Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 119 of 221
Found at i:36491686 original size:22 final size:22
Alignment explanation
Indices: 36491660--36491718 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
36491650 ATATCCAAAC
* *
36491660 AATAACAATAAAATAGTAGCAA
1 AATAAAAATAAAATAGTAACAA
* * *
36491682 CATAATAATAAAATGGTAACAA
1 AATAAAAATAAAATAGTAACAA
*
36491704 AATAAAAAGAAAATA
1 AATAAAAATAAAATA
36491719 ACAAGAAAAT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.66, C:0.07, G:0.08, T:0.19
Consensus pattern (22 bp):
AATAAAAATAAAATAGTAACAA
Found at i:36491731 original size:11 final size:11
Alignment explanation
Indices: 36491702--36491732 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
36491692 AAATGGTAAC
*
36491702 AAAATAAAAAG
1 AAAATAACAAG
36491713 AAAATAACAAG
1 AAAATAACAAG
36491724 AAAATAACA
1 AAAATAACA
36491733 TTCAAAACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.77, C:0.06, G:0.06, T:0.10
Consensus pattern (11 bp):
AAAATAACAAG
Found at i:36495336 original size:47 final size:47
Alignment explanation
Indices: 36495208--36495355 Score: 145
Period size: 50 Copynumber: 3.1 Consensus size: 47
36495198 TAAATTATAC
* *
36495208 AAAAAAAATAAAGTTACTAAATTCTTAAAAACAACAAAGCTAAATTCT
1 AAAAAAAA-AAATTTACTAAATTATTAAAAACAACAAAGCTAAATTCT
* * * * * * * * *
36495256 AAATATAAAAATGTA-TGAGATTTGTTTTCAAAACAACAAGGTTAAATTGT
1 AAAAAAAAAAATTTACT-A-A-AT-TATTAAAAACAACAAAGCTAAATTCT
36495306 AAAAAAAAAAATTTACTAAATTATTAAAAACAACAAAGCTAAATTCT
1 AAAAAAAAAAATTTACTAAATTATTAAAAACAACAAAGCTAAATTCT
36495353 AAA
1 AAA
36495356 TATACGGAGA
Statistics
Matches: 76, Mismatches: 19, Indels: 11
0.72 0.18 0.10
Matches are distributed among these distances:
46 1 0.01
47 30 0.39
48 8 0.11
49 2 0.03
50 34 0.45
51 1 0.01
ACGTcount: A:0.56, C:0.09, G:0.07, T:0.28
Consensus pattern (47 bp):
AAAAAAAAAAATTTACTAAATTATTAAAAACAACAAAGCTAAATTCT
Found at i:36495351 original size:97 final size:98
Alignment explanation
Indices: 36495163--36495359 Score: 308
Period size: 97 Copynumber: 2.0 Consensus size: 98
36495153 ATCCCAACAA
**
36495163 AAAAATATATGAGATTTTTTTCAAAACAGGAAGGTTAAATTATACAAAAAAAATAAAGTTACTAA
1 AAAAATATATGAGATTTTTTTCAAAACAACAAGGTTAAATTATA-AAAAAAAATAAAGTTACTAA
*
36495228 ATTCTTAAAAACAACAAAGCTAAATTCTAAATAT
65 ATTATTAAAAACAACAAAGCTAAATTCTAAATAT
* * *
36495262 AAAAATGTATGAGATTTGTTTTCAAAACAACAAGGTTAAATTGT-AAAAAAAA-AAATTTACTAA
1 AAAAATATATGAGATTT-TTTTCAAAACAACAAGGTTAAATTATAAAAAAAAATAAAGTTACTAA
36495325 ATTATTAAAAACAACAAAGCTAAATTCTAAATAT
65 ATTATTAAAAACAACAAAGCTAAATTCTAAATAT
36495359 A
1 A
36495360 CGGAGACTAT
Statistics
Matches: 91, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
97 44 0.48
98 8 0.09
99 16 0.18
100 23 0.25
ACGTcount: A:0.54, C:0.09, G:0.08, T:0.29
Consensus pattern (98 bp):
AAAAATATATGAGATTTTTTTCAAAACAACAAGGTTAAATTATAAAAAAAAATAAAGTTACTAAA
TTATTAAAAACAACAAAGCTAAATTCTAAATAT
Found at i:36496316 original size:12 final size:12
Alignment explanation
Indices: 36496301--36496325 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36496291 TACTTTTACT
36496301 TTTAATTTTTTA
1 TTTAATTTTTTA
36496313 TTTAATTTTTTA
1 TTTAATTTTTTA
36496325 T
1 T
36496326 CCAATTTGAT
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTAATTTTTTA
Found at i:36501603 original size:46 final size:46
Alignment explanation
Indices: 36501511--36501831 Score: 457
Period size: 46 Copynumber: 7.0 Consensus size: 46
36501501 GAACAGCAGT
* * * *
36501511 AACAACATTCGGACATCATTGATTTG-TACAAAAATGGATAGCATTTA
1 AACAACATTCGGACAACA-TAATATGCTA-AAAAATGGACAGCATTTA
*
36501558 AACAACATTCGGACAACATAATATGCTAAAAAATGGACAACATTTA
1 AACAACATTCGGACAACATAATATGCTAAAAAATGGACAGCATTTA
36501604 AACAACATTCGGACAACATAATATGCTAAAAAATGGACAGCATTTA
1 AACAACATTCGGACAACATAATATGCTAAAAAATGGACAGCATTTA
* ** * *
36501650 AACAACATT-AGACAGTATAATATCCTCAAAAATGGACAGCATTTA
1 AACAACATTCGGACAACATAATATGCTAAAAAATGGACAGCATTTA
* *
36501695 AACAACATTCGGACATCATAATATGCTAAAAAATGGACAACATTTA
1 AACAACATTCGGACAACATAATATGCTAAAAAATGGACAGCATTTA
*
36501741 AACAACATTCGGACAACATAATATGCTCAAAAATGGACAGCATTTA
1 AACAACATTCGGACAACATAATATGCTAAAAAATGGACAGCATTTA
* * * *
36501787 AACAACATTCAGACAACATAATATACTAAAAAATAGACAACATTT
1 AACAACATTCGGACAACATAATATGCTAAAAAATGGACAGCATTT
36501832 TGTTATCACA
Statistics
Matches: 247, Mismatches: 25, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
45 40 0.16
46 188 0.76
47 19 0.08
ACGTcount: A:0.48, C:0.17, G:0.11, T:0.24
Consensus pattern (46 bp):
AACAACATTCGGACAACATAATATGCTAAAAAATGGACAGCATTTA
Found at i:36501749 original size:137 final size:138
Alignment explanation
Indices: 36501539--36501831 Score: 498
Period size: 137 Copynumber: 2.1 Consensus size: 138
36501529 TTGATTTGTA
*
36501539 CAAAAATGGATAGCATTTAAACAACATTCGGACAACATAATATGCTAAAAAATGGACAACATTTA
1 CAAAAATGGACAGCATTTAAACAACATTCGGACAACATAATATGCTAAAAAATGGACAACATTTA
**
36501604 AACAACATTCGGACAACATAATATGCTAAAAAATGGACAGCATTTAAACAACATT-AGACAGTAT
66 AACAACATTCGGACAACATAATATGCTAAAAAATGGACAGCATTTAAACAACATTCAGACAACAT
*
36501668 AATATCCT
131 AATATACT
*
36501676 CAAAAATGGACAGCATTTAAACAACATTCGGACATCATAATATGCTAAAAAATGGACAACATTTA
1 CAAAAATGGACAGCATTTAAACAACATTCGGACAACATAATATGCTAAAAAATGGACAACATTTA
*
36501741 AACAACATTCGGACAACATAATATGCTCAAAAATGGACAGCATTTAAACAACATTCAGACAACAT
66 AACAACATTCGGACAACATAATATGCTAAAAAATGGACAGCATTTAAACAACATTCAGACAACAT
36501806 AATATACT
131 AATATACT
* * *
36501814 AAAAAATAGACAACATTT
1 CAAAAATGGACAGCATTT
36501832 TGTTATCACA
Statistics
Matches: 146, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
137 117 0.80
138 29 0.20
ACGTcount: A:0.49, C:0.17, G:0.11, T:0.23
Consensus pattern (138 bp):
CAAAAATGGACAGCATTTAAACAACATTCGGACAACATAATATGCTAAAAAATGGACAACATTTA
AACAACATTCGGACAACATAATATGCTAAAAAATGGACAGCATTTAAACAACATTCAGACAACAT
AATATACT
Found at i:36509508 original size:25 final size:25
Alignment explanation
Indices: 36509479--36509549 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 25
36509469 CGCTCTTTCT
36509479 GATTATTAGCACATCAATGCTCTCA
1 GATTATTAGCACATCAATGCTCTCA
* * * *
36509504 GATTATTAGCACGTTAGTGCTCTCC
1 GATTATTAGCACATCAATGCTCTCA
*
36509529 G---ATTAGCACATCTATGCTCTC
1 GATTATTAGCACATCAATGCTCTC
36509550 TGTATAGCAC
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
22 16 0.42
25 22 0.58
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.34
Consensus pattern (25 bp):
GATTATTAGCACATCAATGCTCTCA
Found at i:36509536 original size:22 final size:22
Alignment explanation
Indices: 36509508--36509571 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
36509498 CTCTCAGATT
*
36509508 ATTAGCACGTTAGTGCTCTCCG
1 ATTAGCACATTAGTGCTCTCCG
*
36509530 ATTAGCACATCTA-TGCTCTCTG
1 ATTAGCACAT-TAGTGCTCTCCG
* *
36509552 -TATAGCACTTTAGTGTTCTC
1 AT-TAGCACATTAGTGCTCTC
36509572 TATTCATTAG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 3 0.09
22 30 0.86
23 2 0.06
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.38
Consensus pattern (22 bp):
ATTAGCACATTAGTGCTCTCCG
Found at i:36518144 original size:21 final size:21
Alignment explanation
Indices: 36518118--36518176 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 21
36518108 AACGCTATAT
36518118 AGAGGCACCGTAGTGCAAAAA
1 AGAGGCACCGTAGTGCAAAAA
* *
36518139 AGAGGCACTGTAGTGC-AAAT
1 AGAGGCACCGTAGTGCAAAAA
**
36518159 AGAGGCACCAAAGTGCAA
1 AGAGGCACCGTAGTGCAA
36518177 TCCCGTACAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 16 0.50
21 16 0.50
ACGTcount: A:0.41, C:0.19, G:0.29, T:0.12
Consensus pattern (21 bp):
AGAGGCACCGTAGTGCAAAAA
Found at i:36518164 original size:20 final size:21
Alignment explanation
Indices: 36518116--36518176 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
36518106 AAAACGCTAT
36518116 ATAGAGGCACCGTAGTGCAAA
1 ATAGAGGCACCGTAGTGCAAA
* *
36518137 AAAGAGGCACTGTAGTGC-AA
1 ATAGAGGCACCGTAGTGCAAA
**
36518157 ATAGAGGCACCAAAGTGCAA
1 ATAGAGGCACCGTAGTGCAA
36518177 TCCCGTACAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 16 0.48
21 17 0.52
ACGTcount: A:0.41, C:0.18, G:0.28, T:0.13
Consensus pattern (21 bp):
ATAGAGGCACCGTAGTGCAAA
Found at i:36525234 original size:30 final size:30
Alignment explanation
Indices: 36525178--36525234 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
36525168 AGAGGGATGG
*
36525178 AAAATGGCAGCTCTGCTATGTCTGTAATGA
1 AAAATGGCAGCTCTGCTACGTCTGTAATGA
* * *
36525208 AAAATGGTAGCTCTGTTACGTTTGTAA
1 AAAATGGCAGCTCTGCTACGTCTGTAA
36525235 CAGAAAATGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (30 bp):
AAAATGGCAGCTCTGCTACGTCTGTAATGA
Found at i:36525242 original size:30 final size:29
Alignment explanation
Indices: 36525177--36525245 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 29
36525167 TAGAGGGATG
* * *
36525177 GAAAATGGCAGCTCTGCTATGTCTGTAAT
1 GAAAATGGTAGCTCTGCTACGTCTGTAAA
* *
36525206 GAAAAATGGTAGCTCTGTTACGTTTGTAACA
1 G-AAAATGGTAGCTCTGCTACGTCTGTAA-A
36525237 GAAAATGGT
1 GAAAATGGT
36525246 TAGTGGTGAC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 1 0.03
30 31 0.94
31 1 0.03
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (29 bp):
GAAAATGGTAGCTCTGCTACGTCTGTAAA
Found at i:36529302 original size:41 final size:41
Alignment explanation
Indices: 36529245--36529322 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
36529235 GTTTAAACGT
*
36529245 TCACAAAAGATAAGTGTAGGTAAAATATCCAAAATATCGAG
1 TCACAAAAGATAAGTGTAGCTAAAATATCCAAAATATCGAG
* * *
36529286 TCACAAAAGATGAGTGTAGCTAAAATATTCGAAATAT
1 TCACAAAAGATAAGTGTAGCTAAAATATCCAAAATAT
36529323 GAGAATCTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.47, C:0.12, G:0.17, T:0.24
Consensus pattern (41 bp):
TCACAAAAGATAAGTGTAGCTAAAATATCCAAAATATCGAG
Found at i:36531329 original size:22 final size:22
Alignment explanation
Indices: 36531280--36531340 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
36531270 TTCTTTCTCT
*
36531280 TCAAATTTCTAATTTTAAGTTA
1 TCAAATTTCTAATTTTAAGTGA
* *
36531302 TAAAATTTCTAATTTTAGAG-GG
1 TCAAATTTCTAATTTTA-AGTGA
*
36531324 TCAAATTT-GAATTTTAA
1 TCAAATTTCTAATTTTAA
36531341 ATTTGAGGGC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
20 1 0.03
21 7 0.21
22 23 0.70
23 2 0.06
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.46
Consensus pattern (22 bp):
TCAAATTTCTAATTTTAAGTGA
Found at i:36533572 original size:21 final size:21
Alignment explanation
Indices: 36533544--36533599 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
36533534 AACAACGGTG
* *
36533544 GCGGTGAGATTAGTTATTGTA
1 GCGGTGAGATTAGATACTGTA
* *
36533565 GTGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
36533586 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
36533600 AACAATGGTG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.25, C:0.05, G:0.38, T:0.32
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:36538303 original size:23 final size:22
Alignment explanation
Indices: 36538251--36538303 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
36538241 TCCACGTCTT
*
36538251 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
36538273 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
36538296 TTTCTTTT
1 TTTCTTTT
36538304 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:36550538 original size:25 final size:24
Alignment explanation
Indices: 36550506--36550580 Score: 89
Period size: 25 Copynumber: 3.0 Consensus size: 24
36550496 AAACTCTCTC
36550506 TTGAGCCAAGTAACGGGAAGCTCA
1 TTGAGCCAAGTAACGGGAAGCTCA
*
36550530 TGTGAGCCAAGTAACGGGAAGGTCA
1 T-TGAGCCAAGTAACGGGAAGCTCA
* *
36550555 TTCGAGCTATA-TAATGGGAAGCTCA
1 TT-GAGCCA-AGTAACGGGAAGCTCA
36550580 T
1 T
36550581 AAGAGCCGTA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
24 2 0.05
25 41 0.93
26 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.21
Consensus pattern (24 bp):
TTGAGCCAAGTAACGGGAAGCTCA
Found at i:36550698 original size:25 final size:25
Alignment explanation
Indices: 36550638--36550715 Score: 79
Period size: 25 Copynumber: 3.1 Consensus size: 25
36550628 GAAGAGTCGT
*
36550638 TAATCGGGAAGCTCATAAGAGCCA-A
1 TAATCAGGAAGCTC-TAAGAGCCATA
* * *
36550663 TTATCAAGAAGCTCGTAAGAACCATA
1 TAATCAGGAAGCTC-TAAGAGCCATA
36550689 TAAT-AGGAAGCTCTAGAGAGCCATA
1 TAATCAGGAAGCTCTA-AGAGCCATA
36550714 TA
1 TA
36550716 TCGGGACGCT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
24 2 0.05
25 37 0.86
26 4 0.09
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.21
Consensus pattern (25 bp):
TAATCAGGAAGCTCTAAGAGCCATA
Found at i:36555429 original size:16 final size:16
Alignment explanation
Indices: 36555408--36555438 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36555398 CTTGTTCTTT
*
36555408 GACTTGGATTTGATTC
1 GACTTGGATTCGATTC
36555424 GACTTGGATTCGATT
1 GACTTGGATTCGATT
36555439 TGAGTCCAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.13, G:0.26, T:0.42
Consensus pattern (16 bp):
GACTTGGATTCGATTC
Found at i:36563571 original size:16 final size:16
Alignment explanation
Indices: 36563550--36563584 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
36563540 AATGAATATA
* *
36563550 AATGTGTAAATGTGAT
1 AATGTGCAAATATGAT
36563566 AATGTGCAAATATGAT
1 AATGTGCAAATATGAT
36563582 AAT
1 AAT
36563585 TGGATATTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.03, G:0.20, T:0.34
Consensus pattern (16 bp):
AATGTGCAAATATGAT
Found at i:36568812 original size:13 final size:13
Alignment explanation
Indices: 36568794--36568819 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36568784 CATCATTAAC
36568794 ATGTGTTTTAATT
1 ATGTGTTTTAATT
36568807 ATGTGTTTTAATT
1 ATGTGTTTTAATT
36568820 TTGACATCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (13 bp):
ATGTGTTTTAATT
Found at i:36571150 original size:16 final size:16
Alignment explanation
Indices: 36571125--36571158 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
36571115 ATGAATATAT
* *
36571125 ATGTGTAAATGTGATA
1 ATGTGCAAATATGATA
36571141 ATGTGCAAATATGATA
1 ATGTGCAAATATGATA
36571157 AT
1 AT
36571159 TGAATATTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (16 bp):
ATGTGCAAATATGATA
Found at i:36571886 original size:128 final size:128
Alignment explanation
Indices: 36571658--36571913 Score: 487
Period size: 128 Copynumber: 2.0 Consensus size: 128
36571648 ATGAAATATG
36571658 ATAGCATGTGTAAATTGAATGTAGTATTAAATAATGTGCTAATATGTATGAATTCAAAAGGTTCG
1 ATAGCATGTGTAAATTGAATGTAGTATTAAATAATGTGCTAATATGTATGAATTCAAAAGGTTCG
36571723 CATATGATAGTTGTGATATTAGTCATTAATATGTGTTTATAATTAAATTGTGCATTTTGTATT
66 CATATGATAGTTGTGATATTAGTCATTAATATGTGTTTATAATTAAATTGTGCATTTTGTATT
*
36571786 ATAGCATGTGTAAATTGAATGTAGT-TTGAAATAATGTGCTGATATGTATGAATTCAAAAGGTTC
1 ATAGCATGTGTAAATTGAATGTAGTATT-AAATAATGTGCTAATATGTATGAATTCAAAAGGTTC
36571850 GCATATGATAGTTGTGATATTAGTCATTAATATGTGTTTATAATTAAATTGTGCATTTTGTATT
65 GCATATGATAGTTGTGATATTAGTCATTAATATGTGTTTATAATTAAATTGTGCATTTTGTATT
36571914 CACCTGTCTT
Statistics
Matches: 126, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
127 2 0.02
128 124 0.98
ACGTcount: A:0.34, C:0.05, G:0.19, T:0.42
Consensus pattern (128 bp):
ATAGCATGTGTAAATTGAATGTAGTATTAAATAATGTGCTAATATGTATGAATTCAAAAGGTTCG
CATATGATAGTTGTGATATTAGTCATTAATATGTGTTTATAATTAAATTGTGCATTTTGTATT
Found at i:36577761 original size:24 final size:25
Alignment explanation
Indices: 36577669--36577760 Score: 70
Period size: 24 Copynumber: 3.8 Consensus size: 25
36577659 GCACTCTCCC
36577669 GAGCCATATAACGGAAA-CTCAT-AA
1 GAGCCAT-TAACGGAAAGCTCATGAA
*
36577693 GAGCCA-TAATCAGG-AAGCTCATG-C
1 GAGCCATTAA-C-GGAAAGCTCATGAA
* * **
36577717 GAGCCAATAATGGGCAGCTC-TGAA
1 GAGCCATTAACGGAAAGCTCATGAA
36577741 GAGCCATTAACGGAAAGCTC
1 GAGCCATTAACGGAAAGCTC
36577761 TTGATAACCA
Statistics
Matches: 53, Mismatches: 8, Indels: 14
0.71 0.11 0.19
Matches are distributed among these distances:
22 3 0.06
23 7 0.13
24 40 0.75
25 3 0.06
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (25 bp):
GAGCCATTAACGGAAAGCTCATGAA
Found at i:36585372 original size:25 final size:25
Alignment explanation
Indices: 36585344--36585461 Score: 82
Period size: 25 Copynumber: 4.8 Consensus size: 25
36585334 CACTCTCTCA
36585344 AGCCATATAACGGGAAGCTCATGTG
1 AGCCATATAACGGGAAGCTCATGTG
* * * **
36585369 AGCCATGTAACGAGAAGCTTATCCG
1 AGCCATATAACGGGAAGCTCATGTG
* * * **
36585394 GGCTATATAATGGGAAGCTCATAAG
1 AGCCATATAACGGGAAGCTCATGTG
*
36585419 AGCCATAATTAA---GAAGCTTATGTG
1 AGCCAT-A-TAACGGGAAGCTCATGTG
*
36585443 AGCCA-ATAACGGGTAGCTC
1 AGCCATATAACGGGAAGCTC
36585462 CGAAGAGCCA
Statistics
Matches: 68, Mismatches: 20, Indels: 11
0.69 0.20 0.11
Matches are distributed among these distances:
21 3 0.04
22 1 0.01
24 19 0.28
25 41 0.60
26 1 0.01
27 3 0.04
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (25 bp):
AGCCATATAACGGGAAGCTCATGTG
Found at i:36585582 original size:27 final size:26
Alignment explanation
Indices: 36585524--36585595 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 26
36585514 AGAGCCATAT
* *
36585524 CGGGAAGCTCACAAAGAGGCTTTAAT
1 CGGGAAGCTCACAAAGAGCCTTTAAA
* *
36585550 CAGGAAGCTCATGAAAGAGCCTTTAAA
1 CGGGAAGCTCA-CAAAGAGCCTTTAAA
*
36585577 CGGGAAACTCACAAAGAGC
1 CGGGAAGCTCACAAAGAGC
36585596 TAAGGTGTGC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 17 0.45
27 21 0.55
ACGTcount: A:0.39, C:0.21, G:0.25, T:0.15
Consensus pattern (26 bp):
CGGGAAGCTCACAAAGAGCCTTTAAA
Found at i:36586916 original size:25 final size:25
Alignment explanation
Indices: 36586879--36586939 Score: 104
Period size: 25 Copynumber: 2.4 Consensus size: 25
36586869 CCTAATATAT
36586879 ATATAATATATTTGATTAAAAATAAA
1 ATAT-ATATATTTGATTAAAAATAAA
*
36586905 ATATATATATTTGATTAAAAATAAT
1 ATATATATATTTGATTAAAAATAAA
36586930 ATATATATAT
1 ATATATATAT
36586940 AATATATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 30 0.88
26 4 0.12
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (25 bp):
ATATATATATTTGATTAAAAATAAA
Found at i:36597969 original size:5 final size:5
Alignment explanation
Indices: 36597959--36598027 Score: 59
Period size: 5 Copynumber: 13.0 Consensus size: 5
36597949 ATATGATGAA
* * *
36597959 ATATG ATATG ATATA ATATAAG ATATG CT-TCG ATATG AAATTTG ATATG
1 ATATG ATATG ATATG ATAT--G ATATG ATAT-G ATATG --ATATG ATATG
36598008 ATATG ATATG ATATG ATATG
1 ATATG ATATG ATATG ATATG
36598028 TAATAAATTA
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
4 1 0.02
5 42 0.81
6 1 0.02
7 8 0.15
ACGTcount: A:0.41, C:0.03, G:0.17, T:0.39
Consensus pattern (5 bp):
ATATG
Found at i:36597985 original size:22 final size:22
Alignment explanation
Indices: 36597959--36598021 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 22
36597949 ATATGATGAA
36597959 ATATGATATGATATAATATAAG
1 ATATGATATGATATAATATAAG
* **
36597981 ATATGCT-TCGATATGAA-ATTTG
1 ATATGATAT-GATAT-AATATAAG
*
36598003 ATATGATATGATATGATAT
1 ATATGATATGATATAATAT
36598022 GATATGTAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
21 2 0.06
22 27 0.84
23 3 0.09
ACGTcount: A:0.41, C:0.03, G:0.16, T:0.40
Consensus pattern (22 bp):
ATATGATATGATATAATATAAG
Found at i:36598040 original size:54 final size:54
Alignment explanation
Indices: 36597959--36598061 Score: 129
Period size: 54 Copynumber: 1.9 Consensus size: 54
36597949 ATATGATGAA
* *
36597959 ATATGATATGATATAATATAAGATATGCTTCGATATGAAATTTGATATGATATG
1 ATATGATATGATATAATATAAGATATGCTCCGATATGAAATCTGATATGATATG
* * *
36598013 ATATGATATGATATGTAATA-AA-TTATGCTCCGTTATGATATCTGATATG
1 ATATGATATGATA--TAATATAAGATATGCTCCGATATGAAATCTGATATG
36598062 CCACGATACT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
54 35 0.83
55 2 0.05
56 5 0.12
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.40
Consensus pattern (54 bp):
ATATGATATGATATAATATAAGATATGCTCCGATATGAAATCTGATATGATATG
Found at i:36601630 original size:19 final size:20
Alignment explanation
Indices: 36601581--36601638 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
36601571 GAAGATGAGA
* * *
36601581 AAAAGTAGAGAAAGAGAATG
1 AAAAGAAGAAAAAAAGAATG
36601601 AAAAGAAGAAAAAAAGAATG
1 AAAAGAAGAAAAAAAGAATG
*
36601621 GAAA-AAGAAAAAAAGAAT
1 AAAAGAAGAAAAAAAGAAT
36601639 ATGGCAAGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 14 0.41
20 20 0.59
ACGTcount: A:0.71, C:0.00, G:0.22, T:0.07
Consensus pattern (20 bp):
AAAAGAAGAAAAAAAGAATG
Found at i:36602106 original size:3 final size:3
Alignment explanation
Indices: 36602098--36602128 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
36602088 TTTGATCCCT
*
36602098 CTC CTC CTC CTC CTC CTC ATC CTC CTC CTC C
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC C
36602129 CCCAAGCGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.03, C:0.65, G:0.00, T:0.32
Consensus pattern (3 bp):
CTC
Found at i:36624275 original size:23 final size:23
Alignment explanation
Indices: 36624244--36624294 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
36624234 ACCTACTTTC
* *
36624244 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
36624267 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
36624290 TTACA
1 TTACA
36624295 TTTTCAGGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:36624785 original size:70 final size:70
Alignment explanation
Indices: 36624675--36625056 Score: 449
Period size: 70 Copynumber: 5.5 Consensus size: 70
36624665 TAAAGCTTGT
* * *
36624675 AGGTTTAATACCGCAGCCTCCAAACAATTAGTGAGTGTTAAAAGCTCCCAACTGTCACTCTAAGG
1 AGGTTTAATACCGCAGCCTCCAAACAGTTAGCGAGAGTTAAAAGCTCCCAACTGTCACTCTAAGG
*
36624740 CTCGT
66 CTCGC
* * * *
36624745 AGGTTTAATATCGCCGCCTCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAACTGTCAATCTAAGG
1 AGGTTTAATACCGCAGCCTCCAAACAGTTAGCGAGAGTTAAAAGCTCCCAACTGTCACTCTAAGG
*
36624810 CTCCC
66 CTCGC
* * ** * * * * *
36624815 AGGTTTAATATCGCAACCTTTAAACAATTAGTGAGAGTTAAAAGCTCCTAAGTATCACTCTAAGG
1 AGGTTTAATACCGCAGCCTCCAAACAGTTAGCGAGAGTTAAAAGCTCCCAACTGTCACTCTAAGG
36624880 CTCGC
66 CTCGC
* * * * *
36624885 AGGTTTAATACCTCAGCCTCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAGCTATCATTCTAAGG
1 AGGTTTAATACCGCAGCCTCCAAACAGTTAGCGAGAGTTAAAAGCTCCCAACTGTCACTCTAAGG
36624950 CTCGC
66 CTCGC
* * * ** *
36624955 AGGTTTAATACCACAGCCTTCAAACAGTTAGCGAGAGTTAAAAGCTCCTAGTTGTCATTCTAAGG
1 AGGTTTAATACCGCAGCCTCCAAACAGTTAGCGAGAGTTAAAAGCTCCCAACTGTCACTCTAAGG
*
36625020 CTCGT
66 CTCGC
* * * * *
36625025 AGGTTTGATATCACAGCCTCGAAATAGTTAGC
1 AGGTTTAATACCGCAGCCTCCAAACAGTTAGC
36625057 ACGAGCTCAA
Statistics
Matches: 267, Mismatches: 45, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
70 267 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.27
Consensus pattern (70 bp):
AGGTTTAATACCGCAGCCTCCAAACAGTTAGCGAGAGTTAAAAGCTCCCAACTGTCACTCTAAGG
CTCGC
Found at i:36624915 original size:140 final size:140
Alignment explanation
Indices: 36624675--36625056 Score: 541
Period size: 140 Copynumber: 2.7 Consensus size: 140
36624665 TAAAGCTTGT
* * * *
36624675 AGGTTTAATACCGCAGCCTCCAAACAATTAGTGAGTGTTAAAAGCTCCCAACTGTCACTCTAAGG
1 AGGTTTAATACCGCAGCCTTCAAACAATTAGTGAGAGTTAAAAGCTCCTAAGTGTCACTCTAAGG
* * *
36624740 CTCGTAGGTTTAATATCGCCGCCTCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAACTGTCAATC
66 CTCGTAGGTTTAATATCACAGCCTCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAACTATCAATC
36624805 TAAGGCTCCC
131 TAAGGCTCCC
* * * *
36624815 AGGTTTAATATCGCAACCTTTAAACAATTAGTGAGAGTTAAAAGCTCCTAAGTATCACTCTAAGG
1 AGGTTTAATACCGCAGCCTTCAAACAATTAGTGAGAGTTAAAAGCTCCTAAGTGTCACTCTAAGG
* * * * *
36624880 CTCGCAGGTTTAATACCTCAGCCTCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAGCTATCATTC
66 CTCGTAGGTTTAATATCACAGCCTCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAACTATCAATC
*
36624945 TAAGGCTCGC
131 TAAGGCTCCC
* * * *
36624955 AGGTTTAATACCACAGCCTTCAAACAGTTAGCGAGAGTTAAAAGCTCCT-AGTTGTCATTCTAAG
1 AGGTTTAATACCGCAGCCTTCAAACAATTAGTGAGAGTTAAAAGCTCCTAAG-TGTCACTCTAAG
* *
36625019 GCTCGTAGGTTTGATATCACAGCCTCGAAATAGTTAGC
65 GCTCGTAGGTTTAATATCACAGCCTCCAAATAGTTAGC
36625057 ACGAGCTCAA
Statistics
Matches: 212, Mismatches: 29, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
139 2 0.01
140 210 0.99
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.27
Consensus pattern (140 bp):
AGGTTTAATACCGCAGCCTTCAAACAATTAGTGAGAGTTAAAAGCTCCTAAGTGTCACTCTAAGG
CTCGTAGGTTTAATATCACAGCCTCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAACTATCAATC
TAAGGCTCCC
Found at i:36638663 original size:25 final size:24
Alignment explanation
Indices: 36638609--36638700 Score: 87
Period size: 25 Copynumber: 3.8 Consensus size: 24
36638599 AATTATCGAG
*
36638609 AAGCTCATGCGAGCCATAAACAGA
1 AAGCTCATGAGAGCCATAAACAGA
* * *
36638633 AAGCTCAAGAGAGCCATTAATCGGA
1 AAGCTCATGAGAGCCA-TAAACAGA
* *
36638658 AAGCTCATGAGAGCCACATATCAGGA
1 AAGCTCATGAGAGCCATA-AACA-GA
*
36638684 AA-CTCGTGAGAGCCATA
1 AAGCTCATGAGAGCCATA
36638701 TAACGGGGTG
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
24 15 0.27
25 37 0.66
26 4 0.07
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.15
Consensus pattern (24 bp):
AAGCTCATGAGAGCCATAAACAGA
Found at i:36642303 original size:57 final size:57
Alignment explanation
Indices: 36642233--36642439 Score: 238
Period size: 57 Copynumber: 3.6 Consensus size: 57
36642223 GAGCAACTTT
* * *
36642233 ATACTTGAGAAAATTTGAAAGATAACCAACTTGGGATGTAGATCCGCAAGCTGTTTC
1 ATACTTAAAAAAATTTGAAAGATAACCAACTGGGGATGTAGATCCGCAAGCTGTTTC
* * *
36642290 ATACTTAAAAAAATTTGAAAGATAACCAACTGGGGATATAGATGCGTAAGCTGTTTC
1 ATACTTAAAAAAATTTGAAAGATAACCAACTGGGGATGTAGATCCGCAAGCTGTTTC
* * * * * *
36642347 ATACTTAAGAAAATTTAAAAGATAAACAGCTGGGGATGT-GAAACCGCAAGTTGTATT-
1 ATACTTAAAAAAATTTGAAAGATAACCAACTGGGGATGTAG-ATCCGCAAGCTGT-TTC
* *
36642404 ATACTTAAGAAAATTTTGAAAGATAACACACCTGGG
1 ATACTTAA-AAAAATTTGAAAGATAAC-CAACTGGG
36642440 AGTTTTTAAC
Statistics
Matches: 126, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
56 1 0.01
57 102 0.81
58 16 0.13
59 7 0.06
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (57 bp):
ATACTTAAAAAAATTTGAAAGATAACCAACTGGGGATGTAGATCCGCAAGCTGTTTC
Found at i:36642530 original size:69 final size:68
Alignment explanation
Indices: 36642449--36642677 Score: 341
Period size: 69 Copynumber: 3.3 Consensus size: 68
36642439 GAGTTTTTAA
* * * *
36642449 CTCTCGCTAACTATGTTAGAGGTTGTAGTCTTTATCCTACGAGCCTTAGTATGACAGTTGGGAGC
1 CTCTCACTAACTATGTTGGAGGTTGCAGT-TTTATCCTGCGAGCCTTAGTATGACAGTTGGGAGC
36642514 TTTG
65 TTTG
*
36642518 CTCTCACTAACTATGTTGGAGGTTGCAATTTTTATCCTGCGAGCCTTAGTATGACAGTTGGGAGC
1 CTCTCACTAACTATGTTGGAGGTTGC-AGTTTTATCCTGCGAGCCTTAGTATGACAGTTGGGAGC
36642583 TTTG
65 TTTG
* * * *
36642587 CTCTTACTAACTGTGTTGGAGGCTACAGTTTTAATCCTGCGAGCCTTAGTATGACAGTTGGGAGC
1 CTCTCACTAACTATGTTGGAGGTTGCAGTTTT-ATCCTGCGAGCCTTAGTATGACAGTTGGGAGC
36642652 TTTG
65 TTTG
*
36642656 CTCTCACTAACTGTGTTGGAGG
1 CTCTCACTAACTATGTTGGAGG
36642678 CTACATCTCT
Statistics
Matches: 147, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
68 5 0.03
69 140 0.95
70 2 0.01
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.35
Consensus pattern (68 bp):
CTCTCACTAACTATGTTGGAGGTTGCAGTTTTATCCTGCGAGCCTTAGTATGACAGTTGGGAGCT
TTG
Found at i:36642697 original size:69 final size:68
Alignment explanation
Indices: 36642482--36642711 Score: 336
Period size: 69 Copynumber: 3.3 Consensus size: 68
36642472 TGTAGTCTTT
* * * *
36642482 ATCCTACGAGCCTTAGTATGACAGTTGGGAGCTTTGCTCTCACTAACTATGTTGGAGGTTGCAAT
1 ATCCTGCGAGCCTTAGTATGACAGTTGGGAGCTTTGCTCTCACTAACTGTGTTGGAGGCTAC-AT
*
36642547 TTTT
65 TTTA
*
36642551 ATCCTGCGAGCCTTAGTATGACAGTTGGGAGCTTTGCTCTTACTAACTGTGTTGGAGGCTACAGT
1 ATCCTGCGAGCCTTAGTATGACAGTTGGGAGCTTTGCTCTCACTAACTGTGTTGGAGGCTACA-T
36642616 TTTA
65 TTTA
36642620 ATCCTGCGAGCCTTAGTATGACAGTTGGGAGCTTTGCTCTCACTAACTGTGTTGGAGGCTACATC
1 ATCCTGCGAGCCTTAGTATGACAGTTGGGAGCTTTGCTCTCACTAACTGTGTTGGAGGCTACAT-
*
36642685 TCTTC
65 T-TTA
* *
36642690 A-CGTGCGAGCCTTAATATGACA
1 ATCCTGCGAGCCTTAGTATGACA
36642712 TAAATGTTGT
Statistics
Matches: 148, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
68 2 0.01
69 143 0.97
70 3 0.02
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.33
Consensus pattern (68 bp):
ATCCTGCGAGCCTTAGTATGACAGTTGGGAGCTTTGCTCTCACTAACTGTGTTGGAGGCTACATT
TTA
Found at i:36645765 original size:12 final size:12
Alignment explanation
Indices: 36645748--36645774 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
36645738 TGTTTCTCGA
36645748 GAAAGCATCCAT
1 GAAAGCATCCAT
36645760 GAAAGCATCCAT
1 GAAAGCATCCAT
36645772 GAA
1 GAA
36645775 GCTCATGAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.22, G:0.19, T:0.15
Consensus pattern (12 bp):
GAAAGCATCCAT
Found at i:36649821 original size:15 final size:16
Alignment explanation
Indices: 36649801--36649830 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
36649791 ATTTTTATAG
36649801 TTATTTTTA-TTTTAA
1 TTATTTTTACTTTTAA
36649816 TTATTTTTACTTTTA
1 TTATTTTTACTTTTA
36649831 TCATATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (16 bp):
TTATTTTTACTTTTAA
Found at i:36652305 original size:15 final size:15
Alignment explanation
Indices: 36652285--36652315 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
36652275 AAAGCAACAT
36652285 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
36652300 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
36652315 A
1 A
36652316 CTTACATAAC
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:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:36656651 original size:15 final size:15
Alignment explanation
Indices: 36656631--36656661 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
36656621 AAAACAACAT
36656631 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
36656646 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
36656661 A
1 A
36656662 CTTACATAAC
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:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:36657216 original size:37 final size:37
Alignment explanation
Indices: 36657144--36657216 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 37
36657134 CTTTTTTGTG
* * *
36657144 TTCTTTTTACCCAAAAAAGCTCATCTATATGTTGTTA
1 TTCTTTTTACCCAAAAAACCGCATCTATATATTGTTA
*
36657181 TTCTTTTTACCCAAAATACCGCAT-TGATATATTGTT
1 TTCTTTTTACCCAAAAAACCGCATCT-ATATATTGTT
36657217 GGGACATTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 1 0.03
37 30 0.97
ACGTcount: A:0.29, C:0.19, G:0.08, T:0.44
Consensus pattern (37 bp):
TTCTTTTTACCCAAAAAACCGCATCTATATATTGTTA
Found at i:36658498 original size:2 final size:2
Alignment explanation
Indices: 36658491--36658520 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
36658481 TGAATCCGTA
*
36658491 CT CT CT CT CT GT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
36658521 ATATATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.47, G:0.03, T:0.50
Consensus pattern (2 bp):
CT
Found at i:36670190 original size:30 final size:31
Alignment explanation
Indices: 36670155--36670220 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 31
36670145 GTAAGGGTTA
* *
36670155 ATTTCAATTTTTG-AATCTTATTTAATATTTT
1 ATTTCAATTTATGTAATCTTAATTAAT-TTTT
*
36670186 -TTTC-ATTTATGTAATTTTAATTAATTTTT
1 ATTTCAATTTATGTAATCTTAATTAATTTTT
36670215 ATTTCA
1 ATTTCA
36670221 TAATTTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (31 bp):
ATTTCAATTTATGTAATCTTAATTAATTTTT
Found at i:36671759 original size:18 final size:18
Alignment explanation
Indices: 36671736--36671771 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
36671726 TGTCAAGTGC
36671736 GTATCCTAGCCCTTATAT
1 GTATCCTAGCCCTTATAT
36671754 GTATCCTAGCCCTTATAT
1 GTATCCTAGCCCTTATAT
36671772 ATTTCCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.28, G:0.11, T:0.39
Consensus pattern (18 bp):
GTATCCTAGCCCTTATAT
Found at i:36671778 original size:18 final size:18
Alignment explanation
Indices: 36671737--36671778 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
36671727 GTCAAGTGCG
*
36671737 TATCCTAGCCCTTATATG
1 TATCCTAGCCCTTATATA
36671755 TATCCTAGCCCTTATATA
1 TATCCTAGCCCTTATATA
*
36671773 TTTCCT
1 TATCCT
36671779 TTTCCCAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.29, G:0.07, T:0.43
Consensus pattern (18 bp):
TATCCTAGCCCTTATATA
Found at i:36672836 original size:19 final size:19
Alignment explanation
Indices: 36672812--36672849 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
36672802 CCAAAAAGAG
36672812 ATTAATAATATCATATAAT
1 ATTAATAATATCATATAAT
36672831 ATTAATAATATCATATAAT
1 ATTAATAATATCATATAAT
36672850 TCCTTCATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (19 bp):
ATTAATAATATCATATAAT
Found at i:36687228 original size:17 final size:17
Alignment explanation
Indices: 36687206--36687243 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
36687196 GTTCATTTTT
36687206 ACTTTCTTGCACTTGTC
1 ACTTTCTTGCACTTGTC
36687223 ACTTTCTTGCACTTGTC
1 ACTTTCTTGCACTTGTC
36687240 ACTT
1 ACTT
36687244 AGTTCGTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.13, C:0.29, G:0.11, T:0.47
Consensus pattern (17 bp):
ACTTTCTTGCACTTGTC
Found at i:36689431 original size:15 final size:15
Alignment explanation
Indices: 36689406--36689441 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
36689396 ACAATTACTT
*
36689406 ATTTCAATTCAATTCA
1 ATTT-AATTCAATCCA
36689422 ATTTAATTCAATCCA
1 ATTTAATTCAATCCA
36689437 ATTTA
1 ATTTA
36689442 TATATTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.39, C:0.17, G:0.00, T:0.44
Consensus pattern (15 bp):
ATTTAATTCAATCCA
Found at i:36691729 original size:26 final size:27
Alignment explanation
Indices: 36691690--36691756 Score: 66
Period size: 26 Copynumber: 2.5 Consensus size: 27
36691680 CCCTACAATT
* *
36691690 ATAGCCTATATGGCACAAT-ATGAAAGG
1 ATAGCCTCTGTGGC-CAATCATGAAAGG
* * *
36691717 A-AGCCTTTGTGGCGAATCATGAAGGG
1 ATAGCCTCTGTGGCCAATCATGAAAGG
36691743 ATAGCCTCTGTGGC
1 ATAGCCTCTGTGGC
36691757 GTACCATGGA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
25 3 0.09
26 18 0.55
27 12 0.36
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (27 bp):
ATAGCCTCTGTGGCCAATCATGAAAGG
Found at i:36691764 original size:27 final size:26
Alignment explanation
Indices: 36691709--36691775 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
36691699 ATGGCACAAT
* *
36691709 ATGAAAGGAAGCCTTTGTGGCGAATC
1 ATGAAAGGAAGCCTCTGTGGCGAACC
* *
36691735 ATGAAGGGATAGCCTCTGTGGCGTACC
1 ATGAAAGGA-AGCCTCTGTGGCGAACC
* *
36691762 ATGGAATGAAGCCT
1 ATGAAAGGAAGCCT
36691776 TTATGGAGGA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
26 13 0.39
27 20 0.61
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.22
Consensus pattern (26 bp):
ATGAAAGGAAGCCTCTGTGGCGAACC
Found at i:36709440 original size:17 final size:17
Alignment explanation
Indices: 36709418--36709450 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
36709408 AAGTAGAGAA
36709418 TTTGAATAAA-TAATTTT
1 TTTGAA-AAATTAATTTT
36709435 TTTGAAAAATTAATTT
1 TTTGAAAAATTAATTT
36709451 GGAAAATCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (17 bp):
TTTGAAAAATTAATTTT
Found at i:36710297 original size:31 final size:31
Alignment explanation
Indices: 36710262--36710427 Score: 171
Period size: 31 Copynumber: 5.4 Consensus size: 31
36710252 AATCTTATAT
*
36710262 TTAATTTAATATTTATCTAGATAGTATTTTA
1 TTAATTTAATATTTATCTAGATAATATTTTA
* **
36710293 TTAATTTAATATTAATAT-TATATAATA-AAT-
1 TTAATTTAATATT--TATCTAGATAATATTTTA
* *
36710323 TTAATTTAATATTCATCAAGATAATATTTTA
1 TTAATTTAATATTTATCTAGATAATATTTTA
* * **
36710354 TTAATTTAATATTAATATGAGATAATA-AAT-
1 TTAATTTAATATTTATCT-AGATAATATTTTA
*
36710384 TTAATTTAATATTTATCTTGATAATATTTTA
1 TTAATTTAATATTTATCTAGATAATATTTTA
36710415 TTAATTTAATATT
1 TTAATTTAATATT
36710428 AATGTGATTA
Statistics
Matches: 108, Mismatches: 19, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
28 2 0.02
29 14 0.13
30 31 0.29
31 43 0.40
32 15 0.14
33 3 0.03
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (31 bp):
TTAATTTAATATTTATCTAGATAATATTTTA
Found at i:36710332 original size:61 final size:61
Alignment explanation
Indices: 36710260--36710430 Score: 288
Period size: 61 Copynumber: 2.8 Consensus size: 61
36710250 TTAATCTTAT
* * *
36710260 ATTTAATTTAATATTTATCTAGATAGTATTTTATTAATTTAATATTAATATTATATAATAA
1 ATTTAATTTAATATTTATCTAGATAATATTTTATTAATTTAATATTAATATGAGATAATAA
* *
36710321 ATTTAATTTAATATTCATCAAGATAATATTTTATTAATTTAATATTAATATGAGATAATAA
1 ATTTAATTTAATATTTATCTAGATAATATTTTATTAATTTAATATTAATATGAGATAATAA
*
36710382 ATTTAATTTAATATTTATCTTGATAATATTTTATTAATTTAATATTAAT
1 ATTTAATTTAATATTTATCTAGATAATATTTTATTAATTTAATATTAAT
36710431 GTGATTAATT
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 102 1.00
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (61 bp):
ATTTAATTTAATATTTATCTAGATAATATTTTATTAATTTAATATTAATATGAGATAATAA
Found at i:36726411 original size:13 final size:13
Alignment explanation
Indices: 36726393--36726417 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36726383 GTTTACAAGA
36726393 TTACATAATCAAT
1 TTACATAATCAAT
36726406 TTACATAATCAA
1 TTACATAATCAA
36726418 ATTAAATCTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (13 bp):
TTACATAATCAAT
Found at i:36726456 original size:25 final size:25
Alignment explanation
Indices: 36726428--36726481 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
36726418 ATTAAATCTC
*
36726428 ATCTTATAAGA-TATGATTCCCTTTA
1 ATCTTATAAGATTA-GATTCCCCTTA
* *
36726453 ATCTTCTAAGATTAGCTTCCCCTTA
1 ATCTTATAAGATTAGATTCCCCTTA
36726478 ATCT
1 ATCT
36726482 GATAGGCTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 23 0.92
26 2 0.08
ACGTcount: A:0.28, C:0.22, G:0.07, T:0.43
Consensus pattern (25 bp):
ATCTTATAAGATTAGATTCCCCTTA
Found at i:36731557 original size:79 final size:81
Alignment explanation
Indices: 36731421--36731603 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
36731411 GAATGATGTA
* *
36731421 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCTGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTG
*
36731485 TGCGAGATACTA-ATTC
66 TGCGAGATACTATA-AC
* * * **
36731501 CGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATTT
*
36731563 GTGCGAGTTACTATAAC
65 GTGCGAGATACTATAAC
*
36731580 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
36731604 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.64
80 31 0.35
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGATACTATAAC
Found at i:36731617 original size:40 final size:40
Alignment explanation
Indices: 36731421--36731603 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
36731411 GAATGATGTA
* * * *
36731421 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAAC
* * * *
36731461 CGGACTAAGAT-CTGAAGGCATTTGTGCGAGATACTA-ATTC
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-AC
36731501 CGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-C
*
36731540 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
*
36731580 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
36731604 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
Found at i:36731625 original size:79 final size:79
Alignment explanation
Indices: 36731474--36731635 Score: 204
Period size: 79 Copynumber: 2.1 Consensus size: 79
36731464 ACTAAGATCT
* **
36731474 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 GAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAAT
*
36731539 CCGGGTTAAGTCCC
66 CCGGGTTAAATCCC
* *
36731553 GAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTA
1 GAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTA
* *
36731616 TATCC-GGTTAAATTCC
63 AATCCGGGTTAAATCCC
36731632 GAAG
1 GAAG
36731636 TTACGTGATT
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 45 0.62
80 25 0.35
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (79 bp):
GAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAAT
CCGGGTTAAATCCC
Found at i:36752340 original size:19 final size:19
Alignment explanation
Indices: 36752312--36752351 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
36752302 TTATAATTTA
36752312 ATTATAA-TTTTTATAACAT
1 ATTATAATTTTTTAT-ACAT
*
36752331 ATTATTATTTTTTATACAT
1 ATTATAATTTTTTATACAT
36752350 AT
1 AT
36752352 ATTTAACCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTATAATTTTTTATACAT
Found at i:36759174 original size:12 final size:12
Alignment explanation
Indices: 36759157--36759186 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
36759147 CCATACACAC
36759157 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
36759169 CCGTGTGCTAGG
1 CCGTGTGCCAGG
36759181 CCGTGT
1 CCGTGT
36759187 AACTCACTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:36760881 original size:21 final size:21
Alignment explanation
Indices: 36760857--36760899 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
36760847 TGTTTATTTT
36760857 TCAAC-AAGTATTCATAATCTA
1 TCAACAAAG-ATTCATAATCTA
36760878 TCAACAAAGATTCATAATCTA
1 TCAACAAAGATTCATAATCTA
36760899 T
1 T
36760900 AAAAAAAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.44, C:0.19, G:0.05, T:0.33
Consensus pattern (21 bp):
TCAACAAAGATTCATAATCTA
Found at i:36769765 original size:15 final size:16
Alignment explanation
Indices: 36769745--36769774 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36769735 TGGTGCTTTA
36769745 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
36769760 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
36769775 AGTAGGTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:36773042 original size:11 final size:11
Alignment explanation
Indices: 36773026--36773062 Score: 74
Period size: 11 Copynumber: 3.4 Consensus size: 11
36773016 ACTTACCTCC
36773026 ATAATTATTGT
1 ATAATTATTGT
36773037 ATAATTATTGT
1 ATAATTATTGT
36773048 ATAATTATTGT
1 ATAATTATTGT
36773059 ATAA
1 ATAA
36773063 AATCGATAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (11 bp):
ATAATTATTGT
Found at i:36778513 original size:50 final size:50
Alignment explanation
Indices: 36778450--36778565 Score: 144
Period size: 50 Copynumber: 2.3 Consensus size: 50
36778440 CACACCAAAA
* * *
36778450 CTCGTATGAGCTTACAAATTTACAGCTCGTGAGAGCTTACCAATTC-TCAG
1 CTCGTATGAGCTTACAAATTTACAGCTCATAAGAGCATACCAATTCAT-AG
** * *
36778500 CTCGTATGAGCTTACTGATTTGCAGCTCATAAGAGCATACCGATTCATAG
1 CTCGTATGAGCTTACAAATTTACAGCTCATAAGAGCATACCAATTCATAG
*
36778550 CTCGTATGAGCATACA
1 CTCGTATGAGCTTACA
36778566 TGTACAGGAA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
50 55 0.98
51 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (50 bp):
CTCGTATGAGCTTACAAATTTACAGCTCATAAGAGCATACCAATTCATAG
Found at i:36778525 original size:25 final size:25
Alignment explanation
Indices: 36778450--36778560 Score: 100
Period size: 25 Copynumber: 4.4 Consensus size: 25
36778440 CACACCAAAA
*
36778450 CTCGTATGAGCTTACAAATTTACAG
1 CTCGTATGAGCTTACCAATTTACAG
36778475 CTCGTGA-GAGCTTACCAATTCT-CAG
1 CTCGT-ATGAGCTTACCAATT-TACAG
** *
36778500 CTCGTATGAGCTTACTGATTTGCAG
1 CTCGTATGAGCTTACCAATTTACAG
* * * * * *
36778525 CTCATAAGAGCATACCGATTCATAG
1 CTCGTATGAGCTTACCAATTTACAG
36778550 CTCGTATGAGC
1 CTCGTATGAGC
36778561 ATACATGTAC
Statistics
Matches: 70, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
24 2 0.03
25 66 0.94
26 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (25 bp):
CTCGTATGAGCTTACCAATTTACAG
Found at i:36784645 original size:47 final size:47
Alignment explanation
Indices: 36784566--36785072 Score: 780
Period size: 47 Copynumber: 10.6 Consensus size: 47
36784556 TATTTGAATA
36784566 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
36784615 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
36784662 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
36784711 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGCGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
36784760 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
36784807 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGGGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
36784854 AATGTGAAAGTGTATATATATGTGAGAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
36784903 AATGTGAAAGTTTATATATATGTGATAAGGCCTAATGGTCGATGTGATG
1 AATGTGAAAG--TGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
36784952 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
36784999 AATGTGAAAGCGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
36785046 GACGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
36785073 TCCCGAAGGG
Statistics
Matches: 427, Mismatches: 25, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
47 235 0.55
49 191 0.45
51 1 0.00
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:36784739 original size:145 final size:143
Alignment explanation
Indices: 36784566--36785072 Score: 820
Period size: 145 Copynumber: 3.5 Consensus size: 143
36784556 TATTTGAATA
36784566 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
36784631 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
66 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTA
*
36784696 ATGGCTGATGTGATG
129 ATGGCCGATGTGATG
*
36784711 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
36784776 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
66 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
*
36784841 GGCCGATGGGATG
131 GGCCGATGTGATG
* *
36784854 AATGTGAAAGTGTATATATATGTGAGAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTTTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG--TGTA
*
36784919 TATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
64 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
36784984 ATGGCCGATGTGATG
129 ATGGCCGATGTGATG
* * * * * * * * *
36784999 AATGTGAAAGCG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGACGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
36785062 AATGTGATAAG
66 TATGTGATAAG
36785073 TCCCGAAGGG
Statistics
Matches: 341, Mismatches: 19, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
141 15 0.04
143 127 0.37
145 199 0.58
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (143 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
GGCCGATGTGATG
Found at i:36785055 original size:192 final size:192
Alignment explanation
Indices: 36784566--36785068 Score: 839
Period size: 192 Copynumber: 2.6 Consensus size: 192
36784556 TATTTGAATA
36784566 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
36784631 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
64 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAGAAGGCCTA
*
36784696 ATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGCGATG
129 ATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGCGATG
36784760 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
36784825 TGTGATAAGGCCTAATGGCCGATGGGATGAATGTGAAAGTGTATATATATGTGAGAAGGCCTAAT
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAGAAGGCCTAAT
* * *
36784890 GGCCGATGTGATGAATGTGAAAGTTTATATATATGTGATAAGGCCTAATGGTCGATGTGATG
131 GGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGCGATG
*
36784952 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * * *
36785017 TGTGACAGGGCCGAGTGGCCAACGTGATGGACGTGAAAGTGTATA-A-ATGTGA
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
36785069 TAAGTCCCGA
Statistics
Matches: 293, Mismatches: 16, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
190 6 0.02
191 1 0.00
192 274 0.94
194 12 0.04
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (192 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAGAAGGCCTAAT
GGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGCGATG
Found at i:36788756 original size:20 final size:20
Alignment explanation
Indices: 36788714--36788754 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
36788704 AAAGAAAGTG
*
36788714 AATGCAATGGAAAGTAATGA
1 AATGCAATGGAAAATAATGA
*
36788734 AATGCAATTGAAAATAA-GA
1 AATGCAATGGAAAATAATGA
36788753 AA
1 AA
36788755 ATTTGAAAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.56, C:0.05, G:0.20, T:0.20
Consensus pattern (20 bp):
AATGCAATGGAAAATAATGA
Found at i:36792327 original size:15 final size:15
Alignment explanation
Indices: 36792307--36792337 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
36792297 CTTTTTACAA
36792307 CATCATGGGTTGATT
1 CATCATGGGTTGATT
36792322 CATCATGGGTTGATT
1 CATCATGGGTTGATT
36792337 C
1 C
36792338 TTACATATAG
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:0.19, C:0.16, G:0.26, T:0.39
Consensus pattern (15 bp):
CATCATGGGTTGATT
Found at i:36793042 original size:6 final size:6
Alignment explanation
Indices: 36793021--36793054 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
36793011 AAATAAAGAC
36793021 AATTAA AATTACAA AATTAA AATTAA AATTAA AA
1 AATTAA AATT--AA AATTAA AATTAA AATTAA AA
36793055 ACTTTTAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 20 0.77
8 6 0.23
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (6 bp):
AATTAA
Found at i:36793429 original size:40 final size:40
Alignment explanation
Indices: 36793374--36793452 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
36793364 ATGGATAATC
36793374 TCTATGAATGGTATAAGGTCCTTTCCATCGGGATTTGAGA
1 TCTATGAATGGTATAAGGTCCTTTCCATCGGGATTTGAGA
36793414 TCTATGAATGGTATAAGGTCCTTTCCATCGGGATTTGAG
1 TCTATGAATGGTATAAGGTCCTTTCCATCGGGATTTGAG
36793453 CTTTCCCGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.35
Consensus pattern (40 bp):
TCTATGAATGGTATAAGGTCCTTTCCATCGGGATTTGAGA
Found at i:36812628 original size:56 final size:56
Alignment explanation
Indices: 36812537--36812659 Score: 167
Period size: 55 Copynumber: 2.2 Consensus size: 56
36812527 GAGATTGGCG
* * *
36812537 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGCTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATATAGCA
* * *
36812594 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTGATTATATTGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
*
36812649 CTGAGTGTGCG
1 CTAAGTGTGCG
36812660 GACTTAATAT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
55 22 0.37
56 22 0.37
57 15 0.25
ACGTcount: A:0.25, C:0.13, G:0.28, T:0.33
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
Found at i:36812649 original size:27 final size:28
Alignment explanation
Indices: 36812562--36812659 Score: 153
Period size: 28 Copynumber: 3.5 Consensus size: 28
36812552 TAAATTGTAC
*
36812562 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
36812590 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
36812618 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
* *
36812645 TGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
36812660 GACTTAATAT
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
27 23 0.35
28 43 0.65
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTTGATTATAT
Found at i:36812670 original size:27 final size:27
Alignment explanation
Indices: 36812562--36812672 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
36812552 TAAATTGTAC
* *
36812562 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
36812590 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
36812618 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
* *
36812645 TGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
36812672 A
1 A
36812673 CTTTTGAATC
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
27 28 0.38
28 46 0.62
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:36820220 original size:18 final size:18
Alignment explanation
Indices: 36820178--36820220 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
36820168 GCCCATTCCG
*
36820178 AAGTATATATATATACAT
1 AAGTATGTATATATACAT
36820196 ATA-TATGTATATATACAT
1 A-AGTATGTATATATACAT
36820214 AAGTATG
1 AAGTATG
36820221 CCCATTCGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 20 0.91
19 1 0.05
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (18 bp):
AAGTATGTATATATACAT
Found at i:36820777 original size:27 final size:28
Alignment explanation
Indices: 36820690--36820787 Score: 126
Period size: 28 Copynumber: 3.5 Consensus size: 28
36820680 TAAATTGTAC
** *
36820690 AGCACTAAGTGTTTGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
* *
36820718 AGCACTAAGCGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
36820746 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
* *
36820773 TGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
36820788 GACTTAATAT
Statistics
Matches: 62, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
27 23 0.37
28 39 0.63
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.34
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTTGATTATAT
Found at i:36820798 original size:27 final size:27
Alignment explanation
Indices: 36820690--36820800 Score: 89
Period size: 28 Copynumber: 4.0 Consensus size: 27
36820680 TAAATTGTAC
** * *
36820690 AGCACTAAGTGTTTGAGCTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* * *
36820718 AGCACTAAGCGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
36820746 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
* *
36820773 TGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
36820800 A
1 A
36820801 CTTTTGAATC
Statistics
Matches: 70, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
27 28 0.40
28 42 0.60
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:36830191 original size:16 final size:17
Alignment explanation
Indices: 36830170--36830203 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
36830160 AAATATTATG
36830170 AAATAAA-AACAAACAA
1 AAATAAATAACAAACAA
*
36830186 AAATAAATATCAAACAA
1 AAATAAATAACAAACAA
36830203 A
1 A
36830204 TGTCATCCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (17 bp):
AAATAAATAACAAACAA
Found at i:36833001 original size:22 final size:21
Alignment explanation
Indices: 36832960--36833010 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
36832950 TTTTCAAAAA
*
36832960 TAATA-TTATTTTAATAAATT
1 TAATATTTAATTTAATAAATT
*
36832980 TAATATTTAATTTAATTTAATT
1 TAATATTTAATTTAA-TAAATT
36833002 TAATATTTA
1 TAATATTTA
36833011 TCTAGATAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 5 0.19
21 8 0.30
22 14 0.52
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TAATATTTAATTTAATAAATT
Found at i:36833062 original size:66 final size:63
Alignment explanation
Indices: 36832981--36833170 Score: 249
Period size: 61 Copynumber: 3.0 Consensus size: 63
36832971 TAATAAATTT
* * *
36832981 AATATTTAATTTAATTTAATTTAATATTTATCTAGATAGTATTTTATTAGTTTAATATTAATGC
1 AATA-TTAATTTAATTTAATTTAATATTTATCTAGATAATATTTTATTAATTTAATATTAATGA
* * *
36833045 AAGA-T-ATTAAATTTAATTTAATATTCATCTAGATAATATTTTATTAATTTAATATTAATATGA
1 AATATTAATTTAATTTAATTTAATATTTATCTAGATAATATTTTATTAATTTAATATT-A-ATGA
* * *
36833108 AATATTAAATTTAATATAATATAATATTTATCTTGATAATATTTTATTAATTTAATATTAATG
1 AATATT-AATTTAATTTAATTTAATATTTATCTAGATAATATTTTATTAATTTAATATTAATG
36833171 TGATTAATTC
Statistics
Matches: 109, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
61 47 0.43
62 2 0.02
63 6 0.06
64 7 0.06
65 1 0.01
66 46 0.42
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.51
Consensus pattern (63 bp):
AATATTAATTTAATTTAATTTAATATTTATCTAGATAATATTTTATTAATTTAATATTAATGA
Found at i:36837585 original size:29 final size:29
Alignment explanation
Indices: 36837553--36837638 Score: 109
Period size: 29 Copynumber: 3.0 Consensus size: 29
36837543 AAAATCTGCC
*
36837553 AAATAACGAATAAATGCGATAAAATCACA
1 AAATAACGAATAAATGAGATAAAATCACA
** *
36837582 AAATAACGAATAAATGAGATAAAATTGCC
1 AAATAACGAATAAATGAGATAAAATCACA
* * *
36837611 AAATAACGAATAATTGTGACAAAATCAC
1 AAATAACGAATAAATGAGATAAAATCAC
36837639 CAGATTCCCT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.56, C:0.13, G:0.12, T:0.20
Consensus pattern (29 bp):
AAATAACGAATAAATGAGATAAAATCACA
Found at i:36839050 original size:30 final size:30
Alignment explanation
Indices: 36839016--36839083 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
36839006 TTTAGCCTCC
* *
36839016 AAATTTTTCAAAAATTATATTTTGACCCCT
1 AAATTTTTCAAAAATTATATCTTAACCCCT
* * *
36839046 AAATTTTTCTAAATTTGTATCTTAACCCCT
1 AAATTTTTCAAAAATTATATCTTAACCCCT
36839076 AATATTTT
1 AA-ATTTT
36839084 GTAAATTACA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 27 0.84
31 5 0.16
ACGTcount: A:0.34, C:0.16, G:0.03, T:0.47
Consensus pattern (30 bp):
AAATTTTTCAAAAATTATATCTTAACCCCT
Found at i:36839519 original size:23 final size:24
Alignment explanation
Indices: 36839476--36839525 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
36839466 CTAGCAAAGC
36839476 AAACAACAACCAATAAGCAAA-AA
1 AAACAACAACCAATAAGCAAACAA
* *
36839499 AAACAAGAAGCAAGTAA-CAAACAA
1 AAACAACAACCAA-TAAGCAAACAA
36839523 AAA
1 AAA
36839526 TAAAAGAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.70, C:0.18, G:0.08, T:0.04
Consensus pattern (24 bp):
AAACAACAACCAATAAGCAAACAA
Found at i:36839561 original size:14 final size:14
Alignment explanation
Indices: 36839521--36839571 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
36839511 AGTAACAAAC
*
36839521 AAAAATAAAAG-AG
1 AAAAAGAAAAGAAG
* * *
36839534 AAAGACAAAGGAAG
1 AAAAAGAAAAGAAG
36839548 AAAAAGAAAAGAAG
1 AAAAAGAAAAGAAG
*
36839562 AAAAGGAAAA
1 AAAAAGAAAA
36839572 AGGGAGGAGA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
13 8 0.27
14 22 0.73
ACGTcount: A:0.75, C:0.02, G:0.22, T:0.02
Consensus pattern (14 bp):
AAAAAGAAAAGAAG
Found at i:36841199 original size:27 final size:27
Alignment explanation
Indices: 36841169--36841346 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
36841159 ATATTGAGTC
* *
36841169 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
36841196 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
36841223 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
36841251 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* ***
36841278 CGCACACTTAGTGC-ATCATATTCGTTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
36841305 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
36841332 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36841347 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:36848806 original size:27 final size:27
Alignment explanation
Indices: 36848776--36848926 Score: 160
Period size: 27 Copynumber: 5.6 Consensus size: 27
36848766 ATATTGAGTC
* * *
36848776 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAAAT
*
36848803 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
** *
36848830 CGCACACTTAGTGCCGCATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAA-T
* ***
36848858 CGCACACTTAGTGC-ATCATATTCGTTT
1 CGCACACTTAGTGCTA-CATAATCAAAT
* *
36848885 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
36848912 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36848927 GTACAATTTA
Statistics
Matches: 103, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
27 81 0.79
28 22 0.21
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:36848866 original size:55 final size:56
Alignment explanation
Indices: 36848776--36848926 Score: 175
Period size: 55 Copynumber: 2.8 Consensus size: 56
36848766 ATATTGAGTC
* * * * *
36848776 CGCACACTCAGTGCTATATAATC-AACTCGCACACTTAGTGCTA-CGTAATCAAAT
1 CGCACACTTAGTGCAACATAGTCAAACTCGCACACTTAGTGCTATCATAATCAAAT
** * ***
36848830 CGCACACTTAGTGCCGCATAGTCAAACTCGCACACTTAGTGC-ATCATATTCGTTT
1 CGCACACTTAGTGCAACATAGTCAAACTCGCACACTTAGTGCTATCATAATCAAAT
36848885 CGCACACTTAGTGCAACATAGTCAAA-TCGCACACTTAGTGCT
1 CGCACACTTAGTGCAACATAGTCAAACTCGCACACTTAGTGCT
36848927 GTACAATTTA
Statistics
Matches: 82, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
54 34 0.41
55 48 0.59
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (56 bp):
CGCACACTTAGTGCAACATAGTCAAACTCGCACACTTAGTGCTATCATAATCAAAT
Found at i:36851212 original size:18 final size:18
Alignment explanation
Indices: 36851191--36851225 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
36851181 GAAAATATTC
36851191 TAAAATTCTCGTGTTTTT
1 TAAAATTCTCGTGTTTTT
36851209 TAAAATTCTCGTGTTTT
1 TAAAATTCTCGTGTTTT
36851226 AATAGAATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.11, G:0.11, T:0.54
Consensus pattern (18 bp):
TAAAATTCTCGTGTTTTT
Found at i:36851372 original size:18 final size:18
Alignment explanation
Indices: 36851349--36851855 Score: 181
Period size: 17 Copynumber: 27.4 Consensus size: 18
36851339 AAATCGTGTC
36851349 TCAAAAATTTTCGTGTTT
1 TCAAAAATTTTCGTGTTT
36851367 TCAAAAAAATTTCTCGTG-TT
1 TC--AAAAATTT-TCGTGTTT
* * *
36851387 TCAAAAATCTCCTTGTTT
1 TCAAAAATTTTCGTGTTT
*
36851405 TCAAAAA-ATTCGTGTTT
1 TCAAAAATTTTCGTGTTT
* * *
36851422 TCAAAAATTCTCATG-CT
1 TCAAAAATTTTCGTGTTT
* *
36851439 TCAAAAATCTTCATGTTT
1 TCAAAAATTTTCGTGTTT
* *
36851457 T-GAAAA-TTCCAGTGTTT
1 TCAAAAATTTTC-GTGTTT
36851474 T-AAAAATTTTCGTGTTT
1 TCAAAAATTTTCGTGTTT
36851491 TC-AAAATTTCTCGTGTTT
1 TCAAAAATTT-TCGTGTTT
* * ** *
36851509 TCGACAATTCCCGT-ATT
1 TCAAAAATTTTCGTGTTT
* * *
36851526 TCGAAAATTTTCTTATTT
1 TCAAAAATTTTCGTGTTT
* *
36851544 TCAAAAAAGATCTCCGTG-TT
1 TC--AAAA-ATTTTCGTGTTT
*
36851564 TCATAAAATTCT-GTGTTT
1 TCA-AAAATTTTCGTGTTT
* * *
36851582 TAAAAAAATTCTCGT-CTT
1 T-CAAAAATTTTCGTGTTT
*
36851600 TCAAAAATTTTCATGTTT
1 TCAAAAATTTTCGTGTTT
*
36851618 TCAAAAATTGATCGTG-TT
1 TCAAAAATT-TTCGTGTTT
*
36851636 TCATAAATTTTCGTG-TT
1 TCAAAAATTTTCGTGTTT
*
36851653 TCAAAAAAAATCCTCGTGTTTCGTATTT
1 TC---AAAAA------T-TTTCGTGTTT
**
36851681 T-ATCAAAATTTTTATGTTT
1 TCA--AAAATTTTCGTGTTT
*
36851700 TCAAAAATAAATTTTGTGTTT
1 TCAAAAAT---TTTCGTGTTT
*
36851721 T-AAAAAATTTCGTG-TT
1 TCAAAAATTTTCGTGTTT
*
36851737 TCAAAAATAAAATTCGTGTTT
1 TCAAAAAT---TTTCGTGTTT
* *
36851758 TCAAAAAAAATCTCGTG-TT
1 TC--AAAAATTTTCGTGTTT
36851777 TC-AAAATTTTCGTGTTTT
1 TCAAAAATTTTCGTG-TTT
* *
36851795 TAAAAAAATTTCGTG-TT
1 TCAAAAATTTTCGTGTTT
* *
36851812 TCTAAAATTCTT-GTATTT
1 TCAAAAATT-TTCGTGTTT
** *
36851830 TCAAAAAAAATTCGTATTT
1 TC-AAAAATTTTCGTGTTT
36851849 TCAAAAA
1 TCAAAAA
36851856 AAGAAAAAGT
Statistics
Matches: 367, Mismatches: 70, Indels: 104
0.68 0.13 0.19
Matches are distributed among these distances:
16 15 0.04
17 114 0.31
18 103 0.28
19 50 0.14
20 41 0.11
21 24 0.07
23 5 0.01
24 1 0.00
26 5 0.01
27 6 0.02
28 3 0.01
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.44
Consensus pattern (18 bp):
TCAAAAATTTTCGTGTTT
Found at i:36851379 original size:19 final size:18
Alignment explanation
Indices: 36851349--36851856 Score: 139
Period size: 18 Copynumber: 27.4 Consensus size: 18
36851339 AAATCGTGTC
*
36851349 TCAAAAATTTTCGTGTTT
1 TCAAAAAATTTCGTGTTT
36851367 TCAAAAAAATTTC-TCGTGTT
1 TC-AAAAAATTTCGT-GT-TT
* *
36851387 TC-AAAAATCTCCTTGTTT
1 TCAAAAAAT-TTCGTGTTT
36851405 TCAAAAAA-TTCGTGTTT
1 TCAAAAAATTTCGTGTTT
* *
36851422 TC-AAAAATTCTCATG-CT
1 TCAAAAAATT-TCGTGTTT
*
36851439 TC-AAAAATCTTCATGTTT
1 TCAAAAAAT-TTCGTGTTT
* *
36851457 T--GAAAATTCCAGTGTTT
1 TCAAAAAATTTC-GTGTTT
*
36851474 T-AAAAATTTTCGTGTTT
1 TCAAAAAATTTCGTGTTT
*
36851491 TC-AAAATTTCTCGTGTTT
1 TCAAAAAATT-TCGTGTTT
* * * *
36851509 TC-GACAATTCCCGT-ATT
1 TCAAAAAATT-TCGTGTTT
* * * *
36851526 TCGAAAATTTTCTTATTT
1 TCAAAAAATTTCGTGTTT
*
36851544 TCAAAAAAGATCTCCGTG-TT
1 TC-AAAAA-AT-TTCGTGTTT
*
36851564 TCATAAAA-TTCTGTGTTT
1 TCAAAAAATTTC-GTGTTT
* *
36851582 TAAAAAAATTCTCGT-CTT
1 TCAAAAAATT-TCGTGTTT
* *
36851600 TCAAAAATTTTCATGTTT
1 TCAAAAAATTTCGTGTTT
36851618 TC-AAAAATTGATCGTG-TT
1 TCAAAAAATT--TCGTGTTT
* *
36851636 TCATAAATTTTCGTG-TT
1 TCAAAAAATTTCGTGTTT
*
36851653 TCAAAAAAAATCCTCGTG-TT
1 TC--AAAAAAT-TTCGTGTTT
**
36851673 TCGTATTTTATCAAAATTTTTATGTTT
1 TC--A----A--AAAA-TTTCGTGTTT
*
36851700 TCAAAAATAAATTTTGTGTTT
1 TC--AAA-AAATTTCGTGTTT
36851721 T-AAAAAATTTCGTG-TT
1 TCAAAAAATTTCGTGTTT
*
36851737 TCAAAAATAAAATTCGTGTTT
1 TC--AAA-AAATTTCGTGTTT
*
36851758 TCAAAAAAAATCTCGTG-TT
1 TC--AAAAAATTTCGTGTTT
*
36851777 TC-AAAATTTTCGTGTTTT
1 TCAAAAAATTTCGTG-TTT
*
36851795 TAAAAAAATTTCGTG-TT
1 TCAAAAAATTTCGTGTTT
* * *
36851812 TC-TAAAATTCTTGTATTT
1 TCAAAAAATT-TCGTGTTT
* *
36851830 TCAAAAAAAATTCGTATTT
1 TC-AAAAAATTTCGTGTTT
36851849 TCAAAAAA
1 TCAAAAAA
36851857 AGAAAAAGTT
Statistics
Matches: 371, Mismatches: 68, Indels: 102
0.69 0.13 0.19
Matches are distributed among these distances:
16 28 0.08
17 91 0.25
18 95 0.26
19 72 0.19
20 44 0.12
21 23 0.06
22 3 0.01
23 1 0.00
24 1 0.00
26 7 0.02
27 6 0.02
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.44
Consensus pattern (18 bp):
TCAAAAAATTTCGTGTTT
Found at i:36851472 original size:52 final size:51
Alignment explanation
Indices: 36851358--36851481 Score: 135
Period size: 52 Copynumber: 2.4 Consensus size: 51
36851348 CTCAAAAATT
* * *
36851358 TTCGTGTTTTCAAAAAAATTTCTCGTGTTTCAAAAATCTCCTTGTTTTCAAAAAA
1 TTCGTGTTTTC--AAAAA-TTCTCATGCTTCAAAAATCTCCATGTTTT-AAAAAA
* *
36851413 TTCGTGTTTTCAAAAATTCTCATGCTTCAAAAATCTTCATGTTTT-GAAAA
1 TTCGTGTTTTCAAAAATTCTCATGCTTCAAAAATCTCCATGTTTTAAAAAA
36851463 TTCCAGTGTTTT-AAAAATT
1 TT-C-GTGTTTTCAAAAATT
36851482 TTCGTGTTTT
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
50 6 0.10
51 8 0.13
52 32 0.52
53 5 0.08
55 11 0.18
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.43
Consensus pattern (51 bp):
TTCGTGTTTTCAAAAATTCTCATGCTTCAAAAATCTCCATGTTTTAAAAAA
Found at i:36851670 original size:37 final size:36
Alignment explanation
Indices: 36851542--36851674 Score: 119
Period size: 37 Copynumber: 3.6 Consensus size: 36
36851532 ATTTTCTTAT
* *
36851542 TTTCAAAAAAGATCTCCGTGTTTCATAAA-ATTCTGTG
1 TTTCAAAAAAAATCT-CGTGTTTCATAAATTTTC-GTG
* * * * *
36851579 TTTTAAAAAAATTCTCGTCTTTCAAAAATTTTCATG
1 TTTCAAAAAAAATCTCGTGTTTCATAAATTTTCGTG
* *
36851615 TTTTC--AAAAATTGATCGTGTTTCATAAATTTTCGTG
1 -TTTCAAAAAAAAT-CTCGTGTTTCATAAATTTTCGTG
36851651 TTTCAAAAAAAATCCTCGTGTTTC
1 TTTCAAAAAAAAT-CTCGTGTTTC
36851675 GTATTTTATC
Statistics
Matches: 76, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
35 11 0.14
36 32 0.42
37 33 0.43
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (36 bp):
TTTCAAAAAAAATCTCGTGTTTCATAAATTTTCGTG
Found at i:36851719 original size:21 final size:20
Alignment explanation
Indices: 36851695--36851857 Score: 120
Period size: 19 Copynumber: 8.7 Consensus size: 20
36851685 AAAATTTTTA
*
36851695 TGTTTTCAAAAATAAATTTTG
1 TGTTTTCAAAAA-AAATTTCG
36851716 TGTTTT---AAAAAATTTCG
1 TGTTTTCAAAAAAAATTTCG
*
36851733 TG-TTTCAAAAATAAAATTCG
1 TGTTTTCAAAAA-AAATTTCG
*
36851753 TGTTTTCAAAAAAAATCTCG
1 TGTTTTCAAAAAAAATTTCG
*
36851773 TG-TTTC---AAAATTTTCG
1 TGTTTTCAAAAAAAATTTCG
*
36851789 TGTTTT-TAAAAAAATTTCG
1 TGTTTTCAAAAAAAATTTCG
* *
36851808 TG-TTTC---TAAAATTCTTG
1 TGTTTTCAAAAAAAATT-TCG
*
36851825 TATTTTCAAAAAAAA-TTCG
1 TGTTTTCAAAAAAAATTTCG
*
36851844 TATTTTCAAAAAAA
1 TGTTTTCAAAAAAA
36851858 GAAAAAGTTG
Statistics
Matches: 115, Mismatches: 12, Indels: 32
0.72 0.08 0.20
Matches are distributed among these distances:
16 19 0.17
17 15 0.13
18 10 0.09
19 34 0.30
20 18 0.16
21 19 0.17
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (20 bp):
TGTTTTCAAAAAAAATTTCG
Found at i:36851754 original size:84 final size:81
Alignment explanation
Indices: 36851603--36851757 Score: 195
Period size: 84 Copynumber: 1.9 Consensus size: 81
36851593 TCGTCTTTCA
** * *
36851603 AAAATTTTCATGTTTTCAAAAATTGATCGTGTTTCATAAATTTTCGTGTTTCAAAAAAAATCCTC
1 AAAATTTTCATGTTTTCAAAAATAAATCGTGTTTCAAAAAATTTCGTGTTTCAAAAAAAAT-CTC
36851668 GTGTTTCGTATTTTATC
65 GTGTTTCGTATTTTATC
* * *
36851685 AAAATTTTTATGTTTTCAAAAATAAATTTTGTGTTTTAAAAAATTTCGTGTTTCAAAAATAAAAT
1 AAAATTTTCATGTTTTCAAAAATAAA--TCGTGTTTCAAAAAATTTCGTGTTTC-AAAA-AAAAT
36851750 -TCGTGTTT
62 CTCGTGTTT
36851758 TCAAAAAAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
82 23 0.37
84 30 0.48
85 4 0.06
86 5 0.08
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.46
Consensus pattern (81 bp):
AAAATTTTCATGTTTTCAAAAATAAATCGTGTTTCAAAAAATTTCGTGTTTCAAAAAAAATCTCG
TGTTTCGTATTTTATC
Found at i:36853759 original size:30 final size:30
Alignment explanation
Indices: 36853723--36853783 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
36853713 GAGTTAGTTC
36853723 AGAATCATCCAGATACCTTGAGAAGGATAG
1 AGAATCATCCAGATACCTTGAGAAGGATAG
*
36853753 AGAATCATCTAGATACCTTGAGAAGGATAG
1 AGAATCATCCAGATACCTTGAGAAGGATAG
36853783 A
1 A
36853784 TCTGTTTGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (30 bp):
AGAATCATCCAGATACCTTGAGAAGGATAG
Found at i:36860614 original size:1 final size:1
Alignment explanation
Indices: 36860608--36860679 Score: 54
Period size: 1 Copynumber: 72.0 Consensus size: 1
36860598 TATGCCTAAC
* * * * * * * * *
36860608 AAAAAAACAAAAAACAAAAAAAACAAAAAAACAAAAAAAAAGAAAAAAGAAAATAGAAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
36860673 AGAAAAA
1 AAAAAAA
36860680 TCAAGATGAA
Statistics
Matches: 51, Mismatches: 20, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:0.86, C:0.06, G:0.07, T:0.01
Consensus pattern (1 bp):
A
Found at i:36860621 original size:7 final size:8
Alignment explanation
Indices: 36860605--36860660 Score: 69
Period size: 8 Copynumber: 6.9 Consensus size: 8
36860595 TATTATGCCT
36860605 AACAAAAA
1 AACAAAAA
36860613 AAC-AAAA
1 AACAAAAA
36860620 AACAAAAAA
1 AAC-AAAAA
36860629 AACAAAAA
1 AACAAAAA
36860637 AACAAAAA
1 AACAAAAA
*
36860645 AAAAGAAAA
1 AACA-AAAA
*
36860654 AAGAAAA
1 AACAAAA
36860661 TAGAAAAGAA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
7 7 0.16
8 22 0.51
9 14 0.33
ACGTcount: A:0.88, C:0.09, G:0.04, T:0.00
Consensus pattern (8 bp):
AACAAAAA
Found at i:36860627 original size:16 final size:17
Alignment explanation
Indices: 36860608--36860660 Score: 74
Period size: 17 Copynumber: 3.2 Consensus size: 17
36860598 TATGCCTAAC
36860608 AAAAAAAC-AAAAAACA
1 AAAAAAACAAAAAAACA
36860624 AAAAAAACAAAAAAACA
1 AAAAAAACAAAAAAACA
*
36860641 AAAAAAA-AGAAAAAAGA
1 AAAAAAACA-AAAAAACA
36860658 AAA
1 AAA
36860661 TAGAAAAGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
16 9 0.26
17 25 0.74
ACGTcount: A:0.89, C:0.08, G:0.04, T:0.00
Consensus pattern (17 bp):
AAAAAAACAAAAAAACA
Found at i:36860632 original size:24 final size:25
Alignment explanation
Indices: 36860605--36860679 Score: 91
Period size: 25 Copynumber: 3.0 Consensus size: 25
36860595 TATTATGCCT
*
36860605 AACAAAAAAACAAAAAACAA-AAAA
1 AACAAAAAAACAAAAAAAAAGAAAA
36860629 AACAAAAAAACAAAAAAAAAGAAAA
1 AACAAAAAAACAAAAAAAAAGAAAA
* * *
36860654 AAGAAAATAGA-AAAGAAAAAGAAAA
1 AACAAAA-AAACAAAAAAAAAGAAAA
36860679 A
1 A
36860680 TCAAGATGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
24 19 0.42
25 24 0.53
26 2 0.04
ACGTcount: A:0.85, C:0.07, G:0.07, T:0.01
Consensus pattern (25 bp):
AACAAAAAAACAAAAAAAAAGAAAA
Found at i:36861647 original size:75 final size:76
Alignment explanation
Indices: 36861523--36862274 Score: 861
Period size: 75 Copynumber: 9.8 Consensus size: 76
36861513 TTTCAAGAAT
* ** * * *
36861523 TATTTTTCAATTTTTATTTTTCCAAAAAATTAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG
1 TATTTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
36861588 TCACGCTGAGG
66 TCACGCTGAGG
36861599 TA-TTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
1 TATTTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
*
36861663 TTACGCTGAGG
66 TCACGCTGAGG
*
36861674 TATTTTTCAATTTCTGCTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGG
1 TATTTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
36861737 TCGCACGCTGAGG
66 T--CACGCTGAGG
* *
36861750 TATTTCTTTTAAATTTCT-ATTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 TA--T-TTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
*
36861812 GGGTCACATGCCGAGG
63 GGGTCAC--GCTGAGG
* ***
36861828 TATTTCTTTTAAGTTTCTGTCTTTT-TTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TA-TT-TTTCAA-TTTCTG-CTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
36861892 CGGGTCGCACGCTGAGG
62 CGGGT--CACGCTGAGG
* * *
36861909 TATTTCTTTTAAATTTCTG-TTTTC--AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCTTC
1 TA--T-TTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* *
36861971 GAGTCATG-TCGAGG
63 GGGTCACGCT-GAGG
* * * * *
36861985 TATTTTTCAATTTTTGGTTTTTAAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGGG
1 TATTTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
36862050 TCACGCTGAGG
66 TCACGCTGAGG
**
36862061 TA-TTTTCAATTTCTATTTTTCGAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TATTTTTCAATTTCTGCTTTTC----AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
** * *
36862125 CGGACCATGCCGAGG
62 CGGGTCACGCTGAGG
* * *
36862140 TATTTCTT--TTTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGG
1 TATTT-TTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
36862203 GTCACGCTGAGG
65 GTCACGCTGAGG
* *
36862215 TA-TTTTCAATTTCTG-TTGTTCAAAAAAATCAACTTATAATGCGAGAGGTGAGTTGAGCCT
1 TATTTTTCAATTTCTGCTT-TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
36862275 TGGGCTGCAC
Statistics
Matches: 592, Mismatches: 51, Indels: 67
0.83 0.07 0.09
Matches are distributed among these distances:
73 13 0.02
74 50 0.08
75 182 0.31
76 91 0.15
77 8 0.01
78 98 0.17
79 76 0.13
80 6 0.01
81 57 0.10
82 7 0.01
83 4 0.01
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (76 bp):
TATTTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
TCACGCTGAGG
Found at i:36862091 original size:154 final size:150
Alignment explanation
Indices: 36861523--36862274 Score: 894
Period size: 154 Copynumber: 4.9 Consensus size: 150
36861513 TTTCAAGAAT
* * *
36861523 TATTTTTCAATTTTTATTTTTCCAAAAAATTAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG
1 TATTTTTCAATTTTTGTTTTT-AAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG
**
36861588 TCACGCTGAGGTATTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
65 TCACGCTGAGGTATTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
* * *
36861653 GAGCCTCGGGTTACGCTGAGG
130 GAGCCTCGGGTCATGCCGAGG
* * * * *
36861674 TATTTTTCAATTTCTGCTTTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGT
1 TATTTTTCAATTTTTGTTTTTAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGT
*
36861738 CGCACGCTGAGGTATTTCTTTTAAATTTCTA-TTTTC--AAAAATCAACTCATATTGCGAGAGGT
66 --CACGCTGAGGTA----TTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGT
36861800 GAGTTGAGCCTCGGGTCACATGCCGAGG
125 GAGTTGAGCCTCGGGT--CATGCCGAGG
* * *** *
36861828 TATTTCTTTTAAGTTTCTGTCTTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 TA-TT-TTTCAA-TTTTTGT-TTTTAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC
* * *
36861893 GGGTCGCACGCTGAGGTATTTCTTTTAAATTTCT-GTTTTC--AAAAATCAACTCATATTGTGAG
62 GGGT--CACGCTGAGGTA----TTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAG
* * *
36861955 AGGTGAGTTGAGCTTCGAGTCATGTCGAGG
121 AGGTGAGTTGAGCCTCGGGTCATGCCGAGG
*
36861985 TATTTTTCAATTTTTGGTTTTTAAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGGG
1 TATTTTTCAATTTTT-GTTTTTAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG
36862050 TCACGCTGAGGTATTTTCAATTTCTATTTTTCGAAAAAAAAAATCAACTCATATTGCGAGAGGTG
65 TCACGCTGAGGTATTTTCAATTTCTATTTTTC----AAAAAAATCAACTCATATTGCGAGAGGTG
**
36862115 AGTTGAGCCTCGGACCATGCCGAGG
126 AGTTGAGCCTCGGGTCATGCCGAGG
36862140 TATTTCTT---TTTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCG
1 TATTT-TTCAATTTT-TGTTTTT-AAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCG
* * * *
36862202 GGTCACGCTGAGGTATTTTCAATTTCTGTTGTTCAAAAAAATCAACTTATAATGCGAGAGGTGAG
63 GGTCACGCTGAGGTATTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAG
36862267 TTGAGCCT
128 TTGAGCCT
36862275 TGGGCTGCAC
Statistics
Matches: 535, Mismatches: 41, Indels: 51
0.85 0.07 0.08
Matches are distributed among these distances:
148 11 0.02
149 44 0.08
150 37 0.07
151 30 0.06
152 54 0.10
153 10 0.02
154 134 0.25
155 71 0.13
156 9 0.02
157 17 0.03
158 4 0.01
159 114 0.21
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (150 bp):
TATTTTTCAATTTTTGTTTTTAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGT
CACGCTGAGGTATTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
AGCCTCGGGTCATGCCGAGG
Found at i:36862784 original size:30 final size:28
Alignment explanation
Indices: 36862744--36862907 Score: 100
Period size: 30 Copynumber: 5.6 Consensus size: 28
36862734 ATACAAAAAT
*
36862744 AAATTGCATTTTAGCCTCTAAATTTTTCAA
1 AAATTACATTTT-GCC-CTAAATTTTTCAA
*
36862774 AAATTACATTTTGACCTCTAAATTTTTCTA
1 AAATTACATTTTG-CC-CTAAATTTTTCAA
* * *
36862804 AATTTGCATCTTGACCCCTAATATTTTGT---
1 AAATTACATTTTG--CCCTAA-ATTTT-TCAA
* * *
36862833 AAATTACATTTGGGCCCTAAAATTTCCAA
1 AAATTACATTT-TGCCCTAAATTTTTCAA
* * * *
36862862 AAATTACATTTTAGCCCCATATTTTCCTA
1 AAATTACATTTT-GCCCTAAATTTTTCAA
36862891 AAATTACATTTTTGCCC
1 AAATTACA-TTTTGCCC
36862908 CAGAAACTTC
Statistics
Matches: 107, Mismatches: 17, Indels: 21
0.74 0.12 0.14
Matches are distributed among these distances:
27 4 0.04
28 6 0.06
29 44 0.41
30 45 0.42
31 7 0.07
32 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (28 bp):
AAATTACATTTTGCCCTAAATTTTTCAA
Found at i:36862871 original size:29 final size:29
Alignment explanation
Indices: 36862833--36862901 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 29
36862823 AATATTTTGT
* *
36862833 AAATTACATTTGGGCCCTAAAATTTCCAA
1 AAATTACATTTGAGCCCCAAAATTTCCAA
* * * *
36862862 AAATTACATTTTAGCCCCATATTTTCCTA
1 AAATTACATTTGAGCCCCAAAATTTCCAA
36862891 AAATTACATTT
1 AAATTACATTT
36862902 TTGCCCCAGA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.36, C:0.20, G:0.06, T:0.38
Consensus pattern (29 bp):
AAATTACATTTGAGCCCCAAAATTTCCAA
Found at i:36863262 original size:26 final size:26
Alignment explanation
Indices: 36863223--36863275 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
36863213 CTAGCAAAGC
36863223 AAACAACAACCAAG-AAGCAAAAAAAA
1 AAACAACAACCAAGTAA-CAAAAAAAA
* * *
36863249 AAACAAGAAGCAAGTAACAAACAAAA
1 AAACAACAACCAAGTAACAAAAAAAA
36863275 A
1 A
36863276 TAAAAGAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 21 0.91
27 2 0.09
ACGTcount: A:0.72, C:0.17, G:0.09, T:0.02
Consensus pattern (26 bp):
AAACAACAACCAAGTAACAAAAAAAA
Found at i:36863897 original size:21 final size:23
Alignment explanation
Indices: 36863860--36863908 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
36863850 TTTTTAAGTA
*
36863860 TTTTTATTTTGTATTTATGTTCT
1 TTTTTATTTTGTATTTATGTTAT
*
36863883 TTTTTATTTT-T-TTTATTTTAT
1 TTTTTATTTTGTATTTATGTTAT
36863904 TTTTT
1 TTTTT
36863909 TAAATTCGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 13 0.54
22 1 0.04
23 10 0.42
ACGTcount: A:0.12, C:0.02, G:0.04, T:0.82
Consensus pattern (23 bp):
TTTTTATTTTGTATTTATGTTAT
Found at i:36863901 original size:16 final size:16
Alignment explanation
Indices: 36863860--36863909 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
36863850 TTTTTAAGTA
*
36863860 TTTTTATTTTGTATTT
1 TTTTTATTTTTTATTT
* * *
36863876 ATGTTCTTTTTTATTT
1 TTTTTATTTTTTATTT
36863892 TTTTTA--TTTTATTT
1 TTTTTATTTTTTATTT
36863906 TTTT
1 TTTT
36863910 AAATTCGAAT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
14 12 0.44
16 15 0.56
ACGTcount: A:0.12, C:0.02, G:0.04, T:0.82
Consensus pattern (16 bp):
TTTTTATTTTTTATTT
Found at i:36864197 original size:17 final size:17
Alignment explanation
Indices: 36864177--36864494 Score: 162
Period size: 17 Copynumber: 17.7 Consensus size: 17
36864167 TAAAAAAATT
36864177 GTGTTTCAAAAATTTTC
1 GTGTTTCAAAAATTTTC
36864194 GTGTTTTCAAAAAAATTTCTC
1 GTG-TTTC--AAAAATTT-TC
*
36864215 GTGTTTCAAAAATTTCC
1 GTGTTTCAAAAATTTTC
* * *
36864232 TTGTTTAAAAAAAATCTTC
1 GTGTTT--CAAAAATTTTC
*
36864251 GTGTTTTCAAAAATTCTC
1 GTG-TTTCAAAAATTTTC
* * *
36864269 ATGCTTCAAAAATCTTC
1 GTGTTTCAAAAATTTTC
36864286 GTGTTTTC-AAAA-TTTC
1 GTG-TTTCAAAAATTTTC
36864302 AGTGTTTCAAAAATTTTC
1 -GTGTTTCAAAAATTTTC
*
36864320 GTGTTTTC-AAAATTTCCC
1 GTG-TTTCAAAAATTT-TC
**
36864338 GTGTTTTCAAAAATTCCC
1 GTG-TTTCAAAAATTTTC
* **
36864356 GTATTTCAAAAAAAAATT-
1 GTGTTTC--AAAAATTTTC
* * * *
36864374 AT-TTTAAAAAAAGATCTCC
1 GTGTTT--CAAAA-ATTTTC
*
36864393 GTGTTTCATAAA-TTTC
1 GTGTTTCAAAAATTTTC
* *
36864409 TGTGTTTTAAAAAAAATTCTC
1 -GTG-TTT--CAAAAATTTTC
*
36864430 GTCTTTCAAAAATTTTC
1 GTGTTTCAAAAATTTTC
**
36864447 GTGTTTTCAAAAATTGACC
1 GTG-TTTCAAAAATT-TTC
*
36864466 GTGTTTCATAAATTTTC
1 GTGTTTCAAAAATTTTC
36864483 GTGTTTCAAAAA
1 GTGTTTCAAAAA
36864495 AAATCTTCGT
Statistics
Matches: 227, Mismatches: 46, Indels: 56
0.69 0.14 0.17
Matches are distributed among these distances:
16 9 0.04
17 81 0.36
18 76 0.33
19 29 0.13
20 24 0.11
21 8 0.04
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.42
Consensus pattern (17 bp):
GTGTTTCAAAAATTTTC
Found at i:36864203 original size:18 final size:18
Alignment explanation
Indices: 36864180--36864494 Score: 163
Period size: 18 Copynumber: 17.5 Consensus size: 18
36864170 AAAAATTGTG
36864180 TTTCAAAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
36864198 TTTCAAAAAAATTTCTCGTG-
1 TTTC--AAAAATTT-TCGTGT
* *
36864218 TTTCAAAAATTTCCTTGT
1 TTTCAAAAATTTTCGTGT
** *
36864236 TTAAAAAAAATCTTCGTGT
1 TT-TCAAAAATTTTCGTGT
* *
36864255 TTTCAAAAATTCTCATG-
1 TTTCAAAAATTTTCGTGT
* *
36864272 CTTCAAAAATCTTCGTGT
1 TTTCAAAAATTTTCGTGT
36864290 TTTC-AAAA-TTTCAGTG-
1 TTTCAAAAATTTTC-GTGT
36864306 TTTCAAAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
*
36864324 TTTC-AAAATTTCCCGTGT
1 TTTCAAAAATTT-TCGTGT
** *
36864342 TTTCAAAAATTCCCGT-A
1 TTTCAAAAATTTTCGTGT
** *
36864359 TTTCAAAAAAAAATT-AT-T
1 TTTC--AAAAATTTTCGTGT
** * *
36864377 TTAAAAAAAGATCTCCGTG-
1 TT-TCAAAA-ATTTTCGTGT
*
36864396 TTTCATAAA-TTTCTGTGT
1 TTTCAAAAATTTTC-GTGT
* * *
36864414 TTTAAAAAAAATTCTCGT-C
1 TTT--CAAAAATTTTCGTGT
36864433 TTTCAAAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
**
36864451 TTTCAAAAATTGACCGTG-
1 TTTCAAAAATT-TTCGTGT
*
36864469 TTTCATAAATTTTCGTG-
1 TTTCAAAAATTTTCGTGT
36864486 TTTCAAAAA
1 TTTCAAAAA
36864495 AAATCTTCGT
Statistics
Matches: 221, Mismatches: 51, Indels: 51
0.68 0.16 0.16
Matches are distributed among these distances:
16 9 0.04
17 72 0.33
18 80 0.36
19 34 0.15
20 18 0.08
21 8 0.04
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.42
Consensus pattern (18 bp):
TTTCAAAAATTTTCGTGT
Found at i:36864509 original size:37 final size:37
Alignment explanation
Indices: 36864177--36864509 Score: 188
Period size: 37 Copynumber: 9.2 Consensus size: 37
36864167 TAAAAAAATT
*
36864177 GTGTTTCAAAAATTTTCGTGTTTTC-AAAAAAATTTCTC
1 GTGTTTCAAAAATTTTCGTG-TTTCAAAAAAAATCT-TC
* *
36864215 GTGTTTCAAAAATTTCCTTGTTT-AAAAAAAATCTTC
1 GTGTTTCAAAAATTTTCGTGTTTCAAAAAAAATCTTC
* * *
36864251 GTGTTTTCAAAAATTCTCATGCTTC---AAAAATCTTC
1 GTG-TTTCAAAAATTTTCGTGTTTCAAAAAAAATCTTC
*
36864286 GTGTTTTC-AAAA-TTTCAGTGTTTC---AAAAATTTTC
1 GTG-TTTCAAAAATTTTC-GTGTTTCAAAAAAAATCTTC
* * *
36864320 GTGTTTTC-AAAATTTCCCGTGTTTTC--AAAAATTC-CC
1 GTG-TTTCAAAAATTT-TCGTG-TTTCAAAAAAAATCTTC
* ** * *
36864356 GTATTTCAAAAAAAAATT-AT-TTT-AAAAAAAGATCTCC
1 GTGTTTC--AAAAATTTTCGTGTTTCAAAAAAA-ATCTTC
* *
36864393 GTGTTTCATAAA-TTTCTGTGTTTTAAAAAAAAT-TCTC
1 GTGTTTCAAAAATTTTC-GTGTTTCAAAAAAAATCT-TC
* **
36864430 GTCTTTCAAAAATTTTCGTGTTTTCAAAAATTGA-C--C
1 GTGTTTCAAAAATTTTCGTG-TTTCAAAAA-AAATCTTC
*
36864466 GTGTTTCATAAATTTTCGTGTTTCAAAAAAAATCTTC
1 GTGTTTCAAAAATTTTCGTGTTTCAAAAAAAATCTTC
36864503 GTGTTTC
1 GTGTTTC
36864510 GTATTTTATC
Statistics
Matches: 233, Mismatches: 35, Indels: 55
0.72 0.11 0.17
Matches are distributed among these distances:
33 3 0.01
34 36 0.15
35 46 0.20
36 37 0.16
37 68 0.29
38 42 0.18
39 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (37 bp):
GTGTTTCAAAAATTTTCGTGTTTCAAAAAAAATCTTC
Found at i:36864556 original size:21 final size:20
Alignment explanation
Indices: 36864530--36864601 Score: 73
Period size: 21 Copynumber: 3.7 Consensus size: 20
36864520 AAAATTTTTA
36864530 TGTTTTCAAAAATAAAATTTG
1 TGTTTTCAAAAA-AAAATTTG
36864551 TGTTTT----AAAAAATTTCG
1 TGTTTTCAAAAAAAAATTT-G
*
36864568 TG-TTTCAAAAAGAAAATTCG
1 TGTTTTCAAAAA-AAAATTTG
36864588 TGTTTTCAAAAAAA
1 TGTTTTCAAAAAAA
36864602 TCTCGTGTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
16 10 0.23
17 5 0.12
20 7 0.16
21 21 0.49
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (20 bp):
TGTTTTCAAAAAAAAATTTG
Found at i:36864564 original size:16 final size:16
Alignment explanation
Indices: 36864543--36864669 Score: 69
Period size: 17 Copynumber: 7.2 Consensus size: 16
36864533 TTTCAAAAAT
36864543 AAAATTTGTGTTTTAA
1 AAAATTTGTGTTTTAA
*
36864559 AAAATTTCGTGTTTCAAAAA
1 AAAATTT-GTGTTT---TAA
*
36864579 GAAAATTCGTGTTTTCAAA
1 -AAAATTTGTGTTTT--AA
*
36864598 AAAATCTCGTGTTTT-A
1 AAAAT-TTGTGTTTTAA
*
36864614 AAATTTTCGTGTTTTTAA
1 AAAATTT-GTG-TTTTAA
36864632 AAAATTTCGTGTTTCT-A
1 AAAATTT-GTGTTT-TAA
* *
36864649 AAATTCTTGTATTTTAA
1 AAAAT-TTGTGTTTTAA
36864666 AAAA
1 AAAA
36864670 AAATTCGTAT
Statistics
Matches: 88, Mismatches: 9, Indels: 27
0.71 0.07 0.22
Matches are distributed among these distances:
15 1 0.01
16 16 0.18
17 27 0.31
18 19 0.22
19 11 0.12
20 8 0.09
21 6 0.07
ACGTcount: A:0.37, C:0.08, G:0.11, T:0.44
Consensus pattern (16 bp):
AAAATTTGTGTTTTAA
Found at i:36864576 original size:37 final size:37
Alignment explanation
Indices: 36864533--36864652 Score: 124
Period size: 37 Copynumber: 3.3 Consensus size: 37
36864523 ATTTTTATGT
36864533 TTTCAAAAATAAAATTTGTGTTTTAAAAAATTTCGTG
1 TTTCAAAAATAAAATTTGTGTTTTAAAAAATTTCGTG
* * *
36864570 TTTCAAAAAGAAAATTCGTGTTTTCAAAAAAATCTCGTG
1 TTTCAAAAATAAAATTTGTGTTTT--AAAAAATTTCGTG
*
36864609 TTT-TAAAAT----TTTCGTGTTTTTAAAAAATTTCGTG
1 TTTCAAAAATAAAATTT-GTG-TTTTAAAAAATTTCGTG
*
36864643 TTTCTAAAAT
1 TTTCAAAAAT
36864653 TCTTGTATTT
Statistics
Matches: 71, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
34 17 0.24
35 9 0.13
36 4 0.06
37 22 0.31
38 4 0.06
39 15 0.21
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (37 bp):
TTTCAAAAATAAAATTTGTGTTTTAAAAAATTTCGTG
Found at i:36864616 original size:18 final size:18
Alignment explanation
Indices: 36864543--36864651 Score: 109
Period size: 16 Copynumber: 6.1 Consensus size: 18
36864533 TTTCAAAAAT
36864543 AAAATTT-GTGTTTT-AA
1 AAAATTTCGTGTTTTAAA
*
36864559 AAAATTTCGTGTTTCAAAA
1 AAAATTTCGTGTTT-TAAA
*
36864578 AGAAAATTCGTGTTTTCAAA
1 A-AAATTTCGTGTTTT-AAA
*
36864598 AAAATCTCGTGTTTT--A
1 AAAATTTCGTGTTTTAAA
* *
36864614 AAATTTTCGTGTTTTTAA
1 AAAATTTCGTGTTTTAAA
36864632 AAAATTTCGTGTTTCTAAA
1 AAAATTTCGTGTTT-TAAA
36864651 A
1 A
36864652 TTCTTGTATT
Statistics
Matches: 76, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
16 21 0.28
17 6 0.08
18 14 0.18
19 19 0.25
20 16 0.21
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.43
Consensus pattern (18 bp):
AAAATTTCGTGTTTTAAA
Found at i:36864634 original size:35 final size:37
Alignment explanation
Indices: 36864584--36864671 Score: 112
Period size: 35 Copynumber: 2.5 Consensus size: 37
36864574 AAAAAGAAAA
*
36864584 TTCGTGTTTTCAAAAAAATCTCGTGTTT-TAAAATT-
1 TTCGTGTTTTAAAAAAAATCTCGTGTTTCTAAAATTC
* *
36864619 TTCGTGTTTT-TAAAAAATTTCGTGTTTCTAAAATTC
1 TTCGTGTTTTAAAAAAAATCTCGTGTTTCTAAAATTC
*
36864655 TT-GTATTTTAAAAAAAA
1 TTCGTGTTTTAAAAAAAA
36864672 ATTCGTATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
34 15 0.33
35 23 0.50
36 8 0.17
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.47
Consensus pattern (37 bp):
TTCGTGTTTTAAAAAAAATCTCGTGTTTCTAAAATTC
Found at i:36864687 original size:18 final size:18
Alignment explanation
Indices: 36864543--36864690 Score: 94
Period size: 18 Copynumber: 8.2 Consensus size: 18
36864533 TTTCAAAAAT
*
36864543 AAAATTTGTGTTTT-AAA
1 AAAATTCGTGTTTTCAAA
*
36864560 AAATTTCGTG-TTTCAAAAA
1 AAAATTCGTGTTTTC--AAA
36864579 GAAAATTCGTGTTTTCAAA
1 -AAAATTCGTGTTTTCAAA
36864598 AAAATCTCGTGTTTT--AA
1 AAAAT-TCGTGTTTTCAAA
** *
36864615 AATTTTCGTGTTTTTAAA
1 AAAATTCGTGTTTTCAAA
* *
36864633 AAATTTCGTG-TTTC--T
1 AAAATTCGTGTTTTCAAA
* *
36864648 AAAATTCTTGTATTTTAAAAA
1 AAAATTC--GTGTTTT-CAAA
*
36864669 AAAATTCGTATTTTCAAA
1 AAAATTCGTGTTTTCAAA
36864687 AAAA
1 AAAA
36864691 GAAAAAGTTG
Statistics
Matches: 104, Mismatches: 13, Indels: 27
0.72 0.09 0.19
Matches are distributed among these distances:
15 6 0.06
16 12 0.12
17 18 0.17
18 26 0.25
19 22 0.21
20 9 0.09
21 11 0.11
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.43
Consensus pattern (18 bp):
AAAATTCGTGTTTTCAAA
Done.