Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 314 of 362
Found at i:104896006 original size:3 final size:3
Alignment explanation
Indices: 104895998--104896044 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
104895988 GAAATATAGA
* * *
104895998 AAT AAT AAT AAT AAT AAT AAT AAC ATT AAT AAT AAT AAT ACT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
104896045 AATTACTAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:104899597 original size:28 final size:28
Alignment explanation
Indices: 104899566--104899629 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 28
104899556 TTATTTTTTA
*
104899566 AAATTATTAAATAATA-TAAT-TTCATTTC
1 AAATTATTAAATAAGACTAATATT-A-TTC
* *
104899594 AAATAATTAATTAAGACTAATATTATTC
1 AAATTATTAAATAAGACTAATATTATTC
104899622 AAATTATT
1 AAATTATT
104899630 GAACTTAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
28 23 0.77
29 5 0.17
30 2 0.07
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (28 bp):
AAATTATTAAATAAGACTAATATTATTC
Found at i:104904465 original size:18 final size:18
Alignment explanation
Indices: 104904442--104904478 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
104904432 CACTAAATCC
104904442 ACATTTGCCAAGTACTGA
1 ACATTTGCCAAGTACTGA
104904460 ACATTTGCCAAGTACTGA
1 ACATTTGCCAAGTACTGA
104904478 A
1 A
104904479 GTATTTGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (18 bp):
ACATTTGCCAAGTACTGA
Found at i:104905270 original size:28 final size:28
Alignment explanation
Indices: 104905239--104905305 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
104905229 AGTTTTTGGC
* *
104905239 TTTAGGGTTTAGTC-TTTAATATTTTAAG
1 TTTAGGGTTTAG-CATTTAAGATTTAAAG
* *
104905267 TTTAGGGTGTAGCATTTAAGGTTTAAAG
1 TTTAGGGTTTAGCATTTAAGATTTAAAG
*
104905295 TTTAGGATTTA
1 TTTAGGGTTTA
104905306 TGTATTTTGA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
27 1 0.03
28 31 0.97
ACGTcount: A:0.27, C:0.03, G:0.22, T:0.48
Consensus pattern (28 bp):
TTTAGGGTTTAGCATTTAAGATTTAAAG
Found at i:104907650 original size:14 final size:15
Alignment explanation
Indices: 104907614--104907651 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
104907604 AGGGTTAAGA
104907614 TTTATGGTTTCATGT
1 TTTATGGTTTCATGT
*
104907629 TTT-GGGTTT-ATGT
1 TTTATGGTTTCATGT
104907642 TTTATGGTTT
1 TTTATGGTTT
104907652 GAGTTTAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
13 7 0.35
14 10 0.50
15 3 0.15
ACGTcount: A:0.11, C:0.03, G:0.24, T:0.63
Consensus pattern (15 bp):
TTTATGGTTTCATGT
Found at i:104907652 original size:20 final size:21
Alignment explanation
Indices: 104907614--104907658 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
104907604 AGGGTTAAGA
* *
104907614 TTTATGGTTTCATGTTTTGGG
1 TTTATGGTTTCATGGTTTGAG
*
104907635 TTTAT-GTTTTATGGTTTGAG
1 TTTATGGTTTCATGGTTTGAG
104907655 TTTA
1 TTTA
104907659 AAGTTTTGGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.13, C:0.02, G:0.24, T:0.60
Consensus pattern (21 bp):
TTTATGGTTTCATGGTTTGAG
Found at i:104939268 original size:15 final size:15
Alignment explanation
Indices: 104939248--104939277 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
104939238 TAGAACAATT
104939248 AATATGAAAAGTTTA
1 AATATGAAAAGTTTA
*
104939263 AATATGAAAATTTTA
1 AATATGAAAAGTTTA
104939278 TTTCAAAATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (15 bp):
AATATGAAAAGTTTA
Found at i:104943042 original size:202 final size:202
Alignment explanation
Indices: 104942696--104943101 Score: 794
Period size: 202 Copynumber: 2.0 Consensus size: 202
104942686 GTGAAGATAT
104942696 TCACCAAATCATGTCATCTTACTTTGATATTATTTGCAACCATAAAAGAATTCATTTTCATTTAA
1 TCACCAAATCATGTCATCTTACTTTGATATTATTTGCAACCATAAAAGAATTCATTTTCATTTAA
* *
104942761 CTTTATTAAACCCTTGATTCTTTTTTTTTTCTATTTATGACCTTGCTCTCTTTTCATTAATATGA
66 CTTTATTAAACCCTTGATTCTTTTTTTATCCTATTTATGACCTTGCTCTCTTTTCATTAATATGA
104942826 AATTCATAGTTTTATGTTTGTGTCTAGATAATTTAGCAGTACTAAGTCTTTCCAGTTAAGGATGT
131 AATTCATAGTTTTATGTTTGTGTCTAGATAATTTAGCAGTACTAAGTCTTTCCAGTTAAGGATGT
104942891 TCGACAA
196 TCGACAA
104942898 TCACCAAATCATGTCATCTTACTTTGATATTATTTGCAACCATAAAAGAATTCATTTTCATTTAA
1 TCACCAAATCATGTCATCTTACTTTGATATTATTTGCAACCATAAAAGAATTCATTTTCATTTAA
104942963 CTTTATTAAACCCTTGATTCTTTTTTTATCCTATTTATGACCTTGCTCTCTTTTCATTAATATGA
66 CTTTATTAAACCCTTGATTCTTTTTTTATCCTATTTATGACCTTGCTCTCTTTTCATTAATATGA
104943028 AATTCATAGTTTTATGTTTGTGTCTAGATAATTTAGCAGTACTAAGTCTTTCCAGTTAAGGATGT
131 AATTCATAGTTTTATGTTTGTGTCTAGATAATTTAGCAGTACTAAGTCTTTCCAGTTAAGGATGT
104943093 TCGACAA
196 TCGACAA
104943100 TC
1 TC
104943102 TGTTCTGAGT
Statistics
Matches: 202, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
202 202 1.00
ACGTcount: A:0.28, C:0.17, G:0.10, T:0.45
Consensus pattern (202 bp):
TCACCAAATCATGTCATCTTACTTTGATATTATTTGCAACCATAAAAGAATTCATTTTCATTTAA
CTTTATTAAACCCTTGATTCTTTTTTTATCCTATTTATGACCTTGCTCTCTTTTCATTAATATGA
AATTCATAGTTTTATGTTTGTGTCTAGATAATTTAGCAGTACTAAGTCTTTCCAGTTAAGGATGT
TCGACAA
Found at i:104952358 original size:31 final size:31
Alignment explanation
Indices: 104952282--104952364 Score: 91
Period size: 31 Copynumber: 2.7 Consensus size: 31
104952272 TGAGAATTTG
104952282 ATTAAATCAAAATTTCATGTATAAAATTACAC
1 ATTAAATCAAAA-TTCATGTATAAAATTACAC
* *
104952314 A--AAATCAAAATTCATGTATACAAA-TGCAT
1 ATTAAATCAAAATTCATGTATA-AAATTACAC
* *
104952343 ATTAAATGAAAATTCATATATA
1 ATTAAATCAAAATTCATGTATA
104952365 GTTTTGAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
29 14 0.32
30 12 0.27
31 17 0.39
32 1 0.02
ACGTcount: A:0.52, C:0.11, G:0.05, T:0.33
Consensus pattern (31 bp):
ATTAAATCAAAATTCATGTATAAAATTACAC
Found at i:104955034 original size:24 final size:24
Alignment explanation
Indices: 104954999--104955052 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
104954989 TATTTTAATA
*
104954999 TATAAA-ATATAAATTTTAAATATT
1 TATAAACA-ATAAATATTAAATATT
* *
104955023 TTTAAACAATAAATATTAATTATT
1 TATAAACAATAAATATTAAATATT
104955047 TATAAA
1 TATAAA
104955053 ATTTAATTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
TATAAACAATAAATATTAAATATT
Found at i:104955400 original size:33 final size:32
Alignment explanation
Indices: 104955333--104955396 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
104955323 AGCTTATTCT
*
104955333 GCATAGCTTTTTTTCCAAAAGTGCTTTTGAAA
1 GCATAGCTTTTTTTCCAAAAATGCTTTTGAAA
* *
104955365 GCATAGCTTTTTTTTCAAAAATGTTTTTGAAA
1 GCATAGCTTTTTTTCCAAAAATGCTTTTGAAA
104955397 AGCAATGCAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (32 bp):
GCATAGCTTTTTTTCCAAAAATGCTTTTGAAA
Found at i:104956419 original size:34 final size:34
Alignment explanation
Indices: 104956381--104956445 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
104956371 ATAAATTCCA
*
104956381 ATTTAATCTAAACAAGTTTAGTTATTTTATTAGT
1 ATTTAATCTAAACAAATTTAGTTATTTTATTAGT
*
104956415 ATTTAATCTGAACAAATTTAGTTATTTTATT
1 ATTTAATCTAAACAAATTTAGTTATTTTATT
104956446 TTTTGTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.35, C:0.06, G:0.08, T:0.51
Consensus pattern (34 bp):
ATTTAATCTAAACAAATTTAGTTATTTTATTAGT
Found at i:104960600 original size:33 final size:30
Alignment explanation
Indices: 104960538--104960600 Score: 81
Period size: 33 Copynumber: 2.0 Consensus size: 30
104960528 ATTTAAATAT
**
104960538 TTTTTAAAATTTTATATATTTTATTTTTAA
1 TTTTTAAAATTTTATATAAATTATTTTTAA
104960568 TTTTTAAAATTTATATAAATAAATTATTTTTAA
1 TTTTTAAAATTT-TAT--ATAAATTATTTTTAA
104960601 AATTTTTCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 12 0.43
31 3 0.11
33 13 0.46
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (30 bp):
TTTTTAAAATTTTATATAAATTATTTTTAA
Found at i:104961294 original size:45 final size:45
Alignment explanation
Indices: 104961243--104961330 Score: 176
Period size: 45 Copynumber: 2.0 Consensus size: 45
104961233 GTACTGTAAT
104961243 GAAAAGATAGTTAAATAACATAATAGAATCCAAGACTATGGCAAA
1 GAAAAGATAGTTAAATAACATAATAGAATCCAAGACTATGGCAAA
104961288 GAAAAGATAGTTAAATAACATAATAGAATCCAAGACTATGGCA
1 GAAAAGATAGTTAAATAACATAATAGAATCCAAGACTATGGCA
104961331 TTAATATTTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.52, C:0.11, G:0.16, T:0.20
Consensus pattern (45 bp):
GAAAAGATAGTTAAATAACATAATAGAATCCAAGACTATGGCAAA
Found at i:104969540 original size:48 final size:48
Alignment explanation
Indices: 104969469--104969565 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
104969459 TAGAAAGCAA
* *
104969469 TCAGTCAGTTGAAGCGAAAGCAACAACTCTGGAAGTGCTCCACTTACT
1 TCAGTCAGTTAAAGCGAAAGCAACAACTCTCGAAGTGCTCCACTTACT
104969517 TCAGTCAGTTAAAGCGAAAGCAACAACTCTCGAAGTGCTCCACTTACT
1 TCAGTCAGTTAAAGCGAAAGCAACAACTCTCGAAGTGCTCCACTTACT
104969565 T
1 T
104969566 TTATGAATTC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.24
Consensus pattern (48 bp):
TCAGTCAGTTAAAGCGAAAGCAACAACTCTCGAAGTGCTCCACTTACT
Found at i:104971176 original size:24 final size:24
Alignment explanation
Indices: 104971143--104971192 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
104971133 GATTAAAGTT
*
104971143 TCAACGTCTTGTTTCTTCATTCTG
1 TCAACGTCTTGTTTCTTCATCCTG
*
104971167 TCAACTTCTTGTTTCTTCATCCTG
1 TCAACGTCTTGTTTCTTCATCCTG
104971191 TC
1 TC
104971193 TATTGCTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.12, C:0.28, G:0.10, T:0.50
Consensus pattern (24 bp):
TCAACGTCTTGTTTCTTCATCCTG
Found at i:104971205 original size:24 final size:24
Alignment explanation
Indices: 104971143--104971205 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
104971133 GATTAAAGTT
* * *
104971143 TCAACGTCTTGTTTCTTCATTCTG
1 TCAACTTCTTATTTCTTCATCCTG
*
104971167 TCAACTTCTTGTTTCTTCATCCTG
1 TCAACTTCTTATTTCTTCATCCTG
*
104971191 TCTA-TTGCTTATTTC
1 TCAACTT-CTTATTTC
104971206 ATCACATCCA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 2 0.06
24 32 0.94
ACGTcount: A:0.13, C:0.25, G:0.10, T:0.52
Consensus pattern (24 bp):
TCAACTTCTTATTTCTTCATCCTG
Found at i:104974094 original size:23 final size:23
Alignment explanation
Indices: 104974067--104974111 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
104974057 ACATATGATA
104974067 TTTATCATACACTTGTATTTATT
1 TTTATCATACACTTGTATTTATT
*
104974090 TTTATCATACACTTGTCTTTAT
1 TTTATCATACACTTGTATTTAT
104974112 ATGCACTCAT
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:0.24, C:0.16, G:0.04, T:0.56
Consensus pattern (23 bp):
TTTATCATACACTTGTATTTATT
Found at i:104976486 original size:54 final size:54
Alignment explanation
Indices: 104976404--104976513 Score: 220
Period size: 54 Copynumber: 2.0 Consensus size: 54
104976394 ATATTGCATG
104976404 TAATTTCCATGCTACACATCCATACTTGATCTATGTCATTTGGTTGTGTTAATA
1 TAATTTCCATGCTACACATCCATACTTGATCTATGTCATTTGGTTGTGTTAATA
104976458 TAATTTCCATGCTACACATCCATACTTGATCTATGTCATTTGGTTGTGTTAATA
1 TAATTTCCATGCTACACATCCATACTTGATCTATGTCATTTGGTTGTGTTAATA
104976512 TA
1 TA
104976514 CGTGATCATG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.43
Consensus pattern (54 bp):
TAATTTCCATGCTACACATCCATACTTGATCTATGTCATTTGGTTGTGTTAATA
Found at i:104981168 original size:25 final size:25
Alignment explanation
Indices: 104981140--104981190 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
104981130 ACATTCAATG
104981140 TGTTACATTTTTGCACGACATAGTA
1 TGTTACATTTTTGCACGACATAGTA
104981165 TGTTACATTTTTGCACGACATAGTA
1 TGTTACATTTTTGCACGACATAGTA
104981190 T
1 T
104981191 AACTCATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (25 bp):
TGTTACATTTTTGCACGACATAGTA
Found at i:104989918 original size:32 final size:32
Alignment explanation
Indices: 104989877--104989940 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
104989867 AGATCTAAAC
104989877 AGATTAGAGGAAAGTTAAGATTGGTATTTAAT
1 AGATTAGAGGAAAGTTAAGATTGGTATTTAAT
104989909 AGATTAGAGGAAAGTTAAGATTGGTATTTAAT
1 AGATTAGAGGAAAGTTAAGATTGGTATTTAAT
104989941 TACCAACCCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.25, T:0.34
Consensus pattern (32 bp):
AGATTAGAGGAAAGTTAAGATTGGTATTTAAT
Found at i:104993879 original size:6 final size:6
Alignment explanation
Indices: 104993868--104993894 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
104993858 CAAAGCCAGG
104993868 AAAGAA AAAGAA AAAGAA AAAGAA AAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAA
104993895 CTCAACTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:104997033 original size:46 final size:46
Alignment explanation
Indices: 104996966--104997058 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
104996956 TCTTGAAGCA
104996966 TAGGCTATTACTTTCCCCTCTTGCATCAAGACATAACCTAAACTAT
1 TAGGCTATTACTTTCCCCTCTTGCATCAAGACATAACCTAAACTAT
104997012 TAGGCTATTACTTTCCCCTCTTGCATCAAGACATAACCTAAACTAT
1 TAGGCTATTACTTTCCCCTCTTGCATCAAGACATAACCTAAACTAT
104997058 T
1 T
104997059 TAATGATGCA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (46 bp):
TAGGCTATTACTTTCCCCTCTTGCATCAAGACATAACCTAAACTAT
Found at i:105002712 original size:715 final size:716
Alignment explanation
Indices: 105001306--105002736 Score: 2481
Period size: 715 Copynumber: 2.0 Consensus size: 716
105001296 CCAGAGAAGA
*
105001306 TGCCTCAGCACCCGATGTTATTACTGGTACATTTTCTTTACTTGACACTGATATTTCTACATTAA
1 TGCCTCAGCACCCAATGTTATTACTGGTACATTTTCTTTACTTGACACTGATATTTCTACATTAA
*
105001371 TTGATCCCAGTTCTACGCATTCATATATATGTATAAAGCTTGCATGTGTTAAAGATTTATTTATT
66 TTGATCCCAGTTCTACGCATTCATATATATGTATAAAGCTTGCATGTGTTAAAGATTTATCTATT
*
105001436 AAACCTATTAAATTTGTGGTTAAAGTCTCGAACCCCCTGGGTCAATCTGTTTTGATGGATAAAAT
131 AAACCTATTAAATTTGTGGTTAAAGTCTCGAACCCCCTGAGTCAATCTGTTTTGATGGATAAAAT
* *
105001501 TTGTAAAAATTGTCTACTGATGGTAAAAGGTTATTATTTCCCAGCTGATTTGATGTTACTGCCAT
196 TTGTAAAAATTGTCCACTAATGGTAAAAGGTTATTATTTCCCAGCTGATTTGATGTTACTGCCAT
* *
105001566 TTGATGCATTTAACGTGATATTGGGCATGGATTGGCTAACCTAGCATGATGCAATAGTAAATTGT
261 TTGATGAATTTAACGTGATATTGGGCATGGATTGGCTAACCCAGCATGATGCAATAGTAAATTGT
*
105001631 AGACAAAAATATATTATGCTAAAATGTCAAAATGGTGAGTTGCTCCGGGTTAAATCTGATCAGAC
326 AGACAAAAATATATTATGCTAAAATGTCAAAATGGTGAGTTGCTCCAGGTTAAATCTGATCAGAC
* ** * *
105001696 AGATGGGTTATTTGATGTGATTTCAGTAATGGCAGCACAGAGGTATATAAAAAAAAGTATGATGC
391 AGAAGGGTTAACTAATGTGATTTCAGTAATGGCAGCACAAAGGTATATAAAAAAAAGTATGATGC
105001761 TTACTTGACTTATGTACTCGACACCAAGGTATCTGAGTCAAAGATACAGGCAGTGCCAGTGGTAT
456 TTACTTGACTTATGTACTCGACACCAAGGTATCTGAGTCAAAGATACAGGCAGTGCCAGTGGTAT
* * * *
105001826 GCAAATTTTCCAATGTGTTTCCAGCGGAATTACCAGGGTTGCCACTAGAAAGAGAAGTGGAAATT
521 GCAAATTTTCCAATGTGTTTCCAGAGGAATTACCAGGGTTGCCACCAAAAAGAGAAGTGAAAATT
* *
105001891 TCTATAGATTTGATTCCGGAAACTACTCTGATTTCCATAGCTCCGTACCGGATGGCTCCTACAGA
586 TCTATAGATTTGATTCCGGAAACTACTCCGATTTCCATAGCTCCGTACCAGATGGCTCCTACAGA
105001956 ATTAAAGGAGTTAAAGATACAGTTGCAAGAACTTGTTGACAGGGGTTTTGTCCGACCGAATCATT
651 ATTAAAGGAGTTAAAGATACAGTTGCAAGAACTTGTTGACAGGGGTTTTGTCCGACCGAATCATT
105002021 C
716 C
*
105002022 TGCCTCAGCACCCAATGTTATTACTGGTACATTTT-TTTACTTGACACTGATATTAT-TGCATTA
1 TGCCTCAGCACCCAATGTTATTACTGGTACATTTTCTTTACTTGACACTGATATT-TCTACATTA
*
105002085 ATTGATCCCGGTTCTACGCATTCATATATATGTATAAAGCTTGCATGTGTTAAAGATTTATCTAT
65 ATTGATCCCAGTTCTACGCATTCATATATATGTATAAAGCTTGCATGTGTTAAAGATTTATCTAT
* *
105002150 TGAACCTATTAAATTTGTGGTTAAAGTCTCGAACCCCTTGAGTCAATCTGTTTTGATGGATAAAA
130 TAAACCTATTAAATTTGTGGTTAAAGTCTCGAACCCCCTGAGTCAATCTGTTTTGATGGATAAAA
* *
105002215 TTTGTAAAAATTGTCCACTAATGGTAAAAGGTTATTGTTTCCCGGCTGATTTGATGTTACTGCCA
195 TTTGTAAAAATTGTCCACTAATGGTAAAAGGTTATTATTTCCCAGCTGATTTGATGTTACTGCCA
* *
105002280 TTTGATGAATTTGACGTGATATTGGGCATGGATTGGCTAACCCAGCATGATGCAGTAGTAAATTG
260 TTTGATGAATTTAACGTGATATTGGGCATGGATTGGCTAACCCAGCATGATGCAATAGTAAATTG
* * *
105002345 TAGACAGAAATATATTGTGCTAAAATGTCAGAATGGTGAGTTGCTCCAGGTTAAATCTGATCAGA
325 TAGACAAAAATATATTATGCTAAAATGTCAAAATGGTGAGTTGCTCCAGGTTAAATCTGATCAGA
* *
105002410 CAGAAGGGTTAACTAATGTGATTTCAGTAATGGCAGCACAAAGGTATGTCAAAAAAAGTATGATG
390 CAGAAGGGTTAACTAATGTGATTTCAGTAATGGCAGCACAAAGGTATATAAAAAAAAGTATGATG
*
105002475 CTTACTTGACTTATGTACTCGACACCAAGGTATCTGAGTCAAAGATACAGGCAGTTCCAGTGGTA
455 CTTACTTGACTTATGTACTCGACACCAAGGTATCTGAGTCAAAGATACAGGCAGTGCCAGTGGTA
*
105002540 TGCAAATTTTCCGATGTGTTTCCAGAGGAATTACCAGGGTTGCCACCAAAAAGAGAAGTGAAAAT
520 TGCAAATTTTCCAATGTGTTTCCAGAGGAATTACCAGGGTTGCCACCAAAAAGAGAAGTGAAAAT
*
105002605 TTCTATAGATTTGATTCC-GAGAACTACTCCGATTTTCATAGCTCCGTACCAGATGGCTCCTACA
585 TTCTATAGATTTGATTCCGGA-AACTACTCCGATTTCCATAGCTCCGTACCAGATGGCTCCTACA
* * *
105002669 GAATTAAATGATTTAAAGATACAGTTGCAAGAACTTGTTGACAGGGGTTTTGTCCGACCGAGTCA
649 GAATTAAAGGAGTTAAAGATACAGTTGCAAGAACTTGTTGACAGGGGTTTTGTCCGACCGAATCA
105002734 TTC
714 TTC
105002737 ACATTGGGGT
Statistics
Matches: 675, Mismatches: 38, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
714 2 0.00
715 638 0.95
716 35 0.05
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.33
Consensus pattern (716 bp):
TGCCTCAGCACCCAATGTTATTACTGGTACATTTTCTTTACTTGACACTGATATTTCTACATTAA
TTGATCCCAGTTCTACGCATTCATATATATGTATAAAGCTTGCATGTGTTAAAGATTTATCTATT
AAACCTATTAAATTTGTGGTTAAAGTCTCGAACCCCCTGAGTCAATCTGTTTTGATGGATAAAAT
TTGTAAAAATTGTCCACTAATGGTAAAAGGTTATTATTTCCCAGCTGATTTGATGTTACTGCCAT
TTGATGAATTTAACGTGATATTGGGCATGGATTGGCTAACCCAGCATGATGCAATAGTAAATTGT
AGACAAAAATATATTATGCTAAAATGTCAAAATGGTGAGTTGCTCCAGGTTAAATCTGATCAGAC
AGAAGGGTTAACTAATGTGATTTCAGTAATGGCAGCACAAAGGTATATAAAAAAAAGTATGATGC
TTACTTGACTTATGTACTCGACACCAAGGTATCTGAGTCAAAGATACAGGCAGTGCCAGTGGTAT
GCAAATTTTCCAATGTGTTTCCAGAGGAATTACCAGGGTTGCCACCAAAAAGAGAAGTGAAAATT
TCTATAGATTTGATTCCGGAAACTACTCCGATTTCCATAGCTCCGTACCAGATGGCTCCTACAGA
ATTAAAGGAGTTAAAGATACAGTTGCAAGAACTTGTTGACAGGGGTTTTGTCCGACCGAATCATT
C
Found at i:105010173 original size:22 final size:22
Alignment explanation
Indices: 105010108--105010173 Score: 53
Period size: 22 Copynumber: 3.0 Consensus size: 22
105010098 TAAAAATGAT
* *
105010108 AAAATTTTGATTTAATCCTT-TA
1 AAAATTATGATTTAAT-ATTGTA
** *
105010130 AAAATTATTTTTTTACTATTGTA
1 AAAATTA-TGATTTAATATTGTA
*
105010153 AAAATTATGATTTAATTTTGT
1 AAAATTATGATTTAATATTGT
105010174 CTCCTCCTAA
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
22 18 0.55
23 15 0.45
ACGTcount: A:0.36, C:0.05, G:0.06, T:0.53
Consensus pattern (22 bp):
AAAATTATGATTTAATATTGTA
Found at i:105011068 original size:15 final size:15
Alignment explanation
Indices: 105011048--105011080 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
105011038 ATCAAAAAGA
105011048 AAAAAAAACAATAAT
1 AAAAAAAACAATAAT
105011063 AAAAAAAACAATAAT
1 AAAAAAAACAATAAT
105011078 AAA
1 AAA
105011081 GCCACATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.82, C:0.06, G:0.00, T:0.12
Consensus pattern (15 bp):
AAAAAAAACAATAAT
Found at i:105014293 original size:16 final size:16
Alignment explanation
Indices: 105014235--105014301 Score: 52
Period size: 16 Copynumber: 4.3 Consensus size: 16
105014225 TTAATAATGT
105014235 TATTAAAATATATATTA
1 TATTAAAATATA-ATTA
* *
105014252 T-TT-TATTA-AATTA
1 TATTAAAATATAATTA
*
105014265 TATT-TAATAATAATTA
1 TATTAAAAT-ATAATTA
105014281 TATTAAAATATAATTA
1 TATTAAAATATAATTA
*
105014297 AATTA
1 TATTA
105014302 TTTATTTTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
13 5 0.12
14 6 0.15
15 4 0.10
16 22 0.54
17 4 0.10
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TATTAAAATATAATTA
Found at i:105014328 original size:61 final size:56
Alignment explanation
Indices: 105014214--105014355 Score: 142
Period size: 61 Copynumber: 2.4 Consensus size: 56
105014204 TAAATATTAT
* * * *
105014214 TAATAATTATATTAATAATGTTATTAAAATATATATTATTTTATTAAATTATATTTAA
1 TAATAATTATATTAA-AATATAATTAAAATATATATTATTTTATTAAAATATATGT-A
* *
105014272 TAATAATTATATTAAAATATAATTAAATTATTTATTTTTATTTTTATTAAAATATATGTA
1 TAATAATTATATTAAAATATAATTAAA--ATATA-TATTA-TTTTATTAAAATATATGTA
*
105014332 TCAATAATCT-TATTAAAATTTAAT
1 T-AATAAT-TATATTAAAATATAAT
105014356 AACAATAATC
Statistics
Matches: 71, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
57 10 0.14
58 15 0.21
59 4 0.06
60 6 0.08
61 35 0.49
62 1 0.01
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (56 bp):
TAATAATTATATTAAAATATAATTAAAATATATATTATTTTATTAAAATATATGTA
Found at i:105014506 original size:44 final size:46
Alignment explanation
Indices: 105014436--105014529 Score: 149
Period size: 44 Copynumber: 2.1 Consensus size: 46
105014426 ATTACAACAT
105014436 CATTCCATTCAACCAAACATAAGAATT-CT-ATTACAGCTCTATTC
1 CATTCCATTCAACCAAACATAAGAATTACTGATTACAGCTCTATTC
*
105014480 CATTCCATTCAACCAAACAGT-TGAATTACTGATTACAGCTCTATTC
1 CATTCCATTCAACCAAACA-TAAGAATTACTGATTACAGCTCTATTC
105014526 CATT
1 CATT
105014530 ACAGCTCTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
44 24 0.52
45 3 0.07
46 19 0.41
ACGTcount: A:0.34, C:0.27, G:0.06, T:0.33
Consensus pattern (46 bp):
CATTCCATTCAACCAAACATAAGAATTACTGATTACAGCTCTATTC
Found at i:105014532 original size:16 final size:16
Alignment explanation
Indices: 105014511--105014565 Score: 76
Period size: 16 Copynumber: 3.4 Consensus size: 16
105014501 TGAATTACTG
105014511 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
105014527 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
105014543 ATTAGAGC-CTTATTCC
1 ATTACAGCTC-TATTCC
105014559 ATTACAG
1 ATTACAG
105014566 TGAACCAAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
15 1 0.03
16 33 0.97
ACGTcount: A:0.29, C:0.25, G:0.09, T:0.36
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:105016647 original size:22 final size:23
Alignment explanation
Indices: 105016604--105016650 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
105016594 CAATTATGAA
*
105016604 TTTTGTTCTTGTACTTGGAAATT
1 TTTTGTTCTTGTACTTAGAAATT
* *
105016627 TTTTGTT-TTGTATTTATAAATT
1 TTTTGTTCTTGTACTTAGAAATT
105016649 TT
1 TT
105016651 AAAATTACAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.19, C:0.04, G:0.13, T:0.64
Consensus pattern (23 bp):
TTTTGTTCTTGTACTTAGAAATT
Found at i:105017669 original size:31 final size:30
Alignment explanation
Indices: 105017631--105017698 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
105017621 ATTTTTTTTG
* *
105017631 TATTTTTAAAATTTTTAAAATTTTCGGATTT
1 TATTTTTAAAA-ATATAAAATTTTCGGATTT
** *
105017662 TATTTTTAAAAATATACTATTTTCGTATTT
1 TATTTTTAAAAATATAAAATTTTCGGATTT
105017692 TATTTTT
1 TATTTTT
105017699 TATATTATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 21 0.66
31 11 0.34
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.60
Consensus pattern (30 bp):
TATTTTTAAAAATATAAAATTTTCGGATTT
Found at i:105017906 original size:152 final size:151
Alignment explanation
Indices: 105017641--105018055 Score: 715
Period size: 152 Copynumber: 2.7 Consensus size: 151
105017631 TATTTTTAAA
105017641 ATTTTTAAAATTTTCGGATTTTATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTATATTA
1 ATTTTTAAAATTTTCGGATTTTATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTATATTA
* *
105017706 TTTTAGTACATAATGTTTCAAATATATTATTTTAGTATTTTTTATATTAATTTAGTAAATAACCC
66 TTTTAGTACATAATGTTTCAAATATATTATTTTAGTGTTTTTTATATTAATTTAATAAATAACCC
*
105017771 TGATTTTGGCCATTTGTTTGT
131 TGATTTTGGCCATTTCTTTGT
*
105017792 ATTTTTAAAATTTTCGGATTTTATTTTTAAAAATATACTATTTTTGTATTTTATTTTTTTATATT
1 ATTTTTAAAATTTTCGGATTTTATTTTTAAAAATATACTATTTTCGTATTTTA-TTTTTTATATT
105017857 ATTTTAGTACATAATGTTTCAAATATATTATTTTAGTGTTTTTTATATTAATTTAATAAATAACC
65 ATTTTAGTACATAATGTTTCAAATATATTATTTTAGTGTTTTTTATATTAATTTAATAAATAACC
*
105017922 CTGATTTTGGCCCTTTCTTTGT
130 CTGATTTTGGCCATTTCTTTGT
* * *
105017944 ATTTTTAATATTTTTGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTATATTA
1 ATTTTTAAAATTTTCGGATTTTATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTATATTA
* *
105018008 TTTTAGTACATAATGTTTTAAATGTATTATTTTAGTGTTTTTTTATAT
66 TTTTAGTACATAATGTTTCAAATATATTATTTTAGTG-TTTTTTATAT
105018056 AAAAAACCGA
Statistics
Matches: 251, Mismatches: 11, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
150 46 0.18
151 62 0.25
152 143 0.57
ACGTcount: A:0.29, C:0.06, G:0.07, T:0.58
Consensus pattern (151 bp):
ATTTTTAAAATTTTCGGATTTTATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTATATTA
TTTTAGTACATAATGTTTCAAATATATTATTTTAGTGTTTTTTATATTAATTTAATAAATAACCC
TGATTTTGGCCATTTCTTTGT
Found at i:105029695 original size:3 final size:3
Alignment explanation
Indices: 105029687--105029712 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
105029677 CATTCATTAT
105029687 ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG AT
105029713 ACAGAGAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.35
Consensus pattern (3 bp):
ATG
Found at i:105045967 original size:26 final size:27
Alignment explanation
Indices: 105045935--105046004 Score: 74
Period size: 26 Copynumber: 2.6 Consensus size: 27
105045925 ACCTATGCTC
105045935 TTATTAAAAATTAGAAAAATTATT-AAA
1 TTATTAAAAATTAGAAAAATT-TTAAAA
* *
105045962 TT-TTAATAAA-AATAAAAATTTTAAAA
1 TTATTAA-AAATTAGAAAAATTTTAAAA
*
105045988 TTATTAGAAATTAGAAA
1 TTATTAAAAATTAGAAA
105046005 TTAGATTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
25 2 0.06
26 20 0.59
27 12 0.35
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (27 bp):
TTATTAAAAATTAGAAAAATTTTAAAA
Found at i:105046324 original size:19 final size:19
Alignment explanation
Indices: 105046302--105046383 Score: 60
Period size: 19 Copynumber: 4.3 Consensus size: 19
105046292 TTCCTATATA
**
105046302 TTTTATAATTTTTTATGAT
1 TTTTATAATTTTTTACAAT
**
105046321 TTTTATAAAATTTTACAAT
1 TTTTATAATTTTTTACAAT
* *
105046340 ATTTTATATTTCTTTTACGA-
1 -TTTTATAATT-TTTTACAAT
*
105046360 TTTTAT-ATTTTTTTCTAAT
1 TTTTATAATTTTTTAC-AAT
105046379 TTTTA
1 TTTTA
105046384 ATATTTGATT
Statistics
Matches: 48, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
17 5 0.10
18 3 0.06
19 26 0.54
20 7 0.15
21 7 0.15
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTTATAATTTTTTACAAT
Found at i:105046344 original size:29 final size:28
Alignment explanation
Indices: 105046265--105046350 Score: 93
Period size: 29 Copynumber: 3.0 Consensus size: 28
105046255 TTCTTATGAC
*
105046265 TTTATAAAATTTTACATTTTTTTTATATT
1 TTTATAAAATTTTACA-ATTTTTTATATT
** * *
105046294 CCTAT-ATATTTTATAATTTTTTATGATT
1 TTTATAAAATTTTACAATTTTTTAT-ATT
*
105046322 TTTATAAAATTTTACAATATTTTATATT
1 TTTATAAAATTTTACAATTTTTTATATT
105046350 T
1 T
105046351 CTTTTACGAT
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
27 8 0.18
28 18 0.40
29 19 0.42
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.62
Consensus pattern (28 bp):
TTTATAAAATTTTACAATTTTTTATATT
Found at i:105046370 original size:57 final size:56
Alignment explanation
Indices: 105046202--105046383 Score: 179
Period size: 57 Copynumber: 3.1 Consensus size: 56
105046192 TGGTGCGATA
*
105046202 ATTTTTATAAATATTTTTCACAA-AATTTATATTTCTTTACATTTTGTATAATTTTCTTATG
1 ATTTTTATAAA-A-TTTT-ACAATATTTTATATTTCTTTACA-TTT-TATAATTTT-TTATG
* * * * * *
105046263 A-CTTTATAAAATTTTACATTTTTTTTATATTCCTATATATTTTATAATTTTTTATG
1 ATTTTTATAAAATTTTACA-ATATTTTATATTTCTTTACATTTTATAATTTTTTATG
* * *
105046319 ATTTTTATAAAATTTTACAATATTTTATATTTCTTTTACGATTTTATATTTTTTTCTA
1 ATTTTTATAAAATTTTACAATATTTTATATTTC-TTTAC-ATTTTATAATTTTTTATG
105046377 ATTTTTA
1 ATTTTTA
105046384 ATATTTGATT
Statistics
Matches: 100, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
56 17 0.17
57 31 0.31
58 29 0.29
59 14 0.14
60 8 0.08
61 1 0.01
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.60
Consensus pattern (56 bp):
ATTTTTATAAAATTTTACAATATTTTATATTTCTTTACATTTTATAATTTTTTATG
Found at i:105046373 original size:29 final size:29
Alignment explanation
Indices: 105046248--105046383 Score: 91
Period size: 29 Copynumber: 4.7 Consensus size: 29
105046238 TTACATTTTG
*
105046248 TATAATTTTCTTATGA-CTTTATAAAATTT
1 TATAATTTT-TTATGATTTTTATAAAATTT
* * ** *
105046277 TACATTTTTTTTAT-ATTCCTAT-ATATTT
1 TATA-ATTTTTTATGATTTTTATAAAATTT
105046305 TATAATTTTTTATGATTTTTATAAAATTT
1 TATAATTTTTTATGATTTTTATAAAATTT
* * * **
105046334 TACAATATTTTAT-ATTTCTTTTACGATTT
1 TATAATTTTTTATGATTT-TTATAAAATTT
* * *
105046363 TATATTTTTTTCTAATTTTTA
1 TATAATTTTTTATGATTTTTA
105046384 ATATTTGATT
Statistics
Matches: 80, Mismatches: 21, Indels: 12
0.71 0.19 0.11
Matches are distributed among these distances:
27 8 0.10
28 19 0.24
29 45 0.56
30 8 0.10
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.62
Consensus pattern (29 bp):
TATAATTTTTTATGATTTTTATAAAATTT
Found at i:105046671 original size:85 final size:85
Alignment explanation
Indices: 105046473--105046685 Score: 259
Period size: 86 Copynumber: 2.5 Consensus size: 85
105046463 TAATAAAAGT
* ** * *
105046473 AAGGGCTTAATTTCTTTTTTTGAAAAAAATTG-AGGATCTTTTTAATGCATTTTGAAAGTTTAAG
1 AAGGGCTTAATTACTTTTTTTGAAAAAGTTTGAAGGCT-TTTTTAATGCATTTTGAAAGTTCAAG
** *
105046537 TATTTAATTAAGTGCAAAAAA
65 TATCAAATGAAGTGCAAAAAA
* ** *
105046558 AAGGGGTATAATTGTTTTTTTTGAAAAAGTTTGAAGGCTTTTTTTATGCATTTTGAAAGTTCAAG
1 AAGGGCT-TAATTACTTTTTTTGAAAAAGTTTGAAGGCTTTTTTAATGCATTTTGAAAGTTCAAG
105046623 TATCCAAATGAA-TGCAAAAAA
65 TAT-CAAATGAAGTGCAAAAAA
* *
105046644 AAGGACTTAATTACTTTTTTTGAAAAAGTTTGAAGACTTTTT
1 AAGGGCTTAATTACTTTTTTTGAAAAAGTTTGAAGGCTTTTT
105046686 GCATCATTAA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
85 38 0.35
86 62 0.57
87 9 0.08
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.41
Consensus pattern (85 bp):
AAGGGCTTAATTACTTTTTTTGAAAAAGTTTGAAGGCTTTTTTAATGCATTTTGAAAGTTCAAGT
ATCAAATGAAGTGCAAAAAA
Found at i:105050894 original size:20 final size:19
Alignment explanation
Indices: 105050849--105050886 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
105050839 CATCCAAACA
105050849 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
105050868 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
105050887 TTCAGAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (19 bp):
CCAGAAAAGTAAATCATTT
Found at i:105054814 original size:10 final size:9
Alignment explanation
Indices: 105054770--105054891 Score: 88
Period size: 9 Copynumber: 13.0 Consensus size: 9
105054760 TTCAAATATA
105054770 TATAATTTT
1 TATAATTTT
*
105054779 TTTACATTTTT
1 TATA-A-TTTT
*
105054790 TATAAGTTAT
1 TATAA-TTTT
105054800 TATAATTTT
1 TATAATTTT
*
105054809 TCATAATTTC
1 T-ATAATTTT
105054819 TAT-ATATTT
1 TATAAT-TTT
*
105054828 TATATTTTT
1 TATAATTTT
*
105054837 TATGATTTT
1 TATAATTTT
105054846 TATAATTTTT
1 TATAA-TTTT
105054856 TATAATTTT
1 TATAATTTT
*
105054865 CA-ATATTTT
1 TATA-ATTTT
*
105054874 TAT-ATTTG
1 TATAATTTT
105054882 TAGTAATTTT
1 TA-TAATTTT
105054892 AATTGAAAAT
Statistics
Matches: 88, Mismatches: 15, Indels: 19
0.72 0.12 0.16
Matches are distributed among these distances:
8 9 0.10
9 40 0.45
10 32 0.36
11 7 0.08
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (9 bp):
TATAATTTT
Found at i:105054853 original size:46 final size:47
Alignment explanation
Indices: 105054777--105054880 Score: 140
Period size: 46 Copynumber: 2.2 Consensus size: 47
105054767 ATATATAATT
* *
105054777 TTTTTACATTTTTTATAAGTTATTATAATTTTTCATAA-TTTCTATA
1 TTTTTATATTTTTTATAAGTTATTATAATTTTTCATAATTTTCAATA
* * *
105054823 TATTTTATATTTTTTATGA-TTTTTATAATTTTTTATAATTTTCAATA
1 T-TTTTATATTTTTTATAAGTTATTATAATTTTTCATAATTTTCAATA
105054870 TTTTTATATTT
1 TTTTTATATTT
105054881 GTAGTAATTT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
46 28 0.55
47 23 0.45
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (47 bp):
TTTTTATATTTTTTATAAGTTATTATAATTTTTCATAATTTTCAATA
Found at i:105057213 original size:24 final size:23
Alignment explanation
Indices: 105057163--105057214 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
105057153 TTTTTTCTCA
105057163 TTTTAATTTGTATAGTTCATTATT
1 TTTTAATTTGTATAG-TCATTATT
* *
105057187 TTTTAATTTGTTTAG-CATTCATC
1 TTTTAATTTGTATAGTCATT-ATT
105057210 TTTTA
1 TTTTA
105057215 TTTTTTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 4 0.16
23 7 0.28
24 14 0.56
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (23 bp):
TTTTAATTTGTATAGTCATTATT
Found at i:105062434 original size:35 final size:32
Alignment explanation
Indices: 105062361--105062436 Score: 80
Period size: 35 Copynumber: 2.3 Consensus size: 32
105062351 TATATGTTAT
* *
105062361 AATATGCGAGCTATGTAATGCGAACCCTAAGT
1 AATATGCGAGCTATGTAATACGAACCCTAAGG
* * *
105062393 ACTATGCGAGCTTATAGATATTACGAACCTTAAGG
1 AATATGCGAGC-TAT-G-TAATACGAACCCTAAGG
105062428 AATATGCGA
1 AATATGCGA
105062437 ACCTTGTGAT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
32 10 0.29
33 3 0.09
34 1 0.03
35 21 0.60
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (32 bp):
AATATGCGAGCTATGTAATACGAACCCTAAGG
Found at i:105064458 original size:44 final size:44
Alignment explanation
Indices: 105064410--105064493 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
105064400 TTGATATCTC
* *
105064410 AAAGTCCATGGTT-GTACCATGGCAATTAAGGAAGAATTGACGGA
1 AAAGTCCAT-GTTCATAACATGGCAATTAAGGAAGAATTGACGGA
* *
105064454 AAAGTCCATGTTCATAACATGGCATTTAAGGAGGAATTGA
1 AAAGTCCATGTTCATAACATGGCAATTAAGGAAGAATTGA
105064494 TGGTTAAGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 3 0.09
44 32 0.91
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.25
Consensus pattern (44 bp):
AAAGTCCATGTTCATAACATGGCAATTAAGGAAGAATTGACGGA
Found at i:105064607 original size:47 final size:45
Alignment explanation
Indices: 105064502--105064713 Score: 156
Period size: 47 Copynumber: 4.4 Consensus size: 45
105064492 GATGGTTAAG
* * * * *
105064502 GATACCATGTAAGACCATGTCAAGACATGGCATTAGTAAGACAAG
1 GATACCATGTAAGACCATGTTAGGACATGGCATTGGTAAGATAAA
* *
105064547 GATACCATATAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAA
1 GATACCATGTAAGACCATGTTAGG-ACATGGCA-TTGGTAAGATAAA
* *** *
105064594 GATATCATGTAAGACCATACCAAGG-CATGGCATTGATAAGTTCTATAAGACAA
1 GATACCATGTAAGACCAT-GTTAGGACATGGCATTGGTAAG----AT---A-AA
* *
105064647 GGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAG
1 -GATACCATGTAAGACCATGTTAGG-ACATGGCA-TTGGTAAGATAAA
*
105064695 GATATCATGTAAGACCATG
1 GATACCATGTAAGACCATG
105064714 CCAAGGCATG
Statistics
Matches: 130, Mismatches: 22, Indels: 28
0.72 0.12 0.16
Matches are distributed among these distances:
45 27 0.21
46 15 0.12
47 44 0.34
48 3 0.02
49 3 0.02
52 3 0.02
53 4 0.03
54 17 0.13
55 7 0.05
56 7 0.05
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (45 bp):
GATACCATGTAAGACCATGTTAGGACATGGCATTGGTAAGATAAA
Found at i:105064657 original size:54 final size:54
Alignment explanation
Indices: 105064585--105064899 Score: 247
Period size: 54 Copynumber: 6.0 Consensus size: 54
105064575 TGGCATTTGG
* * * *
105064585 TAAGATAAAGATATCATGTAAGACCATACCAAGGCATGGCATTGATAAGTTCTA
1 TAAGACAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
*** *
105064639 TAAGACAAGGATACCATGTAAGACCATG-TTTGGAACATGGCATT--T--G----G
1 TAAGACAAGGATACCATGTAAGACCATGCCAAGG--CATGGCATTGATAAGTTCTA
* *
105064686 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
1 TAAGACAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
* * * ** * * *
105064740 TAAGGCAAGGAAATCATGTAAGACCATGTTAAGACATTGCATTGATGAGTTACTA
1 TAAGACAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTT-CTA
* * * * *
105064795 TAAGGCAAAGG-TCCCATGTAAGACCATGCCAAGGCATGACATTGGTGAGTT-TA
1 TAAGAC-AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
* * * * * * *
105064848 TAAGGCAAGGATACCACGTAAGACTATGTCAAGACATGGCAATGGTAAGTTC
1 TAAGACAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTC
105064900 AAAAAGAAAA
Statistics
Matches: 207, Mismatches: 39, Indels: 30
0.75 0.14 0.11
Matches are distributed among these distances:
46 9 0.04
47 26 0.13
48 3 0.01
50 1 0.00
51 1 0.00
52 4 0.02
53 43 0.21
54 67 0.32
55 49 0.24
56 4 0.02
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.25
Consensus pattern (54 bp):
TAAGACAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
Found at i:105064663 original size:101 final size:101
Alignment explanation
Indices: 105064538--105064769 Score: 410
Period size: 101 Copynumber: 2.3 Consensus size: 101
105064528 ATGGCATTAG
*
105064538 TAAGACAAGGATACCATATAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAAGATATCATG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAAGATATCATG
105064603 TAAGACCATACCAAGGCATGGCATTGATAAGTTCTA
66 TAAGACCATACCAAGGCATGGCATTGATAAGTTCTA
*
105064639 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAAGATATCATG
*
105064704 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
66 TAAGACCATACCAAGGCATGGCATTGATAAGTTCTA
* * *
105064740 TAAGGCAAGGAAATCATGTAAGACCATGTT
1 TAAGACAAGGATACCATGTAAGACCATGTT
105064770 AAGACATTGC
Statistics
Matches: 125, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
101 125 1.00
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (101 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAAGATATCATG
TAAGACCATACCAAGGCATGGCATTGATAAGTTCTA
Found at i:105080667 original size:100 final size:99
Alignment explanation
Indices: 105080489--105080682 Score: 259
Period size: 100 Copynumber: 1.9 Consensus size: 99
105080479 TCTTCTGGAG
* * *
105080489 TCATCTTATTCCCCGGGTGCCATGCTTTATCTGCTAAAAATCCTTTGGTTTATGTTTGCTTGAGA
1 TCATCTTATTCCCCGGGTGCCATGCTTTATCTGCTAAAAATCCTTTGCTTAATGTCTGCTTGAGA
*
105080554 ATATATTTCTTAAAATTATTCAATACCATGTTCCA
66 ATATATTTATT-AAATTATTCAATACCATGTTCCA
* * * *
105080589 TCATCTTATTCCTCGGGTGCCAAT-CTTTATCTGCTGAAAA-CCATTTGCTTAATGTCTGTTTGT
1 TCATCTTATTCCCCGGGTGCC-ATGCTTTATCTGCTAAAAATCC-TTTGCTTAATGTCTGCTTGA
105080652 GAA-ATCATTTATTAAATTATTCAATACCATG
64 GAATAT-ATTTATTAAATTATTCAATACCATG
105080683 CGTCATTACT
Statistics
Matches: 83, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
99 22 0.27
100 59 0.71
101 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.42
Consensus pattern (99 bp):
TCATCTTATTCCCCGGGTGCCATGCTTTATCTGCTAAAAATCCTTTGCTTAATGTCTGCTTGAGA
ATATATTTATTAAATTATTCAATACCATGTTCCA
Found at i:105085774 original size:14 final size:14
Alignment explanation
Indices: 105085755--105085805 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
105085745 TGATAAAGAA
105085755 AATAAAATATATAT
1 AATAAAATATATAT
*
105085769 AATAAAAT-TA-AA
1 AATAAAATATATAT
105085781 ATATATAAATATATTAT
1 A-ATA-AAATATA-TAT
105085798 AATAAAAT
1 AATAAAAT
105085806 TTTGGTTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
12 2 0.07
13 5 0.17
14 12 0.40
15 6 0.20
16 3 0.10
17 2 0.07
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
AATAAAATATATAT
Found at i:105085780 original size:20 final size:18
Alignment explanation
Indices: 105085747--105085791 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 18
105085737 TGTACAATTG
*
105085747 ATAAAGAAAATAAAATAT
1 ATAAATAAAATAAAATAT
105085765 ATATAATAAAATTAAAATAT
1 ATA-AATAAAA-TAAAATAT
105085785 ATAAATA
1 ATAAATA
105085792 TATTATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 3 0.12
19 10 0.42
20 11 0.46
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (18 bp):
ATAAATAAAATAAAATAT
Found at i:105085780 original size:29 final size:29
Alignment explanation
Indices: 105085753--105085806 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
105085743 ATTGATAAAG
105085753 AAAATA-AAATATA-TATAATAAAATTAA
1 AAAATATAAATATATTATAATAAAATTAA
*
105085780 AATATATAAATATATTATAATAAAATT
1 AAAATATAAATATATTATAATAAAATT
105085807 TTGGTTGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 5 0.21
28 7 0.29
29 12 0.50
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (29 bp):
AAAATATAAATATATTATAATAAAATTAA
Found at i:105085801 original size:18 final size:20
Alignment explanation
Indices: 105085753--105085791 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
105085743 ATTGATAAAG
105085753 AAAA-TAAAATATATATAAT
1 AAAATTAAAATATATATAAT
105085772 AAAATTAAAATATATA-AAT
1 AAAATTAAAATATATATAAT
105085791 A
1 A
105085792 TATTATAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAATTAAAATATATATAAT
Found at i:105086589 original size:28 final size:28
Alignment explanation
Indices: 105086557--105086625 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 28
105086547 CATAATAAAA
105086557 TATATTAAATA-TATTTT-TATTATATAAT
1 TATA-TAAATATTATTTTAT-TTATATAAT
* *
105086585 TATATAATTATTATTTTATTTATATAAA
1 TATATAAATATTATTTTATTTATATAAT
* *
105086613 TAAAAAAATATTA
1 TATATAAATATTA
105086626 GTTAAATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
27 5 0.15
28 28 0.82
29 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (28 bp):
TATATAAATATTATTTTATTTATATAAT
Found at i:105097721 original size:28 final size:30
Alignment explanation
Indices: 105097690--105097759 Score: 99
Period size: 28 Copynumber: 2.4 Consensus size: 30
105097680 TTAGTCTATA
* *
105097690 ATAAAATTATATTTTAATT-TTT-AAAATG
1 ATAAAAATATAATTTAATTATTTAAAAATG
*
105097718 ATAAAAATATAATTTAATTATTTAAAAATT
1 ATAAAAATATAATTTAATTATTTAAAAATG
105097748 ATAAAAATATAA
1 ATAAAAATATAA
105097760 ACTATTAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 17 0.46
29 3 0.08
30 17 0.46
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (30 bp):
ATAAAAATATAATTTAATTATTTAAAAATG
Found at i:105098173 original size:40 final size:41
Alignment explanation
Indices: 105098129--105098246 Score: 139
Period size: 41 Copynumber: 2.9 Consensus size: 41
105098119 ATAAAACACG
* * **
105098129 GAGCAATAGCGACG-TTTTGGTAAAATGCCGCTAAAAACCA
1 GAGCATTAGCGACGCTTTTGATAAAACACCGCTAAAAACCA
* *
105098169 GAGCATTAGCGGCGCTTTTGATAAAACACCGCTAAAAACTA
1 GAGCATTAGCGACGCTTTTGATAAAACACCGCTAAAAACCA
* ** *
105098210 GAGCATTAGCGGCGCTTTCAATAAAACGCCGCTAAAA
1 GAGCATTAGCGACGCTTTTGATAAAACACCGCTAAAA
105098247 GTCATATAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
40 12 0.18
41 56 0.82
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.20
Consensus pattern (41 bp):
GAGCATTAGCGACGCTTTTGATAAAACACCGCTAAAAACCA
Found at i:105103405 original size:120 final size:120
Alignment explanation
Indices: 105103248--105103878 Score: 1016
Period size: 120 Copynumber: 5.2 Consensus size: 120
105103238 TATATTTAGA
* * * *
105103248 AAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
1 AAAA-TATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTTAGT
*
105103313 AAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATCATATATTTTAATT
65 AAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTAATT
* * *
105103369 AAAATATATTTAATAATAATTAT-TTCAAATTATATTTTATAGTATCATATATTATAATTTTAGT
1 AAAATATATTTAATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTTAGT
* * *
105103433 AAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATCATATATTTTAATT
65 AAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTAATT
*
105103489 AAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTAAGTA
1 AAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTTAGTA
* *
105103554 AATTAATATAAGAATA-TTAATTATTAAGAATTTTATTAAATTATATAGTTTAATT
66 AATTCATATAAGAATATTTAA-TATTAAGAATTTTATTAAATTATATATTTTAATT
*
105103609 AAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTA
1 AAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTTAGTA
*
105103674 AATTAATATAAGAATA-TTAATTATTAAGAATTTTATTAAATTATATATTTTAATT
66 AATTCATATAAGAATATTTAA-TATTAAGAATTTTATTAAATTATATATTTTAATT
*
105103729 AAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTA
1 AAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTTAGTA
* *
105103794 AATTCATATAAGAATATTGATTATTAAGAATTTTATTATAAATTATATATTTTAATT
66 AATTCATATAAGAATATTTAATATTAAGAATTTTA-T-TAAATTATATATTTTAATT
105103851 AAAATATATTTAATAATAATTATGTTAA
1 AAAATATATTTAATAATAATTATGTTAA
105103879 AATATGATTA
Statistics
Matches: 485, Mismatches: 19, Indels: 11
0.94 0.04 0.02
Matches are distributed among these distances:
119 4 0.01
120 425 0.88
121 9 0.02
122 47 0.10
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.48
Consensus pattern (120 bp):
AAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTTAGTA
AATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTAATT
Found at i:105103731 original size:18 final size:17
Alignment explanation
Indices: 105103703--105103737 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
105103693 ATTATTAAGA
*
105103703 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
105103720 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
105103738 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:105103858 original size:18 final size:19
Alignment explanation
Indices: 105103823--105103859 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
105103813 ATTATTAAGA
105103823 ATTTTATTATAAATTATAT
1 ATTTTATTATAAATTATAT
105103842 ATTTTAATTA-AAA-TATAT
1 ATTTT-ATTATAAATTATAT
105103860 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTTATTATAAATTATAT
Found at i:105104129 original size:17 final size:16
Alignment explanation
Indices: 105104095--105104147 Score: 88
Period size: 16 Copynumber: 3.2 Consensus size: 16
105104085 TATTAGCTAT
*
105104095 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
105104111 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
105104128 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
105104144 TACA
1 TACA
105104148 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
16 19 0.54
17 16 0.46
ACGTcount: A:0.38, C:0.36, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:105106254 original size:2 final size:2
Alignment explanation
Indices: 105106247--105106278 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
105106237 TGTTGCTTTT
105106247 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
105106279 ATAGATAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:105108542 original size:41 final size:41
Alignment explanation
Indices: 105108497--105108604 Score: 146
Period size: 41 Copynumber: 2.6 Consensus size: 41
105108487 TATATATGGT
* *
105108497 CTTTAGTGGCGTTTTTGGGAAAAGTGTCGCTAAAGATCATG-
1 CTTTAGTGGCGTTTTTGGG-AAAGCGCCGCTAAAGATCATGA
*
105108538 CTTTAGTGGCGTTTTTAGGGAAAGCGCCGCTAAAGGTCATGA
1 CTTTAGTGGCGTTTTT-GGGAAAGCGCCGCTAAAGATCATGA
105108580 CTTTTAGTGGCGTTTTTGGGGAAAG
1 C-TTTAGTGGCGTTTTT-GGGAAAG
105108605 ACCTTTAGCG
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
41 34 0.57
42 4 0.07
43 22 0.37
ACGTcount: A:0.22, C:0.13, G:0.31, T:0.33
Consensus pattern (41 bp):
CTTTAGTGGCGTTTTTGGGAAAGCGCCGCTAAAGATCATGA
Found at i:105109002 original size:24 final size:24
Alignment explanation
Indices: 105108974--105109025 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
105108964 TTTCTAAAAG
* *
105108974 ATTTAGTATTTATTAGTATA-ATAT
1 ATTTAGCATTTATTACTATAGAT-T
105108998 ATTTAGCATTTATTACTATAGATT
1 ATTTAGCATTTATTACTATAGATT
105109022 ATTT
1 ATTT
105109026 GACTTTGCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 23 0.92
25 2 0.08
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.54
Consensus pattern (24 bp):
ATTTAGCATTTATTACTATAGATT
Found at i:105112105 original size:11 final size:11
Alignment explanation
Indices: 105112091--105112130 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
105112081 GTTTTCTCCC
105112091 TATTTTGCTAT
1 TATTTTGCTAT
*
105112102 TATTTTACTAT
1 TATTTTGCTAT
* *
105112113 TATGTTGCTAC
1 TATTTTGCTAT
105112124 TATTTTG
1 TATTTTG
105112131 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.10, G:0.10, T:0.60
Consensus pattern (11 bp):
TATTTTGCTAT
Found at i:105113604 original size:7 final size:7
Alignment explanation
Indices: 105113592--105113623 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
105113582 TATTTTTTAT
105113592 ATTTGAA
1 ATTTGAA
105113599 ATTTGAA
1 ATTTGAA
105113606 ATTTGAA
1 ATTTGAA
*
105113613 ACTTGAA
1 ATTTGAA
105113620 ATTT
1 ATTT
105113624 AATATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (7 bp):
ATTTGAA
Found at i:105114116 original size:38 final size:40
Alignment explanation
Indices: 105114048--105114126 Score: 92
Period size: 38 Copynumber: 2.0 Consensus size: 40
105114038 AACTTGATCC
*
105114048 AATTCAAATTTAATTTAAATGATAAAAAATA-T-TTTTAA
1 AATTCAAATTTAATTTAAATAATAAAAAATACTATTTTAA
* * *
105114086 AATTTAAATTTAATTATAAA-AATCATAAATACTATTTTAA
1 AATTCAAATTTAATT-TAAATAATAAAAAATACTATTTTAA
105114126 A
1 A
105114127 TAATGTGCCA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
38 22 0.65
39 5 0.15
40 7 0.21
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (40 bp):
AATTCAAATTTAATTTAAATAATAAAAAATACTATTTTAA
Found at i:105117901 original size:74 final size:74
Alignment explanation
Indices: 105117822--105117966 Score: 290
Period size: 74 Copynumber: 2.0 Consensus size: 74
105117812 AAATAAGTAG
105117822 TGCGGTTGGATAAAAATTCCAACAGTCTCCAGTGTAAATATCACATCAATCCACAGGGGTAGGCT
1 TGCGGTTGGATAAAAATTCCAACAGTCTCCAGTGTAAATATCACATCAATCCACAGGGGTAGGCT
105117887 TGGCTTGAA
66 TGGCTTGAA
105117896 TGCGGTTGGATAAAAATTCCAACAGTCTCCAGTGTAAATATCACATCAATCCACAGGGGTAGGCT
1 TGCGGTTGGATAAAAATTCCAACAGTCTCCAGTGTAAATATCACATCAATCCACAGGGGTAGGCT
105117961 TGGCTT
66 TGGCTT
105117967 AGCTTGAATA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 71 1.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (74 bp):
TGCGGTTGGATAAAAATTCCAACAGTCTCCAGTGTAAATATCACATCAATCCACAGGGGTAGGCT
TGGCTTGAA
Found at i:105119294 original size:5 final size:5
Alignment explanation
Indices: 105119286--105119315 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
105119276 TTAGTTGTTA
105119286 ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT
105119316 TAACTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATATT
Found at i:105120589 original size:27 final size:27
Alignment explanation
Indices: 105120557--105120611 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 27
105120547 GTAAAACAAT
105120557 TTAAAATAGAGT-ATATATATATAAATA
1 TTAAAATAG-GTAATATATATATAAATA
*
105120584 TTAAAATAGGTAATATATATATATATA
1 TTAAAATAGGTAATATATATATAAATA
105120611 T
1 T
105120612 AATAAATACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 2 0.08
27 24 0.92
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (27 bp):
TTAAAATAGGTAATATATATATAAATA
Found at i:105120748 original size:45 final size:44
Alignment explanation
Indices: 105120656--105120753 Score: 110
Period size: 45 Copynumber: 2.2 Consensus size: 44
105120646 ATAATAAAAC
* * * *
105120656 AATTTAAAACGAATAAGAGATTTTAAAATAAGTTGTATAAGACA
1 AATTTAAAAAGAATAAGAAAGTTTAAAATAAGTTATATAAGACA
*
105120700 AATTTAAATAAGAATAAGACAAGTTTAAAATAA-TATATATAA-AGA
1 AATTTAAA-AAGAATAAGA-AAGTTTAAAATAAGT-TATATAAGACA
105120745 AATTTAAAA
1 AATTTAAAA
105120754 TAAATATTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
44 9 0.20
45 20 0.43
46 17 0.37
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (44 bp):
AATTTAAAAAGAATAAGAAAGTTTAAAATAAGTTATATAAGACA
Found at i:105120831 original size:26 final size:25
Alignment explanation
Indices: 105120792--105120939 Score: 100
Period size: 26 Copynumber: 5.7 Consensus size: 25
105120782 ATGTAAAAAG
*
105120792 AAATTTAAAATAAATAATATATAAGA
1 AAATTTAAAATAAATAACATATAA-A
*
105120818 AAATTTAAAGTAAATAACATATAAA
1 AAATTTAAAATAAATAACATATAAA
** *
105120843 ATAATTTAAACCAAGTAATACATAT-AA
1 A-AATTTAAAATAAAT-A-ACATATAAA
* ** * *
105120870 AACTTTAAAATGGATAATATACACAA
1 AAATTTAAAATAAATAACATATA-AA
* * * *
105120896 AGATTTAAAATAAATCATATGTGGAAA
1 AAATTTAAAATAAATAACATAT--AAA
105120923 AAATTTAAAATAAATAA
1 AAATTTAAAATAAATAA
105120940 TTTTGAAAAT
Statistics
Matches: 93, Mismatches: 22, Indels: 13
0.73 0.17 0.10
Matches are distributed among these distances:
24 4 0.04
25 3 0.03
26 58 0.62
27 21 0.23
28 7 0.08
ACGTcount: A:0.59, C:0.05, G:0.06, T:0.29
Consensus pattern (25 bp):
AAATTTAAAATAAATAACATATAAA
Found at i:105124678 original size:28 final size:28
Alignment explanation
Indices: 105124647--105124708 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
105124637 TCCCATATTA
105124647 ATGGGGTATAGGAAAAGTCTCATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
* * *
105124675 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
105124703 ATGGGG
1 ATGGGG
105124709 ATGATAATGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.06, G:0.31, T:0.31
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAGTCTCATAACTT
Found at i:105129992 original size:28 final size:28
Alignment explanation
Indices: 105129961--105130022 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
105129951 TCCCATATTA
105129961 ATGGGGTATAGGAAAAGTCTCATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
* * *
105129989 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
105130017 ATGGGG
1 ATGGGG
105130023 ATGATAATGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.06, G:0.31, T:0.31
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAGTCTCATAACTT
Found at i:105135052 original size:40 final size:40
Alignment explanation
Indices: 105134997--105135082 Score: 163
Period size: 40 Copynumber: 2.1 Consensus size: 40
105134987 TTATTTGCTG
*
105134997 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTACCCGGGCTTAAAGACCCGCAGGCTTCGTGC
105135037 TGGAATTGTACCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTACCCGGGCTTAAAGACCCGCAGGCTTCGTGC
105135077 TGGAAT
1 TGGAAT
105135083 GACATCCGGG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.21, C:0.24, G:0.30, T:0.24
Consensus pattern (40 bp):
TGGAATTGTACCCGGGCTTAAAGACCCGCAGGCTTCGTGC
Found at i:105135109 original size:39 final size:42
Alignment explanation
Indices: 105134997--105135097 Score: 153
Period size: 40 Copynumber: 2.6 Consensus size: 42
105134987 TTATTTGCTG
105134997 TGGAATTGT--ATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTACATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
105135037 TGGAATTGTAC--CCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTACATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
105135077 TGGAA-TG-ACATCCGGG-TTAAA
1 TGGAATTGTACATCCGGGCTTAAA
105135098 AACCTACAGG
Statistics
Matches: 57, Mismatches: 0, Indels: 9
0.86 0.00 0.14
Matches are distributed among these distances:
38 2 0.04
39 7 0.12
40 48 0.84
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.24
Consensus pattern (42 bp):
TGGAATTGTACATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
Found at i:105139771 original size:40 final size:40
Alignment explanation
Indices: 105139714--105139799 Score: 163
Period size: 40 Copynumber: 2.1 Consensus size: 40
105139704 TTATTTGATG
105139714 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
*
105139754 TGGAATTGTATCTGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
105139794 TGGAAT
1 TGGAAT
105139800 GACATCCGGG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (40 bp):
TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
Found at i:105141565 original size:24 final size:25
Alignment explanation
Indices: 105141531--105141608 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 25
105141521 ATACATGTAT
105141531 GCTCATACGAGC-G-ATAAACGGTAA
1 GCTCATACGAGCAGAAT-AACGGTAA
* *
105141555 GCTCATTCGAGCAGAATATCGGTAA
1 GCTCATACGAGCAGAATAACGGTAA
* * * *
105141580 GCTCCTATGAGCTGAATAACGATAA
1 GCTCATACGAGCAGAATAACGGTAA
105141605 GCTC
1 GCTC
105141609 TTATGAGTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
24 11 0.25
25 31 0.70
26 2 0.05
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (25 bp):
GCTCATACGAGCAGAATAACGGTAA
Found at i:105144291 original size:132 final size:132
Alignment explanation
Indices: 105144038--105144531 Score: 367
Period size: 132 Copynumber: 3.7 Consensus size: 132
105144028 TACTTATTCT
*
105144038 TTTTAAGAATTCTTTAAAACGAAGGCGGTATTCGATATTTGACAATTCGAGGAATCGTGCCCTAA
1 TTTTAAGAATTCTTTAAAACGAAGGCGATATTCGATATTTGACAATTCGAGGAATCGTGCCCTAA
* * ** * * * *
105144103 CGTGTTGGGTTGCAATTTCTTGTTTGCTCAAAGTAATTGAAAGGCTCTTTCGAATTTTACCCATG
66 CGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATTCAAAAGCTCCTTCAAATTTTACCCATG
105144168 TC
131 TC
* * * * *
105144170 TTTTAAGAGTTCTTTTAAACGAAGGCGATATTCGATATTTGGCAATTCGTGGAATCGTTCCCTAA
1 TTTTAAGAATTCTTTAAAACGAAGGCGATATTCGATATTTGACAATTCGAGGAATCGTGCCCTAA
* * *
105144235 CGTGCTGGGTTGCAATTT-TGCGTTTGCTCAAAACAA-TCAAATATC-CCTTCAAAATTTCACTC
66 CGTGCTGGGTTGCAATTTCT-CGTTTGCTCAAAACAATTCAAA-AGCTCCTTC-AAATTTTACCC
*
105144297 AGGTC
128 ATGTC
* * * * * * *
105144302 TTCTAAAAATCCTTTAAAATGAAGGC-A-AGTCTCGGTGTTTGACAATTC-AGGAATCATGCCCT
1 TTTTAAGAATTCTTTAAAACGAAGGCGATA-T-TCGATATTTGACAATTCGAGGAATCGTGCCCT
* ** * * * * * * * ** *
105144364 ATCGTGCTGGGTTGTGATCTCTCATTTGTTAAAAACAA-TCGAATA-TTCCTTTAGGTTTTCACT
64 AACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATTC-AAAAGCTCCTTCAAATTTT-ACC
*
105144427 CACGT-
127 CATGTC
* ** * * ** * * * * *
105144432 TTTCTAAAAAACCCTTTAAAATGAAAGAAATGTTCGATGTTTGGCAATTCGGGGGATCGTGCCCT
1 TTT-T-AAGAATTCTTTAAAACGAAGGCGATATTCGATATTTGACAATTCGAGGAATCGTGCCCT
* *
105144497 AACGTGTTGGGTTGCAATTTCCCGTTTGCTCAAAA
64 AACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAA
105144532 TAATCGAATG
Statistics
Matches: 285, Mismatches: 63, Indels: 27
0.76 0.17 0.07
Matches are distributed among these distances:
130 7 0.02
131 66 0.23
132 173 0.61
133 39 0.14
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.35
Consensus pattern (132 bp):
TTTTAAGAATTCTTTAAAACGAAGGCGATATTCGATATTTGACAATTCGAGGAATCGTGCCCTAA
CGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATTCAAAAGCTCCTTCAAATTTTACCCATG
TC
Found at i:105144399 original size:131 final size:133
Alignment explanation
Indices: 105144200--105144510 Score: 315
Period size: 131 Copynumber: 2.4 Consensus size: 133
105144190 GAAGGCGATA
* * * * * ** * * * *
105144200 TTCGATATTTGGCAATTCGTGGAATCGTTCCCTAACGTGCTGGGTTGCAAT-TTTGCGTTTGCTC
1 TTCGATGTTTGACAATTCGAGGAATCATGCCCTAACGTGCTGGGTTGTGATCTCT-CATTTGTTA
* * * *
105144264 AAAACAATCAAATATCCCTTCAAAATTTCACTCAGGTCTTCT-AAAAATCCTTTAAAATGAAGGC
65 AAAACAATCAAATATCCCTTCAAAATTTCACTCACGTCTTCTAAAAAACCCTTTAAAATGAAAGA
105144328 AA-G
130 AATG
* *
105144331 TCTCGGTGTTTGACAATTC-AGGAATCATGCCCTATCGTGCTGGGTTGTGATCTCTCATTTGTTA
1 T-TCGATGTTTGACAATTCGAGGAATCATGCCCTAACGTGCTGGGTTGTGATCTCTCATTTGTTA
* * * *** *
105144395 AAAACAATCGAATATTCCTTTAGGTTTTCACTCACGTTTTCTAAAAAACCCTTTAAAATGAAAGA
65 AAAACAATCAAATATCCCTTCAAAATTTCACTCACGTCTTCTAAAAAACCCTTTAAAATGAAAGA
105144460 AATG
130 AATG
* * * * *
105144464 TTCGATGTTTGGCAATTCGGGGGATCGTGCCCTAACGTGTTGGGTTG
1 TTCGATGTTTGACAATTCGAGGAATCATGCCCTAACGTGCTGGGTTG
105144511 CAATTTCCCG
Statistics
Matches: 144, Mismatches: 31, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
131 67 0.47
132 52 0.36
133 25 0.17
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (133 bp):
TTCGATGTTTGACAATTCGAGGAATCATGCCCTAACGTGCTGGGTTGTGATCTCTCATTTGTTAA
AAACAATCAAATATCCCTTCAAAATTTCACTCACGTCTTCTAAAAAACCCTTTAAAATGAAAGAA
ATG
Found at i:105144568 original size:133 final size:131
Alignment explanation
Indices: 105144200--105144571 Score: 354
Period size: 133 Copynumber: 2.8 Consensus size: 131
105144190 GAAGGCGATA
* * * **
105144200 TTCGATATTTGGCAATTCGTGGAATCGTTCCCTAACGTGCTGGGTTGCAATTTTGCGTTTGCTCA
1 TTCGATGTTTGGCAATTCGAGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCCCGTTTGCTCA
* * * ** * * * *
105144265 AAACAATCAAATATCCCTTCAAAATTTCACTCAGGTCTTCT-AAAAATCCTTTAAAATGAAGGCA
66 AAACAATCGAATATCTCTTTAGGATTTCACTC-GGTTTTCTAAAAAACCCTTTAAAATGAAAGAA
105144329 AG
130 AG
* * * * ** * * * * *
105144331 TCTCGGTGTTTGACAATTC-AGGAATCATGCCCTATCGTGCTGGGTTGTGATCTCTCATTTGTTA
1 T-TCGATGTTTGGCAATTCGAGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCCCGTTTGCTC
* *
105144395 AAAACAATCGAATAT-TCCTTTAGGTTTTCACTCACGTTTTCTAAAAAACCCTTTAAAATGAAAG
65 AAAACAATCGAATATCT-CTTTAGGATTTCACTC-GGTTTTCTAAAAAACCCTTTAAAATGAAAG
105144459 AAATG
128 AAA-G
* * *
105144464 TTCGATGTTTGGCAATTCGGGGGATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCGTTTGCTCA
1 TTCGATGTTTGGCAATTCGAGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCCCGTTTGCTCA
* * * * *
105144529 AAATAATCGAATGTCTTTTTGGGATTTCACTCGTATTTTCTAA
66 AAACAATCGAATATCTCTTTAGGATTTCACTCG-GTTTTCTAA
105144572 GGTGAGGCAA
Statistics
Matches: 187, Mismatches: 47, Indels: 12
0.76 0.19 0.05
Matches are distributed among these distances:
131 67 0.36
132 50 0.27
133 69 0.37
134 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (131 bp):
TTCGATGTTTGGCAATTCGAGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCCCGTTTGCTCA
AAACAATCGAATATCTCTTTAGGATTTCACTCGGTTTTCTAAAAAACCCTTTAAAATGAAAGAAA
G
Found at i:105156387 original size:132 final size:132
Alignment explanation
Indices: 105156044--105156603 Score: 804
Period size: 132 Copynumber: 4.2 Consensus size: 132
105156034 ACAAATCCTA
* * * *
105156044 TTTCCCTGAAGTTGCAGTGAAACAGATCGAAGACGGCGAGTCTTGGCTTCCTGAAGTTGCAGTGA
1 TTTCCCTTAAATTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAGTGA
* *
105156109 AGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTTTAGGTCT
66 AGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTTCAGATCT
105156174 TG
131 TG
* * * *
105156176 TTTTCC-TAAAATGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTCCTGAAGTCGCAGTGA
1 TTTCCCTTAAATTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAGTGA
* *
105156240 AGTAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTTTAGATCT
66 AGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTTCAGATCT
105156305 TG
131 TG
105156307 TTTCCCTTAAATTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAGTGA
1 TTTCCCTTAAATTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAGTGA
* * * *
105156372 AGCAGATTTAAGCCACCAACCTAGCCCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTACAGATTT
66 AGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTTCAGATCT
105156437 TG
131 TG
** * * *
105156439 TTTCCC-TAAAGTTGCAGTGGAA-CAGATCGAAGACGATGAATCTTGGTTTCCTGAAGCTGCAAT
1 TTTCCCTTAAA-TTGCAGT-GAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAGT
* * * *
105156502 GAAGCAGATTTACA-CCACCAACCTAACTCCCTAAAGATGTAGTGGAGTAGGCTGAAGATTGCAG
64 GAAGCAGATTTA-AGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCT-AAAATTTCAG
105156566 ATCTTG
127 ATCTTG
* * *
105156572 TCTCCCTGAAGTTGCAGTGAAGCAGATCGAAG
1 TTTCCCTTAAATTGCAGTGAAGCAGATCGAAG
105156604 TCATAATACT
Statistics
Matches: 386, Mismatches: 35, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
131 125 0.32
132 221 0.57
133 38 0.10
134 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (132 bp):
TTTCCCTTAAATTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAGTGA
AGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTTCAGATCT
TG
Found at i:105156633 original size:264 final size:262
Alignment explanation
Indices: 105156046--105156603 Score: 789
Period size: 263 Copynumber: 2.1 Consensus size: 262
105156036 AAATCCTATT
* * * * *
105156046 TCCCTGAAGTTGCAGTGAAACAGATCGAAGACGGCGAGTCTTGGCTTCCTGAAGTTGCAGTGAAG
1 TCCCTGAAATTGCAGTGAAGCAGATCGAAGAC-GAGAATCTTAGCTTCCTGAAGTTGCAGTGAAG
* ** *
105156111 CAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTTTAGGTCTTG
65 CAGATTTAAGCCACCAACCTAGCCCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTACAGATCTTG
* * *
105156176 TTTTCCTAAAATGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTCCTGAAGTCGCAGTGAA
130 TTTCCCTAAAATGCAGTGAAGCAGATCGAAGACGATGAATCTTGGCTTCCTGAAGTCGCAATGAA
* * * **
105156241 GTAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTTTAGATCTT
195 GCAGATTTAAGCCACCAACCTAACTCCCTAAAGATGTAGTGGAGTAGGCTAAAATTGCAGATCTT
*
105156306 GTT
260 GTC
* * *
105156309 TCCCTTAAATTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAGTGAAG
1 TCCCTGAAATTGCAGTGAAGCAGATCGAAGAC-GAGAATCTTAGCTTCCTGAAGTTGCAGTGAAG
* *
105156374 CAGATTTAAGCCACCAACCTAGCCCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTACAGATTTTG
65 CAGATTTAAGCCACCAACCTAGCCCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTACAGATCTTG
* *
105156439 TTTCCCTAAAGTTGCAGTGGAA-CAGATCGAAGACGATGAATCTTGGTTTCCTGAAG-CTGCAAT
130 TTTCCCTAAA-ATGCAGT-GAAGCAGATCGAAGACGATGAATCTTGGCTTCCTGAAGTC-GCAAT
*
105156502 GAAGCAGATTTACA-CCACCAACCTAACTCCCTAAAGATGTAGTGGAGTAGGCTGAAGATTGCAG
192 GAAGCAGATTTA-AGCCACCAACCTAACTCCCTAAAGATGTAGTGGAGTAGGCT-AAAATTGCAG
105156566 ATCTTGTC
255 ATCTTGTC
*
105156574 TCCCTGAAGTTGCAGTGAAGCAGATCGAAG
1 TCCCTGAAATTGCAGTGAAGCAGATCGAAG
105156604 TCATAATACT
Statistics
Matches: 266, Mismatches: 24, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
263 130 0.49
264 90 0.34
265 46 0.17
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (262 bp):
TCCCTGAAATTGCAGTGAAGCAGATCGAAGACGAGAATCTTAGCTTCCTGAAGTTGCAGTGAAGC
AGATTTAAGCCACCAACCTAGCCCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTACAGATCTTGT
TTCCCTAAAATGCAGTGAAGCAGATCGAAGACGATGAATCTTGGCTTCCTGAAGTCGCAATGAAG
CAGATTTAAGCCACCAACCTAACTCCCTAAAGATGTAGTGGAGTAGGCTAAAATTGCAGATCTTG
TC
Found at i:105159622 original size:131 final size:131
Alignment explanation
Indices: 105159420--105159867 Score: 438
Period size: 131 Copynumber: 3.4 Consensus size: 131
105159410 AATTCCTCGA
* * * * *
105159420 GGAATCGTGCCCTAACATGTTGGGTTGCAATTTCTCGTTTGCTCAAAGTAATCGAAAGATCCTTT
1 GGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAACTAATC-AAATATCCCTT
* * * * * * * * *
105159485 C-GAATTTCACCCATGTCTTTTAAGAGTTCTTT-AAATGAAGGCGATATTCAATATTTGGCAATT
65 CAAAATTTCACTCACGTCTTTTAAAAATCCTTTAAAACGAAGGCAATATTCAATGTTTGGCAATT
105159548 CG
130 CG
* *
105159550 TGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCGCGTTTGCTCGAACTAATCAAATATCCCTT
1 -GGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAACTAATCAAATATCCCTT
* * * * ** *
105159615 CAAAATTTCACTCAGGTCTTCTAAAAATCCTTTAAAACGAAGGCAAGACTCGGTGTTTGACAATT
65 CAAAATTTCACTCACGTCTTTTAAAAATCCTTTAAAACGAAGGCAATATTCAATGTTTGGCAATT
105159680 CG
130 CG
* * ** * * * *
105159682 GGAATCATGCCCTATCGTGCTGGGTTGTGATCTCTCGTTTGTTCAAAAC-AATCGAATATTCCTT
1 GGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTC-AAACTAATCAAATATCCCTT
** * * * *
105159746 -AAGGTTTTCACTCACGT-TTTCTAAAAAACCCTTTAAAACGAAAGAAATGTTCAATGTTTGGCA
65 CAA-AATTTCACTCACGTCTTT-T-AAAAATCCTTTAAAACGAAGGCAATATTCAATGTTTGGCA
105159809 ATTCGG
127 ATTC-G
* * *
105159815 GGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCGTTTGCTCAAAATAATC
1 GGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAACTAATC
105159868 GAATCTCTTC
Statistics
Matches: 255, Mismatches: 54, Indels: 14
0.79 0.17 0.04
Matches are distributed among these distances:
130 14 0.05
131 134 0.53
132 66 0.26
133 41 0.16
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (131 bp):
GGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAACTAATCAAATATCCCTTC
AAAATTTCACTCACGTCTTTTAAAAATCCTTTAAAACGAAGGCAATATTCAATGTTTGGCAATTC
G
Found at i:105162901 original size:58 final size:58
Alignment explanation
Indices: 105162811--105162928 Score: 236
Period size: 58 Copynumber: 2.0 Consensus size: 58
105162801 AAGAGGAAAG
105162811 ATATTTTCTATTTCATATTCATTATTAAGTGTACTATTTGTATTGGTAATGGCTTTAC
1 ATATTTTCTATTTCATATTCATTATTAAGTGTACTATTTGTATTGGTAATGGCTTTAC
105162869 ATATTTTCTATTTCATATTCATTATTAAGTGTACTATTTGTATTGGTAATGGCTTTAC
1 ATATTTTCTATTTCATATTCATTATTAAGTGTACTATTTGTATTGGTAATGGCTTTAC
105162927 AT
1 AT
105162929 TGTTATCTCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.26, C:0.10, G:0.12, T:0.52
Consensus pattern (58 bp):
ATATTTTCTATTTCATATTCATTATTAAGTGTACTATTTGTATTGGTAATGGCTTTAC
Found at i:105168051 original size:2 final size:2
Alignment explanation
Indices: 105168039--105168083 Score: 58
Period size: 2 Copynumber: 23.0 Consensus size: 2
105168029 CCATTCAAAC
*
105168039 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT -T A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT
105168080 AT AT
1 AT AT
105168084 TTTATATTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
1 2 0.05
2 34 0.89
3 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:105170255 original size:31 final size:31
Alignment explanation
Indices: 105170184--105170256 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
105170174 TTCTGGTTTG
* *
105170184 AATTTTTTTTAGATTAAGTTCTAAATTTGAT
1 AATTTTTTTTAGATTAAGTTCTAAACTTGAC
* * *
105170215 AAATATTTTTATATTAGAGTT-TAAACTTGAC
1 AATTTTTTTTAGATTA-AGTTCTAAACTTGAC
105170246 AATTTTTTTTA
1 AATTTTTTTTA
105170257 CATTGGGGAC
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
31 30 0.88
32 4 0.12
ACGTcount: A:0.34, C:0.04, G:0.08, T:0.53
Consensus pattern (31 bp):
AATTTTTTTTAGATTAAGTTCTAAACTTGAC
Found at i:105170437 original size:60 final size:61
Alignment explanation
Indices: 105170343--105170481 Score: 171
Period size: 60 Copynumber: 2.3 Consensus size: 61
105170333 TTTTTAAGGA
* ** * *
105170343 CTAACTTGGA-T-AAAAATAAGTTTAAGTTCCAATATGGGAACATTTGCCAAATTTAG-GC
1 CTAACTTGGACTAAAAAAAAAGTTTAAGACCCAATATGGGAACAATTGCCAAATTCAGAGC
*
105170401 CTAACTTGGACTAAAAAAAAAGTTT-AGACCCTAATATGGGAACAATTGCCAAGTTCAGAGC
1 CTAACTTGGACTAAAAAAAAAGTTTAAGACCC-AATATGGGAACAATTGCCAAATTCAGAGC
*
105170462 TTAACTTGGAC-AAAAAAAAA
1 CTAACTTGGACTAAAAAAAAA
105170482 TTCAGGCCTC
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
58 10 0.14
59 5 0.07
60 43 0.61
61 12 0.17
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.26
Consensus pattern (61 bp):
CTAACTTGGACTAAAAAAAAAGTTTAAGACCCAATATGGGAACAATTGCCAAATTCAGAGC
Found at i:105175352 original size:6 final size:6
Alignment explanation
Indices: 105175328--105175377 Score: 64
Period size: 6 Copynumber: 8.2 Consensus size: 6
105175318 ACAATACCTA
* * *
105175328 AACAGT AATAAGT AACAGT AGCAGT AACAGT AACTGT AACAGT AACAGT
1 AACAGT AA-CAGT AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT
105175377 A
1 A
105175378 TTCAACACAC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
6 32 0.86
7 5 0.14
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
AACAGT
Found at i:105175409 original size:51 final size:51
Alignment explanation
Indices: 105175351--105175473 Score: 161
Period size: 45 Copynumber: 2.5 Consensus size: 51
105175341 AACAGTAGCA
* *
105175351 GTAACAGTAACTGTAACAGTAACAGTATTCAACACACAAAGTG-CTGAATCT
1 GTAACAGTAACTGTAACAGTAACAGTATTCAACACACAAAGTGTC-AAATCG
*
105175402 GTAACAGTAAC-G-----GTAACAGTATTCGACACACAAAGTGTCAAATCG
1 GTAACAGTAACTGTAACAGTAACAGTATTCAACACACAAAGTGTCAAATCG
105175447 GTAACAGTAACTGTAACAGTAACAGTA
1 GTAACAGTAACTGTAACAGTAACAGTA
105175474 GTCGGCACAT
Statistics
Matches: 62, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
45 39 0.63
46 2 0.03
50 1 0.02
51 20 0.32
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.22
Consensus pattern (51 bp):
GTAACAGTAACTGTAACAGTAACAGTATTCAACACACAAAGTGTCAAATCG
Found at i:105175879 original size:53 final size:53
Alignment explanation
Indices: 105175807--105175912 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
105175797 ACCCAATCAT
105175807 AAATTTATCATTTTACTCAACACTTACCTTAAAATACTTACCACACATAATTA
1 AAATTTATCATTTTACTCAACACTTACCTTAAAATACTTACCACACATAATTA
105175860 AAATTTATCATTTTACTCAACACTTACCTTAAAATACTTACCACACATAATTA
1 AAATTTATCATTTTACTCAACACTTACCTTAAAATACTTACCACACATAATTA
105175913 GTAAATTAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.36
Consensus pattern (53 bp):
AAATTTATCATTTTACTCAACACTTACCTTAAAATACTTACCACACATAATTA
Found at i:105175900 original size:25 final size:25
Alignment explanation
Indices: 105175819--105175900 Score: 71
Period size: 25 Copynumber: 3.2 Consensus size: 25
105175809 ATTTATCATT
105175819 TTACTCAACACTTACCTTAAAATAC
1 TTACTCAACACTTACCTTAAAATAC
* *
105175844 TTAC-C-ACACATA-ATTAAAATTTATC
1 TTACTCAACACTTACCTTAAAA--TA-C
105175869 ATTTTACTCAACACTTACCTTAAAATAC
1 ---TTACTCAACACTTACCTTAAAATAC
105175897 TTAC
1 TTAC
105175901 CACACATAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 18
0.67 0.06 0.27
Matches are distributed among these distances:
22 6 0.14
23 6 0.14
24 3 0.07
25 9 0.20
28 5 0.11
29 3 0.07
30 6 0.14
31 6 0.14
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.35
Consensus pattern (25 bp):
TTACTCAACACTTACCTTAAAATAC
Found at i:105176603 original size:22 final size:23
Alignment explanation
Indices: 105176578--105176631 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 23
105176568 TCTTTCCTTT
* *
105176578 TTTATCTTT-TGTTTTGTTTCTA
1 TTTATCTTTATGCTTTATTTCTA
*
105176600 TTTAT-TTTATGCTTTATTTCTT
1 TTTATCTTTATGCTTTATTTCTA
105176622 TTTA-CTTTAT
1 TTTATCTTTAT
105176632 TTAATTTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 3 0.11
22 24 0.89
ACGTcount: A:0.13, C:0.09, G:0.06, T:0.72
Consensus pattern (23 bp):
TTTATCTTTATGCTTTATTTCTA
Found at i:105176831 original size:33 final size:32
Alignment explanation
Indices: 105176794--105176856 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 32
105176784 ATTATTTAAT
*
105176794 TAATAAATATCT-CTTAATTTTAATAATAATAAA
1 TAATAAATATCTAC-TAATTTAAATAA-AATAAA
105176827 TAATAAATATCTACTAATTTAAATAAAATA
1 TAATAAATATCTACTAATTTAAATAAAATA
105176857 TTACAATTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 4 0.14
33 23 0.82
34 1 0.04
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (32 bp):
TAATAAATATCTACTAATTTAAATAAAATAAA
Found at i:105184389 original size:33 final size:32
Alignment explanation
Indices: 105184352--105184414 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 32
105184342 ATTATTTAAT
*
105184352 TAATAAATATCT-CTTAATTTTAATAATAATAAA
1 TAATAAATATCTAC-TAATTTAAATAA-AATAAA
105184385 TAATAAATATCTACTAATTTAAATAAAATA
1 TAATAAATATCTACTAATTTAAATAAAATA
105184415 TTACAATTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 4 0.14
33 23 0.82
34 1 0.04
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (32 bp):
TAATAAATATCTACTAATTTAAATAAAATAAA
Found at i:105194157 original size:32 final size:29
Alignment explanation
Indices: 105194094--105194181 Score: 79
Period size: 30 Copynumber: 3.0 Consensus size: 29
105194084 TATGTGTGAC
* * * *
105194094 ACACGACCATACGATATGGCCGTGTGT-T
1 ACACAACCATACGACACGACCGTGTGTCT
* *
105194122 ACACACAGCCATGCGACACGATCGTGTGTCGT
1 ACACA-A-CCATACGACACGACCGTGTGTC-T
*
105194154 ACACAACTATACGACACGACCGTGTGTC
1 ACACAACCATACGACACGACCGTGTGTC
105194182 CCTTATAGGC
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
28 4 0.09
29 1 0.02
30 35 0.74
31 1 0.02
32 6 0.13
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.20
Consensus pattern (29 bp):
ACACAACCATACGACACGACCGTGTGTCT
Found at i:105196551 original size:21 final size:21
Alignment explanation
Indices: 105196520--105196561 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
105196510 GAAAGAGTAG
105196520 AAAAGAAGAAA-AAAAAAAAC
1 AAAAGAAGAAAGAAAAAAAAC
105196540 AAAAGTAAGAAATGAAAAAAAA
1 AAAAG-AAGAAA-GAAAAAAAA
105196562 ATGGGAAGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
21 6 0.32
23 8 0.42
ACGTcount: A:0.81, C:0.02, G:0.12, T:0.05
Consensus pattern (21 bp):
AAAAGAAGAAAGAAAAAAAAC
Found at i:105204696 original size:30 final size:30
Alignment explanation
Indices: 105204662--105204724 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
105204652 AACCAAACCA
105204662 TCTGATGATAACCGTCGTAAAACTTATCAG
1 TCTGATGATAACCGTCGTAAAACTTATCAG
105204692 TCTGATGATAACCGTCGTAAAACTTATCAG
1 TCTGATGATAACCGTCGTAAAACTTATCAG
105204722 TCT
1 TCT
105204725 CAGAAAGAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (30 bp):
TCTGATGATAACCGTCGTAAAACTTATCAG
Found at i:105205646 original size:31 final size:31
Alignment explanation
Indices: 105205608--105205670 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
105205598 TCATGTCTAC
*
105205608 AGGATTTTCATGAGTACTAATTTTGCTCACA
1 AGGATTTTCATGAATACTAATTTTGCTCACA
* *
105205639 AGGATTTTTATGAATACTAATTTTTCTCACA
1 AGGATTTTCATGAATACTAATTTTGCTCACA
105205670 A
1 A
105205671 CAATATCAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (31 bp):
AGGATTTTCATGAATACTAATTTTGCTCACA
Found at i:105205872 original size:26 final size:26
Alignment explanation
Indices: 105205836--105205890 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
105205826 AAGAGTCCCT
105205836 TCAACCAAATAGCTTATTTACAAGCA
1 TCAACCAAATAGCTTATTTACAAGCA
105205862 TCAACCAAATAGCTTATTTACAAGCA
1 TCAACCAAATAGCTTATTTACAAGCA
105205888 TCA
1 TCA
105205891 GTAATCACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.42, C:0.24, G:0.07, T:0.27
Consensus pattern (26 bp):
TCAACCAAATAGCTTATTTACAAGCA
Found at i:105210740 original size:6 final size:6
Alignment explanation
Indices: 105210731--105210755 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
105210721 TATTCGAACA
105210731 TGTATT TGTATT TGTATT TGTATT T
1 TGTATT TGTATT TGTATT TGTATT T
105210756 TAATTATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (6 bp):
TGTATT
Found at i:105222634 original size:19 final size:20
Alignment explanation
Indices: 105222612--105222650 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
105222602 TCAAATTTAT
105222612 TTTTTAAATTTA-AATATTC
1 TTTTTAAATTTATAATATTC
*
105222631 TTTTTACATTTATAATATTC
1 TTTTTAAATTTATAATATTC
105222651 GAATGTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTTAAATTTATAATATTC
Found at i:105227035 original size:37 final size:38
Alignment explanation
Indices: 105226958--105227053 Score: 97
Period size: 37 Copynumber: 2.6 Consensus size: 38
105226948 ATGCTCTGGA
* * *
105226958 CGAAGGCGATGGAGGAGAT-GGTTTGCAATGCACAGTG
1 CGAAAGCGACGGAGGAGATAGGTTTGCAATGCACAGGG
* * **
105226995 CGAAAGTGACGGAGGAGATAGG-TTGCGATGCATGGGG
1 CGAAAGCGACGGAGGAGATAGGTTTGCAATGCACAGGG
* *
105227032 CGAAAGCGACGAAAGAGATAGG
1 CGAAAGCGACGGAGGAGATAGG
105227054 GTTTTGGGGG
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
37 46 0.96
38 2 0.04
ACGTcount: A:0.31, C:0.12, G:0.42, T:0.15
Consensus pattern (38 bp):
CGAAAGCGACGGAGGAGATAGGTTTGCAATGCACAGGG
Found at i:105227655 original size:165 final size:165
Alignment explanation
Indices: 105227323--105227668 Score: 373
Period size: 165 Copynumber: 2.1 Consensus size: 165
105227313 TTTTTGCAAT
* * * * *
105227323 AAAACACCACTAAAATTTTAATTCCATATTGTGAAACGTCGTCGTCCAAGGTTAATGGGTATTGC
1 AAAACACCACTAAAATGTTAAATCCATATTGTGAAACATCGTCGTCCAAGGGTAATGGGTATTGA
* *
105227388 ACTTTTACGGCGTTTTTCAAAAACGCCCTTAAAACTTAATTCTATGACGTAGAATGATGACGTCC
66 ACTTTTACGGCGTTTTACAAAAACGCCCTTAAAACTTAATTCTATGACGTAGAA-GACGACGTCC
* * * * *
105227453 AGGGTAAATTTGTATTGTAAATTTGCGGCGTTTATG
130 AGGGCAAATTGGTATTGCAAATTTACGACGTTTATG
* * *
105227489 AAAACACCACTAAAA-GTTAAAT-CGTGTTGTGAAACAAT-GTCGTTCAAGGGTAATGGGTATTG
1 AAAACACCACTAAAATGTTAAATCCATATTGTGAAAC-ATCGTCGTCCAAGGGTAATGGGTATTG
* * * *
105227551 AACTTTTGCGGCGTTTATACAAAAACGCCAC-TAAAACTTATTTGC-CTGGCGT-GAA-ACGACG
65 AACTTTTACGGCGTTT-TACAAAAACGCC-CTTAAAACTTAATT-CTATGACGTAGAAGACGACG
*
105227612 TCTTCGAGGGCAAATTGGTGTTGCAAATTTACGACGTTTATG
127 TC--C-AGGGCAAATTGGTATTGCAAATTTACGACGTTTATG
* *
105227654 AAAGCGCCACTAAAA
1 AAAACACCACTAAAA
105227669 ATTTTATTCC
Statistics
Matches: 151, Mismatches: 22, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
162 7 0.05
164 51 0.34
165 76 0.50
166 17 0.11
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.30
Consensus pattern (165 bp):
AAAACACCACTAAAATGTTAAATCCATATTGTGAAACATCGTCGTCCAAGGGTAATGGGTATTGA
ACTTTTACGGCGTTTTACAAAAACGCCCTTAAAACTTAATTCTATGACGTAGAAGACGACGTCCA
GGGCAAATTGGTATTGCAAATTTACGACGTTTATG
Found at i:105228519 original size:41 final size:41
Alignment explanation
Indices: 105228330--105228518 Score: 274
Period size: 41 Copynumber: 4.6 Consensus size: 41
105228320 TAATTTAGAT
* *
105228330 AAAAACACCGCTATTGATCAGTTTTTAGTGGCGTTTTGGCC
1 AAAAACGCCGCTATTGCTCAGTTTTTAGTGGCGTTTTGGCC
* *
105228371 AAAAATGCCGCTATTGCTCAGTTTTTAGTGGCGTTTGGGCC
1 AAAAACGCCGCTATTGCTCAGTTTTTAGTGGCGTTTTGGCC
* *
105228412 AAAAACGCCGCTATTACTCAGTTTTTAGTGGCAG-TTAGGCC
1 AAAAACGCCGCTATTGCTCAGTTTTTAGTGGC-GTTTTGGCC
105228453 AAAAACGCCGCTATTGCTCAGTTTTTAGTGGC-TTTTGGCC
1 AAAAACGCCGCTATTGCTCAGTTTTTAGTGGCGTTTTGGCC
* * *
105228493 AAAAATGCTGCTATTGTTCAGTTTTT
1 AAAAACGCCGCTATTGCTCAGTTTTT
105228519 TTGCGAAAAC
Statistics
Matches: 134, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
40 29 0.22
41 104 0.78
42 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (41 bp):
AAAAACGCCGCTATTGCTCAGTTTTTAGTGGCGTTTTGGCC
Found at i:105230655 original size:35 final size:35
Alignment explanation
Indices: 105230610--105230677 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
105230600 TAGGGATAAG
105230610 GTATCAATACTTCATTG-AAGGTATCGATACCTTTC
1 GTATCAATACTTCA-TGAAAGGTATCGATACCTTTC
* * *
105230645 GTATCGATACTTTATGAAAGGTATTGATACCTT
1 GTATCAATACTTCATGAAAGGTATCGATACCTT
105230678 CGATTTTTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 2 0.07
35 27 0.93
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.38
Consensus pattern (35 bp):
GTATCAATACTTCATGAAAGGTATCGATACCTTTC
Found at i:105238840 original size:26 final size:27
Alignment explanation
Indices: 105238774--105238869 Score: 81
Period size: 27 Copynumber: 3.6 Consensus size: 27
105238764 AATAACTGAT
* * *
105238774 TTCGCGCATTTAGTGCTCAGAAAT-TAA
1 TTCGCACACTTAGTGCTCAG-AATCAAA
* * * *
105238801 TTCACACACATAGTGCTTA-AATCCAAC
1 TTCGCACACTTAGTGCTCAGAAT-CAAA
*
105238828 TT-GCACACTTAGTGCTCAGTATCAAA
1 TTCGCACACTTAGTGCTCAGAATCAAA
105238854 TTCGCACACTTAGTGC
1 TTCGCACACTTAGTGC
105238870 ATCCCTGAAA
Statistics
Matches: 53, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
25 3 0.06
26 18 0.34
27 32 0.60
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (27 bp):
TTCGCACACTTAGTGCTCAGAATCAAA
Found at i:105241610 original size:132 final size:132
Alignment explanation
Indices: 105241302--105241670 Score: 379
Period size: 132 Copynumber: 2.8 Consensus size: 132
105241292 AGTATTCACT
* * * * *
105241302 TAAAAATTCTTTAAAACGAAGACGAGAT-T-CGATGTTTGGCAATTCACAGAATAGTGCCCTAAC
1 TAAAAATTCTCTAAAACGAAG--GAAATCTGCGATGTTTGGCAATTCGCGGAATCGTGCCCTAAC
* * * * *
105241365 GTGTTAGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCCCTTCAAAAATTCACTCATGT
64 GTGCTAGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATATCCCTCCAAAAATTCACGCATAT
*
105241430 CTTT
129 CTTC
* * * ** * * *
105241434 TAAAAATTCTTTCAAACGGAGGTGATGTGCGATATTTGGTAATTCGCGGAATCGTGCCCTAACGT
1 TAAAAATTCTCTAAAACGAAGGAAATCTGCGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGT
* * *
105241499 GCTAGGTTGCAATTTCTCGTTTGCTTAAAATAATCAAATATCCCTCCAAAATTTCACGCATATCT
66 GCTAGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATATCCCTCCAAAAATTCACGCATATCT
105241564 TC
131 TC
* * * ** *
105241566 TAAAAA-TCATCTAAAACGAATGAAATACT-CGGTGTTTGACAATTCG-GGAATCCCGCCCTATC
1 TAAAAATTC-TCTAAAACGAAGGAAAT-CTGCGATGTTTGGCAATTCGCGGAATCGTGCCCTAAC
* ** *
105241628 GTGCTGGGTTGTGATTTCTCGTTTGCTCAAAACAATCGAATAT
64 GTGCTAGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATAT
105241671 TCCTTTAGGT
Statistics
Matches: 196, Mismatches: 37, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
130 4 0.02
131 53 0.27
132 138 0.70
133 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (132 bp):
TAAAAATTCTCTAAAACGAAGGAAATCTGCGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGT
GCTAGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATATCCCTCCAAAAATTCACGCATATCT
TC
Found at i:105244343 original size:18 final size:19
Alignment explanation
Indices: 105244308--105244343 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
105244298 ATATAAGACA
105244308 AATAGTATCATGTCAACTT
1 AATAGTATCATGTCAACTT
*
105244327 AATAGTA-CATGTGAACT
1 AATAGTATCATGTCAACT
105244344 GCTATACGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (19 bp):
AATAGTATCATGTCAACTT
Found at i:105251337 original size:32 final size:32
Alignment explanation
Indices: 105251301--105251364 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
105251291 TTAATTGAAC
105251301 AAAAAGAACTAAATTGTATTAAATGCAAAATT
1 AAAAAGAACTAAATTGTATTAAATGCAAAATT
*
105251333 AAAAAGAACTAAATTGTATTAAATGTAAAATT
1 AAAAAGAACTAAATTGTATTAAATGCAAAATT
105251365 GTGGGAAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.56, C:0.05, G:0.09, T:0.30
Consensus pattern (32 bp):
AAAAAGAACTAAATTGTATTAAATGCAAAATT
Found at i:105253038 original size:50 final size:51
Alignment explanation
Indices: 105252961--105253075 Score: 178
Period size: 50 Copynumber: 2.3 Consensus size: 51
105252951 GACCATGGCA
* *
105252961 ACAAGTGATAAGTGATAGTTTCGGCTACACTTATCTGATCAAAAACAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAAAACAAATG
**
105253012 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAAAACAAATG
*
105253062 ACAAGTGAAAAGTG
1 ACAAGTGATAAGTG
105253076 GTAACTTCTG
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
50 46 0.79
51 12 0.21
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAAAACAAATG
Found at i:105253174 original size:31 final size:31
Alignment explanation
Indices: 105253065--105253182 Score: 110
Period size: 31 Copynumber: 3.8 Consensus size: 31
105253055 ACAAATGACA
* * * * * *
105253065 AGTGAAAAGTGGTAACTTCTGTTACCTGGTC
1 AGTGAAAAGTGGTAGCTCCGGCTACCCGATC
* *
105253096 AGTGAAAAGTGGTAGCTCTGGTTACCCGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCCGATC
* * **
105253127 AGTGAAAAATGATAGCTCCGGCTACTTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCCGATC
* *
105253158 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTCCGGCTAC
105253183 AAGTGACAAG
Statistics
Matches: 71, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 71 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTCCGGCTACCCGATC
Found at i:105253352 original size:49 final size:48
Alignment explanation
Indices: 105253253--105253368 Score: 155
Period size: 49 Copynumber: 2.4 Consensus size: 48
105253243 CTACTGTATA
* * * *
105253253 AGCTGGGATATGGCATC-A-GTGAGATATGTGATTCGTGTACGACCAT
1 AGCTGGGCTATGGCATCGATATGAGATATGTGATTCATGTAAGACCAT
* *
105253299 AGCTGGGCTATGGCATCGATATGTGATATGTGATTACATTTAAGACCAT
1 AGCTGGGCTATGGCATCGATATGAGATATGTGATT-CATGTAAGACCAT
105253348 AGCTGGGCTATGGCATCGATA
1 AGCTGGGCTATGGCATCGATA
105253369 AATGACTATG
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
46 16 0.26
47 1 0.02
48 13 0.21
49 31 0.51
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (48 bp):
AGCTGGGCTATGGCATCGATATGAGATATGTGATTCATGTAAGACCAT
Found at i:105256359 original size:30 final size:30
Alignment explanation
Indices: 105256323--105256382 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
105256313 ACTTAACAAT
105256323 CAAATG-CTTCTAAAATAATAAAAAAATTAA
1 CAAATGCCTT-TAAAATAATAAAAAAATTAA
*
105256353 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTTTAAAATAATAAAAAAATTAA
105256383 TAATAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 25 0.89
31 3 0.11
ACGTcount: A:0.58, C:0.12, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAAAAAAATTAA
Found at i:105256440 original size:22 final size:22
Alignment explanation
Indices: 105256415--105256457 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
105256405 TATTCAAACA
105256415 ATAATAACAAAATAGTAGCAAC
1 ATAATAACAAAATAGTAGCAAC
** *
105256437 ATAATAGTAAAATTGTAGCAA
1 ATAATAACAAAATAGTAGCAA
105256458 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.23
Consensus pattern (22 bp):
ATAATAACAAAATAGTAGCAAC
Found at i:105258142 original size:74 final size:73
Alignment explanation
Indices: 105258015--105258239 Score: 319
Period size: 74 Copynumber: 3.0 Consensus size: 73
105258005 TGGTCCCCCC
* * * *
105258015 AAGGTTTAA-ATTTTTTGCAATTTAGCCCTTTATAGAGATACTAT-GACCCTCCCAAAAATATAA
1 AAGGTTTAAGA-TTTTTGCAATTT-CCCCTTTGTATATATACTATAG-CCCTCCCAAAAATATAA
105258078 GTAGGCCCTCT
63 GTAGGCCCTCT
* *
105258089 AAGGTTTAAGATTTTTGCAATTTTCCCGTTTGTATATATACTATAGCCTTCCCAAAAATATAAGT
1 AAGGTTTAAGATTTTTGCAA-TTTCCCCTTTGTATATATACTATAGCCCTCCCAAAAATATAAGT
105258154 AGGCCCTCT
65 AGGCCCTCT
*
105258163 AAGGTTTAAGATTTTTGCAATTTCCCCCTTTGTATATATACTATAACCCTCCCAAAAATATAAGT
1 AAGGTTTAAGATTTTTGCAATTT-CCCCTTTGTATATATACTATAGCCCTCCCAAAAATATAAGT
105258228 AGGCCTCTCT
65 AGGCC-CTCT
105258238 AA
1 AA
105258240 TATTTTTATA
Statistics
Matches: 137, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
73 3 0.02
74 123 0.90
75 11 0.08
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (73 bp):
AAGGTTTAAGATTTTTGCAATTTCCCCTTTGTATATATACTATAGCCCTCCCAAAAATATAAGTA
GGCCCTCT
Found at i:105258279 original size:13 final size:12
Alignment explanation
Indices: 105258247--105258271 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
105258237 TAATATTTTT
105258247 ATAATATTAAAA
1 ATAATATTAAAA
105258259 ATAATATTAAAA
1 ATAATATTAAAA
105258271 A
1 A
105258272 ATATTATTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAATATTAAAA
Found at i:105258369 original size:24 final size:25
Alignment explanation
Indices: 105258342--105258392 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
105258332 AACTTTTGAA
**
105258342 TAATATTTTTGTT-AAATAATAATT
1 TAATATTTTACTTAAAATAATAATT
105258366 TAATATTTTACTTAAAATAATAATT
1 TAATATTTTACTTAAAATAATAATT
105258391 TA
1 TA
105258393 TAAGTAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (25 bp):
TAATATTTTACTTAAAATAATAATT
Found at i:105261051 original size:20 final size:23
Alignment explanation
Indices: 105261014--105261057 Score: 67
Period size: 20 Copynumber: 2.0 Consensus size: 23
105261004 CATAGAAAAC
105261014 AATTTTAGTGTTAGTAAAATTAA
1 AATTTTAGTGTTAGTAAAATTAA
105261037 AATTTTA-TG-TA-TAAAATTAA
1 AATTTTAGTGTTAGTAAAATTAA
105261057 A
1 A
105261058 TTAAAAATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.48
21 2 0.10
22 2 0.10
23 7 0.33
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (23 bp):
AATTTTAGTGTTAGTAAAATTAA
Found at i:105261072 original size:25 final size:25
Alignment explanation
Indices: 105261030--105261080 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
105261020 AGTGTTAGTA
* *
105261030 AAATTAAAATTTTATGTATAAAATT
1 AAATTAAAAATTCATGTATAAAATT
* *
105261055 AAATTAAAAATTCGTGTATAATATT
1 AAATTAAAAATTCATGTATAAAATT
105261080 A
1 A
105261081 CATATTAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.41
Consensus pattern (25 bp):
AAATTAAAAATTCATGTATAAAATT
Done.