Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 32 of 145
Found at i:10302774 original size:17 final size:16
Alignment explanation
Indices: 10302744--10302778 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
10302734 TACATCATGC
*
10302744 ATAAAATGCGATGACA
1 ATAAAATGCAATGACA
10302760 ATAACAATGCAATGACA
1 ATAA-AATGCAATGACA
10302777 AT
1 AT
10302779 GTTCACTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.51, C:0.14, G:0.14, T:0.20
Consensus pattern (16 bp):
ATAAAATGCAATGACA
Found at i:10305018 original size:6 final size:6
Alignment explanation
Indices: 10304977--10305007 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
10304967 ACCAAGCGTG
10304977 AACAAA AACAAA AACAAA AACAAA AACAAA A
1 AACAAA AACAAA AACAAA AACAAA AACAAA A
10305008 TAAAAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (6 bp):
AACAAA
Found at i:10319928 original size:28 final size:28
Alignment explanation
Indices: 10319887--10320088 Score: 318
Period size: 28 Copynumber: 7.2 Consensus size: 28
10319877 CAAAGACAAT
10319887 ACAGTGTGGGCCTTAGCCCAATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
** *
10319915 ACAGTGTGATCCTTAGCCCAATACAGTC
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
*
10319943 ACAGTGTGGCCCTTAGCCCAATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
*
10319971 ACAATGTGGGCCTTAGCCCAATACAG-A
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
10319998 ATCAGTGTGGGCCTTAGCCCAATACAG-A
1 A-CAGTGTGGGCCTTAGCCCAATACAGTA
*
10320026 ATCAGTGTGGGCCTTAGCTCAATACAGTA
1 A-CAGTGTGGGCCTTAGCCCAATACAGTA
10320055 ACAGTGTGGGCCTTAGCCCAATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
10320083 ACAGTG
1 ACAGTG
10320089 CAGTGCAATA
Statistics
Matches: 161, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
27 2 0.01
28 157 0.98
29 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.22
Consensus pattern (28 bp):
ACAGTGTGGGCCTTAGCCCAATACAGTA
Found at i:10320206 original size:58 final size:58
Alignment explanation
Indices: 10320116--10320246 Score: 226
Period size: 58 Copynumber: 2.3 Consensus size: 58
10320106 CCATAACAAT
*
10320116 CCAGCCAACACACCACTCCGTACCACCAACACACCATGTGGGGATAAAATCGACCCAC
1 CCAGCCAACACACCACTCCGTACCACCAACACACCATGTAGGGATAAAATCGACCCAC
* *
10320174 CCAGCCAACACACCACTCTGTACCACCAACACACCATGTAGGGATAAAATTGACCCAC
1 CCAGCCAACACACCACTCCGTACCACCAACACACCATGTAGGGATAAAATCGACCCAC
*
10320232 CTAGCCAACACACCA
1 CCAGCCAACACACCA
10320247 ATATCGCAGC
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 69 1.00
ACGTcount: A:0.36, C:0.40, G:0.12, T:0.11
Consensus pattern (58 bp):
CCAGCCAACACACCACTCCGTACCACCAACACACCATGTAGGGATAAAATCGACCCAC
Found at i:10320304 original size:26 final size:26
Alignment explanation
Indices: 10320248--10320312 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
10320238 AACACACCAA
10320248 TATCGCAGCAAAGCTCCAAGTAATAG
1 TATCGCAGCAAAGCTCCAAGTAATAG
* *
10320274 CATCGCAGCAGAGCTGCCAA-T-ATCAG
1 TATCGCAGCAAAGCT-CCAAGTAAT-AG
*
10320300 TATCGCAGTAAAG
1 TATCGCAGCAAAG
10320313 TTGCCAGTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
25 2 0.06
26 26 0.81
27 4 0.12
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.18
Consensus pattern (26 bp):
TATCGCAGCAAAGCTCCAAGTAATAG
Found at i:10320619 original size:26 final size:26
Alignment explanation
Indices: 10320551--10320622 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 26
10320541 TCATCTCTTA
**
10320551 GGGGTATAACATTCATTTTACCCTAT
1 GGGGTATTTCATTCATTTTACCCTAT
*
10320577 GAGGGTATTTTGA-TCATTTTACCCTAT
1 G-GGGTA-TTTCATTCATTTTACCCTAT
10320604 GGGGTATTTCATTCATTTT
1 GGGGTATTTCATTCATTTT
10320623 CATCTATTAG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
25 4 0.10
26 13 0.33
27 20 0.51
28 2 0.05
ACGTcount: A:0.22, C:0.15, G:0.18, T:0.44
Consensus pattern (26 bp):
GGGGTATTTCATTCATTTTACCCTAT
Found at i:10325836 original size:22 final size:21
Alignment explanation
Indices: 10325785--10325837 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
10325775 AAAAAAAAAA
*
10325785 ACCATAGTGCTGAATAGAGGC
1 ACCATAGTGCTGAACAGAGGC
* *
10325806 ATCGA-AGTGCTGAGCAGTAGGC
1 A-CCATAGTGCTGAACAG-AGGC
10325828 ACCATAGTGC
1 ACCATAGTGC
10325838 AATCTCATAC
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.30, C:0.21, G:0.30, T:0.19
Consensus pattern (21 bp):
ACCATAGTGCTGAACAGAGGC
Found at i:10327366 original size:20 final size:20
Alignment explanation
Indices: 10327343--10327405 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
10327333 GAAGTGTAAC
10327343 CAGAGGCAACAAAGTGCAAA
1 CAGAGGCAACAAAGTGCAAA
* *
10327363 CAGAGGCACCAAAGTGCAAT
1 CAGAGGCAACAAAGTGCAAA
* *
10327383 CAAAGGCATCAAAGTGCTAAA
1 CAGAGGCAACAAAGTGC-AAA
10327404 CA
1 CA
10327406 AATAGCACAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
20 33 0.89
21 4 0.11
ACGTcount: A:0.46, C:0.22, G:0.22, T:0.10
Consensus pattern (20 bp):
CAGAGGCAACAAAGTGCAAA
Found at i:10327423 original size:22 final size:22
Alignment explanation
Indices: 10327398--10327458 Score: 95
Period size: 22 Copynumber: 2.8 Consensus size: 22
10327388 GCATCAAAGT
*
10327398 GCTAAACAAATAGCACATAAGA
1 GCTAATCAAATAGCACATAAGA
*
10327420 GCTAATCAGATAGCACATAAGA
1 GCTAATCAAATAGCACATAAGA
*
10327442 GCTAATCAAAGAGCACA
1 GCTAATCAAATAGCACA
10327459 GAAGTGTTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.49, C:0.20, G:0.16, T:0.15
Consensus pattern (22 bp):
GCTAATCAAATAGCACATAAGA
Found at i:10335412 original size:18 final size:18
Alignment explanation
Indices: 10335389--10335428 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
10335379 GTAATTTTAA
*
10335389 TATATTATTTTAAAAT-TT
1 TATATTA-TTAAAAATATT
10335407 TATATTATTAAAAATATT
1 TATATTATTAAAAATATT
10335425 TATA
1 TATA
10335429 AATGGTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TATATTATTAAAAATATT
Found at i:10337416 original size:3 final size:3
Alignment explanation
Indices: 10337408--10337440 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
10337398 GGGCCTCCAT
10337408 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
10337441 AAAGTATCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:10340407 original size:6 final size:6
Alignment explanation
Indices: 10340396--10340464 Score: 138
Period size: 6 Copynumber: 11.5 Consensus size: 6
10340386 TCTAGGATAC
10340396 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
10340444 ATACAT ATACAT ATACAT ATA
1 ATACAT ATACAT ATACAT ATA
10340465 TATCAAGTTC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 63 1.00
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (6 bp):
ATACAT
Found at i:10348100 original size:40 final size:40
Alignment explanation
Indices: 10348032--10348276 Score: 328
Period size: 40 Copynumber: 6.1 Consensus size: 40
10348022 TGTATATGCC
* * * *
10348032 TTCAGGAGTACCGAAGTACTAATAGGGGCATGAATGTGCA
1 TTCAGGGGTACCGAAGTACAAACAGGGGCACGAATGTGCA
* *
10348072 TTCAGGGGTACTGAAGTACAAACGGGGGCACGAATGTGCA
1 TTCAGGGGTACCGAAGTACAAACAGGGGCACGAATGTGCA
* * * * *
10348112 TTCAGGGATATCGTAGTACAAATAGGGGCACAAATGTGCA
1 TTCAGGGGTACCGAAGTACAAACAGGGGCACGAATGTGCA
* *
10348152 TTCAAGGGTACTGAAGTACAAACAGGGGCACGAATGTGCA
1 TTCAGGGGTACCGAAGTACAAACAGGGGCACGAATGTGCA
* * * *
10348192 TTCAAGGGTACCAAAGTACAAACAGAGGCACAAATGTGCA
1 TTCAGGGGTACCGAAGTACAAACAGGGGCACGAATGTGCA
*
10348232 TTCAAGGGTACCGAAGTACAAACAGGGGCACGAATGTGCA
1 TTCAGGGGTACCGAAGTACAAACAGGGGCACGAATGTGCA
10348272 TTCAG
1 TTCAG
10348277 ACATTAATTA
Statistics
Matches: 177, Mismatches: 28, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 177 1.00
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.19
Consensus pattern (40 bp):
TTCAGGGGTACCGAAGTACAAACAGGGGCACGAATGTGCA
Found at i:10349721 original size:13 final size:13
Alignment explanation
Indices: 10349682--10349732 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
10349672 AGTTTAGCAA
10349682 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
10349695 TG-TTGTGAAAAAG
1 TGCTTTTG-AAAAG
*
10349708 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
10349721 TACTTTTGAAAA
1 TGCTTTTGAAAA
10349733 ATTTGGTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
12 4 0.13
13 23 0.74
14 4 0.13
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:10354859 original size:12 final size:12
Alignment explanation
Indices: 10354842--10354871 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
10354832 TCAGGCTGCT
10354842 ACACGGCCTCGC
1 ACACGGCCTCGC
*
10354854 ACACGGCCTGGC
1 ACACGGCCTCGC
10354866 ACACGG
1 ACACGG
10354872 GCATGTGGCT
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:0.20, C:0.43, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTCGC
Found at i:10360297 original size:14 final size:14
Alignment explanation
Indices: 10360278--10360320 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
10360268 GAAGAAGATG
10360278 ATGTTTTATTTTTT
1 ATGTTTTATTTTTT
*
10360292 ATGTTTTAAGTTTTT
1 ATGTTTT-ATTTTTT
10360307 ATGTACTTTATTTT
1 ATGT--TTTATTTT
10360321 AACTTTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 7 0.29
15 10 0.42
16 4 0.17
17 3 0.12
ACGTcount: A:0.19, C:0.02, G:0.09, T:0.70
Consensus pattern (14 bp):
ATGTTTTATTTTTT
Found at i:10368824 original size:20 final size:20
Alignment explanation
Indices: 10368791--10368829 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10368781 TTGTACGAGA
* *
10368791 TTGCATTTCGGTTCCTCTGT
1 TTGCACTTCAGTTCCTCTGT
10368811 TTGCACTTCAGTTCCTCTG
1 TTGCACTTCAGTTCCTCTG
10368830 ATTACACATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.08, C:0.28, G:0.18, T:0.46
Consensus pattern (20 bp):
TTGCACTTCAGTTCCTCTGT
Found at i:10371967 original size:139 final size:137
Alignment explanation
Indices: 10371779--10372111 Score: 409
Period size: 139 Copynumber: 2.4 Consensus size: 137
10371769 ACAAATACTC
* * * * *
10371779 CTTTCTCGACTTCACTCCCCGATTTCGACATTATATGGAACAAATACTCGTGTAAATATTTTGTT
1 CTTTCTCGACTTCA-TTCCCGA-TTCGGCGTTATATGGAACAAATACTCGTGTAAATATTTCGCT
* * * * * *
10371844 TGTTTGTCTCAAAACAACCTCGCTGGGTTCAACAGTGGTGGATGAAGAAGAAGGGTTATTGTTTT
64 TCTTTGTCTCAAAACAACCGCACTAGGTTCAACAGTGGTGAATGAAGAAGAAGGGTTATT-ATTT
10371909 CTAC-TAACTA
128 -TACGTAACTA
* *
10371919 CTTTCTCGACTTCATTCCCGATTCCGGCGTTA-ATTGGAACAAATACTCGTATAAATCTTTCGCT
1 CTTTCTCGACTTCATTCCCGATT-CGGCGTTATA-TGGAACAAATACTCGTGTAAATATTTCGCT
* *
10371983 TCTTTGTTTGAAAACAACCGCACTAGGTTCAACAGTGGTGAATGAAGAAGAAGGGTTATTATTTT
64 TCTTTGTCTCAAAACAACCGCACTAGGTTCAACAGTGGTGAATGAAGAAGAAGGGTTATTATTTT
10372048 ACGTTAACTA
129 ACG-TAACTA
* * * * *
10372058 TTTTCTTGACTTCACTCCCAATTTGGCGTTATATGGAACAAATACTCGTGTAAA
1 CTTTCTCGACTTCATTCCCGATTCGGCGTTATATGGAACAAATACTCGTGTAAA
10372112 CCTTTCACTT
Statistics
Matches: 167, Mismatches: 21, Indels: 12
0.83 0.10 0.06
Matches are distributed among these distances:
137 3 0.02
138 33 0.20
139 117 0.70
140 14 0.08
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.35
Consensus pattern (137 bp):
CTTTCTCGACTTCATTCCCGATTCGGCGTTATATGGAACAAATACTCGTGTAAATATTTCGCTTC
TTTGTCTCAAAACAACCGCACTAGGTTCAACAGTGGTGAATGAAGAAGAAGGGTTATTATTTTAC
GTAACTA
Found at i:10373214 original size:7 final size:7
Alignment explanation
Indices: 10373186--10373227 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
10373176 ATTACAATTA
10373186 CATTTCC
1 CATTTCC
*
10373193 CAATTCC
1 CATTTCC
* *
10373200 C-CTCCC
1 CATTTCC
10373206 CATTTCC
1 CATTTCC
10373213 CATTTCC
1 CATTTCC
10373220 CATTTCC
1 CATTTCC
10373227 C
1 C
10373228 GACCCCGTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
6 4 0.14
7 25 0.86
ACGTcount: A:0.14, C:0.50, G:0.00, T:0.36
Consensus pattern (7 bp):
CATTTCC
Found at i:10374488 original size:13 final size:13
Alignment explanation
Indices: 10374467--10374582 Score: 126
Period size: 13 Copynumber: 8.8 Consensus size: 13
10374457 AAATAACTAG
*
10374467 TTTATTATACTGT
1 TTTAATATACTGT
*
10374480 TTTAATATA-TTT
1 TTTAATATACTGT
10374492 TTTAATATACTGT
1 TTTAATATACTGT
* *
10374505 TTTAGTATGCTGT
1 TTTAATATACTGT
* *
10374518 TATAAATATACTAT
1 T-TTAATATACTGT
*
10374532 TTTAATATAATGT
1 TTTAATATACTGT
*
10374545 TTTAATATAATGT
1 TTTAATATACTGT
10374558 TTTAATATACTGT
1 TTTAATATACTGT
*
10374571 TATAAATATACT
1 T-TTAATATACT
10374583 ATAATTGTGA
Statistics
Matches: 86, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
12 11 0.13
13 57 0.66
14 18 0.21
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.53
Consensus pattern (13 bp):
TTTAATATACTGT
Found at i:10374534 original size:27 final size:27
Alignment explanation
Indices: 10374472--10374584 Score: 115
Period size: 27 Copynumber: 4.3 Consensus size: 27
10374462 ACTAGTTTAT
* * *
10374472 TATACTGTTTTAATATA-T-TTTTTAA
1 TATACTATTTTAATATACTGTTATAAA
* * *
10374497 TATACTGTTTTAGTATGCTGTTATAAA
1 TATACTATTTTAATATACTGTTATAAA
* *
10374524 TATACTATTTTAATATAATGTT-TTAA
1 TATACTATTTTAATATACTGTTATAAA
* *
10374550 TATAATGTTTTAATATACTGTTATAAA
1 TATACTATTTTAATATACTGTTATAAA
10374577 TATACTAT
1 TATACTAT
10374585 AATTGTGACA
Statistics
Matches: 70, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
25 15 0.21
26 23 0.33
27 32 0.46
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.52
Consensus pattern (27 bp):
TATACTATTTTAATATACTGTTATAAA
Found at i:10374560 original size:53 final size:52
Alignment explanation
Indices: 10374472--10374584 Score: 172
Period size: 53 Copynumber: 2.2 Consensus size: 52
10374462 ACTAGTTTAT
* * * * *
10374472 TATACTGTTTTAATATATTTTTTAATATACTGTTTTAGTATGCTGTTATAAA
1 TATACTATTTTAATATATGTTTTAATATAATGTTTTAATATACTGTTATAAA
10374524 TATACTATTTTAATATAATGTTTTAATATAATGTTTTAATATACTGTTATAAA
1 TATACTATTTTAATAT-ATGTTTTAATATAATGTTTTAATATACTGTTATAAA
10374577 TATACTAT
1 TATACTAT
10374585 AATTGTGACA
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
52 15 0.27
53 40 0.73
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.52
Consensus pattern (52 bp):
TATACTATTTTAATATATGTTTTAATATAATGTTTTAATATACTGTTATAAA
Found at i:10374579 original size:40 final size:40
Alignment explanation
Indices: 10374472--10374580 Score: 62
Period size: 40 Copynumber: 2.8 Consensus size: 40
10374462 ACTAGTTTAT
* * * * *
10374472 TATACTGTTTTAATATA-TTTTTTAATATACTGTT-TTAG
1 TATACTATTTTAATATACTGTTTTAATATAATGTTATAAA
* * * * *
10374510 TATGCTGTTATAAATATACTATTTTAATATAATGTT-TTAA
1 TATACTATT-TTAATATACTGTTTTAATATAATGTTATAAA
* * *
10374550 TATAATGTTTTAATATACTGTTATAAATATA
1 TATACTATTTTAATATACTGTT-TTAATATA
10374581 CTATAATTGT
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
38 8 0.14
39 18 0.31
40 32 0.55
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (40 bp):
TATACTATTTTAATATACTGTTTTAATATAATGTTATAAA
Found at i:10375915 original size:43 final size:41
Alignment explanation
Indices: 10375855--10376011 Score: 156
Period size: 43 Copynumber: 3.7 Consensus size: 41
10375845 TATGTATTTT
*
10375855 CGTGTAAGACCACGTCTGGGACGTTGGCATCAAATTGTGTATA
1 CGTGTAAGACCACGTCTGGGACATTGGCATC-AATTGTG-ATA
* * *
10375898 CGTGTAAGACCATGTCTGGGACATTGGCATCGTATT-TGATT
1 CGTGTAAGACCACGTCTGGGACATTGGCATC-AATTGTGATA
* * * *
10375939 TGTGCAAGACC-CTGTCTGGGACAGTGGCATCGATATGTGATTA
1 CGTGTAAGACCAC-GTCTGGGACATTGGCATCAAT-TGTGA-TA
* *
10375982 CATGTAAGACCACGTTTGGGACATTGGCAT
1 CGTGTAAGACCACGTCTGGGACATTGGCAT
10376012 TGTACAAGCC
Statistics
Matches: 93, Mismatches: 16, Indels: 10
0.78 0.13 0.08
Matches are distributed among these distances:
40 2 0.02
41 29 0.31
42 5 0.05
43 56 0.60
44 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.29
Consensus pattern (41 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCAATTGTGATA
Found at i:10376201 original size:16 final size:17
Alignment explanation
Indices: 10376172--10376203 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
10376162 TGAATTGATG
10376172 ATATGAAGTTATGTGAA
1 ATATGAAGTTATGTGAA
10376189 ATATGAA-TTATGTGA
1 ATATGAAGTTATGTGA
10376204 TTGCATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (17 bp):
ATATGAAGTTATGTGAA
Found at i:10383388 original size:43 final size:41
Alignment explanation
Indices: 10383328--10383484 Score: 176
Period size: 43 Copynumber: 3.7 Consensus size: 41
10383318 TATGTATTTT
10383328 CGTGTAAGACCACGTCTGGGACGTTGGCATCGAATTGTGTATA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCG-ATTGTG-ATA
* * * *
10383371 CGTGTAAGACTATGTCTGGGACATTGGCATCGTATT-TGATT
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCG-ATTGTGATA
*
10383412 TGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATGTGATTA
1 CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAT-TGTGA-TA
*
10383455 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
10383485 TGTACGAGCC
Statistics
Matches: 95, Mismatches: 12, Indels: 14
0.79 0.10 0.12
Matches are distributed among these distances:
40 2 0.02
41 29 0.31
42 6 0.06
43 57 0.60
44 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (41 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATTGTGATA
Found at i:10383472 original size:84 final size:84
Alignment explanation
Indices: 10383329--10383484 Score: 212
Period size: 84 Copynumber: 1.9 Consensus size: 84
10383319 ATGTATTTTC
* * *
10383329 GTGTAAGACCACGTCTGGGACGTTGGCATCGAATTGTGTATACGTGTAAGACTATGTCTGGGACA
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGAATTGTGTATACATGTAAGACCACGTCTGGGACA
10383394 TTGGCATCGTATTTGATTT
66 TTGGCATCGTATTTGATTT
10383413 GTGTAAGACC-CTGTCTGGGACAG-TGGCATCG-ATATGTG-ATTACATGTAAGACCACGTCTGG
1 GTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAAT-TGTGTA-TACATGTAAGACCACGTCTGG
*
10383474 GACGTTGGCAT
62 GACATTGGCAT
10383485 TGTACGAGCC
Statistics
Matches: 64, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
83 4 0.06
84 59 0.92
85 1 0.02
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.30
Consensus pattern (84 bp):
GTGTAAGACCACGTCTGGGACGTTGGCATCGAATTGTGTATACATGTAAGACCACGTCTGGGACA
TTGGCATCGTATTTGATTT
Found at i:10385987 original size:13 final size:13
Alignment explanation
Indices: 10385963--10386001 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
10385953 AGGTGTTACA
10385963 GTTATAAATATACT
1 GTTAT-AATATACT
*
10385977 GTTTTAATATACT
1 GTTATAATATACT
10385990 GTTATAA-ATACT
1 GTTATAATATACT
10386002 ACACCTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 5 0.22
13 14 0.61
14 4 0.17
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
GTTATAATATACT
Found at i:10386062 original size:35 final size:35
Alignment explanation
Indices: 10386018--10386084 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
10386008 TAATTATTAA
* *
10386018 TGTAATATACTGGTTTAATATATTGTTATAAAATT
1 TGTAATATACTAGTTTAATATACTGTTATAAAATT
*
10386053 TGTAATATACTATTTTAATATACTGTTATAAA
1 TGTAATATACTAGTTTAATATACTGTTATAAA
10386085 TTATCACAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.48
Consensus pattern (35 bp):
TGTAATATACTAGTTTAATATACTGTTATAAAATT
Found at i:10387358 original size:21 final size:21
Alignment explanation
Indices: 10387312--10387359 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
10387302 TATATAAAAA
*
10387312 TAAAAAATCCCTAAAATTTCC
1 TAAAAAATCCATAAAATTTCC
* *
10387333 AAAAAAATACCATAAAA-TTCT
1 TAAAAAAT-CCATAAAATTTCC
10387354 TAAAAA
1 TAAAAA
10387360 TTTTCACAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.58, C:0.17, G:0.00, T:0.25
Consensus pattern (21 bp):
TAAAAAATCCATAAAATTTCC
Found at i:10390608 original size:26 final size:26
Alignment explanation
Indices: 10390579--10390653 Score: 123
Period size: 26 Copynumber: 2.9 Consensus size: 26
10390569 ACCAATATCT
* *
10390579 CAGCAAAGCTGCCAGTAATAGTGATG
1 CAGCAAAGCTGCCAGTAACAGTAATG
10390605 CAGCAAAGCTGCCAGTAACAGTAATG
1 CAGCAAAGCTGCCAGTAACAGTAATG
*
10390631 CAGCAAAGCTGCTAGTAACAGTA
1 CAGCAAAGCTGCCAGTAACAGTA
10390654 TATGTGGCAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.17
Consensus pattern (26 bp):
CAGCAAAGCTGCCAGTAACAGTAATG
Found at i:10390848 original size:27 final size:27
Alignment explanation
Indices: 10390817--10391105 Score: 307
Period size: 27 Copynumber: 10.7 Consensus size: 27
10390807 TCAATTCCTA
** * *
10390817 AGGGTATAACAGTCATTTTATCCTACG
1 AGGGTATTTCAGTCATTTTACCCTTCG
*
10390844 GGGGTATTTC-GATCATTTTACCCTTCG
1 AGGGTATTTCAG-TCATTTTACCCTTCG
*
10390871 AGGGTATTTCAGTCATTTTACCTTTCG
1 AGGGTATTTCAGTCATTTTACCCTTCG
* * * *
10390898 GGGGTATTTTAATCATTTTACCCTTCA
1 AGGGTATTTCAGTCATTTTACCCTTCG
*
10390925 AGGGTATTTC-GATCATTTTACCCTTCA
1 AGGGTATTTCAG-TCATTTTACCCTTCG
*
10390952 AGGGTATCTCAGTCATTTTACCCTTCG
1 AGGGTATTTCAGTCATTTTACCCTTCG
* *
10390979 AGGGTATTTCAGCCATTTTATCCTTCG
1 AGGGTATTTCAGTCATTTTACCCTTCG
* *
10391006 GGGGTATTTCAGCCATTTTACCCTTCG
1 AGGGTATTTCAGTCATTTTACCCTTCG
* *
10391033 GGGGTATTTC-GATCATTTTA-CCTTCA
1 AGGGTATTTCAG-TCATTTTACCCTTCG
** * *
10391059 AGGGTATTTTGGTCACTTTACCTTTCG
1 AGGGTATTTCAGTCATTTTACCCTTCG
* *
10391086 AGGGCATTTCTGTCATTTTA
1 AGGGTATTTCAGTCATTTTA
10391106 GGCCCATTAC
Statistics
Matches: 222, Mismatches: 33, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
26 22 0.10
27 198 0.89
28 2 0.01
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.41
Consensus pattern (27 bp):
AGGGTATTTCAGTCATTTTACCCTTCG
Found at i:10392115 original size:44 final size:42
Alignment explanation
Indices: 10392032--10392129 Score: 117
Period size: 44 Copynumber: 2.3 Consensus size: 42
10392022 TCCCAGATAG
* * * * *
10392032 GGTCTTACACGAAATCTTATACGATGCAGATGTCTCAAACAT
1 GGTCTTACACGAAATCTCAAACGATGCAGACGTCCCAAACAA
10392074 GGTCTTACACGTAAATCTCAAATCGATGCCAG-CGTCCCAAACAA
1 GGTCTTACACG-AAATCTCAAA-CGATG-CAGACGTCCCAAACAA
10392118 GGTCTTACACGA
1 GGTCTTACACGA
10392130 TATCATATAT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
42 11 0.23
43 9 0.19
44 25 0.52
45 3 0.06
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (42 bp):
GGTCTTACACGAAATCTCAAACGATGCAGACGTCCCAAACAA
Found at i:10406480 original size:45 final size:45
Alignment explanation
Indices: 10406409--10406517 Score: 191
Period size: 45 Copynumber: 2.4 Consensus size: 45
10406399 GGATATATAT
*
10406409 ATTACATAGTTTGTTCCAAGTTTGTTCCAACACATCTCATTTAAA
1 ATTACAAAGTTTGTTCCAAGTTTGTTCCAACACATCTCATTTAAA
**
10406454 ATTGGAAAGTTTGTTCCAAGTTTGTTCCAACACATCTCATTTAAA
1 ATTACAAAGTTTGTTCCAAGTTTGTTCCAACACATCTCATTTAAA
10406499 ATTACAAAGTTTGTTCCAA
1 ATTACAAAGTTTGTTCCAA
10406518 TACATCTCAT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 59 1.00
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (45 bp):
ATTACAAAGTTTGTTCCAAGTTTGTTCCAACACATCTCATTTAAA
Found at i:10406540 original size:33 final size:34
Alignment explanation
Indices: 10406471--10406546 Score: 127
Period size: 34 Copynumber: 2.3 Consensus size: 34
10406461 AGTTTGTTCC
10406471 AAGTTTGTTCCAACACATCTCATTTAAAATTACA
1 AAGTTTGTTCCAACACATCTCATTTAAAATTACA
* *
10406505 AAGTTTGTTCCAATACATCTCATTT-AAATTTCA
1 AAGTTTGTTCCAACACATCTCATTTAAAATTACA
10406538 AAGTTTGTT
1 AAGTTTGTT
10406547 ATTTTTGCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 16 0.40
34 24 0.60
ACGTcount: A:0.34, C:0.17, G:0.08, T:0.41
Consensus pattern (34 bp):
AAGTTTGTTCCAACACATCTCATTTAAAATTACA
Found at i:10409007 original size:26 final size:28
Alignment explanation
Indices: 10408978--10409036 Score: 79
Period size: 26 Copynumber: 2.2 Consensus size: 28
10408968 TCAAAACACC
*
10408978 TAAATGTAATACAATAA-AT-ATTACAA
1 TAAATATAATACAATAATATCATTACAA
*
10409004 TAAATATAGTACAATAATATCATTACAA
1 TAAATATAATACAATAATATCATTACAA
10409032 -AAATA
1 TAAATA
10409037 CTAAACAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 15 0.52
27 7 0.24
28 7 0.24
ACGTcount: A:0.58, C:0.08, G:0.03, T:0.31
Consensus pattern (28 bp):
TAAATATAATACAATAATATCATTACAA
Found at i:10409018 original size:14 final size:12
Alignment explanation
Indices: 10408987--10409036 Score: 57
Period size: 12 Copynumber: 3.9 Consensus size: 12
10408977 CTAAATGTAA
10408987 TACAATAAATAT
1 TACAATAAATAT
10408999 TACAATAAATAT
1 TACAATAAATAT
10409011 AGTACAATAATATCAT
1 --TACAATAA-AT-AT
10409027 TACAA-AAATA
1 TACAATAAATA
10409037 CTAAACAGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
11 1 0.03
12 14 0.41
13 2 0.06
14 13 0.38
15 2 0.06
16 2 0.06
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.30
Consensus pattern (12 bp):
TACAATAAATAT
Found at i:10409500 original size:35 final size:35
Alignment explanation
Indices: 10409423--10409532 Score: 109
Period size: 32 Copynumber: 3.1 Consensus size: 35
10409413 TAAAAAGTTA
* ** *
10409423 CCTCTTTTGATCTTTTCTGTTAAAACCTTAAATGAAAT
1 CCTCTTTTGATCTTTT-T-TT-AAACCCTAAACAAAAC
10409461 CCTCTTTTGATCTTTTTTTAAACCCTAAACAAAAC
1 CCTCTTTTGATCTTTTTTTAAACCCTAAACAAAAC
* * *
10409496 CCTC---TAATCCTTTTTTAAACCCTAAACAAAGC
1 CCTCTTTTGATCTTTTTTTAAACCCTAAACAAAAC
10409528 CCTCT
1 CCTCT
10409533 AATCCCTCTT
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
32 29 0.45
35 16 0.25
36 2 0.03
37 1 0.02
38 16 0.25
ACGTcount: A:0.30, C:0.26, G:0.05, T:0.39
Consensus pattern (35 bp):
CCTCTTTTGATCTTTTTTTAAACCCTAAACAAAAC
Found at i:10409515 original size:32 final size:32
Alignment explanation
Indices: 10409474--10409537 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
10409464 CTTTTGATCT
10409474 TTTTTTAAACCCTAAACAAAACCCTCTAATCC
1 TTTTTTAAACCCTAAACAAAACCCTCTAATCC
*
10409506 TTTTTTAAACCCTAAACAAAGCCCTCTAATCC
1 TTTTTTAAACCCTAAACAAAACCCTCTAATCC
10409538 CTCTTTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.36, C:0.31, G:0.02, T:0.31
Consensus pattern (32 bp):
TTTTTTAAACCCTAAACAAAACCCTCTAATCC
Found at i:10409986 original size:19 final size:19
Alignment explanation
Indices: 10409945--10409986 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
10409935 TTTAACATAT
* *
10409945 TTTTTTCGATTTTCCTTTT
1 TTTTTTCGATTTTCATTTG
10409964 TTTTTTC-ATTTTGCATTTG
1 TTTTTTCGATTTT-CATTTG
10409983 TTTT
1 TTTT
10409987 GTATTTGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.07, C:0.12, G:0.07, T:0.74
Consensus pattern (19 bp):
TTTTTTCGATTTTCATTTG
Found at i:10418501 original size:22 final size:22
Alignment explanation
Indices: 10418473--10418517 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
10418463 CAAGTAGAAA
10418473 TTCGTAGCTTTGCAGCATTCTT
1 TTCGTAGCTTTGCAGCATTCTT
10418495 TTCGTAGCTTTGCAGCATTCTT
1 TTCGTAGCTTTGCAGCATTCTT
10418517 T
1 T
10418518 CTCATTCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (22 bp):
TTCGTAGCTTTGCAGCATTCTT
Found at i:10424851 original size:17 final size:17
Alignment explanation
Indices: 10424826--10424882 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
10424816 CCTTTGTGTT
*
10424826 GTGATTTTAATTGCTAG
1 GTGAATTTAATTGCTAG
* *
10424843 GTGAATTT-AGTG-T-T
1 GTGAATTTAATTGCTAG
*
10424857 GTGATTTTAATTGCTAG
1 GTGAATTTAATTGCTAG
10424874 GTGAATTTA
1 GTGAATTTA
10424883 GTGGTGAAAG
Statistics
Matches: 30, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
14 7 0.23
15 4 0.13
16 4 0.13
17 15 0.50
ACGTcount: A:0.25, C:0.04, G:0.25, T:0.47
Consensus pattern (17 bp):
GTGAATTTAATTGCTAG
Found at i:10424859 original size:31 final size:31
Alignment explanation
Indices: 10424821--10424885 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
10424811 TAAAACCTTT
10424821 GTGTTGTGATTTTAATTGCTAGGTGAATTTA
1 GTGTTGTGATTTTAATTGCTAGGTGAATTTA
10424852 GTGTTGTGATTTTAATTGCTAGGTGAATTTA
1 GTGTTGTGATTTTAATTGCTAGGTGAATTTA
10424883 GTG
1 GTG
10424886 GTGAAAGTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.22, C:0.03, G:0.28, T:0.48
Consensus pattern (31 bp):
GTGTTGTGATTTTAATTGCTAGGTGAATTTA
Found at i:10431828 original size:15 final size:15
Alignment explanation
Indices: 10431804--10431836 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
10431794 CTTAATATAT
10431804 ATATAAGTTATAATA
1 ATATAAGTTATAATA
*
10431819 ATATATGTTATAATA
1 ATATAAGTTATAATA
10431834 ATA
1 ATA
10431837 AAAATTAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (15 bp):
ATATAAGTTATAATA
Found at i:10431837 original size:21 final size:21
Alignment explanation
Indices: 10431796--10431837 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
10431786 TATGTTAACT
*
10431796 TAATATATATATAAGTTATAA
1 TAATATATATATAAGTAATAA
*
10431817 TAATATATGTTATAA-TAATAA
1 TAATATAT-ATATAAGTAATAA
10431838 AAATTAAAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (21 bp):
TAATATATATATAAGTAATAA
Found at i:10432664 original size:25 final size:25
Alignment explanation
Indices: 10432616--10432664 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
10432606 CATAACTGAA
* *
10432616 ATGAAATAAATTGATTTTGTATATT
1 ATGAAATAAATTGATTATGAATATT
*
10432641 ATGAAATATATTGATTATGAATAT
1 ATGAAATAAATTGATTATGAATAT
10432665 ATGTGTATCG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (25 bp):
ATGAAATAAATTGATTATGAATATT
Found at i:10433109 original size:43 final size:43
Alignment explanation
Indices: 10433061--10433145 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
10433051 ATATGATTGG
10433061 TATTGAAATGGA-AAAGATGAGAAATGAATATGAGATGAGAAAA
1 TATTGAAAT-GACAAAGATGAGAAATGAATATGAGATGAGAAAA
* * *
10433104 TATTGAAATGACAAATATGAGAAATGATTATGAGGTGAGAAA
1 TATTGAAATGACAAAGATGAGAAATGAATATGAGATGAGAAA
10433146 TGAGACATGA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 2 0.05
43 36 0.95
ACGTcount: A:0.51, C:0.01, G:0.25, T:0.24
Consensus pattern (43 bp):
TATTGAAATGACAAAGATGAGAAATGAATATGAGATGAGAAAA
Found at i:10463068 original size:67 final size:68
Alignment explanation
Indices: 10462972--10463169 Score: 233
Period size: 67 Copynumber: 2.9 Consensus size: 68
10462962 TTGGATTTGT
* *
10462972 GAGCTTAGCTC-ATCGAGCTCTTAGAGTATCAGTTGAGAGCGTAGGTCTGCTAGTT-TGTTGGAG
1 GAGCTTAACTCTA-CGAGCTCTTAGAGTATCAGTTGAGAGTGTAGGTCTGCTAGTTGTGTTGGAG
10463035 CTAC
65 CTAC
** * **
10463039 GAGCTTAACTCTGTGAGCTCTTAGAGTATCAGCT-AGGAGTGTAGGTCCACTA-TTGTGTTGGAG
1 GAGCTTAACTCTACGAGCTCTTAGAGTATCAGTTGA-GAGTGTAGGTCTGCTAGTTGTGTTGGAG
* **
10463102 TTGT
65 CTAC
* * *
10463106 GAGCTTAACTCTACGAGCTCTTAGAGTATCAGTTGGGGGTGTAGGTCTGCTAGTTGTTTTGGAG
1 GAGCTTAACTCTACGAGCTCTTAGAGTATCAGTTGAGAGTGTAGGTCTGCTAGTTGTGTTGGAG
10463170 GTTGAGATAA
Statistics
Matches: 108, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
66 3 0.03
67 95 0.88
68 10 0.09
ACGTcount: A:0.20, C:0.16, G:0.31, T:0.33
Consensus pattern (68 bp):
GAGCTTAACTCTACGAGCTCTTAGAGTATCAGTTGAGAGTGTAGGTCTGCTAGTTGTGTTGGAGC
TAC
Found at i:10463261 original size:69 final size:69
Alignment explanation
Indices: 10463133--10463309 Score: 212
Period size: 69 Copynumber: 2.6 Consensus size: 69
10463123 CTCTTAGAGT
* * * * * * *
10463133 ATCAGTTGGGGGTGTAGGTCTGCTAGTTGTTTTGGAGGTTGAGATAATAAATTGGCAAACCTTTG
1 ATCAGCTGGGAGTGTAGGTCCGCTAGCTGTTTTGGAGTTTGAGATAATAAACTGACAAACCTTTG
10463198 TAAC
66 TAAC
* * *
10463202 ATTAGCTGGGAGTGTAGGTCCACTAGCTGTTTTGGAGTTTGTA-ATCATAAACTGACAAACCTTT
1 ATCAGCTGGGAGTGTAGGTCCGCTAGCTGTTTTGGAGTTTG-AGATAATAAACTGACAAACCTTT
10463266 GTAAC
65 GTAAC
** * *
10463271 ATCATTTGGGAGTGTAGGTCCGCTAGCCGTGTTGGAGTT
1 ATCAGCTGGGAGTGTAGGTCCGCTAGCTGTTTTGGAGTT
10463310 GCAAGCTTAA
Statistics
Matches: 91, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
69 90 0.99
70 1 0.01
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.34
Consensus pattern (69 bp):
ATCAGCTGGGAGTGTAGGTCCGCTAGCTGTTTTGGAGTTTGAGATAATAAACTGACAAACCTTTG
TAAC
Found at i:10477661 original size:50 final size:50
Alignment explanation
Indices: 10477594--10477729 Score: 173
Period size: 50 Copynumber: 2.7 Consensus size: 50
10477584 ATTGCCAATT
* * ** * *
10477594 CCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACG
* ** *
10477644 CCATGTCCCAGACATGGTTTTACGGGGGACCTCTCATCTCGGTGCCAACG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACG
*
10477694 CCATGTCCTAGACATGGTCTTACATGGGACCTCTCA
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCA
10477730 CAATCTCAAT
Statistics
Matches: 72, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 72 1.00
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACG
Found at i:10480121 original size:21 final size:22
Alignment explanation
Indices: 10480083--10480123 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
10480073 ATCGACTTCT
*
10480083 GACCGAATTAGATCAATTAACC
1 GACCGAATTAAATCAATTAACC
*
10480105 GACCG-ATTAAATGAATTAA
1 GACCGAATTAAATCAATTAA
10480124 ATTAATTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.44, C:0.17, G:0.15, T:0.24
Consensus pattern (22 bp):
GACCGAATTAAATCAATTAACC
Found at i:10486264 original size:33 final size:33
Alignment explanation
Indices: 10486227--10486313 Score: 113
Period size: 33 Copynumber: 2.7 Consensus size: 33
10486217 GAGCCTTTAG
* *
10486227 CTTCACCTTCTATACCTGTTACCTCTATATCTC
1 CTTCACCTTCTATACCTGTTACCCCTATATCAC
* * *
10486260 CTTCACCCTCTATACCGGTTACCCCTATTTCAC
1 CTTCACCTTCTATACCTGTTACCCCTATATCAC
*
10486293 CTTCATCTTCTATA-CTGTTAC
1 CTTCACCTTCTATACCTGTTAC
10486314 TCCTTCTTCA
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
32 6 0.13
33 40 0.87
ACGTcount: A:0.18, C:0.37, G:0.05, T:0.40
Consensus pattern (33 bp):
CTTCACCTTCTATACCTGTTACCCCTATATCAC
Found at i:10496022 original size:21 final size:21
Alignment explanation
Indices: 10495993--10496051 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
10495983 CTGATACTTG
*
10495993 TTCATGAGGTATTGATACATGC
1 TTCA-GAGGTATTGATACATAC
*
10496015 -TCTAGAGGTATTAATACATAC
1 TTC-AGAGGTATTGATACATAC
10496036 TTCA-AGGTATTGATAC
1 TTCAGAGGTATTGATAC
10496052 CTAGGTCTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
20 11 0.34
21 18 0.56
22 3 0.09
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.36
Consensus pattern (21 bp):
TTCAGAGGTATTGATACATAC
Found at i:10498044 original size:39 final size:39
Alignment explanation
Indices: 10497927--10498067 Score: 183
Period size: 39 Copynumber: 3.6 Consensus size: 39
10497917 AACATGTCTT
* ***
10497927 TGAGTATTGTGATATATGCTTGAATGTTATACGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTAATTATA
** * *
10497966 CAAGTGTTGTGATATATGCTTGAATGTTATGTAATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTAATTATA
10498005 TGAGTATTGTGATATATGCTTAAATGTTATGTAATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTAATTATA
* * *
10498044 TGTGTAATGTGACATATGCTTAAA
1 TGAGTATTGTGATATATGCTTAAA
10498068 AGTGAATATG
Statistics
Matches: 89, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 89 1.00
ACGTcount: A:0.32, C:0.05, G:0.20, T:0.43
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTAAATGTTATGTAATTATA
Found at i:10501057 original size:21 final size:21
Alignment explanation
Indices: 10501033--10501077 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
10501023 GTGCTTATTA
*
10501033 AATTGAATAAAAATTAAATTT
1 AATTGAATAAAAATTAAAGTT
* * *
10501054 AATTTAATTACAATTAAAGTT
1 AATTGAATAAAAATTAAAGTT
10501075 AAT
1 AAT
10501078 AAAATAATAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (21 bp):
AATTGAATAAAAATTAAAGTT
Found at i:10502652 original size:17 final size:17
Alignment explanation
Indices: 10502625--10502659 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
10502615 TATTCATTTC
10502625 TCAAGTCACAT-TTCAT
1 TCAAGTCACATCTTCAT
10502641 TCAAGCTCACATCTTCAT
1 TCAAG-TCACATCTTCAT
10502659 T
1 T
10502660 TACCATTCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 6 0.35
18 6 0.35
ACGTcount: A:0.29, C:0.29, G:0.06, T:0.37
Consensus pattern (17 bp):
TCAAGTCACATCTTCAT
Found at i:10505473 original size:15 final size:17
Alignment explanation
Indices: 10505442--10505474 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
10505432 TTCTTTCATA
10505442 TTTTATTATTGATTTAT
1 TTTTATTATTGATTTAT
10505459 TTTTA-TATT-ATTTAT
1 TTTTATTATTGATTTAT
10505474 T
1 T
10505475 ATAAACTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 4 0.25
17 5 0.31
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (17 bp):
TTTTATTATTGATTTAT
Found at i:10507712 original size:34 final size:34
Alignment explanation
Indices: 10507674--10507741 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
10507664 TCAAGTCAGT
10507674 TTATAACTAACACAATATAACCTATAACCAATCA
1 TTATAACTAACACAATATAACCTATAACCAATCA
10507708 TTATAACTAACACAATATAACCTATAACCAATCA
1 TTATAACTAACACAATATAACCTATAACCAATCA
10507742 AACTATCATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (34 bp):
TTATAACTAACACAATATAACCTATAACCAATCA
Found at i:10507735 original size:17 final size:16
Alignment explanation
Indices: 10507681--10507739 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 16
10507671 AGTTTATAAC
10507681 TAACACAATATAACCTA
1 TAAC-CAATATAACCTA
*
10507698 TAACCAATCATTA--TAA
1 TAACCAAT-ATAACCT-A
10507714 CTAACACAATATAACCTA
1 -TAAC-CAATATAACCTA
10507732 TAACCAAT
1 TAACCAAT
10507740 CAAACTATCA
Statistics
Matches: 34, Mismatches: 2, Indels: 13
0.69 0.04 0.27
Matches are distributed among these distances:
15 1 0.03
16 9 0.26
17 18 0.53
18 5 0.15
19 1 0.03
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (16 bp):
TAACCAATATAACCTA
Found at i:10508480 original size:13 final size:13
Alignment explanation
Indices: 10508462--10508487 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10508452 ACCCTTATTA
10508462 TTAATTAAAAATT
1 TTAATTAAAAATT
10508475 TTAATTAAAAATT
1 TTAATTAAAAATT
10508488 GTCCATAACT
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TTAATTAAAAATT
Found at i:10519905 original size:19 final size:20
Alignment explanation
Indices: 10519863--10519905 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
10519853 TAAAGTATCG
*
10519863 TACTTTACATCAGGGTATCAA
1 TACTTTACA-CAGGGTACCAA
*
10519884 TACTTTACA-AGGGTACCGA
1 TACTTTACACAGGGTACCAA
10519903 TAC
1 TAC
10519906 ATTTTTATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 11 0.55
21 9 0.45
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (20 bp):
TACTTTACACAGGGTACCAA
Found at i:10522070 original size:24 final size:24
Alignment explanation
Indices: 10522043--10522113 Score: 74
Period size: 24 Copynumber: 2.9 Consensus size: 24
10522033 TTCCCAATAT
10522043 TGGCTAGTATGAGCTTCCCGTTA-A
1 TGGCTA-TATGAGCTTCCCGTTACA
* *
10522067 TGGCTCT-TCGGAGCTTCTCGTTACA
1 TGGCTATAT--GAGCTTCCCGTTACA
10522092 TGGCTCATATGAGCTTCCCGTT
1 TGGCT-ATATGAGCTTCCCGTT
10522114 TATGTGTCCG
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
22 1 0.03
23 1 0.03
24 17 0.45
25 17 0.45
26 1 0.03
27 1 0.03
ACGTcount: A:0.15, C:0.25, G:0.24, T:0.35
Consensus pattern (24 bp):
TGGCTATATGAGCTTCCCGTTACA
Found at i:10522105 original size:25 final size:24
Alignment explanation
Indices: 10522050--10522113 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 24
10522040 TATTGGCTAG
*
10522050 TATGAGCTTCCCGTTAATGGCTCT
1 TATGAGCTTCCCGTTAATGGCTCA
** *
10522074 TCGGAGCTTCTCGTTACATGGCTCA
1 TATGAGCTTCCCGTTA-ATGGCTCA
10522099 TATGAGCTTCCCGTT
1 TATGAGCTTCCCGTT
10522114 TATGTGTCCG
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
24 13 0.41
25 19 0.59
ACGTcount: A:0.16, C:0.27, G:0.22, T:0.36
Consensus pattern (24 bp):
TATGAGCTTCCCGTTAATGGCTCA
Found at i:10522778 original size:18 final size:18
Alignment explanation
Indices: 10522755--10522792 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
10522745 TTTAATAAGT
10522755 ATATGTATG-TGTGTCTTA
1 ATATGTATGTTGTGT-TTA
*
10522773 ATATGTTTGTTGTGTTTA
1 ATATGTATGTTGTGTTTA
10522791 AT
1 AT
10522793 GTGGTTGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.21, C:0.03, G:0.21, T:0.55
Consensus pattern (18 bp):
ATATGTATGTTGTGTTTA
Found at i:10533476 original size:57 final size:57
Alignment explanation
Indices: 10533412--10533544 Score: 194
Period size: 57 Copynumber: 2.3 Consensus size: 57
10533402 ATATTTCTAC
** *
10533412 ATTTATGTTGTCTTAATGTAATTTATAGTTGCTGTCAAAATGTCTCTTAATATGCAT
1 ATTTATGTTGTCCAAATGTAATTTATAGTTGCTGTCAAAATGTCTCTTAATACGCAT
* * * *
10533469 ATTTATGTTGTCCAAATGTAATTTATAGTTGTTGTCATAATGTCTCTTAATGCGTAT
1 ATTTATGTTGTCCAAATGTAATTTATAGTTGCTGTCAAAATGTCTCTTAATACGCAT
*
10533526 ATTTATGTTGTCAAAATGT
1 ATTTATGTTGTCCAAATGT
10533545 GAATAATGGC
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 68 1.00
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.47
Consensus pattern (57 bp):
ATTTATGTTGTCCAAATGTAATTTATAGTTGCTGTCAAAATGTCTCTTAATACGCAT
Found at i:10538671 original size:21 final size:21
Alignment explanation
Indices: 10538647--10538701 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
10538637 GTGTCTCCTC
10538647 CACACGGGCGTGTGCTTCTTG
1 CACACGGGCGTGTGCTTCTTG
*
10538668 CACACAGGCGTGTGCTTCTTG
1 CACACGGGCGTGTGCTTCTTG
* *
10538689 CAGACGGGTGTGT
1 CACACGGGCGTGT
10538702 AACCTTTTCC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.13, C:0.25, G:0.35, T:0.27
Consensus pattern (21 bp):
CACACGGGCGTGTGCTTCTTG
Found at i:10541411 original size:14 final size:14
Alignment explanation
Indices: 10541331--10541441 Score: 60
Period size: 13 Copynumber: 8.2 Consensus size: 14
10541321 ATCGGGTGAA
10541331 AAAAATGATATATG
1 AAAAATGATATATG
*
10541345 --AAATGGTTATATG
1 AAAAAT-GATATATG
*
10541358 -AAAATAAATATATG
1 AAAAAT-GATATATG
*
10541372 --AAATGATTATACG
1 AAAAATGA-TATATG
*
10541385 AATCAAT--TATATG
1 AA-AAATGATATATG
*
10541398 AAAAATAATATATG
1 AAAAATGATATATG
*
10541412 --AAATGGTTATATG
1 AAAAAT-GATATATG
10541425 AAAAATGATATATG
1 AAAAATGATATATG
10541439 AAA
1 AAA
10541442 TGGTTATATT
Statistics
Matches: 74, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
12 12 0.16
13 29 0.39
14 26 0.35
15 4 0.05
16 3 0.04
ACGTcount: A:0.53, C:0.02, G:0.14, T:0.32
Consensus pattern (14 bp):
AAAAATGATATATG
Found at i:10541421 original size:27 final size:27
Alignment explanation
Indices: 10541391--10541450 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
10541381 TACGAATCAA
10541391 TTATATGAAAAATAATATATGAAATGG
1 TTATATGAAAAATAATATATGAAATGG
*
10541418 TTATATGAAAAATGATATATGAAATGG
1 TTATATGAAAAATAATATATGAAATGG
10541445 TTATAT
1 TTATAT
10541451 TAATCGGTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.37
Consensus pattern (27 bp):
TTATATGAAAAATAATATATGAAATGG
Found at i:10541450 original size:40 final size:39
Alignment explanation
Indices: 10541406--10541481 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 39
10541396 TGAAAAATAA
10541406 TATATGAAAT-GGTTATATGAAAA-ATGATATATGAAATGGT
1 TATAT-AAATCGGTTATATGAAAATA-GAT-TATGAAATGGT
* *
10541446 TATATTAATCGGTTATATGGAAATAGATTATGAAAT
1 TATATAAATCGGTTATATGAAAATAGATTATGAAAT
10541482 AGAACATTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
39 11 0.34
40 20 0.62
41 1 0.03
ACGTcount: A:0.43, C:0.01, G:0.18, T:0.37
Consensus pattern (39 bp):
TATATAAATCGGTTATATGAAAATAGATTATGAAATGGT
Found at i:10548391 original size:6 final size:6
Alignment explanation
Indices: 10548380--10548414 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
10548370 ATGACAAAGA
10548380 AGAGGG AGAGGG AGAGGG AGAGGG AGAGGG AGAGG
1 AGAGGG AGAGGG AGAGGG AGAGGG AGAGGG AGAGG
10548415 AAGACAAGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (6 bp):
AGAGGG
Found at i:10549638 original size:24 final size:24
Alignment explanation
Indices: 10549588--10549639 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
10549578 TTTCTAGAAG
* * * *
10549588 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTGATTAGCACAATAT
*
10549612 ATTTAGCATTGATTAGCACAATTT
1 ATTTAGCATTGATTAGCACAATAT
10549636 ATTT
1 ATTT
10549640 GACCTACGAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTGATTAGCACAATAT
Found at i:10550381 original size:29 final size:30
Alignment explanation
Indices: 10550338--10550394 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
10550328 AGAATTGATC
*
10550338 AAATTAAAATTTCATGTATAAAATTATATA
1 AAATTAAAATTTCATATATAAAATTATATA
* *
10550368 AAATTTAAA-TTCATATATAGAATTATA
1 AAATTAAAATTTCATATATAAAATTATA
10550395 CATTAAACTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.40
Consensus pattern (30 bp):
AAATTAAAATTTCATATATAAAATTATATA
Found at i:10550856 original size:3 final size:3
Alignment explanation
Indices: 10550850--10550878 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
10550840 TGTTTTAAGT
10550850 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
10550879 TTAATGAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:10556127 original size:18 final size:19
Alignment explanation
Indices: 10556097--10556133 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
10556087 CACGAGCATA
10556097 TGTATCACAACA-TTCATT
1 TGTATCACAACATTTCATT
10556115 TGTAT-ACATACATTTCATT
1 TGTATCACA-ACATTTCATT
10556134 CAATGTCATG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.18
18 8 0.47
19 6 0.35
ACGTcount: A:0.32, C:0.19, G:0.05, T:0.43
Consensus pattern (19 bp):
TGTATCACAACATTTCATT
Found at i:10561871 original size:19 final size:19
Alignment explanation
Indices: 10561856--10561957 Score: 177
Period size: 19 Copynumber: 5.3 Consensus size: 19
10561846 GTAAGATTAT
10561856 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
10561875 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
10561894 ATATATCATATCTAAGATTGC
1 --ATATCATATCTAAGATTGC
*
10561915 ATATCATATCTAGGATTGC
1 ATATCATATCTAAGATTGC
10561934 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
10561953 ATATC
1 ATATC
10561958 CTCAAAAATT
Statistics
Matches: 79, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
19 60 0.76
21 19 0.24
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (19 bp):
ATATCATATCTAAGATTGC
Found at i:10561905 original size:40 final size:40
Alignment explanation
Indices: 10561847--10561957 Score: 185
Period size: 40 Copynumber: 2.9 Consensus size: 40
10561837 AATCTCTAAG
10561847 TAAGATT--ATATATCATATCTAAGATTGCATATCATATC
1 TAAGATTGCATATATCATATCTAAGATTGCATATCATATC
10561885 TAAGATTGCATATATCATATCTAAGATTGCATATCATATC
1 TAAGATTGCATATATCATATCTAAGATTGCATATCATATC
*
10561925 TAGGATTGC--ATATCATATCTAAGATTGCATATC
1 TAAGATTGCATATATCATATCTAAGATTGCATATC
10561958 CTCAAAAATT
Statistics
Matches: 70, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
38 31 0.44
40 39 0.56
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (40 bp):
TAAGATTGCATATATCATATCTAAGATTGCATATCATATC
Found at i:10572813 original size:25 final size:25
Alignment explanation
Indices: 10572753--10572805 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
10572743 ATATATAGCT
10572753 AAAATAATAATAATTACATATGAAA
1 AAAATAATAATAATTACATATGAAA
**
10572778 CTAATAATAATAATTACAT-T-AAA
1 AAAATAATAATAATTACATATGAAA
10572801 AAAAT
1 AAAAT
10572806 TAACTAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 6 0.25
24 1 0.04
25 17 0.71
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.30
Consensus pattern (25 bp):
AAAATAATAATAATTACATATGAAA
Found at i:10573375 original size:19 final size:19
Alignment explanation
Indices: 10573351--10573463 Score: 181
Period size: 19 Copynumber: 5.8 Consensus size: 19
10573341 AATCATATAT
10573351 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
10573370 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
10573389 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
10573410 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
10573429 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
10573448 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
10573464 CTCAAAAATT
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
19 67 0.78
21 19 0.22
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:10573416 original size:40 final size:38
Alignment explanation
Indices: 10573328--10573463 Score: 173
Period size: 38 Copynumber: 3.4 Consensus size: 38
10573318 AAATTAAATC
*
10573328 TCTAAGATTACAAAATCATATATTCTAAGATTGCATATCATA
1 TCTAAGATTAC-ATATC--ATA-TCTAAGATTGCATATCATA
*
10573370 TCTAAGATTATATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTACATATCATATCTAAGATTGC--ATATCATA
* *
10573410 TCTAAGATTGCATATCATATCTAGGATTGCATATCATA
1 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
*
10573448 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
10573464 CTCAAAAATT
Statistics
Matches: 87, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
38 35 0.40
39 3 0.03
40 35 0.40
41 4 0.05
42 10 0.11
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (38 bp):
TCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:10573418 original size:59 final size:59
Alignment explanation
Indices: 10573351--10573462 Score: 197
Period size: 59 Copynumber: 1.9 Consensus size: 59
10573341 AATCATATAT
*
10573351 TCTAAGATTGCATATCATATCTAAGATTATATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTACATATCATATCTAAGATTGCATATATCATA
* *
10573410 TCTAAGATTGCATATCATATCTAGGATTGCATATCATATCTAAGATTGCATAT
1 TCTAAGATTGCATATCATATCTAAGATTACATATCATATCTAAGATTGCATAT
10573463 CCTCAAAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 50 1.00
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (59 bp):
TCTAAGATTGCATATCATATCTAAGATTACATATCATATCTAAGATTGCATATATCATA
Found at i:10581923 original size:55 final size:54
Alignment explanation
Indices: 10581812--10581958 Score: 195
Period size: 55 Copynumber: 2.7 Consensus size: 54
10581802 TACCCCTATC
* * ** **
10581812 GGGTAAAATGACCGTAATACCCTTGTAGGGTAAAATAACTGTAATGCCCTTGTA
1 GGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCATAATGCCCTCATA
* *
10581866 GGGTAAAATGACCGTAATACCCCATATAGGGTAAAATGACCATAATGCTCTCATA
1 GGGTAAAATGACCGTAATACCCC-TGTAGGGTAAAATGACCATAATGCCCTCATA
* *
10581921 GGGTAAAATGATCGTAATGCCCCTGTAGGGTAAAATGA
1 GGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGA
10581959 TCGTAAGGCC
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
54 36 0.44
55 45 0.56
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.25
Consensus pattern (54 bp):
GGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCATAATGCCCTCATA
Found at i:10581938 original size:82 final size:81
Alignment explanation
Indices: 10581797--10581964 Score: 230
Period size: 82 Copynumber: 2.1 Consensus size: 81
10581787 GTATAATAAT
* * ** *
10581797 CGTAATACCCCTATCGGGTAAAATGACCGTAATACCCTTGTAGGGTAAAATAACTGTAATGCCCT
1 CGTAATACCCCTATAGGGTAAAATGACCATAATACCCTCATAGGGTAAAATAACTGTAATGCCCC
10581862 TGTAGGGTAAAATGAC
66 TGTAGGGTAAAATGAC
* * *
10581878 CGTAATACCCCATATAGGGTAAAATGACCATAATGCTCTCATAGGGTAAAATGA-TCGTAATGCC
1 CGTAATACCCC-TATAGGGTAAAATGACCATAATACCCTCATAGGGTAAAATAACT-GTAATGCC
*
10581942 CCTGTAGGGTAAAATGAT
64 CCTGTAGGGTAAAATGAC
10581960 CGTAA
1 CGTAA
10581965 GGCCCCTAGA
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
81 12 0.16
82 64 0.84
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.26
Consensus pattern (81 bp):
CGTAATACCCCTATAGGGTAAAATGACCATAATACCCTCATAGGGTAAAATAACTGTAATGCCCC
TGTAGGGTAAAATGAC
Found at i:10581969 original size:27 final size:27
Alignment explanation
Indices: 10581797--10581971 Score: 181
Period size: 27 Copynumber: 6.4 Consensus size: 27
10581787 GTATAATAAT
* * *
10581797 CGTAATACCCCTATCGGGTAAAATGAC
1 CGTAATGCCCCTGTAGGGTAAAATGAC
* * *
10581824 CGTAATACCCTTGTAGGGTAAAATAAC
1 CGTAATGCCCCTGTAGGGTAAAATGAC
* *
10581851 TGTAATGCCCTTGTAGGGTAAAATGAC
1 CGTAATGCCCCTGTAGGGTAAAATGAC
* *
10581878 CGTAATACCCCATATAGGGTAAAATGAC
1 CGTAATGCCCC-TGTAGGGTAAAATGAC
* * * *
10581906 CATAATG-CTCTCATAGGGTAAAATGAT
1 CGTAATGCCCCT-GTAGGGTAAAATGAC
*
10581933 CGTAATGCCCCTGTAGGGTAAAATGAT
1 CGTAATGCCCCTGTAGGGTAAAATGAC
*
10581960 CGTAAGGCCCCT
1 CGTAATGCCCCT
10581972 AGAGGTTAAA
Statistics
Matches: 126, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
26 1 0.01
27 102 0.81
28 23 0.18
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (27 bp):
CGTAATGCCCCTGTAGGGTAAAATGAC
Found at i:10582017 original size:25 final size:24
Alignment explanation
Indices: 10581978--10582042 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 24
10581968 CCCTAGAGGT
10581978 TAAATGATT-ATTT-TGCCCTCGATTG
1 TAAATGATTGATTTGT-CCCT-GA-TG
*
10582003 TAAATGATTGATTTGTCCGTGATG
1 TAAATGATTGATTTGTCCCTGATG
*
10582027 TAAATGACTGATTTGT
1 TAAATGATTGATTTGT
10582043 TTGGGATTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
24 17 0.47
25 11 0.31
26 7 0.19
27 1 0.03
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.43
Consensus pattern (24 bp):
TAAATGATTGATTTGTCCCTGATG
Found at i:10582798 original size:15 final size:15
Alignment explanation
Indices: 10582778--10582810 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
10582768 TACTAAGGCC
*
10582778 TTTAAAATTCTGGAT
1 TTTAAAATTCGGGAT
10582793 TTT-AAATTCGGGAT
1 TTTAAAATTCGGGAT
10582807 TTTA
1 TTTA
10582811 TTGATTGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
14 13 0.81
15 3 0.19
ACGTcount: A:0.30, C:0.06, G:0.15, T:0.48
Consensus pattern (15 bp):
TTTAAAATTCGGGAT
Found at i:10585008 original size:23 final size:22
Alignment explanation
Indices: 10584982--10585035 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
10584972 ATCTCTTAGA
*
10584982 GGATACATCAACATTCCCTTATG
1 GGATACATC-ACATTCCCTTAAG
* *
10585005 GGATACAATCTCATTTCCTTAAG
1 GGATAC-ATCACATTCCCTTAAG
10585028 GGATACAT
1 GGATACAT
10585036 TTTATCATTC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 2 0.07
23 22 0.81
24 3 0.11
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.31
Consensus pattern (22 bp):
GGATACATCACATTCCCTTAAG
Found at i:10585124 original size:23 final size:23
Alignment explanation
Indices: 10585098--10585176 Score: 86
Period size: 23 Copynumber: 3.4 Consensus size: 23
10585088 ATTCCCTTGG
* *
10585098 GGGATACATTCTCATTCATTTAA
1 GGGATACATTCTCACTCCTTTAA
* *
10585121 GGGATCCATTCTCACTCCTTTAT
1 GGGATACATTCTCACTCCTTTAA
* * * *
10585144 GGTACACATTCTCACTCCCTCAA
1 GGGATACATTCTCACTCCTTTAA
10585167 GGGATACATT
1 GGGATACATT
10585177 ATCTTTCCCT
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.34
Consensus pattern (23 bp):
GGGATACATTCTCACTCCTTTAA
Found at i:10587371 original size:14 final size:14
Alignment explanation
Indices: 10587352--10587378 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10587342 GGAAAAAAGG
10587352 ACCAGTTGAACCAC
1 ACCAGTTGAACCAC
10587366 ACCAGTTGAACCA
1 ACCAGTTGAACCA
10587379 AATTGAGCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.33, G:0.15, T:0.15
Consensus pattern (14 bp):
ACCAGTTGAACCAC
Found at i:10596526 original size:8 final size:8
Alignment explanation
Indices: 10596515--10596588 Score: 78
Period size: 8 Copynumber: 9.4 Consensus size: 8
10596505 TTCCCCTATT
*
10596515 TTTAATTC
1 TTTAATTA
10596523 TTT-ATTA
1 TTTAATTA
* *
10596530 TTTTATCA
1 TTTAATTA
10596538 TTTAATTA
1 TTTAATTA
10596546 TTTAATTA
1 TTTAATTA
*
10596554 TTTTATTA
1 TTTAATTA
*
10596562 TTTTATTA
1 TTTAATTA
*
10596570 TTTTATTA
1 TTTAATTA
*
10596578 TTTTATTA
1 TTTAATTA
10596586 TTT
1 TTT
10596589 TCTTTAATTT
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
7 6 0.10
8 54 0.90
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (8 bp):
TTTAATTA
Found at i:10596558 original size:24 final size:23
Alignment explanation
Indices: 10596511--10596588 Score: 104
Period size: 24 Copynumber: 3.3 Consensus size: 23
10596501 CTATTTCCCC
*
10596511 TATT-TTTAATTCTTTATTATTT
1 TATTATTTAATTATTTATTATTT
*
10596533 TATCATTTAATTATTTAATTATTT
1 TATTATTTAATTATTT-ATTATTT
*
10596557 TATTATTTTATTATTTTATTATTT
1 TATTATTTAATTA-TTTATTATTT
10596581 TATTATTT
1 TATTATTT
10596589 TCTTTAATTT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
22 3 0.06
23 10 0.20
24 33 0.67
25 3 0.06
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.71
Consensus pattern (23 bp):
TATTATTTAATTATTTATTATTT
Found at i:10596589 original size:8 final size:8
Alignment explanation
Indices: 10596523--10596645 Score: 113
Period size: 8 Copynumber: 14.8 Consensus size: 8
10596513 TTTTTAATTC
10596523 TTTATTAT
1 TTTATTAT
*
10596531 TTTATCAT
1 TTTATTAT
*
10596539 TTAATTAT
1 TTTATTAT
*
10596547 TTAATTAT
1 TTTATTAT
10596555 TTTATTAT
1 TTTATTAT
10596563 TTTATTAT
1 TTTATTAT
10596571 TTTATTAT
1 TTTATTAT
10596579 TTTATTAT
1 TTTATTAT
* *
10596587 TTTCTTTAA
1 TTT-ATTAT
10596596 TTTATT-T
1 TTTATTAT
*
10596603 ATATATTTAT
1 -TTTA-TTAT
*
10596613 TTTCTTAT
1 TTTATTAT
*
10596621 TCTACTTATT
1 TTTA-TTA-T
10596631 TTTATTTAT
1 TTTA-TTAT
10596640 TTTATT
1 TTTATT
10596646 TATTCCACTT
Statistics
Matches: 94, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
8 68 0.72
9 18 0.19
10 8 0.09
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (8 bp):
TTTATTAT
Found at i:10596604 original size:4 final size:4
Alignment explanation
Indices: 10596537--10596649 Score: 51
Period size: 4 Copynumber: 27.8 Consensus size: 4
10596527 TTATTTTATC
* *
10596537 ATTT AATT ATTT AATT ATTT -TATT ATTT -TATT ATTT -TATT ATTT -TATT
1 ATTT ATTT ATTT ATTT ATTT AT-TT ATTT AT-TT ATTT AT-TT ATTT AT-TT
* * *
10596585 ATTTT CTTT AATTT ATTT ATAT ATTT ATTT -TCTT ATTCT ACTT A-TT
1 A-TTT ATTT -ATTT ATTT ATTT ATTT ATTT AT-TT ATT-T ATTT ATTT
10596631 -TTT ATTT ATTTT ATTT ATT
1 ATTT ATTT A-TTT ATTT ATT
10596650 CCACTTAGTA
Statistics
Matches: 84, Mismatches: 9, Indels: 32
0.67 0.07 0.26
Matches are distributed among these distances:
3 9 0.11
4 58 0.69
5 16 0.19
6 1 0.01
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.71
Consensus pattern (4 bp):
ATTT
Found at i:10596655 original size:28 final size:29
Alignment explanation
Indices: 10596597--10596656 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
10596587 TTTCTTTAAT
*
10596597 TTATTTATATATTTATTTTCTTATTCTAC
1 TTATTTATATATTTATTTTCTTATTCCAC
*
10596626 TTATTT-T-TATTTATTTTATTTATTCCAC
1 TTATTTATATATTTATTTT-CTTATTCCAC
10596654 TTA
1 TTA
10596657 GTAATTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 10 0.36
28 12 0.43
29 6 0.21
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (29 bp):
TTATTTATATATTTATTTTCTTATTCCAC
Found at i:10596878 original size:6 final size:6
Alignment explanation
Indices: 10596869--10596952 Score: 89
Period size: 6 Copynumber: 13.7 Consensus size: 6
10596859 TGATTTTATT
* * * *
10596869 TTTTTC TTTTTA GTTTTA TTTTTA TTTTTA -TTTTA TGTTTA TGTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
10596916 TTTTTA TTTTTT TTTTTA GTTTTTTAA TTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA --TTTTT-A TTTTTA TTTT
10596953 CTTTGACTTC
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
5 5 0.07
6 51 0.76
7 5 0.07
8 5 0.07
9 1 0.01
ACGTcount: A:0.14, C:0.01, G:0.05, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:10596890 original size:12 final size:11
Alignment explanation
Indices: 10596862--10596930 Score: 72
Period size: 12 Copynumber: 6.4 Consensus size: 11
10596852 GGATCATTGA
10596862 TTTTATTTT-T
1 TTTTATTTTAT
* *
10596872 TTCT-TTTTAG
1 TTTTATTTTAT
10596882 TTTTATTTTTAT
1 TTTTA-TTTTAT
10596894 TTTTATTTTAT
1 TTTTATTTTAT
*
10596905 GTTTATGTTTAT
1 TTTTAT-TTTAT
10596917 TTTTATTTT-T
1 TTTTATTTTAT
10596927 TTTT
1 TTTT
10596931 TTAGTTTTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
9 4 0.08
10 11 0.22
11 14 0.29
12 20 0.41
ACGTcount: A:0.13, C:0.01, G:0.04, T:0.81
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:10596902 original size:23 final size:22
Alignment explanation
Indices: 10596861--10596930 Score: 74
Period size: 23 Copynumber: 3.2 Consensus size: 22
10596851 AGGATCATTG
*
10596861 ATTTTA-TTTT-TTTCT-TTTT
1 ATTTTATTTTTATTTTTATTTT
10596880 AGTTTTATTTTTATTTTTATTTT
1 A-TTTTATTTTTATTTTTATTTT
*
10596903 ATGTTTATGTTTATTTTTATTTT
1 AT-TTTATTTTTATTTTTATTTT
*
10596926 TTTTT
1 ATTTT
10596931 TTAGTTTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
19 1 0.02
20 5 0.12
21 4 0.09
22 8 0.19
23 25 0.58
ACGTcount: A:0.14, C:0.01, G:0.04, T:0.80
Consensus pattern (22 bp):
ATTTTATTTTTATTTTTATTTT
Found at i:10596937 original size:23 final size:24
Alignment explanation
Indices: 10596862--10596937 Score: 82
Period size: 29 Copynumber: 2.9 Consensus size: 24
10596852 GGATCATTGA
10596862 TTTTATTTTTTTCTTTTTAGTTTTAT
1 TTTTATTTTTTT-TTTTTAG-TTTAT
10596888 TTTTATTTTTATTTTATGTTTATGTTTAT
1 TTTTA-TTTT-TTTT-T-TTTA-GTTTAT
10596917 TTTTA-TTTTTTTTTTTAGTTT
1 TTTTATTTTTTTTTTTTAGTTT
10596938 TTTAATTTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 13
0.78 0.00 0.22
Matches are distributed among these distances:
23 4 0.09
24 4 0.09
25 1 0.02
26 9 0.20
27 8 0.18
28 4 0.09
29 14 0.31
30 1 0.02
ACGTcount: A:0.13, C:0.01, G:0.05, T:0.80
Consensus pattern (24 bp):
TTTTATTTTTTTTTTTTAGTTTAT
Found at i:10599892 original size:16 final size:16
Alignment explanation
Indices: 10599871--10599943 Score: 87
Period size: 16 Copynumber: 4.6 Consensus size: 16
10599861 TATCTCCTGA
10599871 CTAGCTCACCACTCTG
1 CTAGCTCACCACTCTG
10599887 CTAGCTC-CCTACTCTG
1 CTAGCTCACC-ACTCTG
* *
10599903 CTAGCTCATCACTCTA
1 CTAGCTCACCACTCTG
*
10599919 CTAGCTCACCTC-CTCG
1 CTAGCTCACCACTCT-G
10599935 CTAGCTCAC
1 CTAGCTCAC
10599944 TAGCTCATGG
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
15 4 0.08
16 44 0.90
17 1 0.02
ACGTcount: A:0.18, C:0.44, G:0.11, T:0.27
Consensus pattern (16 bp):
CTAGCTCACCACTCTG
Found at i:10599916 original size:32 final size:32
Alignment explanation
Indices: 10599871--10599943 Score: 103
Period size: 32 Copynumber: 2.3 Consensus size: 32
10599861 TATCTCCTGA
*
10599871 CTAGCTCACCACTCTGCTAGCTC-CCTACTCTG
1 CTAGCTCACCACTCTACTAGCTCACCTACTC-G
* *
10599903 CTAGCTCATCACTCTACTAGCTCACCTCCTCG
1 CTAGCTCACCACTCTACTAGCTCACCTACTCG
10599935 CTAGCTCAC
1 CTAGCTCAC
10599944 TAGCTCATGG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
32 30 0.83
33 6 0.17
ACGTcount: A:0.18, C:0.44, G:0.11, T:0.27
Consensus pattern (32 bp):
CTAGCTCACCACTCTACTAGCTCACCTACTCG
Found at i:10600002 original size:33 final size:33
Alignment explanation
Indices: 10599965--10600035 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
10599955 ATCTTAGCAG
* *
10599965 GGGTAACTCTAAGGATTCATGTTAAGCCTAAGA
1 GGGTAACTCTAAGAATACATGTTAAGCCTAAGA
* *
10599998 GGGTAACTCTAAGAATACGTGTTAAGCCTAGGA
1 GGGTAACTCTAAGAATACATGTTAAGCCTAAGA
10600031 GGGTA
1 GGGTA
10600036 TGCATGATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.25
Consensus pattern (33 bp):
GGGTAACTCTAAGAATACATGTTAAGCCTAAGA
Found at i:10606621 original size:17 final size:17
Alignment explanation
Indices: 10606584--10606626 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
10606574 TTGAACTGAG
10606584 TTTTATTATTTTTTAATA
1 TTTT-TTATTTTTTAATA
10606602 TTTTTTATTGTTTTAA-A
1 TTTTTTATT-TTTTAATA
10606619 TTTTTTAT
1 TTTTTTAT
10606627 AATTTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (17 bp):
TTTTTTATTTTTTAATA
Found at i:10606632 original size:17 final size:18
Alignment explanation
Indices: 10606594--10606632 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
10606584 TTTTATTATT
**
10606594 TTTTAATATTTTTTATTG
1 TTTTAATATTTTTTATAA
10606612 TTTTAA-ATTTTTTATAA
1 TTTTAATATTTTTTATAA
10606629 TTTT
1 TTTT
10606633 TTTATCGAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (18 bp):
TTTTAATATTTTTTATAA
Found at i:10629939 original size:20 final size:21
Alignment explanation
Indices: 10629910--10630014 Score: 74
Period size: 20 Copynumber: 4.9 Consensus size: 21
10629900 ACAGTATTTT
10629910 ATTAAT-TTAATATTAAAGTA
1 ATTAATCTTAATATTAAAGTA
*
10629930 ATT-ATCTTAATATTAAATTTA
1 ATTAATCTTAATATTAAA-GTA
** * *
10629951 ATTTAAAATTTATCTTAACAGTA
1 A-TTAATCTTAATATTAA-AGTA
10629974 TTTTATTAAT-TTAATATTAAAGTA
1 ----ATTAATCTTAATATTAAAGTA
10629998 ATT-ATCTTAATATTAAA
1 ATTAATCTTAATATTAAA
10630015 TTTAATTTAA
Statistics
Matches: 66, Mismatches: 9, Indels: 20
0.69 0.09 0.21
Matches are distributed among these distances:
19 4 0.06
20 28 0.42
21 3 0.05
22 2 0.03
23 11 0.17
24 5 0.08
25 8 0.12
26 4 0.06
27 1 0.02
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.49
Consensus pattern (21 bp):
ATTAATCTTAATATTAAAGTA
Found at i:10629941 original size:68 final size:68
Alignment explanation
Indices: 10629868--10630069 Score: 395
Period size: 68 Copynumber: 3.0 Consensus size: 68
10629858 TTTTAATGGT
10629868 TTAATATTAAATTTAATTTAAAATTTATCTTAACAGTATTTTATTAATTTAATATTAAAGTAATT
1 TTAATATTAAATTTAATTTAAAATTTATCTTAACAGTATTTTATTAATTTAATATTAAAGTAATT
10629933 ATC
66 ATC
10629936 TTAATATTAAATTTAATTTAAAATTTATCTTAACAGTATTTTATTAATTTAATATTAAAGTAATT
1 TTAATATTAAATTTAATTTAAAATTTATCTTAACAGTATTTTATTAATTTAATATTAAAGTAATT
10630001 ATC
66 ATC
*
10630004 TTAATATTAAATTTAATTTAAAATTTATCTTAACAGTATTTTATTAATTTAATATTAAAGTGATT
1 TTAATATTAAATTTAATTTAAAATTTATCTTAACAGTATTTTATTAATTTAATATTAAAGTAATT
10630069 A
66 A
10630070 AGTTTAATCA
Statistics
Matches: 133, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 133 1.00
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.50
Consensus pattern (68 bp):
TTAATATTAAATTTAATTTAAAATTTATCTTAACAGTATTTTATTAATTTAATATTAAAGTAATT
ATC
Found at i:10633003 original size:11 final size:11
Alignment explanation
Indices: 10632985--10633017 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
10632975 TACACCAATG
10632985 AATAACAAACA
1 AATAACAAACA
*
10632996 ATTAACAAACA
1 AATAACAAACA
10633007 AAT-ACAAACA
1 AATAACAAACA
10633017 A
1 A
10633018 GCATAACAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 8 0.40
11 12 0.60
ACGTcount: A:0.70, C:0.18, G:0.00, T:0.12
Consensus pattern (11 bp):
AATAACAAACA
Found at i:10655226 original size:20 final size:20
Alignment explanation
Indices: 10655203--10655243 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
10655193 CTATTCAAAC
* *
10655203 AATATTACTTGAATAATTAT
1 AATATTACATGAATAAATAT
*
10655223 AATATTAGATGAATAAATAT
1 AATATTACATGAATAAATAT
10655243 A
1 A
10655244 TGCCTTTTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.39
Consensus pattern (20 bp):
AATATTACATGAATAAATAT
Found at i:10665266 original size:13 final size:15
Alignment explanation
Indices: 10665247--10665283 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
10665237 NNTTTATTTC
10665247 AATAATA-AATTTTA
1 AATAATATAATTTTA
10665261 AA-AATAATAATTTTA
1 AATAAT-ATAATTTTA
10665276 AATAATAT
1 AATAATAT
10665284 TCTTCGCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
13 3 0.15
14 3 0.15
15 11 0.55
16 3 0.15
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AATAATATAATTTTA
Found at i:10665268 original size:16 final size:16
Alignment explanation
Indices: 10665247--10665282 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
10665237 NNTTTATTTC
10665247 AATAATAAATTTTAAA-
1 AATAAT-AATTTTAAAT
10665263 AATAATAATTTTAAAT
1 AATAATAATTTTAAAT
10665279 AATA
1 AATA
10665283 TTCTTCGCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATAATTTTAAAT
Found at i:10678532 original size:46 final size:44
Alignment explanation
Indices: 10678479--10678566 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
10678469 GGTTCGCTGT
* *
10678479 AATGGAATAGAGGC-GTAATAGGTAATCCTTTTGTTTGGTTGAATAA
1 AATGGAATAGA-ACTGTAATA-GT-ATCCTTGTGTTTGGTTGAATAA
*
10678525 AATGGAATAGAACTGTAATAGTATTCTTGTGTTTGGTTGAAT
1 AATGGAATAGAACTGTAATAGTATCCTTGTGTTTGGTTGAAT
10678567 GGAACTGTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
44 18 0.47
45 3 0.08
46 17 0.45
ACGTcount: A:0.32, C:0.06, G:0.25, T:0.38
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATCCTTGTGTTTGGTTGAATAA
Found at i:10678752 original size:18 final size:17
Alignment explanation
Indices: 10678731--10678765 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
10678721 TTATTATTAA
*
10678731 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
10678749 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
10678766 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:10680938 original size:49 final size:49
Alignment explanation
Indices: 10680731--10680931 Score: 330
Period size: 49 Copynumber: 4.1 Consensus size: 49
10680721 GAAAAAAAAC
* * * * *
10680731 AATTAAAGTTAAGTTTAATATCATGAATCAAAAGGTGAACACTTTATAA
1 AATTAAAATTAAGTTCAATATCATAAATCAAAAGCTCAACACTTTATAA
*
10680780 AATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATAA
1 AATTAAAATTAAGTTCAATATCATAAATCAAAAGCTCAACACTTTATAA
*
10680829 AATTAAAATTAAGTTAAATATCATAAATCAAAAGCTCAACACTTTATAA
1 AATTAAAATTAAGTTCAATATCATAAATCAAAAGCTCAACACTTTATAA
*
10680878 AATTAAAATTAAGTTCAATATCATAAATCAAAAGCTCAACACTGTATAA
1 AATTAAAATTAAGTTCAATATCATAAATCAAAAGCTCAACACTTTATAA
10680927 AATTA
1 AATTA
10680932 TTATTAAATA
Statistics
Matches: 144, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 144 1.00
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.31
Consensus pattern (49 bp):
AATTAAAATTAAGTTCAATATCATAAATCAAAAGCTCAACACTTTATAA
Found at i:10685854 original size:27 final size:28
Alignment explanation
Indices: 10685815--10685885 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 28
10685805 TCAATAATAA
*
10685815 ATGTAATTAAATTATAAGTATTT-TTAAAT
1 ATGTAA-T-AATTATAAATATTTGTTAAAT
10685844 ATGTAATAATTATCACAATATTTGTTAAAT
1 ATGTAATAATTAT-A-AATATTTGTTAAAT
10685874 -T-T-ATAATTATAA
1 ATGTAATAATTATAA
10685886 CAAGTATAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
25 1 0.03
26 1 0.03
27 14 0.37
28 3 0.08
29 13 0.34
30 6 0.16
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (28 bp):
ATGTAATAATTATAAATATTTGTTAAAT
Found at i:10688655 original size:15 final size:14
Alignment explanation
Indices: 10688635--10688665 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
10688625 AGGAATAAAC
10688635 AAATAAAATGATGAA
1 AAATAAAATGAT-AA
10688650 AAATAAAATGATAA
1 AAATAAAATGATAA
10688664 AA
1 AA
10688666 TTAATCATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (14 bp):
AAATAAAATGATAA
Found at i:10693163 original size:11 final size:10
Alignment explanation
Indices: 10693126--10693184 Score: 73
Period size: 11 Copynumber: 5.5 Consensus size: 10
10693116 ACCTAAATCC
10693126 TTTCTCTCAA
1 TTTCTCTCAA
10693136 TTTCTCTCCAA
1 TTTCTCT-CAA
10693147 TATTCTCTCAAA
1 T-TTCTCTC-AA
10693159 TTTCTCTCAA
1 TTTCTCTCAA
10693169 TTTCCTCTCAA
1 TTT-CTCTCAA
*
10693180 ATTCT
1 TTTCT
10693185 TCTTAAAAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
10 14 0.32
11 21 0.48
12 9 0.20
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47
Consensus pattern (10 bp):
TTTCTCTCAA
Found at i:10694363 original size:7 final size:7
Alignment explanation
Indices: 10694351--10694407 Score: 114
Period size: 7 Copynumber: 8.1 Consensus size: 7
10694341 AGATAGTCGA
10694351 TTAGTAT
1 TTAGTAT
10694358 TTAGTAT
1 TTAGTAT
10694365 TTAGTAT
1 TTAGTAT
10694372 TTAGTAT
1 TTAGTAT
10694379 TTAGTAT
1 TTAGTAT
10694386 TTAGTAT
1 TTAGTAT
10694393 TTAGTAT
1 TTAGTAT
10694400 TTAGTAT
1 TTAGTAT
10694407 T
1 T
10694408 ATGTATTATG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 50 1.00
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.58
Consensus pattern (7 bp):
TTAGTAT
Found at i:10694413 original size:7 final size:7
Alignment explanation
Indices: 10694403--10694427 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
10694393 TTAGTATTTA
10694403 GTATTAT
1 GTATTAT
10694410 GTATTAT
1 GTATTAT
10694417 GTATTAT
1 GTATTAT
10694424 GTAT
1 GTAT
10694428 ATAACTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (7 bp):
GTATTAT
Found at i:10698992 original size:126 final size:125
Alignment explanation
Indices: 10698767--10699060 Score: 437
Period size: 126 Copynumber: 2.4 Consensus size: 125
10698757 GGCCAAATAG
* *
10698767 GAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAATACTTTTGCTGACAAAGCATC
1 GAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTTAATACTATTGCTGACAAAGCATC
* *
10698832 CTGCTTAAAGCGTTTTTGGCACTATTTGCTCAGAAACGTCTACTTGAAATTATTTTTTCAA
66 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTA-TTTTTCAA
* * * * * *
10698893 GAGCTACTGTAACAAAAGCGCGTTCATGTGGGAGCTTCTTTTAGTACTATTGTTGACAATGCATC
1 GAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTTAATACTATTGCTGACAAAGCATC
* *
10698958 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTTCTCGAAATTATTTTTCAG
66 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTCAA
** *
10699018 GAGCTACAATAGCAAAAGAGCGTCCACGTGGGAGCTT-TTTTAA
1 GAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTTAA
10699061 ATTAACAAAT
Statistics
Matches: 149, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
124 5 0.03
125 38 0.26
126 106 0.71
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (125 bp):
GAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTTAATACTATTGCTGACAAAGCATC
CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTCAA
Found at i:10699225 original size:98 final size:95
Alignment explanation
Indices: 10699097--10699394 Score: 386
Period size: 96 Copynumber: 3.1 Consensus size: 95
10699087 CCTAAACCTC
* *
10699097 AAACCCTAATTTATTTGAGTTTTCCTTAAAAATTCTAAACACTAAACCCTAATCTAATTTTTTTT
1 AAACCCTAATTTATTTGATTTTTCTTTAAAAA-TCTAAACACTAAACCCTAATCTAA--TTTTTT
10699162 AAAAATTTATAATTAATTTACTCAAGTAACCCT
63 AAAAATTTATAATTAATTTACTCAAGTAACCCT
* * * *
10699195 AGACCCTAATTTATTTGATTTTTCTTTAAAAACCATTAACACTAAACCCTAATCTGATTTTTTAA
1 AAACCCTAATTTATTTGATTTTTCTTTAAAAATC-TAAACACTAAACCCTAATCTAATTTTTTAA
* *
10699260 AAATTTTTAATTAATTTACTCAAGTAACTCT
65 AAATTTATAATTAATTTACTCAAGTAACCCT
* * *
10699291 AAACCCTAATTTAATT-ATTTTTCTTTAAAAACTATAAACA-TGAAACCCTAATCTAA-TTTTGA
1 AAACCCTAATTTATTTGATTTTTCTTTAAAAA-TCTAAACACT-AAACCCTAATCTAATTTTTTA
* * * *
10699353 AAAATTTATAATTAATTTAATTAAGAAATCCT
64 AAAATTTATAATTAATTTACTCAAGTAACCCT
10699385 AAACCCTAAT
1 AAACCCTAAT
10699395 CTCTTATTTA
Statistics
Matches: 176, Mismatches: 21, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
94 42 0.24
95 33 0.19
96 51 0.29
97 1 0.01
98 49 0.28
ACGTcount: A:0.40, C:0.16, G:0.03, T:0.40
Consensus pattern (95 bp):
AAACCCTAATTTATTTGATTTTTCTTTAAAAATCTAAACACTAAACCCTAATCTAATTTTTTAAA
AATTTATAATTAATTTACTCAAGTAACCCT
Found at i:10701475 original size:100 final size:101
Alignment explanation
Indices: 10701293--10701488 Score: 295
Period size: 100 Copynumber: 2.0 Consensus size: 101
10701283 TTCTTCGAGC
* ** *
10701293 ATGCCATGGAAATGTCTTCATCAGAGGATGCACTTTCTACTTTAATGATGGATTGGGATATTTCA
1 ATGCCATGGAAATGTCTTCATCAGAGGATGCACTTTCTACTTCAACAATGGATTGGGACATTTCA
* *
10701358 TGTTCTTACACGCAACACATATGATATTAAACACAT
66 TGTTCTTACACACAACACATATGACATTAAACACAT
* *
10701394 ATGCCATGGAAATGTTTTCAT-AGAGGATGCACTTTCTACTTCAACAATTGATTGGGACATTTCA
1 ATGCCATGGAAATGTCTTCATCAGAGGATGCACTTTCTACTTCAACAATGGATTGGGACATTTCA
* *
10701458 TGTTCTTGCACATAACACATATGACATTAAA
66 TGTTCTTACACACAACACATATGACATTAAA
10701489 AACTAAAATA
Statistics
Matches: 85, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
100 65 0.76
101 20 0.24
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (101 bp):
ATGCCATGGAAATGTCTTCATCAGAGGATGCACTTTCTACTTCAACAATGGATTGGGACATTTCA
TGTTCTTACACACAACACATATGACATTAAACACAT
Found at i:10704912 original size:23 final size:23
Alignment explanation
Indices: 10704879--10704926 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
10704869 TATCTGAAAA
*
10704879 ATTCATATAAATTAATGCATTAAT
1 ATTCATATAAATCAATGCA-TAAT
*
10704903 ATTCA-ATAAATCAATGTATAAT
1 ATTCATATAAATCAATGCATAAT
10704925 AT
1 AT
10704927 AATTAAATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 6 0.27
23 11 0.50
24 5 0.23
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (23 bp):
ATTCATATAAATCAATGCATAAT
Done.