Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 310 of 444
Found at i:89472149 original size:27 final size:27
Alignment explanation
Indices: 89472038--89472278 Score: 103
Period size: 27 Copynumber: 8.9 Consensus size: 27
89472028 ATTGCTGTTT
* * ***
89472038 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTTGATTTACAAAATTACTAAAA
* * * ****
89472065 TACCCTTGATTTATAGAATTGCTGTTT
1 TACCCTTGATTTACAAAATTACTAAAA
* ****
89472092 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTTGATTTACAAAATTACTAAAA
*
89472119 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
* *** *
89472146 TACCCTTGGTTTGTGAAATTACCGAAAA
1 TACCCTTGATTTACAAAATTA-CTAAAA
** ** *
89472174 -ACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
* * *
89472200 TACCCCTAATTTACAAAGTTAC-AGAAA
1 TACCCTTGATTTACAAAATTACTA-AAA
89472227 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTAC--AAAATTACTA-AAA
* *
89472256 TACCATTGGTTTACAAAATTACT
1 TACCCTTGATTTACAAAATTACT
89472279 GAAGTACCTT
Statistics
Matches: 174, Mismatches: 31, Indels: 17
0.78 0.14 0.08
Matches are distributed among these distances:
26 6 0.03
27 137 0.79
28 12 0.07
29 19 0.11
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.37
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACTAAAA
Found at i:89472286 original size:27 final size:27
Alignment explanation
Indices: 89472243--89472294 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
89472233 TGACTTTCTA
89472243 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
* *
89472270 AAAATTACT-GAAGTACCTTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
89472295 GTTGATTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:89472407 original size:27 final size:27
Alignment explanation
Indices: 89472350--89472412 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
89472340 CCCTAAAAGG
* *
89472350 TAAAAAGACCGTAAAGCCCCTGTAGGG
1 TAAAATGACCGTAAAGCCCCTGTAGGA
* *
89472377 TAAAGTGACCGTAATA-CCCCTGTATGA
1 TAAAATGACCGTAA-AGCCCCTGTAGGA
89472404 TAAAATGAC
1 TAAAATGAC
89472413 GAATATGCCC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (27 bp):
TAAAATGACCGTAAAGCCCCTGTAGGA
Found at i:89473599 original size:25 final size:25
Alignment explanation
Indices: 89473570--89473617 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
89473560 TTATAATATG
* * *
89473570 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
89473595 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
89473618 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:89473718 original size:20 final size:20
Alignment explanation
Indices: 89473654--89473724 Score: 106
Period size: 20 Copynumber: 3.5 Consensus size: 20
89473644 AGTTTGATAA
89473654 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
89473674 ACATAACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
89473694 ACATGATATGTATAATATGC
1 ACATGATATGTATGATATGC
*
89473714 ACATGAGATGT
1 ACATGATATGT
89473725 TCATAAATGC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:89473801 original size:23 final size:23
Alignment explanation
Indices: 89473771--89473913 Score: 214
Period size: 23 Copynumber: 6.1 Consensus size: 23
89473761 AGGAAGTGCA
89473771 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
89473794 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
89473818 AAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
89473841 AAAGGGCTTATGCCCCAGTGATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
89473865 AAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
89473888 AAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
89473911 AAA
1 AAA
89473914 AGAGGCAAGG
Statistics
Matches: 107, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
23 66 0.62
24 41 0.38
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:89473838 original size:47 final size:47
Alignment explanation
Indices: 89473769--89473915 Score: 249
Period size: 47 Copynumber: 3.1 Consensus size: 47
89473759 GGAGGAAGTG
89473769 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
89473816 CAAAAGGGCTTATGCCCTAGTTATTAAAGGGCTTATGCCCCAGTGAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
89473863 CAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
*
89473910 TAAAAG
1 CAAAAG
89473916 AGGCAAGGCC
Statistics
Matches: 93, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 93 1.00
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:89477598 original size:37 final size:37
Alignment explanation
Indices: 89477556--89477628 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
89477546 TACCCAGTAT
*
89477556 GGCATCAAATTTGTCAAACGAAAACAACGTCAAGTCG
1 GGCATCAAATTCGTCAAACGAAAACAACGTCAAGTCG
89477593 GGCATCAAATTCGTCAAACGAAAACAACGTCAAGTC
1 GGCATCAAATTCGTCAAACGAAAACAACGTCAAGTC
89477629 AGCTGGAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.41, C:0.23, G:0.18, T:0.18
Consensus pattern (37 bp):
GGCATCAAATTCGTCAAACGAAAACAACGTCAAGTCG
Found at i:89481033 original size:43 final size:43
Alignment explanation
Indices: 89480958--89481043 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
89480948 GTTACGTGAA
* * *
89480958 TCGCATCCATTATGAACTCGGACCTGTCAACGAGCTCGGATGC
1 TCGCATCCATAATGAACTCAGACCTCTCAACGAGCTCGGATGC
* *
89481001 TCGCATCCATAATGAACTCA-AGCCTCTTAACGAGGTCGGATGC
1 TCGCATCCATAATGAACTCAGA-CCTCTCAACGAGCTCGGATGC
89481044 CACATATCTC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
42 1 0.03
43 36 0.97
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCAGACCTCTCAACGAGCTCGGATGC
Found at i:89490103 original size:13 final size:13
Alignment explanation
Indices: 89490085--89490113 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
89490075 ACTCATTTGA
89490085 TTTTCTTTTTTAT
1 TTTTCTTTTTTAT
89490098 TTTTCTTTTTTAT
1 TTTTCTTTTTTAT
89490111 TTT
1 TTT
89490114 GCACATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTCTTTTTTAT
Found at i:89491408 original size:26 final size:26
Alignment explanation
Indices: 89491372--89491423 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
89491362 ACATAGAATC
89491372 CTAATTAAGCTCTTTGTTGGGCACAT
1 CTAATTAAGCTCTTTGTTGGGCACAT
89491398 CTAATTAAGCTCTTTGTTGGGCACAT
1 CTAATTAAGCTCTTTGTTGGGCACAT
89491424 GAACTGTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (26 bp):
CTAATTAAGCTCTTTGTTGGGCACAT
Found at i:89510839 original size:27 final size:28
Alignment explanation
Indices: 89510782--89510851 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
89510772 AAATTTGTAC
**
89510782 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
89510810 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
89510837 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
89510852 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:89510860 original size:27 final size:27
Alignment explanation
Indices: 89510782--89510863 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
89510772 AAATTTGTAC
* *
89510782 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
89510810 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
89510837 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
89510864 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:89518769 original size:27 final size:28
Alignment explanation
Indices: 89518712--89518781 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
89518702 AAATTTGTAC
**
89518712 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
89518740 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
89518767 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
89518782 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:89518790 original size:27 final size:27
Alignment explanation
Indices: 89518712--89518793 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
89518702 AAATTTGTAC
* *
89518712 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
89518740 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
89518767 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
89518794 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:89537904 original size:79 final size:79
Alignment explanation
Indices: 89537768--89537986 Score: 253
Period size: 79 Copynumber: 2.8 Consensus size: 79
89537758 AACTTTTGTT
* * ** * * *
89537768 CAGCTCTTGTGAGCTTCTGTTGGCATGTTTTGGATGGACCAGCTCTTATGAGGTTCTGTTTAGCA
1 CAGCTCTTATGAGCTTCTTTTGGCATGTTTCAGTTGGATCAGCTCTTATCAGGTTCTGTTTAGCA
89537833 TGTTTC-GATTGGAC
66 TGTTTCAG-TTGGAC
* *
89537847 CAGCTCTTATGAGCTTCTTTTGGCATGTTTCAGTTGGATCAACTCTTA-CAGGCTTCTGTTTGGC
1 CAGCTCTTATGAGCTTCTTTTGGCATGTTTCAGTTGGATCAGCTCTTATCAGG-TTCTGTTTAGC
*
89537911 ATGTTTCAGTTGGAT
65 ATGTTTCAGTTGGAC
** * * * *
89537926 CAGCTCTTACAAGCTTGTGTTTGGCGTGTTTCAGTTGGATCAGCTCTTATGAGCTTCTGTT
1 CAGCTCTTATGAGCTTCT-TTTGGCATGTTTCAGTTGGATCAGCTCTTATCAGGTTCTGTT
89537987 AGGTGTGTTC
Statistics
Matches: 119, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
78 3 0.03
79 78 0.66
80 36 0.30
81 2 0.02
ACGTcount: A:0.16, C:0.19, G:0.25, T:0.41
Consensus pattern (79 bp):
CAGCTCTTATGAGCTTCTTTTGGCATGTTTCAGTTGGATCAGCTCTTATCAGGTTCTGTTTAGCA
TGTTTCAGTTGGAC
Found at i:89537995 original size:40 final size:40
Alignment explanation
Indices: 89537767--89537986 Score: 268
Period size: 40 Copynumber: 5.5 Consensus size: 40
89537757 CAACTTTTGT
* ** *
89537767 TCAGCTCTTGTGAGCTTCTG-TTGGCATGTTTTGGATGGA
1 TCAGCTCTTATGAGCTTCTGTTTGGCATGTTTCAGTTGGA
* * *
89537806 CCAGCTCTTATGAGGTTCTGTTTAGCATGTTTC-GATTGGA
1 TCAGCTCTTATGAGCTTCTGTTTGGCATGTTTCAG-TTGGA
*
89537846 CCAGCTCTTATGAGCTTCT-TTTGGCATGTTTCAGTTGGA
1 TCAGCTCTTATGAGCTTCTGTTTGGCATGTTTCAGTTGGA
* *
89537885 TCAACTCTTA-CAGGCTTCTGTTTGGCATGTTTCAGTTGGA
1 TCAGCTCTTATGA-GCTTCTGTTTGGCATGTTTCAGTTGGA
** * *
89537925 TCAGCTCTTACAAGCTTGTGTTTGGCGTGTTTCAGTTGGA
1 TCAGCTCTTATGAGCTTCTGTTTGGCATGTTTCAGTTGGA
89537965 TCAGCTCTTATGAGCTTCTGTT
1 TCAGCTCTTATGAGCTTCTGTT
89537987 AGGTGTGTTC
Statistics
Matches: 157, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
38 1 0.01
39 49 0.31
40 106 0.68
41 1 0.01
ACGTcount: A:0.15, C:0.19, G:0.25, T:0.41
Consensus pattern (40 bp):
TCAGCTCTTATGAGCTTCTGTTTGGCATGTTTCAGTTGGA
Found at i:89537998 original size:119 final size:117
Alignment explanation
Indices: 89537780--89538001 Score: 277
Period size: 119 Copynumber: 1.9 Consensus size: 117
89537770 GCTCTTGTGA
** ** *
89537780 GCTTCTGTTGGCATGTTTTGGATGGACCAGCTCTTATGAGGTTCTGTTTAGCATGTTTCGATTGG
1 GCTTCTGTTGGCATGTTTCAGATGGACCAGCTCTTACAAGCTTCTGTTTAGCATGTTTCGATTGG
*
89537845 ACCAGCTCTTATGAGCTTCTTTTGGCATGTTTCAGTTGGATCAACTCTTACAG
66 ACCAGCTCTTATGAGCTTCTTTAGG-ATGTTTCAGTTGGATCAACTCTTACAG
* * * * *
89537898 GCTTCTGTTTGGCATGTTTCAGTTGGATCAGCTCTTACAAGCTTGTGTTTGGCGTGTTTC-AGTT
1 GCTTCTG-TTGGCATGTTTCAGATGGACCAGCTCTTACAAGCTTCTGTTTAGCATGTTTCGA-TT
*
89537962 GGATCAGCTCTTATGAGCTTCTGTTAGG-TGTGTTCAGTTG
64 GGACCAGCTCTTATGAGCTTCT-TTAGGATGT-TTCAGTTG
89538002 ATCTGACAAT
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
118 11 0.12
119 73 0.83
120 4 0.05
ACGTcount: A:0.15, C:0.18, G:0.26, T:0.41
Consensus pattern (117 bp):
GCTTCTGTTGGCATGTTTCAGATGGACCAGCTCTTACAAGCTTCTGTTTAGCATGTTTCGATTGG
ACCAGCTCTTATGAGCTTCTTTAGGATGTTTCAGTTGGATCAACTCTTACAG
Found at i:89538494 original size:12 final size:12
Alignment explanation
Indices: 89538477--89538501 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
89538467 ACTAGCTTGT
89538477 GGCTATGTTTAA
1 GGCTATGTTTAA
89538489 GGCTATGTTTAA
1 GGCTATGTTTAA
89538501 G
1 G
89538502 CCTTGTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.28, T:0.40
Consensus pattern (12 bp):
GGCTATGTTTAA
Found at i:89545229 original size:25 final size:25
Alignment explanation
Indices: 89545200--89545247 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
89545190 CCTTATAATG
* * *
89545200 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
89545225 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
89545248 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:89545314 original size:19 final size:19
Alignment explanation
Indices: 89545290--89545354 Score: 94
Period size: 19 Copynumber: 3.3 Consensus size: 19
89545280 ATAAATATGT
89545290 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
89545309 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
89545328 TATGTATATGATATGCACATGA
1 -ATG--TATGATATGCACATGA
*
89545350 GTGTA
1 ATGTA
89545355 ATCATAATGC
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
19 21 0.50
20 3 0.07
21 2 0.05
22 16 0.38
ACGTcount: A:0.35, C:0.09, G:0.22, T:0.34
Consensus pattern (19 bp):
ATGTATGATATGCACATGA
Found at i:89545327 original size:11 final size:11
Alignment explanation
Indices: 89545294--89545349 Score: 64
Period size: 11 Copynumber: 5.4 Consensus size: 11
89545284 ATATGTATGT
89545294 ATGATATGCAC
1 ATGATATGCAC
*
89545305 ATGA-ATG--T
1 ATGATATGCAC
89545313 ATGATATGCAC
1 ATGATATGCAC
* *
89545324 ATGATATGTAT
1 ATGATATGCAC
89545335 ATGATATGCAC
1 ATGATATGCAC
89545346 ATGA
1 ATGA
89545350 GTGTAATCAT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
8 4 0.11
9 3 0.08
10 3 0.08
11 26 0.72
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:89545433 original size:23 final size:24
Alignment explanation
Indices: 89545400--89545540 Score: 191
Period size: 24 Copynumber: 6.0 Consensus size: 24
89545390 GAGGAAGTGA
89545400 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
89545424 AAAA-GGCTTATG-CCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
89545446 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
89545469 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
89545493 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
89545517 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
89545541 ATGATAAAGC
Statistics
Matches: 107, Mismatches: 5, Indels: 9
0.88 0.04 0.07
Matches are distributed among these distances:
22 14 0.13
23 39 0.36
24 43 0.40
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:89545467 original size:46 final size:46
Alignment explanation
Indices: 89545400--89545521 Score: 183
Period size: 46 Copynumber: 2.6 Consensus size: 46
89545390 GAGGAAGTGA
89545400 AAAAGGGCTTATGCCCCAGTTATCAAAAGGCTTATG-CCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGCTTATGCCCCAGTTATC
*
89545446 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAA-GGCTTATGCCCCAGTTATC
* *
89545493 GAAAGGGCTTTTGCCCCAGTTATTAAAAG
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG
89545522 AGGCTAGGCC
Statistics
Matches: 70, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
45 4 0.06
46 31 0.44
47 30 0.43
48 5 0.07
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (46 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGCTTATGCCCCAGTTATC
Found at i:89545790 original size:30 final size:31
Alignment explanation
Indices: 89545730--89545792 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
89545720 CGTTTACAGT
89545730 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
89545761 AAAGGCTTCGGCCCAGTGTTATG-AATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
89545791 AA
1 AA
89545793 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 9 0.30
31 21 0.70
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:89553438 original size:20 final size:20
Alignment explanation
Indices: 89553378--89553438 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
89553368 ATAAATATGG
*
89553378 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
89553398 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
89553418 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
89553438 T
1 T
89553439 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:89553515 original size:24 final size:24
Alignment explanation
Indices: 89553488--89553606 Score: 179
Period size: 24 Copynumber: 5.0 Consensus size: 24
89553478 GAGGAAGTGA
*
89553488 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
89553512 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
89553535 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
89553559 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
89553583 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
89553607 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
23 22 0.25
24 55 0.62
25 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:89553557 original size:47 final size:48
Alignment explanation
Indices: 89553488--89553606 Score: 179
Period size: 47 Copynumber: 2.5 Consensus size: 48
89553478 GAGGAAGTGA
89553488 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
* *
89553535 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
89553583 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
89553607 ATGATAAAGC
Statistics
Matches: 66, Mismatches: 3, Indels: 4
0.90 0.04 0.05
Matches are distributed among these distances:
47 44 0.67
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:89553833 original size:31 final size:31
Alignment explanation
Indices: 89553798--89553861 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
89553788 CGTTTACAGT
89553798 AAAGGCTTCGGCCCAATAATATGAAATATGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
* ** *
89553829 AAAGGCTTCGGCCCAGTGTTATGGAATATGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
89553860 AA
1 AA
89553862 CATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATAATATGAAATATGA
Found at i:89559027 original size:21 final size:20
Alignment explanation
Indices: 89558982--89559027 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
89558972 TTGTTGGAAT
89558982 GGTT-AATTTAATCAATTTA
1 GGTTGAATTTAATCAATTTA
*
89559001 GCTTGAATTTAATTC-ATGTTA
1 GGTTGAATTTAA-TCAAT-TTA
89559022 GGTTGA
1 GGTTGA
89559028 TTGTATTTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.46
Consensus pattern (20 bp):
GGTTGAATTTAATCAATTTA
Found at i:89562210 original size:16 final size:16
Alignment explanation
Indices: 89562189--89562220 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
89562179 GGTGTAATGC
89562189 CCCAAAAATCCCGAAA
1 CCCAAAAATCCCGAAA
89562205 CCCAAAAATCCCGAAA
1 CCCAAAAATCCCGAAA
89562221 TCCTGAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.38, G:0.06, T:0.06
Consensus pattern (16 bp):
CCCAAAAATCCCGAAA
Found at i:89563814 original size:29 final size:28
Alignment explanation
Indices: 89563765--89563836 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 28
89563755 GGTGAATTTG
* **
89563765 GGCCTAGTGGGCCATAAGAATATAAACTA
1 GGCCTAGTGGGCTATTTGAATA-AAACTA
* *
89563794 GGCC-AGATGGGCTATTTGAATAAAATTG
1 GGCCTAG-TGGGCTATTTGAATAAAACTA
89563822 GGCCTAGTGGGCTAT
1 GGCCTAGTGGGCTAT
89563837 ATGCATGTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
28 18 0.50
29 18 0.50
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (28 bp):
GGCCTAGTGGGCTATTTGAATAAAACTA
Found at i:89563834 original size:28 final size:29
Alignment explanation
Indices: 89563762--89563837 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 29
89563752 GAAGGTGAAT
*
89563762 TTGGGCCTAGTGGGCCATAAGAATATAAA
1 TTGGGCCTAGTGGGCTATAAGAATATAAA
* * **
89563791 CTAGGCC-AGATGGGCTATTTGAATA-AAA
1 TTGGGCCTAG-TGGGCTATAAGAATATAAA
89563819 TTGGGCCTAGTGGGCTATA
1 TTGGGCCTAGTGGGCTATA
89563838 TGCATGTATG
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
28 18 0.49
29 19 0.51
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.26
Consensus pattern (29 bp):
TTGGGCCTAGTGGGCTATAAGAATATAAA
Found at i:89567968 original size:24 final size:24
Alignment explanation
Indices: 89567933--89567990 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 24
89567923 ATCGGCAAAA
*
89567933 GCCGAAATGCCAAAAAG-CTGAAAT
1 GCCGAAAAGCCAAAAAGTC-GAAAT
*
89567957 GTCGAAAAGCCAAAAAGTCGAAAT
1 GCCGAAAAGCCAAAAAGTCGAAAT
89567981 GCCGAAAAGC
1 GCCGAAAAGC
89567991 TGAAAGTTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 29 0.97
25 1 0.03
ACGTcount: A:0.47, C:0.21, G:0.22, T:0.10
Consensus pattern (24 bp):
GCCGAAAAGCCAAAAAGTCGAAAT
Found at i:89567986 original size:8 final size:8
Alignment explanation
Indices: 89567929--89567995 Score: 53
Period size: 8 Copynumber: 8.4 Consensus size: 8
89567919 ATGAATCGGC
89567929 AAAAGCCG
1 AAAAGCCG
* *
89567937 AAATGCCA
1 AAAAGCCG
*
89567945 AAAAGCTG
1 AAAAGCCG
* *
89567953 AAATGTCG
1 AAAAGCCG
*
89567961 AAAAGCCA
1 AAAAGCCG
*
89567969 AAAAGTCG
1 AAAAGCCG
*
89567977 AAATGCCG
1 AAAAGCCG
*
89567985 AAAAGCTG
1 AAAAGCCG
89567993 AAA
1 AAA
89567996 GTTAGGCTAC
Statistics
Matches: 42, Mismatches: 17, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
8 42 1.00
ACGTcount: A:0.51, C:0.18, G:0.21, T:0.10
Consensus pattern (8 bp):
AAAAGCCG
Found at i:89573371 original size:19 final size:19
Alignment explanation
Indices: 89573349--89573416 Score: 64
Period size: 19 Copynumber: 3.4 Consensus size: 19
89573339 CTGTCAGAAA
89573349 ATAATTAATTTTTTATAAG
1 ATAATTAATTTTTTATAAG
** * * *
89573368 ATAATTAAAGTGTAGTCAGAAA
1 ATAATT-AA-T-TTTTTATAAG
89573390 ATAATTAATTTTTTATAAG
1 ATAATTAATTTTTTATAAG
89573409 ATAATTAA
1 ATAATTAA
89573417 AGTGTACTTA
Statistics
Matches: 36, Mismatches: 10, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
19 19 0.53
20 3 0.08
21 3 0.08
22 11 0.31
ACGTcount: A:0.47, C:0.01, G:0.09, T:0.43
Consensus pattern (19 bp):
ATAATTAATTTTTTATAAG
Found at i:89573386 original size:41 final size:41
Alignment explanation
Indices: 89573341--89573422 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
89573331 TAAAATTCCT
89573341 GTCAGAAAATAATTAATTTTTTATAAGATAATTAAAGTGTA
1 GTCAGAAAATAATTAATTTTTTATAAGATAATTAAAGTGTA
89573382 GTCAGAAAATAATTAATTTTTTATAAGATAATTAAAGTGTA
1 GTCAGAAAATAATTAATTTTTTATAAGATAATTAAAGTGTA
89573423 CTTAAAATAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.46, C:0.02, G:0.12, T:0.39
Consensus pattern (41 bp):
GTCAGAAAATAATTAATTTTTTATAAGATAATTAAAGTGTA
Found at i:89579975 original size:24 final size:25
Alignment explanation
Indices: 89579948--89580015 Score: 84
Period size: 25 Copynumber: 2.8 Consensus size: 25
89579938 TGACTAGTTG
*
89579948 ATTGATAAGGA-GACTGAAACGACA
1 ATTGATAAGGATGACCGAAACGACA
* *
89579972 ATTGATAGGGATTACCGAAACGACA
1 ATTGATAAGGATGACCGAAACGACA
* *
89579997 ATTGATAGGGATTACCGAA
1 ATTGATAAGGATGACCGAA
89580016 GCTAGGTAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
24 10 0.25
25 30 0.75
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.21
Consensus pattern (25 bp):
ATTGATAAGGATGACCGAAACGACA
Found at i:89579994 original size:25 final size:25
Alignment explanation
Indices: 89579963--89580015 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
89579953 TAAGGAGACT
89579963 GAAACGACAATTGATAGGGATTACC
1 GAAACGACAATTGATAGGGATTACC
89579988 GAAACGACAATTGATAGGGATTACC
1 GAAACGACAATTGATAGGGATTACC
89580013 GAA
1 GAA
89580016 GCTAGGTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.42, C:0.15, G:0.25, T:0.19
Consensus pattern (25 bp):
GAAACGACAATTGATAGGGATTACC
Found at i:89583817 original size:29 final size:29
Alignment explanation
Indices: 89583775--89583874 Score: 200
Period size: 29 Copynumber: 3.4 Consensus size: 29
89583765 GACGAGATTA
89583775 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATG
89583804 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATG
89583833 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATG
89583862 GCACTAAGTGTGC
1 GCACTAAGTGTGC
89583875 GAGCTCGAAG
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 71 1.00
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (29 bp):
GCACTAAGTGTGCATGCTGGAAATATATG
Found at i:89583890 original size:29 final size:30
Alignment explanation
Indices: 89583775--89583934 Score: 188
Period size: 29 Copynumber: 5.5 Consensus size: 30
89583765 GACGAGATTA
89583775 GCACTAAGTGTGC-ATGCTGGAAATATATG
1 GCACTAAGTGTGCGATGCTGGAAATATATG
89583804 GCACTAAGTGTGC-ATGCTGGAAATATATG
1 GCACTAAGTGTGCGATGCTGGAAATATATG
89583833 GCACTAAGTGTGC-ATGCTGGAAATATATG
1 GCACTAAGTGTGCGATGCTGGAAATATATG
* ***
89583862 GCACTAAGTGTGCGA-GCTCGAAGGGTATG
1 GCACTAAGTGTGCGATGCTGGAAATATATG
* * * **
89583891 GCACTATGTGTGCG-GGCT-TAAATCGCATG
1 GCACTAAGTGTGCGATGCTGGAAAT-ATATG
89583920 GCACTAAGTGTGCGA
1 GCACTAAGTGTGCGA
89583935 AATCGAGTAT
Statistics
Matches: 117, Mismatches: 10, Indels: 7
0.87 0.07 0.05
Matches are distributed among these distances:
28 2 0.02
29 114 0.97
30 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.26
Consensus pattern (30 bp):
GCACTAAGTGTGCGATGCTGGAAATATATG
Found at i:89583972 original size:2 final size:2
Alignment explanation
Indices: 89583967--89583991 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
89583957 GTGCGTACTC
89583967 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
89583992 CTCCGATCGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:89591293 original size:29 final size:29
Alignment explanation
Indices: 89591251--89591349 Score: 182
Period size: 29 Copynumber: 3.4 Consensus size: 29
89591241 GACGAGATTA
89591251 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATG
89591280 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATG
89591309 GCACTAAGTGTGCATGCT-GAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATG
*
89591337 GCACTAACTGTGC
1 GCACTAAGTGTGC
89591350 GAGCTCGAAG
Statistics
Matches: 69, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
28 22 0.32
29 47 0.68
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.27
Consensus pattern (29 bp):
GCACTAAGTGTGCATGCTGGAAATATATG
Found at i:89591366 original size:57 final size:58
Alignment explanation
Indices: 89591251--89591378 Score: 179
Period size: 57 Copynumber: 2.2 Consensus size: 58
89591241 GACGAGATTA
* * *
89591251 GCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATGGCACTAACTGTGCATGCTCGAAAGATATG
* *
89591309 GCACTAAGTGTGCATGCT-GAAATATATGGCACTAACTGTGCGA-GCTCGAAGGGTATG
1 GCACTAAGTGTGCATGCTGGAAATATATGGCACTAACTGTGC-ATGCTCGAAAGATATG
*
89591366 GCACTATGTGTGC
1 GCACTAAGTGTGC
89591379 GGGCTTAAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
57 44 0.70
58 19 0.30
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.27
Consensus pattern (58 bp):
GCACTAAGTGTGCATGCTGGAAATATATGGCACTAACTGTGCATGCTCGAAAGATATG
Found at i:89591447 original size:2 final size:2
Alignment explanation
Indices: 89591442--89591474 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
89591432 GTGCGTACTC
89591442 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
89591475 CCGATCGGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:89597295 original size:48 final size:48
Alignment explanation
Indices: 89597224--89597327 Score: 174
Period size: 48 Copynumber: 2.2 Consensus size: 48
89597214 CACACGGGTG
* *
89597224 TGTGGCTGGCTGTGTAACTCAAGTCAGAGAGTTACATGGGTAAGGAGA
1 TGTGGCTGGCTATGTAACTCAAGTCAGAGAGTTACATGAGTAAGGAGA
89597272 TGTGGCTGGCTATGTAACTCAAGTCAGAGAGTTACATGAGTAAGGAGA
1 TGTGGCTGGCTATGTAACTCAAGTCAGAGAGTTACATGAGTAAGGAGA
*
89597320 CG-GGCTGG
1 TGTGGCTGG
89597328 AACACGACCG
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
47 6 0.11
48 47 0.89
ACGTcount: A:0.27, C:0.13, G:0.36, T:0.24
Consensus pattern (48 bp):
TGTGGCTGGCTATGTAACTCAAGTCAGAGAGTTACATGAGTAAGGAGA
Found at i:89600545 original size:22 final size:24
Alignment explanation
Indices: 89600505--89600548 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
89600495 TATATTTAGT
89600505 TTAATTAAACATAATTAATTAAGG
1 TTAATTAAACATAATTAATTAAGG
*
89600529 TTAA-TAAA-ATACTTAATTAA
1 TTAATTAAACATAATTAATTAA
89600549 AGTATAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 4 0.21
24 4 0.21
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.39
Consensus pattern (24 bp):
TTAATTAAACATAATTAATTAAGG
Found at i:89601603 original size:2 final size:2
Alignment explanation
Indices: 89601586--89601631 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
89601576 GTAATCTAAC
* *
89601586 AT AT CT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
89601628 AT AT
1 AT AT
89601632 TCAACTTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:89603402 original size:40 final size:40
Alignment explanation
Indices: 89603351--89603466 Score: 187
Period size: 40 Copynumber: 2.9 Consensus size: 40
89603341 ACACCATGTT
*
89603351 GGGATAAAATCGACCCACCCATCCCTGCACACCATATATG
1 GGGATATAATCGACCCACCCATCCCTGCACACCATATATG
*
89603391 GGGATATAATCGACCCACCCATCCCTGCATACCATATATG
1 GGGATATAATCGACCCACCCATCCCTGCACACCATATATG
* * *
89603431 GGGATATAATCGACCCATCCAACCCTACACACCATA
1 GGGATATAATCGACCCACCCATCCCTGCACACCATA
89603467 AGGTACCGCA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 70 1.00
ACGTcount: A:0.33, C:0.34, G:0.14, T:0.19
Consensus pattern (40 bp):
GGGATATAATCGACCCACCCATCCCTGCACACCATATATG
Found at i:89603880 original size:48 final size:48
Alignment explanation
Indices: 89603809--89603904 Score: 167
Period size: 48 Copynumber: 2.0 Consensus size: 48
89603799 CCCACACGCC
89603809 CGTGTGGGTCACACAGCTCAAATTGGCCTTACCAGTGTGGATCACACG
1 CGTGTGGGTCACACAGCTCAAATTGGCCTTACCAGTGTGGATCACACG
*
89603857 CGTGTGGGTCACACTGGC-CAAATTGGCCTTACCAGTGTGGATCACACG
1 CGTGTGGGTCACAC-AGCTCAAATTGGCCTTACCAGTGTGGATCACACG
89603905 GCCTAGCCCA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
48 44 0.96
49 2 0.04
ACGTcount: A:0.22, C:0.27, G:0.28, T:0.23
Consensus pattern (48 bp):
CGTGTGGGTCACACAGCTCAAATTGGCCTTACCAGTGTGGATCACACG
Found at i:89609609 original size:25 final size:25
Alignment explanation
Indices: 89609577--89609625 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
89609567 GATTTGACAC
89609577 GATGAGAAAGTGTTTGTGTACTTAT
1 GATGAGAAAGTGTTTGTGTACTTAT
89609602 GATGAGAAAGTGTTTGTGTACTTA
1 GATGAGAAAGTGTTTGTGTACTTA
89609626 CTTTTAGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.29, C:0.04, G:0.29, T:0.39
Consensus pattern (25 bp):
GATGAGAAAGTGTTTGTGTACTTAT
Found at i:89611377 original size:54 final size:54
Alignment explanation
Indices: 89611181--89611388 Score: 240
Period size: 55 Copynumber: 3.9 Consensus size: 54
89611171 TTTCCTTTTT
* * * * * *
89611181 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCTTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * **
89611234 GAACTCACCAATGCCATGCCTTGGCTTGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATA
* * *
89611288 GTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * *
89611343 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
89611389 ATCTTACCAA
Statistics
Matches: 132, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
52 2 0.02
53 42 0.32
54 42 0.32
55 44 0.33
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.36
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:89611422 original size:47 final size:47
Alignment explanation
Indices: 89611367--89611488 Score: 226
Period size: 47 Copynumber: 2.6 Consensus size: 47
89611357 CATGCCTTGG
*
89611367 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAA
89611414 CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAA
*
89611461 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGATATCCTTGTCTTA
89611489 GTGCCAATGC
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:89611631 original size:44 final size:44
Alignment explanation
Indices: 89611580--89611666 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
89611570 GTATCCTTAA
* *
89611580 CCGTCAATTCCTCCTTAAATGCCATGTTATGAAC-ATGGACTTTT
1 CCGTCAATTCCTCCTTAAATGCCATGGTA-CAACTATGGACTTTT
* * *
89611624 CCGTCAATTCTTGCTTAATTGCCATGGTACAACTATGGACTTT
1 CCGTCAATTCCTCCTTAAATGCCATGGTACAACTATGGACTTT
89611667 GAGATATCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
43 3 0.08
44 34 0.92
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (44 bp):
CCGTCAATTCCTCCTTAAATGCCATGGTACAACTATGGACTTTT
Found at i:89619981 original size:12 final size:12
Alignment explanation
Indices: 89619964--89619988 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
89619954 GAGCACCAGG
89619964 ATCATCAGCTTC
1 ATCATCAGCTTC
89619976 ATCATCAGCTTC
1 ATCATCAGCTTC
89619988 A
1 A
89619989 GCAGTGTTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.32, G:0.08, T:0.32
Consensus pattern (12 bp):
ATCATCAGCTTC
Found at i:89622116 original size:126 final size:126
Alignment explanation
Indices: 89621891--89622274 Score: 750
Period size: 126 Copynumber: 3.0 Consensus size: 126
89621881 TATGAATCAA
89621891 AAATGCTTAGGTAATCATAAATCCATCAAGAAGCTCAGCACATTGCTCTCTATCTCCTAGCAATA
1 AAATGCTTAGGTAATCATAAATCCATCAAGAAGCTCAGCACATTGCTCTCTATCTCCTAGCAATA
89621956 GAAAGAAAGTAACAGGTAACACTGGAAAGAAAATAATTACTGCAACGCTATTGTTTCTGTT
66 GAAAGAAAGTAACAGGTAACACTGGAAAGAAAATAATTACTGCAACGCTATTGTTTCTGTT
89622017 AAATGCTTAGGTAATCATAAATCCATCAAGAAGCTCAGCACATTGCTCTCTATCTCCTAGCAATA
1 AAATGCTTAGGTAATCATAAATCCATCAAGAAGCTCAGCACATTGCTCTCTATCTCCTAGCAATA
89622082 GAAAGAAAGTAACAGGTAACACTGGAAAGAAAATAATTACTGCAACGCTATTGTTTCTGTT
66 GAAAGAAAGTAACAGGTAACACTGGAAAGAAAATAATTACTGCAACGCTATTGTTTCTGTT
*
89622143 AAATGCTTAGGTAATCATAAATCCATCAAGAAGCTCAGCACATTACTCTCTATCTCCTAGCAATA
1 AAATGCTTAGGTAATCATAAATCCATCAAGAAGCTCAGCACATTGCTCTCTATCTCCTAGCAATA
*
89622208 GAAAGAAAGTAACAGGTAACACTGGAAAGAAAATAATTACTGCAATGCTATTGTTTCTGTT
66 GAAAGAAAGTAACAGGTAACACTGGAAAGAAAATAATTACTGCAACGCTATTGTTTCTGTT
89622269 AAATGC
1 AAATGC
89622275 AGGCTACCTC
Statistics
Matches: 256, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
126 256 1.00
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.27
Consensus pattern (126 bp):
AAATGCTTAGGTAATCATAAATCCATCAAGAAGCTCAGCACATTGCTCTCTATCTCCTAGCAATA
GAAAGAAAGTAACAGGTAACACTGGAAAGAAAATAATTACTGCAACGCTATTGTTTCTGTT
Found at i:89627079 original size:38 final size:38
Alignment explanation
Indices: 89627028--89627103 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
89627018 AATCACCCAA
89627028 AATCTTACTCTTACAAAAATTCTAATCTAGTATTTAAT
1 AATCTTACTCTTACAAAAATTCTAATCTAGTATTTAAT
89627066 AATCTTACTCTTACAAAAATTCTAATCTAGTATTTAAT
1 AATCTTACTCTTACAAAAATTCTAATCTAGTATTTAAT
89627104 CATATCATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.39, C:0.16, G:0.03, T:0.42
Consensus pattern (38 bp):
AATCTTACTCTTACAAAAATTCTAATCTAGTATTTAAT
Found at i:89630375 original size:21 final size:20
Alignment explanation
Indices: 89630349--89630393 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
89630339 CATACAACCA
*
89630349 AAAAAAAAACATACTACATTT
1 AAAAAAAAACATACCA-ATTT
**
89630370 AAAAAAATTCATACCAATTT
1 AAAAAAAAACATACCAATTT
89630390 AAAA
1 AAAA
89630394 TTTTGGAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.62, C:0.13, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAAAAAAACATACCAATTT
Found at i:89635066 original size:8 final size:8
Alignment explanation
Indices: 89635053--89635077 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
89635043 TAAAATTATT
89635053 CATTAATA
1 CATTAATA
89635061 CATTAATA
1 CATTAATA
89635069 CATTAATA
1 CATTAATA
89635077 C
1 C
89635078 TTTGTATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (8 bp):
CATTAATA
Found at i:89653062 original size:20 final size:20
Alignment explanation
Indices: 89653025--89653062 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
89653015 TGATGGGGAG
*
89653025 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
89653045 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
89653063 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:89655017 original size:46 final size:46
Alignment explanation
Indices: 89654964--89655227 Score: 413
Period size: 46 Copynumber: 5.7 Consensus size: 46
89654954 AGTGTGCTCT
*
89654964 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
89655010 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
89655056 TTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
89655102 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *
89655148 GTGATATGAAATGAACAACACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
89655194 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGA
89655228 CTATGCATCA
Statistics
Matches: 203, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 1 0.00
46 202 1.00
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:89657092 original size:6 final size:6
Alignment explanation
Indices: 89657074--89657170 Score: 83
Period size: 6 Copynumber: 15.8 Consensus size: 6
89657064 AAGAAACATT
*
89657074 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * *
89657123 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAAA ATCAGT ATCAG
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
89657171 GTAACAGAAT
Statistics
Matches: 76, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
5 4 0.05
6 63 0.83
7 7 0.09
8 2 0.03
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:89657121 original size:31 final size:31
Alignment explanation
Indices: 89657058--89657180 Score: 160
Period size: 31 Copynumber: 4.0 Consensus size: 31
89657048 TAACCCATTA
* * *
89657058 CAGAATAAGAAACATTATCA-G-AACTAGAAT
1 CAGAATCAGAATCAGTATCAGGTAAC-AGAAT
* *
89657088 CAGAATCAGAATCAGAATCAGGTGACAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAAT
89657119 CAGAATCAGAATCAGTATCAGGTAACAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAAT
* *
89657150 CAAAATCAAAATCAGTATCAGGTAACAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAAT
89657181 AAAAAATCAA
Statistics
Matches: 82, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
30 16 0.20
31 64 0.78
32 2 0.02
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (31 bp):
CAGAATCAGAATCAGTATCAGGTAACAGAAT
Found at i:89657372 original size:27 final size:26
Alignment explanation
Indices: 89657330--89657424 Score: 118
Period size: 27 Copynumber: 3.5 Consensus size: 26
89657320 GCTCAGTTAT
* *
89657330 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
89657357 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
* *
89657383 TAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
*
89657411 CAGATAATGTGGCA
1 CAGATATTGTGGCA
89657425 AACCACTTAA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
26 6 0.10
27 47 0.78
28 7 0.12
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:89657624 original size:22 final size:22
Alignment explanation
Indices: 89657593--89657653 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
89657583 ATACGTTTAG
* *
89657593 CACATAGCCATAATCAGGTTGG
1 CACAAAGCCATAATCAGGTTGA
* * *
89657615 CATAGAGCCAT-ATGTAGGTTGA
1 CACAAAGCCATAAT-CAGGTTGA
89657637 CACAAAGCCATAATCAG
1 CACAAAGCCATAATCAG
89657654 AAGGCTTTAA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
21 2 0.07
22 26 0.87
23 2 0.07
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (22 bp):
CACAAAGCCATAATCAGGTTGA
Found at i:89658137 original size:27 final size:27
Alignment explanation
Indices: 89658079--89658301 Score: 261
Period size: 27 Copynumber: 8.3 Consensus size: 27
89658069 AGGGGCAAAA
* * * *
89658079 TGGTAATTTTACCCCACA-AGGTATCT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
89658105 CGGTAATT-TCACCCTATAGGGGTATTT
1 TGGTAATTCT-ACCCTACAGGGGTATTT
*
89658132 TAGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
89658159 CGGTAATTCCACCCTATAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
89658186 TAGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
*** *
89658213 CAATAATTCTACCCTACAGGGGTATTG
1 TGGTAATTCTACCCTACAGGGGTATTT
89658240 TGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
89658267 TGGTATTTCTACCCTACAAGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
89658294 CGGTAATT
1 TGGTAATT
89658302 TTGTAAATCA
Statistics
Matches: 167, Mismatches: 27, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
25 1 0.01
26 13 0.08
27 152 0.91
28 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.36
Consensus pattern (27 bp):
TGGTAATTCTACCCTACAGGGGTATTT
Found at i:89658338 original size:14 final size:14
Alignment explanation
Indices: 89658319--89658348 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
89658309 TCAAGGGTAA
89658319 AACGGTAATTCTGT
1 AACGGTAATTCTGT
89658333 AACGGTAATTCTGT
1 AACGGTAATTCTGT
89658347 AA
1 AA
89658349 ATCAATGGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (14 bp):
AACGGTAATTCTGT
Found at i:89658700 original size:27 final size:27
Alignment explanation
Indices: 89658355--89658693 Score: 455
Period size: 27 Copynumber: 12.6 Consensus size: 27
89658345 GTAAATCAAT
* ** *
89658355 GGTACTTTGGTAATTTTACAAGTCGAG
1 GGTATTTTGGTAATTTTACAAACCAAG
* * * *
89658382 GGTATTTTAGTAATTTCAAAAATCAAG
1 GGTATTTTGGTAATTTTACAAACCAAG
* *
89658409 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCAAG
*
89658436 GGTATTTTGGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAACCAAG
*
89658463 GGTATTTTGATAATTTTACAAACC-AG
1 GGTATTTTGGTAATTTTACAAACCAAG
89658489 GGTATTTTGGTAATTTTACAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAAG
* *
89658516 GGTATTTTGGTAATTTTATAAACAAAG
1 GGTATTTTGGTAATTTTACAAACCAAG
* * *
89658543 GGTATTTTAGTAATTTTACAAATCAGG
1 GGTATTTTGGTAATTTTACAAACCAAG
**
89658570 GGTATTTTGGTAATTTTGTAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAAG
89658597 GGTATTTTGGTAATTTTACAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAAG
* *
89658624 GGTATTTTGGTGATTTTATAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAAG
* * *
89658651 GGTATTTTAGTGATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAACCAAG
89658678 GGTATTTTGGTAATTT
1 GGTATTTTGGTAATTT
89658694 GGTAAACTAA
Statistics
Matches: 274, Mismatches: 37, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
26 24 0.09
27 250 0.91
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAACCAAG
Found at i:89660646 original size:6 final size:6
Alignment explanation
Indices: 89660628--89660739 Score: 88
Period size: 6 Copynumber: 18.3 Consensus size: 6
89660618 AAGAAACATT
* *
89660628 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * *
89660677 ATTAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA
89660726 ATCAGTA A-CAGA AT
1 ATCAG-A ATCAGA AT
89660740 AAAAAATCAG
Statistics
Matches: 84, Mismatches: 12, Indels: 20
0.72 0.10 0.17
Matches are distributed among these distances:
5 6 0.07
6 69 0.82
7 7 0.08
8 2 0.02
ACGTcount: A:0.47, C:0.14, G:0.18, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:89660684 original size:31 final size:31
Alignment explanation
Indices: 89660642--89660739 Score: 135
Period size: 31 Copynumber: 3.2 Consensus size: 31
89660632 GAACTAGAAT
* *
89660642 CAGAATCAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
* *
89660673 CAGAATTAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
* *
89660704 CAGAATCAAAATCAGAATCAGTATCA-GTAA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
89660734 CAGAAT
1 CAGAAT
89660740 AAAAAATCAG
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
30 10 0.16
31 51 0.84
ACGTcount: A:0.47, C:0.14, G:0.18, T:0.20
Consensus pattern (31 bp):
CAGAATCAGAATCAGAATCAGAATCAGGTAA
Found at i:89660746 original size:31 final size:31
Alignment explanation
Indices: 89660642--89660752 Score: 134
Period size: 31 Copynumber: 3.6 Consensus size: 31
89660632 GAACTAGAAT
* * * * *
89660642 CAGAATCAGAATCAGAATCAGAATTAGGTGA
1 CAGAATAAAAATCAGAATCAGTATCAGGTAA
* *
89660673 CAGAATTAGAATCAGAATCAGTATCAGGTAA
1 CAGAATAAAAATCAGAATCAGTATCAGGTAA
*
89660704 CAGAATCAAAATCAGAATCAGTATCA-GTAA
1 CAGAATAAAAATCAGAATCAGTATCAGGTAA
89660734 CAGAATAAAAAATCAGAAT
1 CAGAAT-AAAAATCAGAAT
89660753 GTGAATGCAA
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
30 10 0.14
31 62 0.86
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.20
Consensus pattern (31 bp):
CAGAATAAAAATCAGAATCAGTATCAGGTAA
Found at i:89660931 original size:27 final size:26
Alignment explanation
Indices: 89660889--89660990 Score: 132
Period size: 27 Copynumber: 3.8 Consensus size: 26
89660879 GCTCAGTTAT
*
89660889 CAGATATTGTGACAGAGCCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
89660916 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
89660942 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* * *
89660970 CAAATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
89660991 TTAACAAAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
26 7 0.10
27 54 0.79
28 7 0.10
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.18
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:89661176 original size:22 final size:22
Alignment explanation
Indices: 89661149--89661212 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
89661139 GCAAATACGT
* *
89661149 TTGGCACATAGGCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
*
89661171 TTGGCACAGAGCCATATAT-AGG
1 TTGGCACAAAGCCATA-ATCAGG
*
89661193 TTGACACAAAGCCATAATCA
1 TTGGCACAAAGCCATAATCA
89661213 CAAGGCTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:89661697 original size:27 final size:27
Alignment explanation
Indices: 89661667--89661807 Score: 194
Period size: 27 Copynumber: 5.2 Consensus size: 27
89661657 AGGTATCTCG
* *
89661667 GTAATTCCACCCTATAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTTA
*
89661694 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTTA
*
89661721 GTAATTCTACCCTACAGGGGTATTGT-
1 GTAATTCTACCCTACAGGGGTATTTTA
***
89661747 GATAATTCTACCCTACAGGGGTATTGCG
1 G-TAATTCTACCCTACAGGGGTATTTTA
*
89661775 GTAATTCTACCCTACAGGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTTA
89661802 GTAATT
1 GTAATT
89661808 TTACAAACCA
Statistics
Matches: 104, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
26 1 0.01
27 102 0.98
28 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTTA
Found at i:89661733 original size:54 final size:53
Alignment explanation
Indices: 89661641--89661807 Score: 219
Period size: 54 Copynumber: 3.1 Consensus size: 53
89661631 GGGCAAAATG
* * * * * *
89661641 GTAATTTTACCCCACA-AGGTATCTCGGTAATTCCACCCTATAGGGGTATTTT
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTT
* *
89661693 AGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTGT
1 -GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTT
*
89661747 GATAATTCTACCCTACAGGGGTATTGCGGTAATTCTACCCTACAGGGGTATTTT
1 G-TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTT
89661801 GGTAATT
1 -GTAATT
89661808 TTACAAACCA
Statistics
Matches: 100, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
53 15 0.15
54 84 0.84
55 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.34
Consensus pattern (53 bp):
GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTT
Found at i:89661767 original size:81 final size:81
Alignment explanation
Indices: 89661668--89661861 Score: 230
Period size: 81 Copynumber: 2.4 Consensus size: 81
89661658 GGTATCTCGG
* * * *
89661668 TAATTCCACCCTATAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTA-CA
*
89661733 TA-CAGGGGTATTGTGA
65 AACCAGGGGTATTGTGA
** ** *
89661749 TAATTCTACCCTACAGGGGTATTGCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTTTACAA
1 TAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACAA
*
89661814 ACCAGGGGTATTTTGA
66 ACCAGGGGTATTGTGA
* **
89661830 TAATTTTA-CAAACCAGGGGTATTTTGGTAATT
1 TAATTCTACCCTA-CAGGGGTATTTTGGTAATT
89661862 TTACAAACTA
Statistics
Matches: 95, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
80 4 0.04
81 91 0.96
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.36
Consensus pattern (81 bp):
TAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACAA
ACCAGGGGTATTGTGA
Found at i:89661820 original size:54 final size:54
Alignment explanation
Indices: 89661658--89662050 Score: 262
Period size: 54 Copynumber: 7.3 Consensus size: 54
89661648 TACCCCACAA
* * * * * **
89661658 GGTATCTCGGTAATTCCACCCTATAGGGGTATTTTAGTAATTCTACCCTA-CAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTTTA-CAAACCAGG
* * * * **
89661712 GGTATTTCAGTAATTCTACCCTACAGGGGTATTGTGATAATTCTACCCTA-CAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTTTA-CAAACCAGG
*
89661766 GGTATTGCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTTTACAAACCAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTTTACAAACCAGG
* * * ** *
89661820 GGTATTTTGATAATTTTA-CAAACCAGGGGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTCGGTAATTCTACCCTA-CAGGGGTATTTTGGTAATTTTACAAACCAGG
* * *** * * * *
89661874 GGTATTTTGGTAATTTTATAAATA-AAGGGTATTTTAGTGATTTTACAAATCAGG
1 GGTATTTCGGTAATTCTA-CCCTACAGGGGTATTTTGGTAATTTTACAAACCAGG
* * * *
89661928 GGTATTTTGGTAATTTTGTAAACC-A-A-GGGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTCGGTAA--TTCT-ACCCTACAGGGGTATTTTGGTAATTTTACAAACCAGG
* * * *** * * * *
89661982 GGTATTTTGGTGATTTTA-TAAACCAAGGGTATTTTAGTGATTTTACAAACCAAG
1 GGTATTTCGGTAATTCTACCCTA-CAGGGGTATTTTGGTAATTTTACAAACCAGG
*
89662036 GGTATTTTGGTAATT
1 GGTATTTCGGTAATT
89662051 TGGTAAACTA
Statistics
Matches: 283, Mismatches: 45, Indels: 22
0.81 0.13 0.06
Matches are distributed among these distances:
51 2 0.01
52 3 0.01
53 5 0.02
54 264 0.93
55 2 0.01
56 6 0.02
57 1 0.00
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.38
Consensus pattern (54 bp):
GGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTTTACAAACCAGG
Found at i:89662058 original size:27 final size:27
Alignment explanation
Indices: 89661789--89662051 Score: 355
Period size: 27 Copynumber: 9.7 Consensus size: 27
89661779 TTCTACCCTA
89661789 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
89661816 CAGGGGTATTTTGATAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
89661843 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
* * *
89661870 TAGGGGTATTTTGGTAATTTTATAAAT
1 CAGGGGTATTTTGGTAATTTTACAAAC
* * * * *
89661897 AAAGGGTATTTTAGTGATTTTACAAAT
1 CAGGGGTATTTTGGTAATTTTACAAAC
**
89661924 CAGGGGTATTTTGGTAATTTTGTAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
89661951 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
* * *
89661978 TAGGGGTATTTTGGTGATTTTATAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
* * *
89662005 CAAGGGTATTTTAGTGATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
89662032 CAAGGGTATTTTGGTAATTT
1 CAGGGGTATTTTGGTAATTT
89662052 GGTAAACTAA
Statistics
Matches: 206, Mismatches: 30, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 206 1.00
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAAAC
Found at i:89666882 original size:49 final size:49
Alignment explanation
Indices: 89666823--89667136 Score: 159
Period size: 49 Copynumber: 6.6 Consensus size: 49
89666813 ATCAAAGTTG
*
89666823 ATGCCATGTCCCAGACAGGTCTTACACTGACTTCCATATATTGAGGTCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTTCCATATATTGAGGTCA
* * * * * * * * *
89666872 ATGCCGTGTCCTAGACAGGTCTTATACCGGCTTTCATCTATCG-GTATCA
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTTCCATATATTGAG-GTCA
** ** * *
89666921 ATGCCATGTATCAGACAGGTCTTACACT-AGCTTGTATATCTTGAGGCCA
1 ATGCCATGTCCCAGACAGGTCTTACACTGA-CTTCCATATATTGAGGTCA
* * * * *
89666970 ATG-CATGTCCCAGACATGTCTTACACT-AGTT-C-TCATCTCGATG-CTA
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTTCCAT-ATATTGAGGTC-A
* * *** * * *
89667016 ATG-CATGTCCCAGACATGTCTTACACTAACTGGTATATCTCGAGGTCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTTCCATATATTGAGGTCA
** * * * *
89667064 ATG-CATGTCCCAGACTTGTATTACACTGGC-TCTCA-ATA-TGTGGCCA
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTTC-CATATATTGAGGTCA
* *
89667110 ATG-CATGTCCCAGACATGTGTTACACT
1 ATGCCATGTCCCAGACAGGTCTTACACT
89667137 AGCACACATA
Statistics
Matches: 205, Mismatches: 50, Indels: 23
0.74 0.18 0.08
Matches are distributed among these distances:
45 2 0.01
46 64 0.31
47 6 0.03
48 58 0.28
49 74 0.36
50 1 0.00
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (49 bp):
ATGCCATGTCCCAGACAGGTCTTACACTGACTTCCATATATTGAGGTCA
Found at i:89666965 original size:98 final size:96
Alignment explanation
Indices: 89666823--89667078 Score: 256
Period size: 94 Copynumber: 2.7 Consensus size: 96
89666813 ATCAAAGTTG
** * * *
89666823 ATGCCATGTCCCAGACAGGTCTTACACT-GACTTCCATATATTGAGGTCGATGCCGTGTCCTAGA
1 ATGCCATGTCCCAGACAGGTCTTACACTAG-CTTGTATATCTTGAGGTCGATGCCATGTCCCAGA
* *
89666887 CAGGTCTTATACCGGCTT-TCATCTATCGGTAT-C-A
65 CAGGTCTTACACCAG-TTCTCATC--TC-G-ATGCTA
** * *
89666921 ATGCCATGTATCAGACAGGTCTTACACTAGCTTGTATATCTTGAGGCCAATG-CATGTCCCAGAC
1 ATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTTGAGGTCGATGCCATGTCCCAGAC
* *
89666985 ATGTCTTACACTAGTTCTCATCTCGATGCTA
66 AGGTCTTACACCAGTTCTCATCTCGATGCTA
* * * *
89667016 ATG-CATGTCCCAGACATGTCTTACACTAACTGGTATATCTCGAGGTCGATG-CATGTCCCAGAC
1 ATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTTGAGGTCGATGCCATGTCCCAGAC
89667079 TTGTATTACA
Statistics
Matches: 133, Mismatches: 21, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
93 2 0.02
94 54 0.41
95 6 0.05
96 2 0.02
97 25 0.19
98 43 0.32
99 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (96 bp):
ATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTTGAGGTCGATGCCATGTCCCAGAC
AGGTCTTACACCAGTTCTCATCTCGATGCTA
Found at i:89666993 original size:48 final size:48
Alignment explanation
Indices: 89666932--89667139 Score: 219
Period size: 46 Copynumber: 4.4 Consensus size: 48
89666922 TGCCATGTAT
* *
89666932 CAGACAGGTCTTACACTAGCTTGTATATCTTGAGGCCAATGCATGTCC
1 CAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCAATGCATGTCC
* * * *
89666980 CAGACATGTCTTACACTAG-TTCT-CATCTCGATGCTAATGCATGTCC
1 CAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCAATGCATGTCC
* * * *
89667026 CAGACATGTCTTACACTAACTGGTATATCTCGAGGTCGATGCATGTCC
1 CAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCAATGCATGTCC
* * * * * *
89667074 CAGACTTGTATTACACTGGCTCT-CA-ATAT-GTGGCCAATGCATGTCC
1 CAGACATGTCTTACACTAGCT-TGTATATCTCGAGGCCAATGCATGTCC
*
89667120 CAGACATGTGTTACACTAGC
1 CAGACATGTCTTACACTAGC
89667140 ACACATATCA
Statistics
Matches: 130, Mismatches: 27, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
46 68 0.52
47 8 0.06
48 54 0.42
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (48 bp):
CAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCAATGCATGTCC
Found at i:89667052 original size:94 final size:94
Alignment explanation
Indices: 89666932--89667137 Score: 263
Period size: 94 Copynumber: 2.2 Consensus size: 94
89666922 TGCCATGTAT
* * * * *
89666932 CAGACAGGTCTTACACTAGCTTGTATATCTTGAGGCCAATGCATGTCCCAGACATGTCTTACACT
1 CAGACATGTCTTACACTAACTGGTATATCTCGAGGCCAATGCATGTCCCAGACATGTATTACACT
* * *
89666997 AGTTCTC-ATCTCGAT-GCTAATGCATGTCC
66 AGCTCTCAATAT-G-TGGCCAATGCATGTCC
* * *
89667026 CAGACATGTCTTACACTAACTGGTATATCTCGAGGTCGATGCATGTCCCAGACTTGTATTACACT
1 CAGACATGTCTTACACTAACTGGTATATCTCGAGGCCAATGCATGTCCCAGACATGTATTACACT
*
89667091 GGCTCTCAATATGTGGCCAATGCATGTCC
66 AGCTCTCAATATGTGGCCAATGCATGTCC
*
89667120 CAGACATGTGTTACACTA
1 CAGACATGTCTTACACTA
89667138 GCACACATAT
Statistics
Matches: 97, Mismatches: 13, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
93 1 0.01
94 93 0.96
95 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (94 bp):
CAGACATGTCTTACACTAACTGGTATATCTCGAGGCCAATGCATGTCCCAGACATGTATTACACT
AGCTCTCAATATGTGGCCAATGCATGTCC
Found at i:89669060 original size:35 final size:35
Alignment explanation
Indices: 89668999--89669113 Score: 187
Period size: 35 Copynumber: 3.3 Consensus size: 35
89668989 AATCACTCCA
89668999 AAACACACCAATGCT-ATAAGAGCTAGTCCCTCTG
1 AAACACACCAATGCTCATAAGAGCTAGTCCCTCTG
*
89669033 AAACACACCAATTCTCATAAGAGCTAGTCCCTCTG
1 AAACACACCAATGCTCATAAGAGCTAGTCCCTCTG
**
89669068 AAACACACCAATGCTCATAAGAGCTAGTCCAACTG
1 AAACACACCAATGCTCATAAGAGCTAGTCCCTCTG
*
89669103 AAATACACCAA
1 AAACACACCAA
89669114 ATAGAGAATA
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
34 14 0.19
35 61 0.81
ACGTcount: A:0.39, C:0.30, G:0.12, T:0.19
Consensus pattern (35 bp):
AAACACACCAATGCTCATAAGAGCTAGTCCCTCTG
Found at i:89672131 original size:17 final size:17
Alignment explanation
Indices: 89672109--89672144 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
89672099 CAATTAATTT
*
89672109 AAATAAATTAATTTCTC
1 AAATAAATAAATTTCTC
89672126 AAATAAATAAATTTCTC
1 AAATAAATAAATTTCTC
89672143 AA
1 AA
89672145 CCCAATTCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATAAATAAATTTCTC
Found at i:89672216 original size:268 final size:266
Alignment explanation
Indices: 89671724--89672509 Score: 1233
Period size: 262 Copynumber: 3.0 Consensus size: 266
89671714 GTCTTTGCTA
* * *
89671724 TACTGGGTCCAATTATATATACTTCTTGGATTTTAACCCAACACTCTAT-ATTTATTCCAACCCA
1 TACTGGATCCAATTATATGTACTTCTTGGACTTTAACCCAACACTCTATAATTTATTCCAACCCA
* *
89671788 ATACATGTTTTTTTTCTATTTCTCAAATTAAATATTATTTGATCAATTAATTTAAATAAATTAAT
66 ATACATG--TTTTTTCTATTTCCCAAATTAAATATTATTTGCTCAATTAATTTAAATAAATTAAT
* *
89671853 TTATCAAATAAATAGTTTTCTCAATCCAATTCTAATTCTGTTAAAATTAT-AACAACTTTACCAT
129 TTATCAAATAAATAATTTTCTCAACCCAATTCTAATTCTGTTAAAATTATGAA-AACTTTACCAT
*
89671917 AAAAGAATCTATGAGAAAATATATCTAATTTTTTTACATTAAATTAGATTCACAATAACCAATTA
193 AAAAGAATCTATGAGAAAATATATTTAA-TTTTTTACATTAAATTAGATTCACAATAACCAATT-
89671982 ACTTTTTCCTG
256 ACTTTTTCCTG
* *
89671993 TACTGGATCCAATTATATGTACTTCTTGAACTTTAACCCAACACTCTATAATTTATTCCAACTCA
1 TACTGGATCCAATTATATGTACTTCTTGGACTTTAACCCAACACTCTATAATTTATTCCAACCCA
*
89672058 ATACATGTTTTTTCTATTTCCCAAATTAAATATTATTTTCTCAATTAATTTAAATAAATTAATTT
66 ATACATGTTTTTTCTATTTCCCAAATTAAATATTATTTGCTCAATTAATTTAAATAAATTAATTT
* * *
89672123 CTCAAATAAATAAATTTCTCAACCCAATTCTAATTCTGTTAAAATAATGAAAACTTTACCATAAA
131 ATCAAATAAATAATTTTCTCAACCCAATTCTAATTCTGTTAAAATTATGAAAACTTTACCATAAA
* * *
89672188 AGAATTTATGAGAAAATATATTTAATTTTTT---TTACATTA-ATTCACAATAACCAATTATTTT
196 AGAATCTATGAGAAAATATATTTAATTTTTTACATTAAATTAGATTCACAATAACCAATTACTTT
89672249 TTCCTG
261 TTCCTG
* *
89672255 TACTGGATCCAATCATATGTACTTCTTGGACTTTAACCCAACACTTTATAATTTATTCCAACCCA
1 TACTGGATCCAATTATATGTACTTCTTGGACTTTAACCCAACACTCTATAATTTATTCCAACCCA
* * *
89672320 ATACATGTTTTTTCTATTTCCCAAATTAATTATTATCTGCTCAATTAAATTAAATAAATTAATTT
66 ATACATGTTTTTTCTATTTCCCAAATTAAATATTATTTGCTCAATTAATTTAAATAAATTAATTT
* * **
89672385 ATCAAATAAATAATTTTCTCAACCTAATTCTAATTCTATTAAAATTATGGCAACTTTACCATAAA
131 ATCAAATAAATAATTTTCTCAACCCAATTCTAATTCTGTTAAAATTATGAAAACTTTACCATAAA
* *
89672450 AGAATCTATGAGAAAATATATTTAATTTTTTACATTAAATTGGATTCACCATAACCAATT
196 AGAATCTATGAGAAAATATATTTAATTTTTTACATTAAATTAGATTCACAATAACCAATT
89672510 TATTTAAATC
Statistics
Matches: 475, Mismatches: 36, Indels: 15
0.90 0.07 0.03
Matches are distributed among these distances:
262 220 0.46
263 17 0.04
264 7 0.01
265 6 0.01
266 16 0.03
267 6 0.01
268 135 0.28
269 47 0.10
270 21 0.04
ACGTcount: A:0.38, C:0.16, G:0.05, T:0.41
Consensus pattern (266 bp):
TACTGGATCCAATTATATGTACTTCTTGGACTTTAACCCAACACTCTATAATTTATTCCAACCCA
ATACATGTTTTTTCTATTTCCCAAATTAAATATTATTTGCTCAATTAATTTAAATAAATTAATTT
ATCAAATAAATAATTTTCTCAACCCAATTCTAATTCTGTTAAAATTATGAAAACTTTACCATAAA
AGAATCTATGAGAAAATATATTTAATTTTTTACATTAAATTAGATTCACAATAACCAATTACTTT
TTCCTG
Found at i:89675646 original size:30 final size:31
Alignment explanation
Indices: 89675584--89675677 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
89675574 CCTTTTCATA
*
89675584 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
89675615 TTTCATATTTCATATTACTGGGCCG-AGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
89675645 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
89675676 TT
1 TT
89675678 ACTGTAAACG
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
30 30 0.49
31 31 0.51
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:89675920 original size:24 final size:24
Alignment explanation
Indices: 89675869--89676034 Score: 248
Period size: 24 Copynumber: 7.0 Consensus size: 24
89675859 GCTTTATCAT
* *
89675869 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* **
89675894 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTG
89675918 ATAACTGGGGCATAAGCCC-TTT-
1 ATAACTGGGGCATAAGCCCTTTTG
89675940 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
89675964 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
89675988 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
89676012 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
89676035 TCACTTCCTC
Statistics
Matches: 133, Mismatches: 5, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
22 19 0.14
23 5 0.04
24 97 0.73
25 12 0.09
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:89675970 original size:70 final size:71
Alignment explanation
Indices: 89675868--89676034 Score: 248
Period size: 70 Copynumber: 2.3 Consensus size: 71
89675858 TGCTTTATCA
*
89675868 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
89675932 AGCCC-TT
64 AGCCCTTT
* * **
89675939 TATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAG
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
89676004 CCCTTT
66 CCCTTT
89676010 TGATAACTGGGGCATAAGCCCTTTT
1 T-ATAACTGGGGCATAAGCCCTTTT
89676035 TCACTTCCTC
Statistics
Matches: 88, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
70 49 0.56
71 16 0.18
72 23 0.26
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (71 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
CCCTTT
Found at i:89676109 original size:20 final size:20
Alignment explanation
Indices: 89676084--89676144 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
89676074 TTATGATTAC
89676084 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
89676104 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
89676124 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
89676144 A
1 A
89676145 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:89676219 original size:25 final size:25
Alignment explanation
Indices: 89676187--89676234 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
89676177 ATACATAAAC
* * *
89676187 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
89676212 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
89676235 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:89682260 original size:29 final size:30
Alignment explanation
Indices: 89682192--89682284 Score: 152
Period size: 29 Copynumber: 3.1 Consensus size: 30
89682182 CCTTTTCATA
*
89682192 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCAT-ATTCTGGGCCGAAGCCT
89682223 TTTCATATTTCATATTCTGGGCCG-AGCCT
1 TTTCATATTTCATATTCTGGGCCGAAGCCT
89682252 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATT-CTGGGCCGAAGCCT
89682283 TT
1 TT
89682285 ACTGTAAACG
Statistics
Matches: 59, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
29 21 0.36
30 18 0.31
31 20 0.34
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.40
Consensus pattern (30 bp):
TTTCATATTTCATATTCTGGGCCGAAGCCT
Found at i:89682527 original size:24 final size:24
Alignment explanation
Indices: 89682476--89682642 Score: 257
Period size: 24 Copynumber: 7.0 Consensus size: 24
89682466 GCTTTATCAT
* *
89682476 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* **
89682501 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTG
89682525 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
89682548 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
89682572 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
89682596 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
89682620 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
89682643 TCACTTCCTC
Statistics
Matches: 135, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
23 23 0.17
24 100 0.74
25 12 0.09
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:89682576 original size:71 final size:71
Alignment explanation
Indices: 89682475--89682642 Score: 257
Period size: 71 Copynumber: 2.3 Consensus size: 71
89682465 TGCTTTATCA
*
89682475 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
89682539 AGCCCTTT
64 AGCCCTTT
* * **
89682547 TATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAG
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
89682612 CCCTTT
66 CCCTTT
89682618 TGATAACTGGGGCATAAGCCCTTTT
1 T-ATAACTGGGGCATAAGCCCTTTT
89682643 TCACTTCCTC
Statistics
Matches: 89, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
71 53 0.60
72 36 0.40
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (71 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
CCCTTT
Found at i:89682717 original size:20 final size:20
Alignment explanation
Indices: 89682692--89682752 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
89682682 TTATGATTAC
89682692 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
89682712 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
89682732 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
89682752 A
1 A
89682753 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:89685453 original size:15 final size:15
Alignment explanation
Indices: 89685433--89685463 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
89685423 ATTTCACTAC
*
89685433 TATGTCTTTTGTATT
1 TATGTCTTTTATATT
89685448 TATGTCTTTTATATT
1 TATGTCTTTTATATT
89685463 T
1 T
89685464 TGCATGCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.06, G:0.10, T:0.68
Consensus pattern (15 bp):
TATGTCTTTTATATT
Found at i:89687116 original size:37 final size:36
Alignment explanation
Indices: 89687070--89687145 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
89687060 ATTCCAGAAA
89687070 TAATATTATTTTAATAGT-TTAATATTAAATTTAAT-T
1 TAATATTATTTTAATAGTATT-ATATT-AATTTAATAT
* *
89687106 TAATAATTATTTTATTAGTATTTTATTAATTTAATAT
1 TAAT-ATTATTTTAATAGTATTATATTAATTTAATAT
89687143 TAA
1 TAA
89687146 AGTGATTATC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 12 0.34
37 21 0.60
38 2 0.06
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (36 bp):
TAATATTATTTTAATAGTATTATATTAATTTAATAT
Found at i:89693951 original size:27 final size:27
Alignment explanation
Indices: 89693919--89693983 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
89693909 GTTGCATTGT
89693919 AGTGCCACTTTCACTA-ATTTACACCGA
1 AGTGCCACTTTCACTATA-TTACACCGA
*
89693946 AGTGCCACTTTCACTATATTACATCGA
1 AGTGCCACTTTCACTATATTACACCGA
*
89693973 AGTACCACTTT
1 AGTGCCACTTT
89693984 TCATTCATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 34 0.97
28 1 0.03
ACGTcount: A:0.29, C:0.28, G:0.11, T:0.32
Consensus pattern (27 bp):
AGTGCCACTTTCACTATATTACACCGA
Found at i:89697811 original size:47 final size:47
Alignment explanation
Indices: 89697564--89697830 Score: 175
Period size: 47 Copynumber: 5.7 Consensus size: 47
89697554 TGGGGTAGAA
* *
89697564 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCATCCCTAAAT-
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-T-CAT-AATG
* * *
89697613 T--CGATGCCATGTCCCGGACATGGTCTTACACTGACTATCGA-AATCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ATAAT-G
* * * * * * *
89697659 AGGCCGACGCCATGTCCAAGACATGATCTTACACTGACACATC-T--CG
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATG
* * * *
89697705 TAG-CGATG-CATGTCCCAAACAT-GTCTTATACTAGCTCTCGTTTCAA--
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC--AT-AATG
*
89697751 TGCCGCTGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATG
89697798 TGGCCGATG-CATGTCCCAGACAT-GTCTTACACT
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACT
89697831 AGCACACAAA
Statistics
Matches: 169, Mismatches: 28, Indels: 45
0.70 0.12 0.19
Matches are distributed among these distances:
42 2 0.01
43 10 0.06
44 15 0.09
45 9 0.05
46 19 0.11
47 60 0.36
48 21 0.12
49 31 0.18
50 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATG
Found at i:89702219 original size:26 final size:26
Alignment explanation
Indices: 89702173--89702225 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
89702163 TCAAACATGC
*
89702173 ATTTAGGTCAATTTAACCCTATGGGT
1 ATTTAGGTCAATTTAACCCTAAGGGT
* *
89702199 ATTTCGGT-AATTTATCTCCTAAGGGT
1 ATTTAGGTCAATTTAAC-CCTAAGGGT
89702225 A
1 A
89702226 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAAGGGT
Found at i:89703745 original size:26 final size:26
Alignment explanation
Indices: 89703714--89703821 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
89703704 TAAAATTTCC
89703714 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
89703740 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
89703766 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
89703792 ATTATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
89703818 ATCA
1 ATCA
89703822 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:89704578 original size:23 final size:23
Alignment explanation
Indices: 89704552--89704597 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
89704542 TATAGGTTAG
89704552 CCTTTACCTAAAACAAAACGTGA
1 CCTTTACCTAAAACAAAACGTGA
89704575 CCTTTACCTAAAACAAAACGTGA
1 CCTTTACCTAAAACAAAACGTGA
89704598 TTCTAAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.26, G:0.09, T:0.22
Consensus pattern (23 bp):
CCTTTACCTAAAACAAAACGTGA
Found at i:89704752 original size:97 final size:97
Alignment explanation
Indices: 89704637--89704835 Score: 398
Period size: 97 Copynumber: 2.1 Consensus size: 97
89704627 TCAAGTTTTA
89704637 CATATCCATGATTTTATATATGCACCATTATATAACAATTTCGCTTTAAAATAAAATTAAGATTT
1 CATATCCATGATTTTATATATGCACCATTATATAACAATTTCGCTTTAAAATAAAATTAAGATTT
89704702 ATAATTTATAATTTATTATTAAATATTCAATC
66 ATAATTTATAATTTATTATTAAATATTCAATC
89704734 CATATCCATGATTTTATATATGCACCATTATATAACAATTTCGCTTTAAAATAAAATTAAGATTT
1 CATATCCATGATTTTATATATGCACCATTATATAACAATTTCGCTTTAAAATAAAATTAAGATTT
89704799 ATAATTTATAATTTATTATTAAATATTCAATC
66 ATAATTTATAATTTATTATTAAATATTCAATC
89704831 CATAT
1 CATAT
89704836 GTTTGTTAAA
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 102 1.00
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.43
Consensus pattern (97 bp):
CATATCCATGATTTTATATATGCACCATTATATAACAATTTCGCTTTAAAATAAAATTAAGATTT
ATAATTTATAATTTATTATTAAATATTCAATC
Found at i:89707212 original size:15 final size:15
Alignment explanation
Indices: 89707192--89707221 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
89707182 TTAATACTAT
89707192 TGACAAGAAAGAAAA
1 TGACAAGAAAGAAAA
89707207 TGACAAGAAAGAAAA
1 TGACAAGAAAGAAAA
89707222 AAAGGTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.20, T:0.07
Consensus pattern (15 bp):
TGACAAGAAAGAAAA
Found at i:89724480 original size:26 final size:26
Alignment explanation
Indices: 89724449--89724556 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
89724439 TGAAATGCCC
*
89724449 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
89724475 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
89724501 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
89724527 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
89724553 ATCA
1 ATCA
89724557 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:89731764 original size:4 final size:4
Alignment explanation
Indices: 89731757--89731784 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
89731747 AATAGAAAGA
89731757 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
89731785 CACGAGAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:89738107 original size:22 final size:22
Alignment explanation
Indices: 89738065--89738108 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
89738055 AATTATTTAC
* *
89738065 GACTAAAGTATAGCGTTCATAT
1 GACTAAAGAATAGCGTGCATAT
89738087 GACTAAATGAATAGC-TGCATAT
1 GACTAAA-GAATAGCGTGCATAT
89738109 ACGCATATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (22 bp):
GACTAAAGAATAGCGTGCATAT
Found at i:89738407 original size:40 final size:40
Alignment explanation
Indices: 89738333--89738552 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
89738323 AACCCAAGTA
* * *
89738333 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAAAG
*
89738372 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
*
89738412 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
*
89738452 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
*
89738492 CCTTCGGGACTTA-CCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
89738531 CCTTC-GGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
89738553 CATTCGAATA
Statistics
Matches: 170, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
38 7 0.04
39 52 0.31
40 108 0.64
41 3 0.02
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
Found at i:89746727 original size:22 final size:22
Alignment explanation
Indices: 89746685--89746728 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
89746675 AATTATTTAC
* *
89746685 GACTAAAGTATAGCGTTCATAT
1 GACTAAAGAATAGCGTGCATAT
89746707 GACTAAATGAATAGC-TGCATAT
1 GACTAAA-GAATAGCGTGCATAT
89746729 ACGCATATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (22 bp):
GACTAAAGAATAGCGTGCATAT
Found at i:89747029 original size:40 final size:40
Alignment explanation
Indices: 89746955--89747175 Score: 349
Period size: 40 Copynumber: 5.6 Consensus size: 40
89746945 AACCCAAGTA
* *
89746955 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
89746994 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
89747034 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
89747074 CCTTC-GGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
89747113 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
89747153 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
89747176 CATTCGAATA
Statistics
Matches: 169, Mismatches: 10, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 50 0.30
40 116 0.69
41 3 0.02
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:89747092 original size:79 final size:80
Alignment explanation
Indices: 89746955--89747175 Score: 367
Period size: 79 Copynumber: 2.8 Consensus size: 80
89746945 AACCCAAGTA
* * *
89746955 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
89747018 GTCAATAGCACAAAAG
65 GTCAATAGCACAAAAG
89747034 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC-GGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
89747098 TCAATAGCACAAATG
66 TCAATAGCACAAAAG
*
89747113 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
89747176 CATTCGAATA
Statistics
Matches: 134, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
79 89 0.66
80 44 0.33
81 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCAATAGCACAAAAG
Found at i:89747166 original size:119 final size:119
Alignment explanation
Indices: 89746955--89747175 Score: 374
Period size: 119 Copynumber: 1.9 Consensus size: 119
89746945 AACCCAAGTA
* * *
89746955 CCTTCGGGATTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CCTTCGGGACTTAGCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
89747020 CAATAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
66 CAATAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
89747074 CCTTC-GGACTTAGCCCGGATATAGTCAA-TAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
1 CCTTCGGGACTTAG-CCGGATATAG-CAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
*
89747137 GTCACTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
64 GTCAATAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
89747176 CATTCGAATA
Statistics
Matches: 96, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
118 7 0.07
119 86 0.90
120 3 0.03
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.23
Consensus pattern (119 bp):
CCTTCGGGACTTAGCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CAATAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:89755735 original size:36 final size:35
Alignment explanation
Indices: 89755695--89755774 Score: 117
Period size: 36 Copynumber: 2.3 Consensus size: 35
89755685 GGGCCTATGG
* *
89755695 TCCTTTTTCTGATTTTTTTATTTGTTTTTCATTTTT
1 TCCTTTTTCTGATTTTTTTATTTGTTTGTC-CTTTT
*
89755731 TCCTTTTTCTGTTTTTTTTATTTGTTTGTCCTTTT
1 TCCTTTTTCTGATTTTTTTATTTGTTTGTCCTTTT
89755766 T-CTTTTTCT
1 TCCTTTTTCT
89755775 TTATTTTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
34 8 0.20
35 5 0.12
36 28 0.68
ACGTcount: A:0.05, C:0.14, G:0.06, T:0.75
Consensus pattern (35 bp):
TCCTTTTTCTGATTTTTTTATTTGTTTGTCCTTTT
Found at i:89755783 original size:9 final size:9
Alignment explanation
Indices: 89755769--89755798 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
89755759 TCCTTTTTCT
89755769 TTTTCTTTA
1 TTTTCTTTA
89755778 TTTTCTTT-
1 TTTTCTTTA
89755786 TTTTCTTTA
1 TTTTCTTTA
89755795 TTTT
1 TTTT
89755799 ATTATTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTCTTTA
Found at i:89755816 original size:16 final size:17
Alignment explanation
Indices: 89755795--89755832 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
89755785 TTTTTCTTTA
89755795 TTTTATTATTAT-TATT
1 TTTTATTATTATATATT
*
89755811 TTTTATTTTTATAATATT
1 TTTTATTATTAT-ATATT
89755829 TTTT
1 TTTT
89755833 GTATATTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 11 0.58
18 8 0.42
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTATTATTATATATT
Found at i:89755828 original size:21 final size:20
Alignment explanation
Indices: 89755785--89755832 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
89755775 TTATTTTCTT
*
89755785 TTTTTCTTTATTTTATTATTA
1 TTTTT-TTTATTTTATTAATA
89755806 TTATTTTTTATTTT-TATAATA
1 TT-TTTTTTATTTTAT-TAATA
89755827 TTTTTT
1 TTTTTT
89755833 GTATATTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 5 0.21
21 16 0.67
22 3 0.12
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTTTTTATTTTATTAATA
Found at i:89759172 original size:30 final size:30
Alignment explanation
Indices: 89759103--89759176 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
89759093 GTTGCAAAGT
* *
89759103 AGTTCATATCACCCGGACATGGGCAGTTTG
1 AGTTCATATCACCTGGACATGGACAGTTTG
*
89759133 AGTTTATATCACCTGGACATGGAC-GCTTTG
1 AGTTCATATCACCTGGACATGGACAG-TTTG
*
89759163 TGTTCATATCACCT
1 AGTTCATATCACCT
89759177 AGAGCAACCA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
29 1 0.03
30 37 0.97
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (30 bp):
AGTTCATATCACCTGGACATGGACAGTTTG
Found at i:89771975 original size:50 final size:50
Alignment explanation
Indices: 89771920--89772146 Score: 305
Period size: 50 Copynumber: 4.5 Consensus size: 50
89771910 AGTTCTAGTC
*
89771920 TAAGACCATGTCTGGGACATGGCATCGGCACCAATA-GATGAGAGCCAATG
1 TAAGACCATGTCTGGGACATGGCATCGGCTCCAATATG-TGAGAGCCAATG
* * * * * *
89771970 CAAGACCATGTCTAGGATATGTCATCGGCTTCAATATGTGAGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCTCCAATATGTGAGAGCCAATG
* * *
89772020 TAAGACCATGTCTGGGACATGGCATCGGCTTCAATATGTGAGAGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCTCCAATATGTGAGAGCCAATG
* * *
89772070 TAAGACCATGTCTGGGACATGGCATCAGC-CTCGATATGTGAGAGTCAATG
1 TAAGACCATGTCTGGGACATGGCATCGGCTC-CAATATGTGAGAGCCAATG
89772120 TAAGACCATGTCTGGGACATGGCATCG
1 TAAGACCATGTCTGGGACATGGCATCG
89772147 ACTTTAACGT
Statistics
Matches: 156, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
50 155 0.99
51 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCATCGGCTCCAATATGTGAGAGCCAATG
Found at i:89772107 original size:100 final size:100
Alignment explanation
Indices: 89771920--89772190 Score: 332
Period size: 100 Copynumber: 2.7 Consensus size: 100
89771910 AGTTCTAGTC
** * * *
89771920 TAAGACCATGTCTGGGACATGGCATCGGCACCAATA-GATGAGAGCCAATGCAAGACCATGTCTA
1 TAAGACCATGTCTGGGACATGGCATCGGCTTCAATATG-TGAGAGCCAGTGTAAGACCATGTCTG
* * * * *
89771984 GGATATGTCATCGGCTTCAATATGTGAGAGCCAGTG
65 GGACATGGCATCAGCCTCAATATGTGAGAGCCAATG
*
89772020 TAAGACCATGTCTGGGACATGGCATCGGCTTCAATATGTGAGAGCTAGTGTAAGACCATGTCTGG
1 TAAGACCATGTCTGGGACATGGCATCGGCTTCAATATGTGAGAGCCAGTGTAAGACCATGTCTGG
* *
89772085 GACATGGCATCAGCCTCGATATGTGAGAGTCAATG
66 GACATGGCATCAGCCTCAATATGTGAGAGCCAATG
* * ** * * *
89772120 TAAGACCATGTCTGGGACATGGCATCGACTTTAACGTATGA-A-CCAGTGTAAGACCATATCCGG
1 TAAGACCATGTCTGGGACATGGCATCGGCTTCAATATGTGAGAGCCAGTGTAAGACCATGTCTGG
89772183 GACATGGC
66 GACATGGC
89772191 GTCAACATCT
Statistics
Matches: 149, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
98 26 0.17
99 1 0.01
100 121 0.81
101 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (100 bp):
TAAGACCATGTCTGGGACATGGCATCGGCTTCAATATGTGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCAGCCTCAATATGTGAGAGCCAATG
Found at i:89775885 original size:23 final size:23
Alignment explanation
Indices: 89775855--89775900 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
89775845 GACAGTGAAG
89775855 AACAAGTATCCTTTGCCAAGGAT
1 AACAAGTATCCTTTGCCAAGGAT
89775878 AACAAGTATCCTTTGCCAAGGAT
1 AACAAGTATCCTTTGCCAAGGAT
89775901 TGATGATCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (23 bp):
AACAAGTATCCTTTGCCAAGGAT
Found at i:89779568 original size:46 final size:46
Alignment explanation
Indices: 89779508--89779811 Score: 363
Period size: 46 Copynumber: 7.0 Consensus size: 46
89779498 TTTGACGTGA
* * * * * *
89779508 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
89779554 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
89779600 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
89779646 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
89779692 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
89779730 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
89779768 TGCCGTGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
89779812 AGAACACACT
Statistics
Matches: 235, Mismatches: 14, Indels: 18
0.88 0.05 0.07
Matches are distributed among these distances:
38 70 0.30
39 1 0.00
40 3 0.01
41 1 0.00
43 1 0.00
44 3 0.01
45 5 0.02
46 151 0.64
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Done.