Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 37 of 202
Found at i:10930946 original size:214 final size:214
Alignment explanation
Indices: 10930577--10931009 Score: 812
Period size: 214 Copynumber: 2.0 Consensus size: 214
10930567 ATGTCTTAAT
10930577 ACCTTGTTTCTATAAACTGAACCCATACATATTTTATTAAATATTTACTGAGTGTTATGTGGATC
1 ACCTTGTTTCTATAAACTGAACCCATACATATTTTATTAAATATTTACTGAGTGTTATGTGGATC
* * *
10930642 ATATTAAAAATTTGGTTAAGAAATTTTAACGTTTAAATATTAATTAAATGAAAAGGACTAATTTG
66 ATATTAAAAATTTGATTAAGAAACTTTAACGTTTAAATACTAATTAAATGAAAAGGACTAATTTG
* *
10930707 TAAAGGTCGTAAAAGTTAATTTTCATTTATTTAAGGTGTTAAATTAATAATATTATAGGATTGGG
131 AAAAAGTCGTAAAAGTTAATTTTCATTTATTTAAGGTGTTAAATTAATAATATTATAGGATTGGG
10930772 GGATTTATTAGAAAGATTG
196 GGATTTATTAGAAAGATTG
10930791 ACCTTGTTTCTATAAACTGAACCCATACATATTTTATTAAATATTTACTGAGTGTTATGTGGATC
1 ACCTTGTTTCTATAAACTGAACCCATACATATTTTATTAAATATTTACTGAGTGTTATGTGGATC
10930856 ATATTAAAAATTTGATTAAGAAACTTTAACGTTTAAATACTAATTAAATGAAAAGGACTAATTTG
66 ATATTAAAAATTTGATTAAGAAACTTTAACGTTTAAATACTAATTAAATGAAAAGGACTAATTTG
10930921 AAAAAGTCGTAAAAGTTAATTTTCATTTATTTAAGGTGTTAAATTAATAATATTATAGGATTGGG
131 AAAAAGTCGTAAAAGTTAATTTTCATTTATTTAAGGTGTTAAATTAATAATATTATAGGATTGGG
*
10930986 GGATTTATTAGGAAGATTG
196 GGATTTATTAGAAAGATTG
10931005 ACCTT
1 ACCTT
10931010 TGGTTGTTTA
Statistics
Matches: 213, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
214 213 1.00
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.39
Consensus pattern (214 bp):
ACCTTGTTTCTATAAACTGAACCCATACATATTTTATTAAATATTTACTGAGTGTTATGTGGATC
ATATTAAAAATTTGATTAAGAAACTTTAACGTTTAAATACTAATTAAATGAAAAGGACTAATTTG
AAAAAGTCGTAAAAGTTAATTTTCATTTATTTAAGGTGTTAAATTAATAATATTATAGGATTGGG
GGATTTATTAGAAAGATTG
Found at i:10931975 original size:45 final size:45
Alignment explanation
Indices: 10931926--10932088 Score: 193
Period size: 45 Copynumber: 3.6 Consensus size: 45
10931916 ACCAGAAACA
*
10931926 AGTAAGACCATAGCTGAAAGACATTATGACATCACGATTCTATCG
1 AGTAAGACCATAGCTGAAAGACATTATGACATCACGATTCTAACG
**
10931971 AGTAAGACCATAGCTGAAAGATGTTATGGA-ATCACGATTCTAACG
1 AGTAAGACCATAGCTGAAAGACATTAT-GACATCACGATTCTAACG
* * *** * * *
10932016 AGTAAGAACATAGTTGAAAGATGCTATGACATCATGAATCAAACG
1 AGTAAGACCATAGCTGAAAGACATTATGACATCACGATTCTAACG
* *
10932061 AATAAGACCATAGTTGAAAGACATTATG
1 AGTAAGACCATAGCTGAAAGACATTATG
10932089 GCAACACAAC
Statistics
Matches: 102, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
44 2 0.02
45 98 0.96
46 2 0.02
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (45 bp):
AGTAAGACCATAGCTGAAAGACATTATGACATCACGATTCTAACG
Found at i:10939591 original size:85 final size:85
Alignment explanation
Indices: 10939470--10939640 Score: 270
Period size: 85 Copynumber: 2.0 Consensus size: 85
10939460 GTAAAAACTA
* *
10939470 TGTGTTCTATTTTTCTTTCTTTTTCTTCACGATCTTTCTACATTTCCATTATCAATGTTTAGTTT
1 TGTGTTCTATTTTTCTTTCTTTTTCTTCACGATCTTTCTACATTGCCATTATCAACGTTTAGTTT
*
10939535 TTAACAAATTGGTATTAGAG
66 TTAACAAATTGGTATCAGAG
*** * *
10939555 TGTGTTCTATTTTTCTTTCTTTTTCTTTGTGTTCTTTCTACATTGCCATTATCGACGTTTAGTTT
1 TGTGTTCTATTTTTCTTTCTTTTTCTTCACGATCTTTCTACATTGCCATTATCAACGTTTAGTTT
10939620 TTAACAAATTGGTATCAGAG
66 TTAACAAATTGGTATCAGAG
10939640 T
1 T
10939641 TTTTTCGGTT
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
85 78 1.00
ACGTcount: A:0.19, C:0.15, G:0.12, T:0.53
Consensus pattern (85 bp):
TGTGTTCTATTTTTCTTTCTTTTTCTTCACGATCTTTCTACATTGCCATTATCAACGTTTAGTTT
TTAACAAATTGGTATCAGAG
Found at i:10942179 original size:25 final size:24
Alignment explanation
Indices: 10942151--10942204 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
10942141 TGGATGTTTA
* *
10942151 CCATACAAAAAGAGATGGAATCGCT
1 CCATA-AAAAACAGATGGAATCACT
*
10942176 CCAT-AAGAACAGATGGAATCACT
1 CCATAAAAAACAGATGGAATCACT
10942199 CCATAA
1 CCATAA
10942205 GAACAGAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 20 0.80
24 1 0.04
25 4 0.16
ACGTcount: A:0.44, C:0.22, G:0.17, T:0.17
Consensus pattern (24 bp):
CCATAAAAAACAGATGGAATCACT
Found at i:10942193 original size:23 final size:23
Alignment explanation
Indices: 10942163--10942211 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
10942153 ATACAAAAAG
*
10942163 AGATGGAATCGCTCCATAAGAAC
1 AGATGGAATCACTCCATAAGAAC
10942186 AGATGGAATCACTCCATAAGAAC
1 AGATGGAATCACTCCATAAGAAC
10942209 AGA
1 AGA
10942212 ACATGAGATC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.16
Consensus pattern (23 bp):
AGATGGAATCACTCCATAAGAAC
Found at i:10943864 original size:24 final size:24
Alignment explanation
Indices: 10943836--10943887 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
10943826 TTTCTAGAAG
* *
10943836 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGTATTTATTAGCAGAATAT
10943860 ATTTAGTATTTATTAGCAGAATAT
1 ATTTAGTATTTATTAGCAGAATAT
10943884 ATTT
1 ATTT
10943888 GACATAGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.52
Consensus pattern (24 bp):
ATTTAGTATTTATTAGCAGAATAT
Found at i:10951341 original size:12 final size:11
Alignment explanation
Indices: 10951326--10951368 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
10951316 AATATATAAT
*
10951326 TTAATAACATTC
1 TTAATAA-ATTA
10951338 TTAATATAATTA
1 TTAATA-AATTA
*
10951350 TTAATAAAATA
1 TTAATAAATTA
10951361 TTAATAAA
1 TTAATAAA
10951369 AATCATAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 12 0.43
12 15 0.54
13 1 0.04
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (11 bp):
TTAATAAATTA
Found at i:10951370 original size:12 final size:12
Alignment explanation
Indices: 10951338--10951396 Score: 52
Period size: 12 Copynumber: 5.0 Consensus size: 12
10951328 AATAACATTC
* *
10951338 TTAATATAATTA
1 TTAATAAAAATA
10951350 TTAAT-AAAATA
1 TTAATAAAAATA
10951361 TTAATAAAAATCA
1 TTAATAAAAAT-A
*
10951374 -TAATATATAATA
1 TTAATA-AAAATA
10951386 TT-ATAAAAATA
1 TTAATAAAAATA
10951397 ATATATAACC
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
11 14 0.36
12 19 0.49
13 6 0.15
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (12 bp):
TTAATAAAAATA
Found at i:10951377 original size:23 final size:23
Alignment explanation
Indices: 10951351--10951404 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
10951341 ATATAATTAT
*
10951351 TAATAA-AATATTAATAAAAATCA
1 TAATAATAATATT-ATAAAAATAA
10951374 TAATATATAATATTATAAAAATAA
1 TAATA-ATAATATTATAAAAATAA
10951398 TATATAA
1 TA-ATAA
10951405 CCTACTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 5 0.19
24 13 0.48
25 9 0.33
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
TAATAATAATATTATAAAAATAA
Found at i:10954054 original size:34 final size:34
Alignment explanation
Indices: 10954017--10954161 Score: 161
Period size: 34 Copynumber: 4.3 Consensus size: 34
10954007 CGCTTGTTGA
*
10954017 ATAAACTGAAAAATGTGTGCCCAGCACTAGTCAA
1 ATAAACTGAAAAATGTGTGCCCAGCACTAGTCAG
** * * *
10954051 AT-AACTGACGGAA-GTTGCGCCCAGCGCTAGTCGG
1 ATAAACTGA-AAAATG-TGTGCCCAGCACTAGTCAG
* *
10954085 ATAAACCGAAAAATGTGTGCCCGGCACTAGTCAG
1 ATAAACTGAAAAATGTGTGCCCAGCACTAGTCAG
*
10954119 ATAAA-TCGACAAATGTGTGCCCAGCACTAGTCAG
1 ATAAACT-GAAAAATGTGTGCCCAGCACTAGTCAG
10954153 ATAAACTGA
1 ATAAACTGA
10954162 CAGAAGTTGC
Statistics
Matches: 89, Mismatches: 16, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
33 7 0.08
34 75 0.84
35 7 0.08
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (34 bp):
ATAAACTGAAAAATGTGTGCCCAGCACTAGTCAG
Found at i:10954141 original size:68 final size:68
Alignment explanation
Indices: 10954017--10954158 Score: 180
Period size: 68 Copynumber: 2.1 Consensus size: 68
10954007 CGCTTGTTGA
* * * *
10954017 ATAAACTGAAAAATGTGTGCCCAGCACTAGTCAAATAACTGACGGAAGTTGCGCCCAGCGCTAGT
1 ATAAACCGAAAAATGTGTGCCCAGCACTAGTCAAATAAATGACGAAAGTTGCGCCCAGCACTAGT
*
10954082 CGG
66 CAG
* * *
10954085 ATAAACCGAAAAATGTGTGCCCGGCACTAGTCAGATAAATCGAC-AAA-TGTGTGCCCAGCACTA
1 ATAAACCGAAAAATGTGTGCCCAGCACTAGTCAAATAAAT-GACGAAAGT-TGCGCCCAGCACTA
10954148 GTCAG
64 GTCAG
10954153 ATAAAC
1 ATAAAC
10954159 TGACAGAAGT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
67 1 0.02
68 60 0.94
69 3 0.05
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (68 bp):
ATAAACCGAAAAATGTGTGCCCAGCACTAGTCAAATAAATGACGAAAGTTGCGCCCAGCACTAGT
CAG
Found at i:10956946 original size:68 final size:68
Alignment explanation
Indices: 10956866--10957017 Score: 156
Period size: 62 Copynumber: 2.3 Consensus size: 68
10956856 CAGTTATAAT
* * * *
10956866 CTAAGTAGCATCACGCAATGAACCATTAATCACAAATCTTCAAAACTCAATTTAAATGCAGTAGC
1 CTAAGTACCATCACGCAATGAACCATTAATCACAAATCTTCAAAACTCAATTCAAATACAATAGC
10956931 ATC
66 ATC
* * * *
10956934 CTAAGTACCATCAC-C-----ACCATTAATCCCAAATCTTCATAATTCAGTTCAAATACAATAGC
1 CTAAGTACCATCACGCAATGAACCATTAATCACAAATCTTCAAAACTCAATTCAAATACAATAGC
10956993 ATC
66 ATC
* *
10956996 TTAA-AATCCATCACGCAATGAA
1 CTAAGTA-CCATCACGCAATGAA
10957018 TTATTTCCAC
Statistics
Matches: 67, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
61 1 0.01
62 50 0.75
63 1 0.01
67 1 0.01
68 14 0.21
ACGTcount: A:0.41, C:0.26, G:0.08, T:0.26
Consensus pattern (68 bp):
CTAAGTACCATCACGCAATGAACCATTAATCACAAATCTTCAAAACTCAATTCAAATACAATAGC
ATC
Found at i:10959257 original size:18 final size:19
Alignment explanation
Indices: 10959212--10959257 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
10959202 TAGATTTAAT
*
10959212 TATAAATAAATATATAAAA
1 TATAAATAAATATAGAAAA
*
10959231 T-TAAAATAAA-ATAGAAGA
1 TAT-AAATAAATATAGAAAA
10959249 TATAAATAA
1 TATAAATAA
10959258 GAAATTAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
18 14 0.61
19 9 0.39
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.28
Consensus pattern (19 bp):
TATAAATAAATATAGAAAA
Found at i:10966904 original size:15 final size:15
Alignment explanation
Indices: 10966884--10966913 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10966874 ATAGTTATAG
*
10966884 TAACAGTAATCATAA
1 TAACAGTAATAATAA
10966899 TAACAGTAATAATAA
1 TAACAGTAATAATAA
10966914 AAATAGTTAA
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:0.57, C:0.10, G:0.07, T:0.27
Consensus pattern (15 bp):
TAACAGTAATAATAA
Found at i:10968789 original size:96 final size:96
Alignment explanation
Indices: 10968527--10968867 Score: 468
Period size: 96 Copynumber: 3.5 Consensus size: 96
10968517 CTTCAATCTG
* * * * * * * **
10968527 TTTAACTGCAATGTCGGGGAAACAAGATTCGCCATCGTAGCTTTAATCTGTTCCACTGCATTGTT
1 TTTAACTACAATGTCGGGGAAGCAAGATTCGTCGTTGTGGCTTTAATCTGTTCCACTGCACTGCC
* *
10968592 AGGAAATAATATTCGCTGTTGTAGCTTTAATATT
66 AGGAAATAAGATTC-CTGTTGTAGCTTT-A-ATC
*
10968626 TTTAACTACAATGTCGGGGAAGCAATATTCGTCGTTGTGGCTTTAATCTGTTCCACTGCACTGCC
1 TTTAACTACAATGTCGGGGAAGCAAGATTCGTCGTTGTGGCTTTAATCTGTTCCACTGCACTGCC
10968691 AGGAAATAAGATTCACTGTTGTAGCTTTAATC
66 AGGAAATAAGATTC-CTGTTGTAGCTTTAATC
* *
10968723 TTTAACTATAATGTCGGGGAAGCAAGATTCG-CGTTGTGGCTTTAATCTGTTCCACTGCACTACC
1 TTTAACTACAATGTCGGGGAAGCAAGATTCGTCGTTGTGGCTTTAATCTGTTCCACTGCACTGCC
*
10968787 AGGAAATAAGATTTCCTGTTGTAACTTTAATC
66 AGGAAATAAGA-TTCCTGTTGTAGCTTTAATC
* * *
10968819 TTTAACTGCAATGTCGAGGAAGTAAGATTCGTCGTTGTGGCTTTAATCT
1 TTTAACTACAATGTCGGGGAAGCAAGATTCGTCGTTGTGGCTTTAATCT
10968868 TTAACTGCAA
Statistics
Matches: 219, Mismatches: 21, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
96 86 0.39
97 51 0.23
98 1 0.00
99 81 0.37
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (96 bp):
TTTAACTACAATGTCGGGGAAGCAAGATTCGTCGTTGTGGCTTTAATCTGTTCCACTGCACTGCC
AGGAAATAAGATTCCTGTTGTAGCTTTAATC
Found at i:10968894 original size:96 final size:98
Alignment explanation
Indices: 10968527--10968989 Score: 408
Period size: 96 Copynumber: 4.8 Consensus size: 98
10968517 CTTCAATCTG
* * * * * * * * *
10968527 TTTAACTGCAATGTCGGGGAAACAAGATTCGCCATCGTAGCTTTAATCTGTTCCACTGCATTGT-
1 TTTAACTACAATGTCGAGGAAGCAAGATTCGTCGTTGTGGCTTTAATCTGTTCAACTGCAATGTC
* * * * *
10968591 TAGGAAATAATATTCGCTGTTGTAGCTTTAATATT
66 CAGGAAACAAGATTCACTGTTGTAGCTTT-A-ATC
* * * *
10968626 TTTAACTACAATGTCGGGGAAGCAATATTCGTCGTTGTGGCTTTAATCTGTTCCACTGCACTG-C
1 TTTAACTACAATGTCGAGGAAGCAAGATTCGTCGTTGTGGCTTTAATCTGTTCAACTGCAATGTC
*
10968690 CAGGAAATAAGATTCACTGTTGTAGCTTTAATC
66 CAGGAAACAAGATTCACTGTTGTAGCTTTAATC
* * * * *
10968723 TTTAACTATAATGTCGGGGAAGCAAGATTCG-CGTTGTGGCTTTAATCTGTTCCACTGCACT-AC
1 TTTAACTACAATGTCGAGGAAGCAAGATTCGTCGTTGTGGCTTTAATCTGTTCAACTGCAATGTC
* *
10968786 CAGGAAATAAGATTTC-CTGTTGTAACTTTAATC
66 CAGGAAACAAGA-TTCACTGTTGTAGCTTTAATC
* *
10968819 TTTAACTGCAATGTCGAGGAAGTAAGATTCGTCGTTGTGGCTTTAATCT-TT-AACTGCAATGTC
1 TTTAACTACAATGTCGAGGAAGCAAGATTCGTCGTTGTGGCTTTAATCTGTTCAACTGCAATGTC
** * * * *
10968882 GGGGAAGCAAGATTCGCCGTTGTGGCTTTAATC
66 CAGGAAACAAGATTCACTGTTGTAGCTTTAATC
* * * ** * * *
10968915 TGTTCCAA-TGCACT-TCCAGGAAATAAGATTCGTTGTTTTAGCTTTAATCT-TT-AACTGCAAT
1 T-TT--AACTACAATGTCGAGGAAGCAAGATTCGTCGTTGTGGCTTTAATCTGTTCAACTGCAAT
*
10968976 GTCGAGGAAACAAG
63 GTCCAGGAAACAAG
10968990 TCGTTGTGGA
Statistics
Matches: 318, Mismatches: 37, Indels: 20
0.85 0.10 0.05
Matches are distributed among these distances:
95 10 0.03
96 112 0.35
97 107 0.34
98 6 0.02
99 83 0.26
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (98 bp):
TTTAACTACAATGTCGAGGAAGCAAGATTCGTCGTTGTGGCTTTAATCTGTTCAACTGCAATGTC
CAGGAAACAAGATTCACTGTTGTAGCTTTAATC
Found at i:10968943 original size:97 final size:92
Alignment explanation
Indices: 10968835--10969040 Score: 259
Period size: 97 Copynumber: 2.2 Consensus size: 92
10968825 TGCAATGTCG
* * *
10968835 AGGAAGTAAGATTCGTCGTTGTGGCTTTAATCTTTAACTGCAATGTCGGGGAAGCAAGATTCGCC
1 AGGAAGTAAGATTCGTCGTTGTAGCTTTAATCTTTAACTGCAATGTCGAGGAAACAAG--T---C
* * *
10968900 GTTGTGGCTTTAATCTGTTCCAATGCACTTCC
61 GTTGTGGATTTAATCTATTCCAATGCACTGCC
* * *
10968932 AGGAAATAAGATTCGTTGTTTTAGCTTTAATCTTTAACTGCAATGTCGAGGAAACAAGTCGTTGT
1 AGGAAGTAAGATTCGTCGTTGTAGCTTTAATCTTTAACTGCAATGTCGAGGAAACAAGTCGTTGT
*
10968997 GGATTTAATCTATTCCATTGCACTGCC
66 GGATTTAATCTATTCCAATGCACTGCC
*
10969024 TGAGAAGTAAGATTCGT
1 AG-GAAGTAAGATTCGT
10969041 AATTTTCAAC
Statistics
Matches: 96, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
92 30 0.31
93 13 0.14
95 1 0.01
97 52 0.54
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (92 bp):
AGGAAGTAAGATTCGTCGTTGTAGCTTTAATCTTTAACTGCAATGTCGAGGAAACAAGTCGTTGT
GGATTTAATCTATTCCAATGCACTGCC
Found at i:10968943 original size:145 final size:144
Alignment explanation
Indices: 10968691--10968985 Score: 459
Period size: 145 Copynumber: 2.0 Consensus size: 144
10968681 CTGCACTGCC
*
10968691 AGGAAATAAGATTCACTGTTGTAGCTTTAATCTTTAACTATAATGTCGGGGAAGCAAGATTCGCG
1 AGGAAATAAGATTCACTGTTGTAGCTTTAATCTTTAACTACAATGTCGGGGAAGCAAGATTCGCG
*
10968756 TTGTGGCTTTAATCTGTTCCACTGCACTACCAGGAAATAAGATTTC-CTGTTGTAACTTTAATCT
66 TTGTGGCTTTAATCTGTTCCAATGCACTACCAGGAAATAAGA-TTCGCTGTTGTAACTTTAATCT
10968820 TTAACTGCAATGTCG
130 TTAACTGCAATGTCG
* * * *
10968835 AGGAAGTAAGATTC-GTCGTTGTGGCTTTAATCTTTAACTGCAATGTCGGGGAAGCAAGATTCGC
1 AGGAAATAAGATTCACT-GTTGTAGCTTTAATCTTTAACTACAATGTCGGGGAAGCAAGATTCG-
* * * *
10968899 CGTTGTGGCTTTAATCTGTTCCAATGCACTTCCAGGAAATAAGATTCGTTGTTTTAGCTTTAATC
64 CGTTGTGGCTTTAATCTGTTCCAATGCACTACCAGGAAATAAGATTCGCTGTTGTAACTTTAATC
10968964 TTTAACTGCAATGTCG
129 TTTAACTGCAATGTCG
10968980 AGGAAA
1 AGGAAA
10968986 CAAGTCGTTG
Statistics
Matches: 137, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
143 1 0.01
144 59 0.43
145 77 0.56
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.34
Consensus pattern (144 bp):
AGGAAATAAGATTCACTGTTGTAGCTTTAATCTTTAACTACAATGTCGGGGAAGCAAGATTCGCG
TTGTGGCTTTAATCTGTTCCAATGCACTACCAGGAAATAAGATTCGCTGTTGTAACTTTAATCTT
TAACTGCAATGTCG
Found at i:10969184 original size:88 final size:90
Alignment explanation
Indices: 10969043--10969219 Score: 277
Period size: 88 Copynumber: 2.0 Consensus size: 90
10969033 AGATTCGTAA
* *
10969043 TTTTCAACCTACTCCAATACTGCTTAGGGAGACAAGGCTGAGCGTCTTTGATCTGCTCCACTACT
1 TTTTCAACCTACTCCAATACTGCTTAGGGAGACAAGGCTGAGCGACTTCGATCTGCTCCACTACT
10969108 GCTTAGGAAGATAAGATCTGTAATT
66 GCTTAGGAAGATAAGATCTGTAATT
* * * *
10969133 TTTTTAACCTACTCCACTGCTGC-TAGGGAGACAAGGCTG-GGGACTTCGATCTGCTCCACTACT
1 TTTTCAACCTACTCCAATACTGCTTAGGGAGACAAGGCTGAGCGACTTCGATCTGCTCCACTACT
*
10969196 GCTTAGGGAGATAAGATCTGTAAT
66 GCTTAGGAAGATAAGATCTGTAAT
10969220 CTTCAACATA
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
88 44 0.55
89 16 0.20
90 20 0.25
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (90 bp):
TTTTCAACCTACTCCAATACTGCTTAGGGAGACAAGGCTGAGCGACTTCGATCTGCTCCACTACT
GCTTAGGAAGATAAGATCTGTAATT
Found at i:10969628 original size:44 final size:43
Alignment explanation
Indices: 10969099--10969629 Score: 173
Period size: 44 Copynumber: 12.1 Consensus size: 43
10969089 TTTGATCTGC
* * * *
10969099 TCCACTACTGCTTAGGAAGATAAGATCTGTAATTTTTTTAACCTAC
1 TCCACTACTGCTTAGGGAGATAAGATCTGTAA---TTTCAATCTAT
* * * ** * * **
10969145 TCCACTGCTGC-TAGGGAGACAAG-GCTGGGGACTTCGATCTGC
1 TCCACTACTGCTTAGGGAGATAAGATCT-GTAATTTCAATCTAT
10969187 TCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAA-CATAT
1 TCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTCAATC-TAT
* * * *** * * *
10969231 TCCACTGCTGAC-CAGGGAGATAGGAT-TAGTGGCTTAAATTTGCT
1 TCCACTACTG-CTTAGGGAGATAAGATCT-GTAATTTCAATCT-AT
* * ** * *
10969275 TCC-CTACT-CCTGGGGAAGATAAGAT-TCGCCATCTTCGATCTAC
1 TCCACTACTGCTTAGGG-AGATAAGATCT-GTAAT-TTCAATCTAT
*
10969318 TCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTAT
1 TCCACTACTGCTTAGGGAGATAAGATCTGTAATTT-CAATCTAT
* *** *
10969362 TCCACTACTGAC-CAGGGAGATAAGA-CTTGTGGCTTAAATCTACT
1 TCCACTACTG-CTTAGGGAGATAAGATC-TGTAATTTCAATCTA-T
* * *** * **
10969406 TCC-CTACT-CCTGGGGAAGATAAGAT-TCGCCGTCTTCGATCTGC
1 TCCACTACTGCTTAGGG-AGATAAGATCT-GTAAT-TTCAATCTAT
* *
10969449 TCCACTACTCCTTAGGGAGATAAGATCTGTAATTTCTAACCTAT
1 TCCACTACTGCTTAGGGAGATAAGATCTGTAATTTC-AATCTAT
* * * *** *
10969493 TCCACTGCTGAC-CAGGGAGATAGGA-CTTGTGGCTTAAATCTGAT
1 TCCACTACTG-CTTAGGGAGATAAGATC-TGTAATTTCAATCT-AT
* * **
10969537 TCC-CTACT-CTTAGGGAAGATAAGATTCACCGT--CTTCAATCTGC
1 TCCACTACTGCTTAGGG-AGATAAGA-T--CTGTAATTTCAATCTAT
*
10969580 TCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCTAACCTAT
1 TCCACTACTGCTTAGGGAGATAAGATCTGTAATTTC-AATCTAT
10969624 TCCACT
1 TCCACT
10969630 GCTGACCAGG
Statistics
Matches: 348, Mismatches: 95, Indels: 86
0.66 0.18 0.16
Matches are distributed among these distances:
41 6 0.02
42 27 0.08
43 89 0.26
44 179 0.51
45 34 0.10
46 12 0.03
47 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (43 bp):
TCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCAATCTAT
Found at i:10969796 original size:131 final size:131
Alignment explanation
Indices: 10969176--10969781 Score: 957
Period size: 131 Copynumber: 4.6 Consensus size: 131
10969166 AGGCTGGGGA
*
10969176 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTT-CAACATATTCCACTGCT
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTCCAACCTATTCCACTGCT
* * *
10969240 GACCAGGGAGATAGGA-TTAGTGGCTTAAATTTGCTTCCCTACTCCTGGGGAAGATAAGATTCGC
65 GACCAGGGAGATAGGACTT-GTGGCTTAAATCTGATTCCCTACTCCTAGGGAAGATAAGATTCGC
*
10969304 CAT
129 CGT
* *
10969307 CTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACTACTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACTGCTG
* *
10969372 ACCAGGGAGATAAGACTTGTGGCTTAAATCT-ACTTCCCTACTCCTGGGGAAGATAAGATTCGCC
66 ACCAGGGAGATAGGACTTGTGGCTTAAATCTGA-TTCCCTACTCCTAGGGAAGATAAGATTCGCC
10969436 GT
130 GT
* *
10969438 CTTCGATCTGCTCCACTACTCCTTAGGGAGATAAGATCTGTAATTTCTAACCTATTCCACTGCTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACTGCTG
* *
10969503 ACCAGGGAGATAGGACTTGTGGCTTAAATCTGATTCCCTACTCTTAGGGAAGATAAGATTCACCG
66 ACCAGGGAGATAGGACTTGTGGCTTAAATCTGATTCCCTACTCCTAGGGAAGATAAGATTCGCCG
10969568 T
131 T
* *
10969569 CTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCTAACCTATTCCACTGCTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACTGCTG
* * *
10969634 ACCAGGGAGATAGGACTTGTGGCTTAAATCTGATTCCCTACTCCTATGGAAGATAATATTCGTCG
66 ACCAGGGAGATAGGACTTGTGGCTTAAATCTGATTCCCTACTCCTAGGGAAGATAAGATTCGCCG
10969699 T
131 T
* * * *
10969700 CTTCGATTTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATTTCCAACCCATTCTACTGCTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACTGCTG
*
10969765 ACCTGGGAGATAGGACT
66 ACCAGGGAGATAGGACT
10969782 AGGGTTGTCG
Statistics
Matches: 442, Mismatches: 29, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
130 2 0.00
131 437 0.99
132 3 0.01
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (131 bp):
CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACTGCTG
ACCAGGGAGATAGGACTTGTGGCTTAAATCTGATTCCCTACTCCTAGGGAAGATAAGATTCGCCG
T
Found at i:10971823 original size:22 final size:22
Alignment explanation
Indices: 10971798--10971873 Score: 102
Period size: 22 Copynumber: 3.4 Consensus size: 22
10971788 TTCTTTTTCT
*
10971798 TTTTCATTTCATCATTTTTTTA
1 TTTTGATTTCATCATTTTTTTA
10971820 TTTTGATTTCAATCATTTTTTTA
1 TTTTGATTTC-ATCATTTTTTTA
10971843 TTTTTTGATTTCA--ATTTTTTTA
1 --TTTTGATTTCATCATTTTTTTA
10971865 TTTTGATTT
1 TTTTGATTT
10971874 TTTTATTGAA
Statistics
Matches: 50, Mismatches: 1, Indels: 8
0.85 0.02 0.14
Matches are distributed among these distances:
20 9 0.18
22 18 0.36
23 12 0.24
24 1 0.02
25 10 0.20
ACGTcount: A:0.18, C:0.08, G:0.04, T:0.70
Consensus pattern (22 bp):
TTTTGATTTCATCATTTTTTTA
Found at i:10971828 original size:14 final size:14
Alignment explanation
Indices: 10971811--10971880 Score: 54
Period size: 14 Copynumber: 4.8 Consensus size: 14
10971801 TCATTTCATC
10971811 ATTTTTTTATTTTG
1 ATTTTTTTATTTTG
10971825 ATTTCAATCATTT-TTTT-
1 ATTT---T--TTTATTTTG
* **
10971842 ATTTTTTGATTTCA
1 ATTTTTTTATTTTG
10971856 ATTTTTTTATTTTG
1 ATTTTTTTATTTTG
10971870 ATTTTTTTATT
1 ATTTTTTTATT
10971881 GAATCTGAAC
Statistics
Matches: 44, Mismatches: 5, Indels: 14
0.70 0.08 0.22
Matches are distributed among these distances:
12 2 0.05
13 3 0.07
14 27 0.61
17 5 0.11
18 4 0.09
19 3 0.07
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.73
Consensus pattern (14 bp):
ATTTTTTTATTTTG
Found at i:10972772 original size:25 final size:24
Alignment explanation
Indices: 10972744--10972806 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 24
10972734 AAGAAAATCC
10972744 AAAAGAATGAAAGAATAATT-ATTCA
1 AAAAGAATGAAAGAAT-ATTGA-TCA
**
10972769 AAAAGAAAAAAAGAATATTGGATCA
1 AAAAGAATGAAAGAATATT-GATCA
10972794 AAAATGAATGAAA
1 AAAA-GAATGAAA
10972807 AGATGTATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
24 3 0.10
25 21 0.68
26 7 0.23
ACGTcount: A:0.63, C:0.03, G:0.14, T:0.19
Consensus pattern (24 bp):
AAAAGAATGAAAGAATATTGATCA
Found at i:10974132 original size:21 final size:21
Alignment explanation
Indices: 10974093--10974132 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
10974083 ATTGCCCTAA
* *
10974093 ATTTCTCTTCAATCCATTTCC
1 ATTTCTCCTCAAACCATTTCC
*
10974114 ATTTCTCCTCAAACTATTT
1 ATTTCTCCTCAAACCATTT
10974133 TGGCAATTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (21 bp):
ATTTCTCCTCAAACCATTTCC
Found at i:10977881 original size:14 final size:15
Alignment explanation
Indices: 10977850--10977882 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
10977840 GAACAAATCG
*
10977850 AAAAAAATCGAAAGT
1 AAAAAAATAGAAAGT
10977865 AAAAAAATAGAAA-T
1 AAAAAAATAGAAAGT
10977879 AAAA
1 AAAA
10977883 GATCAGACGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.76, C:0.03, G:0.09, T:0.12
Consensus pattern (15 bp):
AAAAAAATAGAAAGT
Found at i:10979883 original size:15 final size:15
Alignment explanation
Indices: 10979863--10979891 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
10979853 TTAAGATCAG
10979863 TTATGGATTTAGGGT
1 TTATGGATTTAGGGT
10979878 TTATGGATTTAGGG
1 TTATGGATTTAGGG
10979892 GTTAAAGGTT
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:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (15 bp):
TTATGGATTTAGGGT
Found at i:10980037 original size:96 final size:95
Alignment explanation
Indices: 10979898--10980070 Score: 267
Period size: 96 Copynumber: 1.8 Consensus size: 95
10979888 AGGGGTTAAA
* *
10979898 GGTTAGGGGTTAGGTTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAATGTTTAGGGGT
1 GGTTAGGGGTTAGATTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAGGGGT
10979963 TAGAGATTAGGGATTAGGGATTCAGGATCG
66 TAGAGATTAGGGATTAGGGATTCAGGATCG
* *
10979993 GGTTAGGGTTTAGAATTTATATTAATTAGTGT-TTTATAATTTATATATTAAATAAGGTTTAGGG
1 GGTTAGGGGTTAG-ATTTAGATTAATTAGTGTGTTT-TAATTTATATATTAAATAAGGTTTAGGG
* *
10980057 GTTAGTGGTTAGGG
64 GTTAGAGATTAGGG
10980071 GTTTGGGGTT
Statistics
Matches: 70, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
95 15 0.21
96 55 0.79
ACGTcount: A:0.29, C:0.01, G:0.28, T:0.42
Consensus pattern (95 bp):
GGTTAGGGGTTAGATTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAGGGGT
TAGAGATTAGGGATTAGGGATTCAGGATCG
Found at i:10985003 original size:43 final size:43
Alignment explanation
Indices: 10984942--10985032 Score: 114
Period size: 43 Copynumber: 2.1 Consensus size: 43
10984932 CTTTGAGTTC
* *
10984942 ATTA-CAAGATTTCCTTGATTAA-ATAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGA-AAATGCATTATATCTTTT
* * *
10984984 ATTACCAATATTTACTTGATTAAGAAAATGCATTGTATGTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
10985027 ATTACC
1 ATTACC
10985033 TTGCATATGT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
42 4 0.10
43 37 0.88
44 1 0.02
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.45
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
Found at i:10985383 original size:43 final size:42
Alignment explanation
Indices: 10985319--10985604 Score: 267
Period size: 43 Copynumber: 6.7 Consensus size: 42
10985309 ATAAAATTTT
* * *
10985319 TAAAGGTTATGCT-TTTAGCGGCGTTTTTGCGAGAAGCGCCGC
1 TAAAGGTTATGGTCTTTAGCGGCGTTTGTG-GAAAAGCGCCGC
* *
10985361 TAAAGGTTAAGGTCTTTAGCGGCATTTGTGGGAAAAGCGCCGC
1 TAAAGGTTATGGTCTTTAGCGGCGTTTGT-GGAAAAGCGCCGC
* * * * *
10985404 TAAAGGTCATGGTCTTTAACGGC-ATTGCGGAAAAAGCGCTGC
1 TAAAGGTTATGGTCTTTAGCGGCGTTTGTGG-AAAAGCGCCGC
* **
10985446 TAAAGGTTATGGTCTTTAGTGGCGTTTGTGGAAGATAGCGTTGC
1 TAAAGGTTATGGTCTTTAGCGGCGTTTGTGGAA-A-AGCGCCGC
* * *
10985490 TAAAGGTCT-TTGTCTTTAGTGGCGTTTGTAGAAAAAGCGCCGC
1 TAAAGGT-TATGGTCTTTAGCGGCGTTTGT-GGAAAAGCGCCGC
** * *
10985533 TAAAGGTCT-TTATCTATAGCGGCGTTTGTGGGAAAAGCACCGC
1 TAAAGGT-TATGGTCTTTAGCGGCGTTTGT-GGAAAAGCGCCGC
10985576 TAAAGGTCT-TGGTCTTTAGCGGCGTTTGT
1 TAAAGGT-TATGGTCTTTAGCGGCGTTTGT
10985605 CATGGTCTTT
Statistics
Matches: 206, Mismatches: 30, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
41 2 0.01
42 46 0.22
43 119 0.58
44 35 0.17
45 4 0.02
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (42 bp):
TAAAGGTTATGGTCTTTAGCGGCGTTTGTGGAAAAGCGCCGC
Found at i:10985677 original size:22 final size:21
Alignment explanation
Indices: 10985642--10985686 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
10985632 TTTTGCAACG
*
10985642 CTAAAAAGCACCGCTAAAGGC
1 CTAAAAAGCACCGCTAAAAGC
*
10985663 CTAAATAAGCGCCGCTAAAAGC
1 CTAAA-AAGCACCGCTAAAAGC
10985685 CT
1 CT
10985687 GTTTTGGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.40, C:0.29, G:0.18, T:0.13
Consensus pattern (21 bp):
CTAAAAAGCACCGCTAAAAGC
Found at i:10987594 original size:9 final size:9
Alignment explanation
Indices: 10987580--10987605 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
10987570 AATCAAATCG
10987580 AATTATTCA
1 AATTATTCA
10987589 AATTATTCA
1 AATTATTCA
10987598 AATTATTC
1 AATTATTC
10987606 GAATCAGCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (9 bp):
AATTATTCA
Found at i:10987785 original size:19 final size:19
Alignment explanation
Indices: 10987761--10987809 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 19
10987751 AAAATTACAA
10987761 AAAAATTAAATTAATTTTC
1 AAAAATTAAATTAATTTTC
*
10987780 AAAAATTAAAATTAATTTTT
1 AAAAATT-AAATTAATTTTC
*
10987800 AAAATTTAAA
1 AAAAATTAAA
10987810 ATATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 10 0.37
20 17 0.63
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAAATTAAATTAATTTTC
Found at i:10990326 original size:115 final size:116
Alignment explanation
Indices: 10990170--10990453 Score: 265
Period size: 118 Copynumber: 2.4 Consensus size: 116
10990160 GGAAAAATTT
* * ** * *
10990170 TTAATGTGTGTCGTTGGTCTGTTAAGCGATACCTCTAATTTTTTTAAGAA-ATAT-TT-TTTTAA
1 TTAATG-GTGTCGTCGGTCTGTCAAGCGGCACCTTTGATTTTTTTAA-AATATATATTCTTTTAA
* * * * * * *
10990232 TTGCTGCCACCACGCTGTTAGGTGGCA-TCGTGATTGTCAGGGAATAAAAAAAA
64 TTGCTACCACCACGCAGTCAAGTGACACTAGTGATTGTCAAGGAA-AAAAAAAA
*
10990285 TTAATGAGTGTCGTCGGTCTGTCAAGTGGCACCTTTGATTTTTTTTAAAATATATATTCTTTTAA
1 TTAATG-GTGTCGTCGGTCTGTCAAGCGGCACCTTTGA-TTTTTTTAAAATATATATTCTTTTAA
* * * *
10990350 TTGGTACCGCCACGCAGTCAAGTGACACTAGTGGTTGTCAAGGAAAAAAAAAT
64 TTGCTACCACCACGCAGTCAAGTGACACTAGTGATTGTCAAGGAAAAAAAAAA
* *
10990403 TTAAATGGAGTC-ACTGGTCTGTCAAGCGGCA-CTGTTGATTTTTTTTAAAAT
1 TT-AATGGTGTCGTC-GGTCTGTCAAGCGGCACCT-TTGA-TTTTTTTAAAAT
10990454 TTAATTGGTG
Statistics
Matches: 139, Mismatches: 22, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
115 32 0.23
116 13 0.09
117 5 0.04
118 71 0.51
119 18 0.13
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (116 bp):
TTAATGGTGTCGTCGGTCTGTCAAGCGGCACCTTTGATTTTTTTAAAATATATATTCTTTTAATT
GCTACCACCACGCAGTCAAGTGACACTAGTGATTGTCAAGGAAAAAAAAAA
Found at i:10996616 original size:31 final size:31
Alignment explanation
Indices: 10996581--10996644 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
10996571 GTGAGTTGGA
10996581 ATGCTACATTAAGAATAAAACTCTATAAATT
1 ATGCTACATTAAGAATAAAACTCTATAAATT
10996612 ATGCTACATTAAGAATAAAACTCTATAAATT
1 ATGCTACATTAAGAATAAAACTCTATAAATT
10996643 AT
1 AT
10996645 TAAAAAAAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.33
Consensus pattern (31 bp):
ATGCTACATTAAGAATAAAACTCTATAAATT
Found at i:11003382 original size:35 final size:35
Alignment explanation
Indices: 11003343--11003428 Score: 109
Period size: 35 Copynumber: 2.5 Consensus size: 35
11003333 CTGTATATTG
* *
11003343 TTTACATGGTGTTGCCCTAAATGACTTATATACCA
1 TTTACACGGTGTTGCCCTAAAGGACTTATATACCA
* ** * *
11003378 TTTACACGATGTCACCCTGAAGGACTTATATATCA
1 TTTACACGGTGTTGCCCTAAAGGACTTATATACCA
11003413 TTTACACGGTGTTGCC
1 TTTACACGGTGTTGCC
11003429 TTGAAAGACC
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (35 bp):
TTTACACGGTGTTGCCCTAAAGGACTTATATACCA
Found at i:11005170 original size:56 final size:58
Alignment explanation
Indices: 11005101--11005222 Score: 212
Period size: 56 Copynumber: 2.1 Consensus size: 58
11005091 ATTTTCAGGT
11005101 TATTTTCATTTTCAATTTGGAGAAAACCACATTCATTTCCAAA-ATTT-TCATTTCTC
1 TATTTTCATTTTCAATTTGGAGAAAACCACATTCATTTCCAAATATTTCTCATTTCTC
* *
11005157 TATTTTCATTTTCATTTTGGAGAAAACCACATTTATTTCCAAATATTTCTCATTTCTC
1 TATTTTCATTTTCAATTTGGAGAAAACCACATTCATTTCCAAATATTTCTCATTTCTC
11005215 TATTTTCA
1 TATTTTCA
11005223 CCATTTTTAT
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
56 41 0.66
57 4 0.06
58 17 0.27
ACGTcount: A:0.29, C:0.19, G:0.05, T:0.48
Consensus pattern (58 bp):
TATTTTCATTTTCAATTTGGAGAAAACCACATTCATTTCCAAATATTTCTCATTTCTC
Found at i:11014196 original size:22 final size:24
Alignment explanation
Indices: 11014158--11014201 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
11014148 TGATAATATA
11014158 TTTTGATATAAAAAATTAAAGTGT
1 TTTTGATATAAAAAATTAAAGTGT
11014182 TTTTGA-AT-AAAAATTAAAGT
1 TTTTGATATAAAAAATTAAAGT
11014202 TGAACAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 12 0.60
23 2 0.10
24 6 0.30
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (24 bp):
TTTTGATATAAAAAATTAAAGTGT
Found at i:11014339 original size:20 final size:20
Alignment explanation
Indices: 11014301--11014339 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11014291 TCAACATTAA
* **
11014301 AATCAAGTTAAAATGATTTT
1 AATCAAGTAAAAACAATTTT
11014321 AATCAAGTAAAAACAATTT
1 AATCAAGTAAAAACAATTT
11014340 AAACTAGTCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (20 bp):
AATCAAGTAAAAACAATTTT
Found at i:11019372 original size:46 final size:45
Alignment explanation
Indices: 11019302--11019439 Score: 204
Period size: 46 Copynumber: 3.0 Consensus size: 45
11019292 ACAATGCAAT
* * *
11019302 AACTCAGTATAGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTT-ACTGAAATACCATACCTACGTTCCAC
11019348 AACTCAGTATGGTTTTCGTTACTGAAATACCATACCTACGTTCCAC
1 AACTCAGTATGGTTTTC-TTACTGAAATACCATACCTACGTTCCAC
* *
11019394 AACTCAGTATGGTTTTCTTTACTGAATTACCATACCTACATTCCAC
1 AACTCAGTATGGTTTTC-TTACTGAAATACCATACCTACGTTCCAC
11019440 CCTTTACCAT
Statistics
Matches: 85, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
46 83 0.98
47 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.36
Consensus pattern (45 bp):
AACTCAGTATGGTTTTCTTACTGAAATACCATACCTACGTTCCAC
Found at i:11025038 original size:46 final size:46
Alignment explanation
Indices: 11024947--11025084 Score: 242
Period size: 46 Copynumber: 3.0 Consensus size: 46
11024937 ACAATGCTAT
11024947 AACTCAGTATGGTTTTCGTTACTG-AATACCATACCTACGTTCCAC
1 AACTCAGTATGGTTTTCGTTACTGAAATACCATACCTACGTTCCAC
11024992 AACTCAGTATGGTTTTCGTTACTGAAATACCATACCTACGTTCCAC
1 AACTCAGTATGGTTTTCGTTACTGAAATACCATACCTACGTTCCAC
* * *
11025038 AACTCAGTATGGTTTTCTTTACTGAATTACCATACCTACATTCCAC
1 AACTCAGTATGGTTTTCGTTACTGAAATACCATACCTACGTTCCAC
11025084 A
1 A
11025085 CTTTCCCATG
Statistics
Matches: 89, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
45 24 0.27
46 65 0.73
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCGTTACTGAAATACCATACCTACGTTCCAC
Found at i:11030730 original size:35 final size:36
Alignment explanation
Indices: 11030649--11030782 Score: 148
Period size: 35 Copynumber: 3.8 Consensus size: 36
11030639 AGTTAGACTA
* * * *
11030649 GCTCTTATCAGCAT-TGGTGTGTTTTGAAGGGATTT
1 GCTCTTGTGAGCATCTGGTGTGTTTTGGAGGGATTG
* *
11030684 GCTCTTATGAGCAT-TGGTTTGTTTTGGAGGGATTG
1 GCTCTTGTGAGCATCTGGTGTGTTTTGGAGGGATTG
** *
11030719 GCT-TGTGTGAGCATCTGGTGTGTCCTGGGGGGATTG
1 GCTCT-TGTGAGCATCTGGTGTGTTTTGGAGGGATTG
*
11030755 GCTCTTGTGAGCATCTAGTGTGTTTTGG
1 GCTCTTGTGAGCATCTGGTGTGTTTTGG
11030783 TTGGACTGAT
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
34 1 0.01
35 42 0.50
36 40 0.48
37 1 0.01
ACGTcount: A:0.13, C:0.12, G:0.35, T:0.40
Consensus pattern (36 bp):
GCTCTTGTGAGCATCTGGTGTGTTTTGGAGGGATTG
Found at i:11033087 original size:20 final size:23
Alignment explanation
Indices: 11033043--11033087 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 23
11033033 TGATAATAGG
11033043 TTTTGATATAACAAATTAAAATGT
1 TTTTGATATAACAAATT-AAATGT
11033067 TTTTGA-ATAA-AAATT-AATGT
1 TTTTGATATAACAAATTAAATGT
11033087 T
1 T
11033088 GAACAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 6 0.29
22 5 0.24
23 4 0.19
24 6 0.29
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.44
Consensus pattern (23 bp):
TTTTGATATAACAAATTAAATGT
Found at i:11034206 original size:16 final size:16
Alignment explanation
Indices: 11034176--11034210 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
11034166 TCTTTTGAGC
11034176 TCACTAAGACATTTAT
1 TCACTAAGACATTTAT
11034192 TCACATAAGAC-TTTAT
1 TCAC-TAAGACATTTAT
11034208 TCA
1 TCA
11034211 TTCATTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (16 bp):
TCACTAAGACATTTAT
Found at i:11035234 original size:20 final size:20
Alignment explanation
Indices: 11035195--11035235 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
11035185 AAAATATCTT
*
11035195 TATTAAATTAATTATTAAAA
1 TATTAAATTAATTATAAAAA
11035215 TATTAAATATAA-TATAAAAA
1 TATTAAAT-TAATTATAAAAA
11035235 T
1 T
11035236 CTATTAGTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TATTAAATTAATTATAAAAA
Found at i:11041879 original size:6 final size:6
Alignment explanation
Indices: 11041868--11041902 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
11041858 ATTAAAATTT
11041868 AATAAC AATAAC AATAAC AATAAC AATAAC AATAA
1 AATAAC AATAAC AATAAC AATAAC AATAAC AATAA
11041903 TCATTTACCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.69, C:0.14, G:0.00, T:0.17
Consensus pattern (6 bp):
AATAAC
Found at i:11043164 original size:156 final size:156
Alignment explanation
Indices: 11042966--11043309 Score: 457
Period size: 156 Copynumber: 2.2 Consensus size: 156
11042956 GTCAGTAATT
* * * * * *
11042966 GTACAGAAAAAGCTTCTAACTAGACAC-TTTTTTGTACAGTTGATTCTGAAAAATTAATTTTGAG
1 GTACTGAAAAAGCTCCCAACTGGACGCTTTTTTTGTACAGTTGATTCTGAAAAAATAATTTTGAG
* * * *
11043030 AAGATGGTTCTGAAA-ATGTATCCC-GAGATTTC-CGAGAAATCTAATAGTTGGGGTTGAAAAAT
66 AAGATGGTTCTGAAAGA-ATATCCCAG-GA-TTCACAAGAAATCTAATAATTAGGGTTGAAAAAT
11043092 GCTTCAAGCAGGATGCACAATCAAG-AGAAA
128 GCTTCAAGCAGGATGCACAATC-AGCA-AAA
*
11043122 -TACTGAAAAAGCTCCCAATTGGACGCTTTTTTTGTACAGTTGATTCTGAAAAAATAATTTTGAG
1 GTACTGAAAAAGCTCCCAACTGGACGCTTTTTTTGTACAGTTGATTCTGAAAAAATAATTTTGAG
* *
11043186 AAGATGGTTCTGAAAGAATATCCCAGGATTCATAAGAAATCTGATAATTAGGGTTGAAAAATGCT
66 AAGATGGTTCTGAAAGAATATCCCAGGATTCACAAGAAATCTAATAATTAGGGTTGAAAAATGCT
*
11043251 TCAAGCAGGATGCACTATCAGCAAAA
131 TCAAGCAGGATGCACAATCAGCAAAA
* *
11043277 GTACTGAAAAAGCTCCCAGCTGGACGCTCTTTT
1 GTACTGAAAAAGCTCCCAACTGGACGCTTTTTT
11043310 CAGTAGTGTT
Statistics
Matches: 165, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
155 28 0.17
156 135 0.82
157 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (156 bp):
GTACTGAAAAAGCTCCCAACTGGACGCTTTTTTTGTACAGTTGATTCTGAAAAAATAATTTTGAG
AAGATGGTTCTGAAAGAATATCCCAGGATTCACAAGAAATCTAATAATTAGGGTTGAAAAATGCT
TCAAGCAGGATGCACAATCAGCAAAA
Found at i:11045024 original size:60 final size:60
Alignment explanation
Indices: 11044915--11045066 Score: 234
Period size: 60 Copynumber: 2.5 Consensus size: 60
11044905 AAATCGAAAT
* * * **
11044915 AACTCCTAATTTATTAAATGAAACAAT-GAAAAAATAATTTGTATGAAAATATTCAAAAG
1 AACTTCTATTTTATTAAATGAAACAATATAAAAAATAATTTGTACAAAAATATTCAAAAG
* *
11044974 AACTTCTATTTTAGTAAATGAAATAATATAAAAAATAATTTGTACAAAAATATTCAAAAG
1 AACTTCTATTTTATTAAATGAAACAATATAAAAAATAATTTGTACAAAAATATTCAAAAG
11045034 AACTTCTATTTTATTAAATGAAACAATATAAAA
1 AACTTCTATTTTATTAAATGAAACAATATAAAA
11045067 GCAATATCTA
Statistics
Matches: 83, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
59 23 0.28
60 60 0.72
ACGTcount: A:0.53, C:0.08, G:0.07, T:0.33
Consensus pattern (60 bp):
AACTTCTATTTTATTAAATGAAACAATATAAAAAATAATTTGTACAAAAATATTCAAAAG
Found at i:11045489 original size:18 final size:18
Alignment explanation
Indices: 11045466--11045502 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
11045456 AAAGAAACAT
11045466 ATAAGGGTTAGGATACAC
1 ATAAGGGTTAGGATACAC
11045484 ATAAGGGTTAGGATACAC
1 ATAAGGGTTAGGATACAC
11045502 A
1 A
11045503 CCTGGCATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.11, G:0.27, T:0.22
Consensus pattern (18 bp):
ATAAGGGTTAGGATACAC
Found at i:11046333 original size:21 final size:21
Alignment explanation
Indices: 11046295--11046338 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
11046285 TAATAATTGT
*
11046295 AAAATCTAAAGAAATGGATCA
1 AAAATCTAAAGAAATGGAGCA
*
11046316 AAAAT-TAGAGAAACTGGAGCA
1 AAAATCTAAAGAAA-TGGAGCA
11046337 AA
1 AA
11046339 TGCAAAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.57, C:0.09, G:0.18, T:0.16
Consensus pattern (21 bp):
AAAATCTAAAGAAATGGAGCA
Found at i:11050752 original size:87 final size:87
Alignment explanation
Indices: 11050606--11050998 Score: 660
Period size: 87 Copynumber: 4.5 Consensus size: 87
11050596 ACCAAAAAAA
* * * *
11050606 AAAGATAACAGATCTTGCCTTCCTGCGTTAGCAGCGAAGCAGACCTAAAACAAAGCCTTGCCTCC
1 AAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCAAAAACAAAGCCTTGCCTCC
*
11050671 ATCGGTTGTAGTGGAGCTGGTT
66 ATCGGTTGCAGTGGAGCTGGTT
* *
11050693 AAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACGAAGCCTTGCCTCC
1 AAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCAAAAACAAAGCCTTGCCTCC
*
11050758 ATCGGTTGTAGTGGAGCTGGTT
66 ATCGGTTGCAGTGGAGCTGGTT
* *
11050780 AAAGATAGCATATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCAAAAACAAAGCATTGCCTCC
1 AAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCAAAAACAAAGCCTTGCCTCC
11050845 ATCGGTTGCAGTGGAGCTGGTT
66 ATCGGTTGCAGTGGAGCTGGTT
**
11050867 AAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGTAAAGCAGATCAAAAACAAAGCCTTGCCTCC
1 AAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCAAAAACAAAGCCTTGCCTCC
*
11050932 ATCGGTTGCAGGGGAGCTGGTT
66 ATCGGTTGCAGTGGAGCTGGTT
*
11050954 AAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGTGAAGCAGATC
1 AAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATC
11050999 GAAGATTACA
Statistics
Matches: 290, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 290 1.00
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (87 bp):
AAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCAAAAACAAAGCCTTGCCTCC
ATCGGTTGCAGTGGAGCTGGTT
Found at i:11050928 original size:43 final size:43
Alignment explanation
Indices: 11050706--11050929 Score: 113
Period size: 42 Copynumber: 5.2 Consensus size: 43
11050696 GATAGCAGAT
* * *
11050706 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACGAAGC
1 CTTGCCTTCCTGCGTTAACAGTGAAGCAGATCAAAAACAAAGC
** * * * * * *
11050749 CTTGCC-TCCAT-CGGTT-GTAGTGGAGCTGGTTAAAGATAGCATA-T
1 CTTGCCTTCC-TGC-GTTAACAGTGAAGCAGATCAAA-A-A-CAAAGC
*
11050793 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCAAAAACAAAGC
1 CTTGCCTTCCTGCGTTAACAGTGAAGCAGATCAAAAACAAAGC
* * * * * * * *
11050836 ATTGCC-TCCAT-CGGTT-GCAGTGGAGCTGGTTAAAGATAGCAGA-T
1 CTTGCCTTCC-TGC-GTTAACAGTGAAGCAGATCAAA-A-A-CAAAGC
*
11050880 CTTGCCTTCCTGCGTTAACAGTAAAGCAGATCAAAAACAAAGC
1 CTTGCCTTCCTGCGTTAACAGTGAAGCAGATCAAAAACAAAGC
11050923 CTTGCCT
1 CTTGCCT
11050930 CCATCGGTTG
Statistics
Matches: 125, Mismatches: 38, Indels: 36
0.63 0.19 0.18
Matches are distributed among these distances:
42 36 0.29
43 30 0.24
44 23 0.18
45 36 0.29
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (43 bp):
CTTGCCTTCCTGCGTTAACAGTGAAGCAGATCAAAAACAAAGC
Found at i:11051139 original size:44 final size:44
Alignment explanation
Indices: 11051091--11051218 Score: 143
Period size: 44 Copynumber: 2.9 Consensus size: 44
11051081 TAGATCACAT
*
11051091 CAAGTCTTATCTCCCTGAGGTTGCAGTAGAGCAGACTG-AGAAAA
1 CAAGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAG-AAA
* ** * * *
11051135 CAAGTCTTATC-CCCTTGAAGTCACAGTGGGGCCGACTGAAGAAG
1 CAAGTCTTATCTCCC-TGAGGTTGCAGTGGAGCAGACTGAAGAAA
* *
11051179 CAAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAA
1 CAAGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAA
11051219 TTCGAATCCT
Statistics
Matches: 67, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
43 3 0.04
44 59 0.88
45 5 0.07
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (44 bp):
CAAGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAGAAA
Found at i:11055952 original size:22 final size:21
Alignment explanation
Indices: 11055906--11055971 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 21
11055896 ACCAACTGTT
*
11055906 ATAAAAAATTATAAAAA--ATA
1 ATAATAAATTATAAAAATGA-A
*
11055926 TTAATTAAATTATAAAAATGAA
1 ATAA-TAAATTATAAAAATGAA
11055948 ATAATAATATTA-AAAAATTGAA
1 ATAATAA-ATTATAAAAA-TGAA
11055970 AT
1 AT
11055972 TAATCCTTAC
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
20 3 0.08
21 20 0.53
22 14 0.37
23 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (21 bp):
ATAATAAATTATAAAAATGAA
Found at i:11057641 original size:19 final size:20
Alignment explanation
Indices: 11057617--11057654 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11057607 GGTTAAAAAT
*
11057617 ATTATAAA-ATTTATTAAAG
1 ATTATAAATACTTATTAAAG
11057636 ATTATAAATACTTATTAAA
1 ATTATAAATACTTATTAAA
11057655 ATTTGGAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (20 bp):
ATTATAAATACTTATTAAAG
Found at i:11066804 original size:25 final size:23
Alignment explanation
Indices: 11066776--11066821 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
11066766 TTAATATAGA
11066776 GGTTACAAATTACAATTATATCAAC
1 GGTTA-AAATTACAA-TATATCAAC
* *
11066801 GGTTAACATTAGAATATATCA
1 GGTTAAAATTACAATATATCA
11066822 TTACAAGTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
24 7 0.37
25 5 0.26
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (23 bp):
GGTTAAAATTACAATATATCAAC
Found at i:11070688 original size:25 final size:27
Alignment explanation
Indices: 11070650--11070717 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
11070640 AAATATATAA
11070650 TAAATATATATTTTTA-TTTTTTA-TTT
1 TAAA-ATATATTTTTATTTTTTTATTTT
*
11070676 TAAAATATTTTTTTATTTTTTTATTTT
1 TAAAATATATTTTTATTTTTTTATTTT
*
11070703 TAAAATAAATTTTTA
1 TAAAATATATTTTTA
11070718 GTATTTATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
25 10 0.27
26 11 0.30
27 16 0.43
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (27 bp):
TAAAATATATTTTTATTTTTTTATTTT
Found at i:11070724 original size:26 final size:26
Alignment explanation
Indices: 11070650--11070726 Score: 93
Period size: 26 Copynumber: 2.9 Consensus size: 26
11070640 AAATATATAA
11070650 TAAATATATATTTTTATTTTTTA-TTT
1 TAAA-ATATATTTTTATTTTTTATTTT
*
11070676 TAAAATATTTTTTTATTTTTTTATTTT
1 TAAAATATATTTTTA-TTTTTTATTTT
* * *
11070703 TAAAATAAATTTTTAGTATTTATT
1 TAAAATATATTTTTATTTTTTATT
11070727 AAAAAAATAA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
25 10 0.23
26 18 0.41
27 16 0.36
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.66
Consensus pattern (26 bp):
TAAAATATATTTTTATTTTTTATTTT
Found at i:11079966 original size:2 final size:2
Alignment explanation
Indices: 11079955--11080006 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
11079945 CAAATTAGCA
11079955 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11079996 AT AT AT AT AT A
1 AT AT AT AT AT A
11080007 AGGATATAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 48 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11085438 original size:91 final size:91
Alignment explanation
Indices: 11085283--11085464 Score: 355
Period size: 91 Copynumber: 2.0 Consensus size: 91
11085273 CTCATTAAGG
11085283 GGTTGGAAGCAAAATATTTGACTGTGAAATATCTATTTATGAACAATAAAATTTGATAATTCTAT
1 GGTTGGAAGCAAAATATTTGACTGTGAAATATCTATTTATGAACAATAAAATTTGATAATTCTAT
11085348 CTAAAGCTCGTTATGGTTGGATGCAC
66 CTAAAGCTCGTTATGGTTGGATGCAC
11085374 GGTTGGAAGCAAAATATTTGACTGTGAAATATCTATTTATGAACAATAAAATTTGATAATTCTAT
1 GGTTGGAAGCAAAATATTTGACTGTGAAATATCTATTTATGAACAATAAAATTTGATAATTCTAT
*
11085439 CTAAAGCTCGTTATGTTTGGATGCAC
66 CTAAAGCTCGTTATGGTTGGATGCAC
11085465 CTAAATTTGT
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 90 1.00
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (91 bp):
GGTTGGAAGCAAAATATTTGACTGTGAAATATCTATTTATGAACAATAAAATTTGATAATTCTAT
CTAAAGCTCGTTATGGTTGGATGCAC
Found at i:11096483 original size:18 final size:17
Alignment explanation
Indices: 11096431--11096488 Score: 61
Period size: 14 Copynumber: 3.6 Consensus size: 17
11096421 CCAGCCAAAC
11096431 AAATTAATT-AATTTTT
1 AAATTAATTAAATTTTT
* *
11096447 TAATTAAATAAA--TTT
1 AAATTAATTAAATTTTT
11096462 -AATTAATTAAATTTTCT
1 AAATTAATTAAATTTT-T
11096479 AAATTAATTA
1 AAATTAATTA
11096489 GAGGTAAATG
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
14 10 0.29
15 3 0.09
16 9 0.26
17 3 0.09
18 9 0.26
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (17 bp):
AAATTAATTAAATTTTT
Found at i:11096989 original size:5 final size:5
Alignment explanation
Indices: 11096979--11097005 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
11096969 TCTTTATCGT
11096979 TCTTC TCTTC TCTTC TCTTC TCTTC TC
1 TCTTC TCTTC TCTTC TCTTC TCTTC TC
11097006 CTCTGATGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (5 bp):
TCTTC
Found at i:11098160 original size:16 final size:17
Alignment explanation
Indices: 11098129--11098161 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
11098119 GCACAACTAC
11098129 TTTTTTATATTAAAATA
1 TTTTTTATATTAAAATA
*
11098146 TTTTTTA-ATTTAAATA
1 TTTTTTATATTAAAATA
11098162 AAATATTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTTTATATTAAAATA
Found at i:11098791 original size:60 final size:60
Alignment explanation
Indices: 11098696--11098814 Score: 193
Period size: 60 Copynumber: 2.0 Consensus size: 60
11098686 AATTTTTTTA
* * *
11098696 TAATTATTTTAAATTTAACTTGTTAGTAATTTAGGATTATGTTACAAATTGTTGTGTTTG
1 TAATAATTTTAAAATTAACTTATTAGTAATTTAGGATTATGTTACAAATTGTTGTGTTTG
* *
11098756 TAATAATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTGTTGTGTTT
1 TAATAATTTTAAAATTAACTTATTAGTAATTTAGGATTATGTTACAAATTGTTGTGTTT
11098815 AATTTAGTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.33, C:0.02, G:0.13, T:0.52
Consensus pattern (60 bp):
TAATAATTTTAAAATTAACTTATTAGTAATTTAGGATTATGTTACAAATTGTTGTGTTTG
Found at i:11099343 original size:103 final size:103
Alignment explanation
Indices: 11099066--11099336 Score: 485
Period size: 103 Copynumber: 2.7 Consensus size: 103
11099056 TTTAGTATAG
*
11099066 TGTTAGTAATTTATTATTAGGTTATATAAATTGTTAGTGTTTAGTTGTGTATTTTGTGATTTTTT
1 TGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTGTGTATTTTGTGATTTTTT
11099131 TAGTAATCTATTTTTTTAAAATAATTTTATAGTTATTT
66 TAGTAATCTATTTTTTTAAAATAATTTTATAGTTATTT
11099169 TGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTGTGTATTTTGTGATTTTTT
1 TGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTGTGTATTTTGTGATTTTTT
11099234 TAGTAATCTATTTTTTTAAAATAATTTTATAGTTATTT
66 TAGTAATCTATTTTTTTAAAATAATTTTATAGTTATTT
* *
11099272 TGTTAGTAATTTATGATTA-GAT-TATAAATTGTTAGTGTTTAGTT-TAGTGTTTTGTGATTTTT
1 TGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTGT-GTATTTTGTGATTTTT
11099334 TTA
65 TTA
11099337 ATGTAATTTT
Statistics
Matches: 164, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
100 1 0.01
101 40 0.24
102 2 0.01
103 121 0.74
ACGTcount: A:0.27, C:0.01, G:0.15, T:0.58
Consensus pattern (103 bp):
TGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTGTGTATTTTGTGATTTTTT
TAGTAATCTATTTTTTTAAAATAATTTTATAGTTATTT
Found at i:11099543 original size:41 final size:40
Alignment explanation
Indices: 11099498--11099583 Score: 102
Period size: 40 Copynumber: 2.1 Consensus size: 40
11099488 GCGGCATTTT
11099498 TAGCGGTG-TTTGGACAAAAAACGCCGCTAAAAATCGAGCAC
1 TAGCGGTGCTTT--ACAAAAAACGCCGCTAAAAATCGAGCAC
*** * *
11099539 TAGCGGTGCTTTTTTAAAAACGCCGCTAAAGATCGAGCAT
1 TAGCGGTGCTTTACAAAAAACGCCGCTAAAAATCGAGCAC
11099579 TAGCG
1 TAGCG
11099584 CCGCTTTAAG
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
40 28 0.72
41 8 0.21
42 3 0.08
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (40 bp):
TAGCGGTGCTTTACAAAAAACGCCGCTAAAAATCGAGCAC
Found at i:11099590 original size:40 final size:40
Alignment explanation
Indices: 11099514--11099590 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
11099504 TGTTTGGACA
**
11099514 AAAAACGCCGCTAAAAATCGAGCACTAGCGGTGCTTTTTT
1 AAAAACGCCGCTAAAAATCGAGCACTAGCGCCGCTTTTTT
* *
11099554 AAAAACGCCGCTAAAGATCGAGCATTAGCGCCGCTTT
1 AAAAACGCCGCTAAAAATCGAGCACTAGCGCCGCTTT
11099591 AAGTAAAGGG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (40 bp):
AAAAACGCCGCTAAAAATCGAGCACTAGCGCCGCTTTTTT
Found at i:11099736 original size:41 final size:41
Alignment explanation
Indices: 11099676--11099788 Score: 172
Period size: 41 Copynumber: 2.8 Consensus size: 41
11099666 TACCTTTCTT
*
11099676 GGCTTTAGCGGCGTTTTTGAAAAAGCTCCGCTAATGCTCGG
1 GGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGG
* *
11099717 GGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTTGG
1 GGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGG
** *
11099758 GGCTTTAGCAACGTTTTTGGAAAAGCGCCGC
1 GGCTTTAGCGGCGTTTTTGAAAAAGCGCCGC
11099789 AAAAACATTT
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 65 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.29
Consensus pattern (41 bp):
GGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGG
Found at i:11100239 original size:27 final size:27
Alignment explanation
Indices: 11100206--11100263 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 27
11100196 TTATGGTTTA
*
11100206 AGGGTTG-GAATTTAAGGTTTAGGGGTT
1 AGGGTTGAG-ATTTAAGGTTTAAGGGTT
11100233 AGGGTTGAGATTTAAGGTTTAAGGGTT
1 AGGGTTGAGATTTAAGGTTTAAGGGTT
11100260 AGGG
1 AGGG
11100264 GTTAGAGGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 28 0.97
28 1 0.03
ACGTcount: A:0.24, C:0.00, G:0.41, T:0.34
Consensus pattern (27 bp):
AGGGTTGAGATTTAAGGTTTAAGGGTT
Found at i:11101220 original size:20 final size:21
Alignment explanation
Indices: 11101192--11101235 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
11101182 GCCATTTTAT
11101192 CCCCAAA-TTCCCCCCTGAAA
1 CCCCAAATTTCCCCCCTGAAA
* *
11101212 CCCCTAATTTTCCCCCTGAAA
1 CCCCAAATTTCCCCCCTGAAA
11101233 CCC
1 CCC
11101236 TAGCTCTGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.25, C:0.50, G:0.05, T:0.20
Consensus pattern (21 bp):
CCCCAAATTTCCCCCCTGAAA
Found at i:11103639 original size:46 final size:46
Alignment explanation
Indices: 11103572--11103851 Score: 300
Period size: 46 Copynumber: 6.6 Consensus size: 46
11103562 TTTGAGTACT
*
11103572 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCATTAGCTACACTTA
*
11103618 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCATTAGCTACACTTA
*
11103664 TCTGATCAAGTGAAAAAGTGAT-A-----A--A-T-GCTACACCTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCATTAGCTACACTTA
* * * *
11103700 TCTAATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCATTAGCTACACTTA
11103746 TCTGATCAAGTGAAAAAGTGATAA---GT-GC--TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCATTAGCTACACTTA
* *
11103782 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCATTAGCTACACTTA
* *
11103827 TCTGATC-AG-GGACAAGTGATAAGTG
1 TCTGATCAAGTGAAAAAGTGATAAGTG
11103852 ATCATATGTA
Statistics
Matches: 200, Mismatches: 15, Indels: 41
0.78 0.06 0.16
Matches are distributed among these distances:
36 56 0.28
37 2 0.01
38 2 0.01
39 2 0.01
40 5 0.03
41 2 0.01
42 3 0.01
43 16 0.08
44 2 0.01
45 14 0.07
46 96 0.48
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (46 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCATTAGCTACACTTA
Found at i:11103695 original size:36 final size:36
Alignment explanation
Indices: 11103654--11103805 Score: 151
Period size: 36 Copynumber: 3.9 Consensus size: 36
11103644 GGTAGCATTA
11103654 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAAT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAAT
* * * *
11103690 GCTACACCTATCTAATCAAGAGATAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAA-----A----T
*
11103735 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAAT
* *
11103772 GCTATACTTATCTGATCAAGTGACAAAGTGATAA
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAA
11103806 GTGGTAGCCT
Statistics
Matches: 95, Mismatches: 11, Indels: 20
0.75 0.09 0.16
Matches are distributed among these distances:
36 62 0.65
37 1 0.01
41 1 0.01
45 1 0.01
46 30 0.32
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.28
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAAT
Found at i:11103702 original size:82 final size:81
Alignment explanation
Indices: 11103608--11103834 Score: 364
Period size: 82 Copynumber: 2.8 Consensus size: 81
11103598 GGTAGCATTA
*
11103608 GCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAA
11103673 GTGAAAAAGTGATAAAT
65 GTGAAAAAGTGATAAAT
* * * *
11103690 GCTACACCTATCTAATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAA
*
11103755 GTGAAAAAGTGATAAGT
65 GTGAAAAAGTGATAAAT
* *
11103772 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCA
11103835 GGGACAAGTG
Statistics
Matches: 133, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
81 20 0.15
82 113 0.85
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (81 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAG
TGAAAAAGTGATAAAT
Found at i:11108085 original size:46 final size:43
Alignment explanation
Indices: 11107950--11108137 Score: 252
Period size: 43 Copynumber: 4.3 Consensus size: 43
11107940 GAACCGTACT
* * *
11107950 TTTAGCGACGTTTG-TGATAAAAGCGCCGCTAAAAATCATGTTC
1 TTTAGCGGCGTTTGTTGGT-AAAGCGCCGCTAAAGATCATGTTC
** * *
11107993 TTTAGCAACGTTTGTTGGTAAAGCGCCACTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTTGGTAAAGCGCCGCTAAAGATCATGTTC
*
11108036 TTTAGCGGCGTTTGTTGGTAAAGCGCCGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTTGGTAAA--G-CGCCGCTAAAGATCATGTTC
*
11108082 TTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTTGGTAAAGCGCCGCTAAAGATCATGTTC
11108125 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
11108138 TTTTACATAA
Statistics
Matches: 131, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
43 86 0.66
44 4 0.03
45 1 0.01
46 40 0.31
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTTGGTAAAGCGCCGCTAAAGATCATGTTC
Found at i:11108095 original size:89 final size:89
Alignment explanation
Indices: 11107973--11108137 Score: 267
Period size: 89 Copynumber: 1.9 Consensus size: 89
11107963 GTGATAAAAG
* *
11107973 CGCCGCTAAAAATCATGTTCTTTAGCAACGTTTGTTGGTAAAGCGCCACTAAAGGTCATGTTCTT
1 CGCCGCTAAAAATCATGTTCTTTAGCAACGTTTGTGGGTAAAGCGCCACTAAAGATCATGTTCTT
11108038 TAGCGGCGTTTGTTGGTAAAGCGC
66 TAGCGGCGTTTGTTGGTAAAGCGC
** ** *
11108062 CGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGATCATGTTCTT
1 CGCCGCTAAAAATCATGTTCTTTAGCAACGTTTGTGGGTAAAGCGCCACTAAAGATCATGTTCTT
11108127 TAGCGGCGTTT
66 TAGCGGCGTTT
11108138 TTTTACATAA
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
89 69 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.32
Consensus pattern (89 bp):
CGCCGCTAAAAATCATGTTCTTTAGCAACGTTTGTGGGTAAAGCGCCACTAAAGATCATGTTCTT
TAGCGGCGTTTGTTGGTAAAGCGC
Found at i:11110624 original size:76 final size:77
Alignment explanation
Indices: 11110443--11111057 Score: 934
Period size: 76 Copynumber: 7.9 Consensus size: 77
11110433 AATAACTTCA
* * *
11110443 TATTTATGTAATGAATTTCTTGTCATTTTATTTATCAATTTTATGGGGGTTTTTTTTTTTGCAAT
1 TATTTATGTAATGATTTTTTTGCCATTTTATTTATCAATTTTAT---GG--TTTTTTTTTGCAAT
**
11110508 TTAAATAGTCAACTTCA
61 TTAAATAGTCAACTTTG
* *
11110525 TATTTATGTAATGAATTTATTGCCATTTTATTTATCAATTTTATGGTTTTTTTTT-CAATTTAAA
1 TATTTATGTAATGATTTTTTTGCCATTTTATTTATCAATTTTATGGTTTTTTTTTGCAATTTAAA
11110589 TAGTCAACTTTG
66 TAGTCAACTTTG
*
11110601 TATTTATGTAATGATTTTTTTGCCATTTTATTTATCAATTTTATGG-TTTTTTTTGTAATTTAAA
1 TATTTATGTAATGATTTTTTTGCCATTTTATTTATCAATTTTATGGTTTTTTTTTGCAATTTAAA
11110665 TAGTCAACTTTG
66 TAGTCAACTTTG
11110677 TATTTATGTAATGATTTTTTTGCCATTTTATTTATCAATTTTATGGTTTTTTTTTTTTTTTGCAA
1 TATTTATGTAATGATTTTTTTGCCATTTTATTTATCAATTTTATGG------TTTTTTTTTGCAA
11110742 TTTAAATAGTCAACTTTG
60 TTTAAATAGTCAACTTTG
*
11110760 TATTTATGTAATGATTTTTTTGCCATTTTATTTATCAATTTTATGGGTTTTTTTT-CAATTTAAA
1 TATTTATGTAATGATTTTTTTGCCATTTTATTTATCAATTTTATGGTTTTTTTTTGCAATTTAAA
11110824 TAGTCAACTTTG
66 TAGTCAACTTTG
*
11110836 TATTTATGTAATGATTTTTTTGCCATTTTATTTATCAATTTTATGG-GTTTTTTT-CAATTTAAA
1 TATTTATGTAATGATTTTTTTGCCATTTTATTTATCAATTTTATGGTTTTTTTTTGCAATTTAAA
11110899 TAGTCAACTTTG
66 TAGTCAACTTTG
* * * *
11110911 TATTTATGTAATGACTTTTTTGTCATTTTATTTATCAATTTGATGGGGGTTTTTTTTTACAATTT
1 TATTTATGTAATGATTTTTTTGCCATTTTATTTATCAATTTTAT---GGTTTTTTTTTGCAATTT
11110976 AAATAGTCAACTTTG
63 AAATAGTCAACTTTG
*
11110991 TATTTATGTAATGACTTTTTTGCCATTTTATTTATCAATTTTATGGTTTTTTTTTGCAATTTAAA
1 TATTTATGTAATGATTTTTTTGCCATTTTATTTATCAATTTTATGGTTTTTTTTTGCAATTTAAA
11111056 TA
66 TA
11111058 AATAAACTTT
Statistics
Matches: 503, Mismatches: 17, Indels: 31
0.91 0.03 0.06
Matches are distributed among these distances:
75 77 0.15
76 196 0.39
77 39 0.08
78 2 0.00
79 9 0.02
80 63 0.13
82 42 0.08
83 75 0.15
ACGTcount: A:0.25, C:0.08, G:0.11, T:0.56
Consensus pattern (77 bp):
TATTTATGTAATGATTTTTTTGCCATTTTATTTATCAATTTTATGGTTTTTTTTTGCAATTTAAA
TAGTCAACTTTG
Found at i:11110811 original size:159 final size:154
Alignment explanation
Indices: 11110443--11111057 Score: 934
Period size: 159 Copynumber: 3.9 Consensus size: 154
11110433 AATAACTTCA
* * * *
11110443 TATTTATGTAATGAATTTCTTGTCATTTTATTTATCAATTTTATGGGGGTTTTTTTTTTTGCAAT
1 TATTTATGTAATGATTTTTTTGCCATTTTATTTATCAATTTTAT-GGGG--TTTTTTTGT-CAAT
** * *
11110508 TTAAATAGTCAACTTCATATTTATGTAATGAATTTATTGCCATTTTATTTATCAATTTTATGGTT
62 TTAAATAGTCAACTTTGTATTTATGTAATGATTTTTTTGCCATTTTATTTATCAATTTTATGGTT
11110573 TTTTTTTCAATTTAAATAGTCAACTTTG
127 TTTTTTTCAATTTAAATAGTCAACTTTG
*
11110601 TATTTATGTAATGATTTTTTTGCCATTTTATTTATCAATTTTAT-GGTTTTTTTTGT-AATTTAA
1 TATTTATGTAATGATTTTTTTGCCATTTTATTTATCAATTTTATGGGGTTTTTTTGTCAATTTAA
11110664 ATAGTCAACTTTGTATTTATGTAATGATTTTTTTGCCATTTTATTTATCAATTTTATGGTTTTTT
66 ATAGTCAACTTTGTATTTATGTAATGATTTTTTTGCCATTTTATTTATCAATTTTATGG------
11110729 TTTTTTTTTGCAATTTAAATAGTCAACTTTG
125 TTTTTTTTT-CAATTTAAATAGTCAACTTTG
11110760 TATTTATGTAATGATTTTTTTGCCATTTTATTTATCAATTTTAT-GGGTTTTTTT-TCAATTTAA
1 TATTTATGTAATGATTTTTTTGCCATTTTATTTATCAATTTTATGGGGTTTTTTTGTCAATTTAA
*
11110823 ATAGTCAACTTTGTATTTATGTAATGATTTTTTTGCCATTTTATTTATCAATTTTATGG-GTTTT
66 ATAGTCAACTTTGTATTTATGTAATGATTTTTTTGCCATTTTATTTATCAATTTTATGGTTTTTT
11110887 TTTCAATTTAAATAGTCAACTTTG
131 TTTCAATTTAAATAGTCAACTTTG
* * * *
11110911 TATTTATGTAATGACTTTTTTGTCATTTTATTTATCAATTTGATGGGGGTTTTTTTTTACAATTT
1 TATTTATGTAATGATTTTTTTGCCATTTTATTTATCAATTTTAT-GGGGTTTTTTTGT-CAATTT
*
11110976 AAATAGTCAACTTTGTATTTATGTAATGACTTTTTTGCCATTTTATTTATCAATTTTATGGTTTT
64 AAATAGTCAACTTTGTATTTATGTAATGATTTTTTTGCCATTTTATTTATCAATTTTATGGTTTT
11111041 TTTTTGCAATTTAAATA
129 TTTTT-CAATTTAAATA
11111058 AATAAACTTT
Statistics
Matches: 427, Mismatches: 16, Indels: 29
0.90 0.03 0.06
Matches are distributed among these distances:
151 62 0.15
152 69 0.16
153 10 0.02
154 9 0.02
155 66 0.15
156 9 0.02
157 11 0.03
158 51 0.12
159 140 0.33
ACGTcount: A:0.25, C:0.08, G:0.11, T:0.56
Consensus pattern (154 bp):
TATTTATGTAATGATTTTTTTGCCATTTTATTTATCAATTTTATGGGGTTTTTTTGTCAATTTAA
ATAGTCAACTTTGTATTTATGTAATGATTTTTTTGCCATTTTATTTATCAATTTTATGGTTTTTT
TTTCAATTTAAATAGTCAACTTTG
Found at i:11110853 original size:235 final size:231
Alignment explanation
Indices: 11110443--11111057 Score: 1014
Period size: 235 Copynumber: 2.6 Consensus size: 231
11110433 AATAACTTCA
*
11110443 TATTTATGTAATGAATTTCTTGTCATTTTATTTATCAATTTTATGGGGGTTTTTTTTTTTGCAAT
1 TATTTATGTAATGAATTTTTTGTCATTTTATTTATCAATTTTAT--GGGTTTTTTTTTTTGCAAT
** *
11110508 TTAAATAGTCAACTTCATATTTATGTAATGAATTTATTGCCATTTTATTTATCAATTTTATGGTT
64 TTAAATAGTCAACTTTGTATTTATGTAATGAATTTTTTGCCATTTTATTTATCAATTTTATGGTT
11110573 TTTTTTTCAATTTAAATAGTCAACTTTGTATTTATGTAATGATTTTTTTGCCATTTTATTTATCA
129 TTTTTTTCAATTTAAATAGTCAACTTTGTATTTATGTAATGATTTTTTTGCCATTTTATTTATCA
* *
11110638 ATTTTATGGTTTTTTTTGTAATTTAAATAGTCAACTTTG
194 ATTTTATGGGTTTTTTT-CAATTTAAATAGTCAACTTTG
* * *
11110677 TATTTATGTAATGATTTTTTTGCCATTTTATTTATCAATTTTATGGTTTTTTTTTTTTTTTGCAA
1 TATTTATGTAATGAATTTTTTGTCATTTTATTTATCAATTTTATGG---GTTTTTTTTTTTGCAA
* *
11110742 TTTAAATAGTCAACTTTGTATTTATGTAATGATTTTTTTGCCATTTTATTTATCAATTTTATGGG
63 TTTAAATAGTCAACTTTGTATTTATGTAATGAATTTTTTGCCATTTTATTTATCAATTTTATGGT
11110807 TTTTTTTTCAATTTAAATAGTCAACTTTGTATTTATGTAATGATTTTTTTGCCATTTTATTTATC
128 TTTTTTTTCAATTTAAATAGTCAACTTTGTATTTATGTAATGATTTTTTTGCCATTTTATTTATC
11110872 AATTTTATGGGTTTTTTTCAATTTAAATAGTCAACTTTG
193 AATTTTATGGGTTTTTTTCAATTTAAATAGTCAACTTTG
* * ** *
11110911 TATTTATGTAATGACTTTTTTGTCATTTTATTTATCAATTTGATGGGGGTTTTTTTTTACAATTT
1 TATTTATGTAATGAATTTTTTGTCATTTTATTTATCAATTTTATGGGTTTTTTTTTTTGCAATTT
*
11110976 AAATAGTCAACTTTGTATTTATGTAATGACTTTTTTGCCATTTTATTTATCAATTTTATGGTTTT
66 AAATAGTCAACTTTGTATTTATGTAATGAATTTTTTGCCATTTTATTTATCAATTTTATGGTTTT
11111041 TTTTTGCAATTTAAATA
131 TTTTT-CAATTTAAATA
11111058 AATAAACTTT
Statistics
Matches: 357, Mismatches: 20, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
231 83 0.23
232 13 0.04
234 104 0.29
235 157 0.44
ACGTcount: A:0.25, C:0.08, G:0.11, T:0.56
Consensus pattern (231 bp):
TATTTATGTAATGAATTTTTTGTCATTTTATTTATCAATTTTATGGGTTTTTTTTTTTGCAATTT
AAATAGTCAACTTTGTATTTATGTAATGAATTTTTTGCCATTTTATTTATCAATTTTATGGTTTT
TTTTTCAATTTAAATAGTCAACTTTGTATTTATGTAATGATTTTTTTGCCATTTTATTTATCAAT
TTTATGGGTTTTTTTCAATTTAAATAGTCAACTTTG
Found at i:11112430 original size:106 final size:106
Alignment explanation
Indices: 11112238--11112776 Score: 850
Period size: 106 Copynumber: 5.1 Consensus size: 106
11112228 AATAACATGA
*
11112238 TTTGAAA-TTTAAGAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGG
1 TTTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGG
* * * * *
11112302 GCACATTTTCTCGAATTTCCAAACGCAAAATATTACCTTGT
66 GCACGTTTTCTCGATTTTCCAAACGTAAAATATTGCCTTGC
* *
11112343 TTTGAAATTTTAAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAACACGTTAGG
1 TTTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGG
* * *
11112408 GCACGTCTTCTCGATTTTCCAAACGCAAAATATTGCCTTAC
66 GCACGTTTTCTCGATTTTCCAAACGTAAAATATTGCCTTGC
* *
11112449 TTTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAATGAGAAATCAAAACCCAGCACGTTAGG
1 TTTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGG
*
11112514 GCACGTTTTCTCGAATTTT-CAAACGTAAAATATTGTCTTGC
66 GCACGTTTTCTCG-ATTTTCCAAACGTAAAATATTGCCTTGC
* *
11112555 TTTGAAATTTTAAAAGGATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCATGTTAGG
1 TTTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGG
* *
11112620 GAACGTTTTCTCGAATTT-CAAACGTAAAATATTGCCTTGC
66 GCACGTTTTCTCGATTTTCCAAACGTAAAATATTGCCTTGC
* *
11112660 TTTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATAGAAACCCAGCATGTTAGG
1 TTTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGG
* *
11112725 GCACATTTTCTCGATTTTCCAAACGTAAAATATTGCCTTAC
66 GCACGTTTTCTCGATTTTCCAAACGTAAAATATTGCCTTGC
11112766 TTTGAAATTTT
1 TTTGAAATTTT
11112777 TGAATTAGAA
Statistics
Matches: 401, Mismatches: 30, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
105 110 0.27
106 286 0.71
107 5 0.01
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Consensus pattern (106 bp):
TTTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGG
GCACGTTTTCTCGATTTTCCAAACGTAAAATATTGCCTTGC
Found at i:11114898 original size:44 final size:44
Alignment explanation
Indices: 11114867--11114984 Score: 139
Period size: 44 Copynumber: 2.7 Consensus size: 44
11114857 TCATCATTTT
* *
11114867 AATCCGCTCCATTGCAGCTTCAGGGAGATAGGATTAATAGCTTC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAATAGCTTC
* * ** *
11114911 AATCTGCTCCGCTGCAACTTCAGGGAGATAGGATTGGTATCTTC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAATAGCTTC
* *
11114955 AA-CCTGCTCCACTGTAACTTTAGGGAGATA
1 AATCC-GCTCCACTGCAACTTCAGGGAGATA
11114985 ATGCTTGATG
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
43 1 0.02
44 61 0.98
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (44 bp):
AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAATAGCTTC
Found at i:11115073 original size:129 final size:129
Alignment explanation
Indices: 11114911--11115683 Score: 1111
Period size: 129 Copynumber: 6.0 Consensus size: 129
11114901 TAATAGCTTC
* * * * *** * *
11114911 AATCTGCTCCGCTGCAACTTCAGGGAGATAGGATTGGTATCTTCAACCTGCTCCACTGTAACTTT
1 AATCCGCTCCACTACAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTC
* * * * * * *
11114976 AGGGAGATAATG-CTTGATGGGATCTGGTCTACTACAACTTCAGAGATAAAAGATTTGTGGTTTT
66 AGGGAGATAA-GACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
* * *
11115040 AATCCGCTCCACTACAACTTCAGGGAGATAGGATTGGCTTCTTCTGTCTGTTCCACTGTAACTTC
1 AATCCGCTCCACTACAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTC
* * * *
11115105 AGGGAGATAATACTGGATGCAATCTACTCTACTGCAACTCCAGAGAGATAAGATCTGTGGTTTT
66 AGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
* *
11115169 AATACGCTCCACTACAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTACTCCACTGCAACTTC
1 AATCCGCTCCACTACAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTC
* * *
11115234 AGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAAAGAGAGAAGATATGTGGTTTT
66 AGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
11115298 AATCCGCTCCACTACAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTC
1 AATCCGCTCCACTACAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTC
* * *
11115363 AGGGAGATAAGACTGGATGCGATCTGCTCTACTGTAACTTCAGAGAAATAAGATCTTTGGTTTT
66 AGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
* * *
11115427 AATCCGCTCCACTGCAACTTCAGGGAG--AGGATTGATTTCTTCTGTCTGCTCCACTACAACTTC
1 AATCCGCTCCACTACAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTC
*
11115490 AGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGCGGTTTT
66 AGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
* ** * * * *
11115554 AATCCACTCCACTGTAATTTTAGGGAGATAGGATTGGCTTCTTCTGTCTGCTCCACTGTAACTTC
1 AATCCGCTCCACTACAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTC
* * *
11115619 AGGGAGATAAAACTGGATGCGATCTGCTCTACTGCAACTTCAAAGAGATAAGATCTGTAGTTTT
66 AGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
11115683 A
1 A
11115684 CCGATCTGTT
Statistics
Matches: 581, Mismatches: 60, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
127 117 0.20
129 464 0.80
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (129 bp):
AATCCGCTCCACTACAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTC
AGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
Found at i:11115095 original size:44 final size:44
Alignment explanation
Indices: 11115045--11115628 Score: 304
Period size: 44 Copynumber: 13.6 Consensus size: 44
11115035 GTTTTAATCC
* * *
11115045 GCTCCACTACAACTTCAGGGAGATAGGATTGGCTTCTTCTGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGGTTCTTCTGTCT
* * * * * * * *
11115089 GTTCCACTGTAACTTCAGGGAGATAATACTGGATGCAATCT-ACT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGGTTC-TTCTGTCT
* * * *
11115133 -CT--ACTGCAACTCCAGAGAGATAAGATCTGTGGTT-TTAAT-AC-
1 GCTCCACTGCAACTTCAGGGAGATAAGAT-TG-GGTTCTT-CTGTCT
* * *
11115174 GCTCCACTACAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGGTTCTTCTGTCT
* * * *
11115218 ACTCCACTGCAACTTCAGGGAGATAAGACT-GG--ATGC-GATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGGTTCTTCTG-TCT
* ** * ** *
11115259 GCTCTACTGCAACTTCAAAGAGAGAAGATATGTGGTT-TT-AATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGAT-TG-GGTTCTTCTGTCT
* * *
11115303 GCTCCACTACAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGGTTCTTCTGTCT
* * *
11115347 GCTCCACTGCAACTTCAGGGAGATAAGACT-GG--ATGC-GATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGGTTCTTCTG-TCT
* * * * * ** *
11115388 GCTCTACTGTAACTTCAGAGAAATAAGATCTTTGGTT-TT-AATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGA--TTGGGTTCTTCTGTCT
* **
11115432 GCTCCACTGCAACTTCAGGGAG--AGGATTGATTTCTTCTGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGGTTCTTCTGTCT
* * * *
11115474 GCTCCACTACAACTTCAGGGAGATAAGACT-GG--ATGC-GATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGGTTCTTCTG-TCT
* * ** *
11115515 GCTCTACTGCAACTTCAGAGAGATAAGATCTGCGGTT-TT-AATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGAT-TG-GGTTCTTCTGTCT
* * * * * *
11115559 ACTCCACTGTAATTTTAGGGAGATAGGATTGGCTTCTTCTGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGGTTCTTCTGTCT
*
11115603 GCTCCACTGTAACTTCAGGGAGATAA
1 GCTCCACTGCAACTTCAGGGAGATAA
11115629 AACTGGATGC
Statistics
Matches: 394, Mismatches: 107, Indels: 78
0.68 0.18 0.13
Matches are distributed among these distances:
40 7 0.02
41 109 0.28
42 45 0.11
43 19 0.05
44 208 0.53
45 6 0.02
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATTGGGTTCTTCTGTCT
Found at i:11127082 original size:106 final size:105
Alignment explanation
Indices: 11126942--11127262 Score: 543
Period size: 106 Copynumber: 3.0 Consensus size: 105
11126932 TGGATTAAAA
11126942 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTT
* *
11127007 TCTCGAATATACAAACGCAAAATATTGTCTTGCTTTGAAAT
66 TCTCGAATTTCCAAACGCAAAATATTG-CTTGCTTTGAAAT
* * * *
11127048 TTTAAAATGATATTTGGCTATTTGGTCAAACGAGAAATCGAAACACAGCACGTTAGGACACGTTT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTT
11127113 TCTCGAATTTCCAAACGCAAAATATTGCCTTGCTTTGAAAT
66 TCTCGAATTTCCAAACGCAAAATATTG-CTTGCTTTGAAAT
11127154 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTT
* *
11127219 TCTCGATTTTCCAAACGCAAAATATTGCATTACTTTGAAAT
66 TCTCGAATTTCCAAACGCAAAATATTGC-TTGCTTTGAAAT
11127260 TTT
1 TTT
11127263 TGAATTAGAA
Statistics
Matches: 201, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
105 1 0.00
106 200 1.00
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.31
Consensus pattern (105 bp):
TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTT
TCTCGAATTTCCAAACGCAAAATATTGCTTGCTTTGAAAT
Found at i:11132497 original size:45 final size:45
Alignment explanation
Indices: 11132433--11132519 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
11132423 AAAACGATAT
11132433 GCATAAAAAAATAATTTTATTTGTACATATTGATTAGAAGATAAG
1 GCATAAAAAAATAATTTTATTTGTACATATTGATTAGAAGATAAG
** * * *
11132478 GCATAAAATGATAATTTTATTTGTCCCTATTTATTAGAAGAT
1 GCATAAAAAAATAATTTTATTTGTACATATTGATTAGAAGAT
11132520 TTAATTTGTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.39
Consensus pattern (45 bp):
GCATAAAAAAATAATTTTATTTGTACATATTGATTAGAAGATAAG
Found at i:11133048 original size:30 final size:30
Alignment explanation
Indices: 11133012--11133093 Score: 137
Period size: 30 Copynumber: 2.7 Consensus size: 30
11133002 AATATCTCGG
11133012 TACCCATATCTTTGACTTTCCAATATTTGA
1 TACCCATATCTTTGACTTTCCAATATTTGA
* *
11133042 TACCCATATCTTTGACTTTCTATTATTTGA
1 TACCCATATCTTTGACTTTCCAATATTTGA
*
11133072 TACCCATATCTTTGATTTTCCA
1 TACCCATATCTTTGACTTTCCA
11133094 TAAATATGGA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.24, C:0.23, G:0.06, T:0.46
Consensus pattern (30 bp):
TACCCATATCTTTGACTTTCCAATATTTGA
Found at i:11133055 original size:15 final size:15
Alignment explanation
Indices: 11133012--11133087 Score: 57
Period size: 15 Copynumber: 5.1 Consensus size: 15
11133002 AATATCTCGG
11133012 TACCCATATCTTTGA
1 TACCCATATCTTTGA
** *
11133027 CTTTCCA-ATATTTGA
1 -TACCCATATCTTTGA
11133042 TACCCATATCTTTGA
1 TACCCATATCTTTGA
** * *
11133057 CTTTCTAT-TATTTGA
1 -TACCCATATCTTTGA
11133072 TACCCATATCTTTGA
1 TACCCATATCTTTGA
11133087 T
1 T
11133088 TTTCCATAAA
Statistics
Matches: 43, Mismatches: 14, Indels: 7
0.67 0.22 0.11
Matches are distributed among these distances:
14 8 0.19
15 27 0.63
16 8 0.19
ACGTcount: A:0.25, C:0.22, G:0.07, T:0.46
Consensus pattern (15 bp):
TACCCATATCTTTGA
Found at i:11142318 original size:17 final size:17
Alignment explanation
Indices: 11142296--11142334 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
11142286 TATAATTAAT
11142296 TTTAAAAGTTTAATATA
1 TTTAAAAGTTTAATATA
*
11142313 TTTAAAATTTTAATATA
1 TTTAAAAGTTTAATATA
*
11142330 CTTAA
1 TTTAA
11142335 TATATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (17 bp):
TTTAAAAGTTTAATATA
Found at i:11142473 original size:17 final size:18
Alignment explanation
Indices: 11142448--11142481 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11142438 ATTTTAAATT
*
11142448 TTAATATATTTTAAAAAA
1 TTAATATATATTAAAAAA
11142466 TTAA-ATATATTAAAAA
1 TTAATATATATTAAAAA
11142482 TTGTTAAGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TTAATATATATTAAAAAA
Found at i:11142518 original size:61 final size:61
Alignment explanation
Indices: 11142379--11142518 Score: 192
Period size: 60 Copynumber: 2.3 Consensus size: 61
11142369 TCGTAATATA
* * * * * *
11142379 TTTAAAATTTTAAAAAACTTGAAAAAATTAAATATATTAAAAAATATTAGGTATAGCCAAT
1 TTTAAAATTTTAATATATTTGAAAAAATTAAATATATTAAAAAATATTAAGTATAACAAAT
* * *
11142440 TTT-AAATTTTAATATATTTTAAAAAATTAAATATATTAAAAATTGTTAAGTATAACAAAT
1 TTTAAAATTTTAATATATTTGAAAAAATTAAATATATTAAAAAATATTAAGTATAACAAAT
11142500 TTTAAAATTTTAATATATT
1 TTTAAAATTTTAATATATT
11142519 CAATATCTTT
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
60 51 0.74
61 18 0.26
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.41
Consensus pattern (61 bp):
TTTAAAATTTTAATATATTTGAAAAAATTAAATATATTAAAAAATATTAAGTATAACAAAT
Found at i:11142641 original size:16 final size:17
Alignment explanation
Indices: 11142619--11142655 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
11142609 AAAAACACAA
*
11142619 AAAAATTTAAATATATT
1 AAAATTTTAAATATATT
*
11142636 AAAATTTTAAATATGTT
1 AAAATTTTAAATATATT
11142653 AAA
1 AAA
11142656 GAAAATGTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (17 bp):
AAAATTTTAAATATATT
Found at i:11142724 original size:25 final size:25
Alignment explanation
Indices: 11142674--11142724 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
11142664 TGAGTATAAC
* *
11142674 ATATTTTAAAATTTTAATATACTTA
1 ATATATTAAAATTTTAACATACTTA
11142699 ATATATTAAAATTTTGAACATA-TTA
1 ATATATTAAAATTTT-AACATACTTA
11142724 A
1 A
11142725 AAAAATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (25 bp):
ATATATTAAAATTTTAACATACTTA
Found at i:11142754 original size:69 final size:69
Alignment explanation
Indices: 11142628--11142773 Score: 197
Period size: 69 Copynumber: 2.1 Consensus size: 69
11142618 AAAAAATTTA
* * * *
11142628 AATATATTAAAATTTTAAATATGTTAAAGAAAATGTTGAGTATAACATATTTTAAAATTTTAATA
1 AATATATTAAAATTTTAAACATATTAAAGAAAATGTTAAGTATAACATAATTTAAAATTTTAATA
11142693 TACTT
66 T-CTT
* *
11142698 AATATATTAAAATTTTGAACATATTAAA-AAAATTTTAAGTATAACCA-AATTTAAAATTTTAAT
1 AATATATTAAAATTTTAAACATATTAAAGAAAATGTTAAGTATAA-CATAATTTAAAATTTTAAT
*
11142761 ATTTT
65 ATCTT
11142766 AATATATT
1 AATATATT
11142774 TTTTAATAGG
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
68 10 0.15
69 31 0.46
70 27 0.40
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (69 bp):
AATATATTAAAATTTTAAACATATTAAAGAAAATGTTAAGTATAACATAATTTAAAATTTTAATA
TCTT
Found at i:11142953 original size:70 final size:71
Alignment explanation
Indices: 11142868--11143013 Score: 197
Period size: 70 Copynumber: 2.1 Consensus size: 71
11142858 ATATATTTTA
* * * *
11142868 AAAAAATATTGAATATATTAAAAAATT-AAATTGGTTATACTTAACATTTTTTTAATATATTT-A
1 AAAATATATTAAATATATTAAAAAATTAAAATTAGTTATACTTAACA-TTTTCTAATATATTTAA
11142931 ATTTCTT
65 ATTTCTT
** *
11142938 AAAATATATTAAATATATTAAAATTTTAAAATTAGTTATATTTAACATTTTCTAATATATTTAAA
1 AAAATATATTAAATATATTAAAAAATTAAAATTAGTTATACTTAACATTTTCTAATATATTTAAA
*
11143003 TTTTTT
66 TTTCTT
11143009 AAAAT
1 AAAAT
11143014 TTTTAAAATT
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
70 37 0.56
71 29 0.44
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (71 bp):
AAAATATATTAAATATATTAAAAAATTAAAATTAGTTATACTTAACATTTTCTAATATATTTAAA
TTTCTT
Found at i:11142998 original size:19 final size:17
Alignment explanation
Indices: 11142916--11143034 Score: 66
Period size: 19 Copynumber: 6.8 Consensus size: 17
11142906 ACTTAACATT
11142916 TTTTTAATATATTT-AA
1 TTTTTAATATATTTAAA
*
11142932 TTTCTTAAAATATATTAAA
1 TTT-TTAATATAT-TTAAA
* *
11142951 TATATTAAAAT-TTTAAA
1 T-TTTTAATATATTTAAA
* *
11142968 --ATTAGTTATATTTAACA
1 TTTTTA-ATATATTTAA-A
11142985 TTTTCTAATATATTTAAA
1 TTTT-TAATATATTTAAA
* *
11143003 TTTTTTAAAATTTTTAAAA
1 -TTTTTAATATATTT-AAA
*
11143022 TTTTAAATATATT
1 TTTTTAATATATT
11143035 AAGAAAATCT
Statistics
Matches: 80, Mismatches: 11, Indels: 22
0.71 0.10 0.19
Matches are distributed among these distances:
14 4 0.05
15 2 0.03
16 8 0.10
17 14 0.17
18 22 0.28
19 27 0.34
20 3 0.04
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.54
Consensus pattern (17 bp):
TTTTTAATATATTTAAA
Found at i:11143018 original size:18 final size:18
Alignment explanation
Indices: 11142975--11143034 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
11142965 AAAATTAGTT
*
11142975 ATATTTAACATTTTCTAAT
1 ATATTTAA-ATTTTCTAAA
*
11142994 ATATTTAAATTTTTTAAA
1 ATATTTAAATTTTCTAAA
* *
11143012 ATTTTTAAAATTT-TAAA
1 ATATTTAAATTTTCTAAA
11143029 TATATT
1 -ATATT
11143035 AAGAAAATCT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
17 4 0.11
18 23 0.66
19 8 0.23
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (18 bp):
ATATTTAAATTTTCTAAA
Found at i:11143020 original size:70 final size:71
Alignment explanation
Indices: 11142879--11143153 Score: 211
Period size: 71 Copynumber: 3.8 Consensus size: 71
11142869 AAAAATATTG
** * * *
11142879 AATATATTAAAAAATT-AAATTGGTTATACTTAACATTTTTTTAATATATTT-AATTTCTTAAAA
1 AATATATTAAAATTTTAAAATTAGTTATATTTAACATTTTTTTAATATATTTAAATTTTTTAAAA
*
11142942 TATATTA
66 T-TTTTA
*
11142949 AATATATTAAAATTTTAAAATTAGTTATATTTAACA-TTTTCTAATATATTTAAATTTTTTAAAA
1 AATATATTAAAATTTTAAAATTAGTTATATTTAACATTTTTTTAATATATTTAAATTTTTTAAAA
11143013 TTTTTA
66 TTTTTA
* * ** * * * * *** * * *
11143019 AA-ATTTTAAATATATTAAGAAAATCTTTTTGTCTTT-ACCTATTAAAAATATATATTAAGTATA
1 AATATATTAAA-AT-TT--TAAAAT-TAGTTATATTTAACATTTTTTTAATATAT-TTAAATTTT
11143082 TTAAAA-TTTTA
60 TTAAAATTTTTA
** * *
11143093 AATATATTAACCTTTTAAAATTAATTATATTTAACATTTCTTTTAATATATTTAAAATTTT
1 AATATATTAAAATTTTAAAATTAGTTATATTTAACATTT-TTTTAATATATTTAAATTTTT
11143154 AGAAACTTAA
Statistics
Matches: 155, Mismatches: 38, Indels: 23
0.72 0.18 0.11
Matches are distributed among these distances:
69 7 0.05
70 43 0.28
71 46 0.30
72 8 0.05
73 9 0.06
74 24 0.15
75 18 0.12
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (71 bp):
AATATATTAAAATTTTAAAATTAGTTATATTTAACATTTTTTTAATATATTTAAATTTTTTAAAA
TTTTTA
Found at i:11143028 original size:8 final size:9
Alignment explanation
Indices: 11142978--11143025 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
11142968 ATTAGTTATA
*
11142978 TTTAACATT
1 TTTAAAATT
* *
11142987 TTCTAATATA
1 TT-TAAAATT
*
11142997 TTTAAATTT
1 TTTAAAATT
11143006 TTTAAAATT
1 TTTAAAATT
11143015 TTTAAAATT
1 TTTAAAATT
11143024 TT
1 TT
11143026 AAATATATTA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
9 25 0.78
10 7 0.22
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (9 bp):
TTTAAAATT
Found at i:11152047 original size:20 final size:19
Alignment explanation
Indices: 11152018--11152056 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
11152008 ATTTAAAAAA
11152018 TAAATATTATCAAATTTTTT
1 TAAATATTATC-AATTTTTT
*
11152038 TAAATGTTATCAATTTTTT
1 TAAATATTATCAATTTTTT
11152057 AAGTTGCTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (19 bp):
TAAATATTATCAATTTTTT
Found at i:11152605 original size:24 final size:24
Alignment explanation
Indices: 11152571--11152622 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
11152561 TTTCTAGAAG
* **
11152571 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAACATAATAT
*
11152595 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATGAACATAATAT
11152619 ATTT
1 ATTT
11152623 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAACATAATAT
Found at i:11160229 original size:24 final size:24
Alignment explanation
Indices: 11160166--11160217 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
11160156 TTTTTAGAAG
* * *
11160166 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
11160190 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
11160214 ATTT
1 ATTT
11160218 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:11160847 original size:22 final size:23
Alignment explanation
Indices: 11160822--11160864 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
11160812 ATTATGATCT
*
11160822 TTTAA-TTTTATAATATATTTAG
1 TTTAATTTTTATAAAATATTTAG
11160844 TTTAATTTTTATAAAATATTT
1 TTTAATTTTTATAAAATATTT
11160865 GTATAGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTAATTTTTATAAAATATTTAG
Found at i:11163676 original size:12 final size:12
Alignment explanation
Indices: 11163659--11163684 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11163649 GGCTTGACCC
11163659 AAAATTTTGCCT
1 AAAATTTTGCCT
11163671 AAAATTTTGCCT
1 AAAATTTTGCCT
11163683 AA
1 AA
11163685 GCCCGCCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (12 bp):
AAAATTTTGCCT
Found at i:11165013 original size:30 final size:32
Alignment explanation
Indices: 11164977--11165066 Score: 103
Period size: 30 Copynumber: 2.8 Consensus size: 32
11164967 ATAATGAATT
11164977 ATATTTAAATGATTTAATATAATGA-AAATG-
1 ATATTTAAATGATTTAATATAATGATAAATGA
* ** *
11165007 ATATTTAAATAACCTAATATAATGATACATGAA
1 ATATTTAAATGATTTAATATAATGATAAATG-A
* *
11165040 ATATTTAAATGGTTTGATATAATGATA
1 ATATTTAAATGATTTAATATAATGATA
11165067 CATAAAATAT
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
30 22 0.46
31 4 0.08
33 22 0.46
ACGTcount: A:0.48, C:0.03, G:0.10, T:0.39
Consensus pattern (32 bp):
ATATTTAAATGATTTAATATAATGATAAATGA
Found at i:11165049 original size:33 final size:33
Alignment explanation
Indices: 11164931--11165076 Score: 117
Period size: 33 Copynumber: 4.5 Consensus size: 33
11164921 TTTGTAAAAT
*
11164931 TAATGATACATAAAATATTTTAAA-AACTTAA-A
1 TAATGATACATGAAATA-TTTAAATAACTTAATA
* * *
11164963 -AATAATA-ATGAATTATATTTAAATGATTTAATA
1 TAATGATACATGAA--ATATTTAAATAACTTAATA
* *
11164996 TAATGA-AAATG--ATATTTAAATAACCTAATA
1 TAATGATACATGAAATATTTAAATAACTTAATA
*** *
11165026 TAATGATACATGAAATATTTAAATGGTTTGATA
1 TAATGATACATGAAATATTTAAATAACTTAATA
*
11165059 TAATGATACATAAAATAT
1 TAATGATACATGAAATAT
11165077 AAATTAATCA
Statistics
Matches: 90, Mismatches: 15, Indels: 17
0.74 0.12 0.14
Matches are distributed among these distances:
30 26 0.29
31 16 0.18
32 8 0.09
33 33 0.37
34 7 0.08
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.37
Consensus pattern (33 bp):
TAATGATACATGAAATATTTAAATAACTTAATA
Found at i:11165728 original size:20 final size:20
Alignment explanation
Indices: 11165705--11165743 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11165695 CTAAAATATT
11165705 ACAAAAAAATAAAAAAAATC
1 ACAAAAAAATAAAAAAAATC
* * *
11165725 ACAATAATATACAAAAAAT
1 ACAAAAAAATAAAAAAAAT
11165744 TTTAATTACC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.74, C:0.10, G:0.00, T:0.15
Consensus pattern (20 bp):
ACAAAAAAATAAAAAAAATC
Found at i:11166280 original size:32 final size:33
Alignment explanation
Indices: 11166212--11166282 Score: 83
Period size: 35 Copynumber: 2.1 Consensus size: 33
11166202 CGACGGCCCA
* *
11166212 CCCGAAATATGGGAGGGTTCGGGTAAAAATATAGG
1 CCCGAAATATGGGA--GTTCGGGCAAAAAAATAGG
11166247 CCCGAAATATGGGA-TT-GGGCAAAAAAATGAGG
1 CCCGAAATATGGGAGTTCGGGCAAAAAAAT-AGG
11166279 CCCG
1 CCCG
11166283 TTTAAAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
31 10 0.30
32 9 0.27
35 14 0.42
ACGTcount: A:0.35, C:0.15, G:0.32, T:0.17
Consensus pattern (33 bp):
CCCGAAATATGGGAGTTCGGGCAAAAAAATAGG
Found at i:11166389 original size:26 final size:25
Alignment explanation
Indices: 11166360--11166423 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 25
11166350 AATATATATT
11166360 TTTATTTTATTTTAATTTTAAAATA
1 TTTATTTTATTTTAATTTTAAAATA
*
11166385 CTTTAATTTT-TTTTATTTTTAAAATA
1 -TTT-ATTTTATTTTAATTTTAAAATA
*
11166411 TTTTTTTGTATTT
1 TTTATTT-TATTT
11166424 ATTAAAAACC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 3 0.09
25 4 0.12
26 21 0.64
27 5 0.15
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (25 bp):
TTTATTTTATTTTAATTTTAAAATA
Found at i:11166428 original size:22 final size:20
Alignment explanation
Indices: 11166390--11166430 Score: 64
Period size: 20 Copynumber: 1.9 Consensus size: 20
11166380 AAATACTTTA
11166390 ATTTTTTTTATTTTTAAAAT
1 ATTTTTTTTATTTTTAAAAT
11166410 ATTTTTTTGTATTTATTAAAA
1 ATTTTTTT-TATTT-TTAAAA
11166431 ACCGGGCCGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.42
21 5 0.26
22 6 0.32
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
ATTTTTTTTATTTTTAAAAT
Found at i:11167359 original size:14 final size:14
Alignment explanation
Indices: 11167342--11167369 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
11167332 CTCATATTTC
11167342 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
11167356 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
11167370 GATTTCTGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.29, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTCTTTTCTCCA
Found at i:11167360 original size:19 final size:22
Alignment explanation
Indices: 11167322--11167366 Score: 69
Period size: 19 Copynumber: 2.2 Consensus size: 22
11167312 TACGGTACGC
11167322 TTCTTTTCTTCTCATATTTCTT
1 TTCTTTTCTTCTCATATTTCTT
11167344 TTCTTTTC-TC-CAT-TTTCTT
1 TTCTTTTCTTCTCATATTTCTT
11167363 TTCT
1 TTCT
11167367 CCAGATTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 10 0.43
20 3 0.13
21 2 0.09
22 8 0.35
ACGTcount: A:0.07, C:0.24, G:0.00, T:0.69
Consensus pattern (22 bp):
TTCTTTTCTTCTCATATTTCTT
Found at i:11170205 original size:56 final size:56
Alignment explanation
Indices: 11170138--11170261 Score: 135
Period size: 56 Copynumber: 2.2 Consensus size: 56
11170128 ATATGTTATG
* * * *
11170138 ATTTTAGTAAATTCATA-TAAGAATAATTATATTAAGAATTTTATTAAATTATATATT
1 ATTTTATTAAATT-ATATTAAGAATAATTATATTAA-AATATGATTAAAATATATATT
* * *
11170195 -TTTTATTAAATTATATTTAATAATAATTATGTTAAAATATGATTAAAATATCTATT
1 ATTTTATTAAATTATA-TTAAGAATAATTATATTAAAATATGATTAAAATATATATT
11170251 ATTTATATTAA
1 ATTT-TATTAA
11170262 TAATCTTATT
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
55 3 0.05
56 28 0.50
57 19 0.34
58 6 0.11
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (56 bp):
ATTTTATTAAATTATATTAAGAATAATTATATTAAAATATGATTAAAATATATATT
Found at i:11170417 original size:16 final size:16
Alignment explanation
Indices: 11170396--11170448 Score: 97
Period size: 16 Copynumber: 3.3 Consensus size: 16
11170386 CAAGAATACT
11170396 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
11170412 ATTACGTCTCTATTCC
1 ATTACGCCTCTATTCC
11170428 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
11170444 ATTAC
1 ATTAC
11170449 AGCGAACCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.21, C:0.34, G:0.06, T:0.40
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:11173806 original size:36 final size:35
Alignment explanation
Indices: 11173757--11173849 Score: 138
Period size: 36 Copynumber: 2.7 Consensus size: 35
11173747 CTTACATCGG
*
11173757 TGTAAGTCAATATTGATAAGGGACAAATGTTGTGT
1 TGTAAGTCAATATTGATAAGGGACAAATGCTGTGT
11173792 TGTTAAGTCAATATTGATAAGGGACAAATGCTGTGT
1 TG-TAAGTCAATATTGATAAGGGACAAATGCTGTGT
11173828 TGT--G-CAAGTATTGATAAGGGAC
1 TGTAAGTCAA-TATTGATAAGGGAC
11173850 CAACTGAATA
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
32 3 0.05
33 15 0.27
35 3 0.05
36 34 0.62
ACGTcount: A:0.33, C:0.08, G:0.27, T:0.32
Consensus pattern (35 bp):
TGTAAGTCAATATTGATAAGGGACAAATGCTGTGT
Found at i:11173914 original size:20 final size:20
Alignment explanation
Indices: 11173886--11174000 Score: 70
Period size: 21 Copynumber: 5.7 Consensus size: 20
11173876 GTTGGAGTTT
*
11173886 GAATCGATTTAAATAAGAAA
1 GAATCGATTTAAACAAGAAA
* * * *
11173906 GAATTGATTCAAACAATAAT
1 GAATCGATTTAAACAAGAAA
** * *
11173926 G-ATTTAATTAAAGAAGCAAA
1 GAATCGATTTAAACAAG-AAA
*
11173946 GAATCGATTTAAAACAACAAA
1 GAATCGATTT-AAACAAGAAA
* * *
11173967 CAATCGATTCAAATAAGTAAA
1 GAATCGATTTAAACAAG-AAA
*
11173988 GAATCAATTTAAA
1 GAATCGATTTAAA
11174001 ACAACAAATA
Statistics
Matches: 68, Mismatches: 23, Indels: 7
0.69 0.23 0.07
Matches are distributed among these distances:
19 10 0.15
20 24 0.35
21 29 0.43
22 5 0.07
ACGTcount: A:0.54, C:0.10, G:0.11, T:0.25
Consensus pattern (20 bp):
GAATCGATTTAAACAAGAAA
Found at i:11174196 original size:20 final size:20
Alignment explanation
Indices: 11174171--11174302 Score: 106
Period size: 20 Copynumber: 6.5 Consensus size: 20
11174161 GTTAGAGTTT
11174171 GAATCGAGTT-AAACAACAAA
1 GAATCGA-TTAAAACAACAAA
* * * *
11174191 GAATCGATTCAAATAATAAT
1 GAATCGATTAAAACAACAAA
* *
11174211 GAATTGATTAAAGA-AGCAAA
1 GAATCGATTAAA-ACAACAAA
11174231 GAATCGATTTAAAACAACAAA
1 GAATCGA-TTAAAACAACAAA
* **
11174252 TAATCGATTAAAGTAAGCAAA
1 GAATCGATTAAAACAA-CAAA
*
11174273 GAATCGATTTAAAACAAAAAA
1 GAATCGA-TTAAAACAACAAA
*
11174294 AAATCGATT
1 GAATCGATT
11174303 CAAAGATGAA
Statistics
Matches: 88, Mismatches: 18, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
19 2 0.02
20 43 0.49
21 36 0.41
22 7 0.08
ACGTcount: A:0.55, C:0.11, G:0.13, T:0.22
Consensus pattern (20 bp):
GAATCGATTAAAACAACAAA
Found at i:11174251 original size:21 final size:21
Alignment explanation
Indices: 11174171--11174335 Score: 108
Period size: 21 Copynumber: 8.0 Consensus size: 21
11174161 GTTAGAGTTT
*
11174171 GAATCGAGTT-AAACAACAAA
1 GAATCGATTTAAAACAACAAA
* * * *
11174191 GAATCGA-TTCAAATAATAAT
1 GAATCGATTTAAAACAACAAA
* *
11174211 GAATTGA-TTAAAGA-AGCAAA
1 GAATCGATTTAAA-ACAACAAA
11174231 GAATCGATTTAAAACAACAAA
1 GAATCGATTTAAAACAACAAA
* **
11174252 TAATCGA-TTAAAGTAAGCAAA
1 GAATCGATTTAAAACAA-CAAA
*
11174273 GAATCGATTTAAAACAAAAAA
1 GAATCGATTTAAAACAACAAA
* * **
11174294 AAATCGATTCAAAGATGA-AAA
1 GAATCGATTTAAA-ACAACAAA
**
11174315 GAATTAATTTAAAACAACAAA
1 GAATCGATTTAAAACAACAAA
11174336 CAAACCTAAC
Statistics
Matches: 110, Mismatches: 27, Indels: 15
0.72 0.18 0.10
Matches are distributed among these distances:
19 2 0.02
20 43 0.39
21 56 0.51
22 9 0.08
ACGTcount: A:0.56, C:0.10, G:0.12, T:0.21
Consensus pattern (21 bp):
GAATCGATTTAAAACAACAAA
Found at i:11174278 original size:42 final size:41
Alignment explanation
Indices: 11174172--11174335 Score: 170
Period size: 42 Copynumber: 4.0 Consensus size: 41
11174162 TTAGAGTTTG
* * * * **
11174172 AATCGAGTTAAACAA-CAAAGAATCGA-TTCAAATAATAATG
1 AATCGA-TTAAAGAAGCAAAGAATCGATTTAAAACAACAAAA
* *
11174212 AATTGATTAAAGAAGCAAAGAATCGATTTAAAACAACAAAT
1 AATCGATTAAAGAAGCAAAGAATCGATTTAAAACAACAAAA
*
11174253 AATCGATTAAAGTAAGCAAAGAATCGATTTAAAACAAAAAAA
1 AATCGATTAAAG-AAGCAAAGAATCGATTTAAAACAACAAAA
* * **
11174295 AATCGATTCAAAGATGAAAAGAATTAATTTAAAACAACAAA
1 AATCGATT-AAAGAAGCAAAGAATCGATTTAAAACAACAAA
11174336 CAAACCTAAC
Statistics
Matches: 105, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 7 0.07
40 16 0.15
41 20 0.19
42 58 0.55
43 4 0.04
ACGTcount: A:0.57, C:0.10, G:0.12, T:0.21
Consensus pattern (41 bp):
AATCGATTAAAGAAGCAAAGAATCGATTTAAAACAACAAAA
Found at i:11174588 original size:47 final size:47
Alignment explanation
Indices: 11174527--11174644 Score: 137
Period size: 47 Copynumber: 2.5 Consensus size: 47
11174517 AGTCATTACC
*
11174527 TGGTTTTCCATTTCAACAACAACAACAATACCAACTATTACATAAAA
1 TGGTTTTCCATTTCAACAACAACAACAATACCAACTATAACATAAAA
* * * * * * **
11174574 TGGTTTTCCATTTCAATAAAAATAACAGTACTAGCTATAACATAACC
1 TGGTTTTCCATTTCAACAACAACAACAATACCAACTATAACATAAAA
* *
11174621 TGGTTTTTCATTTAAACAACAACA
1 TGGTTTTCCATTTCAACAACAACA
11174645 CTATTACAAA
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (47 bp):
TGGTTTTCCATTTCAACAACAACAACAATACCAACTATAACATAAAA
Found at i:11174955 original size:12 final size:11
Alignment explanation
Indices: 11174916--11174954 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
11174906 ACATCTCAAT
11174916 TTTTTCTCTTC
1 TTTTTCTCTTC
*
11174927 TTTTTCTTATTC
1 TTTTTC-TCTTC
11174939 TTTTTCTCTTC
1 TTTTTCTCTTC
11174950 TTTTT
1 TTTTT
11174955 TTACCGCCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTCTCTTC
Found at i:11175043 original size:21 final size:21
Alignment explanation
Indices: 11175019--11175064 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
11175009 AACTGGCCGA
* * *
11175019 TTAATTACAACAAGGAGTTGG
1 TTAATAACAACAAAGAGTCGG
*
11175040 TTAATAACAGCAAAGAGTCGG
1 TTAATAACAACAAAGAGTCGG
11175061 TTAA
1 TTAA
11175065 ATGCTATGTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.26
Consensus pattern (21 bp):
TTAATAACAACAAAGAGTCGG
Done.