Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 1 of 290
Found at i:4481 original size:21 final size:22
Alignment explanation
Indices: 4442--4482 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
4432 TATCCATCAT
*
4442 CAATTTTATTAGGCATAACACA
1 CAATTTTATTAGCCATAACACA
4464 CAATTTTATTA-CCATAACA
1 CAATTTTATTAGCCATAACA
4483 AAATTTACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.41, C:0.20, G:0.05, T:0.34
Consensus pattern (22 bp):
CAATTTTATTAGCCATAACACA
Found at i:6255 original size:22 final size:21
Alignment explanation
Indices: 6230--6304 Score: 91
Period size: 22 Copynumber: 3.5 Consensus size: 21
6220 GCCAACTCAC
6230 ACCGAACCGGGGTCATAAAAAA
1 ACCGAACCGGGGTC-TAAAAAA
6252 ACCGAACCGGGG--TAAAAAA
1 ACCGAACCGGGGTCTAAAAAA
**
6271 ACCGAACCGGGGTCCCCAAAAA
1 ACCGAACCGGGGT-CTAAAAAA
6293 ACCTGAACCGGG
1 ACC-GAACCGGG
6305 ATATCCCTGG
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
19 19 0.40
22 20 0.43
23 8 0.17
ACGTcount: A:0.40, C:0.28, G:0.25, T:0.07
Consensus pattern (21 bp):
ACCGAACCGGGGTCTAAAAAA
Found at i:6270 original size:18 final size:19
Alignment explanation
Indices: 6230--6283 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 19
6220 GCCAACTCAC
6230 ACCGAACCGGGGTCATAAAAAA
1 ACCGAACCGGGG---TAAAAAA
6252 ACCGAACCGGGGTAAAAAA
1 ACCGAACCGGGGTAAAAAA
6271 ACCGAACCGGGGT
1 ACCGAACCGGGGT
6284 CCCCAAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 20 0.62
22 12 0.38
ACGTcount: A:0.41, C:0.24, G:0.28, T:0.07
Consensus pattern (19 bp):
ACCGAACCGGGGTAAAAAA
Found at i:6724 original size:30 final size:30
Alignment explanation
Indices: 6690--6747 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
6680 ATTAGATTGG
6690 TGTCAACGGTAACATTTATGGTGATTAAGA
1 TGTCAACGGTAACATTTATGGTGATTAAGA
*
6720 TGTCAACGGTAACATTTATTGTGATTAA
1 TGTCAACGGTAACATTTATGGTGATTAA
6748 AACATTCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (30 bp):
TGTCAACGGTAACATTTATGGTGATTAAGA
Found at i:16088 original size:24 final size:24
Alignment explanation
Indices: 16061--16112 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
16051 CCTACCCACC
*
16061 CACACCCACACACATGCACTCACT
1 CACACCCACACACACGCACTCACT
** *
16085 CACATGCACACACACGCACTCGCT
1 CACACCCACACACACGCACTCACT
16109 CACA
1 CACA
16113 TATACACACG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.48, G:0.08, T:0.12
Consensus pattern (24 bp):
CACACCCACACACACGCACTCACT
Found at i:16113 original size:24 final size:24
Alignment explanation
Indices: 16067--16113 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
16057 CACCCACACC
*
16067 CACACACATGCACTCACTCACATG
1 CACACACACGCACTCACTCACATG
*
16091 CACACACACGCACTCGCTCACAT
1 CACACACACGCACTCACTCACAT
16114 ATACACACGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.32, C:0.45, G:0.09, T:0.15
Consensus pattern (24 bp):
CACACACACGCACTCACTCACATG
Found at i:16119 original size:24 final size:24
Alignment explanation
Indices: 16067--16121 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
16057 CACCCACACC
* *
16067 CACACACATGCACTCACTCACATG
1 CACACACACGCACTCACTCACATA
*
16091 CACACACACGCACTCGCTCACATA
1 CACACACACGCACTCACTCACATA
*
16115 TACACAC
1 CACACAC
16122 GCAAACACAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.35, C:0.44, G:0.07, T:0.15
Consensus pattern (24 bp):
CACACACACGCACTCACTCACATA
Found at i:20432 original size:17 final size:17
Alignment explanation
Indices: 20406--20438 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
20396 TTAATATAAT
20406 TCGAGTTTTAAGTTTTAG
1 TCGAGTTTTAA-TTTTAG
20424 TCGAG-TTTAATTTTA
1 TCGAGTTTTAATTTTA
20439 TAATTTGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 5 0.33
18 5 0.33
ACGTcount: A:0.24, C:0.06, G:0.18, T:0.52
Consensus pattern (17 bp):
TCGAGTTTTAATTTTAG
Found at i:20609 original size:19 final size:19
Alignment explanation
Indices: 20549--20598 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
20539 ATTATAAAAA
20549 AAAATTCAAAATAATTTTT
1 AAAATTCAAAATAATTTTT
20568 AAAATTCAAAATAATTTTT
1 AAAATTCAAAATAATTTTT
20587 AAAATTCAAAAT
1 AAAATTCAAAAT
20599 TTTTTATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAATTCAAAATAATTTTT
Found at i:20788 original size:23 final size:24
Alignment explanation
Indices: 20762--20806 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
20752 ACAAATTTTA
20762 AATTTT-TTTAATTTAACTCAAAT
1 AATTTTATTTAATTTAACTCAAAT
*
20785 AATTTTATTTATTTTAACTCAA
1 AATTTTATTTAATTTAACTCAA
20807 CTTAAATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (24 bp):
AATTTTATTTAATTTAACTCAAAT
Found at i:21378 original size:95 final size:95
Alignment explanation
Indices: 21215--21402 Score: 376
Period size: 95 Copynumber: 2.0 Consensus size: 95
21205 GTAAGAAGAG
21215 GCTTCATACTTGTGCCACTGCCCACTGGGCCACACCAACTGGTAACTCCTTTCTCTTTCCCTCTT
1 GCTTCATACTTGTGCCACTGCCCACTGGGCCACACCAACTGGTAACTCCTTTCTCTTTCCCTCTT
21280 ACCTACTTTATCGTTTCTTGTTTCTGATAT
66 ACCTACTTTATCGTTTCTTGTTTCTGATAT
21310 GCTTCATACTTGTGCCACTGCCCACTGGGCCACACCAACTGGTAACTCCTTTCTCTTTCCCTCTT
1 GCTTCATACTTGTGCCACTGCCCACTGGGCCACACCAACTGGTAACTCCTTTCTCTTTCCCTCTT
21375 ACCTACTTTATCGTTTCTTGTTTCTGAT
66 ACCTACTTTATCGTTTCTTGTTTCTGAT
21403 TCTAACTTAT
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 93 1.00
ACGTcount: A:0.15, C:0.33, G:0.13, T:0.39
Consensus pattern (95 bp):
GCTTCATACTTGTGCCACTGCCCACTGGGCCACACCAACTGGTAACTCCTTTCTCTTTCCCTCTT
ACCTACTTTATCGTTTCTTGTTTCTGATAT
Found at i:23920 original size:23 final size:23
Alignment explanation
Indices: 23893--23939 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
23883 ATGAAAAAGA
*
23893 ATTAGAGACCGATTGTTTAATTT
1 ATTAGAGACCAATTGTTTAATTT
23916 ATTAGAGACCAATTGTTTAATTT
1 ATTAGAGACCAATTGTTTAATTT
23939 A
1 A
23940 ACCTAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.43
Consensus pattern (23 bp):
ATTAGAGACCAATTGTTTAATTT
Found at i:24677 original size:4 final size:4
Alignment explanation
Indices: 24668--24709 Score: 75
Period size: 4 Copynumber: 10.5 Consensus size: 4
24658 TTGCTAGCTC
*
24668 CTAT CTAT CTAT CTGT CTAT CTAT CTAT CTAT CTAT CTAT CT
1 CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CT
24710 TTATATTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.21, C:0.26, G:0.02, T:0.50
Consensus pattern (4 bp):
CTAT
Found at i:27293 original size:32 final size:32
Alignment explanation
Indices: 27257--27321 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
27247 TAGATGAAAG
27257 AGCAAAATAATCCTACAATTAAACTCCTCCAC
1 AGCAAAATAATCCTACAATTAAACTCCTCCAC
27289 AGCAAAATAATCCTACAATTAAACTCCTCCAC
1 AGCAAAATAATCCTACAATTAAACTCCTCCAC
27321 A
1 A
27322 ACCCTTAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.45, C:0.31, G:0.03, T:0.22
Consensus pattern (32 bp):
AGCAAAATAATCCTACAATTAAACTCCTCCAC
Found at i:32258 original size:33 final size:33
Alignment explanation
Indices: 32221--32286 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
32211 TACAAAGATA
32221 TGTTAGCATAAAGCAAAAAGATATGAAACATTT
1 TGTTAGCATAAAGCAAAAAGATATGAAACATTT
** * * *
32254 TGTTATTATAAAGCAAAGAGGTATGAAATATTT
1 TGTTAGCATAAAGCAAAAAGATATGAAACATTT
32287 ATTTATAACT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.45, C:0.06, G:0.17, T:0.32
Consensus pattern (33 bp):
TGTTAGCATAAAGCAAAAAGATATGAAACATTT
Found at i:32402 original size:140 final size:134
Alignment explanation
Indices: 32276--32529 Score: 327
Period size: 137 Copynumber: 1.9 Consensus size: 134
32266 GCAAAGAGGT
* * * * *
32276 ATGAAATATTTA-TTTATAACT-AAAAT-AATAATATTATTTAATACATTGATAATATCATTAA-
1 ATGAAACATTTATTTTATAAATAAAAATAAATAAAAATATTTAATACATAGATAATATCATTAAT
*
32337 GATTAAAAATACTAGAACTGAATAATAAAAAATATAAATTTGCAATACATTCATCTTTGTTATTA
66 GATTAAAAATACTAAAACTGAATAA-AAAAAATAT-AA-TTGCAATACATTCATCTTTGTTATTA
32402 TAAAGCA
128 TAAAGCA
** *
32409 ATGAAACATTTATTTTATAAATAAAAATAAAATAAAAATATTTAATATGTAGATAATTTCATTAA
1 ATGAAACATTTATTTTATAAATAAAAAT-AAATAAAAATATTTAATACATAGATAATATCATTAA
** * *
32474 TTTTTAAAAATATTAAAACTGAATAAAAAAAGTATAATTGCAATACATTCATCTTT
65 TGATTAAAAATACTAAAACTGAATAAAAAAAATATAATTGCAATACATTCATCTTT
32530 TAAATATATA
Statistics
Matches: 103, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
133 11 0.11
134 8 0.08
135 24 0.23
136 2 0.02
137 37 0.36
138 21 0.20
ACGTcount: A:0.50, C:0.07, G:0.06, T:0.38
Consensus pattern (134 bp):
ATGAAACATTTATTTTATAAATAAAAATAAATAAAAATATTTAATACATAGATAATATCATTAAT
GATTAAAAATACTAAAACTGAATAAAAAAAATATAATTGCAATACATTCATCTTTGTTATTATAA
AGCA
Found at i:40344 original size:22 final size:22
Alignment explanation
Indices: 40316--40360 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
40306 TACTTAATCT
*
40316 AAATGCTGAATGCTAAACGGGA
1 AAATGCTGAACGCTAAACGGGA
40338 AAATGCTGAACGCTAAACGGGA
1 AAATGCTGAACGCTAAACGGGA
40360 A
1 A
40361 GGAGTCGAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.16, G:0.27, T:0.16
Consensus pattern (22 bp):
AAATGCTGAACGCTAAACGGGA
Found at i:43182 original size:14 final size:15
Alignment explanation
Indices: 43154--43186 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
43144 CATAAATCAT
43154 AAATTTAAAATTTTG
1 AAATTTAAAATTTTG
*
43169 AAATTTGAAA-TTTG
1 AAATTTAAAATTTTG
43183 AAAT
1 AAAT
43187 CCAAATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (15 bp):
AAATTTAAAATTTTG
Found at i:47197 original size:19 final size:17
Alignment explanation
Indices: 47167--47202 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
47157 AGAGAAACAA
47167 AAAAGAAAAAAAAAGTT
1 AAAAGAAAAAAAAAGTT
47184 AAAAGAATATAAAAAAGTT
1 AAAAGAA-A-AAAAAAGTT
47203 TAAATTGCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 1 0.06
19 9 0.53
ACGTcount: A:0.72, C:0.00, G:0.11, T:0.17
Consensus pattern (17 bp):
AAAAGAAAAAAAAAGTT
Found at i:48089 original size:19 final size:19
Alignment explanation
Indices: 48048--48090 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
48038 GTGTTTTTTA
***
48048 CCAATAACAAAACAATGGT
1 CCAATAACAAAACAATAAC
*
48067 CCAATACCAAAACAATAAC
1 CCAATAACAAAACAATAAC
48086 CCAAT
1 CCAAT
48091 TACTCATTAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.53, C:0.28, G:0.05, T:0.14
Consensus pattern (19 bp):
CCAATAACAAAACAATAAC
Found at i:49658 original size:29 final size:29
Alignment explanation
Indices: 49626--49709 Score: 168
Period size: 29 Copynumber: 2.9 Consensus size: 29
49616 CCAAATGACC
49626 CTTCTTTTAGCCTCTAGTCAGTATAGACT
1 CTTCTTTTAGCCTCTAGTCAGTATAGACT
49655 CTTCTTTTAGCCTCTAGTCAGTATAGACT
1 CTTCTTTTAGCCTCTAGTCAGTATAGACT
49684 CTTCTTTTAGCCTCTAGTCAGTATAG
1 CTTCTTTTAGCCTCTAGTCAGTATAG
49710 CTGCAAGTTG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 55 1.00
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (29 bp):
CTTCTTTTAGCCTCTAGTCAGTATAGACT
Found at i:54133 original size:22 final size:21
Alignment explanation
Indices: 54090--54133 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
54080 ATAATTTCTA
*
54090 TTCTTTTTTTTCCCTTCCTAT
1 TTCTTTTTTTTCCCTTCATAT
* *
54111 TTCTTTTTATTTCCTTTTATAT
1 TTCTTTTT-TTTCCCTTCATAT
54133 T
1 T
54134 ACTAGAGTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.09, C:0.20, G:0.00, T:0.70
Consensus pattern (21 bp):
TTCTTTTTTTTCCCTTCATAT
Found at i:55070 original size:6 final size:6
Alignment explanation
Indices: 55008--55061 Score: 90
Period size: 6 Copynumber: 8.8 Consensus size: 6
54998 AAAAATTATA
*
55008 TTTTTC TTTTTTC TTTTTC TTTTAC TTTTTC TTTTTC TTTTTC TTTTTC
1 TTTTTC -TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
55057 TTTTT
1 TTTTT
55062 TTTCTTTTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
6 39 0.87
7 6 0.13
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTC
Found at i:56686 original size:32 final size:32
Alignment explanation
Indices: 56617--56688 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 32
56607 ACCTTTCTTC
* * *
56617 ACTGTAATGCAATGGATTGTAATTGAATTAGA
1 ACTGTAATGAAATAGATTGTAATAGAATTAGA
*
56649 GCTGTAATGAAATAGAGTTGTAATAGAA-TAGA
1 ACTGTAATGAAATAGA-TTGTAATAGAATTAGA
56681 ACTGTAAT
1 ACTGTAAT
56689 AAGTTAATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
32 24 0.71
33 10 0.29
ACGTcount: A:0.40, C:0.06, G:0.22, T:0.32
Consensus pattern (32 bp):
ACTGTAATGAAATAGATTGTAATAGAATTAGA
Found at i:56689 original size:16 final size:16
Alignment explanation
Indices: 56634--56689 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
56624 TGCAATGGAT
*
56634 TGTAATTGAATTAGAGC
1 TGTAATAGAA-TAGAGC
*
56651 TGTAAT-GAAATAGAGT
1 TGTAATAG-AATAGAGC
*
56667 TGTAATAGAATAGAAC
1 TGTAATAGAATAGAGC
56683 TGTAATA
1 TGTAATA
56690 AGTTAATAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
16 25 0.74
17 9 0.26
ACGTcount: A:0.43, C:0.04, G:0.21, T:0.32
Consensus pattern (16 bp):
TGTAATAGAATAGAGC
Found at i:57227 original size:18 final size:18
Alignment explanation
Indices: 57204--57238 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
57194 ACGTGGTAGT
*
57204 CCAACTAGATTTTAAGTG
1 CCAACTAGATCTTAAGTG
57222 CCAACTAGATCTTAAGT
1 CCAACTAGATCTTAAGT
57239 ATATCTGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.31
Consensus pattern (18 bp):
CCAACTAGATCTTAAGTG
Found at i:57297 original size:40 final size:40
Alignment explanation
Indices: 57246--57490 Score: 355
Period size: 40 Copynumber: 6.1 Consensus size: 40
57236 AGTATATCTG
* * *
57246 TTAATACATACTTCATCCGGGTAAATTATACAATTTTCTG
1 TTAATACATACTTCACCCGGGTAAATTATACAGTTTTCTA
* *
57286 TTAATACATACTTTACCCGGGTAAATGATACAGTTTTCTA
1 TTAATACATACTTCACCCGGGTAAATTATACAGTTTTCTA
* * * *
57326 TTAATACATACTTCATCCGGATAAATTATATAGTTTTCTG
1 TTAATACATACTTCACCCGGGTAAATTATACAGTTTTCTA
*
57366 TTAATACATACTTTACCCGGGTAAATTATACAGTTTTCTA
1 TTAATACATACTTCACCCGGGTAAATTATACAGTTTTCTA
*
57406 TTAATACATACTTTACCCGGGTAAATTATACAGTTTTCTA
1 TTAATACATACTTCACCCGGGTAAATTATACAGTTTTCTA
* * * *
57446 TTAATATATACTTCATCCGGATAAATTATACAGTTTTTTA
1 TTAATACATACTTCACCCGGGTAAATTATACAGTTTTCTA
57486 TTAAT
1 TTAAT
57491 GTGCTTGTGA
Statistics
Matches: 184, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 184 1.00
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (40 bp):
TTAATACATACTTCACCCGGGTAAATTATACAGTTTTCTA
Found at i:57404 original size:120 final size:120
Alignment explanation
Indices: 57242--57482 Score: 419
Period size: 120 Copynumber: 2.0 Consensus size: 120
57232 CTTAAGTATA
* *
57242 TCTGTTAATACATACTTCATCCGGGTAAATTATACAATTTTCTGTTAATACATACTTTACCCGGG
1 TCTGTTAATACATACTTCACCCGGGTAAATTATACAATTTTCTATTAATACATACTTTACCCGGG
*
57307 TAAATGATACAGTTTTCTATTAATACATACTTCATCCGGATAAATTATATAGTTT
66 TAAATGATACAGTTTTCTATTAATACATACTTCATCCGGATAAATTATACAGTTT
* *
57362 TCTGTTAATACATACTTTACCCGGGTAAATTATACAGTTTTCTATTAATACATACTTTACCCGGG
1 TCTGTTAATACATACTTCACCCGGGTAAATTATACAATTTTCTATTAATACATACTTTACCCGGG
* *
57427 TAAATTATACAGTTTTCTATTAATATATACTTCATCCGGATAAATTATACAGTTT
66 TAAATGATACAGTTTTCTATTAATACATACTTCATCCGGATAAATTATACAGTTT
57482 T
1 T
57483 TTATTAATGT
Statistics
Matches: 114, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 114 1.00
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.41
Consensus pattern (120 bp):
TCTGTTAATACATACTTCACCCGGGTAAATTATACAATTTTCTATTAATACATACTTTACCCGGG
TAAATGATACAGTTTTCTATTAATACATACTTCATCCGGATAAATTATACAGTTT
Found at i:62097 original size:29 final size:30
Alignment explanation
Indices: 62047--62114 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
62037 TGGCCCAAGA
* * *
62047 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTAAAGGACTAATAGT
*
62077 GTAAATATGAAAAGTTAAAGGACTAATAGT
1 GTAAATATCAAAAGTTAAAGGACTAATAGT
*
62107 GCAAATAT
1 GTAAATAT
62115 TTTAAGGGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.49, C:0.06, G:0.18, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTAAAGGACTAATAGT
Found at i:64578 original size:46 final size:46
Alignment explanation
Indices: 64526--64748 Score: 340
Period size: 46 Copynumber: 4.8 Consensus size: 46
64516 GCTCTCTAAA
*
64526 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
*
64572 ATGAAATGTGTAAGACCGTGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
* *
64618 ATGAAATGTGTAAGACCGTGGTTGAAAGACACCATGGCAACCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
* *
64664 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
* * * *
64710 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
64749 TCATGTCAAA
Statistics
Matches: 165, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 1 0.01
46 164 0.99
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
Found at i:65545 original size:16 final size:15
Alignment explanation
Indices: 65516--65553 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
65506 GTTTAGTCCC
65516 TAAGGTTTTTTGGTT
1 TAAGGTTTTTTGGTT
*
65531 TATGGTTTTTATGGTT
1 TAAGGTTTTT-TGGTT
65547 TAAGGTT
1 TAAGGTT
65554 AGTGTTTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.16, C:0.00, G:0.26, T:0.58
Consensus pattern (15 bp):
TAAGGTTTTTTGGTT
Found at i:65760 original size:34 final size:33
Alignment explanation
Indices: 65639--65765 Score: 132
Period size: 34 Copynumber: 3.8 Consensus size: 33
65629 TTTTAAAAAA
* * *
65639 TAAAGTAGGGTTTAGTTTTTTTTAAAAA-TAAT
1 TAAATTAGGGTTTAGTGTTTTTAAAAAATTAAT
* *
65671 TAAATTAGGTTTTAAG-GGTTTTAAATAAATTAAT
1 TAAATTAGGGTTT-AGTGTTTTTAAA-AAATTAAT
* *
65705 TAAATTAGGATTTAGAGTTTTTAAGAAAATTAAT
1 TAAATTAGGGTTTAGTGTTTTTAA-AAAATTAAT
* *
65739 TAAATTAGGGTTTAGTTTTTTTTAAAA
1 TAAATTAGGGTTTAGTGTTTTTAAAAA
65766 TAACGTTGTG
Statistics
Matches: 79, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
32 17 0.22
33 10 0.13
34 51 0.65
35 1 0.01
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.46
Consensus pattern (33 bp):
TAAATTAGGGTTTAGTGTTTTTAAAAAATTAAT
Found at i:66600 original size:39 final size:39
Alignment explanation
Indices: 66538--66727 Score: 290
Period size: 39 Copynumber: 4.9 Consensus size: 39
66528 ATCGTGATCT
* * *
66538 GAAGCCCGAAGTCTAGCTAAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
** *
66577 GAAGCCCGAAGGCTAACTGAAGCACATAACAGCTAAATG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
* *
66616 GAAGCCCGGAGGCTAACTGAAGTACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
66655 GAAACCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
66694 GAAGCCCGGAGGCTAACTGAAGCACATAAGTGCT
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCT
66728 GAACCGAAAC
Statistics
Matches: 135, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 135 1.00
ACGTcount: A:0.38, C:0.23, G:0.25, T:0.14
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
Found at i:69368 original size:16 final size:16
Alignment explanation
Indices: 69347--69383 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
69337 TCACCAGCTT
69347 AAAGCTTGCTAGGCTC
1 AAAGCTTGCTAGGCTC
69363 AAAGCTTGCTAGGCTC
1 AAAGCTTGCTAGGCTC
69379 AAAGC
1 AAAGC
69384 CCAAATATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.22
Consensus pattern (16 bp):
AAAGCTTGCTAGGCTC
Found at i:69543 original size:28 final size:28
Alignment explanation
Indices: 69505--69613 Score: 146
Period size: 28 Copynumber: 3.8 Consensus size: 28
69495 GAATCATTCG
* *
69505 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
69533 ATATCTCGCACACCCTAAGTGCCATTCTCA
1 ATATTTCGCACA--CTAAGTGCCATTCTCA
*
69563 ATATTTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
69591 ATATTTCGTACACTAAGTACCAT
1 ATATTTCGCACACTAAGTGCCAT
69614 ATTTGATTGC
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
28 48 0.66
30 25 0.34
ACGTcount: A:0.29, C:0.27, G:0.10, T:0.34
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:72253 original size:126 final size:126
Alignment explanation
Indices: 72029--72438 Score: 563
Period size: 126 Copynumber: 3.3 Consensus size: 126
72019 TACAAAAAAT
* * * * * * *
72029 TCCCACGTGGACGCCCTTTTTCTATAATAGTTCCTG-AAAAATAATATTGAGAAGACGGTTCTAA
1 TCCCACGTAGACGCTCTTTCTCTATAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATTCTGA
* * * *
72093 ACAAATAGTGTCAAAAACGCTTTAAATAGGATGCACTATCAGCAAAAATGATGAAAAGAGC
66 ACAAATAGTGTCAAAAACGCTTTAAGTAGGATGCACTGTCAGCAAAATTGATGAAAAAAGC
* *
72154 TCCCATGTGGACGCTCTTTCTCTATAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATTCTGA
1 TCCCACGTAGACGCTCTTTCTCTATAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATTCTGA
* *
72219 ACAACTAGTGTCAAAAACGCTTTAAGTAGGATGCATTGTCAGCAAAATTGATGAAAAAAGC
66 ACAAATAGTGTCAAAAACGCTTTAAGTAGGATGCACTGTCAGCAAAATTGATGAAAAAAGC
* * * * **
72280 TCCCACGTAGACGCTCTTTTTCTAAAGTAGTTCCTGAACAAATAATTTTAAGAAGAATATTCTGA
1 TCCCACGTAGACGCTCTTTCTCTATAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATTCTGA
* * * *
72345 ACAAATAGTGTCAAAAATGCTTCAAGCAGGATGCACTGTTAGCAAAATTGATGAAAAAAGC
66 ACAAATAGTGTCAAAAACGCTTTAAGTAGGATGCACTGTCAGCAAAATTGATGAAAAAAGC
*
72406 TCCCA-GATAGATGCTCTTTCTCTATAGTAGTTC
1 TCCCACG-TAGACGCTCTTTCTCTATAGTAGTTC
72439 ATGTTCAGCC
Statistics
Matches: 253, Mismatches: 30, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
125 33 0.13
126 220 0.87
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.28
Consensus pattern (126 bp):
TCCCACGTAGACGCTCTTTCTCTATAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATTCTGA
ACAAATAGTGTCAAAAACGCTTTAAGTAGGATGCACTGTCAGCAAAATTGATGAAAAAAGC
Found at i:76406 original size:30 final size:30
Alignment explanation
Indices: 76372--76435 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
76362 TTAATTAAAC
*
76372 AGAGCTATGAGAAAATCAATGAGAAATTTG
1 AGAGCTATGAGAAAATCAAGGAGAAATTTG
* * * *
76402 AGAGCTTTGAGAAATTTAGGGAGAAATTTG
1 AGAGCTATGAGAAAATCAAGGAGAAATTTG
76432 AGAG
1 AGAG
76436 TTTTTTGTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.42, C:0.05, G:0.28, T:0.25
Consensus pattern (30 bp):
AGAGCTATGAGAAAATCAAGGAGAAATTTG
Found at i:79727 original size:15 final size:15
Alignment explanation
Indices: 79707--79822 Score: 62
Period size: 15 Copynumber: 7.5 Consensus size: 15
79697 GTCTGCTTTA
79707 TGTTTCTCTATTTTC
1 TGTTTCTCTATTTTC
*
79722 TGTTTCTGTACCATGTTT-
1 TGTTTC--T-CTAT-TTTC
79740 TGTTTCTCTATTTTC
1 TGTTTCTCTATTTTC
*
79755 TGTTTCTGTACCATGTTT-
1 TGTTTC--T-CTAT-TTTC
*
79773 TGTTCCTCTATTTTC
1 TGTTTCTCTATTTTC
* **
79788 TGTAGT-GGT-TTTT-
1 TGT-TTCTCTATTTTC
79801 TGTTTCTCTATTTTC
1 TGTTTCTCTATTTTC
79816 TGTTTCT
1 TGTTTCT
79823 GTACCATGTT
Statistics
Matches: 75, Mismatches: 12, Indels: 28
0.65 0.10 0.24
Matches are distributed among these distances:
12 1 0.01
13 4 0.05
14 14 0.19
15 29 0.39
16 2 0.03
17 2 0.03
18 17 0.23
19 6 0.08
ACGTcount: A:0.08, C:0.17, G:0.13, T:0.62
Consensus pattern (15 bp):
TGTTTCTCTATTTTC
Found at i:79744 original size:33 final size:33
Alignment explanation
Indices: 79707--79842 Score: 185
Period size: 33 Copynumber: 4.3 Consensus size: 33
79697 GTCTGCTTTA
79707 TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
1 TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
79740 TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
1 TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
* * *
79773 TGTTCCTCTATTTTCTGTAGT-GGT----T-TTT
1 TGTTTCTCTATTTTCTGT-TTCTGTACCATGTTT
79801 TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
1 TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
*
79834 TGTTCCTCT
1 TGTTTCTCT
79843 TGCCATTTTT
Statistics
Matches: 89, Mismatches: 7, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
27 1 0.01
28 22 0.25
29 1 0.01
32 1 0.01
33 63 0.71
34 1 0.01
ACGTcount: A:0.08, C:0.18, G:0.13, T:0.60
Consensus pattern (33 bp):
TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
Found at i:79745 original size:18 final size:18
Alignment explanation
Indices: 79722--79776 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
79712 CTCTATTTTC
79722 TGTTTCTGTACCATGTTT
1 TGTTTCTGTACCATGTTT
*
79740 TGTTTC--T-CTAT-TTT
1 TGTTTCTGTACCATGTTT
79754 CTGTTTCTGTACCATGTTT
1 -TGTTTCTGTACCATGTTT
79773 TGTT
1 TGTT
79777 CCTCTATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
14 3 0.10
15 9 0.30
16 1 0.03
17 1 0.03
18 13 0.43
19 3 0.10
ACGTcount: A:0.09, C:0.16, G:0.15, T:0.60
Consensus pattern (18 bp):
TGTTTCTGTACCATGTTT
Found at i:80946 original size:22 final size:22
Alignment explanation
Indices: 80896--80973 Score: 131
Period size: 22 Copynumber: 3.6 Consensus size: 22
80886 AGTTTCCCCC
*
80896 ATTTGCAGTGGCTATACAA-TT
1 ATTTGCAGTGGCTATATAATTT
*
80917 GTTTGCAGTGGCTATATAATTT
1 ATTTGCAGTGGCTATATAATTT
80939 ATTTGCAGTGGCTATATAATTT
1 ATTTGCAGTGGCTATATAATTT
80961 ATTTGCAGTGGCT
1 ATTTGCAGTGGCT
80974 CCATCTGCTT
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
21 17 0.32
22 36 0.68
ACGTcount: A:0.24, C:0.12, G:0.22, T:0.42
Consensus pattern (22 bp):
ATTTGCAGTGGCTATATAATTT
Found at i:84154 original size:18 final size:17
Alignment explanation
Indices: 84126--84160 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
84116 ATTATTAGGA
*
84126 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
84143 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
84161 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:84181 original size:120 final size:120
Alignment explanation
Indices: 84035--84777 Score: 1432
Period size: 120 Copynumber: 6.2 Consensus size: 120
84025 TTTTCAAGTT
* *
84035 ATATATTTAATAATTATTATGTTAATTTATATTTTACAGTATCACATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
84100 TAATATAAGAATATTAATTATTAGGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
*
84155 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTTAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
84220 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
*
84275 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTTAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
84340 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
84395 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
84460 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
*
84515 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATAATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
84580 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
84635 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
84700 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
84755 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
84778 TAAATATGAT
Statistics
Matches: 616, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 616 1.00
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
Found at i:84274 original size:18 final size:17
Alignment explanation
Indices: 84246--84280 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
84236 ATTATTAAGA
*
84246 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
84263 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
84281 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:84394 original size:18 final size:17
Alignment explanation
Indices: 84366--84400 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
84356 ATTATTAAGA
*
84366 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
84383 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
84401 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:84514 original size:18 final size:17
Alignment explanation
Indices: 84486--84520 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
84476 ATTATTAAGA
*
84486 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
84503 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
84521 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:84634 original size:18 final size:17
Alignment explanation
Indices: 84606--84640 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
84596 ATTATTAAGA
*
84606 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
84623 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
84641 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:84754 original size:18 final size:17
Alignment explanation
Indices: 84726--84760 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
84716 ATTATTAAGA
*
84726 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
84743 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
84761 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:85017 original size:16 final size:16
Alignment explanation
Indices: 84996--85031 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
84986 GATTTGCTAT
*
84996 TACACCTTTAATCCAA
1 TACACCTCTAATCCAA
85012 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
85028 TACA
1 TACA
85032 GCGAACCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.33, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:99345 original size:15 final size:15
Alignment explanation
Indices: 99325--99353 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
99315 TCATGCCCTT
99325 ACTATGCTTATTTCA
1 ACTATGCTTATTTCA
99340 ACTATGCTTATTTC
1 ACTATGCTTATTTC
99354 TTTATCACTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.21, G:0.07, T:0.48
Consensus pattern (15 bp):
ACTATGCTTATTTCA
Found at i:102262 original size:31 final size:31
Alignment explanation
Indices: 102221--102297 Score: 95
Period size: 33 Copynumber: 2.5 Consensus size: 31
102211 GTTAATAATT
*
102221 TATAAAAATT-AGATCAAATTAAAATTTTTA
1 TATAAAAATTAAGATCAAATTAAAATTTATA
*
102251 TATATAAAATTACAGATTAAATTAAAATTTATA
1 TATA-AAAATTA-AGATCAAATTAAAATTTATA
*
102284 TAT-AAATTTAAGAT
1 TATAAAAATTAAGAT
102298 TTTTCCCATG
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
30 8 0.20
31 12 0.29
33 21 0.51
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.40
Consensus pattern (31 bp):
TATAAAAATTAAGATCAAATTAAAATTTATA
Found at i:102275 original size:33 final size:30
Alignment explanation
Indices: 102221--102298 Score: 97
Period size: 31 Copynumber: 2.6 Consensus size: 30
102211 GTTAATAATT
*
102221 TATA-AAAATT-AGATCAAATTAAAATTTTTA
1 TATATAAAATTAAGATTAAATTAAAA--TTTA
102251 TATATAAAATTACAGATTAAATTAAAATTTA
1 TATATAAAATTA-AGATTAAATTAAAATTTA
*
102282 TATATAAATTTAAGATT
1 TATATAAAATTAAGATT
102299 TTTCCCATGA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
30 9 0.21
31 21 0.49
33 13 0.30
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.41
Consensus pattern (30 bp):
TATATAAAATTAAGATTAAATTAAAATTTA
Found at i:105118 original size:133 final size:133
Alignment explanation
Indices: 104946--105207 Score: 506
Period size: 133 Copynumber: 2.0 Consensus size: 133
104936 TACCCGTAGT
104946 GGATTATGTTAGGGAGTAAATCCTGCTGTCTAAGGTTCTGCTATTTTCTGTTTTTGCATCTTCTT
1 GGATTATGTTAGGGAGTAAATCCTGCTGTCTAAGGTTCTGCTATTTTCTGTTTTTGCATCTTCTT
105011 AGCTTTTGATTCTATATTCTTTTGAGGTTTCTTTAAAAGTTCTCGTCATAATATAGAACTTTCTA
66 AGCTTTTGATTCTATATTCTTTTGAGGTTTCTTTAAAAGTTCTCGTCATAATATAGAACTTTCTA
105076 CGG
131 CGG
105079 GGATTATGTTAGGGAGTAAATCCTGCTGTCTAAGGTTCTGCTATTTTCTGTTTTTGCATCTTCTT
1 GGATTATGTTAGGGAGTAAATCCTGCTGTCTAAGGTTCTGCTATTTTCTGTTTTTGCATCTTCTT
* *
105144 TGCTTTTGATTCTATATTCTTTTGAGGTTTCTTTAAAGGTTCTCGTCATAATATAGAACTTTCT
66 AGCTTTTGATTCTATATTCTTTTGAGGTTTCTTTAAAAGTTCTCGTCATAATATAGAACTTTCT
105208 TTACGCTTTG
Statistics
Matches: 127, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
133 127 1.00
ACGTcount: A:0.20, C:0.15, G:0.18, T:0.47
Consensus pattern (133 bp):
GGATTATGTTAGGGAGTAAATCCTGCTGTCTAAGGTTCTGCTATTTTCTGTTTTTGCATCTTCTT
AGCTTTTGATTCTATATTCTTTTGAGGTTTCTTTAAAAGTTCTCGTCATAATATAGAACTTTCTA
CGG
Found at i:111195 original size:12 final size:12
Alignment explanation
Indices: 111178--111208 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
111168 TTTCTTGGCG
111178 TTCATTTCTAGT
1 TTCATTTCTAGT
111190 TTCATTTCTAGT
1 TTCATTTCTAGT
111202 TTCATTT
1 TTCATTT
111209 AACATTGTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.06, T:0.61
Consensus pattern (12 bp):
TTCATTTCTAGT
Found at i:119815 original size:11 final size:11
Alignment explanation
Indices: 119776--119816 Score: 52
Period size: 10 Copynumber: 3.9 Consensus size: 11
119766 ACATTGCAGT
119776 AATATATATAAA
1 AATATAT-TAAA
119788 AA-AT-TTAAA
1 AATATATTAAA
119797 AATA-ATTAAA
1 AATATATTAAA
119807 AATATATTAA
1 AATATATTAA
119817 TATAGTTTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
9 6 0.23
10 11 0.42
11 7 0.27
12 2 0.08
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
AATATATTAAA
Found at i:120713 original size:21 final size:21
Alignment explanation
Indices: 120684--120725 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
120674 ACGAAAATTG
*
120684 AAAAGGTAAGACATTTTCCCT
1 AAAAGGTAACACATTTTCCCT
* *
120705 AAAATGTAACCCATTTTCCCT
1 AAAAGGTAACACATTTTCCCT
120726 TGTTTTGGAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.24, G:0.10, T:0.31
Consensus pattern (21 bp):
AAAAGGTAACACATTTTCCCT
Found at i:123839 original size:22 final size:22
Alignment explanation
Indices: 123814--123858 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
123804 TTTAATAAAG
123814 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
123836 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
123858 A
1 A
123859 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:127613 original size:22 final size:22
Alignment explanation
Indices: 127588--127640 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
127578 TTTAATAAAG
127588 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
127610 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
*
127632 ACAATATCT
1 AAAATATCT
127641 TAGTAAGCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.47, C:0.17, G:0.02, T:0.34
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:132797 original size:38 final size:38
Alignment explanation
Indices: 132705--132840 Score: 157
Period size: 40 Copynumber: 3.5 Consensus size: 38
132695 CTCGAGAATA
132705 TAAAGTGGATAGGATTTGTTCCTGATTCACTATAATACCT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATAAT--CT
* *
132745 CAAAGTGGATAGGATTTGTTCCTGATTCACTGGTAAT-T
1 TAAAGTGGATAGGATTTGTTCCTGATTCACT-ATAATCT
* * *
132783 TAAAGTGAATAGGATTTATTCCTGATTCACTATGGAAACT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTAT--AATCT
* *
132823 TAAGGCGGATAGGATTTG
1 TAAAGTGGATAGGATTTG
132841 ACCTGAAAAG
Statistics
Matches: 81, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
37 1 0.01
38 29 0.36
39 2 0.02
40 45 0.56
41 4 0.05
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.35
Consensus pattern (38 bp):
TAAAGTGGATAGGATTTGTTCCTGATTCACTATAATCT
Found at i:132887 original size:78 final size:78
Alignment explanation
Indices: 132805--132956 Score: 241
Period size: 78 Copynumber: 1.9 Consensus size: 78
132795 GATTTATTCC
* * *
132805 TGATTCACTATGGAAACTTAAGGCGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTACA
1 TGATTCACTATGGAAACCTAAGGCGGATAGGATTTGACCTGAAAAGATAATCCTGATTCACTACA
132870 GTTACATGATATA
66 GTTACATGATATA
* * * *
132883 TGATTCATTATGGTAACCTAAGGTGGATAGGATTTGACTTGAAAAGATAATCCTGATTCACTACA
1 TGATTCACTATGGAAACCTAAGGCGGATAGGATTTGACCTGAAAAGATAATCCTGATTCACTACA
132948 GTTACATGA
66 GTTACATGA
132957 GATGTGACTC
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 67 1.00
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (78 bp):
TGATTCACTATGGAAACCTAAGGCGGATAGGATTTGACCTGAAAAGATAATCCTGATTCACTACA
GTTACATGATATA
Found at i:144821 original size:5 final size:5
Alignment explanation
Indices: 144808--144851 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
144798 ACAAAATAAT
* * *
144808 GAAGA GAAGG GAAGG GAAGG GAAGA GAAGA GAAGA GAAAGA GAA
1 GAAGA GAAGA GAAGA GAAGA GAAGA GAAGA GAAGA G-AAGA GAA
144852 AAGAGAGGCC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
5 31 0.86
6 5 0.14
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (5 bp):
GAAGA
Found at i:144826 original size:10 final size:10
Alignment explanation
Indices: 144808--144845 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
144798 ACAAAATAAT
144808 GAAGAGAAGG
1 GAAGAGAAGG
*
144818 GAAGGGAAGG
1 GAAGAGAAGG
*
144828 GAAGAGAAGA
1 GAAGAGAAGG
144838 GAAGAGAA
1 GAAGAGAA
144846 AGAGAAAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (10 bp):
GAAGAGAAGG
Found at i:154227 original size:75 final size:75
Alignment explanation
Indices: 154148--154590 Score: 778
Period size: 75 Copynumber: 5.9 Consensus size: 75
154138 AAACAATAGT
* * * *
154148 AGAGGAAGCAAATGTGGTAATTGCCACAAGCCAAGTACAAGAAGAAGCGCAGCATGGGGTAAAGG
1 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCATGGGGAAAAGG
154213 AAACCATTGA
66 AAACCATTGA
154223 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCATGGGGAAAAGG
1 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCATGGGGAAAAGG
154288 AAACCATTGA
66 AAACCATTGA
* * *
154298 AGAGGAAGCAACTGTGGTAATTGCCACAAACCAAGAACAAAAAGAAGCGCTGCATGGCGAAAAGG
1 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCATGGGGAAAAGG
154363 AAACCATTGA
66 AAACCATTGA
* * * *
154373 AAAGGAAGCAAATGTGGTCATTGCAACAAACCGAGAACAAGAAGAAGCGCTGCATGGGGAAAAGG
1 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCATGGGGAAAAGG
154438 AAACCATTGA
66 AAACCATTGA
154448 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCATGGGGAAAAGG
1 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCATGGGGAAAAGG
154513 AAACCATTGA
66 AAACCATTGA
*
154523 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGTACAAGAAGAAGCGCTGCATGGGGAAAAGG
1 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCATGGGGAAAAGG
154588 AAA
66 AAA
154591 TCGCAACACC
Statistics
Matches: 349, Mismatches: 19, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 349 1.00
ACGTcount: A:0.44, C:0.16, G:0.28, T:0.12
Consensus pattern (75 bp):
AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCATGGGGAAAAGG
AAACCATTGA
Found at i:161664 original size:14 final size:14
Alignment explanation
Indices: 161645--161696 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
161635 TTATAACTTT
161645 TTAAAATTAAATAA
1 TTAAAATTAAATAA
*
161659 TTAAAATATAAATTTA
1 TTAAAAT-TAAA-TAA
*
161675 TTAATAATTTAATAA
1 TTAA-AATTAAATAA
*
161690 TTGAAAT
1 TTAAAAT
161697 CTACCTAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
14 10 0.32
15 9 0.29
16 9 0.29
17 3 0.10
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (14 bp):
TTAAAATTAAATAA
Found at i:163588 original size:25 final size:26
Alignment explanation
Indices: 163539--163588 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
163529 TATTTAACAT
** *
163539 TTAATAATTTTTTATATTTTTATTTA
1 TTAATAATTTTTTATATAGTCATTTA
163565 TTAA-AATTTTTTATATAGTCATTT
1 TTAATAATTTTTTATATAGTCATTT
163589 TAACTTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (26 bp):
TTAATAATTTTTTATATAGTCATTTA
Found at i:167977 original size:18 final size:18
Alignment explanation
Indices: 167956--167992 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
167946 TATTTAAATG
167956 AAGTA-TTATATGAAAGTA
1 AAGTACTTA-ATGAAAGTA
167974 AAGTACTTAATGAAAGTA
1 AAGTACTTAATGAAAGTA
167992 A
1 A
167993 GATGAAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.51, C:0.03, G:0.16, T:0.30
Consensus pattern (18 bp):
AAGTACTTAATGAAAGTA
Found at i:175485 original size:53 final size:55
Alignment explanation
Indices: 175404--175510 Score: 157
Period size: 53 Copynumber: 2.0 Consensus size: 55
175394 CTTACACGGT
*
175404 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACATATCATACCGAAGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
* *
175459 TCACAT-T-ATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATT
1 TCACATATCATACCGAAGCCATAGCCCAGCTATGGTCTTATACGGAATCACATT
175511 GCACCGATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
52 1 0.02
53 40 0.83
54 1 0.02
55 6 0.12
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (55 bp):
TCACATATCATACCGAAGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:175523 original size:45 final size:45
Alignment explanation
Indices: 175459--175546 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
175449 AATCACATTA
* *
175459 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAG
1 TCACATTACACCGATGCCATAGCCCAGCTATGGTCTTAAACGGAG
*
175504 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTACACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
175547 GCACACTTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (45 bp):
TCACATTACACCGATGCCATAGCCCAGCTATGGTCTTAAACGGAG
Found at i:177010 original size:30 final size:30
Alignment explanation
Indices: 176964--177052 Score: 160
Period size: 30 Copynumber: 3.0 Consensus size: 30
176954 TAAAGTCCCA
*
176964 CAGGATTCGTGCTGGAAATGTATCCGGGCG
1 CAGGCTTCGTGCTGGAAATGTATCCGGGCG
*
176994 CAGGCTTCGTGTTGGAAATGTATCCGGGCG
1 CAGGCTTCGTGCTGGAAATGTATCCGGGCG
177024 CAGGCTTCGTGCTGGAAATGTATCCGGGC
1 CAGGCTTCGTGCTGGAAATGTATCCGGGC
177053 TAAAGTCCCG
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 56 1.00
ACGTcount: A:0.18, C:0.21, G:0.36, T:0.25
Consensus pattern (30 bp):
CAGGCTTCGTGCTGGAAATGTATCCGGGCG
Found at i:179692 original size:18 final size:17
Alignment explanation
Indices: 179659--179697 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
179649 TTGTATAAAT
179659 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
179677 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
179694 TGTG
1 TGTG
179698 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:179949 original size:23 final size:23
Alignment explanation
Indices: 179922--180019 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
179912 AGTGTTATTG
179922 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
179945 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
179968 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
179990 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
180013 ATCAGTG
1 ATCAGTG
180020 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:179975 original size:45 final size:45
Alignment explanation
Indices: 179924--180012 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
179914 TGTTATTGAT
* *
179924 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
179969 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
180013 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:187304 original size:23 final size:23
Alignment explanation
Indices: 187228--187324 Score: 162
Period size: 22 Copynumber: 4.3 Consensus size: 23
187218 AGTGTATTTG
187228 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
187251 -TCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
187273 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
187295 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
187318 ATCAGTG
1 ATCAGTG
187325 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
22 41 0.59
23 28 0.41
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:207687 original size:27 final size:27
Alignment explanation
Indices: 207647--207699 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
207637 TGTTAATAGT
207647 CAAATTTAACTAAAAAAAAAATAAAGAC
1 CAAATTTAACT-AAAAAAAAATAAAGAC
* *
207675 CAAA-TTAATTAAAAAAATATAAAGA
1 CAAATTTAACTAAAAAAAAATAAAGA
207700 TTGAGAGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 14 0.61
27 5 0.22
28 4 0.17
ACGTcount: A:0.68, C:0.08, G:0.04, T:0.21
Consensus pattern (27 bp):
CAAATTTAACTAAAAAAAAATAAAGAC
Found at i:217159 original size:3 final size:3
Alignment explanation
Indices: 217151--217192 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
217141 AAGAATTGTG
217151 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
217193 TTGGATTTAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:228225 original size:3 final size:3
Alignment explanation
Indices: 228217--228251 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
228207 CAACTCTGTG
228217 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
228252 TCTAGTGTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:233627 original size:17 final size:17
Alignment explanation
Indices: 233605--233638 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
233595 TTAAATTTTA
*
233605 TATAAGTTTCTAATAAT
1 TATAAGTATCTAATAAT
*
233622 TATAAGTATGTAATAAT
1 TATAAGTATCTAATAAT
233639 CTAATTTATT
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:0.44, C:0.03, G:0.09, T:0.44
Consensus pattern (17 bp):
TATAAGTATCTAATAAT
Found at i:239496 original size:27 final size:27
Alignment explanation
Indices: 239437--239497 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
239427 AAGTCTCTAA
* * *
239437 AATTTTTAAAAATTTTTATTATACTTT
1 AATTTTTAAAAATTTTGATTAAACCTT
** *
239464 TTTTTTTGAAAATTTTGATTAAACCTT
1 AATTTTTAAAAATTTTGATTAAACCTT
239491 AATTTTT
1 AATTTTT
239498 TTTTAAAAAA
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (27 bp):
AATTTTTAAAAATTTTGATTAAACCTT
Found at i:244015 original size:23 final size:22
Alignment explanation
Indices: 243984--244027 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
243974 TATTTTTTTC
*
243984 CCAACTTTAAAATTTTTTATTAA
1 CCAAATTTAAAA-TTTTTATTAA
*
244007 CCAAATTTAACATTTTTATTA
1 CCAAATTTAAAATTTTTATTA
244028 GAGCTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.48
Consensus pattern (22 bp):
CCAAATTTAAAATTTTTATTAA
Found at i:244423 original size:22 final size:22
Alignment explanation
Indices: 244398--244448 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
244388 TAAAAGGTTA
244398 TAATCTTGAAATATTGATATCT
1 TAATCTTGAAATATTGATATCT
244420 TAATCTTGAAATATTGATATCT
1 TAATCTTGAAATATTGATATCT
244442 TAA-CTTG
1 TAATCTTG
244449 TATGGAACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 4 0.14
22 25 0.86
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (22 bp):
TAATCTTGAAATATTGATATCT
Found at i:263328 original size:5 final size:5
Alignment explanation
Indices: 263302--263359 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
263292 ATGTGTTAAA
* *
263302 ATATAT ATATT AAATT ATTATT ATATT ATAGT ATATT ATATTAT ATATT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATA-T-T ATATT
263351 ATATT ATAT
1 ATATT ATAT
263360 AAATAAGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
5 31 0.69
6 10 0.22
7 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (5 bp):
ATATT
Found at i:263338 original size:10 final size:9
Alignment explanation
Indices: 263303--263360 Score: 61
Period size: 8 Copynumber: 6.7 Consensus size: 9
263293 TGTGTTAAAA
263303 TATATATAT
1 TATATATAT
*
263312 TAAAT-TAT
1 TATATATAT
263320 TAT-TATAT
1 TATATATAT
263328 TATAGTATAT
1 TATA-TATAT
263338 TATAT-TA-
1 TATATATAT
263345 TATATTATAT
1 TATA-TATAT
263355 TATATA
1 TATATA
263361 AATAAGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
7 5 0.12
8 14 0.34
9 9 0.22
10 13 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (9 bp):
TATATATAT
Found at i:263350 original size:12 final size:12
Alignment explanation
Indices: 263305--263360 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
263295 TGTTAAAATA
*
263305 TATATATTAAAT
1 TATATATTATAT
263317 TAT-TATTATATT
1 TATATATTATA-T
263329 ATAGTATATTATAT
1 -TA-TATATTATAT
263343 TATATATTATAT
1 TATATATTATAT
263355 TATATA
1 TATATA
263361 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:264702 original size:18 final size:19
Alignment explanation
Indices: 264676--264714 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
264666 ATATATAGAT
*
264676 ATATTTATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
264694 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
264713 AT
1 AT
264715 TGAATTGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.51
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:265064 original size:39 final size:39
Alignment explanation
Indices: 264954--265088 Score: 103
Period size: 39 Copynumber: 3.4 Consensus size: 39
264944 GACCTCGAGT
* * * * *
264954 CGATGAGATACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
264995 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
265033 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
265072 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
265089 CCATATTGGT
Statistics
Matches: 74, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
38 18 0.24
39 35 0.47
40 4 0.05
41 17 0.23
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:277050 original size:32 final size:33
Alignment explanation
Indices: 277014--277081 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
277004 TTTAGAAATT
277014 TATTTTA-AGAAAATTCATC-AAACAACAGAAAA
1 TATTTTATAGAAAA-TCATCTAAACAACAGAAAA
* *
277046 TATTTTATATAAAATCATCTAAACATCAGAAAA
1 TATTTTATAGAAAATCATCTAAACAACAGAAAA
277079 TAT
1 TAT
277082 CAACTATTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
32 12 0.38
33 20 0.62
ACGTcount: A:0.53, C:0.12, G:0.04, T:0.31
Consensus pattern (33 bp):
TATTTTATAGAAAATCATCTAAACAACAGAAAA
Found at i:278703 original size:18 final size:18
Alignment explanation
Indices: 278676--278731 Score: 94
Period size: 18 Copynumber: 3.1 Consensus size: 18
278666 TACGACTGTT
278676 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
278694 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
278712 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
278730 TA
1 TA
278732 TAGTAGTTGG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:287532 original size:18 final size:18
Alignment explanation
Indices: 287509--287545 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
287499 TGAGTCACAC
287509 GCTTGTGTGCCAGGCCAT
1 GCTTGTGTGCCAGGCCAT
*
287527 GCTTGTGTGTCAGGCCAT
1 GCTTGTGTGCCAGGCCAT
287545 G
1 G
287546 TGAGCCACAC
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:0.11, C:0.24, G:0.35, T:0.30
Consensus pattern (18 bp):
GCTTGTGTGCCAGGCCAT
Found at i:288066 original size:13 final size:15
Alignment explanation
Indices: 288048--288079 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
288038 TCTTTCCCTA
288048 TTTTTCA-TG-TTCT
1 TTTTTCATTGTTTCT
288061 TTTTTCATTGTTTCT
1 TTTTTCATTGTTTCT
288076 TTTT
1 TTTT
288080 GTTTTCTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 2 0.12
15 8 0.47
ACGTcount: A:0.06, C:0.12, G:0.06, T:0.75
Consensus pattern (15 bp):
TTTTTCATTGTTTCT
Found at i:303164 original size:3 final size:3
Alignment explanation
Indices: 303156--303189 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
303146 TGACTAAGAA
303156 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
303190 TATTGGGAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:319314 original size:27 final size:27
Alignment explanation
Indices: 319283--319460 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
319273 TAAATTGTAC
*
319283 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * * *
319310 TGCACTAAGTGTGCAAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
319336 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
319364 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
319391 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * * *
319419 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
319446 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
319461 GACTTAATAT
Statistics
Matches: 126, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 102 0.81
28 24 0.19
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:319433 original size:55 final size:54
Alignment explanation
Indices: 319283--319460 Score: 223
Period size: 54 Copynumber: 3.3 Consensus size: 54
319273 TAAATTGTAC
* * **
319283 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCAAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGT
* * * *
319336 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATGT
1 A-GCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGT
* * *
319391 AGCACTAAGTGTGCGAGTTTGATTATGTGGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGT
*
319446 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
319461 GACTTAATAT
Statistics
Matches: 107, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 59 0.55
55 47 0.44
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGT
Found at i:328702 original size:27 final size:27
Alignment explanation
Indices: 328671--328848 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
328661 TAAATTGTAC
*
328671 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * * *
328698 TGCACTAAGTGTGCAAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
328724 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
328752 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
328779 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * * *
328807 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
328834 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
328849 GACTTAATAT
Statistics
Matches: 126, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 102 0.81
28 24 0.19
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:328821 original size:55 final size:54
Alignment explanation
Indices: 328671--328848 Score: 223
Period size: 54 Copynumber: 3.3 Consensus size: 54
328661 TAAATTGTAC
* * **
328671 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCAAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGT
* * * *
328724 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATGT
1 A-GCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGT
* * *
328779 AGCACTAAGTGTGCGAGTTTGATTATGTGGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGT
*
328834 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
328849 GACTTAATAT
Statistics
Matches: 107, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 59 0.55
55 47 0.44
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGT
Found at i:333271 original size:21 final size:21
Alignment explanation
Indices: 333245--333285 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
333235 AGACAAGCGA
* *
333245 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
333266 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
333286 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:335443 original size:46 final size:46
Alignment explanation
Indices: 335383--335908 Score: 751
Period size: 46 Copynumber: 12.0 Consensus size: 46
335373 TTTGACATGA
* * * * * *
335383 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
335429 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
335475 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
335521 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
335567 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C---TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
335605 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
335651 TGCCATGGTATCTTTCAACCATGGTCTCACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
335697 TGCCATGGTATCTTTCAACCATGGTCTTACAC---TC--A--A-GT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
335735 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
335781 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
335827 TGCCATGGTATCTTTCAACCATGATCTTACAC---TC--AT---GT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
335865 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
335909 AGAGCACACT
Statistics
Matches: 438, Mismatches: 17, Indels: 50
0.87 0.03 0.10
Matches are distributed among these distances:
38 101 0.23
39 1 0.00
40 3 0.01
41 7 0.02
43 8 0.02
44 3 0.01
45 5 0.01
46 310 0.71
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:335656 original size:84 final size:86
Alignment explanation
Indices: 335427--335908 Score: 646
Period size: 84 Copynumber: 5.5 Consensus size: 86
335417 TTTCTGTCAT
*** *
335427 GTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
335492 ACCATGGTCTTACACATTTCATATCAG
66 ACCATGGTCTT--ACA--TC--ATCAG
*
335519 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
335584 ACCATGGTCTTACA-C-TCAG
66 ACCATGGTCTTACATCATCAG
335603 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
*
335668 ACCATGGTCTCACACATTTCATATCAG
66 ACCATGGTCT--TACA--TC--ATCAG
335695 GTTGCCATGGTATCTTTCAACCATGGTCTTACAC---TC--A--A-GTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
335752 ACCATGGTCTTACACATTTCATATCAG
66 ACCATGGTCTT--ACA--TC--ATCAG
335779 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
* *
335844 ACCATGATCTTACA-C-TCAT
66 ACCATGGTCTTACATCATCAG
335863 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
335909 AGAGCACACT
Statistics
Matches: 362, Mismatches: 10, Indels: 44
0.87 0.02 0.11
Matches are distributed among these distances:
84 204 0.56
85 1 0.00
86 3 0.01
87 5 0.01
89 4 0.01
90 6 0.02
91 1 0.00
92 138 0.38
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.37
Consensus pattern (86 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
ACCATGGTCTTACATCATCAG
Found at i:335663 original size:130 final size:130
Alignment explanation
Indices: 335383--335908 Score: 847
Period size: 130 Copynumber: 4.0 Consensus size: 130
335373 TTTGACATGA
* * * * * *
335383 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTATCTTTCAA
* *
335447 CCATGGTCTTGTTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
65 CCATGGTC---TT-A---CA-CTCAAGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
335512 ATATCAGGT
122 ATATCAGGT
*
335521 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
*
335586 CATGGTCTTACACTCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
66 CATGGTCTTACACTCAAGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
335651 TGCCATGGTATCTTTCAACCATGGTCTCACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
335716 CATGGTCTTACACTCAAGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
66 CATGGTCTTACACTCAAGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
335781 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
* *
335846 CATGATCTTACACTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
66 CATGGTCTTACACTCAAGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
335909 AGAGCACACT
Statistics
Matches: 372, Mismatches: 15, Indels: 10
0.94 0.04 0.03
Matches are distributed among these distances:
130 303 0.81
131 2 0.01
134 1 0.00
135 2 0.01
137 3 0.01
138 61 0.16
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (130 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACTCAAGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:338858 original size:30 final size:30
Alignment explanation
Indices: 338822--338881 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
338812 TTCCCGAGCC
338822 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
338852 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
338882 CGTATTAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:339354 original size:47 final size:47
Alignment explanation
Indices: 339303--339479 Score: 211
Period size: 47 Copynumber: 3.8 Consensus size: 47
339293 TGGTTGAACA
*
339303 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
* * * *
339350 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGT-AACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA--A--CG
*
339397 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-AACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
* *
339443 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
339480 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 12, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
43 2 0.02
44 4 0.04
45 1 0.01
46 38 0.35
47 58 0.53
48 3 0.03
50 4 0.04
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
Found at i:345694 original size:73 final size:73
Alignment explanation
Indices: 345575--345720 Score: 292
Period size: 73 Copynumber: 2.0 Consensus size: 73
345565 CATGTTACTT
345575 TTACCATTCCTAGGTTCATATGAACATCTTTTATGTTCATTGTTACTGTTATTCTTATTGAAAGT
1 TTACCATTCCTAGGTTCATATGAACATCTTTTATGTTCATTGTTACTGTTATTCTTATTGAAAGT
345640 ACAATAAA
66 ACAATAAA
345648 TTACCATTCCTAGGTTCATATGAACATCTTTTATGTTCATTGTTACTGTTATTCTTATTGAAAGT
1 TTACCATTCCTAGGTTCATATGAACATCTTTTATGTTCATTGTTACTGTTATTCTTATTGAAAGT
345713 ACAATAAA
66 ACAATAAA
345721 CATTTTAATA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (73 bp):
TTACCATTCCTAGGTTCATATGAACATCTTTTATGTTCATTGTTACTGTTATTCTTATTGAAAGT
ACAATAAA
Found at i:356337 original size:19 final size:19
Alignment explanation
Indices: 356305--356342 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
356295 AATAAAATTT
*
356305 AAATAATAATTTATTGTTTG
1 AAATAATAAGTTATT-TTTG
356325 AAAT-ATAAGTTATTTTTG
1 AAATAATAAGTTATTTTTG
356343 CTCTGATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 9 0.53
20 4 0.24
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (19 bp):
AAATAATAAGTTATTTTTG
Found at i:357735 original size:15 final size:15
Alignment explanation
Indices: 357715--357743 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
357705 TGGTTTTTGG
357715 GTGAAGCATGCTGAC
1 GTGAAGCATGCTGAC
357730 GTGAAGCATGCTGA
1 GTGAAGCATGCTGA
357744 GACAGGTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.17, G:0.34, T:0.21
Consensus pattern (15 bp):
GTGAAGCATGCTGAC
Found at i:360305 original size:50 final size:50
Alignment explanation
Indices: 360144--360391 Score: 302
Period size: 50 Copynumber: 4.8 Consensus size: 50
360134 GATAATAACA
* ** *
360144 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGT-CTCGG
* * *
360195 TGCCCATGCCATGTCCCAGACATGGTCTTATA-GGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
*
360244 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
* * *
360294 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC--G-TC-T-CGG
*
360349 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
360392 TTACCCAAAT
Statistics
Matches: 171, Mismatches: 18, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
48 1 0.01
49 36 0.21
50 60 0.35
51 29 0.17
52 1 0.01
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
Found at i:360321 original size:99 final size:104
Alignment explanation
Indices: 360143--360391 Score: 348
Period size: 100 Copynumber: 2.4 Consensus size: 104
360133 TGATAATAAC
**
360143 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
360208 TCCCAGACATGGTCTTATA-GGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
360244 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
360307 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
360349 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
360392 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 8, Indels: 11
0.87 0.05 0.07
Matches are distributed among these distances:
98 1 0.01
99 39 0.30
100 46 0.35
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:360507 original size:13 final size:13
Alignment explanation
Indices: 360486--360517 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
360476 GCTTGGATCA
*
360486 TCATCAAATAAAT
1 TCATAAAATAAAT
360499 TCATAAAATAAAT
1 TCATAAAATAAAT
360512 TCATAA
1 TCATAA
360518 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:360764 original size:30 final size:29
Alignment explanation
Indices: 360729--360785 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
360719 CCTCGACTCT
*
360729 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTAC-ATTTTGCCCCTA
* *
360759 AACTTTTACATAATTACATTTTTCCCC
1 AACTTTTACAAAATTACATTTTGCCCC
360786 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.32, C:0.25, G:0.02, T:0.42
Consensus pattern (29 bp):
AACTTTTACAAAATTACATTTTGCCCCTA
Found at i:375402 original size:45 final size:45
Alignment explanation
Indices: 375333--375420 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
375323 ATAAGTGTGC
* *
375333 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTGACT
*
375378 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGA
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTGA
375421 TAATGTGATT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (45 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTGACT
Found at i:375451 original size:53 final size:55
Alignment explanation
Indices: 375369--375475 Score: 157
Period size: 53 Copynumber: 2.0 Consensus size: 55
375359 GCATCGGTGC
*
375369 AATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAT-A-ATGTGAT
1 AATGTGACTCCGTATAAGACCATAGCTGGGATATGGCATCGGTATGATATGTGAT
* *
375422 AATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 AATGTGACTCCGTATAAGACCATAG-CTGGGATATGGCATCGGTATGATATGTGA
375476 ACCGTGTAAG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
52 1 0.02
53 40 0.83
54 1 0.02
55 6 0.12
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (55 bp):
AATGTGACTCCGTATAAGACCATAGCTGGGATATGGCATCGGTATGATATGTGAT
Found at i:382898 original size:45 final size:45
Alignment explanation
Indices: 382829--382916 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
382819 ATAAGTGTGC
* *
382829 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTGACT
*
382874 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGA
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTGA
382917 TAATGTGATT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (45 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTGACT
Found at i:382947 original size:53 final size:55
Alignment explanation
Indices: 382865--382971 Score: 157
Period size: 53 Copynumber: 2.0 Consensus size: 55
382855 GCATCGGTGC
*
382865 AATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAT-A-ATGTGAT
1 AATGTGACTCCGTATAAGACCATAGCTGGGATATGGCATCGGTATGATATGTGAT
* *
382918 AATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 AATGTGACTCCGTATAAGACCATAG-CTGGGATATGGCATCGGTATGATATGTGA
382972 ACCGTGTAAG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
52 1 0.02
53 40 0.83
54 1 0.02
55 6 0.12
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (55 bp):
AATGTGACTCCGTATAAGACCATAGCTGGGATATGGCATCGGTATGATATGTGAT
Found at i:385588 original size:20 final size:18
Alignment explanation
Indices: 385552--385596 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
385542 AAACCTTGAA
385552 TTTTCCCTTTCTTCTTTC
1 TTTTCCCTTTCTTCTTTC
385570 TTTTCTCCTTTCTTTCTTTC
1 TTTTC-CCTTTC-TTCTTTC
385590 -TTTCCCT
1 TTTTCCCT
385597 GCTTTTCGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.32
19 10 0.40
20 7 0.28
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTCCCTTTCTTCTTTC
Found at i:385830 original size:20 final size:20
Alignment explanation
Indices: 385807--385846 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
385797 TATAATTATT
385807 TAATTAATAAATATCTTTTA
1 TAATTAATAAATATCTTTTA
385827 TAATTAATAAATATCTTTTA
1 TAATTAATAAATATCTTTTA
385847 ATACTTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (20 bp):
TAATTAATAAATATCTTTTA
Found at i:389574 original size:10 final size:11
Alignment explanation
Indices: 389550--389574 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
389540 TCTATGATAC
389550 TTTTATCTCAT
1 TTTTATCTCAT
389561 TTTTATCTCAT
1 TTTTATCTCAT
389572 TTT
1 TTT
389575 CCCCAAGTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTTATCTCAT
Found at i:402268 original size:30 final size:30
Alignment explanation
Indices: 402233--402300 Score: 127
Period size: 30 Copynumber: 2.3 Consensus size: 30
402223 CTTGAATATG
402233 TTTTTATATTATAAAATTATATTTTTACCT
1 TTTTTATATTATAAAATTATATTTTTACCT
402263 TTTTTATATTATAAAATTATATTTTTACCT
1 TTTTTATATTATAAAATTATATTTTTACCT
*
402293 TTATTATA
1 TTTTTATA
402301 CAGGAACAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (30 bp):
TTTTTATATTATAAAATTATATTTTTACCT
Found at i:403410 original size:27 final size:27
Alignment explanation
Indices: 403359--403411 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
403349 GTTTTAACTT
*
403359 AAATTTAAAATTCAACTTAATTAATTC
1 AAATTTAAAATTCAACTCAATTAATTC
403386 AAATTT-AAATTCGAA-TCAATCTAATT
1 AAATTTAAAATTC-AACTCAAT-TAATT
403412 TGATCCTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.47, C:0.11, G:0.02, T:0.40
Consensus pattern (27 bp):
AAATTTAAAATTCAACTCAATTAATTC
Found at i:403447 original size:41 final size:41
Alignment explanation
Indices: 403390--403471 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
403380 TAATTCAAAT
403390 TTAAATTCGAATCAATCTAATTTGATCCTAAAAAATTAATA
1 TTAAATTCGAATCAATCTAATTTGATCCTAAAAAATTAATA
403431 TTAAATTCGAATCAATCTAATTTGATCCTAAAAAATTAATA
1 TTAAATTCGAATCAATCTAATTTGATCCTAAAAAATTAATA
403472 GTCTAAATCC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.46, C:0.12, G:0.05, T:0.37
Consensus pattern (41 bp):
TTAAATTCGAATCAATCTAATTTGATCCTAAAAAATTAATA
Found at i:407149 original size:31 final size:31
Alignment explanation
Indices: 407090--407149 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
407080 ATTTTAGACC
** *
407090 CCAATATGGGAACAATTACCATGCTCAAGCA
1 CCAATATAAGAACAATTACCAAGCTCAAGCA
* *
407121 CCAATATAAGAACAATTATCAAGTTCAAG
1 CCAATATAAGAACAATTACCAAGCTCAAG
407150 ACTAATTTAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.43, C:0.22, G:0.13, T:0.22
Consensus pattern (31 bp):
CCAATATAAGAACAATTACCAAGCTCAAGCA
Found at i:422483 original size:19 final size:21
Alignment explanation
Indices: 422455--422497 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
422445 GAATTTAAGT
422455 TTAAAATTTAAAAT-TTAA-A
1 TTAAAATTTAAAATATTAATA
*
422474 TTAAATTTTAAAATATTAATA
1 TTAAAATTTAAAATATTAATA
422495 TTA
1 TTA
422498 CAAGAACGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 13 0.62
20 4 0.19
21 4 0.19
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TTAAAATTTAAAATATTAATA
Found at i:424207 original size:21 final size:21
Alignment explanation
Indices: 424183--424231 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
424173 TGATGGTGGT
* * *
424183 GGTGGTGAGTGAACTGGAGGA
1 GGTGGTGAATAAACAGGAGGA
* *
424204 GGTGGGGAATAAACAGGAGGT
1 GGTGGTGAATAAACAGGAGGA
424225 GGTGGTG
1 GGTGGTG
424232 GTGGTGGAGA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.24, C:0.04, G:0.53, T:0.18
Consensus pattern (21 bp):
GGTGGTGAATAAACAGGAGGA
Done.