Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
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: 11700749
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 38 of 50
Found at i:9136395 original size:48 final size:48
Alignment explanation
Indices: 9136311--9136436 Score: 146
Period size: 48 Copynumber: 2.6 Consensus size: 48
9136301 AGTACACTCA
* * * *
9136311 AAACAAAATGCCCATAGCTCGTCTATAAATAGTGGCACTGACATTGAG
1 AAACAAGATGCACATAGCTCGCCCATAAATAGTGGCACTGACATTGAG
* *
9136359 GAACAAGATGCACATAGCTCGCCCATTAAT-GATGGCACTGACATTGAG
1 AAACAAGATGCACATAGCTCGCCCATAAATAG-TGGCACTGACATTGAG
** * *
9136407 AAACAAGATGTGCATAGCCCGACCATAAAT
1 AAACAAGATGCACATAGCTCGCCCATAAAT
9136437 GAAGACGCTG
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
47 1 0.02
48 64 0.98
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (48 bp):
AAACAAGATGCACATAGCTCGCCCATAAATAGTGGCACTGACATTGAG
Found at i:9141344 original size:2 final size:2
Alignment explanation
Indices: 9141339--9141365 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9141329 TAGTAATTAA
9141339 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
9141366 ATTGTAACCC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9142432 original size:21 final size:20
Alignment explanation
Indices: 9142406--9142445 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
9142396 AAACAATTGG
9142406 TAATAATTGATATCATTTTTT
1 TAATAATTGATATC-TTTTTT
*
9142427 TAATAATTGGTATCTTTTT
1 TAATAATTGATATCTTTTT
9142446 CATTAAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.57
Consensus pattern (20 bp):
TAATAATTGATATCTTTTTT
Found at i:9142741 original size:23 final size:21
Alignment explanation
Indices: 9142669--9142749 Score: 92
Period size: 21 Copynumber: 3.8 Consensus size: 21
9142659 AGGGTGTCAA
* * *
9142669 AGTGCATCAATACACCCCTGC
1 AGTGCATCCATGCACCCCTAC
9142690 AGTGCATCCATGCACCCCTAC
1 AGTGCATCCATGCACCCCTAC
9142711 AGTGCATCCATGCACCTGCC-AC
1 AGTGCATCCATGCACC--CCTAC
*
9142733 TAGTGCATCGATGCACC
1 -AGTGCATCCATGCACC
9142750 ATTTAATGCA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
21 34 0.64
22 2 0.04
23 17 0.32
ACGTcount: A:0.25, C:0.38, G:0.17, T:0.20
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTAC
Found at i:9144765 original size:19 final size:19
Alignment explanation
Indices: 9144741--9144777 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
9144731 TAAAGATAAT
9144741 TTGATTTTGAAAGCAAAAG
1 TTGATTTTGAAAGCAAAAG
9144760 TTGATTTTGAAAGCAAAA
1 TTGATTTTGAAAGCAAAA
9144778 TGAATTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.05, G:0.19, T:0.32
Consensus pattern (19 bp):
TTGATTTTGAAAGCAAAAG
Found at i:9144786 original size:19 final size:18
Alignment explanation
Indices: 9144742--9144790 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 18
9144732 AAAGATAATT
9144742 TGATTTTGAAAGCAAAAG
1 TGATTTTGAAAGCAAAAG
9144760 TTGATTTTGAAAGCAAAA-
1 -TGATTTTGAAAGCAAAAG
9144778 TGAATTTTTGAAA
1 TG-A-TTTTGAAA
9144791 AAAAATTTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 2 0.07
18 1 0.04
19 25 0.89
ACGTcount: A:0.43, C:0.04, G:0.18, T:0.35
Consensus pattern (18 bp):
TGATTTTGAAAGCAAAAG
Found at i:9145878 original size:21 final size:21
Alignment explanation
Indices: 9145852--9145891 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9145842 AAACAATTGG
9145852 TAACAATTGATATCATTTTGT
1 TAACAATTGATATCATTTTGT
* *
9145873 TAACAATTGGTATCTTTTT
1 TAACAATTGATATCATTTT
9145892 CATTAATCAT
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:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (21 bp):
TAACAATTGATATCATTTTGT
Found at i:9146237 original size:20 final size:20
Alignment explanation
Indices: 9146212--9146264 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
9146202 AATGCAATTA
*
9146212 GTGCATCTATGCATCCTGCT
1 GTGCATCCATGCATCCTGCT
* *
9146232 GTGCATCGATGCATCCTGTT
1 GTGCATCCATGCATCCTGCT
*
9146252 TTGCATCCATGCA
1 GTGCATCCATGCA
9146265 CCAAGGCTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.17, C:0.28, G:0.21, T:0.34
Consensus pattern (20 bp):
GTGCATCCATGCATCCTGCT
Found at i:9148374 original size:29 final size:29
Alignment explanation
Indices: 9148325--9148437 Score: 129
Period size: 29 Copynumber: 3.9 Consensus size: 29
9148315 TGGGTGTTAA
*
9148325 TTTTGTAAATATGTTTAAAAGAGTGCTAT
1 TTTTGTAAATATTTTTAAAAGAGTGCTAT
* * * *
9148354 TTTTGTAAACATTTTTGAAAGGGTGTTAT
1 TTTTGTAAATATTTTTAAAAGAGTGCTAT
* *
9148383 TTTTTTAAATATTTTTAAAA-AGGTACTAT
1 TTTTGTAAATATTTTTAAAAGA-GTGCTAT
* *
9148412 TTTTATAAATATTTTTAAAAGGGTGC
1 TTTTGTAAATATTTTTAAAAGAGTGC
9148438 CTATACATAA
Statistics
Matches: 68, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
29 68 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.48
Consensus pattern (29 bp):
TTTTGTAAATATTTTTAAAAGAGTGCTAT
Found at i:9148394 original size:58 final size:58
Alignment explanation
Indices: 9148316--9148436 Score: 163
Period size: 58 Copynumber: 2.1 Consensus size: 58
9148306 GACCCATCCT
* * *
9148316 GGGTGTTAATTTTGTAAATATGTTT-AAAAGAGTGCTATTTTTGTAAACATTTTTGAAA
1 GGGTGTTAATTTTGTAAATATGTTTAAAAAG-GTACTATTTTTATAAACATTTTTAAAA
* * * *
9148374 GGGTGTTATTTTTTTAAATATTTTTAAAAAGGTACTATTTTTATAAATATTTTTAAAA
1 GGGTGTTAATTTTGTAAATATGTTTAAAAAGGTACTATTTTTATAAACATTTTTAAAA
9148432 GGGTG
1 GGGTG
9148437 CCTATACATA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
58 50 0.91
59 5 0.09
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.47
Consensus pattern (58 bp):
GGGTGTTAATTTTGTAAATATGTTTAAAAAGGTACTATTTTTATAAACATTTTTAAAA
Found at i:9149446 original size:32 final size:31
Alignment explanation
Indices: 9149371--9149446 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
9149361 CTAATGTGAC
* *
9149371 TCTTAGGTAGGCTCTGCGGCCATGAGATCAT
1 TCTTAGGTAGGCCCTGCGGCCATAAGATCAT
** * **
9149402 TCTCGGGTAGGCCCTGCGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCTGCGGCCATAAGAT-CAT
9149434 TCTTAGGTAGGCC
1 TCTTAGGTAGGCC
9149447 TCGTGGCCCC
Statistics
Matches: 35, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
31 23 0.66
32 12 0.34
ACGTcount: A:0.16, C:0.25, G:0.32, T:0.28
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTGCGGCCATAAGATCAT
Found at i:9155800 original size:29 final size:29
Alignment explanation
Indices: 9155746--9155926 Score: 222
Period size: 29 Copynumber: 6.2 Consensus size: 29
9155736 GGCCCGACCC
*
9155746 GGGTGCTAGTTTTGTAAATATTTTTTAAAA
1 GGGTGCTATTTTTGTAAATA-TTTTTAAAA
*
9155776 GGGTGCTATTTTTGTAAACATTTTTAAAA
1 GGGTGCTATTTTTGTAAATATTTTTAAAA
9155805 GGGTGCTATTTTTGTAAATATTTTTAAAA
1 GGGTGCTATTTTTGTAAATATTTTTAAAA
*
9155834 GGGTGTTATTTTTGTAAATATTTTTAAAA
1 GGGTGCTATTTTTGTAAATATTTTTAAAA
* ** * * **
9155863 GGGTGC-ATAATACGTAATTAATTTCTATTA
1 GGGTGCTAT-TTTTGTAAAT-ATTTTTAAAA
*
9155893 -GGTGCTATTTTTGTACATATTTTTAAAA
1 GGGTGCTATTTTTGTAAATATTTTTAAAA
9155921 GGGTGC
1 GGGTGC
9155927 CTAATACGTA
Statistics
Matches: 127, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
28 9 0.07
29 91 0.72
30 27 0.21
ACGTcount: A:0.30, C:0.06, G:0.19, T:0.46
Consensus pattern (29 bp):
GGGTGCTATTTTTGTAAATATTTTTAAAA
Found at i:9155932 original size:58 final size:59
Alignment explanation
Indices: 9155775--9155968 Score: 241
Period size: 58 Copynumber: 3.3 Consensus size: 59
9155765 ATTTTTTAAA
* * ** * **
9155775 AGGGTGCTATTTTTGTAAACATTTTTAAAAGGGTG-CTATTTTTGTAAAT-ATTTTTAAA
1 AGGGTGCTATTTTTGTAAATATTTTTAAAAGGGTGCCTA-ATACGTAATTAATTTTTATT
* * *
9155833 AGGGTGTTATTTTTGTAAATATTTTTAAAAGGGTGCATAATACGTAATTAATTTCTATT
1 AGGGTGCTATTTTTGTAAATATTTTTAAAAGGGTGCCTAATACGTAATTAATTTTTATT
* *
9155892 A-GGTGCTATTTTTGTACATATTTTTAAAAGGGTGCCTAATACGTAATTAATTTTTGTT
1 AGGGTGCTATTTTTGTAAATATTTTTAAAAGGGTGCCTAATACGTAATTAATTTTTATT
*
9155950 AGGGTGTTATTTTTGTAAA
1 AGGGTGCTATTTTTGTAAA
9155969 AGTTAACTGT
Statistics
Matches: 116, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
58 92 0.79
59 24 0.21
ACGTcount: A:0.30, C:0.06, G:0.18, T:0.46
Consensus pattern (59 bp):
AGGGTGCTATTTTTGTAAATATTTTTAAAAGGGTGCCTAATACGTAATTAATTTTTATT
Found at i:9155945 original size:29 final size:29
Alignment explanation
Indices: 9155855--9155945 Score: 71
Period size: 29 Copynumber: 3.1 Consensus size: 29
9155845 TTGTAAATAT
*
9155855 TTTTAAAAGGGTGCATAATACGTAATTAA
1 TTTTAAAAGGGTGCCTAATACGTAATTAA
** * ** *
9155884 TTTCTATTA-GGTG-CTATTTTTGTACA-TAT
1 TTT-TAAAAGGGTGCCTA-ATACGTA-ATTAA
9155913 TTTTAAAAGGGTGCCTAATACGTAATTAA
1 TTTTAAAAGGGTGCCTAATACGTAATTAA
9155942 TTTT
1 TTTT
9155946 TGTTAGGGTG
Statistics
Matches: 43, Mismatches: 13, Indels: 12
0.63 0.19 0.18
Matches are distributed among these distances:
28 6 0.14
29 30 0.70
30 7 0.16
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (29 bp):
TTTTAAAAGGGTGCCTAATACGTAATTAA
Found at i:9157046 original size:25 final size:26
Alignment explanation
Indices: 9157001--9157052 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
9156991 GTAACTCTTT
* *
9157001 TATGGGATTTACTGCAGTATGA-TTG
1 TATGAGATTTACTGCACTATGACTTG
*
9157026 TATGAGATTTACTGGACTATGACTTG
1 TATGAGATTTACTGCACTATGACTTG
9157052 T
1 T
9157053 TTAGTGTACC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.25, C:0.10, G:0.25, T:0.40
Consensus pattern (26 bp):
TATGAGATTTACTGCACTATGACTTG
Found at i:9163565 original size:15 final size:15
Alignment explanation
Indices: 9163537--9163576 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
9163527 CAATAGGAAC
9163537 ATGTG-ATATAAGCT
1 ATGTGAATATAAGCT
*
9163551 ATGTGAATATGAGCT
1 ATGTGAATATAAGCT
*
9163566 ATATGAATATA
1 ATGTGAATATA
9163577 TGTATGAGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.40, C:0.05, G:0.20, T:0.35
Consensus pattern (15 bp):
ATGTGAATATAAGCT
Found at i:9167190 original size:103 final size:103
Alignment explanation
Indices: 9166900--9167225 Score: 575
Period size: 103 Copynumber: 3.2 Consensus size: 103
9166890 CATATAAAGT
* *
9166900 TGTCCCTAAGGACTACATATAATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGC
1 TGTCCCAAAGGACCACATATAATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGC
9166965 CTCAAAAGACCTCACACATGTTCCAAAGAATACATATA
66 CTCAAAAGACCTCACACATGTTCCAAAGAATACATATA
* * * *
9167003 TGTACCAAAAGA-C-CATATCATTCCTTAAGAATCATATACATATTCCAAGGATCAAGTATGTGC
1 TGTCCCAAAGGACCACATATAATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGC
9167066 CTCAAAAGACCTCACACATGTTCCAAAGAATACATATA
66 CTCAAAAGACCTCACACATGTTCCAAAGAATACATATA
9167104 TGTCCCAAAGGACCACATATAATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGC
1 TGTCCCAAAGGACCACATATAATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGC
9167169 CTCAAAAGACCTCACACATGTTCCAAAGAATACATATA
66 CTCAAAAGACCTCACACATGTTCCAAAGAATACATATA
*
9167207 TGTCTCAAAGGACCACATA
1 TGTCCCAAAGGACCACATA
9167226 GACCCTCTAC
Statistics
Matches: 210, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
101 96 0.46
102 1 0.00
103 113 0.54
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.25
Consensus pattern (103 bp):
TGTCCCAAAGGACCACATATAATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGC
CTCAAAAGACCTCACACATGTTCCAAAGAATACATATA
Found at i:9167839 original size:64 final size:64
Alignment explanation
Indices: 9167728--9167849 Score: 165
Period size: 64 Copynumber: 1.9 Consensus size: 64
9167718 TCCCTATCGG
* * *
9167728 TGCATCAATGCACTACCTGTGCATCGGTGCATAAATAACATTTGATGTTTGTATTTTAAGGGGA
1 TGCATCAATGCACTACCTATGCATCGATGCATAAATAACATTAGATGTTTGTATTTTAAGGGGA
* * **
9167792 TGCATCGATGCACT-CCTTATGCATCGATGCATTAATTGCATTAGATGTTTGTATTTTA
1 TGCATCAATGCACTACC-TATGCATCGATGCATAAATAACATTAGATGTTTGTATTTTA
9167850 GAAGAGTGCA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
63 2 0.04
64 48 0.96
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (64 bp):
TGCATCAATGCACTACCTATGCATCGATGCATAAATAACATTAGATGTTTGTATTTTAAGGGGA
Found at i:9167860 original size:64 final size:63
Alignment explanation
Indices: 9167727--9167869 Score: 162
Period size: 64 Copynumber: 2.2 Consensus size: 63
9167717 TTCCCTATCG
* * * * * *
9167727 GTGCATCAATGCACTACCTGTGCATCGGTGCATAAATAACATTTGATGTTTGTATTTTAAGGG
1 GTGCATCGATGCACTACCTATGCATCGATGCATAAATAACATTAGATGTTTGTATTTTAAAGA
* **
9167790 GATGCATCGATGCACT-CCTTATGCATCGATGCATTAATTGCATTAGATGTTTGTATTTTAGAAG
1 G-TGCATCGATGCACTACC-TATGCATCGATGCATAAATAACATTAGATGTTTGTATTTTA-AAG
9167854 A
63 A
*
9167855 GTGCATCGATTCACT
1 GTGCATCGATGCACT
9167870 TTATGTGCGT
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
63 3 0.04
64 61 0.91
65 3 0.04
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.36
Consensus pattern (63 bp):
GTGCATCGATGCACTACCTATGCATCGATGCATAAATAACATTAGATGTTTGTATTTTAAAGA
Found at i:9174007 original size:23 final size:23
Alignment explanation
Indices: 9173981--9174026 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
9173971 CACCACAGCT
*
9173981 CGTATAAATGCACCGGAGTGCCA
1 CGTAGAAATGCACCGGAGTGCCA
* *
9174004 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAAATGCACCGGAGTGCCA
9174027 TATAAAGTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGGAGTGCCA
Found at i:9174214 original size:103 final size:103
Alignment explanation
Indices: 9174035--9174362 Score: 629
Period size: 103 Copynumber: 3.2 Consensus size: 103
9174025 CATATAAAGT
* *
9174035 TGTCCCTAAGGACTACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGC
1 TGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGC
9174100 CTCAAAAGACCTCACACATGTTCCAAAGAATACATATA
66 CTCAAAAGACCTCACACATGTTCCAAAGAATACATATA
9174138 TGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGC
1 TGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGC
9174203 CTCAAAAGACCTCACACATGTTCCAAAGAATACATATA
66 CTCAAAAGACCTCACACATGTTCCAAAGAATACATATA
*
9174241 TGTCCCGAATGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGC
1 TGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGC
9174306 CTCAAAAGACCTCACACATGTTCCAAAGAATACATATA
66 CTCAAAAGACCTCACACATGTTCCAAAGAATACATATA
9174344 TGTCCCGAAGGACCACATA
1 TGTCCCGAAGGACCACATA
9174363 GACCCTCCAC
Statistics
Matches: 221, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 221 1.00
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.25
Consensus pattern (103 bp):
TGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGC
CTCAAAAGACCTCACACATGTTCCAAAGAATACATATA
Found at i:9177585 original size:23 final size:23
Alignment explanation
Indices: 9177559--9177609 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
9177549 GACATATATT
9177559 TGGTCATTCGCA-ACAATTATACG
1 TGGTCATTCG-AGACAATTATACG
* *
9177582 TGGTCCTTCGAGACAATTATGCG
1 TGGTCATTCGAGACAATTATACG
9177605 TGGTC
1 TGGTC
9177610 CTTCAGGACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 1 0.04
23 24 0.96
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.31
Consensus pattern (23 bp):
TGGTCATTCGAGACAATTATACG
Found at i:9180882 original size:74 final size:75
Alignment explanation
Indices: 9180768--9180928 Score: 234
Period size: 74 Copynumber: 2.1 Consensus size: 75
9180758 AATAAAAAAT
* ** * *
9180768 TTTGAAAAAAAATATTAAATTTTTTTAAAATTTTGAAGTTAAAAGTAATATGAAAATTTTAGAAA
1 TTTG-AAAAAAATATTAAATATTTTTAAAATTTCAAAGTTAAAAATAATATGAAAATTATAGAAA
*
9180833 TTTTTAATAAA
65 TTTTTAACAAA
*
9180844 TTTGAAAAAAATATTAAA-ATTTTTAAAATTTCAAAGTTAAAAATAATATGAAACTTATAGAAAT
1 TTTGAAAAAAATATTAAATATTTTTAAAATTTCAAAGTTAAAAATAATATGAAAATTATAGAAAT
9180908 TTTTAACAAA
66 TTTTAACAAA
*
9180918 TTAGAAAAAAA
1 TTTGAAAAAAA
9180929 AAACAACATG
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
74 59 0.77
75 14 0.18
76 4 0.05
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.38
Consensus pattern (75 bp):
TTTGAAAAAAATATTAAATATTTTTAAAATTTCAAAGTTAAAAATAATATGAAAATTATAGAAAT
TTTTAACAAA
Found at i:9183885 original size:31 final size:32
Alignment explanation
Indices: 9183847--9183915 Score: 113
Period size: 32 Copynumber: 2.2 Consensus size: 32
9183837 GTTTTTGGTT
*
9183847 AGATGAAAGGAGTTT-TTGTGTAAGAGATTGA
1 AGATGAAAGGAGTTTGTTATGTAAGAGATTGA
*
9183878 AGATGAAAGGAGTTTGTTATGTATGAGATTGA
1 AGATGAAAGGAGTTTGTTATGTAAGAGATTGA
9183910 AGATGA
1 AGATGA
9183916 TGTGCACAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
31 15 0.43
32 20 0.57
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (32 bp):
AGATGAAAGGAGTTTGTTATGTAAGAGATTGA
Found at i:9187356 original size:21 final size:21
Alignment explanation
Indices: 9187331--9187373 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
9187321 CGCAAGAATT
*
9187331 GTCAGAAATAATCCAAAAGAA
1 GTCAGAAACAATCCAAAAGAA
*
9187352 GTCAGAAACGATCCAAAAGAA
1 GTCAGAAACAATCCAAAAGAA
9187373 G
1 G
9187374 CTAAATTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.53, C:0.16, G:0.19, T:0.12
Consensus pattern (21 bp):
GTCAGAAACAATCCAAAAGAA
Found at i:9193086 original size:17 final size:17
Alignment explanation
Indices: 9193064--9193098 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
9193054 CTAAAAGTCA
9193064 CTATAAAACTTCGTGAT
1 CTATAAAACTTCGTGAT
9193081 CTATAAAACTTCGTGAT
1 CTATAAAACTTCGTGAT
9193098 C
1 C
9193099 AAGATTGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.34
Consensus pattern (17 bp):
CTATAAAACTTCGTGAT
Found at i:9193429 original size:165 final size:166
Alignment explanation
Indices: 9193219--9193539 Score: 464
Period size: 165 Copynumber: 1.9 Consensus size: 166
9193209 CCTATTCACA
* *
9193219 TATGTAATGGGGTAAGGGTGAGGTAGAGTAGTAGGATGTCCCAACGCCAGATTGAGAGCAGTTTC
1 TATGTAATGGGGTAAGGGTGAGGTAGAGTAGTAGGATGCCCCAACGCCAGATTGAGAGCAGCTTC
* * * * * * *
9193284 CGTGGAATACCTCCGTTATGAATTGCCCTCAGTGGGACTCGATCCCACGACCACAAGATTAAGAG
66 CGTAGAAGACCTCCGTTATGAATTGCACTCAGTAGGACTCGACCCCACAACCACAAGATTAAAAG
* *
9193349 CCTTGCGCTCTACCAACTGAGCTAGACTGACAAGAC
131 ACTTGCGCTCTACCAACTGAACTAGACTGACAAGAC
* *
9193385 TATGTAATGGGGTAAGGG-GAGGTAGGGTAGTAGGCTGCCCCAACGCCAGATTGAGAGCAGCTTC
1 TATGTAATGGGGTAAGGGTGAGGTAGAGTAGTAGGATGCCCCAACGCCAGATTGAGAGCAGCTTC
** * *
9193449 CGTAGAAGATTTTCGTTATGAATTGCACTCAGTAGGACTCGACCCCACAACCACAAGGTTAAAAG
66 CGTAGAAGACCTCCGTTATGAATTGCACTCAGTAGGACTCGACCCCACAACCACAAGATTAAAAG
* *
9193514 ATTTGCGCTCTCCCAACTGAACTAGA
131 ACTTGCGCTCTACCAACTGAACTAGA
9193540 TGGGCAAGAC
Statistics
Matches: 136, Mismatches: 19, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
165 118 0.87
166 18 0.13
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.22
Consensus pattern (166 bp):
TATGTAATGGGGTAAGGGTGAGGTAGAGTAGTAGGATGCCCCAACGCCAGATTGAGAGCAGCTTC
CGTAGAAGACCTCCGTTATGAATTGCACTCAGTAGGACTCGACCCCACAACCACAAGATTAAAAG
ACTTGCGCTCTACCAACTGAACTAGACTGACAAGAC
Found at i:9202843 original size:18 final size:19
Alignment explanation
Indices: 9202820--9202863 Score: 72
Period size: 20 Copynumber: 2.3 Consensus size: 19
9202810 CAGTAATCCT
9202820 ATTCC-CTGGTAATCTTAC
1 ATTCCACTGGTAATCTTAC
9202838 ATTCCCACTGGTAATCTTAC
1 ATT-CCACTGGTAATCTTAC
9202858 ATTCCA
1 ATTCCA
9202864 TGAACCAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.12
19 5 0.21
20 16 0.67
ACGTcount: A:0.25, C:0.30, G:0.09, T:0.36
Consensus pattern (19 bp):
ATTCCACTGGTAATCTTAC
Found at i:9202850 original size:20 final size:20
Alignment explanation
Indices: 9202825--9202862 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
9202815 ATCCTATTCC
9202825 CTGGTAATCTTACATTCCCA
1 CTGGTAATCTTACATTCCCA
9202845 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
9202863 ATGAACCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.29, G:0.11, T:0.37
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:9203856 original size:20 final size:19
Alignment explanation
Indices: 9203833--9203904 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 19
9203823 GAACTCCAAT
9203833 TTCGCAACACAGTTTCCGAA
1 TTCGCAACACAGTTT-CGAA
* * *
9203853 TTCGCAACTCGAATTTGGAA
1 TTCGCAACAC-AGTTTCGAA
*
9203873 TTCGCAACACAGAATTTGGAA
1 TTCGCAACACAG--TTTCGAA
*
9203894 TTCACAACACA
1 TTCGCAACACA
9203905 TAAGTCGAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
19 1 0.02
20 21 0.49
21 21 0.49
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (19 bp):
TTCGCAACACAGTTTCGAA
Found at i:9203960 original size:20 final size:20
Alignment explanation
Indices: 9203935--9204059 Score: 83
Period size: 20 Copynumber: 6.2 Consensus size: 20
9203925 AATTAGACAA
*
9203935 TTTCGCAACAAGAATTTCTT
1 TTTCGCAACACGAATTTCTT
*
9203955 TTTCGCAACTCG-ATTT-TT
1 TTTCGCAACACGAATTTCTT
* *
9203973 AAATTCGCAACACGAGTTTCTT
1 --TTTCGCAACACGAATTTCTT
* * *
9203995 TTTCGCAACAAGATTTTCTA
1 TTTCGCAACACGAATTTCTT
* * * * **
9204015 ATTCGTAACGCGAGTTTCAA
1 TTTCGCAACACGAATTTCTT
* *
9204035 TTTCGCAACAGGAATTTCGT
1 TTTCGCAACACGAATTTCTT
9204055 TTTCG
1 TTTCG
9204060 TAACTCAATT
Statistics
Matches: 79, Mismatches: 22, Indels: 8
0.72 0.20 0.07
Matches are distributed among these distances:
18 2 0.03
19 4 0.05
20 68 0.86
21 3 0.04
22 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.38
Consensus pattern (20 bp):
TTTCGCAACACGAATTTCTT
Found at i:9203961 original size:42 final size:40
Alignment explanation
Indices: 9203914--9204003 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 40
9203904 ATAAGTCGAA
9203914 TTCGCAACTCGAATTAGACAATTTCGCAACAAGAATTTCTTT
1 TTCGCAACTCGAATTAGA-AA-TTCGCAACAAGAATTTCTTT
* ** * *
9203956 TTCGCAACTCGATTTTTAAATTCGCAACACGAGTTTCTTT
1 TTCGCAACTCGAATTAGAAATTCGCAACAAGAATTTCTTT
9203996 TTCGCAAC
1 TTCGCAAC
9204004 AAGATTTTCT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
40 26 0.60
41 2 0.05
42 15 0.35
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (40 bp):
TTCGCAACTCGAATTAGAAATTCGCAACAAGAATTTCTTT
Found at i:9203993 original size:40 final size:40
Alignment explanation
Indices: 9203936--9204044 Score: 130
Period size: 40 Copynumber: 2.7 Consensus size: 40
9203926 ATTAGACAAT
* * **
9203936 TTCGCAACAAGAATTTCTTTTTCGCAACTCGATTTT-TAAA
1 TTCGCAACACGAGTTTCTTTTTCGCAACAAGATTTTCT-AA
9203976 TTCGCAACACGAGTTTCTTTTTCGCAACAAGATTTTCTAA
1 TTCGCAACACGAGTTTCTTTTTCGCAACAAGATTTTCTAA
* * **
9204016 TTCGTAACGCGAGTTTCAATTTCGCAACA
1 TTCGCAACACGAGTTTCTTTTTCGCAACA
9204045 GGAATTTCGT
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
40 59 0.98
41 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (40 bp):
TTCGCAACACGAGTTTCTTTTTCGCAACAAGATTTTCTAA
Found at i:9204013 original size:60 final size:60
Alignment explanation
Indices: 9203935--9204105 Score: 155
Period size: 60 Copynumber: 2.9 Consensus size: 60
9203925 AATTAGACAA
** * * * * *
9203935 TTTCGCAACAAGAATTTCTTTTTCGCAACTCGATTTTTAAATTCGCAACACGAGTTTCTT
1 TTTCGCAACAAGAATTTCTAATTCGCAACGCGAGTTTCAAATTCGCAACACGAATTTCGT
* * * *
9203995 TTTCGCAACAAGATTTTCTAATTCGTAACGCGAGTTTCAATTTCGCAACAGGAATTTCGT
1 TTTCGCAACAAGAATTTCTAATTCGCAACGCGAGTTTCAAATTCGCAACACGAATTTCGT
* ** * * * * *
9204055 TTTCGTAAC-TCAATTTTTGAATTCGCAACGTGAATTTTAATTTCGCAACAC
1 TTTCGCAACAAGAATTTCT-AATTCGCAACGCGAGTTTCAAATTCGCAACAC
9204106 AACTTTTAAT
Statistics
Matches: 89, Mismatches: 21, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
59 5 0.06
60 84 0.94
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.38
Consensus pattern (60 bp):
TTTCGCAACAAGAATTTCTAATTCGCAACGCGAGTTTCAAATTCGCAACACGAATTTCGT
Found at i:9204063 original size:40 final size:40
Alignment explanation
Indices: 9203974--9204052 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
9203964 TCGATTTTTA
* ** *
9203974 AATTCGCAACACGAGTTTCTTTTTCGCAACAAGATTTTCT
1 AATTCGTAACACGAGTTTCAATTTCGCAACAAGAATTTCT
* *
9204014 AATTCGTAACGCGAGTTTCAATTTCGCAACAGGAATTTC
1 AATTCGTAACACGAGTTTCAATTTCGCAACAAGAATTTC
9204053 GTTTTCGTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (40 bp):
AATTCGTAACACGAGTTTCAATTTCGCAACAAGAATTTCT
Found at i:9204112 original size:20 final size:20
Alignment explanation
Indices: 9204089--9204127 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
9204079 GCAACGTGAA
9204089 TTTTAATTTCGCAACACAAC
1 TTTTAATTTCGCAACACAAC
9204109 TTTTAATTTCGCAACACAA
1 TTTTAATTTCGCAACACAA
9204128 ATGTTTTGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.36
Consensus pattern (20 bp):
TTTTAATTTCGCAACACAAC
Found at i:9204248 original size:22 final size:22
Alignment explanation
Indices: 9204223--9204265 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
9204213 TCTCACTCTC
*
9204223 TCCGGCGACATCCGTCCCCATA
1 TCCGACGACATCCGTCCCCATA
*
9204245 TCCGACGACATCCTTCCCCAT
1 TCCGACGACATCCGTCCCCAT
9204266 CTCTAATTTT
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:0.19, C:0.47, G:0.14, T:0.21
Consensus pattern (22 bp):
TCCGACGACATCCGTCCCCATA
Found at i:9204303 original size:16 final size:16
Alignment explanation
Indices: 9204282--9204321 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
9204272 TTTTTTTTTC
9204282 ATAATTTTATTTCTAT
1 ATAATTTTATTTCTAT
*
9204298 ATAATTTTATTTTTAT
1 ATAATTTTATTTCTAT
9204314 ATAATTTT
1 ATAATTTT
9204322 CAATGATTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
ATAATTTTATTTCTAT
Found at i:9204938 original size:12 final size:12
Alignment explanation
Indices: 9204917--9204950 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
9204907 ACCACATTTC
*
9204917 CAATACCAAACA
1 CAATATCAAACA
9204929 CAATATCAAACA
1 CAATATCAAACA
*
9204941 CAATCTCAAA
1 CAATATCAAA
9204951 ATCCACAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:9207470 original size:12 final size:12
Alignment explanation
Indices: 9207455--9207490 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
9207445 GGGAAATCAA
9207455 AATCACAATCGC
1 AATCACAATCGC
* *
9207467 AATCAAAATCCC
1 AATCACAATCGC
9207479 AATCACAATCGC
1 AATCACAATCGC
9207491 CTTCACCTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.44, C:0.33, G:0.06, T:0.17
Consensus pattern (12 bp):
AATCACAATCGC
Found at i:9207472 original size:18 final size:18
Alignment explanation
Indices: 9207449--9207488 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
9207439 AGTAAAGGGA
*
9207449 AATCAAAATCACAATCGC
1 AATCAAAATCACAATCAC
*
9207467 AATCAAAATCCCAATCAC
1 AATCAAAATCACAATCAC
9207485 AATC
1 AATC
9207489 GCCTTCACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.30, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCACAATCAC
Found at i:9207675 original size:14 final size:14
Alignment explanation
Indices: 9207658--9207685 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9207648 TAATAGCACT
9207658 AATCAGTGGCAACC
1 AATCAGTGGCAACC
9207672 AATCAGTGGCAACC
1 AATCAGTGGCAACC
9207686 TCAGCCTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.29, G:0.21, T:0.14
Consensus pattern (14 bp):
AATCAGTGGCAACC
Found at i:9208852 original size:13 final size:13
Alignment explanation
Indices: 9208834--9208867 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
9208824 CATAGTTGAA
9208834 CAGTCTTCTTATG
1 CAGTCTTCTTATG
9208847 CAGTCTTCTTATG
1 CAGTCTTCTTATG
9208860 CAGTCTTC
1 CAGTCTTC
9208868 ATGTGCGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.15, C:0.26, G:0.15, T:0.44
Consensus pattern (13 bp):
CAGTCTTCTTATG
Found at i:9209358 original size:20 final size:20
Alignment explanation
Indices: 9209335--9209451 Score: 93
Period size: 20 Copynumber: 6.2 Consensus size: 20
9209325 TTTATTTCAA
9209335 GAAAATCAAATTCGCAACTC
1 GAAAATCAAATTCGCAACTC
*
9209355 GAAAATCAAATTCGCAATTC
1 GAAAATCAAATTCGCAACTC
* * * *
9209375 GAAACTTAAATTTGCAACAC
1 GAAAATCAAATTCGCAACTC
9209395 GAAAA-C-----CGCAACTC
1 GAAAATCAAATTCGCAACTC
* *
9209409 GAAAATGAAATTCGCAACTT
1 GAAAATCAAATTCGCAACTC
** **
9209429 GAATTTTGAATTCGCAACTC
1 GAAAATCAAATTCGCAACTC
9209449 GAA
1 GAA
9209452 TTTCATTTTT
Statistics
Matches: 74, Mismatches: 17, Indels: 12
0.72 0.17 0.12
Matches are distributed among these distances:
14 11 0.15
20 63 0.85
ACGTcount: A:0.43, C:0.21, G:0.13, T:0.23
Consensus pattern (20 bp):
GAAAATCAAATTCGCAACTC
Found at i:9209446 original size:54 final size:54
Alignment explanation
Indices: 9209347--9209451 Score: 140
Period size: 54 Copynumber: 1.9 Consensus size: 54
9209337 AAATCAAATT
*
9209347 CGCAACTCGAAAATCAAATTCGCAATTCGAAACTTAAATTTGCAACACGAAAAC
1 CGCAACTCGAAAATCAAATTCGCAATTCGAAACTTAAATTCGCAACACGAAAAC
* ** * *
9209401 CGCAACTCGAAAATGAAATTCGCAACTT-GAATTTTGAATTCGCAACTCGAA
1 CGCAACTCGAAAATCAAATTCGCAA-TTCGAAACTTAAATTCGCAACACGAA
9209452 TTTCATTTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
54 42 0.95
55 2 0.05
ACGTcount: A:0.41, C:0.23, G:0.13, T:0.23
Consensus pattern (54 bp):
CGCAACTCGAAAATCAAATTCGCAATTCGAAACTTAAATTCGCAACACGAAAAC
Found at i:9209515 original size:20 final size:20
Alignment explanation
Indices: 9209452--9209506 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
9209442 GCAACTCGAA
*
9209452 TTTCATTTTTGAGTTGCGAT
1 TTTCATTTTCGAGTTGCGAT
* *
9209472 TTTCGTTTTCGAGTTGCGAA
1 TTTCATTTTCGAGTTGCGAT
9209492 TTTCATTTTCGAGTT
1 TTTCATTTTCGAGTT
9209507 ATGATTTTCG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.15, C:0.13, G:0.20, T:0.53
Consensus pattern (20 bp):
TTTCATTTTCGAGTTGCGAT
Found at i:9210173 original size:20 final size:20
Alignment explanation
Indices: 9210150--9210197 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
9210140 AAAAATCGAG
9210150 TTGCGAAAAAGAAATTCGTA
1 TTGCGAAAAAGAAATTCGTA
9210170 TTGCGAAAAAGAAATTCGTA
1 TTGCGAAAAAGAAATTCGTA
9210190 TTGCGAAA
1 TTGCGAAA
9210198 TTGTCAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.44, C:0.10, G:0.21, T:0.25
Consensus pattern (20 bp):
TTGCGAAAAAGAAATTCGTA
Found at i:9220875 original size:6 final size:6
Alignment explanation
Indices: 9220859--9220900 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
9220849 ATCAAGAGAA
* *
9220859 AAAAAT GAAAAT AAAAAT AAAAAT -AAAAT AGTAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT A-AAAAT AAAAAT
9220901 TAAATAAAGC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
5 5 0.17
6 20 0.67
7 5 0.17
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (6 bp):
AAAAAT
Found at i:9220882 original size:18 final size:18
Alignment explanation
Indices: 9220859--9220906 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
9220849 ATCAAGAGAA
9220859 AAAAATGAAAATA-AAAAT
1 AAAAAT-AAAATAGAAAAT
*
9220877 AAAAATAAAATAGTAAAT
1 AAAAATAAAATAGAAAAT
*
9220895 AAAAATTAAATA
1 AAAAATAAAATA
9220907 AAGCAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 6 0.22
18 21 0.78
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (18 bp):
AAAAATAAAATAGAAAAT
Found at i:9220980 original size:16 final size:16
Alignment explanation
Indices: 9220956--9220986 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9220946 AAAGGAAAAG
9220956 AATAAAATAAATAAAT
1 AATAAAATAAATAAAT
*
9220972 AATAGAATAAATAAA
1 AATAAAATAAATAAA
9220987 AAAGAAGTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (16 bp):
AATAAAATAAATAAAT
Found at i:9221830 original size:23 final size:18
Alignment explanation
Indices: 9221781--9221817 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
9221771 TGTTTTTTCT
9221781 GTTGTGTTTGGTTCGATC
1 GTTGTGTTTGGTTCGATC
9221799 GTTGTGTTTGGTTCGATC
1 GTTGTGTTTGGTTCGATC
9221817 G
1 G
9221818 ATGTTCTGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.05, C:0.11, G:0.35, T:0.49
Consensus pattern (18 bp):
GTTGTGTTTGGTTCGATC
Found at i:9222331 original size:2 final size:2
Alignment explanation
Indices: 9222316--9222349 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
9222306 TAATAATTAT
9222316 TA TA -A TA T- 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 TA TA TA TA TA
9222350 ATTTTCCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 28 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9222397 original size:36 final size:34
Alignment explanation
Indices: 9222357--9222793 Score: 272
Period size: 36 Copynumber: 12.6 Consensus size: 34
9222347 ATAATTTTCC
*
9222357 AAAAACCTATATAATATATATTTTCAAAAGTATTTT
1 AAAAA-CTATATAATATATATTTTCAAAA-TGTTTT
*
9222393 AAAAA-TATATATTATATATAATTTTAAAAAAAATGTTTT
1 AAAAACTATATA--ATATAT-ATTTT---CAAAATGTTTT
* *
9222432 -CAAA--AT-T-ATAT-TGTTTTCAAAAATGTTTT
1 AAAAACTATATAATATATATTTTC-AAAATGTTTT
* * *
9222461 TAAAACTATATATTATATAAGTTTTCAAAATGATTT
1 AAAAACTATATAATATAT-A-TTTTCAAAATGTTTT
9222497 AAAAACTATATAATATATATAAGTTTTCAAAATGTTTT
1 AAAAACTATAT-A-ATATAT-A-TTTTCAAAATGTTTT
*
9222535 AAAAAC----T-ATATATATTTTCAAAATATTTT
1 AAAAACTATATAATATATATTTTCAAAATGTTTT
9222564 ----A--ATAT-ATAT-T-TTTTCAAAAATGTTTT
1 AAAAACTATATAATATATATTTTC-AAAATGTTTT
* *
9222590 AAAATTA-TATATTATATTTATTTTCAAAATGTTTT
1 AAAA--ACTATATAATATATATTTTCAAAATGTTTT
9222625 AAAAACTATATAATATATATATTTTCAAAAATGTTTT
1 AAAAACTATAT-A-ATATATATTTTC-AAAATGTTTT
* *
9222662 AAAAACTATATATTATATTTATTTTCAAAATATTTT
1 AAAAACTATATA--ATATATATTTTCAAAATGTTTT
* *
9222698 AAAAACTATACACTATATAAATGTTTTCAAACATGTTTT
1 AAAAACTAT--A-TA-ATATATATTTTCAAA-ATGTTTT
*
9222737 AAAAACTATATATTATATATATGTTTTAAAAATGTTTT
1 AAAAACTATATA--ATATATA--TTTTCAAAATGTTTT
* *
9222775 -CAAACTATATAACATATAT
1 AAAAACTATATAATATATAT
9222794 ATATATATAT
Statistics
Matches: 331, Mismatches: 27, Indels: 89
0.74 0.06 0.20
Matches are distributed among these distances:
25 6 0.02
26 10 0.03
27 5 0.02
29 24 0.07
30 4 0.01
31 10 0.03
32 4 0.01
33 11 0.03
34 19 0.06
35 22 0.07
36 68 0.21
37 63 0.19
38 52 0.16
39 29 0.09
40 4 0.01
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (34 bp):
AAAAACTATATAATATATATTTTCAAAATGTTTT
Found at i:9222577 original size:25 final size:26
Alignment explanation
Indices: 9222541--9222663 Score: 82
Period size: 25 Copynumber: 5.0 Consensus size: 26
9222531 TTTTAAAAAC
9222541 TATATATATTTTC-AAAATATTTTAA
1 TATATATATTTTCAAAAATATTTTAA
* *
9222566 TATATATTTTTTCAAAAATGTTTTAA
1 TATATATATTTTCAAAAATATTTTAA
* * * ** *
9222592 AAT-TATATATT-ATATTTATTTTCA
1 TATATATATTTTCAAAAATATTTTAA
* *
9222616 -A-A-ATGTTTT-AAAAACTA-TATAA
1 TATATATATTTTCAAAAA-TATTTTAA
*
9222638 TATATATATTTTCAAAAATGTTTTAA
1 TATATATATTTTCAAAAATATTTTAA
9222664 AAACTATATA
Statistics
Matches: 70, Mismatches: 20, Indels: 15
0.67 0.19 0.14
Matches are distributed among these distances:
22 10 0.14
23 4 0.06
24 9 0.13
25 25 0.36
26 22 0.31
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.50
Consensus pattern (26 bp):
TATATATATTTTCAAAAATATTTTAA
Found at i:9222614 original size:128 final size:129
Alignment explanation
Indices: 9222438--9222674 Score: 392
Period size: 128 Copynumber: 1.8 Consensus size: 129
9222428 TTTTCAAAAT
9222438 TATATTGTTTTCAAAAATGTTTTTAAAACTATATATTATATAAGTTTTCAAAATGATTTAAAAAC
1 TATATTGTTTTCAAAAATGTTTTTAAAACTATATATTATATAAGTTTTCAAAATGATTTAAAAAC
9222503 TATATAATATATATAAGTTTTC-AAAATGTTTTAAAAACTATATATATTTTCAAAATATTTTAAT
66 TATATAATATATAT-A-TTTTCAAAAATGTTTTAAAAACTATATATATTTTCAAAATATTTTAAT
9222567 A
129 A
* * *
9222568 TATATT-TTTTCAAAAATG-TTTTAAAATTATATATTATATTTA-TTTTCAAAATGTTTTAAAAA
1 TATATTGTTTTCAAAAATGTTTTTAAAACTATATATTATA-TAAGTTTTCAAAATGATTTAAAAA
9222630 CTATATAATATATATATTTTCAAAAATGTTTTAAAAACTATATAT
65 CTATATAATATATATATTTTCAAAAATGTTTTAAAAACTATATAT
9222675 TATATTTATT
Statistics
Matches: 102, Mismatches: 3, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
126 5 0.05
127 24 0.24
128 53 0.52
129 14 0.14
130 6 0.06
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (129 bp):
TATATTGTTTTCAAAAATGTTTTTAAAACTATATATTATATAAGTTTTCAAAATGATTTAAAAAC
TATATAATATATATATTTTCAAAAATGTTTTAAAAACTATATATATTTTCAAAATATTTTAATA
Found at i:9222698 original size:73 final size:73
Alignment explanation
Indices: 9222546--9222795 Score: 308
Period size: 73 Copynumber: 3.4 Consensus size: 73
9222536 AAAACTATAT
* * * *
9222546 ATATTTTCAAAA-TATTTTAATATATATTTTTTCAAAAATGTTTT-AAAATTATATATTATATTT
1 ATATTTTAAAAACTA-TATAATATATATATTTTCAAAAATGTTTTAAAAACTATATATTATATTT
9222609 ATTTTCAAA
65 ATTTTCAAA
*
9222618 ATGTTTTAAAAACTATATAATATATATATTTTCAAAAATGTTTTAAAAACTATATATTATATTTA
1 ATATTTTAAAAACTATATAATATATATATTTTCAAAAATGTTTTAAAAACTATATATTATATTTA
9222683 TTTTCAAA
66 TTTTCAAA
* * * * *
9222691 ATATTTTAAAAACTATACACTATATAAATGTTTTCAAACATGTTTTAAAAACTATATATTATATA
1 ATATTTTAAAAACTATATA--ATATATATATTTTCAAAAATGTTTTAAAAACTATATATTATATT
*
9222756 TATGTTTTAAA
64 TAT-TTTCAAA
** *
9222767 A-ATGTTTTCAAACTATATAACATATATAT
1 ATAT-TTTAAAAACTATATAATATATATAT
9222796 ATATATATAT
Statistics
Matches: 154, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
72 37 0.24
73 46 0.30
74 7 0.05
75 45 0.29
76 19 0.12
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (73 bp):
ATATTTTAAAAACTATATAATATATATATTTTCAAAAATGTTTTAAAAACTATATATTATATTTA
TTTTCAAA
Found at i:9222813 original size:112 final size:110
Alignment explanation
Indices: 9222610--9222814 Score: 270
Period size: 112 Copynumber: 1.8 Consensus size: 110
9222600 ATTATATTTA
*
9222610 TTTTCAAAATGTTTTAAAAACTATATAATATATATATTTTCAAAAATGTTTTAAAAACTATATAT
1 TTTTCAAAATGTTTTAAAAACTATATAATATATATATTTTCAAAAATGTTTTAAAAACTATATAA
* * * *
9222675 TATATTTATTTTCAAAATATTTTAAAAACTATACACTATATAAATG
66 CATATATATTAT-AAAATATTATAAAAACTATACACTATATAAATG
* * *
9222721 TTTTCAAACATGTTTTAAAAACTATATATTATATATATGTTTTAAAAATGTTTT-CAAACTATAT
1 TTTTCAAA-ATGTTTTAAAAACTATATAATATATATAT-TTTCAAAAATGTTTTAAAAACTATAT
*
9222785 AACATATATA-TATATATATATGTATAAAAA
64 AACATATATATTATA-AAATAT-TATAAAAA
9222815 AAATAGGACG
Statistics
Matches: 81, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
110 1 0.01
111 15 0.19
112 51 0.63
113 14 0.17
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (110 bp):
TTTTCAAAATGTTTTAAAAACTATATAATATATATATTTTCAAAAATGTTTTAAAAACTATATAA
CATATATATTATAAAATATTATAAAAACTATACACTATATAAATG
Found at i:9223489 original size:81 final size:79
Alignment explanation
Indices: 9223313--9223587 Score: 291
Period size: 81 Copynumber: 3.4 Consensus size: 79
9223303 ATGTGTCATC
** * *
9223313 GAGCTGAATGGAATCGAACTCGACAATTTTATTGACAGATAACCCTTCTT-GCCTTGAGCTATGC
1 GAGCTGAATGGAATCGAACTCGA-AGGTCT-TTGGCAGATAACCCTT-TTAGCCTTGAGCTATGC
** *
9223377 TGTGAATGATGTACCTT
63 TGCAAATGATGTGCCTT
* * * * *
9223394 GAGTTAAATGGAATCGAACTCGAAGGTTTTTGGCAAATAACCCTTTTAGCCTTGAGCTATGCTAC
1 GAGCTGAATGGAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTTTAGCCTTGAGCTATGCTGC
9223459 AAATGATAGTGCCTTT
66 AAATGAT-GTGCC-TT
* * * * *
9223475 GAGCTGAGTGGAATCGAACTCTAAGGTCTTTGGCAGATAAACCTTCTAGCCTTGAGTTATGCTGC
1 GAGCTGAATGGAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTTTAGCCTTGAGCTATGCTGC
*
9223540 AAATGATGTGCCATC
66 AAATGATGTGCC-TT
* * *
9223555 GAAGCTGAGTGTAGTCGAACTCGAAGGTCTTTG
1 G-AGCTGAATGGAATCGAACTCGAAGGTCTTTG
9223588 TGTTTCAAGA
Statistics
Matches: 165, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
78 2 0.01
79 35 0.21
80 15 0.09
81 113 0.68
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.31
Consensus pattern (79 bp):
GAGCTGAATGGAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTTTAGCCTTGAGCTATGCTGC
AAATGATGTGCCTT
Found at i:9223630 original size:28 final size:28
Alignment explanation
Indices: 9223590--9223678 Score: 124
Period size: 28 Copynumber: 3.1 Consensus size: 28
9223580 GGTCTTTGTG
9223590 TTTCAAGAGAAACATTTTCAAAGGTTTT
1 TTTCAAGAGAAACATTTTCAAAGGTTTT
*
9223618 TTTCAAGAGAAACATTTTTAAAGGTTTTTTT
1 TTTCAAGAGAAACATTTTCAAAGG---TTTT
* *
9223649 TTTCAAGAGAAACAATTTCGAAGGTTTT
1 TTTCAAGAGAAACATTTTCAAAGGTTTT
9223677 TT
1 TT
9223679 GTGTTACAAG
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
28 29 0.54
31 25 0.46
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.43
Consensus pattern (28 bp):
TTTCAAGAGAAACATTTTCAAAGGTTTT
Found at i:9223716 original size:34 final size:32
Alignment explanation
Indices: 9223584--9223728 Score: 126
Period size: 31 Copynumber: 4.6 Consensus size: 32
9223574 CTCGAAGGTC
*
9223584 TTTGTGTTTCAAGAGAAACATTTTC-AAAG--GT
1 TTTGTG-TTCAAGAGAAACA-TTTCAAAAGTTTT
* *
9223615 TTT-T-TTCAAGAGAAACATTTTTAAAGGTTTT
1 TTTGTGTTCAAGAGAAACA-TTTCAAAAGTTTT
* *
9223646 TTT-T-TTCAAGAGAAACAATTTC-GAAGGTTT
1 TTTGTGTTCAAGAGAAAC-ATTTCAAAAGTTTT
9223676 TTTGTGTTACAAGAGAAACGATTTCAAAAGTTTT
1 TTTGTGTT-CAAGAGAAAC-ATTTCAAAAGTTTT
9223710 TTTGTGTTTCAAGAGAAAC
1 TTTGTG-TTCAAGAGAAAC
9223729 TGTCTCCAAG
Statistics
Matches: 95, Mismatches: 10, Indels: 15
0.79 0.08 0.12
Matches are distributed among these distances:
28 17 0.18
29 3 0.03
30 9 0.09
31 24 0.25
32 3 0.03
33 15 0.16
34 22 0.23
35 2 0.02
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (32 bp):
TTTGTGTTCAAGAGAAACATTTCAAAAGTTTT
Found at i:9223863 original size:21 final size:21
Alignment explanation
Indices: 9223837--9223884 Score: 82
Period size: 19 Copynumber: 2.4 Consensus size: 21
9223827 GGAAACTGTC
9223837 TTAAGAGAGACAAAATTTGTT
1 TTAAGAGAGACAAAATTTGTT
9223858 TT-A-AGAGACAAAATTTGTT
1 TTAAGAGAGACAAAATTTGTT
9223877 TTAAGAGA
1 TTAAGAGA
9223885 AACTGTCTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 18 0.72
20 2 0.08
21 5 0.20
ACGTcount: A:0.44, C:0.04, G:0.19, T:0.33
Consensus pattern (21 bp):
TTAAGAGAGACAAAATTTGTT
Found at i:9223866 original size:19 final size:19
Alignment explanation
Indices: 9223842--9223884 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
9223832 CTGTCTTAAG
9223842 AGAGACAAAATTTGTTTTA
1 AGAGACAAAATTTGTTTTA
9223861 AGAGACAAAATTTGTTTTA
1 AGAGACAAAATTTGTTTTA
9223880 AGAGA
1 AGAGA
9223885 AACTGTCTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.44, C:0.05, G:0.19, T:0.33
Consensus pattern (19 bp):
AGAGACAAAATTTGTTTTA
Found at i:9223904 original size:36 final size:36
Alignment explanation
Indices: 9223861--9224088 Score: 224
Period size: 36 Copynumber: 6.5 Consensus size: 36
9223851 ATTTGTTTTA
*
9223861 AGAGACAAAATTTGTTTTAAGAGAAACTGTCTCAAG
1 AGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAG
* * * *
9223897 AGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCCAG
1 AGAGACAAAA-TTTGTTTCAAGAGAAACTGTCTCAAG
* * *
9223934 GGAGACGAAATTTGTTT-AACGTA-AAACATAT-TC-A-
1 AGAGACAAAATTTGTTTCAA-G-AGAAAC-TGTCTCAAG
* * *
9223968 A-AG----ATTTTGTTTAAAGGGAAACTGTCTCAAG
1 AGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAG
* *
9223999 AGAGACAAAATTTGTTTCAAGTGAAATTGTCTCAAG
1 AGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAG
9224035 AGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAG
1 AGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAG
9224071 AGAGACAAAAATTTGTTT
1 AGAGAC-AAAATTTGTTT
9224089 TGAGTAAATT
Statistics
Matches: 156, Mismatches: 21, Indels: 29
0.76 0.10 0.14
Matches are distributed among these distances:
28 2 0.01
29 15 0.10
30 3 0.02
31 1 0.01
32 2 0.01
33 2 0.01
35 3 0.02
36 85 0.54
37 43 0.28
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.28
Consensus pattern (36 bp):
AGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAG
Found at i:9223939 original size:92 final size:93
Alignment explanation
Indices: 9223770--9224058 Score: 287
Period size: 92 Copynumber: 3.0 Consensus size: 93
9223760 ATAAGCATAT
* * * *
9223770 TCAAAGATTGGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACATTGCTTCATAGGAAACTG
1 TCAAAGATT-TTGTTTAAAGAGAAACTGTCTCAAGAGAGACAAAAC-TTG-TTCAAAAGAAACTG
*
9223835 TCTTAAGAGAGACAAAATTTGTTTTAAGAGA
63 TCTCAAGAGAGACAAAATTTGTTTTAAGAGA
*
9223866 -CAAA-A-TTTGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGT
1 TCAAAGATTTTGTTTAAAGAGAAACTGTCTCAAGAGAGACAAAACTT-GTT-CAAAAGAAACTGT
* * * * *
9223928 CTCCAGGGAGACGAAATTTGTTTAACGTAAAACATA
64 CTCAAGAGAGACAAAATTTGTTT----T--AAGAGA
* * ** *
9223964 TTCAAAGATTTTGTTTAAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGTGAAATTGT
1 -TCAAAGATTTTGTTTAAAGAGAAACTGTCTCAAGAGAGACAAAACTTG-TTCAAAAGAAACTGT
*
9224029 CTCAAGAGAGACAAAATTTGTTTCAAGAGA
64 CTCAAGAGAGACAAAATTTGTTTTAAGAGA
9224059 AACTGTCTCA
Statistics
Matches: 158, Mismatches: 22, Indels: 27
0.76 0.11 0.13
Matches are distributed among these distances:
91 4 0.03
92 65 0.41
93 1 0.01
94 1 0.01
95 8 0.05
96 1 0.01
98 4 0.03
100 4 0.03
101 32 0.20
102 38 0.24
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (93 bp):
TCAAAGATTTTGTTTAAAGAGAAACTGTCTCAAGAGAGACAAAACTTGTTCAAAAGAAACTGTCT
CAAGAGAGACAAAATTTGTTTTAAGAGA
Found at i:9224054 original size:21 final size:21
Alignment explanation
Indices: 9223994--9224058 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
9223984 GGAAACTGTC
9223994 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
* *
9224015 TC-A-AGTG---AAA-TTGTC
1 TCAAGAGAGACAAAATTTGTT
9224030 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
9224051 TCAAGAGA
1 TCAAGAGA
9224059 AACTGTCTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
15 6 0.18
16 4 0.12
17 3 0.09
19 3 0.09
20 4 0.12
21 14 0.41
ACGTcount: A:0.42, C:0.11, G:0.20, T:0.28
Consensus pattern (21 bp):
TCAAGAGAGACAAAATTTGTT
Found at i:9224098 original size:72 final size:73
Alignment explanation
Indices: 9223973--9224115 Score: 211
Period size: 72 Copynumber: 2.0 Consensus size: 73
9223963 ATTCAAAGAT
*
9223973 TTTGTTTAAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGTGAAATT-GTCTCAAG-A
1 TTTGTTTAAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGTGAAATTAGTCTCAAGCA
9224036 GAGACAAAA
66 -AGACAAAA
* **
9224045 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATTTGTTTTGAGT-AAATTAGTCTCAAGC
1 TTTGTTTAAAGAGAAACTGTCTCAAGAGAGAC-AAAATTTGTTTCAAGTGAAATTAGTCTCAAGC
9224109 AAGACAA
65 AAGACAA
9224116 CCCTTTGTTT
Statistics
Matches: 64, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
72 35 0.55
73 28 0.44
74 1 0.02
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.29
Consensus pattern (73 bp):
TTTGTTTAAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGTGAAATTAGTCTCAAGCA
AGACAAAA
Found at i:9224104 original size:37 final size:35
Alignment explanation
Indices: 9223990--9224115 Score: 150
Period size: 36 Copynumber: 3.5 Consensus size: 35
9223980 AAAGGGAAAC
9223990 TGTCTCAAGAGAGACAAAATTTGTTTCA-AGTGAAAT
1 TGTCTCAAGAGAGACAAAATTTGTTT-AGAGT-AAAT
*
9224026 TGTCTCAAGAGAGACAAAATTTGTTTCAAGAG-AAAC
1 TGTCTCAAGAGAGACAAAATTTGTTT--AGAGTAAAT
*
9224062 TGTCTCAAGAGAGACAAAAATTTGTTTTGAGTAAAT
1 TGTCTCAAGAGAGAC-AAAATTTGTTTAGAGTAAAT
9224098 TAGTCTCAAGCA-AGACAA
1 T-GTCTCAAG-AGAGACAA
9224116 CCCTTTGTTT
Statistics
Matches: 80, Mismatches: 4, Indels: 12
0.83 0.04 0.12
Matches are distributed among these distances:
35 3 0.04
36 50 0.62
37 24 0.30
38 3 0.04
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (35 bp):
TGTCTCAAGAGAGACAAAATTTGTTTAGAGTAAAT
Found at i:9224141 original size:73 final size:72
Alignment explanation
Indices: 9223992--9224142 Score: 182
Period size: 73 Copynumber: 2.1 Consensus size: 72
9223982 AGGGAAACTG
9223992 TCTCAAGAGAGACAAAATTTGTTTCAAGTGAAATTGTCTCAAGAGAGACAAAATTTGTTTCAAGA
1 TCTCAAGAGAGACAAAATTTGTTTCAAGTGAAATTGTCTCAAGAGAGACAAAATTTGTTTCAAGA
* **
9224057 GAAACTG
66 AAAACAA
** **
9224064 TCTCAAGAGAGACAAAAATTTGTTTTGAGT-AAATTAGTCTCAAGCA-AGACAACCCTTTGTTTC
1 TCTCAAGAGAGAC-AAAATTTGTTTCAAGTGAAATT-GTCTCAAG-AGAGACAA-AATTTGTTTC
9224127 AA-AAAAACAA
62 AAGAAAAACAA
9224137 TCTCAA
1 TCTCAA
9224143 AGGTGATCGA
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
72 18 0.26
73 39 0.57
74 11 0.16
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (72 bp):
TCTCAAGAGAGACAAAATTTGTTTCAAGTGAAATTGTCTCAAGAGAGACAAAATTTGTTTCAAGA
AAAACAA
Found at i:9229272 original size:4 final size:4
Alignment explanation
Indices: 9229258--9229305 Score: 53
Period size: 4 Copynumber: 12.0 Consensus size: 4
9229248 AGACACAAAA
* * *
9229258 AAAT GAAT AAAT AAAT AAAT AAAT AGAT -AAG AAAT AAAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT
9229306 GTTAAATCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
3 1 0.03
4 31 0.86
5 4 0.11
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:9229337 original size:15 final size:14
Alignment explanation
Indices: 9229317--9229451 Score: 64
Period size: 13 Copynumber: 9.6 Consensus size: 14
9229307 TTAAATCAAG
9229317 AGAAAAAAATGAAAA
1 AGAAAAAAAT-AAAA
9229332 AGAAAAAAATTAAAAA
1 AGAAAAAAA-T-AAAA
*
9229348 ATAAAAAAATAAAA
1 AGAAAAAAATAAAA
* *
9229362 TAG-TAAATA-AAAA
1 -AGAAAAAAATAAAA
* *
9229375 AGAAAAAAGTCAAA
1 AGAAAAAAATAAAA
* *
9229389 GGAAAAGAAT-AAA
1 AGAAAAAAATAAAA
* * *
9229402 ATAAATAAA-AAAT
1 AGAAAAAAATAAAA
*
9229415 AG-AATAAATAAAA
1 AGAAAAAAATAAAA
* *
9229428 AGAAGTAAAAGAAAA
1 AGAA-AAAAATAAAA
*
9229443 TGAAAAAAA
1 AGAAAAAAA
9229452 GAAGAAAAAT
Statistics
Matches: 88, Mismatches: 24, Indels: 17
0.68 0.19 0.13
Matches are distributed among these distances:
12 8 0.09
13 23 0.26
14 23 0.26
15 21 0.24
16 13 0.15
ACGTcount: A:0.76, C:0.01, G:0.10, T:0.13
Consensus pattern (14 bp):
AGAAAAAAATAAAA
Found at i:9229339 original size:8 final size:8
Alignment explanation
Indices: 9229319--9229481 Score: 64
Period size: 8 Copynumber: 19.2 Consensus size: 8
9229309 AAATCAAGAG
9229319 AAAAAAAT
1 AAAAAAAT
* *
9229327 -GAAAAAG
1 AAAAAAAT
9229334 AAAAAAAT
1 AAAAAAAT
*
9229342 TAAAAAAT
1 AAAAAAAT
9229350 AAAAAAAT
1 AAAAAAAT
* *
9229358 AAAATAGT
1 AAAAAAAT
9229366 AAATAAAA-
1 AAA-AAAAT
9229374 AAGAAAAA-
1 AA-AAAAAT
** **
9229382 AGTCAAAGG
1 A-AAAAAAT
*
9229391 AAAAGAAT
1 AAAAAAAT
9229399 AAAATAAAT
1 AAAA-AAAT
9229408 -AAAAAAT
1 AAAAAAAT
*
9229415 AGAATAAAT
1 A-AAAAAAT
9229424 AAAAAGAAGT
1 AAAAA-AA-T
9229434 AAAAGAAAAT
1 -AAA-AAAAT
*
9229444 GAAAAAAAG
1 -AAAAAAAT
9229453 AAGAAAAAT
1 AA-AAAAAT
*
9229462 AAAATCAGAT
1 AAAA--AAAT
9229472 AAAAAAAT
1 AAAAAAAT
9229480 AA
1 AA
9229482 TTAAATATTA
Statistics
Matches: 114, Mismatches: 26, Indels: 30
0.67 0.15 0.18
Matches are distributed among these distances:
7 9 0.08
8 59 0.52
9 27 0.24
10 12 0.11
11 5 0.04
12 2 0.02
ACGTcount: A:0.76, C:0.01, G:0.10, T:0.13
Consensus pattern (8 bp):
AAAAAAAT
Found at i:9229346 original size:7 final size:7
Alignment explanation
Indices: 9229320--9229428 Score: 53
Period size: 7 Copynumber: 14.7 Consensus size: 7
9229310 AATCAAGAGA
9229320 AAAAAAT
1 AAAAAAT
9229327 GAAAAAGA-
1 -AAAAA-AT
9229335 AAAAAATT
1 AAAAAA-T
9229343 AAAAAAT
1 AAAAAAT
9229350 AAAAAA-
1 AAAAAAT
*
9229356 ATAAAAT
1 AAAAAAT
**
9229363 AGTAAAT
1 AAAAAAT
*
9229370 AAAAAAG
1 AAAAAAT
9229377 AAAAAAGT
1 AAAAAA-T
**
9229385 CAAAGGA-
1 -AAAAAAT
*
9229392 AAAGAAT
1 AAAAAAT
9229399 AAAATAAAT
1 -AAA-AAAT
9229408 AAAAAAT
1 AAAAAAT
9229415 AGAATAAAT
1 A-AA-AAAT
9229424 AAAAA
1 AAAAA
9229429 GAAGTAAAAG
Statistics
Matches: 79, Mismatches: 11, Indels: 23
0.70 0.10 0.20
Matches are distributed among these distances:
6 11 0.14
7 34 0.43
8 21 0.27
9 13 0.16
ACGTcount: A:0.77, C:0.01, G:0.08, T:0.14
Consensus pattern (7 bp):
AAAAAAT
Found at i:9229369 original size:57 final size:57
Alignment explanation
Indices: 9229289--9229481 Score: 130
Period size: 57 Copynumber: 3.2 Consensus size: 57
9229279 AATAGATAAG
* * *
9229289 AAATAAAATAAATAAATGTTAAAT-CAAGAGAAAAAAATGAAAAAGAAAAAAATTAAA-
1 AAATAAAA-AAATAAATGTTAAATAAAAAAGAAAAAAAT-AAAAAGAAAAAAATAAAAT
* * * *
9229346 AAATAAAAAAATAAAATAG-TAAATAAAAAAGAAAAAAGTCAAAGGAAAAGAATAAAAT
1 AAATAAAAAAAT-AAAT-GTTAAATAAAAAAGAAAAAAATAAAAAGAAAAAAATAAAAT
9229404 AAAT-AAAAAATAGAA---TAAATAAAAAGAAGTAAAAGAAAATGAAAAAAAGAAGAAAAATAAA
1 AAATAAAAAAATA-AATGTTAAAT-AAAA-AAG--AAA-AAAAT---AAAAAGAA-AAAAATAAA
9229465 AT
56 AT
*
9229467 CAGATAAAAAAATAA
1 -AAATAAAAAAATAA
9229482 TTAAATATTA
Statistics
Matches: 108, Mismatches: 12, Indels: 25
0.74 0.08 0.17
Matches are distributed among these distances:
54 5 0.05
55 4 0.04
56 8 0.07
57 40 0.37
58 19 0.18
59 4 0.04
62 6 0.06
63 10 0.09
64 4 0.04
65 8 0.07
ACGTcount: A:0.74, C:0.02, G:0.10, T:0.15
Consensus pattern (57 bp):
AAATAAAAAAATAAATGTTAAATAAAAAAGAAAAAAATAAAAAGAAAAAAATAAAAT
Found at i:9229373 original size:19 final size:19
Alignment explanation
Indices: 9229346--9229420 Score: 57
Period size: 19 Copynumber: 3.9 Consensus size: 19
9229336 AAAAATTAAA
9229346 AAATAAAAAAATAAAATAGT
1 AAAT-AAAAAATAAAATAGT
* *
9229366 AAATAAAAAAGAAAAAAGT
1 AAATAAAAAATAAAATAGT
*
9229385 CAAAGGAAAAGAAT-AAA-A-T
1 -AAA-TAAAA-AATAAAATAGT
*
9229404 AAATAAAAAATAGAATA
1 AAATAAAAAATAAAATA
9229421 AATAAAAAGA
Statistics
Matches: 44, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
16 3 0.07
17 6 0.14
18 4 0.09
19 14 0.32
20 8 0.18
21 7 0.16
22 2 0.05
ACGTcount: A:0.75, C:0.01, G:0.09, T:0.15
Consensus pattern (19 bp):
AAATAAAAAATAAAATAGT
Found at i:9229436 original size:14 final size:14
Alignment explanation
Indices: 9229345--9229480 Score: 50
Period size: 14 Copynumber: 10.4 Consensus size: 14
9229335 AAAAAATTAA
*
9229345 AAAATA-AAAAAAT
1 AAAATAGAATAAAT
9229358 AAAATAG--TAAAT
1 AAAATAGAATAAAT
* *
9229370 AAAAAAGAAAAAAGT
1 AAAATAGAATAAA-T
* * *
9229385 CAAA-GGAAAAGAAT
1 AAAATAGAATA-AAT
9229399 AAAATA-AAT-AA-
1 AAAATAGAATAAAT
9229410 AAAATAGAATAAAT
1 AAAATAGAATAAAT
*
9229424 AAAA-AGAAGTAAAAG
1 AAAATAGAA-T-AAAT
9229439 AAAAT-GAA-AAA-
1 AAAATAGAATAAAT
*
9229450 AAGA-AGAA-AAAT
1 AAAATAGAATAAAT
9229462 AAAATCAG-ATAAA-
1 AAAAT-AGAATAAAT
9229475 AAAATA
1 AAAATA
9229481 ATTAAATATT
Statistics
Matches: 95, Mismatches: 11, Indels: 35
0.67 0.08 0.25
Matches are distributed among these distances:
11 15 0.16
12 22 0.23
13 18 0.19
14 24 0.25
15 16 0.17
ACGTcount: A:0.75, C:0.01, G:0.10, T:0.13
Consensus pattern (14 bp):
AAAATAGAATAAAT
Found at i:9229448 original size:54 final size:50
Alignment explanation
Indices: 9229337--9229465 Score: 122
Period size: 54 Copynumber: 2.5 Consensus size: 50
9229327 GAAAAAGAAA
*
9229337 AAAATTAAAAAATAAAAAAAT--AAAATAGTAAATAAAAAAGAAAAAAGT
1 AAAATGAAAAAATAAAAAAATAAAAAATAGTAAATAAAAAAGAAAAAAGT
* *
9229385 CAAAGGAAAAGAATAAAATAAATAAAAAATAGAATAAAT-AAAAAGAAGTAAAAG-
1 AAAATGAAAA-AATAAAA-AAATAAAAAATAG--TAAATAAAAAAGAA--AAAAGT
*
9229439 AAAATGAAAAAAAGAAGAAAAATAAAA
1 AAAATG-AAAAAATAA-AAAAATAAAA
9229466 TCAGATAAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 14
0.76 0.07 0.16
Matches are distributed among these distances:
48 7 0.11
49 7 0.11
50 4 0.06
52 7 0.11
53 8 0.12
54 21 0.32
55 11 0.17
ACGTcount: A:0.76, C:0.01, G:0.10, T:0.13
Consensus pattern (50 bp):
AAAATGAAAAAATAAAAAAATAAAAAATAGTAAATAAAAAAGAAAAAAGT
Found at i:9230242 original size:23 final size:18
Alignment explanation
Indices: 9230192--9230227 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
9230182 TATTTGACTC
9230192 TGTTGTGTTTGGTTCGAT
1 TGTTGTGTTTGGTTCGAT
9230210 TGTTGTGTTTGGTTCGAT
1 TGTTGTGTTTGGTTCGAT
9230228 CGATGTTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.06, C:0.06, G:0.33, T:0.56
Consensus pattern (18 bp):
TGTTGTGTTTGGTTCGAT
Found at i:9230678 original size:11 final size:11
Alignment explanation
Indices: 9230666--9230717 Score: 63
Period size: 11 Copynumber: 4.7 Consensus size: 11
9230656 AACGAACCTG
*
9230666 AAAATAAAATG
1 AAAATAAAATA
9230677 AAAATAAAATTA
1 AAAATAAAA-TA
9230689 ATAAA-AAAATA
1 A-AAATAAAATA
9230700 AAAAT-AAATA
1 AAAATAAAATA
9230710 AAAATAAA
1 AAAATAAA
9230718 CAACAATAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
10 13 0.36
11 14 0.39
12 6 0.17
13 3 0.08
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:9230708 original size:10 final size:10
Alignment explanation
Indices: 9230666--9230717 Score: 50
Period size: 10 Copynumber: 4.8 Consensus size: 10
9230656 AACGAACCTG
*
9230666 AAAATAAAATG
1 AAAAT-AAATA
9230677 AAAATAAAATTA
1 AAAAT-AAA-TA
*
9230689 ATAAAAAAATA
1 A-AAATAAATA
9230700 AAAATAAATA
1 AAAATAAATA
9230710 AAAATAAA
1 AAAATAAA
9230718 CAACAATAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
10 16 0.44
11 12 0.33
12 5 0.14
13 3 0.08
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (10 bp):
AAAATAAATA
Found at i:9230709 original size:18 final size:17
Alignment explanation
Indices: 9230677--9230713 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
9230667 AAATAAAATG
*
9230677 AAAATAAAATTAATAAA
1 AAAATAAAATAAATAAA
9230694 AAAATAAAAATAAATAAA
1 AAAAT-AAAATAAATAAA
9230712 AA
1 AA
9230714 TAAACAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (17 bp):
AAAATAAAATAAATAAA
Found at i:9230726 original size:16 final size:16
Alignment explanation
Indices: 9230666--9230717 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
9230656 AACGAACCTG
*
9230666 AAAATAAAATGAAAATA
1 AAAAT-AAATAAAAATA
* *
9230683 AAATTAATAAAAAAATA
1 AAAATAA-ATAAAAATA
9230700 AAAATAAATAAAAATA
1 AAAATAAATAAAAATA
9230716 AA
1 AA
9230718 CAACAATAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
16 12 0.41
17 17 0.59
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (16 bp):
AAAATAAATAAAAATA
Found at i:9230971 original size:29 final size:30
Alignment explanation
Indices: 9230914--9230978 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
9230904 CTATATAATA
9230914 TATATATGTTTTCAAAATGTTTTAAAAAAC
1 TATATATGTTTTCAAAATGTTTTAAAAAAC
*
9230944 TATATATTTTTTCAAAATGTTTT-AAAAAC
1 TATATATGTTTTCAAAATGTTTTAAAAAAC
9230973 TATATA
1 TATATA
9230979 ATATATATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 12 0.35
30 22 0.65
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (30 bp):
TATATATGTTTTCAAAATGTTTTAAAAAAC
Found at i:9231033 original size:39 final size:38
Alignment explanation
Indices: 9230939--9231105 Score: 171
Period size: 39 Copynumber: 4.4 Consensus size: 38
9230929 AATGTTTTAA
*
9230939 AAAACTATAT-ATTTTTTC-AAAATGTTTTAAAAACTAT
1 AAAA-TATATAATATTTTCAAAAATGTTTTAAAAACTAT
*
9230976 ATAATATAT-ATATTTTCAAAAATGTTTTAAAAACTAT
1 AAAATATATAATATTTTCAAAAATGTTTTAAAAACTAT
* * *
9231013 AAAATATATAAATGTTTTCAAACATGTTTTCAAAACTAT
1 AAAATATAT-AATATTTTCAAAAATGTTTTAAAAACTAT
* * * *
9231052 ATATTATATATATATTTT-AAAAATGTTTTCAAACCATAT
1 AAAATATATA-ATATTTTCAAAAATGTTTTAAAAAC-TAT
*
9231091 AATATATATATATAT
1 AAAATATATA-ATAT
9231106 ATATATAAGG
Statistics
Matches: 111, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
36 12 0.11
37 30 0.27
38 16 0.14
39 53 0.48
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (38 bp):
AAAATATATAATATTTTCAAAAATGTTTTAAAAACTAT
Found at i:9231056 original size:105 final size:104
Alignment explanation
Indices: 9230746--9231056 Score: 321
Period size: 105 Copynumber: 3.0 Consensus size: 104
9230736 TATTTATATA
* * * *
9230746 AAAAATATTTTCCAAAAACCTATAT-A-ATATATATTTTCAAAAGTATTTTAAAATTATATATTA
1 AAAAATATTTT--AAAAA-CTATATAATATATATATTTTCAAAAATGTTTTAAAACTATATAATA
* * * * *
9230809 TAT-ATTTTTTTAAAAATAATGTTTTCAAAATTATATA-GTTTTC
63 TATAAATGTTTT--CAA-AATGTTTTCAAAACTATATATTTTTTC
* * * *
9230852 AAAAATATTTTTAAAACTATATATTATATA-AGTTTTC-AAGATGATTTCAAAACTATATAATAT
1 AAAAATATTTTAAAAACTATATAATATATATA-TTTTCAAAAATG-TTTTAAAACTATATAATAT
* *
9230915 ATATATGTTTTCAAAATGTTTTAAAAAACTATATATTTTTTC
64 ATAAATGTTTTCAAAATGTTTT-CAAAACTATATATTTTTTC
* *
9230957 -AAAATGTTTTAAAAACTATATAATATATATATTTTCAAAAATGTTTTAAAAACTATAAAATATA
1 AAAAATATTTTAAAAACTATATAATATATATATTTTCAAAAATGTTTT-AAAACTATATAATATA
9231021 TAAATGTTTTCAAACATGTTTTCAAAACTATATATT
65 TAAATGTTTTCAAA-ATGTTTTCAAAACTATATATT
9231057 ATATATATAT
Statistics
Matches: 171, Mismatches: 23, Indels: 23
0.79 0.11 0.11
Matches are distributed among these distances:
103 14 0.08
104 54 0.32
105 80 0.47
106 23 0.13
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (104 bp):
AAAAATATTTTAAAAACTATATAATATATATATTTTCAAAAATGTTTTAAAACTATATAATATAT
AAATGTTTTCAAAATGTTTTCAAAACTATATATTTTTTC
Found at i:9231097 original size:37 final size:38
Alignment explanation
Indices: 9230944--9231103 Score: 198
Period size: 37 Copynumber: 4.2 Consensus size: 38
9230934 TTTAAAAAAC
* *
9230944 TATATATTTTTTCAAAATGTTTTAAAAACTATATAATA
1 TATATATATTTTAAAAATGTTTTAAAAACTATATAATA
* *
9230982 TATATAT-TTTCAAAAATGTTTTAAAAACTATAAAATA
1 TATATATATTTTAAAAATGTTTTAAAAACTATATAATA
* * * * *
9231019 TATAAATGTTTTCAAACATGTTTTCAAAACTATATATTA
1 TATATATATTTT-AAAAATGTTTTAAAAACTATATAATA
* *
9231058 TATATATATTTTAAAAATGTTTT-CAAACCATATAATA
1 TATATATATTTTAAAAATGTTTTAAAAACTATATAATA
9231095 TATATATAT
1 TATATATAT
9231104 ATATATATAA
Statistics
Matches: 105, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
37 53 0.50
38 20 0.19
39 32 0.30
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (38 bp):
TATATATATTTTAAAAATGTTTTAAAAACTATATAATA
Found at i:9232215 original size:30 final size:30
Alignment explanation
Indices: 9232135--9232293 Score: 112
Period size: 30 Copynumber: 5.4 Consensus size: 30
9232125 CTTAGTAAAA
* *
9232135 TAAAAGACT-AAATAGCAAAAACAGAAATT
1 TAAAGGACTAAAATAGCAAAAACAGAAACT
* * *
9232164 TACAGGACTAAAACAACAAAAACAGAAACT
1 TAAAGGACTAAAATAGCAAAAACAGAAACT
* * *
9232194 TAAAGGATTAAAATAG-TAAAA-A-AAAGT
1 TAAAGGACTAAAATAGCAAAAACAGAAACT
* * *
9232221 TACAGGACTAATATAGCAAAAACATAAAGC-
1 TAAAGGACTAAAATAGCAAAAACAGAAA-CT
* * * **
9232251 TAAGGGACTAAACTAGTATTAACAGAAACT
1 TAAAGGACTAAAATAGCAAAAACAGAAACT
* *
9232281 AAAATGACTAAAA
1 TAAAGGACTAAAA
9232294 CAATAATTAC
Statistics
Matches: 96, Mismatches: 28, Indels: 11
0.71 0.21 0.08
Matches are distributed among these distances:
27 17 0.18
28 5 0.05
29 13 0.14
30 61 0.64
ACGTcount: A:0.58, C:0.12, G:0.13, T:0.18
Consensus pattern (30 bp):
TAAAGGACTAAAATAGCAAAAACAGAAACT
Found at i:9233652 original size:3 final size:3
Alignment explanation
Indices: 9233644--9233786 Score: 279
Period size: 3 Copynumber: 48.0 Consensus size: 3
9233634 TACAAAAGAG
9233644 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
9233692 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
9233739 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
9233787 ATATTTTTGT
Statistics
Matches: 139, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
2 2 0.01
3 137 0.99
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:9234571 original size:6 final size:6
Alignment explanation
Indices: 9234560--9234594 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
9234550 TTTCGTATGA
* *
9234560 CACATG CACATG CACATG CACATA CACATA CACAT
1 CACATG CACATG CACATG CACATG CACATG CACAT
9234595 ATATATATCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.40, C:0.34, G:0.09, T:0.17
Consensus pattern (6 bp):
CACATG
Found at i:9234600 original size:2 final size:2
Alignment explanation
Indices: 9234593--9234699 Score: 133
Period size: 2 Copynumber: 53.0 Consensus size: 2
9234583 ACACATACAC
* * *
9234593 AT AT AT AT AT CT AT AT AT AT AT AT CT AT AT AT AT AT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * *
9234635 AT AT AT AT AG AT AT AT GT AT AT AT AT AG AT AT AT GT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9234677 AT AT AT AT AT AT AT AT GAT AT AT
1 AT AT AT AT AT AT AT AT -AT AT AT
9234700 GGTTATTTTT
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
2 88 0.98
3 2 0.02
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9235140 original size:14 final size:15
Alignment explanation
Indices: 9235115--9235143 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
9235105 ATTTTATACC
9235115 TCAAATATATATTTA
1 TCAAATATATATTTA
9235130 TCAAA-ATATATTTA
1 TCAAATATATATTTA
9235144 AATAATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (15 bp):
TCAAATATATATTTA
Found at i:9238339 original size:18 final size:19
Alignment explanation
Indices: 9238318--9238364 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
9238308 GTAAAAAGAT
9238318 ATTAAAAT-AATAAAAGCA
1 ATTAAAATAAATAAAAGCA
*
9238336 ATT-AAATAAATAAAAGTA
1 ATTAAAATAAATAAAAGCA
*
9238354 ATTAAAGTAAA
1 ATTAAAATAAA
9238365 AATAAGAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 4 0.16
18 15 0.60
19 6 0.24
ACGTcount: A:0.66, C:0.02, G:0.06, T:0.26
Consensus pattern (19 bp):
ATTAAAATAAATAAAAGCA
Found at i:9246930 original size:18 final size:17
Alignment explanation
Indices: 9246883--9246932 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
9246873 AATTTTGGTA
*
9246883 AAAAGATATTAAAATAAT
1 AAAAG-TATTTAAATAAT
* *
9246901 AAAAGCAATTAAATAAAT
1 AAAAGTATTTAAAT-AAT
9246919 AAAAGTATTTAAAT
1 AAAAGTATTTAAAT
9246933 TAAAAATAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 6 0.23
18 20 0.77
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (17 bp):
AAAAGTATTTAAATAAT
Found at i:9248626 original size:8 final size:8
Alignment explanation
Indices: 9248617--9248694 Score: 138
Period size: 8 Copynumber: 9.8 Consensus size: 8
9248607 TATATTCATA
*
9248617 CATACATA
1 CATACATG
9248625 CATACATG
1 CATACATG
9248633 CATACATG
1 CATACATG
9248641 CATACATG
1 CATACATG
9248649 CATACATG
1 CATACATG
9248657 CATACATG
1 CATACATG
9248665 CATACATG
1 CATACATG
9248673 CATACATG
1 CATACATG
*
9248681 CATACATA
1 CATACATG
9248689 CATACA
1 CATACA
9248695 AGAAAATTCT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 68 1.00
ACGTcount: A:0.41, C:0.26, G:0.09, T:0.24
Consensus pattern (8 bp):
CATACATG
Found at i:9248937 original size:55 final size:55
Alignment explanation
Indices: 9248869--9249154 Score: 324
Period size: 55 Copynumber: 5.2 Consensus size: 55
9248859 GTTTTTTAAC
* ** *
9248869 TAAGTCTGATTTTCAGAAGTTTCTTGACAATTTTCAAATGAGCTTTTAAAGAAAT
1 TAAGTCTAATTTTCAGAAGTTTCTTGATGATTTTCAAATGAGCTTTCAAAGAAAT
* *
9248924 TAATTCTAATTTTCAGAAGTTTCTTGATGATTTTTAAATGAGCTTTCAAAGAAAT
1 TAAGTCTAATTTTCAGAAGTTTCTTGATGATTTTCAAATGAGCTTTCAAAGAAAT
* * * * * * *
9248979 TAAGTCTGAGTTCCAGAAATTTCTTGATGATTTTCAAATGAGTTTTTAAAGAAAC
1 TAAGTCTAATTTTCAGAAGTTTCTTGATGATTTTCAAATGAGCTTTCAAAGAAAT
* * * *
9249034 TAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTTAAAAGAACTTTCAAAGAAAT
1 TAAGTCTAATTTTCAGAAGTTTCTTGATGATTTTCAAATGAGCTTTCAAAGAAAT
* * ** * * * *
9249089 TAAGCCTAATTTTTAGGGGTTTCTTGATG-TTTTCAAATGA-ATTTGAAAGGAGT
1 TAAGTCTAATTTTCAGAAGTTTCTTGATGATTTTCAAATGAGCTTTCAAAGAAAT
*
9249142 TAAGCCTAATTTT
1 TAAGTCTAATTTT
9249155 TAGGGGTTCA
Statistics
Matches: 196, Mismatches: 35, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
53 22 0.11
54 9 0.05
55 165 0.84
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.41
Consensus pattern (55 bp):
TAAGTCTAATTTTCAGAAGTTTCTTGATGATTTTCAAATGAGCTTTCAAAGAAAT
Found at i:9249416 original size:37 final size:37
Alignment explanation
Indices: 9249361--9249592 Score: 179
Period size: 37 Copynumber: 6.3 Consensus size: 37
9249351 GATATCTTCG
* ** * *
9249361 TCTCGCTTGAGACAGTTTTACTCGAAACAAAATTTTA
1 TCTCACTTGAGATTGTTTTACTCAAAACAAAATTTCA
* * * *
9249398 TCTCACTTGAGATTGTTTTTCTTAAAAC-AAACTTCG
1 TCTCACTTGAGATTGTTTTACTCAAAACAAAATTTCA
* * * *
9249434 TCTCACTTGAGATGGTTTCACTCGAAACAAAATTTTA
1 TCTCACTTGAGATTGTTTTACTCAAAACAAAATTTCA
* * * * *
9249471 TCTCACTTGAGATTATTTTTCTTAAAAC-AAACTTCG
1 TCTCACTTGAGATTGTTTTACTCAAAACAAAATTTCA
* * *
9249507 TCTCGCTTGAGACAAT-TTTTACTCAAAACAAGAAATTTTA
1 TCTCACTTGAG--ATTGTTTTACTCAAAAC-A-AAATTTCA
*
9249547 TCTCACTTG-GATTGTTTT-CTTAAAA-AAAATTTCA
1 TCTCACTTGAGATTGTTTTACTCAAAACAAAATTTCA
*
9249581 TCTCGCTTGAGA
1 TCTCACTTGAGA
9249593 AAGTTTCCCT
Statistics
Matches: 149, Mismatches: 38, Indels: 18
0.73 0.19 0.09
Matches are distributed among these distances:
34 15 0.10
35 3 0.02
36 43 0.29
37 68 0.46
38 6 0.04
39 1 0.01
40 13 0.09
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (37 bp):
TCTCACTTGAGATTGTTTTACTCAAAACAAAATTTCA
Found at i:9249445 original size:36 final size:36
Alignment explanation
Indices: 9249398--9249518 Score: 143
Period size: 36 Copynumber: 3.3 Consensus size: 36
9249388 CAAAATTTTA
9249398 TCTCACTTGAGATTGTTTTTCTTAAAACAAACTTCG
1 TCTCACTTGAGATTGTTTTTCTTAAAACAAACTTCG
* ** ** * **
9249434 TCTCACTTGAGATGGTTTCACTCGAAACAAAATTTTA
1 TCTCACTTGAGATTGTTTTTCTTAAAAC-AAACTTCG
*
9249471 TCTCACTTGAGATTATTTTTCTTAAAACAAACTTCG
1 TCTCACTTGAGATTGTTTTTCTTAAAACAAACTTCG
*
9249507 TCTCGCTTGAGA
1 TCTCACTTGAGA
9249519 CAATTTTTAC
Statistics
Matches: 66, Mismatches: 18, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
36 39 0.59
37 27 0.41
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (36 bp):
TCTCACTTGAGATTGTTTTTCTTAAAACAAACTTCG
Found at i:9249475 original size:73 final size:73
Alignment explanation
Indices: 9249356--9249598 Score: 346
Period size: 73 Copynumber: 3.3 Consensus size: 73
9249346 CTTGAGATAT
*
9249356 CTTCGTCTCGCTTGAGACAGTTTTACTCGAAACAAAATTTTATCTCACTTGAGATTGTTTTTCTT
1 CTTCGTCTCGCTTGAGAAAGTTTTACTCGAAACAAAATTTTATCTCACTTGAGATTGTTTTTCTT
9249421 AAAACAAA
66 AAAACAAA
* ** * *
9249429 CTTCGTCTCACTTGAGATGGTTTCACTCGAAACAAAATTTTATCTCACTTGAGATTATTTTTCTT
1 CTTCGTCTCGCTTGAGAAAGTTTTACTCGAAACAAAATTTTATCTCACTTGAGATTGTTTTTCTT
9249494 AAAACAAA
66 AAAACAAA
* *
9249502 CTTCGTCTCGCTTGAGACAATTTTTACTCAAAACAAGAAATTTTATCTCACTTG-GATTG-TTTT
1 CTTCGTCTCGCTTGAGA-AAGTTTTACTCGAAAC-A-AAATTTTATCTCACTTGAGATTGTTTTT
*
9249565 CTTAAAAAAAA
63 CTTAAAACAAA
* *
9249576 TTTCATCTCGCTTGAGAAAGTTT
1 CTTCGTCTCGCTTGAGAAAGTTT
9249599 CCCTTGAAAT
Statistics
Matches: 151, Mismatches: 16, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
73 89 0.59
74 40 0.26
75 5 0.03
76 17 0.11
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.39
Consensus pattern (73 bp):
CTTCGTCTCGCTTGAGAAAGTTTTACTCGAAACAAAATTTTATCTCACTTGAGATTGTTTTTCTT
AAAACAAA
Found at i:9250283 original size:139 final size:139
Alignment explanation
Indices: 9250019--9250386 Score: 565
Period size: 139 Copynumber: 2.6 Consensus size: 139
9250009 GGTAAATCAG
9250019 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATA
* * * *
9250084 ATGAGAAGAACTTGTTCAACCTTAACTCTACTCATCACATATGGAGTTGAATCAGTAACACCTCA
66 ATGAGAAGAACTTGTTCAACCTTAGCTCGACTCATCACATATGGAATTGAATCAGCAACACCTCA
**
9250149 CTTGAGGGA
131 CTCAAGGGA
* * * *
9250158 TCAAAATTTTCAGTGGAGAGTTCATAATAAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCACA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATA
* *
9250223 ATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAATTGAATCAGCAACACCTCA
66 ATGAGAAGAACTTGTTCAACCTTAGCTCGACTCATCACATATGGAATTGAATCAGCAACACCTCA
9250288 CTCAAGGGA
131 CTCAAGGGA
* * * * *
9250297 CCAACATTTCCAGTAGAGAGTTCATAATGAGAAGAACTCATCTGATAAGGGAGAAAAAGTTCATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATA
* *
9250362 ATGAGAAGAAATTTTTCAACCTTAG
66 ATGAGAAGAACTTGTTCAACCTTAG
9250387 AAAAACTTGT
Statistics
Matches: 206, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
139 206 1.00
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (139 bp):
TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTAGCTCGACTCATCACATATGGAATTGAATCAGCAACACCTCA
CTCAAGGGA
Found at i:9256211 original size:12 final size:12
Alignment explanation
Indices: 9256194--9256223 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
9256184 ATTGGAGTTG
9256194 TATCCATATCGA
1 TATCCATATCGA
9256206 TATCCATATCGA
1 TATCCATATCGA
9256218 TATCCA
1 TATCCA
9256224 CCATCGTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.33, C:0.27, G:0.07, T:0.33
Consensus pattern (12 bp):
TATCCATATCGA
Found at i:9258857 original size:126 final size:123
Alignment explanation
Indices: 9258632--9258883 Score: 337
Period size: 126 Copynumber: 2.0 Consensus size: 123
9258622 ATTTCTTATT
* * *
9258632 TTGAAGTTTGATTTTTCTATGAAATGACGGAGATTCTCTGCAAAAAAAAGAAGGGAAAACGCGTC
1 TTGAAGTTTGATTTTTCTATGAAATGACAGAGATTCTCTACAAAAAAAAGAAGGGAAAACGCATC
* * * *
9258697 TCCTACAACCAGTCTTTCATTAAGTTTGTCTGATTTTCCATAC-TTTCTCAGTCAATTAA
66 CCCTACAACCAGCCTTTCATTAAGTTTGTATGATTTT-C-TACATTTCTCAATCAATTAA
* *
9258756 TTGAAGTTTGATTTTTAC-ATGACATGACAGAGATTCTCTACAAAAAAAGAAGAAGGGAAAACGT
1 TTGAAGTTTGATTTTT-CTATGAAATGACAGAGATTCTCTAC-AAAAAA-AAGAAGGGAAAACGC
* * *
9258820 ATCCCCTGCAACGAGCCTTTCATTAAGTTTGTATGATTTTCTGCATTTCTCAATCAATTAA
63 ATCCCCTACAACCAGCCTTTCATTAAGTTTGTATGATTTTCTACATTTCTCAATCAATTAA
9258881 TTG
1 TTG
9258884 GGCGATTTTA
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
124 38 0.34
125 26 0.23
126 48 0.43
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (123 bp):
TTGAAGTTTGATTTTTCTATGAAATGACAGAGATTCTCTACAAAAAAAAGAAGGGAAAACGCATC
CCCTACAACCAGCCTTTCATTAAGTTTGTATGATTTTCTACATTTCTCAATCAATTAA
Found at i:9259293 original size:119 final size:120
Alignment explanation
Indices: 9259097--9259338 Score: 292
Period size: 119 Copynumber: 2.0 Consensus size: 120
9259087 AAATTTCCAA
*** *
9259097 TTCTATGAAATGGTAGAGATTTTATGAAAAAAAGGGAAGGGAATGCATCCCCTACAACGAGCCTT
1 TTCTATGAAATGGTAGAGATTTTATGAAAAAAAGGGAAAACAATG-ATCCACTACAACGAGCCTT
* * ** * * *
9259162 TCATTAATTTTGTTTGCTTTTTTTGTATTTCTCAGAT-AATTAATTGAAGTTTATTT
65 TCATTAAATTTGTCTGAGTTTTCTGCATTTCTCAG-TCAATTAATTGAAATTTATTT
* * * *
9259218 TTCTATGAAATGGTAGAGATTTTCTGCAAATAAAGGGAAAACAA-G-TTCACTGCAACGAGCCTT
1 TTCTATGAAATGGTAGAGATTTTATG-AAAAAAAGGGAAAACAATGATCCACTACAACGAGCCTT
*
9259281 TCATTAAATTTGTCTGAGTTTTCTGCATTTTTCAGTCAATTAATTGAAATTTATTT
65 TCATTAAATTTGTCTGAGTTTTCTGCATTTCTCAGTCAATTAATTGAAATTTATTT
9259337 TT
1 TT
9259339 TACATGACAT
Statistics
Matches: 103, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
118 1 0.01
119 63 0.61
121 26 0.25
122 13 0.13
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (120 bp):
TTCTATGAAATGGTAGAGATTTTATGAAAAAAAGGGAAAACAATGATCCACTACAACGAGCCTTT
CATTAAATTTGTCTGAGTTTTCTGCATTTCTCAGTCAATTAATTGAAATTTATTT
Found at i:9262235 original size:23 final size:23
Alignment explanation
Indices: 9262209--9262272 Score: 110
Period size: 23 Copynumber: 2.8 Consensus size: 23
9262199 GGACATTATA
*
9262209 TGGCACTACGGTGCATTTCTACG
1 TGGCACTTCGGTGCATTTCTACG
9262232 TGGCACTTCGGTGCATTTCTACG
1 TGGCACTTCGGTGCATTTCTACG
*
9262255 TGGCACTTCGGTGTATTT
1 TGGCACTTCGGTGCATTT
9262273 ATACTAGCTG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.14, C:0.23, G:0.27, T:0.36
Consensus pattern (23 bp):
TGGCACTTCGGTGCATTTCTACG
Found at i:9269399 original size:32 final size:32
Alignment explanation
Indices: 9269341--9269441 Score: 130
Period size: 32 Copynumber: 3.1 Consensus size: 32
9269331 TTGCATTAAA
* * *
9269341 ATTAAACATGAAAAGAAAAACATAGACATACAC
1 ATTAAACA-GGAAATAAAATCATAGACATACAC
* *
9269374 TTTAAACAGGAAATAAAGTCATAGACATACAC
1 ATTAAACAGGAAATAAAATCATAGACATACAC
*
9269406 ATTAAACAGTAAATAAAATCATAGACATACAAC
1 ATTAAACAGGAAATAAAATCATAGACATAC-AC
9269439 ATT
1 ATT
9269442 TTTTTTATAA
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
32 47 0.80
33 12 0.20
ACGTcount: A:0.55, C:0.15, G:0.09, T:0.21
Consensus pattern (32 bp):
ATTAAACAGGAAATAAAATCATAGACATACAC
Found at i:9278701 original size:85 final size:86
Alignment explanation
Indices: 9278537--9278767 Score: 308
Period size: 85 Copynumber: 2.7 Consensus size: 86
9278527 GTTTGAGAAC
* *
9278537 AAAAAACGCCGCAAAAGGTCGATATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAA-AGTTA
1 AAAAAACGCCGCAAAAGGTC-AGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGAGTAA
*
9278601 TGATATATAGCGGCGTTTCTAG
65 TGACATATAGCGGCGTTTCTAG
*
9278623 AAAAAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTTGATACAAACGCCGCAAAAGAG-AA
1 AAAAAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGA-ACAAACGCCGCAAAAGAGTAA
* *
9278687 T-ACCTATA-CTGGCGTTTTTAG
65 TGACATATAGC-GGCGTTTCTAG
* * * *
9278708 AACAAACACCGCAAAAGGTCAGACCTATAGCGGCGTTTTTGGACACAAACGCTGCAAAAG
1 AAAAAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGA-ACAAACGCCGCAAAAG
9278768 GTCAGACCTA
Statistics
Matches: 130, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
84 1 0.01
85 90 0.69
86 37 0.28
87 2 0.02
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (86 bp):
AAAAAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGAGTAAT
GACATATAGCGGCGTTTCTAG
Found at i:9278772 original size:43 final size:42
Alignment explanation
Indices: 9278540--9278784 Score: 269
Period size: 43 Copynumber: 5.7 Consensus size: 42
9278530 TGAGAACAAA
* * *
9278540 AAACGCCGCAAAAGGTCGATATCTATAGCGGCGTTTTTGGAAC
1 AAACGCCGCAAAAGGTC-AGACCTATAGCGGCGTTTTTAGAAC
* * ** * *
9278583 AAACGCCGCAAAAAGTTATGATATATAGCGGCGTTTCTAGAAA
1 AAACGCCGCAAAAGGTCA-GACCTATAGCGGCGTTTTTAGAAC
* *
9278626 AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTTGATAC
1 AAACGCCGCAAAAGGTCAGACCTATAGCGGCGTTTTTAGA-AC
* *
9278669 AAACGCCGCAAAAGAG-AATACCTATA-CTGGCGTTTTTAGAAC
1 AAACGCCGCAAAAG-GTCAGACCTATAGC-GGCGTTTTTAGAAC
* *
9278711 AAACACCGCAAAAGGTCAGACCTATAGCGGCGTTTTTGGACAC
1 AAACGCCGCAAAAGGTCAGACCTATAGCGGCGTTTTTAGA-AC
* *
9278754 AAACGCTGCAAAAGGTCAGACCTATAACGGC
1 AAACGCCGCAAAAGGTCAGACCTATAGCGGC
9278785 AAAAAGTCAG
Statistics
Matches: 171, Mismatches: 24, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
41 1 0.01
42 55 0.32
43 114 0.67
44 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (42 bp):
AAACGCCGCAAAAGGTCAGACCTATAGCGGCGTTTTTAGAAC
Found at i:9278786 original size:22 final size:22
Alignment explanation
Indices: 9278761--9278806 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
9278751 CACAAACGCT
*
9278761 GCAAAAGGTCAGACCTATAACG
1 GCAAAAAGTCAGACCTATAACG
*
9278783 GCAAAAAGTCAGACCTATAGCG
1 GCAAAAAGTCAGACCTATAACG
9278805 GC
1 GC
9278807 GTTTTTGGAT
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:0.39, C:0.24, G:0.24, T:0.13
Consensus pattern (22 bp):
GCAAAAAGTCAGACCTATAACG
Found at i:9282493 original size:42 final size:42
Alignment explanation
Indices: 9282447--9282763 Score: 373
Period size: 41 Copynumber: 7.7 Consensus size: 42
9282437 ACAATTGCGA
9282447 CGTTTGGTATTAAAACGCCACTAAAGTACGAGTCTATAGCGG
1 CGTTTGGTATTAAAACGCCACTAAAGTACGAGTCTATAGCGG
*
9282489 CGTTTGGTATTAAAACGCCAC-AAGAGTACGTGTCTATAGCGG
1 CGTTTGGTATTAAAACGCCACTAA-AGTACGAGTCTATAGCGG
* *
9282531 CGTTTGTGTA--AACACGCCACTAAAGTACGAATCTATAGCGG
1 CGTTTG-GTATTAAAACGCCACTAAAGTACGAGTCTATAGCGG
* *
9282572 CGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGG
1 CGTTTGGTATTAAAACGCCACTAAAGTACGAGTCTATAGCGG
* *
9282614 CGTTTGTGTA--AAAATGCCACTAAAGTACGAGTCTATAGCGA
1 CGTTTG-GTATTAAAACGCCACTAAAGTACGAGTCTATAGCGG
* * * *
9282655 CGTTT-GTATAAAAACGCCACTAAAATACTAGTTTATAGCGG
1 CGTTTGGTATTAAAACGCCACTAAAGTACGAGTCTATAGCGG
* * * * * *
9282696 CGTTT-GTATAAAAACGCCACTATATTATGATTCTTTAGCGG
1 CGTTTGGTATTAAAACGCCACTAAAGTACGAGTCTATAGCGG
*
9282737 CGTTT-TTA-TACAAACGCCACTAAAGTA
1 CGTTTGGTATTA-AAACGCCACTAAAGTA
9282764 TAGTATTTTG
Statistics
Matches: 238, Mismatches: 28, Indels: 19
0.84 0.10 0.07
Matches are distributed among these distances:
39 3 0.01
40 4 0.02
41 146 0.61
42 79 0.33
43 6 0.03
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (42 bp):
CGTTTGGTATTAAAACGCCACTAAAGTACGAGTCTATAGCGG
Found at i:9282558 original size:83 final size:82
Alignment explanation
Indices: 9282458--9282763 Score: 404
Period size: 83 Copynumber: 3.7 Consensus size: 82
9282448 GTTTGGTATT
9282458 AAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGGTATTAAAACGCCACAAGAGTACGTGTC
1 AAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGGTATTAAAACGCCACAA-AGTACGTGTC
9282523 TATAGCGGCGTTTGTGTA
65 TATAGCGGCGTTTGTGTA
* *
9282541 AACACGCCACTAAAGTACGAATCTATAGCGGCGTTTGGTATTAAAACGCCACAAAAGTACGTGTC
1 AAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGGTATTAAAACGCCAC-AAAGTACGTGTC
9282606 TATAGCGGCGTTTGTGTA
65 TATAGCGGCGTTTGTGTA
* * * *
9282624 AAAATGCCACTAAAGTACGAGTCTATAGCGACGTTT-GTATAAAAACGCCACTAAAATAC-TAGT
1 AAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGGTATTAAAACGCCAC-AAAGTACGT-GT
* *
9282687 TTATAGCGGCGTTTGTATA
64 CTATAGCGGCGTTTGTGTA
* * * * * *
9282706 AAAACGCCACTATATTATGATTCTTTAGCGGCGTTT-TTA-TACAAACGCCACTAAAGTA
1 AAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGGTATTA-AAACGCCAC-AAAGTA
9282764 TAGTATTTTG
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
81 2 0.01
82 85 0.43
83 110 0.55
84 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (82 bp):
AAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGGTATTAAAACGCCACAAAGTACGTGTCT
ATAGCGGCGTTTGTGTA
Found at i:9290351 original size:3 final size:3
Alignment explanation
Indices: 9290300--9290337 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
9290290 TTTCCTTGTT
9290300 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
9290338 TGATGTGTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:9292839 original size:19 final size:19
Alignment explanation
Indices: 9292792--9292846 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
9292782 CAAACTTGAC
9292792 ATCAATAACATCAAACTCTAT
1 ATCAATAA-ATCAAA-TCTAT
*
9292813 ATCCATAAATCAAATCTAAT
1 ATCAATAAATCAAATCT-AT
*
9292833 AT-AATAAATAAAAT
1 ATCAATAAATCAAAT
9292847 TTTTCATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 13 0.43
20 10 0.33
21 7 0.23
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (19 bp):
ATCAATAAATCAAATCTAT
Found at i:9294178 original size:15 final size:16
Alignment explanation
Indices: 9294145--9294183 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
9294135 CTCAATTATC
*
9294145 AAAATAAAATGAATTA
1 AAAATAAAATGAATAA
*
9294161 AAAATATAAT-AATAA
1 AAAATAAAATGAATAA
9294176 AAAATAAA
1 AAAATAAA
9294184 TTTTTAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (16 bp):
AAAATAAAATGAATAA
Found at i:9294582 original size:15 final size:15
Alignment explanation
Indices: 9294562--9294601 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
9294552 ATCATCATCA
9294562 TTTTAAATTATAATC
1 TTTTAAATTATAATC
*
9294577 TTTTAAATTATAATT
1 TTTTAAATTATAATC
9294592 TTTTAAATTA
1 TTTTAAATTA
9294602 AAGAAATACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTTAAATTATAATC
Found at i:9295073 original size:22 final size:22
Alignment explanation
Indices: 9295048--9295089 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
9295038 TTAAATCGAT
*
9295048 AAAAA-AATTAAAATAATATCTG
1 AAAAATAAATAAAAT-ATATCTG
9295070 AAAAATAAATAAAATATATC
1 AAAAATAAATAAAATATATC
9295090 AGGATAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.26
Consensus pattern (22 bp):
AAAAATAAATAAAATATATCTG
Found at i:9302328 original size:23 final size:23
Alignment explanation
Indices: 9302302--9302367 Score: 80
Period size: 23 Copynumber: 2.8 Consensus size: 23
9302292 GTTTTTTTGT
9302302 GTTTG-TGTTGTTCGTTTATCTTC
1 GTTTGTTG-TGTTCGTTTATCTTC
* *
9302325 GTTTATTGTGTTCGTTTATGTTC
1 GTTTGTTGTGTTCGTTTATCTTC
*
9302348 GTTCGTTCGTGTTCGTTTAT
1 GTTTGTT-GTGTTCGTTTAT
9302368 GTTTTAAATG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
23 23 0.62
24 14 0.38
ACGTcount: A:0.06, C:0.12, G:0.23, T:0.59
Consensus pattern (23 bp):
GTTTGTTGTGTTCGTTTATCTTC
Found at i:9303203 original size:22 final size:22
Alignment explanation
Indices: 9303176--9303217 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
9303166 TTTATAGAAT
9303176 ATGTGCACATTGTTAATAATTA
1 ATGTGCACATTGTTAATAATTA
9303198 ATGTGCACATTGTTAATAAT
1 ATGTGCACATTGTTAATAAT
9303218 AAAAAAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.40
Consensus pattern (22 bp):
ATGTGCACATTGTTAATAATTA
Found at i:9304281 original size:34 final size:30
Alignment explanation
Indices: 9304243--9304311 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 30
9304233 TTGATATAAC
9304243 AATTTAAGGCAAAATGGTTTTTGGACTTGAATTG
1 AATTTAA--CAAAAT-GTTTTTGGACTT-AATTG
9304277 AATTT-ACAAAATGTTTTTGGACTTAATTG
1 AATTTAACAAAATGTTTTTGGACTTAATTG
9304306 AATTTA
1 AATTTA
9304312 TTCAAAGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
29 10 0.29
30 12 0.35
31 6 0.18
33 1 0.03
34 5 0.15
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (30 bp):
AATTTAACAAAATGTTTTTGGACTTAATTG
Found at i:9304322 original size:29 final size:30
Alignment explanation
Indices: 9304252--9304311 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
9304242 CAATTTAAGG
9304252 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
9304283 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
9304312 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:9304440 original size:22 final size:19
Alignment explanation
Indices: 9304391--9304468 Score: 75
Period size: 21 Copynumber: 3.8 Consensus size: 19
9304381 AGAGTGTCAA
*
9304391 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCA--CATGC
9304412 AGTGCATCCATGCACATGCAC
1 AGTGCATCCATGCACATG--C
* *
9304433 TAGTGCATCGATGTACCATGC
1 -AGTGCATCCATGCA-CATGC
9304454 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
9304469 TGAAACACCG
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
19 4 0.08
20 12 0.25
21 16 0.33
22 12 0.25
23 4 0.08
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.22
Consensus pattern (19 bp):
AGTGCATCCATGCACATGC
Found at i:9304514 original size:20 final size:20
Alignment explanation
Indices: 9304489--9304562 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
9304479 AATGCAATTA
*
9304489 GTGCATCGATGCATCCTTCT
1 GTGCATCGATGCATCCTGCT
**
9304509 GTGCATCGATGCATCAAGGCT
1 GTGCATCGATGCATC-CTGCT
*
9304530 GTGCATCGATGCATTCTGCT
1 GTGCATCGATGCATCCTGCT
*
9304550 GTGCATCCATGCA
1 GTGCATCGATGCA
9304563 CGAAGGCTGC
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
20 30 0.65
21 16 0.35
ACGTcount: A:0.19, C:0.27, G:0.24, T:0.30
Consensus pattern (20 bp):
GTGCATCGATGCATCCTGCT
Found at i:9304536 original size:41 final size:41
Alignment explanation
Indices: 9304489--9304571 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 41
9304479 AATGCAATTA
* *
9304489 GTGCATCGATGCATCCTTCTGTGCATCGATGCATC-AAGGCT
1 GTGCATCGATGCATCCTGCTGTGCATCCATGCA-CGAAGGCT
*
9304530 GTGCATCGATGCATTCTGCTGTGCATCCATGCACGAAGGCT
1 GTGCATCGATGCATCCTGCTGTGCATCCATGCACGAAGGCT
9304571 G
1 G
9304572 CAACGGCTAG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 1 0.03
41 37 0.97
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.28
Consensus pattern (41 bp):
GTGCATCGATGCATCCTGCTGTGCATCCATGCACGAAGGCT
Done.