Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 9 of 198
Found at i:3142183 original size:60 final size:59
Alignment explanation
Indices: 3142081--3142243 Score: 188
Period size: 60 Copynumber: 2.7 Consensus size: 59
3142071 TACACTCCTA
* * * *
3142081 ATCACCCAACTATTAGTAAATTTCTCTTTTAGTCATACAACTATGAAAA-GTTACAAAAT-
1 ATCACCTAACTATTAGTAAATTTCTTTTTTGGTCA-CCAACTAT-AAAATGTTACAAAATG
* * *
3142140 AGTCACCTAATTATTAGTAAATTTGTTTTTTGGTCACCTAACTATAAAATGTTACAAAGTG
1 A-TCACCTAACTATTAGTAAATTTCTTTTTTGGTCACC-AACTATAAAATGTTACAAAATG
*
3142201 ATAACCTAACTATTAGTAAA-TTCTTTTTTGGTCACCCAACTAT
1 ATCACCTAACTATTAGTAAATTTCTTTTTTGGTCA-CCAACTAT
3142244 CTTGAAATTT
Statistics
Matches: 89, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
59 25 0.28
60 63 0.71
61 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.37
Consensus pattern (59 bp):
ATCACCTAACTATTAGTAAATTTCTTTTTTGGTCACCAACTATAAAATGTTACAAAATG
Found at i:3149760 original size:23 final size:22
Alignment explanation
Indices: 3149707--3149760 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
3149697 CATGGAGATA
*
3149707 AAAACTAAAACCCCAAAACTTG
1 AAAACAAAAACCCCAAAACTTG
* *
3149729 AAAATAAAAACCCTCAAATCTT-
1 AAAACAAAAACCC-CAAAACTTG
3149751 AAATACAAAA
1 AAA-ACAAAA
3149761 TTCTTTAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 14 0.54
23 12 0.46
ACGTcount: A:0.59, C:0.22, G:0.02, T:0.17
Consensus pattern (22 bp):
AAAACAAAAACCCCAAAACTTG
Found at i:3151157 original size:15 final size:14
Alignment explanation
Indices: 3151138--3151197 Score: 57
Period size: 15 Copynumber: 4.1 Consensus size: 14
3151128 TTTTAAAATT
3151138 AAAAAAAAATAAAA
1 AAAAAAAAATAAAA
**
3151152 ATAAAAATTATAAAA
1 A-AAAAAAAATAAAA
3151167 AATAAAAAAATAATAA
1 AA-AAAAAAATAA-AA
* *
3151183 AAAATAAAAGAAAA
1 AAAAAAAAATAAAA
3151197 A
1 A
3151198 TAGCATGAAG
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
14 5 0.14
15 28 0.76
16 4 0.11
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.15
Consensus pattern (14 bp):
AAAAAAAAATAAAA
Found at i:3151198 original size:11 final size:10
Alignment explanation
Indices: 3151132--3151199 Score: 59
Period size: 10 Copynumber: 6.7 Consensus size: 10
3151122 TTAAAATTTT
*
3151132 AAAATTAAAA
1 AAAAATAAAA
3151142 AAAAATAAAAA
1 AAAAAT-AAAA
* *
3151153 TAAAAATTATA
1 -AAAAATAAAA
3151164 AAAAAT--AA
1 AAAAATAAAA
*
3151172 AAAAATAATA
1 AAAAATAAAA
3151182 AAAAATAAAA
1 AAAAATAAAA
3151192 GAAAAATA
1 -AAAAATA
3151200 GCATGAAGTA
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
8 7 0.15
10 21 0.45
11 13 0.28
12 6 0.13
ACGTcount: A:0.81, C:0.00, G:0.01, T:0.18
Consensus pattern (10 bp):
AAAAATAAAA
Found at i:3151199 original size:18 final size:17
Alignment explanation
Indices: 3151132--3151199 Score: 77
Period size: 18 Copynumber: 4.0 Consensus size: 17
3151122 TTAAAATTTT
*
3151132 AAAATTAAAAAAAAAT-
1 AAAAATAAAAAAAAATA
**
3151148 AAAAAT-AAAAATTATA
1 AAAAATAAAAAAAAATA
3151164 AAAAATAAAAAAATAATA
1 AAAAATAAAAAAA-AATA
3151182 AAAAATAAAAGAAAAATA
1 AAAAATAAAA-AAAAATA
3151200 GCATGAAGTA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
15 7 0.16
16 11 0.26
17 5 0.12
18 17 0.40
19 3 0.07
ACGTcount: A:0.81, C:0.00, G:0.01, T:0.18
Consensus pattern (17 bp):
AAAAATAAAAAAAAATA
Found at i:3157843 original size:110 final size:110
Alignment explanation
Indices: 3157492--3157992 Score: 792
Period size: 110 Copynumber: 4.6 Consensus size: 110
3157482 GTCAAACGAG
* * * ** * * *
3157492 AAATCGAAATCCAGCACATTAGGGCACATTTTCTCGAATTT-TCAAACGTAAAATATTGCCTTAT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTAT
*
3157556 TTT-AACATTTTTTAAAGGATATTAAGCCATTTGGTTGAACGAGAA
66 TTTGAA-ATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
* * *
3157601 AAATCGACACCCAGCACCTTATGGCATGTTTTCTCGAATTTCCCAAACACAAAACATTGCTTTAT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTAT
3157666 TTTGAAATTTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
66 TTTGAAA-TTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
*
3157712 AAAACGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTAT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTAT
* *
3157777 TTTGAAATTTTTAAAAGGATATTAAGTCATTTGGTTAAACGAGAA
66 TTTGAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
3157822 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTAT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTAT
3157887 TTTGAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
66 TTTGAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
* * * *
3157932 AAAACGACACCTAACACCTTAGGACATGTTTTCTCGAATTT-CCAAACGCAAAACATTGCCT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCT
3157993 CAATTAGAAA
Statistics
Matches: 364, Mismatches: 25, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
109 55 0.15
110 202 0.55
111 107 0.29
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.31
Consensus pattern (110 bp):
AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTAT
TTTGAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
Found at i:3157889 original size:221 final size:219
Alignment explanation
Indices: 3157502--3157992 Score: 813
Period size: 221 Copynumber: 2.2 Consensus size: 219
3157492 AAATCGAAAT
* ** * * *
3157502 CCAGCACATTAGGGCACATTTTCTCGAATTTTCAAACGTAAAATATTGCCTTATTTTAACATTTT
1 CCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAACATTTT
* * *
3157567 TTAAAGGATATTAAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTATGGCATGTTT
66 TAAAAGGATATTAAGCCATTTGGTTAAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTT
*
3157632 TCTCGAATTTCCCAAACACAAAACATTGCTTTATTTTGAAATTTTTTAAAAGGATATTAAGCCAT
131 TCTCGAATTTCCCAAACACAAAACATTGCCTTATTTTGAAA-TTTTTAAAAGGATATTAAGCCAT
3157697 TTGGTTGAACGAGAAAAAACGACAC
195 TTGGTTGAACGAGAAAAAACGACAC
3157722 CCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTATTTTGAA-ATT
1 CCAGCACCTTAGGGCATGTTTTCTCGAATTT-CCAAACGCAAAACATTGCCTTATTTT-AACATT
*
3157786 TTTAAAAGGATATTAAGTCATTTGGTTAAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGT
64 TTTAAAAGGATATTAAGCCATTTGGTTAAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGT
*
3157851 TTTCTCGAATTTCCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAAAGGATATTAAGCCA
129 TTTCTCGAATTTCCCAAACACAAAACATTGCCTTATTTTGAAATTTTTAAAAGGATATTAAGCCA
3157916 TTTGGTTGAACGAGAAAAAACGACAC
194 TTTGGTTGAACGAGAAAAAACGACAC
* * *
3157942 CTAACACCTTAGGACATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCT
1 CCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCT
3157993 CAATTAGAAA
Statistics
Matches: 254, Mismatches: 15, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
219 20 0.08
220 104 0.41
221 128 0.50
222 2 0.01
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (219 bp):
CCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAACATTTT
TAAAAGGATATTAAGCCATTTGGTTAAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTT
TCTCGAATTTCCCAAACACAAAACATTGCCTTATTTTGAAATTTTTAAAAGGATATTAAGCCATT
TGGTTGAACGAGAAAAAACGACAC
Found at i:3158184 original size:31 final size:29
Alignment explanation
Indices: 3158146--3158213 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 29
3158136 AAATAAATAA
*
3158146 ATAAATAAACTAAAACATAAAAAATGGACAT
1 ATAAATAAACT-AAACA-AAAAAATGAACAT
*
3158177 ATAAATAAA-TAAACAAATAAATGAACAT
1 ATAAATAAACTAAACAAAAAAATGAACAT
*
3158205 A-AAAAAAAC
1 ATAAATAAAC
3158214 AATAAAGGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
27 6 0.18
28 12 0.36
29 5 0.15
30 1 0.03
31 9 0.27
ACGTcount: A:0.69, C:0.09, G:0.04, T:0.18
Consensus pattern (29 bp):
ATAAATAAACTAAACAAAAAAATGAACAT
Found at i:3158207 original size:22 final size:23
Alignment explanation
Indices: 3158179--3158243 Score: 64
Period size: 22 Copynumber: 2.9 Consensus size: 23
3158169 ATGGACATAT
* *
3158179 AAATAAATAAACA-AATAAATGA
1 AAATAAATAAAAACAATAAAGGA
*
3158201 ACATAAA-AAAAACAATAAAGGA
1 AAATAAATAAAAACAATAAAGGA
*
3158223 AAATAGATAAAAATC-ATAAAG
1 AAATAAATAAAAA-CAATAAAG
3158244 TATGAAAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
21 4 0.11
22 19 0.54
23 11 0.31
24 1 0.03
ACGTcount: A:0.71, C:0.06, G:0.08, T:0.15
Consensus pattern (23 bp):
AAATAAATAAAAACAATAAAGGA
Found at i:3159722 original size:15 final size:16
Alignment explanation
Indices: 3159704--3159733 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
3159694 GGTTGGGCTG
3159704 AAATGGG-TTAGGTCA
1 AAATGGGTTTAGGTCA
3159719 AAATGGGTTTAGGTC
1 AAATGGGTTTAGGTC
3159734 TGATTTTAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.30, C:0.07, G:0.33, T:0.30
Consensus pattern (16 bp):
AAATGGGTTTAGGTCA
Found at i:3160144 original size:41 final size:40
Alignment explanation
Indices: 3160094--3160181 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 40
3160084 CTTTAAGAAA
* * *
3160094 ATAAAATCTGATG-TGATCTGCTCTACTGTAACTTCAGAGAG
1 ATAAGATCTGATGTTGAT-AGCT-TACTGCAACTTCAGAGAG
* *
3160135 ATAAGATCTGTTGTTTATAGCTTACTGCAACTTCAGAGAG
1 ATAAGATCTGATGTTGATAGCTTACTGCAACTTCAGAGAG
3160175 ATAAGAT
1 ATAAGAT
3160182 TTGCTATCTT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
40 24 0.59
41 14 0.34
42 3 0.07
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (40 bp):
ATAAGATCTGATGTTGATAGCTTACTGCAACTTCAGAGAG
Found at i:3161542 original size:100 final size:100
Alignment explanation
Indices: 3160228--3161535 Score: 1917
Period size: 100 Copynumber: 13.1 Consensus size: 100
3160218 TCACCATTGC
* * * *
3160228 GGCTTCAATCTTTTAAATTACAATGTCGGGGAAGTGAGATTCGCCGTCGTACCTTCAATCTATTT
1 GGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTC
3160293 CGCTGCATCGCCTGGGAAGTAAGATTCGCCGTTGT
66 CGCTGCATCGCCTGGGAAGTAAGATTCGCCGTTGT
* * *
3160328 GGCTTCAATCTTTT-AATTACAATGTCGGGGAAGTGAGATTTGCCATCGTAGCTTCAATCTGTTC
1 GGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTC
* *
3160392 TGCTGCATCGCCTGGGAAGTAAGATTCGTCGTTGT
66 CGCTGCATCGCCTGGGAAGTAAGATTCGCCGTTGT
* * * * *
3160427 GGCTTCAATCTTTTAAATTACAATATCGGGGAAGTGAGTTTCGCTGTTGTAGCTTCAATCTGTTC
1 GGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTC
* *
3160492 GGCTGCATCGCCTGGGAAGTAAGATTCACCGTTGT
66 CGCTGCATCGCCTGGGAAGTAAGATTCGCCGTTGT
* *
3160527 AGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGCCATCGTAGCTTCAATCTGTTC
1 GGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTC
*
3160592 CGCTGCATCGCCTGGGAAGTAAAATTCGCCGTTGT
66 CGCTGCATCGCCTGGGAAGTAAGATTCGCCGTTGT
* *
3160627 GGCTTCAATCCTTTAAATTGCAATGTCGGGGAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTAC
1 GGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTC
* *
3160692 CGCTGCATCACCTGGGAAGTAAGATTCGTCGTTGT
66 CGCTGCATCGCCTGGGAAGTAAGATTCGCCGTTGT
* * * *
3160727 GGCTTCAATCTTATT-AATTTCAATGTCGGGGAAGTGAGATTTGCTGTCGTAGCTTCAATCTATT
1 GGCTTCAATCTT-TTAAATTGCAATGTCGGGGAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTT
* * *
3160791 CCGATGCATCGCCTAGGAAGTAAGATTCACCGTTGT
65 CCGCTGCATCGCCTGGGAAGTAAGATTCGCCGTTGT
*
3160827 GGCTTCAATCTTGTT-AATTGCAATGTCGGGGAAGTGAGATTCACCGTCGTAGCTTCAATCTGTT
1 GGCTTCAATCTT-TTAAATTGCAATGTCGGGGAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTT
*
3160891 CCGCTGCATCGCCTGGGAAGTAAGATTTGCCGTTGT
65 CCGCTGCATCGCCTGGGAAGTAAGATTCGCCGTTGT
*
3160927 GGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTC
1 GGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTC
*
3160992 CGCTGCATCGCCTGGGAAGTAAGATTCACCGTTGT
66 CGCTGCATCGCCTGGGAAGTAAGATTCGCCGTTGT
* ** * *
3161027 GGCTTCAATCTTTTAAATTGCAATGTCGGAGAAGCAAGATTCACTGTCGTAGCTTCAATCTGTTC
1 GGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTC
* *
3161092 CGTTGCATCGCCTGGGAAGTAAGATTCACCGTTGT
66 CGCTGCATCGCCTGGGAAGTAAGATTCGCCGTTGT
* * * * *
3161127 GGCTTCAATATTTTAAATTGCAATGTCGGGGAAGTGAGATTCACTGTCGTAGCTTCAATCTATTT
1 GGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTC
* * *
3161192 CGCTGTATCGCCTGGGAAGTAAGATTCACCGTTAT
66 CGCTGCATCGCCTGGGAAGTAAGATTCGCCGTTGT
*
3161227 GGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCACCGTCGTAGCTTCAATCTGTTC
1 GGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTC
* ** * *
3161292 TGCTATATCACCTGGGAAGTAAGATTCGCCGTTGC
66 CGCTGCATCGCCTGGGAAGTAAGATTCGCCGTTGT
* * * ** * * *
3161327 GACTTCAA-CCTTT-AA-TGCAATGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTT
1 GGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTC
*
3161389 CGCTGCATCGCCTGAGAAGTAAGATTCGCCGTTGT
66 CGCTGCATCGCCTGGGAAGTAAGATTCGCCGTTGT
* * * *
3161424 GGCTTCAATATTTTGAATTGTAATGTCGGGGAAGTGAGATTCACCGTCGTAGCTTCAATCTGTTC
1 GGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTC
* *
3161489 CGCTGCATCGCCTGTGAAGTAAGATTCGCGGTTGT
66 CGCTGCATCGCCTGGGAAGTAAGATTCGCCGTTGT
*
3161524 GACTTCAATCTT
1 GGCTTCAATCTT
3161536 CTGAATTACA
Statistics
Matches: 1092, Mismatches: 110, Indels: 12
0.90 0.09 0.01
Matches are distributed among these distances:
97 78 0.07
98 5 0.00
99 100 0.09
100 907 0.83
101 2 0.00
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (100 bp):
GGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTC
CGCTGCATCGCCTGGGAAGTAAGATTCGCCGTTGT
Found at i:3162680 original size:43 final size:43
Alignment explanation
Indices: 3162615--3162758 Score: 170
Period size: 43 Copynumber: 3.4 Consensus size: 43
3162605 TGCCCCGATC
* *
3162615 TGATC-AAAATTTGAG-CTGCTCTGATCGCCTCATGCCCCAATT-
1 TGATCTAAAATTTGAGTC-GCTCTGATCACCTAATGCCCC-ATTA
* *
3162657 TGATCTAAAATTTGAGTCACTCTGATCACCTAATGTCCCATTA
1 TGATCTAAAATTTGAGTCGCTCTGATCACCTAATGCCCCATTA
** *
3162700 TGATAAAAAATTTGAGTCGCTCTGATCACCTAATGTCCCATTA
1 TGATCTAAAATTTGAGTCGCTCTGATCACCTAATGCCCCATTA
3162743 TGAT-TAAAAATTTGAG
1 TGATCT-AAAATTTGAG
3162759 CCGCCCTTTT
Statistics
Matches: 90, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
42 8 0.09
43 81 0.90
44 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.33
Consensus pattern (43 bp):
TGATCTAAAATTTGAGTCGCTCTGATCACCTAATGCCCCATTA
Found at i:3164014 original size:20 final size:20
Alignment explanation
Indices: 3163991--3164029 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
3163981 TCGCATTGAC
3163991 CTCTCCTTTTT-TTTCTTTTT
1 CTCT-CTTTTTCTTTCTTTTT
*
3164011 CTCTTTTTTTCTTTCTTTT
1 CTCTCTTTTTCTTTCTTTT
3164030 ATTTTTGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (20 bp):
CTCTCTTTTTCTTTCTTTTT
Found at i:3167044 original size:110 final size:108
Alignment explanation
Indices: 3166852--3167462 Score: 997
Period size: 110 Copynumber: 5.6 Consensus size: 108
3166842 GTCAAACGAG
* * * ** * * *
3166852 AAATCGAAATCCAGCACATTAGGGCACATTTTCTTGAATTTCCAAACGTAAAATATTGCCTTATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
*
3166917 TTAACATTTTTAAAAGGATATTAAGCCACTTGGTTGAACGAGAA
66 TTAA-ATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
3166961 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCGCAAACGCAAAACATTGCCTTAT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTC-CAAACGCAAAACATTGCCTTAT
*
3167026 TTTAACATTTTTAAAAGGATTTTAAGCCATTTGGTTGAACGAGAA
65 TTTAA-ATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
* *
3167071 AAATAGACACCCAGCACCTTAGGGCATGTTTTCGCGAATTTCGCAAACGCAAAACATTGCCTTAT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTC-CAAACGCAAAACATTGCCTTAT
3167136 TTTAAAATTTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
65 TTT-AAA-TTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
*
3167182 AAAACGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTAT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTT-CCAAACGCAAAACATTGCCTTAT
3167247 TTTGAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
65 TTT-AAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
*
3167292 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCTCAAACGCAAAACATTGTCTTAT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTC-CAAACGCAAAACATTGCCTTAT
3167357 TTTGAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
65 TTT-AAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
*
3167402 AAAACGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCT
3167463 CAATTAGAAA
Statistics
Matches: 476, Mismatches: 21, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
109 55 0.12
110 315 0.66
111 105 0.22
112 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (108 bp):
AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
TTAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
Found at i:3167306 original size:221 final size:219
Alignment explanation
Indices: 3166852--3167462 Score: 1019
Period size: 221 Copynumber: 2.8 Consensus size: 219
3166842 GTCAAACGAG
* * * ** * * *
3166852 AAATCGAAATCCAGCACATTAGGGCACATTTTCTTGAATTTCCAAACGTAAAATATTGCCTTATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
* * *
3166917 TTAACATTTTTAAAAGGATATTAAGCCACTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTA
66 TTAAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAAAAAACGACACCCAGCACCTTA
* *
3166982 GGGCATGTTTTCTCGAATTTCGCAAACGCAAAACATTGCCTTATTTTAACATTTTTAAAAGGATT
131 GGGCATGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTATTTTAACATTTTTAAAAGGATA
3167047 TTAAGCCATTTGGTTGAACGAGAA
196 TTAAGCCATTTGGTTGAACGAGAA
* *
3167071 AAATAGACACCCAGCACCTTAGGGCATGTTTTCGCGAATTTCGCAAACGCAAAACATTGCCTTAT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTC-CAAACGCAAAACATTGCCTTAT
3167136 TTTAAAATTTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAAAAAACGACACCCAGCACCT
65 TTTAAAA-TTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAAAAAACGACACCCAGCACCT
3167201 TAGGGCATGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTATTTTGAA-ATTTTTAAAAGG
129 TAGGGCATGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTATTTT-AACATTTTTAAAAGG
3167265 ATATTAAGCCATTTGGTTGAACGAGAA
193 ATATTAAGCCATTTGGTTGAACGAGAA
*
3167292 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCTCAAACGCAAAACATTGTCTTAT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTC-CAAACGCAAAACATTGCCTTAT
*
3167357 TTTGAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAAAAAACGACACCCAGCACCTT
65 TTTAAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAAAAAACGACACCCAGCACCTT
3167422 AGGGCATGTTTTCTCGAATTT-CCAAACGCAAAACATTGCCT
130 AGGGCATGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCT
3167463 CAATTAGAAA
Statistics
Matches: 369, Mismatches: 20, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
219 54 0.15
220 105 0.28
221 208 0.56
222 2 0.01
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (219 bp):
AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
TTAAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAAAAAACGACACCCAGCACCTTA
GGGCATGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTATTTTAACATTTTTAAAAGGATA
TTAAGCCATTTGGTTGAACGAGAA
Found at i:3167616 original size:4 final size:4
Alignment explanation
Indices: 3167607--3167665 Score: 50
Period size: 4 Copynumber: 15.0 Consensus size: 4
3167597 ATACAATAAC
* ** * *
3167607 AAAT AAAT AAAT AAAT AAACT AAA- ACAT AAA- AAAT GGAC ATAT AAAT
1 AAAT AAAT AAAT AAAT AAA-T AAAT AAAT AAAT AAAT AAAT AAAT AAAT
3167654 AAAT AAAT AAAT
1 AAAT AAAT AAAT
3167666 GAACATAAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
3 5 0.12
4 34 0.79
5 4 0.09
ACGTcount: A:0.69, C:0.05, G:0.03, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:3167659 original size:23 final size:23
Alignment explanation
Indices: 3167607--3167682 Score: 77
Period size: 23 Copynumber: 3.3 Consensus size: 23
3167597 ATACAATAAC
3167607 AAATAAATAAAT-AA-ATAAACTAA
1 AAATAAATAAATGAACATAAA--AA
* *
3167630 AACATAAA-AAATGGACATATAAAT
1 AA-ATAAATAAATGAACATA-AAAA
3167654 AAATAAATAAATGAACATAAAAA
1 AAATAAATAAATGAACATAAAAA
3167677 AAATAA
1 AAATAA
3167683 CAATAAAGGA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
23 20 0.45
24 19 0.43
25 3 0.07
26 2 0.05
ACGTcount: A:0.71, C:0.05, G:0.04, T:0.20
Consensus pattern (23 bp):
AAATAAATAAATGAACATAAAAA
Found at i:3168587 original size:12 final size:12
Alignment explanation
Indices: 3168570--3168594 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3168560 GTGAGGAGAG
3168570 CCGCCGTCGACA
1 CCGCCGTCGACA
3168582 CCGCCGTCGACA
1 CCGCCGTCGACA
3168594 C
1 C
3168595 GGTGGCCGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.52, G:0.24, T:0.08
Consensus pattern (12 bp):
CCGCCGTCGACA
Found at i:3168742 original size:20 final size:20
Alignment explanation
Indices: 3168718--3168754 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
3168708 GAAAGGAAGA
3168718 AAAAAAT-AAAGGGAAAAAT
1 AAAAAATAAAAGGGAAAAAT
3168737 AAAAAATAAAAGGGAAAA
1 AAAAAATAAAAGGGAAAA
3168755 TAGAGCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (20 bp):
AAAAAATAAAAGGGAAAAAT
Found at i:3170097 original size:27 final size:27
Alignment explanation
Indices: 3170059--3170114 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
3170049 CATGGTTTGA
*
3170059 TATTCTATGAGGAAGTTTTAGAAATTC
1 TATTCTATGAGGAAGGTTTAGAAATTC
3170086 TATTCTATGAGGAAGGTTTAGAAATTC
1 TATTCTATGAGGAAGGTTTAGAAATTC
3170113 TA
1 TA
3170115 ACTTATCTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.39
Consensus pattern (27 bp):
TATTCTATGAGGAAGGTTTAGAAATTC
Found at i:3171436 original size:23 final size:23
Alignment explanation
Indices: 3171410--3171507 Score: 171
Period size: 23 Copynumber: 4.3 Consensus size: 23
3171400 ATAAGTGCCA
3171410 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
3171433 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
3171456 CACTGA-ATGTAGCCGAAGCTAA
1 CACTGATATGTAGCCGAAGCTAC
*
3171478 CACTGAGATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
3171501 CACTGAT
1 CACTGAT
3171508 CAATAACACT
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
22 21 0.30
23 50 0.70
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:3171475 original size:45 final size:46
Alignment explanation
Indices: 3171410--3171507 Score: 171
Period size: 45 Copynumber: 2.2 Consensus size: 46
3171400 ATAAGTGCCA
* *
3171410 CACTGATATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAACACTGAGATGTAGCCGAAGCTAC
3171456 CACTGA-ATGTAGCCGAAGCTAACACTGAGATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAACACTGAGATGTAGCCGAAGCTAC
3171501 CACTGAT
1 CACTGAT
3171508 CAATAACACT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
45 43 0.88
46 6 0.12
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.20
Consensus pattern (46 bp):
CACTGATATGTAGCCGAAGCTAACACTGAGATGTAGCCGAAGCTAC
Found at i:3171767 original size:17 final size:17
Alignment explanation
Indices: 3171733--3171770 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
3171723 ATTTTCTTTC
*
3171733 CACATTCAATATTGATT
1 CACATTCAATATTAATT
3171750 CACATATCAATA-TAATT
1 CACAT-TCAATATTAATT
3171767 CACA
1 CACA
3171771 ATTTATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.42, C:0.21, G:0.03, T:0.34
Consensus pattern (17 bp):
CACATTCAATATTAATT
Found at i:3179005 original size:23 final size:23
Alignment explanation
Indices: 3178979--3179099 Score: 217
Period size: 23 Copynumber: 5.3 Consensus size: 23
3178969 ATAAGTGCCA
3178979 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
3179002 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
3179025 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
3179048 CACTGA-ATGTAGCCGAAGCTAA
1 CACTGATATGTAGCCGAAGCTAC
*
3179070 CACTGAGATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
3179093 CACTGAT
1 CACTGAT
3179100 CAATAACACT
Statistics
Matches: 94, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
22 21 0.22
23 73 0.78
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:3179074 original size:45 final size:46
Alignment explanation
Indices: 3178978--3179099 Score: 219
Period size: 45 Copynumber: 2.7 Consensus size: 46
3178968 CATAAGTGCC
3178978 ACACTGATATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTA
1 ACACTGATATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTA
*
3179024 CCACTGATATGTAGCCGAAGCTACCACTGA-ATGTAGCCGAAGCTA
1 ACACTGATATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTA
*
3179069 ACACTGAGATGTAGCCGAAGCTACCACTGAT
1 ACACTGATATGTAGCCGAAGCTACCACTGAT
3179100 CAATAACACT
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
45 43 0.60
46 29 0.40
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.20
Consensus pattern (46 bp):
ACACTGATATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTA
Found at i:3179359 original size:17 final size:17
Alignment explanation
Indices: 3179325--3179362 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
3179315 ATTTTCTTTC
*
3179325 CACATTCAATATTGATT
1 CACATTCAATATTAATT
3179342 CACATATCAATA-TAATT
1 CACAT-TCAATATTAATT
3179359 CACA
1 CACA
3179363 ATTTATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.42, C:0.21, G:0.03, T:0.34
Consensus pattern (17 bp):
CACATTCAATATTAATT
Found at i:3190664 original size:32 final size:32
Alignment explanation
Indices: 3190618--3190690 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 32
3190608 GATTATCCGG
* * *
3190618 TTTTCAGAATACTTTATCCCAAAATTTTTGGT
1 TTTTTAGAAAACTTTATCCCAAAATTTTTGGC
* * *
3190650 TTTTTAGAAAACTTTATCGCGAGATTTTTGGC
1 TTTTTAGAAAACTTTATCCCAAAATTTTTGGC
3190682 TTTTTAGAA
1 TTTTTAGAA
3190691 TTCAATCTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.27, C:0.12, G:0.14, T:0.47
Consensus pattern (32 bp):
TTTTTAGAAAACTTTATCCCAAAATTTTTGGC
Found at i:3192846 original size:40 final size:40
Alignment explanation
Indices: 3192802--3192879 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
3192792 TCCTCACTTG
* *
3192802 AGTAAATGCTGACTTAGGTGAGTTTGGATGAGCGGATCAC
1 AGTAAATACTGACTTAGGTGAGTTTGGACGAGCGGATCAC
*
3192842 AGTAAATATTGACTTAGGTGAGTTTGGACGAGCGGATC
1 AGTAAATACTGACTTAGGTGAGTTTGGACGAGCGGATC
3192880 TTCTAAGGCC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.28, C:0.12, G:0.32, T:0.28
Consensus pattern (40 bp):
AGTAAATACTGACTTAGGTGAGTTTGGACGAGCGGATCAC
Found at i:3204772 original size:19 final size:19
Alignment explanation
Indices: 3204748--3204786 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
3204738 TCAGTGAAAG
3204748 GCTGAGGCCACTATAAAAT
1 GCTGAGGCCACTATAAAAT
3204767 GCTGAGGCCACTATAAAAT
1 GCTGAGGCCACTATAAAAT
3204786 G
1 G
3204787 GAACCATCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.21
Consensus pattern (19 bp):
GCTGAGGCCACTATAAAAT
Found at i:3208418 original size:34 final size:34
Alignment explanation
Indices: 3208370--3208440 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
3208360 TTGATAGGTT
*
3208370 AATTTTAGCGGTGCAGATTAGATAGAAATCGGCC
1 AATTTTAGCAGTGCAGATTAGATAGAAATCGGCC
3208404 AATTTTAGCAGTGCAGATTAGATAGAAATCGGCC
1 AATTTTAGCAGTGCAGATTAGATAGAAATCGGCC
3208438 AAT
1 AAT
3208441 GAGTAATTTC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (34 bp):
AATTTTAGCAGTGCAGATTAGATAGAAATCGGCC
Found at i:3211273 original size:14 final size:14
Alignment explanation
Indices: 3211254--3211280 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3211244 ATAGCCTCGA
3211254 GAAATAGAAGCTTG
1 GAAATAGAAGCTTG
3211268 GAAATAGAAGCTT
1 GAAATAGAAGCTT
3211281 TCAACTCCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.26, T:0.22
Consensus pattern (14 bp):
GAAATAGAAGCTTG
Found at i:3212134 original size:91 final size:91
Alignment explanation
Indices: 3211979--3212157 Score: 268
Period size: 91 Copynumber: 2.0 Consensus size: 91
3211969 CACTCTAGTT
* * *
3211979 TTGGAATCTCGATTTCAATTTATGAAAGAAAAAGCGGCAGCAAAGATGGTAAGTAAATATATACC
1 TTGGAATCTCGATTCCAATTTATGAAAGAAAAAGCAGCAGCAAAGATGGTAAGTAAATAGATACC
*
3212044 TTGAATAGAAATTTAGAAATTAAGGG
66 TTGAATAGAAATTGAGAAATTAAGGG
* * * * *
3212070 TTGGACTCTTGATTCCAATTTATGGAAGAAAAAGCAGTAGCAAAGATGGTAAGTAAGTAGATACC
1 TTGGAATCTCGATTCCAATTTATGAAAGAAAAAGCAGCAGCAAAGATGGTAAGTAAATAGATACC
*
3212135 TTGAATAGAAATTGAGGAATTAA
66 TTGAATAGAAATTGAGAAATTAA
3212158 AGGAGCAAAA
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
91 78 1.00
ACGTcount: A:0.42, C:0.09, G:0.22, T:0.27
Consensus pattern (91 bp):
TTGGAATCTCGATTCCAATTTATGAAAGAAAAAGCAGCAGCAAAGATGGTAAGTAAATAGATACC
TTGAATAGAAATTGAGAAATTAAGGG
Found at i:3216394 original size:21 final size:20
Alignment explanation
Indices: 3216349--3216392 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
3216339 TTTTTGAAAA
*
3216349 TTTTAAAAAATATTTTAAAT
1 TTTTGAAAAATATTTTAAAT
*
3216369 TTTTGAAAATTATTTTAAAT
1 TTTTGAAAAATATTTTAAAT
3216389 TTTT
1 TTTT
3216393 TGTTATGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTTGAAAAATATTTTAAAT
Found at i:3217748 original size:29 final size:29
Alignment explanation
Indices: 3217699--3217761 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
3217689 CCTCCCACTT
* * *
3217699 CCCACTTTTCAGGCAGGCCTTCGACCCAA
1 CCCATTTTTCAGACAGACCTTCGACCCAA
3217728 CCCATTTTTCAGACAGACCTTCGACCCAA
1 CCCATTTTTCAGACAGACCTTCGACCCAA
3217757 CCCAT
1 CCCAT
3217762 GGATAAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.24, C:0.41, G:0.13, T:0.22
Consensus pattern (29 bp):
CCCATTTTTCAGACAGACCTTCGACCCAA
Found at i:3221113 original size:11 final size:11
Alignment explanation
Indices: 3221074--3221114 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
3221064 CTTCTCTCTC
3221074 TTTTTCTTTTAT
1 TTTTTCTTTT-T
3221086 TTTTTCTTTTT
1 TTTTTCTTTTT
**
3221097 AATTTCTTTTT
1 TTTTTCTTTTT
3221108 TTTTTCT
1 TTTTTCT
3221115 CGGGAGATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:3224751 original size:14 final size:14
Alignment explanation
Indices: 3224723--3224760 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
3224713 ATTATATTTT
*
3224723 TTAAAAAAATTATA
1 TTAAAAAAATAATA
3224737 -TAAAAATAATAATA
1 TTAAAAA-AATAATA
3224751 TTAAAAAAAT
1 TTAAAAAAAT
3224761 TTAATACGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 6 0.29
14 9 0.43
15 6 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
TTAAAAAAATAATA
Found at i:3227398 original size:5 final size:5
Alignment explanation
Indices: 3227388--3227425 Score: 67
Period size: 5 Copynumber: 7.4 Consensus size: 5
3227378 TATTTTTATT
3227388 TAATA TAATA TAATA TAATA TAATA TAAATA TAATA TA
1 TAATA TAATA TAATA TAATA TAATA T-AATA TAATA TA
3227426 TATTTTAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 27 0.84
6 5 0.16
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
TAATA
Found at i:3227428 original size:15 final size:16
Alignment explanation
Indices: 3227390--3227448 Score: 61
Period size: 15 Copynumber: 3.8 Consensus size: 16
3227380 TTTTTATTTA
3227390 ATATAATATAATATA-
1 ATATAATATAATATAT
3227405 ATATAATATAAATATAAT
1 ATATAATAT-AATAT-AT
* *
3227423 ATATATTTTAA-ATAT
1 ATATAATATAATATAT
3227438 AT-TAATATAAT
1 ATATAATATAAT
3227449 TTTTTAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 6 0.17
15 13 0.36
16 7 0.19
17 3 0.08
18 7 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATATAATATAATATAT
Found at i:3227434 original size:18 final size:16
Alignment explanation
Indices: 3227388--3227447 Score: 72
Period size: 16 Copynumber: 3.8 Consensus size: 16
3227378 TATTTTTATT
3227388 TAATATAATAT-AATA
1 TAATATAATATAAATA
3227403 TAATATAATATAAATA
1 TAATATAATATAAATA
*
3227419 TAATATATATTTTAAATA
1 TAATATA-A-TATAAATA
3227437 T-AT-TAATATAA
1 TAATATAATATAA
3227448 TTTTTTAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
14 4 0.10
15 12 0.30
16 13 0.32
17 3 0.08
18 8 0.20
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATATAATATAAATA
Found at i:3227444 original size:26 final size:26
Alignment explanation
Indices: 3227387--3227448 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
3227377 TTATTTTTAT
3227387 TTAATATAATATAATATAATATAATA
1 TTAATATAATATAATATAATATAATA
* *
3227413 TAAATATAATATATATTTTAA-AT-ATA
1 TTAATATAATATA-A-TATAATATAATA
3227439 TTAATATAAT
1 TTAATATAAT
3227449 TTTTTAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
26 24 0.77
27 3 0.10
28 4 0.13
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
TTAATATAATATAATATAATATAATA
Found at i:3227472 original size:23 final size:22
Alignment explanation
Indices: 3227419--3227468 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
3227409 AATATAAATA
* *
3227419 TAATAT-ATATTTTAAATATAT
1 TAATATAATTTTTTAAATATAG
3227440 TAATATAATTTTTTAAA-ATAG
1 TAATATAATTTTTTAAATATAG
3227461 TAATATAA
1 TAATATAA
3227469 AATTATGACT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 17 0.65
22 9 0.35
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
TAATATAATTTTTTAAATATAG
Found at i:3228932 original size:13 final size:13
Alignment explanation
Indices: 3228914--3228964 Score: 68
Period size: 13 Copynumber: 3.9 Consensus size: 13
3228904 AGTTTGGCAA
*
3228914 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
3228927 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
3228940 TGC-TGTGAAAAAG
1 TGCTTTTG-AAAAG
3228953 TGCTTTTGAAAA
1 TGCTTTTGAAAA
3228965 ATTTGGTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
12 3 0.09
13 27 0.82
14 3 0.09
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.35
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:3231356 original size:28 final size:28
Alignment explanation
Indices: 3231316--3231374 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
3231306 AGTTTTAAGT
3231316 TCTATATTAGTAGTACCTCATTGAACTA
1 TCTATATTAGTAGTACCTCATTGAACTA
3231344 TCTATATTAGTAGTACCTCATTGAACTA
1 TCTATATTAGTAGTACCTCATTGAACTA
3231372 TCT
1 TCT
3231375 TCTTTTTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.41
Consensus pattern (28 bp):
TCTATATTAGTAGTACCTCATTGAACTA
Found at i:3232265 original size:19 final size:18
Alignment explanation
Indices: 3232237--3232275 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
3232227 TACTAGCTCA
*
3232237 AATTAAAAAATTTAACATT
1 AATTAAAAAATATAA-ATT
*
3232256 AATTACAAAATATAAATT
1 AATTAAAAAATATAAATT
3232274 AA
1 AA
3232276 CAATAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (18 bp):
AATTAAAAAATATAAATT
Found at i:3233123 original size:6 final size:6
Alignment explanation
Indices: 3233112--3233154 Score: 86
Period size: 6 Copynumber: 7.2 Consensus size: 6
3233102 AACTAAATTT
3233112 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA T
3233155 TTTAAATTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:3237757 original size:212 final size:210
Alignment explanation
Indices: 3237387--3237815 Score: 781
Period size: 212 Copynumber: 2.0 Consensus size: 210
3237377 CCTTTAACCA
*
3237387 AATGTCTTTTAAGCTAGATACATGTGCTTCATTTCAAACAAGTGGAATTGGTGTTCCCTTCTGAT
1 AATGTCTTTTAAGCTAGATACATGTGCTGCATTTCAAACAAGTGGAATTGGTGTTCCCTTCTGAT
3237452 TTCTTAGAATAAGAAAGGGTTTTTGATTTTGGGCTATAGTCTTAGGAAGAAAGCTGAGCATGCTT
66 TTCTTAGAATAAGAAAGGGTTTTTGATTTTGGGCTATAGTCTTAGGAAGAAAGCTGAGCATGCTT
*
3237517 GTTTTAGCCTCGTGAGTCTCAGTATCCACATCCGAAAGAAAATCAGTCCAGAGATCGATAAATTC
131 GTTTTAGCCTCGTGAATCTCAGTATCCACATCCGAAAGAAAATCAGTCCAGAG--CGATAAATTC
3237582 TACTAATGGTCCTCTCT
194 TACTAATGGTCCTCTCT
*
3237599 AATGTCTTTTAAGCTAGATACATGTGCTGCATTTCAAACAAGTGGAATTGGTGTTCCCTTTTGAT
1 AATGTCTTTTAAGCTAGATACATGTGCTGCATTTCAAACAAGTGGAATTGGTGTTCCCTTCTGAT
3237664 TTCTTAGAATAAGAAAGGGTTTTCTG-TTTTGGGCTATAGTCTTAGGAAGAAAGCTGAGCATGCT
66 TTCTTAGAATAAGAAAGGGTTTT-TGATTTTGGGCTATAGTCTTAGGAAGAAAGCTGAGCATGCT
3237728 TGTTTTAGCCTCGTGAATCTC-GCTATCCACATCCGAAAGAAAATCAGTCCAGAGCGATAAATTC
130 TGTTTTAGCCTCGTGAATCTCAG-TATCCACATCCGAAAGAAAATCAGTCCAGAGCGATAAATTC
3237792 TACTAATGGTCCTCTCT
194 TACTAATGGTCCTCTCT
3237809 AATGTCT
1 AATGTCT
3237816 CTGTTTCAGT
Statistics
Matches: 212, Mismatches: 3, Indels: 6
0.96 0.01 0.03
Matches are distributed among these distances:
210 34 0.16
211 1 0.00
212 175 0.83
213 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (210 bp):
AATGTCTTTTAAGCTAGATACATGTGCTGCATTTCAAACAAGTGGAATTGGTGTTCCCTTCTGAT
TTCTTAGAATAAGAAAGGGTTTTTGATTTTGGGCTATAGTCTTAGGAAGAAAGCTGAGCATGCTT
GTTTTAGCCTCGTGAATCTCAGTATCCACATCCGAAAGAAAATCAGTCCAGAGCGATAAATTCTA
CTAATGGTCCTCTCT
Found at i:3238788 original size:22 final size:23
Alignment explanation
Indices: 3238746--3238789 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
3238736 ATTTAATGTT
*
3238746 TAATTTGATACTTATATTTTTTC
1 TAATTTAATACTTATATTTTTTC
*
3238769 TAATTTAATATTTA-ATTTTTT
1 TAATTTAATACTTATATTTTTT
3238790 TTGTCTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (23 bp):
TAATTTAATACTTATATTTTTTC
Found at i:3243544 original size:8 final size:8
Alignment explanation
Indices: 3243531--3243556 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
3243521 AATCTCAGCA
3243531 ATGCATAC
1 ATGCATAC
3243539 ATGCATAC
1 ATGCATAC
3243547 ATGCATAC
1 ATGCATAC
3243555 AT
1 AT
3243557 ATATATCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.27
Consensus pattern (8 bp):
ATGCATAC
Found at i:3264376 original size:33 final size:32
Alignment explanation
Indices: 3264333--3264468 Score: 166
Period size: 33 Copynumber: 4.1 Consensus size: 32
3264323 AGAAAGAAAG
3264333 AATAACAATCCATTAGATTAAATTCATTAAAA
1 AATAACAATCCATTAGATTAAATTCATTAAAA
* *
3264365 TAATAATAATCCATTAGATTAAATTCATTGAAA
1 -AATAACAATCCATTAGATTAAATTCATTAAAA
*
3264398 AA-AGCAATCCATTAGATTAAATTCATTAAAAAAA
1 AATAACAATCCATTAGATTAAATTCATT---AAAA
* *
3264432 GAATAACAATCCATAAAGATTAAATTCGTTAAAA
1 -AATAACAATCCAT-TAGATTAAATTCATTAAAA
3264466 AAT
1 AAT
3264469 CGCAATGAAA
Statistics
Matches: 89, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
31 23 0.26
32 2 0.02
33 33 0.37
34 7 0.08
35 2 0.02
36 9 0.10
37 13 0.15
ACGTcount: A:0.53, C:0.11, G:0.06, T:0.30
Consensus pattern (32 bp):
AATAACAATCCATTAGATTAAATTCATTAAAA
Found at i:3264410 original size:31 final size:31
Alignment explanation
Indices: 3264338--3264432 Score: 145
Period size: 31 Copynumber: 3.0 Consensus size: 31
3264328 GAAAGAATAA
*
3264338 CAATCCATTAGATTAAATTCATTAAAATAATAA
1 CAATCCATTAGATTAAATTCATTAAAA-AA-AG
* *
3264371 TAATCCATTAGATTAAATTCATTGAAAAAAG
1 CAATCCATTAGATTAAATTCATTAAAAAAAG
3264402 CAATCCATTAGATTAAATTCATTAAAAAAAG
1 CAATCCATTAGATTAAATTCATTAAAAAAAG
3264433 AATAACAATC
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
31 30 0.53
32 2 0.04
33 25 0.44
ACGTcount: A:0.51, C:0.12, G:0.06, T:0.32
Consensus pattern (31 bp):
CAATCCATTAGATTAAATTCATTAAAAAAAG
Found at i:3270395 original size:42 final size:42
Alignment explanation
Indices: 3270349--3270433 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
3270339 ATCTTAATGT
3270349 ATAAAAAATTAATCCTTTCAAATTTGAATGATAAGAAGGGAG
1 ATAAAAAATTAATCCTTTCAAATTTGAATGATAAGAAGGGAG
3270391 ATAAAAAATTAATCCTTTCAAATTTGAATGATAAGAAGGGAG
1 ATAAAAAATTAATCCTTTCAAATTTGAATGATAAGAAGGGAG
3270433 A
1 A
3270434 AGTATACTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.48, C:0.07, G:0.16, T:0.28
Consensus pattern (42 bp):
ATAAAAAATTAATCCTTTCAAATTTGAATGATAAGAAGGGAG
Found at i:3271993 original size:15 final size:15
Alignment explanation
Indices: 3271973--3272007 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
3271963 TAGTGAGAAA
3271973 AAGGAGCGGAAAGTT
1 AAGGAGCGGAAAGTT
3271988 AAGGAGCGGAAAGTT
1 AAGGAGCGGAAAGTT
3272003 AAGGA
1 AAGGA
3272008 TACTTCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.43, C:0.06, G:0.40, T:0.11
Consensus pattern (15 bp):
AAGGAGCGGAAAGTT
Found at i:3277214 original size:18 final size:17
Alignment explanation
Indices: 3277186--3277239 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
3277176 CATTTAAGAT
3277186 ATTTTATATTTATATAA
1 ATTTTATATTTATATAA
3277203 ATTTTGATATTT-TA-ATA
1 ATTTT-ATATTTATATA-A
3277220 A-TTTATATTATATATAA
1 ATTTTATATT-TATATAA
3277237 ATT
1 ATT
3277240 CTAACGTTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
15 5 0.16
16 5 0.16
17 13 0.42
18 8 0.26
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (17 bp):
ATTTTATATTTATATAA
Found at i:3277467 original size:17 final size:18
Alignment explanation
Indices: 3277448--3277486 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
3277438 GTTGTTGTTC
3277448 TTTC-CTTTTCTTTTTTCT
1 TTTCTCTTTT-TTTTTTCT
*
3277466 TTTCTCTTTTTTTTTTGT
1 TTTCTCTTTTTTTTTTCT
3277484 TTT
1 TTT
3277487 AATCTTCTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (18 bp):
TTTCTCTTTTTTTTTTCT
Found at i:3286554 original size:115 final size:115
Alignment explanation
Indices: 3286352--3286585 Score: 459
Period size: 115 Copynumber: 2.0 Consensus size: 115
3286342 AGAAGAATGC
*
3286352 ATAGCATAATTAAGCATATCTGCATAGCACCATGCTTAACATCAAAAGAATGCAATATGACATTG
1 ATAGCATAATTAAGCACATCTGCATAGCACCATGCTTAACATCAAAAGAATGCAATATGACATTG
3286417 ATAAGGGTACTCAGAAATTTTCATCAAACTAGAACATTCTTACAAATTAG
66 ATAAGGGTACTCAGAAATTTTCATCAAACTAGAACATTCTTACAAATTAG
3286467 ATAGCATAATTAAGCACATCTGCATAGCACCATGCTTAACATCAAAAGAATGCAATATGACATTG
1 ATAGCATAATTAAGCACATCTGCATAGCACCATGCTTAACATCAAAAGAATGCAATATGACATTG
3286532 ATAAGGGTACTCAGAAATTTTCATCAAACTAGAACATTCTTACAAATTAG
66 ATAAGGGTACTCAGAAATTTTCATCAAACTAGAACATTCTTACAAATTAG
3286582 ATAG
1 ATAG
3286586 TTGTTGTGAC
Statistics
Matches: 118, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
115 118 1.00
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.27
Consensus pattern (115 bp):
ATAGCATAATTAAGCACATCTGCATAGCACCATGCTTAACATCAAAAGAATGCAATATGACATTG
ATAAGGGTACTCAGAAATTTTCATCAAACTAGAACATTCTTACAAATTAG
Found at i:3292387 original size:30 final size:30
Alignment explanation
Indices: 3292341--3292431 Score: 128
Period size: 30 Copynumber: 3.0 Consensus size: 30
3292331 ATAAGTTTGT
* *
3292341 TTCTAATAATACTGCTTGTGATGAAAGAAA
1 TTCTGATAATATTGCTTGTGATGAAAGAAA
* * *
3292371 TTTTGATAATATTGCTTGTGGTGAACGAAA
1 TTCTGATAATATTGCTTGTGATGAAAGAAA
*
3292401 TTCTGATAATATTACTTGTGATGAAAGAAA
1 TTCTGATAATATTGCTTGTGATGAAAGAAA
3292431 T
1 T
3292432 GAGAAACAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.37
Consensus pattern (30 bp):
TTCTGATAATATTGCTTGTGATGAAAGAAA
Found at i:3296542 original size:85 final size:85
Alignment explanation
Indices: 3296438--3297066 Score: 271
Period size: 85 Copynumber: 7.1 Consensus size: 85
3296428 GCTTGAGTCG
* * * * *
3296438 TAATATTTTTTTTAGAATAATTAAAATAATTTCTATTTAATTT-ATTTCATT-TTCGGGATATTT
1 TAATATTTTTTTCAAAATAATTATAATAATTGCTATTT-ATTTCATTTCATTATT-GGGATACTT
* * **
3296501 G-GACTTGAGTCTGGTGTTGTAA
64 GAGA-TTGAGCCTGGTGCTACAA
* *
3296523 TAATATTTTTTTCAAAATAATTATAATGATTGCTATTTATTTCATTTCATTATTGGGGTACTTGA
1 TAATATTTTTTTCAAAATAATTATAATAATTGCTATTTATTTCATTTCATTATTGGGATACTTGA
3296588 GATTGAGCCTGGTGCTACAA
66 GATTGAGCCTGGTGCTACAA
* * *
3296608 TAATATTTTTTTTTCGAAATAATTATAATAATTGC-ATTTTTTTTCATTTCATTCCCGAGAGTCG
1 TAATA--TTTTTTTCAAAATAATTATAATAATTGCTA-TTTATTTCATTTCATT------A-TTG
* * * * *
3296672 GGACACTTGGGCTTGAGTCTGGTGCTGCAA
56 GGATACTTGAGATTGAGCCTGGTGCTACAA
* * * *
3296702 TAATTTTTTTTTTAATTTTCAAAATACTTATACTATATAT--TATTTATTTCATTTCATTATCAG
1 TAA-----TATTT--TTTTCAAAATAATTATAATA-AT-TGCTATTTATTTCATTTCATTAT-TG
* * * * * *
3296765 GG-CACTTGGGCTTGAGACTCGTGCTGCAA
56 GGATACTTGAGATTGAGCCTGGTGCTACAA
* * * * * ** ** *
3296794 TATTTTTTTTATTTTCTAAAATAACTACAATAATTGCTATTTGTTTCATTTCATTCCTCAGAGAC
1 TA--ATATTT-TTTTC-AAAATAATTATAATAATTGCTATTTATTTCATTTCATTATTGGGATAC
* * * *
3296859 TT-AGGTTTGAGGCTGGTGTTGCAA
62 TTGA-GATTGAGCCTGGTGCTACAA
** * *
3296883 TAATATTTTTTTATTTTCTGGAATAATTATAATAATTGCTATTTATTTCACTTCATTCA-TAGG-
1 TAATA----TTT-TTTTC-AAAATAATTATAATAATTGCTATTTATTTCATTTCATT-ATTGGGA
* ** * *
3296946 CACTTG-GACTTGAGCCTGAAGCTCCAG
59 TACTTGAGA-TTGAGCCTGGTGCTACAA
* * * * *
3296973 T-A-ATTTTTTT-GAAATAATTAAAATAATTGTTATTTATTTCATTTCATTTTTGAGG-CACTTG
1 TAATATTTTTTTCAAAATAATTATAATAATTGCTATTTATTTCATTTCATTATTG-GGATACTTG
* * *
3297034 AGTTTGAGTCTGGTGCTGAAAA
65 AGATTGAGCCTGGTGCT-ACAA
3297056 TAATATTTTTT
1 TAATATTTTTT
3297067 AATTCTTGGA
Statistics
Matches: 422, Mismatches: 78, Indels: 88
0.72 0.13 0.15
Matches are distributed among these distances:
81 35 0.08
82 19 0.05
83 7 0.02
84 8 0.02
85 75 0.18
86 5 0.01
87 43 0.10
88 10 0.02
89 57 0.14
90 17 0.04
91 44 0.10
92 28 0.07
93 5 0.01
94 29 0.07
97 3 0.01
99 33 0.08
100 3 0.01
101 1 0.00
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (85 bp):
TAATATTTTTTTCAAAATAATTATAATAATTGCTATTTATTTCATTTCATTATTGGGATACTTGA
GATTGAGCCTGGTGCTACAA
Found at i:3297032 original size:261 final size:261
Alignment explanation
Indices: 3296741--3297243 Score: 595
Period size: 261 Copynumber: 1.9 Consensus size: 261
3296731 ATACTATATA
* * *
3296741 TTATTTATTTCATTTCATTATCAGGGCACTTGGGCTTGAGACTCGTGCTG-CAAT-ATTTTTTTT
1 TTATTTATTTCATTTCATTATCAGGGCACTTGAGCTTGAGACTCGTGCTGAAAATAATATTTTTT
* * * *
3296804 ATTTTCTAAAATAACTACAATAATTGCTATTTGTTTCATTTCATTCCTCAGAG-ACTTAGGTTTG
66 A-ATTCTAAAATAACTACAATAATTGCTATTTATTTCATTTCATTCAT-AGAGCACTTAGGCTTG
* ** *
3296868 AGGCTGGTGTTGCAATAATATTTTTTTATTTTCTGGAATAATTATAATAATTGCTATTTATTTCA
129 AAGAAGGTGTTGCAATAATA-TTTTTTATTTTCTGAAATAATTATAATAATTGCTATTTATTTCA
* *
3296933 CTTCA-TTCA-TAGGCACTTGGACTTGAGCCTGAAGCTCCAGTAATTTTTTTGAAATAATTAAAA
193 CTTCATTTCAGT--GCACTTGGACTTGAGCCTGAAGCTACAATAATTTTTTTGAAATAATTAAAA
3296996 TAATTG
256 TAATTG
** * * *
3297002 TTATTTATTTCATTTCATT-TTTGAGGCACTTGAGTTTGAGTCTGGTGCTGAAAATAATATTTTT
1 TTATTTATTTCATTTCATTATCAG-GGCACTTGAGCTTGAGACTCGTGCTGAAAATAATATTTTT
*** * * * * * *
3297066 TAATTCTTGGATAACTATAATAATTGTTATTTATTTCATTTTATTCATGGGGCACTTGGGCTTGA
65 TAATTCTAAAATAACTACAATAATTGCTATTTATTTCATTTCATTCATAGAGCACTTAGGCTTGA
** * *
3297131 AGAAGGTGTTGTGATAATATTTTTTATTTTTTGAAATAATTATAATAATTGCTATTTATTTCATT
130 AGAAGGTGTTGCAATAATATTTTTTATTTTCTGAAATAATTATAATAATTGCTATTTATTTCACT
* ** *
3297196 TCATTTCAGTGCACTTGGGCTTGAGTTTGATGCTACAATAATTTTTTT
195 TCATTTCAGTGCACTTGGACTTGAGCCTGAAGCTACAATAATTTTTTT
3297244 CTATTTTTTT
Statistics
Matches: 201, Mismatches: 35, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
260 2 0.01
261 121 0.60
262 68 0.34
263 10 0.05
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (261 bp):
TTATTTATTTCATTTCATTATCAGGGCACTTGAGCTTGAGACTCGTGCTGAAAATAATATTTTTT
AATTCTAAAATAACTACAATAATTGCTATTTATTTCATTTCATTCATAGAGCACTTAGGCTTGAA
GAAGGTGTTGCAATAATATTTTTTATTTTCTGAAATAATTATAATAATTGCTATTTATTTCACTT
CATTTCAGTGCACTTGGACTTGAGCCTGAAGCTACAATAATTTTTTTGAAATAATTAAAATAATT
G
Found at i:3297041 original size:172 final size:172
Alignment explanation
Indices: 3296812--3297130 Score: 412
Period size: 172 Copynumber: 1.9 Consensus size: 172
3296802 TTATTTTCTA
* *
3296812 AAATAACTACAATAATTGCTATTTGTTTCATTTCATTCCTCAGAGACTTAGGTTTGAGGCTGGTG
1 AAATAACTAAAATAATTGCTATTTATTTCATTTCATTCCTCAGAGACTTAGGTTTGAGGCTGGTG
* * * * *
3296877 TTG-CAATAATATTTTTTTATTTTCTGGAATAATTATAATAATTGCTATTTATTTCACTTCATTC
66 CTGAAAATAATATTTTTTAATTCT-TGG-ATAACTATAATAATTGCTATTTATTTCACTTCATTC
3296941 AT-AGGCACTTGGACTTGAGCCTGAAGCTCCAGTAATTTTTTTG
129 ATGAGGCACTTGGACTTGAGCCTGAAGCTCCAGTAATTTTTTTG
* * ** * *
3296984 AAATAATTAAAATAATTGTTATTTATTTCATTTCATTTTTGAG-GCACTT-GAGTTTGAGTCTGG
1 AAATAACTAAAATAATTGCTATTTATTTCATTTCATTCCTCAGAG-ACTTAG-GTTTGAGGCTGG
* * *
3297047 TGCTGAAAATAATATTTTTTAATTCTTGGATAACTATAATAATTGTTATTTATTTCATTTTATTC
64 TGCTGAAAATAATATTTTTTAATTCTTGGATAACTATAATAATTGCTATTTATTTCACTTCATTC
* *
3297112 ATGGGGCACTTGGGCTTGA
129 ATGAGGCACTTGGACTTGA
3297131 AGAAGGTGTT
Statistics
Matches: 125, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
171 36 0.29
172 72 0.58
173 17 0.14
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (172 bp):
AAATAACTAAAATAATTGCTATTTATTTCATTTCATTCCTCAGAGACTTAGGTTTGAGGCTGGTG
CTGAAAATAATATTTTTTAATTCTTGGATAACTATAATAATTGCTATTTATTTCACTTCATTCAT
GAGGCACTTGGACTTGAGCCTGAAGCTCCAGTAATTTTTTTG
Found at i:3297249 original size:90 final size:89
Alignment explanation
Indices: 3296444--3299112 Score: 1485
Period size: 90 Copynumber: 29.9 Consensus size: 89
3296434 GTCGTAATAT
* * * * * *
3296444 TTTTTTTAGAATAATTAAAATAATTTCTATTTAATTT-ATTTCATTTTC-GGGATATTTGGACTT
1 TTTTTTGA-AATAATTATAATAATTGCTATTT-ATTTCATTTCA-TTTCAGGG-CACTTGGGCTT
* * *
3296507 GAGTCTGGTGTTGTAATAA----TATT-
62 GAGTCTGGTGCTGCAATAATTTTTTTTA
** * ** * * *
3296530 TTTTTCAAAATAATTATAATGATTGCTATTTATTTCATTTCATTATTGGGGTACTTGAGATTGAG
1 TTTTTTGAAATAATTATAATAATTGCTATTTATTTCATTTCATT-TCAGGGCACTTGGGCTTGAG
* * *
3296595 CCTGGTGCTACAATAA--TATTTT-
65 TCTGGTGCTGCAATAATTTTTTTTA
* * *
3296617 TTTTTCGAAATAATTATAATAATTGC-ATTTTTTTTCATTTCATTCCCGAGAGTCGGGACACTTG
1 TTTTTTGAAATAATTATAATAATTGCTA-TTTATTTCATTTCATT-TC---A---GGG-CACTTG
3296681 GGCTTGAGTCTGGTGCTGCAATAATTTTTTTT-
57 GGCTTGAGTCTGGTGCTGCAATAATTTTTTTTA
* * *
3296713 TTAATTTTCAAAATACTTATACTATATAT--TATTTATTTCATTTCATTATCAGGGCACTTGGGC
1 TT--TTTT-GAAATAATTATAATA-AT-TGCTATTTATTTCATTTCATT-TCAGGGCACTTGGGC
* *
3296776 TTGAGACTCGTGCTGCAAT-ATTTTTTTTA
60 TTGAGTCTGGTGCTGCAATAATTTTTTTTA
* * * * * * * *
3296805 TTTTCTAAAATAACTACAATAATTGCTATTTGTTTCATTTCATTCCTCAGAG-ACTTAGGTTTGA
1 TTTTTTGAAATAATTATAATAATTGCTATTTATTTCATTTCATT--TCAGGGCACTTGGGCTTGA
* *
3296869 GGCTGGTGTTGCAATAATATTTTTTTA
64 GTCTGGTGCTGCAATAAT-TTTTTTTA
* * * * *
3296896 TTTTCTGGAATAATTATAATAATTGCTATTTATTTCACTTCA-TTCATAGGCACTTGGACTTGAG
1 TTTTTTGAAATAATTATAATAATTGCTATTTATTTCATTTCATTTCA-GGGCACTTGGGCTTGAG
* ** * *
3296960 CCTGAAGCTCCAGTAA-------T-
65 TCTGGTGCTGCAATAATTTTTTTTA
* * ** * *
3296977 TTTTTTGAAATAATTAAAATAATTGTTATTTATTTCATTTCATTTTTGAGGCACTTGAGTTTGAG
1 TTTTTTGAAATAATTATAATAATTGCTATTTATTTCATTTCATTTCAG-GGCACTTGGGCTTGAG
* *
3297042 TCTGGTGCTGAAAATAATATTTTTTA
65 TCTGGTGCTG-CAATAATTTTTTTTA
* * * * * *
3297068 ATTCTTG-GATAACTATAATAATTGTTATTTATTTCATTTTA-TTCATGGGGCACTTGGGCTTGA
1 TTTTTTGAAATAATTATAATAATTGCTATTTATTTCATTTCATTTCA--GGGCACTTGGGCTTG-
** * ** *
3297131 AG-AAGGTGTTGTGATAATATTTTTTA
63 AGTCTGGTGCTGCAATAATTTTTTTTA
*
3297157 TTTTTTGAAATAATTATAATAATTGCTATTTATTTCATTTCATTTCAGTGCACTTGGGCTTGAGT
1 TTTTTTGAAATAATTATAATAATTGCTATTTATTTCATTTCATTTCAGGGCACTTGGGCTTGAGT
* * *
3297222 TTGATGCTACAATAATTTTTTTCTA
66 CTGGTGCTGCAATAATTTTTTT-TA
* * * * * * * *
3297247 TTTTTTTTAAATAATTATAATAATTTCTATTTATTTCATTTTATTTCGGGGCATTTGAGTTTAAG
1 -TTTTTTGAAATAATTATAATAATTGCTATTTATTTCATTTCATTTCAGGGCACTTGGGCTTGAG
3297312 TCTGTGTTG-TGACAATATATTTTTATTT-
65 TCTG-G-TGCTG-CAATA-ATTTTT-TTTA
* *
3297340 TATTTTTAAGAATAA-T-T-AT-A-----ATTTATTTCATTTCA-TTCAAGGAGCACTTGGACTT
1 T-TTTTTGA-AATAATTATAATAATTGCTATTTATTTCATTTCATTTC-AGG-GCACTTGGGCTT
3297395 GAGT-TGGTGCTGCAAT-A-TTTTTTTA
62 GAGTCTGGTGCTGCAATAATTTTTTTTA
* *** ** * * * * *
3297420 CTTTCCAAAATAATTATAATAATTGCTATACATTTCATTTAATTCCCTGGGCATTTGGGATTGAG
1 TTTTTTGAAATAATTATAATAATTGCTATTTATTTCATTTCATT-TCAGGGCACTTGGGCTTGAG
* **
3297485 TCTGGTGCTGCAAAAAAATTTTTTA
65 TCTGGTGCTGCAATAATTTTTTTTA
* * ** * * * * * *
3297510 -CTGTCCAGAATAATTATAATATTTGCTATATGTTTCATTTAATTTTCA-AGCATTTGGGCTTGA
1 TTTTTTGA-AATAATTATAATAATTGCTATTTATTTCATTTCA-TTTCAGGGCACTTGGGCTTGA
*
3297573 GTCTGGTGCTGCAATAATATTTTGTTA
64 GTCTGGTGCTGCAATAAT-TTTTTTTA
* * * * * *
3297600 TTTTCTG---------GAATAATTGCAATTCA-TTCATTTCATTCCAGGGGCACTTGAGCTTGAG
1 TTTTTTGAAATAATTATAATAATTGCTATTTATTTCATTTCATTTCA-GGGCACTTGGGCTTGAG
* * ** *
3297655 TCTTGTGCTACAATAAAGTTATTTA
65 TCTGGTGCTGCAATAATTTTTTTTA
* * * * * * * *
3297680 ATTTTTGAATTAATTATAATAATTACTATTAATTT--TTTCA-TTCTTGGGAAACTTGGTCTGGA
1 TTTTTTGAAATAATTATAATAATTGCTATTTATTTCATTTCATTTC-AGGG-CACTTGGGCTTGA
** * * * * *
3297742 GTCTATTACTACACTAATATTTCTTA
64 GTCTGGTGCTGCAATAATTTTTTTTA
* * * * * *
3297768 TTTTCTAAAATAATTATAATAATTTG-TATTTATTTCATTTCATTTCCAAGACACTTAGGTTTGA
1 TTTTTTGAAATAATTATAATAA-TTGCTATTTATTTCATTTCATTT-CAGGGCACTTGGGCTTGA
* * * *
3297832 ATATGGTGTTGCAATAA-ATTTTTTA
64 GTCTGGTGCTGCAATAATTTTTTTTA
** ** * * * * *
3297857 ACTTCAGGAATAATTATAAGAATTGCTATTTAATTT-TTTTCATTTCCGCGGTACTTGGGCTTGA
1 TTTTTTGAAATAATTATAATAATTGCTATTT-ATTTCATTTCATTTCAG-GGCACTTGGGCTTGA
* *
3297921 GTTTAGTGCATTGCAATTACATTTTTTTTTA
64 GTCTGGTGC--TGCAA-TA-A-TTTTTTTTA
*** * * * * * *
3297952 TTTTCCAAAATAGTTATAATAATTGCTATTTATTTAATTTCATTCTCCGGACATTTGGGATTGAG
1 TTTTTTGAAATAATTATAATAATTGCTATTTATTTCATTTCATT-TCAGGGCACTTGGGCTTGAG
3298017 TCTGGTGCTGCAATAATCTTTTTTTA
65 TCTGGTGCTGCAATAAT-TTTTTTTA
* * * * * *
3298043 TATTTCGAAATCATTATAATAATTGC-AGCTTATTTCATTTCATTTTC-GGGACACTTGAGTTTG
1 TTTTTTGAAATAATTATAATAATTGCTA-TTTATTTCATTTCA-TTTCAGGG-CACTTGGGCTTG
*
3298106 AGTCTAGTGCTGCAATAATTTTTTTTA
63 AGTCTGGTGCTGCAATAATTTTTTTTA
** ** * * * * * * *
3298133 TTTTTCAAAATAATTATAATACCTGTTATTGAATTT-ATTTCATTCCCATGACACTTTGGCTAGA
1 TTTTTTGAAATAATTATAATAATTGCTATT-TATTTCATTTCATT-TCAGGGCACTTGGGCTTGA
*
3298197 GTCTGGTGTTGCAATAATATTTTTTTA
64 GTCTGGTGCTGCAATAAT-TTTTTTTA
*** * * * *
3298224 -TTTCCAAAATAATTATAATAATTGCTATTTATTTCTTTTAATTCTCAGGGCACTCGGGCTTGAT
1 TTTTTTGAAATAATTATAATAATTGCTATTTATTTCATTTCATT-TCAGGGCACTTGGGCTTGAG
* * ** *
3298288 TTTGGTACTATAATGATATTTTTTTA
65 TCTGGTGCTGCAATAAT-TTTTTTTA
* *
3298314 TTTTTTGAAATAATTATAATAATTGCTATCCT-TTTCA-TTCA-TT--GGACACTTGGGCTTGAG
1 TTTTTTGAAATAATTATAATAATTGCTAT-TTATTTCATTTCATTTCAGGGCACTTGGGCTTGAG
*
3298374 TCTGGTGCTGTAATAA-TTTTTTTA
65 TCTGGTGCTGCAATAATTTTTTTTA
* * * * *
3298398 TTTTTCGAAATAATTATGATAATTGCAAATTTATTTCATTTTATTCTCGGGGCACTTGGGCTTGA
1 TTTTTTGAAATAATTATAATAATTGC-TATTTATTTCATTTCATT-TCAGGGCACTTGGGCTTGA
* *
3298463 GTCTAGTGCTGCAACAATATTTTTTTA
64 GTCTGGTGCTGCAATAAT-TTTTTTTA
* * * * * ** ** * *
3298490 -TTTTTGAAATATTTATAATAGTTGCAATTTATTTTATTTTATTTTTGGGTTCTTAGGCTTGAAT
1 TTTTTTGAAATAATTATAATAATTGCTATTTATTTCATTTCATTTCAGGGCACTTGGGCTTGAGT
* * * * *
3298554 CCGATGTTGAAATAA-TATTTTTA
66 CTGGTGCTGCAATAATTTTTTTTA
* * * * *
3298577 -TTTTAGGAATAATTATAATAATTGCAAATTTATTTCATTTCATTTTCAGGACACTTGGGTTTGA
1 TTTTTTGAAATAATTATAATAATTGC-TATTTATTTCATTTCA-TTTCAGGGCACTTGGGCTTGA
* *
3298641 GTCTAGTGC-ACTAATAATATTTTTTTTA
64 GTCTGGTGCTGC-AAT-A-ATTTTTTTTA
* * * * * *
3298669 TTTTTT--AATAATTATAATAACTGATATTTATTTCATTTCATTCCCGAGGCATTTGGCCTTGAG
1 TTTTTTGAAATAATTATAATAATTGCTATTTATTTCATTTCATTTCAG-GGCACTTGGGCTTGAG
*
3298732 TCTGGTGCTACAATAAATTTTATTTGATA
65 TCTGGTGCTGCAAT-AATTTT-TTT--TA
* * * * * *
3298761 TTTTTTGGAATAGTTATAATAATTGGTATTTATTTTATTTCATTTTCATGGCACTTGGGCTTTAG
1 TTTTTTGAAATAATTATAATAATTGCTATTTATTTCATTTCA-TTTCAGGGCACTTGGGCTTGAG
* * *
3298826 CCAT-GTGTTGTAATAATTTTTTTTA
65 TC-TGGTGCTGCAATAATTTTTTTTA
* * * ** *
3298851 TTTTTTTGAAATAATTATAATAATTACTATTTATTTTATTTCATTATCAAGATATTTGGGCTTGA
1 -TTTTTTGAAATAATTATAATAATTGCTATTTATTTCATTTCATT-TCAGGGCACTTGGGCTTGA
* * **
3298916 GTTTGGCGCTGCAATAATAATTTTTA
64 GTCTGGTGCTGCAATAATTTTTTTTA
** ** *** *
3298942 -TTTTCAAGAATAATTATGTTAATAATTATTTATTTCA-TT--TTT-AGGGTACTTGGGCTTGAG
1 TTTTTTGA-AATAATTATAATAATTGCTATTTATTTCATTTCATTTCAGGGCACTTGGGCTTGAG
* * * * *
3299002 TTTAGTGTTGCGATAATATGTTTTTA
65 TCTGGTGCTGCAATAAT-TTTTTTTA
* * * * * *
3299028 ATTTCTGATATAATTATAATAATTTCTATTTATTTCATTTCATTCCTC-GAGCACTTGGGCTTGT
1 TTTTTTGAAATAATTATAATAATTGCTATTTATTTCATTTCATT--TCAGGGCACTTGGGCTTGA
*
3299092 GTAC-GGTGTTGCAATAATTTT
64 GT-CTGGTGCTGCAATAATTTT
3299113 AATAATTGCT
Statistics
Matches: 1984, Mismatches: 442, Indels: 310
0.73 0.16 0.11
Matches are distributed among these distances:
78 5 0.00
79 13 0.01
80 23 0.01
81 77 0.04
82 23 0.01
83 10 0.01
84 45 0.02
85 102 0.05
86 80 0.04
87 110 0.06
88 99 0.05
89 269 0.14
90 439 0.22
91 387 0.20
92 65 0.03
93 36 0.02
94 92 0.05
95 62 0.03
96 12 0.01
98 3 0.00
99 28 0.01
100 3 0.00
101 1 0.00
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.47
Consensus pattern (89 bp):
TTTTTTGAAATAATTATAATAATTGCTATTTATTTCATTTCATTTCAGGGCACTTGGGCTTGAGT
CTGGTGCTGCAATAATTTTTTTTA
Found at i:3298332 original size:271 final size:266
Alignment explanation
Indices: 3296530--3299090 Score: 923
Period size: 275 Copynumber: 9.6 Consensus size: 266
3296520 TAATAATATT
* * * **** * *
3296530 TTTTTCAAAATAATTATAATGATTGCTATTTATTTCATTTCATTATTGGGGTAC-TTGAGATTGA
1 TTTTTC-AAATAATTATAATAACTGATATTTATTTCATTTCATT-CCCAGGCACTTTG-GCTTGA
* * * *
3296594 GCCTGGTGCTACAATAATA-TTTTTT-TTT-CGAAATAATTATAATAATTGC-ATTTTTTTTCAT
63 GTCTGGTGCTGCAATAATATTTTTTTATTTCCAAAATAATTATAATAATTGCTATTTATTTT--T
* * * * *
3296655 TTCATTCCCGAGAGTCGGGACACTTGGGCTTGAGTCTGGTGCTGCAATAATTTTTTTTTTAATTT
126 TTAATTCTC---A---GGG-CACTTGGGCTTGAATCTGGTGCT-AAAT-A-TATTTTTTT-ATTT
* * * * * *
3296720 TCA-AAATACTTATACTATATATT----ATTTATTTCATTTCATTATCAGGGCACTTGGGCTTGA
180 TTAGAAATAATTATA--ATA-ATTGCAAACTTATTTCATTTCATTTTC-GGACACTTGGGTTTGA
* *
3296780 GACTCGTGCTGCAAT-ATTTTTTTTA
241 GTCTAGTGCTGCAATAATTTTTTTTA
* * * * * * * *
3296805 TTTTCTAAAATAACTACAATAATTGCTATTTGTTTCATTTCATTCCTCAGAG-ACTTAGGTTTGA
1 TTTT-TCAAATAATTATAATAACTGATATTTATTTCATTTCATTCC-CAG-GCACTTTGGCTTGA
* * *** **
3296869 GGCTGGTGTTGCAATAATATTTTTTTATTTTCTGGAATAATTATAATAATTGCTATTTATTTCAC
63 GTCTGGTGCTGCAATAATATTTTTTTA-TTTCCAAAATAATTATAATAATTGCTATTTATTT-TT
* * ** ** * *
3296934 TTCATTCAT-A-GGCACTTGGACTTGAGCCTGAAGCTCCAGTA-A-----TT-TTTTT-GAAATA
126 TTAATTC-TCAGGGCACTTGGGCTTGAATCTGGTGCT-AAATATATTTTTTTATTTTTAGAAATA
* ** * * * * *
3296989 ATTAAAATAATTG-TTATTTATTTCATTTCATTTTTGAGGCACTTGAGTTTGAGTCTGGTGCTGA
189 ATTATAATAATTGCAAACTTATTTCATTTCATTTTCG-GACACTTGGGTTTGAGTCTAGTGCTG-
* *
3297053 AAATAATATTTTTTAA
252 CAATAAT-TTTTTTTA
* ** * * * * *** *
3297069 TTCTT-GGATAACTATAATAATTGTTATTTATTTCATTTTATTCATGGGGCACTTGGGCTTGAAG
1 TTTTTCAAATAATTATAATAACTGATATTTATTTCATTTCATTC-CCAGGCACTTTGGCTTG-AG
** * ** *** *
3297133 -AAGGTGTTGTGATAATA-TTTTTTATTTTTTGAAATAATTATAATAATTGCTATTTATTTCATT
64 TCTGGTGCTGCAATAATATTTTTTTA-TTTCCAAAATAATTATAATAATTGCTATTTATTT-TTT
* * * * * **
3297196 TCATT-TCAGTGCACTTGGGCTTGAGTTTGATGCTACAATA-ATTTTTTTCTATTTTTTTTAAAT
127 TAATTCTCAGGGCACTTGGGCTTGAATCTGGTGCTA-AATATA-TTTTTT-TA-TTTTTAGAAAT
* * * * * * * * *
3297259 AATTATAATAATTTC-TATTTATTTCATTTTA-TTTCGGGGCATTTGAGTTTAAGTCT-GTGTTG
188 AATTATAATAATTGCAAACTTATTTCATTTCATTTTC-GGACACTTGGGTTTGAGTCTAGTG--C
3297321 TGACAATATATTTTTATTTTA
250 TG-CAATA-A-TTTT-TTTTA
* * *
3297342 TTTTT--AA-GA--ATAATTA-T-A-ATTTATTTCATTTCATT-CAAGGAGCAC-TTGGACTTGA
1 TTTTTCAAATAATTATAATAACTGATATTTATTTCATTTCATTCCCA-G-GCACTTTGG-CTTGA
** *
3297397 GT-TGGTGCTGC---AATATTTTTTTACTTTCCAAAATAATTATAATAATTGCTATACATTTCAT
63 GTCTGGTGCTGCAATAATATTTTTTTA-TTTCCAAAATAATTATAATAATTGCTATTTATTT-TT
* * * * * * * * **
3297458 TTAATTCCCTGGGCATTTGGGATTGAGTCTGGTGCTGCAAA-AAAATTTTTTACTGTCCAG-AAT
126 TTAATTCTCAGGGCACTTGGGCTTGAATCTGGTGCT--AAATATATTTTTTTA-TTTTTAGAAAT
* * * * * * * *
3297521 AATTATAATATTTGC-TA-TATGTTTCATTTAATTTTC-AAGCATTTGGGCTTGAGTCTGGTGCT
188 AATTATAATAATTGCAAACT-TATTTCATTTCATTTTCGGA-CACTTGGGTTTGAGTCTAGTGCT
*
3297583 GCAATAATATTTTGTTA
251 GCAATAAT-TTTTTTTA
* *
3297600 -TTTTC---TGGA--ATAAT---TGCA-ATTCA-TTCATTTCATT-CCAGGGGCAC-TTGAGCTT
1 TTTTTCAAAT-AATTATAATAACTG-ATATTTATTTCATTTCATTCCCA--GGCACTTTG-GCTT
* * * * *** * * *
3297652 GAGTCTTGTGCTACAATAA-AGTTATTTAATTTTTGAATTAATTATAATAATTACTA-TTAATTT
61 GAGTCTGGTGCTGCAATAATA-TTTTTTTATTTCCAAAATAATTATAATAATTGCTATTTATTTT
* * * * * * ** * * *
3297715 TTTCATTCT-TGGGAAACTTGGTCTGGAGTCTATTACTACACTA-ATATTTCTTATTTTCTA-AA
125 TTTAATTCTCAGGG-CACTTGGGCTTGAATCTGGTGCTA-AATATAT-TTTTTTATTTT-TAGAA
* * * * * * * *
3297777 ATAATTATAATAATTTG--TATTTATTTCATTTCATTTCCAAGACACTTAGGTTTGAATATGGTG
186 ATAATTATAATAA-TTGCAAACTTATTTCATTTCATTTTC-GGACACTTGGGTTTGAGTCTAGTG
* *
3297840 TTGCAATAA-ATTTTTTA
249 CTGCAATAATTTTTTTTA
** * * * * * *
3297857 -ACTTCAGGAATAATTATAAGAATTGCTATTTAATTT-TTTTCATTTCCGC-GGTACTTGGGCTT
1 TTTTTCA--AATAATTATAATAACTGATATTT-ATTTCATTTCA-TTCC-CAGGCACTTTGGCTT
* * * *
3297919 GAGTTTAGTGCATTGCAATTACATTTTTTTTTATTTTCCAAAATAGTTATAATAATTGCTATTTA
61 GAGTCTGGTGC--TGCAA-TA-ATATTTTTTTA-TTTCCAAAATAATTATAATAATTGCTATTTA
* * * * * * * * * * *
3297984 TTTAATTTCATTCTCCGGACATTTGGGATTGAGTCTGGTGCTGCAATAATCTTTTTTTATATTTC
121 TTT-TTTTAATTCTCAGGGCACTTGGGCTTGAATCTGGTGCT-AAAT-ATATTTTTTTATTTTTA
* * *
3298049 GAAATCATTATAATAATTGC-AGCTTATTTCATTTCATTTTCGGGACACTTGAGTTTGAGTCTAG
183 GAAATAATTATAATAATTGCAAACTTATTTCATTTCATTTTC-GGACACTTGGGTTTGAGTCTAG
3298113 TGCTGCAATAATTTTTTTTA
247 TGCTGCAATAATTTTTTTTA
* * * * *
3298133 TTTTTCAAAATAATTATAATACCTGTTATTGAATTT-ATTTCATTCCCATGACACTTTGGCTAGA
1 TTTTTC-AAATAATTATAATAACTGATATT-TATTTCATTTCATTCCCA-GGCACTTTGGCTTGA
*
3298197 GTCTGGTGTTGCAATAATATTTTTTTATTTCCAAAATAATTATAATAATTGCTATTTATTTCTTT
63 GTCTGGTGCTGCAATAATATTTTTTTATTTCCAAAATAATTATAATAATTGCTATTTATTT-TTT
* * * * *
3298262 TAATTCTCAGGGCACTCGGGCTTGATTTTGGTACTATAATGATATTTTTTTATTTTTTGAAATAA
127 TAATTCTCAGGGCACTTGGGCTTGAATCTGGTGCTA-AAT-ATATTTTTTTATTTTTAGAAATAA
* * * * * *
3298327 TTATAATAATTGCTATCCT-TTTCA-TTCA--TT-GGACACTTGGGCTTGAGTCTGGTGCTGTAA
190 TTATAATAATTGCAAACTTATTTCATTTCATTTTCGGACACTTGGGTTTGAGTCTAGTGCTGCAA
3298387 TAA-TTTTTTTA
255 TAATTTTTTTTA
* * * * ** *
3298398 TTTTTCGAAATAATTATGATAATTGCAAATTTATTTCATTTTATTCTCGGGGCACTTGGGCTTGA
1 TTTTTC-AAATAATTATAATAACTG-ATATTTATTTCATTTCATTC-CCAGGCACTTTGGCTTGA
* * *** * * *
3298463 GTCTAGTGCTGCAACAATATTTTTTTATTTTTGAAATATTTATAATAGTTGCAATTTATTTTATT
63 GTCTGGTGCTGCAATAATATTTTTTTATTTCCAAAATAATTATAATAATTGCTATTTATTTT-TT
* ** ** * * * * * *
3298528 TTATT-TTTGGGTTCTTAGGCTTGAATCCGATGTTGAAATA-ATATTTTTA-TTTTAGGAATAAT
127 TAATTCTCAGGGCACTTGGGCTTGAATCTGGTGCT-AAATATATTTTTTTATTTTTAGAAATAAT
* *
3298590 TATAATAATTGCAAATTTATTTCATTTCATTTTCAGGACACTTGGGTTTGAGTCTAGTGC-ACTA
191 TATAATAATTGCAAACTTATTTCATTTCATTTTC-GGACACTTGGGTTTGAGTCTAGTGCTGC-A
3298654 ATAATATTTTTTTTA
254 AT-A-ATTTTTTTTA
*
3298669 TTTTT-TAATAATTATAATAACTGATATTTATTTCATTTCATTCCCGAGGCA-TTTGGCCTTGAG
1 TTTTTCAAATAATTATAATAACTGATATTTATTTCATTTCATTCCC-AGGCACTTTGG-CTTGAG
* **** * *
3298732 TCTGGTGCTACAATAA-ATTTTATTTGATATTTTTTGGAATAGTTATAATAATTGGTATTTATTT
64 TCTGGTGCTGCAATAATA-TTT-TTT--TA-TTTCCAAAATAATTATAATAATTGCTATTTATTT
* * * * * * *
3298796 TATTTCATTTTCATGGCACTTGGGCTTTAGCCATGTGTTG-T-AATA-ATTTTTTTTATTTTTTT
124 T-TTTAATTCTCAGGGCACTTGGGC-TT-G-AATCTGGTGCTAAATATA-TTTTTTTA-TTTTTA
* * * * * * * * * * *
3298858 GAAATAATTATAATAATTAC-TATTTATTTTATTTCATTATCAAGATATTTGGGCTTGAGTTTGG
183 GAAATAATTATAATAATTGCAAACTTATTTCATTTCATTTTC-GGACACTTGGGTTTGAGTCTAG
* **
3298922 CGCTGCAATAATAATTTTTA
247 TGCTGCAATAATTTTTTTTA
** * * *
3298942 -TTTTCAAGAATAATTATGTTAA-TAATTATTTATTTCATTT--TT---AGGGTACTTGGGCTTG
1 TTTTTC-A-AATAATTATAATAACTGA-TATTTATTTCATTTCATTCCCA-GGCACTTTGGCTTG
* * * * * ** * * *
3299000 AGTTTAGTGTTGCGATAATATGTTTTTAATTTCTGATATAATTATAATAATTTCTATTTATTTCA
62 AGTCTGGTGCTGCAATAATAT-TTTTTTATTTCCAAAATAATTATAATAATTGCTATTTATTT-T
* *
3299065 TTTCATTCCTC-GAGCACTTGGGCTTG
125 TTTAATT-CTCAGGGCACTTGGGCTTG
3299091 TGTACGGTGT
Statistics
Matches: 1761, Mismatches: 368, Indels: 324
0.72 0.15 0.13
Matches are distributed among these distances:
256 2 0.00
257 48 0.03
258 89 0.05
259 39 0.02
260 31 0.02
261 138 0.08
262 130 0.07
263 79 0.04
264 43 0.02
265 70 0.04
266 145 0.08
267 76 0.04
268 83 0.05
269 34 0.02
270 58 0.03
271 193 0.11
272 82 0.05
273 40 0.02
274 48 0.03
275 202 0.11
276 91 0.05
277 3 0.00
278 4 0.00
279 26 0.01
280 7 0.00
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.47
Consensus pattern (266 bp):
TTTTTCAAATAATTATAATAACTGATATTTATTTCATTTCATTCCCAGGCACTTTGGCTTGAGTC
TGGTGCTGCAATAATATTTTTTTATTTCCAAAATAATTATAATAATTGCTATTTATTTTTTTAAT
TCTCAGGGCACTTGGGCTTGAATCTGGTGCTAAATATATTTTTTTATTTTTAGAAATAATTATAA
TAATTGCAAACTTATTTCATTTCATTTTCGGACACTTGGGTTTGAGTCTAGTGCTGCAATAATTT
TTTTTA
Found at i:3298700 original size:178 final size:177
Alignment explanation
Indices: 3297680--3299071 Score: 694
Period size: 176 Copynumber: 7.8 Consensus size: 177
3297670 AAGTTATTTA
* * * * * ** * * *
3297680 ATTTTTGAATTAATTATAATAATTACTATTAATTT--TTTCATTCTTGGGAAACTTGGTCTGGAG
1 ATTTTAGAAATAATTATAATAATTGCAATTTATTTCATTTCATTCTCAGGACACTTGGGCTTGAG
* * * * *
3297743 TCTATTACTACACTAATA--TTTCTTATTTTCTAAAATAATTATAATAATTTG-TATTTATTTCA
66 TCTAGTGCTACAATAATATTTTTTTTATTTT-TAAAATAATTATAATAA-CTGATATTTATTTCA
** * * * *
3297805 TTTCATTTCCAAGACACTTAGGTTTGAATATGGTGTTGCAATAA-ATTTTTT
129 TTTCATTT--TGGACACTTAGGCTTGAGTCTGGTGTTGAAATAATA-TTTTT
* * * * * * * **
3297856 AACTTCAGGAATAATTATAAGAATTGCTATTTAATTT-TTTTCATT-TCCGCGGTACTTGGGCTT
1 -ATTTTAGAAATAATTATAATAATTGCAATTT-ATTTCATTTCATTCTCAG-GACACTTGGGCTT
* * * * * *
3297919 GAGTTTAGTGCATTGCAATTACAT-TTTTTTTTATTTTCCAAAATAGTTATAATAATTGCTATTT
63 GAGTCTAGTGC--TACAA-TA-ATATTTTTTTTATTTT-TAAAATAATTATAATAACTGATATTT
* * * * * * * *
3297983 ATTTAATTTCATTCTCCGGACATTTGGGATTGAGTCTGGTGCTGCAATAATCTTTTTTT
123 ATTTCATTTCATT-T-TGGACACTTAGGCTTGAGTCTGGTGTTGAAATAA--TATTTTT
* * ** * * * *
3298042 ATATTTCGAAATCATTATAATAATTGCAGCTTATTTCATTTCATTTTCGGGACACTTGAGTTTGA
1 AT-TTTAGAAATAATTATAATAATTGCAATTTATTTCATTTCATTCTCAGGACACTTGGGCTTGA
* * * *
3298107 GTCTAGTGCTGCAAT-A-ATTTTTTTTATTTTTCAAAATAATTATAATACCTGTTATTGAATTT-
65 GTCTAGTGCTACAATAATATTTTTTTTATTTTT-AAAATAATTATAATAACTGATATT-TATTTC
* * * *
3298169 ATTTCATTCCCAT-GACACTTTGGCTAGAGTCTGGTGTTGCAATAATATTTTTTT
128 ATTTCATT---TTGGACACTTAGGCTTGAGTCTGGTGTTGAAATAATA--TTTTT
* * * * * *
3298223 ATTTCCA-AAATAATTATAATAATTGCTATTTATTTCTTTTAATTCTCAGGGCACTCGGGCTTGA
1 ATTT-TAGAAATAATTATAATAATTGCAATTTATTTCATTTCATTCTCAGGACACTTGGGCTTGA
* * * * * * * * * *
3298287 TTTTGGTACTATAATGATA-TTTTTTTATTTTTTGAAATAATTATAATAATTGCTATCCT-TTTC
65 GTCTAGTGCTACAATAATATTTTTTTTA-TTTTTAAAATAATTATAATAACTGATAT-TTATTTC
* * * *
3298350 A-TTCA--TTGGACACTTGGGCTTGAGTCTGGTGCTGTAATAATTTTTTT
128 ATTTCATTTTGGACACTTAGGCTTGAGTCTGGTGTTGAAATAATATTTTT
* * * * *
3298397 ATTTTTCGAAATAATTATGATAATTGCAAATTTATTTCATTTTATTCTCGGGGCACTTGGGCTTG
1 A-TTTTAGAAATAATTATAATAATTGC-AATTTATTTCATTTCATTCTCAGGACACTTGGGCTTG
* * * * ** *
3298462 AGTCTAGTGCTGCAACAATA-TTTTTTTATTTTTGAAATATTTATAATAGTTGCA-ATTTATTTT
64 AGTCTAGTGCTACAATAATATTTTTTTTATTTTTAAAATAATTATAATAACTG-ATATTTATTTC
* *** * * *
3298525 ATTTTATTTTTGGGTTCTTAGGCTTGAATCCGATGTTGAAATAATATTTTT
128 ATTTCA-TTTTGGACACTTAGGCTTGAGTCTGGTGTTGAAATAATATTTTT
* * *
3298576 ATTTTAGGAATAATTATAATAATTGCAAATTTATTTCATTTCATTTTCAGGACACTTGGGTTTGA
1 ATTTTAGAAATAATTATAATAATTGC-AATTTATTTCATTTCATTCTCAGGACACTTGGGCTTGA
*
3298641 GTCTAGTGC-ACTAATAATATTTTTTTTATTTTT-TAATAATTATAATAACTGATATTTATTTCA
65 GTCTAGTGCTAC-AATAATATTTTTTTTATTTTTAAAATAATTATAATAACTGATATTTATTTCA
** * * * *
3298704 TTTCATTCCCGAGGCA-TTTGGCCTTGAGTCTGGTGCT-ACAATAAATTTTATTTGAT
129 TTTCATT-TTG-GACACTTAGG-CTTGAGTCTGGTGTTGA-AAT-AA---TATTT-TT
* * * ** * * *
3298760 ATTTTTTGGAATAGTTATAATAATTGGTATTTATTTTATTTCATTTTCATGG-CACTTGGGCTTT
1 A-TTTTAGAAATAATTATAATAATTGCAATTTATTTCATTTCATTCTCA-GGACACTTGGGCTTG
* * ** * * *
3298824 AG-CCATGTGTTGTAATAAT-TTTTTTTATTTTTTTGAAATAATTATAATAA-TTACTATTTATT
64 AGTCTA-GTGCTACAATAATATTTTTTT-TATTTTTAAAATAATTATAATAACTGA-TATTTATT
* ** * * * * * * *
3298886 TTATTTCATTATCAAGATATTTGGGCTTGAGTTTGGCGCTGCAATAATAATTTTT
126 TCATTTCATT-T-TGGACACTTAGGCTTGAGTCTGGTGTTGAAATAAT-ATTTTT
** * * **
3298941 ATTTTCA-AGAATAATTATGTTAA-T--AA-TTATTT-ATTTCATTTTTAGGGTACTTGGGCTTG
1 ATTTT-AGA-AATAATTATAATAATTGCAATTTATTTCATTTCATTCTCAGGACACTTGGGCTTG
* * * * * * * * * * **
3299000 AGTTTAGTGTTGCGATAATATGTTTTTAATTTCTGATATAATTATAATAATTTCTATTTATTTCA
64 AGTCTAGTGCTACAATAATATTTTTTTTATTTTTAAAATAATTATAATAACTGATATTTATTTCA
3299065 TTTCATT
129 TTTCATT
3299072 CCTCGAGCAC
Statistics
Matches: 948, Mismatches: 198, Indels: 139
0.74 0.15 0.11
Matches are distributed among these distances:
174 7 0.01
175 52 0.05
176 154 0.16
177 42 0.04
178 111 0.12
179 87 0.09
180 70 0.07
181 122 0.13
182 16 0.02
183 21 0.02
184 128 0.14
185 79 0.08
186 56 0.06
187 3 0.00
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.48
Consensus pattern (177 bp):
ATTTTAGAAATAATTATAATAATTGCAATTTATTTCATTTCATTCTCAGGACACTTGGGCTTGAG
TCTAGTGCTACAATAATATTTTTTTTATTTTTAAAATAATTATAATAACTGATATTTATTTCATT
TCATTTTGGACACTTAGGCTTGAGTCTGGTGTTGAAATAATATTTTT
Found at i:3298917 original size:185 final size:185
Alignment explanation
Indices: 3297960--3298932 Score: 444
Period size: 178 Copynumber: 5.4 Consensus size: 185
3297950 TATTTTCCAA
* * * * ** ** *
3297960 AATAGTTATAATAATTGCTATTTATTTAATTTCATT-CTCCGGACATTTGGGATTGAGTCTGGTG
1 AATAATTATAATAACTGATATTTATTTCATTTCATTAC-CAAGACATTTGGCCTTGAGTCTGGCG
* * * * * **
3298024 CTGCAAT-AATCTTT-TTT--TATATTTCGAAATCATTATAATAATTGC-AGCTTATTTCATTTC
65 CTACAATAAAT-TTTATTTGATATTTTTAGGAATAATTATAATAATTGCAAATTTATTTCATTTC
* * * * *
3298084 ATTTTCGGGACACTTGAGTTTGAGTCTAGTGCTGC-AAT-A-ATTTTTTTTATTTTTCAA
129 ATTTTCAGGACACTTGGGTTTGAGCCTAGTGC-ACTAATAATATTTTTTTTATTTTT--T
* * * * * * *
3298141 AATAATTATAATACCTGTTATTGAATTT-ATTTCATTCCCATGACACTTTGG-CTAGAGTCTGGT
1 AATAATTATAATAACTGATATT-TATTTCATTTCATTACCAAGACA-TTTGGCCTTGAGTCTGGC
* * ** * * *
3298204 GTTGCAAT-AATATTT-TTT--TATTTCCA-AAATAATTATAATAATTGC-TATTTATTTCTTTT
64 GCTACAATAAAT-TTTATTTGATATTTTTAGGAATAATTATAATAATTGCAAATTTATTTCATTT
* * * * * ** * *
3298263 AATTCTCAGGGCACTCGGGCTTGA-TTTTG-GTACT-ATAATGATATTTTTTTATTTTTT
128 CATTTTCAGGACACTTGGGTTTGAGCCTAGTGCACTAATAAT-AT-TTTTTTTATTTTTT
* * * * * *
3298320 GAAATAATTATAATAATTGCTATCCT-TTTCA-TTCATT----GGACACTTGGGCTTGAGTCTGG
1 --AATAATTATAATAACTGATAT-TTATTTCATTTCATTACCAAGACATTTGGCCTTGAGTCTGG
* ** * * *
3298379 TGCTGTAAT-AA-TTT-TTT--TATTTTTCGAAATAATTATGATAATTGCAAATTTATTTCATTT
63 CGCTACAATAAATTTTATTTGATATTTTTAGGAATAATTATAATAATTGCAAATTTATTTCATTT
* * * * * * * * *
3298439 TATTCTCGGGGCACTTGGGCTTGAGTCTAGTGCTGC-AACAATA-TTTTTTTATTTTTGA
128 CATTTTCAGGACACTTGGGTTTGAGCCTAGTGC-ACTAATAATATTTTTTTTATTTTT-T
* ** * * ***** * * * * **
3298497 AATATTTATAATAGTTGCA-ATTTATTTTATTTTATTTTTGGGTTC-TTAGG-CTTGAATCCGAT
1 AATAATTATAATAACTG-ATATTTATTTCATTTCATTACCAAG-ACATTTGGCCTTGAGTCTGGC
* *
3298559 GTTGA-AAT-AA---TATTT-TTA-TTTTAGGAATAATTATAATAATTGCAAATTTATTTCATTT
64 GCT-ACAATAAATTTTATTTGATATTTTTAGGAATAATTATAATAATTGCAAATTTATTTCATTT
*
3298617 CATTTTCAGGACACTTGGGTTTGAGTCTAGTGCACTAATAATATTTTTTTTATTTTTT
128 CATTTTCAGGACACTTGGGTTTGAGCCTAGTGCACTAATAATATTTTTTTTATTTTTT
* * * *
3298675 AATAATTATAATAACTGATATTTATTTCATTTCATTCCCGAGGCATTTGGCCTTGAGTCTGGTGC
1 AATAATTATAATAACTGATATTTATTTCATTTCATTACCAAGACATTTGGCCTTGAGTCTGGCGC
* * ** *
3298740 TACAATAAATTTTATTTGATATTTTTTGGAATAGTTATAATAATTG-GTATTTATTTTATTTCAT
66 TACAATAAATTTTATTTGATATTTTTAGGAATAATTATAATAATTGCAAATTTATTTCATTTCAT
***
3298804 TTTCATGG-CACTTGGGCTTT-AGCC-ATGTGTTGTAAT-A-ATTTTTTTTATTTTTTT
131 TTTCA-GGACACTTGGG-TTTGAGCCTA-GTGCACTAATAATATTTTTTTTA-TTTTTT
* * * * * *
3298858 GAAATAATTATAATAA-TTACTATTTATTTTATTTCATTATCAAGATATTTGGGCTTGAGTTTGG
1 --AATAATTATAATAACTGA-TATTTATTTCATTTCATTACCAAGACATTTGGCCTTGAGTCTGG
*
3298922 CGCTGCAATAA
63 CGCTACAATAA
3298933 TAATTTTTAT
Statistics
Matches: 624, Mismatches: 118, Indels: 96
0.74 0.14 0.11
Matches are distributed among these distances:
174 12 0.02
175 43 0.07
176 74 0.12
177 10 0.02
178 114 0.18
179 53 0.08
180 63 0.10
181 94 0.15
182 20 0.03
183 13 0.02
184 42 0.07
185 86 0.14
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.48
Consensus pattern (185 bp):
AATAATTATAATAACTGATATTTATTTCATTTCATTACCAAGACATTTGGCCTTGAGTCTGGCGC
TACAATAAATTTTATTTGATATTTTTAGGAATAATTATAATAATTGCAAATTTATTTCATTTCAT
TTTCAGGACACTTGGGTTTGAGCCTAGTGCACTAATAATATTTTTTTTATTTTTT
Found at i:3298934 original size:94 final size:92
Alignment explanation
Indices: 3297776--3299090 Score: 354
Period size: 91 Copynumber: 14.6 Consensus size: 92
3297766 TATTTTCTAA
** * * * * * * *
3297776 AATAATTATAATAATTTGTATTTATTTCATTTCATTTCCAAGACACTTAGGTTTGAATATGGTGT
1 AATAATTATAATAATTACTATTTATTTCATTTCATTTTCAAGACACTTGGGCTTGAGTTTGGCGC
** ***
3297841 TGCAAT-A-AA--TTTTTTAACTTCAGG
66 TG-AATAATAATTTTTTTTATTTTTTTG
* * * * ** **
3297865 AATAATTATAAGAATTGCTATTTAATTT-TTTTCATTTCCGCGGTACTTGGGCTTGAGTTTAGTG
1 AATAATTATAATAATTACTATTT-ATTTCATTTCATTTTCAAGACACTTGGGCTTGAGTTT-G-G
** * * * ****
3297929 CATTGCAATTACATTTTTTTTTATTTTCCAA
63 CGCTG-AATAATAATTTTTTTTATTTTTTTG
* * * * ** * * * *
3297960 AATAGTTATAATAATTGCTATTTATTTAATTTCATTCTCCGGACATTTGGGATTGAGTCTGGTGC
1 AATAATTATAATAATTACTATTTATTTCATTTCATTTTCAAGACACTTGGGCTTGAGTTTGGCGC
* * *
3298025 TGCAATAAT--CTTTTTTTA-TATTTCG
66 TG-AATAATAATTTTTTTTATTTTTTTG
* * * ** * * * * *
3298050 AAATCATTATAATAATTGC-AGCTTATTTCATTTCATTTTCGGGACACTTGAGTTTGAGTCTAGT
1 -AATAATTATAATAATTACTA-TTTATTTCATTTCATTTTCAAGACACTTGGGCTTGAGTTTGGC
* ***
3298114 GCTG--CAATAATTTTTTTTATTTTTCAA
64 GCTGAATAATAATTTTTTTTATTTTTTTG
** ** * ** * * * * *
3298141 AATAATTATAATACCTGTTATTGAATTT-ATTTCATTCCCATGACACTTTGGCTAGAGTCTGGTG
1 AATAATTATAATAATTACTATT-TATTTCATTTCATTTTCAAGACACTTGGGCTTGAGTTTGGCG
* ****
3298205 TTGCAATAAT-A-TTTTTTTA-TTTCCAA
65 CTG-AATAATAATTTTTTTTATTTTTTTG
* * * * * * * * **
3298231 AATAATTATAATAATTGCTATTTATTTCTTTTAATTCTCAGGGCACTCGGGCTTGATTTTGGTAC
1 AATAATTATAATAATTACTATTTATTTCATTTCATTTTCAAGACACTTGGGCTTGAGTTTGGCGC
*
3298296 T--ATAATGATATTTTTTTA-TTTTTTG
66 TGAATAATAAT-TTTTTTTATTTTTTTG
* * * * *
3298321 AAATAATTATAATAATTGCTATCCT-TTTCA-TTCA--TT--GGACACTTGGGCTTGAGTCTGGT
1 -AATAATTATAATAATTACTAT-TTATTTCATTTCATTTTCAAGACACTTGGGCTTGAGTTTGGC
*
3298380 GCTG--TAATAA-TTTTTTTA-TTTTTCG
64 GCTGAATAATAATTTTTTTTATTTTTTTG
* * * * * ** * * * *
3298405 AAATAATTATGATAATTGCAAATTTATTTCATTTTATTCTCGGGGCACTTGGGCTTGAGTCTAGT
1 -AATAATTATAATAATTAC-TATTTATTTCATTTCATTTTCAAGACACTTGGGCTTGAGTTTGGC
*
3298470 GCTGCAACAAT-A-TTTTTTTA--TTTTTG
64 GCTG-AATAATAATTTTTTTTATTTTTTTG
* * * * * * ** *** * * ** **
3298496 AAATATTTATAATAGTTGCAATTTATTTTATTTTATTTT-TGGGTTCTTAGGCTTGAATCCGATG
1 -AATAATTATAATAATTACTATTTATTTCATTTCATTTTCAAGACACTTGGGCTTGAGTTTGGCG
* * **
3298560 TTG-A-AATAA-TATTTTTA-TTTTAGG
65 CTGAATAATAATTTTTTTTATTTTTTTG
* * * * *
3298584 AATAATTATAATAATTGCAAATTTATTTCATTTCATTTTCAGGACACTTGGGTTTGAGTCTAGTG
1 AATAATTATAATAATTAC-TATTTATTTCATTTCATTTTCAAGACACTTGGGCTTGAGT-TTG-G
*
3298649 CACT-AATAAT-ATTTTTTTTA-TTTTTT-
63 CGCTGAATAATAATTTTTTTTATTTTTTTG
* ** * * * * * *
3298675 AATAATTATAATAACTGA-TATTTATTTCATTTCATTCCCGAGGCATTTGGCCTTGAGTCTGGTG
1 AATAATTATAATAA-TTACTATTTATTTCATTTCATTTTCAAGACACTTGGGCTTGAGTTTGGCG
* *
3298739 CT--ACAATAAATTTTATTTGATATTTTTTGG
65 CTGAATAAT-AATTTT-TTT--TATTTTTTTG
* ** * * * * ** *
3298769 AATAGTTATAATAATTGGTATTTATTTTATTTCATTTTCATGGCACTTGGGCTTTAGCCAT-GTG
1 AATAATTATAATAATTACTATTTATTTCATTTCATTTTCAAGACACTTGGGCTTGAG-TTTGGCG
*
3298833 TTG--TAATAATTTTTTTTATTTTTTTG
65 CTGAATAATAATTTTTTTTATTTTTTTG
* * * *
3298859 AAATAATTATAATAATTACTATTTATTTTATTTCATTATCAAGATATTTGGGCTTGAGTTTGGCG
1 -AATAATTATAATAATTACTATTTATTTCATTTCATTTTCAAGACACTTGGGCTTGAGTTTGGCG
***
3298924 CTGCAATAATAA---TTTTTATTTTCAAG
65 CTG-AATAATAATTTTTTTTATTTTTTTG
** * * ** * * *
3298950 AATAATTATGTTAA-TA--A-TTATTT-ATTTCATTTTTAGGGTACTTGGGCTTGAGTTTAGTGT
1 AATAATTATAATAATTACTATTTATTTCATTTCATTTTCAAGACACTTGGGCTTGAGTTTGGCGC
* * * *
3299010 TGCGATAAT-A-TGTTTTTA-ATTTCTG
66 TG-AATAATAATTTTTTTTATTTTTTTG
* * *
3299035 ATATAATTATAATAATTTCTATTTATTTCATTTCATTCCTCGAG-CACTTGGGCTTG
1 A-ATAATTATAATAATTACTATTTATTTCATTTCATT-TTCAAGACACTTGGGCTTG
3299091 TGTACGGTGT
Statistics
Matches: 931, Mismatches: 226, Indels: 136
0.72 0.17 0.11
Matches are distributed among these distances:
84 34 0.04
85 48 0.05
86 55 0.06
87 36 0.04
88 31 0.03
89 87 0.09
90 231 0.25
91 232 0.25
92 34 0.04
93 27 0.03
94 62 0.07
95 54 0.06
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.48
Consensus pattern (92 bp):
AATAATTATAATAATTACTATTTATTTCATTTCATTTTCAAGACACTTGGGCTTGAGTTTGGCGC
TGAATAATAATTTTTTTTATTTTTTTG
Found at i:3299018 original size:85 final size:86
Alignment explanation
Indices: 3298906--3299067 Score: 195
Period size: 86 Copynumber: 1.9 Consensus size: 86
3298896 ATCAAGATAT
* * **
3298906 TTGGGCTTGAGTTTGGCGCTGCAATAATA-ATTTTTATTTTCAAGA-ATAATTATGTTAATAAT-
1 TTGGGCTTGAGTTTAGCGCTGCAATAATATATTTTTAATTTC-AGATATAATTATAATAAT-ATC
3298968 TATTTATTTCATTTTTAGGGTAC
64 TATTTATTTCATTTTTAGGGTAC
* * * * * *
3298991 TTGGGCTTGAGTTTAGTGTTGCGATAATATGTTTTTAATTTCTGATATAATTATAATAATTTCTA
1 TTGGGCTTGAGTTTAGCGCTGCAATAATATATTTTTAATTTCAGATATAATTATAATAATATCTA
3299056 TTTATTTCATTT
66 TTTATTTCATTT
3299068 CATTCCTCGA
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
85 28 0.44
86 36 0.56
ACGTcount: A:0.27, C:0.07, G:0.15, T:0.50
Consensus pattern (86 bp):
TTGGGCTTGAGTTTAGCGCTGCAATAATATATTTTTAATTTCAGATATAATTATAATAATATCTA
TTTATTTCATTTTTAGGGTAC
Found at i:3299147 original size:159 final size:157
Alignment explanation
Indices: 3298970--3299266 Score: 359
Period size: 159 Copynumber: 1.9 Consensus size: 157
3298960 TTAATAATTA
** * *
3298970 TTTATTTCATTTTTAGGGTACTTGGGCTTGAGTT-TAGTG-TTGCGATAATATGTTTTTAATTTC
1 TTTATTTCATTTCCAGGGTACTTGGGCTTGA-TTCTAATGCTT-CGAAAATATGTTTTTAATTTC
* * * **
3299033 TGATATAATTATAATAATTTCTATTTATTTCATTTCATTCCTCGAG-CACTTGGGCTTGTGTAC-
64 T-AAATAATTATAATAATTGCTAATTATTT-ATTTCATTCC-CGAGACACTTGGGCTTAAGT-CT
3299096 GGTGTTGCAATAATTTTAATAATTGCTATTTAT
125 GGTGTTGCAATAATTTTAATAATTGCTATTTAT
* ** * *
3299129 TTTATTTCATTTCCAGGGTACTTGGGTTTGATTCTAATGCTTTTAAAATATTTTTTTATTTTCTA
1 TTTATTTCATTTCCAGGGTACTTGGGCTTGATTCTAATGCTTCGAAAATATGTTTTTAATTTCTA
* * *
3299194 AATTATTATAATAATTGCTAATTATTTTTTTCATTCCCGGGACACTTGGGCTTAAGTCTGGTGTT
66 AATAATTATAATAATTGCTAATTATTTATTTCATTCCCGAGACACTTGGGCTTAAGTCTGGTGTT
3299259 GCAATAAT
131 GCAATAAT
3299267 ATTTTTTATT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
156 4 0.03
157 36 0.31
158 26 0.22
159 49 0.42
160 2 0.02
ACGTcount: A:0.24, C:0.11, G:0.15, T:0.49
Consensus pattern (157 bp):
TTTATTTCATTTCCAGGGTACTTGGGCTTGATTCTAATGCTTCGAAAATATGTTTTTAATTTCTA
AATAATTATAATAATTGCTAATTATTTATTTCATTCCCGAGACACTTGGGCTTAAGTCTGGTGTT
GCAATAATTTTAATAATTGCTATTTAT
Found at i:3299405 original size:90 final size:89
Alignment explanation
Indices: 3299248--3299410 Score: 209
Period size: 90 Copynumber: 1.8 Consensus size: 89
3299238 CTTGGGCTTA
* * * *** * * *
3299248 AGTCTGGTGTTGCAATAATATTTTTTATTTTCTGGAATAATTATAATAATTGTTATTAATTTTAT
1 AGTCTGGTGCTACAATAATATTTTTTACTTTCCAAAATAATTATAATAATAGCTATTAATTTCAT
3299313 TTCATTATCCAAAGCCGAGACTTG
66 TTCATTATCCAAAGCCGAGACTTG
* * *
3299337 AGTCTGGTGCTACAATAATTTATTTTTACTTTCCAAAATAGTTATAATAATAGCTATTTATTTCA
1 AGTCTGGTGCTACAATAATAT-TTTTTACTTTCCAAAATAATTATAATAATAGCTATTAATTTCA
3299402 TTTCATTAT
65 TTTCATTAT
3299411 GAGGCATTTA
Statistics
Matches: 61, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
89 18 0.30
90 43 0.70
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (89 bp):
AGTCTGGTGCTACAATAATATTTTTTACTTTCCAAAATAATTATAATAATAGCTATTAATTTCAT
TTCATTATCCAAAGCCGAGACTTG
Found at i:3299606 original size:84 final size:87
Alignment explanation
Indices: 3299249--3299666 Score: 237
Period size: 86 Copynumber: 4.8 Consensus size: 87
3299239 TTGGGCTTAA
** * *
3299249 GTCTGGTGTTGCAAT-AA-TATTTTTTA-TTTTCTGGAATAATTATAATAATTGTTATTAATTTT
1 GTCTGGTGTTGCAATAAATTATTTTTTATTTTTCTAAAATAATTATAATAA----TATTTATTTC
* * * *
3299311 ATTTCATTATCCAAAGC--CGAGACTTG
62 ATTTCATT-TCTAAGGCATTGAGGC-TG
* * * * * *
3299337 AGTCTGGTGCTACAATAATTTA-TTTTTA-CTTTCCAAAATAGTTATAATAATAGCTATTTATTT
1 -GTCTGGTGTTGCAATAAATTATTTTTTATTTTTCTAAAATAATTATAAT-A-A--TATTTATTT
* * * *
3299400 CATTTCA-TTATGAGGCATTTAGGCTT
61 CATTTCATTTCTAAGGCATTGAGGCTG
** * *
3299426 GAGT-GTATTGCAATAAA-T-TTTTTTATTTTTC-AGAATAATTATAATAATTGATATTTATTTC
1 GTCTGGTGTTGCAATAAATTATTTTTTATTTTTCTAAAATAATTATAAT-A---ATATTTATTTC
** *
3299487 ATTTCATTT-TTGGGCATTTAGGCTTG
62 ATTTCATTTCTAAGGCATTGAGGC-TG
** *
3299513 GTCTGGTGTTGTGAT-AA-TATTTTTTA-TTTTCTAAAATGATTATAATAATATTTATTTCATTT
1 GTCTGGTGTTGCAATAAATTATTTTTTATTTTTCTAAAATAATTATAATAATATTTATTTCATTT
3299575 CATTTCTAAGGCATTGAGTG-TG
66 CATTTCTAAGGCATTGAG-GCTG
* * **
3299597 AGT-TGGTGTTGCAATAAATTTTTTTTTATTTTTTTGGAATAATTATAATAAT-TTCTATTT-AT
1 -GTCTGGTGTTGCAATAAATTATTTTTTATTTTTCTAAAATAATTATAATAATATT-TATTTCAT
3299659 TTCATTTC
64 TTCATTTC
3299667 ATTGCCCGTT
Statistics
Matches: 258, Mismatches: 49, Indels: 47
0.73 0.14 0.13
Matches are distributed among these distances:
84 32 0.12
85 13 0.05
86 70 0.27
87 51 0.20
88 33 0.13
89 15 0.06
90 40 0.16
91 3 0.01
92 1 0.00
ACGTcount: A:0.29, C:0.09, G:0.13, T:0.50
Consensus pattern (87 bp):
GTCTGGTGTTGCAATAAATTATTTTTTATTTTTCTAAAATAATTATAATAATATTTATTTCATTT
CATTTCTAAGGCATTGAGGCTG
Found at i:3299726 original size:89 final size:87
Alignment explanation
Indices: 3299179--3299754 Score: 344
Period size: 89 Copynumber: 6.6 Consensus size: 87
3299169 TTTTAAAATA
* * * *
3299179 TTTTTTTA-TTTTCTA-AATTATTATAATAATTGCTAATTATTT-TTTTCATTCCCGGGACACTT
1 TTTTTTTATTTTTCTAGAATAATTATAATAATTGCTATTTATTTCATTTCATT----GG-CATTT
* * * *
3299241 GGGCTTAAGTCTGGTGTTGCAATAA-T
61 AGGCTTGAGTTTGGTGTTGTAATAATT
* * * * * ** ***
3299267 ATTTTTTA-TTTTCTGGAATAATTATAATAATTGTTATTAATTTTATTTCATTATCCAAAGCCGA
1 TTTTTTTATTTTTCTAGAATAATTATAATAATTGCTATTTATTTCATTTCATT-GGC--A-TTTA
* * * **
3299331 GACTTGAGTCTGGTGCTACAATAATT
62 GGCTTGAGTTTGGTGTTGTAATAATT
* * * * * *
3299357 TATTTTTA-CTTTCCAAAATAGTTATAATAATAGCTATTTATTTCATTTCATTATGAGGCATTTA
1 TTTTTTTATTTTTCTAGAATAATTATAATAATTGCTATTTATTTCATTTCA-T-T--GGCATTTA
* * *
3299421 GGCTTGAG--T-GTATTGCAATAA-A
62 GGCTTGAGTTTGGTGTTGTAATAATT
*
3299443 TTTTTTTATTTTTC-AGAATAATTATAATAATTGATATTTATTTCATTTCATTTTTGGGCATTTA
1 TTTTTTTATTTTTCTAGAATAATTATAATAATTGCTATTTATTTCATTTCA---TT-GGCATTTA
* *
3299507 GGCTTG-GTCTGGTGTTGTGATAA-T
62 GGCTTGAGTTTGGTGTTGTAATAATT
* * * * * *
3299531 ATTTTTTA-TTTTCTAAAATGATTATAATAATAT-TTATTTCATTTCATTTC-TAAGGCATTGA-
1 TTTTTTTATTTTTCTAGAATAATTATAATAAT-TGCTATTT-ATTTCATTTCAT-TGGCATTTAG
*
3299592 G-TGTGAG-TTGGTGTTGCAATAAATT
63 GCT-TGAGTTTGGTGTTGTAAT-AATT
* * * * *
3299617 TTTTTTTATTTTTTTGGAATAATTATAATAATTTCTATTTATTTCATTTCATTGCCCGTTTAGGC
1 TTTTTTTATTTTTCTAGAATAATTATAATAATTGCTATTTATTTCATTTCATTG-GCATTTAGGC
*
3299682 TTGAGTTTGGTGTTGTTATAATT
65 TTGAGTTTGGTGTTGTAATAATT
* * *
3299705 TTTTTTTATATTTTCTGGAATACTTATAATAGTTGCTATTTATTTCATTT
1 TTTTTTTAT-TTTTCTAGAATAATTATAATAATTGCTATTTATTTCATTT
3299755 TATTTTCAAA
Statistics
Matches: 383, Mismatches: 74, Indels: 61
0.74 0.14 0.12
Matches are distributed among these distances:
83 1 0.00
84 13 0.03
85 12 0.03
86 74 0.19
87 49 0.13
88 71 0.19
89 103 0.27
90 55 0.14
91 2 0.01
92 1 0.00
93 2 0.01
ACGTcount: A:0.27, C:0.09, G:0.13, T:0.51
Consensus pattern (87 bp):
TTTTTTTATTTTTCTAGAATAATTATAATAATTGCTATTTATTTCATTTCATTGGCATTTAGGCT
TGAGTTTGGTGTTGTAATAATT
Found at i:3299752 original size:175 final size:168
Alignment explanation
Indices: 3299359--3299754 Score: 406
Period size: 175 Copynumber: 2.3 Consensus size: 168
3299349 CAATAATTTA
* * * *
3299359 TTTTTACTTTCCAAAATAGTTATAATAATAGCTATTTATTTCATTTCATTATGAGGCATTTAGGC
1 TTTTTATTTTCTAAAATA-TTATAATAATTGCTATTTATTTCATTTCA-TA-GAGGCATTGAGGC
3299424 TTGAGTGTATTGCAATAAATTTTTTTATTTTTCAGAATAATTATAATAATTGATATTTATTTCAT
63 -TGAGTGTATTGCAATAAATTTTTTTATTTTTCAGAATAATTATAATAATTGATATTTATTTCAT
**
3299489 TTCATTTTTGGGCATTTAGGCTTGGTCTGGTGTTGTGATAATAT
127 TTCA--TTTGCCCATTTAGGCTTGGTCTGGTGTTGTGATAATAT
*
3299533 TTTTTATTTTCTAAAATGATTATAATAATAT-TTATTTCATTTCATTTC-TA-AGGCATTGAGTG
1 TTTTTATTTTCTAAAAT-ATTATAATAAT-TGCTATTT-ATTTCATTTCATAGAGGCATTGAG-G
* ** **
3299595 -TGAGTTGGTGTTGCAATAAATTTTTTTTTATTTTTTTGGAATAATTATAATAATTTCTATTTAT
62 CTGAG-T-GTATTGCAATAAA--TTTTTTTA-TTTTTCAGAATAATTATAATAATTGATATTTAT
* * * *
3299659 TTCATTTCA-TTGCCCGTTTAGGCTTGAGTTTGGTGTTGTTATAATTTTT
122 TTCATTTCATTTGCCCATTTAGGCTTG-GTCTGGTGTTGTGATAA--TAT
** *
3299708 TTTTATATTTTCTGGAATACTTATAATAGTTGCTATTTATTTCATTT
1 TTTT-TATTTTCTAAAATA-TTATAATAATTGCTATTTATTTCATTT
3299755 TATTTTCAAA
Statistics
Matches: 187, Mismatches: 20, Indels: 29
0.79 0.08 0.12
Matches are distributed among these distances:
170 4 0.02
171 10 0.05
172 27 0.14
173 17 0.09
174 38 0.20
175 66 0.35
176 25 0.13
ACGTcount: A:0.27, C:0.08, G:0.13, T:0.52
Consensus pattern (168 bp):
TTTTTATTTTCTAAAATATTATAATAATTGCTATTTATTTCATTTCATAGAGGCATTGAGGCTGA
GTGTATTGCAATAAATTTTTTTATTTTTCAGAATAATTATAATAATTGATATTTATTTCATTTCA
TTTGCCCATTTAGGCTTGGTCTGGTGTTGTGATAATAT
Found at i:3307205 original size:15 final size:15
Alignment explanation
Indices: 3307185--3307215 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
3307175 CTTTAATGAA
3307185 TGTCCATATAAATTC
1 TGTCCATATAAATTC
3307200 TGTCCATATAAATTC
1 TGTCCATATAAATTC
3307215 T
1 T
3307216 CAATTAACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.42
Consensus pattern (15 bp):
TGTCCATATAAATTC
Found at i:3312212 original size:44 final size:44
Alignment explanation
Indices: 3312144--3312274 Score: 201
Period size: 44 Copynumber: 3.0 Consensus size: 44
3312134 AATCCCTGTG
*
3312144 ACTAGAACTCATAG-TTGTATGTAGGGTGAACACCCTTGGCCAA
1 ACTAGAACTCACAGATTGTATGTAGGGTGAACACCCTTGGCCAA
* * *
3312187 ACTAGAACTCAGAGATTGTATGTAGGTTGAACACCCTTGACCAA
1 ACTAGAACTCACAGATTGTATGTAGGGTGAACACCCTTGGCCAA
* *
3312231 ACTAGAACTCACAGATTGTATGTAGGGTGAACGCCCCTGGCCAA
1 ACTAGAACTCACAGATTGTATGTAGGGTGAACACCCTTGGCCAA
3312275 TGAGTCGACA
Statistics
Matches: 79, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
43 13 0.16
44 66 0.84
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (44 bp):
ACTAGAACTCACAGATTGTATGTAGGGTGAACACCCTTGGCCAA
Found at i:3315681 original size:15 final size:14
Alignment explanation
Indices: 3315658--3315692 Score: 61
Period size: 15 Copynumber: 2.4 Consensus size: 14
3315648 TAAGCAGCAA
3315658 AAAAGGAAGAAAAG
1 AAAAGGAAGAAAAG
3315672 AAAAGAGAAGAAAAG
1 AAAAG-GAAGAAAAG
3315687 AAAAGG
1 AAAAGG
3315693 GTACAATGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (14 bp):
AAAAGGAAGAAAAG
Found at i:3325568 original size:17 final size:17
Alignment explanation
Indices: 3325548--3325581 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
3325538 TAAGACTCGG
3325548 GAAAGAA-AAAGAAATAA
1 GAAAGAACAAA-AAATAA
3325565 GAAAGAACAAAAAATAA
1 GAAAGAACAAAAAATAA
3325582 ATCTTATGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.81
18 3 0.19
ACGTcount: A:0.76, C:0.03, G:0.15, T:0.06
Consensus pattern (17 bp):
GAAAGAACAAAAAATAA
Found at i:3331677 original size:32 final size:31
Alignment explanation
Indices: 3331616--3331679 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 31
3331606 AAAAATTCTC
* * * *
3331616 ATTATACCTAAATTTAAAAATGAATTAATTA
1 ATTAGACCCAAATTTAAAAATAAAATAATTA
3331647 ATTAGACCCAAATTTAAAAAATAAAATAATTA
1 ATTAGACCCAAATTT-AAAAATAAAATAATTA
3331679 A
1 A
3331680 GCTCTCAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 13 0.46
32 15 0.54
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (31 bp):
ATTAGACCCAAATTTAAAAATAAAATAATTA
Found at i:3339494 original size:113 final size:113
Alignment explanation
Indices: 3339195--3339796 Score: 533
Period size: 114 Copynumber: 5.3 Consensus size: 113
3339185 TAAAACCTGA
* * *
3339195 AGAACTAGTGGCGTTTCTAAAAAAACGCCGTAAAAGAACATGATTAGTGGCGTTTA-TTGTAAGC
1 AGAATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACAT-ATTAGTGGCGTTTATTTGGAAGC
** *
3339259 GCCGCAAAATACCTTAACCAAAACGCAGCG-TTGGT-TCAATTGTATATT
65 GCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTCTTGA-GGTATATT
* ** * * *****
3339307 AGAATTCGTGGCGTTTTTTATAAAAAACGCCGCGAAAGAATAGTATTAGCGGCGTTTAACAAAAA
1 AGAATTAGTGGCG-TTTTTA-AAAAAACGCCGTAAAAGAACA-TATTAGTGGCGTTTATTTGGAA
* * ** * ** *
3339372 GCGCTGC-AAATATCTTAAGGAAAACGCACCGTTTTATCTTGAGGTAGATT
63 GCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATT
* *
3339422 A-ATATTAGTGACGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGGATG
1 AGA-ATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACAT-ATTAGTGGCGTTTATTTGGAAG
* ** *
3339486 CGCCGCAAAATACCTTAACCAAAACGCAGCATTTGGT-TCAATTGTATATT
64 CGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTCTTGA-GGTATATT
* * * * * *
3339536 AGACATT-GTGGCGTTTTCT-ATAAAACGCCGCAAAACAATAGTATTAGCGGCG-TT-TTCGGTA
1 AGA-ATTAGTGGCGTTTT-TAAAAAAACGCCGTAAAAGAACA-TATTAGTGGCGTTTATTTGG--
* ** * * *
3339597 AAGCGCCGC-AAATATCTTAATGAAAACGCACCGTTTCGTCTTGAGGTAGATT
61 AAGCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATT
* * ** *
3339649 AGTATTAGTGGCGTTTTTAGAAAAACGCCGTAAAAGAACATGATTAGTGGCGTTTATTTTTATGC
1 AGAATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACAT-ATTAGTGGCGTTTATTTGGAAGC
*
3339714 GCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATT
65 GCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATT
*** *
3339763 AGAATTAGTGGCGTTTACGATAAAACGCCGTAAA
1 AGAATTAGTGGCGTTTTTAAAAAAACGCCGTAAA
3339797 TATCTTAACG
Statistics
Matches: 379, Mismatches: 89, Indels: 42
0.74 0.17 0.08
Matches are distributed among these distances:
112 21 0.06
113 122 0.32
114 199 0.53
115 35 0.09
116 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (113 bp):
AGAATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATATTAGTGGCGTTTATTTGGAAGCG
CCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATT
Found at i:3339610 original size:227 final size:226
Alignment explanation
Indices: 3339200--3339792 Score: 870
Period size: 227 Copynumber: 2.6 Consensus size: 226
3339190 CCTGAAGAAC
* *
3339200 TAGTGGCGTTTCTAAAAAAACGCCGTAAAAGAACATGATTAGTGGCGTTTA-TTGTAAGCGCCGC
1 TAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATGATTAGTGGCGTTTATTTGTATGCGCCGC
* * *
3339264 AAAATACCTTAACCAAAACGCAGCGTTGGTTCAATTGTATATTAGAATTCGTGGCGTTTTTTATA
66 AAAATACCTTAACCAAAACGCAGCTTTGGTTCAATTGTATATTAGAATTAGTGGCGTTTTCTAT-
* * *
3339329 AAAAACGCCGCGAAAGAATAGTATTAGCGGCGTTTAACAAAAAGCGCTGCAAATATCTTAAGGAA
130 -AAAACGCCGCAAAACAATAGTATTAGCGGCGTTTAACAAAAAGCGCCGCAAATATCTTAAGGAA
*
3339394 AACGCACCGTTTTATCTTGAGGTAGATTAATAT
194 AACGCACCGTTTCATCTTGAGGTAGATTAATAT
* * *
3339427 TAGTGACGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGGATGCGCCGC
1 TAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATGATTAGTGGCGTTTATTTGTATGCGCCGC
3339492 AAAATACCTTAACCAAAACGCAGCATTTGGTTCAATTGTATATTAGACATT-GTGGCGTTTTCTA
66 AAAATACCTTAACCAAAACGCAGC-TTTGGTTCAATTGTATATTAGA-ATTAGTGGCGTTTTCTA
* ** *
3339556 TAAAACGCCGCAAAACAATAGTATTAGCGGCGTTT-TCGGTAAAGCGCCGCAAATATCTTAATGA
129 TAAAACGCCGCAAAACAATAGTATTAGCGGCGTTTAAC-AAAAAGCGCCGCAAATATCTTAAGGA
* *
3339620 AAACGCACCGTTTCGTCTTGAGGTAGATTAGTAT
193 AAACGCACCGTTTCATCTTGAGGTAGATTAATAT
* *
3339654 TAGTGGCGTTTTTAGAAAAACGCCGTAAAAGAACATGATTAGTGGCGTTTATTTTTATGCGCCGC
1 TAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATGATTAGTGGCGTTTATTTGTATGCGCCGC
** * * *
3339719 AAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGA-GGTATATTAGAATTAGTGGCGTTTACGA
66 AAAATACCTTAACCAAAACGCAGC-TTTGG-TTCAATTGTATATTAGAATTAGTGGCGTTTTCTA
3339783 TAAAACGCCG
129 TAAAACGCCG
3339793 TAAATATCTT
Statistics
Matches: 332, Mismatches: 28, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
226 4 0.01
227 253 0.76
228 38 0.11
229 34 0.10
230 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (226 bp):
TAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATGATTAGTGGCGTTTATTTGTATGCGCCGC
AAAATACCTTAACCAAAACGCAGCTTTGGTTCAATTGTATATTAGAATTAGTGGCGTTTTCTATA
AAACGCCGCAAAACAATAGTATTAGCGGCGTTTAACAAAAAGCGCCGCAAATATCTTAAGGAAAA
CGCACCGTTTCATCTTGAGGTAGATTAATAT
Found at i:3339828 original size:188 final size:189
Alignment explanation
Indices: 3339578--3339968 Score: 631
Period size: 189 Copynumber: 2.1 Consensus size: 189
3339568 AAACAATAGT
* * * * *
3339578 ATTAGCGGCGTTTTCGGTAAAGCGCCGCAAATATCTTAATGAAAACGCACCGTTTCGTCTTGAGG
1 ATTAGTGGCGTTTACGATAAAACGCCGCAAATATCTTAACGAAAACGCACCGTTTCGTCTTGAGG
* * *
3339643 TAGATTAGTATTAGTGGCGTTTTTAGAAAAACG-CCGTAAAAGAACATGATTAGTGGCGTTTATT
66 TAGATTAATATTAGTGGCGTTTTTAAAAAAACGCCCGTAAAAGAACATAATTAGTGGCGTTTATT
** *
3339707 TTTATGCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGA
131 TGGAAGCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGA
* *
3339766 ATTAGTGGCGTTTACGATAAAACGCCGTAAATATCTTAACGAAAACGCACCGTTTGGTCTTGAGG
1 ATTAGTGGCGTTTACGATAAAACGCCGCAAATATCTTAACGAAAACGCACCGTTTCGTCTTGAGG
3339831 TAGATTAATATTAGTGGCGTTTTTAAAAAAACGCCCGTAAAAGAACATAATTAGTGGCGTTTATT
66 TAGATTAATATTAGTGGCGTTTTTAAAAAAACGCCCGTAAAAGAACATAATTAGTGGCGTTTATT
* * *
3339896 TGGAAGCGCCGCAAAATGCCTTAACCAAAACGCAGTGTTTGGTTTTGATGTATATTAGA
131 TGGAAGCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGA
3339955 ATTAGTGGCGTTTA
1 ATTAGTGGCGTTTA
3339969 TGGTTAAACG
Statistics
Matches: 186, Mismatches: 16, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
188 89 0.48
189 97 0.52
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.31
Consensus pattern (189 bp):
ATTAGTGGCGTTTACGATAAAACGCCGCAAATATCTTAACGAAAACGCACCGTTTCGTCTTGAGG
TAGATTAATATTAGTGGCGTTTTTAAAAAAACGCCCGTAAAAGAACATAATTAGTGGCGTTTATT
TGGAAGCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGA
Found at i:3339862 original size:74 final size:75
Alignment explanation
Indices: 3339720--3339871 Score: 200
Period size: 74 Copynumber: 2.0 Consensus size: 75
3339710 ATGCGCCGCA
* * * * *
3339720 AAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGAATTAGTGGCGTTTACGATA
1 AAATACCTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTAGAATTAGTGGCGTTTACAAAA
3339785 AAACG-CCGT
66 AAACGCCCGT
* * **
3339794 AAATATCTTAACGAAAACGCACCGTTTGGTCTTGAGGTAGATTA-ATATTAGTGGCGTTTTTAAA
1 AAATACCTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTAGA-ATTAGTGGCGTTTACAAA
3339858 AAAACGCCCGT
65 AAAACGCCCGT
3339869 AAA
1 AAA
3339872 AGAACATAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
73 1 0.01
74 59 0.88
75 7 0.10
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (75 bp):
AAATACCTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTAGAATTAGTGGCGTTTACAAAA
AAACGCCCGT
Found at i:3340409 original size:7 final size:7
Alignment explanation
Indices: 3340399--3340435 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
3340389 GGTTTATGGA
3340399 TTAGGGG
1 TTAGGGG
3340406 TTAGGGG
1 TTAGGGG
3340413 TTAGGGG
1 TTAGGGG
3340420 TTA--GG
1 TTAGGGG
3340425 TTAGGGG
1 TTAGGGG
3340432 TTAG
1 TTAG
3340436 ATGTTAAGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 5 0.18
7 23 0.82
ACGTcount: A:0.16, C:0.00, G:0.51, T:0.32
Consensus pattern (7 bp):
TTAGGGG
Found at i:3340428 original size:12 final size:12
Alignment explanation
Indices: 3340399--3340435 Score: 56
Period size: 12 Copynumber: 2.9 Consensus size: 12
3340389 GGTTTATGGA
3340399 TTAGGGGTTAGGGG
1 TTAGGGGTTA--GG
3340413 TTAGGGGTTAGG
1 TTAGGGGTTAGG
3340425 TTAGGGGTTAG
1 TTAGGGGTTAG
3340436 ATGTTAAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 13 0.57
14 10 0.43
ACGTcount: A:0.16, C:0.00, G:0.51, T:0.32
Consensus pattern (12 bp):
TTAGGGGTTAGG
Found at i:3340441 original size:19 final size:20
Alignment explanation
Indices: 3340404--3340456 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
3340394 ATGGATTAGG
*
3340404 GGTTAGGGGTTAGGGGTT-A
1 GGTTAGGGGTTAGAGGTTAA
*
3340423 GGTTAGGGGTTAGATGTTAA
1 GGTTAGGGGTTAGAGGTTAA
*
3340443 GAGTTAGGGTTTAG
1 G-GTTAGGGGTTAG
3340457 GATTTATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 16 0.55
20 2 0.07
21 11 0.38
ACGTcount: A:0.21, C:0.00, G:0.45, T:0.34
Consensus pattern (20 bp):
GGTTAGGGGTTAGAGGTTAA
Found at i:3340441 original size:26 final size:26
Alignment explanation
Indices: 3340399--3340450 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
3340389 GGTTTATGGA
* * *
3340399 TTAGGGGTTAGGGGTTAGGGGTTAGG
1 TTAGGGGTTAGAGGTTAAGAGTTAGG
*
3340425 TTAGGGGTTAGATGTTAAGAGTTAGG
1 TTAGGGGTTAGAGGTTAAGAGTTAGG
3340451 GTTTAGGATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.21, C:0.00, G:0.46, T:0.33
Consensus pattern (26 bp):
TTAGGGGTTAGAGGTTAAGAGTTAGG
Found at i:3340546 original size:7 final size:7
Alignment explanation
Indices: 3340534--3340644 Score: 127
Period size: 7 Copynumber: 15.9 Consensus size: 7
3340524 TAAATAAGTT
3340534 TTAGGGG
1 TTAGGGG
3340541 TTAGGGG
1 TTAGGGG
*
3340548 TTAGAGG
1 TTAGGGG
* *
3340555 TCATGGG
1 TTAGGGG
*
3340562 TTAAGGGT
1 TT-AGGGG
3340570 TTA-GGG
1 TTAGGGG
*
3340576 TTAAGGGT
1 TT-AGGGG
3340584 TTA-GGG
1 TTAGGGG
*
3340590 TTAAGGG
1 TTAGGGG
3340597 TTAGGGG
1 TTAGGGG
*
3340604 TTAAGGG
1 TTAGGGG
3340611 TTAGGGG
1 TTAGGGG
3340618 TTAGGGG
1 TTAGGGG
3340625 TTAGGGG
1 TTAGGGG
3340632 TTAGGGG
1 TTAGGGG
3340639 TTAGGG
1 TTAGGG
3340645 ATTGGGTTAT
Statistics
Matches: 87, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
6 9 0.10
7 69 0.79
8 9 0.10
ACGTcount: A:0.19, C:0.01, G:0.50, T:0.31
Consensus pattern (7 bp):
TTAGGGG
Found at i:3340802 original size:95 final size:96
Alignment explanation
Indices: 3340611--3340799 Score: 229
Period size: 95 Copynumber: 2.0 Consensus size: 96
3340601 GGGTTAAGGG
* * * *
3340611 TTAGGGGTTAGGGGTTAGGGGTTAGGGGTTAGGGATTGGGTTATGGTTTAAGGTTTAGATTAATT
1 TTAGGGGTTAGGGGTTAGGGGTTAGGGGTTAGGGATCGGGTTAGGGATTAAGATTTAGATTAATT
* * * * *
3340676 AGTGTTTTTTATTTTATATATTAAATAAAGT
66 AGTCTTATTTAATTAACATATTAAATAAAGT
* * * *
3340707 TTAGGGGTTAGTGGTTA-GGGTTATGGGTT-TGGAGTCGGGTTAGGGATTAAGATTTGGATTAAT
1 TTAGGGGTTAGGGGTTAGGGGTTAGGGGTTAGGGA-TCGGGTTAGGGATTAAGATTTAGATTAAT
3340770 TAGTACTTATTTAATTAACATATTAAATAA
65 TAGT-CTTATTTAATTAACATATTAAATAA
3340800 GTTCTTTATA
Statistics
Matches: 78, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
94 3 0.04
95 39 0.50
96 36 0.46
ACGTcount: A:0.27, C:0.02, G:0.30, T:0.42
Consensus pattern (96 bp):
TTAGGGGTTAGGGGTTAGGGGTTAGGGGTTAGGGATCGGGTTAGGGATTAAGATTTAGATTAATT
AGTCTTATTTAATTAACATATTAAATAAAGT
Found at i:3340890 original size:14 final size:15
Alignment explanation
Indices: 3340871--3340911 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
3340861 GATATGCAAT
3340871 ATATAATAATTT-GA
1 ATATAATAATTTGGA
3340885 ATATAATAATTTGGA
1 ATATAATAATTTGGA
*
3340900 ATTATAAAAATT
1 A-TATAATAATT
3340912 GTAAAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 12 0.50
15 3 0.12
16 9 0.38
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.41
Consensus pattern (15 bp):
ATATAATAATTTGGA
Found at i:3340981 original size:18 final size:18
Alignment explanation
Indices: 3340934--3340974 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
3340924 TCAAAATTAC
3340934 AAAAAATAAAATGAAAAT
1 AAAAAATAAAATGAAAAT
*
3340952 AAAAAATAAAAAG-AAAT
1 AAAAAATAAAATGAAAAT
3340969 AAAAAA
1 AAAAAA
3340975 ACTAAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.83, C:0.00, G:0.05, T:0.12
Consensus pattern (18 bp):
AAAAAATAAAATGAAAAT
Found at i:3341777 original size:198 final size:196
Alignment explanation
Indices: 3341449--3341857 Score: 608
Period size: 198 Copynumber: 2.1 Consensus size: 196
3341439 GGCGTTTATG
**
3341449 TATAAACGCCGCAATTTTAAGAAATTGTTTACGAAAACGGCTCCGTTTTCTTATTTATCTTTAGT
1 TATAAACGCCGCAA-AGTAAGAAATTGTTTACGAAAACGGCTCCGTTTTCTTATTTATCTTTAGT
* * *
3341514 GGCGCTTTTAGTACACGCCGCAAAATTATTTTAATTTTTATGGAGACGATGCCGTTTTGTCTAAA
65 GGCGCTTTTAGTAAACGCCGCAAAAATATTTTAATTTTTATGGAGACGATGCCGTTTTCTCTAAA
* * ** *
3341579 ACGCCATGAGTTTTAGTTTACTAATCGGGG-AACGACAGCGTTTGATCATATTACTAGTGGCGCT
130 ACGCAATGACTTAGAGTTAACTAAT-GGGGAAACGACAGCGTTTGATCATA-TACTAGTGGCGCT
3341643 AGTA
193 AGTA
* *
3341647 TATAAACGCCGCAAAGTACAGAAATTGTTTAGGAAAACGGCTTCGTTTTCTTATTTA-CTTTTAG
1 TATAAACGCCGCAAAGTA-AGAAATTGTTTACGAAAACGGCTCCGTTTTCTTATTTATC-TTTAG
*
3341711 TGGCGCTTTTAGTAAACGCCGCAAAAATGTTTTAATTTTTATGGAGACGATGCCGTTTTCTCTAA
64 TGGCGCTTTTAGTAAACGCCGCAAAAATATTTTAATTTTTATGGAGACGATGCCGTTTTCTCTAA
* * *
3341776 AATGCAATGACTTAGAGTTAACTGATGGGGAAACGACAGCGTTTGATCATATACTAGTGGCGCTG
129 AACGCAATGACTTAGAGTTAACTAATGGGGAAACGACAGCGTTTGATCATATACTAGTGGCGCTA
3341841 GTA
194 GTA
3341844 TAT-AACGCCGCAAA
1 TATAAACGCCGCAAA
3341858 TGGGTTAATT
Statistics
Matches: 192, Mismatches: 16, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
196 11 0.06
197 26 0.14
198 155 0.81
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.34
Consensus pattern (196 bp):
TATAAACGCCGCAAAGTAAGAAATTGTTTACGAAAACGGCTCCGTTTTCTTATTTATCTTTAGTG
GCGCTTTTAGTAAACGCCGCAAAAATATTTTAATTTTTATGGAGACGATGCCGTTTTCTCTAAAA
CGCAATGACTTAGAGTTAACTAATGGGGAAACGACAGCGTTTGATCATATACTAGTGGCGCTAGT
A
Found at i:3343158 original size:18 final size:19
Alignment explanation
Indices: 3343135--3343178 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
3343125 CAGAAATTTC
*
3343135 TGTTTCTCTAGCA-TGTTA
1 TGTTTCTCTACCATTGTTA
* *
3343153 TGTTTCTGTACCATTTTTA
1 TGTTTCTCTACCATTGTTA
3343172 TGTTTCT
1 TGTTTCT
3343179 TTATTTTCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.14, C:0.16, G:0.14, T:0.57
Consensus pattern (19 bp):
TGTTTCTCTACCATTGTTA
Found at i:3343194 original size:7 final size:7
Alignment explanation
Indices: 3343182--3343268 Score: 111
Period size: 7 Copynumber: 12.3 Consensus size: 7
3343172 TGTTTCTTTA
3343182 TTTTCTG
1 TTTTCTG
*
3343189 TTTTCTA
1 TTTTCTG
3343196 TTTTCTG
1 TTTTCTG
3343203 TTTTCTG
1 TTTTCTG
3343210 TTTTCTG
1 TTTTCTG
**
3343217 CATTCTG
1 TTTTCTG
3343224 TTTTCTG
1 TTTTCTG
*
3343231 TTTTCTA
1 TTTTCTG
*
3343238 TTTTTTG
1 TTTTCTG
3343245 TTTTCTG
1 TTTTCTG
*
3343252 TTTTGCTA
1 TTTT-CTG
3343260 TTTTCTG
1 TTTTCTG
3343267 TT
1 TT
3343269 GAATGAAGTG
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
7 61 0.91
8 6 0.09
ACGTcount: A:0.05, C:0.14, G:0.11, T:0.70
Consensus pattern (7 bp):
TTTTCTG
Found at i:3343208 original size:21 final size:21
Alignment explanation
Indices: 3343182--3343268 Score: 129
Period size: 21 Copynumber: 4.1 Consensus size: 21
3343172 TGTTTCTTTA
3343182 TTTTCTGTTTTCTATTTTCTG
1 TTTTCTGTTTTCTATTTTCTG
***
3343203 TTTTCTGTTTTCTGCATTCTG
1 TTTTCTGTTTTCTATTTTCTG
*
3343224 TTTTCTGTTTTCTATTTTTTG
1 TTTTCTGTTTTCTATTTTCTG
3343245 TTTTCTGTTTTGCTATTTTCTG
1 TTTTCTGTTTT-CTATTTTCTG
3343267 TT
1 TT
3343269 GAATGAAGTG
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 46 0.81
22 11 0.19
ACGTcount: A:0.05, C:0.14, G:0.11, T:0.70
Consensus pattern (21 bp):
TTTTCTGTTTTCTATTTTCTG
Found at i:3343708 original size:116 final size:116
Alignment explanation
Indices: 3343504--3343736 Score: 466
Period size: 116 Copynumber: 2.0 Consensus size: 116
3343494 CGATCAAGTA
3343504 ACAACATTATCCACTTCTCTACTTGTATAGTTCTGTGTGCTGTAACGGAAATAGCAAAGATAATA
1 ACAACATTATCCACTTCTCTACTTGTATAGTTCTGTGTGCTGTAACGGAAATAGCAAAGATAATA
3343569 CATAGGCAACAATGATTTTGACACATTTTAGTTTTTATTTAACTTATTAAT
66 CATAGGCAACAATGATTTTGACACATTTTAGTTTTTATTTAACTTATTAAT
3343620 ACAACATTATCCACTTCTCTACTTGTATAGTTCTGTGTGCTGTAACGGAAATAGCAAAGATAATA
1 ACAACATTATCCACTTCTCTACTTGTATAGTTCTGTGTGCTGTAACGGAAATAGCAAAGATAATA
3343685 CATAGGCAACAATGATTTTGACACATTTTAGTTTTTATTTAACTTATTAAT
66 CATAGGCAACAATGATTTTGACACATTTTAGTTTTTATTTAACTTATTAAT
3343736 A
1 A
3343737 TTAAAAAGTA
Statistics
Matches: 117, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
116 117 1.00
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (116 bp):
ACAACATTATCCACTTCTCTACTTGTATAGTTCTGTGTGCTGTAACGGAAATAGCAAAGATAATA
CATAGGCAACAATGATTTTGACACATTTTAGTTTTTATTTAACTTATTAAT
Found at i:3343912 original size:100 final size:100
Alignment explanation
Indices: 3343785--3344092 Score: 577
Period size: 100 Copynumber: 3.1 Consensus size: 100
3343775 TATATTAAAA
3343785 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
*
3343850 ATAT-ATTTTTTCAAAATTTATATGTTACATTACTT
66 ATATAATTTTTT-AAAATTTATATATTACATTACTT
3343885 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
3343950 ATATAATTTTTTAAAATTTATATATTACATTACTT
66 ATATAATTTTTTAAAATTTATATATTACATTACTT
3343985 -AA-ATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
3344048 ATATAATTTTTTAAAATTTATATATTACATTACTT
66 ATATAATTTTTTAAAATTTATATATTACATTACTT
3344083 AAATATATAT
1 AAATATATAT
3344093 TTTTAAGTAT
Statistics
Matches: 204, Mismatches: 1, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
98 96 0.47
99 4 0.02
100 97 0.48
101 7 0.03
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (100 bp):
AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
ATATAATTTTTTAAAATTTATATATTACATTACTT
Found at i:3344054 original size:98 final size:98
Alignment explanation
Indices: 3343789--3344092 Score: 565
Period size: 98 Copynumber: 3.1 Consensus size: 98
3343779 TTAAAAAAAT
3343789 ATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGAATAT
1 ATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGAATAT
*
3343854 -ATTTTTTCAAAATTTATATGTTACATTACTTAAA
66 AATTTTTT-AAAATTTATATATTACATTACTT-AA
3343888 TATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGAATA
1 -ATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGAATA
3343953 TAATTTTTTAAAATTTATATATTACATTACTTAA
65 TAATTTTTTAAAATTTATATATTACATTACTTAA
3343987 ATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGAATAT
1 ATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGAATAT
3344052 AATTTTTTAAAATTTATATATTACATTACTTAA
66 AATTTTTTAAAATTTATATATTACATTACTTAA
3344085 ATATATAT
1 ATATATAT
3344093 TTTTAAGTAT
Statistics
Matches: 202, Mismatches: 1, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
98 106 0.52
99 2 0.01
100 87 0.43
101 7 0.03
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.50
Consensus pattern (98 bp):
ATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGAATAT
AATTTTTTAAAATTTATATATTACATTACTTAA
Found at i:3344061 original size:46 final size:46
Alignment explanation
Indices: 3343913--3344061 Score: 137
Period size: 48 Copynumber: 3.1 Consensus size: 46
3343903 ATTTTTACAA
3343913 TTTAATTTAACTTATTACTAATACATATATTGTTCGAATATAATTT
1 TTTAATTTAACTTATTACTAATACATATATTGTTCGAATATAATTT
* * *
3343959 TTTAAAATTT-A-TATATTACATTACTTAAATATATATGTT--AATAT-TTTT
1 TTT--AATTTAACT-TATTAC--TA-ATACATATAT-TGTTCGAATATAATTT
3344007 ACAATTTAATTTAACTTATTACTAATACATATATTGTTCGAATATAATTT
1 ----TTTAATTTAACTTATTACTAATACATATATTGTTCGAATATAATTT
3344057 TTTAA
1 TTTAA
3344062 AATTTATATA
Statistics
Matches: 81, Mismatches: 6, Indels: 32
0.68 0.05 0.27
Matches are distributed among these distances:
46 9 0.11
47 11 0.14
48 16 0.20
49 14 0.17
50 16 0.20
51 11 0.14
52 4 0.05
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.50
Consensus pattern (46 bp):
TTTAATTTAACTTATTACTAATACATATATTGTTCGAATATAATTT
Found at i:3344180 original size:13 final size:13
Alignment explanation
Indices: 3344162--3344213 Score: 77
Period size: 13 Copynumber: 4.0 Consensus size: 13
3344152 TTTTACTCTT
*
3344162 AATATATTACTTG
1 AATATATTACTTA
3344175 AATATATTACTTA
1 AATATATTACTTA
*
3344188 AATAAATTACTTA
1 AATATATTACTTA
*
3344201 AATACATTACTTA
1 AATATATTACTTA
3344214 CTAAAATTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (13 bp):
AATATATTACTTA
Found at i:3344238 original size:53 final size:53
Alignment explanation
Indices: 3344181--3344316 Score: 200
Period size: 53 Copynumber: 2.6 Consensus size: 53
3344171 CTTGAATATA
**
3344181 TTACTTAAATAAATTACTTAAATACATTACTTACTAAAATTTCGTTAAATTTT
1 TTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTCGTTAAATTTT
* ** * *
3344234 TTACTTAAATATGTTACTCAGTTACATTAATTACTAAAATTTGGTTAAATTTT
1 TTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTCGTTAAATTTT
*
3344287 TTACTTAAATATGTTACTTGAATACATTAC
1 TTACTTAAATATGTTACTTAAATACATTAC
3344317 CCGCTATAAA
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
53 71 1.00
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.46
Consensus pattern (53 bp):
TTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTCGTTAAATTTT
Found at i:3344485 original size:9 final size:9
Alignment explanation
Indices: 3344461--3344702 Score: 148
Period size: 9 Copynumber: 27.8 Consensus size: 9
3344451 TATGTACAAG
3344461 AACTTACAT
1 AACTTACAT
* *
3344470 AATTTACAC
1 AACTTACAT
*
3344479 AACTTACTT
1 AACTTACAT
*
3344488 AACCTACAT
1 AACTTACAT
3344497 AACTTACAT
1 AACTTACAT
3344506 AA--TACA-
1 AACTTACAT
3344512 AAGCTTACAT
1 AA-CTTACAT
* *
3344522 AACTAAAAT
1 AACTTACAT
* *
3344531 AGCTTACAC
1 AACTTACAT
3344540 AACTTACAT
1 AACTTACAT
3344549 AACTTACAT
1 AACTTACAT
*
3344558 AACTTACAG
1 AACTTACAT
* *
3344567 AAGTTATAT
1 AACTTACAT
3344576 AA--TACAT
1 AACTTACAT
3344583 ACAACTTACAT
1 --AACTTACAT
*
3344594 AACATACAT
1 AACTTACAT
* **
3344603 TACTTTGAT
1 AACTTACAT
3344612 AACTTACAT
1 AACTTACAT
*
3344621 AAGTTACAT
1 AACTTACAT
*
3344630 AA--TACAC
1 AACTTACAT
3344637 AAC-TACAT
1 AACTTACAT
** *
3344645 AGTTTACTT
1 AACTTACAT
*
3344654 AA--TACAA
1 AACTTACAT
3344661 AACTTACAT
1 AACTTACAT
3344670 AACTT--AT
1 AACTTACAT
*
3344677 ACACGTACAT
1 A-ACTTACAT
*
3344687 AACCTACAT
1 AACTTACAT
*
3344696 AATTTAC
1 AACTTAC
3344703 TTAATACATA
Statistics
Matches: 175, Mismatches: 43, Indels: 30
0.71 0.17 0.12
Matches are distributed among these distances:
6 2 0.01
7 22 0.13
8 8 0.05
9 133 0.76
10 5 0.03
11 5 0.03
ACGTcount: A:0.45, C:0.21, G:0.03, T:0.31
Consensus pattern (9 bp):
AACTTACAT
Found at i:3344651 original size:24 final size:24
Alignment explanation
Indices: 3344612--3344670 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 24
3344602 TTACTTTGAT
*
3344612 AACTTACATAAGTTACATAATACAC
1 AACTTACAT-AGTTACATAATACAA
*
3344637 AAC-TACATAGTTTACTTAATACAA
1 AACTTACATAG-TTACATAATACAA
3344661 AACTTACATA
1 AACTTACATA
3344671 ACTTATACAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 2 0.07
24 19 0.63
25 9 0.30
ACGTcount: A:0.47, C:0.19, G:0.03, T:0.31
Consensus pattern (24 bp):
AACTTACATAGTTACATAATACAA
Found at i:3350348 original size:68 final size:66
Alignment explanation
Indices: 3350263--3350395 Score: 171
Period size: 67 Copynumber: 2.0 Consensus size: 66
3350253 GAGGCAACAT
*
3350263 CGAGAGAAATTGAGGTTCAA-AAAAGATATGAAAGAACTCCAGCTA-CAACTGAAAGCAGATGCA
1 CGAGAGAAACTGAGGTTCAACAAAAG-TATG-AAGAACTCCAGC-AGCAACTGAAAGCAGATGC-
3350326 GGCAA
62 GGCAA
* * * *
3350331 CGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCAGCAGCAGCTTAAAGCAGATGCGGCA
1 CGAGAGAAACTGAGGTTCAACAAAAGTATGAAGAACTCCAGCAGCAACTGAAAGCAGATGCGGCA
3350396 GTAAGAGAAG
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
66 5 0.09
67 27 0.47
68 22 0.38
69 4 0.07
ACGTcount: A:0.41, C:0.18, G:0.26, T:0.14
Consensus pattern (66 bp):
CGAGAGAAACTGAGGTTCAACAAAAGTATGAAGAACTCCAGCAGCAACTGAAAGCAGATGCGGCA
A
Found at i:3350406 original size:21 final size:21
Alignment explanation
Indices: 3350382--3350454 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
3350372 CAGCAGCTTA
*
3350382 AAGCAGATGCGGCAG-TAAGAG
1 AAGCAGAGGCGGCAGCT-AGAG
3350403 AAGCAGAGGCGGCAGCTAGAG
1 AAGCAGAGGCGGCAGCTAGAG
* * ** * *
3350424 AAGTACAGGTTGCAGCGAGGG
1 AAGCAGAGGCGGCAGCTAGAG
3350445 AAGCAGAGGC
1 AAGCAGAGGC
3350455 TAAAGCGAGG
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
21 40 0.98
22 1 0.02
ACGTcount: A:0.34, C:0.16, G:0.41, T:0.08
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCTAGAG
Found at i:3350461 original size:21 final size:21
Alignment explanation
Indices: 3350437--3350494 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
3350427 TACAGGTTGC
3350437 AGCGAGGGAAGCAGAGGCTAA
1 AGCGAGGGAAGCAGAGGCTAA
**
3350458 AGCGAGGGAAGCAGAGGCTGC
1 AGCGAGGGAAGCAGAGGCTAA
*
3350479 TGCGAGGGAAGCAGAG
1 AGCGAGGGAAGCAGAG
3350495 CAGCGTCAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.33, C:0.16, G:0.47, T:0.05
Consensus pattern (21 bp):
AGCGAGGGAAGCAGAGGCTAA
Found at i:3350891 original size:43 final size:42
Alignment explanation
Indices: 3350858--3351067 Score: 210
Period size: 43 Copynumber: 4.9 Consensus size: 42
3350848 AGGTGTTGGC
* *
3350858 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGT
1 CTTTAGCGGCGTTTTTGGTCAAAGCGCCGCTAAAGAT-ATGGT
* **
3350901 CTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATCATGGT
1 CTTTAGCGGCGTTTTTGGTCAAAGCGCCGCTAAAGAT-ATGGT
**
3350944 CTTTAGCGGCGTTTTTGGGGAAAGCGCCGCTAAAGAT-TAGGTT
1 CTTTAGCGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAT-GG-T
* * *
3350987 CTTTAGTGGCGTTTTGTGGTCGAAA-CGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTT-TGGTC-AAAGCGCCGCTAAAGAT-ATGGT
* **
3351031 CTATT-GCGGCGTTTTAGGGGAAAGCGCCGCTAAAGAT
1 CT-TTAGCGGCGTTTTTGGTCAAAGCGCCGCTAAAGAT
3351068 TAGGTTNNNN
Statistics
Matches: 140, Mismatches: 19, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
41 1 0.01
42 5 0.04
43 100 0.71
44 27 0.19
45 7 0.05
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (42 bp):
CTTTAGCGGCGTTTTTGGTCAAAGCGCCGCTAAAGATATGGT
Found at i:3351051 original size:87 final size:86
Alignment explanation
Indices: 3350858--3351073 Score: 283
Period size: 87 Copynumber: 2.5 Consensus size: 86
3350848 AGGTGTTGGC
* * ** * *
3350858 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAA
1 CTTTAGCGGCGTTTTAGGGGAAAGCGCCGCTAAAGATTAGGTTCTTTAGCGGCGTTTGTGGAAAA
*
3350923 AGCGCCGCTAAAGATCATGGT
66 AGCGCCGCTAAAGATCAGGGT
* * **
3350944 CTTTAGCGGCGTTTTTGGGGAAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTTGTGGTCG
1 CTTTAGCGGCGTTTTAGGGGAAAGCGCCGCTAAAGATTAGGTTCTTTAGCGGCG-TTTGTGG-AA
*
3351009 AAA-CGCCGCTATAGATCAGGGT
64 AAAGCGCCGCTAAAGATCAGGGT
3351031 CTATT-GCGGCGTTTTAGGGGAAAGCGCCGCTAAAGATTAGGTT
1 CT-TTAGCGGCGTTTTAGGGGAAAGCGCCGCTAAAGATTAGGTT
3351074 NNNNNNNNNN
Statistics
Matches: 116, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
86 48 0.41
87 63 0.54
88 5 0.04
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.29
Consensus pattern (86 bp):
CTTTAGCGGCGTTTTAGGGGAAAGCGCCGCTAAAGATTAGGTTCTTTAGCGGCGTTTGTGGAAAA
AGCGCCGCTAAAGATCAGGGT
Found at i:3351519 original size:22 final size:22
Alignment explanation
Indices: 3351491--3351533 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
3351481 CTGCGGCGCT
*
3351491 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
3351513 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
3351534 GTTATGGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.28, G:0.21, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:3359027 original size:11 final size:11
Alignment explanation
Indices: 3359011--3359054 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
3359001 AGATAAATGT
3359011 TATTTTATTAA
1 TATTTTATTAA
3359022 TATTTTATTAA
1 TATTTTATTAA
* *
3359033 TATTTTTAGTAT
1 TA-TTTTATTAA
3359045 TATTTTATTA
1 TATTTTATTA
3359055 TTAAATGATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
11 20 0.69
12 9 0.31
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:3365771 original size:2 final size:2
Alignment explanation
Indices: 3365764--3365792 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3365754 ATGATGTAAC
3365764 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
3365793 ACACACACAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:3365797 original size:2 final size:2
Alignment explanation
Indices: 3365792--3365840 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
3365782 CTCTCTCTCT
*
3365792 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA TA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
3365834 CA CA CA C
1 CA CA CA C
3365841 TTATTGACGC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.49, G:0.00, T:0.02
Consensus pattern (2 bp):
CA
Found at i:3367877 original size:18 final size:20
Alignment explanation
Indices: 3367833--3367883 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
3367823 AATATATACT
3367833 AAATTTGGTATAAAGATAGA
1 AAATTTGGTATAAAGATAGA
* * *
3367853 AATTTTGGTA-AACGTTA-A
1 AAATTTGGTATAAAGATAGA
3367871 AAATTTGGATATA
1 AAATTTGG-TATA
3367884 CATTAGATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 8 0.32
19 7 0.28
20 10 0.40
ACGTcount: A:0.45, C:0.02, G:0.18, T:0.35
Consensus pattern (20 bp):
AAATTTGGTATAAAGATAGA
Found at i:3369030 original size:39 final size:38
Alignment explanation
Indices: 3368969--3369045 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 38
3368959 ATTTTTTTCT
*
3368969 TTTATGTTCTTTTAACT-TTTTTTCTTTATTTTCCATTC
1 TTTATGTTCTTTTAACTATTTTTT-TATATTTTCCATTC
*
3369007 TTTAT-TTCTTTTAACGTAATTTTTTTATGTTTTCCATTC
1 TTTATGTTCTTTTAAC-T-ATTTTTTTATATTTTCCATTC
3369046 GTTAAAACGA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
37 10 0.29
38 6 0.18
39 12 0.35
40 6 0.18
ACGTcount: A:0.16, C:0.14, G:0.04, T:0.66
Consensus pattern (38 bp):
TTTATGTTCTTTTAACTATTTTTTTATATTTTCCATTC
Found at i:3369034 original size:37 final size:39
Alignment explanation
Indices: 3368969--3369045 Score: 97
Period size: 37 Copynumber: 2.0 Consensus size: 39
3368959 ATTTTTTTCT
**
3368969 TTTATGTTCTTTTAACTTTTTTTCTTTA-TTTTCCATTC
1 TTTATGTTCTTTTAACTAATTTTCTTTAGTTTTCCATTC
3369007 TTTAT-TTCTTTTAACGTAATTTT-TTTATGTTTTCCATTC
1 TTTATGTTCTTTTAAC-TAATTTTCTTTA-GTTTTCCATTC
3369046 GTTAAAACGA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
37 14 0.41
38 10 0.29
39 10 0.29
ACGTcount: A:0.16, C:0.14, G:0.04, T:0.66
Consensus pattern (39 bp):
TTTATGTTCTTTTAACTAATTTTCTTTAGTTTTCCATTC
Found at i:3370845 original size:22 final size:22
Alignment explanation
Indices: 3370817--3370859 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
3370807 TTTTTTGAAT
3370817 TTTTTAT-ATTTTTAATATTATA
1 TTTTTATAATTTTTAA-ATTATA
3370839 TTTTTATAATTTTTAAATTAT
1 TTTTTATAATTTTTAAATTAT
3370860 TTGTTGACGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTTATAATTTTTAAATTATA
Found at i:3371445 original size:8 final size:8
Alignment explanation
Indices: 3371432--3371458 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
3371422 TCGAATAACG
3371432 GTTCGTAT
1 GTTCGTAT
3371440 GTTCGTAT
1 GTTCGTAT
3371448 GTTCGTAT
1 GTTCGTAT
3371456 GTT
1 GTT
3371459 GAGATTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.11, G:0.26, T:0.52
Consensus pattern (8 bp):
GTTCGTAT
Found at i:3376466 original size:27 final size:26
Alignment explanation
Indices: 3376435--3376487 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 26
3376425 TGTTATGAAC
3376435 TTTTTATATATATTTCTTATAATTTTGA
1 TTTTTATA-ATATTT-TTATAATTTTGA
*
3376463 TTTTTTTGAATATTTTTATAATTTT
1 TTTTTAT-AATATTTTTATAATTTT
3376488 TTAATTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 10 0.43
28 12 0.52
29 1 0.04
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (26 bp):
TTTTTATAATATTTTTATAATTTTGA
Found at i:3378381 original size:30 final size:31
Alignment explanation
Indices: 3378337--3378401 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
3378327 ATTTAACAAG
3378337 CAAATGCCTCT-AAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAAATAATAACAAAATTAA
* *
3378367 CAAATGTCTTTAAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAAATAATAACAAAATTAA
3378398 CAAA
1 CAAA
3378402 AAAATAAGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 9 0.28
31 23 0.72
ACGTcount: A:0.58, C:0.14, G:0.03, T:0.25
Consensus pattern (31 bp):
CAAATGCCTCTAAAAATAATAACAAAATTAA
Found at i:3378932 original size:27 final size:27
Alignment explanation
Indices: 3378894--3378966 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
3378884 TGTGAAGTCC
3378894 ACAATAAACACGAGGTAGTCCG-TCGAG
1 ACAATAAACACGAGGTAGTCCGCTCG-G
* * * *
3378921 ACAATAAACACGGGGTAATCTGCTTGG
1 ACAATAAACACGAGGTAGTCCGCTCGG
*
3378948 ACAATAAACACAAGGTAGT
1 ACAATAAACACGAGGTAGT
3378967 ATGCCAGGAT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
27 36 0.95
28 2 0.05
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.18
Consensus pattern (27 bp):
ACAATAAACACGAGGTAGTCCGCTCGG
Found at i:3382835 original size:42 final size:42
Alignment explanation
Indices: 3382774--3382894 Score: 179
Period size: 42 Copynumber: 2.9 Consensus size: 42
3382764 CATAATACCA
* * *
3382774 ATGCCATATCCCAAATATGGTCTTACATGTAATCTCTTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
* * **
3382816 ATGCCATAACCCAGCTATGGTCTTACACAAAATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
3382858 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCA
3382895 GTAACCCTAA
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 68 1.00
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
Found at i:3383830 original size:14 final size:14
Alignment explanation
Indices: 3383811--3383850 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
3383801 TTGATTGGCA
3383811 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
3383825 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
3383839 GGAAAATGTTTT
1 GTAAAATGTTTT
3383851 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:3383859 original size:20 final size:20
Alignment explanation
Indices: 3383834--3383873 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
3383824 CGTAAAATGA
*
3383834 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
3383854 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
3383874 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
Done.