Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 8 of 218
Found at i:2975407 original size:60 final size:59
Alignment explanation
Indices: 2975340--2975454 Score: 221
Period size: 60 Copynumber: 1.9 Consensus size: 59
2975330 GTTCAAACAC
2975340 ACTCATAATAAAAATCAGGGTAAACTAAACTCAAGGTGCACTAAATAATTAGTAAACTAA
1 ACTCATAATAAAAATCAGGGTAAACTAAACTCAAGGT-CACTAAATAATTAGTAAACTAA
2975400 ACTCATAATAAAAATCAGGGTAAACTAAACTCAAGGTCACTAAATAATTAGTAAA
1 ACTCATAATAAAAATCAGGGTAAACTAAACTCAAGGTCACTAAATAATTAGTAAA
2975455 TTTACATTTT
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
59 18 0.33
60 37 0.67
ACGTcount: A:0.50, C:0.15, G:0.11, T:0.23
Consensus pattern (59 bp):
ACTCATAATAAAAATCAGGGTAAACTAAACTCAAGGTCACTAAATAATTAGTAAACTAA
Found at i:2975538 original size:31 final size:31
Alignment explanation
Indices: 2975497--2975562 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
2975487 CAAATGATCG
*
2975497 TTGAACTATTCAAAAGTTTTCATTTAAGTTA
1 TTGAACTATTCAAAAGTTTTCATTTAAGTCA
* *
2975528 TTGAATTATTCAAAAGTTTTTATTTAAGTCA
1 TTGAACTATTCAAAAGTTTTCATTTAAGTCA
2975559 TTGA
1 TTGA
2975563 GTTGTTAAGC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.35, C:0.08, G:0.11, T:0.47
Consensus pattern (31 bp):
TTGAACTATTCAAAAGTTTTCATTTAAGTCA
Found at i:2985896 original size:27 final size:27
Alignment explanation
Indices: 2985866--2985929 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
2985856 TTTATCGAGG
*
2985866 TTATTAGTTTATCGATAAATTAATATT
1 TTATTAATTTATCGATAAATTAATATT
2985893 TTATTAATTTATCGATAAATTAATA-T
1 TTATTAATTTATCGATAAATTAATATT
*
2985919 TCATTAATTTA
1 TTATTAATTTA
2985930 GAGAATATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 11 0.31
27 24 0.69
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.52
Consensus pattern (27 bp):
TTATTAATTTATCGATAAATTAATATT
Found at i:2986076 original size:36 final size:32
Alignment explanation
Indices: 2986008--2986076 Score: 93
Period size: 32 Copynumber: 2.0 Consensus size: 32
2985998 TGAATCAACG
*
2986008 TTAATTGGTTCATGTATAAAAAAAAGAGTTAA
1 TTAATTGGTTCATGTAAAAAAAAAAGAGTTAA
2986040 TTAATTGGTTCATGTAACCAAAAAGAAAAGAGTTAA
1 TTAATTGGTTCATGT-A--AAAAA-AAAAGAGTTAA
2986076 T
1 T
2986077 GGTTTCAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
32 15 0.47
33 1 0.03
35 4 0.12
36 12 0.38
ACGTcount: A:0.46, C:0.06, G:0.16, T:0.32
Consensus pattern (32 bp):
TTAATTGGTTCATGTAAAAAAAAAAGAGTTAA
Found at i:3007676 original size:14 final size:15
Alignment explanation
Indices: 3007656--3007697 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
3007646 ATAATGTAAC
3007656 ATATATTTTAATGTT
1 ATATATTTTAATGTT
* *
3007671 -TATATTGTAGTGTT
1 ATATATTTTAATGTT
3007685 ATATATTATTAAT
1 ATATATT-TTAAT
3007698 TTAATTTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
14 12 0.57
15 6 0.29
16 3 0.14
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (15 bp):
ATATATTTTAATGTT
Found at i:3019301 original size:24 final size:24
Alignment explanation
Indices: 3019274--3019320 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
3019264 AATACTTCAT
3019274 CTCTTTCCCTTCACTTTCTCATTA
1 CTCTTTCCCTTCACTTTCTCATTA
* * *
3019298 CTCTTTTCCTTCTCTTTTTCATT
1 CTCTTTCCCTTCACTTTCTCATT
3019321 TGTTTTCGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.09, C:0.34, G:0.00, T:0.57
Consensus pattern (24 bp):
CTCTTTCCCTTCACTTTCTCATTA
Found at i:3019942 original size:16 final size:16
Alignment explanation
Indices: 3019923--3019955 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
3019913 AATAATAGGT
3019923 AATAAGAGTAAAGGAA
1 AATAAGAGTAAAGGAA
3019939 AATAAGAGTAAAGGAA
1 AATAAGAGTAAAGGAA
3019955 A
1 A
3019956 TCACGTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.24, T:0.12
Consensus pattern (16 bp):
AATAAGAGTAAAGGAA
Found at i:3020130 original size:30 final size:31
Alignment explanation
Indices: 3020055--3020141 Score: 86
Period size: 31 Copynumber: 2.8 Consensus size: 31
3020045 AAACTTAATG
*
3020055 GGTTTTAGTGAGAATTTTCAAAAATTTTGGTA
1 GGTTTTA-TGAAAATTTTCAAAAATTTTGGTA
* * * * *
3020087 GGTCTAATTAAAATTTTCAAAATTTTTTG-A
1 GGTTTTATGAAAATTTTCAAAAATTTTGGTA
*
3020117 GGTTTTATGAAAATTTATAAAAAAT
1 GGTTTTATGAAAATTT-TCAAAAAT
3020142 GAAGAGTCTA
Statistics
Matches: 43, Mismatches: 11, Indels: 3
0.75 0.19 0.05
Matches are distributed among these distances:
30 14 0.33
31 24 0.56
32 5 0.12
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.44
Consensus pattern (31 bp):
GGTTTTATGAAAATTTTCAAAAATTTTGGTA
Found at i:3023305 original size:33 final size:33
Alignment explanation
Indices: 3023268--3023330 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
3023258 CTTTTTTTGC
*
3023268 AGCATGTAATTACTAATTAGTATGTTCTTATGT
1 AGCATGTAATTACTAATCAGTATGTTCTTATGT
3023301 AGCATGTAATTACTAATCAGTATGTTCTTA
1 AGCATGTAATTACTAATCAGTATGTTCTTA
3023331 ATAACCAAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (33 bp):
AGCATGTAATTACTAATCAGTATGTTCTTATGT
Found at i:3032516 original size:64 final size:66
Alignment explanation
Indices: 3032390--3032521 Score: 157
Period size: 64 Copynumber: 2.0 Consensus size: 66
3032380 TAAAATTTTT
* * *
3032390 AAAAATTTTGAAGGTTTTAATGAGAATTTTTAAACAATTTTGTATGTTAAACTAAAACTTTCAAA
1 AAAAAATTTGAAGGTTTTAATGAGAATTTTTAAACAATTTTGTAGGCTAAACTAAAACTTTCAAA
3032455 A
66 A
* *
3032456 AAAAAATTTGAAAGG-TTTAATGAGAA-TTTTAAA-AATTTTG-AGGGGCT-AATTAAAATTTTC
1 AAAAAATTTG-AAGGTTTTAATGAGAATTTTTAAACAATTTTGTA--GGCTAAACTAAAACTTTC
3032516 AAAA
63 AAAA
3032520 AA
1 AA
3032522 TGTATAATAA
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
63 1 0.02
64 24 0.41
65 9 0.16
66 20 0.34
67 4 0.07
ACGTcount: A:0.46, C:0.05, G:0.13, T:0.36
Consensus pattern (66 bp):
AAAAAATTTGAAGGTTTTAATGAGAATTTTTAAACAATTTTGTAGGCTAAACTAAAACTTTCAAA
A
Found at i:3041654 original size:100 final size:103
Alignment explanation
Indices: 3041517--3041788 Score: 362
Period size: 104 Copynumber: 2.7 Consensus size: 103
3041507 AAAATTACAT
*
3041517 TAAAAAATCACAAAACAC-TAAACT-AACACTAACAATTTATATAACCTAATCATAAATTACAAA
1 TAAAAAATCACAAAACACAT-AACTAAACACTAACAATTTATATAACCTAATCATAAATTACTAA
**
3041580 CAAAATAACTATAAA-ATTATTT-ATTAAA-TACATTAC
65 CAAAATAACTATAAATATTATTTAAAAAAAGTACATTAC
3041616 TAAAAAATCACAAAACACATAACTAAACACTAACAATTTATATAACCTAATCATAAATTACTAAC
1 TAAAAAATCACAAAACACATAACTAAACACTAACAATTTATATAACCTAATCATAAATTACTAAC
* * *
3041681 AAAATAATTATAAATTTTTTTTAAAAAAAGTTACATTAC
66 AAAATAACTATAAATATTATTTAAAAAAAG-TACATTAC
* * *
3041720 TAAAAGATCACAAAAC-CATATACTAAACACTAACAA-TT-TGTAACCTAATCCCATAAATTATT
1 TAAAAAATCACAAAACACATA-ACTAAACACTAACAATTTATATAACCTAAT--CATAAATTACT
3041782 AACAAAA
63 AACAAAA
3041789 ATAAATAACT
Statistics
Matches: 155, Mismatches: 9, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
99 22 0.14
100 53 0.34
101 5 0.03
102 14 0.09
103 6 0.04
104 55 0.35
ACGTcount: A:0.54, C:0.17, G:0.01, T:0.28
Consensus pattern (103 bp):
TAAAAAATCACAAAACACATAACTAAACACTAACAATTTATATAACCTAATCATAAATTACTAAC
AAAATAACTATAAATATTATTTAAAAAAAGTACATTAC
Found at i:3041746 original size:104 final size:99
Alignment explanation
Indices: 3041506--3041788 Score: 346
Period size: 100 Copynumber: 2.8 Consensus size: 99
3041496 TACATTATAT
3041506 AAAAATTACATTA--AAAAATCACAAAA-CACTAAACT-AACACTAACAATTTATATAACCTAAT
1 AAAAATTACATTACTAAAAATCACAAAACCA-T-AACTAAACACTAACAATTTATATAACCTAAT
*
3041567 CATAAATTACAAACAAAATAACTATAAAATTATTTA
64 CATAAATTACTAACAAAATAACTATAAAATTATTTA
**
3041603 TTAAA-TACATTACTAAAAAATCACAAAACACATAACTAAACACTAACAATTTATATAACCTAAT
1 AAAAATTACATTACT-AAAAATCACAAAAC-CATAACTAAACACTAACAATTTATATAACCTAAT
* * *
3041667 CATAAATTACTAACAAAATAATTATAAATTTTTTTTAA
64 CATAAATTACTAACAAAATAACTATAAA-ATTATTT-A
*
3041705 AAAAAGTTACATTACTAAAAGATCACAAAACCATATACTAAACACTAACAA-TT-TGTAACCTAA
1 AAAAA-TTACATTACTAAAA-ATCACAAAACCATA-ACTAAACACTAACAATTTATATAACCTAA
*
3041768 TCCCATAAATTATTAACAAAA
63 T--CATAAATTACTAACAAAA
3041789 ATAAATAACT
Statistics
Matches: 162, Mismatches: 10, Indels: 21
0.84 0.05 0.11
Matches are distributed among these distances:
96 7 0.04
97 3 0.02
99 17 0.10
100 53 0.33
101 7 0.04
102 14 0.09
103 10 0.06
104 51 0.31
ACGTcount: A:0.54, C:0.16, G:0.01, T:0.28
Consensus pattern (99 bp):
AAAAATTACATTACTAAAAATCACAAAACCATAACTAAACACTAACAATTTATATAACCTAATCA
TAAATTACTAACAAAATAACTATAAAATTATTTA
Found at i:3042061 original size:60 final size:60
Alignment explanation
Indices: 3041983--3042097 Score: 203
Period size: 60 Copynumber: 1.9 Consensus size: 60
3041973 TAAACTAAAC
*
3041983 ACAAAAATTTATAACATAATCCTAAATTACTAATAAATTAATTTTAAAATAATTACAAAT
1 ACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTACAAAT
* *
3042043 ACAACAATTTATAGCATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 ACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
3042098 TAAAAAAATT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.53, C:0.11, G:0.01, T:0.35
Consensus pattern (60 bp):
ACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTACAAAT
Found at i:3042507 original size:28 final size:26
Alignment explanation
Indices: 3042425--3042512 Score: 113
Period size: 26 Copynumber: 3.3 Consensus size: 26
3042415 TCTATGCAGG
* **
3042425 AGAGGGGCGTAGGGGGGCTGTATGGC
1 AGAGGGGCGCAGGGGGGCTGTGCGGC
* *
3042451 AGAGGGGCGCAGGGGGACTGTGCAGC
1 AGAGGGGCGCAGGGGGGCTGTGCGGC
3042477 AGAGGGGCGCAGGGGGGCTGTGCGGGGC
1 AGAGGGGCGCAGGGGGGCTGTGC--GGC
3042505 AGAGGGGC
1 AGAGGGGC
3042513 ACAAGGGGCA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
26 43 0.81
28 10 0.19
ACGTcount: A:0.16, C:0.16, G:0.59, T:0.09
Consensus pattern (26 bp):
AGAGGGGCGCAGGGGGGCTGTGCGGC
Found at i:3042691 original size:25 final size:24
Alignment explanation
Indices: 3042646--3042696 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
3042636 ATATATATTT
3042646 TAATATTTTAATAAAAATAAAATAA
1 TAATATTTTAATAAAAATAAAA-AA
* * *
3042671 TAATATTTTATTTAAAGTAAAAAA
1 TAATATTTTAATAAAAATAAAAAA
3042695 TA
1 TA
3042697 TTTTAATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (24 bp):
TAATATTTTAATAAAAATAAAAAA
Found at i:3058300 original size:16 final size:17
Alignment explanation
Indices: 3058266--3058297 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
3058256 TTAGAAATTT
3058266 TATTTAATGAAATAAAA
1 TATTTAATGAAATAAAA
3058283 TATTTAA-G-AATAAAA
1 TATTTAATGAAATAAAA
3058298 ATACGTATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.34
Consensus pattern (17 bp):
TATTTAATGAAATAAAA
Found at i:3060246 original size:65 final size:65
Alignment explanation
Indices: 3060165--3060294 Score: 242
Period size: 65 Copynumber: 2.0 Consensus size: 65
3060155 TCGACTAAAC
3060165 CCAAATAATACAAAACCAAAAGTAGAAAGACACGTAAAGCCTCGGCAAGGGACCAACAACACCCT
1 CCAAATAATACAAAACCAAAAGTAGAAAGACACGTAAAGCCTCGGCAAGGGACCAACAACACCCT
* *
3060230 CCAAATAATACAAAACCAAAAGTAGAAAGAGATGTAAAGCCTCGGCAAGGGACCAACAACACCCT
1 CCAAATAATACAAAACCAAAAGTAGAAAGACACGTAAAGCCTCGGCAAGGGACCAACAACACCCT
3060295 TTATAAGGCT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.48, C:0.26, G:0.16, T:0.10
Consensus pattern (65 bp):
CCAAATAATACAAAACCAAAAGTAGAAAGACACGTAAAGCCTCGGCAAGGGACCAACAACACCCT
Found at i:3065684 original size:11 final size:11
Alignment explanation
Indices: 3065668--3065692 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
3065658 ACAGCAATGG
3065668 CCAATGTTCAT
1 CCAATGTTCAT
3065679 CCAATGTTCAT
1 CCAATGTTCAT
3065690 CCA
1 CCA
3065693 TCAGAGGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.32, G:0.08, T:0.32
Consensus pattern (11 bp):
CCAATGTTCAT
Found at i:3080935 original size:11 final size:11
Alignment explanation
Indices: 3080889--3080958 Score: 52
Period size: 11 Copynumber: 6.4 Consensus size: 11
3080879 TTTTTTACTG
*
3080889 TTTTGTTATTA
1 TTTTATTATTA
* *
3080900 TTTTTTTGTTA
1 TTTTATTATTA
*
3080911 TTTT-TTCACTA
1 TTTTATT-ATTA
*
3080922 TTTTATTATCA
1 TTTTATTATTA
* *
3080933 TTTCACTATTA
1 TTTTATTATTA
*
3080944 TATTATTATTA
1 TTTTATTATTA
3080955 TTTT
1 TTTT
3080959 GTTGTTATTG
Statistics
Matches: 44, Mismatches: 13, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
10 2 0.05
11 40 0.91
12 2 0.05
ACGTcount: A:0.21, C:0.07, G:0.03, T:0.69
Consensus pattern (11 bp):
TTTTATTATTA
Found at i:3085876 original size:15 final size:16
Alignment explanation
Indices: 3085856--3085889 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
3085846 ATCATTCAAA
3085856 AAATTACAAAAAT-AT
1 AAATTACAAAAATAAT
*
3085871 AAATTACTAAAATAAT
1 AAATTACAAAAATAAT
3085887 AAA
1 AAA
3085890 ATTATATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (16 bp):
AAATTACAAAAATAAT
Found at i:3095107 original size:43 final size:43
Alignment explanation
Indices: 3095048--3095142 Score: 156
Period size: 43 Copynumber: 2.2 Consensus size: 43
3095038 AATGATGATA
*
3095048 TAAAATT-ATACAAATATAAATTATTTTATTTTATATGTCTTT
1 TAAAATTAAAACAAATATAAATTATTTTATTTTATATGTCTTT
*
3095090 TAAAATTAAAACAAATATAAATTATTTTATTTTGTATGTCTTT
1 TAAAATTAAAACAAATATAAATTATTTTATTTTATATGTCTTT
*
3095133 TAAAGTTAAA
1 TAAAATTAAA
3095143 GGAAACAATT
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
42 7 0.14
43 42 0.86
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.48
Consensus pattern (43 bp):
TAAAATTAAAACAAATATAAATTATTTTATTTTATATGTCTTT
Found at i:3098566 original size:27 final size:27
Alignment explanation
Indices: 3098528--3098592 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
3098518 ATTGATAAGG
*
3098528 ACGTAAAATTTTAGTGGGTTACACTAC
1 ACGTAAAATTTTAGTGGGTTAAACTAC
3098555 ACGTAAAATTTTAGTGGGTTAAACTAC
1 ACGTAAAATTTTAGTGGGTTAAACTAC
*
3098582 ACATAAGAATT
1 ACGTAA-AATT
3098593 GATAAGAACA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 31 0.89
28 4 0.11
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.32
Consensus pattern (27 bp):
ACGTAAAATTTTAGTGGGTTAAACTAC
Found at i:3108180 original size:20 final size:20
Alignment explanation
Indices: 3108143--3108180 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3108133 CTTAATTATT
3108143 AAAATGTAAAAAATTATAGA
1 AAAATGTAAAAAATTATAGA
3108163 AAAAT-TAAAAAATATATA
1 AAAATGTAAAAAAT-TATA
3108181 AAGTTTCGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.26
Consensus pattern (20 bp):
AAAATGTAAAAAATTATAGA
Found at i:3112039 original size:42 final size:41
Alignment explanation
Indices: 3111993--3112118 Score: 153
Period size: 42 Copynumber: 3.0 Consensus size: 41
3111983 GATTGAACGT
* * *
3111993 CAGTATTCGGTTTGCCCCTCGAGAGCCTGGGTGATTGAAATG
1 CAGTA-TCGGTTTGTCCTTGGAGAGCCTGGGTGATTGAAATG
* *
3112035 CAGTATCTGGTTTGTCCTTGGAGAGCCTGGGCGACTGAAATG
1 CAGTATC-GGTTTGTCCTTGGAGAGCCTGGGTGATTGAAATG
* * *
3112077 CAGTATCGGATTTGTCCTTGGAGAGCCTAGGTGGTTCAAATG
1 CAGTATCGG-TTTGTCCTTGGAGAGCCTGGGTGATTGAAATG
3112119 TACCATCGGA
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
41 4 0.06
42 68 0.94
ACGTcount: A:0.20, C:0.19, G:0.32, T:0.29
Consensus pattern (41 bp):
CAGTATCGGTTTGTCCTTGGAGAGCCTGGGTGATTGAAATG
Found at i:3112127 original size:42 final size:42
Alignment explanation
Indices: 3112045--3112133 Score: 106
Period size: 42 Copynumber: 2.1 Consensus size: 42
3112035 CAGTATCTGG
* * **
3112045 TTTGTCCTTGGAGAGCCTGGGCGACTGAAATGCAGTATCGGA
1 TTTGTCCTTGGAGAGCCTAGGCGACTCAAATGCACCATCGGA
* ** *
3112087 TTTGTCCTTGGAGAGCCTAGGTGGTTCAAATGTACCATCGGA
1 TTTGTCCTTGGAGAGCCTAGGCGACTCAAATGCACCATCGGA
3112129 TTTGT
1 TTTGT
3112134 TCATGGGGAG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.31
Consensus pattern (42 bp):
TTTGTCCTTGGAGAGCCTAGGCGACTCAAATGCACCATCGGA
Found at i:3117469 original size:23 final size:22
Alignment explanation
Indices: 3117442--3117484 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
3117432 AAATTTTTCA
3117442 AAAATTAAATAAATACAAAAATT
1 AAAATTAAATAAATA-AAAAATT
*
3117465 AAAATTAAATAATTAAAAAA
1 AAAATTAAATAAATAAAAAA
3117485 GTGCATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (22 bp):
AAAATTAAATAAATAAAAAATT
Found at i:3120122 original size:22 final size:24
Alignment explanation
Indices: 3120078--3120122 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 24
3120068 GCTTCATGTT
*
3120078 ATTTTTTATAAACTTTATATATAG
1 ATTTTTTATAAACTATATATATAG
*
3120102 ATTTTTTA-AAA-TATATTTATA
1 ATTTTTTATAAACTATATATATA
3120123 AGTTTTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 8 0.42
23 3 0.16
24 8 0.42
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (24 bp):
ATTTTTTATAAACTATATATATAG
Found at i:3120341 original size:19 final size:20
Alignment explanation
Indices: 3120299--3120335 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
3120289 TAACAGCCAA
3120299 AATTTAACTAAAAAAAAATC
1 AATTTAACTAAAAAAAAATC
3120319 AATTTAAC-AAAAAAAAA
1 AATTTAACTAAAAAAAAA
3120336 GTAATTATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.70, C:0.08, G:0.00, T:0.22
Consensus pattern (20 bp):
AATTTAACTAAAAAAAAATC
Found at i:3124088 original size:33 final size:33
Alignment explanation
Indices: 3124051--3124129 Score: 131
Period size: 33 Copynumber: 2.4 Consensus size: 33
3124041 GCCTATAGAT
*
3124051 AAAAGGAATATATTTATAGTAGTAGTACAAGCC
1 AAAAGGAATATATTTATAGCAGTAGTACAAGCC
*
3124084 AAAAGGAATATATTTATAGCAGTAGTAGAAGCC
1 AAAAGGAATATATTTATAGCAGTAGTACAAGCC
*
3124117 AAAACGAATATAT
1 AAAAGGAATATAT
3124130 CATATCTAGG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.48, C:0.09, G:0.18, T:0.25
Consensus pattern (33 bp):
AAAAGGAATATATTTATAGCAGTAGTACAAGCC
Found at i:3127348 original size:43 final size:43
Alignment explanation
Indices: 3127287--3127374 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
3127277 TCCAAGTTCA
3127287 TTGAATTTGAATAACCATTTGCCAGGTTCGTTCTAAATCTACT
1 TTGAATTTGAATAACCATTTGCCAGGTTCGTTCTAAATCTACT
3127330 TTGAATTTGAATAACCATTTGCCAGGTTCGTTCTAAATCTACT
1 TTGAATTTGAATAACCATTTGCCAGGTTCGTTCTAAATCTACT
3127373 TT
1 TT
3127375 TTTTTAGTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (43 bp):
TTGAATTTGAATAACCATTTGCCAGGTTCGTTCTAAATCTACT
Found at i:3129878 original size:109 final size:110
Alignment explanation
Indices: 3129684--3129991 Score: 428
Period size: 110 Copynumber: 2.8 Consensus size: 110
3129674 GAAATTCGAG
* * * * * *
3129684 AGGATATTTGGCTATTTGGTTAAATGAG--AAATCGAA-ACCCAGCACCTTAGGGTACG-TTCCT
1 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATC-AACACCCAGCACCTTAGGGCATGTTTTCT
*
3129745 CAAATTTCCAAACGCAAAACATTGCCTTATTTT-GAAATTTTTAAA
65 CAAATTTCCAAACGCAAAACATTGCCTTATTTTAAAAATTTTTAAA
*
3129790 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCAACACCCAGCACCTTAAGGCATGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCAACACCCAGCACCTTAGGGCATGTTTTCTC
*
3129855 AAATTTCCAAACGCCAAACATTGCCTTATTTTAAAAATTTTTAAA
66 AAATTTCCAAACGCAAAACATTGCCTTATTTTAAAAATTTTTAAA
* * *
3129900 AGGATATTAAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCAACACCCAGCACCTTAGGGCATGTTTTCTC
* * *
3129965 GAATTTCCCAAACGCTAAATATTGCCT
66 AAATTT-CCAAACGCAAAACATTGCCT
3129992 CAATTAGAAA
Statistics
Matches: 180, Mismatches: 16, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
106 25 0.14
107 2 0.01
108 22 0.12
109 36 0.20
110 77 0.43
111 18 0.10
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.31
Consensus pattern (110 bp):
AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCAACACCCAGCACCTTAGGGCATGTTTTCTC
AAATTTCCAAACGCAAAACATTGCCTTATTTTAAAAATTTTTAAA
Found at i:3130891 original size:9 final size:9
Alignment explanation
Indices: 3130877--3130939 Score: 54
Period size: 9 Copynumber: 6.3 Consensus size: 9
3130867 AAATATGATG
3130877 ATAATAAAA
1 ATAATAAAA
*
3130886 ATAATATTAA
1 ATAATA-AAA
*
3130896 ATAATAATA
1 ATAATAAAA
3130905 ATAATAATAGA
1 ATAATAA-A-A
3130916 ATAATGAACAAA
1 ATAAT--A-AAA
3130928 ATAATAAAA
1 ATAATAAAA
3130937 ATA
1 ATA
3130940 CTACAAAGGG
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
9 20 0.45
10 9 0.20
11 6 0.14
12 6 0.14
13 2 0.05
14 1 0.02
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (9 bp):
ATAATAAAA
Found at i:3130901 original size:19 final size:20
Alignment explanation
Indices: 3130877--3130933 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
3130867 AAATATGATG
*
3130877 ATAATAAAAATAATATTA-A
1 ATAATAAAAATAATAATAGA
*
3130896 ATAATAATAATAATAATAGA
1 ATAATAAAAATAATAATAGA
*
3130916 ATAATGAACAA-AATAATA
1 ATAAT-AAAAATAATAATA
3130934 AAAATACTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 16 0.48
20 13 0.39
21 4 0.12
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.28
Consensus pattern (20 bp):
ATAATAAAAATAATAATAGA
Found at i:3132365 original size:44 final size:44
Alignment explanation
Indices: 3132308--3132552 Score: 164
Period size: 44 Copynumber: 5.6 Consensus size: 44
3132298 TTTTTATCCA
* *
3132308 CTCCACTGCAACTTCAGGGAGACACGATTGGTATTTTTCGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGTATTTTTCGTCTG
* * **
3132352 CTCCACTGTAACTTCAGGGAGATAAGACTT-GTA-TCTTCAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTGGTATTTTTC-GTCTG
* * * * *
3132396 CTCCACTGCGACTTCAGGGAGATAAGGTTTG-ATCCATTTCGAC--
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGTAT--TTTTCGTCTG
* * ** *** * **
3132439 CT--ACTGCAACTTCAGAGG-TATATGATTCATCGATTTCATCCA
1 CTCCACTGCAACTTCAG-GGAGATAAGATTGGTATTTTTCGTCTG
* * *
3132481 CTCCACTACAACTTCAGGGAGACACGATTGGTATTTTTCGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGTATTTTTCGTCTG
*
3132525 CTCCACTGTAACTTCAGGGAGATAAGAT
1 CTCCACTGCAACTTCAGGGAGATAAGAT
3132553 AGTGTCTTGG
Statistics
Matches: 149, Mismatches: 39, Indels: 26
0.70 0.18 0.12
Matches are distributed among these distances:
40 6 0.04
41 18 0.12
42 4 0.03
43 11 0.07
44 104 0.70
45 3 0.02
46 3 0.02
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.30
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTGGTATTTTTCGTCTG
Found at i:3132590 original size:43 final size:42
Alignment explanation
Indices: 3132521--3133074 Score: 311
Period size: 44 Copynumber: 12.7 Consensus size: 42
3132511 GTATTTTTCG
*
3132521 TCTGCTCCACTGTAACTTCAGGGAGATAAGATAGTGTCTTGGA
1 TCTGCTCCACTGTAAC-TCAGGGAGATAAGATACTGTCTTGGA
* * * * **
3132564 TCTGCTCCGCTGTAATCTCAGAGAGATAAGATCCTGGCTTCAA
1 TCTGCTCCACTGTAA-CTCAGGGAGATAAGATACTGTCTTGGA
3132607 TCTGCTCCACTGTAACCTCAGGGAGATAAGAT-CTGAAATTCTTCGG-
1 TCTGCTCCACTGTAA-CTCAGGGAGATAAGATACTG----TCTT-GGA
* * *
3132653 TCTACTCCACTGTAACCTCAGGGAGATAAGA-CCTG--ATGCGA
1 TCTGCTCCACTGTAA-CTCAGGGAGATAAGATACTGTCTTG-GA
* ** * * * * **
3132694 TCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAA
1 TCTGCTCCACTGTAAC-TCAGGGAGATAAGATACTGT-CTTGGA
* * * *
3132738 TCCGCTCCACTATAACTTCAGGGAGATAGGATAGTGTCTTGGA
1 TCTGCTCCACTGTAAC-TCAGGGAGATAAGATACTGTCTTGGA
* * **
3132781 TCTGCTCCGCTGTAATCTCAGGGAGATAAGAT-CTCTAGCTTCAA
1 TCTGCTCCACTGTAA-CTCAGGGAGATAAGATACTGT--CTTGGA
*
3132825 TCTGCTCAACTGTAACCTCAGGGAGATAAGAT-CTGAAATTCTTCGG-
1 TCTGCTCCACTGTAA-CTCAGGGAGATAAGATACTG----TCTT-GGA
* * *
3132871 TCTACTCCACTGTAACCTCAGGGAGATAAGACA-TG--ATGCGA
1 TCTGCTCCACTGTAA-CTCAGGGAGATAAGATACTGTCTTG-GA
* ** * * * * * **
3132912 TCTACTCTGCTGTAACTTCAGAGAGATGAGATCCTTTATTTTAA
1 TCTGCTCCACTGTAAC-TCAGGGAGATAAGATACTGT-CTTGGA
* * *
3132956 TCTGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGA
1 TCTGCTCCACTGTAAC-TCAGGGAGATAAGATACTGTCTTGGA
* * * **
3132999 TCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAA
1 TCTGCTCCACTGTAA-CTCAGGGAGATAAGAT-ACTGTCTTGGA
*
3133043 TCTGCTCCACTGTAACCTTAGGGAGATAAGAT
1 TCTGCTCCACTGTAA-CTCAGGGAGATAAGAT
3133075 CTGAAATATT
Statistics
Matches: 395, Mismatches: 84, Indels: 63
0.73 0.15 0.12
Matches are distributed among these distances:
39 2 0.01
40 6 0.02
41 51 0.13
42 9 0.02
43 123 0.31
44 131 0.33
45 2 0.01
46 70 0.18
48 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (42 bp):
TCTGCTCCACTGTAACTCAGGGAGATAAGATACTGTCTTGGA
Found at i:3132674 original size:132 final size:131
Alignment explanation
Indices: 3132476--3132765 Score: 311
Period size: 130 Copynumber: 2.2 Consensus size: 131
3132466 CATCGATTTC
* * * * * ** * * *
3132476 ATCCACTCCACTACAACTTCAGGGAGACACGAT-TGGTATTTTTC-GTCTGCTCCACTGTAACTT
1 ATCCGCTCCACTATAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCT
* * * *
3132539 CAGGGAGATAAGATAGTGTCTTG-GATCTGCTCCGCTGTAA-TCTCAGAGAGATAAGATCC-TGG
66 CAGGGAGATAAGA-ACTG--ATGCGATCTACTCCGCTGTAACT-TCAGAGAGATAAGATCCTTGA
3132601 CTTCA
127 CTTCA
* *
3132606 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCT
1 ATCCGCTCCACTATAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCT
* * * * *
3132671 CAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTT
66 CAGGGAGATAAGAACTGATGCGATCTACTCCGCTGTAACTTCAGAGAGATAAGATCCTTGACTTC
3132736 A
131 A
*
3132737 ATCCGCTCCACTATAACTTCAGGGAGATA
1 ATCCGCTCCACTATAACCTCAGGGAGATA
3132766 GGATAGTGTC
Statistics
Matches: 131, Mismatches: 24, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
129 2 0.02
130 58 0.44
131 41 0.31
132 30 0.23
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (131 bp):
ATCCGCTCCACTATAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCT
CAGGGAGATAAGAACTGATGCGATCTACTCCGCTGTAACTTCAGAGAGATAAGATCCTTGACTTC
A
Found at i:3132896 original size:218 final size:218
Alignment explanation
Indices: 3132524--3133081 Score: 1019
Period size: 218 Copynumber: 2.6 Consensus size: 218
3132514 TTTTTCGTCT
* *
3132524 GCTCCACTGTAACTTCAGGGAGATAAGATAGTGTCTTGGATCTGCTCCGCTGTAATCTCAGAGAG
1 GCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTGGATCTGCTCCGCTGTAATCTCAGGGAG
3132589 ATAAGATC-CTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGG
66 ATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGG
*
3132653 TCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGA
131 TCTACTCCACTGTAACCTCAGGGAGATAAGACATGATGCGATCTACTCTGCTGTAACTTCAGAGA
3132718 GATAAGATCCTTTATTTTAATCC
196 GATAAGATCCTTTATTTTAATCC
*
3132741 GCTCCACTATAACTTCAGGGAGATAGGATAGTGTCTTGGATCTGCTCCGCTGTAATCTCAGGGAG
1 GCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTGGATCTGCTCCGCTGTAATCTCAGGGAG
* *
3132806 ATAAGATCTCTAGCTTCAATCTGCTCAACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGG
66 ATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGG
3132871 TCTACTCCACTGTAACCTCAGGGAGATAAGACATGATGCGATCTACTCTGCTGTAACTTCAGAGA
131 TCTACTCCACTGTAACCTCAGGGAGATAAGACATGATGCGATCTACTCTGCTGTAACTTCAGAGA
* *
3132936 GATGAGATCCTTTATTTTAATCT
196 GATAAGATCCTTTATTTTAATCC
*
3132959 GCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAG
1 GCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTGGATCTGCTCCGCTGTAATCTCAGGGAG
*
3133024 ATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTTAGGGAGATAAGATCTGAAAT
66 ATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
3133082 ATTCACTGAT
Statistics
Matches: 327, Mismatches: 13, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
217 70 0.21
218 257 0.79
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (218 bp):
GCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTGGATCTGCTCCGCTGTAATCTCAGGGAG
ATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGG
TCTACTCCACTGTAACCTCAGGGAGATAAGACATGATGCGATCTACTCTGCTGTAACTTCAGAGA
GATAAGATCCTTTATTTTAATCC
Found at i:3133001 original size:87 final size:85
Alignment explanation
Indices: 3132521--3133073 Score: 257
Period size: 87 Copynumber: 6.4 Consensus size: 85
3132511 GTATTTTTCG
* * *
3132521 TCTGCTCCACTGTAACTTCAGGGAGATAAGATAGTGTCTTG-GATCTGCTCCGCTGTAATCTCAG
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGACA-TG--ATGCGATCTACTCCGCTGTAATCTCAG
*
3132585 AGAGATAAGATC-CTGGCTTCAA
63 AGAGATAAGATCTCTGACTTCAA
* * * * *
3132607 TCTGCTCCACTGTAACCTCAGGGAGATAAGATC-TGAAATTCTTCGGTCTACTCCACTGTAACCT
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGA-CATG--A---TGCGATCTACTCCGCTGTAATCT
* * *
3132671 CAGGGAGATAAGA-C-CTGA-TGCGA
60 CAGAGAGATAAGATCTCTGACTTCAA
* ** * * * *** ** * *
3132694 TCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTATAA-CTTCA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGA--CATGA-TGCGATCTACTCCGCTGTAATC-TCA
* * ** * **
3132758 GGGAGATAGGAT-AGTGTCTTGGA
62 GAGAGATAAGATCTCTGACTTCAA
* * * * * * ** *
3132781 TCTGCTCCGCTGTAA-TCTCAGGGAGATAAGATCTCTAGCTTCAATCTGCTCAACTGTAACCTCA
1 TCTGCTCCACTGTAACT-TCAGGGAGATAAGA-C-AT-GATGCGATCTACTCCGCTGTAATCTCA
* *** **
3132845 GGGAGATAAGATCTGAAATTCTTCGG
62 GAGAGATAAGATCTCTGA--CTTCAA
* * *
3132871 TCTACTCCACTGTAACCTCAGGGAGATAAGACATGATGCGATCTACTCTGCTGTAA-CTTCAGAG
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGACATGATGCGATCTACTCCGCTGTAATC-TCAGAG
* * * *
3132935 AGATGAGATC-CTTTATTTTAA
65 AGATAAGATCTC-TGACTTCAA
* * * * * *
3132956 TCTGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGG
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGACA-TG-ATGCGATCTACTCCGCTGTAATCTCAGA
*
3133021 GAGATAAGATCTCTGGCTTCAA
64 GAGATAAGATCTCTGACTTCAA
3133043 TCTGCTCCACTGTAACCTT-AGGGAGATAAGA
1 TCTGCTCCACTGTAA-CTTCAGGGAGATAAGA
3133074 TCTGAAATAT
Statistics
Matches: 356, Mismatches: 85, Indels: 51
0.72 0.17 0.10
Matches are distributed among these distances:
84 1 0.00
85 60 0.17
86 37 0.10
87 183 0.51
88 14 0.04
89 30 0.08
90 31 0.09
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (85 bp):
TCTGCTCCACTGTAACTTCAGGGAGATAAGACATGATGCGATCTACTCCGCTGTAATCTCAGAGA
GATAAGATCTCTGACTTCAA
Found at i:3135247 original size:18 final size:18
Alignment explanation
Indices: 3135226--3135415 Score: 65
Period size: 18 Copynumber: 10.6 Consensus size: 18
3135216 TTTCTTTTTC
3135226 TTTTCTTTTTCATTTTGA
1 TTTTCTTTTTCATTTTGA
* *
3135244 -TTT-TTTTT-ATCTAGA
1 TTTTCTTTTTCATTTTGA
3135259 TTTCTCTTTTTTCATTCTT--
1 TTT-TC-TTTTTCATT-TTGA
* *
3135278 CTTTCTTTTTCTCATTTTCA
1 TTTTC-TTTT-TCATTTTGA
** * *
3135298 TTTTGATCTTGATTTTGA
1 TTTTCTTTTTCATTTTGA
* **
3135316 TTTT-TTCTTC-TTTCTTC
1 TTTTCTTTTTCATTT-TGA
*
3135333 TTTT-TTTTT-ATTTTAA
1 TTTTCTTTTTCATTTTGA
* *
3135349 TTTTTTCATTTTCATTTTCA
1 --TTTTCTTTTTCATTTTGA
*
3135369 TTTTCATTTTCATTTTGA
1 TTTTCTTTTTCATTTTGA
* ** *
3135387 CTTTGATTTTGATTTTGA
1 TTTTCTTTTTCATTTTGA
3135405 TTTTTCTTTTT
1 -TTTTCTTTTT
3135416 TTTCCCTTTT
Statistics
Matches: 129, Mismatches: 27, Indels: 31
0.69 0.14 0.17
Matches are distributed among these distances:
15 5 0.04
16 11 0.09
17 20 0.16
18 56 0.43
19 25 0.19
20 11 0.09
21 1 0.01
ACGTcount: A:0.12, C:0.13, G:0.05, T:0.71
Consensus pattern (18 bp):
TTTTCTTTTTCATTTTGA
Found at i:3135351 original size:6 final size:6
Alignment explanation
Indices: 3135351--3135408 Score: 71
Period size: 6 Copynumber: 9.7 Consensus size: 6
3135341 TATTTTAATT
* * * *
3135351 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTGA CTTTGA TTTTGA
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA
*
3135399 TTTTGA TTTT
1 TTTTCA TTTT
3135409 TCTTTTTTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.16, C:0.10, G:0.07, T:0.67
Consensus pattern (6 bp):
TTTTCA
Found at i:3138282 original size:20 final size:21
Alignment explanation
Indices: 3138236--3138282 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
3138226 AAACAGACCT
*
3138236 AACCCAAAACAATAAAATTAC
1 AACCCAAAACAATAAAATTAA
*
3138257 AGCCCAAAA-AGA-AAAATTAA
1 AACCCAAAACA-ATAAAATTAA
3138277 AACCCA
1 AACCCA
3138283 GCCCAAAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.62, C:0.23, G:0.04, T:0.11
Consensus pattern (21 bp):
AACCCAAAACAATAAAATTAA
Found at i:3138762 original size:16 final size:16
Alignment explanation
Indices: 3138743--3138788 Score: 92
Period size: 16 Copynumber: 2.9 Consensus size: 16
3138733 CTGTTCTTTT
3138743 TATATTTATATATACA
1 TATATTTATATATACA
3138759 TATATTTATATATACA
1 TATATTTATATATACA
3138775 TATATTTATATATA
1 TATATTTATATATA
3138789 AAAAATAGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (16 bp):
TATATTTATATATACA
Found at i:3138785 original size:8 final size:8
Alignment explanation
Indices: 3138743--3138787 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
3138733 CTGTTCTTTT
3138743 TATATTTA
1 TATATTTA
**
3138751 TATATACA
1 TATATTTA
3138759 TATATTTA
1 TATATTTA
**
3138767 TATATACA
1 TATATTTA
3138775 TATATTTA
1 TATATTTA
3138783 TATAT
1 TATAT
3138788 AAAAAATAGT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.53
Consensus pattern (8 bp):
TATATTTA
Found at i:3139431 original size:3 final size:3
Alignment explanation
Indices: 3139425--3139502 Score: 61
Period size: 3 Copynumber: 25.7 Consensus size: 3
3139415 TTTAGCATTT
* * * * *
3139425 TTA TTA TT- TTC TTCA TTA TTT TTA ATA -TA TTA TCA TCTT TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
*
3139470 TTA TTA TTG TTA TTA TTA GTTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TT
3139503 TCCTCATCTA
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
2 4 0.07
3 50 0.83
4 6 0.10
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:3141805 original size:29 final size:30
Alignment explanation
Indices: 3141717--3141806 Score: 87
Period size: 29 Copynumber: 3.0 Consensus size: 30
3141707 AATTGGTAAT
* * * *
3141717 TAAATTATATTGTTTTTCACATCTTGATACT
1 TAAACTATATTTTTTTTCACA-ATTGATACC
*
3141748 TAAACT-T-TTTTTTTATCACAATTGGTACC
1 TAAACTATATTTTTTT-TCACAATTGATACC
*
3141777 TAAACTATATTTTTTTTCA-AGTTGATACC
1 TAAACTATATTTTTTTTCACAATTGATACC
3141806 T
1 T
3141807 TTGTTAGTCA
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
29 27 0.55
30 10 0.20
31 12 0.24
ACGTcount: A:0.29, C:0.14, G:0.07, T:0.50
Consensus pattern (30 bp):
TAAACTATATTTTTTTTCACAATTGATACC
Found at i:3154804 original size:3 final size:3
Alignment explanation
Indices: 3154789--3154822 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
3154779 AGGAACTATT
* *
3154789 CTG CTG TTG CTG CTG CTG CGG CTG CTG CTG CTG C
1 CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG C
3154823 GGAAAGTGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.32, G:0.35, T:0.32
Consensus pattern (3 bp):
CTG
Found at i:3154823 original size:15 final size:15
Alignment explanation
Indices: 3154796--3154824 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
3154786 ATTCTGCTGT
3154796 TGCTGCTGCTGCGGC
1 TGCTGCTGCTGCGGC
3154811 TGCTGCTGCTGCGG
1 TGCTGCTGCTGCGG
3154825 AAAGTGATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.31, G:0.41, T:0.28
Consensus pattern (15 bp):
TGCTGCTGCTGCGGC
Found at i:3154857 original size:15 final size:15
Alignment explanation
Indices: 3154839--3154878 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
3154829 TGATGAGGAG
*
3154839 GAGGGTGAGGAAAGC
1 GAGGGAGAGGAAAGC
*
3154854 GAGGGAGAGGAAAGT
1 GAGGGAGAGGAAAGC
*
3154869 GAAGGAGAGG
1 GAGGGAGAGG
3154879 GAGAGGAGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.38, C:0.03, G:0.55, T:0.05
Consensus pattern (15 bp):
GAGGGAGAGGAAAGC
Found at i:3154878 original size:21 final size:21
Alignment explanation
Indices: 3154854--3154894 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
3154844 TGAGGAAAGC
*
3154854 GAGGGAGAGGAAAGTGAAGGA
1 GAGGGAGAGGAAAGGGAAGGA
*
3154875 GAGGGAGAGGAGAGGGAAGG
1 GAGGGAGAGGAAAGGGAAGG
3154895 GATGAAGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.59, T:0.02
Consensus pattern (21 bp):
GAGGGAGAGGAAAGGGAAGGA
Found at i:3161114 original size:3 final size:3
Alignment explanation
Indices: 3161108--3161148 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
3161098 CAAATTTTTT
*
3161108 TTA TTA TTA GTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
3161149 TTGCATGATA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:3164399 original size:20 final size:20
Alignment explanation
Indices: 3164370--3164407 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3164360 ATGTAAGACA
3164370 AAAAATTAAACACACCATATT
1 AAAAATTAAACAC-CCATATT
3164391 AAAAA-TAAACACCCATA
1 AAAAATTAAACACCCATA
3164408 AAAAAGAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 7 0.41
21 5 0.29
ACGTcount: A:0.61, C:0.21, G:0.00, T:0.18
Consensus pattern (20 bp):
AAAAATTAAACACCCATATT
Found at i:3180866 original size:210 final size:210
Alignment explanation
Indices: 3180502--3181551 Score: 1636
Period size: 210 Copynumber: 5.0 Consensus size: 210
3180492 CAATCTATAA
* *
3180502 TTGAATCCTCTGCCTCATCCAATATCATTTCAAGCAATGAGATCTCCATGAGTTTACCTGATCCA
1 TTGAATCCTCTGCCTCATCCAATATCATTTCAAGCAATGGGATCTCCACGAGTTTACCTGATCCA
* * * *
3180567 GTTCCCGCAGC-GAATTTTGCCAGTGAGCAGATGTTGGAAATCTTAGGGAAATCTTCTGATCCTG
66 GTTTCCTCA-CAGAATTTTGCCAGTGAGCAGATGTTGCAAATCTCAGGGAAATCTTCTGATCCTG
* * *
3180631 ACAATTTATCCC-ATTCTGGTTTATACATGAGTGATGAAATTCATGAAAATTCACAAGTGGAATC
130 ACAATTTA-CCCTATACTGATTTATACATGAGTGATGAAATTCATAAAAATTCACAAGTGGAATC
*
3180695 TGTCATCAGTAATCCAT
194 TGTCATCAGTGATCCAT
* * *
3180712 TTGAATCCTCTGCCTCATCCAATATCATTTTAAGCGATGAGATCTCCACGAGTTTACCTGATCCA
1 TTGAATCCTCTGCCTCATCCAATATCATTTCAAGCAATGGGATCTCCACGAGTTTACCTGATCCA
* * * *
3180777 GTTTCCTCGCAGAATTTTGCCAGTGAACATATGTTGCAAATCTCAGGGAAATCTTCTGATACTGA
66 GTTTCCTCACAGAATTTTGCCAGTGAGCAGATGTTGCAAATCTCAGGGAAATCTTCTGATCCTGA
* * * *
3180842 CAATTTACCCTGTACTGATTTATACATGAGTGATGAAATTCAAAAAAAATCACAAGGGGAATCTG
131 CAATTTACCCTATACTGATTTATACATGAGTGATGAAATTCATAAAAATTCACAAGTGGAATCTG
*
3180907 TCATCAATGATCCAT
196 TCATCAGTGATCCAT
* *
3180922 TTGAATCCTCTGCCTCATCCAATATCATTGCAAGCAATGGGATCTCCACAAGTTTACCTGATCCA
1 TTGAATCCTCTGCCTCATCCAATATCATTTCAAGCAATGGGATCTCCACGAGTTTACCTGATCCA
* *
3180987 ATTTCCTCACAGAATTTTGCCAGTGAGCAGATGCTGCAAATCTCAGGGAAATCTTCTGATCCTGA
66 GTTTCCTCACAGAATTTTGCCAGTGAGCAGATGTTGCAAATCTCAGGGAAATCTTCTGATCCTGA
* *
3181052 CAATTTTCCCTATACTGATTTATACATGAGTGGTGAAATTCATAAAAATTCACAAGTGGAATCTG
131 CAATTTACCCTATACTGATTTATACATGAGTGATGAAATTCATAAAAATTCACAAGTGGAATCTG
*
3181117 TCATTAGTGATCCAT
196 TCATCAGTGATCCAT
3181132 TTGAATCCTCTGCCTCATCCAATATCATTTCAAGCAATGGGATCTCCACGAGTTTACCTGATCCA
1 TTGAATCCTCTGCCTCATCCAATATCATTTCAAGCAATGGGATCTCCACGAGTTTACCTGATCCA
* * *
3181197 GTTTCCTCACAGAATTTTGCCAGTGAACATATGTTGCAAATCTCAGGGAAATCTTCTGATACTGA
66 GTTTCCTCACAGAATTTTGCCAGTGAGCAGATGTTGCAAATCTCAGGGAAATCTTCTGATCCTGA
* *
3181262 CAATTTACCCTGTACTGATTTATACATGAGTGATGAAATTCAAAAAAATTCACAAGTGGAATCTG
131 CAATTTACCCTATACTGATTTATACATGAGTGATGAAATTCATAAAAATTCACAAGTGGAATCTG
* * *
3181327 TCAGCAATGATCCGT
196 TCATCAGTGATCCAT
* * *
3181342 TTGAATCCTTTGCCTCATCCAATATCATTGCAAGCAATGGGATCTCCACAAGTTTACCTGATCCA
1 TTGAATCCTCTGCCTCATCCAATATCATTTCAAGCAATGGGATCTCCACGAGTTTACCTGATCCA
* *
3181407 ATTTCCTCACAGAATTTTGCCAGTGAGCAGATGCTGCAAATCTCAGGGAAATCTTCTGATCCTGA
66 GTTTCCTCACAGAATTTTGCCAGTGAGCAGATGTTGCAAATCTCAGGGAAATCTTCTGATCCTGA
* * ** *
3181472 CAATTTTCCCTATACTGATTTATGCACAAGTGATGAAATTCATAAAATTTCACAAGTGGAATCTG
131 CAATTTACCCTATACTGATTTATACATGAGTGATGAAATTCATAAAAATTCACAAGTGGAATCTG
*
3181537 TCATCAGTCATCCAT
196 TCATCAGTGATCCAT
3181552 CATCATCCTC
Statistics
Matches: 765, Mismatches: 73, Indels: 4
0.91 0.09 0.00
Matches are distributed among these distances:
209 4 0.01
210 761 0.99
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.31
Consensus pattern (210 bp):
TTGAATCCTCTGCCTCATCCAATATCATTTCAAGCAATGGGATCTCCACGAGTTTACCTGATCCA
GTTTCCTCACAGAATTTTGCCAGTGAGCAGATGTTGCAAATCTCAGGGAAATCTTCTGATCCTGA
CAATTTACCCTATACTGATTTATACATGAGTGATGAAATTCATAAAAATTCACAAGTGGAATCTG
TCATCAGTGATCCAT
Found at i:3191183 original size:31 final size:30
Alignment explanation
Indices: 3191148--3191207 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
3191138 GGAGGTGGGA
*
3191148 TGGGAAGAGAATAAAAGTTTTAGGGGAAAAG
1 TGGG-AGAGAATAAAAATTTTAGGGGAAAAG
* * *
3191179 TGGGAGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAGAGAATAAAAATTTTAGGGGAAAA
3191208 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (30 bp):
TGGGAGAGAATAAAAATTTTAGGGGAAAAG
Found at i:3191379 original size:21 final size:23
Alignment explanation
Indices: 3191345--3191389 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
3191335 GGGAGAAAGT
3191345 GGGAAAGAGT-AAAAGTTT-TGA
1 GGGAAAGAGTAAAAAGTTTGTGA
3191366 GGGAAA-AGTAAAAAAGTTTGTGA
1 GGGAAAGAGT-AAAAAGTTTGTGA
3191389 G
1 G
3191390 TTTAGGGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 3 0.14
21 6 0.29
22 8 0.38
23 4 0.19
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.22
Consensus pattern (23 bp):
GGGAAAGAGTAAAAAGTTTGTGA
Found at i:3196245 original size:31 final size:32
Alignment explanation
Indices: 3196210--3196271 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
3196200 TGATAATTCA
**
3196210 GTGACTTA-AATAAAAACTTTTGAATAGTTTC
1 GTGACTTAGAATAAAAACTTTCAAATAGTTTC
*
3196241 GTGACTTAGAATGAAAACTTTCAAATAGTTT
1 GTGACTTAGAATAAAAACTTTCAAATAGTTT
3196272 AATAATTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 8 0.30
32 19 0.70
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.37
Consensus pattern (32 bp):
GTGACTTAGAATAAAAACTTTCAAATAGTTTC
Found at i:3201619 original size:48 final size:48
Alignment explanation
Indices: 3201548--3201682 Score: 234
Period size: 48 Copynumber: 2.8 Consensus size: 48
3201538 TAACAGAAGT
* * * *
3201548 GATAAAATGAACATAAATTTCATTTCCATAACATAATTTGTGGTAATA
1 GATAAGATGAACATAAATTTCATTTTCATAACATAACTTGTAGTAATA
3201596 GATAAGATGAACATAAATTTCATTTTCATAACATAACTTGTAGTAATA
1 GATAAGATGAACATAAATTTCATTTTCATAACATAACTTGTAGTAATA
3201644 GATAAGATGAACATAAATTTCATTTTCATAACATAACTT
1 GATAAGATGAACATAAATTTCATTTTCATAACATAACTT
3201683 ATTACAATAG
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 83 1.00
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.36
Consensus pattern (48 bp):
GATAAGATGAACATAAATTTCATTTTCATAACATAACTTGTAGTAATA
Found at i:3206297 original size:738 final size:742
Alignment explanation
Indices: 3204879--3206300 Score: 2264
Period size: 743 Copynumber: 1.9 Consensus size: 742
3204869 TCAAGACTAA
* * * *
3204879 GCTACAGTATAATTTTTTAATAAAGATCAGCAATCTCGGCCGAAAGATGGTGAATATTTATATAA
1 GCTACAGTAAAATGTTTGAATAAAGATCAGCAATCTCAGCCGAAAGATGGTGAATATTTATATAA
* *
3204944 TCATCATAAGACACATCAGGTTTGATGATTCATTTTCATCATAGATTGCAGCAACTGACAAAAAA
66 TCATCATAACACAAATCAGGTTTGATGATTCATTTTCATCATAGATTGCAGCAACTGACAAAAAA
* *
3205009 AGGAGGAAAAAAACAGTTAAATCAATTAAAATTTGACCCCAAATTCCCAGAAAATTAAACAAAAT
131 ACGAGGAAAAAAACAGTTAAATCAATTAAAATTTGACCCCAAATTCCCAGAAAAGTAAACAAAAT
3205074 ATGCAAAAGAGATCAGATGGTAGTGCATGTTTGTATTCATCATTCAAATGCAGAAATGATGGATA
196 ATGCAAAAGAGATCAGATGGTAGTGCATGTTTGTATTCATCATTCAAATGCAGAAATGATGGATA
*
3205139 AGTATCATCACACCTCCTTGCATATCTTAAGAAAATCAAATCCTATGAAGCATAAAAAAGTAGAA
261 AGTATCATCACACCTCCTTGCATATCTTAAGAAAATCAAATCCTATGAAGCATAAAAAACTAGAA
3205204 CCATTAACTCATAGCAATTTCTGTTTGGCAAATTAAAAAATTGAAAATAATCATAAAAAGAGAAT
326 CCATTAACT-ATAG-AATTTCTGTTTGGCAAATTAAAAAATTGAAAATAATCATAAAAAGAGAAT
3205269 ATTTTACAGGTTACACCCCATTGGAGTAATGGTAAATGGATCAGATAGTCGATCGCTAATGTCTC
389 ATTTTACAGGTTACACCCCATTGGAGTAATGGTAAATGGATCAGATAGTCGATCGCTAATGTCTC
3205334 AGCATATTGCAACTCAGACTAGGTGTCAAATATCTATCTTCATATCCACATTCAATCAAATTTTA
454 AGCATATTGCAACTCAGACTAGGTGTCAAATATCTATCTTCATATCCACATTCAATCAAATTTTA
*
3205399 AAAAAATAAGATTTTAGACAAAATTTTGCAAACAAGTGAAGCTGCAGACAATAATTACAAGTGGA
519 AAAAAATAAGATTTTAAACAAAATTTTGCAAACAAGTGAAGCTGCAGACAATAATTACAAGTGGA
* *
3205464 AATCAGATAAAAAAGTCAATCACCAATTTTGCATATGAAGACATTATTATATGCAAAGTAAGACT
584 AATCAGATAAAAAAGTCAATCACCAATTTTGCATACGAAGACATTAATATATGCAAAGTAAGACT
*
3205529 GGGGCGACAATAACTGTCATCATGTTCCCTTTTTCCCTTGAAAAACATAGCTCAAACAAAAACAT
649 GGGGCGACAATAACTATCATCATGTTCCCTTTTTCCCTTGAAAAACATAGCTCAAACAAAAACAT
3205594 TTGACCTATATCATTAATTTTAGGACTGG
714 TTGACCTATATCATTAATTTTAGGACTGG
* *
3205623 GCTACATTAAAATGTTTGAATAAAGATCAGCAATCTCAGCCGAAAGATGGTGATTATTTATATAA
1 GCTACAGTAAAATGTTTGAATAAAGATCAGCAATCTCAGCCGAAAGATGGTGAATATTTATATAA
* * **
3205688 TCATCATAACATAAATCAGGTTTGATTATTCATTTTCATCATAGATTGCAGCAACTGAC-GGAAA
66 TCATCATAACACAAATCAGGTTTGATGATTCATTTTCATCATAGATTGCAGCAACTGACAAAAAA
* * *
3205752 ACGAGGCAAAAAACAAG-TAAATCAATTAAAATTTGACCCCCAATTCCCA-AAAAGGTAAAGAAA
131 ACGAGGAAAAAAAC-AGTTAAATCAATTAAAATTTGACCCCAAATTCCCAGAAAA-GTAAACAAA
*
3205815 ATATGCAAAAGAGATCAGATGGTAGTGCATGTTTGTTTTCATCATTCAAATGCAGAAATGATGGA
194 ATATGCAAAAGAGATCAGATGGTAGTGCATGTTTGTATTCATCATTCAAATGCAGAAATGATGGA
* ** * *
3205880 TAAGTTTCATCACACCTCCTTGCATATCTTTTGAAGAATCAAATCTTATTAAGCAATAAAAAACT
259 TAAGTATCATCACACCTCCTTGCATATCTTAAGAA-AATCAAATCCTATGAAGC-ATAAAAAACT
* *
3205945 AG-AGC-TT-A-T-T-G-ATTT-T-TTTTGCAAA-TAAAAGAA-T-AAAATATAGTCA-ATAAAA
322 AGAACCATTAACTATAGAATTTCTGTTTGGCAAATTAAAA-AATTGAAAATA-A-TCATA-AAAA
* * *
3205997 GTGAATATTTTACAGTTTACACCCCTCATTGGAGTAATGGTAGATGGATCAGATAGTCGATCGCT
383 GAGAATATTTTACAGGTTACA-CCC-CATTGGAGTAATGGTAAATGGATCAGATAGTCGATCGCT
* *
3206062 AATGTCTCAGCATATTGCAACTCGGACTGGGTGTCAAATATCTATCTTCATATCCACATTCAATC
446 AATGTCTCAGCATATTGCAACTCAGACTAGGTGTCAAATATCTATCTTCATATCCACATTCAATC
*
3206127 AAATTTTAAAAAAAATAAGATTTTTAAACAAAATTTTGCAAACAAGTGAAGCTGCAGACGATAAT
511 AAATTTT-AAAAAAATAAGA-TTTTAAACAAAATTTTGCAAACAAGTGAAGCTGCAGACAATAAT
*
3206192 TACAAGTGGAAATCAGATAAAAATGTCAATCACCAATTTTGCATACGAAGACATTAATATATGCA
574 TACAAGTGGAAATCAGATAAAAAAGTCAATCACCAATTTTGCATACGAAGACATTAATATATGCA
*
3206257 AAGTAAGACTGGGGCGACAATAACTATCATCATTTTCCCTTTTT
639 AAGTAAGACTGGGGCGACAATAACTATCATCATGTTCCCTTTTT
3206301 TTTCTCAAAA
Statistics
Matches: 628, Mismatches: 38, Indels: 30
0.90 0.05 0.04
Matches are distributed among these distances:
732 6 0.01
733 8 0.01
734 36 0.06
735 4 0.01
736 112 0.18
737 12 0.02
738 147 0.23
739 1 0.00
741 1 0.00
742 5 0.01
743 151 0.24
744 134 0.21
745 11 0.02
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (742 bp):
GCTACAGTAAAATGTTTGAATAAAGATCAGCAATCTCAGCCGAAAGATGGTGAATATTTATATAA
TCATCATAACACAAATCAGGTTTGATGATTCATTTTCATCATAGATTGCAGCAACTGACAAAAAA
ACGAGGAAAAAAACAGTTAAATCAATTAAAATTTGACCCCAAATTCCCAGAAAAGTAAACAAAAT
ATGCAAAAGAGATCAGATGGTAGTGCATGTTTGTATTCATCATTCAAATGCAGAAATGATGGATA
AGTATCATCACACCTCCTTGCATATCTTAAGAAAATCAAATCCTATGAAGCATAAAAAACTAGAA
CCATTAACTATAGAATTTCTGTTTGGCAAATTAAAAAATTGAAAATAATCATAAAAAGAGAATAT
TTTACAGGTTACACCCCATTGGAGTAATGGTAAATGGATCAGATAGTCGATCGCTAATGTCTCAG
CATATTGCAACTCAGACTAGGTGTCAAATATCTATCTTCATATCCACATTCAATCAAATTTTAAA
AAAATAAGATTTTAAACAAAATTTTGCAAACAAGTGAAGCTGCAGACAATAATTACAAGTGGAAA
TCAGATAAAAAAGTCAATCACCAATTTTGCATACGAAGACATTAATATATGCAAAGTAAGACTGG
GGCGACAATAACTATCATCATGTTCCCTTTTTCCCTTGAAAAACATAGCTCAAACAAAAACATTT
GACCTATATCATTAATTTTAGGACTGG
Found at i:3206903 original size:30 final size:30
Alignment explanation
Indices: 3206832--3206896 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
3206822 TTTTACATTC
*
3206832 ATTTTAGTCACTCAACTTTAATAAATTTTT
1 ATTTTAGTCACTCAACTTTAATAAAATTTT
*
3206862 ATTTTAGTCACTCAATTTTAATAAAATTTT
1 ATTTTAGTCACTCAACTTTAATAAAATTTT
3206892 ATTTT
1 ATTTT
3206897 GATCACTTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.03, T:0.52
Consensus pattern (30 bp):
ATTTTAGTCACTCAACTTTAATAAAATTTT
Found at i:3207375 original size:42 final size:42
Alignment explanation
Indices: 3207314--3207400 Score: 149
Period size: 42 Copynumber: 2.1 Consensus size: 42
3207304 TCTTGATAAT
3207314 AAGGGAAAACTTGGATTTTCCGGTGAACTACTTGGGTTTTAA
1 AAGGGAAAACTTGGATTTTCCGGTGAACTACTTGGGTTTTAA
*
3207356 AAGGGAAAA-TTTGAGTTTTCCGGTGAACTACTTGGGTTTTAA
1 AAGGGAAAACTTGGA-TTTTCCGGTGAACTACTTGGGTTTTAA
3207398 AAG
1 AAG
3207401 TTTCATCACC
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
41 4 0.09
42 39 0.91
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.33
Consensus pattern (42 bp):
AAGGGAAAACTTGGATTTTCCGGTGAACTACTTGGGTTTTAA
Found at i:3207394 original size:21 final size:21
Alignment explanation
Indices: 3207322--3207395 Score: 62
Period size: 21 Copynumber: 3.5 Consensus size: 21
3207312 ATAAGGGAAA
*
3207322 ACTTGGATTTTCCGGTGAACT
1 ACTTGGGTTTTCCGGTGAACT
** *
3207343 ACTTGGGTTTTAAAAGG-GAA-A
1 ACTTGGGTTTT--CCGGTGAACT
* *
3207364 ATTTGAGTTTTCCGGTGAACT
1 ACTTGGGTTTTCCGGTGAACT
3207385 ACTTGGGTTTT
1 ACTTGGGTTTT
3207396 AAAAGTTTCA
Statistics
Matches: 38, Mismatches: 11, Indels: 8
0.67 0.19 0.14
Matches are distributed among these distances:
19 2 0.05
20 3 0.08
21 28 0.74
22 3 0.08
23 2 0.05
ACGTcount: A:0.23, C:0.12, G:0.26, T:0.39
Consensus pattern (21 bp):
ACTTGGGTTTTCCGGTGAACT
Found at i:3210148 original size:38 final size:38
Alignment explanation
Indices: 3210097--3210175 Score: 140
Period size: 38 Copynumber: 2.1 Consensus size: 38
3210087 TGTTATAAAC
3210097 ACATAGGCATGCATACAAAAGAACTGTAACAAAGCATG
1 ACATAGGCATGCATACAAAAGAACTGTAACAAAGCATG
* *
3210135 ACATAGGCATGCATGCAAAAGAACTGTAGCAAAGCATG
1 ACATAGGCATGCATACAAAAGAACTGTAACAAAGCATG
3210173 ACA
1 ACA
3210176 ATGCCCAGGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.46, C:0.19, G:0.20, T:0.15
Consensus pattern (38 bp):
ACATAGGCATGCATACAAAAGAACTGTAACAAAGCATG
Found at i:3216432 original size:23 final size:23
Alignment explanation
Indices: 3216405--3218422 Score: 1167
Period size: 23 Copynumber: 88.1 Consensus size: 23
3216395 TTGTACACCA
* * *
3216405 CAATTTGCAGCACTTAAACTCTT
1 CAATTTACAGCATTTAAACACTT
* * * *
3216428 CAATTTACATCATTTGAGCACCT
1 CAATTTACAGCATTTAAACACTT
* *
3216451 CAATTTACAACAATTAAACACTT
1 CAATTTACAGCATTTAAACACTT
*
3216474 CAATTTACAGCATTTAAACACCT
1 CAATTTACAGCATTTAAACACTT
* * *
3216497 CAACTTACAACACTTT-AACA-TCC
1 CAATTTACAGCA-TTTAAACACT-T
* * * *
3216520 CAATTAACAACATTTATACACCT
1 CAATTTACAGCATTTAAACACTT
*
3216543 CAA-TTACAACGA--TAAACA-TCT
1 CAATTTACAGC-ATTTAAACACT-T
* ** *
3216564 CAATTTTCAGCAACTAAACAATT
1 CAATTTACAGCATTTAAACACTT
* * *
3216587 CAATTTGCAGTACTTAAAACACTT
1 CAATTTACAGCA-TTTAAACACTT
*
3216611 CAATTTACAACATTTAAACACTT
1 CAATTTACAGCATTTAAACACTT
** *
3216634 CAATTTGTAGCACTTAAACACTT
1 CAATTTACAGCATTTAAACACTT
* * * *
3216657 CAATTTACATCATTTGAGCACCT
1 CAATTTACAGCATTTAAACACTT
* *
3216680 CAATTTACAGGAATTAAACACTT
1 CAATTTACAGCATTTAAACACTT
* *
3216703 CAATTTACAACATTTAAACACCT
1 CAATTTACAGCATTTAAACACTT
* * *
3216726 CAACTTACAACACTTT-AACA-TC
1 CAATTTACAGCA-TTTAAACACTT
* * * *
3216748 CTAATTAACACCATTTATACACCT
1 C-AATTTACAGCATTTAAACACTT
3216772 CAA-TTACAGCGA--TAAACA-TCT
1 CAATTTACAGC-ATTTAAACACT-T
* ** *
3216793 CAATTTCCAGCAACTAAACAATT
1 CAATTTACAGCATTTAAACACTT
* * *
3216816 CAATTTGCAGTACTTAAAACACTT
1 CAATTTACAGCA-TTTAAACACTT
* *
3216840 CAATTTATAACATTTAAACACTT
1 CAATTTACAGCATTTAAACACTT
* *
3216863 CAATTTGCAGCACTTAAACACTT
1 CAATTTACAGCATTTAAACACTT
* * * *
3216886 CAATTTACATCATTTGAGCACCT
1 CAATTTACAGCATTTAAACACTT
*
3216909 CAATTTACAGCAATTAAACACTT
1 CAATTTACAGCATTTAAACACTT
*
3216932 CAATTTACAGCATTTAAACACCT
1 CAATTTACAGCATTTAAACACTT
* * *
3216955 CAACTTACAACACTTT-AACA-TCC
1 CAATTTACAGCA-TTTAAACACT-T
* * * *
3216978 CAATTAACAACATTTATACACCT
1 CAATTTACAGCATTTAAACACTT
3217001 CAA-TTACAGCGA--TAAACA-TCT
1 CAATTTACAGC-ATTTAAACACT-T
* **
3217022 CAATTTTCAGCAACTAAACTA-TT
1 CAATTTACAGCATTTAAAC-ACTT
* * *
3217045 CAA-TTGCAGTACTTAAAACACTTTT
1 CAATTTACAGCA-TTTAAACAC--TT
*
3217070 CAATTTACAACATTTAAACACTT
1 CAATTTACAGCATTTAAACACTT
* **
3217093 CAATTTGCAGCACCTAAACAC-T
1 CAATTTACAGCATTTAAACACTT
* * * *
3217115 CTAATTTACATCATTTGAGCACCT
1 C-AATTTACAGCATTTAAACACTT
* *
3217139 CAATTTATAGCAATTAAACACTT
1 CAATTTACAGCATTTAAACACTT
**
3217162 CAATTTACAGCATTTAAACACCC
1 CAATTTACAGCATTTAAACACTT
* * *
3217185 CAACTTACAACACTTT-AACA-TC
1 CAATTTACAGCA-TTTAAACACTT
* * * *
3217207 CTAATTAACACCATTTATACACCT
1 C-AATTTACAGCATTTAAACACTT
3217231 CAA-TTACAGCGA--TAAACA-TCT
1 CAATTTACAGC-ATTTAAACACT-T
* ** *
3217252 CAATTTCCAGCAACTAAACAATT
1 CAATTTACAGCATTTAAACACTT
* * *
3217275 CAATTTGCAGTACTTAAAACACTT
1 CAATTTACAGCA-TTTAAACACTT
*
3217299 CAATTTACAACATTTAAACACTT
1 CAATTTACAGCATTTAAACACTT
*
3217322 CAATTTGCAGCACTTT-AACACTT
1 CAATTTACAGCA-TTTAAACACTT
* * * *
3217345 CAATTTACATCATTTGAGCACAT
1 CAATTTACAGCATTTAAACACTT
*
3217368 CAATTTACAGCAATTAAACACTT
1 CAATTTACAGCATTTAAACACTT
*
3217391 CAATTTACAGCATTTAAACACCT
1 CAATTTACAGCATTTAAACACTT
* * *
3217414 CAACTTACAACACTTT-AACA-TCC
1 CAATTTACAGCA-TTTAAACACT-T
* * * *
3217437 CAATTAACAACATTTATACACCT
1 CAATTTACAGCATTTAAACACTT
3217460 CAA-TTACAGCGA--TAAACATCTT
1 CAATTTACAGC-ATTTAAACA-CTT
* **
3217482 -AATTTCCAGCAACTAAACGA-TT
1 CAATTTACAGCATTTAAAC-ACTT
* * *
3217504 CAATTTGCAGTACTTAAAACACTT
1 CAATTTACAGCA-TTTAAACACTT
*
3217528 CAATTTACAACATTTAAACACTT
1 CAATTTACAGCATTTAAACACTT
*
3217551 CAATTTGCAGCACTTT-AACACTT
1 CAATTTACAGCA-TTTAAACACTT
* *
3217574 CAATTTACATCATTTAAACACCT
1 CAATTTACAGCATTTAAACACTT
* *
3217597 CAATTTACAACAATTAAACACTT
1 CAATTTACAGCATTTAAACACTT
*
3217620 CAATTTACAGCATTTAAACACCT
1 CAATTTACAGCATTTAAACACTT
* * *
3217643 CAACTTACAACACTTT-AACA-TCC
1 CAATTTACAGCA-TTTAAACACT-T
* * * *
3217666 CAATTAACAACATTTATACACCT
1 CAATTTACAGCATTTAAACACTT
3217689 CAA-TTACAGCGA--TAAACA-TCT
1 CAATTTACAGC-ATTTAAACACT-T
* **
3217710 CAATTTCCAGCAACTAAACGA-TT
1 CAATTTACAGCATTTAAAC-ACTT
* *
3217733 CAATTTACAGTACTTAAAACACTT
1 CAATTTACAGCA-TTTAAACACTT
*
3217757 CAATTTACAACATTTAAACACTT
1 CAATTTACAGCATTTAAACACTT
* ** *
3217780 CAATTTGCAGCACCTAAACACTC
1 CAATTTACAGCATTTAAACACTT
* * * *
3217803 CAATTTACATCATTTGAGCACCT
1 CAATTTACAGCATTTAAACACTT
* *
3217826 CAATTTATAGCAATTAAACACTT
1 CAATTTACAGCATTTAAACACTT
* *
3217849 CAATTTACAGCATTTAAACGCCT
1 CAATTTACAGCATTTAAACACTT
* * *
3217872 CAACTTACAACACTTT-AACA-TC
1 CAATTTACAGCA-TTTAAACACTT
* * * * *
3217894 CTAATTAACACCATTTATATACCT
1 C-AATTTACAGCATTTAAACACTT
3217918 CAA-TTACAGCGA--TAAACA-TCT
1 CAATTTACAGC-ATTTAAACACT-T
* ** *
3217939 CAATTTCCAGCAACTAAGCGA-TT
1 CAATTTACAGCATTTAAAC-ACTT
* * *
3217962 CAATTTGCAGTACTTAAAACACTT
1 CAATTTACAGCA-TTTAAACACTT
* *
3217986 CAATTTACAACATTTAAATACTT
1 CAATTTACAGCATTTAAACACTT
* **
3218009 CAATTTGCAGCACCTAAACACTT
1 CAATTTACAGCATTTAAACACTT
* * * *
3218032 CAATTTACATCATTTGAGCACCT
1 CAATTTACAGCATTTAAACACTT
* *
3218055 CAATTTATAGCAATTAAACACTT
1 CAATTTACAGCATTTAAACACTT
*
3218078 CAATTTACAGCATTTAAACACCT
1 CAATTTACAGCATTTAAACACTT
* * *
3218101 CAACTTACAACACTTT-AACA-TC
1 CAATTTACAGCA-TTTAAACACTT
* * * *
3218123 CTAATTAACACCATTTATACACCT
1 C-AATTTACAGCATTTAAACACTT
*
3218147 CAA-TTACAACGA--TAAACA-TCT
1 CAATTTACAGC-ATTTAAACACT-T
* * ** *
3218168 CAGTTTCCAGCAACTAAACAATT
1 CAATTTACAGCATTTAAACACTT
* * *
3218191 CAATTTGCAGTACTTAAAACACTT
1 CAATTTACAGCA-TTTAAACACTT
*
3218215 CAATTTACAACATTTAAACACTT
1 CAATTTACAGCATTTAAACACTT
*
3218238 CAATTTGCAGCACTTT-AACACTT
1 CAATTTACAGCA-TTTAAACACTT
* * * *
3218261 CAATTCACAACATTTAAATACCT
1 CAATTTACAGCATTTAAACACTT
*
3218284 CAATTTGCAGCACTTT-AACACTT
1 CAATTTACAGCA-TTTAAACACTT
*
3218307 CAATTTACAACATTTAAACACTT
1 CAATTTACAGCATTTAAACACTT
*
3218330 CAATTTGCAGCACTTT-AACA-TCT
1 CAATTTACAGCA-TTTAAACACT-T
* * * *
3218353 CTATTAACAACATTTATACACCTT
1 CAATTTACAGCATTTAAACA-CTT
* * *
3218377 -AA-TTACAACAATAAAACA-TCT
1 CAATTTACAGCATTTAAACACT-T
**
3218398 CAATTT-CAGCAACTAAACACTT
1 CAATTTACAGCATTTAAACACTT
3218420 CAA
1 CAA
3218423 ATTGCAGTAC
Statistics
Matches: 1511, Mismatches: 369, Indels: 231
0.72 0.17 0.11
Matches are distributed among these distances:
20 1 0.00
21 77 0.05
22 173 0.11
23 1076 0.71
24 165 0.11
25 14 0.01
26 5 0.00
ACGTcount: A:0.39, C:0.25, G:0.05, T:0.31
Consensus pattern (23 bp):
CAATTTACAGCATTTAAACACTT
Found at i:3216806 original size:229 final size:229
Alignment explanation
Indices: 3216405--3218437 Score: 3435
Period size: 229 Copynumber: 8.9 Consensus size: 229
3216395 TTGTACACCA
* *
3216405 CAATTTGCAGCACTTAAACTCTTCAATTTACATCATTTGAGCACCTCAATTTACAACAATTAAAC
1 CAATTTGCAGCACTTAAACACTTCAATTTACATCATTTGAGCACCTCAATTTACAGCAATTAAAC
*
3216470 ACTTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTAACATCCCAATTAACAACATTT
66 ACTTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTAACATCCTAATTAACAACATTT
* *
3216535 ATACACCTCAATTACAACGATAAACATCTCAATTTTCAGCAACTAAACAATTCAATTTGCAGTAC
131 ATACACCTCAATTACAGCGATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTGCAGTAC
3216600 TTAAAACACTTCAATTTACAACATTTAAACACTT
196 TTAAAACACTTCAATTTACAACATTTAAACACTT
* *
3216634 CAATTTGTAGCACTTAAACACTTCAATTTACATCATTTGAGCACCTCAATTTACAGGAATTAAAC
1 CAATTTGCAGCACTTAAACACTTCAATTTACATCATTTGAGCACCTCAATTTACAGCAATTAAAC
* *
3216699 ACTTCAATTTACAACATTTAAACACCTCAACTTACAACACTTTAACATCCTAATTAACACCATTT
66 ACTTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTAACATCCTAATTAACAACATTT
3216764 ATACACCTCAATTACAGCGATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTGCAGTAC
131 ATACACCTCAATTACAGCGATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTGCAGTAC
*
3216829 TTAAAACACTTCAATTTATAACATTTAAACACTT
196 TTAAAACACTTCAATTTACAACATTTAAACACTT
3216863 CAATTTGCAGCACTTAAACACTTCAATTTACATCATTTGAGCACCTCAATTTACAGCAATTAAAC
1 CAATTTGCAGCACTTAAACACTTCAATTTACATCATTTGAGCACCTCAATTTACAGCAATTAAAC
*
3216928 ACTTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTAACATCCCAATTAACAACATTT
66 ACTTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTAACATCCTAATTAACAACATTT
* *
3216993 ATACACCTCAATTACAGCGATAAACATCTCAATTTTCAGCAACTAAACTATTCAA-TTGCAGTAC
131 ATACACCTCAATTACAGCGATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTGCAGTAC
3217057 TTAAAACACTTTTCAATTTACAACATTTAAACACTT
196 TTAAAACAC--TTCAATTTACAACATTTAAACACTT
* *
3217093 CAATTTGCAGCACCTAAACAC-TCTAATTTACATCATTTGAGCACCTCAATTTATAGCAATTAAA
1 CAATTTGCAGCACTTAAACACTTC-AATTTACATCATTTGAGCACCTCAATTTACAGCAATTAAA
* *
3217157 CACTTCAATTTACAGCATTTAAACACCCCAACTTACAACACTTTAACATCCTAATTAACACCATT
65 CACTTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTAACATCCTAATTAACAACATT
3217222 TATACACCTCAATTACAGCGATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTGCAGTA
130 TATACACCTCAATTACAGCGATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTGCAGTA
3217287 CTTAAAACACTTCAATTTACAACATTTAAACACTT
195 CTTAAAACACTTCAATTTACAACATTTAAACACTT
* *
3217322 CAATTTGCAGCACTTTAACACTTCAATTTACATCATTTGAGCACATCAATTTACAGCAATTAAAC
1 CAATTTGCAGCACTTAAACACTTCAATTTACATCATTTGAGCACCTCAATTTACAGCAATTAAAC
*
3217387 ACTTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTAACATCCCAATTAACAACATTT
66 ACTTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTAACATCCTAATTAACAACATTT
* *
3217452 ATACACCTCAATTACAGCGATAAACATCTTAATTTCCAGCAACTAAACGATTCAATTTGCAGTAC
131 ATACACCTCAATTACAGCGATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTGCAGTAC
3217517 TTAAAACACTTCAATTTACAACATTTAAACACTT
196 TTAAAACACTTCAATTTACAACATTTAAACACTT
* * * *
3217551 CAATTTGCAGCACTTTAACACTTCAATTTACATCATTTAAACACCTCAATTTACAACAATTAAAC
1 CAATTTGCAGCACTTAAACACTTCAATTTACATCATTTGAGCACCTCAATTTACAGCAATTAAAC
*
3217616 ACTTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTAACATCCCAATTAACAACATTT
66 ACTTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTAACATCCTAATTAACAACATTT
* *
3217681 ATACACCTCAATTACAGCGATAAACATCTCAATTTCCAGCAACTAAACGATTCAATTTACAGTAC
131 ATACACCTCAATTACAGCGATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTGCAGTAC
3217746 TTAAAACACTTCAATTTACAACATTTAAACACTT
196 TTAAAACACTTCAATTTACAACATTTAAACACTT
* * *
3217780 CAATTTGCAGCACCTAAACACTCCAATTTACATCATTTGAGCACCTCAATTTATAGCAATTAAAC
1 CAATTTGCAGCACTTAAACACTTCAATTTACATCATTTGAGCACCTCAATTTACAGCAATTAAAC
* *
3217845 ACTTCAATTTACAGCATTTAAACGCCTCAACTTACAACACTTTAACATCCTAATTAACACCATTT
66 ACTTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTAACATCCTAATTAACAACATTT
* * *
3217910 ATATACCTCAATTACAGCGATAAACATCTCAATTTCCAGCAACTAAGCGATTCAATTTGCAGTAC
131 ATACACCTCAATTACAGCGATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTGCAGTAC
*
3217975 TTAAAACACTTCAATTTACAACATTTAAATACTT
196 TTAAAACACTTCAATTTACAACATTTAAACACTT
* *
3218009 CAATTTGCAGCACCTAAACACTTCAATTTACATCATTTGAGCACCTCAATTTATAGCAATTAAAC
1 CAATTTGCAGCACTTAAACACTTCAATTTACATCATTTGAGCACCTCAATTTACAGCAATTAAAC
*
3218074 ACTTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTAACATCCTAATTAACACCATTT
66 ACTTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTAACATCCTAATTAACAACATTT
* *
3218139 ATACACCTCAATTACAACGATAAACATCTCAGTTTCCAGCAACTAAACAATTCAATTTGCAGTAC
131 ATACACCTCAATTACAGCGATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTGCAGTAC
3218204 TTAAAACACTTCAATTTACAACATTTAAACACTT
196 TTAAAACACTTCAATTTACAACATTTAAACACTT
* * * * ** * * *
3218238 CAATTTGCAGCACTTTAACACTTCAATTCACAACATTTAAATACCTCAATTTGCAGCACTTTAAC
1 CAATTTGCAGCACTTAAACACTTCAATTTACATCATTTGAGCACCTCAATTTACAGCAATTAAAC
* * * * *
3218303 ACTTCAATTTACAACATTTAAACACTTCAATTTGCAGCACTTTAACATCTCT-ATTAACAACATT
66 ACTTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTAACATC-CTAATTAACAACATT
* * * * *
3218367 TATACACCTTAATTACAACAATAAAACATCTCAATTT-CAGCAACTAAACACTTCAAATTGCAGT
130 TATACACCTCAATTACAGCGAT-AAACATCTCAATTTCCAGCAACTAAACAATTCAATTTGCAGT
3218431 ACTTAAA
194 ACTTAAA
3218438 CAGGGCTTTA
Statistics
Matches: 1713, Mismatches: 84, Indels: 14
0.95 0.05 0.01
Matches are distributed among these distances:
228 18 0.01
229 1461 0.85
230 216 0.13
231 18 0.01
ACGTcount: A:0.39, C:0.25, G:0.05, T:0.31
Consensus pattern (229 bp):
CAATTTGCAGCACTTAAACACTTCAATTTACATCATTTGAGCACCTCAATTTACAGCAATTAAAC
ACTTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTAACATCCTAATTAACAACATTT
ATACACCTCAATTACAGCGATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTGCAGTAC
TTAAAACACTTCAATTTACAACATTTAAACACTT
Found at i:3220546 original size:2 final size:2
Alignment explanation
Indices: 3220539--3220563 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3220529 GTTTGAATTA
3220539 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 A
3220564 AGCTTTTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3238592 original size:23 final size:23
Alignment explanation
Indices: 3238542--3238604 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 23
3238532 ATTGACAAGT
*
3238542 ATTTTATAAATATATA--ATAAG
1 ATTTTAAAAATATATATGATAAG
*
3238563 ATATTAAAAATATATATGATGAA-
1 ATTTTAAAAATATATATGAT-AAG
* *
3238586 ATTTTAAAATTATTTATGA
1 ATTTTAAAAATATATATGA
3238605 AATAAAGAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
21 14 0.41
23 18 0.53
24 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (23 bp):
ATTTTAAAAATATATATGATAAG
Found at i:3241781 original size:23 final size:23
Alignment explanation
Indices: 3241755--3241848 Score: 125
Period size: 23 Copynumber: 4.1 Consensus size: 23
3241745 AAGTTAGAAG
3241755 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
3241778 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
* *
3241801 AGTGAAGAGATTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
3241824 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
3241847 AG
1 AG
3241849 ATACACACAT
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 59 1.00
ACGTcount: A:0.48, C:0.03, G:0.26, T:0.23
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:3246282 original size:23 final size:23
Alignment explanation
Indices: 3246256--3246349 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
3246246 AAGTTAGAAG
3246256 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
3246279 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
3246302 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
3246325 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
3246348 AG
1 AG
3246350 ATACACACAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.48, C:0.04, G:0.26, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:3255265 original size:38 final size:38
Alignment explanation
Indices: 3255222--3255297 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 38
3255212 TTTAAGTATG
*
3255222 TCAAGAAA-ACTGGTGAGCATATAGGTATTTAAGGCAAT
1 TCAAGAAACA-TGATGAGCATATAGGTATTTAAGGCAAT
* *
3255260 TCAAGAAACATTATGAGCATATAGGTATTTGAGGCAAT
1 TCAAGAAACATGATGAGCATATAGGTATTTAAGGCAAT
3255298 CCAGATGTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 33 0.97
39 1 0.03
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.28
Consensus pattern (38 bp):
TCAAGAAACATGATGAGCATATAGGTATTTAAGGCAAT
Found at i:3269128 original size:17 final size:18
Alignment explanation
Indices: 3269102--3269136 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
3269092 CATGTTTTTA
*
3269102 TTTAATAATTTGATTAAT
1 TTTAATAATTAGATTAAT
3269120 TTTAA-AATTAGATTAAT
1 TTTAATAATTAGATTAAT
3269137 ATACTATTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (18 bp):
TTTAATAATTAGATTAAT
Found at i:3269946 original size:6 final size:6
Alignment explanation
Indices: 3269935--3269964 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
3269925 ACTGAATGTA
3269935 TATATT TATATT TATATT TATATT TATATT
1 TATATT TATATT TATATT TATATT TATATT
3269965 CGATATTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TATATT
Found at i:3280077 original size:2 final size:2
Alignment explanation
Indices: 3280070--3280096 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3280060 ACTCCTATTA
3280070 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
3280097 ACTAGTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3280340 original size:23 final size:23
Alignment explanation
Indices: 3280303--3280347 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
3280293 TAAAAAATAT
3280303 TATTGTTTTATTAATATTTTTAA
1 TATTGTTTTATTAATATTTTTAA
*
3280326 TATT-TTTTATATAATTTTTTTA
1 TATTGTTTTAT-TAATATTTTTA
3280348 GGTGATGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (23 bp):
TATTGTTTTATTAATATTTTTAA
Found at i:3282731 original size:13 final size:14
Alignment explanation
Indices: 3282715--3282747 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
3282705 TTTTTTTCTT
3282715 AATAATT-AATATC
1 AATAATTAAATATC
*
3282728 AATAATTAAATATG
1 AATAATTAAATATC
3282742 AATAAT
1 AATAAT
3282748 CACTTATACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (14 bp):
AATAATTAAATATC
Found at i:3283632 original size:17 final size:19
Alignment explanation
Indices: 3283598--3283635 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
3283588 ACGCCACCAA
3283598 AATATTTTTTTTGATAAAAT
1 AATATTTTTTTT-ATAAAAT
3283618 AATATTTTTTTTA-AAAAT
1 AATATTTTTTTTATAAAAT
3283636 TGATGTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 1 0.06
20 12 0.67
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (19 bp):
AATATTTTTTTTATAAAAT
Found at i:3288248 original size:31 final size:33
Alignment explanation
Indices: 3288189--3288251 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 33
3288179 CTCCTTATTT
3288189 GGAGCAATCCTTCCATATTTATAAGGCACGGTAG
1 GGAGCAATCCTTCCATA-TTATAAGGCACGGTAG
3288223 GGAGCAATCCTTCCATA-T-TAAGGCACGGT
1 GGAGCAATCCTTCCATATTATAAGGCACGGT
3288252 TTTTGATGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
31 11 0.38
32 1 0.03
34 17 0.59
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (33 bp):
GGAGCAATCCTTCCATATTATAAGGCACGGTAG
Found at i:3288636 original size:15 final size:17
Alignment explanation
Indices: 3288615--3288657 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
3288605 AAATCTGGAA
3288615 TGCTAGCTCGCCA-CAC
1 TGCTAGCTCGCCACCAC
* *
3288631 -GCTAGCTCACCACCTC
1 TGCTAGCTCGCCACCAC
3288647 TGCTAGCTCGC
1 TGCTAGCTCGC
3288658 GGGATCTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 11 0.50
16 2 0.09
17 9 0.41
ACGTcount: A:0.16, C:0.44, G:0.19, T:0.21
Consensus pattern (17 bp):
TGCTAGCTCGCCACCAC
Found at i:3289611 original size:21 final size:22
Alignment explanation
Indices: 3289565--3289611 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
3289555 TTTCTTAATA
3289565 AATTTAAATAATATTGTACACT
1 AATTTAAATAATATTGTACACT
* * *
3289587 -ATTTTAATAATTTTGTATA-T
1 AATTTAAATAATATTGTACACT
3289607 AATTT
1 AATTT
3289612 GACAACATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (22 bp):
AATTTAAATAATATTGTACACT
Found at i:3298857 original size:276 final size:276
Alignment explanation
Indices: 3298364--3298919 Score: 1004
Period size: 276 Copynumber: 2.0 Consensus size: 276
3298354 AGAAGACTTT
* *
3298364 AGTGAGAGCAGAGTTGTTGAAAAGGTCATCACCACTCTCCCTGAGAAGTTTGAGTCAAAGATTTC
1 AGTGAGAACAGAGTTGTTGAAAAGGTCATCACCACTCTCCCGGAGAAGTTTGAGTCAAAGATTTC
* * *
3298429 ATCACTTGAGGACTCGAAAGACTTGTCAGCTATCTCATTGTCTGAGCTGATAAACTCTCTGTATG
66 ATCACTTGAGGACTCGAAAAAATTGTCAGCTATCTCATTGTCTGAGCTAATAAACTCTCTGTATG
3298494 CACTTGAGCAAAGGAGGGTCAATAGGCAGGAAGAGTATCCTGAAGGAGCTTTCTAGGCAAAGGTC
131 CACTTGAGCAAAGGAGGGTCAATAGGCAGGAAGAGTATCCTGAAGGAGCTTTCTAGGCAAAGGTC
*
3298559 AAAGTAGGCTTAGGTTCAAATCTGAAAAGGAAGAAGCCTTGGCTCCATAAAAGGGAAAACAAGGA
196 AAAGTAGGCTCAGGTTCAAATCTGAAAAGGAAGAAGCCTTGGCTCCATAAAAGGGAAAACAAGGA
*
3298624 GAGATACAGGTAAGAA
261 GAGATACAGGCAAGAA
*
3298640 AGTGAGAACAGAGTTGTTGAAAAGGTTATCACCACTCTCCCGGAGAAGTTTGAGTCAAAGATTTC
1 AGTGAGAACAGAGTTGTTGAAAAGGTCATCACCACTCTCCCGGAGAAGTTTGAGTCAAAGATTTC
*
3298705 ATCACTTGAGGACTCGAAAAAATTGTCAGCTATCTCATTGTCTGAGCTAATAAATTCTCTGTATG
66 ATCACTTGAGGACTCGAAAAAATTGTCAGCTATCTCATTGTCTGAGCTAATAAACTCTCTGTATG
3298770 CACTTGAGCAAAGGAGGGTCAATAGGCAGGAAGAGTATCCTGAAGGAGCTTTCTAGGCAAAGGTC
131 CACTTGAGCAAAGGAGGGTCAATAGGCAGGAAGAGTATCCTGAAGGAGCTTTCTAGGCAAAGGTC
* *
3298835 AAAGTAGGCTCAGGTTCAAATCTGAAAGGGAAGAAGCCTTGGCTCGATAAAAGGGAAAACAAGGA
196 AAAGTAGGCTCAGGTTCAAATCTGAAAAGGAAGAAGCCTTGGCTCCATAAAAGGGAAAACAAGGA
*
3298900 GAGATGCAGGCAAGAA
261 GAGATACAGGCAAGAA
3298916 AGTG
1 AGTG
3298920 TTCCCATCAT
Statistics
Matches: 268, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
276 268 1.00
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (276 bp):
AGTGAGAACAGAGTTGTTGAAAAGGTCATCACCACTCTCCCGGAGAAGTTTGAGTCAAAGATTTC
ATCACTTGAGGACTCGAAAAAATTGTCAGCTATCTCATTGTCTGAGCTAATAAACTCTCTGTATG
CACTTGAGCAAAGGAGGGTCAATAGGCAGGAAGAGTATCCTGAAGGAGCTTTCTAGGCAAAGGTC
AAAGTAGGCTCAGGTTCAAATCTGAAAAGGAAGAAGCCTTGGCTCCATAAAAGGGAAAACAAGGA
GAGATACAGGCAAGAA
Found at i:3309143 original size:34 final size:35
Alignment explanation
Indices: 3309105--3309171 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
3309095 CAGTAAAATA
*
3309105 TTTTCCGTAAAATAATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATAATTTACTGGAAAATATTTTAC
* *
3309139 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATAATTTACTGGAAAATATTTT
3309172 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACTGGAAAATATTTTAC
Found at i:3309145 original size:20 final size:20
Alignment explanation
Indices: 3309120--3309159 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
3309110 CGTAAAATAA
*
3309120 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
3309140 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
3309160 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:3315205 original size:20 final size:20
Alignment explanation
Indices: 3315160--3315208 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
3315150 AATGACAGCA
* *
3315160 AAAAAAACAACAATAATGAT
1 AAAAAAATAACAATAATAAT
3315180 AGAAAAAATAAC-ATAATAAGT
1 A-AAAAAATAACAATAATAA-T
3315201 AAAAAAAT
1 AAAAAAAT
3315209 GACGAGGACT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.71, C:0.06, G:0.06, T:0.16
Consensus pattern (20 bp):
AAAAAAATAACAATAATAAT
Found at i:3315206 original size:21 final size:21
Alignment explanation
Indices: 3315159--3315207 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
3315149 TAATGACAGC
*
3315159 AAAAAAAACAACAATAATGAT
1 AAAAAAAACAACAATAATAAT
* *
3315180 AGAAAAAATAAC-ATAATAAGT
1 AAAAAAAACAACAATAATAA-T
3315201 AAAAAAA
1 AAAAAAA
3315208 TGACGAGGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.73, C:0.06, G:0.06, T:0.14
Consensus pattern (21 bp):
AAAAAAAACAACAATAATAAT
Found at i:3317035 original size:13 final size:13
Alignment explanation
Indices: 3317019--3317043 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3317009 AAAAATATTT
3317019 TAAAAATAAAAAA
1 TAAAAATAAAAAA
3317032 TAAAAATAAAAA
1 TAAAAATAAAAA
3317044 TATTTTTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:3318113 original size:15 final size:17
Alignment explanation
Indices: 3318093--3318129 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
3318083 ATAAATTCAA
3318093 TAATTTA-ATTTAAAT-
1 TAATTTACATTTAAATG
*
3318108 TAATTTACTTTTAAATG
1 TAATTTACATTTAAATG
3318125 TAATT
1 TAATT
3318130 ATAAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 7 0.37
16 7 0.37
17 5 0.26
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (17 bp):
TAATTTACATTTAAATG
Found at i:3334591 original size:13 final size:13
Alignment explanation
Indices: 3334572--3334635 Score: 74
Period size: 13 Copynumber: 4.9 Consensus size: 13
3334562 TAAATCAAAA
*
3334572 TTTTCAAAAGTAC
1 TTTTCAAAAGCAC
*
3334585 TTCTCAAAAGCAC
1 TTTTCAAAAGCAC
* * * *
3334598 TTTTCCATAGTAA
1 TTTTCAAAAGCAC
3334611 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
3334624 TTTTCAAAAGCA
1 TTTTCAAAAGCA
3334636 ATGAAGAAGC
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.34
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:3341515 original size:33 final size:33
Alignment explanation
Indices: 3341452--3341515 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
3341442 TTTTATTAAA
* *
3341452 ATAATATTTTAATTACCTATTATTTTATTTTAGG
1 ATAATATTTTAATTA-CTAGTAGTTTATTTTAGG
3341486 ATAATACTTTTAATT-CTAGTAGTTTATTTT
1 ATAATA-TTTTAATTACTAGTAGTTTATTTT
3341516 TTATTTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
33 13 0.48
34 6 0.22
35 8 0.30
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.56
Consensus pattern (33 bp):
ATAATATTTTAATTACTAGTAGTTTATTTTAGG
Found at i:3368213 original size:18 final size:18
Alignment explanation
Indices: 3368192--3368234 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
3368182 GTGGTGGTGG
3368192 TGGTGATGGTCATGGCCA
1 TGGTGATGGTCATGGCCA
* *
3368210 TGGTCATGGTGATGGCCA
1 TGGTGATGGTCATGGCCA
3368228 TGGTGAT
1 TGGTGAT
3368235 CATTGGAAGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.16, C:0.14, G:0.40, T:0.30
Consensus pattern (18 bp):
TGGTGATGGTCATGGCCA
Found at i:3368224 original size:12 final size:12
Alignment explanation
Indices: 3368192--3368234 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
3368182 GTGGTGGTGG
3368192 TGGTGATGGTCA
1 TGGTGATGGTCA
**
3368204 TGGCCATGGTCA
1 TGGTGATGGTCA
*
3368216 TGGTGATGGCCA
1 TGGTGATGGTCA
3368228 TGGTGAT
1 TGGTGAT
3368235 CATTGGAAGC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.16, C:0.14, G:0.40, T:0.30
Consensus pattern (12 bp):
TGGTGATGGTCA
Found at i:3368559 original size:46 final size:46
Alignment explanation
Indices: 3368498--3368590 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
3368488 TGACCAGCTT
3368498 TTTTTCTTGTATGTGATGACTTGACATATATACTTAGATATTTTTG
1 TTTTTCTTGTATGTGATGACTTGACATATATACTTAGATATTTTTG
3368544 TTTTTCTTGTATGTGATGACTTGACATATATACTTAGATATTTTTG
1 TTTTTCTTGTATGTGATGACTTGACATATATACTTAGATATTTTTG
3368590 T
1 T
3368591 ACGGTTGGAC
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:0.24, C:0.09, G:0.15, T:0.53
Consensus pattern (46 bp):
TTTTTCTTGTATGTGATGACTTGACATATATACTTAGATATTTTTG
Found at i:3372818 original size:16 final size:17
Alignment explanation
Indices: 3372788--3372820 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3372778 TTTAATTTTT
3372788 TATAAAAAATATTAATA
1 TATAAAAAATATTAATA
3372805 TATAAAAAAT-TTAATA
1 TATAAAAAATATTAATA
3372821 CAGTCAGACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TATAAAAAATATTAATA
Found at i:3376719 original size:17 final size:18
Alignment explanation
Indices: 3376693--3376726 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
3376683 AATTTTTATG
3376693 AATAATTAATTAAATAAA
1 AATAATTAATTAAATAAA
*
3376711 AATAA-TAATTAGATAA
1 AATAATTAATTAAATAA
3376727 TTTATTCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (18 bp):
AATAATTAATTAAATAAA
Found at i:3383859 original size:16 final size:17
Alignment explanation
Indices: 3383838--3383873 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 17
3383828 CTTCGCGTGG
3383838 GGACATTTGA-ATCTAT
1 GGACATTTGATATCTAT
3383854 GGACATTTGATTATCTAT
1 GGACATTTGA-TATCTAT
3383872 GG
1 GG
3383874 GTTGCTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
18 8 0.44
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (17 bp):
GGACATTTGATATCTAT
Found at i:3386188 original size:25 final size:25
Alignment explanation
Indices: 3386157--3386206 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
3386147 TAGAAAGCAA
3386157 ATAAATATTTAAAAACCCAGACAAT
1 ATAAATATTTAAAAACCCAGACAAT
3386182 ATAAATATTTAAAAACCCAGACAAT
1 ATAAATATTTAAAAACCCAGACAAT
3386207 CTTTTACTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.56, C:0.16, G:0.04, T:0.24
Consensus pattern (25 bp):
ATAAATATTTAAAAACCCAGACAAT
Found at i:3386225 original size:18 final size:18
Alignment explanation
Indices: 3386202--3386239 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
3386192 AAAAACCCAG
*
3386202 ACAATCTTTTACTTATCT
1 ACAATCTTTTACTTACCT
3386220 ACAATCTTTTACTTACCT
1 ACAATCTTTTACTTACCT
3386238 AC
1 AC
3386240 GAGAATGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.45
Consensus pattern (18 bp):
ACAATCTTTTACTTACCT
Found at i:3392971 original size:17 final size:16
Alignment explanation
Indices: 3392949--3392980 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
3392939 ATTTAATTAA
3392949 ATAAATTAATAAAATAT
1 ATAAATTAA-AAAATAT
3392966 ATAAATTAAAAAATA
1 ATAAATTAAAAAATA
3392981 AATTCTTACC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
ATAAATTAAAAAATAT
Found at i:3398948 original size:15 final size:17
Alignment explanation
Indices: 3398927--3398967 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
3398917 TACTTTTTCA
3398927 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATAAT
*
3398943 -AAATTATTAAAATAAT
1 AAAATTATAAAAATAAT
3398959 AAAATTATA
1 AAAATTATA
3398968 TTTTTACTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTATAAAAATAAT
Found at i:3398989 original size:22 final size:22
Alignment explanation
Indices: 3398927--3398989 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
3398917 TACTTTTTCA
3398927 AAAATTATAAAAATATAAATTATT
1 AAAATTATAAAAATAT--ATTATT
* * *
3398951 AAAATAATAAAATTATATTTTT
1 AAAATTATAAAAATATATTATT
**
3398973 ACTATTATAAAAATATA
1 AAAATTATAAAAATATA
3398990 AAATTTAATT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
22 18 0.56
24 14 0.44
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAATTATAAAAATATATTATT
Found at i:3400085 original size:49 final size:49
Alignment explanation
Indices: 3400031--3400131 Score: 193
Period size: 49 Copynumber: 2.1 Consensus size: 49
3400021 CATGTCATTG
3400031 TCCTTCTCACTGGTTTCTTGACTAAATATCTTGTTTCATGTGTAAACTT
1 TCCTTCTCACTGGTTTCTTGACTAAATATCTTGTTTCATGTGTAAACTT
*
3400080 TCCTTCTTACTGGTTTCTTGACTAAATATCTTGTTTCATGTGTAAACTT
1 TCCTTCTCACTGGTTTCTTGACTAAATATCTTGTTTCATGTGTAAACTT
3400129 TCC
1 TCC
3400132 ATCTACGGCG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.20, C:0.21, G:0.12, T:0.48
Consensus pattern (49 bp):
TCCTTCTCACTGGTTTCTTGACTAAATATCTTGTTTCATGTGTAAACTT
Found at i:3409642 original size:20 final size:20
Alignment explanation
Indices: 3409617--3409654 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3409607 TTTTGAAGAT
3409617 AAAATA-TACTTATTAAAATC
1 AAAATATTA-TTATTAAAATC
3409637 AAAATATTATTATTAAAA
1 AAAATATTATTATTAAAA
3409655 GTAAATTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAATATTATTATTAAAATC
Found at i:3410964 original size:29 final size:29
Alignment explanation
Indices: 3410930--3410987 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
3410920 TGTTTAAAAT
3410930 TGTTTCAGATGTGAATATGAATATTTGAA
1 TGTTTCAGATGTGAATATGAATATTTGAA
3410959 TGTTTCAGATGTGAATATGAATATTTGAA
1 TGTTTCAGATGTGAATATGAATATTTGAA
3410988 CATTGATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.03, G:0.21, T:0.41
Consensus pattern (29 bp):
TGTTTCAGATGTGAATATGAATATTTGAA
Found at i:3414021 original size:98 final size:98
Alignment explanation
Indices: 3413850--3414046 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
3413840 GTGCAATAAA
* *
3413850 ACTTTAAAAGAACATCCACTTATCCAAGCTTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
3413915 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
3413948 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
3414013 CCTTTAAAATCCCAAACTTGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
3414046 A
1 A
3414047 TTATTTTTAA
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:3414595 original size:21 final size:21
Alignment explanation
Indices: 3414571--3414626 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
3414561 GAGAATAAAG
*
3414571 AAAAATATATATAGAAATTAT
1 AAAAATATATATAGAAAGTAT
***
3414592 AAAAATATGGGTAGAAAGTAT
1 AAAAATATATATAGAAAGTAT
*
3414613 AATATATATATATA
1 AA-AAATATATATA
3414627 CGTACATATA
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.32
Consensus pattern (21 bp):
AAAAATATATATAGAAAGTAT
Found at i:3414671 original size:56 final size:55
Alignment explanation
Indices: 3414606--3414780 Score: 125
Period size: 50 Copynumber: 3.2 Consensus size: 55
3414596 ATATGGGTAG
3414606 AAAGTATAATATATATATATACGTACATATATATGTAAGTTAATAAATATAGACCAT
1 AAAG-ATAATATATATATATACGTACATATATAT-TAAGTTAATAAATATAGACCAT
** * * * *
3414663 AAAGATAATGAT-TGCATATATGTGTATATATATA-TAAATT-ATAAA-ATATGTA-TAG
1 AAAGATAAT-ATAT--ATATATACGTACATATATATTAAGTTAATAAATATA-G-ACCAT
* *
3414718 AAAG-T-ATA-ATATATATACGTACATATATA-TAAGGTAACAAATATAGACATCAT
1 AAAGATAATATATATATATACGTACATATATATTAAGTTAATAAATATAGAC--CAT
*
3414771 AAACATAATA
1 AAAGATAATA
3414781 ATTACACATA
Statistics
Matches: 90, Mismatches: 15, Indels: 28
0.68 0.11 0.21
Matches are distributed among these distances:
50 21 0.23
51 5 0.06
52 5 0.06
53 6 0.07
54 5 0.06
55 14 0.16
56 12 0.13
57 6 0.07
58 16 0.18
ACGTcount: A:0.50, C:0.06, G:0.10, T:0.34
Consensus pattern (55 bp):
AAAGATAATATATATATATACGTACATATATATTAAGTTAATAAATATAGACCAT
Found at i:3414716 original size:20 final size:20
Alignment explanation
Indices: 3414688--3414734 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
3414678 ATATATGTGT
* *
3414688 ATATATATATAAATTATAAA
1 ATATATATAGAAAGTATAAA
* *
3414708 ATATGTATAGAAAGTATAAT
1 ATATATATAGAAAGTATAAA
3414728 ATATATA
1 ATATATA
3414735 CGTACATATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.38
Consensus pattern (20 bp):
ATATATATAGAAAGTATAAA
Found at i:3414726 original size:112 final size:108
Alignment explanation
Indices: 3414575--3414779 Score: 279
Period size: 108 Copynumber: 1.9 Consensus size: 108
3414565 ATAAAGAAAA
*
3414575 ATATATATAGAAATTATAAAAATATGGGTAGAAAGTATAATATATATATATACGTACATATATAT
1 ATATATATAGAAATTATAAAAATATGGATAGAAAG--T-ATA-ATATATATACGTACATATATA-
* * *
3414640 GTAAGTTAATAAATATAGAC-CATAAAGATAATGATTGCATATATGTGT
61 -TAAGGTAACAAATATAGACACATAAACATAATGATTGCATATATGTGT
* *
3414688 ATATATATATAAATTAT-AAAATATGTATAGAAAGTATAATATATATACGTACATATATATAAGG
1 ATATATATAGAAATTATAAAAATATGGATAGAAAGTATAATATATATACGTACATATATATAAGG
3414752 TAACAAATATAGACATCATAAACATAAT
66 TAACAAATATAGACA-CATAAACATAAT
3414780 AATTACACAT
Statistics
Matches: 84, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
106 17 0.20
108 32 0.38
109 3 0.04
110 1 0.01
112 15 0.18
113 16 0.19
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.34
Consensus pattern (108 bp):
ATATATATAGAAATTATAAAAATATGGATAGAAAGTATAATATATATACGTACATATATATAAGG
TAACAAATATAGACACATAAACATAATGATTGCATATATGTGT
Found at i:3416152 original size:44 final size:44
Alignment explanation
Indices: 3416050--3416384 Score: 284
Period size: 44 Copynumber: 7.7 Consensus size: 44
3416040 CTTCAATCTA
* *
3416050 CTCCTCTGCAACTTCAGGGAGATAAGATTTGC-TATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTAT-TT-AGTCTG
3416095 C-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTATTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTTATTTAGTCTG
* **
3416139 CTCCACTGCAACTTCAGGGAGATAAGAC-TG--GA-TGCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTATTTAG-TCTG
* * * * * *
3416180 CT-CTCTACAACTTCAGAGAGATAAGA--T-CTAAGATTCTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCT--TATT-TAGTCTG
* * * *
3416223 CTCCACTGCAACTTCAGGGAGATAGGA-TTATCGGT-TTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GC-TTATTTAGTCTG
* **
3416267 CTACACTGCAACTTCAGGGAGATAAGACTTGCCGATTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTATTT-AGTCTG
* *
3416312 CCCCACTGCAACTTCA-GGAGGATAAGACTTGCTTACTTAGTCTG
1 CTCCACTGCAACTTCAGGGA-GATAAGACTTGCTTATTTAGTCTG
3416356 CTCCACTGCAACTTCAGGGAGATAAGACT
1 CTCCACTGCAACTTCAGGGAGATAAGACT
3416385 AGATGCGATC
Statistics
Matches: 237, Mismatches: 31, Indels: 45
0.76 0.10 0.14
Matches are distributed among these distances:
39 1 0.00
40 23 0.10
41 7 0.03
42 2 0.01
43 8 0.03
44 120 0.51
45 72 0.30
46 3 0.01
47 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTATTTAGTCTG
Found at i:3416161 original size:89 final size:86
Alignment explanation
Indices: 3416050--3416384 Score: 308
Period size: 89 Copynumber: 3.8 Consensus size: 86
3416040 CTTCAATCTA
*
3416050 CTCCTCTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAGTCTGCCT-CACTGCAACTTCA-GG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGCT-T-TT-AGTCTG-CTACACTGCAACTTCAGGG
*
3416113 AGGATAAGACTTGCTTATTTAGTCTG
62 A-GATAAGACTTGCTGATTTAGTCTG
* * * *** * * *
3416139 CTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGA-TCTGCT-CTCTACAACTTCAGAGAGAT
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGCTTTTAGTCTGCTACACTGCAACTTCAGGGAGAT
* *
3416202 AAGA--T-CTAAGATTCTAATCCG
66 AAGACTTGCT--GATT-TAGTCTG
* * *
3416223 CTCCACTGCAACTTCAGGGAGATAGGATTATCGGTTTTAATCTGCTACACTGCAACTTCAGGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGATT-T-GCTTTTAGTCTGCTACACTGCAACTTCAGGGAG
*
3416288 ATAAGACTTGCCGATTTCAGTCTG
64 ATAAGACTTGCTGATTT-AGTCTG
* * *
3416312 CCCCACTGCAACTTCA-GGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGA
1 CTCCACTGCAACTTCAGGGA-GATAAGATTTGCTT--TTAGTCTGCTACACTGCAACTTCAGGGA
3416376 GATAAGACT
63 GATAAGACT
3416385 AGATGCGATC
Statistics
Matches: 199, Mismatches: 32, Indels: 30
0.76 0.12 0.11
Matches are distributed among these distances:
81 2 0.01
82 1 0.01
83 3 0.02
84 52 0.26
85 6 0.03
86 4 0.02
87 9 0.05
88 26 0.13
89 94 0.47
90 1 0.01
91 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (86 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTTGCTTTTAGTCTGCTACACTGCAACTTCAGGGAGAT
AAGACTTGCTGATTTAGTCTG
Found at i:3416439 original size:217 final size:216
Alignment explanation
Indices: 3416055--3416502 Score: 727
Period size: 217 Copynumber: 2.1 Consensus size: 216
3416045 ATCTACTCCT
* * *
3416055 CTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAA
1 CTGCAACTTCAGGGAGATAAGACTTGCGATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAA
* *
3416120 GACTTGCTTATTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTC
66 GACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTC
* *
3416185 TACAACTTCAGAGAGATAAGATCTAAGATTCTAATCCGCTCCACTGCAACTTCAGGGAGATAGGA
131 TACAAATTCAGAGAGATAAGATCTAAGATTCTAATCCGC-CCACTACAACTTCAGGGAGATAGGA
* * *
3416250 TTATCGGTTTTAATCTGCTACA
195 TTACCGGCTTTAACCTGCTACA
3416272 CTGCAACTTCAGGGAGATAAGACTTGCCGAT-TTCAGTCTGCCCCACTGCAACTTCAGGAGGATA
1 CTGCAACTTCAGGGAGATAAGACTTG-CGATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATA
3416336 AGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCT
65 AGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCT
* * * * *
3416401 CTGCAAATTCAGAGAGATAAGATCTGAGGTTTTAATCCGCCCACTACAACTTCAGTGAGATAGGA
130 CTACAAATTCAGAGAGATAAGATCTAAGATTCTAATCCGCCCACTACAACTTCAGGGAGATAGGA
*
3416466 TTACCGGCTTTAACCTGCTCCA
195 TTACCGGCTTTAACCTGCTACA
3416488 CTGCAACTTCAGGGA
1 CTGCAACTTCAGGGA
3416503 AGTAGAATTA
Statistics
Matches: 214, Mismatches: 16, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
216 56 0.26
217 155 0.72
218 3 0.01
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (216 bp):
CTGCAACTTCAGGGAGATAAGACTTGCGATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAA
GACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTC
TACAAATTCAGAGAGATAAGATCTAAGATTCTAATCCGCCCACTACAACTTCAGGGAGATAGGAT
TACCGGCTTTAACCTGCTACA
Found at i:3416498 original size:44 final size:44
Alignment explanation
Indices: 3416044--3416502 Score: 256
Period size: 44 Copynumber: 10.6 Consensus size: 44
3416034 CTAATGCTTC
* * ** *
3416044 AATCTACTCCTCTGCAACTTCAGGGAGATAAGATTTGC-TATCTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTACCGGAT-TT
* * **
3416088 CAGTCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTT-GCTTATTT
1 -AATCTGCTC-CACTGCAACTTCAGGGA-GATAAGA-TTACCGGATTT
* * **
3416133 AGTCTGCTCCACTGCAACTTCAGGGAGATAAG---ACTGGATGC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTACCGGATTT
* * * * *
3416174 GATCTGCT-CTCTACAACTTCAGAGAGATAAGATCTA--AGATTCT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TACCGGATT-T
* * * *
3416217 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGTTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTACCGGATTT
* *
3416261 AATCTGCTACACTGCAACTTCAGGGAGATAAGACTTGCC-GATTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTACCGGATTT
* * * ** *
3416305 CAGTCTGCCCCACTGCAACTTCA-GGAGGATAAGACTT-GCTTACTT
1 -AATCTGCTCCACTGCAACTTCAGGGA-GATAAGA-TTACCGGATTT
* * **
3416350 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTA---GATGC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTACCGGATTT
* * * * *
3416391 GATCTGCT-CTCTGCAAATTCAGAGAGATAAGATCTGA--GGTTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-T-ACCGGATTT
* * * * *
3416434 AATCCGC-CCACTACAACTTCAGTGAGATAGGATTACCGGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTACCGGATTT
*
3416477 AACCTGCTCCACTGCAACTTCAGGGA
1 AATCTGCTCCACTGCAACTTCAGGGA
3416503 AGTAGAATTA
Statistics
Matches: 322, Mismatches: 64, Indels: 57
0.73 0.14 0.13
Matches are distributed among these distances:
40 41 0.13
41 17 0.05
42 5 0.02
43 46 0.14
44 135 0.42
45 73 0.23
46 5 0.02
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTACCGGATTT
Found at i:3416651 original size:132 final size:132
Alignment explanation
Indices: 3416497--3417106 Score: 990
Period size: 132 Copynumber: 4.6 Consensus size: 132
3416487 ACTGCAACTT
* *
3416497 CAGGGAAGTAGAATTATTGGCTTCAATGTACTCCACTATAACCACAGAGAGGTAAAATCTGCCAT
1 CAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGAGAGGTAAAATCCGCCAT
*
3416562 CTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTG
66 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTG
*
3416627 TA
131 CA
* * * * *
3416629 CAGGGAAGTAGAATTACGGGCTTCAATGTACTCCACTATAACCATAGGGAGGTAAAATACACCAT
1 CAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGAGAGGTAAAATCCGCCAT
*
3416694 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCTACTGTTG
66 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTG
3416759 -A
131 CA
* * * *
3416760 CCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCATAGGGAGGTAAAATCTGCCA
1 -CAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGAGAGGTAAAATCCGCCA
*
3416825 TCTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTT
65 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTT
* *
3416890 ACC
130 GCA
3416893 CAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGAGAGGTAAAATCCGCCAT
1 CAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGAGAGGTAAAATCCGCCAT
*
3416958 CTTCGATCTGCTCCACTACTGCTT-GTGGAGATAAGATCTGAAATCTTCGATCTATTCCACTGTT
66 CTTCGATCTGCTCCACTACTGCTTAG-GGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTT
*
3417022 GCC
130 GCA
* * *
3417025 CAGGAAAGTAGAATTACTGGCTTCAATGTACTTCACTATAACCACAGTGAGGTAAAATCCGCCAT
1 CAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGAGAGGTAAAATCCGCCAT
3417090 CTTCGATCTGCTCCACT
66 CTTCGATCTGCTCCACT
3417107 GTCAATGTAG
Statistics
Matches: 447, Mismatches: 28, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
131 2 0.00
132 445 1.00
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.29
Consensus pattern (132 bp):
CAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGAGAGGTAAAATCCGCCAT
CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTG
CA
Found at i:3420731 original size:24 final size:24
Alignment explanation
Indices: 3420703--3420748 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
3420693 ATCATTTTTT
* *
3420703 GCTGCTCATTCATTTGCTTTTGAA
1 GCTGCTCATGCATTTCCTTTTGAA
3420727 GCTGCTCATGCATTTCCTTTTG
1 GCTGCTCATGCATTTCCTTTTG
3420749 GGATTGTTCT
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:0.13, C:0.24, G:0.17, T:0.46
Consensus pattern (24 bp):
GCTGCTCATGCATTTCCTTTTGAA
Found at i:3422520 original size:98 final size:98
Alignment explanation
Indices: 3422349--3422545 Score: 376
Period size: 98 Copynumber: 2.0 Consensus size: 98
3422339 GTGCAATAAA
*
3422349 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
3422414 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
3422447 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
3422512 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
3422545 A
1 A
3422546 TTATTTTTAA
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
98 97 1.00
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:3423225 original size:108 final size:110
Alignment explanation
Indices: 3423074--3423276 Score: 293
Period size: 108 Copynumber: 1.9 Consensus size: 110
3423064 ATAAAGAAAA
* * * *
3423074 ATATATATAGAAATTATAAAAATATGGGTAGAAAGTATAATATATATACGTACATATTTATGTAA
1 ATATATATAGAAATTATAAAAATATGGATAGAAAGTATAATATATATACGTACAGATATATATAA
* * *
3423139 GTTAATAAATATAGAC-CATAAAGATAATGATTGCATTTATGTGT
66 GGTAACAAATATAGACACATAAACATAATGATTGCATTTATGTGT
* * *
3423183 ATATATATATAAATTAT-AAAATATGTATAGAAAGTATGATATATATACGTACAGATATATATAA
1 ATATATATAGAAATTATAAAAATATGGATAGAAAGTATAATATATATACGTACAGATATATATAA
3423247 GGTAACAAATATAGACATCATAAACATAAT
66 GGTAACAAATATAGACA-CATAAACATAAT
3423277 AATTACACAT
Statistics
Matches: 82, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
108 55 0.67
109 16 0.20
110 11 0.13
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.34
Consensus pattern (110 bp):
ATATATATAGAAATTATAAAAATATGGATAGAAAGTATAATATATATACGTACAGATATATATAA
GGTAACAAATATAGACACATAAACATAATGATTGCATTTATGTGT
Found at i:3424864 original size:27 final size:27
Alignment explanation
Indices: 3424828--3424883 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
3424818 AAATTTCCTA
3424828 TAATAAAAAAATGATAAATCAGATTTT
1 TAATAAAAAAATGATAAATCAGATTTT
* * *
3424855 TAATAGAAAATTGATAAATCATATTTT
1 TAATAAAAAAATGATAAATCAGATTTT
3424882 TA
1 TA
3424884 CTCTTAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.38
Consensus pattern (27 bp):
TAATAAAAAAATGATAAATCAGATTTT
Found at i:3428255 original size:21 final size:22
Alignment explanation
Indices: 3428226--3428272 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
3428216 CAGAAGGAGT
*
3428226 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
3428248 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
3428269 GAGT
1 GAGT
3428273 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:3433628 original size:17 final size:19
Alignment explanation
Indices: 3433593--3433629 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
3433583 AATTTTGGAA
*
3433593 ATTTTATAAATATTTTTTT
1 ATTTTATAAATATTATTTT
3433612 ATTTTA-AAA-ATTATTTT
1 ATTTTATAAATATTATTTT
3433629 A
1 A
3433630 AATTTTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 8 0.47
18 3 0.18
19 6 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTTTATAAATATTATTTT
Found at i:3433634 original size:19 final size:20
Alignment explanation
Indices: 3433553--3433635 Score: 61
Period size: 19 Copynumber: 4.3 Consensus size: 20
3433543 TTTTTTTTGA
3433553 AAATTTTATAATATATTTTTT
1 AAATTTTATAA-ATATTTTTT
** **
3433574 AAA-AATAT-AA-ATTTTGG
1 AAATTTTATAAATATTTTTT
3433591 AAATTTTATAAATATTTTTT
1 AAATTTTATAAATATTTTTT
*
3433611 -TATTTTA-AAA-ATTATTTT
1 AAATTTTATAAATATT-TTTT
3433629 AAATTTT
1 AAATTTT
3433636 TTTGTAATTT
Statistics
Matches: 47, Mismatches: 10, Indels: 12
0.68 0.14 0.17
Matches are distributed among these distances:
17 11 0.23
18 11 0.23
19 14 0.30
20 8 0.17
21 3 0.06
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
AAATTTTATAAATATTTTTT
Found at i:3437013 original size:17 final size:19
Alignment explanation
Indices: 3436979--3437015 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
3436969 TTTCTCCTTC
*
3436979 TCTCTCCCCTTCCTCTTTT
1 TCTCTCCCCATCCTCTTTT
3436998 TCTCT-CCCATCC-CTTTT
1 TCTCTCCCCATCCTCTTTT
3437015 T
1 T
3437016 TTTCTCTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 6 0.35
19 5 0.29
ACGTcount: A:0.03, C:0.46, G:0.00, T:0.51
Consensus pattern (19 bp):
TCTCTCCCCATCCTCTTTT
Found at i:3437016 original size:19 final size:20
Alignment explanation
Indices: 3436979--3437023 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
3436969 TTTCTCCTTC
* *
3436979 TCTCTCCCCTTCC-TCTTTT
1 TCTCTCCCATCCCTTCTTTT
*
3436998 TCTCTCCCATCCCTTTTTTT
1 TCTCTCCCATCCCTTCTTTT
3437018 TCTCTC
1 TCTCTC
3437024 TGAGATTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.02, C:0.44, G:0.00, T:0.53
Consensus pattern (20 bp):
TCTCTCCCATCCCTTCTTTT
Found at i:3443945 original size:20 final size:18
Alignment explanation
Indices: 3443905--3443967 Score: 65
Period size: 20 Copynumber: 3.3 Consensus size: 18
3443895 GGATTGGTGC
*
3443905 AAAATTA-AAAAAATTTT
1 AAAATTATAAAAAATTTA
3443922 AAAATTATAAAAAATATTGA
1 AAAATTATAAAAAAT-TT-A
*
3443942 AAAATTATAAAATACATATA
1 AAAATTATAAAA-A-ATTTA
3443962 AAAATT
1 AAAATT
3443968 TCAAATTTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
17 7 0.18
18 7 0.18
19 2 0.05
20 19 0.49
21 2 0.05
22 2 0.05
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (18 bp):
AAAATTATAAAAAATTTA
Done.