Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold207
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: 1047254
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 71453 characters in sequence are not A, C, G, or T
File 1 of 6
Found at i:2166 original size:51 final size:53
Alignment explanation
Indices: 2085--2210 Score: 150
Period size: 51 Copynumber: 2.4 Consensus size: 53
2075 AGTTTCTCAA
* * * * * *
2085 TTCTCCATAATCAGGGATA-TTCAACTCCGATTTTTTTTTCAAAACA-CTAATT
1 TTCT-CATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACCCAATT
2137 TTCT-ATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACCCAATT
1 TTCTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACCCAATT
* *
2189 TTTTCACAATCGGGGATACTCC
1 TTCTCATAATCGGGGATACTCC
2211 CATCCCGTTA
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
50 12 0.19
51 23 0.37
52 12 0.19
53 16 0.25
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.36
Consensus pattern (53 bp):
TTCTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACCCAATT
Found at i:2360 original size:103 final size:103
Alignment explanation
Indices: 2253--2474 Score: 236
Period size: 104 Copynumber: 2.1 Consensus size: 103
2243 TTATTTCTGA
* ** * *
2253 GGGGATACTCCAACCCCACTTTATTTCCAAAATATTGATTTTTC-ATAATCGGGGATACTTTCAA
1 GGGGATACTCCAACCCCACTTTATTTCC-AAACA-CCATTTTCCTATAATCGGGGATAC-TCCAA
* * *
2317 CCCCGGTTTTA-TTGC-TAAAACACT-AATTTTTCCACAATC
63 CCCCGATTTTATTTCCAAAAAACACTCAATTTTT-CACAATC
** * * *
2356 GGGGATACTCTCAACCCCGGTTTATTTTCAAACACCATTTTCCTTTAATCGGGGATACTCCAACT
1 GGGGATACTC-CAACCCCACTTTATTTCCAAACACCATTTTCCTATAATCGGGGATACTCCAACC
*
2421 CCGATTTTATTTCCAAAAAATACTCAATTTTTCACAATC
65 CCGATTTTATTTCCAAAAAACACTCAATTTTTCACAATC
*
2460 GAGGATACTCCAACC
1 GGGGATACTCCAACC
2475 TCGTTATTCA
Statistics
Matches: 99, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
102 19 0.19
103 35 0.35
104 38 0.38
105 7 0.07
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (103 bp):
GGGGATACTCCAACCCCACTTTATTTCCAAACACCATTTTCCTATAATCGGGGATACTCCAACCC
CGATTTTATTTCCAAAAAACACTCAATTTTTCACAATC
Found at i:5356 original size:79 final size:82
Alignment explanation
Indices: 5250--5424 Score: 218
Period size: 79 Copynumber: 2.2 Consensus size: 82
5240 AAAATCGGGA
*
5250 TTGGAGTATCCCC--TCGAAAATAACGAGGTTGGAGTATCCCCAATTATGAGAAATCAATA-TTT
1 TTGGAGTATCCCCGATCGAAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTT
* *
5312 TGGGAATAAAGCC-GAGG
66 TGGAAATAAAACCGGA-G
* * * * *
5329 TTGGAGTATCCCCGAT-G-AAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTAGTATTTT
1 TTGGAGTATCCCCGATCGAAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTT
*
5392 TGGAAATAAAATCGGAG
66 TGGAAATAAAACCGGAG
5409 TTGGAGTATCCCCGAT
1 TTGGAGTATCCCCGAT
5425 TAAAGGAAAA
Statistics
Matches: 83, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
79 49 0.59
80 31 0.37
81 3 0.04
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.28
Consensus pattern (82 bp):
TTGGAGTATCCCCGATCGAAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTT
TGGAAATAAAACCGGAG
Found at i:5423 original size:80 final size:81
Alignment explanation
Indices: 5148--5424 Score: 234
Period size: 78 Copynumber: 3.5 Consensus size: 81
5138 TGAGAAATTT
* * * * * * *
5148 AATATTTTGGAGATAATAA-CGGGGTTTGAGTGTCCCC--TTGAAAATAACGGGGCTGGAGTATC
1 AATATTTTGGAAATAA-AATCGGAGTTGGAGTATCCCCGATCGAAAATAACGAGGTTGGAGTATC
** *
5210 CCCGGTTATGAGAAATC
65 CCCAATTATGAAAAATC
* * *
5227 GATGA--TTAGAAAAAAAATCGG-GATTGGAGTATCCCC--TCGAAAATAACGAGGTTGGAGTAT
1 AAT-ATTTTGGAAATAAAATCGGAG-TTGGAGTATCCCCGATCGAAAATAACGAGGTTGGAGTAT
*
5287 CCCCAATTATGAGAAATC
64 CCCCAATTATGAAAAATC
* * *
5305 AATATTTTGGGAAT-AAAGCCGAGGTTGGAGTATCCCCGAT-G-AAATAACGAGGTTGGAGTATC
1 AATATTTTGGAAATAAAATCGGA-GTTGGAGTATCCCCGATCGAAAATAACGAGGTTGGAGTATC
* * * *
5367 CTCGATTGTGAAAAATT
65 CCCAATTATGAAAAATC
*
5384 AGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGAT
1 AATA-TTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGAT
5425 TAAAGGAAAA
Statistics
Matches: 161, Mismatches: 26, Indels: 21
0.77 0.12 0.10
Matches are distributed among these distances:
77 4 0.02
78 65 0.40
79 56 0.35
80 29 0.18
81 7 0.04
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (81 bp):
AATATTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATCGAAAATAACGAGGTTGGAGTATCC
CCAATTATGAAAAATC
Found at i:5562 original size:51 final size:51
Alignment explanation
Indices: 5355--5576 Score: 264
Period size: 52 Copynumber: 4.3 Consensus size: 51
5345 GAAATAACGA
* * *
5355 GGTTGGAGTATCCTCGATTGTGAAAAATTAGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTA-TTTTGGAAATAAAACCGG
* * * * * *
5407 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTAGTATTTTGGAAATAAAACCGG
* * * *
5459 GGTTGGAGTATCCCCGATTGTGAAAAAATTAGTGTTTTAGCAATAAAACCGG
1 GGTTGGAGTATCCCCGATTATG-AAAAATTAGTATTTTGGAAATAAAACCGG
* * *
5511 GGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGCCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTATTTTGGAAATAAAACCGG
*
5562 GGTTGGAGCATCCCC
1 GGTTGGAGTATCCCC
5577 TCAGAAATAA
Statistics
Matches: 143, Mismatches: 25, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
51 38 0.27
52 96 0.67
53 9 0.06
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTAGTATTTTGGAAATAAAACCGG
Found at i:5681 original size:54 final size:51
Alignment explanation
Indices: 5618--5747 Score: 156
Period size: 51 Copynumber: 2.5 Consensus size: 51
5608 GATTAACGAG
* *
5618 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTG-AGAAATTAGTG--TTTTGAAAATAAAATCGGA
*
5672 GTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAG-AAATTAGTGTTTTGAAAATAAAATCGGA
* *
5723 GTTGAAATAT-CCCGATTGTGGAGAA
1 GTTGGAGTATCCCCGATTGT-GAGAA
5748 TTGAGAAACT
Statistics
Matches: 67, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
50 8 0.12
51 28 0.42
52 4 0.06
53 8 0.12
54 19 0.28
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.32
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAGAAATTAGTGTTTTGAAAATAAAATCGGA
Found at i:6566 original size:51 final size:53
Alignment explanation
Indices: 6460--6590 Score: 160
Period size: 51 Copynumber: 2.5 Consensus size: 53
6450 GATTAACGGG
* * * *
6460 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATTGGA
1 GTTGGAGTATCCCCGATTATGAAGAAATTAGTG-TTTTTGAAAATAAAATCGGA
6514 GTTGGAGTATCCCCGATTAT--AGAAAATTAGTG-TTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAG-AAATTAGTGTTTTTGAAAATAAAATCGGA
* * *
6565 GTTGGAATATCCCTGATTATGGAGAA
1 GTTGGAGTATCCCCGATTATGAAGAA
6591 TTGAGAAACT
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
51 35 0.51
52 4 0.06
53 10 0.15
54 19 0.28
ACGTcount: A:0.33, C:0.09, G:0.25, T:0.33
Consensus pattern (53 bp):
GTTGGAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGGA
Found at i:7204 original size:843 final size:842
Alignment explanation
Indices: 5575--7260 Score: 3066
Period size: 843 Copynumber: 2.0 Consensus size: 842
5565 TGGAGCATCC
5575 CCTCAGAAATAACGGGGTTGGAGTATCCCCGATGATTAACGAGGTTGGAGTATCCCCGATTGTGA
1 CCTCAGAAATAACGGGGTTGGAGTATCCCCGATGATTAACGAGGTTGGAGTATCCCCGATTGTGA
5640 AGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATAGAAAATTAGTGT
66 AGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATAGAAAATTAGTGT
*
5705 TTTGAAAATAAAATCGGAGTTGAAATATCCCGATTGTGGAGAATTGAGAAACTCAACAAAAATAC
131 TTTGAAAATAAAATCGGAGTTGAAATATCCCGATTATGGAGAATTGAGAAACTCAACAAAAATAC
5770 CTTTGGGTTTAGCCTTGGTCCGAGCCTAGGGGGATTACGAGGAGACATTCGAATGTCTCGGGAAG
196 CTTTGGGTTTAGCCTTGGTCCGAGCCTAGGGGGATTACGAGGAGACATTCGAATGTCTCGGGAAG
*
5835 AAGGTTAGAAGAACAACTCAACCTTGTTCATGCACAAAACAGGGGACAGCATCGCGTTGTCCCCC
261 AAGGTTAGAAGAACAACTCAACCTTGTTCATGCACAAAACAGGGGACAGCATCGCGCTGTCCCCC
*
5900 TTTTCGAATTTTGTTTGGGCTGATTTGGAGGTTTCAAAGAGCGGACGAGATACCGTTGGAAAGAT
326 TTTTCGAATTTTGTTTGGGCTGATTTGGAGGTTTCAAAGAGCGGACGAGATACCGTTAGAAAGAT
* *
5965 GACTCGATTAGGGTCGATCTAAAAATATTTTAAAAATCTCAAAAAATCATTTTCTTAGCAGAAAA
391 GACTCGATTAGAGTCAATCTAAAAATATTTTAAAAATCTCAAAAAATCATTTTCTTAGCAGAAAA
*
6030 AATCCATGAACTCGGGTCCATGGCGCTGTTAGTAGAGCTTATGAGAAAAACAGTATATCAAACTT
456 AATCCATGAACTCGGGTCCATGGCGCTGTTAGCAGAGCTTATGAGAAAAACAGTATATCAAACTT
* *
6095 TGAAAAATCACCCCGGACTCATTTGTTATCAAAACATTACGAATTATACCTTTACGAAAAGGAAA
521 TGAAAAATCACCCCGGACTCATTTGTTATCAAAAAATTACGAATTATACCTTTACAAAAAGGAAA
* * *
6160 TTTCATGAAAATTTTGGGAAAAATGTTGGAGAAAATCAAAAAAATCTTCTGGTGGGCCTGAACGA
586 TTTCACGAAAATTTTGAGAAAAATGTTGGAAAAAATCAAAAAAATCTTCTGGTGGGCCTGAACGA
*
6225 CCCAACCATAATGTATTTTACTGATTCCAGGGTTTTTGAACAGCTTAGACTCAAAAAATCATAAC
651 CCCAACCAGAATGTATTTTACTGATTCCAGGGTTTTTGAACAGCTTAGACTCAAAAAATCATAAC
*
6290 TCCCTAGTCTGGATGAATCTGGGGGCAAACAAGACATTGTTGAAAAGGTAATTCAAAGCTATTTG
716 TCCCTAGTCTGGATGAATCTGGGGGCAAAAAAGACATTGTTGAAAAGGTAATTCAAAGCTATTTG
6355 AGGGAAAAATATCAAAATATTTCAAAAAAATCGTTTCAAATTTTTTACATAATTTCCAATCT
781 AGGGAAAAATATCAAAATATTTCAAAAAAATCGTTTCAAATTTTTTACATAATTTCCAATCT
* * *
6417 CCTCGGAAATAACGGTGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTATCCCCGATTGTGA
1 CCTCAGAAATAACGGGGTTGGAGTATCCCCGATGATTAACGAGGTTGGAGTATCCCCGATTGTGA
*
6482 AGAAATTGGTGTTTTTTGGAAATAAAATTGGAGTTGGAGTATCCCCGATTATAGAAAATTAGTGT
66 AGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATAGAAAATTAGTGT
*
6547 TTTGAAAATAAAATCGGAGTTGGAATATCCCTGATTATGGAGAATTGAGAAACTCAACAAAAATA
131 TTTGAAAATAAAATCGGAGTTGAAATATCCC-GATTATGGAGAATTGAGAAACTCAACAAAAATA
*
6612 CCTTTGGGTTTAGCCTTGGTCCGAGCCTAGGGGGATTACGAGGAGACATTCGAATGTCTCGGGAT
195 CCTTTGGGTTTAGCCTTGGTCCGAGCCTAGGGGGATTACGAGGAGACATTCGAATGTCTCGGGAA
* *
6677 GAAGGTTGGAAGAACAACTCAACCTTGTTCATGCCCAAAACAGGGGACAGCATCGCGCTGTCCCC
260 GAAGGTTAGAAGAACAACTCAACCTTGTTCATGCACAAAACAGGGGACAGCATCGCGCTGTCCCC
* * *
6742 CTTTTCGAATTTTGTTTGGTCTGATTTGGAGGTTTCAAAGAGTGGATGAGATACCGTTAGAAAGA
325 CTTTTCGAATTTTGTTTGGGCTGATTTGGAGGTTTCAAAGAGCGGACGAGATACCGTTAGAAAGA
6807 TGACTCGATTAGAGTCAATCTAAAAATATTTTAAAAATCTCAAAAAATCATTTTCTTAGCAGAAA
390 TGACTCGATTAGAGTCAATCTAAAAATATTTTAAAAATCTCAAAAAATCATTTTCTTAGCAGAAA
*
6872 AAATCCATGAACTCGGGTCCATGGCGCTGTTAGCAGAGCTTATGAGAAAAACGGTATATCAAACT
455 AAATCCATGAACTCGGGTCCATGGCGCTGTTAGCAGAGCTTATGAGAAAAACAGTATATCAAACT
* * *
6937 TTGAAAAATCACCTCGGACTCATTTGTTATCAAAAAATTACGAATTATATCTTTACAAAAAGGGA
520 TTGAAAAATCACCCCGGACTCATTTGTTATCAAAAAATTACGAATTATACCTTTACAAAAAGGAA
*
7002 ATTTCACGAAAATTTTGAGAAAAATGTTGGAAAAAATCAAGAAAATCTTCTGGTGGGCCTGAACG
585 ATTTCACGAAAATTTTGAGAAAAATGTTGGAAAAAATCAAAAAAATCTTCTGGTGGGCCTGAACG
* *
7067 GCCCAACCAGAATGTATTTTACTGATTCTAGGGTTTTTGAACAGCTTAGACTCAAAAAATCATAA
650 ACCCAACCAGAATGTATTTTACTGATTCCAGGGTTTTTGAACAGCTTAGACTCAAAAAATCATAA
7132 CTCCCTAGTCTGGATGAATCTGGGGGCAAAAAAGACATTGTTGAAAAGGTAATTCAAAGCTATTT
715 CTCCCTAGTCTGGATGAATCTGGGGGCAAAAAAGACATTGTTGAAAAGGTAATTCAAAGCTATTT
* *
7197 GAGGGAAAAATATCAAAATATTTTAGAAAAATCGTTTCAAATTTTTTACATAATTTCCAATCT
780 GAGGGAAAAATATCAAAATATTTCAAAAAAATCGTTTCAAATTTTTTACATAATTTCCAATCT
7260 C
1 C
7261 ATACTGCCGT
Statistics
Matches: 810, Mismatches: 33, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
842 156 0.19
843 654 0.81
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.29
Consensus pattern (842 bp):
CCTCAGAAATAACGGGGTTGGAGTATCCCCGATGATTAACGAGGTTGGAGTATCCCCGATTGTGA
AGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATAGAAAATTAGTGT
TTTGAAAATAAAATCGGAGTTGAAATATCCCGATTATGGAGAATTGAGAAACTCAACAAAAATAC
CTTTGGGTTTAGCCTTGGTCCGAGCCTAGGGGGATTACGAGGAGACATTCGAATGTCTCGGGAAG
AAGGTTAGAAGAACAACTCAACCTTGTTCATGCACAAAACAGGGGACAGCATCGCGCTGTCCCCC
TTTTCGAATTTTGTTTGGGCTGATTTGGAGGTTTCAAAGAGCGGACGAGATACCGTTAGAAAGAT
GACTCGATTAGAGTCAATCTAAAAATATTTTAAAAATCTCAAAAAATCATTTTCTTAGCAGAAAA
AATCCATGAACTCGGGTCCATGGCGCTGTTAGCAGAGCTTATGAGAAAAACAGTATATCAAACTT
TGAAAAATCACCCCGGACTCATTTGTTATCAAAAAATTACGAATTATACCTTTACAAAAAGGAAA
TTTCACGAAAATTTTGAGAAAAATGTTGGAAAAAATCAAAAAAATCTTCTGGTGGGCCTGAACGA
CCCAACCAGAATGTATTTTACTGATTCCAGGGTTTTTGAACAGCTTAGACTCAAAAAATCATAAC
TCCCTAGTCTGGATGAATCTGGGGGCAAAAAAGACATTGTTGAAAAGGTAATTCAAAGCTATTTG
AGGGAAAAATATCAAAATATTTCAAAAAAATCGTTTCAAATTTTTTACATAATTTCCAATCT
Found at i:8968 original size:13 final size:13
Alignment explanation
Indices: 8950--8975 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8940 CAAAGAATAG
8950 ATGTATCGATACA
1 ATGTATCGATACA
8963 ATGTATCGATACA
1 ATGTATCGATACA
8976 CAGAAAAAAG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:8972 original size:34 final size:33
Alignment explanation
Indices: 8929--8995 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 33
8919 AACTTCCTAG
* *
8929 ATGTATCGATACAAAGAATAGATGTATCGATACA
1 ATGTATCGATACAAAGAA-AAAAGTATCGATACA
*
8963 ATGTATCGATACACAGAAAAAAGTATCGATACA
1 ATGTATCGATACAAAGAAAAAAGTATCGATACA
8996 TTCCCTTGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 13 0.43
34 17 0.57
ACGTcount: A:0.46, C:0.13, G:0.16, T:0.24
Consensus pattern (33 bp):
ATGTATCGATACAAAGAAAAAAGTATCGATACA
Found at i:9039 original size:19 final size:19
Alignment explanation
Indices: 9015--9081 Score: 65
Period size: 19 Copynumber: 3.8 Consensus size: 19
9005 CAGTAGCTAA
9015 TTATGTATCGATACAATAC
1 TTATGTATCGATACAATAC
9034 TTATG--T--AT-CAATAC
1 TTATGTATCGATACAATAC
* * *
9048 AT-TGTATCGATACAACAT
1 TTATGTATCGATACAATAC
9066 TTATGTATCGATACAA
1 TTATGTATCGATACAA
9082 ATCGTTGAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
13 2 0.05
14 7 0.18
15 3 0.08
17 3 0.08
18 5 0.13
19 18 0.47
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.37
Consensus pattern (19 bp):
TTATGTATCGATACAATAC
Found at i:9059 original size:32 final size:32
Alignment explanation
Indices: 9018--9080 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
9008 TAGCTAATTA
*
9018 TGTATCGATACAATACTTATGTATCAATACAT
1 TGTATCGATACAACACTTATGTATCAATACAT
* *
9050 TGTATCGATACAACATTTATGTATCGATACA
1 TGTATCGATACAACACTTATGTATCAATACA
9081 AATCGTTGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (32 bp):
TGTATCGATACAACACTTATGTATCAATACAT
Found at i:14374 original size:19 final size:19
Alignment explanation
Indices: 14350--14387 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
14340 TTTCTTGTGG
14350 CAACCTCGAACACACATCT
1 CAACCTCGAACACACATCT
14369 CAACCTCGAACACACATCT
1 CAACCTCGAACACACATCT
14388 TAACAAATTA
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:0.37, C:0.42, G:0.05, T:0.16
Consensus pattern (19 bp):
CAACCTCGAACACACATCT
Found at i:18342 original size:13 final size:13
Alignment explanation
Indices: 18324--18348 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18314 ATGTTGCACA
18324 GTATCGATACATT
1 GTATCGATACATT
18337 GTATCGATACAT
1 GTATCGATACAT
18349 GACTAAATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:18361 original size:20 final size:21
Alignment explanation
Indices: 18336--18388 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
18326 ATCGATACAT
**
18336 TGTATCGATACATGACTAA-A
1 TGTATCGATACATGAAAAAGA
*
18356 TGTATCGATACTTGAAAAAGA
1 TGTATCGATACATGAAAAAGA
18377 TGTATCGATACA
1 TGTATCGATACA
18389 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATGAAAAAGA
Found at i:18448 original size:13 final size:13
Alignment explanation
Indices: 18430--18454 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18420 ACACACAGTA
18430 TGTATCGATACAT
1 TGTATCGATACAT
18443 TGTATCGATACA
1 TGTATCGATACA
18455 CCATAAAATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:18451 original size:32 final size:33
Alignment explanation
Indices: 18410--18477 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
18400 GTAGCTAAAC
**
18410 TTGTATCGATACA-CACAGTATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
*
18442 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
18475 TTG
1 TTG
18478 GCTTGTAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACACCACAAAATGTATCGATACA
Found at i:20955 original size:96 final size:96
Alignment explanation
Indices: 20834--21066 Score: 242
Period size: 96 Copynumber: 2.4 Consensus size: 96
20824 AATAAGACTG
* * *
20834 GAGTATCCCCTCAGAGGAATAGGGTTGAAGTAT-CCCAATAATAATAATTTAGGCAAAAATAAGA
1 GAGTATCCCCTCAGAAGAATAGGGTTGAAGTATCCCCAATAATAACAATTTAGGCAAAAACAA-A
*
20898 TTTAAATCTTGACAAGTTTAAAATTGAGGTTA
65 TTTAAATCTTAACAAGTTTAAAATTGAGGTTA
* * * * * * * *
20930 GAGTATCCTCTCGGAAGAATGGGGTTGGAGTATCCCCGATGATGACAATTTAGGTAAAAACAAAT
1 GAGTATCCCCTCAGAAGAATAGGGTTGAAGTATCCCCAATAATAACAATTTAGGCAAAAACAAAT
**
20995 TTAAATCTTAACAAGTTTAAAAACG-GGATT-
66 TTAAATCTTAACAAGTTTAAAATTGAGG-TTA
* * *
21025 GTAGTATCCCCTCAAAAAAAT-GGAGTTGGAGTAT-CCCAATAA
1 G-AGTATCCCCTCAGAAGAATAGG-GTTGAAGTATCCCCAATAA
21067 ATAAATTTTT
Statistics
Matches: 113, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
95 11 0.10
96 79 0.70
97 23 0.20
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (96 bp):
GAGTATCCCCTCAGAAGAATAGGGTTGAAGTATCCCCAATAATAACAATTTAGGCAAAAACAAAT
TTAAATCTTAACAAGTTTAAAATTGAGGTTA
Found at i:26501 original size:52 final size:51
Alignment explanation
Indices: 26437--26555 Score: 139
Period size: 51 Copynumber: 2.3 Consensus size: 51
26427 AATAGCTAGC
** * *
26437 ATATATCGATACATTTGGGTCAAAAACTCAAAATGTATCGAAAGAATGAAAA
1 ATATATCGATACATTTAAGT-AAAAACCCAAAATGTATCGAAAGAATAAAAA
* * * *
26489 ATATATCAATACATTTAAGTTAAAACCCAAAATGTATCGATATAATAAAAA
1 ATATATCGATACATTTAAGTAAAAACCCAAAATGTATCGAAAGAATAAAAA
* *
26540 ATGTATTGATACATTT
1 ATATATCGATACATTT
26556 TCATTCCAGA
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
51 39 0.70
52 17 0.30
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.30
Consensus pattern (51 bp):
ATATATCGATACATTTAAGTAAAAACCCAAAATGTATCGAAAGAATAAAAA
Found at i:26634 original size:20 final size:21
Alignment explanation
Indices: 26611--26663 Score: 90
Period size: 20 Copynumber: 2.6 Consensus size: 21
26601 ACATTTCAGA
26611 TATGTATCGATACATTCACT-
1 TATGTATCGATACATTCACTG
26631 TATGTATCGATACATTCACTG
1 TATGTATCGATACATTCACTG
*
26652 TTTGTATCGATA
1 TATGTATCGATA
26664 TGAATTGTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 20 0.65
21 11 0.35
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (21 bp):
TATGTATCGATACATTCACTG
Found at i:27828 original size:28 final size:27
Alignment explanation
Indices: 27786--27851 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 27
27776 ATAATAAATA
* * *
27786 ATTATAAATTATTAAAATTATATTTAT
1 ATTAAAAATAATTAAAATTATATCTAT
27813 ATTAAATAATAATTAAAATTATATCTAT
1 ATTAAA-AATAATTAAAATTATATCTAT
*
27841 GTTAAAAATAA
1 ATTAAAAATAA
27852 AGTAATAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 10 0.29
28 24 0.71
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (27 bp):
ATTAAAAATAATTAAAATTATATCTAT
Found at i:30018 original size:16 final size:16
Alignment explanation
Indices: 29997--30027 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29987 TGAGTTGTTC
29997 AATTTATCTTTAAATT
1 AATTTATCTTTAAATT
*
30013 AATTTATTTTTAAAT
1 AATTTATCTTTAAAT
30028 AAAATATAAA
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:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (16 bp):
AATTTATCTTTAAATT
Found at i:30683 original size:5 final size:5
Alignment explanation
Indices: 30663--30743 Score: 57
Period size: 5 Copynumber: 16.6 Consensus size: 5
30653 AATAAGCTTG
*
30663 ATAAT ATTACAT ATAAT AT-A- ATAAT AGAAAT ATAAT AT-AT AT-AT
1 ATAAT A-TA-AT ATAAT ATAAT ATAAT A-TAAT ATAAT ATAAT ATAAT
* *
30707 ATAAT A-ATT A-AAA ATAAT ATAAT ATAAT ATAAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT-AAT ATA
30744 TATTTTAAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
3 2 0.03
4 15 0.24
5 29 0.47
6 13 0.21
7 3 0.05
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (5 bp):
ATAAT
Found at i:30694 original size:26 final size:26
Alignment explanation
Indices: 30665--30738 Score: 78
Period size: 28 Copynumber: 2.7 Consensus size: 26
30655 TAAGCTTGAT
*
30665 AATATTACATATAATATAATAA-TAGA
1 AATATTA-ATATAATATAATAATTAAA
*
30691 AATATAATATATATATATAATAATTAAA
1 AATATTA-ATATA-ATATAATAATTAAA
30719 AATAATATAATATAATATAA
1 AAT-AT-TAATATAATATAA
30739 ATATATATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
26 11 0.28
27 9 0.22
28 12 0.30
29 7 0.17
30 1 0.03
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (26 bp):
AATATTAATATAATATAATAATTAAA
Found at i:30710 original size:13 final size:13
Alignment explanation
Indices: 30673--30745 Score: 57
Period size: 13 Copynumber: 5.8 Consensus size: 13
30663 ATAATATTAC
30673 ATATA-ATATAAT
1 ATATATATATAAT
* *
30685 AATAGAAATATAAT
1 -ATATATATATAAT
30699 ATATATATATAAT
1 ATATATATATAAT
*
30712 A-AT-TA-AAAAT
1 ATATATATATAAT
30722 A-ATATAATATAAT
1 ATATAT-ATATAAT
*
30735 ATAAATATATA
1 ATATATATATA
30746 TTTTAAAATT
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
10 7 0.14
11 3 0.06
12 3 0.06
13 26 0.53
14 10 0.20
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (13 bp):
ATATATATATAAT
Found at i:30761 original size:34 final size:34
Alignment explanation
Indices: 30691--31039 Score: 112
Period size: 34 Copynumber: 10.6 Consensus size: 34
30681 TAATAATAGA
* * *
30691 AATATAATATATATATATAATAATTAAAAATAATAT
1 AATATAATATAAATATAT-AT-ATTAAAATTTATAT
*
30727 AATATAATATAAATATATATTTTAAAATTTATAT
1 AATATAATATAAATATATATATTAAAATTTATAT
*
30761 -AT-T-ATATAAATTATTAATATATCAAAATTTATAT
1 AATATAATATAAA-TA-T-ATATATTAAAATTTATAT
* ** * * * *
30795 AAATATAAAATATTTTAAATATAATTATAATATAAAT
1 -AATATAATATA-AATATATAT-ATTAAAATTTATAT
* *
30832 AA-AT-ATATAAAT-TACGATATCTATAAACTTA-AT
1 AATATAATATAAATATA-TATAT-TA-AAATTTATAT
* *
30865 AAT-T-TTAAAAATA-ATATAATTGTAAAA--TAT-T
1 AATATAATATAAATATATAT-A-T-TAAAATTTATAT
*
30896 AATATTATAT-AA-A-A-AT-TTAAAA-TTATA-
1 AATATAATATAAATATATATATTAAAATTTATAT
*
30923 AA-ATAATATAAAAATA-ATA-T-AAATTTAATAT
1 AATATAATATAAATATATATATTAAAATTT-ATAT
*
30954 AA-AT-ATATAAATA-A-ATA--AAAATATATAT
1 AATATAATATAAATATATATATTAAAATTTATAT
*
30982 -ATAAAATATAAATTATTAATATATTAAAATTTATAT
1 AATATAATATAAA-TA-T-ATATATTAAAATTTATAT
* *
31018 AAATATAAAATAAATAAATATA
1 -AATATAATATAAATATATATA
31040 AAAAATACAC
Statistics
Matches: 237, Mismatches: 36, Indels: 81
0.67 0.10 0.23
Matches are distributed among these distances:
26 11 0.05
27 9 0.04
28 9 0.04
29 22 0.09
30 15 0.06
31 19 0.08
32 11 0.05
33 27 0.11
34 41 0.17
35 9 0.04
36 35 0.15
37 13 0.05
38 16 0.07
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (34 bp):
AATATAATATAAATATATATATTAAAATTTATAT
Found at i:30768 original size:36 final size:36
Alignment explanation
Indices: 30691--31039 Score: 108
Period size: 36 Copynumber: 9.6 Consensus size: 36
30681 TAATAATAGA
* *
30691 AATATAATATATATATATAATAATTAAAA-ATA-ATAT
1 AATATAATATAAATATAT-AT-ATTAAAATTTATATAT
*
30727 AATATAATATAAATATATATTTTAAAATTTATATAT
1 AATATAATATAAATATATATATTAAAATTTATATAT
* * * *
30763 TATATAA-ATTATTA-ATATATCAAAATTTATATA-
1 AATATAATATAAATATATATATTAAAATTTATATAT
* ** * * * *
30796 AATATAAAATATTTTAAATATAATTATAATATAAATA-
1 AATATAATATA-AATATATAT-ATTAAAATTTATATAT
* * * * *
30833 AATATATAAATTACGATATCTATAAACTTAATAATTTTAAAAAT
1 AATATA-ATA-TA--A-ATATATATA-TTAA-AA-TTTATATAT
* *
30877 AATATAATTGTAAAATATTAATATTATATAAAAATTTAAAATTAT
1 AATATAA-TAT-AAATA-T-ATA-TAT-T-AAAATTT-ATA-TAT
* *
30922 AAAATAATATAAAAATA-ATA-T-AAATTTA-ATAT
1 AATATAATATAAATATATATATTAAAATTTATATAT
30954 AA-AT-ATATAAATA-A-ATA--AAAA--TATATAT
1 AATATAATATAAATATATATATTAAAATTTATATAT
*
30982 -ATAAAATATAAATTATTAATATATTAAAATTTATATA-
1 AATATAATATAAA-TA-T-ATATATTAAAATTTATATAT
* *
31019 AATATAAAATAAATAAATATA
1 AATATAATATAAATATATATA
31040 AAAAATACAC
Statistics
Matches: 239, Mismatches: 37, Indels: 75
0.68 0.11 0.21
Matches are distributed among these distances:
27 3 0.01
28 5 0.02
29 14 0.06
30 10 0.04
31 2 0.01
32 5 0.02
33 8 0.03
34 29 0.12
35 23 0.10
36 35 0.15
37 20 0.08
38 19 0.08
39 4 0.02
40 2 0.01
41 10 0.04
42 5 0.02
43 19 0.08
44 16 0.07
45 10 0.04
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (36 bp):
AATATAATATAAATATATATATTAAAATTTATATAT
Found at i:30807 original size:7 final size:8
Alignment explanation
Indices: 30692--31039 Score: 79
Period size: 8 Copynumber: 42.4 Consensus size: 8
30682 AATAATAGAA
30692 ATAT-AAT
1 ATATAAAT
*
30699 ATATATAT
1 ATATAAAT
30707 ATA-ATAAT
1 ATATA-AAT
*
30715 -TAAAAAT
1 ATATAAAT
30722 AATATAATAT
1 -ATATAA-AT
30732 AATATAAAT
1 -ATATAAAT
*
30741 ATAT-ATT
1 ATATAAAT
*
30748 TTA-AAAT
1 ATATAAAT
* *
30755 TTATATATT
1 ATATA-AAT
30764 ATATAAAT
1 ATATAAAT
*
30772 -TATTAAT
1 ATATAAAT
30779 ATATCAAAATTT
1 ATAT--AAA--T
30791 ATATAAAT
1 ATATAAAT
30799 ATA-AAAT
1 ATATAAAT
* *
30806 ATTTTAA-
1 ATATAAAT
30813 ATAT-AAT
1 ATATAAAT
30820 -TATAATAT
1 ATATAA-AT
*
30828 AAATAAAT
1 ATATAAAT
30836 ATATAAAT
1 ATATAAAT
* *
30844 -TACGATAT
1 ATA-TAAAT
*
30852 CTATAAACT
1 ATATAAA-T
*
30861 -TAATAATT
1 AT-ATAAAT
* *
30869 TTAAAAAT
1 ATATAAAT
*
30877 AATATAATT
1 -ATATAAAT
*
30886 GTA-AAAT
1 ATATAAAT
30893 AT-TAATATT
1 ATATAA-A-T
*
30902 ATATAAAA
1 ATATAAAT
*
30910 ATTTAAA-
1 ATATAAAT
30917 ATTATAAAAT
1 A-TAT-AAAT
30927 AATATAAAAAT
1 -ATAT--AAAT
30938 AATATAAATTT
1 -ATATAAA--T
30949 AATATAAAT
1 -ATATAAAT
30958 ATATAAAT
1 ATATAAAT
*
30966 AAATAAA-
1 ATATAAAT
*
30973 A-ATATAT
1 ATATAAAT
30980 ATATAAA-
1 ATATAAAT
30987 ATATAAAT
1 ATATAAAT
*
30995 -TATTAAT
1 ATATAAAT
31002 ATATTAAAATTT
1 ATA-T-AAA--T
31014 ATATAAAT
1 ATATAAAT
31022 ATA-AAAT
1 ATATAAAT
*
31029 AAATAAAT
1 ATATAAAT
31037 ATA
1 ATA
31040 AAAAATACAC
Statistics
Matches: 257, Mismatches: 39, Indels: 89
0.67 0.10 0.23
Matches are distributed among these distances:
6 9 0.04
7 65 0.25
8 87 0.34
9 41 0.16
10 25 0.10
11 21 0.08
12 9 0.04
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (8 bp):
ATATAAAT
Found at i:30918 original size:26 final size:27
Alignment explanation
Indices: 30882--30937 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
30872 AAAATAATAT
* *
30882 AATTGTAAAA-TATTAATATTATATAAA
1 AATTGTAAAATTA-TAAAATAATATAAA
30909 AATT-TAAAATTATAAAATAATATAAA
1 AATTGTAAAATTATAAAATAATATAAA
30935 AAT
1 AAT
30938 AATATAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 20 0.77
27 6 0.23
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (27 bp):
AATTGTAAAATTATAAAATAATATAAA
Found at i:30938 original size:11 final size:11
Alignment explanation
Indices: 30922--30989 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
30912 TTAAAATTAT
30922 AAAATAATATA
1 AAAATAATATA
30933 AAAATAATATA
1 AAAATAATATA
**
30944 AATTTAATAT-
1 AAAATAATATA
30954 -AAAT-ATAT-
1 AAAATAATATA
30962 -AAATAA-ATA
1 AAAATAATATA
30971 AAAATATATATA
1 AAAATA-ATATA
30983 TAAAATA
1 -AAAATA
30990 TAAATTATTA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
8 10 0.21
9 3 0.06
10 5 0.11
11 20 0.43
12 3 0.06
13 6 0.13
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAAATAATATA
Found at i:30954 original size:22 final size:22
Alignment explanation
Indices: 30919--31043 Score: 70
Period size: 21 Copynumber: 5.9 Consensus size: 22
30909 AATTTAAAAT
*
30919 TATAAAAT-AATATAAAAATAA
1 TATAAATTAAATATAAAAATAA
*
30940 TATAAATTTAATAT--AAAT-A
1 TATAAATTAAATATAAAAATAA
30959 TATAAA-TAAATA-AAAATATATA
1 TATAAATTAAATATAAAA-ATA-A
* * *
30981 TATAAAATATAAATTATTAATATAT
1 TAT-AAAT-TAAA-TATAAAAATAA
* *
31006 TA-AAATT-TATATAAATATAA
1 TATAAATTAAATATAAAAATAA
*
31026 AATAAA-TAAATATAAAAA
1 TATAAATTAAATATAAAAA
31044 ATACACAAAT
Statistics
Matches: 80, Mismatches: 11, Indels: 26
0.68 0.09 0.22
Matches are distributed among these distances:
18 5 0.06
19 9 0.11
20 17 0.21
21 19 0.24
22 10 0.12
23 7 0.09
25 6 0.08
26 5 0.06
27 2 0.03
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
TATAAATTAAATATAAAAATAA
Found at i:31037 original size:48 final size:46
Alignment explanation
Indices: 30912--31041 Score: 110
Period size: 48 Copynumber: 2.8 Consensus size: 46
30902 ATATAAAAAT
*
30912 TTAAAA-TTATA-AAATAATATAA-AAAT-AATATAAATTTAATATA
1 TTAAAATTTATATAAAT-ATAAAATAAATAAATATAAATTTAATATA
* * * *
30955 --AATATATAAATAAATAAAAATATATATATAAAATATAAATTATTAATATA
1 TTAAAATTTATATAAATATAAA-ATA-A-AT-AAATATAAA-T-TTAATATA
31005 TTAAAATTTATATAAATATAAAATAAATAAATATAAA
1 TTAAAATTTATATAAATATAAAATAAATAAATATAAA
31042 AAATACACAA
Statistics
Matches: 66, Mismatches: 9, Indels: 19
0.70 0.10 0.20
Matches are distributed among these distances:
41 3 0.05
42 6 0.09
43 5 0.08
44 1 0.02
45 1 0.02
46 2 0.03
48 17 0.26
49 3 0.05
50 9 0.14
51 3 0.05
52 16 0.24
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (46 bp):
TTAAAATTTATATAAATATAAAATAAATAAATATAAATTTAATATA
Found at i:31603 original size:17 final size:20
Alignment explanation
Indices: 31561--31598 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
31551 AAATGATAAA
31561 TTATTTTTATTATAAAATTAT
1 TTATTTTTATTATAAAA-TAT
31582 TTATTTTTA-TATAAAAT
1 TTATTTTTATTATAAAAT
31599 TTATTAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.06
20 7 0.41
21 9 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTATTTTTATTATAAAATAT
Found at i:31603 original size:21 final size:21
Alignment explanation
Indices: 31561--31599 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
31551 AAATGATAAA
31561 TTATTTTTATTATAAAATTAT
1 TTATTTTTATTATAAAATTAT
31582 TTATTTTTA-TATAAAATT
1 TTATTTTTATTATAAAATT
31600 TATTAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTATTTTTATTATAAAATTAT
Found at i:32475 original size:15 final size:15
Alignment explanation
Indices: 32446--32475 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32436 TTTCTTTTTT
*
32446 TTTTTTTTTTTTTGC
1 TTTTTTTTTTCTTGC
32461 TTTTTTTTTTCTTGC
1 TTTTTTTTTTCTTGC
32476 AAAGTAAAGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.83
Consensus pattern (15 bp):
TTTTTTTTTTCTTGC
Found at i:32919 original size:17 final size:17
Alignment explanation
Indices: 32897--32930 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
32887 AGGGTGACCT
32897 TTCTTTTCTTCTTTTTA
1 TTCTTTTCTTCTTTTTA
* *
32914 TTCTTTTTTTTTTTTTA
1 TTCTTTTCTTCTTTTTA
32931 ATTTTGGATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (17 bp):
TTCTTTTCTTCTTTTTA
Found at i:39568 original size:15 final size:16
Alignment explanation
Indices: 39548--39577 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
39538 TTTTTCCCAT
39548 TTTTATTA-TATTTTA
1 TTTTATTATTATTTTA
39563 TTTTATTATTATTTT
1 TTTTATTATTATTTT
39578 TTCTTTTCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTATTATTATTTTA
Found at i:39573 original size:18 final size:18
Alignment explanation
Indices: 39550--39584 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
39540 TTTCCCATTT
39550 TTATTATATTTTATTTTA
1 TTATTATATTTTATTTTA
* *
39568 TTATTATTTTTTCTTTT
1 TTATTATATTTTATTTT
39585 CACCCACGTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (18 bp):
TTATTATATTTTATTTTA
Found at i:39741 original size:29 final size:29
Alignment explanation
Indices: 39706--39773 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
39696 ATGTTTAAAA
* *
39706 TAATTTTTAAATTTTAAGTATTTATT-ATT
1 TAATTTTTAAATTTTAA-AATATATTAATT
* *
39735 TTATTTTTTAATTTTAAAATATATTAATT
1 TAATTTTTAAATTTTAAAATATATTAATT
39764 TAATTTTTAA
1 TAATTTTTAA
39774 TTGCAAGCAT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 6 0.19
29 26 0.81
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (29 bp):
TAATTTTTAAATTTTAAAATATATTAATT
Found at i:39760 original size:28 final size:29
Alignment explanation
Indices: 39708--39775 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 29
39698 GTTTAAAATA
* * * *
39708 ATTTTTAAATTTTAAGTATTTATTATTTT
1 ATTTTTTAATTTTAAGAATATATTAATTT
39737 ATTTTTTAATTTTAA-AATATATTAATTT
1 ATTTTTTAATTTTAAGAATATATTAATTT
*
39765 AATTTTTAATT
1 ATTTTTTAATT
39776 GCAAGCATCA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 20 0.59
29 14 0.41
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.63
Consensus pattern (29 bp):
ATTTTTTAATTTTAAGAATATATTAATTT
Found at i:39936 original size:7 final size:6
Alignment explanation
Indices: 39911--39973 Score: 51
Period size: 6 Copynumber: 10.8 Consensus size: 6
39901 AAATTAAATT
* * * *
39911 TTTTTC TTTTT- TTTTTC -TTTTC TCTTCC CTTCTC TTCTTTC TTTTT-
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TT-TTTC TTTTTC
*
39957 TTTTTC TTTTTA TTTTT
1 TTTTTC TTTTTC TTTTT
39974 ATAAGTAATT
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
5 15 0.34
6 24 0.55
7 5 0.11
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTC
Found at i:40283 original size:17 final size:18
Alignment explanation
Indices: 40261--40308 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
40251 GATAGAAGAG
40261 AAATAA-AGAAAAATAAA
1 AAATAATAGAAAAATAAA
* *
40278 AAATAATA-TAAAATAAG
1 AAATAATAGAAAAATAAA
40295 AAATAATAGAAAAA
1 AAATAATAGAAAAA
40309 GAAATATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 21 0.81
18 5 0.19
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (18 bp):
AAATAATAGAAAAATAAA
Found at i:40361 original size:17 final size:17
Alignment explanation
Indices: 40339--40371 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
40329 ATTACTATAA
40339 ATAAA-TATTTATATTTG
1 ATAAATTATTTA-ATTTG
40356 ATAAATTATTTAATTT
1 ATAAATTATTTAATTT
40372 TTAAAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
ATAAATTATTTAATTTG
Found at i:40378 original size:17 final size:17
Alignment explanation
Indices: 40358--40395 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
40348 TATATTTGAT
*
40358 AAATT-ATTTAATTTTTA
1 AAATTAATTT-ATTTATA
40375 AAATTAATTTATTTATA
1 AAATTAATTTATTTATA
40392 AAAT
1 AAAT
40396 GAAAGAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AAATTAATTTATTTATA
Found at i:40867 original size:18 final size:18
Alignment explanation
Indices: 40846--40883 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
40836 GAAAAATATT
40846 TTATAGTTTAT-AAATTAA
1 TTAT-GTTTATAAAATTAA
*
40864 TTATTTTTATAAAATTAA
1 TTATGTTTATAAAATTAA
40882 TT
1 TT
40884 TTAAATTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (18 bp):
TTATGTTTATAAAATTAA
Found at i:41479 original size:26 final size:27
Alignment explanation
Indices: 41413--41481 Score: 70
Period size: 26 Copynumber: 2.6 Consensus size: 27
41403 AAGATATCTG
*
41413 TTAAATATTATTAAAATTATTATTTTTA
1 TTAAAT-TTATTAAAATTATTATTTTGA
* * *
41441 -AAAATATATT-TAATATATTATTTTGA
1 TTAAATTTATTAAAAT-TATTATTTTGA
41467 TTAAATTTATTAAAA
1 TTAAATTTATTAAAA
41482 GATTAATTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
25 3 0.10
26 14 0.45
27 12 0.39
28 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (27 bp):
TTAAATTTATTAAAATTATTATTTTGA
Found at i:41552 original size:29 final size:30
Alignment explanation
Indices: 41483--41559 Score: 77
Period size: 29 Copynumber: 2.5 Consensus size: 30
41473 TTATTAAAAG
* * *
41483 ATTAATTAATGAATGTTTATAAATATTTTTTA
1 ATTAATTAAT-TAT-TTTAAAAATATTTTATA
*
41515 ATTACTTAATT-TTTTAAAAATATTTTAT-
1 ATTAATTAATTATTTTAAAAATATTTTATA
41543 ATTAAATTAATTATTTT
1 ATT-AATTAATTATTTT
41560 TATAAAATTC
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
28 3 0.08
29 21 0.55
30 5 0.13
32 9 0.24
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (30 bp):
ATTAATTAATTATTTTAAAAATATTTTATA
Found at i:43654 original size:26 final size:28
Alignment explanation
Indices: 43624--43680 Score: 82
Period size: 29 Copynumber: 2.1 Consensus size: 28
43614 GTTTTTTATT
43624 AAATAACTTCCT-A-TTTTTATTTAAAA
1 AAATAACTTCCTAACTTTTTATTTAAAA
*
43650 AAATAACTTCTTAACTTTTTTATTTAAAA
1 AAATAACTTCCTAAC-TTTTTATTTAAAA
43679 AA
1 AA
43681 TCTATCAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 11 0.41
27 1 0.04
29 15 0.56
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.46
Consensus pattern (28 bp):
AAATAACTTCCTAACTTTTTATTTAAAA
Found at i:52439 original size:29 final size:29
Alignment explanation
Indices: 52397--52454 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
52387 AAAGAACAAG
52397 CATCTTGTAGAAATTTATTAACGTATGCT
1 CATCTTGTAGAAATTTATTAACGTATGCT
*
52426 CATCTTGTAGAAATTTATTGACGTATGCT
1 CATCTTGTAGAAATTTATTAACGTATGCT
52455 TTATGTAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (29 bp):
CATCTTGTAGAAATTTATTAACGTATGCT
Found at i:54001 original size:22 final size:22
Alignment explanation
Indices: 53973--54024 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
53963 ACCTAGTAAC
* *
53973 CTATACATGTA-CTTAATTAATT
1 CTATACATGAATCATAATTAA-T
53995 CTATACATGAATCATAATTAAT
1 CTATACATGAATCATAATTAAT
54017 CTATACAT
1 CTATACAT
54025 TTCCCAATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 19 0.70
23 8 0.30
ACGTcount: A:0.40, C:0.15, G:0.04, T:0.40
Consensus pattern (22 bp):
CTATACATGAATCATAATTAAT
Found at i:58295 original size:2 final size:2
Alignment explanation
Indices: 58288--58312 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
58278 TATCACAAGG
58288 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
58313 GGTACATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:60482 original size:2 final size:2
Alignment explanation
Indices: 60475--60507 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
60465 TATCATAAGG
60475 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
60508 CATAAAATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:64163 original size:15 final size:16
Alignment explanation
Indices: 64133--64164 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
64123 TGAATTTAAA
64133 TTAAAATAATCCAAAC
1 TTAAAATAATCCAAAC
64149 TTAAAATAA-CCAAAC
1 TTAAAATAATCCAAAC
64164 T
1 T
64165 CAATAAACTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.25
Consensus pattern (16 bp):
TTAAAATAATCCAAAC
Found at i:64274 original size:16 final size:16
Alignment explanation
Indices: 64253--64287 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
64243 CAAAATCAAA
*
64253 AAAATAATTCAAACTC
1 AAAATAATTCAAACCC
*
64269 AAAATAATTTAAACCC
1 AAAATAATTCAAACCC
64285 AAA
1 AAA
64288 GTTATCAGAT
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:0.60, C:0.17, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAATAATTCAAACCC
Found at i:72587 original size:22 final size:23
Alignment explanation
Indices: 72562--72606 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
72552 ACTCGTCATT
*
72562 TAATCTATTTGTTTT-ATAAAAA
1 TAATCTATTTATTTTAATAAAAA
*
72584 TAATTTATTTATTTTAATAAAAA
1 TAATCTATTTATTTTAATAAAAA
72607 CAATATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
TAATCTATTTATTTTAATAAAAA
Found at i:72995 original size:15 final size:15
Alignment explanation
Indices: 72963--72996 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
72953 ATTAAATATG
*
72963 AAAATTTAATTGATA
1 AAAATTTAATTGAAA
*
72978 AAAATTTAATTTAAA
1 AAAATTTAATTGAAA
72993 AAAA
1 AAAA
72997 AAATTATCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (15 bp):
AAAATTTAATTGAAA
Found at i:73326 original size:15 final size:15
Alignment explanation
Indices: 73308--73346 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
73298 AAATGATTAA
*
73308 AATTTAAATTAACTT
1 AATTTAAAATAACTT
*
73323 AATTTAAAATAATTT
1 AATTTAAAATAACTT
*
73338 AAATTAAAA
1 AATTTAAAA
73347 ATTATTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
AATTTAAAATAACTT
Found at i:73342 original size:16 final size:16
Alignment explanation
Indices: 73307--73356 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
73297 GAAATGATTA
* *
73307 AAATTTAAATTAACTT
1 AAATTTAAAATAATTT
73323 -AATTTAAAATAATTT
1 AAATTTAAAATAATTT
* *
73338 AAATTAAAAATTATTT
1 AAATTTAAAATAATTT
73354 AAA
1 AAA
73357 ACTTTTTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
15 13 0.45
16 16 0.55
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (16 bp):
AAATTTAAAATAATTT
Found at i:74007 original size:2 final size:2
Alignment explanation
Indices: 74000--74031 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
73990 CGATAACTTA
74000 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
74032 CACTCATCCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:74933 original size:6 final size:7
Alignment explanation
Indices: 74903--74931 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
74893 TTATATTATA
74903 TGGCACT
1 TGGCACT
74910 TGGCACT
1 TGGCACT
74917 TGGCACT
1 TGGCACT
74924 T-GCACT
1 TGGCACT
74930 TG
1 TG
74932 CAAAATTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.14, C:0.28, G:0.28, T:0.31
Consensus pattern (7 bp):
TGGCACT
Found at i:74987 original size:12 final size:12
Alignment explanation
Indices: 74964--74998 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
74954 TAATTAATTA
*
74964 TATTATTATTAT
1 TATTATTTTTAT
74976 TATTATTTTTAT
1 TATTATTTTTAT
74988 TATT-TTTTTAT
1 TATTATTTTTAT
74999 GAAAGGATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 7 0.32
12 15 0.68
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
TATTATTTTTAT
Found at i:74992 original size:9 final size:9
Alignment explanation
Indices: 74966--74998 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
74956 ATTAATTATA
*
74966 TTATTATTA
1 TTATTATTT
74975 TTATTATTT
1 TTATTATTT
74984 TTATTATTT
1 TTATTATTT
74993 TT-TTAT
1 TTATTAT
74999 GAAAGGATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
8 4 0.17
9 19 0.83
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TTATTATTT
Found at i:79881 original size:52 final size:51
Alignment explanation
Indices: 79749--79888 Score: 208
Period size: 52 Copynumber: 2.7 Consensus size: 51
79739 AAAAGTTGCT
*
79749 TGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACATTG-ATAGTGTATCGATACATCTGGGCAAATTTACC
* *
79801 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTACC
1 TGCATGTATCGATACA-TTGATAGTGTATCGATACATCTGGGCAAATTTACC
**
79853 TGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 TGCATGTATCGATACATTGAT-AGTGTATCGATACA
79889 ATGTATCGAT
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.03
52 75 0.95
53 2 0.03
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (51 bp):
TGCATGTATCGATACATTGATAGTGTATCGATACATCTGGGCAAATTTACC
Found at i:79895 original size:13 final size:13
Alignment explanation
Indices: 79877--79901 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
79867 CAAAGATCAG
79877 TGTATCGATACAA
1 TGTATCGATACAA
79890 TGTATCGATACA
1 TGTATCGATACA
79902 TTTAAGTGAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:79982 original size:13 final size:13
Alignment explanation
Indices: 79964--79988 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
79954 CAAAAAAATA
79964 TGTATCGATACAT
1 TGTATCGATACAT
79977 TGTATCGATACA
1 TGTATCGATACA
79989 AATCGTTGAA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:80711 original size:55 final size:52
Alignment explanation
Indices: 80611--80894 Score: 197
Period size: 42 Copynumber: 5.7 Consensus size: 52
80601 GAAAAGTGAT
* * * * * * ** *
80611 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGCTGAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-G-A
* *
80665 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
80718 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * * *
80761 -AAGGTGCCAATGTGCTGATTCAAGGTCAGCTACATTGGACTTAAATAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * * * *
80810 -AAGGTGCTAATATGCTGATTTAAGGCCAGCGATATTGGACTT-AA-A-GG-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * *
80857 CAAGGTGCCAATATGCTAATTCAAGGCCAGCTATATTG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTG
80895 GGCTTAAAAG
Statistics
Matches: 192, Mismatches: 28, Indels: 26
0.78 0.11 0.11
Matches are distributed among these distances:
42 37 0.19
43 1 0.01
46 1 0.01
47 2 0.01
48 36 0.19
49 36 0.19
51 1 0.01
52 32 0.17
53 6 0.03
54 5 0.03
55 35 0.18
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
Found at i:80778 original size:42 final size:43
Alignment explanation
Indices: 80718--80902 Score: 192
Period size: 48 Copynumber: 4.1 Consensus size: 43
80708 TAAAGATGGA
80718 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
80761 -AAGGTGCCAATGTGCTGATTCAAGGTCAGCTACATTGGACTTAAAT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T---T
* * *
80807 ATGAAGGTGCTAATATGCTGATTTAAGGCCAGCGATATTGGACTT
1 A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
80852 AAAGGCAAGGTGCCAATATGCTAATTCAAGGCCAGCTATATTGGGCTT
1 --A---AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
80900 AAA
1 AAA
80903 AGGAGACGCC
Statistics
Matches: 116, Mismatches: 16, Indels: 20
0.76 0.11 0.13
Matches are distributed among these distances:
42 37 0.32
43 3 0.03
45 1 0.01
46 2 0.02
47 1 0.01
48 38 0.33
49 34 0.29
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
Found at i:80847 original size:49 final size:49
Alignment explanation
Indices: 80761--80905 Score: 186
Period size: 49 Copynumber: 3.0 Consensus size: 49
80751 TATTGGACTT
* * * *
80761 AAGGTGCCAATGTGCTGATTCAAGGTCAGCTACATTGGACTTAAATATG-
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA-AGGC
* * *
80810 AAGGTGCTAATATGCTGATTTAAGGCCAGCGATATTGGACTT-AAAGGC
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAAGGC
* *
80858 AAGGTGCCAATATGCTAATTCAAGGCCAGCTATATTGGGCTTAAAAGG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAAGG
80906 AGACGCCACC
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
47 2 0.02
48 39 0.48
49 41 0.50
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.27
Consensus pattern (49 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAAGGC
Found at i:80848 original size:91 final size:93
Alignment explanation
Indices: 80674--80894 Score: 284
Period size: 91 Copynumber: 2.3 Consensus size: 93
80664 AAAAGGATGT
80674 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGG-AAAGGTGCCAATATGCTGATT
*
80739 CAAGGCCAGCTATATTGGACTTAAGGTGC
65 CAAGGCCAGCGATATTGGACTTAAGGTGC
* * * * *
80768 CAATGTGCTGATTCAAGGTCAGCTACATTGGACTTAAATAT-G-AAGGTGCTAATATGCTGATTT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAGGTGCCAATATGCTGATTC
80831 AAGGCCAGCGATATTGGACTTAAAGGCAAGGTGC
66 AAGGCCAGCGATATTGGACTT------AAGGTGC
* * *
80865 CAATATGCTAATTCAAGGCCAGCTATATTG
1 CAATGTGCTGATTCAAGGCCAGCTACATTG
80895 GGCTTAAAAG
Statistics
Matches: 111, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
91 39 0.35
93 1 0.01
94 38 0.34
97 33 0.30
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (93 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAGGTGCCAATATGCTGATTC
AAGGCCAGCGATATTGGACTTAAGGTGC
Found at i:81005 original size:30 final size:30
Alignment explanation
Indices: 80946--81176 Score: 190
Period size: 30 Copynumber: 7.7 Consensus size: 30
80936 AGGTTTGCAT
*
80946 CACTGACTTGTGGGCTTTT--AAAGGTTGC
1 CACTGACTTGTGGGCTTTTGAAAAGGGTGC
80974 CACTGACTTGTGGGCTTTTGAAAAGGGTGC
1 CACTGACTTGTGGGCTTTTGAAAAGGGTGC
*
81004 CACTAACTTGTGGGCTTTTGAAAAGGGTGC
1 CACTGACTTGTGGGCTTTTGAAAAGGGTGC
* ** *
81034 CACTAACTTGTGGGCTTAAAAAGAAAAAGAGTGC
1 CACTGACTTGTGGGCTT---TTG-AAAAGGGTGC
* * * * *
81068 TA-TAGAGTTGTGAGCTTTGGAAAA-GATGC
1 CACT-GACTTGTGGGCTTTTGAAAAGGGTGC
* *
81097 CACCGACTTGTGGGC-TTCGAAAAAAGGGTGC
1 CACTGACTTGTGGGCTTTTG--AAAAGGGTGC
* *
81128 CACTGATTTGTGGGC-TTTG--AAGGTTGC
1 CACTGACTTGTGGGCTTTTGAAAAGGGTGC
**
81155 CACTGACTTGTGAACTTTTGAA
1 CACTGACTTGTGGGCTTTTGAA
81177 GGGTGATAAA
Statistics
Matches: 163, Mismatches: 26, Indels: 26
0.76 0.12 0.12
Matches are distributed among these distances:
27 19 0.12
28 26 0.16
29 13 0.08
30 62 0.38
31 21 0.13
33 2 0.01
34 20 0.12
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (30 bp):
CACTGACTTGTGGGCTTTTGAAAAGGGTGC
Found at i:81172 original size:27 final size:28
Alignment explanation
Indices: 81120--81181 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 28
81110 GCTTCGAAAA
* **
81120 AAGGGTGCCACTGATTTGTGGGC-TTTG
1 AAGGGTGCCACTGACTTGTGAACTTTTG
*
81147 AAGGTTGCCACTGACTTGTGAACTTTTG
1 AAGGGTGCCACTGACTTGTGAACTTTTG
81175 AAGGGTG
1 AAGGGTG
81182 ATAAATGTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.19, C:0.15, G:0.34, T:0.32
Consensus pattern (28 bp):
AAGGGTGCCACTGACTTGTGAACTTTTG
Found at i:82643 original size:1 final size:1
Alignment explanation
Indices: 82632--82757 Score: 90
Period size: 1 Copynumber: 126.0 Consensus size: 1
82622 GTTGTTGTTG
* * * * * * * * *
82632 TTTTTTGTTTTTTTTTTTTTGTTCTTTTTTGTTTTGTTTCTTTTTTTGTTTTTTTGTTTTTGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * * * *
82697 TGTTTGTTTGTTTTTTTTTGTTTTGTTTTGTTTTTTTTTTTTTTTGTTTTGTTTGTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
82758 GGAGGACGCC
Statistics
Matches: 89, Mismatches: 36, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 89 1.00
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.86
Consensus pattern (1 bp):
T
Found at i:82715 original size:64 final size:61
Alignment explanation
Indices: 82610--82756 Score: 197
Period size: 64 Copynumber: 2.3 Consensus size: 61
82600 ATCCGGACGC
* * *
82610 TTTTTTGTTGTTGTTGTTGTTGTTTTTTGTTTTTTTTTTTTTGTTCTT-TTTTGTTTTGTTTCT
1 TTTTTTGTT-TTTTTGTTTTTGTTTTTTGTTTGTTTTTTTTTGTT-TTGTTTTGTTTT-TTTCT
*
82673 TTTTTTGTTTTTTTGTTTTTGTTTTGTTTGTTTGTTTTTTTTTGTTTTGTTTTGTTTTTTTTT
1 TTTTTTGTTTTTTTGTTTTTG-TTT-TTTGTTTGTTTTTTTTTGTTTTGTTTTGTTTTTTTCT
82736 TTTTTTGTTTTGTTTGTTTTT
1 TTTTTTGTTTT-TTTGTTTTT
82757 TGGAGGACGC
Statistics
Matches: 76, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
62 10 0.13
63 29 0.38
64 37 0.49
ACGTcount: A:0.00, C:0.01, G:0.15, T:0.84
Consensus pattern (61 bp):
TTTTTTGTTTTTTTGTTTTTGTTTTTTGTTTGTTTTTTTTTGTTTTGTTTTGTTTTTTTCT
Found at i:82716 original size:49 final size:49
Alignment explanation
Indices: 82612--82757 Score: 183
Period size: 49 Copynumber: 2.9 Consensus size: 49
82602 CCGGACGCTT
* *
82612 TTTTGTTGTTGTTGTTGTTGTTTTTTGTTTTT-TTTTTTTTGTTCTTTTTTG
1 TTTTGTT-TTGTT-TTGTTTTTTTTTGTTTTTGTTTTGTTTGTT-TTTTTTG
82663 TTTTGTTTCT-TTTT-TTGTTTTTTTGTTTTTGTTTTGTTTGTTTGTTTTT-
1 TTTTGTTT-TGTTTTGTT-TTTTTTTGTTTTTGTTTTGTTTGTTT-TTTTTG
*
82712 TTTTGTTTTGTTTTGTTTTTTTTTTTTTTTGTTTTGTTTGTTTTTT
1 TTTTGTTTTGTTTTGTTTTTTTTTGTTTTTGTTTTGTTTGTTTTTT
82758 GGAGGACGCC
Statistics
Matches: 86, Mismatches: 3, Indels: 15
0.83 0.03 0.14
Matches are distributed among these distances:
48 6 0.07
49 52 0.60
50 20 0.23
51 8 0.09
ACGTcount: A:0.00, C:0.01, G:0.15, T:0.84
Consensus pattern (49 bp):
TTTTGTTTTGTTTTGTTTTTTTTTGTTTTTGTTTTGTTTGTTTTTTTTG
Found at i:82758 original size:71 final size:71
Alignment explanation
Indices: 82610--82757 Score: 196
Period size: 71 Copynumber: 2.1 Consensus size: 71
82600 ATCCGGACGC
82610 TTTTTTGTTGTTGTTGTTGTTGTTTTTTGTTTTTTTTTTTTTGTTCTTTTTTGTTTTGTTTCTTT
1 TTTTTTGTTGTTGTTGTTGTTGTTTTTTGTTTTTTTTTTTTTGTTCTTTTTTGTTTTGTTTCTTT
82675 TTTTGT
66 TTTTGT
* *
82681 TTTTTTGTTTTTGTT-TTGTTTGTTTGTTTTTTTTTGTTTTGTTTTGTT-TTTTTT-TTTT-TTT
1 TTTTTTGTTGTTGTTGTTG-TTGTTT-TTTGTTTTT-TTTT-TTTTGTTCTTTTTTGTTTTGTTT
*
82742 GTTTTGTTTGT
62 CTTTT-TTTGT
82753 TTTTT
1 TTTTT
82758 GGAGGACGCC
Statistics
Matches: 69, Mismatches: 3, Indels: 9
0.85 0.04 0.11
Matches are distributed among these distances:
70 3 0.04
71 27 0.39
72 22 0.32
73 10 0.14
74 7 0.10
ACGTcount: A:0.00, C:0.01, G:0.15, T:0.84
Consensus pattern (71 bp):
TTTTTTGTTGTTGTTGTTGTTGTTTTTTGTTTTTTTTTTTTTGTTCTTTTTTGTTTTGTTTCTTT
TTTTGT
Found at i:96625 original size:52 final size:52
Alignment explanation
Indices: 96547--96747 Score: 332
Period size: 52 Copynumber: 3.9 Consensus size: 52
96537 CGCAATATGA
96547 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
96599 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
** *
96651 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
* **
96703 AAATTTACCTGCATGTATCGATACAAAG-ATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAAT-AGTGTATCGATACA
96748 ATGTATCGAT
Statistics
Matches: 140, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
51 2 0.01
52 138 0.99
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
Found at i:96754 original size:13 final size:13
Alignment explanation
Indices: 96736--96760 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
96726 CAAAGATCAG
96736 TGTATCGATACAA
1 TGTATCGATACAA
96749 TGTATCGATACA
1 TGTATCGATACA
96761 TTTAAGTGAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:96838 original size:33 final size:33
Alignment explanation
Indices: 96801--96867 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
96791 AGTAGCTTGA
96801 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
96834 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
96867 A
1 A
96868 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:96841 original size:13 final size:13
Alignment explanation
Indices: 96823--96847 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
96813 CAAAAAAATA
96823 TGTATCGATACAT
1 TGTATCGATACAT
96836 TGTATCGATACA
1 TGTATCGATACA
96848 ACACTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:98460 original size:20 final size:20
Alignment explanation
Indices: 98437--98477 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
98427 GAATACTCTA
98437 AACTAATTCTAAATAAAAAG
1 AACTAATTCTAAATAAAAAG
98457 AACTAATTCTAAATAAAAAG
1 AACTAATTCTAAATAAAAAG
98477 A
1 A
98478 GTGTTTTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.61, C:0.10, G:0.05, T:0.24
Consensus pattern (20 bp):
AACTAATTCTAAATAAAAAG
Found at i:99365 original size:18 final size:18
Alignment explanation
Indices: 99342--99378 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
99332 TGGATGTCAC
99342 TTTCTCAACAGATTTTGT
1 TTTCTCAACAGATTTTGT
*
99360 TTTCTCAATAGATTTTGT
1 TTTCTCAACAGATTTTGT
99378 T
1 T
99379 AACCAAATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.14, G:0.11, T:0.54
Consensus pattern (18 bp):
TTTCTCAACAGATTTTGT
Found at i:104816 original size:13 final size:13
Alignment explanation
Indices: 104798--104825 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
104788 ATACAAAGAT
104798 CAATGTATCGATA
1 CAATGTATCGATA
104811 CAATGTATCGATA
1 CAATGTATCGATA
104824 CA
1 CA
104826 TTGCATTGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:104915 original size:19 final size:19
Alignment explanation
Indices: 104856--104915 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
104846 TAGCGATACA
*
104856 TTGTATCGATACAATACT-T
1 TTGTATCGATACAA-ATTGT
* *
104875 ATGTATCGATACATTTATTGT
1 TTGTATCGATACA--AATTGT
104896 TTGTATCGATACAAATTGT
1 TTGTATCGATACAAATTGT
104915 T
1 T
104916 GAAATTTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
19 18 0.55
20 2 0.06
21 13 0.39
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.45
Consensus pattern (19 bp):
TTGTATCGATACAAATTGT
Found at i:106574 original size:62 final size:61
Alignment explanation
Indices: 106497--106618 Score: 165
Period size: 62 Copynumber: 2.0 Consensus size: 61
106487 TATATATAAA
* *
106497 TATTTTAAATTACATAAAATATTATTTTTAAATATAATCACATAAAATATT-ATAAATTACG
1 TATTTTAAATTACATAAAATATTACTTGTAAATATAATCACATAAAATATTAAT-AATTACG
* * * *
106558 TATTTATAAATTACATATAATATTACTTGTAAATGTAATTATATAAAATATTAATAATTAC
1 TATTT-TAAATTACATAAAATATTACTTGTAAATATAATCACATAAAATATTAATAATTAC
106619 ATATAAATAT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
61 5 0.09
62 46 0.87
63 2 0.04
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.43
Consensus pattern (61 bp):
TATTTTAAATTACATAAAATATTACTTGTAAATATAATCACATAAAATATTAATAATTACG
Found at i:106787 original size:28 final size:26
Alignment explanation
Indices: 106732--106812 Score: 74
Period size: 26 Copynumber: 2.9 Consensus size: 26
106722 TAAAAATATA
*
106732 AAAATATTAATATAAAATTATTTTTT
1 AAAATTTTAATATAAAATTATTTTTT
*
106758 AATATTTTAATA-AAAATTATTATATATT
1 AAAATTTTAATATAAAATTATT-T-T-TT
106786 AAAATTTATATAAATATAAAATTATTT
1 AAAA-TT-T-T-AATATAAAATTATTT
106813 AAATTTGATT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
25 9 0.20
26 11 0.25
27 1 0.02
28 5 0.11
29 2 0.05
30 1 0.02
31 1 0.02
32 5 0.11
33 9 0.20
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
AAAATTTTAATATAAAATTATTTTTT
Found at i:106791 original size:16 final size:17
Alignment explanation
Indices: 106766--106816 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 17
106756 TTAATATTTT
106766 AATA-AAAATTATTATA
1 AATATAAAATTATTATA
*
106782 TAT-TAAAATT-TATATA
1 AATATAAAATTAT-TATA
106798 AATATAAAATTATT-TA
1 AATATAAAATTATTATA
106814 AAT
1 AAT
106817 TTGATTATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
15 1 0.03
16 19 0.66
17 8 0.28
18 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AATATAAAATTATTATA
Found at i:106794 original size:17 final size:17
Alignment explanation
Indices: 106767--106808 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
106757 TAATATTTTA
* *
106767 ATAAAAATTAT-TATAT
1 ATAAAATTTATATAAAT
106783 ATTAAAATTTATATAAAT
1 A-TAAAATTTATATAAAT
106801 ATAAAATT
1 ATAAAATT
106809 ATTTAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 1 0.05
17 16 0.73
18 5 0.23
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATAAAATTTATATAAAT
Found at i:107246 original size:31 final size:32
Alignment explanation
Indices: 107189--107329 Score: 126
Period size: 32 Copynumber: 4.5 Consensus size: 32
107179 AAAATTTCCC
* *
107189 AATAATCTCACAGGTTTTAAAAGAGAATTACTT
1 AATAATCTCAAAGGTCTT-AAAGAGAATTACTT
*
107222 AAT-ATCTCAAAGGTCTTAAAGAGAATTACGT
1 AATAATCTCAAAGGTCTTAAAGAGAATTACTT
* * * *
107253 GATAATCTCAGAGTTCTTAAAGA-AATT-CTC
1 AATAATCTCAAAGGTCTTAAAGAGAATTACTT
* * * * * *
107283 AATTATCACAAATGTCTTGAAGAGAATTGCCT
1 AATAATCTCAAAGGTCTTAAAGAGAATTACTT
*
107315 AGTAATCTCAAAGGT
1 AATAATCTCAAAGGT
107330 TTGAACAAAA
Statistics
Matches: 84, Mismatches: 21, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
30 17 0.20
31 23 0.27
32 41 0.49
33 3 0.04
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (32 bp):
AATAATCTCAAAGGTCTTAAAGAGAATTACTT
Found at i:107310 original size:62 final size:64
Alignment explanation
Indices: 107190--107310 Score: 151
Period size: 62 Copynumber: 1.9 Consensus size: 64
107180 AAATTTCCCA
* *
107190 ATAATCTCACAGGTTTTAAAAGAGAATTACTTAATATCTCAAAGGTCTTAAAGAGAATTACGTG
1 ATAATCTCACAGGTTTTAAAAGAGAATTACTCAATATCACAAAGGTCTTAAAGAGAATTACGTG
* * *
107254 ATAATCTCAGA-GTTCTT-AAAGA-AATT-CTCAATTATCACAAATGTCTTGAAGAGAATT
1 ATAATCTCACAGGTT-TTAAAAGAGAATTACTCAA-TATCACAAAGGTCTTAAAGAGAATT
107311 GCCTAGTAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
61 4 0.08
62 26 0.52
63 8 0.16
64 12 0.24
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.32
Consensus pattern (64 bp):
ATAATCTCACAGGTTTTAAAAGAGAATTACTCAATATCACAAAGGTCTTAAAGAGAATTACGTG
Found at i:108235 original size:16 final size:16
Alignment explanation
Indices: 108168--108235 Score: 52
Period size: 16 Copynumber: 4.2 Consensus size: 16
108158 CATGTAATAA
*
108168 TTATATT-TAAAATATT
1 TTATATTATATAA-ATT
*
108184 TTATATTTATATTAATT
1 TTATA-TTATATAAATT
*
108201 TTA-A-TATCTAAATAAT
1 TTATATTATATAAAT--T
108217 TTATATTATATAAATT
1 TTATATTATATAAATT
108233 TTA
1 TTA
108236 AATCATGTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 12
0.71 0.09 0.21
Matches are distributed among these distances:
14 7 0.17
16 14 0.34
17 9 0.22
18 11 0.27
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (16 bp):
TTATATTATATAAATT
Found at i:109085 original size:79 final size:79
Alignment explanation
Indices: 108991--109233 Score: 432
Period size: 79 Copynumber: 3.1 Consensus size: 79
108981 GCCGCAAATG
* * *
108991 AAATATATATCGAAACTACCAACTAGAACATTTTTACGTACCCTGAGTTTATAATTTGGCGGTTA
1 AAATATATATGGAAACTCCCAACCAGAACATTTTTACGTACCCTGAGTTTATAATTTGGCGGTTA
109056 ACAGAGTAATTATC
66 ACAGAGTAATTATC
* *
109070 AAATATATATGGAAACCCCCAACCAGAACATTTTTATGTACCCTGAGTTTATAATTTGGCGGTTA
1 AAATATATATGGAAACTCCCAACCAGAACATTTTTACGTACCCTGAGTTTATAATTTGGCGGTTA
109135 ACAGAGTAATTATC
66 ACAGAGTAATTATC
*
109149 AAATATATATGGAAACTCCCAACCAGAACATTTTTACGTACCCTGAGTTTATAATTTGGCGTTTA
1 AAATATATATGGAAACTCCCAACCAGAACATTTTTACGTACCCTGAGTTTATAATTTGGCGGTTA
109214 ACAGAGTAATTATC
66 ACAGAGTAATTATC
109228 AAATAT
1 AAATAT
109234 GCCCTCCATT
Statistics
Matches: 156, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
79 156 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.33
Consensus pattern (79 bp):
AAATATATATGGAAACTCCCAACCAGAACATTTTTACGTACCCTGAGTTTATAATTTGGCGGTTA
ACAGAGTAATTATC
Found at i:112740 original size:2 final size:2
Alignment explanation
Indices: 112735--112761 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
112725 ACCACGTATT
112735 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
112762 AGGAATAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:120111 original size:35 final size:37
Alignment explanation
Indices: 120070--120143 Score: 87
Period size: 39 Copynumber: 1.9 Consensus size: 37
120060 CATCGTAAGC
120070 ATATATTATTTGTTCTTGATGT-GTTAACTTAATAGAG
1 ATAT-TTATTTGTTCTTGATGTGGTTAACTTAATAGAG
* *
120107 ATATTTTTTATTTGTTCTTGGTTTGGTTAACTTAATA
1 ATA---TTTATTTGTTCTTGATGTGGTTAACTTAATA
120144 AAGACCTTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
37 3 0.10
39 15 0.48
40 13 0.42
ACGTcount: A:0.26, C:0.05, G:0.15, T:0.54
Consensus pattern (37 bp):
ATATTTATTTGTTCTTGATGTGGTTAACTTAATAGAG
Found at i:122411 original size:2 final size:2
Alignment explanation
Indices: 122404--122431 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
122394 TTTGTTAGAA
122404 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
122432 GTAATGAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:122890 original size:28 final size:30
Alignment explanation
Indices: 122851--122906 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
122841 ATAATTATTT
*
122851 AATATAATAAGAAT-AAAATATTGTTTAGA
1 AATATAATAAGAATAAAAATATTCTTTAGA
122880 AATAT-ATAAGAATAAAAATATTCTTTA
1 AATATAATAAGAATAAAAATATTCTTTA
122907 CATAAACAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 8 0.32
29 17 0.68
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (30 bp):
AATATAATAAGAATAAAAATATTCTTTAGA
Found at i:126900 original size:52 final size:52
Alignment explanation
Indices: 126752--126880 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
126742 CGAAATATGA
126752 AAATTTGCCTACATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTACATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
** *
126804 AAATTTGCCTGTATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTACATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
126856 AAATTTGCCTACATGTATCGATACA
1 AAATTTGCCTACATGTATCGATACA
126881 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTACATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:126946 original size:19 final size:18
Alignment explanation
Indices: 126922--127017 Score: 95
Period size: 19 Copynumber: 5.7 Consensus size: 18
126912 CATTTGAGTA
126922 ATGTATCGATACAAAACTT
1 ATGTATCGATAC-AAACTT
126941 ATGTATCGATAC--A--T
1 ATGTATCGATACAAACTT
126955 -TGTATCGATACAAAACTT
1 ATGTATCGATAC-AAACTT
126973 ATGTATCGATAC--A--T
1 ATGTATCGATACAAACTT
126987 -TGTATCGATACAACACTT
1 ATGTATCGATACAA-ACTT
127005 ATGTATCGATACA
1 ATGTATCGATACA
127018 TTGTATCGAT
Statistics
Matches: 65, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
13 22 0.34
14 2 0.03
16 4 0.06
18 2 0.03
19 35 0.54
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (18 bp):
ATGTATCGATACAAACTT
Found at i:126960 original size:13 final size:13
Alignment explanation
Indices: 126942--127030 Score: 70
Period size: 13 Copynumber: 5.9 Consensus size: 13
126932 ACAAAACTTA
126942 TGTATCGATACAT
1 TGTATCGATACAT
126955 TGTATCGATACAAAACTT
1 TGTATCGATAC---A--T
126973 ATGTATCGATACAT
1 -TGTATCGATACAT
126987 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
127005 ATGTATCGATACAT
1 -TGTATCGATACAT
127019 TGTATCGATACA
1 TGTATCGATACA
127031 AATCGTTGAA
Statistics
Matches: 64, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
13 32 0.50
14 2 0.03
16 8 0.12
18 2 0.03
19 20 0.31
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:126961 original size:32 final size:32
Alignment explanation
Indices: 126923--127032 Score: 211
Period size: 32 Copynumber: 3.4 Consensus size: 32
126913 ATTTGAGTAA
126923 TGTATCGATACAAAACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
126955 TGTATCGATACAAAACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
*
126987 TGTATCGATACAACACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
127019 TGTATCGATACAAA
1 TGTATCGATACAAA
127033 TCGTTGAAAT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 76 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:129427 original size:19 final size:18
Alignment explanation
Indices: 129403--129465 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
129393 AAACCGTAAA
129403 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
129422 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
129435 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
129454 TGTATCGATACA
1 TGTATCGATACA
129466 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:129440 original size:13 final size:13
Alignment explanation
Indices: 129422--129446 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
129412 ACATAAGTGT
129422 TGTATCGATACAA
1 TGTATCGATACAA
129435 TGTATCGATACA
1 TGTATCGATACA
129447 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:129442 original size:32 final size:32
Alignment explanation
Indices: 129401--129473 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
129391 ACAAACCGTA
129401 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
129433 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
129465 AATGTATCG
1 AATGTATCG
129474 CTACGAAGCT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:132066 original size:51 final size:52
Alignment explanation
Indices: 132008--132493 Score: 242
Period size: 52 Copynumber: 9.3 Consensus size: 52
131998 TACCTCCGAT
** * * * *
132008 GGGATACTTTAACCCTGGTTTT-TTTTCTAAAACACTAATTTTTCACAATCG
1 GGGATACTCCAACCCTGATTTTATTTCCAAAAACACCAATTTTTCACAATCG
*
132059 GGGATACTCCAACTCTGATTTTATTTCCAAAAACACCAATTTTTCACAATCG
1 GGGATACTCCAACCCTGATTTTATTTCCAAAAACACCAATTTTTCACAATCG
* * * **** * * *** *
132111 AGGATACTACAA-CCTCG-TTATTACATTGGGGATACTCCAACCCCGTT-AC-CTCCG
1 GGGATACTCCAACCCT-GATT-TTA-TTTCCAAAAACACCAA--TTTTTCACAAT-CG
* * * * * *
132165 AGGGATACTCAAACCCCGGTTTTATTT-CTAAAACACTAATTTTCCACAATCG
1 -GGGATACTCCAACCCTGATTTTATTTCCAAAAACACCAATTTTTCACAATCG
*
132217 GGGATACTCCAACTCTGATTTTATTTCCAAAAACACCAATTTTTCACAATCG
1 GGGATACTCCAACCCTGATTTTATTTCCAAAAACACCAATTTTTCACAATCG
* * ** * * * *** *
132269 AGGATACTACAA-CCTCG-TTATTACAT-CAGGGATACTCCAACCCCGTT-AC-CTCCGAG
1 GGGATACTCCAACCCT-GATT-TTATTTCCA--AAAACACCAA--TTTTTCACAAT-C--G
* * * * *
132325 GGGATACTTCAACCCCGATTTTATTT-CTAAAACACTAATTTTCCACAATCG
1 GGGATACTCCAACCCTGATTTTATTTCCAAAAACACCAATTTTTCACAATCG
* * ** * **
132376 GGGATACTCCAACCCCGGTTTTATTT-TTAAAACACCAATTTTCCTTTAATCG
1 GGGATACTCCAACCCTGATTTTATTTCCAAAAACACCAATTTTTC-ACAATCG
* * *
132428 GGGATATTCCAACTCTGATTTTATTTCCATAAACACCAATTTTTCACAATCG
1 GGGATACTCCAACCCTGATTTTATTTCCAAAAACACCAATTTTTCACAATCG
*
132480 AGGATACTCCAACC
1 GGGATACTCCAACC
132494 TCGTTATTTC
Statistics
Matches: 317, Mismatches: 90, Indels: 55
0.69 0.19 0.12
Matches are distributed among these distances:
51 92 0.29
52 125 0.39
53 42 0.13
54 16 0.05
55 17 0.05
56 21 0.07
57 4 0.01
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (52 bp):
GGGATACTCCAACCCTGATTTTATTTCCAAAAACACCAATTTTTCACAATCG
Found at i:132157 original size:159 final size:158
Alignment explanation
Indices: 131895--132417 Score: 859
Period size: 159 Copynumber: 3.3 Consensus size: 158
131885 AATTGTTCAT
*
131895 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAACACACCAATTTTTCACAATCGAGGATACT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACT
** * *
131960 ACAACCTCGTTATTTTATCGGGGATACTCCAACCCCGTTACCTCCGATGGGATACTTTAACCCTG
66 ACAACCTCGTTATTACATCGGGGATACTCCAACCCCGTTACCTCCGA-GGGATACTTAAACCCCG
* *
132025 GTTTTTTTTCTAAAACACTAATTTTTCAC
130 GTTTTATTTCTAAAACACTAATTTTCCAC
*
132054 AATCGGGGATACTCCAACTCTGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACT
* *
132119 ACAACCTCGTTATTACATTGGGGATACTCCAACCCCGTTACCTCCGAGGGATACTCAAACCCCGG
66 ACAACCTCGTTATTACATCGGGGATACTCCAACCCCGTTACCTCCGAGGGATACTTAAACCCCGG
132184 TTTTATTTCTAAAACACTAATTTTCCAC
131 TTTTATTTCTAAAACACTAATTTTCCAC
*
132212 AATCGGGGATACTCCAACTCTGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACT
* *
132277 ACAACCTCGTTATTACATCAGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTTCAACCCCG
66 ACAACCTCGTTATTACATCGGGGATACTCCAACCCCGTTACCTCCGA-GGGATACTTAAACCCCG
*
132342 ATTTTATTTCTAAAACACTAATTTTCCAC
130 GTTTTATTTCTAAAACACTAATTTTCCAC
* * **
132371 AATCGGGGATACTCCAACCCCGGTTTTATTT-TTAAAACACCAATTTT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTT
132418 CCTTTAATCG
Statistics
Matches: 343, Mismatches: 20, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
158 165 0.48
159 178 0.52
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (158 bp):
AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACT
ACAACCTCGTTATTACATCGGGGATACTCCAACCCCGTTACCTCCGAGGGATACTTAAACCCCGG
TTTTATTTCTAAAACACTAATTTTCCAC
Found at i:132478 original size:211 final size:210
Alignment explanation
Indices: 132166--132603 Score: 671
Period size: 211 Copynumber: 2.1 Consensus size: 210
132156 TTACCTCCGA
* *
132166 GGGATACTCAAACCCCGGTTTTATTTCTAAAACACTAATTTTCCACAATCGGGGATACTCCAACT
1 GGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTCCACAATCGGGGATACTCCAACT
132231 CTGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTACAACCTCGTTATTACATC
66 CTGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTACAACCTCGTTATTACATC
* * *
132296 AGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTTCAACCCCGATTTTATTTCTAAAACACT
131 AGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAACACT
132361 AATTT-TCCACAATCG
196 AATTTCT-CACAATCG
* ** *
132376 GGGATACTCCAACCCCGGTTTTATTTTTAAAACACCAATTTTCCTTTAATCGGGGATATTCCAAC
1 GGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTCC-ACAATCGGGGATACTCCAAC
* * *
132441 TCTGATTTTATTTCCATAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTATTTCAT
65 TCTGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTACAACCTCGTTATTACAT
* * * * *
132506 CGGGGATACTCTAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAATAT
130 CAGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAACAC
* * *
132571 TGATTTCTCATAATTG
195 TAATTTCTCACAATCG
132587 GGGATACTCCAACCCCG
1 GGGATACTCCAACCCCG
132604 TTATTTCCGA
Statistics
Matches: 206, Mismatches: 20, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
210 41 0.20
211 164 0.80
212 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (210 bp):
GGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTCCACAATCGGGGATACTCCAACT
CTGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTACAACCTCGTTATTACATC
AGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAACACT
AATTTCTCACAATCG
Found at i:132613 original size:79 final size:79
Alignment explanation
Indices: 132506--132740 Score: 276
Period size: 79 Copynumber: 3.0 Consensus size: 79
132496 GTTATTTCAT
** *
132506 CGGGGATACTCTAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAATAT
1 CGGGGATACTCTAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAATAT
*
132571 TGATTTCTCATAAT
66 TGATTTCTCATAAC
* * * * * *
132585 TGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTTCAATCCCGATTTTATTTCC-TAATCA
1 CGGGGATACTCTAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAAT-A
* *
132649 TCGATTTTTCATAAC
65 TTGATTTCTCATAAC
* * * *
132664 CGAGGATACTCTAACCCCGTTATTTTCAAGGGGATACTCCAACCCC-GTTATTATCTCCAAAATA
1 CGGGGATACTCTAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT-TTATTTCCAAAATA
*
132728 TTAAATTTCTCAT
65 TT-GATTTCTCAT
132741 CGGGACATAT
Statistics
Matches: 127, Mismatches: 25, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
78 5 0.04
79 111 0.87
80 11 0.09
ACGTcount: A:0.26, C:0.27, G:0.14, T:0.32
Consensus pattern (79 bp):
CGGGGATACTCTAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAATAT
TGATTTCTCATAAC
Found at i:141262 original size:52 final size:52
Alignment explanation
Indices: 141114--141242 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
141104 CAAAATATGA
141114 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
141166 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
141218 AAATTTGCCTGCATGTATTGATACA
1 AAATTTGCCTGCATGTATCGATACA
141243 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:141269 original size:13 final size:13
Alignment explanation
Indices: 141251--141275 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
141241 CAAAGATCAG
141251 TGTATCGATACAA
1 TGTATCGATACAA
141264 TGTATCGATACA
1 TGTATCGATACA
141276 TTTTCTTGGC
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:141341 original size:32 final size:32
Alignment explanation
Indices: 141299--141369 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
141289 AGCTTCGTAG
141299 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
* *
141331 TGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
141363 CGATACA
1 CGATACA
141370 AATCGTTGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:141363 original size:19 final size:19
Alignment explanation
Indices: 141307--141370 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
141297 AGCGATACAT
*
141307 TGTATCGATACAAAACTTA
1 TGTATCGATACAACACTTA
*
141326 TGTATTGAT---ACA--T-
1 TGTATCGATACAACACTTA
141339 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
141358 TGTATCGATACAA
1 TGTATCGATACAA
141371 ATCGTTGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
13 8 0.22
14 1 0.03
16 5 0.14
18 1 0.03
19 21 0.58
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:148744 original size:1 final size:1
Alignment explanation
Indices: 148738--148781 Score: 52
Period size: 1 Copynumber: 44.0 Consensus size: 1
148728 CTTATTTTCT
* * * *
148738 AAAAAAAAAAAATAAAAAAAAAACAAAAAAAACAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
148782 GAAGAACCTG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.91, C:0.07, G:0.00, T:0.02
Consensus pattern (1 bp):
A
Found at i:148756 original size:11 final size:11
Alignment explanation
Indices: 148740--148781 Score: 66
Period size: 11 Copynumber: 3.7 Consensus size: 11
148730 TATTTTCTAA
*
148740 AAAAAAAAAAT
1 AAAAAAAAAAC
148751 AAAAAAAAAAC
1 AAAAAAAAAAC
148762 AAAAAAAACAAC
1 AAAAAAAA-AAC
148774 AAAAAAAA
1 AAAAAAAA
148782 GAAGAACCTG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
11 18 0.62
12 11 0.38
ACGTcount: A:0.90, C:0.07, G:0.00, T:0.02
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:148756 original size:12 final size:12
Alignment explanation
Indices: 148738--148781 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
148728 CTTATTTTCT
148738 AAAAAAAAAAA-
1 AAAAAAAAAAAC
148749 ATAAAAAAAAAAC
1 A-AAAAAAAAAAC
*
148762 AAAAAAAACAAC
1 AAAAAAAAAAAC
148774 AAAAAAAA
1 AAAAAAAA
148782 GAAGAACCTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 1 0.03
12 28 0.93
13 1 0.03
ACGTcount: A:0.91, C:0.07, G:0.00, T:0.02
Consensus pattern (12 bp):
AAAAAAAAAAAC
Found at i:152596 original size:52 final size:52
Alignment explanation
Indices: 152511--152635 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 52
152501 ATATGAAAAG
* * *
152511 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAACT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
* *
152563 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGTAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
152615 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
152636 AAGATCAGTG
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 68 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:152648 original size:52 final size:51
Alignment explanation
Indices: 152511--152655 Score: 193
Period size: 52 Copynumber: 2.8 Consensus size: 51
152501 ATATGAAAAG
* *
152511 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAACT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* * *
152563 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGTAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
152615 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
152656 ATGTATCGAT
Statistics
Matches: 83, Mismatches: 8, Indels: 4
0.87 0.08 0.04
Matches are distributed among these distances:
51 2 0.02
52 81 0.98
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:152662 original size:13 final size:13
Alignment explanation
Indices: 152644--152668 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
152634 CAAAGATCAG
152644 TGTATCGATACAA
1 TGTATCGATACAA
152657 TGTATCGATACA
1 TGTATCGATACA
152669 TGTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:152750 original size:13 final size:13
Alignment explanation
Indices: 152732--152756 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
152722 ACAAAAAATA
152732 TGTATCGATACAT
1 TGTATCGATACAT
152745 TGTATCGATACA
1 TGTATCGATACA
152757 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:152752 original size:32 final size:33
Alignment explanation
Indices: 152711--152776 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
152701 AGTAGCTTAA
152711 ATTGTATCGATACAA-AAAATATGTATCGATAC
1 ATTGTATCGATACAACAAAATATGTATCGATAC
***
152743 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAACAAAATATGTATCGATAC
152776 A
1 A
152777 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (33 bp):
ATTGTATCGATACAACAAAATATGTATCGATAC
Found at i:153548 original size:55 final size:55
Alignment explanation
Indices: 153483--153728 Score: 354
Period size: 55 Copynumber: 4.5 Consensus size: 55
153473 CTCCTTTCAC
*
153483 CCTTT-AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCTACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
153537 CCTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * *
153592 CCTTTCAGTCTTCAAAGAGTAGGATGCCTTTTAAAGCTCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
153647 -CTTCCCAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTT-TCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
153702 -CTTCCCAGTCCTCAAAGAGAAGGACGC
1 CCTT-TCAGTCCTCAAAGAGCAGGACGC
153729 TCTCTCCTTT
Statistics
Matches: 178, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
54 8 0.04
55 170 0.96
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (55 bp):
CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:153807 original size:55 final size:55
Alignment explanation
Indices: 153742--154225 Score: 557
Period size: 55 Copynumber: 8.6 Consensus size: 55
153732 CTCCTTTCGT
153742 CCTTT-AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
153796 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
** *
153851 CCTTTCAGTCCTCAAAGAGCAGGATACCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * *
153906 -CTTCCCAATCCTCAAAAAGTAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
1 CCTT-TCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
153961 -TTTTCCAGTCTTCAAAAAGCAGGACGCCTCTT-AAAGCCCACACTAGTTGGTGGCA
1 CCTTT-CAGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACAAGTTGGTGGCA
* * * *
154016 -TTTTCCAGTCCTCAAAGAGTAGGACGCTTTTCAAAGCCCGCACAAGTTGGTGGCA
1 CCTTT-CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
154071 -TTTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCA
1 CCTTT-CAGTCCTCAAAGAGCAGGA--C--GC-CTTT-CAAAGCCCACACAAGTTGGTGGCA
**
154132 CCTTTCAGTCCTCAAAGAGCAGGACGCATTTTCTTTTCAAAGCCCACATGAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGC-----C-TTTCAAAGCCCACACAAGTTGGTGGCA
* * *
154193 CTTTTTAGTCCTCAAAGAGCAGGATGCACTTTC
1 CCTTTCAGTCCTCAAAGAGCAGGACGC-CTTTC
154226 TTTTCCTCTT
Statistics
Matches: 378, Mismatches: 35, Indels: 32
0.85 0.08 0.07
Matches are distributed among these distances:
54 10 0.03
55 258 0.68
56 6 0.02
57 3 0.01
59 2 0.01
60 3 0.01
61 90 0.24
62 6 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (55 bp):
CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Done.