Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_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: 17174986
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 59 of 78
Found at i:11939193 original size:15 final size:16
Alignment explanation
Indices: 11939168--11939197 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11939158 TACATTAAGA
11939168 GTTATAAATATATATT
1 GTTATAAATATATATT
11939184 GTTA-AAATATATAT
1 GTTATAAATATATAT
11939198 ATTTCATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (16 bp):
GTTATAAATATATATT
Found at i:11939408 original size:55 final size:55
Alignment explanation
Indices: 11939228--11939441 Score: 261
Period size: 55 Copynumber: 3.9 Consensus size: 55
11939218 CTATGTGTAC
* * *
11939228 TACAAGCACTTTCTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATCACCG
1 TACATGCACTTTGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATCACCG
* * ** *
11939283 TACATGCAATTTGTGTACAAATCCATGGAATTCATCATGAGTTGATGAATCGCCG
1 TACATGCACTTTGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATCACCG
* * *
11939338 TACATGTACTTTGTGTGCAAATCTACAGAATTCATCATGAGTTGATCAATCACCG
1 TACATGCACTTTGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATCACCG
* * * * *
11939393 TAC-CGACACTATGTGTGC-AACCCACAAAATTCTTCATGAGTTGATGAAT
1 TACATG-CACTTTGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAAT
11939442 TTTTGTATAG
Statistics
Matches: 136, Mismatches: 22, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
54 27 0.20
55 109 0.80
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (55 bp):
TACATGCACTTTGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATCACCG
Found at i:11942981 original size:76 final size:76
Alignment explanation
Indices: 11942829--11943036 Score: 276
Period size: 76 Copynumber: 2.7 Consensus size: 76
11942819 CAAAGCCAAA
* * **
11942829 AATTACAGATTGCTCAGAGGGAACCGATTCCCCCCCATAGGAGGAACCGATTCCCCCTAAATGGC
1 AATTCCAGAATGCTCAGAGGGAACCGATT-CCCCCCATAGGAGGAACCGATTCCCCCTAAACAGC
11942894 TTTGGCCCCGAG
65 TTTGGCCCCGAG
*
11942906 ATTTCCAGAATGCTCAGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCTCTAAACAG-
1 AATTCCAGAATGCTCAGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCC-CTAAACAGC
* *
11942970 TTTTGCTCCGAG
65 TTTGGCCCCGAG
* * * * *
11942982 AATTCCAGTATGCTCGGAGGGAACCGATCCCCCCCA-AGGGGGTACCGATTCCCCC
1 AATTCCAGAATGCTCAGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCC
11943037 CTTGTACAAC
Statistics
Matches: 117, Mismatches: 13, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
74 1 0.01
75 16 0.14
76 68 0.58
77 32 0.27
ACGTcount: A:0.25, C:0.32, G:0.23, T:0.20
Consensus pattern (76 bp):
AATTCCAGAATGCTCAGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGCT
TTGGCCCCGAG
Found at i:11951600 original size:76 final size:77
Alignment explanation
Indices: 11951449--11951657 Score: 300
Period size: 76 Copynumber: 2.8 Consensus size: 77
11951439 CAAAGCCAAA
* * * **
11951449 AATTACAGATTGCTCAGAGGGAACCGATTCCCCCCATAGGAGGAACCGATT-CCCCCTAAATGGT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
11951513 TTTGGCCCCGAG
66 TTTGGCCCCGAG
*
11951525 ATTTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
*
11951590 TTT-GCTCCGAG
66 TTTGGCCCCGAG
* *
11951601 AATTCCAGTATGCTCGGAGGGAACCGATCCCCCCCA-AGG-GGATACCGATTCCCCCCT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGA-ACCGATTCCCCCCT
11951658 TGTACAACGG
Statistics
Matches: 121, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
74 3 0.02
75 17 0.14
76 87 0.72
77 14 0.12
ACGTcount: A:0.25, C:0.32, G:0.23, T:0.20
Consensus pattern (77 bp):
AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
TTTGGCCCCGAG
Found at i:11952294 original size:26 final size:26
Alignment explanation
Indices: 11952258--11952309 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
11952248 TGTAAATCGC
11952258 TGTGCAATTACTTTCAATTTTCTGTA
1 TGTGCAATTACTTTCAATTTTCTGTA
11952284 TGTGCAATTACTTTCAATTTTCTGTA
1 TGTGCAATTACTTTCAATTTTCTGTA
11952310 AAAGCTTCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.15, G:0.12, T:0.50
Consensus pattern (26 bp):
TGTGCAATTACTTTCAATTTTCTGTA
Found at i:11955345 original size:55 final size:55
Alignment explanation
Indices: 11955274--11955542 Score: 351
Period size: 55 Copynumber: 4.9 Consensus size: 55
11955264 CTATGTGTAC
* *
11955274 TACAGGCACTTTGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATCACCG
1 TACATGCACTTTGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATCACCG
* *
11955329 TACATGCACTTTGTGTGCAAATCCACGGAATTCATCATTAGTTGATGAATCATCG
1 TACATGCACTTTGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATCACCG
* ** * * * *
11955384 TACATACACTTTCAGTGCAAATCTACGGAATTCATCACGAGTTGATAAATCACAG
1 TACATGCACTTTGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATCACCG
* * * * *
11955439 TACATGCACTTTGAGTGCAAATCTACGGAATTCATCACGAGTCGATGAATCATCG
1 TACATGCACTTTGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATCACCG
* * * *
11955494 TACAGGCACTATGTTTGC-AACCCACGGAATTCATCATGAGTTGATGAAT
1 TACATGCACTTTGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAAT
11955543 TTCCGTATAG
Statistics
Matches: 187, Mismatches: 27, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
54 27 0.14
55 160 0.86
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.29
Consensus pattern (55 bp):
TACATGCACTTTGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATCACCG
Found at i:11955690 original size:2 final size:2
Alignment explanation
Indices: 11955683--11955714 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
11955673 AATTGTTACC
11955683 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11955715 GTTTATAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11968405 original size:16 final size:16
Alignment explanation
Indices: 11968384--11968415 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11968374 TTTATTCACG
11968384 TTATTTTAAAATTAAA
1 TTATTTTAAAATTAAA
*
11968400 TTATTTTAAGATTAAA
1 TTATTTTAAAATTAAA
11968416 CAAATTTTAG
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:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
TTATTTTAAAATTAAA
Found at i:11970564 original size:15 final size:15
Alignment explanation
Indices: 11970544--11970573 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11970534 CTGACCCTTC
11970544 TCCGACCTGATCCGA
1 TCCGACCTGATCCGA
*
11970559 TCCGACCTGGTCCGA
1 TCCGACCTGATCCGA
11970574 CCGTTGACCA
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:0.17, C:0.40, G:0.23, T:0.20
Consensus pattern (15 bp):
TCCGACCTGATCCGA
Found at i:11970594 original size:18 final size:18
Alignment explanation
Indices: 11970571--11970605 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11970561 CGACCTGGTC
11970571 CGACCGTTGACCATTGAT
1 CGACCGTTGACCATTGAT
*
11970589 CGACCGTTGACCGTTGA
1 CGACCGTTGACCATTGA
11970606 CTTTGACAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.29, G:0.26, T:0.26
Consensus pattern (18 bp):
CGACCGTTGACCATTGAT
Found at i:11971438 original size:37 final size:37
Alignment explanation
Indices: 11971379--11971500 Score: 111
Period size: 39 Copynumber: 3.2 Consensus size: 37
11971369 GACCTTACCT
* * *
11971379 CTTACTGCAGACTCATCGGCTTTGTGCA-AGGTAACTC
1 CTTACTGCAGGCTCCTCTGCTTTGTGCACAGGTAAC-C
* *
11971416 CTTACTACAGGCTCCTCTGCTTTGTGCACAGGATAAGAC
1 CTTACTGCAGGCTCCTCTGCTTTGTGCACAGG-TAA-CC
* * * *
11971455 CTTACCGCATGATCCTCTGCTTTGTGCATATGGTAAGCC
1 CTTACTGCAGGCTCCTCTGCTTTGTGCACA-GGTAA-CC
11971494 CTTACTG
1 CTTACTG
11971501 GGTGTACAGG
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
37 24 0.35
38 3 0.04
39 40 0.58
40 2 0.03
ACGTcount: A:0.20, C:0.28, G:0.20, T:0.31
Consensus pattern (37 bp):
CTTACTGCAGGCTCCTCTGCTTTGTGCACAGGTAACC
Found at i:11973888 original size:26 final size:26
Alignment explanation
Indices: 11973822--11973878 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
11973812 CACTTTCTTA
* *
11973822 ATCTAATGAAAAATAGTGATTCATCT
1 ATCTAATGAAAATTAGCGATTCATCT
11973848 ATCTAATGAAAATTAGCGATTCATCT
1 ATCTAATGAAAATTAGCGATTCATCT
11973874 ATCTA
1 ATCTA
11973879 CTGCGAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35
Consensus pattern (26 bp):
ATCTAATGAAAATTAGCGATTCATCT
Found at i:11982293 original size:27 final size:27
Alignment explanation
Indices: 11982241--11982296 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
11982231 AAAGTCAATG
* *
11982241 AGTTGACTCAGTGAGTTAACCCAACTA
1 AGTTGACTCAGTGACTGAACCCAACTA
* *
11982268 AGTTGACTCAGTGACTGGACCGAACTA
1 AGTTGACTCAGTGACTGAACCCAACTA
11982295 AG
1 AG
11982297 AGGGTCGAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.23
Consensus pattern (27 bp):
AGTTGACTCAGTGACTGAACCCAACTA
Found at i:11992686 original size:20 final size:21
Alignment explanation
Indices: 11992663--11992726 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 21
11992653 GAACTCCAAT
*
11992663 TTCGCAACACAG-TTTTCGAA
1 TTCGCAACACAGAATTTCGAA
* * *
11992683 TTCGTAACTC-GAATTTGGAA
1 TTCGCAACACAGAATTTCGAA
* *
11992703 TTCGCAACACATAATTTGGAA
1 TTCGCAACACAGAATTTCGAA
11992724 TTC
1 TTC
11992727 AGAACTCGAA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
19 1 0.03
20 22 0.63
21 12 0.34
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (21 bp):
TTCGCAACACAGAATTTCGAA
Found at i:11992733 original size:41 final size:42
Alignment explanation
Indices: 11992659--11992755 Score: 121
Period size: 41 Copynumber: 2.3 Consensus size: 42
11992649 ACATGAACTC
11992659 CAATTTCGCAACACAGTTTTCGAATTCGTAACTCGAATTTG-
1 CAATTTCGCAACACAGTTTTCGAATTCGTAACTCGAATTTGA
* *
11992700 GAA-TTCGCAACACA-TAATTTGGAATTCAG-AACTCGAATTTGA
1 CAATTTCGCAACACAGT--TTTCGAATTC-GTAACTCGAATTTGA
11992742 CAATTTCGCAACAC
1 CAATTTCGCAACAC
11992756 GAATTTCTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
39 1 0.02
40 11 0.23
41 23 0.48
42 3 0.06
43 10 0.21
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (42 bp):
CAATTTCGCAACACAGTTTTCGAATTCGTAACTCGAATTTGA
Found at i:11992809 original size:20 final size:20
Alignment explanation
Indices: 11992786--11992872 Score: 59
Period size: 20 Copynumber: 4.3 Consensus size: 20
11992776 GATTTTTAAA
*
11992786 TTCGCAACACGAGTTTCCTT
1 TTCGCAACACGAATTTCCTT
* * * *
11992806 TTCGTAACAAG-ATTTTCTAA
1 TTCGCAACACGAATTTCCT-T
** * *
11992826 TTCTTAACGCGAATTTCATT
1 TTCGCAACACGAATTTCCTT
* *
11992846 TTCGCAACAGGAATTTCGTT
1 TTCGCAACACGAATTTCCTT
11992866 TTCGCAA
1 TTCGCAA
11992873 TTCGATTTTT
Statistics
Matches: 49, Mismatches: 16, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
19 5 0.10
20 39 0.80
21 5 0.10
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (20 bp):
TTCGCAACACGAATTTCCTT
Found at i:11992820 original size:40 final size:40
Alignment explanation
Indices: 11992746--11992854 Score: 103
Period size: 40 Copynumber: 2.7 Consensus size: 40
11992736 ATTTGACAAT
* **
11992746 TTCGCAACACGAATTTCTTTTTCACAACTTGATTTTTAAA
1 TTCGCAACACGAATTTCCTTTTCACAACAAGATTTTTAAA
* **
11992786 TTCGCAACACGAGTTTCCTTTTCGTAACAAGATTTTCT-AA
1 TTCGCAACACGAATTTCCTTTTCACAACAAGATTTT-TAAA
** * * *
11992826 TTCTTAACGCGAATTTCATTTTCGCAACA
1 TTCGCAACACGAATTTCCTTTTCACAACA
11992855 GGAATTTCGT
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
40 55 0.98
41 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.39
Consensus pattern (40 bp):
TTCGCAACACGAATTTCCTTTTCACAACAAGATTTTTAAA
Found at i:11992854 original size:60 final size:60
Alignment explanation
Indices: 11992786--11992915 Score: 145
Period size: 60 Copynumber: 2.2 Consensus size: 60
11992776 GATTTTTAAA
* * * * *
11992786 TTCGCAACACGAGTTTCCTTTTCGTAACAAGATTTTCT-AATTCTTAACGCGAATTTCATT
1 TTCGCAACACGAATTTCCTTTTCGCAACAAGATTTT-TGAATTCATAACACGAATTTCAAT
* * *** *
11992846 TTCGCAACAGGAATTTCGTTTTCGCAATTCGATTTTTGAATTCATAACACGAATTTTAAT
1 TTCGCAACACGAATTTCCTTTTCGCAACAAGATTTTTGAATTCATAACACGAATTTCAAT
11992906 TTCGCAACAC
1 TTCGCAACAC
11992916 AAATGTTTTG
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
59 1 0.02
60 56 0.98
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.38
Consensus pattern (60 bp):
TTCGCAACACGAATTTCCTTTTCGCAACAAGATTTTTGAATTCATAACACGAATTTCAAT
Found at i:11992914 original size:20 final size:20
Alignment explanation
Indices: 11992743--11992915 Score: 55
Period size: 20 Copynumber: 8.7 Consensus size: 20
11992733 CGAATTTGAC
11992743 AATTTCGCAACACGAATTTCT
1 AATTTCGCAACACGAATTT-T
* * ** *
11992764 -TTTTCACAACTTGATTTTT
1 AATTTCGCAACACGAATTTT
* * *
11992783 AAATTCGCAACACGAGTTTC
1 AATTTCGCAACACGAATTTT
** * * *
11992803 CTTTTCGTAACAAGATTTTCT
1 AATTTCGCAACACGAATTT-T
** * *
11992824 AA-TTCTTAACGCGAATTTC
1 AATTTCGCAACACGAATTTT
* * *
11992843 ATTTTCGCAACAGGAATTTC
1 AATTTCGCAACACGAATTTT
** ** *
11992863 GTTTTCGCAATTCGATTTTT
1 AATTTCGCAACACGAATTTT
**
11992883 GAA-TTCATAACACGAATTTT
1 -AATTTCGCAACACGAATTTT
11992903 AATTTCGCAACAC
1 AATTTCGCAACAC
11992916 AAATGTTTTG
Statistics
Matches: 101, Mismatches: 46, Indels: 11
0.64 0.29 0.07
Matches are distributed among these distances:
19 4 0.04
20 97 0.96
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.39
Consensus pattern (20 bp):
AATTTCGCAACACGAATTTT
Found at i:11995647 original size:12 final size:12
Alignment explanation
Indices: 11995630--11995665 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
11995620 AGTAAAGGGA
11995630 AATCAAAATCGC
1 AATCAAAATCGC
*
11995642 AATCAAAATCCC
1 AATCAAAATCGC
*
11995654 AATCACAATCGC
1 AATCAAAATCGC
11995666 CTTCACCTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.47, C:0.31, G:0.06, T:0.17
Consensus pattern (12 bp):
AATCAAAATCGC
Found at i:11995939 original size:13 final size:13
Alignment explanation
Indices: 11995921--11995967 Score: 67
Period size: 13 Copynumber: 3.6 Consensus size: 13
11995911 TGCGTCATAA
* *
11995921 ATTTATGACGCGC
1 ATTTATGACACAC
11995934 ATTTATGACACAC
1 ATTTATGACACAC
*
11995947 ATTTATGACACAT
1 ATTTATGACACAC
11995960 ATTTATGA
1 ATTTATGA
11995968 AGTTCATTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (13 bp):
ATTTATGACACAC
Found at i:11996139 original size:2 final size:2
Alignment explanation
Indices: 11996132--11996166 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
11996122 TTTCGTAAAT
11996132 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11996167 TGTAGATTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11999903 original size:15 final size:15
Alignment explanation
Indices: 11999883--11999911 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
11999873 GGACTGCTGC
11999883 AAAGAGAAAAAGGGA
1 AAAGAGAAAAAGGGA
11999898 AAAGAGAAAAAGGG
1 AAAGAGAAAAAGGG
11999912 GAAGCATGCG
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:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (15 bp):
AAAGAGAAAAAGGGA
Found at i:12000661 original size:27 final size:27
Alignment explanation
Indices: 12000631--12000689 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
12000621 CCATAACTCA
*
12000631 AAAATTGAATTCGCAATTCGCAACACG
1 AAAATTGAATTCACAATTCGCAACACG
12000658 AAAATTGAATTCACAATTCGCAACACG
1 AAAATTGAATTCACAATTCGCAACACG
12000685 AAAAT
1 AAAAT
12000690 CGCAACTCGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.46, C:0.20, G:0.12, T:0.22
Consensus pattern (27 bp):
AAAATTGAATTCACAATTCGCAACACG
Found at i:12000694 original size:14 final size:14
Alignment explanation
Indices: 12000675--12000705 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
12000665 AATTCACAAT
12000675 TCGCAACACGAAAA
1 TCGCAACACGAAAA
*
12000689 TCGCAACTCGAAAA
1 TCGCAACACGAAAA
12000703 TCG
1 TCG
12000706 AATTCGTAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.29, G:0.16, T:0.13
Consensus pattern (14 bp):
TCGCAACACGAAAA
Found at i:12000722 original size:20 final size:20
Alignment explanation
Indices: 12000684--12000737 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
12000674 TTCGCAACAC
* *
12000684 GAAAATCGCAACTCGAAAAT
1 GAAATTCGCAACTCAAAAAT
*
12000704 CG-AATTCGTAACTCAAAAAT
1 -GAAATTCGCAACTCAAAAAT
12000724 GAAATTCGCAACTC
1 GAAATTCGCAACTC
12000738 GAAATCGAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 1 0.04
20 26 0.93
21 1 0.04
ACGTcount: A:0.44, C:0.22, G:0.13, T:0.20
Consensus pattern (20 bp):
GAAATTCGCAACTCAAAAAT
Found at i:12000792 original size:27 final size:26
Alignment explanation
Indices: 12000762--12000812 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
12000752 AATTTGATTT
*
12000762 TCTTAAAGATAGTTTGCCTTCAACAGG
1 TCTT-AAGATAGCTTGCCTTCAACAGG
**
12000789 TCTTTTGATAGCTTGCCTTCAACA
1 TCTTAAGATAGCTTGCCTTCAACA
12000813 TAATGCAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 17 0.81
27 4 0.19
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (26 bp):
TCTTAAGATAGCTTGCCTTCAACAGG
Found at i:12003188 original size:21 final size:21
Alignment explanation
Indices: 12003162--12003257 Score: 115
Period size: 21 Copynumber: 4.6 Consensus size: 21
12003152 AGTATGGAAT
12003162 GTGGATCCTGAACGATGCGG-G
1 GTGGATCCTGAACGATG-GGAG
12003183 GTGGATCCTGAACGATGGGAG
1 GTGGATCCTGAACGATGGGAG
*
12003204 GTGGATCCTGAATGATGGGAG
1 GTGGATCCTGAACGATGGGAG
* * *
12003225 G-GGCCTCTTGAACGATGAGAG
1 GTGG-ATCCTGAACGATGGGAG
*
12003246 GTGAATCCTGAA
1 GTGGATCCTGAA
12003258 GAATGAGAGG
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
20 4 0.06
21 59 0.92
22 1 0.02
ACGTcount: A:0.24, C:0.16, G:0.40, T:0.21
Consensus pattern (21 bp):
GTGGATCCTGAACGATGGGAG
Found at i:12003673 original size:42 final size:42
Alignment explanation
Indices: 12003625--12003815 Score: 222
Period size: 42 Copynumber: 4.5 Consensus size: 42
12003615 TGAAACAATC
* * *
12003625 TCACGTAGAGCACCTACCTCTTCATGTAAAGCACCATTGTCA
1 TCACGTAAAGCACCTACCTCATCACGTAAAGCACCATTGTCA
* * * **
12003667 TAACGTAAAACAGCTACCTCATCAATTAAAGCACCATTGTCA
1 TCACGTAAAGCACCTACCTCATCACGTAAAGCACCATTGTCA
* *
12003709 TCACGTAAAGCAGCC-ACCTCACCACGTAAAGCACAATTGTCA
1 TCACGTAAAGCA-CCTACCTCATCACGTAAAGCACCATTGTCA
* ***
12003751 TCACGTAAAGCACCGACCTCATCACGTAAAGCACCAACCTCA
1 TCACGTAAAGCACCTACCTCATCACGTAAAGCACCATTGTCA
* *
12003793 TCACGTAAAGCACGTAACTCATC
1 TCACGTAAAGCACCTACCTCATC
12003816 CCGTGGAGGT
Statistics
Matches: 125, Mismatches: 22, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
41 2 0.02
42 122 0.98
43 1 0.01
ACGTcount: A:0.35, C:0.32, G:0.13, T:0.20
Consensus pattern (42 bp):
TCACGTAAAGCACCTACCTCATCACGTAAAGCACCATTGTCA
Found at i:12003674 original size:21 final size:21
Alignment explanation
Indices: 12003625--12003805 Score: 145
Period size: 21 Copynumber: 8.6 Consensus size: 21
12003615 TGAAACAATC
* *
12003625 TCACGTAGAGCACC-TACCTCT
1 TCACGTAAAGCACCAT-CCTCA
* **
12003646 TCATGTAAAGCACCATTGTCA
1 TCACGTAAAGCACCATCCTCA
* * *
12003667 TAACGTAAAACAGC-TACCTCA
1 TCACGTAAAGCACCAT-CCTCA
** **
12003688 TCAATTAAAGCACCATTGTCA
1 TCACGTAAAGCACCATCCTCA
12003709 TCACGTAAAGCAGCCA-CCTCA
1 TCACGTAAAGCA-CCATCCTCA
* * **
12003730 CCACGTAAAGCACAATTGTCA
1 TCACGTAAAGCACCATCCTCA
12003751 TCACGTAAAGCACCGA-CCTCA
1 TCACGTAAAGCACC-ATCCTCA
*
12003772 TCACGTAAAGCACCAACCTCA
1 TCACGTAAAGCACCATCCTCA
12003793 TCACGTAAAGCAC
1 TCACGTAAAGCAC
12003806 GTAACTCATC
Statistics
Matches: 123, Mismatches: 30, Indels: 14
0.74 0.18 0.08
Matches are distributed among these distances:
20 4 0.03
21 113 0.92
22 6 0.05
ACGTcount: A:0.35, C:0.32, G:0.13, T:0.20
Consensus pattern (21 bp):
TCACGTAAAGCACCATCCTCA
Found at i:12004002 original size:42 final size:42
Alignment explanation
Indices: 12003953--12004080 Score: 202
Period size: 42 Copynumber: 3.0 Consensus size: 42
12003943 GAGTCGGCTA
** *
12003953 GAGGTGATGGATCTCGGTGTTGAAGTGGAGAATTGACTCGAT
1 GAGGTGATGGATCTCGGTGTCAAAGTGGAGAATCGACTCGAT
*
12003995 GAGGTGATGGATCTCGGTGTCAAAGTGGAGAATCGGCTCGAT
1 GAGGTGATGGATCTCGGTGTCAAAGTGGAGAATCGACTCGAT
* *
12004037 AAGGTGATGGATCTCGGTGTCAAAGTGAAGAATCGACTCGAT
1 GAGGTGATGGATCTCGGTGTCAAAGTGGAGAATCGACTCGAT
12004079 GA
1 GA
12004081 AAAAGTAGGG
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 78 1.00
ACGTcount: A:0.27, C:0.12, G:0.36, T:0.25
Consensus pattern (42 bp):
GAGGTGATGGATCTCGGTGTCAAAGTGGAGAATCGACTCGAT
Found at i:12004031 original size:81 final size:83
Alignment explanation
Indices: 12003921--12004080 Score: 216
Period size: 84 Copynumber: 1.9 Consensus size: 83
12003911 GAATATGTCG
* * * * ** *
12003921 TGGATCTCAGTGTCAAGGTGTAGAGTCGGCT-A-GAGGTGATGGATCTCGGTGTTGAAGTGGAGA
1 TGGATCTCAGTGTCAAAGTGGAGAATCGGCTCATAAGGTGATGGATCTCGGTGTCAAAGTGAAGA
*
12003984 ATTGACTCGATGAGGTGA
66 ATCGACTCGATGAGGTGA
*
12004002 TGGATCTCGGTGTCAAAGTGGAGAATCGGCTCGATAAGGTGATGGATCTCGGTGTCAAAGTGAAG
1 TGGATCTCAGTGTCAAAGTGGAGAATCGGCTC-ATAAGGTGATGGATCTCGGTGTCAAAGTGAAG
12004067 AATCGACTCGATGA
65 AATCGACTCGATGA
12004081 AAAAGTAGGG
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
81 27 0.40
83 1 0.01
84 39 0.58
ACGTcount: A:0.26, C:0.13, G:0.36, T:0.26
Consensus pattern (83 bp):
TGGATCTCAGTGTCAAAGTGGAGAATCGGCTCATAAGGTGATGGATCTCGGTGTCAAAGTGAAGA
ATCGACTCGATGAGGTGA
Found at i:12004064 original size:21 final size:21
Alignment explanation
Indices: 12003998--12004064 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
12003988 ACTCGATGAG
12003998 GTGATGGATCTCGGTGTCAAA
1 GTGATGGATCTCGGTGTCAAA
* *
12004019 GTG--GAGA-ATCGGCTCGAT-AAG
1 GTGATG-GATCTCGG-T-G-TCAAA
12004040 GTGATGGATCTCGGTGTCAAA
1 GTGATGGATCTCGGTGTCAAA
12004061 GTGA
1 GTGA
12004065 AGAATCGACT
Statistics
Matches: 34, Mismatches: 4, Indels: 16
0.63 0.07 0.30
Matches are distributed among these distances:
19 5 0.15
20 4 0.12
21 16 0.47
22 4 0.12
23 5 0.15
ACGTcount: A:0.25, C:0.13, G:0.36, T:0.25
Consensus pattern (21 bp):
GTGATGGATCTCGGTGTCAAA
Found at i:12005580 original size:20 final size:20
Alignment explanation
Indices: 12005557--12005594 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
12005547 TCGAAAATGA
* *
12005557 AATTCGCAACTTGAATTTTG
1 AATTCACAACTCGAATTTTG
12005577 AATTCACAACTCGAATTT
1 AATTCACAACTCGAATTT
12005595 CATTTTCGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (20 bp):
AATTCACAACTCGAATTTTG
Found at i:12005633 original size:34 final size:34
Alignment explanation
Indices: 12005590--12005662 Score: 128
Period size: 34 Copynumber: 2.1 Consensus size: 34
12005580 TCACAACTCG
12005590 AATTTCATTTTCGAGTTGCGATTTTCGTGTTGCA
1 AATTTCATTTTCGAGTTGCGATTTTCGTGTTGCA
* *
12005624 AATTTCATTTTCGATTTGCGATTTTCGTGTTGCG
1 AATTTCATTTTCGAGTTGCGATTTTCGTGTTGCA
12005658 AATTT
1 AATTT
12005663 AAGTTTCTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.18, C:0.14, G:0.19, T:0.49
Consensus pattern (34 bp):
AATTTCATTTTCGAGTTGCGATTTTCGTGTTGCA
Found at i:12006104 original size:22 final size:22
Alignment explanation
Indices: 12006074--12006132 Score: 91
Period size: 22 Copynumber: 2.7 Consensus size: 22
12006064 GATGGAGGGG
*
12006074 GTCGTCGAAGATGGGGATGGAT
1 GTCGTCGAAGATGGGGACGGAT
*
12006096 GTCGCCGAAGATGGGGACGGAT
1 GTCGTCGAAGATGGGGACGGAT
*
12006118 GTCGTCGGAGATGGG
1 GTCGTCGAAGATGGG
12006133 AACAAATGTC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.20, C:0.14, G:0.47, T:0.19
Consensus pattern (22 bp):
GTCGTCGAAGATGGGGACGGAT
Found at i:12006364 original size:40 final size:40
Alignment explanation
Indices: 12006297--12006411 Score: 108
Period size: 40 Copynumber: 2.9 Consensus size: 40
12006287 CGAAAATCAA
** * * **
12006297 GTTGCGAAAACAAAATTCGCGTTGCGAAATTGAAACTCACT
1 GTTGCGAAATTAAAAATCGAGTTGCGAAAACGAAACT-ACT
**
12006338 -TTGC-AAATTAGAAAATCGAGTTGCGAAAACGAAACTTGT
1 GTTGCGAAATTA-AAAATCGAGTTGCGAAAACGAAACTACT
* *
12006377 GTTGCGAATTTAAAAATCGAGTTGCGAAAAAGAAA
1 GTTGCGAAATTAAAAATCGAGTTGCGAAAACGAAA
12006412 TTTGTGTTGT
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
39 5 0.08
40 51 0.84
41 5 0.08
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.24
Consensus pattern (40 bp):
GTTGCGAAATTAAAAATCGAGTTGCGAAAACGAAACTACT
Found at i:12006371 original size:20 final size:20
Alignment explanation
Indices: 12006287--12006411 Score: 60
Period size: 20 Copynumber: 6.2 Consensus size: 20
12006277 GTTACGAATT
*
12006287 CGAAAATCAAGTTGCGAAAA
1 CGAAAATCGAGTTGCGAAAA
* *
12006307 C-AAAATTCGCGTTGCGAAAT
1 CGAAAA-TCGAGTTGCGAAAA
* * *
12006327 TGAAACTC-ACTTTGC-AAATTA
1 CGAAAATCGA-GTTGCGAAA--A
12006348 -GAAAATCGAGTTGCGAAAA
1 CGAAAATCGAGTTGCGAAAA
* * * **
12006367 CGAAACTTGTGTTGCGAATT
1 CGAAAATCGAGTTGCGAAAA
**
12006387 TAAAAATCGAGTTGCGAAAA
1 CGAAAATCGAGTTGCGAAAA
*
12006407 AGAAA
1 CGAAA
12006412 TTTGTGTTGT
Statistics
Matches: 73, Mismatches: 24, Indels: 16
0.65 0.21 0.14
Matches are distributed among these distances:
19 8 0.11
20 58 0.79
21 7 0.10
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.23
Consensus pattern (20 bp):
CGAAAATCGAGTTGCGAAAA
Found at i:12006420 original size:20 final size:19
Alignment explanation
Indices: 12006357--12006425 Score: 50
Period size: 20 Copynumber: 3.5 Consensus size: 19
12006347 AGAAAATCGA
*
12006357 GTTGCGAAAACGAAACTTGT
1 GTTGCGAAAAAGAAA-TTGT
* * *
12006377 GTTGCGAATTTAA-AAATCGA
1 GTTGCGAA--AAAGAAATTGT
12006397 GTTGCGAAAAAGAAATTTGT
1 GTTGCGAAAAAGAAA-TTGT
*
12006417 GTTGTGAAA
1 GTTGCGAAA
12006426 TTGTCAAATT
Statistics
Matches: 37, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
18 2 0.05
19 3 0.08
20 28 0.76
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.29
Consensus pattern (19 bp):
GTTGCGAAAAAGAAATTGT
Found at i:12010623 original size:23 final size:24
Alignment explanation
Indices: 12010595--12010647 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
12010585 TTTTTTGTGG
*
12010595 AATAAAGA-TTAAATAAGAGAA-AT
1 AATAAAGAGTGAAATAA-AGAAGAT
12010618 AATAAAGAGTGAAATAAAGAAGAT
1 AATAAAGAGTGAAATAAAGAAGAT
12010642 AA-AAAG
1 AATAAAG
12010648 TGTAAATTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 16 0.59
24 11 0.41
ACGTcount: A:0.66, C:0.00, G:0.17, T:0.17
Consensus pattern (24 bp):
AATAAAGAGTGAAATAAAGAAGAT
Found at i:12015279 original size:19 final size:19
Alignment explanation
Indices: 12015233--12015285 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
12015223 AATAAATTAC
12015233 TAAACAAAAATAAAAAAAA
1 TAAACAAAAATAAAAAAAA
* * *
12015252 CAAATAAAAATAAAATAAA
1 TAAACAAAAATAAAAAAAA
*
12015271 TTAA-AAAAATCAAAA
1 TAAACAAAAAT-AAAA
12015286 TTGAAAATGG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 6 0.21
19 22 0.79
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (19 bp):
TAAACAAAAATAAAAAAAA
Found at i:12020732 original size:16 final size:16
Alignment explanation
Indices: 12020695--12020735 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
12020685 AAAAATGAAG
*
12020695 AATAAA-AATAAGTAAA
1 AATAAATAA-AAGGAAA
12020711 AA-AAATAAAAGGAAA
1 AATAAATAAAAGGAAA
12020726 AATAAATAAA
1 AATAAATAAA
12020736 TAAATAAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (16 bp):
AATAAATAAAAGGAAA
Found at i:12020740 original size:12 final size:13
Alignment explanation
Indices: 12020670--12020750 Score: 51
Period size: 13 Copynumber: 6.4 Consensus size: 13
12020660 TAGAGGGAAA
*
12020670 AAATGAATAAATG
1 AAATAAATAAATG
* *
12020683 AAAAAAATGAA-G
1 AAATAAATAAATG
* * *
12020695 AATAAAAATAAGTA
1 AA-ATAAATAAATG
* *
12020709 AAAAAAATAAAAG
1 AAATAAATAAATG
*
12020722 GAA-AAATAAAT-
1 AAATAAATAAATG
12020733 AAATAAATAAATG
1 AAATAAATAAATG
12020746 AAATA
1 AAATA
12020751 TTAAAATATA
Statistics
Matches: 52, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
11 2 0.04
12 18 0.35
13 30 0.58
14 2 0.04
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (13 bp):
AAATAAATAAATG
Found at i:12021097 original size:19 final size:19
Alignment explanation
Indices: 12021066--12021103 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
12021056 AAAAGTGTAT
*
12021066 ATATATATATAAATAATAA
1 ATATATATATAAAAAATAA
12021085 ATATAGTAT-TAAAAAATAA
1 ATATA-TATATAAAAAATAA
12021104 CCAAATGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (19 bp):
ATATATATATAAAAAATAA
Found at i:12021667 original size:37 final size:37
Alignment explanation
Indices: 12021626--12021730 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
12021616 GTGCTTGTGG
* * *
12021626 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
** * *
12021663 ATCCTATTTTTAGGAGTTTGAATCCTAACAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
*
12021700 ATCTTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
12021731 GACGAAAAAG
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.41
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:12022786 original size:106 final size:106
Alignment explanation
Indices: 12022460--12023306 Score: 1073
Period size: 106 Copynumber: 8.0 Consensus size: 106
12022450 AGCATTGTTC
* * ** *
12022460 TGAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGAC
1 TGAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGAC
** * * *
12022524 AACCAGCCATCCCTTAGTTGTGAAGTTGAACTTGTGTTGTCT
65 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * **
12022566 CT-AGTCTAATATCCTTCGTTGTGAAGTTGAAATTGACTCTG-AA-T---AAAAT-TTTGTTGAC
1 -TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGAC
* * * * * *
12022624 AATCAGCCGCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGCCT
65 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * * * *
12022666 TGGGTTCAAGATCCTTCGCTGAGAAGTTGAAATTGGATCTGAAATTGGGAAGTTGTTTATTAACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* *
12022731 ACCAGCGGTCACTTCGTCGTGAAGTTAAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
12022772 TGAGTCCAATATCCTACGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG-AGATTGTTTATTGAC
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG-TTGTTTGTTGAC
12022836 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
65 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * *
12022878 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTAACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* * *
12022943 ACTAGCGGTCCCTTCCTTGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
12022984 AGAGTCCAATATCCTTCGCTATGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
12023049 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * *
12023090 GGAGTCCAATATCCTTCGTTGTGAAGTTTAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTAACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* * * *
12023155 ACCAGTGGTCCCTTCATCATGAAGTTGAACTTGTGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
12023196 GGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAATTTGGGAAGTTGTTTGTTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* * * *
12023261 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTAGTGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
*
12023302 CGAGT
1 TGAGT
12023307 GGCACGATAT
Statistics
Matches: 646, Mismatches: 84, Indels: 21
0.86 0.11 0.03
Matches are distributed among these distances:
99 1 0.00
100 75 0.12
101 6 0.01
102 1 0.00
105 7 0.01
106 552 0.85
107 4 0.01
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (106 bp):
TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
Found at i:12024275 original size:22 final size:22
Alignment explanation
Indices: 12024249--12024325 Score: 136
Period size: 22 Copynumber: 3.5 Consensus size: 22
12024239 TTATGTTTGG
12024249 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
12024271 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
12024293 TCATAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
12024315 TCAACGGTTTG
1 TCAAAGGTTTG
12024326 ATAGGGTAGC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.21, C:0.14, G:0.27, T:0.38
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:12025013 original size:172 final size:172
Alignment explanation
Indices: 12024721--12025067 Score: 563
Period size: 172 Copynumber: 2.0 Consensus size: 172
12024711 AAAATAGGCC
* *
12024721 CAAACAAGTGTTTCAGGGTGTTGAACCAAGGATCAATTCATTCTGATGCCTTCAATCATGTCCTG
1 CAAACAAGTGTTTCAGGGTGTTGAACCAAGAATCAATTCATTATGATGCCTTCAATCA--T-CTG
12024786 CTCAAAATGTCTCTCTCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCAGGAATG
63 CTCAAAATGTCTCTCTCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCAGGAATG
12024851 ATTGTGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTT
128 ATTGTGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTT
* * * *
12024896 CAAACAAGTGTTTTAGGGTGTTGAACCAATAATCAATTCATTATGATGTCTTCAATC-T-TGCTT
1 CAAACAAGTGTTTCAGGGTGTTGAACCAAGAATCAATTCATTATGATGCCTTCAATCATCTGCTC
**
12024959 AAAATGTTTCTCTCTCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTTGGGAATGA
66 AAAATG--TCTCTCTCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCAGGAATGA
12025024 TTGTGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTT
129 TTGTGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTT
12025068 GTCTTTAGGG
Statistics
Matches: 162, Mismatches: 8, Indels: 7
0.92 0.05 0.04
Matches are distributed among these distances:
170 10 0.06
172 100 0.62
175 52 0.32
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.37
Consensus pattern (172 bp):
CAAACAAGTGTTTCAGGGTGTTGAACCAAGAATCAATTCATTATGATGCCTTCAATCATCTGCTC
AAAATGTCTCTCTCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCAGGAATGATT
GTGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTT
Found at i:12025125 original size:16 final size:15
Alignment explanation
Indices: 12025103--12025175 Score: 55
Period size: 16 Copynumber: 4.7 Consensus size: 15
12025093 TTTTTGTCCC
12025103 TTTTTCTTTTTGAT-T
1 TTTTTCTTTTT-ATCT
12025118 TTTGTTCTTGTTTATCT
1 TTT-TTCTT-TTTATCT
12025135 TTTTTCTTTGTT-T-T
1 TTTTTCTTT-TTATCT
*
12025149 TTTTGCTTTTT-TGCT
1 TTTTTCTTTTTAT-CT
12025164 TCTTTTCTTTTT
1 T-TTTTCTTTTT
12025176 TTTTTCTTGA
Statistics
Matches: 49, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
13 3 0.06
14 9 0.18
15 7 0.14
16 23 0.47
17 7 0.14
ACGTcount: A:0.03, C:0.11, G:0.08, T:0.78
Consensus pattern (15 bp):
TTTTTCTTTTTATCT
Found at i:12026355 original size:8 final size:8
Alignment explanation
Indices: 12026342--12026377 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
12026332 GTAGATGAAT
12026342 ATGCAAAA
1 ATGCAAAA
12026350 ATGCAAAA
1 ATGCAAAA
12026358 ATGC-AAA
1 ATGCAAAA
*
12026365 ATGCAAGA
1 ATGCAAAA
12026373 ATGCA
1 ATGCA
12026378 TGAAATGTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
7 7 0.27
8 19 0.73
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.14
Consensus pattern (8 bp):
ATGCAAAA
Found at i:12026367 original size:15 final size:15
Alignment explanation
Indices: 12026342--12026377 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
12026332 GTAGATGAAT
12026342 ATGCAAAAATGCAAAA
1 ATGC-AAAATGCAAAA
*
12026358 ATGCAAAATGCAAGA
1 ATGCAAAATGCAAAA
12026373 ATGCA
1 ATGCA
12026378 TGAAATGTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.14
Consensus pattern (15 bp):
ATGCAAAATGCAAAA
Found at i:12029695 original size:16 final size:16
Alignment explanation
Indices: 12029657--12029698 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
12029647 AAAAATGAAG
*
12029657 AATAAA-AATAAGTAAA
1 AATAAATAA-AAGGAAA
*
12029673 AACAAATAAAAGGAAA
1 AATAAATAAAAGGAAA
12029689 AATAAATAAA
1 AATAAATAAA
12029699 TAAACAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 20 0.91
17 2 0.09
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.14
Consensus pattern (16 bp):
AATAAATAAAAGGAAA
Found at i:12030052 original size:19 final size:19
Alignment explanation
Indices: 12030021--12030058 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
12030011 GTATATATAT
*
12030021 ATATATATATAAATAATAA
1 ATATATATATAAAAAATAA
12030040 ATATAGTAT-TAAAAAATAA
1 ATATA-TATATAAAAAATAA
12030059 CCAAATGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (19 bp):
ATATATATATAAAAAATAA
Found at i:12030627 original size:37 final size:37
Alignment explanation
Indices: 12030586--12030690 Score: 156
Period size: 37 Copynumber: 2.8 Consensus size: 37
12030576 GTGCTTGTGG
* * *
12030586 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * *
12030623 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
12030660 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
12030691 GACGAAAAGG
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:12031925 original size:14 final size:15
Alignment explanation
Indices: 12031906--12031936 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
12031896 AAGGGTTCCA
12031906 TTATTTTATTT-TCT
1 TTATTTTATTTCTCT
12031920 TTATTTTATTTCTCT
1 TTATTTTATTTCTCT
12031935 TT
1 TT
12031937 TTCATGGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (15 bp):
TTATTTTATTTCTCT
Found at i:12032735 original size:32 final size:32
Alignment explanation
Indices: 12032676--12032738 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
12032666 CCAGTGCTCA
12032676 ACTTTATTTTTCCATAGCAATTCCATAATTTT
1 ACTTTATTTTTCCATAGCAATTCCATAATTTT
* *
12032708 ACTTTACTTTTTTCATAGC-ATTTCATAATTT
1 ACTTTA-TTTTTCCATAGCAATTCCATAATTT
12032739 ACACTTCAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.27, C:0.17, G:0.03, T:0.52
Consensus pattern (32 bp):
ACTTTATTTTTCCATAGCAATTCCATAATTTT
Found at i:12034941 original size:90 final size:91
Alignment explanation
Indices: 12034834--12035002 Score: 259
Period size: 92 Copynumber: 1.9 Consensus size: 91
12034824 ATTTAATTTC
* * * * *
12034834 AATTAATTAAATATAGATTTAATTAATTTGAAAT-AATAAAATCCCTGATATGATTAGGGTAACT
1 AATTAATAAAATATAGATTTAATTAATTTGAAATAAAAAAAAACCCTAATATGACTAGGGTAACT
12034898 CGGATATAAAAGGATTATTAAATTAT
66 CGGATATAAAAGGATTATTAAATTAT
12034924 AATTAATAAAATATAGATTTAATTAATTTGAAATAAAAAAAAAACCCTAATATGACTAGGGTAAC
1 AATTAATAAAATATAGATTTAATTAATTTGAAAT-AAAAAAAAACCCTAATATGACTAGGGTAAC
* *
12034989 TTGGCTATAAAAGG
65 TCGGATATAAAAGG
12035003 GTGTGTTAGG
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
90 33 0.47
92 37 0.53
ACGTcount: A:0.48, C:0.07, G:0.12, T:0.33
Consensus pattern (91 bp):
AATTAATAAAATATAGATTTAATTAATTTGAAATAAAAAAAAACCCTAATATGACTAGGGTAACT
CGGATATAAAAGGATTATTAAATTAT
Found at i:12041749 original size:90 final size:90
Alignment explanation
Indices: 12041634--12041807 Score: 276
Period size: 90 Copynumber: 1.9 Consensus size: 90
12041624 TAATCCCAAA
* * * * *
12041634 TATTTAATTTTAATTAATTAAATATAGATTTAATTAATTTGAAATAACAAAATCCCTGATATGAT
1 TATTAAATTCTAATTAATTAAATATAGATTTAATTAATTTGAAATAACAAAAACCCTAATATGAC
12041699 TAGGGTAACTCGGATATAAGAGGAT
66 TAGGGTAACTCGGATATAAGAGGAT
*
12041724 TATTAAATTCTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
1 TATTAAATTCTAATTAATTAAATATAGATTTAATTAATTTGAAATAACAAAAACCCTAATATGAC
* *
12041789 TAGGGTAACTTGGCTATAA
66 TAGGGTAACTCGGATATAA
12041808 AAGGGTGTGT
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
90 76 1.00
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.37
Consensus pattern (90 bp):
TATTAAATTCTAATTAATTAAATATAGATTTAATTAATTTGAAATAACAAAAACCCTAATATGAC
TAGGGTAACTCGGATATAAGAGGAT
Found at i:12049818 original size:15 final size:16
Alignment explanation
Indices: 12049798--12049827 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
12049788 TTAGCATTGC
12049798 ATTTCATTTA-TTTTG
1 ATTTCATTTAGTTTTG
12049813 ATTTCATTTAGTTTT
1 ATTTCATTTAGTTTT
12049828 CATGCATTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.67
Consensus pattern (16 bp):
ATTTCATTTAGTTTTG
Found at i:12051220 original size:22 final size:22
Alignment explanation
Indices: 12051194--12051259 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 22
12051184 TATGGGAATT
12051194 AGAGTGTTTTATTGTGAATTTA
1 AGAGTGTTTTATTGTGAATTTA
* * *
12051216 AGA--G-TCTCTTGGGAGA--TA
1 AGAGTGTTTTATTGTGA-ATTTA
12051234 -GAGTGTTTTATTGTGAATTTA
1 AGAGTGTTTTATTGTGAATTTA
12051255 AGAGT
1 AGAGT
12051260 TCTTAGAAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 14
0.61 0.12 0.27
Matches are distributed among these distances:
17 2 0.06
18 2 0.06
19 9 0.29
20 9 0.29
21 2 0.06
22 7 0.23
ACGTcount: A:0.27, C:0.03, G:0.27, T:0.42
Consensus pattern (22 bp):
AGAGTGTTTTATTGTGAATTTA
Found at i:12051238 original size:39 final size:38
Alignment explanation
Indices: 12051171--12051263 Score: 136
Period size: 39 Copynumber: 2.4 Consensus size: 38
12051161 ATCTAAGGAG
*
12051171 GAATTTAAGAGTAT-ATGGGAATTAGAGTGTTTTATTGT
1 GAATTTAAGAGT-TCTTGGGAATTAGAGTGTTTTATTGT
12051209 GAATTTAAGAGTCTCTTGGGAGA-TAGAGTGTTTTATTGT
1 GAATTTAAGAGT-TCTTGGGA-ATTAGAGTGTTTTATTGT
12051248 GAATTTAAGAGTTCTT
1 GAATTTAAGAGTTCTT
12051264 AGAAGTTGGA
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
38 17 0.33
39 33 0.65
40 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.26, T:0.42
Consensus pattern (38 bp):
GAATTTAAGAGTTCTTGGGAATTAGAGTGTTTTATTGT
Found at i:12054977 original size:14 final size:14
Alignment explanation
Indices: 12054958--12054984 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12054948 CAAAGCCTTC
12054958 GCATCGTTTCTATT
1 GCATCGTTTCTATT
12054972 GCATCGTTTCTAT
1 GCATCGTTTCTAT
12054985 CACACTAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.22, G:0.15, T:0.48
Consensus pattern (14 bp):
GCATCGTTTCTATT
Found at i:12057544 original size:12 final size:12
Alignment explanation
Indices: 12057527--12057551 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12057517 TATGCCGTTG
12057527 AGCATTTTGTTT
1 AGCATTTTGTTT
12057539 AGCATTTTGTTT
1 AGCATTTTGTTT
12057551 A
1 A
12057552 TGGTTTGCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.08, G:0.16, T:0.56
Consensus pattern (12 bp):
AGCATTTTGTTT
Found at i:12061311 original size:19 final size:18
Alignment explanation
Indices: 12061287--12061324 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
12061277 TCTACTATAT
*
12061287 TACTTGCATCGATTGTGTA
1 TACTTGCATAGATT-TGTA
12061306 TACTTGCATAGATTTGTA
1 TACTTGCATAGATTTGTA
12061324 T
1 T
12061325 GCAACAACAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.24, C:0.13, G:0.18, T:0.45
Consensus pattern (18 bp):
TACTTGCATAGATTTGTA
Found at i:12074200 original size:46 final size:46
Alignment explanation
Indices: 12074147--12074236 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 46
12074137 TTATTCGTAA
* *
12074147 ATTTTAGTTATGGCATTCTTTCATCCCTTAATGCATCATTTCATGC
1 ATTTTAGTTATGGAATCCTTTCATCCCTTAATGCATCATTTCATGC
* *
12074193 ATTTTAGTTATGGAATCCTTTCATGCCTTAATGCATCCTTTCAT
1 ATTTTAGTTATGGAATCCTTTCATCCCTTAATGCATCATTTCAT
12074237 TCCTTAATAC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.22, C:0.21, G:0.11, T:0.46
Consensus pattern (46 bp):
ATTTTAGTTATGGAATCCTTTCATCCCTTAATGCATCATTTCATGC
Found at i:12074250 original size:66 final size:65
Alignment explanation
Indices: 12074159--12074442 Score: 272
Period size: 66 Copynumber: 4.2 Consensus size: 65
12074149 TTTAGTTATG
* *
12074159 GCATTCTTTCATCCCTTAATGCATCATTTCATGCATTTTAGTTATGGAATCCTTTCATGCCTTAA
1 GCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTAT-GAATCCTTTCATGCCTTAA
12074224 T
65 T
* * * * *
12074225 GCATCCTTTCATTCCTTAATACATCATTTTATGCATTTTAGTTATGGCATCCTTTCAAGCCTTAA
1 GCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTAT-GAATCCTTTCATGCCTTAA
12074290 T
65 T
* * * * *
12074291 GCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGC--CTTA---ATGCATCATTTCATGC
1 GCATCCTTTCATGC--CTTA---AT-GCATCATTTCATGCATTTTAGTTATGAATCCTTTCATGC
*
12074351 ATTTTAGTTAT
60 --CTTA---AT
*
12074362 GGCATCCTTTCATGCCTTGATGCATCATTTCATGCATTTTAGTTATGACATCCTTTCATGCCTTA
1 -GCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTATGA-ATCCTTTCATGCCTTA
12074427 AT
64 AT
12074429 GCATCCTTTCATGC
1 GCATCCTTTCATGC
12074443 AATTTAGGTA
Statistics
Matches: 178, Mismatches: 22, Indels: 36
0.75 0.09 0.15
Matches are distributed among these distances:
66 112 0.63
67 6 0.03
68 9 0.05
70 8 0.04
71 7 0.04
72 36 0.20
ACGTcount: A:0.22, C:0.23, G:0.12, T:0.43
Consensus pattern (65 bp):
GCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTATGAATCCTTTCATGCCTTAAT
Found at i:12074275 original size:26 final size:26
Alignment explanation
Indices: 12074246--12074468 Score: 170
Period size: 26 Copynumber: 9.5 Consensus size: 26
12074236 TTCCTTAATA
* *
12074246 CATCATTTTATGCATTTTAGTTATGG
1 CATCCTTTCATGCATTTTAGTTATGG
* *
12074272 CATCCTTTCAAGC--CTTA---AT-G
1 CATCCTTTCATGCATTTTAGTTATGG
12074292 CATCCTTTCATGCATTTTAGTTATGG
1 CATCCTTTCATGCATTTTAGTTATGG
*
12074318 CATCCTTTCATGC--CTTA---AT-G
1 CATCCTTTCATGCATTTTAGTTATGG
*
12074338 CATCATTTCATGCATTTTAGTTATGG
1 CATCCTTTCATGCATTTTAGTTATGG
*
12074364 CATCCTTTCATGC--CTT-G--AT-G
1 CATCCTTTCATGCATTTTAGTTATGG
* *
12074384 CATCATTTCATGCATTTTAGTTATGA
1 CATCCTTTCATGCATTTTAGTTATGG
*
12074410 CATCCTTTCATGC--CTTA---AT-G
1 CATCCTTTCATGCATTTTAGTTATGG
* *
12074430 CATCCTTTCATGCAATTTAGGTATGG
1 CATCCTTTCATGCATTTTAGTTATGG
12074456 CATCCTTTCATGC
1 CATCCTTTCATGC
12074469 CTTAATGTAA
Statistics
Matches: 155, Mismatches: 18, Indels: 48
0.70 0.08 0.22
Matches are distributed among these distances:
20 52 0.34
21 8 0.05
22 11 0.07
23 2 0.01
24 11 0.07
25 8 0.05
26 63 0.41
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (26 bp):
CATCCTTTCATGCATTTTAGTTATGG
Found at i:12074277 original size:46 final size:46
Alignment explanation
Indices: 12074225--12074500 Score: 426
Period size: 46 Copynumber: 6.0 Consensus size: 46
12074215 ATGCCTTAAT
* * *
12074225 GCATCCTTTCATTCCTTAATACATCATTTTATGCATTTTAGTTATG
1 GCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTATG
* *
12074271 GCATCCTTTCAAGCCTTAATGCATCCTTTCATGCATTTTAGTTATG
1 GCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTATG
12074317 GCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTATG
1 GCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTATG
*
12074363 GCATCCTTTCATGCCTTGATGCATCATTTCATGCATTTTAGTTATG
1 GCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTATG
* * * *
12074409 ACATCCTTTCATGCCTTAATGCATCCTTTCATGCAATTTAGGTATG
1 GCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTATG
* * * *
12074455 GCATCCTTTCATGCCTTAATGTAACCTTTCATGAATTTTAGTTATG
1 GCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTATG
12074501 AATTCGTTTT
Statistics
Matches: 211, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 211 1.00
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (46 bp):
GCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTATG
Found at i:12074347 original size:112 final size:112
Alignment explanation
Indices: 12074147--12074348 Score: 350
Period size: 112 Copynumber: 1.8 Consensus size: 112
12074137 TTATTCGTAA
* *
12074147 ATTTTAGTTATGGCATTCTTTCATCCCTTAATGCATCATTTCATGCATTTTAGTTATGGAATCCT
1 ATTTTAGTTATGGCATCCTTTCAACCCTTAATGCATCATTTCATGCATTTTAGTTATGGAATCCT
*
12074212 TTCATGCCTTAATGCATCCTTTCATTCCTTAATACATCATTTTATGC
66 TTCATGCCTTAATGCATCATTTCATTCCTTAATACATCATTTTATGC
* * *
12074259 ATTTTAGTTATGGCATCCTTTCAAGCCTTAATGCATCCTTTCATGCATTTTAGTTATGGCATCCT
1 ATTTTAGTTATGGCATCCTTTCAACCCTTAATGCATCATTTCATGCATTTTAGTTATGGAATCCT
12074324 TTCATGCCTTAATGCATCATTTCAT
66 TTCATGCCTTAATGCATCATTTCAT
12074349 GCATTTTAGT
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
112 84 1.00
ACGTcount: A:0.23, C:0.22, G:0.11, T:0.45
Consensus pattern (112 bp):
ATTTTAGTTATGGCATCCTTTCAACCCTTAATGCATCATTTCATGCATTTTAGTTATGGAATCCT
TTCATGCCTTAATGCATCATTTCATTCCTTAATACATCATTTTATGC
Found at i:12081293 original size:46 final size:46
Alignment explanation
Indices: 12081226--12081567 Score: 525
Period size: 46 Copynumber: 7.6 Consensus size: 46
12081216 TTATTCTTAA
*
12081226 ATTTTAGTTATGGCATTCTTTCATGCCTTAATGCATCATTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGC
* * *
12081272 ATTTTAATTATGGCACCCTTTCATGCCTTAATGCATCCTTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGC
* *
12081318 ATTTTAGTTATGGCATCCTTTTATGCCTTAATGCATCCTTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGC
*
12081364 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGC
* *
12081410 --CTTA---AT-GCATCCTTTCATGCCTTAATGAATCATTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGC
*
12081450 ATTTTAGTTATGGCATTCTTTCATGCCTTAATGCATCATTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGC
* *
12081496 ATTTTAGTTATGACATCCTTTCATGCCTTAATGCATCTTTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGC
*
12081542 AATTTAGTTATGGCATCCTTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGC
12081568 ATTTTAGTTA
Statistics
Matches: 271, Mismatches: 19, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
40 32 0.12
41 2 0.01
42 3 0.01
44 3 0.01
45 2 0.01
46 229 0.85
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (46 bp):
ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGC
Found at i:12081476 original size:132 final size:136
Alignment explanation
Indices: 12081226--12081567 Score: 494
Period size: 132 Copynumber: 2.5 Consensus size: 136
12081216 TTATTCTTAA
* *
12081226 ATTTTAGTTATGGCATTCTTTCATGCCTTAATGCATCATTTCATGCATTTTAATTATGGCACCCT
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCA-CTTAA-TATGGCACCCT
* * * *
12081291 TTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGGCATCCTTTTATGCCTTAATGCATCC
64 TTCATGCCTTAATGAATCATTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCA
12081356 TTTCATGC
129 TTTCATGC
* *
12081364 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC-CTT-A-AT-GCATCCTTT
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCACTTAATATGGCACCCTTT
*
12081425 CATGCCTTAATGAATCATTTCATGCATTTTAGTTATGGCATTCTTTCATGCCTTAATGCATCATT
66 CATGCCTTAATGAATCATTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCATT
12081490 TCATGC
131 TCATGC
* * * * *
12081496 ATTTTAGTTATGACATCCTTTCATGCCTTAATGCATCTTTTCATGCAATTTAGTTATGGCATCCT
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGC-ACTTA-ATATGGCACCCT
12081561 TTCATGC
64 TTCATGC
12081568 ATTTTAGTTA
Statistics
Matches: 185, Mismatches: 13, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
132 118 0.64
133 2 0.01
134 2 0.01
135 1 0.01
136 2 0.01
137 2 0.01
138 58 0.31
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (136 bp):
ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCACTTAATATGGCACCCTTT
CATGCCTTAATGAATCATTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCATT
TCATGC
Found at i:12081542 original size:178 final size:181
Alignment explanation
Indices: 12081238--12081613 Score: 596
Period size: 178 Copynumber: 2.1 Consensus size: 181
12081228 TTTAGTTATG
* *
12081238 GCATTCTTTCATGCCTTAATGCATCATTTCATGCATTTTAATTATGGCACCCTTTCATGCCTTAA
1 GCATCCTTTCATGCCTTAATGAATCATTTCATGCATTTTAATTATGGCACCCTTTCATGCCTTAA
* * * *
12081303 TGCATCCTTTCATGCATTTTAGTTATGGCATCCTTTTATGCCTTAATGCATCCTTTCATGCATTT
66 TGCATCATTTCATGCATTTTAGTTATGACATCCTTTCATGCCTTAATGCATCCTTTCATGCAATT
12081368 TAGTTATGGCATCCTTTCATGC-CTTA-AT-GCATCCTTTCATGCCTTAAT
131 TAGTTATGGCATCCTTTCATGCACTTATATGGCATCCTTTCATGCCTTAAT
* **
12081416 GCATCCTTTCATGCCTTAATGAATCATTTCATGCATTTTAGTTATGGCATTCTTTCATGCCTTAA
1 GCATCCTTTCATGCCTTAATGAATCATTTCATGCATTTTAATTATGGCACCCTTTCATGCCTTAA
*
12081481 TGCATCATTTCATGCATTTTAGTTATGACATCCTTTCATGCCTTAATGCATCTTTTCATGCAATT
66 TGCATCATTTCATGCATTTTAGTTATGACATCCTTTCATGCCTTAATGCATCCTTTCATGCAATT
*
12081546 TAGTTATGGCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAAT
131 TAGTTATGGCATCCTTTCATGCA-CTTA--TATGGCATCCTTTCATGCCTTAAT
*
12081600 GCATCATTTCATGC
1 GCATCCTTTCATGC
12081614 ATTTTAGTTA
Statistics
Matches: 180, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
178 142 0.79
180 3 0.02
183 2 0.01
184 33 0.18
ACGTcount: A:0.22, C:0.23, G:0.12, T:0.43
Consensus pattern (181 bp):
GCATCCTTTCATGCCTTAATGAATCATTTCATGCATTTTAATTATGGCACCCTTTCATGCCTTAA
TGCATCATTTCATGCATTTTAGTTATGACATCCTTTCATGCCTTAATGCATCCTTTCATGCAATT
TAGTTATGGCATCCTTTCATGCACTTATATGGCATCCTTTCATGCCTTAAT
Found at i:12081594 original size:72 final size:66
Alignment explanation
Indices: 12081226--12081613 Score: 309
Period size: 66 Copynumber: 5.7 Consensus size: 66
12081216 TTATTCTTAA
* * * *
12081226 ATTTTAGTTATGGCATTCTTTCATGCCTTAATGCATCATTTCATGCATTTTAATTATGGCACCCT
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCTTTTCATGC--CTT-A--AT-GCATCCT
12081291 TTCATGC
60 TTCATGC
* *
12081298 --CTTA---AT-GCATCCTTTCATGCATTTTAGTTATGGCATCCTTTT-ATGCCTTAATGCATCC
1 ATTTTAGTTATGGCATCCTTTCATGC--CTTA---AT-GCAT-CTTTTCATGCCTTAATGCATCC
12081356 TTTCATGC
59 TTTCATGC
*
12081364 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCCTTAATGCATCCTTTCATG
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCTTTTCATGCCTTAATGCATCCTTTCATG
12081429 C
66 C
* * * * *
12081430 --CTTA---AT-GAATCATTTCATGCATTTTAGTTATGGCAT-TCTTTCATGCCTTAATGCATCA
1 ATTTTAGTTATGGCATCCTTTCATGC--CTTA---AT-GCATCT-TTTCATGCCTTAATGCATCC
12081488 TTTCATGC
59 TTTCATGC
* *
12081496 ATTTTAGTTATGACATCCTTTCATGCCTTAATGCATCTTTTCATGCAATTTAGTTATGGCATCCT
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCTTTTCATGC--CTTA---AT-GCATCCT
12081561 TTCATGC
60 TTCATGC
*
12081568 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCTTTTCATGC
12081614 ATTTTAGTTA
Statistics
Matches: 258, Mismatches: 24, Indels: 68
0.74 0.07 0.19
Matches are distributed among these distances:
60 12 0.05
61 2 0.01
62 3 0.01
64 3 0.01
65 6 0.02
66 97 0.38
67 9 0.03
68 12 0.05
69 1 0.00
70 11 0.04
71 8 0.03
72 90 0.35
73 4 0.02
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (66 bp):
ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCTTTTCATGCCTTAATGCATCCTTTCATG
C
Found at i:12081599 original size:118 final size:112
Alignment explanation
Indices: 12081226--12081624 Score: 413
Period size: 112 Copynumber: 3.5 Consensus size: 112
12081216 TTATTCTTAA
* * * *
12081226 ATTTTAGTTATGGCATTCTTTCATGCCTTAATGCATCATTTCATGCATTTTAATTATGGCACCCT
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTATGACATCCT
* * * * **
12081291 TTCATGCCTTAATGCATCCTTTCATGCATT--TTAGTTATGGCAT-C
66 TTCATGCCTTAATGCATCCTTTCATGCCTTAATGAATCATTTCATGC
* * * *
12081335 CTTTTATGCCTTAAT-GCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGC--CTTA---
1 ATTTTA-G--TT-ATGGCATCCTTTCATGC--CTTA---AT-GCATCATTTCATGCATTTTAGTT
12081394 ATG-CATCCTTTCATGCCTTAATGCATCCTTTCATGCCTTAATGAATCATTTCATGC
56 ATGACATCCTTTCATGCCTTAATGCATCCTTTCATGCCTTAATGAATCATTTCATGC
*
12081450 ATTTTAGTTATGGCATTCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTATGACATCCT
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTATGACATCCT
* * * *
12081515 TTCATGCCTTAATGCATCTTTTCATGCAATTTAGTTATGGCATCCTTTCATGC
66 TTCATGCCTTAATGCATCCTTTCATGC--CTTA---AT-GAATCATTTCATGC
12081568 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTAT
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTAT
12081625 CAATTCATTT
Statistics
Matches: 242, Mismatches: 22, Indels: 43
0.79 0.07 0.14
Matches are distributed among these distances:
106 13 0.05
107 2 0.01
108 3 0.01
109 5 0.02
110 4 0.02
111 5 0.02
112 96 0.40
113 5 0.02
114 15 0.06
115 6 0.02
116 3 0.01
117 4 0.02
118 81 0.33
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (112 bp):
ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTATGACATCCT
TTCATGCCTTAATGCATCCTTTCATGCCTTAATGAATCATTTCATGC
Found at i:12081610 original size:92 final size:88
Alignment explanation
Indices: 12081238--12081613 Score: 472
Period size: 92 Copynumber: 4.2 Consensus size: 88
12081228 TTTAGTTATG
* * *
12081238 GCATTCTTTCATGCCTTAATGCATCATTTCATGCATTTTAATTATGGCACCCTTTCATGCCTTAA
1 GCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAA
*
12081303 TGCATCCTTTCATGCATTTTAGTTAT
66 TGCATCCTTTCATGCA-CTTA--TAT
* *
12081329 GGCATCCTTTTATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTA
1 -GCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTA
12081394 ATGCATCCTTTCATGC-CTTA-AT
65 ATGCATCCTTTCATGCACTTATAT
* *
12081416 GCATCCTTTCATGCCTTAATGAATCATTTCATGCATTTTAGTTATGGCATTCTTTCATGCCTTAA
1 GCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAA
* *
12081481 TGCATCATTTCATGCATTTTAGTTAT
66 TGCATCCTTTCATGCA-CTTA--TAT
* * *
12081507 GACATCCTTTCATGCCTTAATGCATCTTTTCATGCAATTTAGTTATGGCATCCTTTCATGCATTT
1 G-CATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTATGGCATCCTTTCATGC--CT
12081572 TAGTTATGGCATCCTTTCATGC-CTTA-AT
63 TA---AT-GCATCCTTTCATGCACTTATAT
*
12081600 GCATCATTTCATGC
1 GCATCCTTTCATGC
12081614 ATTTTAGTTA
Statistics
Matches: 252, Mismatches: 20, Indels: 24
0.85 0.07 0.08
Matches are distributed among these distances:
86 75 0.30
87 2 0.01
88 3 0.01
90 3 0.01
91 3 0.01
92 142 0.56
93 3 0.01
94 3 0.01
96 3 0.01
97 2 0.01
98 13 0.05
ACGTcount: A:0.22, C:0.23, G:0.12, T:0.43
Consensus pattern (88 bp):
GCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAA
TGCATCCTTTCATGCACTTATAT
Found at i:12082148 original size:20 final size:20
Alignment explanation
Indices: 12082105--12082153 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
12082095 GTTTGCATGG
* **
12082105 TATCAATACCTTTCTCTCGG
1 TATCGATACCTTTCTCTCAA
12082125 TATCGATACCTTTCTCTCAA
1 TATCGATACCTTTCTCTCAA
12082145 TATCGATAC
1 TATCGATAC
12082154 TACTATACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.24, C:0.29, G:0.08, T:0.39
Consensus pattern (20 bp):
TATCGATACCTTTCTCTCAA
Found at i:12087052 original size:13 final size:13
Alignment explanation
Indices: 12087034--12087058 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12087024 CAAAGTCAAC
12087034 GAGTTGACTCAGT
1 GAGTTGACTCAGT
12087047 GAGTTGACTCAG
1 GAGTTGACTCAG
12087059 CTCAATCCGA
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:0.24, C:0.16, G:0.32, T:0.28
Consensus pattern (13 bp):
GAGTTGACTCAGT
Found at i:12090957 original size:45 final size:45
Alignment explanation
Indices: 12090908--12091001 Score: 188
Period size: 45 Copynumber: 2.1 Consensus size: 45
12090898 ATTATTCGGG
12090908 TAATATAGTCATTTCGAGTAATTTAGACGTGTAAAGTAATTTCAA
1 TAATATAGTCATTTCGAGTAATTTAGACGTGTAAAGTAATTTCAA
12090953 TAATATAGTCATTTCGAGTAATTTAGACGTGTAAAGTAATTTCAA
1 TAATATAGTCATTTCGAGTAATTTAGACGTGTAAAGTAATTTCAA
12090998 TAAT
1 TAAT
12091002 TTAGCCTCTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (45 bp):
TAATATAGTCATTTCGAGTAATTTAGACGTGTAAAGTAATTTCAA
Found at i:12092024 original size:23 final size:22
Alignment explanation
Indices: 12091975--12092037 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 22
12091965 AATTTGACAT
12091975 TTTGGTCATAGTCAA-AGTCAAC
1 TTTGGTCA-AGTCAACAGTCAAC
* *
12091997 GTTGGTCTAAGTCAACGGTCAAC
1 TTTGGTC-AAGTCAACAGTCAAC
*
12092020 TTTGGTCAGGTCAACAGT
1 TTTGGTCAAGTCAACAGT
12092038 TAAGTCAACA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
22 21 0.62
23 13 0.38
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (22 bp):
TTTGGTCAAGTCAACAGTCAAC
Found at i:12094225 original size:17 final size:17
Alignment explanation
Indices: 12094203--12094241 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
12094193 AAAAATAAAA
12094203 TAAGGCTATGGAGAAAT
1 TAAGGCTATGGAGAAAT
12094220 TAAGGCTATGGAGAAAT
1 TAAGGCTATGGAGAAAT
12094237 TAAGG
1 TAAGG
12094242 TTTCAAAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.41, C:0.05, G:0.31, T:0.23
Consensus pattern (17 bp):
TAAGGCTATGGAGAAAT
Found at i:12096695 original size:40 final size:41
Alignment explanation
Indices: 12096618--12096695 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 41
12096608 TAGACAAAAT
* * *
12096618 ATCTATTATTTGCTTTAGTTCTTTACTTACGCATTACTGCC
1 ATCTACTATTTGCTTTAGTCCTTTACTTACACATTACTGCC
* *
12096659 ATCTACTATTTGC-TTAGTCCTTTTCTTACACGTTACT
1 ATCTACTATTTGCTTTAGTCCTTTACTTACACATTACT
12096696 ATCAATTTCT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
40 20 0.62
41 12 0.38
ACGTcount: A:0.19, C:0.23, G:0.09, T:0.49
Consensus pattern (41 bp):
ATCTACTATTTGCTTTAGTCCTTTACTTACACATTACTGCC
Found at i:12096847 original size:22 final size:22
Alignment explanation
Indices: 12096822--12096863 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
12096812 TAGTGAAAAG
*
12096822 GTAAAATATATGTAGTATTATA
1 GTAAAATAAATGTAGTATTATA
12096844 GTAAAATAAATGTAGTATTA
1 GTAAAATAAATGTAGTATTA
12096864 GAAATACTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.14, T:0.38
Consensus pattern (22 bp):
GTAAAATAAATGTAGTATTATA
Found at i:12097100 original size:16 final size:17
Alignment explanation
Indices: 12097081--12097114 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
12097071 CTAAAATTGG
12097081 TTTAA-TCTTAAAATAA
1 TTTAATTCTTAAAATAA
*
12097097 TTTAATTTTTAAAATAA
1 TTTAATTCTTAAAATAA
12097114 T
1 T
12097115 ATGAATAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTAATTCTTAAAATAA
Found at i:12102430 original size:12 final size:11
Alignment explanation
Indices: 12102411--12102440 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
12102401 TTATTACATC
12102411 ATATAATATAT
1 ATATAATATAT
12102422 ATGATAATATAT
1 AT-ATAATATAT
12102434 ATATAAT
1 ATATAAT
12102441 TTCAAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (11 bp):
ATATAATATAT
Found at i:12102501 original size:22 final size:21
Alignment explanation
Indices: 12102455--12102501 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
12102445 AAATTATATA
* *
12102455 ATATATATAGTTTTTGAAGAT
1 ATATATATAGTTTTTGAAAAC
12102476 ATATAGTATAGTTTTTGAAAAC
1 ATATA-TATAGTTTTTGAAAAC
12102498 ATAT
1 ATAT
12102502 TTTTTAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.40, C:0.02, G:0.13, T:0.45
Consensus pattern (21 bp):
ATATATATAGTTTTTGAAAAC
Found at i:12102524 original size:38 final size:38
Alignment explanation
Indices: 12102474--12102652 Score: 181
Period size: 38 Copynumber: 4.7 Consensus size: 38
12102464 GTTTTTGAAG
*
12102474 ATAT-ATAGTATAGTTTTTGAAAACATATTTTTTAAAAC
1 ATATAATA-TATAGTTTTTGAAAACATATTTTTGAAAAC
* * **
12102512 ATTTAATATATAGTTATT-AAAA-ATCATTTTTTTAAAC
1 ATATAATATATAGTTTTTGAAAACAT-ATTTTTGAAAAC
*
12102549 ATAT-ATAATATAGTTTTTGAAAACATATTTTTGGAAAC
1 ATATAAT-ATATAGTTTTTGAAAACATATTTTTGAAAAC
* * *
12102587 ATATAATATGTAGTTTTT-AAAAAATGGTTTTTGAAAAC
1 ATATAATATATAGTTTTTGAAAACAT-ATTTTTGAAAAC
*
12102625 ATAT-ATAATATAATTTTTGAAAACATAT
1 ATATAAT-ATATAGTTTTTGAAAACATAT
12102653 AATATAGTTT
Statistics
Matches: 117, Mismatches: 15, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
36 4 0.03
37 36 0.31
38 64 0.55
39 13 0.11
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (38 bp):
ATATAATATATAGTTTTTGAAAACATATTTTTGAAAAC
Found at i:12102587 original size:75 final size:76
Alignment explanation
Indices: 12102465--12102652 Score: 252
Period size: 75 Copynumber: 2.5 Consensus size: 76
12102455 ATATATATAG
* * * * *
12102465 TTTTTGAAGATATATAGTATAGTTTTTGAAAACATATTTTTTAAAACATTTAATATATAGTTATT
1 TTTTTAAACATATATAATATAGTTTTTGAAAACATATTTTTGAAAACATATAATATATAGTTATT
12102530 -AAAAATCATT
66 AAAAAATCATT
* * *
12102540 TTTTTAAACATATATAATATAGTTTTTGAAAACATATTTTTGGAAACATATAATATGTAGTTTTT
1 TTTTTAAACATATATAATATAGTTTTTGAAAACATATTTTTGAAAACATATAATATATAGTTATT
**
12102605 AAAAAATGGTT
66 AAAAAATCATT
** *
12102616 TTTGAAAACATATATAATATAATTTTTGAAAACATAT
1 TTTTTAAACATATATAATATAGTTTTTGAAAACATAT
12102653 AATATAGTTT
Statistics
Matches: 99, Mismatches: 13, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
75 57 0.58
76 42 0.42
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.45
Consensus pattern (76 bp):
TTTTTAAACATATATAATATAGTTTTTGAAAACATATTTTTGAAAACATATAATATATAGTTATT
AAAAAATCATT
Found at i:12102655 original size:22 final size:23
Alignment explanation
Indices: 12102614--12102670 Score: 80
Period size: 22 Copynumber: 2.5 Consensus size: 23
12102604 TAAAAAATGG
12102614 TTTTTGAAAACATATATAATATAA
1 TTTTTGAAAACA-ATATAATATAA
*
12102638 TTTTTGAAAAC-ATATAATATAG
1 TTTTTGAAAACAATATAATATAA
*
12102660 TTTTTTAAAAC
1 TTTTTGAAAAC
12102671 GGTTTTTTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
22 20 0.65
24 11 0.35
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (23 bp):
TTTTTGAAAACAATATAATATAA
Found at i:12102718 original size:16 final size:18
Alignment explanation
Indices: 12102675--12102725 Score: 63
Period size: 16 Copynumber: 2.9 Consensus size: 18
12102665 TAAAACGGTT
12102675 TTTTG-AAACATATATAG
1 TTTTGAAAACATATATAG
*
12102692 TTTAAGAAAACATAT-TA-
1 TTT-TGAAAACATATATAG
12102709 TTTTGAAAACATATATA
1 TTTTGAAAACATATATA
12102726 TATAGTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 10 0.34
17 8 0.28
18 3 0.10
19 8 0.28
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.39
Consensus pattern (18 bp):
TTTTGAAAACATATATAG
Found at i:12102748 original size:130 final size:133
Alignment explanation
Indices: 12102556--12102799 Score: 318
Period size: 130 Copynumber: 1.8 Consensus size: 133
12102546 AACATATATA
** * * * *
12102556 ATATAGTTTTTGAAAACATATTTTTGGAAACATATAATATGTAGTTTTTAAAAAATGGTTTTTGA
1 ATATAGTTTAAGAAAACATATTTTTGAAAACATATAATATATAGTTTTTAAAAAACGATTTTTGA
*
12102621 AAAC-ATAT-ATA-ATATAATTTTTGAAAACATATAATATAGTTTTTTAAAACGGTTTTTTGAAA
66 AAACGATATAATATATATAATCTTTGAAAACATATAATATAGTTTTTTAAAACGGTTTTTTGAAA
12102683 CAT
131 CAT
*
12102686 ATATAGTTTAAGAAAACATATTATTTTGAAAACATAT-ATATATAGTTTTT-TAAAACGATTTTT
1 ATATAGTTTAAGAAAACATA-T-TTTTGAAAACATATAATATATAGTTTTTAAAAAACGATTTTT
* * * *
12102749 GAAAACGTATGTAATATATATAATCTTTGAAAATATATTATATTGTTTTTT
64 GAAAACG-ATATAATATATATAATCTTTGAAAACATATAATATAGTTTTTT
12102800 TAAATATAAT
Statistics
Matches: 96, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
130 34 0.35
131 13 0.14
132 16 0.17
133 3 0.03
134 30 0.31
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (133 bp):
ATATAGTTTAAGAAAACATATTTTTGAAAACATATAATATATAGTTTTTAAAAAACGATTTTTGA
AAACGATATAATATATATAATCTTTGAAAACATATAATATAGTTTTTTAAAACGGTTTTTTGAAA
CAT
Found at i:12102816 original size:29 final size:31
Alignment explanation
Indices: 12102781--12102859 Score: 112
Period size: 29 Copynumber: 2.7 Consensus size: 31
12102771 ATCTTTGAAA
*
12102781 ATATATTATATTGTTTTTTTAA-ATATA-AT
1 ATATATTATATAGTTTTTTTAATATATACAT
12102810 ATATATTATATAGTTTTTTTAATATATACAT
1 ATATATTATATAGTTTTTTTAATATATACAT
*
12102841 AT-TATTAT-TAGTATTTTTA
1 ATATATTATATAGTTTTTTTA
12102860 TTTTTTACTT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
29 31 0.67
30 11 0.24
31 4 0.09
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.58
Consensus pattern (31 bp):
ATATATTATATAGTTTTTTTAATATATACAT
Found at i:12102955 original size:12 final size:12
Alignment explanation
Indices: 12102938--12102967 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
12102928 AGCGAAGGTA
12102938 AGGGTCCAAGTC
1 AGGGTCCAAGTC
12102950 AGGGTCCAAGTC
1 AGGGTCCAAGTC
12102962 AGGGTC
1 AGGGTC
12102968 TGCCTAACAC
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:0.23, C:0.23, G:0.37, T:0.17
Consensus pattern (12 bp):
AGGGTCCAAGTC
Found at i:12104328 original size:7 final size:7
Alignment explanation
Indices: 12104312--12104341 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
12104302 TAAATTTAAA
*
12104312 TTTAACT
1 TTTAATT
12104319 TTTAATT
1 TTTAATT
12104326 TTTAATT
1 TTTAATT
12104333 TTTAATT
1 TTTAATT
12104340 TT
1 TT
12104342 CAAAATTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (7 bp):
TTTAATT
Found at i:12106165 original size:83 final size:83
Alignment explanation
Indices: 12106026--12106191 Score: 332
Period size: 83 Copynumber: 2.0 Consensus size: 83
12106016 TTGGCAAGAG
12106026 AAGCCAGGGTGGTTCGACAAGGTATTCAGCTAGTGACAGAAGAATCAAGAAGACTTGTCAACCTA
1 AAGCCAGGGTGGTTCGACAAGGTATTCAGCTAGTGACAGAAGAATCAAGAAGACTTGTCAACCTA
12106091 TTAGAAGCCATTTGGAGT
66 TTAGAAGCCATTTGGAGT
12106109 AAGCCAGGGTGGTTCGACAAGGTATTCAGCTAGTGACAGAAGAATCAAGAAGACTTGTCAACCTA
1 AAGCCAGGGTGGTTCGACAAGGTATTCAGCTAGTGACAGAAGAATCAAGAAGACTTGTCAACCTA
12106174 TTAGAAGCCATTTGGAGT
66 TTAGAAGCCATTTGGAGT
12106192 CTGTAAGATC
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 83 1.00
ACGTcount: A:0.34, C:0.17, G:0.27, T:0.23
Consensus pattern (83 bp):
AAGCCAGGGTGGTTCGACAAGGTATTCAGCTAGTGACAGAAGAATCAAGAAGACTTGTCAACCTA
TTAGAAGCCATTTGGAGT
Found at i:12110264 original size:12 final size:11
Alignment explanation
Indices: 12110245--12110274 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
12110235 TTATTACATC
12110245 ATATAATATAT
1 ATATAATATAT
12110256 ATGATAATATAT
1 AT-ATAATATAT
12110268 ATATAAT
1 ATATAAT
12110275 TTCAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (11 bp):
ATATAATATAT
Found at i:12110293 original size:27 final size:26
Alignment explanation
Indices: 12110254--12110322 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 26
12110244 CATATAATAT
12110254 ATATGATAATATATATA-TAATTTCAAAA
1 ATAT-ATAATATATATAGT--TTTCAAAA
**
12110282 ATATATAATATATATAGTTTTTGAAA
1 ATATATAATATATATAGTTTTCAAAA
*
12110308 ACATATAATATATAT
1 ATATATAATATATAT
12110323 TTTTTAAAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 20 0.54
27 12 0.32
28 5 0.14
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.42
Consensus pattern (26 bp):
ATATATAATATATATAGTTTTCAAAA
Found at i:12110326 original size:24 final size:24
Alignment explanation
Indices: 12110259--12110331 Score: 76
Period size: 26 Copynumber: 2.9 Consensus size: 24
12110249 AATATATATG
* *
12110259 ATAATATATATATAATTTCAAAAATAT
1 ATAATATATATAT--TTT-TAAAACAT
12110286 ATAATATATATAGTTTTTGAAAACAT
1 ATAATATATATA-TTTTT-AAAACAT
12110312 ATAATATATAT-TTTTTAAAA
1 ATAATATATATATTTTTAAAA
12110332 GCAGTTTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
23 4 0.10
24 5 0.12
26 20 0.48
27 12 0.29
28 1 0.02
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (24 bp):
ATAATATATATATTTTTAAAACAT
Found at i:12110347 original size:38 final size:36
Alignment explanation
Indices: 12110299--12110452 Score: 156
Period size: 38 Copynumber: 4.2 Consensus size: 36
12110289 ATATATATAG
12110299 TTTTTGAAAACATATAATATATATTTTTTAAAAGCAGT
1 TTTTTGAAAACATATAATATA-ATTTTTTAAAA-CAGT
* * *
12110337 TTTTTAAAAACATGTATAATATAGTTTTTGAAAACA-T
1 TTTTTGAAAACA--TATAATATAATTTTTTAAAACAGT
* * *
12110374 ATTTTTGAAAACATATAATAT-A-TTTTAAAAAAATGG
1 -TTTTTGAAAACATATAATATAATTTTTTAAAACA-GT
*
12110410 TTTTTGAAAACATATAATATAGTTTTTT-AAACAG-
1 TTTTTGAAAACATATAATATAATTTTTTAAAACAGT
12110444 TTTTTGAAA
1 TTTTTGAAA
12110453 TATTAGTTTG
Statistics
Matches: 98, Mismatches: 11, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
34 18 0.18
35 21 0.21
36 12 0.12
37 5 0.05
38 24 0.24
39 9 0.09
40 9 0.09
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.44
Consensus pattern (36 bp):
TTTTTGAAAACATATAATATAATTTTTTAAAACAGT
Found at i:12110380 original size:14 final size:14
Alignment explanation
Indices: 12110361--12110389 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
12110351 TATAATATAG
12110361 TTTTTGAAAACATA
1 TTTTTGAAAACATA
12110375 TTTTTGAAAACATA
1 TTTTTGAAAACATA
12110389 T
1 T
12110390 AATATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (14 bp):
TTTTTGAAAACATA
Found at i:12110517 original size:23 final size:24
Alignment explanation
Indices: 12110491--12110535 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
12110481 TTTATAAAAC
* *
12110491 GATA-TTTGAAACGTATTATATAT
1 GATATTTTAAAACATATTATATAT
12110514 GATATTTTAAAACATATTATAT
1 GATATTTTAAAACATATTATAT
12110536 TGTTTTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.44
Consensus pattern (24 bp):
GATATTTTAAAACATATTATATAT
Found at i:12110588 original size:29 final size:28
Alignment explanation
Indices: 12110527--12110601 Score: 91
Period size: 28 Copynumber: 2.6 Consensus size: 28
12110517 ATTTTAAAAC
* *
12110527 ATATTATATTGTTTTTGAAATATAATAT
1 ATATTATATAGTTTTTTAAATATAATAT
12110555 ATATTATATAGTTTTTTAATATATACATAT
1 ATATTATATAGTTTTTTAA-ATATA-ATAT
12110585 -TATTAT-TAGTATTTTTA
1 ATATTATATAGT-TTTTTA
12110602 TTTTTATTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
28 21 0.50
29 17 0.40
30 4 0.10
ACGTcount: A:0.37, C:0.01, G:0.05, T:0.56
Consensus pattern (28 bp):
ATATTATATAGTTTTTTAAATATAATAT
Found at i:12111876 original size:38 final size:40
Alignment explanation
Indices: 12111828--12111909 Score: 116
Period size: 39 Copynumber: 2.1 Consensus size: 40
12111818 TTTAATACTT
* *
12111828 TTTTATTTTTATCTT-AACCCT-ATATTAATTCTTTTTTAA
1 TTTTATTTTTAT-TTCAACACTAATATAAATTCTTTTTTAA
12111867 TTTTA-TTTTATTTCAACACTAATATAAATTCTTTTTTAA
1 TTTTATTTTTATTTCAACACTAATATAAATTCTTTTTTAA
12111906 TTTT
1 TTTT
12111910 TGTGAATTCT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
37 2 0.05
38 11 0.28
39 26 0.67
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.61
Consensus pattern (40 bp):
TTTTATTTTTATTTCAACACTAATATAAATTCTTTTTTAA
Found at i:12118001 original size:2 final size:2
Alignment explanation
Indices: 12117994--12118018 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
12117984 TGTTCAGAGG
12117994 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
12118019 TAAGCCTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:12121151 original size:21 final size:21
Alignment explanation
Indices: 12121111--12121151 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
12121101 CATTTGCATT
*
12121111 TTTAAATTTCATGCATAAACA
1 TTTAAATTTCATGCAAAAACA
12121132 TTTAAATTT-ATGTCAAAAAC
1 TTTAAATTTCATG-CAAAAAC
12121152 TTAAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.39
Consensus pattern (21 bp):
TTTAAATTTCATGCAAAAACA
Found at i:12127084 original size:40 final size:39
Alignment explanation
Indices: 12126959--12127084 Score: 102
Period size: 39 Copynumber: 3.2 Consensus size: 39
12126949 ATTTTTCATA
* * *
12126959 ACATTTTCAGTTGCAACCT-AAAATGCTA-CAAAAAAAGTC
1 ACATTTTAAGTTGCAA-CTGAAAATG-TATGAAAAAAAATC
* *
12126998 ACATTTTCAGTTGTCAA-TCGAAAATATTATGAAAAAATAAT-
1 ACATTTTAAGTTG-CAACT-GAAAAT-GTATGAAAAAA-AATC
12127039 --ATTTTAAGTTGCAACTGAAAATGTAATGAAAAAAAATC
1 ACATTTTAAGTTGCAACTGAAAATGT-ATGAAAAAAAATC
12127077 ACATTTTA
1 ACATTTTA
12127085 GATTGCGTTC
Statistics
Matches: 71, Mismatches: 5, Indels: 21
0.73 0.05 0.22
Matches are distributed among these distances:
37 4 0.06
38 19 0.27
39 24 0.34
40 16 0.23
41 6 0.08
42 2 0.03
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.31
Consensus pattern (39 bp):
ACATTTTAAGTTGCAACTGAAAATGTATGAAAAAAAATC
Found at i:12135515 original size:57 final size:57
Alignment explanation
Indices: 12135439--12135551 Score: 208
Period size: 57 Copynumber: 2.0 Consensus size: 57
12135429 AGAAAGAGGT
* *
12135439 TCATAGTTTAGGGATGAAATTAGAATATTCAAAAGTTTAAAGACTATTTAAAGTGAG
1 TCATAATTTAAGGATGAAATTAGAATATTCAAAAGTTTAAAGACTATTTAAAGTGAG
12135496 TCATAATTTAAGGATGAAATTAGAATATTCAAAAGTTTAAAGACTATTTAAAGTGA
1 TCATAATTTAAGGATGAAATTAGAATATTCAAAAGTTTAAAGACTATTTAAAGTGA
12135552 AGGTTATAGT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.44, C:0.05, G:0.17, T:0.34
Consensus pattern (57 bp):
TCATAATTTAAGGATGAAATTAGAATATTCAAAAGTTTAAAGACTATTTAAAGTGAG
Found at i:12148706 original size:81 final size:81
Alignment explanation
Indices: 12148562--12148824 Score: 388
Period size: 81 Copynumber: 3.3 Consensus size: 81
12148552 TAAAGCCCAG
* * * * * * *
12148562 ATTGAGACAAACT-TCATCTCATAATTATGGGAAACGAGCATAATTATCGTATCATGCCAATTAA
1 ATTGAAACAAACTCT-ATCCCATAAATATAGGAAACGACCATGATTATCGTATCCTGCCAATTAA
12148626 AAATTTTAAAAATCCAA
65 AAATTTTAAAAATCCAA
* *
12148643 ATTGAAACAAACTCTATCCCATAAATATAGGAAACGACCATGATTATCGTATCCTGCCTATTAAC
1 ATTGAAACAAACTCTATCCCATAAATATAGGAAACGACCATGATTATCGTATCCTGCCAATTAAA
12148708 AATTTTAAAAATCCAA
66 AATTTTAAAAATCCAA
* *
12148724 ATTGAAACAAACTTTATCCCATAAA-ATAGGAAACGACCATGATTATCGCATCCTGCCAATTAAA
1 ATTGAAACAAACTCTATCCCATAAATATAGGAAACGACCATGATTATCGTATCCTGCCAATTAAA
12148788 AATTTTAAAAA-CCAAA
66 AATTTTAAAAATCC-AA
12148804 ATTGAAACAAACTCTATCCCA
1 ATTGAAACAAACTCTATCCCA
12148825 GCCACGTTAC
Statistics
Matches: 166, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
79 2 0.01
80 69 0.42
81 94 0.57
82 1 0.01
ACGTcount: A:0.44, C:0.20, G:0.09, T:0.27
Consensus pattern (81 bp):
ATTGAAACAAACTCTATCCCATAAATATAGGAAACGACCATGATTATCGTATCCTGCCAATTAAA
AATTTTAAAAATCCAA
Found at i:12151669 original size:42 final size:42
Alignment explanation
Indices: 12151612--12151819 Score: 263
Period size: 42 Copynumber: 5.2 Consensus size: 42
12151602 TGATATTGAT
*
12151612 TTTA-TTTAGACTTATTGAGACTTATTAGTGTTATGGTGTTA
1 TTTATTTTAGACTTATTGAGACTTAATAGTGTTATGGTGTTA
* * *
12151653 TTTATTTTAAACTTATTGAGATTTAATGGTGTTATGGTGTTA
1 TTTATTTTAGACTTATTGAGACTTAATAGTGTTATGGTGTTA
12151695 TTTATTTTAGACTTATTGAGACTTAATAGTGTTATGGTGTTA
1 TTTATTTTAGACTTATTGAGACTTAATAGTGTTATGGTGTTA
* *
12151737 TTTATTTTAGACTTTTTGAGAC---ATA-----ATGATGTTA
1 TTTATTTTAGACTTATTGAGACTTAATAGTGTTATGGTGTTA
* * * *
12151771 TTTAGTTTAGATTTATTAAGACTTAATGGTGTTATGGTGTTA
1 TTTATTTTAGACTTATTGAGACTTAATAGTGTTATGGTGTTA
12151813 TTTATTT
1 TTTATTT
12151820 ACTTGTTTAT
Statistics
Matches: 142, Mismatches: 16, Indels: 17
0.81 0.09 0.10
Matches are distributed among these distances:
34 26 0.18
37 2 0.01
39 3 0.02
41 4 0.03
42 107 0.75
ACGTcount: A:0.26, C:0.04, G:0.18, T:0.52
Consensus pattern (42 bp):
TTTATTTTAGACTTATTGAGACTTAATAGTGTTATGGTGTTA
Found at i:12151728 original size:34 final size:33
Alignment explanation
Indices: 12151689--12151805 Score: 90
Period size: 34 Copynumber: 3.2 Consensus size: 33
12151679 TGGTGTTATG
12151689 GTGTTATTTATTTTAGACTTATTGAGACTTAATAGTGTTAT
1 GTGTTATTTATTTTAGACTTATTGAGAC-T--TA-----AT
* *
12151730 GGTGTTATTTATTTTAGACTTTTTGAGACATAAT
1 -GTGTTATTTATTTTAGACTTATTGAGACTTAAT
* * *
12151764 GATGTTATTTAGTTTAGATTTATTAAGACTTAAT
1 G-TGTTATTTATTTTAGACTTATTGAGACTTAAT
12151798 GGTGTTAT
1 -GTGTTAT
12151806 GGTGTTATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
33 1 0.02
34 35 0.53
35 1 0.02
39 2 0.03
42 27 0.41
ACGTcount: A:0.27, C:0.04, G:0.18, T:0.50
Consensus pattern (33 bp):
GTGTTATTTATTTTAGACTTATTGAGACTTAAT
Found at i:12153143 original size:424 final size:425
Alignment explanation
Indices: 12152120--12153296 Score: 1921
Period size: 424 Copynumber: 2.8 Consensus size: 425
12152110 CCTAGCTCTA
* *
12152120 CTACTCGTATTCTTGCTCCTAGTTGAGGTGATATATTTTGGGTTT-TTGCTAAATTTGTTTTGTT
1 CTACTCATATGCTTGCTCCTAGTTGAGGTGATATATTTTGGGTTTGTTGCTAAATTTGTTTTGTT
* * *
12152184 AGGATTGACGCATCTGTTATAGCAGTCTATTCATTCTAATTTGGTTGCTCTATTTTATTTTCAAG
66 GGGATTGACGCATCTGTTATAGCAGTCTATTCATTCTGATTTGGTTGTTCTATTTTATTTTCAAG
* ** *
12152249 TATGTTTTAAGATGGAAATGTTTATGAATGTTTCTAAATACTGCTAGTATGTTTTAAGAACATAT
131 TATGTTTTAAGATGGAAATGTTTATGGATGTTTCTAAATACTGCTAGTATGTTTTAAGAATGTAC
* *
12152314 TTTGTTATTGTGGATGTTATATAAGTTTTATTAGGTGATTTTGATTAGTTTGTTCTTTTCTATTT
196 TTTGTTATTGTGGATGTTATATAAGTTTTATTAGGTGATTATGTTTAGTTTGTTCTTTTCTATTT
12152379 ATTTGATAACATTTTTGAACATATATAAATGAACATGTTTGCGAACACTAAATGAACACTAACCA
261 ATTTGATAACATTTTTGAACATATATAAATGAACATGTTTGCGAACACTAAATGAACACTAACCA
* *
12152444 AACACTAAACGAATATGTTATTTTAGGTTGTGTCTGCCATTTTATTTTGTTATTTTGACTATGTT
326 AACACTAAACGAACATGTTATTTTAGGTTGTGCCTGCCATTTTATTTTGTTATTTTGACTATGTT
12152509 GTTGATATGTGATAGTCGTGCTTTGCTGTCACTTG
391 GTTGATATGTGATAGTCGTGCTTTGCTGTCACTTG
* *
12152544 CTACTCATATGCGTGCTCCTAGTTGAGGTTATATATTTTGGGTTTGTTGCTAAATTTGTTTTGTT
1 CTACTCATATGCTTGCTCCTAGTTGAGGTGATATATTTTGGGTTTGTTGCTAAATTTGTTTTGTT
* * * *
12152609 GGGATTGACGCAAT-TGTTACAGTAGTCTATTCGTTCTGATTTAGTTGTTCTATTTTATTTTCAA
66 GGGATTGACGC-ATCTGTTATAGCAGTCTATTCATTCTGATTTGGTTGTTCTATTTTATTTTCAA
* * *
12152673 GTATGTTTTAAGATGAAAATATTTATGGATGTTTCTAAATACTGCTAGTATGTTTTAAGAGTGTA
130 GTATGTTTTAAGATGGAAATGTTTATGGATGTTTCTAAATACTGCTAGTATGTTTTAAGAATGTA
*
12152738 CTTTGTTATTGTGGATGTTATATAAATTTTATTAGGTGATTATGTTTAGTTTGTTCTTTTCTATT
195 CTTTGTTATTGTGGATGTTATATAAGTTTTATTAGGTGATTATGTTTAGTTTGTTCTTTTCTATT
* *
12152803 TATTTGATAACATTTTTGAACATATATAAATGAACATGTTTGCGAAAACTAAATGAATACTAACC
260 TATTTGATAACATTTTTGAACATATATAAATGAACATGTTTGCGAACACTAAATGAACACTAACC
* * *
12152868 AAACGCTAAATGAACATGTTATTTTGGGTTGTGCCTGCCA-TTTATTTTGTTATTTTGACTATGT
325 AAACACTAAACGAACATGTTATTTTAGGTTGTGCCTGCCATTTTATTTTGTTATTTTGACTATGT
12152932 TGTTGATATGTGATAG-CTGTGCTTTGCTGTCACTTG
390 TGTTGATATGTGATAGTC-GTGCTTTGCTGTCACTTG
* *
12152968 CTACTTATATGCTTGCTCTTAGTTGAGGTGATATATTTTGGGTTTGTTGCTAAATTTGTTTTGTT
1 CTACTCATATGCTTGCTCCTAGTTGAGGTGATATATTTTGGGTTTGTTGCTAAATTTGTTTTGTT
* * *
12153033 GGGATTGACACATCTGTTATAGCAGTCTATTCATTATGATTTGGTTATTCTATTTTATTTTCAAG
66 GGGATTGACGCATCTGTTATAGCAGTCTATTCATTCTGATTTGGTTGTTCTATTTTATTTTCAAG
*
12153098 TATGTTTTAAGATGGAGATGTTTATGGATGTTTCTAAATACTGCTAGTATGTTTTAAGAATGTAC
131 TATGTTTTAAGATGGAAATGTTTATGGATGTTTCTAAATACTGCTAGTATGTTTTAAGAATGTAC
* * * *
12153163 TTTTTTATTGTGGGTGTTATATAAGTTTTATTAGGCGATTCTGTTTAGTTTGTTCTTTTCTATTT
196 TTTGTTATTGTGGATGTTATATAAGTTTTATTAGGTGATTATGTTTAGTTTGTTCTTTTCTATTT
* * * * *
12153228 ATTTGATAACATTTTTGAACATATACAAATGAACATGTTTGCGAACACTAACTAAACGCTAAACA
261 ATTTGATAACATTTTTGAACATATATAAATGAACATGTTTGCGAACACTAAATGAACACTAACCA
12153293 AACA
326 AACA
12153297 TGTTCGTGAA
Statistics
Matches: 693, Mismatches: 56, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
423 3 0.00
424 397 0.57
425 291 0.42
426 2 0.00
ACGTcount: A:0.26, C:0.10, G:0.18, T:0.46
Consensus pattern (425 bp):
CTACTCATATGCTTGCTCCTAGTTGAGGTGATATATTTTGGGTTTGTTGCTAAATTTGTTTTGTT
GGGATTGACGCATCTGTTATAGCAGTCTATTCATTCTGATTTGGTTGTTCTATTTTATTTTCAAG
TATGTTTTAAGATGGAAATGTTTATGGATGTTTCTAAATACTGCTAGTATGTTTTAAGAATGTAC
TTTGTTATTGTGGATGTTATATAAGTTTTATTAGGTGATTATGTTTAGTTTGTTCTTTTCTATTT
ATTTGATAACATTTTTGAACATATATAAATGAACATGTTTGCGAACACTAAATGAACACTAACCA
AACACTAAACGAACATGTTATTTTAGGTTGTGCCTGCCATTTTATTTTGTTATTTTGACTATGTT
GTTGATATGTGATAGTCGTGCTTTGCTGTCACTTG
Found at i:12153341 original size:23 final size:23
Alignment explanation
Indices: 12153287--12153342 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
12153277 AACTAAACGC
* * *
12153287 TAAACAAACATGTTCGTGAATAT
1 TAAACGAACATGTTCATGAACAT
12153310 TAAACGAACATGTTCATGAACAT
1 TAAACGAACATGTTCATGAACAT
*
12153333 TAAATGAACA
1 TAAACGAACA
12153343 CATTCACAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.27
Consensus pattern (23 bp):
TAAACGAACATGTTCATGAACAT
Found at i:12153348 original size:23 final size:23
Alignment explanation
Indices: 12153303--12153348 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
12153293 AACATGTTCG
* **
12153303 TGAATATTAAACGAACATGTTCA
1 TGAACATTAAACGAACACATTCA
*
12153326 TGAACATTAAATGAACACATTCA
1 TGAACATTAAACGAACACATTCA
12153349 CAAATGTTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.46, C:0.15, G:0.11, T:0.28
Consensus pattern (23 bp):
TGAACATTAAACGAACACATTCA
Found at i:12153373 original size:33 final size:30
Alignment explanation
Indices: 12153336--12153405 Score: 77
Period size: 30 Copynumber: 2.2 Consensus size: 30
12153326 TGAACATTAA
* *
12153336 ATGAACACATTCACAAATGTTAAATGAACGAAC
1 ATGAACACATTCA-AAA--ATAAATAAACGAAC
* *
12153369 ATGAACTCCTTCAAAAATAAATAAACGAAC
1 ATGAACACATTCAAAAATAAATAAACGAAC
12153399 ATGAACA
1 ATGAACA
12153406 TGATATTGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
30 18 0.56
32 3 0.09
33 11 0.34
ACGTcount: A:0.51, C:0.19, G:0.10, T:0.20
Consensus pattern (30 bp):
ATGAACACATTCAAAAATAAATAAACGAAC
Found at i:12153473 original size:34 final size:36
Alignment explanation
Indices: 12153357--12153474 Score: 81
Period size: 34 Copynumber: 3.4 Consensus size: 36
12153347 CACAAATGTT
* *
12153357 AAATGAAC--GAACATGAACTCCTTCAAAAATAAAT
1 AAATGAACATGAACATGAACACCTTCAAAAATAAAC
* * * *
12153391 AAACGAACATGAACATG-ATA--TTGAAAAATTAAC
1 AAATGAACATGAACATGAACACCTTCAAAAATAAAC
* * *
12153424 AAA-CACAAACCGAACATGAACACCTTCAAAAAT-AA-
1 AAATGA-ACA-TGAACATGAACACCTTCAAAAATAAAC
12153459 AAATGAACATGAACAT
1 AAATGAACATGAACAT
12153475 AGTCTTTCGT
Statistics
Matches: 62, Mismatches: 14, Indels: 16
0.67 0.15 0.17
Matches are distributed among these distances:
32 1 0.02
33 15 0.24
34 20 0.32
35 8 0.13
36 10 0.16
37 8 0.13
ACGTcount: A:0.55, C:0.18, G:0.09, T:0.18
Consensus pattern (36 bp):
AAATGAACATGAACATGAACACCTTCAAAAATAAAC
Found at i:12154373 original size:34 final size:34
Alignment explanation
Indices: 12154324--12154662 Score: 173
Period size: 34 Copynumber: 9.9 Consensus size: 34
12154314 TAAGTATAAA
* * * * *
12154324 ACTTTATTTGAAAGTGGCGAACATTTTTAAGCGC
1 ACTTTACTTGGAAGTGACGAATATTTTTAAGCAC
* * * *
12154358 ACTTTACTTGGAAGTGGCAAATGTTTTTAGGCAC
1 ACTTTACTTGGAAGTGACGAATATTTTTAAGCAC
* * * * * * * *
12154392 AATTTGCTTGGAAATAATGAGTATTTGTGAGCAC
1 ACTTTACTTGGAAGTGACGAATATTTTTAAGCAC
* **
12154426 ACTTTACTTGGAAGTGACGAACATTTTTAAGCGT
1 ACTTTACTTGGAAGTGACGAATATTTTTAAGCAC
* * * * *
12154460 ACTTTTATTTAGAATTGAC-AAT-TGTCTTTAGGTAC
1 AC-TTTACTTGGAAGTGACGAATAT-T-TTTAAGCAC
* ** * * *
12154495 ACTTTGCTTGGAAGTGGTGAGTATTTGTGAGCAC
1 ACTTTACTTGGAAGTGACGAATATTTTTAAGCAC
* * * * * **
12154529 ACTTTACTTGTATGTGGCGAACATTTTCAAGTGC
1 ACTTTACTTGGAAGTGACGAATATTTTTAAGCAC
* * * *
12154563 ACTTTTACTTGAAAGTGACAAATGTTTTTAGGCAC
1 AC-TTTACTTGGAAGTGACGAATATTTTTAAGCAC
* *
12154598 ACTTTGA-TTGGAA-TGACGAGTATTTTTTAGCAC
1 ACTTT-ACTTGGAAGTGACGAATATTTTTAAGCAC
* * * *
12154631 ACTTTATTTGAAAGTGACGAACATTGTTAAGC
1 ACTTTACTTGGAAGTGACGAATATTTTTAAGC
12154663 TCGTTTTTAC
Statistics
Matches: 215, Mismatches: 81, Indels: 18
0.68 0.26 0.06
Matches are distributed among these distances:
32 1 0.00
33 26 0.12
34 139 0.65
35 48 0.22
36 1 0.00
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.37
Consensus pattern (34 bp):
ACTTTACTTGGAAGTGACGAATATTTTTAAGCAC
Found at i:12154526 original size:103 final size:101
Alignment explanation
Indices: 12154248--12154662 Score: 443
Period size: 103 Copynumber: 4.1 Consensus size: 101
12154238 ACTTGGTGGT
* *
12154248 GAACATTTTTAAGCACAC--TTACTTGGAAGTGACAAATGTTTTTAGGCACACTTTGCTTAGAA-
1 GAACATTTTTAAGCGCACTTTTACTT-GAAGTGACAAATGTTTTTAGGCACACTTTGCTTGGAAT
* ** * * *
12154310 GA-GA-TA--AGT-ATAAAACTTTATTTGAAAGTGGC
65 GATGAGTATTTGTGAGCACACTTTACTTGAAAGTGAC
* *
12154342 GAACATTTTTAAGCGCAC-TTTACTTGGAAGTGGCAAATGTTTTTAGGCACAATTTGCTTGGAAA
1 GAACATTTTTAAGCGCACTTTTACTT-GAAGTGACAAATGTTTTTAGGCACACTTTGCTTGG-AA
* *
12154406 TAATGAGTATTTGTGAGCACACTTTACTTGGAAGTGAC
64 TGATGAGTATTTGTGAGCACACTTTACTTGAAAGTGAC
* * * * * *
12154444 GAACATTTTTAAGCGTACTTTTATTTAGAATTGACAATTGTCTTTAGGTACACTTTGCTTGGAAG
1 GAACATTTTTAAGCGCACTTTTACTT-GAAGTGACAAATGTTTTTAGGCACACTTTGCTTGGAA-
* * * *
12154509 TGGTGAGTATTTGTGAGCACACTTTACTTGTATGTGGC
64 TGATGAGTATTTGTGAGCACACTTTACTTGAAAGTGAC
* * *
12154547 GAACATTTTCAAGTGCACTTTTACTTGAAAGTGACAAATGTTTTTAGGCACACTTTGATTGGAAT
1 GAACATTTTTAAGCGCACTTTTACTTG-AAGTGACAAATGTTTTTAGGCACACTTTGCTTGGAAT
* * * *
12154612 GACGAGTATTTTTTAGCACACTTTATTTGAAAGTGAC
65 GATGAGTATTTGTGAGCACACTTTACTTGAAAGTGAC
*
12154649 GAACATTGTTAAGC
1 GAACATTTTTAAGC
12154663 TCGTTTTTAC
Statistics
Matches: 264, Mismatches: 46, Indels: 14
0.81 0.14 0.04
Matches are distributed among these distances:
94 17 0.06
95 39 0.15
96 2 0.01
97 1 0.00
98 2 0.01
99 2 0.01
101 2 0.01
102 78 0.30
103 121 0.46
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (101 bp):
GAACATTTTTAAGCGCACTTTTACTTGAAGTGACAAATGTTTTTAGGCACACTTTGCTTGGAATG
ATGAGTATTTGTGAGCACACTTTACTTGAAAGTGAC
Found at i:12154781 original size:37 final size:35
Alignment explanation
Indices: 12154731--12154802 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 35
12154721 TGGAGATTTA
12154731 TTTGGAGGCAAGCTCGCTTAG-GAGCGTCGAACCTTC
1 TTTGGAGGCAAGCTCGC-TAGAGA-CGTCGAACCTTC
12154767 TTTGGAGGGCAAGCTCGCTAGAGTACGTCGAACCTT
1 TTTGGA-GGCAAGCTCGCTAGAG-ACGTCGAACCTT
12154803 TTGGAGACTT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
36 9 0.27
37 23 0.70
38 1 0.03
ACGTcount: A:0.21, C:0.24, G:0.31, T:0.25
Consensus pattern (35 bp):
TTTGGAGGCAAGCTCGCTAGAGACGTCGAACCTTC
Found at i:12154806 original size:83 final size:84
Alignment explanation
Indices: 12154681--12154846 Score: 210
Period size: 83 Copynumber: 2.0 Consensus size: 84
12154671 ACTTGGAAAT
* * * *
12154681 TTCTTTGGAGGGCGAGCTTGCTTGGGAGCGTCAAACCCTTTGGAGATTTATTTGGA-GGCAAGCT
1 TTCTTTGGAGGGCAAGCTCGCTAGGGAGCGTCAAACCCTTTGGAGACTTATTTGGAGGGCAAGCT
*
12154745 CGCTTAGGAGCGTCGAACC
66 CGCATAGGAGCGTCGAACC
* * * *
12154764 TTCTTTGGAGGGCAAGCTCGCTAGAGTA-CGTCGAACCTTTTGGAGACTTATTTGGAGGGCGAGC
1 TTCTTTGGAGGGCAAGCTCGCTAG-GGAGCGTCAAACCCTTTGGAGACTTATTTGGAGGGCAAGC
* *
12154828 TCGCATGGGAGCGTTGAAC
65 TCGCATAGGAGCGTCGAAC
12154847 ACTTTGGATA
Statistics
Matches: 70, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
83 46 0.66
84 24 0.34
ACGTcount: A:0.20, C:0.20, G:0.33, T:0.27
Consensus pattern (84 bp):
TTCTTTGGAGGGCAAGCTCGCTAGGGAGCGTCAAACCCTTTGGAGACTTATTTGGAGGGCAAGCT
CGCATAGGAGCGTCGAACC
Found at i:12155459 original size:29 final size:29
Alignment explanation
Indices: 12155415--12155473 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
12155405 TGCTTTGTTG
* * *
12155415 AGTCTCTCGACTATTAAAAGCTATAAAAT
1 AGTCACTCGACCATTAAAAACTATAAAAT
*
12155444 AGTCACTCGACCATTAAAAATTATAAAAT
1 AGTCACTCGACCATTAAAAACTATAAAAT
12155473 A
1 A
12155474 ATGACTTAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.46, C:0.17, G:0.08, T:0.29
Consensus pattern (29 bp):
AGTCACTCGACCATTAAAAACTATAAAAT
Found at i:12158903 original size:15 final size:16
Alignment explanation
Indices: 12158871--12158903 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
12158861 TTAAGTTTTT
*
12158871 AATAATATGATATTAA
1 AATAAAATGATATTAA
12158887 AATAAAATGAT-TTAA
1 AATAAAATGATATTAA
12158902 AA
1 AA
12158904 AAATAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (16 bp):
AATAAAATGATATTAA
Done.