Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 434 of 438
Found at i:133649010 original size:40 final size:40
Alignment explanation
Indices: 133648964--133649044 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
133648954 AATTATGGGA
* * *
133648964 TACTGAATATTGTTTTGAATACCGAATTGAACTGTGAAAT
1 TACTGAATAATGTTATGAATACCGAATTGAACTGTAAAAT
* ** *
133649004 TACTGAATAATGTTATGTATATTGCATTGAACTGTAAAAT
1 TACTGAATAATGTTATGAATACCGAATTGAACTGTAAAAT
133649044 T
1 T
133649045 TCTAATGAAG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.40
Consensus pattern (40 bp):
TACTGAATAATGTTATGAATACCGAATTGAACTGTAAAAT
Found at i:133649316 original size:51 final size:50
Alignment explanation
Indices: 133649250--133649374 Score: 145
Period size: 45 Copynumber: 2.6 Consensus size: 50
133649240 ATGTGCAGAC
*
133649250 TACTGTTACTC-TTACTGTTACTGTTACCGATTCGACACTTTGTGTGTCGAA
1 TACTGTTAC-CGTTACTGTTACTG-TACCGATTCAACACTTTGTGTGTCGAA
*
133649301 TACTGTTACCGTTACTGTTAC---A--GATTCAACACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACTGTACCGATTCAACACTTTGTGTGTCGAA
* *
133649346 TACTGTTACTGTTACTGCTACTGCTACCG
1 TACTGTTACCGTTACTGTTACTG-TACCG
133649375 TTACTGATTA
Statistics
Matches: 63, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
45 40 0.63
47 1 0.02
49 1 0.02
50 1 0.02
51 20 0.32
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.40
Consensus pattern (50 bp):
TACTGTTACCGTTACTGTTACTGTACCGATTCAACACTTTGTGTGTCGAA
Found at i:133649333 original size:45 final size:45
Alignment explanation
Indices: 133649256--133649362 Score: 169
Period size: 45 Copynumber: 2.4 Consensus size: 45
133649246 AGACTACTGT
* * *
133649256 TACTCTTACTGTTACTGTTACCGATTCGACACTTTGTGTGTCGAA
1 TACTGTTACTGTTACTGTTACAGATTCAACACTTTGTGTGTCGAA
* *
133649301 TACTGTTACCGTTACTGTTACAGATTCAACACTTTGTGTGTTGAA
1 TACTGTTACTGTTACTGTTACAGATTCAACACTTTGTGTGTCGAA
133649346 TACTGTTACTGTTACTG
1 TACTGTTACTGTTACTG
133649363 CTACTGCTAC
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 56 1.00
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.41
Consensus pattern (45 bp):
TACTGTTACTGTTACTGTTACAGATTCAACACTTTGTGTGTCGAA
Found at i:133649377 original size:18 final size:18
Alignment explanation
Indices: 133649346--133649380 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
133649336 GTGTGTTGAA
* *
133649346 TACTGTTACTGTTACTGC
1 TACTGCTACCGTTACTGC
133649364 TACTGCTACCGTTACTG
1 TACTGCTACCGTTACTG
133649381 ATTACTGATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (18 bp):
TACTGCTACCGTTACTGC
Found at i:133652324 original size:148 final size:147
Alignment explanation
Indices: 133652056--133652346 Score: 510
Period size: 148 Copynumber: 2.0 Consensus size: 147
133652046 CCGGATGCCG
133652056 GCGGAGGAACGAGGTAATGGTTACAGCGGTGGAGAGGGTGGCTGTGGTGGAGGAGGCCATGTCGT
1 GCGGAGGAACGAGGTAATGGTTACAGCGGTGGAGAGGGTGGCTGTGGTGGAGGAGGCCATGTCGT
*
133652121 GAGAGCCGTTAGCAGATGAGTTGATATACAGGGGAAAGTACGGCTGAAGATAAAGAATTGGCTGG
66 GAGAGCCATTAGCAGATGAGTTGATATACAGGGGAAAGTACGGCTGAAGATAAAGAATTGGCTGG
133652186 TTGTGTGGATTATTGGCA
131 TTGTGTGG-TTATTGGCA
* * *
133652204 GCGGAGGAACGAGGTAATGGTTACAGCGGTGGAGAGGGTGGCTGTTGTGGAGGAGGCCGTGTTGT
1 GCGGAGGAACGAGGTAATGGTTACAGCGGTGGAGAGGGTGGCTGTGGTGGAGGAGGCCATGTCGT
* * *
133652269 GAGAGCCATTAGCAGATGAGTTGATATAGAGGGGAAAGTATGGCTGAGGATAAAGAATTGGCTGG
66 GAGAGCCATTAGCAGATGAGTTGATATACAGGGGAAAGTACGGCTGAAGATAAAGAATTGGCTGG
133652334 TTGTGTGGTTATT
131 TTGTGTGGTTATT
133652347 ATCTGCCACG
Statistics
Matches: 136, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
147 5 0.04
148 131 0.96
ACGTcount: A:0.25, C:0.10, G:0.42, T:0.24
Consensus pattern (147 bp):
GCGGAGGAACGAGGTAATGGTTACAGCGGTGGAGAGGGTGGCTGTGGTGGAGGAGGCCATGTCGT
GAGAGCCATTAGCAGATGAGTTGATATACAGGGGAAAGTACGGCTGAAGATAAAGAATTGGCTGG
TTGTGTGGTTATTGGCA
Found at i:133662940 original size:19 final size:19
Alignment explanation
Indices: 133662907--133662944 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
133662897 TTTTTTCTTT
*
133662907 AAATTAGTTCTTATACTTGG
1 AAATTAGTTCCTATA-TTGG
133662927 AAATT-GTTCCTATATTGG
1 AAATTAGTTCCTATATTGG
133662945 GGTTTAAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 8 0.47
20 5 0.29
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.45
Consensus pattern (19 bp):
AAATTAGTTCCTATATTGG
Found at i:133668025 original size:18 final size:21
Alignment explanation
Indices: 133667988--133668030 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 21
133667978 TAAAAATACT
133667988 TTTTATACTCTTTAAAATAA-
1 TTTTATACTCTTTAAAATAAG
*
133668008 TTTTA-ACT-TTTTAAATAAG
1 TTTTATACTCTTTAAAATAAG
133668027 TTTT
1 TTTT
133668031 TATATATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 9 0.43
19 7 0.33
20 5 0.24
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.56
Consensus pattern (21 bp):
TTTTATACTCTTTAAAATAAG
Found at i:133677969 original size:3 final size:3
Alignment explanation
Indices: 133677961--133677989 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
133677951 TTTCCACACA
133677961 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
133677990 GTCATTGTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:133679992 original size:2 final size:2
Alignment explanation
Indices: 133679985--133680027 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
133679975 TGAATATTGA
133679985 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
133680027 A
1 A
133680028 AAGGTTAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:133686604 original size:37 final size:38
Alignment explanation
Indices: 133686563--133686638 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
133686553 TTAGAATTGG
133686563 TCGATTTTAGTCTCTGTA-TTTTTGAATTTCAAAATTT
1 TCGATTTTAGTCTCTGTATTTTTTGAATTTCAAAATTT
133686600 TCGATTTTAGTCTCTGTATTTTTTGAATTTCAAAATTT
1 TCGATTTTAGTCTCTGTATTTTTTGAATTTCAAAATTT
133686638 T
1 T
133686639 AGTCTTGACC
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 18 0.47
38 20 0.53
ACGTcount: A:0.24, C:0.11, G:0.11, T:0.55
Consensus pattern (38 bp):
TCGATTTTAGTCTCTGTATTTTTTGAATTTCAAAATTT
Found at i:133689812 original size:13 final size:13
Alignment explanation
Indices: 133689794--133689825 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
133689784 GAAAGAGAGA
133689794 TTTTAATAATTAT
1 TTTTAATAATTAT
*
133689807 TTTTAATCATTAT
1 TTTTAATAATTAT
133689820 TTTTAA
1 TTTTAA
133689826 ATGTGTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTTAATAATTAT
Found at i:133694207 original size:18 final size:16
Alignment explanation
Indices: 133694152--133694196 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
133694142 TTTTTTTCTC
*
133694152 AATATATTTTTATTTA-
1 AATA-ATTTATATTTAT
133694168 AA-AA-TTATATTTAT
1 AATAATTTATATTTAT
133694182 AATAATTTATATTTA
1 AATAATTTATATTTA
133694197 ATCACTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
13 8 0.32
14 3 0.12
15 3 0.12
16 11 0.44
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
AATAATTTATATTTAT
Found at i:133696101 original size:46 final size:44
Alignment explanation
Indices: 133695997--133696104 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
133695987 TGTCTTTGAC
** * * *
133695997 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
133696041 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
133696087 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
133696105 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:133697998 original size:14 final size:15
Alignment explanation
Indices: 133697961--133697999 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
133697951 CGGACACAAA
133697961 ATTTTTTTATTTTTTG
1 ATTTTTTTA-TTTTTG
*
133697977 AATTTTTTA-TTTTG
1 ATTTTTTTATTTTTG
133697991 ATTTTTTTA
1 ATTTTTTTA
133698000 CTAACATCGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 13 0.62
16 8 0.38
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (15 bp):
ATTTTTTTATTTTTG
Found at i:133706345 original size:30 final size:30
Alignment explanation
Indices: 133706288--133706345 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
133706278 TTAATCATAT
* * *
133706288 TCTTTAAAGCTTTTAGAAAACTTAATTAAG
1 TCTTTAAAGCTTTTAAAAAAATCAATTAAG
133706318 TCTTTAAAAG-TTTTAAAAAAATCAATTA
1 TCTTT-AAAGCTTTTAAAAAAATCAATTA
133706346 GACCTCTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.40
Consensus pattern (30 bp):
TCTTTAAAGCTTTTAAAAAAATCAATTAAG
Found at i:133709095 original size:23 final size:24
Alignment explanation
Indices: 133709054--133709108 Score: 85
Period size: 23 Copynumber: 2.3 Consensus size: 24
133709044 ATATGAGTTG
*
133709054 AATTTTTACACGTCTTTTGCCTGT
1 AATTTTTACACGTCTTTTGCATGT
133709078 AATTTTTACACGTC-TTTGCATGT
1 AATTTTTACACGTCTTTTGCATGT
*
133709101 AACTTTTA
1 AATTTTTA
133709109 AGGTGAGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 15 0.52
24 14 0.48
ACGTcount: A:0.22, C:0.18, G:0.11, T:0.49
Consensus pattern (24 bp):
AATTTTTACACGTCTTTTGCATGT
Found at i:133715582 original size:195 final size:192
Alignment explanation
Indices: 133715250--133715639 Score: 663
Period size: 195 Copynumber: 2.0 Consensus size: 192
133715240 CATCCAATCA
133715250 AACAGCTGCAAAAAAATTATCCAAAACAACAAAGAATCAAAGTCCATCCAAACAAAATATCTACT
1 AACAGCTGCAAAAAAATTATCCAAAACAACAAAGAATCAAAGTCCATCCAAACAAAATATCTACT
*
133715315 TTGACATTAAGGATACATAGCAATAGCATACACACAGGGGTGAAACCAAGGGACAGGCAGGCCTT
66 TTGACATTAAGGATACATAGCAATAGCATACAAACAGGGGTGAAACCAAGGGACAGGCAGGCCTT
** *
133715380 CGGTAAATGGAAAATTTGCATTTTAGGCCCTCCCAATAATTAAAATTTCAATTTAAGACCCTTTT
131 CGGTAAATGGAAAATTTGCATTTT-GGCCCAACCAAGAATTAAAATTTCAATTTAAGA--CTTTT
* *
133715445 AACAGCTGCAAAAAAATTATCCGAAACAACAAAGAATCAAAGTTCATCCAAACAAAATATCTACT
1 AACAGCTGCAAAAAAATTATCCAAAACAACAAAGAATCAAAGTCCATCCAAACAAAATATCTACT
*
133715510 TTGACATTAAGGATACGTAGCAATAGCATACAAACAGGGGTGAAACCAAGGGACAGGCAGGCCTT
66 TTGACATTAAGGATACATAGCAATAGCATACAAACAGGGGTGAAACCAAGGGACAGGCAGGCCTT
* * *
133715575 TGGTAAATGGAAATTTTGCATTTTGGTCCAACCAAGAATTAAAATTTCAATTTAAGACTTTT
131 CGGTAAATGGAAAATTTGCATTTTGGCCCAACCAAGAATTAAAATTTCAATTTAAGACTTTT
133715637 AAC
1 AAC
133715640 GCAAAATTCA
Statistics
Matches: 185, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
192 8 0.04
194 29 0.16
195 148 0.80
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.24
Consensus pattern (192 bp):
AACAGCTGCAAAAAAATTATCCAAAACAACAAAGAATCAAAGTCCATCCAAACAAAATATCTACT
TTGACATTAAGGATACATAGCAATAGCATACAAACAGGGGTGAAACCAAGGGACAGGCAGGCCTT
CGGTAAATGGAAAATTTGCATTTTGGCCCAACCAAGAATTAAAATTTCAATTTAAGACTTTT
Found at i:133716676 original size:31 final size:31
Alignment explanation
Indices: 133716641--133716703 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
133716631 TTATCATCCT
**
133716641 AGTAACTTAAATAAAAACTTTTGAATAGTTC
1 AGTAACTTAAATAAAAACTTTCAAATAGTTC
**
133716672 AGTAACTTAAATGGAAACTTTCAAATAGTTC
1 AGTAACTTAAATAAAAACTTTCAAATAGTTC
133716703 A
1 A
133716704 TTTTGTAACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (31 bp):
AGTAACTTAAATAAAAACTTTCAAATAGTTC
Found at i:133718200 original size:35 final size:35
Alignment explanation
Indices: 133718154--133718319 Score: 165
Period size: 35 Copynumber: 4.6 Consensus size: 35
133718144 TTTTCTCATT
* * *
133718154 GAAATACCATACCTATATTTTTTAACTCGGTATGG
1 GAAATACCATACCTACATTTCTTAACTCAGTATGG
*
133718189 GAAATGCCATACCTACATTTCTTAACTCAGTATGG
1 GAAATACCATACCTACATTTCTTAACTCAGTATGG
** *
133718224 ATTTGATAATACCATACCTACATTTCACAGCTCAGTAT-G
1 ----GA-AATACCATACCTACATTTCTTAACTCAGTATGG
**
133718263 GATAATACCATACCTACATTTCACAACTCAGTAT-G
1 GA-AATACCATACCTACATTTCTTAACTCAGTATGG
*
133718298 GATGATACCATACCTACATTTC
1 GA-AATACCATACCTACATTTC
133718320 ACACTTTGCC
Statistics
Matches: 116, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 86 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.33
Consensus pattern (35 bp):
GAAATACCATACCTACATTTCTTAACTCAGTATGG
Found at i:133718262 original size:75 final size:73
Alignment explanation
Indices: 133718151--133718322 Score: 208
Period size: 75 Copynumber: 2.4 Consensus size: 73
133718141 TGGTTTTCTC
* *** * * **
133718151 ATTGAAATACCATACCTATATTTTTTAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
133718215 TCAGTATGG
65 TCAGTATGG
*
133718224 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
133718289 CTCAGTATGG
64 CTCAGTATGG
133718299 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
133718323 CTTTGCCATG
Statistics
Matches: 87, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 56 0.64
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.33
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:133718320 original size:35 final size:35
Alignment explanation
Indices: 133718195--133718322 Score: 175
Period size: 35 Copynumber: 3.5 Consensus size: 35
133718185 ATGGGAAATG
**
133718195 CCATACCTACATTTCTTAACTCAGTATGGATTTGATAATA
1 CCATACCTACATTTCACAACTCAGTATGGA--TG---ATA
* *
133718235 CCATACCTACATTTCACAGCTCAGTATGGATAATA
1 CCATACCTACATTTCACAACTCAGTATGGATGATA
133718270 CCATACCTACATTTCACAACTCAGTATGGATGATA
1 CCATACCTACATTTCACAACTCAGTATGGATGATA
133718305 CCATACCTACATTTCACA
1 CCATACCTACATTTCACA
133718323 CTTTGCCATG
Statistics
Matches: 82, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
35 54 0.66
38 1 0.01
40 27 0.33
ACGTcount: A:0.34, C:0.26, G:0.09, T:0.31
Consensus pattern (35 bp):
CCATACCTACATTTCACAACTCAGTATGGATGATA
Found at i:133729062 original size:24 final size:23
Alignment explanation
Indices: 133729010--133729063 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
133729000 TTTCTTTTTC
*
133729010 TTTTCTTTTATTATTATTTATTTC
1 TTTT-TTTTATTATTATTTATTTA
*
133729034 CTTTTTTTATT-TTATAATTATTTA
1 TTTTTTTTATTATTAT--TTATTTA
133729058 TTTTTT
1 TTTTTT
133729064 AATATAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
22 4 0.16
23 7 0.28
24 14 0.56
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTTTTTTATTATTATTTATTTA
Found at i:133732081 original size:19 final size:19
Alignment explanation
Indices: 133732057--133732105 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
133732047 AACACACACA
*
133732057 AGTAAGCTTATTGAAACTT
1 AGTAAGCTCATTGAAACTT
*
133732076 AGTAAGCTCATTGAAGCTT
1 AGTAAGCTCATTGAAACTT
133732095 AGTAAGCTCAT
1 AGTAAGCTCAT
133732106 AGGCATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (19 bp):
AGTAAGCTCATTGAAACTT
Found at i:133732483 original size:53 final size:53
Alignment explanation
Indices: 133732426--133732545 Score: 186
Period size: 53 Copynumber: 2.3 Consensus size: 53
133732416 TATCCCAGAC
* * *
133732426 ATGGTCTTATATGGAATCACATTATCACATTATACTGATGCCATAGCCCAGCT
1 ATGGTCTTATACGGAATCACATTATCACATTACACCGATGCCATAGCCCAGCT
* *
133732479 ATGGTCTTATACGGAGTCACATTATCACATTGCACCGATGCCATAGCCCAGCT
1 ATGGTCTTATACGGAATCACATTATCACATTACACCGATGCCATAGCCCAGCT
*
133732532 ATGGTCTTAAACGG
1 ATGGTCTTATACGG
133732546 GCGCACTTAT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 61 1.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (53 bp):
ATGGTCTTATACGGAATCACATTATCACATTACACCGATGCCATAGCCCAGCT
Found at i:133749788 original size:31 final size:31
Alignment explanation
Indices: 133749750--133749810 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
133749740 CAAAAACGGG
133749750 GGGTGGGGGATGGAGGATGGGTTATTATTAA
1 GGGTGGGGGATGGAGGATGGGTTATTATTAA
133749781 GGGTGGGGGATGGAGGATGGGTTATTATTA
1 GGGTGGGGGATGGAGGATGGGTTATTATTA
133749811 CCCTTTCCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.21, C:0.00, G:0.49, T:0.30
Consensus pattern (31 bp):
GGGTGGGGGATGGAGGATGGGTTATTATTAA
Found at i:133760487 original size:4 final size:4
Alignment explanation
Indices: 133760448--133760503 Score: 53
Period size: 4 Copynumber: 13.8 Consensus size: 4
133760438 GTCAAAAAAG
* *
133760448 TAAA TCAAA CAAA TTAAA -AAA TTAAA TTAA -AAA TAAA TAAA TAAA TAAA
1 TAAA T-AAA TAAA -TAAA TAAA -TAAA TAAA TAAA TAAA TAAA TAAA TAAA
133760497 TAAA TAA
1 TAAA TAA
133760504 GAATTCATGT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
3 5 0.12
4 29 0.67
5 9 0.21
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:133761945 original size:62 final size:63
Alignment explanation
Indices: 133761865--133761994 Score: 160
Period size: 61 Copynumber: 2.1 Consensus size: 63
133761855 AAATTGCCTG
* * * *
133761865 AATTTTTTAAATATTTTTAATTTAAATTCCTCGAA-TTTTTTTAAAAAATTTC-ATTAAA-TCCA
1 AATTTTTGAAATATTTTTAA-CTAAACTCC-CAAATTTTTTTTAAAAAA-TTCAATTAAACTCCA
133761927 A
63 A
*
133761928 AATTTTTGAAAT-TTTTTAACTAAACTCCCAAATTTTTTTTAAAAAATTCAATTAAACTCCGA
1 AATTTTTGAAATATTTTTAACTAAACTCCCAAATTTTTTTTAAAAAATTCAATTAAACTCCAA
133761990 AATTT
1 AATTT
133761995 AATACCTCGT
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
60 6 0.10
61 26 0.44
62 16 0.27
63 11 0.19
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.46
Consensus pattern (63 bp):
AATTTTTGAAATATTTTTAACTAAACTCCCAAATTTTTTTTAAAAAATTCAATTAAACTCCAA
Found at i:133762861 original size:12 final size:12
Alignment explanation
Indices: 133762844--133762880 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
133762834 TTTTTGATTT
133762844 AATAATAATTAA
1 AATAATAATTAA
133762856 AATAATAA-TAA
1 AATAATAATTAA
*
133762867 AA-ATTAATTAA
1 AATAATAATTAA
133762878 AAT
1 AAT
133762881 TTTTTTATCG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
10 4 0.18
11 10 0.45
12 8 0.36
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AATAATAATTAA
Found at i:133763963 original size:11 final size:11
Alignment explanation
Indices: 133763947--133763975 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
133763937 AAATTATATT
133763947 ATTTTCCCAAA
1 ATTTTCCCAAA
133763958 ATTTTCCCAAA
1 ATTTTCCCAAA
133763969 ATTTTCC
1 ATTTTCC
133763976 ACAATTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.41
Consensus pattern (11 bp):
ATTTTCCCAAA
Found at i:133768668 original size:12 final size:12
Alignment explanation
Indices: 133768651--133768680 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
133768641 TTTTGATGCT
133768651 AAAAGTTTAAAG
1 AAAAGTTTAAAG
133768663 AAAAGTTTAAAG
1 AAAAGTTTAAAG
133768675 AAAAGT
1 AAAAGT
133768681 AAAATATTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.17, T:0.23
Consensus pattern (12 bp):
AAAAGTTTAAAG
Found at i:133775060 original size:31 final size:31
Alignment explanation
Indices: 133775025--133775083 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
133775015 AAATAATCAT
133775025 TAAACTATTCAAAA-GTTTTTATTTAAGTCAC
1 TAAACTATT-AAAATGTTTTTATTTAAGTCAC
133775056 TAAACTATTAAAATGTTTTTATTTAAGT
1 TAAACTATTAAAATGTTTTTATTTAAGT
133775084 TATTAGGCTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 4 0.15
31 23 0.85
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.46
Consensus pattern (31 bp):
TAAACTATTAAAATGTTTTTATTTAAGTCAC
Found at i:133780908 original size:3 final size:3
Alignment explanation
Indices: 133780895--133780933 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
133780885 CAACAACCTT
*
133780895 TTA TTA ATA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
133780934 AGAGAGAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:133783946 original size:15 final size:16
Alignment explanation
Indices: 133783926--133783955 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
133783916 GTGTAATAAT
133783926 TTTTTTA-ATTTTAAA
1 TTTTTTAGATTTTAAA
133783941 TTTTTTAGATTTTAA
1 TTTTTTAGATTTTAA
133783956 TGAATTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (16 bp):
TTTTTTAGATTTTAAA
Found at i:133786269 original size:46 final size:45
Alignment explanation
Indices: 133786213--133786388 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 45
133786203 TATCTGGGCA
133786213 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
133786259 TCTGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
133786306 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
133786352 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
133786389 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 66 0.62
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:133786368 original size:93 final size:93
Alignment explanation
Indices: 133786209--133786381 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
133786199 AGGATATCTG
* * * *
133786209 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
133786274 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
133786302 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
133786367 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
133786382 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:133790478 original size:30 final size:30
Alignment explanation
Indices: 133790444--133790502 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
133790434 AATTAAAATT
* *
133790444 TATCTTTTTAGTTTTTCATTTAATCCCACC
1 TATCTTTTGAATTTTTCATTTAATCCCACC
133790474 TATCTTTTGAATTTTTCATTTAATCCCAC
1 TATCTTTTGAATTTTTCATTTAATCCCAC
133790503 TTTAATTAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.22, C:0.22, G:0.03, T:0.53
Consensus pattern (30 bp):
TATCTTTTGAATTTTTCATTTAATCCCACC
Found at i:133790521 original size:42 final size:42
Alignment explanation
Indices: 133790474--133790584 Score: 150
Period size: 42 Copynumber: 2.6 Consensus size: 42
133790464 TAATCCCACC
* * * *
133790474 TATCTTTTGAATTTTTCATTTAATCCCACTTTAATTAGGATT
1 TATCTTTTTAATTTTTCATTTAATCCCACCTCAATTACGATT
*
133790516 TATCTTTTTAATTTTTCATTTAACCCCACCTCAATTACGATT
1 TATCTTTTTAATTTTTCATTTAATCCCACCTCAATTACGATT
* *
133790558 TATTTTTTTATTTTTTTCATTTAATCC
1 TATCTTTTTA-ATTTTTCATTTAATCC
133790585 GTGTTTGCTA
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
42 46 0.77
43 14 0.23
ACGTcount: A:0.24, C:0.17, G:0.04, T:0.55
Consensus pattern (42 bp):
TATCTTTTTAATTTTTCATTTAATCCCACCTCAATTACGATT
Found at i:133794963 original size:29 final size:30
Alignment explanation
Indices: 133794929--133795001 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 30
133794919 ATGGGGACTA
* *
133794929 GATCAAATTAGTCCCTCTATTATT-AAAAG
1 GATCAAATTAGTCCCTATAATATTAAAAAG
* *
133794958 GATCAATTTAGTCCTTATAATATTAAAAAG
1 GATCAAATTAGTCCCTATAATATTAAAAAG
*
133794988 GATCAAATAAGTCC
1 GATCAAATTAGTCC
133795002 AAATTGTAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 20 0.54
30 17 0.46
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (30 bp):
GATCAAATTAGTCCCTATAATATTAAAAAG
Found at i:133797221 original size:16 final size:16
Alignment explanation
Indices: 133797200--133797231 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
133797190 GGAATAAGTG
*
133797200 CTCAAAAACCATTCTA
1 CTCAAAAACCACTCTA
133797216 CTCAAAAACCACTCTA
1 CTCAAAAACCACTCTA
133797232 AGACTGCCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.34, G:0.00, T:0.22
Consensus pattern (16 bp):
CTCAAAAACCACTCTA
Found at i:133805320 original size:21 final size:21
Alignment explanation
Indices: 133805294--133805338 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
133805284 TTGTACTTTT
133805294 TAAATTTTAGAATTTCAGTCC
1 TAAATTTTAGAATTTCAGTCC
*
133805315 TAAATTTTAGAATTTTAGTCC
1 TAAATTTTAGAATTTCAGTCC
133805336 TAA
1 TAA
133805339 TCAAACGGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.44
Consensus pattern (21 bp):
TAAATTTTAGAATTTCAGTCC
Found at i:133810592 original size:3 final size:3
Alignment explanation
Indices: 133810584--133810611 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
133810574 ATGAAAAATC
133810584 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
133810612 ACCTACCCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:133811403 original size:15 final size:15
Alignment explanation
Indices: 133811385--133811416 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
133811375 TCGGCGTGAA
*
133811385 GGTGGATATGGAGGT
1 GGTGGATACGGAGGT
133811400 GGTGGATACGGAGGT
1 GGTGGATACGGAGGT
133811415 GG
1 GG
133811417 ACGCCGTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.03, G:0.56, T:0.22
Consensus pattern (15 bp):
GGTGGATACGGAGGT
Found at i:133812123 original size:11 final size:11
Alignment explanation
Indices: 133812100--133812137 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
133812090 ATTATTTTAA
133812100 AAAATTAAA-T
1 AAAATTAAATT
133812110 AAAATTAAATT
1 AAAATTAAATT
*
133812121 AAAACTAAATT
1 AAAATTAAATT
133812132 AAAATT
1 AAAATT
133812138 TACATGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (11 bp):
AAAATTAAATT
Found at i:133819808 original size:2 final size:2
Alignment explanation
Indices: 133819801--133819830 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
133819791 CGGAGTGAAT
133819801 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
133819831 CACATTTGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:133820152 original size:2 final size:2
Alignment explanation
Indices: 133820145--133820174 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
133820135 TCTAACAAGA
133820145 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
133820175 CAAACAAGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:133821504 original size:14 final size:15
Alignment explanation
Indices: 133821473--133821507 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
133821463 TACAATAACC
*
133821473 AAAATTAATTAAATT
1 AAAATTAATTAAACT
133821488 AAAATTAA-TAAACT
1 AAAATTAATTAAACT
133821502 AAAATT
1 AAAATT
133821508 CGTAATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (15 bp):
AAAATTAATTAAACT
Found at i:133822876 original size:4 final size:4
Alignment explanation
Indices: 133822867--133822892 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
133822857 TCAACTTGGG
133822867 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
133822893 CAATGGTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:133829304 original size:31 final size:31
Alignment explanation
Indices: 133829266--133829330 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
133829256 GACACTCAGC
133829266 ACCAAAATCAACAGTCATTGTAACTTCATTA
1 ACCAAAATCAACAGTCATTGTAACTTCATTA
*
133829297 ACCAAAATCAACAGTCATTGTAACTTCCTTA
1 ACCAAAATCAACAGTCATTGTAACTTCATTA
133829328 ACC
1 ACC
133829331 TTTGTAAAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.40, C:0.26, G:0.06, T:0.28
Consensus pattern (31 bp):
ACCAAAATCAACAGTCATTGTAACTTCATTA
Found at i:133829859 original size:17 final size:17
Alignment explanation
Indices: 133829837--133829870 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
133829827 GAACAATTGT
*
133829837 TTTAAGGATATCATATG
1 TTTAAGGATATAATATG
133829854 TTTAAGGATATAATATG
1 TTTAAGGATATAATATG
133829871 AGATAGTGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (17 bp):
TTTAAGGATATAATATG
Found at i:133833708 original size:14 final size:13
Alignment explanation
Indices: 133833690--133833728 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
133833680 GTAATTGTGG
133833690 ATTTTTAATATGT
1 ATTTTTAATATGT
*
133833703 ATTTTTTAATATAT
1 A-TTTTTAATATGT
*
133833717 ATTATTAATATG
1 ATTTTTAATATG
133833729 ATTAAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (13 bp):
ATTTTTAATATGT
Found at i:133835466 original size:39 final size:39
Alignment explanation
Indices: 133835412--133835496 Score: 161
Period size: 39 Copynumber: 2.2 Consensus size: 39
133835402 GGTGGTGCGA
133835412 ACATAAAATGCCATACAGTAGCAACTTTAACAGCCCATG
1 ACATAAAATGCCATACAGTAGCAACTTTAACAGCCCATG
133835451 ACATAAAATGCCATACAGTAGCAACTTTAACAGCCCATG
1 ACATAAAATGCCATACAGTAGCAACTTTAACAGCCCATG
*
133835490 ACGTAAA
1 ACATAAA
133835497 TAAAAATTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.42, C:0.25, G:0.13, T:0.20
Consensus pattern (39 bp):
ACATAAAATGCCATACAGTAGCAACTTTAACAGCCCATG
Found at i:133837809 original size:2 final size:2
Alignment explanation
Indices: 133837804--133837853 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
133837794 TCTTTACTCC
133837804 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
133837846 TA TA TA TA
1 TA TA TA TA
133837854 CACATACAAC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:133837936 original size:21 final size:20
Alignment explanation
Indices: 133837910--133837949 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
133837900 ATTTATTGAT
133837910 ATTGAT-GAAGACCAAAGAAAA
1 ATTGATGGAAGA--AAAGAAAA
133837931 ATTGATGGAAGAAAAGAAA
1 ATTGATGGAAGAAAAGAAA
133837950 TGGAAAGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 6 0.33
22 5 0.28
ACGTcount: A:0.57, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
ATTGATGGAAGAAAAGAAAA
Found at i:133856584 original size:81 final size:81
Alignment explanation
Indices: 133856441--133856690 Score: 353
Period size: 81 Copynumber: 3.1 Consensus size: 81
133856431 TGGAGCATGT
*
133856441 AGCATGTGCCTTCTTAATGGGAGTTTATTAATTGGACCAACGCATGGAACTGCAAAAA-AGTTGA
1 AGCATGTGCCTTCTTAATGGGAGTTTATTAATTGGACCAACGCATGGAACT-CAAAAAGAGTTGG
*
133856505 AATCAACACAACATTAG
65 AATCAACACAACATTGG
*
133856522 AGCATGTGCCTTCTTAATGGGAGTTTATTAATTGGACCAACAG-ATGGAACTTAAAAAGAGTTGG
1 AGCATGTGCCTTCTTAATGGGAGTTTATTAATTGGACCAAC-GCATGGAACTCAAAAAGAGTTGG
*
133856586 AATCAACACAACAATGG
65 AATCAACACAACATTGG
* * * * * *
133856603 CGCATGGGCGTTCTTAATGGGAGTTTATTAATTGGACCAACGCTTGCAACTGC-AATAGAGTTGG
1 AGCATGTGCCTTCTTAATGGGAGTTTATTAATTGGACCAACGCATGGAACT-CAAAAAGAGTTGG
*
133856667 AATCAACATAACATTGG
65 AATCAACACAACATTGG
133856684 AGCATGT
1 AGCATGT
133856691 AGCATCTGCC
Statistics
Matches: 150, Mismatches: 15, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
80 6 0.04
81 143 0.95
82 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.27
Consensus pattern (81 bp):
AGCATGTGCCTTCTTAATGGGAGTTTATTAATTGGACCAACGCATGGAACTCAAAAAGAGTTGGA
ATCAACACAACATTGG
Found at i:133858805 original size:24 final size:24
Alignment explanation
Indices: 133858772--133858821 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
133858762 TAAAATTTAG
*
133858772 TTTTTATATTTTTATATTTAAGAT
1 TTTTTATATTTTTATATTTAAAAT
* *
133858796 TTTTTTTATTTTTTTATTTAAAAT
1 TTTTTATATTTTTATATTTAAAAT
133858820 TT
1 TT
133858822 CAGGTATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (24 bp):
TTTTTATATTTTTATATTTAAAAT
Found at i:133859770 original size:3 final size:3
Alignment explanation
Indices: 133859762--133859794 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
133859752 GAACATATTT
133859762 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
133859795 GCTATGAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:133865968 original size:23 final size:24
Alignment explanation
Indices: 133865924--133865968 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
133865914 TGTCAAATCA
**
133865924 GTTTTTCTTAATGTCTAAATTATC
1 GTTTTTCTTAATGAATAAATTATC
*
133865948 GTTTTT-TTAATGAATATATTA
1 GTTTTTCTTAATGAATAAATTA
133865969 ACGAAAATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 12 0.67
24 6 0.33
ACGTcount: A:0.29, C:0.07, G:0.09, T:0.56
Consensus pattern (24 bp):
GTTTTTCTTAATGAATAAATTATC
Found at i:133867717 original size:10 final size:10
Alignment explanation
Indices: 133867702--133867726 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
133867692 AAACTTACTA
133867702 ATAATAAAAT
1 ATAATAAAAT
133867712 ATAATAAAAT
1 ATAATAAAAT
133867722 ATAAT
1 ATAAT
133867727 GACCAAGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
ATAATAAAAT
Found at i:133881006 original size:39 final size:40
Alignment explanation
Indices: 133880952--133881033 Score: 157
Period size: 39 Copynumber: 2.1 Consensus size: 40
133880942 AGTCATCTCC
133880952 AAGAAACTTTTATGCTACATTGCAGTTAAA-ACAGGGTTA
1 AAGAAACTTTTATGCTACATTGCAGTTAAAGACAGGGTTA
133880991 AAGAAACTTTTATGCTACATTGCAGTTAAAGACAGGGTTA
1 AAGAAACTTTTATGCTACATTGCAGTTAAAGACAGGGTTA
133881031 AAG
1 AAG
133881034 TTACATGAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 30 0.71
40 12 0.29
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (40 bp):
AAGAAACTTTTATGCTACATTGCAGTTAAAGACAGGGTTA
Found at i:133882123 original size:19 final size:19
Alignment explanation
Indices: 133882099--133882136 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
133882089 CCAAGTACAT
133882099 GCTTAAAATCTCATGATTC
1 GCTTAAAATCTCATGATTC
133882118 GCTTAAAATCTCATGATTC
1 GCTTAAAATCTCATGATTC
133882137 AGAAATTCGG
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:0.32, C:0.21, G:0.11, T:0.37
Consensus pattern (19 bp):
GCTTAAAATCTCATGATTC
Found at i:133883044 original size:29 final size:29
Alignment explanation
Indices: 133883012--133883141 Score: 101
Period size: 29 Copynumber: 4.6 Consensus size: 29
133883002 CACACGTGTA
**
133883012 TAATAAAAAATATAAAAATTATTAAATTT
1 TAATAAAAAATATAAAAATTATTAAAAAT
* **
133883041 TAATAAAAATATTTAAATTTTATTAAAAAT
1 TAATAAAAA-ATATAAAAATTATTAAAAAT
*
133883071 T-AT-AAAAATATAAAAAATGA-TAAAAA-
1 TAATAAAAAATAT-AAAAATTATTAAAAAT
* *
133883097 T-ATAAAAAATGTAAAATTTA-TAAAAAT
1 TAATAAAAAATATAAAAATTATTAAAAAT
* *
133883124 CATTAAAAAATTATAAAA
1 TAATAAAAAA-TATAAAA
133883142 TACATAAAAA
Statistics
Matches: 80, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
26 15 0.19
27 16 0.20
28 16 0.20
29 17 0.21
30 16 0.20
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.34
Consensus pattern (29 bp):
TAATAAAAAATATAAAAATTATTAAAAAT
Found at i:133883048 original size:20 final size:20
Alignment explanation
Indices: 133883023--133883073 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
133883013 AATAAAAAAT
133883023 ATAAAAATTATTAAATTTTA
1 ATAAAAATTATTAAATTTTA
133883043 ATAAAAA-TATTTAAATTTTA
1 ATAAAAATTA-TTAAATTTTA
*
133883063 TTAAAAATTAT
1 ATAAAAATTAT
133883074 AAAAATATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 2 0.07
20 24 0.86
21 2 0.07
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATAAAAATTATTAAATTTTA
Found at i:133883078 original size:9 final size:9
Alignment explanation
Indices: 133883014--133883141 Score: 80
Period size: 9 Copynumber: 13.7 Consensus size: 9
133883004 CACGTGTATA
*
133883014 ATAAAAAAT
1 ATAAAAATT
133883023 ATAAAAATT
1 ATAAAAATT
**
133883032 ATTAAATTTT
1 A-TAAAAATT
133883042 AATAAAAATAT
1 -ATAAAAAT-T
* **
133883053 TTAAATTTT
1 ATAAAAATT
133883062 ATTAAAAATT
1 A-TAAAAATT
133883072 ATAAAAA-T
1 ATAAAAATT
*
133883080 ATAAAAAATG
1 AT-AAAAATT
133883090 ATAAAAA-T
1 ATAAAAATT
*
133883098 ATAAAAAAT
1 ATAAAAATT
* *
133883107 GTAAAATTT
1 ATAAAAATT
*
133883116 ATAAAAATC
1 ATAAAAATT
133883125 ATTAAAAAATT
1 A-T-AAAAATT
133883136 ATAAAA
1 ATAAAA
133883142 TACATAAAAA
Statistics
Matches: 90, Mismatches: 20, Indels: 18
0.70 0.16 0.14
Matches are distributed among these distances:
8 10 0.11
9 44 0.49
10 27 0.30
11 9 0.10
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.34
Consensus pattern (9 bp):
ATAAAAATT
Found at i:133883086 original size:8 final size:8
Alignment explanation
Indices: 133883064--133883151 Score: 59
Period size: 9 Copynumber: 9.8 Consensus size: 8
133883054 TAAATTTTAT
133883064 TAAAAATTA
1 TAAAAA-TA
133883073 TAAAAATA
1 TAAAAATA
133883081 TAAAAAATGA
1 T-AAAAAT-A
133883091 TAAAAATA
1 TAAAAATA
*
133883099 TAAAAAATG
1 T-AAAAATA
*
133883108 TAAAATTTA
1 TAAAA-ATA
133883117 TAAAAATCA
1 TAAAAAT-A
133883126 TTAAAAAATTA
1 -T-AAAAA-TA
*
133883137 TAAAATACA
1 TAAAA-ATA
133883146 TAAAAA
1 TAAAAA
133883152 AACTCTTTAA
Statistics
Matches: 65, Mismatches: 5, Indels: 19
0.73 0.06 0.21
Matches are distributed among these distances:
8 11 0.17
9 42 0.65
10 5 0.08
11 6 0.09
12 1 0.02
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (8 bp):
TAAAAATA
Found at i:133883142 original size:19 final size:20
Alignment explanation
Indices: 133883065--133883152 Score: 58
Period size: 19 Copynumber: 4.2 Consensus size: 20
133883055 AAATTTTATT
133883065 AAAAATTATAAAAAT--ATA
1 AAAAATTATAAAAATACATA
* * *
133883083 AAAAATGATAAAAATATAAAAA
1 AAAAATTAT-AAAA-ATACATA
133883105 ATGTAAAATTTATAAAAAT-CATTA
1 A---AAAA-TTATAAAAATACA-TA
133883129 AAAAATTAT-AAAATACATA
1 AAAAATTATAAAAATACATA
133883148 AAAAA
1 AAAAA
133883153 ACTCTTTAAC
Statistics
Matches: 55, Mismatches: 5, Indels: 19
0.70 0.06 0.24
Matches are distributed among these distances:
18 8 0.15
19 16 0.29
20 8 0.15
21 4 0.07
22 3 0.05
23 1 0.02
24 4 0.07
25 8 0.15
26 3 0.05
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.26
Consensus pattern (20 bp):
AAAAATTATAAAAATACATA
Found at i:133883283 original size:19 final size:18
Alignment explanation
Indices: 133883254--133883320 Score: 55
Period size: 19 Copynumber: 3.6 Consensus size: 18
133883244 CTTTACATTT
**
133883254 TTTTATAATTTTCATATTA
1 TTTTA-AATTTTCATAAAA
*
133883273 TTTTAAGATTTTTATAAAA
1 TTTTAA-ATTTTCATAAAA
* *
133883292 TTTTAAATTTTTAT-AAT
1 TTTTAAATTTTCATAAAA
133883309 TTTTATAATTTT
1 TTTTA-AATTTT
133883321 TTTATCGCAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
17 7 0.17
18 15 0.36
19 20 0.48
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (18 bp):
TTTTAAATTTTCATAAAA
Found at i:133883325 original size:11 final size:9
Alignment explanation
Indices: 133883253--133883321 Score: 70
Period size: 9 Copynumber: 7.6 Consensus size: 9
133883243 TCTTTACATT
133883253 TTTTTATAA
1 TTTTTATAA
* *
133883262 TTTTCATAT
1 TTTTTATAA
133883271 TATTTTA-AGA
1 T-TTTTATA-A
133883281 TTTTTATAAA
1 TTTTTAT-AA
*
133883291 ATTTTA-AA
1 TTTTTATAA
133883299 TTTTTATAA
1 TTTTTATAA
133883308 TTTTTATAA
1 TTTTTATAA
133883317 TTTTT
1 TTTTT
133883322 TTATCGCAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
8 7 0.14
9 30 0.61
10 11 0.22
11 1 0.02
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (9 bp):
TTTTTATAA
Found at i:133885335 original size:17 final size:17
Alignment explanation
Indices: 133885313--133885347 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
133885303 AAATTTATAG
133885313 AACTCTAATATTGTATT
1 AACTCTAATATTGTATT
133885330 AACTCTAATATTGTATT
1 AACTCTAATATTGTATT
133885347 A
1 A
133885348 CGTCACCGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.46
Consensus pattern (17 bp):
AACTCTAATATTGTATT
Found at i:133885543 original size:46 final size:47
Alignment explanation
Indices: 133885448--133885563 Score: 216
Period size: 46 Copynumber: 2.5 Consensus size: 47
133885438 AAGAAAAAAA
*
133885448 TAAATCTAGTTACCAAATTCAAAATAGAAAAAATATCGGTATCAAAG
1 TAAATCTAATTACCAAATTCAAAATAGAAAAAATATCGGTATCAAAG
133885495 TAAATCTAATTACCAAATTCAAAATAG-AAAAATATCGGTATCAAAG
1 TAAATCTAATTACCAAATTCAAAATAGAAAAAATATCGGTATCAAAG
133885541 TAAATCTAATTACCAAATTCAAA
1 TAAATCTAATTACCAAATTCAAA
133885564 TTTCAATCCA
Statistics
Matches: 68, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
46 42 0.62
47 26 0.38
ACGTcount: A:0.52, C:0.14, G:0.08, T:0.27
Consensus pattern (47 bp):
TAAATCTAATTACCAAATTCAAAATAGAAAAAATATCGGTATCAAAG
Found at i:133887093 original size:13 final size:13
Alignment explanation
Indices: 133887075--133887101 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
133887065 AATACAATGC
133887075 TCACATTTAAGCA
1 TCACATTTAAGCA
133887088 TCACATTTAAGCA
1 TCACATTTAAGCA
133887101 T
1 T
133887102 GCATCTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.33
Consensus pattern (13 bp):
TCACATTTAAGCA
Found at i:133898209 original size:28 final size:29
Alignment explanation
Indices: 133898154--133898209 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
133898144 TTAGAATCTA
133898154 AAAAGTAAAAAAAAAAAACTAAATTTTTG
1 AAAAGTAAAAAAAAAAAACTAAATTTTTG
* * *
133898183 AAAATTAAAAAATAAGAACTAAATTTT
1 AAAAGTAAAAAAAAAAAACTAAATTTT
133898210 AATTTTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.64, C:0.04, G:0.05, T:0.27
Consensus pattern (29 bp):
AAAAGTAAAAAAAAAAAACTAAATTTTTG
Found at i:133906274 original size:17 final size:17
Alignment explanation
Indices: 133906252--133906284 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
133906242 AATTTTATTA
133906252 AAATATTATAA-AATTTC
1 AAATA-TATAATAATTTC
133906269 AAATATATAATAATTT
1 AAATATATAATAATTT
133906285 GGAGACATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
AAATATATAATAATTTC
Found at i:133908163 original size:16 final size:16
Alignment explanation
Indices: 133908138--133908169 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
133908128 TAAATAAGAT
133908138 TAATTATCATGTGATG
1 TAATTATCATGTGATG
*
133908154 TAATTGTCATGTGATG
1 TAATTATCATGTGATG
133908170 CTCTTTCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.06, G:0.22, T:0.44
Consensus pattern (16 bp):
TAATTATCATGTGATG
Found at i:133917173 original size:15 final size:15
Alignment explanation
Indices: 133917155--133917220 Score: 55
Period size: 15 Copynumber: 4.3 Consensus size: 15
133917145 TTGGGAATTT
133917155 TTTTTAAATATTAAA
1 TTTTTAAATATTAAA
*
133917170 TTTTTAAATA-T-AT
1 TTTTTAAATATTAAA
*
133917183 TTTTTAGAATTTTATAA
1 TTTTTA-AATATTA-AA
*
133917200 TTTTTTAAAAATATAAA
1 -TTTTTAAATAT-TAAA
133917217 TTTT
1 TTTT
133917221 GGAATTTTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
13 7 0.17
14 4 0.10
15 11 0.28
16 4 0.10
17 6 0.15
18 8 0.20
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (15 bp):
TTTTTAAATATTAAA
Found at i:133917226 original size:33 final size:35
Alignment explanation
Indices: 133917175--133917240 Score: 91
Period size: 33 Copynumber: 1.9 Consensus size: 35
133917165 TTAAATTTTT
**
133917175 AAATATATTTTTTAGAA-TTTTATAATT-TTTTAA
1 AAATATAAATTTTAGAATTTTTATAATTATTTTAA
*
133917208 AAATATAAATTTTGGAATTTTTATAATTATTTT
1 AAATATAAATTTTAGAATTTTTATAATTATTTT
133917241 GAATTTTTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 14 0.50
34 10 0.36
35 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (35 bp):
AAATATAAATTTTAGAATTTTTATAATTATTTTAA
Found at i:133917246 original size:19 final size:20
Alignment explanation
Indices: 133917216--133917268 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
133917206 AAAAATATAA
* *
133917216 ATTTTGGAATTTTT-ATAATT
1 ATTTT-GAATTTTTGAAAACT
133917236 ATTTTGAATTTTTGAAAACT
1 ATTTTGAATTTTTGAAAACT
133917256 ATTTTGAATTTTT
1 ATTTTGAATTTTT
133917269 TTTGTAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 8 0.27
20 22 0.73
ACGTcount: A:0.30, C:0.02, G:0.09, T:0.58
Consensus pattern (20 bp):
ATTTTGAATTTTTGAAAACT
Found at i:133920399 original size:18 final size:18
Alignment explanation
Indices: 133920376--133920419 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
133920366 ATTAAGATGA
*
133920376 ATTATTTTAGGTTTCGTG
1 ATTATTTTAGGGTTCGTG
133920394 ATTATTTTAGGGTTCGTG
1 ATTATTTTAGGGTTCGTG
*
133920412 ATTGTTTT
1 ATTATTTT
133920420 CTTAAAAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.16, C:0.05, G:0.23, T:0.57
Consensus pattern (18 bp):
ATTATTTTAGGGTTCGTG
Found at i:133924789 original size:30 final size:30
Alignment explanation
Indices: 133924754--133924815 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
133924744 AATAGATGTG
*
133924754 AAAATTATTAA-ACAATCAGATTTAAGTATA
1 AAAATTATAAATACAATCAGATTTAAG-ATA
* *
133924784 AAAATTATAAATAGAATTAGATTTAAGATA
1 AAAATTATAAATACAATCAGATTTAAGATA
133924814 AA
1 AA
133924816 TTCAAAACAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 15 0.54
31 13 0.46
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.32
Consensus pattern (30 bp):
AAAATTATAAATACAATCAGATTTAAGATA
Found at i:133926163 original size:14 final size:14
Alignment explanation
Indices: 133926144--133926174 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
133926134 TGGAGTTCGA
133926144 GTTTAAGGTTCAAG
1 GTTTAAGGTTCAAG
*
133926158 GTTTAAGGTTCGAG
1 GTTTAAGGTTCAAG
133926172 GTT
1 GTT
133926175 CAGAGTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.06, G:0.32, T:0.39
Consensus pattern (14 bp):
GTTTAAGGTTCAAG
Found at i:133928288 original size:2 final size:2
Alignment explanation
Indices: 133928281--133928309 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
133928271 CACAAAATTT
133928281 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
133928310 TGGCTAAGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:133929822 original size:4 final size:4
Alignment explanation
Indices: 133929813--133929840 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
133929803 CCAAGGCAGG
133929813 TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA
133929841 CTCTTTCATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:133932368 original size:11 final size:11
Alignment explanation
Indices: 133932352--133932378 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
133932342 ACCTTCAATG
133932352 AAAAAAATAGA
1 AAAAAAATAGA
133932363 AAAAAAATAGA
1 AAAAAAATAGA
133932374 AAAAA
1 AAAAA
133932379 GACCAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.07, T:0.07
Consensus pattern (11 bp):
AAAAAAATAGA
Found at i:133940148 original size:15 final size:16
Alignment explanation
Indices: 133940123--133940154 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
133940113 CACGGCACAA
133940123 TAATACTTTATTTATT
1 TAATACTTTATTTATT
133940139 TAAT-CTTTATTTATT
1 TAATACTTTATTTATT
133940154 T
1 T
133940155 TTCAATCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (16 bp):
TAATACTTTATTTATT
Found at i:133943524 original size:20 final size:20
Alignment explanation
Indices: 133943499--133943576 Score: 66
Period size: 20 Copynumber: 3.5 Consensus size: 20
133943489 AACATTTAAT
133943499 TAATTTTTATTTTTAAAAAA
1 TAATTTTTATTTTTAAAAAA
*
133943519 TAATTTTTATAATTTTAAATAATTTT
1 TAATTTTTAT--TTTTAAA-AA---A
*
133943545 TACGATTTTTATTTTTTAAAAA
1 TA--ATTTTTATTTTTAAAAAA
133943567 TAATTTTTAT
1 TAATTTTTAT
133943577 AGTTTTTTGA
Statistics
Matches: 47, Mismatches: 3, Indels: 16
0.71 0.05 0.24
Matches are distributed among these distances:
20 18 0.38
22 9 0.19
23 2 0.04
25 2 0.04
26 8 0.17
28 8 0.17
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (20 bp):
TAATTTTTATTTTTAAAAAA
Found at i:133943552 original size:19 final size:19
Alignment explanation
Indices: 133943516--133943553 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
133943506 TATTTTTAAA
*
133943516 AAATAATTTTTATAATTTT
1 AAATAATTTTTACAATTTT
*
133943535 AAATAATTTTTACGATTTT
1 AAATAATTTTTACAATTTT
133943554 TATTTTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (19 bp):
AAATAATTTTTACAATTTT
Found at i:133943552 original size:28 final size:28
Alignment explanation
Indices: 133943521--133943575 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
133943511 TTAAAAAATA
133943521 ATTTTTATAATTTT-AAATAATTTTTACG
1 ATTTTTAT-ATTTTAAAATAATTTTTACG
*
133943549 ATTTTTATTTTTTAAAAATAATTTTTA
1 ATTTTTATATTTT-AAAATAATTTTTA
133943576 TAGTTTTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 4 0.17
28 8 0.33
29 12 0.50
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (28 bp):
ATTTTTATATTTTAAAATAATTTTTACG
Found at i:133945431 original size:85 final size:84
Alignment explanation
Indices: 133945227--133945542 Score: 347
Period size: 81 Copynumber: 3.8 Consensus size: 84
133945217 ATTTAGATGT
* *
133945227 ATATGAAAGCATTGGTTTATGGTTGAAATAGGAGAAAAGGGTTGTTGAAAATGTCGAGATTCGAA
1 ATATGAAA-CATTGG-TTATGGTTGAAATAGGAGAAAGGGGTTGTTGTAAATGTCGAGATTCGAA
* * *
133945292 TCTTAGATTTACGACAAT-TG
64 TATTGGATTTACGAAAATATG
* * * * * *
133945312 TGTATCAAACATTGGTTTTGGTTGAAATAAGAGAAAGGGGTTCTTGTAAATGTCGAGATTCAAAT
1 -ATATGAAACATTGGTTATGGTTGAAATAGGAGAAAGGGGTTGTTGTAAATGTCGAGATTCGAAT
* * *
133945377 GTTGGACTTACTAAAATATG
65 ATTGGATTTACGAAAATATG
* * *
133945397 AATATGACACATTGGTTATGATTGAAATAGGAGAAA--GG--GTTGTAAATGTTGAGATTCGAAT
1 -ATATGAAACATTGGTTATGGTTGAAATAGGAGAAAGGGGTTGTTGTAAATGTCGAGATTCGAAT
*
133945458 ATTGAATTTACGAAAAGCTAT-
65 ATTGGATTTACGAAAA--TATG
* * *
133945479 ATATGAAACATTGGTTATGGTTGAAATAGGAGAAAGGGGTTGTTGTAATTGTCAAAATTCGAAT
1 ATATGAAACATTGGTTATGGTTGAAATAGGAGAAAGGGGTTGTTGTAAATGTCGAGATTCGAAT
133945543 CCCGAACTTA
Statistics
Matches: 190, Mismatches: 33, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
81 65 0.34
83 7 0.04
84 56 0.29
85 56 0.29
86 6 0.03
ACGTcount: A:0.36, C:0.07, G:0.25, T:0.33
Consensus pattern (84 bp):
ATATGAAACATTGGTTATGGTTGAAATAGGAGAAAGGGGTTGTTGTAAATGTCGAGATTCGAATA
TTGGATTTACGAAAATATG
Found at i:133945554 original size:166 final size:170
Alignment explanation
Indices: 133945227--133945555 Score: 409
Period size: 166 Copynumber: 2.0 Consensus size: 170
133945217 ATTTAGATGT
*
133945227 ATATGAAAGCATTGGTTTATGGTTGAAATAGGAGAAAAGGGTTGTTGAAAATGTCGAGATTCGAA
1 ATATGAAAGCATTGGTTTATGATTGAAATAGGAGAAAAGGGTTGTT-AAAATGTCGAGATTCGAA
* * * * * *
133945292 TCTTAGATTTACGACAATTGTGTATCAAACATTGGTTTTGGTTGAAATAAGAGAAAGGGGTTCTT
65 TATTAGATTTACGAAAACTATATATCAAACATTGGTTATGGTTGAAATAAGAGAAAGGGGTTCTT
* * *** *
133945357 GTAAATGTCGAGATTCAAATGTTGGACTTACTAAAATATGA
130 GTAAATGTCAAAATTCAAATCCCGAACTTACTAAAATATGA
* *
133945398 ATATGACA-CATTGG-TTATGATTGAAATAGGAG-AAAGGGTTG-T-AAATGTTGAGATTCGAAT
1 ATATGAAAGCATTGGTTTATGATTGAAATAGGAGAAAAGGGTTGTTAAAATGTCGAGATTCGAAT
* * *
133945458 ATT-GAATTTACGAAAAGCTATATATGAAACATTGGTTATGGTTGAAATAGGAGAAAGGGGTTGT
66 ATTAG-ATTTACGAAAA-CTATATATCAAACATTGGTTATGGTTGAAATAAGAGAAAGGGGTTCT
* *
133945522 TGTAATTGTCAAAATTCGAATCCCGAACTTACTA
129 TGTAAATGTCAAAATTCAAATCCCGAACTTACTA
133945556 TCTAATTATA
Statistics
Matches: 136, Mismatches: 20, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
164 1 0.01
165 29 0.21
166 66 0.49
167 1 0.01
168 9 0.07
169 17 0.12
170 6 0.04
171 7 0.05
ACGTcount: A:0.36, C:0.08, G:0.24, T:0.32
Consensus pattern (170 bp):
ATATGAAAGCATTGGTTTATGATTGAAATAGGAGAAAAGGGTTGTTAAAATGTCGAGATTCGAAT
ATTAGATTTACGAAAACTATATATCAAACATTGGTTATGGTTGAAATAAGAGAAAGGGGTTCTTG
TAAATGTCAAAATTCAAATCCCGAACTTACTAAAATATGA
Found at i:133948563 original size:14 final size:14
Alignment explanation
Indices: 133948540--133948572 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
133948530 GCAAAAGTTT
133948540 TATATACATATATG
1 TATATACATATATG
*
133948554 TATATGCATATATG
1 TATATACATATATG
133948568 TATAT
1 TATAT
133948573 TCTATATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.45
Consensus pattern (14 bp):
TATATACATATATG
Found at i:133955587 original size:25 final size:25
Alignment explanation
Indices: 133955536--133955587 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
133955526 AAATACTATC
* * *
133955536 AAAATCAATCCATTAATCAATATAA
1 AAAAACAATCAATTAATCAATAAAA
* *
133955561 AAAAACAATCAATTAATTATTAAAA
1 AAAAACAATCAATTAATCAATAAAA
133955586 AA
1 AA
133955588 GCAATTAATT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.27
Consensus pattern (25 bp):
AAAAACAATCAATTAATCAATAAAA
Found at i:133965421 original size:25 final size:25
Alignment explanation
Indices: 133965388--133965451 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 25
133965378 AAATTGTTTC
133965388 AAATA-TATATTTTAAAATTAAATA
1 AAATAGTATATTTTAAAATTAAATA
* * *
133965412 AAATAGTATATATTAAAGTTAATTA
1 AAATAGTATATTTTAAAATTAAATA
133965437 AAAT-G-ATATTTTAAA
1 AAATAGTATATTTTAAA
133965452 TTATATTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 9 0.26
24 6 0.17
25 20 0.57
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (25 bp):
AAATAGTATATTTTAAAATTAAATA
Found at i:133965646 original size:32 final size:32
Alignment explanation
Indices: 133965596--133965667 Score: 80
Period size: 32 Copynumber: 2.3 Consensus size: 32
133965586 CTATGGCCTG
*
133965596 TCTC-TTTCTCCATCTCACTA-ATTCT-CTCTTC
1 TCTCTTTTTTCCATCTCACTATA-TCTAC-CTTC
133965627 TTCTCTTTTTTCCAT-TCACTATATCTACCTTC
1 -TCTCTTTTTTCCATCTCACTATATCTACCTTC
133965659 TCTCTTTTT
1 TCTCTTTTT
133965668 AATTTGCAGA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
31 9 0.25
32 17 0.47
33 10 0.28
ACGTcount: A:0.12, C:0.33, G:0.00, T:0.54
Consensus pattern (32 bp):
TCTCTTTTTTCCATCTCACTATATCTACCTTC
Found at i:133969739 original size:12 final size:12
Alignment explanation
Indices: 133969722--133969755 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
133969712 ATAACAATAT
133969722 TGGTGGTGGTGA
1 TGGTGGTGGTGA
*
133969734 TGGTGGCGGTGA
1 TGGTGGTGGTGA
*
133969746 TTGTGGTGGT
1 TGGTGGTGGT
133969756 TTTAATGTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.03, G:0.56, T:0.35
Consensus pattern (12 bp):
TGGTGGTGGTGA
Found at i:133972367 original size:19 final size:19
Alignment explanation
Indices: 133972335--133972376 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
133972325 AATTAAAATT
133972335 ATTTAAAATATAGG-GATCA
1 ATTTAAAATATAGGTGAT-A
* *
133972354 ATTTATAATTTAGGTGATA
1 ATTTAAAATATAGGTGATA
133972373 ATTT
1 ATTT
133972377 GACAAACATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.40, C:0.02, G:0.14, T:0.43
Consensus pattern (19 bp):
ATTTAAAATATAGGTGATA
Found at i:133979014 original size:14 final size:14
Alignment explanation
Indices: 133978995--133979022 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
133978985 AAGGGCTCAC
133978995 CAATTATAAGATGG
1 CAATTATAAGATGG
133979009 CAATTATAAGATGG
1 CAATTATAAGATGG
133979023 ACCCTAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.29
Consensus pattern (14 bp):
CAATTATAAGATGG
Found at i:133980412 original size:2 final size:2
Alignment explanation
Indices: 133980399--133980428 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
133980389 ACCATCATGA
*
133980399 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
133980429 GTAACATCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:133987607 original size:21 final size:20
Alignment explanation
Indices: 133987578--133987632 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 20
133987568 TTTCAGTCTC
* *
133987578 TTCTGCTTCTCCATTTGTTT
1 TTCTTCTTCTCCATCTGTTT
133987598 TTCTCTCTTCTCCATCTGTTT
1 TTCT-TCTTCTCCATCTGTTT
133987619 TTCTTCTTTCTCCA
1 TTCTTC-TTCTCCA
133987633 ACTTTTTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 6 0.19
21 25 0.81
ACGTcount: A:0.05, C:0.31, G:0.05, T:0.58
Consensus pattern (20 bp):
TTCTTCTTCTCCATCTGTTT
Found at i:133987640 original size:21 final size:21
Alignment explanation
Indices: 133987583--133987640 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
133987573 GTCTCTTCTG
**
133987583 CTTCTCCATTTGTTTTTCTCT
1 CTTCTCCAACTGTTTTTCTCT
*
133987604 CTTCTCCATCTGTTTTTCT-T
1 CTTCTCCAACTGTTTTTCTCT
133987624 CTTTCTCCAACT-TTTTT
1 C-TTCTCCAACTGTTTTT
133987641 AACATAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 7 0.21
21 27 0.79
ACGTcount: A:0.07, C:0.29, G:0.03, T:0.60
Consensus pattern (21 bp):
CTTCTCCAACTGTTTTTCTCT
Found at i:133987770 original size:22 final size:22
Alignment explanation
Indices: 133987726--133987792 Score: 55
Period size: 23 Copynumber: 2.9 Consensus size: 22
133987716 CAGAGGAAGA
* *
133987726 AACAAAAGAAAATGGAAAATAAAGG
1 AACAAAA-AAAA--GAAATTAAAAG
133987751 AA-AAAAAAAAGAAAGTTAAAAG
1 AACAAAAAAAAGAAA-TTAAAAG
* *
133987773 AACATAAAAGAGAAATTAAA
1 AACAAAAAAAAGAAATTAAA
133987793 TTGTTCAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
21 4 0.11
22 12 0.33
23 14 0.39
24 4 0.11
25 2 0.06
ACGTcount: A:0.72, C:0.03, G:0.15, T:0.10
Consensus pattern (22 bp):
AACAAAAAAAAGAAATTAAAAG
Found at i:133996893 original size:4 final size:4
Alignment explanation
Indices: 133996884--133996911 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
133996874 CATAGTCAAA
133996884 ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT
133996912 CAAAAGGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:134005713 original size:31 final size:31
Alignment explanation
Indices: 134005678--134005740 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
134005668 AGAGGACCTA
*
134005678 AGAATTGTCATTCACTTTTCATAACCATATT
1 AGAATTGTCATTCACTTTTCATAACAATATT
134005709 AGAATTGTCATTCACTTTTCATAACAATATT
1 AGAATTGTCATTCACTTTTCATAACAATATT
134005740 A
1 A
134005741 TGCATACATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.17, G:0.06, T:0.41
Consensus pattern (31 bp):
AGAATTGTCATTCACTTTTCATAACAATATT
Found at i:134005781 original size:4 final size:4
Alignment explanation
Indices: 134005769--134005803 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
134005759 ACACACACAC
*
134005769 ACAT GCAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
134005804 GTCTATGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.49, C:0.26, G:0.03, T:0.23
Consensus pattern (4 bp):
ACAT
Found at i:134009484 original size:2 final size:2
Alignment explanation
Indices: 134009477--134009512 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
134009467 TGAAAGCAAG
134009477 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
134009513 GGTGTTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:134011606 original size:25 final size:25
Alignment explanation
Indices: 134011571--134011620 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
134011561 TCTACTTGTG
*
134011571 TTTTTTAAATATATTTATATTATTTA
1 TTTTTTAAATATATTT-TAATATTTA
134011597 TTTTTT-AATATATTTTAATATTTA
1 TTTTTTAAATATATTTTAATATTTA
134011621 CATTATAGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.35
25 9 0.39
26 6 0.26
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (25 bp):
TTTTTTAAATATATTTTAATATTTA
Found at i:134014553 original size:18 final size:18
Alignment explanation
Indices: 134014530--134014573 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
134014520 ATTGTTTTAT
*
134014530 TTTTTTA-TTTTTAATATA
1 TTTTTTAGTTTATAAT-TA
134014548 TTTTTTAGTTTATAATTA
1 TTTTTTAGTTTATAATTA
134014566 TTCTTTTA
1 TT-TTTTA
134014574 ACTCAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTTTTAGTTTATAATTA
Found at i:134019217 original size:31 final size:31
Alignment explanation
Indices: 134019182--134019244 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
134019172 TAAAATGATT
*
134019182 ACTGAACTATTCGAAAATTTTCATTTAAGTC
1 ACTGAACTATTAGAAAATTTTCATTTAAGTC
* * *
134019213 ACTGAACTATTAGAAAGTTTTTATTTGAGTC
1 ACTGAACTATTAGAAAATTTTCATTTAAGTC
134019244 A
1 A
134019245 ATAGGCTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (31 bp):
ACTGAACTATTAGAAAATTTTCATTTAAGTC
Found at i:134019687 original size:9 final size:9
Alignment explanation
Indices: 134019673--134019697 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
134019663 TCTTTCTGAA
134019673 AAAAAAAAT
1 AAAAAAAAT
134019682 AAAAAAAAT
1 AAAAAAAAT
134019691 AAAAAAA
1 AAAAAAA
134019698 TAATTTTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:134021015 original size:17 final size:18
Alignment explanation
Indices: 134020975--134021015 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
134020965 TGTTCAACAG
134020975 TTAAAAAATAAAATAAAA
1 TTAAAAAATAAAATAAAA
*
134020993 -TAAAAAACTAAAA-ATAA
1 TTAAAAAA-TAAAATAAAA
134021010 TTAAAA
1 TTAAAA
134021016 GTTAAAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (18 bp):
TTAAAAAATAAAATAAAA
Found at i:134031683 original size:27 final size:28
Alignment explanation
Indices: 134031632--134031693 Score: 83
Period size: 27 Copynumber: 2.2 Consensus size: 28
134031622 TTACTTAATA
**
134031632 AATAATTATTATTTTTGTTTACAAAAAT
1 AATAATTATTATTTTTGTAAACAAAAAT
134031660 AA-AATTATTATTTTTG-AAAGCAAAAAT
1 AATAATTATTATTTTTGTAAA-CAAAAAT
134031687 AATAATT
1 AATAATT
134031694 TTGTAATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 1 0.03
27 23 0.77
28 6 0.20
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (28 bp):
AATAATTATTATTTTTGTAAACAAAAAT
Found at i:134033509 original size:4 final size:4
Alignment explanation
Indices: 134033502--134033539 Score: 58
Period size: 4 Copynumber: 9.5 Consensus size: 4
134033492 TCTGTCTGTC
* *
134033502 TGTA TGTA TGTA TGTA TGTA CGTA CGTA TGTA TGTA TG
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG
134033540 AATGAATGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.24, C:0.05, G:0.26, T:0.45
Consensus pattern (4 bp):
TGTA
Found at i:134033738 original size:2 final size:2
Alignment explanation
Indices: 134033731--134033761 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
134033721 TGGTAAGCAT
134033731 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
134033762 GATATCAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:134033953 original size:18 final size:18
Alignment explanation
Indices: 134033930--134033964 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
134033920 TATTTCACAC
134033930 ACATACACACACATACAT
1 ACATACACACACATACAT
* *
134033948 ACATACATACACTTACA
1 ACATACACACACATACA
134033965 AGCTGTCCCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (18 bp):
ACATACACACACATACAT
Found at i:134037863 original size:16 final size:17
Alignment explanation
Indices: 134037842--134037875 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
134037832 TACGTTTATA
134037842 AATTTAAATT-TTTTCG
1 AATTTAAATTATTTTCG
134037858 AATTTAAATTATTTTCG
1 AATTTAAATTATTTTCG
134037875 A
1 A
134037876 TTCCAGGGCG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (17 bp):
AATTTAAATTATTTTCG
Found at i:134058432 original size:29 final size:29
Alignment explanation
Indices: 134058397--134058455 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
134058387 GTCCTTTCTG
* *
134058397 TTATTATTAATGTTGTGCCTTGTTTCAAA
1 TTATTATTAATGTTATCCCTTGTTTCAAA
134058426 TTATTATTAATGTTATCCCTTGTTTCAAA
1 TTATTATTAATGTTATCCCTTGTTTCAAA
134058455 T
1 T
134058456 CACATAGGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.25, C:0.12, G:0.10, T:0.53
Consensus pattern (29 bp):
TTATTATTAATGTTATCCCTTGTTTCAAA
Found at i:134058535 original size:24 final size:24
Alignment explanation
Indices: 134058507--134058552 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
134058497 GATTGCAATG
*
134058507 ATTGATTTGATCAACTGATTCTTA
1 ATTGATTTGACCAACTGATTCTTA
*
134058531 ATTGATTTGACCAATTGATTCT
1 ATTGATTTGACCAACTGATTCT
134058553 ATTAATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (24 bp):
ATTGATTTGACCAACTGATTCTTA
Found at i:134067382 original size:2 final size:2
Alignment explanation
Indices: 134067375--134067402 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
134067365 ATATCTAAAA
134067375 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
134067403 GAATTTTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:134067463 original size:2 final size:2
Alignment explanation
Indices: 134067456--134067483 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
134067446 TTATCTAAAA
134067456 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
134067484 GAATTTTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:134067549 original size:81 final size:81
Alignment explanation
Indices: 134067366--134067528 Score: 326
Period size: 81 Copynumber: 2.0 Consensus size: 81
134067356 AGAAGAAAGA
134067366 TATCTAAAAATATATATATATATATATATATATATATGAATTTTGTTTTAATATTTAATTTTAGA
1 TATCTAAAAATATATATATATATATATATATATATATGAATTTTGTTTTAATATTTAATTTTAGA
134067431 TATGAATTTTGATTTT
66 TATGAATTTTGATTTT
134067447 TATCTAAAAATATATATATATATATATATATATATATGAATTTTGTTTTAATATTTAATTTTAGA
1 TATCTAAAAATATATATATATATATATATATATATATGAATTTTGTTTTAATATTTAATTTTAGA
134067512 TATGAATTTTGATTTT
66 TATGAATTTTGATTTT
134067528 T
1 T
134067529 TCTTTTATAA
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 82 1.00
ACGTcount: A:0.39, C:0.01, G:0.06, T:0.53
Consensus pattern (81 bp):
TATCTAAAAATATATATATATATATATATATATATATGAATTTTGTTTTAATATTTAATTTTAGA
TATGAATTTTGATTTT
Found at i:134070344 original size:2 final size:2
Alignment explanation
Indices: 134070337--134070373 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
134070327 ACCTCCCTTA
134070337 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
134070374 ACACCAATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:134071171 original size:2 final size:2
Alignment explanation
Indices: 134071164--134071195 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
134071154 TTTAATCTAC
134071164 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
134071196 ATTAATCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.