Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 123 of 160
Found at i:22894004 original size:18 final size:19
Alignment explanation
Indices: 22893975--22894013 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
22893965 AAAAACCAAA
22893975 TTATATTTTTTTATT-AATT
1 TTATATTTTTTT-TTCAATT
22893994 TTATA-TTTTTTTTCAATT
1 TTATATTTTTTTTTCAATT
22894012 TT
1 TT
22894014 TATAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 2 0.11
18 12 0.63
19 5 0.26
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (19 bp):
TTATATTTTTTTTTCAATT
Found at i:22894017 original size:19 final size:19
Alignment explanation
Indices: 22893975--22894013 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
22893965 AAAAACCAAA
*
22893975 TTATATTTTTTTATTAATT
1 TTATATTTTTTTATCAATT
22893994 TTATATTTTTTT-TCAATT
1 TTATATTTTTTTATCAATT
22894012 TT
1 TT
22894014 TATAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (19 bp):
TTATATTTTTTTATCAATT
Found at i:22898648 original size:15 final size:15
Alignment explanation
Indices: 22898597--22898648 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
22898587 AAAAAGTATT
*
22898597 TTTAATTTTATTTTA
1 TTTATTTTTATTTTA
**
22898612 TTATATTTTTATTACA
1 TT-TATTTTTATTTTA
*
22898628 TATATTTTTATTTTA
1 TTTATTTTTATTTTA
22898643 TTTATT
1 TTTATT
22898649 ATTTTAAAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
15 18 0.62
16 11 0.38
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTATTTTTATTTTA
Found at i:22899301 original size:3 final size:3
Alignment explanation
Indices: 22899293--22899325 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
22899283 ATTCATTTTG
22899293 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
22899326 CTACATATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:22902594 original size:20 final size:21
Alignment explanation
Indices: 22902560--22902598 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
22902550 TTTTAATCAA
*
22902560 TTTTAGGCCTCATTATTTTTT
1 TTTTAGCCCTCATTATTTTTT
22902581 TTTTAGCCCT-ATTATTTT
1 TTTTAGCCCTCATTATTTT
22902599 GGGCCAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.15, C:0.15, G:0.08, T:0.62
Consensus pattern (21 bp):
TTTTAGCCCTCATTATTTTTT
Found at i:22903342 original size:103 final size:102
Alignment explanation
Indices: 22903162--22903409 Score: 281
Period size: 102 Copynumber: 2.4 Consensus size: 102
22903152 AGTGGATCCC
* * * * *
22903162 CATAAACAAAAGTTTTGGAATTTTAAAAATCTTGATT-AGAAATGGCTCTCCATAAATAGAGGCT
1 CATAAACAGAGGTTTTGAAACTTTAAAAATCTTGTTTGA-AAATGGCTCTCCATAAATAGAGGCT
* * * *
22903226 ATGGAACTCTAAAAAAAATTTTGAT-TGAAAAT-GGTTCCT
65 ATGAAACTCT-AAAAAAATCTTG-TCTAAAAATAGCTT-CT
* *
22903265 CATAAATAGAGGTTTTGAAACTTTAAAGATCTTGTTTGAAAATGGCT-TCCCATAAATAGAGG-T
1 CATAAACAGAGGTTTTGAAACTTTAAAAATCTTGTTTGAAAATGGCTCT-CCATAAATAGAGGCT
*
22903328 ATTGAAACTTTAAAAAAATCTTGTCTAAAAATAGCTTCT
65 A-TGAAACTCTAAAAAAATCTTGTCTAAAAATAGCTTCT
* *
22903367 CATAAACAGAGGCTTTGAAACTTTAAAAATTTTGTTTGAAAAT
1 CATAAACAGAGGTTTTGAAACTTTAAAAATCTTGTTTGAAAAT
22903410 TAGACTTGAC
Statistics
Matches: 124, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
101 1 0.01
102 61 0.49
103 61 0.49
104 1 0.01
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.33
Consensus pattern (102 bp):
CATAAACAGAGGTTTTGAAACTTTAAAAATCTTGTTTGAAAATGGCTCTCCATAAATAGAGGCTA
TGAAACTCTAAAAAAATCTTGTCTAAAAATAGCTTCT
Found at i:22903371 original size:52 final size:53
Alignment explanation
Indices: 22903186--22903395 Score: 213
Period size: 52 Copynumber: 4.1 Consensus size: 53
22903176 TTGGAATTTT
* * *
22903186 AAAAATCTTGATTAGAAATGGC-TCTCCATAAATAGAGGCTA-TGGAACTCTAAA
1 AAAAATCTTGATTAAAAATGGCTTCT-CATAAATAGAGGCTATTGAAACT-TTAA
* * *
22903239 AAAAATTTTGATTGAAAATGG-TTCCTCATAAATAGAGG-TTTTGAAACTTT--
1 AAAAATCTTGATTAAAAATGGCTT-CTCATAAATAGAGGCTATTGAAACTTTAA
* * * *
22903289 AAAGATCTTGTTTGAAAATGGCTTCCCATAAATAGAGG-TATTGAAACTTTAA
1 AAAAATCTTGATTAAAAATGGCTTCTCATAAATAGAGGCTATTGAAACTTTAA
* *
22903341 AAAAATCTTG-TCTAAAAATAGCTTCTCATAAACAGAGGCT-TTGAAACTTTAA
1 AAAAATCTTGAT-TAAAAATGGCTTCTCATAAATAGAGGCTATTGAAACTTTAA
22903393 AAA
1 AAA
22903396 TTTTGTTTGA
Statistics
Matches: 133, Mismatches: 16, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
50 42 0.32
51 3 0.02
52 48 0.36
53 38 0.29
54 2 0.02
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.31
Consensus pattern (53 bp):
AAAAATCTTGATTAAAAATGGCTTCTCATAAATAGAGGCTATTGAAACTTTAA
Found at i:22903508 original size:22 final size:23
Alignment explanation
Indices: 22903462--22903506 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
22903452 AAATGACATG
22903462 AAAAAAAATTGTATATGTGTTTT
1 AAAAAAAATTGTATATGTGTTTT
*
22903485 AAAAAAAA-TGTATTTTGTGTTT
1 AAAAAAAATTGTA-TATGTGTTT
22903507 AATCATGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.44
Consensus pattern (23 bp):
AAAAAAAATTGTATATGTGTTTT
Found at i:22904017 original size:11 final size:11
Alignment explanation
Indices: 22903986--22904022 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
22903976 ATATTAAAAT
22903986 TTAAATACATA
1 TTAAATACATA
*
22903997 -T-AATATATA
1 TTAAATACATA
22904006 TTAAATACATA
1 TTAAATACATA
22904017 TTAAAT
1 TTAAAT
22904023 GGGTATCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 7 0.32
10 2 0.09
11 13 0.59
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (11 bp):
TTAAATACATA
Found at i:22904197 original size:29 final size:29
Alignment explanation
Indices: 22904134--22904217 Score: 71
Period size: 29 Copynumber: 2.9 Consensus size: 29
22904124 ATTTTTTGTA
*
22904134 TATATTCATGTTATGCATATCTATTTGAG
1 TATATTCATGTTATGCATATCTATTCGAG
* * * *
22904163 TTTATTCATGTTA-GTAGTGTCTATTCGTG
1 TATATTCATGTTATGCA-TATCTATTCGAG
** * *
22904192 TATATTTGTGTTATTCATATTTATTC
1 TATATTCATGTTATGCATATCTATTC
22904218 ATGTCATGTT
Statistics
Matches: 41, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
28 2 0.05
29 38 0.93
30 1 0.02
ACGTcount: A:0.23, C:0.10, G:0.14, T:0.54
Consensus pattern (29 bp):
TATATTCATGTTATGCATATCTATTCGAG
Found at i:22904493 original size:51 final size:50
Alignment explanation
Indices: 22904416--22904615 Score: 197
Period size: 51 Copynumber: 4.0 Consensus size: 50
22904406 CAAGTCTATG
* *
22904416 GAAAATGGCTCAT-TATAAATAAAGGCTTTGAAACTTTTAAAAATCTTGTCT
1 GAAAATGGCTC-TCCATAAACAAAGGCTTTGAAAC-TTTAAAAATCTTGTCT
* * * * * *
22904467 AAAAATGGCTCTCAATGAACAGAGGCTTTGAAACTTTAAAGATCTTGTTT
1 GAAAATGGCTCTCCATAAACAAAGGCTTTGAAACTTTAAAAATCTTGTCT
* * * * *
22904517 GAAAATGACTTTCCATAAACAAAAGCTTTTG-AGCTTTAAAAAATGTTGTCT
1 GAAAATGGCTCTCCATAAACAAAGGC-TTTGAAACTTT-AAAAATCTTGTCT
* * * *
22904568 GAAAATGGTTCCCCATAAACAAAGGCTTTGAATCTTTAAAAATTTTGT
1 GAAAATGGCTCTCCATAAACAAAGGCTTTGAAACTTTAAAAATCTTGT
22904616 AAAACAACTT
Statistics
Matches: 120, Mismatches: 25, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
50 53 0.44
51 67 0.56
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.34
Consensus pattern (50 bp):
GAAAATGGCTCTCCATAAACAAAGGCTTTGAAACTTTAAAAATCTTGTCT
Found at i:22906713 original size:12 final size:12
Alignment explanation
Indices: 22906696--22906727 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
22906686 GTTCCATAAT
22906696 TTTCTTTATGTA
1 TTTCTTTATGTA
22906708 TTTCTTTATGTA
1 TTTCTTTATGTA
22906720 TCTTCTTT
1 T-TTCTTT
22906728 GCTTTAGTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.68
13 6 0.32
ACGTcount: A:0.12, C:0.12, G:0.06, T:0.69
Consensus pattern (12 bp):
TTTCTTTATGTA
Found at i:22909229 original size:19 final size:19
Alignment explanation
Indices: 22909193--22909231 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
22909183 TTCTTTTGTG
*
22909193 TTTTGTTTTTTTTGTTTAT
1 TTTTGTTTTATTTGTTTAT
22909212 TTTTGTTTGTATTT-TTTAT
1 TTTTGTTT-TATTTGTTTAT
22909231 T
1 T
22909232 AATGTTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.08, C:0.00, G:0.10, T:0.82
Consensus pattern (19 bp):
TTTTGTTTTATTTGTTTAT
Found at i:22921481 original size:26 final size:26
Alignment explanation
Indices: 22921419--22921482 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
22921409 TTTGTAGACA
*
22921419 CCTATTTGTGTCCGGGCCCAATAAGG
1 CCTATTTGTGTCCGGGCCCAACAAGG
* * *
22921445 CCTATTGGTGTCCGGGCCTAACCAGG
1 CCTATTTGTGTCCGGGCCCAACAAGG
22921471 TCC-ATTTGTGTC
1 -CCTATTTGTGTC
22921483 TAGACCTAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 30 0.94
27 2 0.06
ACGTcount: A:0.16, C:0.28, G:0.27, T:0.30
Consensus pattern (26 bp):
CCTATTTGTGTCCGGGCCCAACAAGG
Found at i:22921884 original size:15 final size:15
Alignment explanation
Indices: 22921852--22921896 Score: 56
Period size: 16 Copynumber: 3.0 Consensus size: 15
22921842 GAGGATGGAC
* *
22921852 AAAAATTTTG-AGAG
1 AAAAAGTTTGAAGAA
22921866 AAAAAGTTTGAAGAAA
1 AAAAAGTTTGAAG-AA
22921882 AAAAAGTTTGAAGAA
1 AAAAAGTTTGAAGAA
22921897 TTTTGGTAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 9 0.33
15 4 0.15
16 14 0.52
ACGTcount: A:0.58, C:0.00, G:0.20, T:0.22
Consensus pattern (15 bp):
AAAAAGTTTGAAGAA
Found at i:22921887 original size:16 final size:16
Alignment explanation
Indices: 22921866--22921896 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
22921856 ATTTTGAGAG
22921866 AAAAAGTTTGAAGAAA
1 AAAAAGTTTGAAGAAA
22921882 AAAAAGTTTGAAGAA
1 AAAAAGTTTGAAGAA
22921897 TTTTGGTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.19, T:0.19
Consensus pattern (16 bp):
AAAAAGTTTGAAGAAA
Found at i:22922602 original size:18 final size:18
Alignment explanation
Indices: 22922566--22922602 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
22922556 GATTCCATAA
* *
22922566 TAAAAAAAAAAAGATCCT
1 TAAAAAAAAAAAAAACCT
22922584 TAAAAAAAAAAAAAACCT
1 TAAAAAAAAAAAAAACCT
22922602 T
1 T
22922603 TTCAAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.70, C:0.11, G:0.03, T:0.16
Consensus pattern (18 bp):
TAAAAAAAAAAAAAACCT
Found at i:22922676 original size:14 final size:16
Alignment explanation
Indices: 22922659--22922691 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
22922649 AAATATAGAA
22922659 AAAAATTT-A-AAAAT
1 AAAAATTTGACAAAAT
22922673 AAAAATTTGACAAAAT
1 AAAAATTTGACAAAAT
22922689 AAA
1 AAA
22922692 TTCATAGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 1 0.06
16 8 0.47
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (16 bp):
AAAAATTTGACAAAAT
Found at i:22933069 original size:58 final size:56
Alignment explanation
Indices: 22932959--22933069 Score: 145
Period size: 56 Copynumber: 1.9 Consensus size: 56
22932949 GCTTAACCCT
* *
22932959 AAAAAAATAAAAAAAAGAAAAAAGTTCAAGTTGAAACCCAAAAGGGTGGCTTGACA
1 AAAAAAATAAAAAAAAGAAAAAAGTCCAAGTTGAAACCCAAAAGGGTAGCTTGACA
*
22933015 AAAAAAATAAAATAAAA-AAATAGAGTCCAAGTTGAAAACCCGAAAA-GGTAGCTTG
1 AAAAAAATAAAA-AAAAGAAA-AAAGTCCAAGTTG-AAACCC-AAAAGGGTAGCTTG
22933070 GGCCCCAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
56 15 0.31
57 15 0.31
58 14 0.29
59 4 0.08
ACGTcount: A:0.57, C:0.11, G:0.17, T:0.15
Consensus pattern (56 bp):
AAAAAAATAAAAAAAAGAAAAAAGTCCAAGTTGAAACCCAAAAGGGTAGCTTGACA
Found at i:22934112 original size:119 final size:120
Alignment explanation
Indices: 22933727--22934190 Score: 483
Period size: 119 Copynumber: 3.9 Consensus size: 120
22933717 ATCTATTCAT
* * * * *
22933727 TTGATCTTGGCTCAGTCCAAATCATTTCTTATAACTCATGATTTTATCTC-AGTCATTTATTTTT
1 TTGATCTTGGCTCAGTCCAGATCATTTCTTATGATTCATGATTTCATCTCGA-TCATTTATTTTC
* * * * ***
22933791 TACCTCGACTCAATCCTAGTGGCTTCATTTTTTACTCGTGGTTTCATCTTGGTCAC
65 AACATCGACTCAATCCTGGTCGCTTCATTTTTTACTCGTGGTTTCATCCCCGTCAC
* * *
22933847 TTGATTTTGGCTCAGTCCAGATAATTTTTTATGATTCATGATTTCATCTCGATCATTTA-TTTCA
1 TTGATCTTGGCTCAGTCCAGATCATTTCTTATGATTCATGATTTCATCTCGATCATTTATTTTCA
* ** * * *
22933911 ACCTTAACTCAGTCCTGATCGC-TCATTTTTTACTCGTGATTTCAT-CCCGATCAC
66 ACATCGACTCAATCCTGGTCGCTTCATTTTTTACTCGTGGTTTCATCCCCG-TCAC
* * * * **
22933965 TTAATCTTGGCTCAATCTAGATCATTTCTTATGATTCATGGTTTCATCTCGATCATTTATTTTTG
1 TTGATCTTGGCTCAGTCCAGATCATTTCTTATGATTCATGATTTCATCTCGATCATTTATTTTCA
* * * * **
22934030 ACATCGACTCGATCCTGGTCGCTTCA-TTTTGAGTCATGGTTTTGTCCCCGTCAC
66 ACATCGACTCAATCCTGGTCGCTTCATTTTTTACTCGTGGTTTCATCCCCGTCAC
* * *
22934084 TTGATTTTGGCTCAGTCCATATCATTTCTTATGATTCATGATTTCATC-CTAATCATTTATTTTC
1 TTGATCTTGGCTCAGTCCAGATCATTTCTTATGATTCATGATTTCATCTC-GATCATTTATTTTC
* ** * *
22934148 AACATTGACTCAATCCTGGTCATTTCA-TCTTGACTCGTGGTTT
65 AACATCGACTCAATCCTGGTCGCTTCATTTTTTACTCGTGGTTT
22934191 AGTTCCAATC
Statistics
Matches: 282, Mismatches: 56, Indels: 13
0.80 0.16 0.04
Matches are distributed among these distances:
117 1 0.00
118 79 0.28
119 144 0.51
120 57 0.20
121 1 0.00
ACGTcount: A:0.20, C:0.22, G:0.13, T:0.44
Consensus pattern (120 bp):
TTGATCTTGGCTCAGTCCAGATCATTTCTTATGATTCATGATTTCATCTCGATCATTTATTTTCA
ACATCGACTCAATCCTGGTCGCTTCATTTTTTACTCGTGGTTTCATCCCCGTCAC
Found at i:22934150 original size:238 final size:238
Alignment explanation
Indices: 22933730--22934165 Score: 581
Period size: 238 Copynumber: 1.8 Consensus size: 238
22933720 TATTCATTTG
* * * *
22933730 ATCTTGGCTCAGTCCAAATCATTTCTTATAACTCATGATTTTATCTCAGTCATTTATTTTTTACC
1 ATCTTGGCTCAATCCAAATCATTTCTTATAACTCATGATTTCATCTCAGTCATTTATTTTTGACA
* * * ***
22933795 TCGACTCAATCCTAGTGGCTTCATTTTTTACTCGTGGTTTCATCTTGGTCACTTGATTTTGGCTC
66 TCGACTCAATCCTAGTCGCTTCATTTTTGACTCATGGTTTCATCCCCGTCACTTGATTTTGGCTC
* * * *
22933860 AGTCCAGATAATTTTTTATGATTCATGATTTCATCTCGATCATTTATTTCAACCTTAACTCAGTC
131 AGTCCAGATAATTTCTTATGATTCATGATTTCATCTCAATCATTTATTTCAACATTAACTCAATC
22933925 CTGATCGCTCATTTTTTACTCGTGATTTCATCCCGATCACTTA
196 CTGATCGCTCATTTTTTACTCGTGATTTCATCCCGATCACTTA
* * * * *
22933968 ATCTTGGCTCAATCTAGATCATTTCTTATGATTCATGGTTTCATCTC-GATCATTTATTTTTGAC
1 ATCTTGGCTCAATCCAAATCATTTCTTATAACTCATGATTTCATCTCAG-TCATTTATTTTTGAC
* * * **
22934032 ATCGACTCGATCCTGGTCGCTTCA-TTTTGAGTCATGGTTTTGTCCCCGTCACTTGATTTTGGCT
65 ATCGACTCAATCCTAGTCGCTTCATTTTTGACTCATGGTTTCATCCCCGTCACTTGATTTTGGCT
* * *
22934096 CAGTCCATATCATTTCTTATGATTCATGATTTCATC-CTAATCATTTATTTTCAACATTGACTCA
130 CAGTCCAGATAATTTCTTATGATTCATGATTTCATCTC-AATCATTTA-TTTCAACATTAACTCA
22934160 ATCCTG
193 ATCCTG
22934166 GTCATTTCAT
Statistics
Matches: 168, Mismatches: 27, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
236 1 0.01
237 74 0.44
238 93 0.55
ACGTcount: A:0.21, C:0.22, G:0.13, T:0.44
Consensus pattern (238 bp):
ATCTTGGCTCAATCCAAATCATTTCTTATAACTCATGATTTCATCTCAGTCATTTATTTTTGACA
TCGACTCAATCCTAGTCGCTTCATTTTTGACTCATGGTTTCATCCCCGTCACTTGATTTTGGCTC
AGTCCAGATAATTTCTTATGATTCATGATTTCATCTCAATCATTTATTTCAACATTAACTCAATC
CTGATCGCTCATTTTTTACTCGTGATTTCATCCCGATCACTTA
Found at i:22934186 original size:238 final size:238
Alignment explanation
Indices: 22933730--22934222 Score: 564
Period size: 238 Copynumber: 2.1 Consensus size: 238
22933720 TATTCATTTG
* * * * *
22933730 ATCTTGGCTCAGTCCAAATCATTTCTTATAACTCATGATTTTATCTCAGTCATTTATTTTTTACC
1 ATCTTGGCTCAATCTAAATCATTTCTTATAACTCATGATTTCATCTCAGTCATTTATTTTTGACA
* * * ***
22933795 TCGACTCAATCCTAGTGGCTTCATTTTTTACTCGTGGTTTCATCTTGGTCACTTGATTTTGGCTC
66 TCGACTCAATCCTAGTCGCTTCATTTTTGACTCATGGTTTCATCCCCGTCACTTGATTTTGGCTC
* * * *
22933860 AGTCCAGATAATTTTTTATGATTCATGATTTCATCTCGATCATTTATTTCAACCTTAACTCAGTC
131 AGTCCAGATAATTTCTTATGATTCATGATTTCATCTCAATCATTTATTTCAACATTAACTCAATC
* * * **
22933925 CTGATCGCTCATTTTTTACTCGTGATTTCA-TCCCGATCACTTA
196 CTGATCGCTCATTCTTGACTCGTGATTT-AGTCCCAATCACCCA
* * * *
22933968 ATCTTGGCTCAATCTAGATCATTTCTTATGATTCATGGTTTCATCTC-GATCATTTATTTTTGAC
1 ATCTTGGCTCAATCTAAATCATTTCTTATAACTCATGATTTCATCTCAG-TCATTTATTTTTGAC
* * * **
22934032 ATCGACTCGATCCTGGTCGCTTCA-TTTTGAGTCATGGTTTTGTCCCCGTCACTTGATTTTGGCT
65 ATCGACTCAATCCTAGTCGCTTCATTTTTGACTCATGGTTTCATCCCCGTCACTTGATTTTGGCT
* * *
22934096 CAGTCCATATCATTTCTTATGATTCATGATTTCATC-CTAATCATTTATTTTCAACATTGACTCA
130 CAGTCCAGATAATTTCTTATGATTCATGATTTCATCTC-AATCATTTA-TTTCAACATTAACTCA
* ** * *
22934160 ATCCTGGTCATTTCA-TCTTGACTCGTGGTTTAGTTCCAATCACCCA
193 ATCCTGATC-GCTCATTCTTGACTCGTGATTTAGTCCCAATCACCCA
*
22934206 ATCTTGGTTCAATCTAA
1 ATCTTGGCTCAATCTAA
22934223 GTTATTTTTC
Statistics
Matches: 211, Mismatches: 39, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
236 1 0.00
237 75 0.36
238 132 0.63
239 3 0.01
ACGTcount: A:0.21, C:0.23, G:0.13, T:0.43
Consensus pattern (238 bp):
ATCTTGGCTCAATCTAAATCATTTCTTATAACTCATGATTTCATCTCAGTCATTTATTTTTGACA
TCGACTCAATCCTAGTCGCTTCATTTTTGACTCATGGTTTCATCCCCGTCACTTGATTTTGGCTC
AGTCCAGATAATTTCTTATGATTCATGATTTCATCTCAATCATTTATTTCAACATTAACTCAATC
CTGATCGCTCATTCTTGACTCGTGATTTAGTCCCAATCACCCA
Found at i:22934416 original size:26 final size:26
Alignment explanation
Indices: 22934346--22934431 Score: 70
Period size: 26 Copynumber: 3.3 Consensus size: 26
22934336 TCCATTTGTA
* * * *
22934346 TTTGGGCCCAATTAAGTCAAT-TGATA
1 TTTGGGCCCAATAAAGCCCATCT-ATG
22934372 TTTGGGCCCAATAAAGCCCA-CTAGTG
1 TTTGGGCCCAATAAAGCCCATCTA-TG
* *
22934398 TTTGGGCCCAACT-AGGCCCATTTATG
1 TTTGGGCCCAA-TAAAGCCCATCTATG
22934424 TTTGGGCC
1 TTTGGGCC
22934432 TAATTGGGTC
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
25 1 0.02
26 46 0.92
27 3 0.06
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.30
Consensus pattern (26 bp):
TTTGGGCCCAATAAAGCCCATCTATG
Found at i:22934527 original size:8 final size:8
Alignment explanation
Indices: 22934514--22934568 Score: 65
Period size: 9 Copynumber: 6.4 Consensus size: 8
22934504 TTTCTATGTA
*
22934514 TATATTCT
1 TATATTAT
22934522 TATATTAT
1 TATATTAT
22934530 TATTATTAT
1 TA-TATTAT
22934539 TATTATTAT
1 TA-TATTAT
22934548 TATTATTAT
1 TA-TATTAT
22934557 TATTATTAT
1 TA-TATTAT
22934566 TAT
1 TAT
22934569 TTCCATTTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
8 10 0.22
9 35 0.78
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (8 bp):
TATATTAT
Found at i:22934532 original size:3 final size:3
Alignment explanation
Indices: 22934524--22934569 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
22934514 TATATTCTTA
22934524 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
22934570 TCCATTTTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:22935127 original size:20 final size:20
Alignment explanation
Indices: 22935086--22935127 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
22935076 AGTTTTTTGA
* *
22935086 TGAATTTTTTTATGATTGTT
1 TGAATTTTTTGATCATTGTT
*
22935106 TGAATTTTTTGATCATTTTT
1 TGAATTTTTTGATCATTGTT
22935126 TG
1 TG
22935128 GTGAAGTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.19, C:0.02, G:0.14, T:0.64
Consensus pattern (20 bp):
TGAATTTTTTGATCATTGTT
Found at i:22937065 original size:26 final size:24
Alignment explanation
Indices: 22937036--22937084 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
22937026 TTATCACAAA
*
22937036 TTTTAATTATGTTTTTCATTATTTAT
1 TTTTAATTATCTTTTT-ATT-TTTAT
*
22937062 TTTTATTTATCTTTTTATTTTTA
1 TTTTAATTATCTTTTTATTTTTA
22937085 CTAATTGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 4 0.19
25 3 0.14
26 14 0.67
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.73
Consensus pattern (24 bp):
TTTTAATTATCTTTTTATTTTTAT
Found at i:22937187 original size:14 final size:15
Alignment explanation
Indices: 22937166--22937206 Score: 82
Period size: 15 Copynumber: 2.7 Consensus size: 15
22937156 TTAATAATAA
22937166 CAAAAAAAAATAATT
1 CAAAAAAAAATAATT
22937181 CAAAAAAAAATAATT
1 CAAAAAAAAATAATT
22937196 CAAAAAAAAAT
1 CAAAAAAAAAT
22937207 TTTTATAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (15 bp):
CAAAAAAAAATAATT
Found at i:22939969 original size:15 final size:14
Alignment explanation
Indices: 22939949--22939987 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
22939939 AAATTTTATC
22939949 AATATTTTTACTAAA
1 AATATTTTT-CTAAA
*
22939964 AATATTTATCTAAA
1 AATATTTTTCTAAA
22939978 ATATATTTTT
1 A-ATATTTTT
22939988 TAATTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (14 bp):
AATATTTTTCTAAA
Found at i:22940076 original size:15 final size:15
Alignment explanation
Indices: 22940032--22940080 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
22940022 TAACGAGATC
22940032 TTTTAATTTAA-TAT
1 TTTTAATTTAATTAT
* *
22940046 TTTTTA-TT--TTAA
1 TTTTAATTTAATTAT
22940058 TTTTAATTTAATTAT
1 TTTTAATTTAATTAT
22940073 TTTTAATT
1 TTTTAATT
22940081 AAAAATTTCG
Statistics
Matches: 27, Mismatches: 4, Indels: 7
0.71 0.11 0.18
Matches are distributed among these distances:
12 7 0.26
13 4 0.15
14 5 0.19
15 11 0.41
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTAATTTAATTAT
Found at i:22957077 original size:24 final size:24
Alignment explanation
Indices: 22957050--22957095 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
22957040 ATTGTTTATT
22957050 TTGAATAAACAAAAACTATCTACA
1 TTGAATAAACAAAAACTATCTACA
* *
22957074 TTGAATAGACAGAAACTATCTA
1 TTGAATAAACAAAAACTATCTA
22957096 TTTTTTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.50, C:0.15, G:0.09, T:0.26
Consensus pattern (24 bp):
TTGAATAAACAAAAACTATCTACA
Found at i:22965208 original size:21 final size:21
Alignment explanation
Indices: 22965159--22965233 Score: 66
Period size: 21 Copynumber: 3.6 Consensus size: 21
22965149 ATAAAGATTA
*
22965159 ATTATTATATATTAATAAA-T
1 ATTATTATATTTTAATAAATT
*
22965179 AATATTTATATTTTAATAAATT
1 ATTA-TTATATTTTAATAAATT
* *
22965201 ATTATTAT-TTATTAGT-ATTT
1 ATTATTATATT-TTAATAAATT
22965221 ATTTATTATATTT
1 A-TTATTATATTT
22965234 ATTAAAATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
20 9 0.20
21 30 0.67
22 6 0.13
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (21 bp):
ATTATTATATTTTAATAAATT
Found at i:22965250 original size:23 final size:24
Alignment explanation
Indices: 22965224--22965293 Score: 70
Period size: 27 Copynumber: 2.8 Consensus size: 24
22965214 AGTATTTATT
22965224 TATTATATTTATTAAAATATAAATA
1 TATTATATTTATTAAAATATAAA-A
* *
22965249 TTATTTTTAATTATTAAAATATAAAA
1 -TA-TTATATTTATTAAAATATAAAA
* *
22965275 TATGAT-TTTAATAAAATAT
1 TATTATATTTATTAAAATAT
22965294 TAAGTAATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
23 11 0.30
24 2 0.05
25 2 0.05
26 3 0.08
27 19 0.51
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (24 bp):
TATTATATTTATTAAAATATAAAA
Found at i:22965250 original size:27 final size:27
Alignment explanation
Indices: 22965226--22965286 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
22965216 TATTTATTTA
*
22965226 TTATATTTATTAAAATATAAATATTAT
1 TTATAATTATTAAAATATAAATATTAT
* *
22965253 TTTTAATTATTAAAATATAAAATATGAT
1 TTATAATTATTAAAATAT-AAATATTAT
22965281 TT-TAAT
1 TTATAAT
22965287 AAAATATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 20 0.67
28 10 0.33
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (27 bp):
TTATAATTATTAAAATATAAATATTAT
Found at i:22970944 original size:24 final size:24
Alignment explanation
Indices: 22970903--22970965 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 24
22970893 CTTTAATGTC
22970903 AAAAAATAAAAATAATTTTAAA-ATAT
1 AAAAAAT-AAAAT-ATTTTAAATAT-T
* *
22970929 AAAAAATTAAATATTTTAGATATT
1 AAAAAATAAAATATTTTAAATATT
22970953 AAAAAATAAAATA
1 AAAAAATAAAATA
22970966 AAATTATAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 20 0.61
25 6 0.18
26 7 0.21
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (24 bp):
AAAAAATAAAATATTTTAAATATT
Found at i:22983529 original size:19 final size:19
Alignment explanation
Indices: 22983505--22983548 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
22983495 TATATATGCA
22983505 ATTTTTTATCTCCAATATT
1 ATTTTTTATCTCCAATATT
** *
22983524 ATTTTTTATCTTTATTATT
1 ATTTTTTATCTCCAATATT
22983543 ATTTTT
1 ATTTTT
22983549 CACTTTATCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.68
Consensus pattern (19 bp):
ATTTTTTATCTCCAATATT
Found at i:22984265 original size:16 final size:16
Alignment explanation
Indices: 22984246--22984284 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
22984236 AAAAATATGT
22984246 TAAAAACAAAATAAAA
1 TAAAAACAAAATAAAA
*
22984262 TAAAAATAAAATAAAA
1 TAAAAACAAAATAAAA
*
22984278 AAAAAAC
1 TAAAAAC
22984285 CTACAATCGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.82, C:0.05, G:0.00, T:0.13
Consensus pattern (16 bp):
TAAAAACAAAATAAAA
Found at i:22984283 original size:11 final size:11
Alignment explanation
Indices: 22984253--22984282 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
22984243 TGTTAAAAAC
22984253 AAAATAAAATA
1 AAAATAAAATA
22984264 AAAATAAAATA
1 AAAATAAAATA
22984275 AAAA-AAAA
1 AAAATAAAA
22984283 ACCTACAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.21
11 15 0.79
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:22985135 original size:3 final size:3
Alignment explanation
Indices: 22985127--22985152 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
22985117 GAAAAAAGAA
22985127 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
22985153 ACAAGTTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:22985269 original size:26 final size:26
Alignment explanation
Indices: 22985231--22985322 Score: 87
Period size: 26 Copynumber: 3.6 Consensus size: 26
22985221 GGCTCAAACA
** * *
22985231 TCAATGGATCTAATTGGGACCGAATG
1 TCAATGGGCCTAATCGGGTCCGAATG
**
22985257 TCAATGGGCCTAATCGGGTTTG-ATG
1 TCAATGGGCCTAATCGGGTCCGAATG
* * *
22985282 TTAATGGGCCTAATCGGGTCCAAATA
1 TCAATGGGCCTAATCGGGTCCGAATG
*
22985308 TTAATGGGCCTAATC
1 TCAATGGGCCTAATC
22985323 AAACCTGATG
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
25 21 0.39
26 33 0.61
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.29
Consensus pattern (26 bp):
TCAATGGGCCTAATCGGGTCCGAATG
Found at i:22986356 original size:17 final size:17
Alignment explanation
Indices: 22986330--22986372 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
22986320 GATCTGATTT
*
22986330 AATTTTAAATTAATCAA
1 AATTTAAAATTAATCAA
*
22986347 AATTTAAAATTAATCGA
1 AATTTAAAATTAATCAA
22986364 AATTTAAAA
1 AATTTAAAA
22986373 ATGATTTCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (17 bp):
AATTTAAAATTAATCAA
Found at i:22988064 original size:48 final size:48
Alignment explanation
Indices: 22987993--22988089 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
22987983 AATGAAAAGT
*
22987993 ATTGAGCAACAGCAATTTTCCGTGTTTACTAGTCAACTCTTTTGACGC
1 ATTGAGCAACAGCAATTTTCCGTGTTTACTAGTCAACTCTTCTGACGC
*
22988041 ATTGAGCAACAGCAATTTTCCGTGTTTGCTAGTCAACTCTTCTGACGC
1 ATTGAGCAACAGCAATTTTCCGTGTTTACTAGTCAACTCTTCTGACGC
22988089 A
1 A
22988090 AATTAATTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.34
Consensus pattern (48 bp):
ATTGAGCAACAGCAATTTTCCGTGTTTACTAGTCAACTCTTCTGACGC
Found at i:22988301 original size:21 final size:21
Alignment explanation
Indices: 22988276--22988318 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
22988266 AAATTGATAA
*
22988276 AGTGATTAAAATTTTAATTTT
1 AGTGATTAAAATTTAAATTTT
22988297 AGTGATTAAAATTTAAATTTT
1 AGTGATTAAAATTTAAATTTT
22988318 A
1 A
22988319 ATAATTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (21 bp):
AGTGATTAAAATTTAAATTTT
Found at i:22990406 original size:34 final size:34
Alignment explanation
Indices: 22990366--22990453 Score: 97
Period size: 34 Copynumber: 2.6 Consensus size: 34
22990356 TTATAAAATG
* **
22990366 CCGCTATTTTTTCGACATTTGTATTTGGAAAACA
1 CCGCTATTTTATCGACATTTGTATTTAAAAAACA
* *
22990400 CTGCTATTTTAGTAG-CATTTGTATTTAAAAAACA
1 CCGCTATTTTA-TCGACATTTGTATTTAAAAAACA
* *
22990434 CCGCTAATTTAACGACATTT
1 CCGCTATTTTATCGACATTT
22990454 ATATAAAAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
33 1 0.02
34 40 0.93
35 2 0.05
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (34 bp):
CCGCTATTTTATCGACATTTGTATTTAAAAAACA
Found at i:22994160 original size:110 final size:110
Alignment explanation
Indices: 22993982--22994186 Score: 252
Period size: 110 Copynumber: 1.9 Consensus size: 110
22993972 TAACATCACA
* * * **
22993982 AATCAAAATTATGCCTGGAAGACTTAAAGATCATGCCTGAAGGTTTTACAAAATTGATCAGAACA
1 AATCAAAATTATGCCTGGAAGACTTAAAAATCATGCCCGAAGGTCTTACAAAATCAATCAGAACA
**
22994047 ACGTCACAAGTTGAAAAATAAAGAATTGATTGGGACAATGCCGTG
66 ACGTCACAAGTCAAAAAATAAAGAATTGATTGGGACAATGCCGTG
* ** *
22994092 AATCAAAATTATGTCC-GGAAGTCTTAAAAATCATGCCCGGTGGTCTTACAGAATCAATC-GAGA
1 AATCAAAATTATG-CCTGGAAGACTTAAAAATCATGCCCGAAGGTCTTACAAAATCAATCAGA-A
* **
22994155 TAACGTCGTAAGTCAAAAAATAAAGAATTGAT
64 CAACGTCACAAGTCAAAAAATAAAGAATTGAT
22994187 CTGGATAAGA
Statistics
Matches: 79, Mismatches: 14, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
109 2 0.03
110 75 0.95
111 2 0.03
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.25
Consensus pattern (110 bp):
AATCAAAATTATGCCTGGAAGACTTAAAAATCATGCCCGAAGGTCTTACAAAATCAATCAGAACA
ACGTCACAAGTCAAAAAATAAAGAATTGATTGGGACAATGCCGTG
Found at i:22994194 original size:37 final size:38
Alignment explanation
Indices: 22994153--22994232 Score: 103
Period size: 37 Copynumber: 2.2 Consensus size: 38
22994143 AATCAATCGA
* * *
22994153 GATAACG-TCGTAAGTCAAAAAATAA-AGAATTGATCTG
1 GATAACGATCATAAGTCAAAAAATAAGA-AATCGATCAG
22994190 GATAA-GATCATAAGTCAAAAAATAAGAAATCGATCAG
1 GATAACGATCATAAGTCAAAAAATAAGAAATCGATCAG
22994227 GATAAC
1 GATAAC
22994233 ACCACGAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
36 1 0.03
37 35 0.95
38 1 0.03
ACGTcount: A:0.50, C:0.11, G:0.17, T:0.21
Consensus pattern (38 bp):
GATAACGATCATAAGTCAAAAAATAAGAAATCGATCAG
Found at i:22994208 original size:110 final size:109
Alignment explanation
Indices: 22993947--22994209 Score: 230
Period size: 110 Copynumber: 2.4 Consensus size: 109
22993937 ATACAGTGAT
* * * * *
22993947 TCAAAAAAT-AAGAAATCGATCGGGATAACATCACAAATCAAAATTATGCCTGGAAGACTTAAAG
1 TCAAAAAATAAAG-AATTGATCTGGATAAGATCA-TAATCAAAATTATGCCTGGAAGACTTAAAA
* * **
22994011 ATCATGCCTGAAGGTTTTACAAAATTGATCAGAACAACGTCACAAG
64 ATCATGCCCGAAGGTCTTACAAAATCAATCAGAACAACGTCACAAG
** * * * *
22994057 TTGAAAAATAAAGAATTGAT-TGGGACAATG-CCGTGAATCAAAATTATGTCC-GGAAGTCTTAA
1 TCAAAAAATAAAGAATTGATCT-GGATAA-GATCAT-AATCAAAATTATG-CCTGGAAGACTTAA
** * * **
22994119 AAATCATGCCCGGTGGTCTTACAGAATCAATC-GAGATAACGTCGTAAG
62 AAATCATGCCCGAAGGTCTTACAAAATCAATCAGA-ACAACGTCACAAG
22994167 TCAAAAAATAAAGAATTGATCTGGATAAGATCATAAGTCAAAA
1 TCAAAAAATAAAGAATTGATCTGGATAAGATCATAA-TCAAAA
22994210 AATAAGAAAT
Statistics
Matches: 118, Mismatches: 26, Indels: 18
0.73 0.16 0.11
Matches are distributed among these distances:
109 5 0.04
110 107 0.91
111 6 0.05
ACGTcount: A:0.43, C:0.15, G:0.18, T:0.24
Consensus pattern (109 bp):
TCAAAAAATAAAGAATTGATCTGGATAAGATCATAATCAAAATTATGCCTGGAAGACTTAAAAAT
CATGCCCGAAGGTCTTACAAAATCAATCAGAACAACGTCACAAG
Found at i:22994942 original size:66 final size:65
Alignment explanation
Indices: 22994856--22995165 Score: 258
Period size: 66 Copynumber: 4.7 Consensus size: 65
22994846 AGATAAATTA
* * * **
22994856 GGCTTAAATTTCATTGAGGGCCT-GCTAAATTGGGCTTAAAACCTTATTAATGGTCGGATAAACT
1 GGCTTAAATTTCATTAAGGG-CTAGCTAAACTGGGCTTAAAACCTTATTAATGGCCAAATAAACT
22994920 G
65 G
* * * *
22994921 GGTTTACAATTTTC-TTAAGGGCTAGCTAAACTGGGCTTAAAACTTTATTGATGGCCAAATAAAT
1 GGCTTA-AA-TTTCATTAAGGGCTAGCTAAACTGGGCTTAAAACCTTATTAATGGCCAAATAAAC
22994985 TG
64 TG
* * * *
22994987 GGCTTAAATTTCATTAAGGGCTAGCTAAACTAGGCTTAAAA-CTTCATTGATAGCCAGATAAACT
1 GGCTTAAATTTCATTAAGGGCTAGCTAAACTGGGCTTAAAACCTT-ATTAATGGCCAAATAAACT
*
22995051 A
65 G
** * * * *
22995052 GGCTTAAATTTTTTTTTAAGGTCATA--TAAACTGGGTTTAAAA-CTTCATTGATGGCCAGATAA
1 GGCTTAAA--TTTCATTAAGGGC-TAGCTAAACTGGGCTTAAAACCTT-ATTAATGGCCAAATAA
* *
22995114 ATTA
62 ACTG
* *
22995118 GGCTTAAACTTT-ATTGAA-AGCCAGCTAAACTGGGCTTAAAACCTTATT
1 GGCTTAAA-TTTCATT-AAGGGCTAGCTAAACTGGGCTTAAAACCTTATT
22995166 TGGGGCCTCA
Statistics
Matches: 204, Mismatches: 29, Indels: 24
0.79 0.11 0.09
Matches are distributed among these distances:
63 1 0.00
64 9 0.04
65 83 0.41
66 95 0.47
67 14 0.07
68 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.34
Consensus pattern (65 bp):
GGCTTAAATTTCATTAAGGGCTAGCTAAACTGGGCTTAAAACCTTATTAATGGCCAAATAAACTG
Found at i:22994994 original size:33 final size:33
Alignment explanation
Indices: 22994828--22995165 Score: 211
Period size: 33 Copynumber: 10.4 Consensus size: 33
22994818 TTTAAAACTC
* * * *
22994828 TAAAACTTTTTTGA-GACCAGATAAATTAGGCT
1 TAAAACTTTATTGATGGCCAGATAAACTGGGCT
* * * *
22994860 T-AAA-TTTCATTGAGGGCCTGCTAAATTGGGCT
1 TAAAACTTT-ATTGATGGCCAGATAAACTGGGCT
* * * * *
22994892 TAAAACCTTATTAATGGTCGGATAAACTGGGTT
1 TAAAACTTTATTGATGGCCAGATAAACTGGGCT
* * * * * * *
22994925 TACAATTTTCTTAAGGGCTAGCTAAACTGGGCT
1 TAAAACTTTATTGATGGCCAGATAAACTGGGCT
* *
22994958 TAAAACTTTATTGATGGCCAAATAAATTGGGCT
1 TAAAACTTTATTGATGGCCAGATAAACTGGGCT
* * * * *
22994991 T-AAA-TTTCATTAAGGGCTAGCTAAACTAGGCT
1 TAAAACTTT-ATTGATGGCCAGATAAACTGGGCT
* * *
22995023 TAAAACTTCATTGATAGCCAGATAAACTAGGCT
1 TAAAACTTTATTGATGGCCAGATAAACTGGGCT
** * * * * * *
22995056 TAAATTTTTTTTTAAGGTCATATAAACTGGGTT
1 TAAAACTTTATTGATGGCCAGATAAACTGGGCT
* * *
22995089 TAAAACTTCATTGATGGCCAGATAAATTAGGCT
1 TAAAACTTTATTGATGGCCAGATAAACTGGGCT
** *
22995122 T-AAACTTTATTGAAAGCCAGCTAAACTGGGCT
1 TAAAACTTTATTGATGGCCAGATAAACTGGGCT
*
22995154 TAAAACCTTATT
1 TAAAACTTTATT
22995166 TGGGGCCTCA
Statistics
Matches: 224, Mismatches: 74, Indels: 15
0.72 0.24 0.05
Matches are distributed among these distances:
30 3 0.01
31 10 0.04
32 63 0.28
33 144 0.64
34 4 0.02
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (33 bp):
TAAAACTTTATTGATGGCCAGATAAACTGGGCT
Found at i:22995026 original size:131 final size:130
Alignment explanation
Indices: 22994828--22995165 Score: 384
Period size: 131 Copynumber: 2.6 Consensus size: 130
22994818 TTTAAAACTC
* * * *
22994828 TAAAACTTTTTTGA-GACCAGATAAATTAGGCTTAAATTTCATTGAGGGCCT-GCTAAATTGGGC
1 TAAAACTTTATTGATGGCCAGATAAATTAGGCTTAAATTTCATTAAGGG-CTAGCTAAACTGGGC
* * * * *
22994891 TTAAAACCTTATTAATGGTCGGATAAACTGGGTTTACAA-TTTTCTTAAGGGC-TAGCTAAACTG
65 TTAAAACCTTATTAATAGCCAGATAAACTAGGCTTA-AATTTTTCTTAAGGGCATA--TAAACTG
22994954 GGCT
127 GGCT
* * *
22994958 TAAAACTTTATTGATGGCCAAATAAATTGGGCTTAAATTTCATTAAGGGCTAGCTAAACTAGGCT
1 TAAAACTTTATTGATGGCCAGATAAATTAGGCTTAAATTTCATTAAGGGCTAGCTAAACTGGGCT
* * *
22995023 TAAAA-CTTCATTGATAGCCAGATAAACTAGGCTTAAATTTTTTTTTAAGGTCATATAAACTGGG
66 TAAAACCTT-ATTAATAGCCAGATAAACTAGGCTTAAA-TTTTTCTTAAGGGCATATAAACTGGG
*
22995087 TT
129 CT
* * *
22995089 TAAAACTTCATTGATGGCCAGATAAATTAGGCTTAAACTTT-ATTGAA-AGCCAGCTAAACTGGG
1 TAAAACTTTATTGATGGCCAGATAAATTAGGCTTAAA-TTTCATT-AAGGGCTAGCTAAACTGGG
22995152 CTTAAAACCTTATT
64 CTTAAAACCTTATT
22995166 TGGGGCCTCA
Statistics
Matches: 177, Mismatches: 22, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
130 20 0.11
131 136 0.77
132 19 0.11
133 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (130 bp):
TAAAACTTTATTGATGGCCAGATAAATTAGGCTTAAATTTCATTAAGGGCTAGCTAAACTGGGCT
TAAAACCTTATTAATAGCCAGATAAACTAGGCTTAAATTTTTCTTAAGGGCATATAAACTGGGCT
Found at i:22996005 original size:21 final size:21
Alignment explanation
Indices: 22995972--22996011 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
22995962 ATTGAAGATG
22995972 TCTTTTTTATTTTTTTTACTT
1 TCTTTTTTATTTTTTTTACTT
22995993 TCTTTGTTT-TTTTTTTTAC
1 TCTTT-TTTATTTTTTTTAC
22996012 GATGCCCCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.07, C:0.10, G:0.03, T:0.80
Consensus pattern (21 bp):
TCTTTTTTATTTTTTTTACTT
Found at i:23000844 original size:21 final size:22
Alignment explanation
Indices: 23000814--23000855 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
23000804 TTAAAACCTT
23000814 TTTTTCTTTTCTTTTTTGCTTC
1 TTTTTCTTTTCTTTTTTGCTTC
*
23000836 TTTTT-TTTTTTTTTTTGCTT
1 TTTTTCTTTTCTTTTTTGCTT
23000856 GTTGGATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.00, C:0.12, G:0.05, T:0.83
Consensus pattern (22 bp):
TTTTTCTTTTCTTTTTTGCTTC
Found at i:23001456 original size:26 final size:26
Alignment explanation
Indices: 23001421--23001476 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
23001411 ATTTTTGAAA
23001421 AAAT-TAAAATAAAGA-GAATTAAATT
1 AAATATAAAATAAA-ACGAATTAAATT
*
23001446 AAATATAAAATAAAACTAATTAAATT
1 AAATATAAAATAAAACGAATTAAATT
*
23001472 CAATA
1 AAATA
23001477 ACTATTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 5 0.19
26 22 0.81
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.29
Consensus pattern (26 bp):
AAATATAAAATAAAACGAATTAAATT
Found at i:23002698 original size:23 final size:22
Alignment explanation
Indices: 23002672--23002727 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 22
23002662 AATTTCAGAT
23002672 TTTAAGGTTTTGGATTTTAGGGG
1 TTTAAGGTTTTGGATTTTA-GGG
23002695 TTT-AGGATTTTGGATTTTAGGG
1 TTTAAGG-TTTTGGATTTTAGGG
23002717 TTTAA-GTTTTG
1 TTTAAGGTTTTG
23002728 ACTTTCAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
21 5 0.16
22 10 0.32
23 16 0.52
ACGTcount: A:0.18, C:0.00, G:0.30, T:0.52
Consensus pattern (22 bp):
TTTAAGGTTTTGGATTTTAGGG
Found at i:23002818 original size:30 final size:30
Alignment explanation
Indices: 23002784--23002923 Score: 115
Period size: 30 Copynumber: 4.7 Consensus size: 30
23002774 AGGGTTTTGG
*
23002784 TTTTAGGGTTTAAAGGATGTAAGGTTTCGA
1 TTTTAGGGTTTAAAGGATTTAAGGTTTCGA
* ** * *
23002814 TTTTAGGATTTTGAGGGTTTAA--TTTTGA
1 TTTTAGGGTTTAAAGGATTTAAGGTTTCGA
* * *
23002842 TTTTAAGGTTTGAAA-GCTTTAGGGTTTCGA
1 TTTTAGGGTTT-AAAGGATTTAAGGTTTCGA
* * * * *
23002872 TTTTAAGATTTGAAGGATTTAAGGTTTTGG
1 TTTTAGGGTTTAAAGGATTTAAGGTTTCGA
*
23002902 TTTTAGGGTTTAAAGGGTTTAA
1 TTTTAGGGTTTAAAGGATTTAA
23002924 TTTTGATTTT
Statistics
Matches: 83, Mismatches: 23, Indels: 8
0.73 0.20 0.07
Matches are distributed among these distances:
28 19 0.23
29 3 0.04
30 61 0.73
ACGTcount: A:0.25, C:0.02, G:0.27, T:0.46
Consensus pattern (30 bp):
TTTTAGGGTTTAAAGGATTTAAGGTTTCGA
Found at i:23002846 original size:58 final size:59
Alignment explanation
Indices: 23002777--23002917 Score: 171
Period size: 58 Copynumber: 2.4 Consensus size: 59
23002767 GAGATCGAGG
* *
23002777 GTTTTGGTTTTAGGGTTTAAAGGATGTAAGGTTTCGATTTTAGGATTTTG-AGGGTTTAA
1 GTTTTGGTTTTAGGGTTTAAAGGATGTAAGGTTTCGATTTTAAGA-TTTGAAGGATTTAA
* * * * *
23002836 -TTTTGATTTTAAGGTTTGAAA-GCTTTAGGGTTTCGATTTTAAGATTTGAAGGATTTAA
1 GTTTTGGTTTTAGGGTTT-AAAGGATGTAAGGTTTCGATTTTAAGATTTGAAGGATTTAA
23002894 GGTTTTGGTTTTAGGGTTTAAAGG
1 -GTTTTGGTTTTAGGGTTTAAAGG
23002918 GTTTAATTTT
Statistics
Matches: 68, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
57 4 0.06
58 42 0.62
59 6 0.09
60 16 0.24
ACGTcount: A:0.23, C:0.02, G:0.28, T:0.46
Consensus pattern (59 bp):
GTTTTGGTTTTAGGGTTTAAAGGATGTAAGGTTTCGATTTTAAGATTTGAAGGATTTAA
Found at i:23002932 original size:58 final size:58
Alignment explanation
Indices: 23002776--23002935 Score: 157
Period size: 58 Copynumber: 2.7 Consensus size: 58
23002766 TGAGATCGAG
* * *
23002776 GGTTTTGGTTTTAGGGTTTAAAGGATGTAAGGTTTCGATTTTAGGATTTTGAGGGTTTAA
1 GGTTTTGGTTTTAGGGTTTAAAGGATTTAA--TTTCGATTTTAAGATTTTGAGGATTTAA
* * * *
23002836 --TTTTGATTTTAAGGTTTGAAA-GCTTTAGGGTTTCGATTTTAAGA-TTTGAAGGATTTAA
1 GGTTTTGGTTTTAGGGTTT-AAAGGATTTA--ATTTCGATTTTAAGATTTTG-AGGATTTAA
* *
23002894 GGTTTTGGTTTTAGGGTTTAAAGGGTTTAATTTTGATTTTAA
1 GGTTTTGGTTTTAGGGTTTAAAGGATTTAATTTCGATTTTAA
23002936 AAAACATGAA
Statistics
Matches: 81, Mismatches: 12, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
57 4 0.05
58 51 0.63
59 6 0.07
60 20 0.25
ACGTcount: A:0.24, C:0.02, G:0.27, T:0.47
Consensus pattern (58 bp):
GGTTTTGGTTTTAGGGTTTAAAGGATTTAATTTCGATTTTAAGATTTTGAGGATTTAA
Found at i:23003090 original size:18 final size:18
Alignment explanation
Indices: 23003078--23003112 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
23003068 TTTTTTTTAT
23003078 ATTTTTTAATTTTAATTA
1 ATTTTTTAATTTTAATTA
23003096 ATTTTTT-ATTTATAATT
1 ATTTTTTAATTT-TAATT
23003113 CCCTAACATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTTTTAATTTTAATTA
Found at i:23004450 original size:19 final size:19
Alignment explanation
Indices: 23004415--23004475 Score: 79
Period size: 19 Copynumber: 3.2 Consensus size: 19
23004405 GCTTTCTGCC
23004415 ATTTTATTATT-TTTTATT
1 ATTTTATTATTATTTTATT
23004433 ATTTTATTATTATTTTATT
1 ATTTTATTATTATTTTATT
* *
23004452 TTTTTATTAATATATTTAATT
1 ATTTTATT-AT-TATTTTATT
23004473 ATT
1 ATT
23004476 AATTAATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
18 11 0.30
19 14 0.38
20 2 0.05
21 10 0.27
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (19 bp):
ATTTTATTATTATTTTATT
Found at i:23004452 original size:16 final size:16
Alignment explanation
Indices: 23004431--23004486 Score: 67
Period size: 16 Copynumber: 3.5 Consensus size: 16
23004421 TTATTTTTTA
*
23004431 TTATTTTATTATTATT
1 TTATTTTATTATTAAT
*
23004447 TTATTTTTTTATTAAT
1 TTATTTTATTATTAAT
* *
23004463 ATATTTAATTATTAAT
1 TTATTTTATTATTAAT
*
23004479 TAATTTTA
1 TTATTTTA
23004487 ATAAACAAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTATTTTATTATTAAT
Found at i:23004632 original size:21 final size:21
Alignment explanation
Indices: 23004608--23004652 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
23004598 ATTTTCATGC
23004608 CAAAAAATCTACAGGATACCT
1 CAAAAAATCTACAGGATACCT
23004629 CAAAAAATCTACAGGATACCT
1 CAAAAAATCTACAGGATACCT
23004650 CAA
1 CAA
23004653 TGATCTATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.49, C:0.24, G:0.09, T:0.18
Consensus pattern (21 bp):
CAAAAAATCTACAGGATACCT
Found at i:23005398 original size:22 final size:22
Alignment explanation
Indices: 23005373--23005417 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
23005363 AAAAACTCTA
*
23005373 ATGGAAGACCTTGACGGTATAG
1 ATGGAAGACCTTGACAGTATAG
23005395 ATGGAAGACCTTGACAGTATAG
1 ATGGAAGACCTTGACAGTATAG
23005417 A
1 A
23005418 CTCTATGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.29, T:0.22
Consensus pattern (22 bp):
ATGGAAGACCTTGACAGTATAG
Found at i:23007247 original size:367 final size:362
Alignment explanation
Indices: 23006324--23007411 Score: 1388
Period size: 367 Copynumber: 3.0 Consensus size: 362
23006314 AATCTCGTAG
* *
23006324 TAAAATTTTATATGGA-TTATTGAAAGTGTTTATGCCAGAAAAATGCCTTCACTAATTCTCTCTA
1 TAAAATTTTA-A-GGAGTTATTGAAAGTGTTTATTCTAGAAAAATGCCTTCACTAATT-TCTCTA
* *
23006388 ATTTTTTTAAGGTATTTATTGAAGGCG-TTTTTGCATAATACGCCTTCAATAATTTTTTTCATTT
63 A-TTTTTTAAAGAATTTATTGAAGGCGTTTTTTGCATAATACGCCTTCAATAA-TTTTTTCATTT
* * *
23006452 TTATTA-GTGAATATCAGTGAATGCGATTTTCTATTAAAAATGCTTTCAATAATTCACTCTAATT
126 TTATTAGGTGAATATCAGTGAATGCAATTTTCTACTAAAAATGCTTTCAATAATTCACTCCAATT
* * * * *
23006516 TTTAAGAAAAATTTATTGAAGGTATTTTTTGTATTATACT-CCTTTAATAATTTTTGTACAAAAT
191 TTTAAGAAAAA-TTATTGAAGATATTTTTTGCATCATA-TGCCTTCAATAATTTTTGTACAGAAT
*
23006580 TATTGAA-AGTATTTTTTGAG-AAAAATACCTTCAACAATTTCTTTTTAAAAATTATTTGAGATT
254 TATTGAAGA-TATTTTTTGAGAAAAAATACCTTCAATAATTT-TTTTTAAAAATTATTTGAGATT
* * * *
23006643 ATTAAAAGTATCTTTTAGTAGAAAACGCTTTTAATATTCTACTAAT
317 ATTAAATGTATCTTTTAGTAGAAAATGCATTCAATATTCTACTAAT
* * * *
23006689 T-AAATTTTAAAGGCGTTATTGAAGGTGTTTATTCTAGAAAAATACCTTCACTAATTCACTCTAA
1 TAAAATTTT-AAGGAGTTATTGAAAGTGTTTATTCTAGAAAAATGCCTTCACTAATT-TCTCTAA
* *
23006753 TTTTTTGAAGAAATTTATTGAAGGCATTTTTTGCATAATACGCCTTCAATAATTTTTTCCATTTT
64 TTTTTTAAAG-AATTTATTGAAGGCGTTTTTTGCATAATACGCCTTCAATAATTTTTT-CATTTT
* * * * * *
23006818 TATTAGATGAATATCAGTGAATGCATTTTTCTACTAAAAATACATCCAATAATTCTCTCCAATTT
127 TATTAGGTGAATATCAGTGAATGCAATTTTCTACTAAAAATGCTTTCAATAATTCACTCCAATTT
* * * *
23006883 TTAAGAGAAAATTACTGAAGACATTTTTTACATCATATGCCTTCAAGAATTTTTGTACAGAATTA
192 TTAAGA-AAAATTATTGAAGATATTTTTTGCATCATATGCCTTCAATAATTTTTGTACAGAATTA
* * *
23006948 TTGAAGATATTTTTTGAGAAAAAATACCTTTAATAATTTTTTTAAAAAAATATTTGAGATTATTA
256 TTGAAGATATTTTTTGAGAAAAAATACCTTCAATAATTTTTTTTAAAAATTATTTGAGATTATTA
* * *
23007013 AATGCATCTTTTAGTAGAAAATGAATTCAATATTTTACT-AT
321 AATGTATCTTTTAGTAGAAAATGCATTCAATATTCTACTAAT
* *
23007054 TAAAATTTTAAGGAGGTTATTGAAAGTGTTTTATTCTAGAAAAATGCCTTCATTAATTTGTTCTA
1 TAAAATTTTAAGGA-GTTATTGAAAGTG-TTTATTCTAGAAAAATGCCTTCACTAATTT-CTCTA
* * ** *
23007119 ATTTTTTAAAGAACTTTATTAAAGGTGTTTTTTGCATAATACGTTTTTC-ATAATTCTCTTCATT
63 ATTTTTTAAAGAA-TTTATTGAAGGCGTTTTTTGCATAATACG-CCTTCAATAATT-TTTTCATT
* *
23007183 TTTATTAGGTGAATATCAGTGAAGGCAACTTTCTACTAAAAATGCTTTCAATAATTCACTCCAAT
125 TTTATTAGGTGAATATCAGTGAATGCAATTTTCTACTAAAAATGCTTTCAATAATTCACTCCAAT
* *
23007248 TTTTAAGAAAAAAATTATTGAAGATGTTTTTTGCATCATATGCCTTCAATAATTTTTGTATAGAA
190 TTTTAAG--AAAAATTATTGAAGATATTTTTTGCATCATATGCCTTCAATAATTTTTGTACAGAA
* * * *
23007313 TTATTGAAGGTA-TTTTTGA-AAAAAATATCTTCAATAATTTTCTTTTAAAAATTGTTTGGGATT
253 TTATTGAAGATATTTTTTGAGAAAAAATACCTTCAATAATTTT-TTTTAAAAATTATTTGAGATT
* *
23007376 ATTAAATGTGTCTTTTAGTAGAAAATGCCTTCAATA
317 ATTAAATGTATCTTTTAGTAGAAAATGCATTCAATA
23007412 ATTGTAAGGG
Statistics
Matches: 626, Mismatches: 77, Indels: 38
0.84 0.10 0.05
Matches are distributed among these distances:
363 10 0.02
364 71 0.11
365 46 0.07
366 212 0.34
367 220 0.35
368 66 0.11
369 1 0.00
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (362 bp):
TAAAATTTTAAGGAGTTATTGAAAGTGTTTATTCTAGAAAAATGCCTTCACTAATTTCTCTAATT
TTTTAAAGAATTTATTGAAGGCGTTTTTTGCATAATACGCCTTCAATAATTTTTTCATTTTTATT
AGGTGAATATCAGTGAATGCAATTTTCTACTAAAAATGCTTTCAATAATTCACTCCAATTTTTAA
GAAAAATTATTGAAGATATTTTTTGCATCATATGCCTTCAATAATTTTTGTACAGAATTATTGAA
GATATTTTTTGAGAAAAAATACCTTCAATAATTTTTTTTAAAAATTATTTGAGATTATTAAATGT
ATCTTTTAGTAGAAAATGCATTCAATATTCTACTAAT
Found at i:23008170 original size:28 final size:29
Alignment explanation
Indices: 23008127--23008189 Score: 101
Period size: 28 Copynumber: 2.2 Consensus size: 29
23008117 TTTTTTTAAA
23008127 ATATTATGGTTTGTTGAATGGTATTGTATG
1 ATATTAT-GTTTGTTGAATGGTATTGTATG
*
23008157 ATATTAT-TTTGTTGAATGGTATTGTATT
1 ATATTATGTTTGTTGAATGGTATTGTATG
23008185 ATATT
1 ATATT
23008190 GCTTTACTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 25 0.78
30 7 0.22
ACGTcount: A:0.25, C:0.00, G:0.21, T:0.54
Consensus pattern (29 bp):
ATATTATGTTTGTTGAATGGTATTGTATG
Found at i:23008200 original size:28 final size:28
Alignment explanation
Indices: 23008141--23008208 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 28
23008131 TATGGTTTGT
* **
23008141 TGAATGGTATTGTATGATATTATTTTGT
1 TGAATGGTATTGTATGATATTACTTTAC
* *
23008169 TGAATGGTATTGTATTATATTGCTTTAC
1 TGAATGGTATTGTATGATATTACTTTAC
23008197 TGAATGGT-TTGT
1 TGAATGGTATTGT
23008209 TGAATGGTGA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
27 4 0.11
28 31 0.89
ACGTcount: A:0.24, C:0.03, G:0.22, T:0.51
Consensus pattern (28 bp):
TGAATGGTATTGTATGATATTACTTTAC
Found at i:23008261 original size:25 final size:25
Alignment explanation
Indices: 23008233--23008284 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
23008223 GAACATATTG
* **
23008233 CTGATTGGTTTGCTAAATGGTGTTT
1 CTGAATGGTTTGCTAAATAATGTTT
23008258 CTGAATGGTTTGCTAAATAATGTTT
1 CTGAATGGTTTGCTAAATAATGTTT
23008283 CT
1 CT
23008285 CAACACATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.21, C:0.10, G:0.23, T:0.46
Consensus pattern (25 bp):
CTGAATGGTTTGCTAAATAATGTTT
Found at i:23015706 original size:44 final size:44
Alignment explanation
Indices: 23015650--23015788 Score: 159
Period size: 44 Copynumber: 3.3 Consensus size: 44
23015640 TAAGAATAAA
23015650 AAATAATTATTAAAAATGTTATTAGAATAAAAATTGTACGTAAT
1 AAATAATTATTAAAAATGTTATTAGAATAAAAATTGTACGTAAT
* * * * * *
23015694 AAATAATTATT-AAATTATT-TTA-AGTAATAGTT-T-TGTGAAT
1 AAATAATTATTAAAAATGTTATTAGAATAAAAATTGTACGT-AAT
23015734 --A-AATTATTAAAAATGTTATTAGAATAAAAATTGTACGTAAT
1 AAATAATTATTAAAAATGTTATTAGAATAAAAATTGTACGTAAT
23015775 AAATAATTATTAAA
1 AAATAATTATTAAA
23015789 TTATTTTAAG
Statistics
Matches: 74, Mismatches: 12, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
37 7 0.09
38 7 0.09
39 5 0.07
40 11 0.15
41 11 0.15
42 5 0.07
43 7 0.09
44 21 0.28
ACGTcount: A:0.50, C:0.01, G:0.09, T:0.40
Consensus pattern (44 bp):
AAATAATTATTAAAAATGTTATTAGAATAAAAATTGTACGTAAT
Found at i:23015738 original size:29 final size:28
Alignment explanation
Indices: 23015704--23015822 Score: 79
Period size: 29 Copynumber: 4.3 Consensus size: 28
23015694 AAATAATTAT
23015704 TAAATTATTTTAAGTAATAGTTTTGTGAA
1 TAAATTATTTTAAGTAATAGTTTT-TGAA
* *
23015733 TAAATTA--TTAA-AAAT-GTTATTAGAA
1 TAAATTATTTTAAGTAATAGTT-TTTGAA
* * * * ** *
23015758 TAAA-AATTGTACGTAATAAATAATT-AT
1 TAAATTATTTTAAGTAAT-AGTTTTTGAA
23015785 TAAATTATTTTAAGTAATAGTTTTGTGAA
1 TAAATTATTTTAAGTAATAGTTTT-TGAA
23015814 TAAATTATT
1 TAAATTATT
23015823 AAAATTTAAT
Statistics
Matches: 63, Mismatches: 18, Indels: 18
0.64 0.18 0.18
Matches are distributed among these distances:
24 1 0.02
25 10 0.16
26 7 0.11
27 15 0.24
28 12 0.19
29 18 0.29
ACGTcount: A:0.45, C:0.01, G:0.10, T:0.45
Consensus pattern (28 bp):
TAAATTATTTTAAGTAATAGTTTTTGAA
Found at i:23015741 original size:81 final size:81
Alignment explanation
Indices: 23015654--23015826 Score: 346
Period size: 81 Copynumber: 2.1 Consensus size: 81
23015644 AATAAAAAAT
23015654 AATTATTAAAAATGTTATTAGAATAAAAATTGTACGTAATAAATAATTATTAAATTATTTTAAGT
1 AATTATTAAAAATGTTATTAGAATAAAAATTGTACGTAATAAATAATTATTAAATTATTTTAAGT
23015719 AATAGTTTTGTGAATA
66 AATAGTTTTGTGAATA
23015735 AATTATTAAAAATGTTATTAGAATAAAAATTGTACGTAATAAATAATTATTAAATTATTTTAAGT
1 AATTATTAAAAATGTTATTAGAATAAAAATTGTACGTAATAAATAATTATTAAATTATTTTAAGT
23015800 AATAGTTTTGTGAATA
66 AATAGTTTTGTGAATA
23015816 AATTATTAAAA
1 AATTATTAAAA
23015827 TTTAATAATA
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 92 1.00
ACGTcount: A:0.48, C:0.01, G:0.09, T:0.42
Consensus pattern (81 bp):
AATTATTAAAAATGTTATTAGAATAAAAATTGTACGTAATAAATAATTATTAAATTATTTTAAGT
AATAGTTTTGTGAATA
Found at i:23015816 original size:40 final size:40
Alignment explanation
Indices: 23015691--23015823 Score: 137
Period size: 40 Copynumber: 3.3 Consensus size: 40
23015681 AATTGTACGT
23015691 AATAAATAATTATTAAATTATTTTAAGTAATAGTTTTGTG
1 AATAAATAATTATTAAATTATTTTAAGTAATAGTTTTGTG
* * * * * * *
23015731 AATAAATTATTA-AAAATGT-TATTAGAATAAAAATTGTACGT-
1 AATAAATAATTATTAAAT-TATTTTA-AGTAATAGTT-T-TGTG
23015772 AATAAATAATTATTAAATTATTTTAAGTAATAGTTTTGTG
1 AATAAATAATTATTAAATTATTTTAAGTAATAGTTTTGTG
*
23015812 AATAAATTATTA
1 AATAAATAATTA
23015824 AAATTTAATA
Statistics
Matches: 71, Mismatches: 15, Indels: 14
0.71 0.15 0.14
Matches are distributed among these distances:
39 10 0.14
40 31 0.44
41 20 0.28
42 10 0.14
ACGTcount: A:0.47, C:0.01, G:0.09, T:0.44
Consensus pattern (40 bp):
AATAAATAATTATTAAATTATTTTAAGTAATAGTTTTGTG
Found at i:23015867 original size:81 final size:80
Alignment explanation
Indices: 23015654--23015849 Score: 283
Period size: 81 Copynumber: 2.5 Consensus size: 80
23015644 AATAAAAAAT
* **
23015654 AATTATTAAAAATGTTATTAGAATAAAAATTGTACGTAATAAATAATTATTAAATTATTTTAAGT
1 AATTATTAAAAATGTTA-TAGAATAAAAAATGTAAATAATAAATAATTATTAAATTATTTTAAGT
23015719 AATAGTTTTGTGAATA
65 AATAGTTTTGTGAATA
* **
23015735 AATTATTAAAAATGTTATTAGAATAAAAATTGTACGTAATAAATAATTATTAAATTATTTTAAGT
1 AATTATTAAAAATGTTA-TAGAATAAAAAATGTAAATAATAAATAATTATTAAATTATTTTAAGT
23015800 AATAGTTTTGTGAATA
65 AATAGTTTTGTGAATA
*
23015816 AATTATT-AAAAT-TTA-ATAATAAAAAAT-TAAATAA
1 AATTATTAAAAATGTTATAGAATAAAAAATGTAAATAA
23015850 AAGTTTATTT
Statistics
Matches: 111, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
76 5 0.05
77 10 0.09
79 3 0.03
80 5 0.05
81 88 0.79
ACGTcount: A:0.50, C:0.01, G:0.08, T:0.41
Consensus pattern (80 bp):
AATTATTAAAAATGTTATAGAATAAAAAATGTAAATAATAAATAATTATTAAATTATTTTAAGTA
ATAGTTTTGTGAATA
Found at i:23016878 original size:20 final size:21
Alignment explanation
Indices: 23016851--23016897 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
23016841 TTTTAATCTT
23016851 AAAA-TTTT-AATTTTT-AAA
1 AAAATTTTTGAATTTTTCAAA
23016869 AAATATTTTTGAATTTTTCAAA
1 AAA-ATTTTTGAATTTTTCAAA
23016891 AAAATTT
1 AAAATTT
23016898 AATTTTTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 3 0.12
19 1 0.04
20 4 0.16
21 11 0.44
22 6 0.24
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
AAAATTTTTGAATTTTTCAAA
Found at i:23017036 original size:21 final size:22
Alignment explanation
Indices: 23017010--23017050 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
23017000 AAATTTTAAC
*
23017010 TTTTCAG-AATTTTTTAAAATA
1 TTTTCAGAAAATTTTTAAAATA
23017031 TTTTCAGAAAATTTTTAAAA
1 TTTTCAGAAAATTTTTAAAA
23017051 GTTATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (22 bp):
TTTTCAGAAAATTTTTAAAATA
Found at i:23017115 original size:26 final size:27
Alignment explanation
Indices: 23017058--23017116 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
23017048 AAAGTTATTT
*
23017058 TTTTCAAAAAATTTTAGATTTTTTTTA
1 TTTTCAAAAAACTTTAGATTTTTTTTA
* *
23017085 ATTTCAAAAAGCTTTAGA-TTTTTTTA
1 TTTTCAAAAAACTTTAGATTTTTTTTA
23017111 TTTTCA
1 TTTTCA
23017117 TTTTTTAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 13 0.46
27 15 0.54
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (27 bp):
TTTTCAAAAAACTTTAGATTTTTTTTA
Found at i:23017219 original size:28 final size:27
Alignment explanation
Indices: 23017188--23017247 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 27
23017178 TTTTTTAGAA
* *
23017188 TTTTTT-ATTTTTTAATTTTCTATTAAAT
1 TTTTTTAATATTTAAATTTTC-A-TAAAT
23017216 TTTTTTAAATATTTAAATTTTCATAAAT
1 TTTTTT-AATATTTAAATTTTCATAAAT
23017244 TTTT
1 TTTT
23017248 AATGTTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 15 0.54
29 1 0.04
30 12 0.43
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (27 bp):
TTTTTTAATATTTAAATTTTCATAAAT
Found at i:23017242 original size:18 final size:18
Alignment explanation
Indices: 23017210--23017249 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
23017200 TAATTTTCTA
**
23017210 TTAAATTTTTTTAAATAT
1 TTAAATTTTCATAAATAT
*
23017228 TTAAATTTTCATAAATTT
1 TTAAATTTTCATAAATAT
23017246 TTAA
1 TTAA
23017250 TGTTTATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
TTAAATTTTCATAAATAT
Found at i:23017269 original size:26 final size:25
Alignment explanation
Indices: 23017217--23017292 Score: 62
Period size: 26 Copynumber: 2.8 Consensus size: 25
23017207 CTATTAAATT
* * *
23017217 TTTTTAAATATTTAAATTTTCATAAA
1 TTTTT-AATGTTTAAATTTTTAAAAA
23017243 TTTTTAATGTTTATAATTTTTAAAAA
1 TTTTTAATGTTTA-AATTTTTAAAAA
*
23017269 TATTTCAGATTGTTTAAAATTTTT
1 T-TTTTA-A-TGTTT-AAATTTTT
23017293 TGTAATTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
25 7 0.17
26 16 0.39
27 4 0.10
28 1 0.02
29 12 0.29
30 1 0.02
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.57
Consensus pattern (25 bp):
TTTTTAATGTTTAAATTTTTAAAAA
Found at i:23025366 original size:16 final size:18
Alignment explanation
Indices: 23025343--23025385 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
23025333 TAAATATAAA
23025343 ATTATAATAAATTTT-TT
1 ATTATAATAAATTTTATT
*
23025360 A-TATAATTAGATTTTATT
1 ATTATAA-TAAATTTTATT
23025378 ATTATAAT
1 ATTATAAT
23025386 TTATCTCGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
16 5 0.23
17 8 0.36
18 4 0.18
19 5 0.23
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
ATTATAATAAATTTTATT
Found at i:23048711 original size:10 final size:10
Alignment explanation
Indices: 23048696--23048726 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
23048686 AAAAGCGTGT
23048696 CATGATTGGC
1 CATGATTGGC
23048706 CATGATTGGC
1 CATGATTGGC
*
23048716 CATTATTGGC
1 CATGATTGGC
23048726 C
1 C
23048727 GATTGGCAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.19, C:0.23, G:0.26, T:0.32
Consensus pattern (10 bp):
CATGATTGGC
Found at i:23050921 original size:4 final size:4
Alignment explanation
Indices: 23050912--23050960 Score: 52
Period size: 4 Copynumber: 12.8 Consensus size: 4
23050902 ATTAACTGAA
23050912 TAAT TAAT T-AT TATAT TATAT T-A- TAAT T-AT TAAT TAAT TAAT TAAT
1 TAAT TAAT TAAT TA-AT TA-AT TAAT TAAT TAAT TAAT TAAT TAAT TAAT
23050958 TAA
1 TAA
23050961 ACTATAACTA
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
2 1 0.03
3 8 0.20
4 23 0.57
5 8 0.20
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (4 bp):
TAAT
Found at i:23050928 original size:38 final size:38
Alignment explanation
Indices: 23050886--23050959 Score: 98
Period size: 38 Copynumber: 1.9 Consensus size: 38
23050876 TCATAATGAA
23050886 ATATTATATCTAT-ATAATTAACTGAA-TAATTAATTATT
1 ATATTATAT-TATAATAATTAA-TGAATTAATTAATTATT
* *
23050924 ATATTATATTATAATTATTAATTAATTAATTAATTA
1 ATATTATATTATAATAATTAATGAATTAATTAATTA
23050960 AACTATAACT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
37 6 0.19
38 26 0.81
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (38 bp):
ATATTATATTATAATAATTAATGAATTAATTAATTATT
Found at i:23050938 original size:19 final size:17
Alignment explanation
Indices: 23050916--23050951 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
23050906 ACTGAATAAT
23050916 TAATTATTATATTATATTA
1 TAATTATTA-ATTA-ATTA
23050935 TAATTATTAATTAATTA
1 TAATTATTAATTAATTA
23050952 ATTAATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 4 0.24
19 9 0.53
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TAATTATTAATTAATTA
Found at i:23053471 original size:11 final size:11
Alignment explanation
Indices: 23053455--23053479 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
23053445 TTATTTGTCC
23053455 TCTCACAATCG
1 TCTCACAATCG
23053466 TCTCACAATCG
1 TCTCACAATCG
23053477 TCT
1 TCT
23053480 ACACCATGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.36, G:0.08, T:0.32
Consensus pattern (11 bp):
TCTCACAATCG
Found at i:23054079 original size:1 final size:1
Alignment explanation
Indices: 23054073--23054102 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
23054063 GGCAAATGCG
23054073 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
23054103 CTAAATTTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:23054647 original size:19 final size:20
Alignment explanation
Indices: 23054623--23054665 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
23054613 TATTTTTTAA
*
23054623 AATTTTTTAT-TAATATATT
1 AATTTTTAATATAATATATT
23054642 AA-TTTTAATATAATATATT
1 AATTTTTAATATAATATATT
*
23054661 TATTT
1 AATTT
23054666 CACATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 6 0.30
19 12 0.60
20 2 0.10
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
AATTTTTAATATAATATATT
Found at i:23060098 original size:8 final size:8
Alignment explanation
Indices: 23060085--23060109 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
23060075 TAACTTTCAA
23060085 TATGAGAT
1 TATGAGAT
23060093 TATGAGAT
1 TATGAGAT
23060101 TATGAGAT
1 TATGAGAT
23060109 T
1 T
23060110 CAAGGCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (8 bp):
TATGAGAT
Found at i:23063360 original size:3 final size:3
Alignment explanation
Indices: 23063352--23063381 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
23063342 AGTCATTTTA
23063352 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
23063382 TAGGATTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:23069098 original size:15 final size:16
Alignment explanation
Indices: 23069078--23069116 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
23069068 CATGCATTGC
23069078 ATTTCATGCAGAT-AT
1 ATTTCATGCAGATAAT
*
23069093 ATTTCATGCATATAAT
1 ATTTCATGCAGATAAT
*
23069109 ATGTCATG
1 ATTTCATG
23069117 TATTATATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (16 bp):
ATTTCATGCAGATAAT
Found at i:23071439 original size:242 final size:237
Alignment explanation
Indices: 23070818--23071539 Score: 751
Period size: 241 Copynumber: 3.0 Consensus size: 237
23070808 AAAAATAAAT
* * ** * * *
23070818 GCTAAAATGAGAGATCAAACCTACAACCTTATGGTTAATGGCCATATGCTTTAACCAACTAAACT
1 GCTAGAATGAGGGATCAAACCTACAACCTTATGGTTAATAACCATATACTTTAATCGACT-AACT
* * *
23070883 ATTCTAATTTTTTTTTTATATTTTATCTCTTAAGTCTCATAAGTAATTAAAAGAATTATTTAAGG
65 ATTCT-A---TTTTTTTATATTTTATCTCTTAAATCTTATAAGTAATGAAAAG-ATTATTTAAGG
* * ** * *
23070948 CATTTTTAGTCAAAAACCACATT-AATAATATGGTCTAAAAAATT-AAAGGGTATTATTTAA-GA
125 TATTTTTAGTAAAAAAATACCTTAAATAATATGATCTAAAAAATTGAAA-GGTATTATTTAAGGA
* * * *
23071010 --TTTTTTGACCAAAAACCCTTAAATAAT-TCCCTTAAAAAACATTAAAAT
189 TTTTTTTTTACCAAAAACCCTTAAATAATAT-TC-TAAAAAAAATTAAAAC
* * *
23071058 GCTAGAATGAGGGATCAAAGCTATAACCTTATGGTTAATAACCACATACTTTAATCGACTGAACT
1 GCTAGAATGAGGGATCAAACCTACAACCTTATGGTTAATAACCATATACTTTAATCGACT-AACT
*
23071123 AATT-TATTTTTTTATATTTTATCTTTTAAATCTTATAAAG-AATGAAAAAGATTATTTAAGGTA
65 -ATTCTATTTTTTTATATTTTATCTCTTAAATCTTAT-AAGTAATG-AAAAGATTATTTAAGGTA
* *
23071186 TTTTTAGT-AAAAAATACCTTAAATAATACGATCCAAAAAAATTGAAAGGTATTATTTAAGGTAT
127 TTTTTAGTAAAAAAATACCTTAAATAATATGAT-CTAAAAAATTGAAAGGTATTATTTAAGG-AT
* *
23071250 TTTTTTTTATCAAAAACCCCTTAAATAATATTCTAAAAAAAATTAAAGC
190 TTTTTTTTACCAAAAA-CCCTTAAATAATATTCTAAAAAAAATTAAAAC
** * * ** * *
23071299 GCTCTAATGAGGGATCGAACCTGCAACCTTATTATTAATTACCATATACTCTAATCGACTAAGCT
1 GCTAGAATGAGGGATCAAACCTACAACCTTATGGTTAATAACCATATACTTTAATCGACTAA-CT
* * *
23071364 ATTCTATTTTTTTAATATTTTATCTCTTAAATCTTATAAGTAATGAAATGTATTATTTAAAGTGT
65 ATTCTATTTTTTT-ATATTTTATCTCTTAAATCTTATAAGTAATGAAAAG-ATTATTTAAGGTAT
* * * *
23071429 TTTCAGTAAAAAAATGCCTTAAATAATATGATCTAAAAAAGTGAAAGGTATTATTTAAGGCCTTA
128 TTTTAGTAAAAAAATACCTTAAATAATATGATCTAAAAAATTGAAAGGTATTATTTAAGG-ATT-
* * *
23071494 TTTTTTTACCAAAAATGCCTTAAATAATCCATTTTAAAAAATATTA
191 TTTTTTTACCAAAAA-CCCTTAAATAAT--ATTCTAAAAAAAATTA
23071540 GAGATTATTT
Statistics
Matches: 406, Mismatches: 55, Indels: 37
0.82 0.11 0.07
Matches are distributed among these distances:
235 9 0.02
236 59 0.15
237 29 0.07
238 4 0.01
239 2 0.00
240 60 0.15
241 96 0.24
242 85 0.21
243 48 0.12
245 14 0.03
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (237 bp):
GCTAGAATGAGGGATCAAACCTACAACCTTATGGTTAATAACCATATACTTTAATCGACTAACTA
TTCTATTTTTTTATATTTTATCTCTTAAATCTTATAAGTAATGAAAAGATTATTTAAGGTATTTT
TAGTAAAAAAATACCTTAAATAATATGATCTAAAAAATTGAAAGGTATTATTTAAGGATTTTTTT
TTACCAAAAACCCTTAAATAATATTCTAAAAAAAATTAAAAC
Found at i:23075376 original size:14 final size:14
Alignment explanation
Indices: 23075359--23075390 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
23075349 CTTTAAAAAA
*
23075359 CTTTCTTTCTTTTC
1 CTTTCTTTCCTTTC
23075373 CTTTCTTTCCTTTC
1 CTTTCTTTCCTTTC
23075387 CTTT
1 CTTT
23075391 ATTAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (14 bp):
CTTTCTTTCCTTTC
Found at i:23076812 original size:12 final size:11
Alignment explanation
Indices: 23076792--23076840 Score: 62
Period size: 12 Copynumber: 4.2 Consensus size: 11
23076782 CAAATGTTTT
*
23076792 AAAAGAAAAGTA
1 AAAAAAAAAG-A
23076804 AAAAAAAAAGA
1 AAAAAAAAAGA
23076815 AACAAAAAAAGGA
1 AA-AAAAAAA-GA
23076828 AAAAAAAAAGA
1 AAAAAAAAAGA
23076839 AA
1 AA
23076841 GCAAAGAAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
11 7 0.21
12 23 0.68
13 4 0.12
ACGTcount: A:0.84, C:0.02, G:0.12, T:0.02
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:23076830 original size:24 final size:25
Alignment explanation
Indices: 23076797--23076850 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 25
23076787 GTTTTAAAAG
*
23076797 AAAAGTAAAAAAAAAAGAAA-CAAA
1 AAAAGGAAAAAAAAAAGAAAGCAAA
23076821 AAAAGGAAAAAAAAAAGAAAGCAAA
1 AAAAGGAAAAAAAAAAGAAAGCAAA
*
23076846 GAAAG
1 AAAAG
23076851 AAAGACATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 19 0.70
25 8 0.30
ACGTcount: A:0.80, C:0.04, G:0.15, T:0.02
Consensus pattern (25 bp):
AAAAGGAAAAAAAAAAGAAAGCAAA
Found at i:23076853 original size:24 final size:23
Alignment explanation
Indices: 23076793--23076853 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 23
23076783 AAATGTTTTA
23076793 AAAGAAAAGTAAAAAAAAAAGAAAC
1 AAAG-AAAG-AAAAAAAAAAGAAAC
*
23076818 AAAAAAAGGAAAAAAAAAAGAAAGC
1 AAAGAAA-GAAAAAAAAAAGAAA-C
23076843 AAAGAAAGAAA
1 AAAGAAAGAAA
23076854 GACATGTACC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 21 0.66
25 11 0.34
ACGTcount: A:0.80, C:0.03, G:0.15, T:0.02
Consensus pattern (23 bp):
AAAGAAAGAAAAAAAAAAGAAAC
Found at i:23076940 original size:21 final size:23
Alignment explanation
Indices: 23076914--23076955 Score: 70
Period size: 21 Copynumber: 1.9 Consensus size: 23
23076904 AGTTAGAATC
23076914 TCAAGAAA-AAAAAGA-TAAAAT
1 TCAAGAAAGAAAAAGACTAAAAT
23076935 TCAAGAAAGAAAAAGACTAAA
1 TCAAGAAAGAAAAAGACTAAA
23076956 GTTGAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 8 0.42
22 7 0.37
23 4 0.21
ACGTcount: A:0.69, C:0.07, G:0.12, T:0.12
Consensus pattern (23 bp):
TCAAGAAAGAAAAAGACTAAAAT
Found at i:23077988 original size:26 final size:26
Alignment explanation
Indices: 23077958--23078017 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
23077948 TTACATCATC
* *
23077958 TGCATCATAACTAAGGCATTCGCATT
1 TGCATCATAACAAAGACATTCGCATT
* * * *
23077984 TGCATTATGAGAAAGACATTTGCATT
1 TGCATCATAACAAAGACATTCGCATT
23078010 TGCATCAT
1 TGCATCAT
23078018 GACATTTGCA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (26 bp):
TGCATCATAACAAAGACATTCGCATT
Found at i:23078005 original size:20 final size:21
Alignment explanation
Indices: 23077980--23078031 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
23077970 AAGGCATTCG
23077980 CATTTGCATTATG-AGAAAGA
1 CATTTGCATTATGCAGAAAGA
** *
23078000 CATTTGCATT-TGCATCATGA
1 CATTTGCATTATGCAGAAAGA
23078020 CATTTGCATTAT
1 CATTTGCATTAT
23078032 AGATAAAGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.07
20 24 0.89
21 1 0.04
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (21 bp):
CATTTGCATTATGCAGAAAGA
Found at i:23079017 original size:7 final size:7
Alignment explanation
Indices: 23079007--23079050 Score: 63
Period size: 7 Copynumber: 6.4 Consensus size: 7
23078997 AGAAAAATTC
23079007 AAAAACA
1 AAAAACA
**
23079014 AAAAAGT
1 AAAAACA
23079021 AAAAA-A
1 AAAAACA
23079027 AAAAACA
1 AAAAACA
23079034 AAAAACA
1 AAAAACA
23079041 AAAAACA
1 AAAAACA
23079048 AAA
1 AAA
23079051 TCAATTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
6 5 0.15
7 28 0.85
ACGTcount: A:0.86, C:0.09, G:0.02, T:0.02
Consensus pattern (7 bp):
AAAAACA
Found at i:23079029 original size:27 final size:27
Alignment explanation
Indices: 23078979--23079045 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
23078969 AAAATTCAAG
* * **
23078979 AAAAACCAAAAAAATTAAAGAAAAATTC
1 AAAAAACAAAAAAA-TAAAAAAAAAAAC
*
23079007 -AAAAACAAAAAAGTAAAAAAAAAAAC
1 AAAAAACAAAAAAATAAAAAAAAAAAC
23079033 AAAAAACAAAAAA
1 AAAAAACAAAAAA
23079046 CAAAATCAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
26 10 0.30
27 23 0.70
ACGTcount: A:0.81, C:0.09, G:0.03, T:0.07
Consensus pattern (27 bp):
AAAAAACAAAAAAATAAAAAAAAAAAC
Found at i:23079044 original size:20 final size:21
Alignment explanation
Indices: 23079007--23079050 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
23078997 AGAAAAATTC
**
23079007 AAAAACAAAAAAGTAAAAA-A
1 AAAAACAAAAAACAAAAAACA
23079027 AAAAACAAAAAACAAAAAACA
1 AAAAACAAAAAACAAAAAACA
23079048 AAA
1 AAA
23079051 TCAATTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.86, C:0.09, G:0.02, T:0.02
Consensus pattern (21 bp):
AAAAACAAAAAACAAAAAACA
Found at i:23079944 original size:15 final size:14
Alignment explanation
Indices: 23079917--23079946 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
23079907 TTTTTAATTT
23079917 TATATTTATTTATA
1 TATATTTATTTATA
23079931 TATATTTAATTTATA
1 TATATTT-ATTTATA
23079946 T
1 T
23079947 TTATATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TATATTTATTTATA
Found at i:23079998 original size:24 final size:21
Alignment explanation
Indices: 23079946--23079989 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
23079936 TTAATTTATA
23079946 TTTATA-TT-AAAAATAATAT
1 TTTATATTTAAAAAATAATAT
23079965 TTTATATTTAAAAAATAATAT
1 TTTATATTTAAAAAATAATAT
23079986 TTTA
1 TTTA
23079990 CTAATTTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 6 0.26
20 2 0.09
21 15 0.65
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTATATTTAAAAAATAATAT
Found at i:23084612 original size:25 final size:24
Alignment explanation
Indices: 23084574--23084625 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
23084564 ACAGTGGTTG
*
23084574 TTTTAAGGTTTTGGTTATGCGAGT
1 TTTTAAGGGTTTGGTTATGCGAGT
**
23084598 TTTTATAGGGTTTGGTTATTTGAGT
1 TTTTA-AGGGTTTGGTTATGCGAGT
23084623 TTT
1 TTT
23084626 GTTTTAGGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.15, C:0.02, G:0.27, T:0.56
Consensus pattern (24 bp):
TTTTAAGGGTTTGGTTATGCGAGT
Found at i:23087271 original size:58 final size:58
Alignment explanation
Indices: 23087181--23087299 Score: 202
Period size: 58 Copynumber: 2.1 Consensus size: 58
23087171 ATTGAATGAA
* * *
23087181 GATGAGGTCGGAGACAGAAAAGGTATAAGCTGATAGCTTCTATCAAGCTCAAAACCTT
1 GATGAGGTAGGAGACAGAAAAGGTACAAGCTGATAGCCTCTATCAAGCTCAAAACCTT
*
23087239 GATGAGGTAGGGGACAGAAAAGGTACAAGCTGATAGCCTCTATCAAGCTCAAAACCTT
1 GATGAGGTAGGAGACAGAAAAGGTACAAGCTGATAGCCTCTATCAAGCTCAAAACCTT
23087297 GAT
1 GAT
23087300 ATGTTCGAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (58 bp):
GATGAGGTAGGAGACAGAAAAGGTACAAGCTGATAGCCTCTATCAAGCTCAAAACCTT
Found at i:23089412 original size:22 final size:21
Alignment explanation
Indices: 23089379--23089449 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 21
23089369 GTCAAAATTT
*
23089379 TTTTAAAAATAATAAAA-ATAA
1 TTTTAAATATAA-AAAATATAA
*
23089400 TTTTGAAATATAAAAAATAAAA
1 TTTT-AAATATAAAAAATATAA
23089422 GTTTTAAATATTAAAAAATATAA
1 -TTTTAAATA-TAAAAAATATAA
23089445 TTTTA
1 TTTTA
23089450 GGACATCTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
21 8 0.19
22 20 0.47
23 15 0.35
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (21 bp):
TTTTAAATATAAAAAATATAA
Found at i:23089478 original size:13 final size:13
Alignment explanation
Indices: 23089460--23089484 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23089450 GGACATCTTA
23089460 AAAAAAAAAAGAT
1 AAAAAAAAAAGAT
23089473 AAAAAAAAAAGA
1 AAAAAAAAAAGA
23089485 CGGAAAAATA
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:0.88, C:0.00, G:0.08, T:0.04
Consensus pattern (13 bp):
AAAAAAAAAAGAT
Found at i:23098581 original size:24 final size:24
Alignment explanation
Indices: 23098505--23098582 Score: 74
Period size: 24 Copynumber: 3.3 Consensus size: 24
23098495 ATATGATATA
**
23098505 AAAATAATATAAATAAAAAATAA-
1 AAAATAATATAAATAAAATTTAAC
*
23098528 AAAATAATATAATTTAAAATTTTAAC
1 AAAATAATATAA-ATAAAA-TTTAAC
23098554 --AATAATCATAAAT-AAATTTAAC
1 AAAATAAT-ATAAATAAAATTTAAC
23098576 AAAATAA
1 AAAATAA
23098583 AAAAATATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
22 6 0.13
23 15 0.33
24 17 0.38
25 7 0.16
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (24 bp):
AAAATAATATAAATAAAATTTAAC
Found at i:23100238 original size:2 final size:2
Alignment explanation
Indices: 23100233--23100261 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
23100223 TATAGTGCAC
23100233 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 T
23100262 TCCTAAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23100576 original size:2 final size:2
Alignment explanation
Indices: 23100569--23100600 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
23100559 TCAAATTAAA
23100569 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
23100601 CCAGTCCATT
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:23104458 original size:16 final size:16
Alignment explanation
Indices: 23104433--23104476 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
23104423 CAATTAAAAT
23104433 TAAT-TATAAAATTAA
1 TAATATATAAAATTAA
23104448 TAATATATAAAATTAA
1 TAATATATAAAATTAA
* *
23104464 TAAAAAATAAAAT
1 TAATATATAAAAT
23104477 GTTAATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 4 0.15
16 22 0.85
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
TAATATATAAAATTAA
Found at i:23104664 original size:21 final size:19
Alignment explanation
Indices: 23104651--23104690 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 19
23104641 AATGATTAAT
23104651 TATTATATATTAATAAATAA
1 TATT-TATATTAATAAATAA
23104671 TATTTATATTTTAATAAATA
1 TATTTATA--TTAATAAATA
23104691 TAAATAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 4 0.22
21 10 0.56
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TATTTATATTAATAAATAA
Found at i:23104762 original size:29 final size:28
Alignment explanation
Indices: 23104729--23104793 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
23104719 ATTTATTAGT
*
23104729 TATTATTTATAAATTTATTAAAATAT-AAA
1 TATTATTTAT-AA-CTATTAAAATATAAAA
*
23104758 TATTATTTCTAACTATTAAAATATAAAA
1 TATTATTTATAACTATTAAAATATAAAA
23104786 TATTATTT
1 TATTATTT
23104794 TAATAAAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 11 0.33
28 13 0.39
29 9 0.27
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (28 bp):
TATTATTTATAACTATTAAAATATAAAA
Found at i:23104880 original size:26 final size:27
Alignment explanation
Indices: 23104850--23104903 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
23104840 TTATGAATTT
*
23104850 TATATTTTAAAATTTAT-AGTTTATGA
1 TATATCTTAAAATTTATAAGTTTATGA
*
23104876 TATATCTTAAAATTTATAATTTTATGA
1 TATATCTTAAAATTTATAAGTTTATGA
23104903 T
1 T
23104904 TGAATTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 16 0.64
27 9 0.36
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.54
Consensus pattern (27 bp):
TATATCTTAAAATTTATAAGTTTATGA
Found at i:23105092 original size:12 final size:11
Alignment explanation
Indices: 23105060--23105117 Score: 50
Period size: 11 Copynumber: 5.3 Consensus size: 11
23105050 TATAAAATAC
23105060 AAAATACACAAA
1 AAAATACA-AAA
*
23105072 AATATA-AAAA
1 AAAATACAAAA
*
23105082 ATAATACAAAA
1 AAAATACAAAA
23105093 TACAAA-AC-AAA
1 -A-AAATACAAAA
23105104 AAAATACAAAA
1 AAAATACAAAA
23105115 AAA
1 AAA
23105118 GAGAACAGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 11
0.71 0.08 0.21
Matches are distributed among these distances:
9 3 0.08
10 10 0.27
11 14 0.38
12 8 0.22
13 2 0.05
ACGTcount: A:0.78, C:0.10, G:0.00, T:0.12
Consensus pattern (11 bp):
AAAATACAAAA
Found at i:23105095 original size:36 final size:34
Alignment explanation
Indices: 23105048--23105116 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
23105038 AATATTATTA
* * *
23105048 AATATAAAATACAAAATACACAAAAATATAAAAAAT
1 AATACAAAATAC-AAA-ACAAAAAAATACAAAAAAT
23105084 AATACAAAATACAAAACAAAAAAATACAAAAAA
1 AATACAAAATACAAAACAAAAAAATACAAAAAA
23105117 AGAGAACAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 16 0.53
35 3 0.10
36 11 0.37
ACGTcount: A:0.75, C:0.10, G:0.00, T:0.14
Consensus pattern (34 bp):
AATACAAAATACAAAACAAAAAAATACAAAAAAT
Found at i:23105117 original size:10 final size:10
Alignment explanation
Indices: 23105060--23105117 Score: 55
Period size: 10 Copynumber: 5.4 Consensus size: 10
23105050 TATAAAATAC
23105060 AAAATACACAA
1 AAAATACA-AA
23105071 AAATATA-AAA
1 AAA-ATACAAA
23105081 AATAATACAAA
1 AA-AATACAAA
*
23105092 ATACAAAACAAA
1 A-A-AATACAAA
23105104 AAAATACAAA
1 AAAATACAAA
23105114 AAAA
1 AAAA
23105118 GAGAACAGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
10 18 0.45
11 10 0.25
12 12 0.30
ACGTcount: A:0.78, C:0.10, G:0.00, T:0.12
Consensus pattern (10 bp):
AAAATACAAA
Found at i:23106150 original size:17 final size:16
Alignment explanation
Indices: 23106107--23106153 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
23106097 AATTTTTAAA
* *
23106107 ATTTTTTTATATTATT
1 ATTTTTTTATTTTAGT
23106123 ATTTTTGTTATTTTAAGT
1 ATTTTT-TTATTTT-AGT
23106141 ATTTTTTTATTTT
1 ATTTTTTTATTTT
23106154 TGCATGATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 6 0.22
17 13 0.48
18 8 0.30
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.74
Consensus pattern (16 bp):
ATTTTTTTATTTTAGT
Found at i:23106392 original size:28 final size:26
Alignment explanation
Indices: 23106345--23106396 Score: 68
Period size: 28 Copynumber: 1.9 Consensus size: 26
23106335 CTAAATGTTG
* *
23106345 AAAAATTATTATTAATAAATTTTTGT
1 AAAAAATATTATTAAGAAATTTTTGT
23106371 AAAAAATATATATATAAGAAATTTTT
1 AAAAAATAT-TAT-TAAGAAATTTTT
23106397 AATTAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 8 0.36
27 3 0.14
28 11 0.50
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (26 bp):
AAAAAATATTATTAAGAAATTTTTGT
Found at i:23106566 original size:15 final size:15
Alignment explanation
Indices: 23106541--23106584 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
23106531 TTCTAAAACC
*
23106541 CCTAAAATCCAAAAT
1 CCTAAAGTCCAAAAT
*
23106556 CTTAAAGTCCAAAAT
1 CCTAAAGTCCAAAAT
23106571 CCTAAAGTCCAAAA
1 CCTAAAGTCCAAAA
23106585 CCCCTAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.50, C:0.25, G:0.05, T:0.20
Consensus pattern (15 bp):
CCTAAAGTCCAAAAT
Found at i:23106618 original size:15 final size:15
Alignment explanation
Indices: 23106582--23106648 Score: 73
Period size: 15 Copynumber: 4.5 Consensus size: 15
23106572 CTAAAGTCCA
*
23106582 AAACCCCTAAAATTT
1 AAACCCCTAAAATCT
23106597 GAAACCCCTAAAATCT
1 -AAACCCCTAAAATCT
* *
23106613 AAACCCTTAAAATCC
1 AAACCCCTAAAATCT
* *
23106628 AAA-CCCTTAAATCA
1 AAACCCCTAAAATCT
23106642 AAACCCC
1 AAACCCC
23106649 AAACCTCAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
14 11 0.25
15 19 0.43
16 14 0.32
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.19
Consensus pattern (15 bp):
AAACCCCTAAAATCT
Found at i:23106645 original size:14 final size:14
Alignment explanation
Indices: 23106602--23106647 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
23106592 AATTTGAAAC
* *
23106602 CCCTAAAATCTAAA
1 CCCTTAAATCAAAA
*
23106616 CCCTTAAAATCCAAA
1 CCCTT-AAATCAAAA
23106631 CCCTTAAATCAAAA
1 CCCTTAAATCAAAA
23106645 CCC
1 CCC
23106648 CAAACCTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 15 0.54
15 13 0.46
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.20
Consensus pattern (14 bp):
CCCTTAAATCAAAA
Done.