*
44288201 AACACGAACATTTGTGAAACACGAGAATTTTTTGAAAACATGAAAA
65 AACACGAACATTTGTGAAACACGAGAATTTTTTGAAAACACGAAAA
* * *
44288247 TTTTTGAAACACGGAAATTTTTTTAGAAAACACGA-ATTTTTTTTTAAAATCACTGGAATTTTTG
1 TTTTTGAAACACGAAAATTTTTTT-GAAAACACGAGATTTTTTTTTAAAA-CAC-GAAATTTGTG
**
44288311 AAAACACGAA-ATCTT-TGAAACACCGA-AA-TTTTTGAAAACACGACGA
63 AAAACACGAACAT-TTGTGAAACA-CGAGAATTTTTTGAAAACACGAAAA
*
44288357 TTTTTGAAACAC-AAAATTTTTTTGAAAATACGAAGATTTTTTTTTGAAAACACGAACATTTGTG
1 TTTTTGAAACACGAAAATTTTTTTGAAAACACG-AGATTTTTTTTT-AAAACACGAA-ATTTGTG
* * * * *
44288421 -AAACACGGGAA-TTTTTTGAAAACATGA-AAATTTTTG-AAACACGGAAATT
63 AAAACAC--GAACATTTGTG-AAACACGAGAATTTTTTGAAAACAC-GAAA-A
* * * *
44288470 TTTTTAGAAAACACG--AATTTTTTTTAAATTCACCG-GA--ATTTTTGAAAACACGAAATCTT-
1 TTTTT-G-AAACACGAAAATTTTTTTGAAA-ACA-CGAGATTTTTTTTTAAAACACGAAAT-TTG
* * * **
44288529 TG-AAACACCGAA-ATTTTTGAAAACAGGAGGA-TTTTTG-AAACAC-AATTTT
61 TGAAAACA-CGAACATTTGTG-AAACACGAGAATTTTTTGAAAACACGAA--AA
* * ** *
44288578 TTTTTGAAAATACGAAGATTTTTTTTTTGAAAACACG-GA--AATTTTTAAAACACAGGAATTAT
1 TTTTTG-AAACACGAA-A--ATTTTTTTGAAAACACGAGATTTTTTTTTAAAACAC-GAAATT-T
* * * *
44288640 -TG-AAACACCGGA-ATTTTTGAAAACACGAGGA-TTTTTGAAAACACGAAATTT
60 GTGAAAACA-CGAACATTTGTG-AAACACGAGAATTTTTTGAAAACACGAAA--A
* * *
44288691 TTTTTTAAA-ACGCAAAA-ATTTTT-AAAACACGAGAATTTTTTTTTTTGAAAACATGAAAATTT
1 TTTTTGAAACACG-AAAATTTTTTTGAAAACACGAG-A--TTTTTTTTT-AAAACACG-AAATTT
* * **
44288753 -TGGAAACACCGAA-ATCTTG-AAAACACGA-AGA-TTTTTGAAAACACGAAGG
60 GTGAAAACA-CGAACAT-TTGTGAAACACGAGA-ATTTTTTGAAAACACGAAAA
* * * *
44288802 TTTTTGAAAACACGAAGA-TTTTTTG-AAACACGATA-ATTTTTTAAAAACACGAAA
1 TTTTTG-AAACACGAAAATTTTTTTGAAAACACGAGATTTTTTTTTAAAACACGAAA
44288856 AATTTTGAAA
Statistics
Matches: 495, Mismatches: 58, Indels: 113
0.74 0.09 0.17
Matches are distributed among these distances:
106 3 0.01
107 37 0.07
108 28 0.06
109 68 0.14
110 80 0.16
111 109 0.22
112 73 0.15
113 50 0.10
114 36 0.07
115 9 0.02
116 2 0.00
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.34
Consensus pattern (110 bp):
TTTTTGAAACACGAAAATTTTTTTGAAAACACGAGATTTTTTTTTAAAACACGAAATTTGTGAAA
ACACGAACATTTGTGAAACACGAGAATTTTTTGAAAACACGAAAA
Found at i:44288454 original size:58 final size:58
Alignment explanation
Indices: 44288339--44288455 Score: 148
Period size: 58 Copynumber: 2.0 Consensus size: 58
44288329 AACACCGAAA
* * *
44288339 TTTTTGAAAACACGACGATTTTTGAAACACAAAATTTTTTTGAAAATACGAAGATTTT
1 TTTTTGAAAACACGACGATTTGTGAAACACAAAATTTTTTTGAAAACACGAAAATTTT
** *
44288397 TTTTTGAAAACACGAAC-ATTTGTGAAACACGGGAA-TTTTTTGAAAACATGAAAATTTT
1 TTTTTGAAAACACG-ACGATTTGTGAAACAC-AAAATTTTTTTGAAAACACGAAAATTTT
44288455 T
1 T
44288456 GAAACACGGA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
58 47 0.92
59 4 0.08
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (58 bp):
TTTTTGAAAACACGACGATTTGTGAAACACAAAATTTTTTTGAAAACACGAAAATTTT
Found at i:44288519 original size:111 final size:109
Alignment explanation
Indices: 44288397--44288865 Score: 346
Period size: 111 Copynumber: 4.2 Consensus size: 109
44288387 CGAAGATTTT
* **
44288397 TTTTTGAAAACACGAACATTTGTGAAACACGGGAATTTTTTGAAAACATGAAAATTTTTGAAACA
1 TTTTTGAAAACACGAA-ATTT-TGAAACAC-GGAA-TTTTTGAAAACACGAGGATTTTTGAAACA
*
44288462 CGGAAATTTTTTTAGAAAACACG-A-A-TTTTTTTT-AAATTCACCGG-AA
62 C-GAAATTTTTTTAGAAAACACGAAGATTTTTTTTTGAAA-ACA-CGGAAA
* *
44288508 TTTTTGAAAACACGAAATCTTTGAAACACCGAAATTTTTGAAAACAGGAGGATTTTTGAAACAC-
1 TTTTTGAAAACACGAAAT-TTTGAAACA-CGGAATTTTTGAAAACACGAGGATTTTTGAAACACG
* * *
44288572 AATTTTTTTTTGAAAATACGAAGATTTTTTTTTTGAAAACACGGAAA
64 AAATTTTTTTAGAAAACACGAAGA-TTTTTTTTTGAAAACACGGAAA
*
44288619 TTTTT-AAAACACAGGAATTATTGAAACACCGGAATTTTTGAAAACACGAGGATTTTTGAAAACA
1 TTTTTGAAAACAC-GAAATT-TTGAAACA-CGGAATTTTTGAAAACACGAGGATTTTTG-AAACA
** * ** *
44288683 CGAAATTTTTTTTTAAAACGC-AA-A--AATTTTT-AAAACACGAGAATTTTTT
62 CGAAATTTTTTTAGAAAACACGAAGATTTTTTTTTGAAAACACG-GAA-----A
* * * * *
44288732 TTTTTGAAAACATGAAAATTTTGGAAACACCGAAATCTTGAAAACACGAAGATTTTTGAAAACAC
1 TTTTTGAAAACACG-AAATTTT-GAAACACGGAATTTTTGAAAACACGAGGATTTTTG-AAACAC
**
44288797 G-AAGGTTTTT-GAAAACACGAAGA---TTTTTTG-AAACAC-GATAA
63 GAAATTTTTTTAGAAAACACGAAGATTTTTTTTTGAAAACACGGA-AA
*
44288838 TTTTTTAAAAACACGAAAAATTTTGAAA
1 -TTTTTGAAAACACG--AAATTTTGAAA
44288866 AATAATTTTT
Statistics
Matches: 299, Mismatches: 32, Indels: 58
0.77 0.08 0.15
Matches are distributed among these distances:
107 41 0.14
108 17 0.06
109 28 0.09
110 25 0.08
111 84 0.28
112 31 0.10
113 57 0.19
114 16 0.05
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (109 bp):
TTTTTGAAAACACGAAATTTTGAAACACGGAATTTTTGAAAACACGAGGATTTTTGAAACACGAA
ATTTTTTTAGAAAACACGAAGATTTTTTTTTGAAAACACGGAAA
Found at i:44288532 original size:74 final size:74
Alignment explanation
Indices: 44288394--44288854 Score: 196
Period size: 74 Copynumber: 6.3 Consensus size: 74
44288384 ATACGAAGAT
* * * *
44288394 TTTTTTTTGAAAACACGAACATTTGTGAAACACGGGAATTTTTTGAAAACATGAAAATTTTTGAA
1 TTTTTTTAGAAAACACGAACATTTGTGAAACACCGGAATTTTTTGAAAACACGAAAATCTTTGAA
*
44288459 ACACGGAAA
66 ACACCGAAA
** * *
44288468 TTTTTTTAGAAAACACGAATTTTTTTTAAATTCACCGGAA-TTTTTGAAAACACG-AAATCTTTG
1 TTTTTTTAGAAAACACGAACATTTGTGAAA--CACCGGAATTTTTTGAAAACACGAAAATCTTTG
44288531 AAACACCGAAA
64 AAACACCGAAA
* ** * ***** * * *
44288542 --TTTTT-GAAAACAGGAGGATTTTTGAAACACAATTTTTTTTTGAAAATACGAAGATTTTTTTT
1 TTTTTTTAGAAAACACGAACATTTGTGAAACACCGGAATTTTTTGAAAACACGAA-A----ATCT
*
44288604 TTGAAAACACGGAAA
61 TTG-AAACACCGAAA
* ** *
44288619 --TTTTT--AAAACACAGGA-ATTAT-TGAAACACCGGAA-TTTTTGAAAACACGAGGATTTTTG
1 TTTTTTTAGAAAACAC-GAACATT-TGTGAAACACCGGAATTTTTTGAAAACACGAAAATCTTTG
44288677 AAA-ACACGAAA
64 AAACAC-CGAAA
** * * * * * *
44288688 TTTTTTTTTAAAACGCAAAAATTTTTAAAACA-CGAGAATTTTTTTTTTTGAAAACATGAAAAT-
1 TTTTTTTAGAAAACACGAACATTTGTGAAACACCG-GAA-----TTTTTTGAAAACACGAAAATC
44288751 TTTGGAAACACCGAAA
60 TTT-GAAACACCGAAA
* * * * * *
44288767 ---TCTT-GAAAACACGAAGATTTTTGAAA-ACAC-GAAGGTTTTTGAAAACACGAAGATTTTTT
1 TTTTTTTAGAAAACACGAACATTTGTGAAACAC-CGGAA-TTTTTTGAAAACACGAA-AATCTTT
44288826 GAAACA-CGATAA
63 GAAACACCGA-AA
44288838 -TTTTTTA-AAAACACGAA
1 TTTTTTTAGAAAACACGAA
44288855 AAATTTTGAA
Statistics
Matches: 297, Mismatches: 54, Indels: 73
0.70 0.13 0.17
Matches are distributed among these distances:
68 2 0.01
69 10 0.03
70 37 0.12
71 33 0.11
72 13 0.04
73 31 0.10
74 47 0.16
75 44 0.15
76 33 0.11
77 17 0.06
78 3 0.01
79 25 0.08
80 2 0.01
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (74 bp):
TTTTTTTAGAAAACACGAACATTTGTGAAACACCGGAATTTTTTGAAAACACGAAAATCTTTGAA
ACACCGAAA
Found at i:44288536 original size:16 final size:17
Alignment explanation
Indices: 44288500--44288550 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
44288490 TTTTTAAATT
* *
44288500 CACCGGAATTTTTGAAA
1 CACCGAAATCTTTGAAA
44288517 -ACACGAAATCTTTGAAA
1 CAC-CGAAATCTTTGAAA
*
44288534 CACCGAAATTTTTGAAA
1 CACCGAAATCTTTGAAA
44288551 ACAGGAGGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 2 0.07
17 25 0.86
18 2 0.07
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (17 bp):
CACCGAAATCTTTGAAA
Found at i:44288589 original size:203 final size:205
Alignment explanation
Indices: 44288199--44288700 Score: 763
Period size: 203 Copynumber: 2.5 Consensus size: 205
44288189 CAAAAATTGT
*
44288199 AAAACACGAACATTTGTGAAACACGAGAATTTTTTGAAAACATGAAAATTTTTGAAACACGGAAA
1 AAAACACGAACATTTGTGAAACACGGGAATTTTTTGAAAACATGAAAATTTTTGAAACACGGAAA
*
44288264 TTTTTTTAGAAAACACGAATTTTTTTTTAAAATCACTGGAATTTTTGAAAACACGAAATCTTTGA
66 TTTTTTTAGAAAACACGAATTTTTTTTTAAAATCACCGGAATTTTTGAAAACACGAAATCTTTGA
44288329 AACACCGAAATTTTTGAAAACACGACGATTTTTGAAACACAAAATTTTTTTGAAAATACGAAGA-
131 AACACCGAAATTTTTGAAAACACGACGATTTTTGAAACACAAAATTTTTTTGAAAATACGAAGAT
44288393 TTTTTTTTTG
196 TTTTTTTTTG
44288403 AAAACACGAACATTTGTGAAACACGGGAATTTTTTGAAAACATGAAAATTTTTGAAACACGGAAA
1 AAAACACGAACATTTGTGAAACACGGGAATTTTTTGAAAACATGAAAATTTTTGAAACACGGAAA
*
44288468 TTTTTTTAGAAAACACGAA-TTTTTTTTAAATTCACCGGAATTTTTGAAAACACGAAATCTTTGA
66 TTTTTTTAGAAAACACGAATTTTTTTTTAAAATCACCGGAATTTTTGAAAACACGAAATCTTTGA
* * **
44288532 AACACCGAAATTTTTGAAAACAGGAGGATTTTTGAAACACAATTTTTTTTTGAAAATACGAAGAT
131 AACACCGAAATTTTTGAAAACACGACGATTTTTGAAACACAAAATTTTTTTGAAAATACGAAGAT
44288597 TTTTTTTTTG
196 TTTTTTTTTG
* * * * * *
44288607 AAAACACGGAA-ATTTTTAAAACACAGGAA-TTATTG-AAACACCG-GAATTTTTGAAAACAC-G
1 AAAACAC-GAACATTTGTGAAACACGGGAATTTTTTGAAAACA-TGAAAATTTTTG-AAACACGG
*
44288667 AGGA--TTTTT-GAAAACACGAAATTTTTTTTTAAAA
63 A-AATTTTTTTAGAAAACACG-AATTTTTTTTTAAAA
44288701 CGCAAAAATT
Statistics
Matches: 276, Mismatches: 15, Indels: 16
0.90 0.05 0.05
Matches are distributed among these distances:
200 9 0.03
201 7 0.03
202 26 0.09
203 116 0.42
204 115 0.42
205 3 0.01
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.34
Consensus pattern (205 bp):
AAAACACGAACATTTGTGAAACACGGGAATTTTTTGAAAACATGAAAATTTTTGAAACACGGAAA
TTTTTTTAGAAAACACGAATTTTTTTTTAAAATCACCGGAATTTTTGAAAACACGAAATCTTTGA
AACACCGAAATTTTTGAAAACACGACGATTTTTGAAACACAAAATTTTTTTGAAAATACGAAGAT
TTTTTTTTTG
Found at i:44288604 original size:23 final size:23
Alignment explanation
Indices: 44288574--44288623 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
44288564 TGAAACACAA
*
44288574 TTTTTTTTTGAAAATAC-GAAGAT
1 TTTTTTTTTGAAAACACGGAA-AT
44288597 TTTTTTTTTGAAAACACGGAAAT
1 TTTTTTTTTGAAAACACGGAAAT
44288620 TTTT
1 TTTT
44288624 AAAACACAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 22 0.88
24 3 0.12
ACGTcount: A:0.32, C:0.06, G:0.12, T:0.50
Consensus pattern (23 bp):
TTTTTTTTTGAAAACACGGAAAT
Found at i:44288652 original size:35 final size:36
Alignment explanation
Indices: 44288608--44288692 Score: 101
Period size: 35 Copynumber: 2.5 Consensus size: 36
44288598 TTTTTTTTGA
44288608 AAACA-CGGAAATTTTT-AAAACAC-AGGAATTATTG
1 AAACACCGGAAATTTTTGAAAACACGAGG-ATTATTG
*
44288642 AAACACCGG-AATTTTTGAAAACACGAGGATTTTTG
1 AAACACCGGAAATTTTTGAAAACACGAGGATTATTG
44288677 AAA-ACAC-GAAATTTTT
1 AAACAC-CGGAAATTTTT
44288693 TTTTAAAACG
Statistics
Matches: 45, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
34 15 0.33
35 27 0.60
36 3 0.07
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (36 bp):
AAACACCGGAAATTTTTGAAAACACGAGGATTATTG
Found at i:44288741 original size:24 final size:23
Alignment explanation
Indices: 44288709--44288753 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
44288699 AACGCAAAAA
*
44288709 TTTTTAAAACACGAGAATTTTTT
1 TTTTTAAAACACGAAAATTTTTT
*
44288732 TTTTTGAAAACATGAAAATTTT
1 TTTTT-AAAACACGAAAATTTT
44288754 GGAAACACCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.38, C:0.07, G:0.09, T:0.47
Consensus pattern (23 bp):
TTTTTAAAACACGAAAATTTTTT
Found at i:44288849 original size:131 final size:129
Alignment explanation
Indices: 44288511--44288854 Score: 355
Period size: 131 Copynumber: 2.7 Consensus size: 129
44288501 ACCGGAATTT
* * * * *
44288511 TTGAAAACACGAAATCTTTG-AAACACCGAA-ATTTTTGAAAACAGGAGGA-TTTTTGAAACACA
1 TTGAAAACACGAAATTTTTGAAAACA-CGAAGGTTTTTGAAAACACGAAGATTTTTTGAAACACG
** * * * * *
44288573 ATTTTTTTTTGAAAATACGAAGATTTTTTTTTTGAAAACACGGAAATTTTTAAAACACAGGAATT
65 ATAATTTTTT-AAAACACGAAGATTTTTTTTTTGAAAACACGAAAATTTTGAAAACACACGAAAT
44288638 A
129 A
* *
44288639 TTG-AAACACCGGAATTTTTGAAAACACG-AGGATTTTTGAAAACACGAA-ATTTTTTTTTAAA-
1 TTGAAAACA-CGAAATTTTTGAAAACACGAAGG-TTTTTGAAAACACGAAGA--TTTTTTGAAAC
* * * *
44288700 ACGCAAAAATTTTTAAAACACG-AGAATTTTTTTTTTTGAAAACATGAAAATTTTGGAAACAC-C
62 ACG-ATAATTTTTTAAAACACGAAG-A-TTTTTTTTTTGAAAACACGAAAATTTTGAAAACACAC
*
44288763 GAAATC
124 GAAATA
44288769 TTGAAAACACGAAGATTTTTGAAAACACGAAGGTTTTTGAAAACACGAAGATTTTTTGAAACACG
1 TTGAAAACACGAA-ATTTTTGAAAACACGAAGGTTTTTGAAAACACGAAGATTTTTTGAAACACG
44288834 ATAATTTTTTAAAAACACGAA
65 ATAATTTTTT-AAAACACGAA
44288855 AAATTTTGAA
Statistics
Matches: 176, Mismatches: 23, Indels: 30
0.77 0.10 0.13
Matches are distributed among these distances:
127 6 0.03
128 15 0.09
129 21 0.12
130 37 0.21
131 92 0.52
132 5 0.03
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (129 bp):
TTGAAAACACGAAATTTTTGAAAACACGAAGGTTTTTGAAAACACGAAGATTTTTTGAAACACGA
TAATTTTTTAAAACACGAAGATTTTTTTTTTGAAAACACGAAAATTTTGAAAACACACGAAATA
Found at i:44289137 original size:21 final size:20
Alignment explanation
Indices: 44289113--44289156 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
44289103 CGCGAATATT
44289113 TTTTTTGAA-ACACGAGAAAA
1 TTTTTTGAAGACACGA-AAAA
*
44289133 ATTTTTGAAGACACGAAAAA
1 TTTTTTGAAGACACGAAAAA
44289153 TTTT
1 TTTT
44289157 GCAAAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (20 bp):
TTTTTTGAAGACACGAAAAA
Found at i:44289150 original size:19 final size:19
Alignment explanation
Indices: 44289114--44289156 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 19
44289104 GCGAATATTT
44289114 TTTTTGAAACACGAGAAAAA
1 TTTTTGAAACAC-AGAAAAA
44289134 TTTTTGAAGACAC-GAAAAA
1 TTTTTGAA-ACACAGAAAAA
44289153 TTTT
1 TTTT
44289157 GCAAAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 10 0.45
20 8 0.36
21 4 0.18
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (19 bp):
TTTTTGAAACACAGAAAAA
Found at i:44289332 original size:5 final size:5
Alignment explanation
Indices: 44289318--44289365 Score: 60
Period size: 5 Copynumber: 9.0 Consensus size: 5
44289308 TTAAAAGTAT
*
44289318 TTAAA ATAAA TTAAAA TTAAAA TTAAAA TTAAA TTAAA TTAAA TTAAA
1 TTAAA TTAAA TT-AAA TT-AAA TT-AAA TTAAA TTAAA TTAAA TTAAA
44289366 AATATAAATG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
5 23 0.57
6 17 0.43
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (5 bp):
TTAAA
Found at i:44289336 original size:6 final size:6
Alignment explanation
Indices: 44289325--44289366 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
44289315 TATTTAAAAT
44289325 AAATTA AAATTA AAATTA AAATT- AAATT- AAATT- AAATTA AAA
1 AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA AAA
44289367 ATATAAATGC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 15 0.43
6 20 0.57
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AAATTA
Found at i:44289342 original size:12 final size:11
Alignment explanation
Indices: 44289318--44289366 Score: 75
Period size: 10 Copynumber: 4.5 Consensus size: 11
44289308 TTAAAAGTAT
44289318 TTAAAA-TAAA
1 TTAAAATTAAA
44289328 TTAAAATTAAAA
1 TTAAAATT-AAA
44289340 TTAAAATTAAA
1 TTAAAATTAAA
44289351 TT-AAATTAAA
1 TTAAAATTAAA
44289361 TTAAAA
1 TTAAAA
44289367 ATATAAATGC
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
10 16 0.44
11 9 0.25
12 11 0.31
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
TTAAAATTAAA
Found at i:44289374 original size:28 final size:28
Alignment explanation
Indices: 44289318--44289374 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
44289308 TTAAAAGTAT
*
44289318 TTAAAATAAATTAAAATTAAAATTAAAA
1 TTAAAATAAATTAAAATTAAAAATAAAA
*
44289346 TTAAATTAAATT-AAATTAAAAATATAAA
1 TTAAAATAAATTAAAATTAAAAATA-AAA
44289374 T
1 T
44289375 GCCAAAATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 11 0.42
28 15 0.58
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (28 bp):
TTAAAATAAATTAAAATTAAAAATAAAA
Found at i:44289539 original size:11 final size:10
Alignment explanation
Indices: 44289516--44289636 Score: 124
Period size: 10 Copynumber: 11.9 Consensus size: 10
44289506 ATTGAACCTC
44289516 TTTTT-TTCT
1 TTTTTCTTCT
* *
44289525 TTTTTCCTCC
1 TTTTTCTTCT
44289535 TTTTT-TTCT
1 TTTTTCTTCT
*
44289544 TTTTTTTTCT
1 TTTTTCTTCT
44289554 TTTTTCTTCT
1 TTTTTCTTCT
44289564 TTTTTCTTCT
1 TTTTTCTTCT
44289574 CTTTTTCTTCTT
1 -TTTTTCTTC-T
*
44289586 TTTTTCTCCT
1 TTTTTCTTCT
44289596 TTTTTCTT-T
1 TTTTTCTTCT
44289605 TTTCTT-TTCTT
1 TTT-TTCTTC-T
44289616 TTTTTCCTTCTT
1 TTTTT-CTTC-T
44289628 TTTTTCTTC
1 TTTTTCTTC
44289637 GGCCTGCTTC
Statistics
Matches: 96, Mismatches: 7, Indels: 16
0.81 0.06 0.13
Matches are distributed among these distances:
9 18 0.19
10 42 0.44
11 25 0.26
12 11 0.11
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTCTTCT
Found at i:44289569 original size:39 final size:38
Alignment explanation
Indices: 44289516--44289635 Score: 129
Period size: 39 Copynumber: 3.0 Consensus size: 38
44289506 ATTGAACCTC
44289516 TTTTT-TTCTTTTTTCCTCCTTTTTTTCTTTTTTTTTCT
1 TTTTTCTTCTTTTTT-CTCCTTTTTTTCTTTTTTTTTCT
*
44289554 TTTTTCTTCTTTTTTCTTCTCTTTTTCTTCTTTTTTTCTCCT
1 TTTTTCTTCTTTTTTC-TC-CTTTTT-TTCTTTTTTT-TTCT
*
44289596 TTTTTCTT-TTTTCTT-TTCTTTTTTTCCTTCTTTTTTTCT
1 TTTTTCTTCTTTT-TTCTCCTTTTTTT-CTT-TTTTTTTCT
44289635 T
1 T
44289636 CGGCCTGCTT
Statistics
Matches: 71, Mismatches: 3, Indels: 15
0.80 0.03 0.17
Matches are distributed among these distances:
38 8 0.11
39 24 0.34
40 12 0.17
41 14 0.20
42 13 0.18
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (38 bp):
TTTTTCTTCTTTTTTCTCCTTTTTTTCTTTTTTTTTCT
Found at i:44289762 original size:17 final size:19
Alignment explanation
Indices: 44289740--44289781 Score: 61
Period size: 17 Copynumber: 2.3 Consensus size: 19
44289730 AAAGATGGCC
44289740 TGCTTTCTT-TTTT-TTTT
1 TGCTTTCTTCTTTTCTTTT
44289757 TGCTTTCTTCTTTTCTTTT
1 TGCTTTCTTCTTTTCTTTT
*
44289776 TTCTTT
1 TGCTTT
44289782 TTGGGCTGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.41
18 4 0.18
19 9 0.41
ACGTcount: A:0.00, C:0.17, G:0.05, T:0.79
Consensus pattern (19 bp):
TGCTTTCTTCTTTTCTTTT
Found at i:44289769 original size:20 final size:19
Alignment explanation
Indices: 44289744--44289781 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
44289734 ATGGCCTGCT
*
44289744 TTCTTTTTTTTTTTGCTTTC
1 TTCTTTTCTTTTTT-CTTTC
44289764 TTCTTTTCTTTTTTCTTT
1 TTCTTTTCTTTTTTCTTT
44289782 TTGGGCTGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.82
Consensus pattern (19 bp):
TTCTTTTCTTTTTTCTTTC
Found at i:44289779 original size:12 final size:12
Alignment explanation
Indices: 44289743--44289782 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
44289733 GATGGCCTGC
*
44289743 TTTCTTTTTTTT
1 TTTCTTTTTTCT
*
44289755 TTTGCTTTCTTCT
1 TTT-CTTTTTTCT
44289768 TTTCTTTTTTCT
1 TTTCTTTTTTCT
44289780 TTT
1 TTT
44289783 TGGGCTGCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (12 bp):
TTTCTTTTTTCT
Found at i:44289941 original size:13 final size:13
Alignment explanation
Indices: 44289919--44289956 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
44289909 TCTTTTTTGT
44289919 TTCTTTCTTCTTC
1 TTCTTTCTTCTTC
*
44289932 TTCTTCCTTCTTC
1 TTCTTTCTTCTTC
*
44289945 TTTTTTCTTCTT
1 TTCTTTCTTCTT
44289957 TCGGAAACCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (13 bp):
TTCTTTCTTCTTC
Found at i:44289954 original size:10 final size:10
Alignment explanation
Indices: 44289894--44289957 Score: 53
Period size: 10 Copynumber: 6.3 Consensus size: 10
44289884 ACTATAATAA
44289894 TTTTTT-TTC
1 TTTTTTCTTC
44289903 -TTTTT-TTC
1 TTTTTTCTTC
*
44289911 TTTTTTGTTTC
1 TTTTTT-CTTC
*
44289922 TTTCTTCTTC
1 TTTTTTCTTC
44289932 TTCTTCCTTCTTC
1 TT-TT--TTCTTC
44289945 TTTTTTCTTC
1 TTTTTTCTTC
44289955 TTT
1 TTT
44289958 CGGAAACCCT
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
8 8 0.17
9 5 0.11
10 14 0.30
11 9 0.20
12 2 0.04
13 8 0.17
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (10 bp):
TTTTTTCTTC
Found at i:44290069 original size:20 final size:21
Alignment explanation
Indices: 44290035--44290085 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
44290025 CGTCAGAAGC
44290035 TCTCCTCTTC--T-TCTCCTT
1 TCTCCTCTTCTTTCTCTCCTT
44290053 TCTCCTC-TCTTTCTCTCCTT
1 TCTCCTCTTCTTTCTCTCCTT
*
44290073 TTTCCTCTTCTTT
1 TCTCCTCTTCTTT
44290086 TTCTTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 2 0.07
18 7 0.25
19 1 0.04
20 13 0.46
21 5 0.18
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (21 bp):
TCTCCTCTTCTTTCTCTCCTT
Found at i:44290091 original size:18 final size:18
Alignment explanation
Indices: 44290037--44290093 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
44290027 TCAGAAGCTC
* * *
44290037 TCCTCTTCTTCTCCTTTC
1 TCCTCTTCTTTTTCTTTT
44290055 TCCTC-TCTTTCTCTCCTTTT
1 TCCTCTTCTTT-T-T-CTTTT
44290075 TCCTCTTCTTTTTCTTTT
1 TCCTCTTCTTTTTCTTTT
44290093 T
1 T
44290094 TTTGCAAGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
17 4 0.12
18 12 0.38
19 1 0.03
20 10 0.31
21 5 0.16
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (18 bp):
TCCTCTTCTTTTTCTTTT
Found at i:44290330 original size:30 final size:30
Alignment explanation
Indices: 44290295--44290440 Score: 154
Period size: 30 Copynumber: 4.9 Consensus size: 30
44290285 AAACGCAGGA
* *
44290295 AAAGTTTTGGGG-CTAAAACGTAATTTTGAG
1 AAAGTTTAGGGGTC-AAAATGTAATTTTGAG
* *
44290325 GAAGTTTAGGGGTCAAAATGTAATTTTAAG
1 AAAGTTTAGGGGTCAAAATGTAATTTTGAG
*
44290355 AAAGTTATA-GGGTCAAAATGTAATTTAGA-
1 AAAGTT-TAGGGGTCAAAATGTAATTTTGAG
** *
44290384 AAAGTTTAGGGGTTGAAATGTAATTTTGAA
1 AAAGTTTAGGGGTCAAAATGTAATTTTGAG
** *
44290414 AAAAATTAGGGGTCAAAATGCAATTTT
1 AAAGTTTAGGGGTCAAAATGTAATTTT
44290441 TTTAATTTTT
Statistics
Matches: 97, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
28 2 0.02
29 23 0.24
30 69 0.71
31 3 0.03
ACGTcount: A:0.39, C:0.04, G:0.24, T:0.33
Consensus pattern (30 bp):
AAAGTTTAGGGGTCAAAATGTAATTTTGAG
Found at i:44290403 original size:59 final size:59
Alignment explanation
Indices: 44290326--44290439 Score: 158
Period size: 59 Copynumber: 1.9 Consensus size: 59
44290316 AATTTTGAGG
* * *
44290326 AAGTTTAGGGGTCAAAATGTAATTTT-AAGAAAGTTATAGGGTCAAAATGTAATTTAGAA
1 AAGTTTAGGGGTCAAAATGTAATTTTGAAAAAAATTA-AGGGTCAAAATGCAATTTAGAA
** *
44290385 AAGTTTAGGGGTTGAAATGTAATTTTGAAAAAAATTAGGGGTCAAAATGCAATTT
1 AAGTTTAGGGGTCAAAATGTAATTTTGAAAAAAATTAAGGGTCAAAATGCAATTT
44290440 TTTTAATTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
59 40 0.83
60 8 0.17
ACGTcount: A:0.41, C:0.04, G:0.23, T:0.32
Consensus pattern (59 bp):
AAGTTTAGGGGTCAAAATGTAATTTTGAAAAAAATTAAGGGTCAAAATGCAATTTAGAA
Found at i:44290705 original size:79 final size:79
Alignment explanation
Indices: 44290611--44291189 Score: 434
Period size: 71 Copynumber: 7.6 Consensus size: 79
44290601 TAACTCGACG
* * *
44290611 TGTGGCCCGAGGCTCAACTCACCTTTAGCATTATGAGTTGATTTTTTTGGAAAACAGAAATTGAA
1 TGTGACCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGGAAAACAGAAATTGAA
44290676 AAGATACCTCGGCA
66 AAGATACCTCGGCA
* * * * * *
44290690 TGTGACCCGAGGCTCATCTCATCTCTT-GCATTATGAGTT-A--GTTTTGAAAAACAGCAATTGA
1 TGTGACCCGAGGCTCAACTCACCT-TTCGCAATATGAGTTGATTTTTTTGGAAAACAGAAATTGA
*
44290751 AAA-ATACCTCGACA
65 AAAGATACCTCGGCA
* * * *
44290765 --TGACTCAAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTT-GAAAATACGAAATTTA
1 TGTGACCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGGAAAACA-GAAATTGA
44290827 AAAGAAATACCTCGGCA
65 AAAG--ATACCTCGGCA
* * * * * *
44290844 TGTGACCCGAGGCTCATCTCATCTCTT-GCATTATGAGTT-A--GTTTTGAAAAACAGCAATTGA
1 TGTGACCCGAGGCTCAACTCACCT-TTCGCAATATGAGTTGATTTTTTTGGAAAACAGAAATTGA
*
44290905 AAA-ATACCTCGACA
65 AAAGATACCTCGGCA
* * * *
44290919 --TGACTCAAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTT-GAAAATACGAAATTTA
1 TGTGACCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGGAAAACA-GAAATTGA
44290981 AAAGAAATACCTCGGCA
65 AAAG--ATACCTCGGCA
* * * *
44290998 TGTG-TCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTT------CAAAAATTTAA
1 TGTGACCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGGAAAACAGAAATTGAA
* *
44291053 AAGAAATACCACGACA
66 AAG--ATACCTCGGCA
* * ***
44291069 TGTG-TCCGAGGCTCAACTCACCTATCGCAATATGAGTTGA---TTTAAAAAGAACAGAAA-TGT
1 TGTGACCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGGAA-AACAGAAATTG-
* *
44291129 AAACGAAATACATCGGCA
64 AAA--AGATACCTCGGCA
*
44291147 --TGACCCGAGGCTCAACTCA-CTTCTCGCATTATGAGTTGATTTT
1 TGTGACCCGAGGCTCAACTCACCTT-TCGCAATATGAGTTGATTTT
44291190 AAAAAAACAG
Statistics
Matches: 403, Mismatches: 59, Indels: 75
0.75 0.11 0.14
Matches are distributed among these distances:
71 64 0.16
72 5 0.01
73 58 0.14
74 2 0.00
75 30 0.07
76 51 0.13
77 35 0.09
78 30 0.07
79 58 0.14
80 37 0.09
81 31 0.08
82 2 0.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (79 bp):
TGTGACCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGGAAAACAGAAATTGAA
AAGATACCTCGGCA
Found at i:44290884 original size:154 final size:155
Alignment explanation
Indices: 44290620--44291212 Score: 747
Period size: 154 Copynumber: 3.9 Consensus size: 155
44290610 GTGTGGCCCG
* * * *
44290620 AGGCTCAACTCACCTTTAGCATTATGAGTTGATTTTTTTGGAAA-ACAGAAATTGAAAAG--ATA
1 AGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAAATACAGAAATTTAAAAGAAATA
* *
44290682 CCTCGGCATGTGACCCGAGGCTCATCTCATCTCTTGCATTATGAGTT-AGTTTTGAAAAACAGCA
66 CCTCGGCATGTGACCCGAGGCTCAACTCATCTCTCGCATTATGAGTTGA-TTTTGAAAAACAGCA
44290746 ATTGAAAAATACCTCGACATGACTCA
130 ATTGAAAAATACCTCGACATGACTCA
44290772 AGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAAATAC-GAAATTTAAAAGAAATA
1 AGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAAATACAGAAATTTAAAAGAAATA
* *
44290836 CCTCGGCATGTGACCCGAGGCTCATCTCATCTCTTGCATTATGAGTT-AGTTTTGAAAAACAGCA
66 CCTCGGCATGTGACCCGAGGCTCAACTCATCTCTCGCATTATGAGTTGA-TTTTGAAAAACAGCA
44290900 ATTGAAAAATACCTCGACATGACTCA
130 ATTGAAAAATACCTCGACATGACTCA
44290926 AGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAAATAC-GAAATTTAAAAGAAATA
1 AGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAAATACAGAAATTTAAAAGAAATA
* * * * ***
44290990 CCTCGGCATGTG-TCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCAAAAA-TTTAA
66 CCTCGGCATGTGACCCGAGGCTCAACTCATCTCTCGCATTATGAGTTGATTTTGAAAAACAGCAA
* ** *
44291053 ---AAGAAATACCACGACATGTGTCCG
131 TTGAA-AAATACCTCGACATGACT-CA
* * * * *
44291077 AGGCTCAACTCACCTATCGCAATATGAGTTGA----TTTAAAAAGAACAGAAATGTAAACGAAAT
1 AGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAAA-TACAGAAATTTAAAAGAAAT
* *
44291138 ACATCGGCA--TGACCCGAGGCTCAACTCA-CTTCTCGCATTATGAGTTGATTTTAAAAAAACAG
65 ACCTCGGCATGTGACCCGAGGCTCAACTCATC-TCTCGCATTATGAGTTGATTTT-GAAAAACAG
*
44291200 AAATTGAAAAATA
128 CAATTGAAAAATA
44291213 TTTCTCGAAA
Statistics
Matches: 397, Mismatches: 29, Indels: 30
0.87 0.06 0.07
Matches are distributed among these distances:
147 10 0.03
148 38 0.10
149 29 0.07
150 17 0.04
151 32 0.08
152 59 0.15
153 42 0.11
154 170 0.43
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (155 bp):
AGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAAATACAGAAATTTAAAAGAAATA
CCTCGGCATGTGACCCGAGGCTCAACTCATCTCTCGCATTATGAGTTGATTTTGAAAAACAGCAA
TTGAAAAATACCTCGACATGACTCA
Found at i:44292097 original size:10 final size:10
Alignment explanation
Indices: 44292084--44292131 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
44292074 ATTTTTTTCA
44292084 TTTTTTTTGT
1 TTTTTTTTGT
*
44292094 TTTTTTCTG-
1 TTTTTTTTGT
*
44292103 TCTTTTTTGT
1 TTTTTTTTGT
*
44292113 TTTTCTTTGT
1 TTTTTTTTGT
44292123 TTTTGTTTT
1 TTTT-TTTT
44292132 TTTGTCTCAT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
9 7 0.23
10 20 0.67
11 3 0.10
ACGTcount: A:0.00, C:0.06, G:0.10, T:0.83
Consensus pattern (10 bp):
TTTTTTTTGT
Found at i:44292145 original size:35 final size:35
Alignment explanation
Indices: 44292077--44292145 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
44292067 TATCATGATT
* *
44292077 TTTTTCATTTTTTTTGTTTTTTTCTGTCTTTTTTG
1 TTTTTCATTTTTTTTGTTTTTTTCTCTCATTTTTG
*
44292112 TTTTTC-TTTGTTTTTGTTTTTTTGTCTCATTTTT
1 TTTTTCATTT-TTTTTGTTTTTTTCTCTCATTTTT
44292146 TAGGCATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 3 0.10
35 27 0.90
ACGTcount: A:0.03, C:0.09, G:0.09, T:0.80
Consensus pattern (35 bp):
TTTTTCATTTTTTTTGTTTTTTTCTCTCATTTTTG
Found at i:44303327 original size:37 final size:36
Alignment explanation
Indices: 44303280--44303389 Score: 123
Period size: 37 Copynumber: 3.0 Consensus size: 36
44303270 AAAAATAAAA
* *
44303280 TTTTTGAAACACGAAAACTTTAGAAACACGAAATTCT
1 TTTTTAAAACACGAAAATTTTAGAAACACGAAATT-T
* * *
44303317 TTTTTAAAACACGACATTTTTTGAAACACGAGAATTT
1 TTTTTAAAACACGAAAATTTTAGAAACACGA-AATTT
* *
44303354 TTTTCAAAACACAAAAATTTTA-AAACACGAACATTT
1 TTTTTAAAACACGAAAATTTTAGAAACACGAA-ATTT
44303390 GTGAAACACG
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
35 1 0.02
36 12 0.20
37 44 0.72
38 4 0.07
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.33
Consensus pattern (36 bp):
TTTTTAAAACACGAAAATTTTAGAAACACGAAATTT
Found at i:44303328 original size:20 final size:19
Alignment explanation
Indices: 44303298--44303497 Score: 86
Period size: 17 Copynumber: 10.8 Consensus size: 19
44303288 ACACGAAAAC
44303298 TTTAGAAACACGAAATTCTTT
1 TTTA-AAACACGAAATT-TTT
*
44303319 TTTAAAACACGACA--TTT
1 TTTAAAACACGAAATTTTT
*
44303336 TTTGAAACACGAGAATTTTT
1 TTTAAAACACGA-AATTTTT
* **
44303356 TTCAAAACAC-AAA--AAT
1 TTTAAAACACGAAATTTTT
44303372 TTTAAAACACGAACA---TT
1 TTTAAAACACGAA-ATTTTT
* * *
44303389 TGTGAAACACGGGAA-TTTT
1 TTTAAAACAC-GAAATTTTT
* * *
44303408 TTGAAAACATGAAA--ATT
1 TTTAAAACACGAAATTTTT
* *
44303425 TTTGAAACACAAAATTTTT
1 TTTAAAACACGAAATTTTT
44303444 TTTAGAAAACACG-AATTTTT
1 TTT--AAAACACGAAATTTTT
*
44303464 TTTAAAATCACCGGAA--TTT
1 TTTAAAA-CA-CGAAATTTTT
*
44303483 TTGAAAACACGAAAT
1 TTTAAAACACGAAAT
44303498 CTTGAAACAT
Statistics
Matches: 136, Mismatches: 27, Indels: 35
0.69 0.14 0.18
Matches are distributed among these distances:
16 10 0.07
17 42 0.31
18 15 0.11
19 25 0.18
20 32 0.24
21 12 0.09
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (19 bp):
TTTAAAACACGAAATTTTT
Found at i:44303338 original size:17 final size:17
Alignment explanation
Indices: 44303280--44303853 Score: 191
Period size: 18 Copynumber: 31.5 Consensus size: 17
44303270 AAAAATAAAA
*
44303280 TTTTTGAAACACGAAA-
1 TTTTTAAAACACGAAAT
**
44303296 ACTTTAGAAACACGAAATTCT
1 TTTTTA-AAACACGAAA---T
*
44303317 TTTTTAAAACACGACAT
1 TTTTTAAAACACGAAAT
*
44303334 TTTTTGAAACACGAGAATT
1 TTTTTAAAACACGA-AA-T
*
44303353 TTTTTCAAAACAC-AAAA
1 TTTTT-AAAACACGAAAT
*
44303370 ATTTTAAAACACGAACA-
1 TTTTTAAAACACGAA-AT
* * *
44303387 TTTGTGAAACACGGGAAT
1 TTTTTAAAACAC-GAAAT
* *
44303405 TTTTTGAAAACATGAAAA
1 TTTTT-AAAACACGAAAT
* *
44303423 TTTTTGAAACACAAAATTT
1 TTTTTAAAACACGAAA--T
*
44303442 TTTTTAGAAAACACGAATTT
1 TTTTT--AAAACACGAA-AT
*
44303462 TTTTTAAAATCACCGGAAT
1 TTTTTAAAA-CA-CGAAAT
*
44303481 TTTTGAAAACACGAAA-
1 TTTTTAAAACACGAAAT
* *
44303497 -TCTTGAAACATCGAAAT
1 TTTTTAAAACA-CGAAAT
* *
44303514 TTTTGAAAACACGAGGA-
1 TTTTTAAAACACGA-AAT
* *
44303531 TTTTTGAAACA--AATTTT
1 TTTTTAAAACACGAA--AT
*
44303548 TTTTTGAAAATACGAAGATTTTT
1 TTTTT-AAAACACGAA-A----T
44303571 TTTTTGAAAACACGGAAA-
1 TTTTT-AAAACAC-GAAAT
*
44303589 TTTTTAAAACACAGGAA-
1 TTTTTAAAACAC-GAAAT
* * *
44303606 TTATTGAAACACCGGAAT
1 TTTTTAAAACA-CGAAAT
*
44303624 TTTTGT-AAACACGAGGAT
1 TTTT-TAAAACACGA-AAT
* *
44303642 TTTTGAAAACACGAATTTTT
1 TTTTTAAAACACGAA---AT
* * *
44303662 TTTTTAAAACGCAAAAA
1 TTTTTAAAACACGAAAT
44303679 TTTTTAAAACACGAGAAATTTTT
1 TTTTTAAAACAC--GAAA----T
* *
44303702 TTTTTGAAAACATGAAAA
1 TTTTT-AAAACACGAAAT
**
44303720 TTTTGGAAACACCGAAA-
1 TTTTTAAAACA-CGAAAT
* *
44303737 TCTTGAAAACACGAAGAT
1 TTTTTAAAACACGAA-AT
* *
44303755 TATTGAAAACACGAAGAT
1 TTTTTAAAACACGAA-AT
*
44303773 TTTTGAAAACACGAAGAT
1 TTTTTAAAACACGAA-AT
*
44303791 TTTTGAAAACACGAAGAT
1 TTTTTAAAACACGAA-AT
*
44303809 TTTTTGAAACACGAGAAT
1 TTTTTAAAACACGA-AAT
*
44303827 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAAAT
*
44303845 TTTTGAAAA
1 TTTTTAAAA
44303854 ATAATTTTTT
Statistics
Matches: 424, Mismatches: 79, Indels: 109
0.69 0.13 0.18
Matches are distributed among these distances:
15 8 0.02
16 19 0.04
17 124 0.29
18 149 0.35
19 41 0.10
20 39 0.09
21 12 0.03
22 4 0.01
23 19 0.04
24 9 0.02
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.33
Consensus pattern (17 bp):
TTTTTAAAACACGAAAT
Found at i:44303375 original size:53 final size:53
Alignment explanation
Indices: 44303318--44303444 Score: 150
Period size: 53 Copynumber: 2.4 Consensus size: 53
44303308 CGAAATTCTT
44303318 TTTTAAAACACGACATTTTTTGAAACACGAGAATTTTTTTCAAAACA-CAAAAA
1 TTTTAAAACACGACATTTTTTGAAACACGAGAA-TTTTTTCAAAACATCAAAAA
* * * * *
44303371 TTTTAAAACACGAACA-TTTGTGAAACACGGGAATTTTTTGAAAACATGAAAAT
1 TTTTAAAACACG-ACATTTTTTGAAACACGAGAATTTTTTCAAAACATCAAAAA
* * *
44303424 TTTTGAAACACAAAATTTTTT
1 TTTTAAAACACGACATTTTTT
44303445 TTAGAAAACA
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
52 14 0.23
53 45 0.73
54 3 0.05
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (53 bp):
TTTTAAAACACGACATTTTTTGAAACACGAGAATTTTTTCAAAACATCAAAAA
Found at i:44303389 original size:16 final size:16
Alignment explanation
Indices: 44303276--44303442 Score: 57
Period size: 17 Copynumber: 9.5 Consensus size: 16
44303266 TTTAAAAAAT
*
44303276 AAAATTTTTGAAACACG
1 AAAA-TTTTAAAACACG
*
44303293 AAAACTTTAGAAACACG
1 AAAATTTTA-AAACACG
*
44303310 AAATTCTTTTTTAAAACACG
1 AAA----ATTTTAAAACACG
** *
44303330 ACATTTTTTGAAACACG
1 A-AAATTTTAAAACACG
* *
44303347 AGAATTTTTTTCAAAACACA
1 A-AA--ATTTT-AAAACACG
44303367 AAAATTTTAAAACACG
1 AAAATTTTAAAACACG
* *
44303383 AACATTTGTGAAACACGGG
1 AAAATTT-TAAAACAC--G
** *
44303402 AATTTTTTGAAAACATG
1 AAAATTTT-AAAACACG
*
44303419 AAAATTTTTGAAACAC-
1 AAAA-TTTTAAAACACG
44303435 AAAATTTT
1 AAAATTTT
44303443 TTTTAGAAAA
Statistics
Matches: 114, Mismatches: 22, Indels: 30
0.69 0.13 0.18
Matches are distributed among these distances:
15 4 0.04
16 20 0.18
17 47 0.41
18 5 0.04
19 18 0.16
20 15 0.13
21 5 0.04
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (16 bp):
AAAATTTTAAAACACG
Found at i:44303455 original size:21 final size:20
Alignment explanation
Indices: 44303429--44303467 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
44303419 AAAATTTTTG
44303429 AAACACAAAATTTTTTTTAGA
1 AAACAC-AAATTTTTTTTAGA
*
44303450 AAACACGAATTTTTTTTA
1 AAACACAAATTTTTTTTA
44303468 AAATCACCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (20 bp):
AAACACAAATTTTTTTTAGA
Found at i:44303504 original size:16 final size:17
Alignment explanation
Indices: 44303478--44303527 Score: 59
Period size: 16 Copynumber: 3.0 Consensus size: 17
44303468 AAATCACCGG
*
44303478 AATTTTTGAAAACACGA
1 AATTCTTGAAAACACGA
44303495 AA-TCTTG-AAACATCGA
1 AATTCTTGAAAACA-CGA
*
44303511 AATTTTTGAAAACACGA
1 AATTCTTGAAAACACGA
44303528 GGATTTTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
15 5 0.18
16 9 0.32
17 9 0.32
18 5 0.18
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.28
Consensus pattern (17 bp):
AATTCTTGAAAACACGA
Found at i:44303574 original size:23 final size:23
Alignment explanation
Indices: 44303544--44303593 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
44303534 TTGAAACAAA
*
44303544 TTTTTTTTTGAAAATAC-GAAGAT
1 TTTTTTTTTGAAAACACGGAA-AT
44303567 TTTTTTTTTGAAAACACGGAAAT
1 TTTTTTTTTGAAAACACGGAAAT
44303590 TTTT
1 TTTT
44303594 AAAACACAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 22 0.88
24 3 0.12
ACGTcount: A:0.32, C:0.06, G:0.12, T:0.50
Consensus pattern (23 bp):
TTTTTTTTTGAAAACACGGAAAT
Found at i:44303705 original size:23 final size:23
Alignment explanation
Indices: 44303641--44303723 Score: 67
Period size: 23 Copynumber: 4.0 Consensus size: 23
44303631 AACACGAGGA
44303641 TTTTTGAAAACACG--AATTTTT
1 TTTTTGAAAACACGAAAATTTTT
* *
44303662 TTTTT-AAAACGC-AAAA----A
1 TTTTTGAAAACACGAAAATTTTT
44303679 TTTTT-AAAACACGAGAAATTTTT
1 TTTTTGAAAACACGA-AAATTTTT
*
44303702 TTTTTGAAAACATGAAAATTTT
1 TTTTTGAAAACACGAAAATTTT
44303724 GGAAACACCG
Statistics
Matches: 48, Mismatches: 5, Indels: 16
0.70 0.07 0.23
Matches are distributed among these distances:
17 11 0.23
18 1 0.02
19 3 0.06
20 6 0.12
21 7 0.15
23 12 0.25
24 8 0.17
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.42
Consensus pattern (23 bp):
TTTTTGAAAACACGAAAATTTTT
Found at i:44303737 original size:40 final size:39
Alignment explanation
Indices: 44303642--44303737 Score: 106
Period size: 41 Copynumber: 2.5 Consensus size: 39
44303632 ACACGAGGAT
*
44303642 TTTTGAAAACA-CG-AATTTTTTTTTTAAAACGCAAAAA
1 TTTTGAAAACACCGAAATTTTTTTTTTAAAACACAAAAA
* * **
44303679 TTTTTAAAACACGAGAAATTTTTTTTTTGAAAACATGAAAA
1 TTTTGAAAACAC-CGAAATTTTTTTTTT-AAAACACAAAAA
*
44303720 TTTTGGAAACACCGAAAT
1 TTTTGAAAACACCGAAAT
44303738 CTTGAAAACA
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
37 10 0.21
39 1 0.02
40 17 0.36
41 19 0.40
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.36
Consensus pattern (39 bp):
TTTTGAAAACACCGAAATTTTTTTTTTAAAACACAAAAA
Found at i:44303831 original size:37 final size:37
Alignment explanation
Indices: 44303316--44303848 Score: 227
Period size: 36 Copynumber: 14.6 Consensus size: 37
44303306 CACGAAATTC
* *
44303316 TTTTTTAAAACACG-ACATTTTTTG-AAACACG-AGAA
1 TTTTTGAAAACACGAAGATTTTTTGAAAACACGAAG-A
* ** *
44303351 TTTTTTTCAAAACAC-AA-AAATTTT-AAAACACGAACA
1 --TTTTTGAAAACACGAAGATTTTTTGAAAACACGAAGA
* * * *
44303387 TTTGTG-AAACACG-GGAATTTTTTGAAAACATGAAAA
1 TTTTTGAAAACACGAAG-ATTTTTTGAAAACACGAAGA
* **
44303423 TTTTTG-AAACAC-AAAATTTTTTTTAGAAAACACGAATT
1 TTTTTGAAAACACGAAGA--TTTTTT-GAAAACACGAAGA
* *
44303461 TTTTTTAAAATCACCG--GAATTTTTGAAAACACGAA-A
1 TTTTTGAAAA-CA-CGAAGATTTTTTGAAAACACGAAGA
* *
44303497 -TCTTG-AAACATCGAA-A-TTTTTGAAAACACGAGGA
1 TTTTTGAAAACA-CGAAGATTTTTTGAAAACACGAAGA
** *
44303531 TTTTTG-AAACA--AATTTTTTTTTGAAAATACGAAGA
1 TTTTTGAAAACACGAA-GATTTTTTGAAAACACGAAGA
*
44303566 TTTTTTTTTTGAAAACACGGAA-A-TTTTT-AAAACAC-AGGAA
1 -----TTTTTGAAAACAC-GAAGATTTTTTGAAAACACGAAG-A
* * * *
44303606 TTATTG-AAACACCG--GAATTTTTGTAAACACGAGGA
1 TTTTTGAAAACA-CGAAGATTTTTTGAAAACACGAAGA
** * * * *
44303641 TTTTTGAAAACACGAATTTTTTTTTTAAAACGCAAAAA
1 TTTTTGAAAACACGAA-GATTTTTTGAAAACACGAAGA
* *
44303679 TTTTT-AAAACACGAGAAATTTTTTTTTTGAAAACATGAA-A
1 TTTTTGAAAACACGA-AGA----TTTTTTGAAAACACGAAGA
* * *
44303719 ATTTTGGAAACACCGAA-A--TCTTGAAAACACGAAGA
1 TTTTTGAAAACA-CGAAGATTTTTTGAAAACACGAAGA
*
44303754 TTATTGAAAACACGAAGA-TTTTTGAAAACACGAAGA
1 TTTTTGAAAACACGAAGATTTTTTGAAAACACGAAGA
44303790 TTTTTGAAAACACGAAGATTTTTTG-AAACACG-AGAA
1 TTTTTGAAAACACGAAGATTTTTTGAAAACACGAAG-A
*
44303826 TTTTTTGAAAACACGAAAATTTT
1 -TTTTTGAAAACACGAAGATTTT
44303849 GAAAAATAAT
Statistics
Matches: 382, Mismatches: 60, Indels: 108
0.69 0.11 0.20
Matches are distributed among these distances:
32 2 0.01
33 26 0.07
34 37 0.10
35 67 0.18
36 83 0.22
37 67 0.18
38 38 0.10
39 5 0.01
40 22 0.06
41 30 0.08
42 3 0.01
44 2 0.01
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (37 bp):
TTTTTGAAAACACGAAGATTTTTTGAAAACACGAAGA
Found at i:44303869 original size:34 final size:37
Alignment explanation
Indices: 44303826--44303902 Score: 106
Period size: 34 Copynumber: 2.2 Consensus size: 37
44303816 AACACGAGAA
*
44303826 TTTTTTGAAAACACGAAAATTTTGA-AAA-ATAAT-T
1 TTTTTTGAAAACACGAAAATTTTGATAAACAAAATCT
* *
44303860 TTTTTTGAAAACAGGAGAATTTTGATAAACAAAATCT
1 TTTTTTGAAAACACGAAAATTTTGATAAACAAAATCT
44303897 TTTTTT
1 TTTTTT
44303903 ATTTTTATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
34 23 0.62
35 3 0.08
36 4 0.11
37 7 0.19
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.42
Consensus pattern (37 bp):
TTTTTTGAAAACACGAAAATTTTGATAAACAAAATCT
Found at i:44304123 original size:21 final size:20
Alignment explanation
Indices: 44304099--44304142 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
44304089 CGCGAATATT
44304099 TTTTTTGAA-ACACGAGAAAA
1 TTTTTTGAAGACACGA-AAAA
*
44304119 ATTTTTGAAGACACGAAAAA
1 TTTTTTGAAGACACGAAAAA
44304139 TTTT
1 TTTT
44304143 GCAAAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (20 bp):
TTTTTTGAAGACACGAAAAA
Found at i:44304136 original size:19 final size:19
Alignment explanation
Indices: 44304100--44304142 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 19
44304090 GCGAATATTT
44304100 TTTTTGAAACACGAGAAAAA
1 TTTTTGAAACAC-AGAAAAA
44304120 TTTTTGAAGACAC-GAAAAA
1 TTTTTGAA-ACACAGAAAAA
44304139 TTTT
1 TTTT
44304143 GCAAAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 10 0.45
20 8 0.36
21 4 0.18
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (19 bp):
TTTTTGAAACACAGAAAAA
Found at i:44304321 original size:6 final size:6
Alignment explanation
Indices: 44304310--44304346 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
44304300 TATTTAAAAT
44304310 AAATTA AAATTA AAATTA AAATT- AAATT- AAATTA AAA
1 AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA AAA
44304347 ATATAAATGC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 10 0.33
6 20 0.67
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAATTA
Found at i:44304331 original size:22 final size:22
Alignment explanation
Indices: 44304304--44304346 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
44304294 TAAAAGTATT
44304304 TAAAA-TAAATTAAAATTAAAAT
1 TAAAATTAAATT-AAATTAAAAT
44304326 TAAAATTAAATTAAATTAAAA
1 TAAAATTAAATTAAATTAAAA
44304347 ATATAAATGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATTAAATTAAATTAAAAT
Found at i:44304348 original size:12 final size:11
Alignment explanation
Indices: 44304303--44304345 Score: 63
Period size: 10 Copynumber: 4.0 Consensus size: 11
44304293 TTAAAAGTAT
44304303 TTAAAA-TAAA
1 TTAAAATTAAA
44304313 TTAAAATTAAAA
1 TTAAAATT-AAA
44304325 TTAAAATTAAA
1 TTAAAATTAAA
44304336 TT-AAATTAAA
1 TTAAAATTAAA
44304346 AATATAAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
10 14 0.45
11 6 0.19
12 11 0.35
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
TTAAAATTAAA
Found at i:44304354 original size:6 final size:5
Alignment explanation
Indices: 44304303--44304345 Score: 50
Period size: 5 Copynumber: 8.0 Consensus size: 5
44304293 TTAAAAGTAT
*
44304303 TTAAA ATAAA TTAAAA TTAAAA TTAAAA TTAAA TTAAA TTAAA
1 TTAAA TTAAA TT-AAA TT-AAA TT-AAA TTAAA TTAAA TTAAA
44304346 AATATAAATG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
5 18 0.51
6 17 0.49
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (5 bp):
TTAAA
Found at i:44304354 original size:23 final size:24
Alignment explanation
Indices: 44304304--44304354 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
44304294 TAAAAGTATT
* *
44304304 TAAAATAAATTAAAATTAAAATTA
1 TAAATTAAATTAAAATTAAAAATA
44304328 -AAATTAAATT-AAATTAAAAATA
1 TAAATTAAATTAAAATTAAAAATA
44304350 TAAAT
1 TAAAT
44304355 GCCAAAATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (24 bp):
TAAATTAAATTAAAATTAAAAATA
Found at i:44304518 original size:11 final size:10
Alignment explanation
Indices: 44304494--44304581 Score: 78
Period size: 10 Copynumber: 8.9 Consensus size: 10
44304484 AATTGAACCT
44304494 CTTTTTT-T-
1 CTTTTTTCTC
44304502 CTTTTTTCGTC
1 CTTTTTTC-TC
44304513 CTTTTTTCT-
1 CTTTTTTCTC
*
44304522 -TTTTTT-TT
1 CTTTTTTCTC
*
44304530 CTTTTTTCTT
1 CTTTTTTCTC
44304540 CTTTTTTCTTC
1 CTTTTTTC-TC
44304551 TCTTTTTTCTTC
1 -CTTTTTTC-TC
*
44304563 TTTTTTTCTC
1 CTTTTTTCTC
44304573 CTTTTTTCT
1 CTTTTTTCT
44304582 TTTCTTTTTT
Statistics
Matches: 69, Mismatches: 3, Indels: 14
0.80 0.03 0.16
Matches are distributed among these distances:
7 1 0.01
8 13 0.19
9 6 0.09
10 22 0.32
11 16 0.23
12 11 0.16
ACGTcount: A:0.00, C:0.20, G:0.01, T:0.78
Consensus pattern (10 bp):
CTTTTTTCTC
Found at i:44304527 original size:10 final size:10
Alignment explanation
Indices: 44304514--44304607 Score: 91
Period size: 10 Copynumber: 9.0 Consensus size: 10
44304504 TTTTTCGTCC
44304514 TTTTTTCTTT
1 TTTTTTCTTT
44304524 TTTTTTCTTT
1 TTTTTTCTTT
*
44304534 TTTCTTCTTT
1 TTTTTTCTTT
44304544 TTTCTTCTCTTT
1 TTT-TT-TCTTT
*
44304556 TTTCTTCTTT
1 TTTTTTCTTT
*
44304566 TTTTCTCCTTT
1 TTTT-TTCTTT
*
44304577 TTTCTTT-TCT
1 TTT-TTTCTTT
*
44304587 TTTTTCCTTCT
1 TTTTTTCTT-T
44304598 TTTTTTCTTT
1 TTTTTTCTTT
44304608 GGCCTGCTTC
Statistics
Matches: 68, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
9 2 0.03
10 37 0.54
11 20 0.29
12 9 0.13
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:44304546 original size:22 final size:22
Alignment explanation
Indices: 44304514--44304602 Score: 100
Period size: 21 Copynumber: 4.2 Consensus size: 22
44304504 TTTTTCGTCC
44304514 TTTT-TTC-TTTTTTT-TTCTT
1 TTTTCTTCTTTTTTTTCTTCTT
44304533 TTTTCTTCTTTTTTCTTC-TCTT
1 TTTTCTTCTTTTTT-TTCTTCTT
*
44304555 TTTTCTTC-TTTTTTTCTCCTT
1 TTTTCTTCTTTTTTTTCTTCTT
44304576 TTTTCTT-TTCTTTTTTCCTTCTT
1 TTTTCTTCTT-TTTTTT-CTTCTT
44304599 TTTT
1 TTTT
44304603 TCTTTGGCCT
Statistics
Matches: 60, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
19 4 0.07
20 6 0.10
21 21 0.35
22 20 0.33
23 9 0.15
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (22 bp):
TTTTCTTCTTTTTTTTCTTCTT
Found at i:44304568 original size:33 final size:33
Alignment explanation
Indices: 44304519--44304606 Score: 133
Period size: 33 Copynumber: 2.7 Consensus size: 33
44304509 CGTCCTTTTT
*
44304519 TCTTTTTTTTTC-TTTTTTCTTCTTTTTTCTTC
1 TCTTTTTTCTTCTTTTTTTCTTCTTTTTTCTTC
* *
44304551 TCTTTTTTCTTCTTTTTTTCTCCTTTTTTCTTT
1 TCTTTTTTCTTCTTTTTTTCTTCTTTTTTCTTC
44304584 TCTTTTTTCCTTCTTTTTTTCTT
1 TCTTTTTT-CTTCTTTTTTTCTT
44304607 TGGCCTGCTT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
32 11 0.22
33 26 0.52
34 13 0.26
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (33 bp):
TCTTTTTTCTTCTTTTTTTCTTCTTTTTTCTTC
Found at i:44304592 original size:12 final size:12
Alignment explanation
Indices: 44304516--44304607 Score: 83
Period size: 12 Copynumber: 8.2 Consensus size: 12
44304506 TTTCGTCCTT
44304516 TTTTC-TTTTT-
1 TTTTCTTTTTTC
44304526 TTTTCTTTTTTC
1 TTTTCTTTTTTC
44304538 --TTCTTTTTTC
1 TTTTCTTTTTTC
*
44304548 TTCTCTTTTTTC
1 TTTTCTTTTTTC
44304560 --TTCTTTTTT-
1 TTTTCTTTTTTC
* *
44304569 TCTCCTTTTTTC
1 TTTTCTTTTTTC
44304581 TTTTCTTTTTTC
1 TTTTCTTTTTTC
*
44304593 -CTTCTTTTTTTC
1 TTTTC-TTTTTTC
44304605 TTT
1 TTT
44304608 GGCCTGCTTC
Statistics
Matches: 66, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
10 23 0.35
11 16 0.24
12 26 0.39
13 1 0.02
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTCTTTTTTC
Found at i:44304736 original size:16 final size:16
Alignment explanation
Indices: 44304715--44304745 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44304705 ATGGCCTGCT
44304715 TTCTTTTTTTGCTTTG
1 TTCTTTTTTTGCTTTG
*
44304731 TTCTTTTTTTTCTTT
1 TTCTTTTTTTGCTTT
44304746 TTGGGCTGCT
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:0.00, C:0.13, G:0.06, T:0.81
Consensus pattern (16 bp):
TTCTTTTTTTGCTTTG
Found at i:44305279 original size:30 final size:30
Alignment explanation
Indices: 44305245--44305381 Score: 131
Period size: 29 Copynumber: 4.6 Consensus size: 30
44305235 AATTTCTATG
*
44305245 AAGTTTAGGGGTCAAAATGTTAGTTTGAG-A
1 AAGTTTAGGGGTCAAAATG-TAATTTGAGAA
* *
44305275 AAGTTTCGGGGTAAAAATGTAATTT-AGAA
1 AAGTTTAGGGGTCAAAATGTAATTTGAGAA
**
44305304 AAGTTTAGGGGTTTAAATGTAATTTTGA-ATA
1 AAGTTTAGGGGTCAAAATGTAA-TTTGAGA-A
* *
44305335 AAG--TAAGGGTCAAAATGTAATTTTAGAA
1 AAGTTTAGGGGTCAAAATGTAATTTGAGAA
* *
44305363 AAGTTCAGTGGTCAAAATG
1 AAGTTTAGGGGTCAAAATG
44305382 CAAAATTTTT
Statistics
Matches: 87, Mismatches: 13, Indels: 14
0.76 0.11 0.12
Matches are distributed among these distances:
28 10 0.11
29 40 0.46
30 32 0.37
31 5 0.06
ACGTcount: A:0.39, C:0.04, G:0.25, T:0.33
Consensus pattern (30 bp):
AAGTTTAGGGGTCAAAATGTAATTTGAGAA
Found at i:44305322 original size:59 final size:59
Alignment explanation
Indices: 44305245--44305381 Score: 152
Period size: 59 Copynumber: 2.3 Consensus size: 59
44305235 AATTTCTATG
* **
44305245 AAGTTTAGGGGTCAAAATGTTAGTTTG-AGAAAGTTTCGGGGTAAAAATGTAA-TTTAGAA
1 AAGTTTAGGGGTCAAAATGTAAGTTTGAAGAAAG--TAAGGGTAAAAATGTAATTTTAGAA
** * * *
44305304 AAGTTTAGGGGTTTAAATGTAATTTTGAATAAAGTAAGGGTCAAAATGTAATTTTAGAA
1 AAGTTTAGGGGTCAAAATGTAAGTTTGAAGAAAGTAAGGGTAAAAATGTAATTTTAGAA
* *
44305363 AAGTTCAGTGGTCAAAATG
1 AAGTTTAGGGGTCAAAATG
44305382 CAAAATTTTT
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
58 14 0.22
59 45 0.70
60 5 0.08
ACGTcount: A:0.39, C:0.04, G:0.25, T:0.33
Consensus pattern (59 bp):
AAGTTTAGGGGTCAAAATGTAAGTTTGAAGAAAGTAAGGGTAAAAATGTAATTTTAGAA
Found at i:44307910 original size:26 final size:26
Alignment explanation
Indices: 44307848--44307913 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
44307838 CTTAAATCAA
*
44307848 ACTTTTCCAAAGTACTTTTCAGAAGT
1 ACTTTTCAAAAGTACTTTTCAGAAGT
* * * *
44307874 ACTTCTAAAAAGTACTTTTC-TACGT
1 ACTTTTCAAAAGTACTTTTCAGAAGT
44307899 CACTTTTCAAAAGTA
1 -ACTTTTCAAAAGTA
44307914 ATGTTAAATA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
25 3 0.09
26 29 0.91
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.38
Consensus pattern (26 bp):
ACTTTTCAAAAGTACTTTTCAGAAGT
Found at i:44308500 original size:16 final size:16
Alignment explanation
Indices: 44308479--44308534 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 16
44308469 TTGAAACAAA
44308479 TAAATTAATTTGTAAT
1 TAAATTAATTTGTAAT
* *
44308495 TAAATTAA-TCG-ATT
1 TAAATTAATTTGTAAT
*
44308509 TCAA-T-ATTTGTAAT
1 TAAATTAATTTGTAAT
44308523 TAAATTAATTTG
1 TAAATTAATTTG
44308535 ATTGATTTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
12 1 0.03
13 3 0.10
14 10 0.33
15 3 0.10
16 13 0.43
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (16 bp):
TAAATTAATTTGTAAT
Found at i:44309330 original size:17 final size:17
Alignment explanation
Indices: 44309289--44309330 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 17
44309279 TTATATTATT
44309289 TTAATTTAATATTTTTTA
1 TTAA-TTAATATTTTTTA
*
44309307 TTTATTAA-ATTTTTTA
1 TTAATTAATATTTTTTA
44309323 TATAATTA
1 T-TAATTA
44309331 TTTTAACATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 9 0.43
17 9 0.43
18 3 0.14
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTAATTAATATTTTTTA
Found at i:44323161 original size:3 final size:3
Alignment explanation
Indices: 44323153--44323202 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
44323143 CTAACGTGTT
44323153 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
44323201 TT
1 TT
44323203 TAAAAAATAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:44335534 original size:213 final size:210
Alignment explanation
Indices: 44335157--44335572 Score: 473
Period size: 213 Copynumber: 2.0 Consensus size: 210
44335147 CTTACTCTCG
* * * * *
44335157 AGCAATAACATGAAGAAATATAATGCCTTGGTCATGTTGTCAGCATGAGTAAGCAGCAATGAGTA
1 AGCAATAACATGAAGAAATATAATGCATTGGTCATGTTATCAGCATAAGTAAGAAGCAACGAGTA
* * * * * * *
44335222 TGCAAATGTAATGTATCCCTTCCTAGGCGATCCAAGAGTAAGTAGTAACATGAAGAAATATAATG
66 TACAAATG-AATCTAACCCTTCCTAGGCAATCCAAGAGTAAGCAATAACATAAAGAAATATAATG
* * *
44335287 TCTTGGTCATGCTGTCTACATTGAATAAGCAATAATGAGCATGCAAACCTTGATGTACCCCTTGC
130 TCTTGGTCATGCTGTCCACATCGAATAAGCAATAATGAGCATGCAAACC-TGATGTACCCCTTCC
*
44335352 TAGGTGATGCATGAGTA
194 TAGGCGATGCATGAGTA
* *
44335369 AGCAATAACATGAAGAAATATAATGCATTTGTCATGTTATCTA-CATCAAGTAAGAAGTAACGAG
1 AGCAATAACATGAAGAAATATAATGCATTGGTCATGTTATC-AGCAT-AAGTAAGAAGCAACGAG
* *
44335433 TATACGAAACTG-A-CTAACACCTTCCTAGGCAATGCACA-AGTAAGCAATGACATAAAGAAATA
64 TATAC-AAA-TGAATCTAAC-CCTTCCTAGGCAATCCA-AGAGTAAGCAATAACATAAAGAAATA
* * * * * * *
44335495 TAATG-CTTTGGTCATGTTGTCCACATCGAGTAGGCAATAATGGGTATGCGAACCTGATGTGCCC
125 TAATGTC-TTGGTCATGCTGTCCACATCGAATAAGCAATAATGAGCATGCAAACCTGATGTACCC
44335559 CTTCCTAGGCGATG
189 CTTCCTAGGCGATG
44335573 AACAGGAACA
Statistics
Matches: 170, Mismatches: 27, Indels: 14
0.81 0.13 0.07
Matches are distributed among these distances:
212 66 0.39
213 98 0.58
214 4 0.02
215 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (210 bp):
AGCAATAACATGAAGAAATATAATGCATTGGTCATGTTATCAGCATAAGTAAGAAGCAACGAGTA
TACAAATGAATCTAACCCTTCCTAGGCAATCCAAGAGTAAGCAATAACATAAAGAAATATAATGT
CTTGGTCATGCTGTCCACATCGAATAAGCAATAATGAGCATGCAAACCTGATGTACCCCTTCCTA
GGCGATGCATGAGTA
Found at i:44335562 original size:106 final size:105
Alignment explanation
Indices: 44335157--44335572 Score: 405
Period size: 106 Copynumber: 3.9 Consensus size: 105
44335147 CTTACTCTCG
* **
44335157 AGCAATAACATGAAGAAATATAATGCCTTGGTCATGTTGT-CAGCAT-GAGTAAGCAGCAATGAG
1 AGCAATAACATGAAGAAATATAATGCTTTGGTCATGTTGTCCA-CATCGAGTAAGCAATAATGAG
** * * *
44335220 TATGCAAATGTAATGTATCCCTTCCTAGGCGATCCAAGAGTA
65 TATGCAAACCTGATGTACCCCTTCCTAGGCGATGCAA-AGTA
* * * * * *
44335262 AGTAGTAACATGAAGAAATATAATG-TCTTGGTCATGCTGTCTACATTGAATAAGCAATAATGAG
1 AGCAATAACATGAAGAAATATAATGCT-TTGGTCATGTTGTCCACATCGAGTAAGCAATAATGAG
* * * *
44335326 CATGCAAACCTTGATGTACCCCTTGCTAGGTGATGCATGAGTA
65 TATGCAAACC-TGATGTACCCCTTCCTAGGCGATGCA-AAGTA
* * * *
44335369 AGCAATAACATGAAGAAATATAATGCATTT-GTCATGTTATCTACATCAAGTAAG-AAGTAACGA
1 AGCAATAACATGAAGAAATATAATGC-TTTGGTCATGTTGTCCACATCGAGTAAGCAA-TAATGA
* * * *
44335432 GTATACGAAA-CTGACT-AACACCTTCCTAGGCAATGCACAAGTA
64 GTATGC-AAACCTGA-TGTACCCCTTCCTAGGCGATGCA-AAGTA
* * * *
44335475 AGCAATGACATAAAGAAATATAATGCTTTGGTCATGTTGTCCACATCGAGTAGGCAATAATGGGT
1 AGCAATAACATGAAGAAATATAATGCTTTGGTCATGTTGTCCACATCGAGTAAGCAATAATGAGT
* *
44335540 ATGCGAACCTGATGTGCCCCTTCCTAGGCGATG
66 ATGCAAACCTGATGTACCCCTTCCTAGGCGATG
44335573 AACAGGAACA
Statistics
Matches: 249, Mismatches: 48, Indels: 27
0.77 0.15 0.08
Matches are distributed among these distances:
105 44 0.18
106 119 0.48
107 80 0.32
108 5 0.02
109 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (105 bp):
AGCAATAACATGAAGAAATATAATGCTTTGGTCATGTTGTCCACATCGAGTAAGCAATAATGAGT
ATGCAAACCTGATGTACCCCTTCCTAGGCGATGCAAAGTA
Found at i:44337833 original size:17 final size:17
Alignment explanation
Indices: 44337801--44337834 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
44337791 ATTTTATATT
*
44337801 TTGGGTAAGTTATTTAG
1 TTGGGTAAATTATTTAG
*
44337818 TTGGGTAAATTTTTTAG
1 TTGGGTAAATTATTTAG
44337835 GTCTTGAGCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (17 bp):
TTGGGTAAATTATTTAG
Found at i:44337891 original size:108 final size:108
Alignment explanation
Indices: 44337759--44337998 Score: 430
Period size: 108 Copynumber: 2.2 Consensus size: 108
44337749 TAAAATAATA
44337759 AATGCTTTATTGTATTAAATATAAATTTTAAAATTTTATATTTTGGGTAAGTTATTTAGTTGGGT
1 AATGCTTTA-TGTATTAAATATAAATTTTAAAATTTTATATTTTGGGTAAGTTATTTAGTTGGGT
44337824 AAATTTTTTAGGTCTTGAGCAATAGGTTTAATTGTTATTGGATT
65 AAATTTTTTAGGTCTTGAGCAATAGGTTTAATTGTTATTGGATT
44337868 AATGCTTTATGTATTAAATATAAATTTTAAAATTTTATATTTTGGGTAAGTTATTTAGTTGGGTA
1 AATGCTTTATGTATTAAATATAAATTTTAAAATTTTATATTTTGGGTAAGTTATTTAGTTGGGTA
44337933 AATTTTTTAGGTCTTGAGCAATAGGTTTAATTGTTATTGGATT
66 AATTTTTTAGGTCTTGAGCAATAGGTTTAATTGTTATTGGATT
* * *
44337976 AGTGATTTA-ATA-TAAATATAAAT
1 AATGCTTTATGTATTAAATATAAAT
44337999 ATAAATATAT
Statistics
Matches: 128, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
106 11 0.09
107 2 0.02
108 106 0.83
109 9 0.07
ACGTcount: A:0.33, C:0.03, G:0.17, T:0.48
Consensus pattern (108 bp):
AATGCTTTATGTATTAAATATAAATTTTAAAATTTTATATTTTGGGTAAGTTATTTAGTTGGGTA
AATTTTTTAGGTCTTGAGCAATAGGTTTAATTGTTATTGGATT
Found at i:44337941 original size:17 final size:17
Alignment explanation
Indices: 44337909--44337942 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
44337899 ATTTTATATT
*
44337909 TTGGGTAAGTTATTTAG
1 TTGGGTAAATTATTTAG
*
44337926 TTGGGTAAATTTTTTAG
1 TTGGGTAAATTATTTAG
44337943 GTCTTGAGCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (17 bp):
TTGGGTAAATTATTTAG
Found at i:44351057 original size:150 final size:156
Alignment explanation
Indices: 44350882--44351348 Score: 694
Period size: 159 Copynumber: 3.0 Consensus size: 156
44350872 GGAACTACAT
44350882 AATTCAAAAAATAAACATCATATAGATCTTCGAAATTAAAATAAAAATGCAAATAAAATCCTAAA
1 AATTCAAAAAATAAACATCATATAGATCTTCGAAATTAAAATAAAAATGCAAATAAAATCCTAAA
*
44350947 ACATCAAA-T-TAAAAAAAAGAAGGAAACAGTAACCACGAACAAAACGAAAGATTCAAAATCCAG
66 ACATCAAATTATAAAAAAAAGAAGGAAACAGTAACCACGAACAAAACGAAAGAATCAAAATCCAG
* *
44351010 GAAATACAAACAAATGGATTAAAT-C
131 GAAACACAAACAAATGAATTAAATAC
*
44351035 -A-T-AAAAAATAAACATCATATAGATCTTCGAAATTAAAATTAAAATGCAAATAAAATCCTAAA
1 AATTCAAAAAATAAACATCATATAGATCTTCGAAATTAAAATAAAAATGCAAATAAAATCCTAAA
* *
44351097 ACATCAAATTATAAAAAGAAAAAAAGAAGAGGAAACAGTAACAACGAACAAAACGAAAGACTCAA
66 ACATCAAATTAT----A-AAAAAAAG-A-AGGAAACAGTAACCACGAACAAAACGAAAGAATCAA
* *
44351162 AATCTAGGAAACACAAACAAAAGAATTAAATCAC
124 AATCCAGGAAACACAAACAAATGAATTAAAT-AC
* *
44351196 AATTCAAAAAATAAACATCATATGGATCTTCGAAATTAAAATAAAAATGCAAATAAGATCCTAAA
1 AATTCAAAAAATAAACATCATATAGATCTTCGAAATTAAAATAAAAATGCAAATAAAATCCTAAA
*
44351261 ACATCAAATTATAAAAATAAAAAAGGAAACAGTAACCACGAACAAAACGAAAGAATCAAAATCCA
66 ACATCAAATTATAAAAA-AAAGAAGGAAACAGTAACCACGAACAAAACGAAAGAATCAAAATCCA
*
44351326 GGAAACAAACAACAAATGAATTA
130 GGAAACACA-AACAAATGAATTA
44351349 GTAGATAAAA
Statistics
Matches: 282, Mismatches: 16, Indels: 26
0.87 0.05 0.08
Matches are distributed among these distances:
150 67 0.24
151 2 0.01
152 2 0.01
156 1 0.00
157 8 0.03
158 48 0.17
159 78 0.28
160 4 0.01
161 1 0.00
162 1 0.00
163 1 0.00
164 69 0.24
ACGTcount: A:0.59, C:0.14, G:0.09, T:0.18
Consensus pattern (156 bp):
AATTCAAAAAATAAACATCATATAGATCTTCGAAATTAAAATAAAAATGCAAATAAAATCCTAAA
ACATCAAATTATAAAAAAAAGAAGGAAACAGTAACCACGAACAAAACGAAAGAATCAAAATCCAG
GAAACACAAACAAATGAATTAAATAC
Found at i:44351423 original size:2 final size:2
Alignment explanation
Indices: 44351416--44351445 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
44351406 TAGAGGAAAC
44351416 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
44351446 TTGAAGCTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:44354702 original size:17 final size:17
Alignment explanation
Indices: 44354677--44354711 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
44354667 ATTTAATCTT
*
44354677 TATATTTTAATTTCTAA
1 TATAATTTAATTTCTAA
*
44354694 TATAATTTAATTTTTAA
1 TATAATTTAATTTCTAA
44354711 T
1 T
44354712 GTTATTAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (17 bp):
TATAATTTAATTTCTAA
Found at i:44354746 original size:28 final size:26
Alignment explanation
Indices: 44354678--44354758 Score: 87
Period size: 28 Copynumber: 3.1 Consensus size: 26
44354668 TTTAATCTTT
* *
44354678 ATATTTTAAT-TT-CTAATATAATTTA
1 ATATTTTAATGTTATTAAT-TAGTTTA
44354703 AT-TTTTAATGTTATTAATTAGTTTA
1 ATATTTTAATGTTATTAATTAGTTTA
*
44354728 ATATTTTATGATGTTATTAATTAGTTAA
1 ATATTTTA--ATGTTATTAATTAGTTTA
44354756 ATA
1 ATA
44354759 GTTAATATAG
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
24 7 0.15
25 12 0.25
26 9 0.19
28 20 0.42
ACGTcount: A:0.37, C:0.01, G:0.06, T:0.56
Consensus pattern (26 bp):
ATATTTTAATGTTATTAATTAGTTTA
Found at i:44354771 original size:28 final size:28
Alignment explanation
Indices: 44354710--44354764 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
44354700 TTAATTTTTA
* * *
44354710 ATGTTATTAATTAGTTTAATATTTTATG
1 ATGTTATTAATTAGTTAAATAGTTAATG
44354738 ATGTTATTAATTAGTTAAATAGTTAAT
1 ATGTTATTAATTAGTTAAATAGTTAAT
44354765 ATAGTTAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (28 bp):
ATGTTATTAATTAGTTAAATAGTTAATG
Found at i:44356060 original size:38 final size:38
Alignment explanation
Indices: 44356009--44356084 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
44355999 ATTTTAAACT
*
44356009 TATTATCTTTTTGAAATATAAAATTATTAAAATTATTA
1 TATTATCTTTTTGAAATATAAAAGTATTAAAATTATTA
*
44356047 TATTATTTTTTTGAAATATAAAAGTATTAAAATTATTA
1 TATTATCTTTTTGAAATATAAAAGTATTAAAATTATTA
44356085 ATTTCCAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (38 bp):
TATTATCTTTTTGAAATATAAAAGTATTAAAATTATTA
Found at i:44358345 original size:42 final size:43
Alignment explanation
Indices: 44358297--44358393 Score: 128
Period size: 42 Copynumber: 2.3 Consensus size: 43
44358287 CTATACGAAT
**
44358297 GGCACTAAGTGTGA-GAAA-ATAAAACGACGATGTTGAATAACG
1 GGCACTAAGTGTGACGAAACA-AAAACGACGATGTCAAATAACG
* *
44358339 GGCACTAAGTGT-ACGAAACAAAAATGGCGATGTCAAATAACG
1 GGCACTAAGTGTGACGAAACAAAAACGACGATGTCAAATAACG
44358381 GGCACTAAGTGTG
1 GGCACTAAGTGTG
44358394 CGATACCAAG
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
41 1 0.02
42 46 0.96
43 1 0.02
ACGTcount: A:0.40, C:0.14, G:0.27, T:0.19
Consensus pattern (43 bp):
GGCACTAAGTGTGACGAAACAAAAACGACGATGTCAAATAACG
Found at i:44358868 original size:50 final size:48
Alignment explanation
Indices: 44358796--44358978 Score: 217
Period size: 50 Copynumber: 3.8 Consensus size: 48
44358786 GGCAGTGAGT
44358796 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACACAGACCGATGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACAC-GA-CGATGA
* * * *
44358846 GTGCTAGTGTAAGACCATGTCTGAGACATGGCATCGGCATGGACAGAGGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACA-CGAC-GATGA
* * * *
44358896 GAG-TCAGTGTAAGACCATGTCTGGGACATGACATCGTCTCGA-GATGA
1 GTGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGACACGACGATGA
* *
44358943 GTGCCAGTGTAAGACCATGTCTAGGACATGGCATCG
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
44358979 GCACTGATAT
Statistics
Matches: 114, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
47 35 0.31
49 4 0.04
50 75 0.66
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.21
Consensus pattern (48 bp):
GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACACGACGATGA
Found at i:44358975 original size:97 final size:99
Alignment explanation
Indices: 44358801--44358981 Score: 287
Period size: 97 Copynumber: 1.8 Consensus size: 99
44358791 TGAGTGTGCT
* *
44358801 AGTGTAAGACCATGTCTGGGACATGGCATCGACACAGACCGATGAGTGCTAGTGTAAGACCATGT
1 AGTGTAAGACCATGTCTGGGACATGACATCGACACAGA-CGATGAGTGCCAGTGTAAGACCATGT
44358866 CTGAGACATGGCATCGGCATGGACAGAGGAGAGTC
65 CTGAGACATGGCATCGGCATGGACAGAGGAGAGTC
* *
44358901 AGTGTAAGACCATGTCTGGGACATGACATCGTCTC-GA-GATGAGTGCCAGTGTAAGACCATGTC
1 AGTGTAAGACCATGTCTGGGACATGACATCGACACAGACGATGAGTGCCAGTGTAAGACCATGTC
44358964 T-AGGACATGGCATCGGCA
66 TGA-GACATGGCATCGGCA
44358982 CTGATATGTG
Statistics
Matches: 76, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
96 1 0.01
97 41 0.54
99 2 0.03
100 32 0.42
ACGTcount: A:0.28, C:0.20, G:0.31, T:0.20
Consensus pattern (99 bp):
AGTGTAAGACCATGTCTGGGACATGACATCGACACAGACGATGAGTGCCAGTGTAAGACCATGTC
TGAGACATGGCATCGGCATGGACAGAGGAGAGTC
Done.