Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 151 of 228
Found at i:45447619 original size:30 final size:30
Alignment explanation
Indices: 45447585--45447675 Score: 85
Period size: 30 Copynumber: 2.9 Consensus size: 30
45447575 CATTGAAAAA
*
45447585 GAAAAAGAAACTGCAAAA-GAAAAGGAAATT
1 GAAAAAGAAACTG-AAAAGGAAAAAGAAATT
** * *
45447615 GAAAAAGTGAGTGAAAAGGAAAAAGAGATT
1 GAAAAAGAAACTGAAAAGGAAAAAGAAATT
*
45447645 GAAAAAGAAATTGAAAGAGAAGAAAAAGAAA
1 GAAAAAGAAACTGAAA-AG--GAAAAAGAAA
45447676 GAGTGGGAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
29 4 0.08
30 33 0.69
31 2 0.04
33 9 0.19
ACGTcount: A:0.64, C:0.02, G:0.24, T:0.10
Consensus pattern (30 bp):
GAAAAAGAAACTGAAAAGGAAAAAGAAATT
Found at i:45447636 original size:18 final size:18
Alignment explanation
Indices: 45447615--45447654 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
45447605 AAAGGAAATT
* *
45447615 GAAAAAGTGAGTGAAAAG
1 GAAAAAGAGAGTGAAAAA
*
45447633 GAAAAAGAGATTGAAAAA
1 GAAAAAGAGAGTGAAAAA
45447651 GAAA
1 GAAA
45447655 TTGAAAGAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.28, T:0.10
Consensus pattern (18 bp):
GAAAAAGAGAGTGAAAAA
Found at i:45447702 original size:16 final size:15
Alignment explanation
Indices: 45447666--45447708 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
45447656 TGAAAGAGAA
45447666 GAAAAAGAAAGAGTG
1 GAAAAAGAAAGAGTG
*
45447681 GGAAAAGAAATCGAGT-
1 GAAAAAGAAA--GAGTG
45447697 GAAAAAGAAAGA
1 GAAAAAGAAAGA
45447709 AAATTTACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
14 2 0.08
15 9 0.38
16 9 0.38
17 4 0.17
ACGTcount: A:0.60, C:0.02, G:0.30, T:0.07
Consensus pattern (15 bp):
GAAAAAGAAAGAGTG
Found at i:45450363 original size:20 final size:20
Alignment explanation
Indices: 45450338--45450403 Score: 78
Period size: 20 Copynumber: 3.3 Consensus size: 20
45450328 TCCATGCGGT
*
45450338 TCAGCTCACTCGAGCTCAAG
1 TCAGCTCACTCAAGCTCAAG
*
45450358 TCAGCTCATTCAAGCTCAAG
1 TCAGCTCACTCAAGCTCAAG
* * * *
45450378 TCAACTCCCACAAGCTCAAT
1 TCAGCTCACTCAAGCTCAAG
45450398 TCAGCT
1 TCAGCT
45450404 AATTGAGCTC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.29, C:0.35, G:0.14, T:0.23
Consensus pattern (20 bp):
TCAGCTCACTCAAGCTCAAG
Found at i:45452182 original size:10 final size:10
Alignment explanation
Indices: 45452167--45452204 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
45452157 GCTCGTTTCC
*
45452167 AGCTCACTCG
1 AGCTCAATCG
45452177 AGCTCAAGTC-
1 AGCTCAA-TCG
45452187 AGCTCAATCG
1 AGCTCAATCG
45452197 AGCTCAAT
1 AGCTCAAT
45452205 TTAGCTACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (10 bp):
AGCTCAATCG
Found at i:45452191 original size:20 final size:20
Alignment explanation
Indices: 45452166--45452203 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
45452156 AGCTCGTTTC
*
45452166 CAGCTCACTCGAGCTCAAGT
1 CAGCTCAATCGAGCTCAAGT
45452186 CAGCTCAATCGAGCTCAA
1 CAGCTCAATCGAGCTCAA
45452204 TTTAGCTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.18
Consensus pattern (20 bp):
CAGCTCAATCGAGCTCAAGT
Found at i:45452210 original size:20 final size:20
Alignment explanation
Indices: 45452167--45452227 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
45452157 GCTCGTTTCC
* * *
45452167 AGCTCACTCGAGCTCAAGTC
1 AGCTCAATCGAGCTCAATTT
45452187 AGCTCAATCGAGCTCAATTT
1 AGCTCAATCGAGCTCAATTT
45452207 AGCTACAATTC-AGCTC-ATTT
1 AGCT-CAA-TCGAGCTCAATTT
45452227 A
1 A
45452228 TTTTATTGGT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 26 0.72
21 8 0.22
22 2 0.06
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (20 bp):
AGCTCAATCGAGCTCAATTT
Found at i:45452221 original size:11 final size:10
Alignment explanation
Indices: 45452177--45452223 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
45452167 AGCTCACTCG
*
45452177 AGCTCAAGTC
1 AGCTCAATTC
45452187 AGCTCAA-TC
1 AGCTCAATTC
*
45452196 GAGCTCAATTT
1 -AGCTCAATTC
45452207 AGCTACAATTC
1 AGCT-CAATTC
45452218 AGCTCA
1 AGCTCA
45452224 TTTATTTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 2 0.06
10 20 0.62
11 10 0.31
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.26
Consensus pattern (10 bp):
AGCTCAATTC
Found at i:45452728 original size:13 final size:13
Alignment explanation
Indices: 45452710--45452734 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45452700 GTATTGATCA
45452710 TGTGTTCACACCT
1 TGTGTTCACACCT
45452723 TGTGTTCACACC
1 TGTGTTCACACC
45452735 ATGATGACCA
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:0.16, C:0.32, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTGTTCACACCT
Found at i:45453715 original size:28 final size:27
Alignment explanation
Indices: 45453684--45453747 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 27
45453674 ACTTGTCAGC
*
45453684 TTATTACA-TGTTTTAATTATGTTTTAAT
1 TTATTACAGTG-TTTAA-TATGTTTTAAA
*
45453712 TTATTATGAGTGTTTAATATGTTTTAAA
1 TTATTA-CAGTGTTTAATATGTTTTAAA
45453740 TTATTACA
1 TTATTACA
45453748 AGAATTAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 1 0.03
28 22 0.71
29 6 0.19
30 2 0.06
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.56
Consensus pattern (27 bp):
TTATTACAGTGTTTAATATGTTTTAAA
Found at i:45455081 original size:13 final size:13
Alignment explanation
Indices: 45455063--45455088 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
45455053 ACCTGAAAGC
45455063 AATTTAATTCATA
1 AATTTAATTCATA
45455076 AATTTAATTCATA
1 AATTTAATTCATA
45455089 TTAGGACACA
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:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
AATTTAATTCATA
Found at i:45455503 original size:20 final size:21
Alignment explanation
Indices: 45455478--45455516 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
45455468 TCAAACAAGC
45455478 AAATGAGCTCAA-TGAGCTGG
1 AAATGAGCTCAATTGAGCTGG
*
45455498 AAATGAGCTGAATTGAGCT
1 AAATGAGCTCAATTGAGCT
45455517 CAACGAGCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.23
Consensus pattern (21 bp):
AAATGAGCTCAATTGAGCTGG
Found at i:45460205 original size:14 final size:14
Alignment explanation
Indices: 45460178--45460211 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
45460168 TATAAAAATT
45460178 TAAACTAAATAAAA
1 TAAACTAAATAAAA
45460192 TAAA-TAAATAAAAA
1 TAAACTAAAT-AAAA
45460206 TAAACT
1 TAAACT
45460212 TTACAACTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.28
14 12 0.67
15 1 0.06
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAACTAAATAAAA
Found at i:45468267 original size:13 final size:13
Alignment explanation
Indices: 45468249--45468287 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
45468239 CAAAACTAGC
45468249 TTTTTTTTACAAT
1 TTTTTTTTACAAT
45468262 TTTTTTTTACGAAT
1 TTTTTTTTAC-AAT
*
45468276 TTTTTTTCACAA
1 TTTTTTTTACAA
45468288 CTTGATATCC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.23, C:0.10, G:0.03, T:0.64
Consensus pattern (13 bp):
TTTTTTTTACAAT
Found at i:45468268 original size:14 final size:14
Alignment explanation
Indices: 45468249--45468282 Score: 61
Period size: 13 Copynumber: 2.5 Consensus size: 14
45468239 CAAAACTAGC
45468249 TTTTTTTTAC-AAT
1 TTTTTTTTACGAAT
45468262 TTTTTTTTACGAAT
1 TTTTTTTTACGAAT
45468276 TTTTTTT
1 TTTTTTT
45468283 CACAACTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.50
14 10 0.50
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.74
Consensus pattern (14 bp):
TTTTTTTTACGAAT
Found at i:45480370 original size:14 final size:13
Alignment explanation
Indices: 45480353--45480432 Score: 60
Period size: 13 Copynumber: 6.1 Consensus size: 13
45480343 AGACCGTATG
45480353 CAATTTTTTTTTT
1 CAATTTTTTTTTT
**
45480366 GCAATTTTTTCCTT
1 -CAATTTTTTTTTT
45480380 C--TTTTTTTTTT
1 CAATTTTTTTTTT
45480391 CAGA-TTTTTTTTT
1 CA-ATTTTTTTTTT
*
45480404 CGAAACTTTTTTTTT
1 C--AATTTTTTTTTT
45480419 -AACTTTTTTTTTT
1 CAA-TTTTTTTTTT
45480432 C
1 C
45480433 GAAGCTACGA
Statistics
Matches: 53, Mismatches: 5, Indels: 16
0.72 0.07 0.22
Matches are distributed among these distances:
11 9 0.17
12 2 0.04
13 20 0.38
14 12 0.23
15 10 0.19
ACGTcount: A:0.14, C:0.12, G:0.04, T:0.70
Consensus pattern (13 bp):
CAATTTTTTTTTT
Found at i:45480413 original size:28 final size:28
Alignment explanation
Indices: 45480382--45480435 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
45480372 TTTTCCTTCT
* *
45480382 TTTTTTTTTCAGATTTTTTTTTCGAAAC
1 TTTTTTTTTAACATTTTTTTTTCGAAAC
*
45480410 TTTTTTTTTAACTTTTTTTTTTCGAA
1 TTTTTTTTTAACATTTTTTTTTCGAA
45480436 GCTACGATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.17, C:0.09, G:0.06, T:0.69
Consensus pattern (28 bp):
TTTTTTTTTAACATTTTTTTTTCGAAAC
Found at i:45482262 original size:20 final size:20
Alignment explanation
Indices: 45482239--45482285 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
45482229 GGGTTAAGAT
*
45482239 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
45482259 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
*
45482279 CGAGCTG
1 TGAGCTG
45482286 GAAACGAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.21, C:0.15, G:0.36, T:0.28
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:45484005 original size:48 final size:48
Alignment explanation
Indices: 45483953--45484056 Score: 133
Period size: 48 Copynumber: 2.2 Consensus size: 48
45483943 TTGTCTTTTC
*
45483953 TTTCTTTTTCAATTT-TCTCT-TTTTCCTCACA-CTTTTGTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTT--TCACATCCTTT-TTCAATCTCAA
* *
45484001 TTTCTTTTTCGATTTCTTTCTCTTTTTCACATCCTTTTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
45484049 TTTCTTTT
1 TTTCTTTT
45484057 CCATGACACT
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 38 0.76
49 8 0.16
50 4 0.08
ACGTcount: A:0.14, C:0.24, G:0.02, T:0.60
Consensus pattern (48 bp):
TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
Found at i:45484150 original size:21 final size:21
Alignment explanation
Indices: 45484121--45484176 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
45484111 CAAGCTCTCT
*
45484121 TTCAATTTCTTTTTTCGCTTT-
1 TTCATTTTCTTTTTTC-CTTTC
* ** *
45484142 TTCTTTTTCAATTTTCTTTTC
1 TTCATTTTCTTTTTTCCTTTC
45484163 TTCATTTTCTTTTT
1 TTCATTTTCTTTTT
45484177 CTCTCACTTT
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.71
Consensus pattern (21 bp):
TTCATTTTCTTTTTTCCTTTC
Found at i:45484169 original size:14 final size:14
Alignment explanation
Indices: 45484120--45484176 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
45484110 TCAAGCTCTC
45484120 TTTCAA-TTTCTTT
1 TTTCAATTTTCTTT
**
45484133 TTTCGCTTTT-TCTT
1 TTTCAATTTTCT-TT
45484147 TTTCAATTTTCTTT
1 TTTCAATTTTCTTT
45484161 TCTTC-ATTTTCTTT
1 T-TTCAATTTTCTTT
45484175 TT
1 TT
45484177 CTCTCACTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
13 6 0.17
14 26 0.72
15 4 0.11
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.72
Consensus pattern (14 bp):
TTTCAATTTTCTTT
Found at i:45484213 original size:41 final size:39
Alignment explanation
Indices: 45484118--45484257 Score: 124
Period size: 41 Copynumber: 3.5 Consensus size: 39
45484108 TTTCAAGCTC
* *
45484118 TCTTTCAATTTCTTTTTTCGCTTTTTCTTTTTCAATTTTCTTT
1 TCTTTCAATTTC-TTTTT--CTTCTACTTTTTC-ATTTTCTTT
*
45484161 TC-TTCATTTTCTTTTTC-TCTCACTTTTTCGATTTT-TTT
1 TCTTTCAATTTCTTTTTCTTCT-ACTTTTTC-ATTTTCTTT
* * * *
45484199 TCTTTTGCAATTTCTTTTTCTTCTTCGTTTTCTTTTTGTTT
1 TC-TTT-CAATTTCTTTTTCTTCTACTTTTTCATTTTCTTT
45484240 TCTTTCAATTTCTTTTTC
1 TCTTTCAATTTCTTTTTC
45484258 AATCTCTTTC
Statistics
Matches: 83, Mismatches: 8, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
38 7 0.08
39 26 0.31
40 9 0.11
41 28 0.34
42 11 0.13
43 2 0.02
ACGTcount: A:0.08, C:0.19, G:0.04, T:0.69
Consensus pattern (39 bp):
TCTTTCAATTTCTTTTTCTTCTACTTTTTCATTTTCTTT
Found at i:45484257 original size:6 final size:6
Alignment explanation
Indices: 45484138--45484244 Score: 56
Period size: 6 Copynumber: 17.7 Consensus size: 6
45484128 TCTTTTTTCG
* * * **
45484138 CTTTTT CTTTTT CAATTTT CTTTTCTT CATTTT CTTTTT CTCTCA CTTTTT
1 CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
** * ** * *
45484189 CGATTT -TTTTT CTTTTG CAATTT CTTTTT CTTCTT CGTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
45484236 -GTTTT CTTT
1 CTTTTT CTTT
45484245 CAATTTCTTT
Statistics
Matches: 70, Mismatches: 27, Indels: 8
0.67 0.26 0.08
Matches are distributed among these distances:
5 7 0.10
6 51 0.73
7 9 0.13
8 3 0.04
ACGTcount: A:0.07, C:0.19, G:0.04, T:0.71
Consensus pattern (6 bp):
CTTTTT
Found at i:45485342 original size:13 final size:13
Alignment explanation
Indices: 45485326--45485351 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
45485316 TTTTTTTCGA
45485326 TTTTTTTGAATTT
1 TTTTTTTGAATTT
45485339 TTTTTTTGAATTT
1 TTTTTTTGAATTT
45485352 CTTCTCTTTT
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:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (13 bp):
TTTTTTTGAATTT
Found at i:45486890 original size:20 final size:20
Alignment explanation
Indices: 45486867--45486913 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
45486857 GGGTTAAGAT
*
45486867 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
45486887 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
45486907 TGAGCTG
1 TGAGCTG
45486914 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:45488554 original size:30 final size:30
Alignment explanation
Indices: 45488509--45488582 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
45488499 AGTTTTTCCC
45488509 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* * *
45488539 AGTTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
45488569 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
45488583 TGGCTTAAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
29 4 0.11
30 34 0.89
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:45488572 original size:20 final size:20
Alignment explanation
Indices: 45488509--45488573 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
45488499 AGTTTTTCCC
* * * *
45488509 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
45488529 AGCTTAATTTAG-TT-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
45488548 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
45488569 AGCTC
1 AGCTC
45488574 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 2 0.06
20 26 0.74
21 5 0.14
22 1 0.03
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:45494630 original size:12 final size:12
Alignment explanation
Indices: 45494613--45494660 Score: 87
Period size: 12 Copynumber: 4.0 Consensus size: 12
45494603 TTGTAGATTC
*
45494613 AAAAAAAAATCG
1 AAAAAAAAATTG
45494625 AAAAAAAAATTG
1 AAAAAAAAATTG
45494637 AAAAAAAAATTG
1 AAAAAAAAATTG
45494649 AAAAAAAAATTG
1 AAAAAAAAATTG
45494661 CATACGGTCT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.75, C:0.02, G:0.08, T:0.15
Consensus pattern (12 bp):
AAAAAAAAATTG
Found at i:45497166 original size:20 final size:20
Alignment explanation
Indices: 45497120--45497166 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
45497110 AGCTCGTTTC
*
45497120 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
45497140 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
45497160 CAGCTCA
1 CAGCTCA
45497167 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:45499092 original size:28 final size:27
Alignment explanation
Indices: 45499035--45499186 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
45499025 TAAATTGTGC
*
45499035 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
45499062 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
45499090 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
45499117 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
45499145 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
45499172 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
45499187 GACTTAATAT
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:45499099 original size:55 final size:55
Alignment explanation
Indices: 45499035--45499186 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
45499025 TAAATTGTGC
*
45499035 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
45499090 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
45499145 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
45499187 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:45505241 original size:21 final size:21
Alignment explanation
Indices: 45505196--45505258 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
45505186 TTTGAACCAT
* *
45505196 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
45505218 TACCATTTCGTACCAATTCCA
1 TACCATTTCGTACCAATTCCA
* *
45505239 TACTATTTCGAACCAATTCC
1 TACCATTTCGTACCAATTCC
45505259 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 24 0.65
22 13 0.35
ACGTcount: A:0.33, C:0.32, G:0.05, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:45505512 original size:17 final size:18
Alignment explanation
Indices: 45505476--45505517 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
45505466 AAATAGGTAC
45505476 AAAAAAATTCAAAATCGAA
1 AAAAAAATTCAAAA-CGAA
*
45505495 AAAAAAATTGAAAA-GAA
1 AAAAAAATTCAAAACGAA
45505512 AAAAAA
1 AAAAAA
45505518 TTGCATACGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.41
19 13 0.59
ACGTcount: A:0.76, C:0.05, G:0.07, T:0.12
Consensus pattern (18 bp):
AAAAAAATTCAAAACGAA
Found at i:45524907 original size:20 final size:20
Alignment explanation
Indices: 45524861--45524907 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
45524851 AGCTCGTTTC
* *
45524861 CAGCTCACTCGAGCTTAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
45524881 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
45524901 CAGCTCA
1 CAGCTCA
45524908 ATCTTAACCC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:45526413 original size:13 final size:14
Alignment explanation
Indices: 45526395--45526444 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 14
45526385 CAAAAAAATC
45526395 AAAAAAA-TTCGAA
1 AAAAAAATTTCGAA
*
45526408 AAAAAAATTGATTGAAA
1 AAAAAAATT--TCG-AA
45526425 AAAAAAATTTC-AA
1 AAAAAAATTTCGAA
45526438 AAAAAAA
1 AAAAAAA
45526445 GTGAAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
13 16 0.52
14 1 0.03
15 1 0.03
16 2 0.06
17 11 0.35
ACGTcount: A:0.72, C:0.04, G:0.06, T:0.18
Consensus pattern (14 bp):
AAAAAAATTTCGAA
Found at i:45545096 original size:15 final size:15
Alignment explanation
Indices: 45545076--45545126 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
45545066 ACTTTCATCA
*
45545076 TTCTTTTCTTTCTTT
1 TTCTTTTCTCTCTTT
* *
45545091 TTCTTTTCACTATTT
1 TTCTTTTCTCTCTTT
*
45545106 TT-GTTTCTCTCTTT
1 TTCTTTTCTCTCTTT
45545120 TTCTTTT
1 TTCTTTT
45545127 TCTTTCTCAA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.04, C:0.20, G:0.02, T:0.75
Consensus pattern (15 bp):
TTCTTTTCTCTCTTT
Found at i:45546342 original size:20 final size:20
Alignment explanation
Indices: 45546317--45546363 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
45546307 AGCTCGTTTC
*
45546317 CAGCTCACTT-GAGCTTAAGT
1 CAGCTCA-TTCGAGCTCAAGT
*
45546337 CAGCTCATTCGAGCTCAATT
1 CAGCTCATTCGAGCTCAAGT
45546357 CAGCTCA
1 CAGCTCA
45546364 ATCTTAACCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.28
Consensus pattern (20 bp):
CAGCTCATTCGAGCTCAAGT
Found at i:45548034 original size:100 final size:100
Alignment explanation
Indices: 45547924--45548104 Score: 292
Period size: 100 Copynumber: 1.8 Consensus size: 100
45547914 CCGGCCCGGG
* *
45547924 TTAATCGAGTCGTTTCAC-AAAGTTGCCCGATTGTCTACGAGGAGTAGTTAGAGTTGTCAAAATT
1 TTAATCGAGTCATTTCACGAAA-TTGCCCGATCGTCTACGAGGAGTAGTTAGAGTTGTCAAAATT
45547988 GGGTGATTTAGGCTAAGTGATGTGATCTGGCCCAGA
65 GGGTGATTTAGGCTAAGTGATGTGATCTGGCCCAGA
* * * *
45548024 TTAATTGAGTCATTTCACGTAATTGCCCGATCGTCTACGAGGAGTAGTTGGAGTTGTCAAACTTG
1 TTAATCGAGTCATTTCACGAAATTGCCCGATCGTCTACGAGGAGTAGTTAGAGTTGTCAAAATTG
45548089 GGTGATTTAGGCTAAG
66 GGTGATTTAGGCTAAG
45548105 GGTTGCGGAA
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
100 72 0.97
101 2 0.03
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (100 bp):
TTAATCGAGTCATTTCACGAAATTGCCCGATCGTCTACGAGGAGTAGTTAGAGTTGTCAAAATTG
GGTGATTTAGGCTAAGTGATGTGATCTGGCCCAGA
Found at i:45548914 original size:20 final size:20
Alignment explanation
Indices: 45548891--45548944 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
45548881 AGTTTTTCCC
*
45548891 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
45548911 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
45548931 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
45548945 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:45548926 original size:30 final size:30
Alignment explanation
Indices: 45548891--45548964 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
45548881 AGTTTTTCCC
45548891 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
45548921 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
45548951 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
45548965 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:45548954 original size:20 final size:20
Alignment explanation
Indices: 45548891--45548955 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
45548881 AGTTTTTCCC
* * * *
45548891 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
45548911 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
45548930 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
45548951 AGCTC
1 AGCTC
45548956 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:45552415 original size:10 final size:10
Alignment explanation
Indices: 45552400--45552448 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
45552390 TTGGGTTAAG
45552400 ATTGAGCTGA
1 ATTGAGCTGA
45552410 ATTGAGCTCGA
1 ATTGAGCT-GA
45552421 A-TGAGCTGA
1 ATTGAGCTGA
* *
45552430 CTTGAGCTCA
1 ATTGAGCTGA
*
45552440 AGTGAGCTG
1 ATTGAGCTG
45552449 GAAACGAGCT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
9 2 0.06
10 27 0.84
11 3 0.09
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.27
Consensus pattern (10 bp):
ATTGAGCTGA
Found at i:45552425 original size:20 final size:20
Alignment explanation
Indices: 45552402--45552448 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
45552392 GGGTTAAGAT
45552402 TGAGCTGAATTGAGCTCGAA-
1 TGAGCTGAATTGAGCTC-AAG
*
45552422 TGAGCTGACTTGAGCTCAAG
1 TGAGCTGAATTGAGCTCAAG
45552442 TGAGCTG
1 TGAGCTG
45552449 GAAACGAGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCAAG
Found at i:45554353 original size:12 final size:12
Alignment explanation
Indices: 45554325--45554364 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
45554315 ACTCGATTTC
*
45554325 TTTTCAAGCTCT
1 TTTTCAATCTCT
* *
45554337 CTTTCAATTTCT
1 TTTTCAATCTCT
45554349 TTTTCAATCTCT
1 TTTTCAATCTCT
45554361 TTTT
1 TTTT
45554365 GCTTTTCACT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.15, C:0.23, G:0.03, T:0.60
Consensus pattern (12 bp):
TTTTCAATCTCT
Found at i:45554417 original size:15 final size:15
Alignment explanation
Indices: 45554394--45554440 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
45554384 TTTTGAAATC
45554394 TCATTTTCATATT-TT
1 TCATTTTCAT-TTCTT
*
45554409 TCTTTTTCATTTCTT
1 TCATTTTCATTTCTT
45554424 TCATTTTCATTTTCTT
1 TCATTTTCA-TTTCTT
45554440 T
1 T
45554441 ATTCTTTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 2 0.07
15 19 0.68
16 7 0.25
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (15 bp):
TCATTTTCATTTCTT
Found at i:45555251 original size:45 final size:45
Alignment explanation
Indices: 45555202--45555387 Score: 300
Period size: 45 Copynumber: 4.1 Consensus size: 45
45555192 TCGGCCATGG
* * * *
45555202 TGCTTCCTCAATTTGTTCCTTAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
* *
45555247 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
* *
45555292 TGCTTCCTAAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
45555337 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
45555382 TGCTTC
1 TGCTTC
45555388 TTTGCCGTCC
Statistics
Matches: 132, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 132 1.00
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.39
Consensus pattern (45 bp):
TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
Found at i:45559785 original size:10 final size:10
Alignment explanation
Indices: 45559770--45559818 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
45559760 TTGGGTTAAG
45559770 ATTGAGCTGA
1 ATTGAGCTGA
45559780 ATTGAGCTCGA
1 ATTGAGCT-GA
45559791 A-TGAGCTGA
1 ATTGAGCTGA
* *
45559800 CTTGAGCTCA
1 ATTGAGCTGA
*
45559810 AGTGAGCTG
1 ATTGAGCTG
45559819 GAAACGAGCT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
9 2 0.06
10 27 0.84
11 3 0.09
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.27
Consensus pattern (10 bp):
ATTGAGCTGA
Found at i:45559795 original size:20 final size:20
Alignment explanation
Indices: 45559772--45559818 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
45559762 GGGTTAAGAT
45559772 TGAGCTGAATTGAGCTCGAA-
1 TGAGCTGAATTGAGCTC-AAG
*
45559792 TGAGCTGACTTGAGCTCAAG
1 TGAGCTGAATTGAGCTCAAG
45559812 TGAGCTG
1 TGAGCTG
45559819 GAAACGAGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCAAG
Found at i:45564470 original size:10 final size:9
Alignment explanation
Indices: 45564446--45564482 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
45564436 AACTTCCAAT
45564446 TTAGCTCAA
1 TTAGCTCAA
*
45564455 TGAGCTCAAA
1 TTAGCTC-AA
45564465 TTAGCTCAA
1 TTAGCTCAA
45564474 TTAGCTCAA
1 TTAGCTCAA
45564483 AACTTGCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 17 0.68
10 8 0.32
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.30
Consensus pattern (9 bp):
TTAGCTCAA
Found at i:45564470 original size:19 final size:19
Alignment explanation
Indices: 45564446--45564483 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
45564436 AACTTCCAAT
45564446 TTAGCTCAATGAGCTCAAA
1 TTAGCTCAATGAGCTCAAA
*
45564465 TTAGCTCAATTAGCTCAAA
1 TTAGCTCAATGAGCTCAAA
45564484 ACTTGCAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (19 bp):
TTAGCTCAATGAGCTCAAA
Found at i:45565577 original size:10 final size:10
Alignment explanation
Indices: 45565562--45565623 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
45565552 TTTGAACCAT
*
45565562 TACCAATTCG
1 TACCAATTCA
*
45565572 TACCAAATACCA
1 TACC-AAT-TCA
*
45565584 TACCATTTCA
1 TACCAATTCA
45565594 TACCAATTCCA
1 TACCAATT-CA
* *
45565605 TACCATTTCG
1 TACCAATTCA
45565615 TACCAATTC
1 TACCAATTC
45565624 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:45565607 original size:21 final size:21
Alignment explanation
Indices: 45565562--45565624 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
45565552 TTTGAACCAT
* *
45565562 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
45565584 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
45565605 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
45565625 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:45567220 original size:15 final size:15
Alignment explanation
Indices: 45567195--45567241 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
45567185 AGAAAAGAAT
45567195 AAAGAAAATGAAAATG
1 AAAG-AAATGAAAATG
*
45567211 AAAGAAATGAAAAAG
1 AAAGAAATGAAAATG
45567226 AAA-AATATGAAAATG
1 AAAGAA-ATGAAAATG
45567241 A
1 A
45567242 GATTTCAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 2 0.07
15 22 0.79
16 4 0.14
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.13
Consensus pattern (15 bp):
AAAGAAATGAAAATG
Found at i:45567288 original size:12 final size:12
Alignment explanation
Indices: 45567271--45567346 Score: 50
Period size: 12 Copynumber: 6.3 Consensus size: 12
45567261 AGTGAAAAGC
45567271 AAAAAGAGATTG
1 AAAAAGAGATTG
*
45567283 AAAAAGAAATTG
1 AAAAAGAGATTG
*
45567295 --AAAGAGA-AG
1 AAAAAGAGATTG
*
45567304 AAAAAGAAAGAGTGG
1 AAAAAG--AGA-TTG
*
45567319 AAAAAGAAATTG
1 AAAAAGAGATTG
* *
45567331 AAAGAGAGCTTG
1 AAAAAGAGATTG
45567343 AAAA
1 AAAA
45567347 GAAATCGAGT
Statistics
Matches: 48, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
9 1 0.02
10 6 0.12
11 4 0.08
12 25 0.52
13 5 0.10
15 7 0.15
ACGTcount: A:0.62, C:0.01, G:0.25, T:0.12
Consensus pattern (12 bp):
AAAAAGAGATTG
Found at i:45567312 original size:15 final size:15
Alignment explanation
Indices: 45567294--45567327 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
45567284 AAAAGAAATT
45567294 GAAAGAGAAGAAAAA
1 GAAAGAGAAGAAAAA
**
45567309 GAAAGAGTGGAAAAA
1 GAAAGAGAAGAAAAA
45567324 GAAA
1 GAAA
45567328 TTGAAAGAGA
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:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (15 bp):
GAAAGAGAAGAAAAA
Found at i:45570739 original size:10 final size:10
Alignment explanation
Indices: 45570724--45570806 Score: 76
Period size: 10 Copynumber: 7.9 Consensus size: 10
45570714 TTTGAACCAT
*
45570724 TACCAATTCG
1 TACCAATTCA
*
45570734 TACCAAATACCA
1 TACC-AAT-TCA
*
45570746 TACCATTTCA
1 TACCAATTCA
45570756 TACCAATTCCA
1 TACCAATT-CA
*
45570767 TACCATTTCA
1 TACCAATTCA
45570777 TACCAATTCCA
1 TACCAATT-CA
* *
45570788 TACCATTTCG
1 TACCAATTCA
45570798 TACCAATTC
1 TACCAATTC
45570807 CCGAATACCA
Statistics
Matches: 59, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
10 31 0.53
11 23 0.39
12 5 0.08
ACGTcount: A:0.34, C:0.33, G:0.02, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:45570769 original size:21 final size:21
Alignment explanation
Indices: 45570724--45570807 Score: 123
Period size: 21 Copynumber: 4.0 Consensus size: 21
45570714 TTTGAACCAT
* * *
45570724 TACCAATTCGTACCAAATACCA
1 TACCATTTCATACC-AATTCCA
45570746 TACCATTTCATACCAATTCCA
1 TACCATTTCATACCAATTCCA
45570767 TACCATTTCATACCAATTCCA
1 TACCATTTCATACCAATTCCA
*
45570788 TACCATTTCGTACCAATTCC
1 TACCATTTCATACCAATTCC
45570808 CGAATACCAA
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
21 46 0.79
22 12 0.21
ACGTcount: A:0.33, C:0.33, G:0.02, T:0.31
Consensus pattern (21 bp):
TACCATTTCATACCAATTCCA
Found at i:45573352 original size:12 final size:11
Alignment explanation
Indices: 45573335--45573367 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
45573325 TTCGTAACGA
45573335 AAAAAAAAAGTC
1 AAAAAAAAA-TC
45573347 AAAAAAAAATC
1 AAAAAAAAATC
45573358 AAAAAAAAAT
1 AAAAAAAAAT
45573368 TTGAGTTGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.57
12 9 0.43
ACGTcount: A:0.82, C:0.06, G:0.03, T:0.09
Consensus pattern (11 bp):
AAAAAAAAATC
Found at i:45573440 original size:10 final size:10
Alignment explanation
Indices: 45573425--45573454 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
45573415 ATTGGAGTAA
45573425 CAAAAAAAAT
1 CAAAAAAAAT
45573435 CAAAAAAAAT
1 CAAAAAAAAT
45573445 CGAAAAAAAA
1 C-AAAAAAAA
45573455 ATTGATTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 11 0.58
11 8 0.42
ACGTcount: A:0.80, C:0.10, G:0.03, T:0.07
Consensus pattern (10 bp):
CAAAAAAAAT
Found at i:45573494 original size:28 final size:27
Alignment explanation
Indices: 45573436--45573520 Score: 66
Period size: 28 Copynumber: 3.2 Consensus size: 27
45573426 AAAAAAAATC
* * **
45573436 AAAAAAAATCGAAAAAAAAATTGATTGA
1 AAAAAAAATCAAAAAAAAAAGTGA-AAA
*
45573464 AAAAAAATTCAAAAAAAAAAGTGAAAA
1 AAAAAAAATCAAAAAAAAAAGTGAAAA
*** *
45573491 AAAATCGAGCAAAAAAAAAA--GAAAA
1 AAAAAAAATCAAAAAAAAAAGTGAAAA
45573516 AAAAA
1 AAAAA
45573521 GGTGAGCAAA
Statistics
Matches: 46, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
25 9 0.20
27 16 0.35
28 21 0.46
ACGTcount: A:0.75, C:0.05, G:0.09, T:0.11
Consensus pattern (27 bp):
AAAAAAAATCAAAAAAAAAAGTGAAAA
Found at i:45573520 original size:26 final size:27
Alignment explanation
Indices: 45573473--45573535 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 27
45573463 AAAAAAAATT
*
45573473 CAAAAAAAAAAGTGAAAAAAAA-TCGAG
1 CAAAAAAAAAAGTAAAAAAAAAGT-GAG
45573500 CAAAAAAAAAAG-AAAAAAAAAGGTGAG
1 CAAAAAAAAAAGTAAAAAAAAA-GTGAG
45573527 CAAAAAAAA
1 CAAAAAAAA
45573536 TCATGTTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
26 8 0.24
27 24 0.73
28 1 0.03
ACGTcount: A:0.75, C:0.06, G:0.14, T:0.05
Consensus pattern (27 bp):
CAAAAAAAAAAGTAAAAAAAAAGTGAG
Found at i:45574569 original size:12 final size:12
Alignment explanation
Indices: 45574548--45574711 Score: 57
Period size: 12 Copynumber: 13.4 Consensus size: 12
45574538 AGAAAAGGAG
*
45574548 AAAGATATTGAA
1 AAAGAAATTGAA
45574560 AAAGAAATTG--
1 AAAGAAATTGAA
**
45574570 AAAGAAA-ACAA
1 AAAGAAATTGAA
**
45574581 AAAGAAAACGAA
1 AAAGAAATTGAA
*
45574593 AAAGAAATAGAA
1 AAAGAAATTGAA
** *
45574605 ATTGCAAA-AGAA
1 AAAG-AAATTGAA
**
45574617 AAAGAAATCAAA
1 AAAGAAATTGAA
** **
45574629 AAAGTGAGAGAA
1 AAAGAAATTGAA
*
45574641 AAAGAAAATGAAGA
1 AAAGAAATTG-A-A
45574655 AAAGAAAATTGAA
1 AAAG-AAATTGAA
*
45574668 AAAGAAAAAGTGAAA
1 AAAG--AAATTG-AA
*
45574683 AAAGAATTTGAA
1 AAAGAAATTGAA
**
45574695 AAAGAGTTTGAA
1 AAAGAAATTGAA
45574707 AAAGA
1 AAAGA
45574712 GAAGAGTGAA
Statistics
Matches: 115, Mismatches: 27, Indels: 20
0.71 0.17 0.12
Matches are distributed among these distances:
10 7 0.06
11 10 0.09
12 62 0.54
13 13 0.11
14 12 0.10
15 11 0.10
ACGTcount: A:0.67, C:0.02, G:0.18, T:0.12
Consensus pattern (12 bp):
AAAGAAATTGAA
Found at i:45574593 original size:6 final size:6
Alignment explanation
Indices: 45574570--45574677 Score: 58
Period size: 6 Copynumber: 17.7 Consensus size: 6
45574560 AAAGAAATTG
* * * ** *
45574570 AAAG-A AAACAA AAAGAA AACGAA AAAGAA ATAGAA ATTGCA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
* ** * * *
45574617 AAAGAA ATCA-AA AAAGTG AGAGAA AAAGAA AATGAAGA AAAGAA AATTGAA
1 AAAGAA A-AAGAA AAAGAA AAAGAA AAAGAA AAAG-A-A AAAGAA AA-AGAA
45574668 AAAGAA AAAG
1 AAAGAA AAAG
45574678 TGAAAAAAGA
Statistics
Matches: 75, Mismatches: 22, Indels: 11
0.69 0.20 0.10
Matches are distributed among these distances:
5 4 0.05
6 59 0.79
7 8 0.11
8 4 0.05
ACGTcount: A:0.71, C:0.04, G:0.18, T:0.07
Consensus pattern (6 bp):
AAAGAA
Found at i:45574631 original size:18 final size:18
Alignment explanation
Indices: 45574574--45574632 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
45574564 AAATTGAAAG
* *
45574574 AAAACAAAAAGAAAACGA
1 AAAAGAAAAAGAAATCGA
* * *
45574592 AAAAGAAATAGAAATTGC
1 AAAAGAAAAAGAAATCGA
*
45574610 AAAAGAAAAAGAAATCAA
1 AAAAGAAAAAGAAATCGA
45574628 AAAAG
1 AAAAG
45574633 TGAGAGAAAA
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.73, C:0.07, G:0.14, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAATCGA
Found at i:45574657 original size:14 final size:14
Alignment explanation
Indices: 45574639--45574688 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
45574629 AAAGTGAGAG
45574639 AAAAAGAAAA-TGA
1 AAAAAGAAAAGTGA
*
45574652 AGAAAAGAAAATTG-
1 A-AAAAGAAAAGTGA
45574666 AAAAAGAAAAAGTGA
1 AAAAAG-AAAAGTGA
45574681 AAAAAGAA
1 AAAAAGAA
45574689 TTTGAAAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
13 6 0.19
14 18 0.56
15 8 0.25
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (14 bp):
AAAAAGAAAAGTGA
Found at i:45574668 original size:27 final size:26
Alignment explanation
Indices: 45574638--45574699 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 26
45574628 AAAAGTGAGA
45574638 GAAAAAGAAAA-TGAAGAAAAGAAAATT
1 GAAAAAGAAAAGTGAA-AAAAG-AAATT
*
45574665 GAAAAAGAAAAAGTGAAAAAAGAATTT
1 GAAAAAG-AAAAGTGAAAAAAGAAATT
45574692 GAAAAAGA
1 GAAAAAGA
45574700 GTTTGAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
26 1 0.03
27 18 0.56
28 9 0.28
29 4 0.12
ACGTcount: A:0.69, C:0.00, G:0.19, T:0.11
Consensus pattern (26 bp):
GAAAAAGAAAAGTGAAAAAAGAAATT
Found at i:45578356 original size:20 final size:20
Alignment explanation
Indices: 45578331--45578385 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
45578321 GTGAAAATAC
*
45578331 AAAAGAAAAGAAAAATGAAA
1 AAAAGAAAAGAAAAATCAAA
*
45578351 AAAAG-AAAGAAAATTCAAA
1 AAAAGAAAAGAAAAATCAAA
*
45578370 AAAAGAGAATGAAAAA
1 AAAAGA-AAAGAAAAA
45578386 AAATGAGAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 17 0.59
20 5 0.17
21 7 0.24
ACGTcount: A:0.76, C:0.02, G:0.15, T:0.07
Consensus pattern (20 bp):
AAAAGAAAAGAAAAATCAAA
Found at i:45579151 original size:13 final size:13
Alignment explanation
Indices: 45579133--45579157 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45579123 GTATTGATCA
45579133 TGTGTTCACACCT
1 TGTGTTCACACCT
45579146 TGTGTTCACACC
1 TGTGTTCACACC
45579158 ATGATGACCA
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:0.16, C:0.32, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTGTTCACACCT
Found at i:45580163 original size:13 final size:13
Alignment explanation
Indices: 45580115--45580165 Score: 77
Period size: 13 Copynumber: 3.9 Consensus size: 13
45580105 ATAGGTGCGT
*
45580115 AAAAAAAAAGTTCG
1 AAAAAAAAAATT-G
45580129 -AAAAAAAAATTG
1 AAAAAAAAAATTG
45580141 AAAAAAAAAATTG
1 AAAAAAAAAATTG
45580154 AAAAAAAAAATT
1 AAAAAAAAAATT
45580166 TGTATACGGT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
12 1 0.03
13 34 0.97
ACGTcount: A:0.75, C:0.02, G:0.08, T:0.16
Consensus pattern (13 bp):
AAAAAAAAAATTG
Found at i:45581369 original size:17 final size:18
Alignment explanation
Indices: 45581337--45581370 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
45581327 AAAAGAGAGT
*
45581337 GAGATTGAAGGAAGAAAC
1 GAGAGTGAAGGAAGAAAC
45581355 GAGAGTGAA-GAAGAAA
1 GAGAGTGAAGGAAGAAA
45581371 GGAGTGTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.03, G:0.35, T:0.09
Consensus pattern (18 bp):
GAGAGTGAAGGAAGAAAC
Found at i:45583264 original size:13 final size:13
Alignment explanation
Indices: 45583246--45583270 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45583236 GTATTGATCA
45583246 TGTGTTCACACCT
1 TGTGTTCACACCT
45583259 TGTGTTCACACC
1 TGTGTTCACACC
45583271 ATGATGACCA
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:0.16, C:0.32, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTGTTCACACCT
Found at i:45589432 original size:22 final size:22
Alignment explanation
Indices: 45589407--45589460 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
45589397 CCATTACCTA
45589407 TTCGTACCAAATACCATACCAT
1 TTCGTACCAAATACCATACCAT
* *
45589429 TTCGTACCAACTTCCATACCAT
1 TTCGTACCAAATACCATACCAT
45589451 TTCGTACCAA
1 TTCGTACCAA
45589461 TTCCTAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.31, C:0.33, G:0.06, T:0.30
Consensus pattern (22 bp):
TTCGTACCAAATACCATACCAT
Found at i:45591052 original size:10 final size:10
Alignment explanation
Indices: 45591028--45591076 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
45591018 AGCTCGTTTC
*
45591028 CAGCTCACTT
1 CAGCTCAATT
* *
45591038 GAGCTCAAGT
1 CAGCTCAATT
45591048 CAGCTC-ATT
1 CAGCTCAATT
45591057 CGAGCTCAATT
1 C-AGCTCAATT
45591068 CAGCTCAAT
1 CAGCTCAAT
45591077 CTTAACCCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
9 3 0.09
10 25 0.78
11 4 0.12
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.27
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:45591053 original size:20 final size:20
Alignment explanation
Indices: 45591028--45591074 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
45591018 AGCTCGTTTC
45591028 CAGCTCACTT-GAGCTCAAGT
1 CAGCTCA-TTCGAGCTCAAGT
*
45591048 CAGCTCATTCGAGCTCAATT
1 CAGCTCATTCGAGCTCAAGT
45591068 CAGCTCA
1 CAGCTCA
45591075 ATCTTAACCC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.26
Consensus pattern (20 bp):
CAGCTCATTCGAGCTCAAGT
Found at i:45594347 original size:17 final size:18
Alignment explanation
Indices: 45594325--45594358 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
45594315 ACAACACTCC
*
45594325 TTTCTT-CTTCACTCTCG
1 TTTCTTCCTTCAATCTCG
45594342 TTTCTTCCTTCAATCTC
1 TTTCTTCCTTCAATCTC
45594359 ACTCTCTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.09, C:0.35, G:0.03, T:0.53
Consensus pattern (18 bp):
TTTCTTCCTTCAATCTCG
Found at i:45594466 original size:15 final size:16
Alignment explanation
Indices: 45594441--45594472 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
45594431 TATCTTACAC
45594441 TCATCTTCTTTTTCTT
1 TCATCTTCTTTTTCTT
45594457 TCAT-TTCTTTTTCTT
1 TCATCTTCTTTTTCTT
45594472 T
1 T
45594473 TTCATTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.06, C:0.22, G:0.00, T:0.72
Consensus pattern (16 bp):
TCATCTTCTTTTTCTT
Found at i:45595442 original size:15 final size:15
Alignment explanation
Indices: 45595424--45595476 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 15
45595414 TTTTTTTCGA
45595424 TTTTTTTTGAATTTT
1 TTTTTTTTGAATTTT
*
45595439 TTTTTTCTGAATCAATTT
1 TTTTTTTTGAAT---TTT
*
45595457 TTTTTTTCGAATTTT
1 TTTTTTTTGAATTTT
45595472 TTTTT
1 TTTTT
45595477 GATTTTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
15 19 0.59
18 13 0.41
ACGTcount: A:0.15, C:0.06, G:0.06, T:0.74
Consensus pattern (15 bp):
TTTTTTTTGAATTTT
Found at i:45595476 original size:18 final size:19
Alignment explanation
Indices: 45595433--45595468 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
45595423 ATTTTTTTTG
45595433 AATTTTTTTTTTCTGAATC
1 AATTTTTTTTTTCTGAATC
45595452 AATTTTTTTTTTC-GAAT
1 AATTTTTTTTTTCTGAAT
45595469 TTTTTTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.22, C:0.08, G:0.06, T:0.64
Consensus pattern (19 bp):
AATTTTTTTTTTCTGAATC
Found at i:45595481 original size:11 final size:13
Alignment explanation
Indices: 45595412--45595486 Score: 52
Period size: 11 Copynumber: 5.6 Consensus size: 13
45595402 TTTCTTTTAC
45595412 TTTTTTTTTCG-A
1 TTTTTTTTTCGAA
45595424 -TTTTTTTT-GAA
1 TTTTTTTTTCGAA
45595435 TTTTTTTTTTCTGAATCAA
1 -TTTTTTTTTC-G----AA
45595454 TTTTTTTTTTCGAA
1 -TTTTTTTTTCGAA
45595468 TTTTTTTTT-G-A
1 TTTTTTTTTCGAA
45595479 TTTTTTTT
1 TTTTTTTT
45595487 GTTACTCCAA
Statistics
Matches: 54, Mismatches: 0, Indels: 19
0.74 0.00 0.26
Matches are distributed among these distances:
10 1 0.02
11 18 0.33
12 1 0.02
13 17 0.31
14 2 0.04
15 1 0.02
18 1 0.02
19 13 0.24
ACGTcount: A:0.13, C:0.05, G:0.07, T:0.75
Consensus pattern (13 bp):
TTTTTTTTTCGAA
Found at i:45600493 original size:27 final size:30
Alignment explanation
Indices: 45600431--45600500 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 30
45600421 TTCAACATCT
*
45600431 TTTTCTTTTTCAATTTTTTTTCTCAATCTCA
1 TTTTCTTTTTCAATTTTCTTTCTC-ATCTCA
*
45600462 ATTTCTTTTTCAATTTTCTTT-TC-T-TCA
1 TTTTCTTTTTCAATTTTCTTTCTCATCTCA
45600489 TTTTCTTTTTCA
1 TTTTCTTTTTCA
45600501 CTCACTATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 14 0.39
28 1 0.03
30 2 0.06
31 19 0.53
ACGTcount: A:0.14, C:0.19, G:0.00, T:0.67
Consensus pattern (30 bp):
TTTTCTTTTTCAATTTTCTTTCTCATCTCA
Found at i:45602142 original size:20 final size:20
Alignment explanation
Indices: 45602119--45602164 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
45602109 GGGTTAAGAT
*
45602119 TGAGCTAAATTGAGCTTGAG
1 TGAGCTAAATTGAGCTCGAG
* * *
45602139 TGAGTTGACTTGAGCTCGAG
1 TGAGCTAAATTGAGCTCGAG
45602159 TGAGCT
1 TGAGCT
45602165 GGAAACGAGC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.13, G:0.33, T:0.30
Consensus pattern (20 bp):
TGAGCTAAATTGAGCTCGAG
Found at i:45603698 original size:18 final size:18
Alignment explanation
Indices: 45603660--45603701 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
45603650 AAATCGAAAG
* **
45603660 AAAAGAAAAAGAGATTGA
1 AAAAGAAAAAGAAATCCA
45603678 AAAAGAAAAAGAAATCCA
1 AAAAGAAAAAGAAATCCA
45603696 AAAAGA
1 AAAAGA
45603702 GAGTGAGGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.71, C:0.05, G:0.17, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAATCCA
Found at i:45606947 original size:20 final size:20
Alignment explanation
Indices: 45606901--45606947 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
45606891 AGCTCGTTTC
*
45606901 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
45606921 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
45606941 CAGCTCA
1 CAGCTCA
45606948 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:45608447 original size:11 final size:12
Alignment explanation
Indices: 45608431--45608514 Score: 50
Period size: 11 Copynumber: 6.7 Consensus size: 12
45608421 TTGGAGTAAC
45608431 AAAAAAAATC-A
1 AAAAAAAATCGA
*
45608442 AAAAAAATTCGAA
1 AAAAAAAATCG-A
*
45608455 AAAAAAATTGATTGA
1 AAAAAAA---ATCGA
45608470 AAAAAAAATTC-A
1 AAAAAAAA-TCGA
45608482 AAAAAAAAGT-G-
1 AAAAAAAA-TCGA
45608493 AAAAAAAATCGA
1 AAAAAAAATCGA
45608505 GCAAAAAAAA
1 --AAAAAAAA
45608515 AAAGAAAAGA
Statistics
Matches: 57, Mismatches: 5, Indels: 19
0.70 0.06 0.23
Matches are distributed among these distances:
10 1 0.02
11 18 0.32
12 11 0.19
13 9 0.16
14 8 0.14
15 8 0.14
16 2 0.04
ACGTcount: A:0.73, C:0.06, G:0.08, T:0.13
Consensus pattern (12 bp):
AAAAAAAATCGA
Found at i:45608457 original size:13 final size:13
Alignment explanation
Indices: 45608441--45608500 Score: 61
Period size: 12 Copynumber: 4.5 Consensus size: 13
45608431 AAAAAAAATC
45608441 AAAAAAAATTCGA
1 AAAAAAAATTCGA
*
45608454 AAAAAAAATTGATTGA
1 AAAAAAAA-T--TCGA
45608470 AAAAAAAATTC-A
1 AAAAAAAATTCGA
*
45608482 AAAAAAAAGT-GA
1 AAAAAAAATTCGA
45608494 AAAAAAA
1 AAAAAAA
45608501 TCGAGCAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
12 18 0.45
13 9 0.22
14 1 0.03
15 1 0.03
16 11 0.28
ACGTcount: A:0.73, C:0.03, G:0.08, T:0.15
Consensus pattern (13 bp):
AAAAAAAATTCGA
Found at i:45611466 original size:13 final size:12
Alignment explanation
Indices: 45611427--45611459 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
45611417 ATACTTCGAT
45611427 TTTTTTTTTGAA
1 TTTTTTTTTGAA
*
45611439 TTTTTTTTTGGA
1 TTTTTTTTTGAA
45611451 TTTTTTTTT
1 TTTTTTTTT
45611460 CAAATTTCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.82
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:45614998 original size:18 final size:18
Alignment explanation
Indices: 45614977--45615011 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
45614967 TTTTCCTTTT
45614977 TCAATTT-TTTTCTCAATC
1 TCAATTTCTTTT-TCAATC
45614995 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTTTCAAT
45615012 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTCTTTTTCAATC
Found at i:45615924 original size:13 final size:13
Alignment explanation
Indices: 45615906--45615939 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
45615896 TATACTTCGA
45615906 TTTTTTTTTGAAT
1 TTTTTTTTTGAAT
*
45615919 TTTTTTTTTGGAT
1 TTTTTTTTTGAAT
45615932 TTTTTTTT
1 TTTTTTTT
45615940 CAAATTTCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.82
Consensus pattern (13 bp):
TTTTTTTTTGAAT
Found at i:45619477 original size:18 final size:18
Alignment explanation
Indices: 45619456--45619490 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
45619446 TTTTTCTTTT
45619456 TCAATTT-TTTTCTCAATC
1 TCAATTTCTTTT-TCAATC
45619474 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTTTCAAT
45619491 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTCTTTTTCAATC
Found at i:45630712 original size:17 final size:18
Alignment explanation
Indices: 45630690--45630731 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
45630680 CCGTATGCAA
45630690 TTTTTTTTC-TTTTCAAT
1 TTTTTTTTCATTTTCAAT
*
45630707 TTTTTTTTCGATTTTGAAT
1 TTTTTTTTC-ATTTTCAAT
45630726 TTTTTT
1 TTTTTT
45630732 GTACCTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.41
19 13 0.59
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.76
Consensus pattern (18 bp):
TTTTTTTTCATTTTCAAT
Found at i:45631002 original size:22 final size:22
Alignment explanation
Indices: 45630951--45631016 Score: 80
Period size: 21 Copynumber: 3.0 Consensus size: 22
45630941 GGTATTTGGG
* *
45630951 AATTGGTTCGAAATAGTATGG-
1 AATTGGTACGAAATGGTATGGT
45630972 AATTGGTACGAAATGGTATGGT
1 AATTGGTACGAAATGGTATGGT
* *
45630994 ATTTGGTACGAATTGGTAATGGT
1 AATTGGTACGAAATGGT-ATGGT
45631017 TCAAAGAGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 19 0.49
22 15 0.38
23 5 0.13
ACGTcount: A:0.30, C:0.05, G:0.30, T:0.35
Consensus pattern (22 bp):
AATTGGTACGAAATGGTATGGT
Found at i:45634606 original size:17 final size:18
Alignment explanation
Indices: 45634584--45634624 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
45634574 TCATTTCTTT
45634584 TCTTTTGAATCACTC-TC
1 TCTTTTGAATCACTCATC
**
45634601 TCTTTTTTATCACTCATC
1 TCTTTTGAATCACTCATC
45634619 T-TTTTG
1 TCTTTTG
45634625 TTTTTCTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.15, C:0.24, G:0.05, T:0.56
Consensus pattern (18 bp):
TCTTTTGAATCACTCATC
Found at i:45637074 original size:28 final size:27
Alignment explanation
Indices: 45637011--45637162 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
45637001 ATATTAAGTC
* * *
45637011 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
45637038 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
45637066 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
45637093 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
45637121 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
45637148 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45637163 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:45637095 original size:55 final size:55
Alignment explanation
Indices: 45637011--45637162 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
45637001 ATATTAAGTC
* * *
45637011 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
45637066 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
45637121 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
45637163 GCACAATTTA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:45639049 original size:20 final size:20
Alignment explanation
Indices: 45639026--45639072 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
45639016 GGGTTAAGAT
*
45639026 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
45639046 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
45639066 TGAGCTG
1 TGAGCTG
45639073 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:45641505 original size:13 final size:12
Alignment explanation
Indices: 45641460--45641504 Score: 81
Period size: 12 Copynumber: 3.8 Consensus size: 12
45641450 CGTATGCAAT
45641460 TTTTTTTTTCAA
1 TTTTTTTTTCAA
45641472 TTTTTTTTTCAA
1 TTTTTTTTTCAA
*
45641484 TTTTTTTTTCGA
1 TTTTTTTTTCAA
45641496 TTTTTTTTT
1 TTTTTTTTT
45641505 TGAATCTACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.11, C:0.07, G:0.02, T:0.80
Consensus pattern (12 bp):
TTTTTTTTTCAA
Found at i:45656369 original size:17 final size:17
Alignment explanation
Indices: 45656347--45656386 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
45656337 ACACGATCTA
45656347 CCACACAGATGTGTGCC
1 CCACACAGATGTGTGCC
* *
45656364 CCACACGGCTGTGTGCC
1 CCACACAGATGTGTGCC
45656381 CCACAC
1 CCACAC
45656387 GGTTGTATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.20, C:0.42, G:0.23, T:0.15
Consensus pattern (17 bp):
CCACACAGATGTGTGCC
Found at i:45656387 original size:17 final size:17
Alignment explanation
Indices: 45656356--45656388 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
45656346 ACCACACAGA
45656356 TGTGTGCCCCACACGGC
1 TGTGTGCCCCACACGGC
45656373 TGTGTGCCCCACACGG
1 TGTGTGCCCCACACGG
45656389 TTGTATGACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.39, G:0.30, T:0.18
Consensus pattern (17 bp):
TGTGTGCCCCACACGGC
Found at i:45658391 original size:22 final size:22
Alignment explanation
Indices: 45658366--45658438 Score: 59
Period size: 22 Copynumber: 3.5 Consensus size: 22
45658356 TTTTGAGTAT
45658366 TGTGATATATGCTTGAATGTTA
1 TGTGATATATGCTTGAATGTTA
*
45658388 TGTGAT-TAT--ATG-A-G-TA
1 TGTGATATATGCTTGAATGTTA
* *
45658404 TTGTGATACATGCTTAAATGTTA
1 -TGTGATATATGCTTGAATGTTA
45658427 TGTGATTATATG
1 TGTGA-TATATG
45658439 AGTATTGTGA
Statistics
Matches: 38, Mismatches: 5, Indels: 15
0.66 0.09 0.26
Matches are distributed among these distances:
16 2 0.05
17 7 0.18
18 3 0.08
19 2 0.05
20 1 0.03
21 4 0.11
22 12 0.32
23 7 0.18
ACGTcount: A:0.29, C:0.04, G:0.22, T:0.45
Consensus pattern (22 bp):
TGTGATATATGCTTGAATGTTA
Found at i:45658402 original size:39 final size:39
Alignment explanation
Indices: 45658359--45658499 Score: 203
Period size: 39 Copynumber: 3.6 Consensus size: 39
45658349 AACATGTTTT
* *
45658359 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATACATGCTTAAATGTTATGTGATTATA
45658398 TGAGTATTGTGATACATGCTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATACATGCTTAAATGTTATGTGATTATA
* *
45658437 TGAGTATTGTGATATATGCCTAAAAT-TTATGTGATTATA
1 TGAGTATTGTGATACATG-CTTAAATGTTATGTGATTATA
* * *
45658476 TGTGTAATGTGAGACATGCTTAAA
1 TGAGTATTGTGATACATGCTTAAA
45658500 AGTGAATATG
Statistics
Matches: 92, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
38 5 0.05
39 81 0.88
40 6 0.07
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (39 bp):
TGAGTATTGTGATACATGCTTAAATGTTATGTGATTATA
Found at i:45665388 original size:182 final size:182
Alignment explanation
Indices: 45665080--45665449 Score: 677
Period size: 182 Copynumber: 2.0 Consensus size: 182
45665070 ATGATTTCTT
45665080 TCTTTAACACATCCATCATAATAGGGTTCAGTCTCTATTGTCTATCAATCATCCATTTCTTACCA
1 TCTTTAACACATCCATCATAATAGGGTTCAGTCTCTATTGTCTATCAATCATCCATTTCTTACCA
*
45665145 TATTCTAAGATGATCTTGTGCATGTACACGAATGGACTAATACCAAGAATATCAGCTATGGTCCA
66 TATTCTAAGATGATCTTGTGCATGTACACGAATGGACTAATACCAAGAATATCAACTATGGTCCA
*
45665210 TCTGGTAGCCTTCTTGAATTATTTCAGCACTAAAATAAGTTTATCTTCTTGA
131 TCTAGTAGCCTTCTTGAATTATTTCAGCACTAAAATAAGTTTATCTTCTTGA
* *
45665262 TCTTTAACACATCCATGATAATAGGGTTCAGTCTCTATTGTTTATCAATCATCCATTTCTTACCA
1 TCTTTAACACATCCATCATAATAGGGTTCAGTCTCTATTGTCTATCAATCATCCATTTCTTACCA
*
45665327 TATTCTAAGATGATCTTGTGCATGTACACGGATGGACTAATACCAAGAATATCAACTATGGTCCA
66 TATTCTAAGATGATCTTGTGCATGTACACGAATGGACTAATACCAAGAATATCAACTATGGTCCA
*
45665392 TCTAGTAGCCTTCTTGAATTGTTTCAGCACTAAAATAAGTTTATCTTCTTGA
131 TCTAGTAGCCTTCTTGAATTATTTCAGCACTAAAATAAGTTTATCTTCTTGA
*
45665444 TTTTTA
1 TCTTTA
45665450 GTTAAATCTA
Statistics
Matches: 181, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
182 181 1.00
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.37
Consensus pattern (182 bp):
TCTTTAACACATCCATCATAATAGGGTTCAGTCTCTATTGTCTATCAATCATCCATTTCTTACCA
TATTCTAAGATGATCTTGTGCATGTACACGAATGGACTAATACCAAGAATATCAACTATGGTCCA
TCTAGTAGCCTTCTTGAATTATTTCAGCACTAAAATAAGTTTATCTTCTTGA
Found at i:45674543 original size:15 final size:16
Alignment explanation
Indices: 45674523--45674552 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45674513 AGTACTAAGA
45674523 ATAAAA-GAAAATAAC
1 ATAAAAGGAAAATAAC
45674538 ATAAAAGGAAAATAA
1 ATAAAAGGAAAATAA
45674553 GTTTCAACAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.73, C:0.03, G:0.10, T:0.13
Consensus pattern (16 bp):
ATAAAAGGAAAATAAC
Found at i:45684542 original size:47 final size:47
Alignment explanation
Indices: 45684473--45684985 Score: 884
Period size: 47 Copynumber: 10.8 Consensus size: 47
45684463 GGCGTAACGA
45684473 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
1 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
45684520 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
1 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
45684567 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
1 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
45684614 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
1 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
45684661 CCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG-CTAATGG
1 CCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGG
45684709 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
1 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
*
45684756 CCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGG
1 CCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGG
45684805 CCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
1 CCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGG
45684854 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
1 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
* * * *
45684901 CCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGG
1 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
* * * *
45684948 CCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
45684986 TCCCGAAGGG
Statistics
Matches: 449, Mismatches: 12, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
46 16 0.04
47 293 0.65
48 30 0.07
49 110 0.24
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
Found at i:45685160 original size:37 final size:37
Alignment explanation
Indices: 45685104--45685182 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
45685094 CCGAGCTCTA
* * *
45685104 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
* *
45685141 AAGACCCGATAACTTCGTGTGGAGATTATGTTCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
45685178 AAGAC
1 AAGAC
45685183 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:45686742 original size:40 final size:40
Alignment explanation
Indices: 45686395--45686738 Score: 550
Period size: 40 Copynumber: 8.7 Consensus size: 40
45686385 GAGAATTGAG
45686395 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
45686435 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
45686475 AGTGATATAT-CGGGATAAGT-CCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
45686513 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
45686553 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
45686593 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * *
45686633 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * * *
45686673 AGTAATATATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCC-CGAGGAGCATTCGTGCT
** *
45686713 AGTTTTATATCCGGGCTAGGTCCCGA
1 AGTGATATATCCGGGCTAAGTCCCGA
45686739 AGAGTAATCA
Statistics
Matches: 283, Mismatches: 17, Indels: 8
0.92 0.06 0.03
Matches are distributed among these distances:
38 28 0.10
39 19 0.07
40 234 0.83
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
Found at i:45690201 original size:47 final size:47
Alignment explanation
Indices: 45690142--45690565 Score: 704
Period size: 47 Copynumber: 8.9 Consensus size: 47
45690132 TAGTATGGCG
*
45690142 TAATGACCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
45690189 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
45690236 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
45690283 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
45690332 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
*
45690381 TAATGGCCGATGTGATGAATGCGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
45690428 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTTATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
45690475 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * *
45690522 GAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
45690566 TCCCGAAGGG
Statistics
Matches: 358, Mismatches: 17, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
47 265 0.74
49 93 0.26
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:45690396 original size:22 final size:22
Alignment explanation
Indices: 45690368--45690443 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
45690358 GTGTATATAT
45690368 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
* ** ****
45690390 ATGTGATGAATGCGAAAGTGTATAT
1 ATGTGAT-AAGGCCTAA-TG-GCCG
45690415 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
45690437 ATGTGAT
1 ATGTGAT
45690444 GAATGTGAAA
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 14 0.38
23 8 0.22
24 8 0.22
25 7 0.19
ACGTcount: A:0.30, C:0.12, G:0.30, T:0.28
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCG
Found at i:45690740 original size:37 final size:37
Alignment explanation
Indices: 45690684--45690762 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
45690674 CTGAGCTCTA
* * *
45690684 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
* *
45690721 AAGACCCGATAACTTCGTGTGGAGATTATGTCTGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
45690758 AAGAC
1 AAGAC
45690763 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:45703199 original size:26 final size:26
Alignment explanation
Indices: 45703170--45703240 Score: 124
Period size: 26 Copynumber: 2.7 Consensus size: 26
45703160 CACCAATATC
* *
45703170 GCAGCAAAACTGCTAGTAATAGTGAT
1 GCAGCAAAGCTGCCAGTAATAGTGAT
45703196 GCAGCAAAGCTGCCAGTAATAGTGAT
1 GCAGCAAAGCTGCCAGTAATAGTGAT
45703222 GCAGCAAAGCTGCCAGTAA
1 GCAGCAAAGCTGCCAGTAA
45703241 CAGTCTATGT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.37, C:0.20, G:0.25, T:0.18
Consensus pattern (26 bp):
GCAGCAAAGCTGCCAGTAATAGTGAT
Found at i:45703449 original size:27 final size:27
Alignment explanation
Indices: 45703419--45703606 Score: 238
Period size: 27 Copynumber: 7.0 Consensus size: 27
45703409 GGGGTGTAAC
*
45703419 AGTCATTTTACCCTTTGCA-GGTATTTT
1 AGTCATTTTACCCTTCG-AGGGTATTTT
*
45703446 AGTCATTTTACCCTTCGAGGGTATTTC
1 AGTCATTTTACCCTTCGAGGGTATTTT
* *
45703473 AGTCATTTTACCCTTTGGGGGTAATTTT
1 AGTCATTTTACCCTTCGAGGGT-ATTTT
45703501 -GTCATTTTACCCTTCGAGGGTA-TTT
1 AGTCATTTTACCCTTCGAGGGTATTTT
* * *
45703526 CGATCATTTTACCCTTCAAGGGTATTTC
1 AG-TCATTTTACCCTTCGAGGGTATTTT
* *
45703554 AGTCACTTTACCCTTCGGGGGTATTTT
1 AGTCATTTTACCCTTCGAGGGTATTTT
*
45703581 AGTCATTTTACCCGTCGAGGGTATTT
1 AGTCATTTTACCCTTCGAGGGTATTT
45703607 CGTTTATTTT
Statistics
Matches: 139, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
25 3 0.02
26 3 0.02
27 126 0.91
28 7 0.05
ACGTcount: A:0.18, C:0.20, G:0.19, T:0.43
Consensus pattern (27 bp):
AGTCATTTTACCCTTCGAGGGTATTTT
Found at i:45703548 original size:81 final size:81
Alignment explanation
Indices: 45703419--45703617 Score: 278
Period size: 81 Copynumber: 2.5 Consensus size: 81
45703409 GGGGTGTAAC
* * * *
45703419 AGTCATTTTACCCTTTGCA-GGTATTT-TAGTCATTTTACCCTTCGAGGGTATTTCAGTCATTTT
1 AGTCATTTTACCCTTCG-AGGGTATTTCGA-TCATTTTACCCTTCAAGGGTATTTCAGTCACTTT
*
45703482 ACCCTTTGGGGGTAATTTT
64 ACCCTTCGGGGGT-ATTTT
45703501 -GTCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCAAGGGTATTTCAGTCACTTTAC
1 AGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCAAGGGTATTTCAGTCACTTTAC
45703565 CCTTCGGGGGTATTTT
66 CCTTCGGGGGTATTTT
* * *
45703581 AGTCATTTTACCCGTCGAGGGTATTTCGTTTATTTTA
1 AGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTA
45703618 GGCCCATTAC
Statistics
Matches: 106, Mismatches: 8, Indels: 7
0.88 0.07 0.06
Matches are distributed among these distances:
80 6 0.06
81 99 0.93
82 1 0.01
ACGTcount: A:0.18, C:0.20, G:0.19, T:0.44
Consensus pattern (81 bp):
AGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCAAGGGTATTTCAGTCACTTTAC
CCTTCGGGGGTATTTT
Found at i:45710520 original size:28 final size:28
Alignment explanation
Indices: 45710475--45710585 Score: 150
Period size: 28 Copynumber: 4.0 Consensus size: 28
45710465 AGTAGTAGTC
* ** *
45710475 TGGGCCTAAGCCTTATACAGCAACAGTG
1 TGGGCCTTAGCCCAATACAGTAACAGTG
*
45710503 TGGGCCTTAACCCAATACAGTAACAGTG
1 TGGGCCTTAGCCCAATACAGTAACAGTG
*
45710531 TGGGCCTTAGCCCAATACAGTAACAGCG
1 TGGGCCTTAGCCCAATACAGTAACAGTG
* *
45710559 TAGGCCTTAGCCCAATACATTAACAGT
1 TGGGCCTTAGCCCAATACAGTAACAGT
45710586 ACAATGCAGT
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.22
Consensus pattern (28 bp):
TGGGCCTTAGCCCAATACAGTAACAGTG
Found at i:45710761 original size:26 final size:26
Alignment explanation
Indices: 45710692--45710762 Score: 106
Period size: 26 Copynumber: 2.7 Consensus size: 26
45710682 CACCAATATC
* *
45710692 GCAGCAAAGTTGCCAATAATAGTGAT
1 GCAGCAAAGCTGCCAGTAATAGTGAT
* *
45710718 GCAGTAAAGCTGCTAGTAATAGTGAT
1 GCAGCAAAGCTGCCAGTAATAGTGAT
45710744 GCAGCAAAGCTGCCAGTAA
1 GCAGCAAAGCTGCCAGTAA
45710763 CAGTATATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (26 bp):
GCAGCAAAGCTGCCAGTAATAGTGAT
Found at i:45710963 original size:27 final size:26
Alignment explanation
Indices: 45710940--45711299 Score: 328
Period size: 27 Copynumber: 13.4 Consensus size: 26
45710930 GGGGTATAAT
* *
45710940 AGTCATTTTACCATTCGGGCGTATTTT
1 AGTCATTTTACCCTTCGGG-GTATTTC
45710967 AGTCATTTTACCCTTCGAGGGTATTTC
1 AGTCATTTTACCCTTCG-GGGTATTTC
*
45710994 GGTCATTTTACCCTTCGGGGGTATTTC
1 AGTCATTTTACCCTTC-GGGGTATTTC
* *
45711021 AATTATTTTACCCTTCGAGGGTATTTC
1 AGTCATTTTACCCTTCG-GGGTATTTC
* * *
45711048 GGTCATTTTACCCTTCAGGGTATTTT
1 AGTCATTTTACCCTTCGGGGTATTTC
* *
45711074 AGTCATTTTACCATTCGAGGATATTTC
1 AGTCATTTTACCCTTCG-GGGTATTTC
45711101 -GATCATTTTACCCTTCGGGGGTATTTC
1 AG-TCATTTTACCCTTC-GGGGTATTTC
* * *
45711128 AGCCATTTTACCGTTCGAGGGTACTTC
1 AGTCATTTTACCCTTCG-GGGTATTTC
* *
45711155 GGTCATTTTACCCTTCAAGGGTATTTC
1 AGTCATTTTACCCTTC-GGGGTATTTC
*
45711182 AGTCATTTTAACCTTCGAGGGTATTTC
1 AGTCATTTTACCCTTCG-GGGTATTTC
* * *
45711209 AGTCATTTTACCCTTTGAGAAG-ATTTT
1 AGTCATTTTACCCTTCG-G-GGTATTTC
* *
45711236 GGTCATTTTACCATTCGAGGGTATTTC
1 AGTCATTTTACCCTTCG-GGGTATTTC
* * ** * *
45711263 TGTTAGATTACCCTTTGAGGGTATTTT
1 AGTCATTTTACCCTTCG-GGGTATTTC
*
45711290 GGTCATTTTA
1 AGTCATTTTA
45711300 GGCCCATTAC
Statistics
Matches: 272, Mismatches: 49, Indels: 24
0.79 0.14 0.07
Matches are distributed among these distances:
26 26 0.10
27 240 0.88
28 6 0.02
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (26 bp):
AGTCATTTTACCCTTCGGGGTATTTC
Found at i:45711018 original size:54 final size:54
Alignment explanation
Indices: 45710941--45711299 Score: 425
Period size: 54 Copynumber: 6.7 Consensus size: 54
45710931 GGGTATAATA
* *
45710941 GTCATTTTACCATTCGGGCGTATTTTAGTCATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCGGGGGTATTTTAGTCATTTTACCCTTCGAGGGTATTTCG
* * *
45710995 GTCATTTTACCCTTCGGGGGTATTTCAATTATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCGGGGGTATTTTAGTCATTTTACCCTTCGAGGGTATTTCG
* * *
45711049 GTCATTTTACCCTTC-AGGGTATTTTAGTCATTTTACCATTCGAGGATATTTCG
1 GTCATTTTACCCTTCGGGGGTATTTTAGTCATTTTACCCTTCGAGGGTATTTCG
* * * * *
45711102 ATCATTTTACCCTTCGGGGGTATTTCAGCCATTTTACCGTTCGAGGGTACTTCG
1 GTCATTTTACCCTTCGGGGGTATTTTAGTCATTTTACCCTTCGAGGGTATTTCG
** * * *
45711156 GTCATTTTACCCTTCAAGGGTATTTCAGTCATTTTAACCTTCGAGGGTATTTCA
1 GTCATTTTACCCTTCGGGGGTATTTTAGTCATTTTACCCTTCGAGGGTATTTCG
* ** * * *
45711210 GTCATTTTACCCTTTGAGAAG-ATTTTGGTCATTTTACCATTCGAGGGTATTTCT
1 GTCATTTTACCCTTCG-GGGGTATTTTAGTCATTTTACCCTTCGAGGGTATTTCG
* ** * * *
45711264 GTTAGATTACCCTTTGAGGGTATTTTGGTCATTTTA
1 GTCATTTTACCCTTCGGGGGTATTTTAGTCATTTTA
45711300 GGCCCATTAC
Statistics
Matches: 260, Mismatches: 42, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
53 47 0.18
54 212 0.82
55 1 0.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (54 bp):
GTCATTTTACCCTTCGGGGGTATTTTAGTCATTTTACCCTTCGAGGGTATTTCG
Found at i:45711191 original size:81 final size:81
Alignment explanation
Indices: 45710940--45711299 Score: 422
Period size: 81 Copynumber: 4.5 Consensus size: 81
45710930 GGGGTATAAT
* *
45710940 AGTCATTTTACCATTCG-GGCGTATTTTAGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTA
1 AGTCATTTTACCCTTCGAGG-GTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTA
* *
45711004 CCCTTCGGGGGTATTTC
65 CCATTCGAGGGTATTTC
* * * **
45711021 AATTATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTC-AGGGTATTTTAGTCATTTTAC
1 AGTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTAC
*
45711085 CATTCGAGGATATTTC
66 CATTCGAGGGTATTTC
* * * *
45711101 -GATCATTTTACCCTTCGGGGGTATTTCAGCCATTTTACCGTTCGAGGGTACTTCGGTCATTTTA
1 AG-TCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTA
* *
45711165 CCCTTCAAGGGTATTTC
65 CCATTCGAGGGTATTTC
* * * *
45711182 AGTCATTTTAACCTTCGAGGGTATTTCAGTCATTTTACCCTTTGAGAAG-ATTTTGGTCATTTTA
1 AGTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCGAG-GGTATTTCGGTCATTTTA
45711246 CCATTCGAGGGTATTTC
65 CCATTCGAGGGTATTTC
* * ** * **
45711263 TGTTAGATTACCCTTTGAGGGTATTTTGGTCATTTTA
1 AGTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTA
45711300 GGCCCATTAC
Statistics
Matches: 234, Mismatches: 40, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
80 68 0.29
81 162 0.69
82 4 0.02
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (81 bp):
AGTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTAC
CATTCGAGGGTATTTC
Found at i:45714420 original size:29 final size:29
Alignment explanation
Indices: 45714375--45714450 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
45714365 TGAACACCGG
* * * * *
45714375 TACAAAGTACCTAATAATGTAATCATTGA
1 TACATAGTACCTGATAATATAAACACTGA
*
45714404 TACATAGTACCTGATAATATAAACACTGG
1 TACATAGTACCTGATAATATAAACACTGA
* *
45714433 CACATAGTGCCTGATAAT
1 TACATAGTACCTGATAAT
45714451 CCCTAATGAC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (29 bp):
TACATAGTACCTGATAATATAAACACTGA
Found at i:45721124 original size:21 final size:21
Alignment explanation
Indices: 45721098--45721139 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
45721088 TCGGGTGGAC
*
45721098 CAGCTCTTATGAGCTTCTGTT
1 CAGCTCTTATGAGCATCTGTT
*
45721119 CAGCTCTTTTGAGCATCTGTT
1 CAGCTCTTATGAGCATCTGTT
45721140 GGCTTGTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (21 bp):
CAGCTCTTATGAGCATCTGTT
Found at i:45721177 original size:39 final size:40
Alignment explanation
Indices: 45721118--45721215 Score: 119
Period size: 40 Copynumber: 2.5 Consensus size: 40
45721108 GAGCTTCTGT
* * * * *
45721118 TCAGCTCTTTTGAGCATCTG-TTGGCTTGTTTTGGGTGGA
1 TCAGCTCTTATGAGCTTCTGTTTGGCGTATTTCGGGTGGA
*
45721157 -CTAGCTCTTATGAGCTTCTGTTTGGCGTATTTCGGTTGGA
1 TC-AGCTCTTATGAGCTTCTGTTTGGCGTATTTCGGGTGGA
45721197 TCAGCTCTTATGAGCTTCT
1 TCAGCTCTTATGAGCTTCT
45721216 CTCTGGTGTG
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
38 1 0.02
39 16 0.32
40 32 0.64
41 1 0.02
ACGTcount: A:0.12, C:0.18, G:0.27, T:0.43
Consensus pattern (40 bp):
TCAGCTCTTATGAGCTTCTGTTTGGCGTATTTCGGGTGGA
Found at i:45723830 original size:16 final size:19
Alignment explanation
Indices: 45723804--45723851 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 19
45723794 TTAAATTAAC
45723804 TAAATTAA-TTTCTCAA-T
1 TAAATTAATTTTCTCAACT
45723821 TAAA-TAATTTTCTCAACT
1 TAAATTAATTTTCTCAACT
*
45723839 TAATTCTAATTTT
1 TAAAT-TAATTTT
45723852 ATTAAAGTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 3 0.12
17 12 0.46
18 4 0.15
20 7 0.27
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (19 bp):
TAAATTAATTTTCTCAACT
Done.