Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 28 of 172
Found at i:6742520 original size:21 final size:21
Alignment explanation
Indices: 6742469--6742520 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
6742459 TTAAATAATT
* *
6742469 AAAATTT-TATAAAAATTAAT
1 AAAATTTAAATAAAAATTAAA
* * *
6742489 AAAAGTAAAATAAAGATTAAA
1 AAAATTTAAATAAAAATTAAA
6742510 AAAATTTAAAT
1 AAAATTTAAAT
6742521 CGACTGAACT
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (21 bp):
AAAATTTAAATAAAAATTAAA
Found at i:6743379 original size:31 final size:31
Alignment explanation
Indices: 6743344--6743402 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
6743334 CCCTAGTGAA
*
6743344 TTAAATAAAAACTTTTGAATAGTTTAGTTAC
1 TTAAATAAAAACTTTTGAATAATTTAGTTAC
* *
6743375 TTAAATGAAAATTTTTGAATAATTTAGT
1 TTAAATAAAAACTTTTGAATAATTTAGT
6743403 GACCAAATTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.44
Consensus pattern (31 bp):
TTAAATAAAAACTTTTGAATAATTTAGTTAC
Found at i:6744117 original size:31 final size:31
Alignment explanation
Indices: 6744056--6744112 Score: 77
Period size: 28 Copynumber: 1.9 Consensus size: 31
6744046 TTTAACATTT
6744056 AAAAATTCAAAAAATATAAAAATTATTTTAA
1 AAAAATTCAAAAAATATAAAAATTATTTTAA
6744087 AAAAATT---AAAATATAAAAGA-TATTTT
1 AAAAATTCAAAAAATATAAAA-ATTATTTT
6744113 TTTAATATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
28 17 0.68
29 1 0.04
31 7 0.28
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (31 bp):
AAAAATTCAAAAAATATAAAAATTATTTTAA
Found at i:6748919 original size:18 final size:18
Alignment explanation
Indices: 6748896--6748931 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
6748886 GAATGACTCA
6748896 TATTTCAGAGACAATCTC
1 TATTTCAGAGACAATCTC
*
6748914 TATTTCAGAGATAATCTC
1 TATTTCAGAGACAATCTC
6748932 CTAGTTAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.36
Consensus pattern (18 bp):
TATTTCAGAGACAATCTC
Found at i:6754020 original size:20 final size:19
Alignment explanation
Indices: 6753995--6754044 Score: 82
Period size: 20 Copynumber: 2.6 Consensus size: 19
6753985 ATTACAAAAT
6753995 AATTCAAAATAATTTTCAAA
1 AATTCAAAATAATTTTC-AA
6754015 AATTCAAAATAATTTTCAA
1 AATTCAAAATAATTTTCAA
*
6754034 AACTCAAAATA
1 AATTCAAAATA
6754045 TTTATAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (19 bp):
AATTCAAAATAATTTTCAA
Found at i:6757820 original size:109 final size:106
Alignment explanation
Indices: 6757683--6757882 Score: 355
Period size: 109 Copynumber: 1.9 Consensus size: 106
6757673 TTGAGCTCAC
6757683 TAACTTGTGGAACTTATGATGTGTATAAGATTTCATAAATTCATGAGTATATTGATAATGAAATT
1 TAACTTGTGGAACTTATGATGTGTATAAGATTTCATAAATTCATGAG--TA-TGATAATGAAATT
6757748 ATGCATCATTTTATAAAAATTGAGTTTAAGATTTCATAAATTCA
63 ATGCATCATTTTATAAAAATTGAGTTTAAGATTTCATAAATTCA
* *
6757792 TAACTTGTGGGACTTATGATGTGTATAAGATTTCATAAATTCATGAGTATGGTAATGAAATTATG
1 TAACTTGTGGAACTTATGATGTGTATAAGATTTCATAAATTCATGAGTATGATAATGAAATTATG
6757857 CATCATTTTATAAAAATTGAGTTTAA
66 CATCATTTTATAAAAATTGAGTTTAA
6757883 AAAAAAGGTA
Statistics
Matches: 89, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
106 41 0.46
107 2 0.02
109 46 0.52
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.40
Consensus pattern (106 bp):
TAACTTGTGGAACTTATGATGTGTATAAGATTTCATAAATTCATGAGTATGATAATGAAATTATG
CATCATTTTATAAAAATTGAGTTTAAGATTTCATAAATTCA
Found at i:6762426 original size:23 final size:23
Alignment explanation
Indices: 6762400--6762446 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
6762390 TTCAAGTTGT
6762400 ACGAAGCTATTCAATACTAAGTC
1 ACGAAGCTATTCAATACTAAGTC
6762423 ACGAAGCTATTCAATACTAAGTC
1 ACGAAGCTATTCAATACTAAGTC
6762446 A
1 A
6762447 TGATACAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.26
Consensus pattern (23 bp):
ACGAAGCTATTCAATACTAAGTC
Found at i:6773110 original size:15 final size:15
Alignment explanation
Indices: 6773091--6773147 Score: 96
Period size: 15 Copynumber: 3.8 Consensus size: 15
6773081 TTGACTTGCT
*
6773091 ATCTTTTGATTTTTC
1 ATCTTTTGATTTGTC
*
6773106 GTCTTTTGATTTGTC
1 ATCTTTTGATTTGTC
6773121 ATCTTTTGATTTGTC
1 ATCTTTTGATTTGTC
6773136 ATCTTTTGATTT
1 ATCTTTTGATTT
6773148 TTCGCCATTG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 39 1.00
ACGTcount: A:0.12, C:0.12, G:0.12, T:0.63
Consensus pattern (15 bp):
ATCTTTTGATTTGTC
Found at i:6773114 original size:30 final size:30
Alignment explanation
Indices: 6773080--6773144 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
6773070 GACTTCATGC
* *
6773080 TTTGACTTG-CTATCTTTTGATTTTTCGTCT
1 TTTGACTTGTC-ATCTTTTGATTTGTCATCT
*
6773110 TTTGATTTGTCATCTTTTGATTTGTCATCT
1 TTTGACTTGTCATCTTTTGATTTGTCATCT
6773140 TTTGA
1 TTTGA
6773145 TTTTTCGCCA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 30 0.97
31 1 0.03
ACGTcount: A:0.12, C:0.14, G:0.14, T:0.60
Consensus pattern (30 bp):
TTTGACTTGTCATCTTTTGATTTGTCATCT
Found at i:6773669 original size:29 final size:28
Alignment explanation
Indices: 6773610--6773670 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
6773600 CATTTCCAAA
**
6773610 AAAAATTACGGAAATGGGCCATTTTGTT
1 AAAAATTACGGAAATGGGCCATTTTCCT
*
6773638 AAAAATTACTGGAAA-GGGTCGATTTTCCT
1 AAAAATTAC-GGAAATGGG-CCATTTTCCT
6773667 AAAA
1 AAAA
6773671 CGTGCTGAGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 12 0.43
29 16 0.57
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (28 bp):
AAAAATTACGGAAATGGGCCATTTTCCT
Found at i:6773840 original size:32 final size:30
Alignment explanation
Indices: 6773789--6773851 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 30
6773779 GGCCAATTAG
* *
6773789 GGTTTAGGTTTTTTTAATTTTAAGTGTTTA
1 GGTTTAGGTTTATTTAATTTTAAGGGTTTA
*
6773819 GGTTTAGGGTTATATTTAATTTTTAGGGTTTA
1 GGTTTA-GGTT-TATTTAATTTTAAGGGTTTA
6773851 G
1 G
6773852 AGGTTCTGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 6 0.21
31 4 0.14
32 18 0.64
ACGTcount: A:0.21, C:0.00, G:0.24, T:0.56
Consensus pattern (30 bp):
GGTTTAGGTTTATTTAATTTTAAGGGTTTA
Found at i:6773910 original size:29 final size:29
Alignment explanation
Indices: 6773853--6773934 Score: 103
Period size: 29 Copynumber: 2.8 Consensus size: 29
6773843 AGGGTTTAGA
6773853 GGTTCTGAAAAAAATAA-TTTGTACAGGATG
1 GGTTCTG-AAAAAATAATTTTG-ACAGGATG
**
6773883 GGTTCTGAAAAAATAATTTTGAGGGGATG
1 GGTTCTGAAAAAATAATTTTGACAGGATG
* *
6773912 GGTTTTGAAGAAATAATTTTGAC
1 GGTTCTGAAAAAATAATTTTGAC
6773935 GAGATGAGTT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
29 35 0.76
30 11 0.24
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.33
Consensus pattern (29 bp):
GGTTCTGAAAAAATAATTTTGACAGGATG
Found at i:6783564 original size:25 final size:25
Alignment explanation
Indices: 6783543--6783597 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
6783533 GTCTTTTTTT
*
6783543 TCACCCAACTATCTTGGATTTTTGG
1 TCACCAAACTATCTTGGATTTTTGG
6783568 TCACCAAACTATCTTGGATTTTTGG
1 TCACCAAACTATCTTGGATTTTTGG
6783593 TCACC
1 TCACC
6783598 TAAAACCCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (25 bp):
TCACCAAACTATCTTGGATTTTTGG
Found at i:6785851 original size:67 final size:66
Alignment explanation
Indices: 6785733--6785863 Score: 217
Period size: 67 Copynumber: 2.0 Consensus size: 66
6785723 TTTCCATTTC
*
6785733 AGAGAGCACACTCCCGCGAACCTCATCCTTGCAGCGGGATTACCAGTCCAGGCTAAATCCCCTGC
1 AGAGAGCACACTCCCGCGAACCTCATCCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTGC
6785798 A
66 A
* * *
6785799 AGAGAGCACACTCCTGCGAACCTTATTCCTTACAGTGGGATTACCAGTCCAGGCTAAATCCCCTG
1 AGAGAGCACACTCCCGCGAACCTCA-TCCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
6785864 TAATATAAAC
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
66 23 0.38
67 37 0.62
ACGTcount: A:0.26, C:0.34, G:0.21, T:0.20
Consensus pattern (66 bp):
AGAGAGCACACTCCCGCGAACCTCATCCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTGC
A
Found at i:6786083 original size:57 final size:60
Alignment explanation
Indices: 6785995--6786132 Score: 185
Period size: 57 Copynumber: 2.3 Consensus size: 60
6785985 GGATTACCTA
* * *
6785995 TCCGGGCTAAATCCATTTTCCACATATTCTTCGGGAGGGCTATATC-A-A-GATCACCCG
1 TCCGGGATAGATCCTTTTTCCACATATTCTTCGGGAGGGCTATATCGATAGGATCACCCG
6786052 TCCGGGATAGAT-CTTTTTCACACATATTCTTCGGGAGGGCTATATCAGGATAGGATCACCCG
1 TCCGGGATAGATCCTTTTTC-CACATATTCTTCGGGAGGGCTATATC--GATAGGATCACCCG
*
6786114 TCCGGGCTAGATCCTTTTT
1 TCCGGGATAGATCCTTTTT
6786133 ACCGTCAATT
Statistics
Matches: 70, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
56 6 0.09
57 36 0.51
60 1 0.01
61 1 0.01
62 20 0.29
63 6 0.09
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.30
Consensus pattern (60 bp):
TCCGGGATAGATCCTTTTTCCACATATTCTTCGGGAGGGCTATATCGATAGGATCACCCG
Found at i:6794635 original size:15 final size:14
Alignment explanation
Indices: 6794598--6794640 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 14
6794588 TTTCAAATTT
6794598 TTAATATAAAAAATA
1 TTAA-ATAAAAAATA
6794613 TATGAAATAAATAAATA
1 T-T-AAATAAA-AAATA
6794630 TTAAATAAAAA
1 TTAAATAAAAA
6794641 TAACATATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
14 2 0.08
15 8 0.32
16 7 0.28
17 8 0.32
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (14 bp):
TTAAATAAAAAATA
Found at i:6800117 original size:20 final size:20
Alignment explanation
Indices: 6800092--6800132 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
6800082 AAAGTAAAAA
6800092 TATCAAATTTGTTGAGTAAT
1 TATCAAATTTGTTGAGTAAT
6800112 TATCAAATTTGTTGAGTAAT
1 TATCAAATTTGTTGAGTAAT
6800132 T
1 T
6800133 TTCTGCATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.46
Consensus pattern (20 bp):
TATCAAATTTGTTGAGTAAT
Found at i:6809197 original size:15 final size:16
Alignment explanation
Indices: 6809171--6809201 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
6809161 AAATTTGATT
6809171 TAAAATATACCAAAAA
1 TAAAATATACCAAAAA
6809187 TAAAA-ATACCAAAAA
1 TAAAATATACCAAAAA
6809202 CTAATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.71, C:0.13, G:0.00, T:0.16
Consensus pattern (16 bp):
TAAAATATACCAAAAA
Found at i:6818664 original size:16 final size:16
Alignment explanation
Indices: 6818643--6818674 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6818633 CTTATTAATA
*
6818643 ATTTGATAACTAAAAT
1 ATTTGATAAATAAAAT
6818659 ATTTGATAAATAAAAT
1 ATTTGATAAATAAAAT
6818675 TAATTATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (16 bp):
ATTTGATAAATAAAAT
Found at i:6820621 original size:13 final size:13
Alignment explanation
Indices: 6820603--6820627 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6820593 CCTTCTTTTA
6820603 TTTTTAATTAATG
1 TTTTTAATTAATG
6820616 TTTTTAATTAAT
1 TTTTTAATTAAT
6820628 AAATATATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTTTTAATTAATG
Found at i:6827874 original size:5 final size:5
Alignment explanation
Indices: 6827864--6827891 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
6827854 ATGCATCTGC
6827864 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
6827892 TAAAATGAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:6840405 original size:16 final size:17
Alignment explanation
Indices: 6840380--6840431 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 17
6840370 CATATAATGC
6840380 ATAAAA-AATATTTAAA
1 ATAAAATAATATTTAAA
*
6840396 A-AAAATAATATTCAAA
1 ATAAAATAATATTTAAA
* *
6840412 ATAAGATAATTATTTTAA
1 ATAAAATAA-TATTTAAA
6840430 AT
1 AT
6840432 CTCTCCACAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 4 0.14
16 11 0.38
17 6 0.21
18 8 0.28
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (17 bp):
ATAAAATAATATTTAAA
Found at i:6841140 original size:19 final size:19
Alignment explanation
Indices: 6841112--6841164 Score: 79
Period size: 19 Copynumber: 2.8 Consensus size: 19
6841102 ATCTTCAGGG
6841112 ATATGCAATCTTAGATATA
1 ATATGCAATCTTAGATATA
** *
6841131 ATATTTAATCTTAGATATG
1 ATATGCAATCTTAGATATA
6841150 ATATGCAATCTTAGA
1 ATATGCAATCTTAGA
6841165 AGATATGATT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (19 bp):
ATATGCAATCTTAGATATA
Found at i:6846941 original size:7 final size:7
Alignment explanation
Indices: 6846929--6846994 Score: 60
Period size: 7 Copynumber: 9.4 Consensus size: 7
6846919 CAAATTTTCG
6846929 ATTCTCA
1 ATTCTCA
*
6846936 ATTCTCG
1 ATTCTCA
* *
6846943 GTTCTCG
1 ATTCTCA
6846950 ATTCTCA
1 ATTCTCA
*
6846957 ATTCTCG
1 ATTCTCA
* **
6846964 CTTCTTG
1 ATTCTCA
6846971 ATTCTCA
1 ATTCTCA
6846978 ATTCTCA
1 ATTCTCA
*
6846985 AATCTCA
1 ATTCTCA
6846992 ATT
1 ATT
6846995 ATTTTTTTAA
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 47 1.00
ACGTcount: A:0.21, C:0.27, G:0.08, T:0.44
Consensus pattern (7 bp):
ATTCTCA
Found at i:6846947 original size:14 final size:14
Alignment explanation
Indices: 6846921--6846994 Score: 67
Period size: 14 Copynumber: 5.3 Consensus size: 14
6846911 CTCAATCCCA
*
6846921 AATTTTCGATTCTC
1 AATTCTCGATTCTC
*
6846935 AATTCTCGGTTCTC
1 AATTCTCGATTCTC
* *
6846949 GATTCTCAATTCTC
1 AATTCTCGATTCTC
** *
6846963 GCTTCTTGATTCTC
1 AATTCTCGATTCTC
* *
6846977 AATTCTCAAATCTC
1 AATTCTCGATTCTC
6846991 AATT
1 AATT
6846995 ATTTTTTTAA
Statistics
Matches: 47, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 47 1.00
ACGTcount: A:0.22, C:0.26, G:0.08, T:0.45
Consensus pattern (14 bp):
AATTCTCGATTCTC
Found at i:6846950 original size:21 final size:21
Alignment explanation
Indices: 6846926--6846983 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
6846916 TCCCAAATTT
*
6846926 TCGATTCTCAATTCTCGGTTC
1 TCGATTCTCAATTCTCGCTTC
6846947 TCGATTCTCAATTCTCGCTTC
1 TCGATTCTCAATTCTCGCTTC
*
6846968 TTGATTCTCAATTCTC
1 TCGATTCTCAATTCTC
6846984 AAATCTCAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.16, C:0.29, G:0.10, T:0.45
Consensus pattern (21 bp):
TCGATTCTCAATTCTCGCTTC
Found at i:6847990 original size:40 final size:39
Alignment explanation
Indices: 6847914--6847990 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 39
6847904 GAACCAGTTT
**
6847914 GGGCCTTAGCCCATTCAGATACAGTCTTAGAAATACATTA
1 GGGCCTTAGCCCATTCAGATACAGAATTAG-AATACATTA
*
6847954 GGGCCTTGGCCCATATCAGATACAGAATGTAG-ATACA
1 GGGCCTTAGCCCAT-TCAGATACAGAAT-TAGAATACA
6847991 GTAAATCAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 18 0.56
41 11 0.34
42 3 0.09
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (39 bp):
GGGCCTTAGCCCATTCAGATACAGAATTAGAATACATTA
Found at i:6849134 original size:21 final size:21
Alignment explanation
Indices: 6849110--6849152 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
6849100 TTTTCAGGTA
6849110 CACACCTAGTTCTGTTTGATG
1 CACACCTAGTTCTGTTTGATG
*
6849131 CACACCTTGTTCTGTTTGATG
1 CACACCTAGTTCTGTTTGATG
6849152 C
1 C
6849153 TAAAACAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.26, G:0.19, T:0.40
Consensus pattern (21 bp):
CACACCTAGTTCTGTTTGATG
Found at i:6855383 original size:11 final size:11
Alignment explanation
Indices: 6855367--6855406 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
6855357 TCATAATTTG
6855367 TAATTTTTTTA
1 TAATTTTTTTA
6855378 TAA-TTTTTTA
1 TAATTTTTTTA
*
6855388 TATTTTTTTTA
1 TAATTTTTTTA
6855399 TAAATTTT
1 T-AATTTT
6855407 AAATTGTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 9 0.36
11 11 0.44
12 5 0.20
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TAATTTTTTTA
Found at i:6863330 original size:24 final size:24
Alignment explanation
Indices: 6863303--6863354 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
6863293 TTAGTAAGTC
*
6863303 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
6863327 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
6863351 AAAT
1 AAAT
6863355 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:6864462 original size:31 final size:31
Alignment explanation
Indices: 6864406--6864500 Score: 113
Period size: 31 Copynumber: 3.1 Consensus size: 31
6864396 TTTGAATCAA
*
6864406 GACCAAAATTCAA--AATTCAAAAAGTATAGG
1 GACCAAAATT-AACCAATTCAAAAAGTATAAG
* * *
6864436 GACCAAAATTGACCAATTAAAAAAGTATAAT
1 GACCAAAATTAACCAATTCAAAAAGTATAAG
* *
6864467 GACTAAAATTAACCAATTCAAAAAGTACAAG
1 GACCAAAATTAACCAATTCAAAAAGTATAAG
6864498 GAC
1 GAC
6864501 TAAATCCATA
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
29 1 0.02
30 10 0.19
31 43 0.80
ACGTcount: A:0.54, C:0.15, G:0.12, T:0.20
Consensus pattern (31 bp):
GACCAAAATTAACCAATTCAAAAAGTATAAG
Found at i:6864502 original size:31 final size:31
Alignment explanation
Indices: 6864419--6864504 Score: 118
Period size: 31 Copynumber: 2.8 Consensus size: 31
6864409 CAAAATTCAA
* * *
6864419 AATTCAAAAAGTATAGGGACCAAAATTGACC
1 AATTCAAAAAGTATAAGGACTAAAATTAACC
* *
6864450 AATTAAAAAAGTATAATGACTAAAATTAACC
1 AATTCAAAAAGTATAAGGACTAAAATTAACC
*
6864481 AATTCAAAAAGTACAAGGACTAAA
1 AATTCAAAAAGTATAAGGACTAAA
6864505 TCCATAACTT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.55, C:0.13, G:0.12, T:0.21
Consensus pattern (31 bp):
AATTCAAAAAGTATAAGGACTAAAATTAACC
Found at i:6866388 original size:10 final size:10
Alignment explanation
Indices: 6866373--6866455 Score: 64
Period size: 10 Copynumber: 8.3 Consensus size: 10
6866363 ATATATATAG
6866373 TTTTAATAAT
1 TTTTAATAAT
*
6866383 TTTTAA-AAA
1 TTTTAATAAT
* *
6866392 ATTTAATGAT
1 TTTTAATAAT
*
6866402 TTTTTATAAT
1 TTTTAATAAT
6866412 TTCTT-ATAAT
1 TT-TTAATAAT
*
6866422 TCTTAATAAAT
1 TTTTAAT-AAT
*
6866433 TTTGAATAA-
1 TTTTAATAAT
6866442 TTTTATATAAT
1 TTTTA-ATAAT
6866453 TTT
1 TTT
6866456 ATATTTATTT
Statistics
Matches: 56, Mismatches: 11, Indels: 11
0.72 0.14 0.14
Matches are distributed among these distances:
9 13 0.23
10 30 0.54
11 13 0.23
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (10 bp):
TTTTAATAAT
Found at i:6866433 original size:39 final size:41
Alignment explanation
Indices: 6866378--6866454 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
6866368 TATAGTTTTA
* * *
6866378 ATAATTTTTAAAAAA-TTT-AATGATTTTTTATAATTTCTT
1 ATAATTCTTAAAAAATTTTGAATAATTTTATATAATTTCTT
*
6866417 ATAATTCTTAATAAATTTTGAATAATTTTATATAATTT
1 ATAATTCTTAAAAAATTTTGAATAATTTTATATAATTT
6866455 TATATTTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 13 0.41
40 3 0.09
41 16 0.50
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (41 bp):
ATAATTCTTAAAAAATTTTGAATAATTTTATATAATTTCTT
Found at i:6866441 original size:21 final size:20
Alignment explanation
Indices: 6866366--6866455 Score: 55
Period size: 19 Copynumber: 4.5 Consensus size: 20
6866356 CGGGTATATA
*
6866366 TATATAGTTTT-AATAATTT
1 TATATAATTTTGAATAATTT
* * *
6866385 T-TAAAAAATTT-AATGATTT
1 TAT-ATAATTTTGAATAATTT
* *
6866404 TTTATAATTTCT-TATAATTCT
1 TATATAATTT-TGAATAATT-T
6866425 TA-ATAAATTTTGAATAATTT
1 TATAT-AATTTTGAATAATTT
6866445 TATATAATTTT
1 TATATAATTTT
6866456 ATATTTATTT
Statistics
Matches: 54, Mismatches: 10, Indels: 13
0.70 0.13 0.17
Matches are distributed among these distances:
18 1 0.02
19 19 0.35
20 19 0.35
21 15 0.28
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (20 bp):
TATATAATTTTGAATAATTT
Found at i:6866456 original size:10 final size:10
Alignment explanation
Indices: 6866366--6866459 Score: 56
Period size: 10 Copynumber: 9.5 Consensus size: 10
6866356 CGGGTATATA
*
6866366 TATATAGTTT
1 TATATAATTT
6866376 TA-ATAATTT
1 TATATAATTT
* *
6866385 T-TAAAAAATT
1 TAT-ATAATTT
*
6866395 TA-ATGATTT
1 TATATAATTT
*
6866404 TTTATAATTT
1 TATATAATTT
6866414 CT-TATAATTCT
1 -TATATAATT-T
6866425 TA-ATAAATTT
1 TATAT-AATTT
6866435 TGA-ATAATTT
1 T-ATATAATTT
6866445 TATATAATTT
1 TATATAATTT
6866455 TATAT
1 TATAT
6866460 TTATTTAAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 20
0.70 0.09 0.21
Matches are distributed among these distances:
9 13 0.20
10 44 0.67
11 9 0.14
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.55
Consensus pattern (10 bp):
TATATAATTT
Found at i:6866458 original size:39 final size:37
Alignment explanation
Indices: 6866366--6866472 Score: 97
Period size: 39 Copynumber: 2.7 Consensus size: 37
6866356 CGGGTATATA
* * *
6866366 TATATAGTTTTAATAATTTTTAAAAAATTTAATGATTT
1 TATATAATTTT-ATAATTCTTAAAAAATTTAATAATTT
* *
6866404 TTTATAATTTCTTATAATTCTTAATAAATTTTGAATAATTT
1 TATATAA-TT-TTATAATTCTTAA-AAAATTT-AATAATTT
* *
6866445 TATATAATTTTATATTTATTTAAAAAAT
1 TATATAATTTTATAATT-CTTAAAAAAT
6866473 CATGTTTAGG
Statistics
Matches: 55, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
38 5 0.09
39 23 0.42
40 14 0.25
41 13 0.24
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (37 bp):
TATATAATTTTATAATTCTTAAAAAATTTAATAATTT
Found at i:6867396 original size:40 final size:39
Alignment explanation
Indices: 6867352--6867428 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 39
6867342 TCAAACATAT
* *
6867352 ATTTATATTTATACAATA-TTCATAATTGTAATTATATTGA
1 ATTTATAATTATACAATACTTC-TAATTAT-ATTATATTGA
*
6867392 ATTTATAATTATACTATACTTCTAATTATATTATATT
1 ATTTATAATTATACAATACTTCTAATTATATTATATT
6867429 TGTAATCACA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 8 0.24
40 22 0.67
41 3 0.09
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (39 bp):
ATTTATAATTATACAATACTTCTAATTATATTATATTGA
Found at i:6867434 original size:17 final size:18
Alignment explanation
Indices: 6867367--6867434 Score: 61
Period size: 17 Copynumber: 3.9 Consensus size: 18
6867357 TATTTATACA
*
6867367 ATATTCATAATTGTAATT
1 ATATTCATATTTGTAATT
* *
6867385 ATATTGA-ATTTATAATT
1 ATATTCATATTTGTAATT
* * *
6867402 ATACT-ATACTTCTAATT
1 ATATTCATATTTGTAATT
6867419 ATATT-ATATTTGTAAT
1 ATATTCATATTTGTAAT
6867435 CACAAATCTT
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
16 1 0.03
17 33 0.82
18 6 0.15
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.51
Consensus pattern (18 bp):
ATATTCATATTTGTAATT
Found at i:6871964 original size:20 final size:19
Alignment explanation
Indices: 6871902--6872004 Score: 53
Period size: 20 Copynumber: 5.2 Consensus size: 19
6871892 GTGCATTTAA
*
6871902 GGGTACCGAAGTACAAATAT
1 GGGTACCGAAGTAC-AATAG
* ** * *
6871922 GGGCACATATGTGCAATTAG
1 GGGTACCGAAGTACAA-TAG
6871942 GGGTACCGAAGTACGAATAG
1 GGGTACCGAAGTAC-AATAG
* ** * *
6871962 GGGGACATATGTGCAATCAG
1 GGGTACCGAAGTACAAT-AG
*
6871982 GAGTACCGAAGTACAAATAG
1 GGGTACCGAAGTAC-AATAG
6872002 GGG
1 GGG
6872005 CATATATGTG
Statistics
Matches: 56, Mismatches: 23, Indels: 8
0.64 0.26 0.09
Matches are distributed among these distances:
19 5 0.09
20 46 0.82
21 5 0.09
ACGTcount: A:0.35, C:0.15, G:0.32, T:0.18
Consensus pattern (19 bp):
GGGTACCGAAGTACAATAG
Found at i:6872042 original size:20 final size:20
Alignment explanation
Indices: 6872019--6872123 Score: 61
Period size: 20 Copynumber: 5.2 Consensus size: 20
6872009 TATGTGCAAT
6872019 CAGGGGTACTGAAGTACAAA
1 CAGGGGTACTGAAGTACAAA
* * * *
6872039 CAGGGGCAC-GTATGTGCAAT
1 CAGGGGTACTG-AAGTACAAA
*
6872059 CAGGGGTACTAAAGTACAAA
1 CAGGGGTACTGAAGTACAAA
* ** * * *
6872079 TAGGGACACAT-ATGTGCAAT
1 CAGGGGTAC-TGAAGTACAAA
* *
6872099 CAGGTGTACCGAAGTACAAA
1 CAGGGGTACTGAAGTACAAA
6872119 CAGGG
1 CAGGG
6872124 ACACGTATGT
Statistics
Matches: 57, Mismatches: 24, Indels: 8
0.64 0.27 0.09
Matches are distributed among these distances:
19 1 0.02
20 55 0.96
21 1 0.02
ACGTcount: A:0.36, C:0.17, G:0.30, T:0.17
Consensus pattern (20 bp):
CAGGGGTACTGAAGTACAAA
Found at i:6872139 original size:40 final size:40
Alignment explanation
Indices: 6871902--6872140 Score: 334
Period size: 40 Copynumber: 6.0 Consensus size: 40
6871892 GTGCATTTAA
* *
6871902 GGGTACCGAAGTACAAATATGGGCACATATGTGCAATTAG
1 GGGTACCGAAGTACAAATAGGGGCACATATGTGCAATCAG
* *
6871942 GGGTACCGAAGTACGAATAGGGGGACATATGTGCAATCAG
1 GGGTACCGAAGTACAAATAGGGGCACATATGTGCAATCAG
* *
6871982 GAGTACCGAAGTACAAATAGGGGCATATATGTGCAATCAG
1 GGGTACCGAAGTACAAATAGGGGCACATATGTGCAATCAG
* * *
6872022 GGGTACTGAAGTACAAACAGGGGCACGTATGTGCAATCAG
1 GGGTACCGAAGTACAAATAGGGGCACATATGTGCAATCAG
** *
6872062 GGGTACTAAAGTACAAATAGGGACACATATGTGCAATCAG
1 GGGTACCGAAGTACAAATAGGGGCACATATGTGCAATCAG
* * * *
6872102 GTGTACCGAAGTACAAACAGGGACACGTATGTGCAATCA
1 GGGTACCGAAGTACAAATAGGGGCACATATGTGCAATCA
6872141 TACAATAATC
Statistics
Matches: 177, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 177 1.00
ACGTcount: A:0.36, C:0.16, G:0.29, T:0.19
Consensus pattern (40 bp):
GGGTACCGAAGTACAAATAGGGGCACATATGTGCAATCAG
Found at i:6878966 original size:40 final size:40
Alignment explanation
Indices: 6878905--6879193 Score: 326
Period size: 40 Copynumber: 7.2 Consensus size: 40
6878895 GTGCACGAAA
* * * * *
6878905 GTGCATTCAAGTGTACCAAAGTACAAATAGGGGCACATAT
1 GTGCAATCAAGGGTACCGAAGTACAAACAGGGGCACGTAT
* * * *
6878945 GTGAAATCAAGGCTACCAAAGTACGAACAGGGGCACGTAT
1 GTGCAATCAAGGGTACCGAAGTACAAACAGGGGCACGTAT
* * * * *
6878985 GTGCCATAAAGAGTACCGAAGTACAAATAGGGGCATGTAT
1 GTGCAATCAAGGGTACCGAAGTACAAACAGGGGCACGTAT
* *
6879025 GTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACGCAT
1 GTGCAATCAAGGGTACCGAAGTACAAACAGGGGCACGTAT
* * ** *
6879065 GTGCAATCAAGGGCACTGAAGTACAAACAGGATCACTTAT
1 GTGCAATCAAGGGTACCGAAGTACAAACAGGGGCACGTAT
* *
6879105 GTGCAATCAAGGGTACCAAAGTACAAACAGGGACACGTAT
1 GTGCAATCAAGGGTACCGAAGTACAAACAGGGGCACGTAT
* ** *
6879145 GTGCAATCAAGGGTACCGAAGTATAAACAATGACACGTAT
1 GTGCAATCAAGGGTACCGAAGTACAAACAGGGGCACGTAT
*
6879185 GTACAATCA
1 GTGCAATCA
6879194 TATAATAATT
Statistics
Matches: 208, Mismatches: 41, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 208 1.00
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.18
Consensus pattern (40 bp):
GTGCAATCAAGGGTACCGAAGTACAAACAGGGGCACGTAT
Found at i:6893920 original size:5 final size:5
Alignment explanation
Indices: 6893910--6893934 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
6893900 CATCTTTTTA
6893910 CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT
6893935 TGCTTACACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (5 bp):
CATAT
Found at i:6895414 original size:21 final size:21
Alignment explanation
Indices: 6895390--6895429 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6895380 AATCACATTG
6895390 ATATTAAATTAATATAATAAA
1 ATATTAAATTAATATAATAAA
* *
6895411 ATATTATATTAATTTAATA
1 ATATTAAATTAATATAATA
6895430 TTAAAATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
ATATTAAATTAATATAATAAA
Found at i:6895419 original size:26 final size:24
Alignment explanation
Indices: 6895390--6895440 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 24
6895380 AATCACATTG
6895390 ATATTAAATTAATATAATAAAATATT
1 ATATTAAATTAATAT--TAAAATATT
*
6895416 ATATTAATTTAATATTAAAATATT
1 ATATTAAATTAATATTAAAATATT
6895440 A
1 A
6895441 AAGTACCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 10 0.42
26 14 0.58
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
ATATTAAATTAATATTAAAATATT
Found at i:6898136 original size:20 final size:20
Alignment explanation
Indices: 6898113--6898150 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6898103 TTACATAAGT
6898113 TATTTTTATATATATATTTA
1 TATTTTTATATATATATTTA
*
6898133 TATTTTTATATTTATATT
1 TATTTTTATATATATATT
6898151 CTAAGGTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TATTTTTATATATATATTTA
Found at i:6898947 original size:21 final size:21
Alignment explanation
Indices: 6898917--6898956 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6898907 GCTCAATCGC
* *
6898917 TTATTTTTTTCTTGATTTTTT
1 TTATTATTTTATTGATTTTTT
6898938 TTATTATTTTATTGATTTT
1 TTATTATTTTATTGATTTT
6898957 GAGCGGTCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.78
Consensus pattern (21 bp):
TTATTATTTTATTGATTTTTT
Found at i:6902030 original size:5 final size:5
Alignment explanation
Indices: 6902020--6902044 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
6902010 TGTGATAATT
6902020 ATTTA ATTTA ATTTA ATTTA ATTTA
1 ATTTA ATTTA ATTTA ATTTA ATTTA
6902045 CAATTTAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTTA
Found at i:6903016 original size:2 final size:2
Alignment explanation
Indices: 6903009--6903035 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6902999 GAGGAGTGAG
6903009 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 T
6903036 GTTTAGTAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6910424 original size:23 final size:24
Alignment explanation
Indices: 6910371--6910424 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
6910361 ACTCCTAGGC
*
6910371 ACCTCAATATGCCATTCAAAACAT
1 ACCTAAATATGCCATTCAAAACAT
*
6910395 ACC-AAATATGTC-TTCAAAATC-T
1 ACCTAAATATGCCATTCAAAA-CAT
6910417 ACCTAAAT
1 ACCTAAAT
6910425 GGTAAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 11 0.42
23 12 0.46
24 3 0.12
ACGTcount: A:0.43, C:0.26, G:0.04, T:0.28
Consensus pattern (24 bp):
ACCTAAATATGCCATTCAAAACAT
Found at i:6916809 original size:19 final size:21
Alignment explanation
Indices: 6916777--6916819 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
6916767 AAATCAAAGT
6916777 ATTTTAATTAATAA-AT-ATA
1 ATTTTAATTAATAAGATAATA
* *
6916796 ATTTTATTTTATAAGATAATA
1 ATTTTAATTAATAAGATAATA
6916817 ATT
1 ATT
6916820 AATAATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 12 0.60
20 2 0.10
21 6 0.30
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
ATTTTAATTAATAAGATAATA
Found at i:6916922 original size:2 final size:2
Alignment explanation
Indices: 6916879--6916904 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6916869 AGATTAACAT
6916879 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
6916905 AAGATAATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6924284 original size:20 final size:21
Alignment explanation
Indices: 6924261--6924299 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
6924251 TGGACGGTTA
*
6924261 TGTATATTGTA-TATAAAATG
1 TGTATATTGAATTATAAAATG
6924281 TGTATATTGAATTATAAAA
1 TGTATATTGAATTATAAAA
6924300 GTTATTTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (21 bp):
TGTATATTGAATTATAAAATG
Found at i:6934721 original size:13 final size:13
Alignment explanation
Indices: 6934703--6934729 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6934693 ATTAACACAA
6934703 TTAATTTTTTTGG
1 TTAATTTTTTTGG
6934716 TTAATTTTTTTGG
1 TTAATTTTTTTGG
6934729 T
1 T
6934730 AACAATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.70
Consensus pattern (13 bp):
TTAATTTTTTTGG
Found at i:6936411 original size:14 final size:14
Alignment explanation
Indices: 6936379--6936423 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
6936369 TTATATACAC
6936379 TTTATA-ATCTATA
1 TTTATATATCTATA
**
6936392 CGTATATATCTATA
1 TTTATATATCTATA
6936406 TTTATATA--TATA
1 TTTATATATCTATA
6936418 TTTATA
1 TTTATA
6936424 AACATTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
12 10 0.37
13 4 0.15
14 13 0.48
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (14 bp):
TTTATATATCTATA
Found at i:6936493 original size:16 final size:15
Alignment explanation
Indices: 6936459--6936497 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
6936449 TTATATTTTT
* *
6936459 TATATATAAACTTTA
1 TATACATAAACTGTA
6936474 TATACATAAACGTGTA
1 TATACATAAAC-TGTA
6936490 TATACATA
1 TATACATA
6936498 CTTGCATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.38
Consensus pattern (15 bp):
TATACATAAACTGTA
Found at i:6936782 original size:15 final size:15
Alignment explanation
Indices: 6936762--6936791 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6936752 ATTATTCGTT
*
6936762 TTTGTTCATATTATC
1 TTTGTTCACATTATC
6936777 TTTGTTCACATTATC
1 TTTGTTCACATTATC
6936792 ATATTTATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.17, G:0.07, T:0.57
Consensus pattern (15 bp):
TTTGTTCACATTATC
Found at i:6937045 original size:112 final size:113
Alignment explanation
Indices: 6936848--6937166 Score: 495
Period size: 112 Copynumber: 2.9 Consensus size: 113
6936838 AAAATTTTTT
*
6936848 AAAATAATGCAATGTTTTGCGTTTGGAAAATTCGAGAAAACATACCCTAAGGTGCTGGGTGTCGA
1 AAAATAAGGCAATGTTTTGCGTTTGGAAAATTCGAGAAAACATACCCTAAGGTGCTGGGTGTCGA
6936913 TTTTTCTCATTCAACCAAATGGCTAAATATCCTTTT-AAAAAAATTTC
66 TTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAAAAATTTC
* *
6936960 AAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGA
1 AAAATAAGGCAATGTTTTGCGTTTGGAAAATTCGAGAAAACATACCCTAAGGTGCTGGGTGTCGA
6937025 TTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAAAAATTTC
66 TTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAAAAATTTC
* * * * *
6937073 AAAATAAGGTAATGTTTTGCGTTT-GAAAATTTGAG-GAACGTACCCTAAGGTGCTGGGTTTCGA
1 AAAATAAGGCAATGTTTTGCGTTTGGAAAATTCGAGAAAACATACCCTAAGGTGCTGGGTGTCGA
* * * *
6937136 --TTTCTCTTTTAACCAAATAGCCAAATATCCT
66 TTTTTCTCATTCAACCAAATGGCTAAATATCCT
6937167 CTCGAATTTC
Statistics
Matches: 192, Mismatches: 14, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
109 27 0.14
111 24 0.12
112 107 0.56
113 34 0.18
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (113 bp):
AAAATAAGGCAATGTTTTGCGTTTGGAAAATTCGAGAAAACATACCCTAAGGTGCTGGGTGTCGA
TTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAAAAATTTC
Found at i:6941584 original size:43 final size:44
Alignment explanation
Indices: 6941517--6941615 Score: 123
Period size: 43 Copynumber: 2.3 Consensus size: 44
6941507 AAAAAGGGCG
6941517 GCTCAAATTTTGGAATAAAATGGGGCACGA-AGTGATCAGAGC-
1 GCTCAAATTTTGGAATAAAATGGGGCACGATAGTGATCAGAGCA
* * * *
6941559 GACTTAAATTTTGG-ATCAAATTGGGGCATGATGGTGATCAGAGCA
1 G-CTCAAATTTTGGAAT-AAAATGGGGCACGATAGTGATCAGAGCA
6941604 GCTCAAATTTTG
1 GCTCAAATTTTG
6941616 ATTAGATCGG
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
42 3 0.06
43 23 0.48
44 21 0.44
45 1 0.02
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.27
Consensus pattern (44 bp):
GCTCAAATTTTGGAATAAAATGGGGCACGATAGTGATCAGAGCA
Found at i:6941628 original size:43 final size:43
Alignment explanation
Indices: 6941518--6941639 Score: 108
Period size: 43 Copynumber: 2.8 Consensus size: 43
6941508 AAAAGGGCGG
* * *
6941518 CTCAAATTTTGGAATAAAAT-GGGGCACGA-AGTGATCAGAGCGA
1 CTCAAATTTTGG-ATCAAATCGGGGCA-TATGGTGATCAGAGCGA
* *
6941561 CTTAAATTTTGGATCAAATTGGGGCATGATGGTGATCAGAGC-A
1 CTCAAATTTTGGATCAAATCGGGGCAT-ATGGTGATCAGAGCGA
* * *
6941604 GCTCAAATTTT-GATTAGATCGGGGCATATGATGATC
1 -CTCAAATTTTGGATCAAATCGGGGCATATGGTGATC
6941640 TTGCCATACC
Statistics
Matches: 66, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
42 14 0.21
43 32 0.48
44 20 0.30
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (43 bp):
CTCAAATTTTGGATCAAATCGGGGCATATGGTGATCAGAGCGA
Found at i:6943161 original size:100 final size:100
Alignment explanation
Indices: 6942763--6944283 Score: 2225
Period size: 100 Copynumber: 15.3 Consensus size: 100
6942753 ATTACAGTTT
* * * **
6942763 AAAAGATCGAAGCCACAACGGTGAATCTTATTTCCCAGGCGATGCAGCAGAATAGATTGAAGCTA
1 AAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAGATTGAAGCTA
* *
6942828 CAACGGTGAATCTCACTTCCCCGA-AGTTGCAATTC
66 CAACGGCGAATCTCACTTCCCCTACA-TTGCAATTC
* * *
6942863 AAAAGATTGAAGCCACAACGGTGAATCTTACTTCCTAGGCGATGCAGCGGAGCAAATTAAAGCTA
1 AAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAGATTGAAGCTA
* *
6942928 CAACGAC-AATCTCACTTCCTCTACATTGCAATTC
66 CAACGGCGAATCTCACTTCCCCTACATTGCAATTC
*
6942962 AAAAGATTAAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAG-GGAGCAGATTGAAGCTA
1 AAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAGATTGAAGCTA
*
6943026 CAACGGCGAATCTCACTTCCCCTACATTGCGATTC
66 CAACGGCGAATCTCACTTCCCCTACATTGCAATTC
* *
6943061 AAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAAGCGATGCAGCGGAGCAAATTGAAGCTA
1 AAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAGATTGAAGCTA
*
6943126 CAACGGCGAATCTCACTTCCCCTACATTGTAATTC
66 CAACGGCGAATCTCACTTCCCCTACATTGCAATTC
* **
6943161 AAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCACCGGAATAGATTGAAGCTA
1 AAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAGATTGAAGCTA
6943226 CAACGGCGAATCTCACTTCCCCTACATTGCAATTC
66 CAACGGCGAATCTCACTTCCCCTACATTGCAATTC
*
6943261 -AAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCAATGCAGCGGAGCAGATTGAAGCTA
1 AAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAGATTGAAGCTA
*
6943325 CAACGGTGAATCTCACTTCCCCTACATTGCAATTC
66 CAACGGCGAATCTCACTTCCCCTACATTGCAATTC
6943360 AAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAGATTGAAGCTA
1 AAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAGATTGAAGCTA
6943425 CAACGGCGAATCTCACTT-CCCTGACATTGCAATTC
66 CAACGGCGAATCTCACTTCCCCT-ACATTGCAATTC
* *
6943460 AAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAACAGAGCAGATTGAAGCTA
1 AAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAGATTGAAGCTA
* * * *
6943525 CAACGGTGAATCTTACTTCCCCAACATTACAATTC
66 CAACGGCGAATCTCACTTCCCCTACATTGCAATTC
* * **
6943560 AAAAGATCGAAGCCACAACGGCGAATCTTACTT-CCAGGCGATGCAGCGGAATAGATTGAAGCTA
1 AAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAGATTGAAGCTA
* * * * *
6943624 CAACAGTGAATCTTACTTCTCCGACATTGCAATTC
66 CAACGGCGAATCTCACTTCCCCTACATTGCAATTC
* ** * * **
6943659 AAAAGATCGAAGCCACAACGGCAAATCTTACTT-CCAGACGGTGCAATGGAGCAGATTGAAGCTA
1 AAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAGATTGAAGCTA
*
6943723 CAACGGTGAATCTCACTTCCCCTACATTGCAATTC
66 CAACGGCGAATCTCACTTCCCCTACATTGCAATTC
* * *
6943758 AAAAGGTTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAACAGAGCAGATTGAAGCTA
1 AAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAGATTGAAGCTA
6943823 CAACGGCGAATCTCACTT-CCCTGACATTGCAATTC
66 CAACGGCGAATCTCACTTCCCCT-ACATTGCAATTC
* *
6943858 AAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGGTGCAGCAGAGCAGATTGAAGCTA
1 AAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAGATTGAAGCTA
*
6943923 CAACGGCGAATCTCACTTCCCCGACATTGCAATTC
66 CAACGGCGAATCTCACTTCCCCTACATTGCAATTC
*
6943958 AAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGTAGCGGAGCAGATTGAAGCTA
1 AAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAGATTGAAGCTA
* *
6944023 TAACGGCGAATCTCACTTCCCCGACATTGCAATTC
66 CAACGGCGAATCTCACTTCCCCTACATTGCAATTC
* * * * *
6944058 AAAAGATCGAAGCCACAACGGCGAATCTTACTT-CCAGGCAATGTAGCGGAACAGATTGAAGCTA
1 AAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAGATTGAAGCTA
* * * * *
6944122 CAACAGCAAATCTTACTTCCCCGACATTGCAATTT
66 CAACGGCGAATCTCACTTCCCCTACATTGCAATTC
* * * ** * * **
6944157 AAAATATCGAAGCCACAACAGCAAATCTTACTT-CCAGACGGTGCAGCGGAATAGATTGAAGCTA
1 AAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAGATTGAAGCTA
* * *
6944221 CAACGGTGAATCTCACTTCCCCGATATTGCAATTC
66 CAACGGCGAATCTCACTTCCCCTACATTGCAATTC
* * * *
6944256 AAAAGATCGAAGCTACAACAGCGAATCT
1 AAAAGATTGAAGCCACAACGGTGAATCT
6944284 CACCTCCCTA
Statistics
Matches: 1305, Mismatches: 107, Indels: 19
0.91 0.07 0.01
Matches are distributed among these distances:
98 21 0.02
99 584 0.45
100 694 0.53
101 6 0.00
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.22
Consensus pattern (100 bp):
AAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAGATTGAAGCTA
CAACGGCGAATCTCACTTCCCCTACATTGCAATTC
Found at i:6944372 original size:50 final size:50
Alignment explanation
Indices: 6942763--6944490 Score: 1063
Period size: 50 Copynumber: 34.7 Consensus size: 50
6942753 ATTACAGTTT
* * * * * *
6942763 AAAAGATCGAAGCCACAACGGTGAATCTTATTTCCCAGGCGATGCAGCAG
1 AAAAGATTGAAGCTACAACGGTGAATCTTACTTCCCAGACGATGCAACTG
* * * * * * *
6942813 AATAGATTGAAGCTACAACGGTGAATCTCACTTCCCCGAAGTTGCAATTC
1 AAAAGATTGAAGCTACAACGGTGAATCTTACTTCCCAGACGATGCAACTG
* * * * *
6942863 AAAAGATTGAAGCCACAACGGTGAATCTTACTTCCTAGGCGATGCAGCGG
1 AAAAGATTGAAGCTACAACGGTGAATCTTACTTCCCAGACGATGCAACTG
* * ** * * * *
6942913 AGCAA-ATTAAAGCTACAAC-GACAATCTCACTTCCTC-TAC-ATTGCAATTC
1 A-AAAGATTGAAGCTACAACGGTGAATCTTACTTCC-CAGACGA-TGCAACTG
* * * **
6942962 AAAAGATTAAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGC-AGGG
1 AAAAGATTGAAGCTACAACGGTGAATCTTACTTCCCAGACGATGCAACTG
** * * ** * * *
6943011 AGCAGATTGAAGCTACAACGGCGAATCTCACTTCCCCTAC-ATTGCGATTC
1 AAAAGATTGAAGCTACAACGGTGAATCTTACTTCCCAGACGA-TGCAACTG
* * *
6943061 AAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCA-AGCGATGCAGCGG
1 AAAAGATTGAAGCTACAACGGTGAATCTTACTTCCCAGA-CGATGCAACTG
* * * ** * * *
6943111 AGCAA-ATTGAAGCTACAACGGCGAATCTCACTTCCCCTAC-ATTGTAATTC
1 A-AAAGATTGAAGCTACAACGGTGAATCTTACTTCCCAGACGA-TGCAACTG
* * * *
6943161 AAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCACCGG
1 AAAAGATTGAAGCTACAACGGTGAATCTTACTTCCCAGACGATGCAACTG
* * * ** *
6943211 AATAGATTGAAGCTACAACGGCGAATCTCACTTCCCCTAC-ATTGCAA-TT
1 AAAAGATTGAAGCTACAACGGTGAATCTTACTTCCCAGACGA-TGCAACTG
* * * * * *
6943260 CAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCAATGCAGCGG
1 AAAAGATTGAAGCTACAACGGTGAATCTTACTTCCCAGACGATGCAACTG
** * ** * *
6943310 AGCAGATTGAAGCTACAACGGTGAATCTCACTTCCCCTAC-ATTGCAATTC
1 AAAAGATTGAAGCTACAACGGTGAATCTTACTTCCCAGACGA-TGCAACTG
* * * *
6943360 AAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGG
1 AAAAGATTGAAGCTACAACGGTGAATCTTACTTCCCAGACGATGCAACTG
** * * * * *
6943410 AGCAGATTGAAGCTACAACGGCGAATCTCACTTCCCTGAC-ATTGCAATTC
1 AAAAGATTGAAGCTACAACGGTGAATCTTACTTCCCAGACGA-TGCAACTG
* * *
6943460 AAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAACAG
1 AAAAGATTGAAGCTACAACGGTGAATCTTACTTCCCAGACGATGCAACTG
** * * *
6943510 AGCAGATTGAAGCTACAACGGTGAATCTTACTTCCCCA-AC-ATTACAATTC
1 AAAAGATTGAAGCTACAACGGTGAATCTTACTT-CCCAGACGA-TGCAACTG
* * * * * *
6943560 AAAAGATCGAAGCCACAACGGCGAATCTTACTT-CCAGGCGATGCAGCGG
1 AAAAGATTGAAGCTACAACGGTGAATCTTACTTCCCAGACGATGCAACTG
* * * *
6943609 AATAGATTGAAGCTACAACAGTGAATCTTACTTCTCC-GAC-ATTGCAATTC
1 AAAAGATTGAAGCTACAACGGTGAATCTTACTTC-CCAGACGA-TGCAACTG
* * ** *
6943659 AAAAGATCGAAGCCACAACGGCAAATCTTACTT-CCAGACGGTGCAA-TGG
1 AAAAGATTGAAGCTACAACGGTGAATCTTACTTCCCAGACGATGCAACT-G
** * ** * *
6943708 AGCAGATTGAAGCTACAACGGTGAATCTCACTTCCCCTAC-ATTGCAATTC
1 AAAAGATTGAAGCTACAACGGTGAATCTTACTTCCCAGACGA-TGCAACTG
* * * *
6943758 AAAAGGTTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAACAG
1 AAAAGATTGAAGCTACAACGGTGAATCTTACTTCCCAGACGATGCAACTG
** * * * * *
6943808 AGCAGATTGAAGCTACAACGGCGAATCTCACTTCCCTGAC-ATTGCAATTC
1 AAAAGATTGAAGCTACAACGGTGAATCTTACTTCCCAGACGA-TGCAACTG
* * * * *
6943858 AAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGGTGCAGCAG
1 AAAAGATTGAAGCTACAACGGTGAATCTTACTTCCCAGACGATGCAACTG
** * * * * *
6943908 AGCAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC-ATTGCAATTC
1 AAAAGATTGAAGCTACAACGGTGAATCTTACTTCCCAGACGA-TGCAACTG
* * * * *
6943958 AAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGTAGCGG
1 AAAAGATTGAAGCTACAACGGTGAATCTTACTTCCCAGACGATGCAACTG
** * * * * * *
6944008 AGCAGATTGAAGCTATAACGGCGAATCTCACTTCCCCGAC-ATTGCAATTC
1 AAAAGATTGAAGCTACAACGGTGAATCTTACTTCCCAGACGA-TGCAACTG
* * * * * * * *
6944058 AAAAGATCGAAGCCACAACGGCGAATCTTACTT-CCAGGCAATGTAGCGG
1 AAAAGATTGAAGCTACAACGGTGAATCTTACTTCCCAGACGATGCAACTG
* * ** * * *
6944107 AACAGATTGAAGCTACAACAGCAAATCTTACTTCCCCGAC-ATTGCAATTT
1 AAAAGATTGAAGCTACAACGGTGAATCTTACTTCCCAGACGA-TGCAACTG
* * * * ** * * *
6944157 AAAATATCGAAGCCACAACAGCAAATCTTACTT-CCAGACGGTGCAGCGG
1 AAAAGATTGAAGCTACAACGGTGAATCTTACTTCCCAGACGATGCAACTG
* * * * * *
6944206 AATAGATTGAAGCTACAACGGTGAATCTCACTTCCCCGA-TATTGCAATTC
1 AAAAGATTGAAGCTACAACGGTGAATCTTACTTCCCAGACGA-TGCAACTG
* * * * * * *
6944256 AAAAGATCGAAGCTACAACAGCGAATCTCACCTCCCTAGA-GATGCAGCAG
1 AAAAGATTGAAGCTACAACGGTGAATCTTACTTCCC-AGACGATGCAACTG
* * * * * * *
6944306 AATAGATCGAAGCTACGACGATGAATCTTACCTCCCTGACGATGCAACGG
1 AAAAGATTGAAGCTACAACGGTGAATCTTACTTCCCAGACGATGCAACTG
* * *** * ** *
6944356 AACAGATTGAAGCTACGACACCGAATCTCACTTCCCCA-AC-ATTGCAGTTT
1 AAAAGATTGAAGCTACAACGGTGAATCTTACTT-CCCAGACGA-TGCAACTG
* * * * * * **
6944406 AAAAGATCGAAGCCACAACAGCGAATCTTATTTCCCAGGC-AGTGCAGTTG
1 AAAAGATTGAAGCTACAACGGTGAATCTTACTTCCCAGACGA-TGCAACTG
* ** *
6944456 AACAGATTGAAGCTATGACGGCGAATCTTACTTCC
1 AAAAGATTGAAGCTACAACGGTGAATCTTACTTCC
6944491 TCGACATTGT
Statistics
Matches: 1249, Mismatches: 376, Indels: 106
0.72 0.22 0.06
Matches are distributed among these distances:
48 10 0.01
49 257 0.21
50 957 0.77
51 25 0.02
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.22
Consensus pattern (50 bp):
AAAAGATTGAAGCTACAACGGTGAATCTTACTTCCCAGACGATGCAACTG
Found at i:6944391 original size:498 final size:498
Alignment explanation
Indices: 6942763--6944345 Score: 2404
Period size: 498 Copynumber: 3.2 Consensus size: 498
6942753 ATTACAGTTT
* *
6942763 AAAAGATCGAAGCCACAACGGTGAATCTTATTTCCCAGGCGATGCAGCAGAATAGATTGAAGCTA
1 AAAAGATCGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCAGAACAGATTGAAGCTA
*
6942828 CAACGGTGAATCTCACTTCCCCGA-AGTTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTT
66 CAACGGTGAATCTCACTTCCCTGACA-TTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTT
* * * * * *
6942892 ACTTCCTAGGCGATGCAGCGGAGCAAATTAAAGCTACAACGAC-AATCTCACTTCCTCTACATTG
130 ACTTCCCAGGCGATGCAGCGGAGCAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGACATTG
*
6942956 CAATTCAAAAGATTAAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAG-GGAGCAGATTG
195 CAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAGATTG
* * * *
6943020 AAGCTACAACGGCGAATCTCACTTCCCCTACATTGCGATTCAAAAGATTGAAGCCACAACGGTGA
260 AAGCTACAACGGCGAATCTCACTTCCCCAACATTGCAATTCAAAAGATCGAAGCCACAACGGCGA
* * * * * *
6943085 ATCTTACTTCCCAAGCGATGCAGCGGAGCAAATTGAAGCTACAACGGCGAATCTCACTTCCCCTA
325 ATCTTACTT-CCAGGCGATGCAGCGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGA
* * ** * * *
6943150 CATTGTAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCACCGGAATA
389 CATTGCAATTCAAAAGATCGAAGCCACAACGGCAAATCTTACTT-CCAGACGGTGCAACGGAATA
*
6943215 GATTGAAGCTACAACGGCGAATCTCACTTCCCCTACATTGCAATTC
453 GATTGAAGCTACAACGGTGAATCTCACTTCCCCTACATTGCAATTC
* * * *
6943261 -AAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCAATGCAGCGGAGCAGATTGAAGCTA
1 AAAAGATCGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCAGAACAGATTGAAGCTA
6943325 CAACGGTGAATCTCACTTCCCCT-ACATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTT
66 CAACGGTGAATCTCACTT-CCCTGACATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTT
*
6943389 ACTTCCCAGGCGATGCAGCGGAGCAGATTGAAGCTACAACGGCGAATCTCACTTCCCTGACATTG
130 ACTTCCCAGGCGATGCAGCGGAGCAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGACATTG
* *
6943454 CAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAACAGAGCAGATTG
195 CAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAGATTG
* * *
6943519 AAGCTACAACGGTGAATCTTACTTCCCCAACATTACAATTCAAAAGATCGAAGCCACAACGGCGA
260 AAGCTACAACGGCGAATCTCACTTCCCCAACATTGCAATTCAAAAGATCGAAGCCACAACGGCGA
* * *
6943584 ATCTTACTTCCAGGCGATGCAGCGGAATAGATTGAAGCTACAACAGTGAATCTTACTTCTCCGAC
325 ATCTTACTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGAC
* **
6943649 ATTGCAATTCAAAAGATCGAAGCCACAACGGCAAATCTTACTTCCAGACGGTGCAATGGAGCAGA
390 ATTGCAATTCAAAAGATCGAAGCCACAACGGCAAATCTTACTTCCAGACGGTGCAACGGAATAGA
6943714 TTGAAGCTACAACGGTGAATCTCACTTCCCCTACATTGCAATTC
455 TTGAAGCTACAACGGTGAATCTCACTTCCCCTACATTGCAATTC
* * * *
6943758 AAAAGGTTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAACAGAGCAGATTGAAGCTA
1 AAAAGATCGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCAGAACAGATTGAAGCTA
*
6943823 CAACGGCGAATCTCACTTCCCTGACATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTA
66 CAACGGTGAATCTCACTTCCCTGACATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTA
* *
6943888 CTTCCCAGGCGGTGCAGCAGAGCAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGACATTGC
131 CTTCCCAGGCGATGCAGCGGAGCAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGACATTGC
*
6943953 AATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGTAGCGGAGCAGATTGA
196 AATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAGATTGA
* *
6944018 AGCTATAACGGCGAATCTCACTTCCCCGACATTGCAATTCAAAAGATCGAAGCCACAACGGCGAA
261 AGCTACAACGGCGAATCTCACTTCCCCAACATTGCAATTCAAAAGATCGAAGCCACAACGGCGAA
* * *
6944083 TCTTACTTCCAGGCAATGTAGCGGAACAGATTGAAGCTACAACAGCAAATCTTACTTCCCCGACA
326 TCTTACTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGACA
* * * *
6944148 TTGCAATTTAAAATATCGAAGCCACAACAGCAAATCTTACTTCCAGACGGTGCAGCGGAATAGAT
391 TTGCAATTCAAAAGATCGAAGCCACAACGGCAAATCTTACTTCCAGACGGTGCAACGGAATAGAT
* *
6944213 TGAAGCTACAACGGTGAATCTCACTTCCCCGATATTGCAATTC
456 TGAAGCTACAACGGTGAATCTCACTTCCCCTACATTGCAATTC
* * * * * * * *
6944256 AAAAGATCGAAGCTACAACAGCGAATCTCACCTCCCTA-GAGATGCAGCAGAATAGATCGAAGCT
1 AAAAGATCGAAGCCACAACGGTGAATCTTACTTCCC-AGGCGATGCAGCAGAACAGATTGAAGCT
* * * *
6944320 ACGACGATGAATCTTACCTCCCTGAC
65 ACAACGGTGAATCTCACTTCCCTGAC
6944346 GATGCAACGG
Statistics
Matches: 986, Mismatches: 92, Indels: 14
0.90 0.08 0.01
Matches are distributed among these distances:
497 217 0.22
498 691 0.70
499 78 0.08
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (498 bp):
AAAAGATCGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCAGAACAGATTGAAGCTA
CAACGGTGAATCTCACTTCCCTGACATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTA
CTTCCCAGGCGATGCAGCGGAGCAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGACATTGC
AATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAGATTGA
AGCTACAACGGCGAATCTCACTTCCCCAACATTGCAATTCAAAAGATCGAAGCCACAACGGCGAA
TCTTACTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGACA
TTGCAATTCAAAAGATCGAAGCCACAACGGCAAATCTTACTTCCAGACGGTGCAACGGAATAGAT
TGAAGCTACAACGGTGAATCTCACTTCCCCTACATTGCAATTC
Found at i:6945414 original size:15 final size:15
Alignment explanation
Indices: 6945396--6945424 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6945386 CTTTTCTATT
6945396 TTTATTTTTTTTCTC
1 TTTATTTTTTTTCTC
6945411 TTTATTTTTTTTCT
1 TTTATTTTTTTTCT
6945425 TTCGAACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTATTTTTTTTCTC
Found at i:6946416 original size:15 final size:16
Alignment explanation
Indices: 6946393--6946431 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
6946383 TTATATTTTT
* *
6946393 TATATATAAAC-TTTA
1 TATACATAAACGTGTA
6946408 TATACATAAACGTGTA
1 TATACATAAACGTGTA
6946424 TATACATA
1 TATACATA
6946432 CTTGCATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.38
Consensus pattern (16 bp):
TATACATAAACGTGTA
Found at i:6946977 original size:112 final size:113
Alignment explanation
Indices: 6946780--6947098 Score: 513
Period size: 112 Copynumber: 2.9 Consensus size: 113
6946770 AAAATTTTTT
6946780 AAAATAAGGCAATGTTTTGCGTTTGGAAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGA
1 AAAATAAGGCAATGTTTTGCGTTTGGAAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGA
6946845 TTTTTCTCATTCAACCAAATGGCTAAATATCCTTTT-AAAAAAATTTC
66 TTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAAAAATTTC
*
6946892 AAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGA
1 AAAATAAGGCAATGTTTTGCGTTTGGAAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGA
6946957 TTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAAAAATTTC
66 TTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAAAAATTTC
* * * * *
6947005 AAAATAAGGCAATGTTTTGCGTTT-GAAAATTTGAG-GAACGTACCCTAAGGTGCTGGGTTTCGA
1 AAAATAAGGCAATGTTTTGCGTTTGGAAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGA
* * * *
6947068 --TTTCTCGTTTAACCAAATAGCCAAATATCCT
66 TTTTTCTCATTCAACCAAATGGCTAAATATCCT
6947099 CTCGAATTTC
Statistics
Matches: 195, Mismatches: 11, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
109 27 0.14
111 24 0.12
112 109 0.56
113 35 0.18
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (113 bp):
AAAATAAGGCAATGTTTTGCGTTTGGAAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGA
TTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAAAAATTTC
Found at i:6947859 original size:18 final size:18
Alignment explanation
Indices: 6947825--6947859 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6947815 AATGATTGGG
*
6947825 TTGGGTTGGGTAATTAGA
1 TTGGGTTGGATAATTAGA
*
6947843 TTGGGTTGGATACTTAG
1 TTGGGTTGGATAATTAG
6947860 GTTTGGATTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.03, G:0.37, T:0.40
Consensus pattern (18 bp):
TTGGGTTGGATAATTAGA
Found at i:6952995 original size:21 final size:21
Alignment explanation
Indices: 6952961--6953004 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
6952951 ATTATTTTAG
6952961 AAATGGATTAAAATAAATAAT
1 AAATGGATTAAAATAAATAAT
*
6952982 AAATGAGATT-AAATAAATGAT
1 AAATG-GATTAAAATAAATAAT
6953003 AA
1 AA
6953005 TTCTTTTCGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.27
Consensus pattern (21 bp):
AAATGGATTAAAATAAATAAT
Found at i:6962467 original size:29 final size:31
Alignment explanation
Indices: 6962425--6962499 Score: 100
Period size: 29 Copynumber: 2.5 Consensus size: 31
6962415 TTTACATCAG
*
6962425 GTTACATTTTAGTCACTTATGTT-T-GAAAT
1 GTTACATTTTAGTCACTTACGTTATCGAAAT
* *
6962454 GTTACATTTTAGTCACTTACGTTATCGTATT
1 GTTACATTTTAGTCACTTACGTTATCGAAAT
*
6962485 GTAACATTTTAGTCA
1 GTTACATTTTAGTCA
6962500 TTAAGTTGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 22 0.55
30 1 0.03
31 17 0.43
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.47
Consensus pattern (31 bp):
GTTACATTTTAGTCACTTACGTTATCGAAAT
Found at i:6968236 original size:36 final size:35
Alignment explanation
Indices: 6968102--6968237 Score: 164
Period size: 35 Copynumber: 3.9 Consensus size: 35
6968092 AAAAAAATTA
* * *
6968102 CCTTAGACGTGTCTATCCCAACCTTTTGAAGGTTA
1 CCTTAGACGGGTCTATCCCAACCTTTTTAAGGTTG
* * *
6968137 CCTTCGACGGGTTTATCCCAACCTTTTAAAGGTTG
1 CCTTAGACGGGTCTATCCCAACCTTTTTAAGGTTG
* * *
6968172 CCTTAGACGGGTTTATCCTAACCCTTTTAAGGTTG
1 CCTTAGACGGGTCTATCCCAACCTTTTTAAGGTTG
**
6968207 CCTTAGAACCTGTCTATCCCAACCTTTTTAA
1 CCTTAG-ACGGGTCTATCCCAACCTTTTTAA
6968238 CGTCACATTT
Statistics
Matches: 86, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
35 67 0.78
36 19 0.22
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.35
Consensus pattern (35 bp):
CCTTAGACGGGTCTATCCCAACCTTTTTAAGGTTG
Found at i:6973186 original size:52 final size:52
Alignment explanation
Indices: 6973122--6973230 Score: 218
Period size: 52 Copynumber: 2.1 Consensus size: 52
6973112 TATTTCTTGA
6973122 TATTCTTAGTAGACTTATAATAAACAAGTAAGTGTGATATCTCATATCAACT
1 TATTCTTAGTAGACTTATAATAAACAAGTAAGTGTGATATCTCATATCAACT
6973174 TATTCTTAGTAGACTTATAATAAACAAGTAAGTGTGATATCTCATATCAACT
1 TATTCTTAGTAGACTTATAATAAACAAGTAAGTGTGATATCTCATATCAACT
6973226 TATTC
1 TATTC
6973231 AATTATGACC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 57 1.00
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (52 bp):
TATTCTTAGTAGACTTATAATAAACAAGTAAGTGTGATATCTCATATCAACT
Found at i:6977854 original size:18 final size:19
Alignment explanation
Indices: 6977831--6977873 Score: 63
Period size: 18 Copynumber: 2.3 Consensus size: 19
6977821 ACATATATGT
6977831 ATAATAAT-GATGAAAAT-A
1 ATAATAATAG-TGAAAATAA
6977849 ATAATAATAGTGAAAATAA
1 ATAATAATAGTGAAAATAA
6977868 ATAATA
1 ATAATA
6977874 TAATAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (19 bp):
ATAATAATAGTGAAAATAA
Found at i:6977881 original size:15 final size:17
Alignment explanation
Indices: 6977845--6977885 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
6977835 TAATGATGAA
6977845 AATAAT-AATAATAGTG
1 AATAATAAATAATAGTG
6977861 AA-AATAAATAATA-T-
1 AATAATAAATAATAGTG
6977875 AATAATAAATA
1 AATAATAAATA
6977886 TAATAGTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 2 0.09
15 12 0.52
16 9 0.39
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (17 bp):
AATAATAAATAATAGTG
Found at i:6977967 original size:3 final size:3
Alignment explanation
Indices: 6977952--6978043 Score: 50
Period size: 3 Copynumber: 31.3 Consensus size: 3
6977942 TGCTAATATG
* * ** *
6977952 AAT AAT GAT AAT AAT ACT AAT AAT AAT AAT AA- AAT ACG AAG AAGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
* * *
6977997 -AT ATAT AAT -AT AAT AAT AAT ATT AA- AAT -AC AAT AATT AAA AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT
6978040 AAT A
1 AAT A
6978044 TTATATATAA
Statistics
Matches: 67, Mismatches: 14, Indels: 16
0.69 0.14 0.16
Matches are distributed among these distances:
2 8 0.12
3 53 0.79
4 6 0.09
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:6978056 original size:26 final size:26
Alignment explanation
Indices: 6977996--6978060 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
6977986 TACGAAGAAG
* *
6977996 TATATATAATATAATAATAATATTAA
1 TATAAATAATATAAAAATAATATTAA
*
6978022 AATACAATAAT-TAAAAATAATATTATA
1 TATA-AATAATATAAAAATAATATTA-A
6978049 TATAAAT-ATATA
1 TATAAATAATATA
6978061 CAATATTCAC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
25 2 0.06
26 21 0.66
27 9 0.28
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (26 bp):
TATAAATAATATAAAAATAATATTAA
Found at i:6980063 original size:73 final size:72
Alignment explanation
Indices: 6979910--6980104 Score: 288
Period size: 73 Copynumber: 2.7 Consensus size: 72
6979900 AACATGTGAA
* * *
6979910 CTGAGGCTCAACTCACTTT-TCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACC
1 CTGAGGCTCAACTCA-TTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAAATACC
*
6979974 TCAGCGTGTC
63 TCAACGTGTC
6979984 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTC
1 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAAATACCTC
6980049 AACGTGTC
65 AACGTGTC
*
6980057 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-A-TTTGAAAACAGAA
1 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAA
6980105 TATGAGTTGA
Statistics
Matches: 114, Mismatches: 5, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
70 5 0.04
71 8 0.07
72 9 0.08
73 61 0.54
74 31 0.27
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (72 bp):
CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCA
ACGTGTC
Found at i:6980743 original size:71 final size:72
Alignment explanation
Indices: 6980514--6980871 Score: 391
Period size: 77 Copynumber: 4.8 Consensus size: 72
6980504 AGTGTGTAAT
* *
6980514 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAAAACAGAAATTGAAAATAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTT--GAAAACAGAAATTGAAAATAC
*
6980579 CTCAGCATGTGAAC
62 CTCAGC--GTG-TC
*
6980593 C-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTGAAAACAGAAATTGAAAATACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGAAAACAGAAATTGAAAATACC
*
6980657 TCAACGTGTC
63 TCAGCGTGTC
* ** * *
6980667 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGA-TTTTGAAAACAGAAATTGAAATTACCTCA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAATACCTCA
6980731 GCGTGTC
66 GCGTGTC
** * * *
6980738 CTGAGGCTCAACTCATTTCTTGCAATATGAGTTGATTTTTTTTTTAACAACAGAAATTGAAATTA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTGAA-AACAGAAATTGAAAATA
6980803 CCTCAGCGTGTC
61 CCTCAGCGTGTC
* *
6980815 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACAAAAATT-AAAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTGAAAA
6980872 GGCTTAACTC
Statistics
Matches: 250, Mismatches: 20, Indels: 26
0.84 0.07 0.09
Matches are distributed among these distances:
71 69 0.28
72 13 0.05
73 2 0.01
74 1 0.00
75 34 0.14
76 6 0.02
77 86 0.34
78 31 0.12
79 8 0.03
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (72 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAATACCTCA
GCGTGTC
Found at i:6980792 original size:148 final size:148
Alignment explanation
Indices: 6980514--6980871 Score: 445
Period size: 148 Copynumber: 2.4 Consensus size: 148
6980504 AGTGTGTAAT
* * * *
6980514 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAAAACAGAAATTGAAAATAC
1 CTGAGGCTCAACTCACCTCTAGCAATATAAGTTGA---TTTT-GAAAAACAGAAATTGAAAATAC
6980579 CTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTGAAAACAGA
62 CTCAGCA-GTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTGAAAACAGA
6980644 AATTGAAAATACCTCAACGTGTC
126 AATTGAAAATACCTCAACGTGTC
* ** * *
6980667 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGATTTTG-AAAACAGAAATTGAAATTACCTCA
1 CTGAGGCTCAACTCACCTCTAGCAATATAAGTTGATTTTGAAAAACAGAAATTGAAAATACCTCA
* ** * * *
6980731 GC-GTG-TCCTGAGGCTCAACTCATTTCTTGCAATATGAGTTGATTTTTTTTTTAACAACAGAAA
66 GCAGTGAACC-GAGGCTCAACTCACCTCTCGCAATATAAGTTGA-TTTTTTTTGAA-AACAGAAA
* *
6980794 TTGAAATTACCTCAGCGTGTC
128 TTGAAAATACCTCAACGTGTC
* *
6980815 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATT-AAAA
1 CTGAGGCTCAACTCACCTCTAGCAATATAAGTTGATTTTGAAAAACAGAAATTGAAAA
6980872 GGCTTAACTC
Statistics
Matches: 179, Mismatches: 22, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
145 2 0.01
146 32 0.18
147 10 0.06
148 90 0.50
149 11 0.06
150 4 0.02
153 30 0.17
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (148 bp):
CTGAGGCTCAACTCACCTCTAGCAATATAAGTTGATTTTGAAAAACAGAAATTGAAAATACCTCA
GCAGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTGAAAACAGAAATTG
AAAATACCTCAACGTGTC
Found at i:6981021 original size:72 final size:70
Alignment explanation
Indices: 6980870--6981047 Score: 198
Period size: 72 Copynumber: 2.5 Consensus size: 70
6980860 CAAAAATTAA
* * * * * * **
6980870 AAGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCGGCGT
1 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAAAAAAAACTAAAAATACCTCAACGT
6980934 GCCCC
66 GCCCC
*
6980939 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAGAAAAAAAATTAAAAATACCTCAAC
1 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AA-AAAAAAAACTAAAAATACCTCAAC
* **
6981004 GTGTCTT
64 GTGCCCC
*
6981011 GAGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTT
1 AAGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
6981048 CCTTGGAAAG
Statistics
Matches: 92, Mismatches: 13, Indels: 5
0.84 0.12 0.05
Matches are distributed among these distances:
69 27 0.29
70 5 0.05
71 3 0.03
72 57 0.62
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (70 bp):
AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAAAAAAAACTAAAAATACCTCAACGT
GCCCC
Found at i:6988262 original size:27 final size:27
Alignment explanation
Indices: 6988187--6988262 Score: 66
Period size: 27 Copynumber: 2.8 Consensus size: 27
6988177 TGCCAGACTT
* *
6988187 TATAAAAGAAGAAAAAAAGGAAAAATTA
1 TATAAAAGAA-AAAAAAAAGAGAAATTA
* *
6988215 TATAAAA-ATAAATAAAGAGAGAAA-TA
1 TATAAAAGA-AAAAAAAAAGAGAAATTA
*
6988241 GTGTAAAAGAAAAAAAAAAGAG
1 -TATAAAAGAAAAAAAAAAGAG
6988263 GAGAAGAATT
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
26 2 0.05
27 27 0.71
28 9 0.24
ACGTcount: A:0.70, C:0.00, G:0.16, T:0.14
Consensus pattern (27 bp):
TATAAAAGAAAAAAAAAAGAGAAATTA
Found at i:6990568 original size:4 final size:4
Alignment explanation
Indices: 6990559--6990585 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
6990549 TTCAAACTGG
6990559 TTTC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTT
6990586 GCTGGTTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTC
Found at i:6994047 original size:113 final size:112
Alignment explanation
Indices: 6993905--6994276 Score: 584
Period size: 113 Copynumber: 3.3 Consensus size: 112
6993895 AAAATAAGCA
* * * * *
6993905 TTAGCGGCGTTTATTTGAAAGCGCCGCAAAAAGCCTAAGCCAAACGGCACTG-TTTCTGAGTTTT
1 TTAGCGGCGTTTTTTTAAAAGCGCCGCAAAAAGCCTAAGCCCAACGACACCGTTTTCTGAGTTTT
6993969 TGGGGCTCTTTAGCGGCGTTTCTATACAGCGCCGCTAATTCTCAGGTCT
66 TGGGG-TCTTTAGCGGCGTTTCTATA-AGCGCCGCTAATTCTCAGGTCT
* *
6994018 TTAGCAGTGTTTTTTTAAAAGCGCCGCAAAAAGCCTAAGCCCAACGACACCGTTTTCTGAGTTTT
1 TTAGCGGCGTTTTTTTAAAAGCGCCGCAAAAAGCCTAAGCCCAACGACACCGTTTTCTGAGTTTT
*
6994083 TGGGGTCTTTAGCGGCGTTTCTGTAATGCGCCGCTAATTCTCAGGTCT
66 TGGGGTCTTTAGCGGCGTTTCTATAA-GCGCCGCTAATTCTCAGGTCT
* *
6994131 TTAGCGGCGTTTTTCTAAAAGCGCCGCAAAAAGCCTAAGCCCGACGACACCGTTTTCTGAGTTTT
1 TTAGCGGCGTTTTTTTAAAAGCGCCGCAAAAAGCCTAAGCCCAACGACACCGTTTTCTGAGTTTT
*
6994196 TGGGGTCTTTAGCGGCGTTTCTGAATAAGCGCCGCTAATGCTCAGGTCT
66 TGGGGTCTTTAGCGGCGTTTCT--ATAAGCGCCGCTAATTCTCAGGTCT
*
6994245 TTAGCGGCGTTTTTTAAAAAGCGCCGCAAAAA
1 TTAGCGGCGTTTTTTTAAAAGCGCCGCAAAAA
6994277 CATTTTATCT
Statistics
Matches: 239, Mismatches: 16, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
112 1 0.00
113 168 0.70
114 67 0.28
115 3 0.01
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.30
Consensus pattern (112 bp):
TTAGCGGCGTTTTTTTAAAAGCGCCGCAAAAAGCCTAAGCCCAACGACACCGTTTTCTGAGTTTT
TGGGGTCTTTAGCGGCGTTTCTATAAGCGCCGCTAATTCTCAGGTCT
Found at i:6994416 original size:26 final size:26
Alignment explanation
Indices: 6994368--6994418 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
6994358 AAAATGAATA
** * *
6994368 AATTTGAAATAATGACACGTAGAAAT
1 AATTTGAAATAAAAAAACATAGAAAT
6994394 AATTTGAAATAAAAAAACATAGAAA
1 AATTTGAAATAAAAAAACATAGAAA
6994419 AATATTTGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.59, C:0.06, G:0.12, T:0.24
Consensus pattern (26 bp):
AATTTGAAATAAAAAAACATAGAAAT
Found at i:6994842 original size:14 final size:14
Alignment explanation
Indices: 6994817--6994849 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
6994807 ATTAAATAAT
6994817 GTTTAGGGGTTAGG
1 GTTTAGGGGTTAGG
6994831 GATTTA-GGGTTAGG
1 G-TTTAGGGGTTAGG
6994845 GTTTA
1 GTTTA
6994850 TGATTTAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.22
14 10 0.56
15 4 0.22
ACGTcount: A:0.18, C:0.00, G:0.42, T:0.39
Consensus pattern (14 bp):
GTTTAGGGGTTAGG
Found at i:6994885 original size:82 final size:81
Alignment explanation
Indices: 6994791--6995088 Score: 354
Period size: 91 Copynumber: 3.6 Consensus size: 81
6994781 GTAATATATA
* *
6994791 TTTTAAATTATATAATATTAAATAATGTTTAGGGGTTAGGGATTT-AG-G-GTTAGGGTTTATGA
1 TTTTTAATTATAT-ATATTAAATAATGTTTAGGGGTTAGGGATTTGAGCGAGTTAGGGTTTAGGA
6994853 TTTAGATTAATTAGTGT
65 TTTAGATTAATTAGTGT
* *
6994870 TTTTTAATT-TATATATTAAATAATGTTTAGGGGTTAGTGATTTGGGGTCGAGTTAGGGTTTAGG
1 TTTTTAATTATATATATTAAATAATGTTTAGGGGTTAGGGATTT-GAG-CGAGTTAGGGTTTAGG
6994934 ATTTAGATTAATTAGTGT
64 ATTTAGATTAATTAGTGT
* * *
6994952 TTTTTAATTTATATATATTAAATAATGTTTAGGAGTTTGGGGTTAGTGATTCGGGGTCGAGTTAG
1 TTTTTAA-TTATATATATTAAATAATGTTT---A----GGGGTTAGGGATT-TGAG-CGAGTTAG
*
6995017 GGTTTAGGATTTAGATTAATTAGTGG
56 GGTTTAGGATTTAGATTAATTAGTGT
* *
6995043 TTTTTAATT-TATATATTAAATAATGTTTAGGGTTTAGGGGTTTGAG
1 TTTTTAATTATATATATTAAATAATGTTTAGGGGTTAGGGATTTGAG
6995089 GTTTGGGGTT
Statistics
Matches: 193, Mismatches: 11, Indels: 28
0.83 0.05 0.12
Matches are distributed among these distances:
77 30 0.16
78 3 0.02
79 9 0.05
81 3 0.02
82 47 0.24
83 2 0.01
84 19 0.10
86 1 0.01
87 1 0.01
89 19 0.10
90 2 0.01
91 57 0.30
ACGTcount: A:0.28, C:0.01, G:0.25, T:0.46
Consensus pattern (81 bp):
TTTTTAATTATATATATTAAATAATGTTTAGGGGTTAGGGATTTGAGCGAGTTAGGGTTTAGGAT
TTAGATTAATTAGTGT
Found at i:6995141 original size:17 final size:18
Alignment explanation
Indices: 6995119--6995157 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
6995109 AGTTAGTGAT
6995119 TTAAGGTTT-AGATCAGA
1 TTAAGGTTTAAGATCAGA
*
6995136 TTAAGGTTTAAGCTCAGA
1 TTAAGGTTTAAGATCAGA
6995154 TTAA
1 TTAA
6995158 TTAGTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.36
Consensus pattern (18 bp):
TTAAGGTTTAAGATCAGA
Found at i:6995490 original size:9 final size:9
Alignment explanation
Indices: 6995466--6995496 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
6995456 AATTTGGACC
6995466 AAAATATAA
1 AAAATATAA
6995475 GAAAATATAA
1 -AAAATATAA
6995485 AAAATATAA
1 AAAATATAA
6995494 AAA
1 AAA
6995497 GGAAATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (9 bp):
AAAATATAA
Found at i:6997257 original size:22 final size:22
Alignment explanation
Indices: 6997229--6997274 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
6997219 AACTTTGTTA
*
6997229 ATTAATATTATACATAACTTAC
1 ATTAATATTATACATAAATTAC
*
6997251 ATTAATATTATACTTAAATTAC
1 ATTAATATTATACATAAATTAC
6997273 AT
1 AT
6997275 AAGTTAGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (22 bp):
ATTAATATTATACATAAATTAC
Found at i:6997309 original size:9 final size:9
Alignment explanation
Indices: 6997295--6997333 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
6997285 ATTAATATTA
6997295 TACATAACT
1 TACATAACT
6997304 TACATAACT
1 TACATAACT
6997313 TAC--AACT
1 TACATAACT
6997320 TACATAACT
1 TACATAACT
6997329 TACAT
1 TACAT
6997334 TAATATTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 7 0.25
9 21 0.75
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.33
Consensus pattern (9 bp):
TACATAACT
Found at i:6997321 original size:16 final size:16
Alignment explanation
Indices: 6997300--6997332 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
6997290 TATTATACAT
6997300 AACTTACATAACTTAC
1 AACTTACATAACTTAC
6997316 AACTTACATAACTTAC
1 AACTTACATAACTTAC
6997332 A
1 A
6997333 TTAATATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.30
Consensus pattern (16 bp):
AACTTACATAACTTAC
Found at i:6997339 original size:81 final size:82
Alignment explanation
Indices: 6997239--6997500 Score: 318
Period size: 81 Copynumber: 3.2 Consensus size: 82
6997229 ATTAATATTA
6997239 TACATAACTTACATTAATATTATACTTAAATTACATAAGTTAGTTAATTAATATTATACATAACT
1 TACATAACTTACATTAATATTATACTTAAATTACATAAGTTAGTTAATTAATATTATACATAACT
6997304 TACATAACTTA-CAACT
66 TACATAACTTATCAACT
6997320 TACATAACTTACATTAATATTATACTTAAATTACATAAGTTAGTTAATTAATATTATACAGT-AC
1 TACATAACTTACATTAATATTATACTTAAATTACATAAGTTAGTTAATTAATATTATACA-TAAC
*
6997384 TTGGC-TAACTTA-CAACT
65 TT-ACATAACTTATCAACT
** * * * * * * *
6997401 TACATAACTTACATTTTTTTAATTATTCGTAAATTACATAACTTACTTAATT-TTCATAATAAAT
1 TACATAACTTACA--TTAAT-ATTATACTTAAATTACATAAGTTAGTTAATTAAT-ATTATACAT
**
6997465 AACTTACATAACTTATGTGACT
62 AACTTACATAACTTAT-CAACT
6997487 TACATAACTTACAT
1 TACATAACTTACAT
6997501 AGCATAATTT
Statistics
Matches: 158, Mismatches: 13, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
81 89 0.56
82 2 0.01
83 6 0.04
84 45 0.28
86 16 0.10
ACGTcount: A:0.41, C:0.14, G:0.04, T:0.41
Consensus pattern (82 bp):
TACATAACTTACATTAATATTATACTTAAATTACATAAGTTAGTTAATTAATATTATACATAACT
TACATAACTTATCAACT
Found at i:6997475 original size:9 final size:9
Alignment explanation
Indices: 6997434--6997501 Score: 59
Period size: 9 Copynumber: 7.8 Consensus size: 9
6997424 TATTCGTAAA
6997434 TTACATAAC
1 TTACATAAC
* *
6997443 TTACTTAAT
1 TTACATAAC
*
6997452 TTTCATAA-
1 TTACATAAC
*
6997460 -TAAATAAC
1 TTACATAAC
6997468 TTACATAAC
1 TTACATAAC
** *
6997477 TTATGTGAC
1 TTACATAAC
6997486 TTACATAAC
1 TTACATAAC
6997495 TTACATA
1 TTACATA
6997502 GCATAATTTT
Statistics
Matches: 44, Mismatches: 13, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
7 5 0.11
9 39 0.89
ACGTcount: A:0.41, C:0.16, G:0.03, T:0.40
Consensus pattern (9 bp):
TTACATAAC
Found at i:6997532 original size:25 final size:25
Alignment explanation
Indices: 6997503--6997559 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
6997493 ACTTACATAG
* *
6997503 CATAATTTTCATAATACACAACTTA
1 CATAATTTGCATAATAAACAACTTA
** *
6997528 CATAATTTGGGTAATAAATAACTTA
1 CATAATTTGCATAATAAACAACTTA
6997553 CATAATT
1 CATAATT
6997560 AGGAAATACT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.44, C:0.14, G:0.05, T:0.37
Consensus pattern (25 bp):
CATAATTTGCATAATAAACAACTTA
Found at i:7003110 original size:66 final size:65
Alignment explanation
Indices: 7003003--7003173 Score: 209
Period size: 66 Copynumber: 2.6 Consensus size: 65
7002993 GAGCAAATTA
* * * *
7003003 CACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCA
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCA
7003067 G
65 G
* *
7003068 CTACAACTGAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCA
7003133 G
65 G
* * * * *
7003134 CAGCAGCTTAAAGCAGATACGGCAGCAAGAGAAGCAGAGG
1 CA-CAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGG
7003174 CGGCAGCGAG
Statistics
Matches: 91, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
65 2 0.02
66 85 0.93
67 4 0.04
ACGTcount: A:0.41, C:0.19, G:0.27, T:0.12
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAG
Found at i:7003170 original size:21 final size:21
Alignment explanation
Indices: 7003144--7003188 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
7003134 CAGCAGCTTA
*
7003144 AAGCAGATACGGCAGCAAGAG
1 AAGCAGAGACGGCAGCAAGAG
* *
7003165 AAGCAGAGGCGGCAGCGAGAG
1 AAGCAGAGACGGCAGCAAGAG
7003186 AAG
1 AAG
7003189 TACAGGCTGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.18, G:0.40, T:0.02
Consensus pattern (21 bp):
AAGCAGAGACGGCAGCAAGAG
Found at i:7003195 original size:21 final size:21
Alignment explanation
Indices: 7003153--7003211 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
7003143 AAAGCAGATA
* *
7003153 CGGCAGCAAGAGAAGCAGAGG
1 CGGCAGCGAGAGAAGCACAGG
*
7003174 CGGCAGCGAGAGAAGTACAGG
1 CGGCAGCGAGAGAAGCACAGG
* *
7003195 CTGCAGCGAGGGAAGCA
1 CGGCAGCGAGAGAAGCA
7003212 GAGCAGCGTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.34, C:0.20, G:0.42, T:0.03
Consensus pattern (21 bp):
CGGCAGCGAGAGAAGCACAGG
Found at i:7003588 original size:43 final size:42
Alignment explanation
Indices: 7003522--7003835 Score: 200
Period size: 43 Copynumber: 7.3 Consensus size: 42
7003512 ATCTACCAAA
* **
7003522 TTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAAGGTC
1 TTTAGTGGCGTTTGTGGAAAAAGCGCCGCTAAAGAT-AAGGTC
* * *
7003565 TTTAGTGGCATTTGTGGAAAAAGCGCCACTAAAGATCATGGTC
1 TTTAGTGGCGTTTGTGGAAAAAGCGCCGCTAAAGAT-AAGGTC
* ** *
7003608 TTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGATTAGGTTC
1 TTTAGTGGCGTTTGTGGAAAAAGCGCCGCTAAAGATAAGG-TC
*** * * *
7003651 TTTAGTGGCGTTTGTGGTCGAAGTGCCGCTATAGATCAGGGT-
1 TTTAGTGGCGTTTGTGGAAAAAGCGCCGCTAAAGAT-AAGGTC
* * * ** *
7003693 TTATTGCGGCGTTTGAGGGGAAAGCGCCGCTAAAGATTAGGTTC
1 TT-TAGTGGCGTTTGTGGAAAAAGCGCCGCTAAAGATAAGG-TC
* * ** * * *
7003737 TTTCGTGGCGTTTGTAGTCAAAGCACCGCTATAGATTAGGGTC
1 TTTAGTGGCGTTTGTGGAAAAAGCGCCGCTAAAGA-TAAGGTC
** * * * * *
7003780 TATT-GCAGCGTTTGAGAAAAAAACACCGCTAAAGATTAGGGTC
1 T-TTAGTGGCGTTTGTGGAAAAAGCGCCGCTAAAGA-TAAGGTC
*
7003823 TTTAGCGGCGTTT
1 TTTAGTGGCGTTT
7003836 CCACTAAAGC
Statistics
Matches: 211, Mismatches: 52, Indels: 16
0.76 0.19 0.06
Matches are distributed among these distances:
42 8 0.04
43 194 0.92
44 9 0.04
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (42 bp):
TTTAGTGGCGTTTGTGGAAAAAGCGCCGCTAAAGATAAGGTC
Found at i:7003760 original size:129 final size:129
Alignment explanation
Indices: 7003522--7003776 Score: 289
Period size: 129 Copynumber: 2.0 Consensus size: 129
7003512 ATCTACCAAA
* * *
7003522 TTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAAGGTCTTTAGTGGCATTTGTGGAAAAA
1 TTTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGATAAAGGTCTTTAGCGGCATTTGAGGAAAAA
* * *
7003587 GCGCCACTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGATTAGGTTC
66 GCGCCACTAAAGATCATGGTCTTTAGCGGCGTTTGTAGGCAAAGCACCGCTAAAGATTAGGTTC
* * * * * * * **
7003651 TTTAGTGGCGTTTGTGGTCGAAGTGCCGCTATAGATCAGGGT-TTATTGCGGCGTTTGAGGGGAA
1 TTTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGATAAAGGTCTT-TAGCGGCATTTGAGGAAAA
* * * * * *
7003715 AGCGCCGCTAAAGATTA-GGTTCTTTCGTGGCGTTTGTAGTCAAAGCACCGCTATAGATTAGG
65 AGCGCCACTAAAGATCATGG-TCTTTAGCGGCGTTTGTAGGCAAAGCACCGCTAAAGATTAGG
7003777 GTCTATTGCA
Statistics
Matches: 103, Mismatches: 21, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
128 4 0.04
129 99 0.96
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.30
Consensus pattern (129 bp):
TTTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGATAAAGGTCTTTAGCGGCATTTGAGGAAAAA
GCGCCACTAAAGATCATGGTCTTTAGCGGCGTTTGTAGGCAAAGCACCGCTAAAGATTAGGTTC
Found at i:7003766 original size:86 final size:86
Alignment explanation
Indices: 7003541--7003835 Score: 342
Period size: 86 Copynumber: 3.4 Consensus size: 86
7003531 GTTTTTGGTC
* * ** * * *
7003541 AAAGCGCCGCTAAAGATAAAGG-TCTTTAGTGGCATTTGTGGAAAAAGCGCCACTAAAGATCATG
1 AAAGCGCCGCTAAAGAT-TAGGTTCTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGG
* *
7003605 GTCTT-TAGCGGCGTTTGTGGGG
65 GT-TTATTGCGGCGTTTGAGGGG
* *
7003627 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCGAAGTGCCGCTATAGATCAGGG
1 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGG
7003692 TTTATTGCGGCGTTTGAGGGG
66 TTTATTGCGGCGTTTGAGGGG
* * * *
7003713 AAAGCGCCGCTAAAGATTAGGTTCTTTCGTGGCGTTTGTAGTCAAAGCACCGCTATAGATTAGGG
1 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGG
* * ***
7003778 TCTATTGCAGCGTTTGAGAAA
66 TTTATTGCGGCGTTTGAGGGG
* * * *
7003799 AAAACACCGCTAAAGATTAGGGTCTTTAGCGGCGTTT
1 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTT
7003836 CCACTAAAGC
Statistics
Matches: 180, Mismatches: 27, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
85 5 0.03
86 175 0.97
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (86 bp):
AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGG
TTTATTGCGGCGTTTGAGGGG
Found at i:7004042 original size:22 final size:22
Alignment explanation
Indices: 7004014--7004056 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
7004004 CTGCGGCGCT
*
7004014 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
7004036 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
7004057 GTTTTGGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.28, G:0.21, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:7005425 original size:6 final size:6
Alignment explanation
Indices: 7005414--7005439 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
7005404 AAAGCCTTTG
7005414 AATAAA AATAAA AATAAA AATAAA AA
1 AATAAA AATAAA AATAAA AATAAA AA
7005440 AAATGATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AATAAA
Found at i:7006655 original size:20 final size:21
Alignment explanation
Indices: 7006632--7006670 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7006622 AAAAAAAAAC
*
7006632 AAAAAC-AAAGTAAAAACAGT
1 AAAAACAAAAGGAAAAACAGT
7006652 AAAAACAAAAGGAAAAACA
1 AAAAACAAAAGGAAAAACA
7006671 AAATCTATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.74, C:0.10, G:0.10, T:0.05
Consensus pattern (21 bp):
AAAAACAAAAGGAAAAACAGT
Found at i:7013955 original size:37 final size:36
Alignment explanation
Indices: 7013794--7013961 Score: 110
Period size: 37 Copynumber: 4.4 Consensus size: 36
7013784 ATATGTTGTT
* *
7013794 TAATTTTT-ATATTTTTTAAATATTTCACAATTCCTAA
1 TAATTTTTAAT-TTTTTTAAA-ATTTTACAATTTCTAA
*
7013831 TAATATTTTAAAGTTTTTTTTATAATTTTTA-ATATTGTCTAA
1 TAAT-TTTT-AA--TTTTTTTA-AAATTTTACA-ATT-TCTAA
* * ** *
7013873 TACTTTTTTTATTTTCCTAAATTTTTAATCAATTTCT--
1 TA-ATTTTTAATTTTTTTAAAATTTT-A-CAATTTCTAA
*
7013910 TAAATTTTAATTTTTTTAAAATTTTACAATCTTCTAA
1 TAATTTTTAATTTTTTTAAAATTTTACAAT-TTCTAA
7013947 TAATTTTTAATTTTT
1 TAATTTTTAATTTTT
7013962 ATATTTTAGA
Statistics
Matches: 102, Mismatches: 14, Indels: 30
0.70 0.10 0.21
Matches are distributed among these distances:
34 4 0.04
35 5 0.05
36 17 0.17
37 20 0.20
38 11 0.11
39 10 0.10
40 5 0.05
41 16 0.16
42 13 0.13
43 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.01, T:0.59
Consensus pattern (36 bp):
TAATTTTTAATTTTTTTAAAATTTTACAATTTCTAA
Found at i:7014674 original size:34 final size:32
Alignment explanation
Indices: 7014636--7014763 Score: 150
Period size: 34 Copynumber: 3.8 Consensus size: 32
7014626 TTTTAAAAAA
*
7014636 TAAATTAGGGTTTAGTGTTTTTTTAAAAATTAAT
1 TAAATTAGGGTTTAG-G-TTTTTAAAAAATTAAT
* * *
7014670 TAAATTAGGTTTTAGGGGTTTTAAATAAATTATT
1 TAAATTAGGGTTTA-GGTTTTTAAA-AAATTAAT
7014704 TAAATTAGGGTTTAGAGTTTTTAAGAAAATTAAT
1 TAAATTAGGGTTTAG-GTTTTTAA-AAAATTAAT
*
7014738 TAAATTAGGGTTTA-TTTTTTAAAAAA
1 TAAATTAGGGTTTAGGTTTTTAAAAAA
7014764 ATAACTTTGT
Statistics
Matches: 82, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
31 4 0.05
32 7 0.09
33 7 0.09
34 62 0.76
35 2 0.02
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.46
Consensus pattern (32 bp):
TAAATTAGGGTTTAGGTTTTTAAAAAATTAAT
Found at i:7015340 original size:126 final size:126
Alignment explanation
Indices: 7014819--7015341 Score: 715
Period size: 126 Copynumber: 4.2 Consensus size: 126
7014809 AATAAGGATT
* * *
7014819 TTTTTCTATAGTAGTTCCTAAAAAAATAATTTTGAGAAAACGATTCTGAATAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAAACGATTCTGAACAAATAGTGTCAAAA
* * * * * *
7014884 ACGCTTCAAGTAGGATGCATTGTCAGCAAAATTGATGAAAAAAGCTCCCACATGGACGCTTT
66 ACACTTCAAGCAGGATGCACTGTCAACAAAATTGATGAAAAAAGCTCCCACGTGGACGC-TC
* *
7014946 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAAACGGTTCTGAACAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAAACGATTCTGAACAAATAGTGTCAAAA
* * * * * *
7015011 ACGCTTCAAGCAGGATGCACTGTTAACAAAATTGATG-TAAAAGCTCCTAGGTGGATGCTC
66 ACACTTCAAGCAGGATGCACTGTCAACAAAATTGATGAAAAAAGCTCCCACGTGGACGCTC
* * * * * * *
7015071 TTTTTCTACAGTAGTTCTTGAAAAAATGATTTTGAGAAGATGGTTCTGAACAAATAATATCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAAACGATTCTGAACAAATAGTGTCAAAA
* * * * *
7015136 ACACTTCAAGCAGGATGCACTATCAGCAAAATTGATGAAAAAAGCTCTCATGTGGACGCTT
66 ACACTTCAAGCAGGATGCACTGTCAACAAAATTGATGAAAAAAGCTCCCACGTGGACGCTC
* *
7015197 TTTTTCTACAGTAGTTCCTGAAAAAATGATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAAACGATTCTGAACAAATAGTGTCAAAA
* * *
7015262 ATACTTCAAGCAGGATGCATTGTCAACAAAATTGATGAAAAAAGCTCCCACGTGGGCGCTC
66 ACACTTCAAGCAGGATGCACTGTCAACAAAATTGATGAAAAAAGCTCCCACGTGGACGCTC
*
7015323 TTTTTCTAAAGTAGTTCCT
1 TTTTTCTACAGTAGTTCCT
7015342 ATTTGGCCTT
Statistics
Matches: 351, Mismatches: 44, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
125 94 0.27
126 164 0.47
127 93 0.26
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.30
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAAACGATTCTGAACAAATAGTGTCAAAA
ACACTTCAAGCAGGATGCACTGTCAACAAAATTGATGAAAAAAGCTCCCACGTGGACGCTC
Found at i:7017168 original size:18 final size:18
Alignment explanation
Indices: 7017142--7017184 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
7017132 AACTGGAAAA
* * *
7017142 AGGAAACATATAAGGGTT
1 AGGATACATATAAGAGCT
7017160 AGGATACATATAAGAGCT
1 AGGATACATATAAGAGCT
7017178 AGGATAC
1 AGGATAC
7017185 GCACTTGGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.26, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGAGCT
Found at i:7018973 original size:30 final size:30
Alignment explanation
Indices: 7018939--7019003 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
7018929 ATTCATTAAA
7018939 GAGAGCTTTGAGAAATTTAAGGAGAAATTT
1 GAGAGCTTTGAGAAATTTAAGGAGAAATTT
*
7018969 GAGAGCTTTGAGAAATTTAGGGAGAAATTT
1 GAGAGCTTTGAGAAATTTAAGGAGAAATTT
7018999 GAGAG
1 GAGAG
7019004 TTTTTTGCCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.38, C:0.03, G:0.31, T:0.28
Consensus pattern (30 bp):
GAGAGCTTTGAGAAATTTAAGGAGAAATTT
Found at i:7021668 original size:22 final size:22
Alignment explanation
Indices: 7021638--7021680 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
7021628 ACACCAAAAC
* *
7021638 AGGCTTTTAGCGGTGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
7021660 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
7021681 AGCGCCGCAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.19, G:0.28, T:0.44
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:7021888 original size:86 final size:86
Alignment explanation
Indices: 7021782--7022011 Score: 273
Period size: 86 Copynumber: 2.7 Consensus size: 86
7021772 GTTTTTCTCT
* * ** *
7021782 CAAACGCCACGAAAGAACCTAATCTTTAGCGGCGTTTTCCCCTTAAACGCCGC-AATAGACCCTG
1 CAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCACAAACGCCGCTAA-AGACCATG
7021846 ATCTATAGCGGCGCTTCGACCA
65 ATCTATAGCGGCGCTTCGACCA
7021868 CAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCACAAACGCCGCTAAAGACCATGA
1 CAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCACAAACGCCGCTAAAGACCATGA
* * ***
7021933 TCTTTAGTGGCGCTTTTTCCA
66 TCTATAGCGGCGCTTCGACCA
* * * * * ** * *
7021954 CAAACGCCGCTAAAGACCCTTATCTTTAGCAGCACTTTGACCAAAAACGCCACTAAAG
1 CAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCACAAACGCCGCTAAAG
7022012 GCCAACACCT
Statistics
Matches: 124, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
86 122 0.98
87 2 0.02
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.22
Consensus pattern (86 bp):
CAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCACAAACGCCGCTAAAGACCATGA
TCTATAGCGGCGCTTCGACCA
Found at i:7022002 original size:43 final size:43
Alignment explanation
Indices: 7021782--7022011 Score: 219
Period size: 43 Copynumber: 5.3 Consensus size: 43
7021772 GTTTTTCTCT
* * * * * ** *
7021782 CAAACGCCACGAAAGAACCTAATCTTTAGCGGCGTTTTCCCCT
1 CAAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTGACCA
* * *
7021825 TAAACGCCGC-AATAGACCCTGATCTATAGCGGCGCTTCGACCA
1 CAAACGCCGCTAA-AGACCCTGATCTTTAGCGGCGCTTTGACCA
* * * **
7021868 CAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCA
1 CAAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTGACCA
* * **
7021911 CAAACGCCGCTAAAGACCATGATCTTTAGTGGCGCTTTTTCCA
1 CAAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTGACCA
* * *
7021954 CAAACGCCGCTAAAGACCCTTATCTTTAGCAGCACTTTGACCA
1 CAAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTGACCA
* *
7021997 AAAACGCCACTAAAG
1 CAAACGCCGCTAAAG
7022012 GCCAACACCT
Statistics
Matches: 151, Mismatches: 34, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
42 2 0.01
43 147 0.97
44 2 0.01
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.22
Consensus pattern (43 bp):
CAAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTGACCA
Found at i:7022024 original size:86 final size:86
Alignment explanation
Indices: 7021865--7022036 Score: 218
Period size: 86 Copynumber: 2.0 Consensus size: 86
7021855 GGCGCTTCGA
* * * * *
7021865 CCACAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCACAAACGCCGCTAAAGACCA
1 CCACAAACGCCACTAAAGAACCTAATCTTTAGCAGCACTTTCACCAAAAACGCCACTAAAGACCA
** *
7021930 TGATCTTTAGTGGCGCTTTTT
66 ACACCTTTAGTGGCGCTTTTT
* * * * *
7021951 CCACAAACGCCGCTAAAGACCCTTATCTTTAGCAGCACTTTGACCAAAAACGCCACTAAAGGCCA
1 CCACAAACGCCACTAAAGAACCTAATCTTTAGCAGCACTTTCACCAAAAACGCCACTAAAGACCA
*
7022016 ACACCTTTAGTGGCGTTTTTT
66 ACACCTTTAGTGGCGCTTTTT
7022037 TAAAAAACGC
Statistics
Matches: 72, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
86 72 1.00
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (86 bp):
CCACAAACGCCACTAAAGAACCTAATCTTTAGCAGCACTTTCACCAAAAACGCCACTAAAGACCA
ACACCTTTAGTGGCGCTTTTT
Found at i:7022432 original size:21 final size:21
Alignment explanation
Indices: 7022361--7022452 Score: 82
Period size: 21 Copynumber: 4.4 Consensus size: 21
7022351 TTTGACGCTG
7022361 CTCTGCTT-TCCTCGCTG-CAGC
1 CTCTGCTTCT-CTCGCTGTC-GC
* *
7022382 CTCTGCTTCCCTCGCTGCCGC
1 CTCTGCTTCTCTCGCTGTCGC
* *
7022403 CTGTACTTCTCTCGCTGTCGC
1 CTCTGCTTCTCTCGCTGTCGC
*
7022424 CTCTGCTTCTCTTGCT-TCCGC
1 CTCTGCTTCTCTCGCTGT-CGC
*
7022445 ATCTGCTT
1 CTCTGCTT
7022453 TAAGCTGCTA
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
20 1 0.02
21 57 0.97
22 1 0.02
ACGTcount: A:0.03, C:0.42, G:0.17, T:0.37
Consensus pattern (21 bp):
CTCTGCTTCTCTCGCTGTCGC
Found at i:7022513 original size:66 final size:66
Alignment explanation
Indices: 7022423--7022588 Score: 201
Period size: 66 Copynumber: 2.5 Consensus size: 66
7022413 CTCGCTGTCG
* * * *
7022423 CCTCTGCTTCTCTTGCTTCCGCATCTGCTTTAAGCTGCTA-CTGGAGTTCTTCATA-CTTTCGTT
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTT
7022486 GAA
64 GAA
* * *
7022489 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
7022554 A
66 A
* * * *
7022555 CCTCAGCTTCTCTCGATGTTGCCTCCGCTTTAAG
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAG
7022589 TTGTGTAATT
Statistics
Matches: 86, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
65 2 0.02
66 80 0.93
67 4 0.05
ACGTcount: A:0.13, C:0.29, G:0.17, T:0.40
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
A
Found at i:7028090 original size:9 final size:9
Alignment explanation
Indices: 7028078--7028528 Score: 98
Period size: 9 Copynumber: 52.3 Consensus size: 9
7028068 AAAATTATGC
7028078 TATGTAAGT
1 TATGTAAGT
7028087 TATGTAAGT
1 TATGTAAGT
* *
7028096 CATATAAGT
1 TATGTAAGT
7028105 TATGTAAG-
1 TATGTAAGT
7028113 T-TGTAAGT
1 TATGTAAGT
*
7028121 TATGTAAAT
1 TATGTAAGT
*
7028130 TAT-TTA-T
1 TATGTAAGT
* *
7028137 TATGAAAAT
1 TATGTAAGT
*
7028146 TAAGTAAGT
1 TATGTAAGT
*
7028155 TATGTAATT
1 TATGTAAGT
7028164 TATG-AA-T
1 TATGTAAGT
* **
7028171 AAT-TAAAAA
1 TATGT-AAGT
* *
7028180 AACGTAAGT
1 TATGTAAGT
7028189 TATGTAAG-
1 TATGTAAGT
7028197 T-TGTAAGT
1 TATGTAAGT
7028205 TATGTAAG-
1 TATGTAAGT
7028213 T-TGTAAGT
1 TATGTAAGT
*
7028221 TATGTATA-A
1 TATGTA-AGT
7028230 TAT-TAA-T
1 TATGTAAGT
** *
7028237 TAACTAACT
1 TATGTAAGT
*
7028246 TATGTAATT
1 TATGTAAGT
* *
7028255 TAAGTATAATAT
1 T-A-TGTAA-GT
7028267 TAATGTAAGT
1 T-ATGTAAGT
*
7028277 TATGTATA-A
1 TATGTA-AGT
7028286 TAT-TAA-T
1 TATGTAAGT
** *
7028293 TAACTAACT
1 TATGTAAGT
*
7028302 TATGTAATT
1 TATGTAAGT
* *
7028311 TAAGTATAAT
1 TATGTA-AGT
***
7028321 TAACAAAGT
1 TATGTAAGT
*
7028330 TATGTAATT
1 TATGTAAGT
*
7028339 TATGTATA-A
1 TATGTA-AGT
7028348 TAT-TAATGT
1 TATGTAA-GT
*
7028357 AAT-T-AGT
1 TATGTAAGT
*
7028364 TATGTAATT
1 TATGTAAGT
7028373 TATGT-A--
1 TATGTAAGT
7028379 TAT-TAA-T
1 TATGTAAGT
7028386 TAAT-TAAGT
1 T-ATGTAAGT
*
7028395 TATGTAATT
1 TATGTAAGT
*
7028404 TATGTATAATAT
1 TATG--TAA-GT
7028416 TAATGTAAGT
1 T-ATGTAAGT
*
7028426 TATGTAATT
1 TATGTAAGT
7028435 TATGAATAA-T
1 TATG--TAAGT
*
7028445 TA--TAA-A
1 TATGTAAGT
*
7028451 AATGTAAGT
1 TATGTAAGT
7028460 TATGTAAG-
1 TATGTAAGT
7028468 T-TGTAAGT
1 TATGTAAGT
7028476 TATGTAAGT
1 TATGTAAGT
*
7028485 TATGTATA-A
1 TATGTA-AGT
7028494 TAT-TAA-T
1 TATGTAAGT
7028501 TAAT-TAAGT
1 T-ATGTAAGT
7028510 TATGTAAG-
1 TATGTAAGT
7028518 T-TGTAAGT
1 TATGTAAGT
7028526 TAT
1 TAT
7028529 TACTGTAAGC
Statistics
Matches: 333, Mismatches: 60, Indels: 98
0.68 0.12 0.20
Matches are distributed among these distances:
5 1 0.00
6 8 0.02
7 51 0.15
8 51 0.15
9 177 0.53
10 19 0.06
11 17 0.05
12 6 0.02
13 3 0.01
ACGTcount: A:0.41, C:0.02, G:0.14, T:0.44
Consensus pattern (9 bp):
TATGTAAGT
Found at i:7028105 original size:18 final size:16
Alignment explanation
Indices: 7028082--7028226 Score: 80
Period size: 16 Copynumber: 8.7 Consensus size: 16
7028072 TTATGCTATG
7028082 TAAGTTATGTAAGTCATA
1 TAAGTTATGTAAGT--TA
*
7028100 TAAGTTATGTAAGTTG
1 TAAGTTATGTAAGTTA
*
7028116 TAAGTTATGTAAATTA
1 TAAGTTATGTAAGTTA
* * *
7028132 TTTA-TTATGAAAATTAA
1 -TAAGTTATGTAAGTT-A
*
7028149 GTAAGTTATGTAATTTA
1 -TAAGTTATGTAAGTTA
* ***
7028166 TGAA-TAAT-TAAAAAAA
1 T-AAGTTATGT-AAGTTA
*
7028182 CGTAAGTTATGTAAGTTG
1 --TAAGTTATGTAAGTTA
*
7028200 TAAGTTATGTAAGTTG
1 TAAGTTATGTAAGTTA
7028216 TAAGTTATGTA
1 TAAGTTATGTA
7028227 TAATATTAAT
Statistics
Matches: 100, Mismatches: 18, Indels: 20
0.72 0.13 0.14
Matches are distributed among these distances:
15 1 0.01
16 59 0.59
17 10 0.10
18 29 0.29
19 1 0.01
ACGTcount: A:0.40, C:0.01, G:0.17, T:0.41
Consensus pattern (16 bp):
TAAGTTATGTAAGTTA
Found at i:7028118 original size:34 final size:33
Alignment explanation
Indices: 7028080--7028226 Score: 111
Period size: 34 Copynumber: 4.4 Consensus size: 33
7028070 AATTATGCTA
* * *
7028080 TGTAAGTTATGTAAGTCATATAAGTTATGTAAGT
1 TGTAAGTTATGTAAGTTATATAA-TTATGAAAAT
* *
7028114 TGTAAGTTATGTAAATTAT-TTATTATGAAAAT
1 TGTAAGTTATGTAAGTTATATAATTATGAAAAT
* * *
7028146 TAAGTAAGTTATGTAATTTATGAATAATTA-AAAAAA
1 T--GTAAGTTATGTAAGTTAT--ATAATTATGAAAAT
* * * * *
7028182 CGTAAGTTATGTAAGTTGTA-AGTTATGTAAGT
1 TGTAAGTTATGTAAGTTATATAATTATGAAAAT
7028214 TGTAAGTTATGTA
1 TGTAAGTTATGTA
7028227 TAATATTAAT
Statistics
Matches: 89, Mismatches: 18, Indels: 14
0.74 0.15 0.12
Matches are distributed among these distances:
31 4 0.04
32 24 0.27
33 2 0.02
34 50 0.56
36 4 0.04
37 5 0.06
ACGTcount: A:0.39, C:0.01, G:0.18, T:0.41
Consensus pattern (33 bp):
TGTAAGTTATGTAAGTTATATAATTATGAAAAT
Found at i:7028204 original size:16 final size:16
Alignment explanation
Indices: 7028183--7028226 Score: 88
Period size: 16 Copynumber: 2.8 Consensus size: 16
7028173 TTAAAAAAAC
7028183 GTAAGTTATGTAAGTT
1 GTAAGTTATGTAAGTT
7028199 GTAAGTTATGTAAGTT
1 GTAAGTTATGTAAGTT
7028215 GTAAGTTATGTA
1 GTAAGTTATGTA
7028227 TAATATTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.25, T:0.43
Consensus pattern (16 bp):
GTAAGTTATGTAAGTT
Found at i:7028272 original size:22 final size:22
Alignment explanation
Indices: 7028247--7028292 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
7028237 TAACTAACTT
*
7028247 ATGTAATTTAAGTATAATATTA
1 ATGTAAGTTAAGTATAATATTA
*
7028269 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTAAGTATAATATTA
7028291 AT
1 AT
7028293 TAACTAACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (22 bp):
ATGTAAGTTAAGTATAATATTA
Found at i:7028282 original size:56 final size:57
Alignment explanation
Indices: 7028214--7028400 Score: 238
Period size: 56 Copynumber: 3.2 Consensus size: 57
7028204 TTATGTAAGT
7028214 TGTAAGTTATGTATAATATTAATTAACTAACTTATGTAATTTAAGTATAAT-ATTAA
1 TGTAAGTTATGTATAATATTAATTAACTAACTTATGTAATTTAAGTATAATAATTAA
7028270 TGTAAGTTATGTATAATATTAATTAACTAACTTATGTAATTTAAGTATAATTAACAAAGTT-A
1 TGTAAGTTATGTATAATATTAATTAACTAACTTATGTAATTTAAGTATAA-T----AA-TTAA
* * * * *
7028332 TGTAATTTATGTATAATATTAATGTAA-TTAGTTATGTAATTTATGTATATTAATTAA
1 TGTAAGTTATGTATAATATTAAT-TAACTAACTTATGTAATTTAAGTATAATAATTAA
7028389 T-TAAGTTATGTA
1 TGTAAGTTATGTA
7028401 ATTTATGTAT
Statistics
Matches: 116, Mismatches: 6, Indels: 18
0.83 0.04 0.13
Matches are distributed among these distances:
56 62 0.53
57 5 0.04
61 1 0.01
62 43 0.37
63 5 0.04
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.46
Consensus pattern (57 bp):
TGTAAGTTATGTATAATATTAATTAACTAACTTATGTAATTTAAGTATAATAATTAA
Done.