Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 166 of 210
Found at i:55630450 original size:22 final size:22
Alignment explanation
Indices: 55630398--55630450 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
55630388 AGTGAAGATG
55630398 CCCTTCAGTGGTATTGCGATATT
1 CCCTTC-GTGGTATTGCGATATT
* *
55630421 CTCATCGTGGTATTGCGATA-T
1 CCCTTCGTGGTATTGCGATATT
55630442 CACCTTCGT
1 C-CCTTCGT
55630451 TAGGGGCAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 2 0.08
22 19 0.76
23 4 0.16
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.38
Consensus pattern (22 bp):
CCCTTCGTGGTATTGCGATATT
Found at i:55641581 original size:19 final size:18
Alignment explanation
Indices: 55641557--55641601 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
55641547 TATCAAGATA
55641557 AGTATTAATTTATTAAAAT
1 AGTATTAATTT-TTAAAAT
*
55641576 AGTATT-ATTTTTGAAAT
1 AGTATTAATTTTTAAAAT
55641593 A--ATTAATTT
1 AGTATTAATTT
55641602 GAAATCAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
15 3 0.12
16 4 0.17
17 7 0.29
18 4 0.17
19 6 0.25
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (18 bp):
AGTATTAATTTTTAAAAT
Found at i:55652298 original size:23 final size:23
Alignment explanation
Indices: 55652272--55652324 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
55652262 ATAAGTGCCA
55652272 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
55652295 CACTGATATGTAGCCGAAGCTAT
1 CACTGATATGTAGCCGAAGCTAC
55652318 CACTGAT
1 CACTGAT
55652325 CAATAACACT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:55659829 original size:20 final size:20
Alignment explanation
Indices: 55659804--55659850 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
55659794 CTGAGAAAGA
55659804 CAAAACAAAAGAAGAATTGC
1 CAAAACAAAAGAAGAATTGC
*
55659824 CAAAACAAAAGAAGAATTGT
1 CAAAACAAAAGAAGAATTGC
55659844 CAAAACA
1 CAAAACA
55659851 GTTAGAAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.62, C:0.15, G:0.13, T:0.11
Consensus pattern (20 bp):
CAAAACAAAAGAAGAATTGC
Found at i:55662593 original size:59 final size:59
Alignment explanation
Indices: 55662438--55662638 Score: 341
Period size: 58 Copynumber: 3.4 Consensus size: 59
55662428 GAGAAGGGAA
*
55662438 CAAGGTAAAAACCCGCAAAGGGCGCTTTGAAAATAAAAATAAAAAAATAAAATGGAGAGGC
1 CAAGGTGAAAACCCGCAAAGGGCGCTTTG-AAA-AAAAATAAAAAAATAAAATGGAGAGGC
* *
55662499 CAAGGTGAAAACCCGCAAAGGGCACTTTGAAAAAAAAT-AAAAAAGAAAATGGAGAGGC
1 CAAGGTGAAAACCCGCAAAGGGCGCTTTGAAAAAAAATAAAAAAATAAAATGGAGAGGC
*
55662557 CAAGGTGAAAACCCGCAAAGGGTGCTTTGAAAAAAAATAAAAAAATAAAATGGAGAGGC
1 CAAGGTGAAAACCCGCAAAGGGCGCTTTGAAAAAAAATAAAAAAATAAAATGGAGAGGC
55662616 CAAGGTGAAAACCCGCAAAGGGC
1 CAAGGTGAAAACCCGCAAAGGGC
55662639 ACCTTGAGAC
Statistics
Matches: 132, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
58 55 0.42
59 47 0.36
60 3 0.02
61 27 0.20
ACGTcount: A:0.50, C:0.14, G:0.24, T:0.11
Consensus pattern (59 bp):
CAAGGTGAAAACCCGCAAAGGGCGCTTTGAAAAAAAATAAAAAAATAAAATGGAGAGGC
Found at i:55663630 original size:26 final size:26
Alignment explanation
Indices: 55663594--55663646 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
55663584 TTGGATAAAA
55663594 AGGGGTTGCTAAGTGCAGATTCCCCG
1 AGGGGTTGCTAAGTGCAGATTCCCCG
**
55663620 AGGGGTTGCTAAGTGTTGATTCCCCG
1 AGGGGTTGCTAAGTGCAGATTCCCCG
55663646 A
1 A
55663647 ATTATTGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.19, C:0.21, G:0.34, T:0.26
Consensus pattern (26 bp):
AGGGGTTGCTAAGTGCAGATTCCCCG
Found at i:55663712 original size:43 final size:41
Alignment explanation
Indices: 55663620--55663900 Score: 264
Period size: 43 Copynumber: 6.6 Consensus size: 41
55663610 AGATTCCCCG
* * *
55663620 AGGGGTTGCTAAGTGTTGATTCCCCGAAT-TATTGATTCTAA
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATAT-TTGATTGTAA
55663661 AGGTGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAA
1 AGG-GGTTGCTAAGTGCTGATTCC-CCGTATATTTGATTGT-AA
* * * *
55663705 AGGGGTTGCTATGTGCTGATTCCCCGTATCA-CTGAATATAA
1 AGGGGTTGCTAAGTGCTGATTCCCCGTAT-ATTTGATTGTAA
*
55663746 AGGTGGTTGCTAAGTGCTGATTCCACCGTATATTTGAGTGTGAA
1 AGG-GGTTGCTAAGTGCTGATTCC-CCGTATATTTGATTGT-AA
* * * * *
55663790 AGGGGTTGCTATA-TGTTGATTCCCCGTATCA-CTAAATATAA
1 AGGGGTTGCTA-AGTGCTGATTCCCCGTAT-ATTTGATTGTAA
* *
55663831 AGGTGGTTGCTAAGTGCTGATTTCACCGTATGTTTGATTGTGAA
1 AGG-GGTTGCTAAGTGCTGA-TTCCCCGTATATTTGATTGT-AA
**
55663875 AGGGGTTGCTGTGTGCTGATTCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCG
55663901 CTGACCAATT
Statistics
Matches: 198, Mismatches: 26, Indels: 31
0.78 0.10 0.12
Matches are distributed among these distances:
41 14 0.07
42 79 0.40
43 88 0.44
44 17 0.09
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (41 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGTATATTTGATTGTAA
Found at i:55663763 original size:85 final size:85
Alignment explanation
Indices: 55663620--55663900 Score: 436
Period size: 85 Copynumber: 3.3 Consensus size: 85
55663610 AGATTCCCCG
* * * * * * *
55663620 AGGGGTTGCTAAGTGTTGATTCCCCGAATTATTGATTCTAAAGGTGGTTGCTAAGTGCTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
55663685 ACCGTATATTTGATTGTGAA
66 ACCGTATATTTGATTGTGAA
55663705 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
*
55663770 ACCGTATATTTGAGTGTGAA
66 ACCGTATATTTGATTGTGAA
* * * *
55663790 AGGGGTTGCTATATGTTGATTCCCCGTATCACTAAATATAAAGGTGGTTGCTAAGTGCTGATTTC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
*
55663855 ACCGTATGTTTGATTGTGAA
66 ACCGTATATTTGATTGTGAA
*
55663875 AGGGGTTGCTGTGTGCTGATTCCCCG
1 AGGGGTTGCTATGTGCTGATTCCCCG
55663901 CTGACCAATT
Statistics
Matches: 179, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
85 179 1.00
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (85 bp):
AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
ACCGTATATTTGATTGTGAA
Found at i:55665979 original size:6 final size:6
Alignment explanation
Indices: 55665968--55666012 Score: 54
Period size: 6 Copynumber: 6.8 Consensus size: 6
55665958 AGTTGTAAAG
55665968 TTTTAT TTTTAT TTTTAT TTTTAT TTACTTATT TATTTAT TTTTA
1 TTTTAT TTTTAT TTTTAT TTTTAT TT--TTA-T T-TTTAT TTTTA
55666013 CTTAGTTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
6 24 0.69
7 2 0.06
8 6 0.17
9 2 0.06
10 1 0.03
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:55666028 original size:22 final size:21
Alignment explanation
Indices: 55665978--55666029 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
55665968 TTTTATTTTT
*
55665978 ATTTTTATTTTTATTTACTTA
1 ATTTTTATTTTTACTTACTTA
* *
55665999 TTTATTTATTTTTACTTAGTTTA
1 ATT-TTTATTTTTACTTA-CTTA
55666022 ATTTTTAT
1 ATTTTTAT
55666030 GTAAATATTC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 2 0.08
22 18 0.72
23 5 0.20
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.71
Consensus pattern (21 bp):
ATTTTTATTTTTACTTACTTA
Found at i:55671290 original size:13 final size:13
Alignment explanation
Indices: 55671272--55671296 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55671262 CTTCTCTTCC
55671272 TTTTCTTTTTTCT
1 TTTTCTTTTTTCT
55671285 TTTTCTTTTTTC
1 TTTTCTTTTTTC
55671297 CATAAGATTT
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:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTCTTTTTTCT
Found at i:55690006 original size:14 final size:14
Alignment explanation
Indices: 55689987--55690019 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
55689977 CTACAAAAAT
*
55689987 AAAATAAAATAGTA
1 AAAATAAAATAATA
55690001 AAAAT-AAATAATA
1 AAAATAAAATAATA
55690014 AAAATA
1 AAAATA
55690020 GGAAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (14 bp):
AAAATAAAATAATA
Found at i:55690015 original size:21 final size:21
Alignment explanation
Indices: 55689981--55690033 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 21
55689971 GTTTTCCTAC
*
55689981 AAAAAT-AAAAT-AAAATAGT
1 AAAAATAAAAATAAAAATAGG
55690000 AAAAATAAATAATAAAAATAGG
1 AAAAATAAA-AATAAAAATAGG
*
55690022 AAAATTAAAAAT
1 AAAAATAAAAAT
55690034 TTTTTTCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 6 0.21
20 2 0.07
21 6 0.21
22 15 0.52
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (21 bp):
AAAAATAAAAATAAAAATAGG
Found at i:55700423 original size:114 final size:114
Alignment explanation
Indices: 55699667--55700411 Score: 703
Period size: 114 Copynumber: 6.5 Consensus size: 114
55699657 ATTTGTAAGC
* * * ** * * * *
55699667 GCCGCAAACA-ATGTTAGCCAAAACGCATCGTTTGTTCCCGAGGTATATTAGACTTGGTGGCGTT
1 GCCGCAAA-ATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGT
* * * * * * * * * *
55699731 TA-TGATAAATGCCGCTATAGTATATTATTAGCGGCG-TTCT-TTAGTAAAC
65 TACGGAAAAACGCCGCTAAAGCACAGTATTAGAGGCGCTT-TATAAG-AAAT
* *
55699780 GCCGCAAAATATCTTAACCAAAACGCATCATTTGGTCTTGAGGTATATAAGAATTAGTAGCGGTT
1 GCCGCAAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGTT
** * * * *
55699845 ACAAAAAAACGCCGCTAAAGGAGAGTATTAGAGGCGCTTTGTAACAAAT
66 ACGGAAAAACGCCGCTAAAGCACAGTATTAGAGGCGCTTTATAAGAAAT
* * * * * * * * *
55699894 GCCAC-TAATCATCTTAACCAAAACGTAGCGTTTTGTCTTCATGTATATTAGAATTAGTGGCGCT
1 GCCGCAAAAT-ATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGT
** * * *
55699958 TGTGGAAAAACGCCGCTATAGCACAGTATTAGCA-GCGTTTTATACGAAAT
65 TACGGAAAAACGCCGCTAAAGCACAGTATTAG-AGGCGCTTTATAAGAAAT
* *
55700008 GCCGCAAAATATCTTAACCAAAACGTATCGTTTTGTCTTGAGGTATATAAGAATTAGTGGCGGTT
1 GCCGCAAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGTT
* * * *
55700073 ACGGAAAAACGCAGCTAAAGGATAGTATTAGAGGCGCTTTATAAGAAAG
66 ACGGAAAAACGCCGCTAAAGCACAGTATTAGAGGCGCTTTATAAGAAAT
* * * * * *
55700122 GCCGCAAACTATCTTAACCAAAACGCAACGTTTGGTCTTAATGTATATTAGAATTAGTGGCGATT
1 GCCGCAAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGTT
** * * * * * * *
55700187 GTGGGAAAACGCCGCTATAGCACATTATTTGCGGCGTTTTATACA-AAAC
66 ACGGAAAAACGCCGCTAAAGCACAGTATTAGAGGCGCTTTATA-AGAAAT
* * *
55700236 GCTGTAAAATATCTTAACCAAAACGCATCGTTTTGTCTTGAGGTATATAAGAATTAGTGGCGGTT
1 GCCGCAAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGTT
* * ** * *
55700301 ACGGAAAAAGGCCGCTAAAGCAGAGTATTAGAGATGCTTTGTAAGAATT
66 ACGGAAAAACGCCGCTAAAGCACAGTATTAGAGGCGCTTTATAAGAAAT
* * * * *
55700350 GCCGCAAAATATATTAACCAAAACGTAGCGTTTGGTCTTGATGTATATTAGAATTAGTGGCG
1 GCCGCAAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCG
55700412 CTCATGTAAA
Statistics
Matches: 509, Mismatches: 113, Indels: 19
0.79 0.18 0.03
Matches are distributed among these distances:
112 1 0.00
113 58 0.11
114 441 0.87
115 9 0.02
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.29
Consensus pattern (114 bp):
GCCGCAAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGTT
ACGGAAAAACGCCGCTAAAGCACAGTATTAGAGGCGCTTTATAAGAAAT
Found at i:55700426 original size:228 final size:228
Alignment explanation
Indices: 55699709--55700426 Score: 974
Period size: 228 Copynumber: 3.2 Consensus size: 228
55699699 TGTTCCCGAG
* * * * * * *
55699709 GTATATTAGACTTGGTGGCGTTTAT-GATAAATGCCGCTATAGTATATTATTAGCGGCGTTCTT-
1 GTATATTAGAATTAGTGGCGCTTATGGAAAAACGCCGCTATAGCACATTATTAGCGGCGTT-TTA
** * *
55699772 TAGTAAACGCCGCAAAATATCTTAACCAAAACGCATCATTTGGTCTTGAGGTATATAAGAATTAG
65 TACAAAACGCCGCAAAATATCTTAACCAAAACGCATCGTTTTGTCTTGAGGTATATAAGAATTAG
* ** * * *
55699837 TAGCGGTTACAAAAAAACGCCGCTAAAGGAGAGTATTAGAGGCGCTTTGTAACAAATGCCAC-TA
130 TGGCGGTTACGGAAAAACGCCGCTAAAGGAGAGTATTAGAGGCGCTTTGTAAGAAATGCCGCAAA
* *
55699901 ATCATCTTAACCAAAACGTAGCGTTTTGTCTTCAT
195 AT-ATCTTAACCAAAACGTAGCGTTTGGTCTTAAT
* * *
55699936 GTATATTAGAATTAGTGGCGCTTGTGGAAAAACGCCGCTATAGCACAGTATTAGCAGCGTTTTAT
1 GTATATTAGAATTAGTGGCGCTTATGGAAAAACGCCGCTATAGCACATTATTAGCGGCGTTTTAT
* * *
55700001 ACGAAATGCCGCAAAATATCTTAACCAAAACGTATCGTTTTGTCTTGAGGTATATAAGAATTAGT
66 ACAAAACGCCGCAAAATATCTTAACCAAAACGCATCGTTTTGTCTTGAGGTATATAAGAATTAGT
* * * * *
55700066 GGCGGTTACGGAAAAACGCAGCTAAAGGATAGTATTAGAGGCGCTTTATAAGAAAGGCCGCAAAC
131 GGCGGTTACGGAAAAACGCCGCTAAAGGAGAGTATTAGAGGCGCTTTGTAAGAAATGCCGCAAAA
* *
55700131 TATCTTAACCAAAACGCAACGTTTGGTCTTAAT
196 TATCTTAACCAAAACGTAGCGTTTGGTCTTAAT
* * * *
55700164 GTATATTAGAATTAGTGGCGATTGTGGGAAAACGCCGCTATAGCACATTATTTGCGGCGTTTTAT
1 GTATATTAGAATTAGTGGCGCTTATGGAAAAACGCCGCTATAGCACATTATTAGCGGCGTTTTAT
* *
55700229 ACAAAACGCTGTAAAATATCTTAACCAAAACGCATCGTTTTGTCTTGAGGTATATAAGAATTAGT
66 ACAAAACGCCGCAAAATATCTTAACCAAAACGCATCGTTTTGTCTTGAGGTATATAAGAATTAGT
* * ** *
55700294 GGCGGTTACGGAAAAAGGCCGCTAAAGCAGAGTATTAGAGATGCTTTGTAAGAATTGCCGCAAAA
131 GGCGGTTACGGAAAAACGCCGCTAAAGGAGAGTATTAGAGGCGCTTTGTAAGAAATGCCGCAAAA
* *
55700359 TATATTAACCAAAACGTAGCGTTTGGTCTTGAT
196 TATCTTAACCAAAACGTAGCGTTTGGTCTTAAT
* *
55700392 GTATATTAGAATTAGTGGCGCTCATGTAAAAACGC
1 GTATATTAGAATTAGTGGCGCTTATGGAAAAACGC
55700427 ATGTAGGTTT
Statistics
Matches: 428, Mismatches: 60, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
227 23 0.05
228 403 0.94
229 2 0.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (228 bp):
GTATATTAGAATTAGTGGCGCTTATGGAAAAACGCCGCTATAGCACATTATTAGCGGCGTTTTAT
ACAAAACGCCGCAAAATATCTTAACCAAAACGCATCGTTTTGTCTTGAGGTATATAAGAATTAGT
GGCGGTTACGGAAAAACGCCGCTAAAGGAGAGTATTAGAGGCGCTTTGTAAGAAATGCCGCAAAA
TATCTTAACCAAAACGTAGCGTTTGGTCTTAAT
Found at i:55700693 original size:7 final size:7
Alignment explanation
Indices: 55700683--55700759 Score: 57
Period size: 7 Copynumber: 11.0 Consensus size: 7
55700673 GGAGTTTTGA
55700683 GTTTAGG
1 GTTTAGG
*
55700690 GTTTATG
1 GTTTAGG
* *
55700697 ATGTA-G
1 GTTTAGG
*
55700703 GTTTAGT
1 GTTTAGG
*
55700710 GTTTTGG
1 GTTTAGG
55700717 GTTTAGG
1 GTTTAGG
* *
55700724 GGTTGGG
1 GTTTAGG
*
55700731 AGTTTGGG
1 -GTTTAGG
*
55700739 GTTTAAG
1 GTTTAGG
55700746 GTTTAGG
1 GTTTAGG
55700753 GTTTAGG
1 GTTTAGG
55700760 TCATTTTAGT
Statistics
Matches: 53, Mismatches: 15, Indels: 4
0.74 0.21 0.06
Matches are distributed among these distances:
6 4 0.08
7 43 0.81
8 6 0.11
ACGTcount: A:0.14, C:0.00, G:0.42, T:0.44
Consensus pattern (7 bp):
GTTTAGG
Found at i:55702645 original size:14 final size:15
Alignment explanation
Indices: 55702626--55702654 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
55702616 GGCACATTAC
55702626 TTGGTATTCT-TTTT
1 TTGGTATTCTGTTTT
55702640 TTGGTATTCTGTTTT
1 TTGGTATTCTGTTTT
55702655 GGCACAGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.07, C:0.07, G:0.17, T:0.69
Consensus pattern (15 bp):
TTGGTATTCTGTTTT
Found at i:55702653 original size:39 final size:38
Alignment explanation
Indices: 55702582--55702660 Score: 106
Period size: 39 Copynumber: 2.0 Consensus size: 38
55702572 GACTTTGTGG
55702582 ATTACTTGGTATTCTGTTTTGGTAGGATTGTTTTGGCAC
1 ATTACTTGGTATTCTGTTTTGGTA-GATTGTTTTGGCAC
* *
55702621 ATTACTTGGTATTCTTTTTTTGGTA-TTCTGTTTTGGCAC
1 ATTACTTGGTATTC-TGTTTTGGTAGAT-TGTTTTGGCAC
55702660 A
1 A
55702661 GTTTCTTTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
38 1 0.03
39 26 0.72
40 9 0.25
ACGTcount: A:0.15, C:0.11, G:0.22, T:0.52
Consensus pattern (38 bp):
ATTACTTGGTATTCTGTTTTGGTAGATTGTTTTGGCAC
Found at i:55703379 original size:44 final size:44
Alignment explanation
Indices: 55703312--55703399 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
55703302 GTTTTCTATA
55703312 ATTAAAATCAATTATAATCATTGAAGAGACTGATGAGTTTCAAC
1 ATTAAAATCAATTATAATCATTGAAGAGACTGATGAGTTTCAAC
*
55703356 ATTAAAATCAATTATAATTATTGAAGAGACTGATGAGTTTCAAC
1 ATTAAAATCAATTATAATCATTGAAGAGACTGATGAGTTTCAAC
55703400 TCTCTAAAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (44 bp):
ATTAAAATCAATTATAATCATTGAAGAGACTGATGAGTTTCAAC
Found at i:55704424 original size:25 final size:24
Alignment explanation
Indices: 55704390--55704475 Score: 102
Period size: 25 Copynumber: 3.5 Consensus size: 24
55704380 ATAATATTGG
*
55704390 AACTTACATAATTTTCGTAA-TACAT
1 AACTTACATAATATT-G-AACTACAT
55704415 AACTTACATAATATTGAACTTACAT
1 AACTTACATAATATTGAAC-TACAT
55704440 AACTTACATAATATTGAACTTACAT
1 AACTTACATAATATTGAAC-TACAT
* *
55704465 AATTTTCATAA
1 AACTTACATAA
55704476 CCTATATAAC
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
23 2 0.04
24 1 0.02
25 53 0.95
ACGTcount: A:0.43, C:0.15, G:0.03, T:0.38
Consensus pattern (24 bp):
AACTTACATAATATTGAACTACAT
Found at i:55704459 original size:16 final size:16
Alignment explanation
Indices: 55704415--55704467 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 16
55704405 CGTAATACAT
55704415 AACTTACATAATATTG
1 AACTTACATAATATTG
55704431 AACTTAC-----A-T-
1 AACTTACATAATATTG
55704440 AACTTACATAATATTG
1 AACTTACATAATATTG
55704456 AACTTACATAAT
1 AACTTACATAAT
55704468 TTTCATAACC
Statistics
Matches: 30, Mismatches: 0, Indels: 14
0.68 0.00 0.32
Matches are distributed among these distances:
9 7 0.23
10 1 0.03
11 1 0.03
14 1 0.03
15 1 0.03
16 19 0.63
ACGTcount: A:0.45, C:0.15, G:0.04, T:0.36
Consensus pattern (16 bp):
AACTTACATAATATTG
Found at i:55704558 original size:151 final size:151
Alignment explanation
Indices: 55704284--55704694 Score: 599
Period size: 151 Copynumber: 2.7 Consensus size: 151
55704274 NNNNNNNNNN
55704284 TACATAACTTACATAATATTGAACTTACATAATTTTCATAACCTATATAACTTATACAATACACA
1 TACATAACTTACATAATATTGAACTTACATAATTTTCATAACCTATATAACTTATACAATACACA
*
55704349 ACTTACTTAAATTTCATAATACATAGCTTACATAATATTGGAACTTACATAATTTTCGTAATACA
66 ACTTACTTAAATTTCATAATACATAGCTTACATAATTTTGGAACTTACATAATTTTCGTAATACA
55704414 TAACTTACATAATATTGAACT
131 TAACTTACATAATATTGAACT
55704435 TACATAACTTACATAATATTGAACTTACATAATTTTCATAACCTATATAACTTATACAATACACA
1 TACATAACTTACATAATATTGAACTTACATAATTTTCATAACCTATATAACTTATACAATACACA
*
55704500 ACTTACTTAAATTTCATAATACATAGCTTACATAATTTTTGAACTTACATAATTTTCGTAATACA
66 ACTTACTTAAATTTCATAATACATAGCTTACATAATTTTGGAACTTACATAATTTTCGTAATACA
55704565 TAACTTACATAATATTGAACT
131 TAACTTACATAATATTGAACT
* * * * ** * *
55704586 TATATAATTTTCATAATACAT-AACTTATTTAATTTTCATAATATAAAACTTACATAACTTATAC
1 TACATAACTTACATAATA-TTGAACTTACATAATTTTC-----AT--AACCTATATAACTTATAC
* * * * * *
55704650 AGTACACAGCTTACATAATTTTCATAATACATAACTAACATAATT
58 AATACACAACTTACTTAAATTTCATAATACATAGCTTACATAATT
55704695 CTTCATAGTA
Statistics
Matches: 236, Mismatches: 16, Indels: 9
0.90 0.06 0.03
Matches are distributed among these distances:
151 178 0.75
152 1 0.00
156 2 0.01
158 55 0.23
ACGTcount: A:0.43, C:0.16, G:0.03, T:0.38
Consensus pattern (151 bp):
TACATAACTTACATAATATTGAACTTACATAATTTTCATAACCTATATAACTTATACAATACACA
ACTTACTTAAATTTCATAATACATAGCTTACATAATTTTGGAACTTACATAATTTTCGTAATACA
TAACTTACATAATATTGAACT
Found at i:55704592 original size:25 final size:24
Alignment explanation
Indices: 55704564--55704646 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 24
55704554 TTCGTAATAC
55704564 ATAACTTACATAATATTGAACTTAT
1 ATAACTTACATAATATT-AACTTAT
* * *
55704589 ATAATTTTCATAATACATAACTTAT
1 ATAACTTACATAATA-TTAACTTAT
* * * * *
55704614 TTAATTTTCATAATATAAAACTTAC
1 ATAACTTACATAATAT-TAACTTAT
55704639 ATAACTTA
1 ATAACTTA
55704647 TACAGTACAC
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
25 45 0.98
26 1 0.02
ACGTcount: A:0.45, C:0.12, G:0.01, T:0.42
Consensus pattern (24 bp):
ATAACTTACATAATATTAACTTAT
Found at i:55704680 original size:25 final size:25
Alignment explanation
Indices: 55704582--55704720 Score: 113
Period size: 25 Copynumber: 5.5 Consensus size: 25
55704572 CATAATATTG
* *
55704582 AACTTATATAATTTTCATAATACAT
1 AACTTACATAATTTTCATAATACAC
** * *
55704607 AACTTATTTAATTTTCATAATATAA
1 AACTTACATAATTTTCATAATACAC
*
55704632 AACTTACATAA-CTT-ATACAGTACAC
1 AACTTACATAATTTTCATA-A-TACAC
* *
55704657 AGCTTACATAATTTTCATAATACAT
1 AACTTACATAATTTTCATAATACAC
* *
55704682 AACTAACATAATTCTTCATAGTACAGC
1 AACTTACATAATT-TTCATAATACA-C
*
55704709 -AGTTACATAATT
1 AACTTACATAATT
55704721 CTTAAAGAAT
Statistics
Matches: 91, Mismatches: 17, Indels: 11
0.76 0.14 0.09
Matches are distributed among these distances:
23 3 0.03
24 3 0.03
25 59 0.65
26 23 0.25
27 3 0.03
ACGTcount: A:0.42, C:0.16, G:0.04, T:0.38
Consensus pattern (25 bp):
AACTTACATAATTTTCATAATACAC
Found at i:55704716 original size:26 final size:25
Alignment explanation
Indices: 55704650--55704723 Score: 78
Period size: 26 Copynumber: 2.9 Consensus size: 25
55704640 TAACTTATAC
55704650 AGTACACAGCTTACATAATT-TTCAT
1 AGTACACAG-TTACATAATTCTTCAT
* * * *
55704675 AATACATAACTAACATAATTCTTCAT
1 AGTACA-CAGTTACATAATTCTTCAT
55704701 AGTACAGCAGTTACATAATTCTT
1 AGTACA-CAGTTACATAATTCTT
55704724 AAAGAATTAA
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
25 14 0.37
26 24 0.63
ACGTcount: A:0.39, C:0.19, G:0.07, T:0.35
Consensus pattern (25 bp):
AGTACACAGTTACATAATTCTTCAT
Found at i:55709988 original size:21 final size:21
Alignment explanation
Indices: 55709959--55710018 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
55709949 AGTAGAGGCG
*
55709959 GCAGCGAGGGAAGCAGCGACT
1 GCAGCGAGGGAAGCAGAGACT
* * *
55709980 GCAGTGAGGGAAGCGGAGGCT
1 GCAGCGAGGGAAGCAGAGACT
*
55710001 GCAGCGAGAGAAGCAGAG
1 GCAGCGAGGGAAGCAGAG
55710019 CAGAGCAAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.30, C:0.18, G:0.47, T:0.05
Consensus pattern (21 bp):
GCAGCGAGGGAAGCAGAGACT
Found at i:55710370 original size:42 final size:42
Alignment explanation
Indices: 55710326--55710673 Score: 486
Period size: 42 Copynumber: 8.3 Consensus size: 42
55710316 CCCTAAAAAA
* * *
55710326 CATGTTCTTTAGCGGCACTTA-AGAAAAAACGCTGCTAAAGAA
1 CATGTTCTTTAGCGGCGCTTAGA-AAAAAACGCCGCTAAAGAC
* * * ** *
55710368 CATGTTCTTCAGAGGCGCTTAG-AAAAAATGCCATTAAAAAC
1 CATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAC
* *
55710409 CATGTTCTTTAGTGGCGCTTAGACAAAAACGCCGCTAAAGAC
1 CATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAC
*
55710451 CATGTTCTTTAGAGGCGCTTAGAAAAAAACGCCGCTAAAGAC
1 CATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAC
*
55710493 CATGTTCTTTAGCGGCGCCTAGAAAAAAACGCCGCTAAAGAC
1 CATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAC
*
55710535 CATGTTCTTTAGCGGCGCCTAGAAAAAAACGCCGCTAAAGAC
1 CATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAC
* * *
55710577 CATGTTCTTTAGCGGTGCTTA-AGAAAAGACGCCGCTAAAGAA
1 CATGTTCTTTAGCGGCGCTTAGA-AAAAAACGCCGCTAAAGAC
* *
55710619 CATGTTCTTTAGAGACGCTTAGAAAAAAACGCCGCTAAAGAC
1 CATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAC
55710661 CATGTTCTTTAGC
1 CATGTTCTTTAGC
55710674 AACGTTTTTT
Statistics
Matches: 272, Mismatches: 30, Indels: 8
0.88 0.10 0.03
Matches are distributed among these distances:
41 34 0.12
42 237 0.87
43 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.23
Consensus pattern (42 bp):
CATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAC
Found at i:55710699 original size:42 final size:42
Alignment explanation
Indices: 55710606--55710757 Score: 166
Period size: 42 Copynumber: 3.6 Consensus size: 42
55710596 TAAGAAAAGA
** ** *
55710606 CGCCGCTAAAGAACATGTTCTTTAG-AGACG-CTTAGAAAAAAA
1 CGCCGCTAAAGAACATGTTCTTTAGCA-ACGTCTT-TTACTAAG
* *
55710648 CGCCGCTAAAGACCATGTTCTTTAGCAACGT-TTTTTCTTAAG
1 CGCCGCTAAAGAACATGTTCTTTAGCAACGTCTTTTAC-TAAG
* *
55710690 CGCCTCTAAAGAACATGTTCTTTAGCAGCGTCTTTTACTAAG
1 CGCCGCTAAAGAACATGTTCTTTAGCAACGTCTTTTACTAAG
*
55710732 CGCCGCTAAAGAACATGGTCTTTAGC
1 CGCCGCTAAAGAACATGTTCTTTAGC
55710758 GGCGTTTTCA
Statistics
Matches: 93, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
42 87 0.94
43 6 0.06
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGTTCTTTAGCAACGTCTTTTACTAAG
Found at i:55714920 original size:51 final size:50
Alignment explanation
Indices: 55714800--55714975 Score: 187
Period size: 51 Copynumber: 3.5 Consensus size: 50
55714790 TATCATTCGA
* * *
55714800 TACACGTAGTAGCCTTCACATAGTACT--ACACGTGATCAAACTTTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAACCTTCCGG
* * *
55714848 TTCACGTAGTAGGCTGTACATAGTACTACACACGTGACCAAAGCCTTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAA-CCTTCCGG
* * * * * *
55714899 TACACATAGTAGCCTGCACATAGTACTACACATGTAACCATTATCTAT-CGA
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-AACCT-TCCGG
*
55714950 TACACGTAGTAGCCTGCACTTAGTAC
1 TACACGTAGTAGCCTGCACATAGTAC
55714976 NNNNNNNNNN
Statistics
Matches: 106, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
48 23 0.22
50 12 0.11
51 69 0.65
52 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (50 bp):
TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAACCTTCCGG
Found at i:55717961 original size:12 final size:12
Alignment explanation
Indices: 55717946--55717976 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
55717936 AATTCAAATT
*
55717946 TTATTGTTAGGA
1 TTATTATTAGGA
55717958 TTATTATTAGGA
1 TTATTATTAGGA
55717970 TTATTAT
1 TTATTAT
55717977 GATATTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.55
Consensus pattern (12 bp):
TTATTATTAGGA
Found at i:55719378 original size:11 final size:13
Alignment explanation
Indices: 55719362--55719393 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
55719352 AATTTCACAG
55719362 AAAAATTTCG-T-
1 AAAAATTTCGTTC
55719373 AAAAATTTCGTTC
1 AAAAATTTCGTTC
55719386 AAAAATTT
1 AAAAATTT
55719394 TGACGTTTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 10 0.53
12 1 0.05
13 8 0.42
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (13 bp):
AAAAATTTCGTTC
Found at i:55720851 original size:102 final size:102
Alignment explanation
Indices: 55720460--55720892 Score: 679
Period size: 102 Copynumber: 4.2 Consensus size: 102
55720450 TGAATATAAC
* * *
55720460 GGGGGTTGCTAAGTGTTGATTCCCCCAAGGGGTTGCTAAGTGATGATTCCCCGATTCATTGGTGG
1 GGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGG
*
55720525 TTGCTAAGTGCTGATTCCACCATATTTTAAATGTGAA
66 TTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAA
*** * *
55720562 GGGGGTTGCTAAGTGCTGATT-CATTAAAGGGTTGCTAAGTGTTGATTCCCCGAATCATTGGTGG
1 GGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGG
55720626 TTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAA
66 TTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAA
* * *
55720663 GGGGGTTGCTAAGTGTTGACTCCCCCCAAGGGGTTGCTAAGTGCTGATTCCCGGAATCATTGGTG
1 GGGGGTTGCTAAGTGCTGA-TTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTG
*
55720728 GTTGCTAAGTGATGATTCCACCGTATTTTAAATGTGAA
65 GTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAA
* *
55720766 GGGGGTTGCTAAGTGCTGATTCCCCCAAGGGTTTGCTAAGTGCTGATTCCCCGACTCATTGGTGG
1 GGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGG
* * *
55720831 TTGCTAAGTGTTGATCCCACCGTATCTTAAATGTGAA
66 TTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAA
*
55720868 AGGGGTTGCTAAGTGCTGATTCCCC
1 GGGGGTTGCTAAGTGCTGATTCCCC
55720893 GAATCACTGG
Statistics
Matches: 303, Mismatches: 26, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
101 91 0.30
102 121 0.40
103 91 0.30
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.32
Consensus pattern (102 bp):
GGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGG
TTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAA
Found at i:55727240 original size:5 final size:5
Alignment explanation
Indices: 55727211--55727252 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
55727201 ACATAAAAAA
55727211 TTTA- TTTATT TTTAT TATT-T TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTA-T TTTAT T-TTAT TTTAT TTTAT TTTAT TTTAT TT
55727253 CCATGTTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
4 6 0.18
5 22 0.65
6 6 0.18
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:55730781 original size:40 final size:40
Alignment explanation
Indices: 55730737--55730975 Score: 180
Period size: 40 Copynumber: 6.0 Consensus size: 40
55730727 TAAATGTGTT
55730737 CAGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAAA
1 CAGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAAA
* * *
55730777 CAGGGGTACCGAAGTACAAAGAGGGGCATGTAGGTGCAAA
1 CAGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAAA
* * * * **
55730817 CAGGGTTACC-AAGTACAATTAAGGGCATGTACATGCAAA
1 CAGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAAA
** * ** *
55730856 CAGGGGTATTGAAGTA-GAATCAGGCACACGTATGTACAAA
1 CAGGGGTACCGAAGTACAAAT-AGGGGCACGTATGTGCAAA
* * ** * * *
55730896 CAGGGGCA-CGTATGTACAAATAGGGATATCG-AAGTACAAT
1 CAGGGGTACCG-AAGTACAAATAGGGGCA-CGTATGTGCAAA
* ** * *
55730936 CAGGGGTACCAAAGTACAACCAAGGGCATGTATGTGCAAA
1 CAGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAAA
55730976 TAGATGTATT
Statistics
Matches: 151, Mismatches: 41, Indels: 14
0.73 0.20 0.07
Matches are distributed among these distances:
39 35 0.23
40 110 0.73
41 6 0.04
ACGTcount: A:0.37, C:0.17, G:0.29, T:0.17
Consensus pattern (40 bp):
CAGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAAA
Found at i:55730796 original size:20 final size:20
Alignment explanation
Indices: 55730737--55730802 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
55730727 TAAATGTGTT
55730737 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* * * *
55730757 TAGGGGCA-CGTATGTGCAAA
1 CAGGGGTACCG-AAGTACAAA
55730777 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
*
55730797 GAGGGG
1 CAGGGG
55730803 CATGTAGGTG
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
19 2 0.06
20 31 0.89
21 2 0.06
ACGTcount: A:0.35, C:0.17, G:0.36, T:0.12
Consensus pattern (20 bp):
CAGGGGTACCGAAGTACAAA
Found at i:55730905 original size:20 final size:20
Alignment explanation
Indices: 55730882--55730920 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
55730872 GAATCAGGCA
55730882 CACGTATGTACAAACAGGGG
1 CACGTATGTACAAACAGGGG
*
55730902 CACGTATGTACAAATAGGG
1 CACGTATGTACAAACAGGG
55730921 ATATCGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.18
Consensus pattern (20 bp):
CACGTATGTACAAACAGGGG
Found at i:55730984 original size:16 final size:17
Alignment explanation
Indices: 55730963--55731004 Score: 50
Period size: 20 Copynumber: 2.4 Consensus size: 17
55730953 AACCAAGGGC
55730963 ATGTAT-GTGCAAATAG
1 ATGTATAGTGCAAATAG
55730979 ATGTATTGAAGTGCAAATAG
1 ATGTA-T--AGTGCAAATAG
55730999 ATGTAT
1 ATGTAT
55731005 TGAAGTACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 5 0.23
17 1 0.05
19 1 0.05
20 15 0.68
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.33
Consensus pattern (17 bp):
ATGTATAGTGCAAATAG
Found at i:55730990 original size:60 final size:58
Alignment explanation
Indices: 55730817--55730990 Score: 141
Period size: 60 Copynumber: 2.9 Consensus size: 58
55730807 TAGGTGCAAA
* ** ** * *
55730817 CAGGGTTACCAAGTACAATTAAGGGCATGTACATGCAAACAGGGGTATTGAAGTAGAAT
1 CAGGGATACCAAGTACAAACAAGGGCATGTATGTGCAAATA-GGGTATTGAAGTACAAT
* * * * * * * *
55730876 CAGGCACACGTATGTACAAACAGGGGCACGTATGTACAAATAGGGATATCGAAGTACAAT
1 CAGGGATAC-CAAGTACAAACAAGGGCATGTATGTGCAAATAGGG-TATTGAAGTACAAT
* * *
55730936 CAGGGGTACCAAAGTACAACCAAGGGCATGTATGTGCAAATAGATGTATTGAAGT
1 CAGGGATACC-AAGTACAAACAAGGGCATGTATGTGCAAATAG-GGTATTGAAGT
55730991 GCAAATAGAT
Statistics
Matches: 85, Mismatches: 26, Indels: 7
0.72 0.22 0.06
Matches are distributed among these distances:
59 9 0.11
60 75 0.88
61 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (58 bp):
CAGGGATACCAAGTACAAACAAGGGCATGTATGTGCAAATAGGGTATTGAAGTACAAT
Found at i:55730994 original size:20 final size:20
Alignment explanation
Indices: 55730969--55731015 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
55730959 GGGCATGTAT
55730969 GTGCAAATAGATGTATTGAA
1 GTGCAAATAGATGTATTGAA
55730989 GTGCAAATAGATGTATTGAA
1 GTGCAAATAGATGTATTGAA
*
55731009 GTACAAA
1 GTGCAAA
55731016 CAGGGGCATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.43, C:0.06, G:0.23, T:0.28
Consensus pattern (20 bp):
GTGCAAATAGATGTATTGAA
Found at i:55734798 original size:16 final size:17
Alignment explanation
Indices: 55734777--55734809 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
55734767 CACATTAAAG
55734777 TGTTTT-TTGAAAACCA
1 TGTTTTATTGAAAACCA
55734793 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
55734810 CTTCTTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (17 bp):
TGTTTTATTGAAAACCA
Found at i:55735931 original size:54 final size:53
Alignment explanation
Indices: 55735856--55736134 Score: 233
Period size: 54 Copynumber: 5.2 Consensus size: 53
55735846 CGGTAAAACA
* * * *
55735856 ATCATTTTATCCTATAG-GGGTATTTTGTTCATTTTACCCTTCGGGGGTATTTTG
1 ATCATTTTACCCT-TCGAGGGTATTTAG-TCATTTTACCCTTCGGGGGTAATTTG
*
55735910 ATAATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCGGGGGTAATTTG
1 ATCATTTTACCCTTCGAGGGTATTT-AGTCATTTTACCCTTCGGGGGTAATTTG
* * * * * * * *
55735964 GTTATTTTACCCTTAGATGGTAATTCAGTCATTTTACCCGTCGAGGGTAATTCG
1 ATCATTTTACCCTTCGAGGGT-ATTTAGTCATTTTACCCTTCGGGGGTAATTTG
* * * ** *
55736018 ATCATTTTAACC-TCTGAGGGTATTTCGGTAATTTTACCCTTCAAGGGT-ATTTC
1 ATCATTTTACCCTTC-GAGGGTATTT-AGTCATTTTACCCTTCGGGGGTAATTTG
* * * **
55736071 AGTCATTTTACCCTTC-AGGGGTAATTTGGTCATTTTACCCTTTGGGGATAATTCA
1 A-TCATTTTACCCTTCGA-GGGT-ATTTAGTCATTTTACCCTTCGGGGGTAATTTG
55736126 ATCATTTTA
1 ATCATTTTA
55736135 ACAACATTTC
Statistics
Matches: 182, Mismatches: 33, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
53 11 0.06
54 157 0.86
55 14 0.08
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.42
Consensus pattern (53 bp):
ATCATTTTACCCTTCGAGGGTATTTAGTCATTTTACCCTTCGGGGGTAATTTG
Found at i:55735976 original size:81 final size:79
Alignment explanation
Indices: 55735872--55736117 Score: 255
Period size: 81 Copynumber: 3.0 Consensus size: 79
55735862 TTATCCTATA
* * * *
55735872 GGGGTATTTTGTTCATTTTACCCTTCGGGGGTATTT-TGATAATTTTACCCTTCGAGGGTATTTC
1 GGGGTATTTGGTT-ATTTTACCCTTCGAGGGTATTTCAG-TCATTTTACCCTTCGAGGGTATTTC
55735936 AGTCATTTTACCCTTCG
64 -GTCATTTTACCCTTCG
* * * * *
55735953 GGGGTAATTTGGTTATTTTACCCTTAGATGGTAATTCAGTCATTTTACCCGTCGAGGGTAATTCG
1 GGGGT-ATTTGGTTATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCG
*
55736018 ATCATTTTAACC-TCTG
65 -TCATTTTACCCTTC-G
* * *
55736034 AGGGTATTTCGGTAATTTTACCCTTCAAGGGTATTTCAGTCATTTTACCCTTC-AGGGGTAATTT
1 GGGGTATTT-GGTTATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCGA-GGGT-ATTT
* *
55736098 GGTCATTTTACCCTTTG
63 CGTCATTTTACCCTTCG
55736115 GGG
1 GGG
55736118 ATAATTCAAT
Statistics
Matches: 135, Mismatches: 22, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
80 8 0.06
81 114 0.84
82 13 0.10
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.41
Consensus pattern (79 bp):
GGGGTATTTGGTTATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGT
CATTTTACCCTTCG
Found at i:55736130 original size:27 final size:26
Alignment explanation
Indices: 55735857--55736134 Score: 198
Period size: 27 Copynumber: 10.3 Consensus size: 26
55735847 GGTAAAACAA
* * * * *
55735857 TCATTTTATCCTATAGGGGTATTTTGT
1 TCATTTTACCCT-TCGGGGTAATTCGG
* * *
55735884 TCATTTTACCCTTCGGGGGTATTTTGA
1 TCATTTTACCCTTC-GGGGTAATTCGG
* * *
55735911 TAATTTTACCCTTCGAGGGTATTTCAG
1 TCATTTTACCCTTCG-GGGTAATTCGG
*
55735938 TCATTTTACCCTTCGGGGGTAATTTGG
1 TCATTTTACCCTTC-GGGGTAATTCGG
* * * *
55735965 TTATTTTACCCTTAGATGGTAATTCAG
1 TCATTTTACCCTTCG-GGGTAATTCGG
* *
55735992 TCATTTTACCCGTCGAGGGTAATTCGA
1 TCATTTTACCCTTCG-GGGTAATTCGG
* *
55736019 TCATTTTAACC-TCTGAGGGTATTTCGG
1 TCATTTTACCCTTC-G-GGGTAATTCGG
* * * *
55736046 TAATTTTACCCTTCAAGGGTATTTCAG
1 TCATTTTACCCTTC-GGGGTAATTCGG
*
55736073 TCATTTTACCCTTCAGGGGTAATTTGG
1 TCATTTTACCCTTC-GGGGTAATTCGG
* **
55736100 TCATTTTACCCTTTGGGGATAATTCAA
1 TCATTTTACCCTTCGGGG-TAATTCGG
55736127 TCATTTTA
1 TCATTTTA
55736135 ACAACATTTC
Statistics
Matches: 205, Mismatches: 39, Indels: 14
0.79 0.15 0.05
Matches are distributed among these distances:
26 9 0.04
27 193 0.94
28 3 0.01
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.42
Consensus pattern (26 bp):
TCATTTTACCCTTCGGGGTAATTCGG
Found at i:55736133 original size:81 final size:80
Alignment explanation
Indices: 55735857--55736134 Score: 240
Period size: 81 Copynumber: 3.4 Consensus size: 80
55735847 GGTAAAACAA
* * * * * ** * *
55735857 TCATTTTATCCTATAGGGGTATTTTGTTCATTTTACCCTTCGGGGGTATTT-TGATAATTTTACC
1 TCATTTTACCCT-TTGGGGTAATTCGGTCATTTTACCCTTCAAGGGTATTTCAG-TCATTTTACC
*
55735921 CTTCGAGGGT-ATTTCAG
64 CTTCGAGGGTAATTT-GG
* * * * *
55735938 TCATTTTACCCTTCGGGGGTAATTTGGTTATTTTACCCTT-AGATGGTAATTCAGTCATTTTACC
1 TCATTTTACCCTT-TGGGGTAATTCGGTCATTTTACCCTTCA-AGGGTATTTCAGTCATTTTACC
* * *
55736002 CGTCGAGGGTAATTCGA
64 CTTCGAGGGTAATTTGG
* * * *
55736019 TCATTTTAACCTCTGAGGGTATTTCGGTAATTTTACCCTTCAAGGGTATTTCAGTCATTTTACCC
1 TCATTTTACCCTTTG-GGGTAATTCGGTCATTTTACCCTTCAAGGGTATTTCAGTCATTTTACCC
55736084 TTC-AGGGGTAATTTGG
65 TTCGA-GGGTAATTTGG
**
55736100 TCATTTTACCCTTTGGGGATAATTCAATCATTTTA
1 TCATTTTACCCTTTGGGG-TAATTCGGTCATTTTA
55736135 ACAACATTTC
Statistics
Matches: 157, Mismatches: 32, Indels: 16
0.77 0.16 0.08
Matches are distributed among these distances:
80 6 0.04
81 146 0.93
82 5 0.03
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.42
Consensus pattern (80 bp):
TCATTTTACCCTTTGGGGTAATTCGGTCATTTTACCCTTCAAGGGTATTTCAGTCATTTTACCCT
TCGAGGGTAATTTGG
Found at i:55737658 original size:22 final size:22
Alignment explanation
Indices: 55737633--55737685 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
55737623 CCTCTGACCT
55737633 CCTTGCCACACCTATATCGCCA
1 CCTTGCCACACCTATATCGCCA
* *
55737655 CCTTGCCACACCTGTGTCGCCA
1 CCTTGCCACACCTATATCGCCA
55737677 CCTTGCCAC
1 CCTTGCCAC
55737686 TACACCATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.17, C:0.47, G:0.13, T:0.23
Consensus pattern (22 bp):
CCTTGCCACACCTATATCGCCA
Found at i:55741194 original size:13 final size:13
Alignment explanation
Indices: 55741176--55741207 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
55741166 ATATGGACTG
55741176 TTATTTTATTTAT
1 TTATTTTATTTAT
55741189 TTATTTTATTTAT
1 TTATTTTATTTAT
55741202 TT-TTTT
1 TTATTTT
55741208 CTAAAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (13 bp):
TTATTTTATTTAT
Found at i:55741657 original size:87 final size:87
Alignment explanation
Indices: 55741544--55742073 Score: 792
Period size: 87 Copynumber: 6.1 Consensus size: 87
55741534 ACTTGTAATC
* * * * *
55741544 TTCGATCTACTGCATTGTCGACGCAGGAGGGCAAGATCTGCTATCTTTAACCAGCTCCAC-AGCA
1 TTCGATCTGCTTCACTGTCAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTA-CA
*
55741608 ACCGATAGAGGCAAGGCTTTGTT
65 ACCGATGGAGGCAAGGCTTTGTT
* * * *
55741631 TTCGATCTACTTCACTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACTAGCTCCACTGCAA
1 TTCGATCTGCTTCACTGTCAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
55741696 CCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
** * * *
55741718 TTCGATCTGCTTTGCTGTTAACGCAGGAAAGCAAGATTTGCTATCTTTAACCAGCTCCACTACAA
1 TTCGATCTGCTTCACTGTCAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
55741783 CCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
* * ** *
55741805 TTCGATCTGCTTCGCTGTTAACATAGGAAGGCAAGATCTGCTATCTTTAACCCGCTCCACTACAA
1 TTCGATCTGCTTCACTGTCAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
*
55741870 CCGATGGAGGTAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
* * *
55741892 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACTAGCTCCACTACAA
1 TTCGATCTGCTTCACTGTCAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
55741957 CCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
* * * *
55741979 TTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATTTTCTATCTTTAACCAGCTCCACTGCAA
1 TTCGATCTGCTTCACTGTCAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
55742044 CCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
55742066 TTCGATCT
1 TTCGATCT
55742074 TCACTGATCT
Statistics
Matches: 408, Mismatches: 34, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
87 408 1.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (87 bp):
TTCGATCTGCTTCACTGTCAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
CCGATGGAGGCAAGGCTTTGTT
Found at i:55741709 original size:44 final size:44
Alignment explanation
Indices: 55741573--55741709 Score: 106
Period size: 44 Copynumber: 3.1 Consensus size: 44
55741563 GACGCAGGAG
* * *
55741573 GGCAAGATCTGCTATCTTTAACCAGCTCCACAGCAACCGATAGA
1 GGCAAGATCTGCTATCTTTAACTAGCTCCACTGCAACCGATGGA
* * * * * *
55741617 GGCAAGGCTTTG-T-T-TTCGATCTA-CTTCACTGTTAA-CGCA-GGAA
1 GGCAA-GATCTGCTATCTT-TAACTAGCTCCACTG-CAACCG-ATGG-A
55741660 GGCAAGATCTGCTATCTTTAACTAGCTCCACTGCAACCGATGGA
1 GGCAAGATCTGCTATCTTTAACTAGCTCCACTGCAACCGATGGA
55741704 GGCAAG
1 GGCAAG
55741710 GCTTTGTTTT
Statistics
Matches: 67, Mismatches: 15, Indels: 22
0.64 0.14 0.21
Matches are distributed among these distances:
42 15 0.22
43 14 0.21
44 21 0.31
45 17 0.25
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.25
Consensus pattern (44 bp):
GGCAAGATCTGCTATCTTTAACTAGCTCCACTGCAACCGATGGA
Found at i:55742013 original size:43 final size:43
Alignment explanation
Indices: 55741881--55742013 Score: 105
Period size: 43 Copynumber: 3.1 Consensus size: 43
55741871 CGATGGAGGT
*
55741881 AAGGCTTTGTTTTCGATCTGCTTCGCTGTCAATGCAGGAAGGC
1 AAGGCTTTGTTTTCGATCTGCTTCACTGTCAATGCAGGAAGGC
* * * * * * *
55741924 AA-GATCTGCTATCTT-TAACTAGCTCCACT-ACAA-CCGATGG-AGGC
1 AAGGCTTTG-T-T-TTCGATCT-GCTTCACTGTCAATGC-A-GGAAGGC
55741968 AAGGCTTTGTTTTCGATCTGCTTCACTGTCAATGCAGGAAGGC
1 AAGGCTTTGTTTTCGATCTGCTTCACTGTCAATGCAGGAAGGC
55742011 AAG
1 AAG
55742014 ATTTTCTATC
Statistics
Matches: 64, Mismatches: 15, Indels: 22
0.63 0.15 0.22
Matches are distributed among these distances:
42 15 0.23
43 19 0.30
44 16 0.25
45 14 0.22
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (43 bp):
AAGGCTTTGTTTTCGATCTGCTTCACTGTCAATGCAGGAAGGC
Found at i:55742057 original size:44 final size:44
Alignment explanation
Indices: 55741920--55742057 Score: 104
Period size: 44 Copynumber: 3.2 Consensus size: 44
55741910 CAATGCAGGA
* * * *
55741920 AGGCAAGATCTGCTATCTTTAACTAGCTCCACTACAACCGATGG
1 AGGCAAGATTTTCTATCTTTAACCAGCTCCACTGCAACCGATGG
** * ** * * * *
55741964 AGGCAAGGCTTTGT-T-TTCGATCTGCTTCACTGTCAA-TGCA-GG
1 AGGCAAGATTTTCTATCTTTAACCAGCTCCACTG-CAACCG-ATGG
55742006 AAGGCAAGATTTTCTATCTTTAACCAGCTCCACTGCAACCGATGG
1 -AGGCAAGATTTTCTATCTTTAACCAGCTCCACTGCAACCGATGG
55742051 AGGCAAG
1 AGGCAAG
55742058 GCTTTGTTTT
Statistics
Matches: 65, Mismatches: 22, Indels: 14
0.64 0.22 0.14
Matches are distributed among these distances:
42 13 0.20
43 16 0.25
44 21 0.32
45 15 0.23
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.27
Consensus pattern (44 bp):
AGGCAAGATTTTCTATCTTTAACCAGCTCCACTGCAACCGATGG
Found at i:55746735 original size:20 final size:21
Alignment explanation
Indices: 55746693--55746736 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
55746683 TCCTTTTGTA
55746693 TTTGCTCCAGTTTCTCTAATC
1 TTTGCTCCAGTTTCTCTAATC
* * *
55746714 TTTGGTCCA-TTTCTTTAGTC
1 TTTGCTCCAGTTTCTCTAATC
55746734 TTT
1 TTT
55746737 CGACGAGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.11, C:0.23, G:0.11, T:0.55
Consensus pattern (21 bp):
TTTGCTCCAGTTTCTCTAATC
Found at i:55749160 original size:13 final size:13
Alignment explanation
Indices: 55749142--55749173 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
55749132 ATATGGACTG
55749142 TTATTTTATTTAT
1 TTATTTTATTTAT
55749155 TTATTTTATTTAT
1 TTATTTTATTTAT
55749168 TT-TTTT
1 TTATTTT
55749174 CTAAAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (13 bp):
TTATTTTATTTAT
Found at i:55749768 original size:13 final size:13
Alignment explanation
Indices: 55749746--55749797 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
55749736 GTATTCATGA
*
55749746 AGAAACAAAAAAG
1 AGAAAGAAAAAAG
*
55749759 AGAAAGAAAACAG
1 AGAAAGAAAAAAG
*
55749772 TG-AAGAAAAAACG
1 AGAAAGAAAAAA-G
55749785 A-AAAGAAAAAAG
1 AGAAAGAAAAAAG
55749797 A
1 A
55749798 TGAATATACC
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
12 10 0.31
13 22 0.69
ACGTcount: A:0.73, C:0.06, G:0.19, T:0.02
Consensus pattern (13 bp):
AGAAAGAAAAAAG
Found at i:55749801 original size:26 final size:25
Alignment explanation
Indices: 55749752--55749801 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
55749742 ATGAAGAAAC
*
55749752 AAAAAAGAGAAAGAAAACAGTGAAG
1 AAAAAAGAGAAAGAAAAAAGTGAAG
55749777 AAAAAACGA-AAAGAAAAAAGATGAA
1 AAAAAA-GAGAAAGAAAAAAG-TGAA
55749802 TATACCTCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.72, C:0.04, G:0.20, T:0.04
Consensus pattern (25 bp):
AAAAAAGAGAAAGAAAAAAGTGAAG
Found at i:55751306 original size:25 final size:25
Alignment explanation
Indices: 55751272--55751325 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
55751262 ATCACACGGT
*
55751272 CGTGTCACACGCCCGTGTGCCAGGC
1 CGTGTCACACACCCGTGTGCCAGGC
* * *
55751297 CGTGTTACACACTCGTGTGCCTGGC
1 CGTGTCACACACCCGTGTGCCAGGC
55751322 CGTG
1 CGTG
55751326 AAACTCTCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.11, C:0.35, G:0.31, T:0.22
Consensus pattern (25 bp):
CGTGTCACACACCCGTGTGCCAGGC
Found at i:55752161 original size:40 final size:40
Alignment explanation
Indices: 55752112--55752389 Score: 312
Period size: 40 Copynumber: 7.0 Consensus size: 40
55752102 TGCATTCAAA
* *
55752112 GGTACCGAAGTACAAATAGGGGCACGTTTGTGCAAACAAG
1 GGTACTGAAGTACAAATAGGGGCACGTATGTGCAAACAAG
* * * * *
55752152 GGTA-TCGAAGTACAATTAAGGGCACGTAGGTGCAAATAGG
1 GGTACT-GAAGTACAAATAGGGGCACGTATGTGCAAACAAG
*
55752192 GGTTCTGAAGTAC-AATCAGGGGCACGTATGTGCAAACAAG
1 GGTACTGAAGTACAAAT-AGGGGCACGTATGTGCAAACAAG
* * * *
55752232 GGTACCGAAGTACAAATAGAGGCACATATGTGCAAA-ACGG
1 GGTACTGAAGTACAAATAGGGGCACGTATGTGCAAACA-AG
* *
55752272 GGTACTGAAGTACAAATAGGGGCACGTGTGTGCAAACATG
1 GGTACTGAAGTACAAATAGGGGCACGTATGTGCAAACAAG
* * *
55752312 GGTACTGAAGTAC-AATCAAGGGCACGTATGTGCAACCATG
1 GGTACTGAAGTACAAAT-AGGGGCACGTATGTGCAAACAAG
* * *
55752352 GGTACTGAAGTACAAATAGGGGCATGCATGTGTAAACA
1 GGTACTGAAGTACAAATAGGGGCACGTATGTGCAAACA
55752390 TTCAATAATT
Statistics
Matches: 199, Mismatches: 31, Indels: 16
0.81 0.13 0.07
Matches are distributed among these distances:
39 6 0.03
40 185 0.93
41 8 0.04
ACGTcount: A:0.35, C:0.16, G:0.30, T:0.19
Consensus pattern (40 bp):
GGTACTGAAGTACAAATAGGGGCACGTATGTGCAAACAAG
Found at i:55752217 original size:80 final size:78
Alignment explanation
Indices: 55752112--55752389 Score: 344
Period size: 80 Copynumber: 3.5 Consensus size: 78
55752102 TGCATTCAAA
* *
55752112 GGTACCGAAGTACAAATAGGGGCACGTTTGTGCAAACAAGGGTATCGAAGTACAATTAAGGGCAC
1 GGTACTGAAGTACAAATAGGGGCACGTATGTGCAAACAAGGGTA-CGAAGTACAATTAAGGGCAC
*
55752177 GTAGGTGCAAATAGG
65 GTATGTGCAAA-AGG
* *
55752192 GGTTCTGAAGTAC-AATCAGGGGCACGTATGTGCAAACAAGGGTACCGAAGTACAAAT-AGAGGC
1 GGTACTGAAGTACAAAT-AGGGGCACGTATGTGCAAACAAGGGTA-CGAAGTACAATTAAG-GGC
*
55752255 ACATATGTGCAAAACGG
63 ACGTATGTGCAAAA-GG
* * *
55752272 GGTACTGAAGTACAAATAGGGGCACGTGTGTGCAAACATGGGTACTGAAGTACAATCAAGGGCAC
1 GGTACTGAAGTACAAATAGGGGCACGTATGTGCAAACAAGGGTAC-GAAGTACAATTAAGGGCAC
* *
55752337 GTATGTGCAACCATG
65 GTATGTGCAA-AAGG
* * *
55752352 GGTACTGAAGTACAAATAGGGGCATGCATGTGTAAACA
1 GGTACTGAAGTACAAATAGGGGCACGTATGTGCAAACA
55752390 TTCAATAATT
Statistics
Matches: 172, Mismatches: 19, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
79 7 0.04
80 159 0.92
81 6 0.03
ACGTcount: A:0.35, C:0.16, G:0.30, T:0.19
Consensus pattern (78 bp):
GGTACTGAAGTACAAATAGGGGCACGTATGTGCAAACAAGGGTACGAAGTACAATTAAGGGCACG
TATGTGCAAAAGG
Found at i:55752293 original size:20 final size:20
Alignment explanation
Indices: 55752184--55752326 Score: 62
Period size: 20 Copynumber: 7.2 Consensus size: 20
55752174 CACGTAGGTG
*
55752184 CAAATAGGGGTTCTGAAGTA
1 CAAATAGGGGTACTGAAGTA
* * *
55752204 C-AATCAGGGGCAC-GTATGTG
1 CAAAT-AGGGGTACTG-AAGTA
* * *
55752224 CAAACAAGGGTACCGAAGTA
1 CAAATAGGGGTACTGAAGTA
* * * *
55752244 CAAATAGAGGCACAT-ATGTG
1 CAAATAGGGGTAC-TGAAGTA
55752264 CAAA-ACGGGGTACTGAAGTA
1 CAAATA-GGGGTACTGAAGTA
* * *
55752284 CAAATAGGGGCACGTG-TGTG
1 CAAATAGGGGTAC-TGAAGTA
* *
55752304 CAAACATGGGTACTGAAGTA
1 CAAATAGGGGTACTGAAGTA
55752324 CAA
1 CAA
55752327 TCAAGGGCAC
Statistics
Matches: 85, Mismatches: 28, Indels: 20
0.64 0.21 0.15
Matches are distributed among these distances:
19 8 0.09
20 71 0.84
21 6 0.07
ACGTcount: A:0.36, C:0.16, G:0.29, T:0.18
Consensus pattern (20 bp):
CAAATAGGGGTACTGAAGTA
Found at i:55752383 original size:120 final size:120
Alignment explanation
Indices: 55752112--55752389 Score: 364
Period size: 120 Copynumber: 2.3 Consensus size: 120
55752102 TGCATTCAAA
* *
55752112 GGTACCGAAGTACAAATAGGGGCACGTTTGTGCAAACAAGGGTATCGAAGTACAATTAAGGGCAC
1 GGTACCGAAGTACAAATAGGGGCACGTATGTGCAAACAAGGGTATCGAAGTACAAATAAGGGCAC
* * *
55752177 GTAGGTGCAAATAGGGGTTCTGAAGTACAATCAGGGGCACGTATGTGCAAACAAG
66 GTAGGTGCAAACAGGGGTACTGAAGTACAATCAAGGGCACGTATGTGCAAACAAG
* * * *
55752232 GGTACCGAAGTACAAATAGAGGCACATATGTGCAAA-ACGGGGTA-CTGAAGTACAAATAGGGGC
1 GGTACCGAAGTACAAATAGGGGCACGTATGTGCAAACA-AGGGTATC-GAAGTACAAATAAGGGC
* * *
55752295 ACGT-GTGTGCAAACATGGGTACTGAAGTACAATCAAGGGCACGTATGTGCAACCATG
64 ACGTAG-GTGCAAACAGGGGTACTGAAGTACAATCAAGGGCACGTATGTGCAAACAAG
* * * *
55752352 GGTACTGAAGTACAAATAGGGGCATGCATGTGTAAACA
1 GGTACCGAAGTACAAATAGGGGCACGTATGTGCAAACA
55752390 TTCAATAATT
Statistics
Matches: 136, Mismatches: 18, Indels: 7
0.84 0.11 0.04
Matches are distributed among these distances:
119 3 0.02
120 132 0.97
121 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.30, T:0.19
Consensus pattern (120 bp):
GGTACCGAAGTACAAATAGGGGCACGTATGTGCAAACAAGGGTATCGAAGTACAAATAAGGGCAC
GTAGGTGCAAACAGGGGTACTGAAGTACAATCAAGGGCACGTATGTGCAAACAAG
Found at i:55756136 original size:18 final size:19
Alignment explanation
Indices: 55756106--55756142 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
55756096 TTGGCACAAA
*
55756106 CATCACAATCACATAATAT
1 CATCACAATCACACAATAT
55756125 CATCAC-ATCACACAATAT
1 CATCACAATCACACAATAT
55756143 ACATTTCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (19 bp):
CATCACAATCACACAATAT
Found at i:55759374 original size:18 final size:18
Alignment explanation
Indices: 55759351--55759385 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
55759341 TAAGTTTAGA
55759351 AAGCATCAAAATAGTTTC
1 AAGCATCAAAATAGTTTC
* *
55759369 AAGCATGAAAGTAGTTT
1 AAGCATCAAAATAGTTT
55759386 GGCACATCGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.29
Consensus pattern (18 bp):
AAGCATCAAAATAGTTTC
Found at i:55767478 original size:24 final size:26
Alignment explanation
Indices: 55767444--55767509 Score: 93
Period size: 25 Copynumber: 2.6 Consensus size: 26
55767434 TTGCAATTAT
55767444 TTATTTATTTATTTTAAAATT-TTTTA
1 TTATTT-TTTATTTTAAAATTGTTTTA
55767470 -TATTTTTTATTTT-AAATTGTTTTA
1 TTATTTTTTATTTTAAAATTGTTTTA
*
55767494 TTATTATTTATTTTAA
1 TTATTTTTTATTTTAA
55767510 TTTTTTCACA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
23 5 0.14
24 13 0.36
25 17 0.47
26 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.70
Consensus pattern (26 bp):
TTATTTTTTATTTTAAAATTGTTTTA
Found at i:55767511 original size:24 final size:23
Alignment explanation
Indices: 55767438--55767515 Score: 97
Period size: 24 Copynumber: 3.3 Consensus size: 23
55767428 TTATTTTTGC
*
55767438 AATTATTTAT-TTATTTATTTTAA
1 AATTTTTTATATTATTTATTTT-A
*
55767461 AATTTTTTATATTTTTTATTTTA
1 AATTTTTTATATTATTTATTTTA
55767484 AATTGTTTTATTATTATTTATTTT-
1 AATT-TTTTA-TATTATTTATTTTA
55767508 AATTTTTT
1 AATTTTTT
55767516 CACATATTAT
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
23 18 0.37
24 19 0.39
25 12 0.24
ACGTcount: A:0.28, C:0.00, G:0.01, T:0.71
Consensus pattern (23 bp):
AATTTTTTATATTATTTATTTTA
Found at i:55767523 original size:25 final size:24
Alignment explanation
Indices: 55767448--55767535 Score: 90
Period size: 25 Copynumber: 3.6 Consensus size: 24
55767438 AATTATTTAT
55767448 TTATTTATTTTAAAATTTTTT-ATA
1 TTATTTATTTT-AAATTTTTTAATA
* *
55767472 TTTTTTATTTTAAATTGTTTTATTA
1 TTATTTATTTTAAATT-TTTTAATA
55767497 TTATTTATTTT-AATTTTTTCACATA
1 TTATTTATTTTAAATTTTTT-A-ATA
**
55767522 TTATGCATTTTAAA
1 TTATTTATTTTAAA
55767536 CTATATTAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
23 9 0.17
24 19 0.36
25 23 0.43
26 2 0.04
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (24 bp):
TTATTTATTTTAAATTTTTTAATA
Found at i:55767782 original size:22 final size:22
Alignment explanation
Indices: 55767757--55767802 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
55767747 TAAAATTGTC
55767757 TTCTTGGTTAT-TTATTTTAATT
1 TTCTTGG-TATGTTATTTTAATT
* *
55767779 TTCTTTGTATGTTATTTTTATT
1 TTCTTGGTATGTTATTTTAATT
55767801 TT
1 TT
55767803 GCGTTGCATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.14
22 18 0.86
ACGTcount: A:0.15, C:0.04, G:0.09, T:0.72
Consensus pattern (22 bp):
TTCTTGGTATGTTATTTTAATT
Found at i:55767816 original size:23 final size:22
Alignment explanation
Indices: 55767768--55767818 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
55767758 TCTTGGTTAT
* * *
55767768 TTATTTTAATTTTCTTTGTATG
1 TTATTTTAATTTTCGTTGCATA
*
55767790 TTATTTTTATTTTGCGTTGCATA
1 TTATTTTAATTTT-CGTTGCATA
55767813 TTATTT
1 TTATTT
55767819 ACTTTGAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.18, C:0.06, G:0.10, T:0.67
Consensus pattern (22 bp):
TTATTTTAATTTTCGTTGCATA
Found at i:55771269 original size:31 final size:31
Alignment explanation
Indices: 55771234--55771295 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
55771224 ATTCCTTTTC
*
55771234 ATTTCATTCATAACTAAAATATTCTTTTATT
1 ATTTCATTCATAACGAAAATATTCTTTTATT
55771265 ATTTCATTCATAACGAAAATATTCTTTTATT
1 ATTTCATTCATAACGAAAATATTCTTTTATT
55771296 TCATTCTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.02, T:0.50
Consensus pattern (31 bp):
ATTTCATTCATAACGAAAATATTCTTTTATT
Found at i:55771904 original size:1 final size:1
Alignment explanation
Indices: 55771898--55772000 Score: 53
Period size: 1 Copynumber: 103.0 Consensus size: 1
55771888 GATAGTAGAG
* * * * * * * * * *
55771898 AAAAAAAACAAAAACAAAAAGACAAAAAAAAACAAAAAAACAAAAACAAAAAGACAAAATAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * *
55771963 AAAGAACAAGAAAAACAAAGAACAAAAAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
55772001 CCTCTACCGA
Statistics
Matches: 68, Mismatches: 34, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
1 68 1.00
ACGTcount: A:0.83, C:0.11, G:0.05, T:0.01
Consensus pattern (1 bp):
A
Found at i:55771912 original size:6 final size:6
Alignment explanation
Indices: 55771901--55772001 Score: 68
Period size: 6 Copynumber: 17.0 Consensus size: 6
55771891 AGTAGAGAAA
* *
55771901 AAAAAC AAAAAC AAAAAGAC AAAAA- AAAACAA AAAAAC AAAAAC AAAAAG
1 AAAAAC AAAAAC -AAAA-AC AAAAAC AAAA-AC AAAAAC AAAAAC AAAAAC
* * * * *
55771951 ACAAA- ATAAA- AAAAAG AACAAG AAAAAC AAAGAAC -AAAA- AAAAAC
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAA-AAC AAAAAC AAAAAC
55771996 AAAAAC
1 AAAAAC
55772002 CTCTACCGAG
Statistics
Matches: 79, Mismatches: 8, Indels: 16
0.77 0.08 0.16
Matches are distributed among these distances:
5 18 0.23
6 44 0.56
7 15 0.19
8 2 0.03
ACGTcount: A:0.82, C:0.12, G:0.05, T:0.01
Consensus pattern (6 bp):
AAAAAC
Found at i:55771922 original size:8 final size:7
Alignment explanation
Indices: 55771900--55771991 Score: 59
Period size: 7 Copynumber: 12.9 Consensus size: 7
55771890 TAGTAGAGAA
55771900 AAAAAAC
1 AAAAAAC
55771907 -AAAAAC
1 AAAAAAC
55771913 AAAAAGAC
1 AAAAA-AC
55771921 -AAAAA-
1 AAAAAAC
*
55771926 AAAACA-
1 AAAAAAC
55771932 AAAAAAC
1 AAAAAAC
55771939 -AAAAAC
1 AAAAAAC
55771945 AAAAAGAC
1 AAAAA-AC
*
55771953 AAAATAAAA
1 -AAA-AAAC
55771962 AAAAGAAC
1 AAAA-AAC
55771970 AAGAAAAAC
1 -A-AAAAAC
*
55771979 AAAGAAC
1 AAAAAAC
55771986 AAAAAA
1 AAAAAA
55771992 AAACAAAAAC
Statistics
Matches: 68, Mismatches: 6, Indels: 22
0.71 0.06 0.23
Matches are distributed among these distances:
6 22 0.32
7 23 0.34
8 10 0.15
9 8 0.12
10 5 0.07
ACGTcount: A:0.83, C:0.11, G:0.05, T:0.01
Consensus pattern (7 bp):
AAAAAAC
Found at i:55771922 original size:14 final size:14
Alignment explanation
Indices: 55771899--55771992 Score: 77
Period size: 14 Copynumber: 6.5 Consensus size: 14
55771889 ATAGTAGAGA
55771899 AAAAAAACAAAAAC
1 AAAAAAACAAAAAC
*
55771913 AAAAAGACAAAAAAAAAC
1 --AAA-A-AAACAAAAAC
55771931 AAAAAAACAAAAAC
1 AAAAAAACAAAAAC
*
55771945 AAAAAGAC-AAAA-
1 AAAAAAACAAAAAC
* *
55771957 TAAAAAA-AAGAAC
1 AAAAAAACAAAAAC
55771970 AAGAAAAACAAAGAAC
1 AA-AAAAACAAA-AAC
55771986 AAAAAAA
1 AAAAAAA
55771993 AACAAAAACC
Statistics
Matches: 63, Mismatches: 8, Indels: 15
0.73 0.09 0.17
Matches are distributed among these distances:
12 8 0.13
13 5 0.08
14 21 0.33
15 8 0.13
16 11 0.17
17 1 0.02
18 9 0.14
ACGTcount: A:0.83, C:0.11, G:0.05, T:0.01
Consensus pattern (14 bp):
AAAAAAACAAAAAC
Found at i:55771940 original size:32 final size:32
Alignment explanation
Indices: 55771899--55772000 Score: 145
Period size: 32 Copynumber: 3.2 Consensus size: 32
55771889 ATAGTAGAGA
55771899 AAAAAAACAAAAACAAAAAGACAAAAAAAAAC
1 AAAAAAACAAAAACAAAAAGACAAAAAAAAAC
*
55771931 AAAAAAACAAAAACAAAAAGACAAAATAAAA-
1 AAAAAAACAAAAACAAAAAGACAAAAAAAAAC
*
55771962 AAAAGAACAAGAAA-AACAAAGAACAAAAAAAAAC
1 AAAAAAACAA-AAACAA-AAAG-ACAAAAAAAAAC
55771996 AAAAA
1 AAAAA
55772001 CCTCTACCGA
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
31 11 0.18
32 37 0.60
33 10 0.16
34 4 0.06
ACGTcount: A:0.83, C:0.11, G:0.05, T:0.01
Consensus pattern (32 bp):
AAAAAAACAAAAACAAAAAGACAAAAAAAAAC
Found at i:55771996 original size:26 final size:24
Alignment explanation
Indices: 55771898--55772000 Score: 79
Period size: 25 Copynumber: 4.2 Consensus size: 24
55771888 GATAGTAGAG
*
55771898 AAAAAAAACAAAAAC--AAAAAGAC
1 AAAAAAAA-AAAAACAAAAAAAAAC
*
55771921 AAAAAAAAACAAAA-AAACAAAAAC
1 AAAAAAAAA-AAAACAAAAAAAAAC
* *
55771945 AAAAAGACAAAATAA-AAAAAAGAAC
1 AAAAA-A-AAAAAAACAAAAAAAAAC
*
55771970 AAGAAAAACAAAGAACAAAAAAAAAC
1 AA-AAAAA-AAAAAACAAAAAAAAAC
55771996 AAAAA
1 AAAAA
55772001 CCTCTACCGA
Statistics
Matches: 65, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
22 1 0.02
23 12 0.18
24 12 0.18
25 23 0.35
26 17 0.26
ACGTcount: A:0.83, C:0.11, G:0.05, T:0.01
Consensus pattern (24 bp):
AAAAAAAAAAAAACAAAAAAAAAC
Found at i:55772521 original size:53 final size:54
Alignment explanation
Indices: 55772441--55772544 Score: 165
Period size: 53 Copynumber: 1.9 Consensus size: 54
55772431 GTCTCAAAAA
* *
55772441 AAAAATAAAAAAGGAGAGGCCAAGGTGAAAACCTACAAAGGACGCTTTGAGTCT
1 AAAAATAAAAAAGGAGAGGCCAAGGTGAAAACCCACAAAGGACGCCTTGAGTCT
* *
55772495 AAAAA-AAAAAGGGAGAGGCCAAGGTGAAAACCCGCAAAGGACGCCTTGAG
1 AAAAATAAAAAAGGAGAGGCCAAGGTGAAAACCCACAAAGGACGCCTTGAG
55772545 ACCAAAGGAG
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
53 41 0.89
54 5 0.11
ACGTcount: A:0.46, C:0.16, G:0.27, T:0.11
Consensus pattern (54 bp):
AAAAATAAAAAAGGAGAGGCCAAGGTGAAAACCCACAAAGGACGCCTTGAGTCT
Found at i:55773637 original size:142 final size:143
Alignment explanation
Indices: 55773354--55773714 Score: 535
Period size: 142 Copynumber: 2.5 Consensus size: 143
55773344 ATTACGGAAA
* * * * *
55773354 ATCTTATCTTCCTGAAGTTGCAGTGGAGTAGATTAAAGCCATCAGCCTTTTCTCCCTGAAGTTGC
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGC
* *
55773419 AGCGGAGCAGACTAAAGACAATAAATCTTATTTCCTTGGCATTGCAATGGAACAGATTAAAGCTA
66 AGTGGAGCAGACTAAAGACAACAAATCTTATTTCCTTGGCATTGCAATGGAACAGATTAAAGCTA
55773484 CAAATTATGGCGG
131 CAAATTATGGCGG
* *
55773497 ATCTTATCTTCTTGAAGTTG-TGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGC
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGC
* * * * * *
55773561 AGTGGAGCAGGCTGAAGACAACGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGTTTAAAGCTA
66 AGTGGAGCAGACTAAAGACAACAAATCTTATTTCCTTGGCATTGCAATGGAACAGATTAAAGCTA
*
55773626 CAAATTTTGGCGG
131 CAAATTATGGCGG
* * *
55773639 ATCTTATTTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACTAGCCTTATCTCCCTAAAGTTGC
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGC
*
55773704 AGTGGAACAGA
66 AGTGGAGCAGA
55773715 TTGAAGTTAC
Statistics
Matches: 194, Mismatches: 23, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
142 124 0.64
143 70 0.36
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (143 bp):
ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGC
AGTGGAGCAGACTAAAGACAACAAATCTTATTTCCTTGGCATTGCAATGGAACAGATTAAAGCTA
CAAATTATGGCGG
Found at i:55773767 original size:143 final size:142
Alignment explanation
Indices: 55773354--55773773 Score: 441
Period size: 142 Copynumber: 2.9 Consensus size: 142
55773344 ATTACGGAAA
* * * * * *
55773354 ATCTTATCTTCCTGAAGTTGCAGTGGAGTAGATTAAAGCCATCAGCCTTTTCTCCCTGAAGTTGC
1 ATCTTATCTTCCTAAAGTTG-AGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGC
* * * ** * * * * *
55773419 AGCGGAGCAGACTAAAGACAATAAATCTTATTTCCTTGGCA-TTGCAATGGAACAGATTAAAGCT
65 AGTGGAACAGACTGAAGACAACCAATCTTATCTCCTT-GAAGTTGCAGTCGAACAGATCAAAGCT
55773483 ACAAATTATGGCGG
129 ACAAATTATGGCGG
* * *
55773497 ATCTTATCTTCTTGAAGTTGTGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGCA
1 ATCTTATCTTCCTAAAGTTGAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGCA
* * * * ** * * *
55773562 GTGGAGCAGGCTGAAGACAACGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGTTTAAAGCTAC
66 GTGGAACAGACTGAAGACAACCAATCTTATCTCCTTGAAGTTGCAGTCGAACAGATCAAAGCTAC
*
55773627 AAATTTTGGCGG
131 AAATTATGGCGG
* *
55773639 ATCTTATTTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACTAGCCTTATCTCCCTAAAGTTGC
1 ATCTTATCTTCCTAAAGTTG-AGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGC
* ** * * *
55773704 AGTGGAACAGATTGAAG-TTACCAATTCTTATCTCCTTGAAGTTTCAG-CGAAGTAGATCGAAGC
65 AGTGGAACAGACTGAAGACAACCAA-TCTTATCTCCTTGAAGTTGCAGTCGAA-CAGATCAAAGC
55773767 TACAAAT
128 TACAAAT
55773774 CTCTTCTCCC
Statistics
Matches: 236, Mismatches: 37, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
141 1 0.00
142 128 0.54
143 107 0.45
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.30
Consensus pattern (142 bp):
ATCTTATCTTCCTAAAGTTGAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGCA
GTGGAACAGACTGAAGACAACCAATCTTATCTCCTTGAAGTTGCAGTCGAACAGATCAAAGCTAC
AAATTATGGCGG
Found at i:55773876 original size:44 final size:44
Alignment explanation
Indices: 55773748--55773882 Score: 135
Period size: 44 Copynumber: 3.1 Consensus size: 44
55773738 CTTGAAGTTT
55773748 CAGCGAAGTAGATCGAAGCTACAAATCTCTTCTCCCTAAAATTA
1 CAGCGAAGTAGATCGAAGCTACAAATCTCTTCTCCCTAAAATTA
** * * * * * * * * *** * *
55773792 CATTGGAGCATATTGAAACCACAAGTGTAACCTTCTTAAAATTA
1 CAGCGAAGTAGATCGAAGCTACAAATCTCTTCTCCCTAAAATTA
55773836 CAGCGAAGTAGATCGAAGCTACAAATCTCTTCTCCCTAAAATTA
1 CAGCGAAGTAGATCGAAGCTACAAATCTCTTCTCCCTAAAATTA
55773880 CAG
1 CAG
55773883 TGGGTTAGAA
Statistics
Matches: 61, Mismatches: 30, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
44 61 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (44 bp):
CAGCGAAGTAGATCGAAGCTACAAATCTCTTCTCCCTAAAATTA
Found at i:55775227 original size:24 final size:24
Alignment explanation
Indices: 55775189--55775249 Score: 88
Period size: 24 Copynumber: 2.5 Consensus size: 24
55775179 TTTGATTTCA
*
55775189 ATTTATTTTTGAAATTTATTTAT-TT
1 ATTTA-TTTTAAAATTT-TTTATATT
55775214 ATTTATTTTAAAATTTTTTATATT
1 ATTTATTTTAAAATTTTTTATATT
55775238 ATTTATTTTAAA
1 ATTTATTTTAAA
55775250 CCATATATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
23 5 0.15
24 24 0.71
25 5 0.15
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (24 bp):
ATTTATTTTAAAATTTTTTATATT
Found at i:55775475 original size:21 final size:20
Alignment explanation
Indices: 55775446--55775498 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
55775436 CTTTGTATGT
* *
55775446 TATTTTTTATTTTGCATTGC
1 TATTATTTATTTTGAATTGC
*
55775466 ATATTATTTACTTTGAATTGC
1 -TATTATTTATTTTGAATTGC
55775487 T-TTATATTATTT
1 TATTAT-TTATTT
55775499 ACCTCAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 4 0.15
20 6 0.22
21 17 0.63
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (20 bp):
TATTATTTATTTTGAATTGC
Found at i:55775508 original size:24 final size:25
Alignment explanation
Indices: 55775466--55775524 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
55775456 TTTGCATTGC
* ** *
55775466 ATATTATTTACTTTGAATTG-CTTT
1 ATATTATTTACCTCAAATTGTCTAT
55775490 ATATTATTTACCTCAAATTGTTCTAT
1 ATATTATTTACCTCAAATTG-TCTAT
55775516 ATATTATTT
1 ATATTATTT
55775525 CGTTTTCATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 17 0.59
26 12 0.41
ACGTcount: A:0.29, C:0.10, G:0.05, T:0.56
Consensus pattern (25 bp):
ATATTATTTACCTCAAATTGTCTAT
Found at i:55799412 original size:3 final size:3
Alignment explanation
Indices: 55799404--55799508 Score: 106
Period size: 3 Copynumber: 35.0 Consensus size: 3
55799394 ACATAGAAAT
* * * *
55799404 ATA ATA ATA ATA ATA ATA ATA ATA ATA CTA A-A TTA ATG GTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
55799451 ATA ATA ATA GAAA ATA TTA ATA TTA ATA ATA AT- ATCA ATA ATA CTA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
55799497 ATA ATA ATA ATA
1 ATA ATA ATA ATA
55799509 GTGTAAGTGT
Statistics
Matches: 82, Mismatches: 16, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
2 3 0.04
3 75 0.91
4 4 0.05
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:55801145 original size:44 final size:44
Alignment explanation
Indices: 55801097--55801650 Score: 224
Period size: 44 Copynumber: 12.5 Consensus size: 44
55801087 TTTAATCCAT
*
55801097 TCCACTGCAACTTCAGGGAGATAGGATTAATAGCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAGGATTGATAGCTTCAATCTGC
*
55801141 TCCACTGCAA--T-A---AGATTGG--T-AT--CTTCAA-CTTGC
1 TCCACTGCAACTTCAGGGAGATAGGATTGATAGCTTCAATC-TGC
* * * * *
55801174 TCCACTGCAACTTCAAGGAGATAATG-TTGGGTATCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGAT-AGGATT-GATAGCTTCAATCTGC
* * * * * * * *
55801219 TCTACTACAACTTTAGGGAGATAAGACTTGTTGTGGTAGATTTAATCCGAC
1 TCCACTGCAACTTCAGGGAGAT-AG----GAT-TGATAGCTTCAATCTG-C
* * * * * * *
55801270 -CTACTGCAACTTCAGAGATG-TAGGATTCATCGTTTTAATCCGC
1 TCCACTGCAACTTCAGGGA-GATAGGATTGATAGCTTCAATCTGC
* *
55801313 TCCACTGCAACTTCAGGGAGATAGGATTAATAGCTTCAATCTAC
1 TCCACTGCAACTTCAGGGAGATAGGATTGATAGCTTCAATCTGC
* * * * * *
55801357 TCCACTGTAACTTCAAGGAGATAAGATTGGTATCTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAGGATTGATAGCTTCAATCTGC
* * * * * * * *
55801401 TCCGCTACAACTTCAGAGAGATAAGG-TTGGGTATCTTCAGTTTGT
1 TCCACTGCAACTTCAGGGAGAT-AGGATT-GATAGCTTCAATCTGC
* * * * ** * * *
55801446 TCCATTGCCACTTCAGTGAGATAAGACTTGTTATGGTAAATTTAATCCGA
1 TCCACTGCAACTTCAGGGAGATAGGA-TTG--A---TAGCTTCAATCTGC
* * * * * * *
55801496 TCTACTGCAACTTCAGAGG-TATAGGATTCATCGTTTTAATCCGC
1 TCCACTGCAACTTCAG-GGAGATAGGATTGATAGCTTCAATCTGC
* *
55801540 TCCACTGCAACTTCAGGAAGATAGGATTAATAGCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAGGATTGATAGCTTCAATCTGC
* ** * * *
55801584 TCTACTGCAACTTCAGGGAGATAATATTGGTATCTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAGGATTGATAGCTTCAATCTGC
* * *
55801628 TCTACTGCAACTTTAGAGAGATA
1 TCCACTGCAACTTCAGGGAGATA
55801651 AGGTTGGTTA
Statistics
Matches: 383, Mismatches: 92, Indels: 70
0.70 0.17 0.13
Matches are distributed among these distances:
32 1 0.00
33 19 0.05
35 3 0.01
36 2 0.01
38 6 0.02
39 4 0.01
40 1 0.00
41 2 0.01
42 1 0.00
43 4 0.01
44 213 0.56
45 62 0.16
46 3 0.01
47 1 0.00
49 5 0.01
50 52 0.14
51 4 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (44 bp):
TCCACTGCAACTTCAGGGAGATAGGATTGATAGCTTCAATCTGC
Found at i:55801545 original size:227 final size:227
Alignment explanation
Indices: 55800989--55801670 Score: 920
Period size: 227 Copynumber: 3.1 Consensus size: 227
55800979 TAAGATACGC
* * * * *
55800989 TATCTACAGTCTGCTCCACTACAACTTTAGGGAGATAAGACTCGTTATGGTAGATTTAATCTGAC
1 TATCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTTATGGTAAATTTAATCCGAC
* * * ** *
55801054 CTACTTCAACTTCAGAGGTATAGGATTCATTGTTTTAATCCATTCCACTGCAACTTCAGGGAGAT
66 CTACTGCAACTTCAGAGATATAGGATTCATCGTTTTAATCCGCTCCACTGCAACTTCAGGAAGAT
* *
55801119 AGGATTAATAGCTTCAATCTGCTCCACTG------C----A-ATAAGATTGGTATCTTCAACTTG
131 AGGATTAATAGCTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTGGTATCTTCAACCTG
*
55801173 CTCCACTGCAACTTCA-AGGAGATAATGTTGGG
196 CTCCACTGCAACTTCAGA-GAGATAAGGTTGGG
* * * *
55801205 TATCTTCAGTCTGCTCTACTACAACTTTAGGGAGATAAGACTTGTTGTGGTAGATTTAATCCGAC
1 TATCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTTATGGTAAATTTAATCCGAC
* *
55801270 CTACTGCAACTTCAGAGATGTAGGATTCATCGTTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
66 CTACTGCAACTTCAGAGATATAGGATTCATCGTTTTAATCCGCTCCACTGCAACTTCAGGAAGAT
*
55801335 AGGATTAATAGCTTCAATCTACTCCACTGTAACTTCAAGGAGATAAGATTGGTATCTTCAACCTG
131 AGGATTAATAGCTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTGGTATCTTCAACCTG
* *
55801400 CTCCGCTACAACTTCAGAGAGATAAGGTTGGG
196 CTCCACTGCAACTTCAGAGAGATAAGGTTGGG
* * * * * * *
55801432 TATCTTCAGTTTGTTCCATTGCCACTTCAGTGAGATAAGACTTGTTATGGTAAATTTAATCCGAT
1 TATCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTTATGGTAAATTTAATCCGAC
*
55801497 CTACTGCAACTTCAGAGGTATAGGATTCATCGTTTTAATCCGCTCCACTGCAACTTCAGGAAGAT
66 CTACTGCAACTTCAGAGATATAGGATTCATCGTTTTAATCCGCTCCACTGCAACTTCAGGAAGAT
* * * *
55801562 AGGATTAATAGCTTCAATCTGCTCTACTGCAACTTCAGGGAGATAATATTGGTATCTTCAACCTG
131 AGGATTAATAGCTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTGGTATCTTCAACCTG
* * *
55801627 CTCTACTGCAACTTTAGAGAGATAAGGTTGGT
196 CTCCACTGCAACTTCAGAGAGATAAGGTTGGG
*
55801659 TATCTTCCGTCT
1 TATCTTCAGTCT
55801671 TGATCTGCTC
Statistics
Matches: 412, Mismatches: 42, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
216 147 0.36
222 1 0.00
226 1 0.00
227 262 0.64
228 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (227 bp):
TATCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTTATGGTAAATTTAATCCGAC
CTACTGCAACTTCAGAGATATAGGATTCATCGTTTTAATCCGCTCCACTGCAACTTCAGGAAGAT
AGGATTAATAGCTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTGGTATCTTCAACCTG
CTCCACTGCAACTTCAGAGAGATAAGGTTGGG
Found at i:55802152 original size:24 final size:24
Alignment explanation
Indices: 55802120--55802177 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
55802110 CAGATTGCCC
55802120 CCACTGTAATCTTCAAGGCTCAAT
1 CCACTGTAATCTTCAAGGCTCAAT
*
55802144 CCACTGTAATCTTCAAGGTTCAAT
1 CCACTGTAATCTTCAAGGCTCAAT
55802168 CCACTGTAAT
1 CCACTGTAAT
55802178 TTTGGGACAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (24 bp):
CCACTGTAATCTTCAAGGCTCAAT
Found at i:55803093 original size:13 final size:12
Alignment explanation
Indices: 55803067--55803111 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 12
55803057 GGCCTCATCA
55803067 TTTTTCTTTTTTC
1 TTTTT-TTTTTTC
55803080 TTTTTTTTTCTTC
1 TTTTTTTTT-TTC
55803093 TTTTTTTCTTTTC
1 TTTTTTT-TTTTC
55803106 TTTTTT
1 TTTTTT
55803112 CATCATTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.13
13 24 0.80
14 2 0.07
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (12 bp):
TTTTTTTTTTTC
Found at i:55808425 original size:3 final size:3
Alignment explanation
Indices: 55808417--55808529 Score: 106
Period size: 3 Copynumber: 38.0 Consensus size: 3
55808407 ACATAGAAAT
* * * *
55808417 ATA ATA ATA ATA ATA ATA ATA ATA ATA CTA A-A TTA ATG GTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
55808464 ATA ATA ATA GA-A GTA AGA ATA ATA ATA ATA TTA ATA ATA AT- ATCA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A
* *
55808509 ACA ATA CTA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA
55808530 GTGTAATATT
Statistics
Matches: 87, Mismatches: 18, Indels: 10
0.76 0.16 0.09
Matches are distributed among these distances:
2 3 0.03
3 82 0.94
4 2 0.02
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:55809227 original size:17 final size:18
Alignment explanation
Indices: 55809201--55809237 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
55809191 TTAGTATTTC
*
55809201 AAAATAATAAAAATATAA
1 AAAATAATAAAAAAATAA
55809219 AAAAT-ATAAAAAAATAA
1 AAAATAATAAAAAAATAA
55809236 AA
1 AA
55809238 CGAAACAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (18 bp):
AAAATAATAAAAAAATAA
Found at i:55809864 original size:33 final size:33
Alignment explanation
Indices: 55809782--55809871 Score: 92
Period size: 33 Copynumber: 2.7 Consensus size: 33
55809772 AGAGTACATT
* * *
55809782 GTCAGTCCAACCAAACACACCAGATGGTCACACGA
1 GTCAATCCAACC-AACACACCA-ATGCTCACAAGA
** *
55809817 GTCAATCCCTCCAACACACCAATGCTCATAAGA
1 GTCAATCCAACCAACACACCAATGCTCACAAGA
55809850 G-CTAATCCAACCAACACACCAA
1 GTC-AATCCAACCAACACACCAA
55809872 ACAGGGTGTA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
32 1 0.02
33 27 0.59
34 9 0.20
35 9 0.20
ACGTcount: A:0.39, C:0.37, G:0.11, T:0.13
Consensus pattern (33 bp):
GTCAATCCAACCAACACACCAATGCTCACAAGA
Found at i:55817775 original size:122 final size:121
Alignment explanation
Indices: 55817565--55817900 Score: 334
Period size: 122 Copynumber: 2.8 Consensus size: 121
55817555 CTTTGTGGCA
* * * * * *
55817565 AGTACTAAATGTAAATGACACCCTTTGTGGGAAAAATTTGGA-TAGAAAAACCTTTTTGGTGAGT
1 AGTACTAAATGTAAATGACAACCTTTGTGGCAAAACTCTGGACAAG-AAAACCTTTATGGTGAGT
* * * * * * * *
55817629 ACTAGATATAAAGGATAGCCTTTGTGGCACAACTCTAGACATGAAAGCCTTTATGGTG
65 ACGA-ATGTAAAGGAAAACTTTTGTGGCAAAACTCTAGACAAGAAAGCCTTTATGATG
* * * *
55817687 TGTACTAAATGTAAATGACAACCTTTGTGGCAAAACTCTGGACAAGAAAGCCTTTATAGCGAGTA
1 AGTACTAAATGTAAATGACAACCTTTGTGGCAAAACTCTGGACAAGAAAACCTTTATGGTGAGTA
* * * * *
55817752 CCGAATGTAAAGGACAACTTTTGTGGCAAAACTTTGGAGAAGAAAGCCTTTGTGATG
66 -CGAATGTAAAGGAAAACTTTTGTGGCAAAACTCTAGACAAGAAAGCCTTTATGATG
* * * * * * * *
55817809 AGTACTAGATAT-AATGATAGCTTTTGTGGCAAAACTCTAGACAGGAAAACCTTTGTGGTGAGTA
1 AGTACTAAATGTAAATGACAACCTTTGTGGCAAAACTCTGGACAAGAAAACCTTTATGGTGAGTA
*
55817873 TTGAATGTAAAGGAAAACTTTTGTGGCA
66 -CGAATGTAAAGGAAAACTTTTGTGGCA
55817901 GCTTCTGTTT
Statistics
Matches: 175, Mismatches: 37, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
121 68 0.39
122 103 0.59
123 4 0.02
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.29
Consensus pattern (121 bp):
AGTACTAAATGTAAATGACAACCTTTGTGGCAAAACTCTGGACAAGAAAACCTTTATGGTGAGTA
CGAATGTAAAGGAAAACTTTTGTGGCAAAACTCTAGACAAGAAAGCCTTTATGATG
Found at i:55817862 original size:60 final size:61
Alignment explanation
Indices: 55817615--55817900 Score: 254
Period size: 61 Copynumber: 4.7 Consensus size: 61
55817605 GATAGAAAAA
* * * * *
55817615 CCTTTTTGGTGAGTACTAGATATAAAGGATAGCCTTTGTGGCACAACTCTAGACATGAAAG
1 CCTTTATGGTGAGTACTAGATATAAAGGACAACCTTTGTGGCAAAACTCTAGACAAGAAAG
* * * * *
55817676 CCTTTATGGTGTGTACTAAATGTAAATGACAACCTTTGTGGCAAAACTCTGGACAAGAAAG
1 CCTTTATGGTGAGTACTAGATATAAAGGACAACCTTTGTGGCAAAACTCTAGACAAGAAAG
* * * * * * * *
55817737 CCTTTATAGCGAGTAC-CGAATGTAAAGGACAACTTTTGTGGCAAAACTTTGGAGAAGAAAG
1 CCTTTATGGTGAGTACTAG-ATATAAAGGACAACCTTTGTGGCAAAACTCTAGACAAGAAAG
* * * * * * * *
55817798 CCTTTGTGATGAGTACTAGATAT-AATGATAGCTTTTGTGGCAAAACTCTAGACAGGAAAA
1 CCTTTATGGTGAGTACTAGATATAAAGGACAACCTTTGTGGCAAAACTCTAGACAAGAAAG
* * * * *
55817858 CCTTTGTGGTGAGTA-TTGAATGTAAAGGAAAACTTTTGTGGCA
1 CCTTTATGGTGAGTACTAG-ATATAAAGGACAACCTTTGTGGCA
55817901 GCTTCTGTTT
Statistics
Matches: 182, Mismatches: 39, Indels: 8
0.79 0.17 0.03
Matches are distributed among these distances:
59 2 0.01
60 46 0.25
61 133 0.73
62 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.29
Consensus pattern (61 bp):
CCTTTATGGTGAGTACTAGATATAAAGGACAACCTTTGTGGCAAAACTCTAGACAAGAAAG
Found at i:55822674 original size:50 final size:50
Alignment explanation
Indices: 55822599--55822695 Score: 194
Period size: 50 Copynumber: 1.9 Consensus size: 50
55822589 NNNNNNNNNN
55822599 CGTAAAACTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAAC
1 CGTAAAACTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAAC
55822649 CGTAAAACTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTG
1 CGTAAAACTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTG
55822696 TATCGAATGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.29
Consensus pattern (50 bp):
CGTAAAACTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAAC
Found at i:55824834 original size:47 final size:49
Alignment explanation
Indices: 55824781--55824893 Score: 158
Period size: 47 Copynumber: 2.3 Consensus size: 49
55824771 TTATGAAATC
*
55824781 TCCGTGTAAGACCATATCTGGAATATGGCATC-AT-TGTGATATGTGAT
1 TCCGTGTAAGACCATAGCTGGAATATGGCATCGATATGTGATATGTGAT
** *
55824828 TCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTATGTGATATGTGAT
1 TCCGTGTAAGACCATAGCTGGAATATGGCATCGATATGTGATATGTGAT
* *
55824877 TACATGTAAGACCATAG
1 TCCGTGTAAGACCATAG
55824894 TTGGNNNNNN
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
47 29 0.50
48 1 0.02
49 28 0.48
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (49 bp):
TCCGTGTAAGACCATAGCTGGAATATGGCATCGATATGTGATATGTGAT
Found at i:55824887 original size:49 final size:47
Alignment explanation
Indices: 55824785--55824893 Score: 146
Period size: 49 Copynumber: 2.3 Consensus size: 47
55824775 GAAATCTCCG
* * *
55824785 TGTAAGACCATATCTGGAATATGGCATCATTGTGATATGTGATTCCG
1 TGTAAGACCATAGCTGGAATATGGCATCATTGTGATATGTGATTACA
** *
55824832 TGTAAGACCATAGCTGGGCTATGGCATCGGTATGTGATATGTGATTACA
1 TGTAAGACCATAGCTGGAATATGGCATC-AT-TGTGATATGTGATTACA
55824881 TGTAAGACCATAG
1 TGTAAGACCATAG
55824894 TTGGNNNNNN
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
47 25 0.46
48 1 0.02
49 28 0.52
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (47 bp):
TGTAAGACCATAGCTGGAATATGGCATCATTGTGATATGTGATTACA
Found at i:55825433 original size:50 final size:50
Alignment explanation
Indices: 55825374--55825475 Score: 195
Period size: 50 Copynumber: 2.0 Consensus size: 50
55825364 AAGTAAGGCC
*
55825374 ATGAATGGTATATGGGGTAACTCATGTTGGTAATACAAATTGTGAATTAT
1 ATGAATGGTATATGGGGTAACTCATGTTGGTAATACAAATGGTGAATTAT
55825424 ATGAATGGTATATGGGGTAACTCATGTTGGTAATACAAATGGTGAATTAT
1 ATGAATGGTATATGGGGTAACTCATGTTGGTAATACAAATGGTGAATTAT
55825474 AT
1 AT
55825476 TTGATATGTT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.35
Consensus pattern (50 bp):
ATGAATGGTATATGGGGTAACTCATGTTGGTAATACAAATGGTGAATTAT
Found at i:55827897 original size:43 final size:43
Alignment explanation
Indices: 55827849--55827937 Score: 178
Period size: 43 Copynumber: 2.1 Consensus size: 43
55827839 CCAATTCCAA
55827849 TGTCATACAAGGAGCTGTATCAAAGCTTATTCGATGCGCATGT
1 TGTCATACAAGGAGCTGTATCAAAGCTTATTCGATGCGCATGT
55827892 TGTCATACAAGGAGCTGTATCAAAGCTTATTCGATGCGCATGT
1 TGTCATACAAGGAGCTGTATCAAAGCTTATTCGATGCGCATGT
55827935 TGT
1 TGT
55827938 TTCTCCTTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (43 bp):
TGTCATACAAGGAGCTGTATCAAAGCTTATTCGATGCGCATGT
Found at i:55830804 original size:88 final size:88
Alignment explanation
Indices: 55830655--55831310 Score: 997
Period size: 88 Copynumber: 7.4 Consensus size: 88
55830645 GTGAAGATAA
* * *
55830655 CAGATCTTACCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAACCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
55830720 GTAGCGGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * *
55830743 CAGATCTTGCCTTCCTGCACCAACAGCGAAGCAGATCGAAGACACTAGCCTAGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
55830808 GCAGCGGAGCAAGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* *
55830831 CAGATCTTGCCTTCCTGCACCGACAGCGAAGAAGATCGAAGACACCAGTCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
55830896 GCAGCGGAGCAGGTTAAAAATTG
66 GCAGCGGAGCAGGTTAAAAATAG
* * * * *
55830919 CAGATCTTGCCTTCCTGCACCAACAACGAGGCAGATTGAAGACACCAACCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
55830984 GTAGTGGAGCAAGGTTAAAAATAG
66 GCAGCGGAGC-AGGTTAAAAATAG
* * *
55831008 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAATATACCAACCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
**
55831073 ATAGCGGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * * *
55831096 CAGATCTTGTCTTCTTGCACCGACAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCTCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
55831161 GCGGCGGAACAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* *
55831184 CAGATCTTGCCTTCCTGCACCGATAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCTTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
55831249 GCAGCGAAGTAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
*
55831272 CAGATCTTGCCTACCTGCACCGACAGCGAAGCAGATCGA
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGA
55831311 TGACCCCAAC
Statistics
Matches: 511, Mismatches: 56, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
88 432 0.85
89 79 0.15
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.20
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
GCAGCGGAGCAGGTTAAAAATAG
Found at i:55831301 original size:45 final size:44
Alignment explanation
Indices: 55830722--55831305 Score: 170
Period size: 44 Copynumber: 13.2 Consensus size: 44
55830712 CCTGGGTTGT
* *
55830722 AGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCAAC
1 AGCGAAGCAGGTTAAAAATAGCAGATCTTGCC-TCCTGCACCGAC
* ** * * * * ****
55830767 AGCGAAGCAGATCGAAGACA-CTAG-CCTAGCCTCCCTGGGTTG-C
1 AGCGAAGCAGGTTAAAAATAGC-AGATCTTGCCT-CCTGCACCGAC
* *
55830810 AGCGGAGCAAGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGAC
1 AGCGAAGCAGGTTAAAAATAGCAGATCTTGCC-TCCTGCACCGAC
* * ** * * * ****
55830855 AGCGAAGAAGATCGAAGACACCAG-TCTTGCCTCCCTGGGTTG-C
1 AGCGAAGCAGGTTAAAAATAGCAGATCTTGCCT-CCTGCACCGAC
* * *
55830898 AGCGGAGCAGGTTAAAAATTGCAGATCTTGCCTTCCTGCACCAAC
1 AGCGAAGCAGGTTAAAAATAGCAGATCTTGCC-TCCTGCACCGAC
* * * * * * * * **** *
55830943 AACGAGGCAGATTGAAGACACCA-ACCTTGCCTCCCTGGGTTG-T
1 AGCGAAGCAGGTTAAAAATAGCAGATCTTGCCT-CCTGCACCGAC
* *
55830986 AGTGGAGCAAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGAC
1 AGCGAAGC-AGGTTAAAAATAGCAGATCTTGCC-TCCTGCACCGAC
* ** * * * **** *
55831032 AGCGAAGCAGATCGAATATACCA-ACCTTGCCTCCCTG-GGTTAT
1 AGCGAAGCAGGTTAAAAATAGCAGATCTTGCCT-CCTGCACCGAC
* * *
55831075 AGCGGAGCAGGTTAAAAATAGCAGATCTTGTCTTCTTGCACCGAC
1 AGCGAAGCAGGTTAAAAATAGCAGATCTTG-CCTCCTGCACCGAC
* * ** * * * * ****
55831120 AGTGAAGCAGATCGAAGACACCAG-CCTTGCCTCTCTGGGTTG-C
1 AGCGAAGCAGGTTAAAAATAGCAGATCTTGCCTC-CTGCACCGAC
* *
55831163 GGCGGAA-CAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGAT
1 AGC-GAAGCAGGTTAAAAATAGCAGATCTTGCC-TCCTGCACCGAC
* ** * * * * ****
55831208 AGCGAAGCAGATCGAAGACACCAG-CCTTGCCTCCTTGGGTTG-C
1 AGCGAAGCAGGTTAAAAATAGCAGATCTTGCCTCC-TGCACCGAC
*
55831251 AGCGAAGTAGGTTAAAAATAGCAGATCTTGCCTACCTGCACCGAC
1 AGCGAAGCAGGTTAAAAATAGCAGATCTTGCCT-CCTGCACCGAC
55831296 AGCGAAGCAG
1 AGCGAAGCAG
55831306 ATCGATGACC
Statistics
Matches: 344, Mismatches: 166, Indels: 58
0.61 0.29 0.10
Matches are distributed among these distances:
43 94 0.27
44 126 0.37
45 117 0.34
46 7 0.02
ACGTcount: A:0.28, C:0.27, G:0.25, T:0.20
Consensus pattern (44 bp):
AGCGAAGCAGGTTAAAAATAGCAGATCTTGCCTCCTGCACCGAC
Found at i:55831332 original size:353 final size:353
Alignment explanation
Indices: 55830655--55831333 Score: 1070
Period size: 353 Copynumber: 1.9 Consensus size: 353
55830645 GTGAAGATAA
55830655 CAGATCTTACCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAACCTTGCCTCCCTGGGTT
1 CAGATCTTACCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAACCTTGCCTCCCTGGGTT
*
55830720 GTAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCAACAGCGAAGCAGATCGAAGA
66 ATAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCAACAGCGAAGCAGATCGAAGA
* *
55830785 CACTAGCCTAGCCTCCCTGGGTTGCAGCGGAGCAAGTTAAAAATAGCAGATCTTGCCTTCCTGCA
131 CACCAGCCTAGCCTCCCTGGGTTGCAGCGGAACAAGTTAAAAATAGCAGATCTTGCCTTCCTGCA
* *
55830850 CCGACAGCGAAGAAGATCGAAGACACCAGTCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAA
196 CCGACAGCGAAGAAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAA
* * * * * *
55830915 ATTGCAGATCTTGCCTTCCTGCACCAACAACGAGGCAGATTGAAGACACCAACCTTGCCTCCCTG
261 ATAGCAGATCTTGCCTACCTGCACCAACAACGAAGCAGATCGAAGACACCAACCCTACCTCCCTG
55830980 GGTTGTAGTGGAGCAAGGTTAAAAATAG
326 GGTTGTAGTGGAGCAAGGTTAAAAATAG
* * * *
55831008 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAATATACCAACCTTGCCTCCCTGGGTT
1 CAGATCTTACCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAACCTTGCCTCCCTGGGTT
* * * *
55831073 ATAGCGGAGCAGGTTAAAAATAGCAGATCTTGTCTTCTTGCACCGACAGTGAAGCAGATCGAAGA
66 ATAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCAACAGCGAAGCAGATCGAAGA
* * * *
55831138 CACCAGCCTTGCCTCTCTGGGTTGCGGCGGAACAGGTTAAAAATAGCAGATCTTGCCTTCCTGCA
131 CACCAGCCTAGCCTCCCTGGGTTGCAGCGGAACAAGTTAAAAATAGCAGATCTTGCCTTCCTGCA
* * * *
55831203 CCGATAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCTTGGGTTGCAGCGAAGTAGGTTAAAA
196 CCGACAGCGAAGAAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAA
* * * * *
55831268 ATAGCAGATCTTGCCTACCTGCACCGACAGCGAAGCAGATCGATGACCCCAACCCTATCTCCCTG
261 ATAGCAGATCTTGCCTACCTGCACCAACAACGAAGCAGATCGAAGACACCAACCCTACCTCCCTG
55831333 G
326 G
55831334 ACAGTAGTGG
Statistics
Matches: 294, Mismatches: 32, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
353 294 1.00
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (353 bp):
CAGATCTTACCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAACCTTGCCTCCCTGGGTT
ATAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCAACAGCGAAGCAGATCGAAGA
CACCAGCCTAGCCTCCCTGGGTTGCAGCGGAACAAGTTAAAAATAGCAGATCTTGCCTTCCTGCA
CCGACAGCGAAGAAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAA
ATAGCAGATCTTGCCTACCTGCACCAACAACGAAGCAGATCGAAGACACCAACCCTACCTCCCTG
GGTTGTAGTGGAGCAAGGTTAAAAATAG
Found at i:55831371 original size:44 final size:44
Alignment explanation
Indices: 55831321--55831442 Score: 158
Period size: 44 Copynumber: 2.8 Consensus size: 44
55831311 TGACCCCAAC
55831321 CCTATCTCCCTGGACAGTAGTGGAATAGGTTGAAGATTAT-AAGT
1 CCTATCTCCCTGGACAGTAGTGGAATAGGTTGAAGATTATGAA-T
* * * *
55831365 CCTATCTCTCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
1 CCTATCTCCCTGGACAGTAGTGGAATAGGTTGAAGATTATGAAT
* *
55831409 CCTATCTCCCT-GAGCAATAGTGGAGTAGGTTGAA
1 CCTATCTCCCTGGA-CAGTAGTGGAATAGGTTGAA
55831443 ACTAGTAGAT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
43 1 0.01
44 64 0.96
45 2 0.03
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (44 bp):
CCTATCTCCCTGGACAGTAGTGGAATAGGTTGAAGATTATGAAT
Found at i:55832053 original size:45 final size:44
Alignment explanation
Indices: 55831932--55832310 Score: 201
Period size: 45 Copynumber: 8.7 Consensus size: 44
55831922 GATCGCATCT
55831932 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCA
* *
55831976 AGCCTTATC-CTCCTGAAGTTGTAGT-GAGGCAGACTGAAG-ATGGCGA
1 AGTCTTATCTC-CCTGAAGTTGTAGTGGA-GCAGACT-AAGTA-AGC-A
* * * * *
55832022 A-TCTTATCTCCCTGAAGTTGCACTGGAGCAGATTTAAGCCAATC-
1 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGA-CTAAG-TAAGCA
* ** * *
55832066 A-TCCTATCTCCCTGAAGTTGTAGTGGAGTGGATTAA--AATCA
1 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCA
* * * * * *
55832107 CAGATCTTATCT-TCTGAAGTTGTAG-AGAGCAGA-T-CG-CATCG
1 -AG-TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCA
* * * * * * **
55832148 GGTTTTATCTCCTTGAAGTTGCAGTGGAGCAGACCCAAGAAAGTG
1 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGA-CTAAGTAAGCA
** * **
55832193 AGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTCAAGAAATTA
1 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACT-AAGTAAGCA
* * * * * *
55832238 AGTCTTATCCCCCTAAAATT-TCAGTGGGGCAGACTAAATAAACA
1 AGTCTTATCTCCCTGAAGTTGT-AGTGGAGCAGACTAAGTAAGCA
* *
55832282 AATCTTATCTCCCTAAAGTTGTAGTGGAG
1 AGTCTTATCTCCCTGAAGTTGTAGTGGAG
55832311 TGGATTAGAA
Statistics
Matches: 259, Mismatches: 52, Indels: 48
0.72 0.14 0.13
Matches are distributed among these distances:
39 7 0.03
40 15 0.06
41 11 0.04
42 6 0.02
43 19 0.07
44 94 0.36
45 99 0.38
46 7 0.03
47 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCA
Found at i:55832210 original size:217 final size:217
Alignment explanation
Indices: 55831789--55832212 Score: 516
Period size: 217 Copynumber: 2.0 Consensus size: 217
55831779 GCAATTTAAA
55831789 AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCACTGGAGCAGATTTAAGCCAATCATCCT
1 AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCACTGGAGCAGATTTAAGCCAATCATCCT
* * * *** * * *
55831854 ATGTAGTGAGGCAGACTGAAGATGGCGAATCTTATCTCCCTTTTATCTCTCTGAAGTTGCAGAGA
66 ATCTACTGAAGCAGACTGAAGATGGCGAATAAAATCACCATCTTATCTCTCTGAAGTTGCAGAGA
* * * * *
55831919 GCGGATCGCATCTAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCAAGCCTTAT
131 GCAGATCGCATCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCAAGAAAGCAAGCCTTAT
55831984 CCTCCTGAAGTTGTAGTGAGGC
196 CCTCCTGAAGTTGTAGTGAGGC
55832006 AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCACTGGAGCAGATTTAAGCCAATCATCCT
1 AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCACTGGAGCAGATTTAAGCCAATCATCCT
* ** * * * * *
55832071 ATCTCCCTGAAGTTGTAGTGGAG-T-G-GATTAAAATCACAGATCTTATCT-TCTGAAGTTGTAG
66 ATCT-ACTGAAGCAG-ACTGAAGATGGCGAATAAAATCAC-CATCTTATCTCTCTGAAGTTGCAG
* * * ** *
55832132 AGAGCAGATCGCATCGGGTTTTATCTCCTTGAAGTTGCAGTGGAGCAGACCCAAGAAAGTGAGTC
128 AGAGCAGATCGCATCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CCAAGAAAGCAAGCC
55832197 TTAT-CTCCCTGAAGTT
192 TTATCCT-CCTGAAGTT
55832213 ACAGTGGAGC
Statistics
Matches: 174, Mismatches: 28, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
216 64 0.37
217 99 0.57
218 6 0.03
219 5 0.03
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.29
Consensus pattern (217 bp):
AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCACTGGAGCAGATTTAAGCCAATCATCCT
ATCTACTGAAGCAGACTGAAGATGGCGAATAAAATCACCATCTTATCTCTCTGAAGTTGCAGAGA
GCAGATCGCATCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCAAGAAAGCAAGCCTTAT
CCTCCTGAAGTTGTAGTGAGGC
Found at i:55832246 original size:217 final size:216
Alignment explanation
Indices: 55831896--55832317 Score: 469
Period size: 217 Copynumber: 1.9 Consensus size: 216
55831886 TATCTCCCTT
* * *
55831896 TTATCTCTCTGAAGTTGCAGAGAGCGGATCGCATCTAGTCTTATCTCCCTGAAGTTGTAGTGGAG
1 TTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCGAGTCTTATCTCCCTGAAGTTGCAGTGGAG
* * ** * **
55831961 CAGACTAAGTAAGCAAGCCTTATCCTCCTGAAGTTGTAGTGAGGCAGACTGAAGATGGCGAATCT
66 CAGACCAAGAAAGCAAGCCTTATCCTCCTGAAGTTACAGTGAGGCAGACTCAAGATAACGAATCT
* * * * * *
55832026 TATCTCCCTGAAGTTGCACTGGAGCAGA-T-TTAAGCCAATCATCCTATCTCCCTGAAGTTGTAG
131 TATCCCCCTAAAATTGCACTGGAGCAGACTAATAA-ACAA--ATCCTATCTCCCTAAAGTTGTAG
55832089 TGGAGTGGATTAAAATCACAGATC
193 TGGAGTGGATTAAAATCACAGATC
* * * *
55832113 TTATCT-TCTGAAGTTGTAGAGAGCAGATCGCATCGGGTTTTATCTCCTTGAAGTTGCAGTGGAG
1 TTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCGAGTCTTATCTCCCTGAAGTTGCAGTGGAG
** * **
55832177 CAGACCCAAGAAAGTGAGTCTTAT-CTCCCTGAAGTTACAGTG-GAGCAGACTCAAGA-AATTAA
66 CAGA-CCAAGAAAGCAAGCCTTATCCT-CCTGAAGTTACAGTGAG-GCAGACTCAAGATAACGAA
* * * *
55832239 GTCTTATCCCCCTAAAATTTCAGTGGGGCAGACTAAATAAACAAATCTTATCTCCCTAAAGTTGT
128 -TCTTATCCCCCTAAAATTGCACTGGAGCAGACT-AATAAACAAATCCTATCTCCCTAAAGTTGT
55832304 AGTGGAGTGGATTA
191 AGTGGAGTGGATTA
55832318 GAATATCTCT
Statistics
Matches: 169, Mismatches: 29, Indels: 14
0.80 0.14 0.07
Matches are distributed among these distances:
216 60 0.36
217 102 0.60
218 1 0.01
219 3 0.02
220 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (216 bp):
TTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCGAGTCTTATCTCCCTGAAGTTGCAGTGGAG
CAGACCAAGAAAGCAAGCCTTATCCTCCTGAAGTTACAGTGAGGCAGACTCAAGATAACGAATCT
TATCCCCCTAAAATTGCACTGGAGCAGACTAATAAACAAATCCTATCTCCCTAAAGTTGTAGTGG
AGTGGATTAAAATCACAGATC
Found at i:55832851 original size:19 final size:19
Alignment explanation
Indices: 55832824--55832913 Score: 153
Period size: 19 Copynumber: 4.7 Consensus size: 19
55832814 TCTTCAAGGG
55832824 TATGCAATCTTAGATATGA
1 TATGCAATCTTAGATATGA
*
55832843 TATGTAATCTTAGATATGA
1 TATGCAATCTTAGATATGA
*
55832862 TATGCAATCTTAGAGATGA
1 TATGCAATCTTAGATATGA
*
55832881 TATGTAATCTTAGATATGA
1 TATGCAATCTTAGATATGA
55832900 TATGCAATCTTAGA
1 TATGCAATCTTAGA
55832914 AGATATGATC
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 65 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.38
Consensus pattern (19 bp):
TATGCAATCTTAGATATGA
Found at i:55832868 original size:38 final size:38
Alignment explanation
Indices: 55832824--55832936 Score: 172
Period size: 38 Copynumber: 2.9 Consensus size: 38
55832814 TCTTCAAGGG
55832824 TATGCAATCTTAGATATGATATGTAATCTTAGATATGA
1 TATGCAATCTTAGATATGATATGTAATCTTAGATATGA
*
55832862 TATGCAATCTTAGAGATGATATGTAATCTTAGATATGA
1 TATGCAATCTTAGATATGATATGTAATCTTAGATATGA
*
55832900 TATGCAATCTTAGAAGATATGATCTTGTAATCTTAGA
1 TATGCAATCTT---AGATATGAT-ATGTAATCTTAGA
55832937 GATTTAATTT
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
38 48 0.71
41 8 0.12
42 12 0.18
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (38 bp):
TATGCAATCTTAGATATGATATGTAATCTTAGATATGA
Found at i:55832935 original size:23 final size:22
Alignment explanation
Indices: 55832824--55832936 Score: 97
Period size: 19 Copynumber: 5.6 Consensus size: 22
55832814 TCTTCAAGGG
55832824 TATGCAATCTT---AGATATGA
1 TATGCAATCTTAGAAGATATGA
*
55832843 TATGTAATCTT---AGATATGA
1 TATGCAATCTTAGAAGATATGA
55832862 TATGCAATCTTAG-AG--ATGA
1 TATGCAATCTTAGAAGATATGA
*
55832881 TATGTAATCTT---AGATATGA
1 TATGCAATCTTAGAAGATATGA
55832900 TATGCAATCTTAGAAGATATGA
1 TATGCAATCTTAGAAGATATGA
* *
55832922 TCTTGTAATCTTAGA
1 T-ATGCAATCTTAGA
55832937 GATTTAATTT
Statistics
Matches: 80, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
17 2 0.03
19 56 0.70
21 2 0.03
22 9 0.11
23 11 0.14
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (22 bp):
TATGCAATCTTAGAAGATATGA
Found at i:55833162 original size:23 final size:23
Alignment explanation
Indices: 55833118--55833162 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
55833108 TCTTATTTTG
* *
55833118 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
55833141 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
55833163 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:55847251 original size:13 final size:13
Alignment explanation
Indices: 55847233--55847258 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55847223 GGCTTCCCCT
55847233 TTCCTTCTGTTTC
1 TTCCTTCTGTTTC
55847246 TTCCTTCTGTTTC
1 TTCCTTCTGTTTC
55847259 AGTTTAGCTA
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:0.00, C:0.31, G:0.08, T:0.62
Consensus pattern (13 bp):
TTCCTTCTGTTTC
Found at i:55847298 original size:52 final size:52
Alignment explanation
Indices: 55847233--55847331 Score: 171
Period size: 52 Copynumber: 1.9 Consensus size: 52
55847223 GGCTTCCCCT
*
55847233 TTCCTTCTGTTTCTTCCTTCTGTTTCAGTTTAGCTACTTCACAACTTAGCCG
1 TTCCTTCTATTTCTTCCTTCTGTTTCAGTTTAGCTACTTCACAACTTAGCCG
* *
55847285 TTCCTTCTATTTCTTCTTTCTGTTTCAGTTTAGCTGCTTCACAACTT
1 TTCCTTCTATTTCTTCCTTCTGTTTCAGTTTAGCTACTTCACAACTT
55847332 TTTCTTTTCT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.13, C:0.27, G:0.10, T:0.49
Consensus pattern (52 bp):
TTCCTTCTATTTCTTCCTTCTGTTTCAGTTTAGCTACTTCACAACTTAGCCG
Found at i:55852044 original size:16 final size:16
Alignment explanation
Indices: 55852023--55852058 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
55852013 GATTTGCTAT
55852023 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
55852039 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
55852055 TACA
1 TACA
55852059 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:55855543 original size:4 final size:4
Alignment explanation
Indices: 55855534--55855581 Score: 96
Period size: 4 Copynumber: 12.0 Consensus size: 4
55855524 CAAACCAACT
55855534 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
55855582 TAATGAGCTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:55861311 original size:17 final size:18
Alignment explanation
Indices: 55861291--55861365 Score: 55
Period size: 20 Copynumber: 3.8 Consensus size: 18
55861281 AAAGTTTTTT
55861291 AAAATTTTAAATATATTAAA
1 AAAATTTTAAATATATT--A
*
55861311 AAAATTTTAAGTATAATTAATTTT
1 AAAATTTTAA--AT-A-T-A-TTA
55861335 AAAATTTTAAATATATT-
1 AAAATTTTAAATATATTA
55861352 AAAATTTT-AATATA
1 AAAATTTTAAATATA
55861366 CTTATATATA
Statistics
Matches: 48, Mismatches: 1, Indels: 16
0.74 0.02 0.25
Matches are distributed among these distances:
16 6 0.12
17 8 0.17
18 2 0.04
19 1 0.02
20 11 0.23
21 1 0.02
22 4 0.08
23 1 0.02
24 11 0.23
25 1 0.02
26 2 0.04
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.45
Consensus pattern (18 bp):
AAAATTTTAAATATATTA
Found at i:55861365 original size:16 final size:17
Alignment explanation
Indices: 55861333--55861365 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
55861323 ATAATTAATT
55861333 TTAAAATTTTAAATATA
1 TTAAAATTTTAAATATA
55861350 TTAAAATTTT-AATATA
1 TTAAAATTTTAAATATA
55861366 CTTATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTAAAATTTTAAATATA
Found at i:55861786 original size:191 final size:190
Alignment explanation
Indices: 55861428--55861795 Score: 434
Period size: 191 Copynumber: 1.9 Consensus size: 190
55861418 TTTATTTAAA
* * * * *
55861428 ATTTTAAAAAGAAAAATGGGTGGGCAACTTTGGAAATTGGTAGCGCTAATTTATTTTGCTCCACT
1 ATTTTAAAAAGAAAAAGGGGTGGGCAACTTTGGAAACTGGTAGCGCCAATTTATTTGGCTCCACC
* * * * *
55861493 AGAAAATGAATTTTTTTAAAAGTTCTTCCATTTTTTCAGAAATTGTAGTATTTCCCTAGTATTTA
66 AGAAAAGGAATTTTTTTAAAAGTCCCTCCATTTTTCCAGAAATTGTAATATTTCCCTAGTATTTA
* * * *
55861558 TACAGGTAACGTTATTTTACATGACTCCACCAAAAAATTAATTTTTTATCTTAGTTGCTG
131 TACAAGTAACGCTATTCTACACGACTCCACCAAAAAATTAATTTTTTATCTTAGTTGCTG
* * * * *
55861618 ATTTTAAAAGGAAAAAGGGGTGGGTAACTTTGGAAACTGGTGGTGCCAATTTATTTGGCTCTACC
1 ATTTTAAAAAGAAAAAGGGGTGGGCAACTTTGGAAACTGGTAGCGCCAATTTATTTGGCTCCACC
* * * *
55861683 A-AAAAGGAAAATTTTTTTTAAAGTCCCTCCATGTTTTCCA-AAATTGTAATATTTTCTTGGTAT
66 AGAAAAGG--AATTTTTTTAAAAGTCCCTCCAT-TTTTCCAGAAATTGTAATATTTCCCTAGTAT
** * * * *
55861746 TTATACAAGTTGCGCTGTTCTACACGGCTCCAGCAAAAAATTGATTTTTT
128 TTATACAAGTAACGCTATTCTACACGACTCCACCAAAAAATTAATTTTTT
55861796 TTATCCTGAC
Statistics
Matches: 146, Mismatches: 29, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
189 5 0.03
190 56 0.38
191 79 0.54
192 6 0.04
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (190 bp):
ATTTTAAAAAGAAAAAGGGGTGGGCAACTTTGGAAACTGGTAGCGCCAATTTATTTGGCTCCACC
AGAAAAGGAATTTTTTTAAAAGTCCCTCCATTTTTCCAGAAATTGTAATATTTCCCTAGTATTTA
TACAAGTAACGCTATTCTACACGACTCCACCAAAAAATTAATTTTTTATCTTAGTTGCTG
Found at i:55871295 original size:56 final size:57
Alignment explanation
Indices: 55871228--55871341 Score: 176
Period size: 56 Copynumber: 2.0 Consensus size: 57
55871218 GAAGAATTCC
* * *
55871228 TATAATCAAGGATTGACTCAATCCTAAAGAAAGAAAGA-AATAAAATCTGATCAAAT
1 TATAACCAAGGATTGACTCAATCCTAAAGAAAGAAAAATAATAAAATCTCATCAAAT
**
55871284 TATAACCAAGGATTGACTCCGTCCTAAAGAAAGAAAAATAATAAAATCTCATCAAAT
1 TATAACCAAGGATTGACTCAATCCTAAAGAAAGAAAAATAATAAAATCTCATCAAAT
55871341 T
1 T
55871342 TGTCTCAATC
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
56 34 0.65
57 18 0.35
ACGTcount: A:0.50, C:0.15, G:0.11, T:0.24
Consensus pattern (57 bp):
TATAACCAAGGATTGACTCAATCCTAAAGAAAGAAAAATAATAAAATCTCATCAAAT
Found at i:55871742 original size:27 final size:27
Alignment explanation
Indices: 55871708--55871771 Score: 128
Period size: 27 Copynumber: 2.4 Consensus size: 27
55871698 ACCATTTTAC
55871708 TGAATTTATAACTCACCAACAATAGGG
1 TGAATTTATAACTCACCAACAATAGGG
55871735 TGAATTTATAACTCACCAACAATAGGG
1 TGAATTTATAACTCACCAACAATAGGG
55871762 TGAATTTATA
1 TGAATTTATA
55871772 TAATCACGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.30
Consensus pattern (27 bp):
TGAATTTATAACTCACCAACAATAGGG
Found at i:55872961 original size:29 final size:29
Alignment explanation
Indices: 55872928--55872985 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
55872918 CATCCATCCA
* *
55872928 ATCACACCAATACGTGGCGGTGTGCCACT
1 ATCACACCAATACGTGGCAGTGTGACACT
55872957 ATCACACCAATACGTGGCAGTGTGACACT
1 ATCACACCAATACGTGGCAGTGTGACACT
55872986 CACATATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (29 bp):
ATCACACCAATACGTGGCAGTGTGACACT
Found at i:55880264 original size:216 final size:216
Alignment explanation
Indices: 55879858--55880288 Score: 621
Period size: 216 Copynumber: 2.0 Consensus size: 216
55879848 GAAAAGTCCC
* * * * *
55879858 AAAATGTCCAAAGTAACAGTTAAAAAGTCTATAGTGTTTAAACCATAACAAAATATGAAACCTAA
1 AAAATGTCCAAAATAACAGTTAAAAACTCCATAGTGTTTAAACCAGAACAAAATATGAAACCCAA
* * * * * * *
55879923 GCTCTAGTGTTGCCTTCCAATCCTAATTTGGAGGATTACCTGAAACCAAACAAACAAAGACGTGA
66 GATCCAGTATCGCCGTCCAAACCTAATTTGGAGGATTACCTGAAACCAAACAAACAAAGACGTAA
** **
55879988 GCTTAAAGCCTAGTGTGAGTTGTCGCCCAAATTCTCAGTGTGTATTAAAAAAACATATAACGGAA
131 GCTTAAAGCCTAGTGTGAGTTGTCGCCCAAATTCTCAGTGCATATTAAAAAAACATATAACAAAA
* *
55880053 TATCACATAGGTTATCTTTTT
196 TATCACATAGCTTACCTTTTT
* *
55880074 AAAATGTCCAAAATAACAGTTAAAACCTCCATAGTGTTTAAACCAGAACAAAATATGAAACCCGA
1 AAAATGTCCAAAATAACAGTTAAAAACTCCATAGTGTTTAAACCAGAACAAAATATGAAACCCAA
*
55880139 GATCCAGTATCGCCGTCCAAACCTAATTTGGAGGATTACCTGAATCCAAA-AAACAAAGACGTAA
66 GATCCAGTATCGCCGTCCAAACCTAATTTGGAGGATTACCTGAAACCAAACAAACAAAGACGTAA
* * * *
55880203 GCTTAAAGCCTAGTGTGTGTTGTGGCCCACATTCTCAGTGCATATTAGAAAAAAGATATAACAAA
131 GCTTAAAGCCTAGTGTGAGTTGTCGCCCAAATTCTCAGTGCATATTA-AAAAAACATATAACAAA
55880268 ATATCACATAGCTTACCTTTT
195 ATATCACATAGCTTACCTTTT
55880289 CAAATATTTC
Statistics
Matches: 189, Mismatches: 25, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
215 55 0.29
216 134 0.71
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.26
Consensus pattern (216 bp):
AAAATGTCCAAAATAACAGTTAAAAACTCCATAGTGTTTAAACCAGAACAAAATATGAAACCCAA
GATCCAGTATCGCCGTCCAAACCTAATTTGGAGGATTACCTGAAACCAAACAAACAAAGACGTAA
GCTTAAAGCCTAGTGTGAGTTGTCGCCCAAATTCTCAGTGCATATTAAAAAAACATATAACAAAA
TATCACATAGCTTACCTTTTT
Found at i:55886563 original size:17 final size:16
Alignment explanation
Indices: 55886534--55886612 Score: 76
Period size: 17 Copynumber: 4.9 Consensus size: 16
55886524 GCAACCTAAT
55886534 TTTTATT-TTTATTTA
1 TTTTATTATTTATTTA
55886549 TTGTTATTATTTATTT-
1 TT-TTATTATTTATTTA
*
55886565 TTTCT-TTCTTTACTTTA
1 TTT-TATTATTTA-TTTA
55886582 -TTTATTACTTTATTTTA
1 TTTTATTA-TTTA-TTTA
55886599 TTTTATTATTTATT
1 TTTTATTATTTATT
55886613 ACTTATTTGG
Statistics
Matches: 53, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
15 10 0.19
16 17 0.32
17 19 0.36
18 7 0.13
ACGTcount: A:0.19, C:0.05, G:0.01, T:0.75
Consensus pattern (16 bp):
TTTTATTATTTATTTA
Found at i:55886591 original size:12 final size:12
Alignment explanation
Indices: 55886574--55886620 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
55886564 TTTTCTTTCT
55886574 TTACTTTATTTA
1 TTACTTTATTTA
55886586 TTACTTTATTTTA
1 TTACTTTA-TTTA
*
55886599 TT-TTATTATTTA
1 TTACT-TTATTTA
55886611 TTAC-TTATTT
1 TTACTTTATTT
55886621 GGATATTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
11 6 0.20
12 15 0.50
13 9 0.30
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.70
Consensus pattern (12 bp):
TTACTTTATTTA
Found at i:55887646 original size:10 final size:10
Alignment explanation
Indices: 55887620--55887649 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
55887610 GGGAGAGTTA
*
55887620 AGAGAGGTTG
1 AGAGAGTTTG
55887630 AGAGAGTTTG
1 AGAGAGTTTG
55887640 AGAGAGTTTG
1 AGAGAGTTTG
55887650 GCAGTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.43, T:0.27
Consensus pattern (10 bp):
AGAGAGTTTG
Done.