Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 95 of 284
Found at i:31393962 original size:45 final size:44
Alignment explanation
Indices: 31393899--31394290 Score: 187
Period size: 45 Copynumber: 8.4 Consensus size: 44
31393889 AATTTGTTCT
* * *
31393899 ACTGCAACTTTAGAGAGATAAAATTTGCTATCTTCAGTCTGCTCC
1 ACTGCAACTTCAG-GAGATAAGATTTGCTATCTTCAATCTGCTCC
* * *
31393944 ACTGCAACTTCATGGAGATAAGACCGGCAACTTG-TAGCTTTAATCTGCTCC
1 ACTGCAACTTCA-GGAGAT-A-A---G--ATTTGCTATCTTCAATCTGCTCC
* * ** *
31393995 ACTGCAACTTCAGGAAAATGAGATTCACTATCTTCAGTCTGCTCC
1 ACTGCAACTTCAGG-AGATAAGATTTGCTATCTTCAATCTGCTCC
* ** * **
31394040 GCTGCAACTTCAGGGAGATAAG-GCTGGTGGCTTCAATCTGCTCC
1 ACTGCAACTTCA-GGAGATAAGATTTGCTATCTTCAATCTGCTCC
* * **
31394084 AATGCAACTTCAGGAAGATAAGATTTGCCATAATTTGTAACTTTAATCTATTCC
1 ACTGCAACTTCAGG-AGATAAGATTTG-C-T-A----T--CTTCAATCTGCTCC
* * * * *
31394138 ACTGCAACGTCAGGGAAATAAGATTCGCTATCTTCGATTTGCTCC
1 ACTGCAACTTCA-GGAGATAAGATTTGCTATCTTCAATCTGCTCC
* * * * * * *
31394183 ACAGTAACTTTAAGGAGATAAGATCTAC-AACTTCAATCTTCTCC
1 ACTGCAAC-TTCAGGAGATAAGATTTGCTATCTTCAATCTGCTCC
* * * * *
31394227 ACTGCTACTTCAGGGAGATGAGATTTGCTATCCTCAGTCTGCTCT
1 ACTGCAACTTCA-GGAGATAAGATTTGCTATCTTCAATCTGCTCC
*
31394272 GCTGCAACTTCAAGGAGAT
1 ACTGCAACTTC-AGGAGAT
31394291 CAGGCTGGTG
Statistics
Matches: 250, Mismatches: 70, Indels: 54
0.67 0.19 0.14
Matches are distributed among these distances:
43 5 0.02
44 62 0.25
45 100 0.40
46 8 0.03
47 3 0.01
49 1 0.00
50 2 0.01
51 30 0.12
52 5 0.02
53 1 0.00
54 31 0.12
55 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (44 bp):
ACTGCAACTTCAGGAGATAAGATTTGCTATCTTCAATCTGCTCC
Found at i:31394451 original size:232 final size:232
Alignment explanation
Indices: 31393979--31394525 Score: 634
Period size: 232 Copynumber: 2.4 Consensus size: 232
31393969 GGCAACTTGT
* * * ** *
31393979 AGCTTTAATCTGCTCCACTGCAACTTCAGGAAAATGAGATTCACTATCTTCAGTCTGCTCCGCTG
1 AGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATGAGATTTGCTATCCTCAGTCTGCTCCGCTG
* *
31394044 CAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCAATGCAACTTCAGGAAGATAAGATT
66 CAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTGCTCCAATGCAACTTCAGGAAGATAAGATC
* * *
31394109 TGCCATAATTTGTAACTTTAATCTATTCCACTGCAACGTCAGGGAAATAAGATTCGCTATCTTCG
131 TGCCATAATTTGTAACTTTAATATATTCCACTGCAACGTCAAGGAAATAAGATTCGCTATCTTAG
* * *
31394174 ATTTGCTCCACAGTAACTTTAAGGAGATAAGATCTAC
196 ATTTGCTCCACAGCAACTTCAAGGAAATAAGATCTAC
* * * *
31394211 AACTTCAATCTTCTCCACTGCTACTTCAGGGAGATGAGATTTGCTATCCTCAGTCTGCTCTGCTG
1 AGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATGAGATTTGCTATCCTCAGTCTGCTCCGCTG
* * * * * * *
31394276 CAACTTCAAGGAGATCAGGCTGGTGGCTTTAATCTGCTTCACTGTAACTTCAGGAAGATAGGGTC
66 CAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTGCTCCAATGCAACTTCAGGAAGATAAGATC
* * * * *
31394341 TGCCATAATTTGTAGCTTTAATATGTTCCACTGCAACGTCAAGGAAATAAGATTCGTTGTTTTTA
131 TGCCATAATTTGTAACTTTAATATATTCCACTGCAACGTCAAGGAAATAAGATTCGCT-ATCTTA
* * * * **
31394406 G-TTTGCTCCGCTGCGACTTCAGGGAAATAAGA-CTGGT
195 GATTTGCTCCACAGCAACTTCAAGGAAATAAGATCT-AC
* * * * * **
31394443 TGCTTCAATCTGCTCCATTGCAACTTCAGGGAGATAAGATTTG-TCATCTTC-GATCTACTCCAT
1 AGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATGAGATTTGCT-ATCCTCAG-TCTGCTCCGC
*
31394506 TGCAAATTCAAGGAGATAAG
64 TGCAACTTCAAGGAGATAAG
31394526 ATCTACAACT
Statistics
Matches: 262, Mismatches: 49, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
231 4 0.02
232 254 0.97
233 4 0.02
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (232 bp):
AGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATGAGATTTGCTATCCTCAGTCTGCTCCGCTG
CAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTGCTCCAATGCAACTTCAGGAAGATAAGATC
TGCCATAATTTGTAACTTTAATATATTCCACTGCAACGTCAAGGAAATAAGATTCGCTATCTTAG
ATTTGCTCCACAGCAACTTCAAGGAAATAAGATCTAC
Found at i:31394469 original size:44 final size:44
Alignment explanation
Indices: 31394421--31394526 Score: 124
Period size: 45 Copynumber: 2.4 Consensus size: 44
31394411 CTCCGCTGCG
* *
31394421 ACTTCAGGGAAATAAGACTGGT-TGCTTCAATCTGCTCCATTGCA
1 ACTTCAGGGAGATAAGACTGGTAT-CTTCAATCTACTCCATTGCA
* * *
31394465 ACTTCAGGGAGATAAGATTTGTCATCTTCGATCTACTCCATTGCA
1 ACTTCAGGGAGATAAGACTGGT-ATCTTCAATCTACTCCATTGCA
* *
31394510 AATTCAAGGAGATAAGA
1 ACTTCAGGGAGATAAGA
31394527 TCTACAACTT
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
44 19 0.36
45 33 0.62
46 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (44 bp):
ACTTCAGGGAGATAAGACTGGTATCTTCAATCTACTCCATTGCA
Found at i:31401268 original size:8 final size:8
Alignment explanation
Indices: 31401255--31401298 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
31401245 ACTTAAGTAT
31401255 ATAATATA
1 ATAATATA
31401263 ATAATATA
1 ATAATATA
* *
31401271 TTAATTTA
1 ATAATATA
*
31401279 ATAATTTA
1 ATAATATA
*
31401287 ATAATCTA
1 ATAATATA
31401295 ATAA
1 ATAA
31401299 AAGAAATAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (8 bp):
ATAATATA
Found at i:31406610 original size:3 final size:3
Alignment explanation
Indices: 31406604--31406637 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
31406594 ACAACAACAC
31406604 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
31406638 TGCAAATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:31408337 original size:21 final size:20
Alignment explanation
Indices: 31408288--31408342 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
31408278 TGAGAAATTG
* *
31408288 TTAAATTTTATT-TTTGGTCC
1 TTAAA-TTTATTATTTAGTCA
31408308 TTAAATTTATTATTTAGTCA
1 TTAAATTTATTATTTAGTCA
31408328 TTATAATTTATTATT
1 TTA-AATTTATTATT
31408343 AAATTATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 6 0.19
20 14 0.45
21 11 0.35
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.60
Consensus pattern (20 bp):
TTAAATTTATTATTTAGTCA
Found at i:31409713 original size:21 final size:21
Alignment explanation
Indices: 31409687--31409729 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
31409677 AACTCTAGGT
31409687 ATATTAATACCTTTATTATTC
1 ATATTAATACCTTTATTATTC
31409708 ATATTAATACCTTTATTATTC
1 ATATTAATACCTTTATTATTC
31409729 A
1 A
31409730 CTCCATTCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.14, G:0.00, T:0.51
Consensus pattern (21 bp):
ATATTAATACCTTTATTATTC
Found at i:31415793 original size:21 final size:21
Alignment explanation
Indices: 31415735--31415795 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 21
31415725 AGGAACTTTA
31415735 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGT-TTT-AGGCACCTCG
* *
31415758 TGTG-CTGTATCAGGCACCTCG
1 TGTGTC-GTTTTAGGCACCTCG
31415779 TGTGTCGTTTTAGGCAC
1 TGTGTCGTTTTAGGCAC
31415796 TTTATGTGTC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
21 23 0.72
22 3 0.09
23 6 0.19
ACGTcount: A:0.13, C:0.25, G:0.28, T:0.34
Consensus pattern (21 bp):
TGTGTCGTTTTAGGCACCTCG
Found at i:31423807 original size:23 final size:23
Alignment explanation
Indices: 31423739--31423825 Score: 67
Period size: 21 Copynumber: 4.0 Consensus size: 23
31423729 CCTAATCAGT
*
31423739 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* * *
31423761 A-AC-AGCACACGAGGTGTCTG--
1 ATACGA-CACACAAAGTGCCTGAA
* *
31423781 ATACGGCACACAAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
31423804 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
31423826 TCAGTAAAGC
Statistics
Matches: 49, Mismatches: 10, Indels: 11
0.70 0.14 0.16
Matches are distributed among these distances:
20 2 0.04
21 27 0.55
22 1 0.02
23 19 0.39
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:31425121 original size:24 final size:24
Alignment explanation
Indices: 31425094--31425144 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
31425084 CATTCAATTA
31425094 AACCCCTATTTCATCATTTTATTC
1 AACCCCTATTTCATCATTTTATTC
31425118 AACCCCTATTTCATCATTTTATTC
1 AACCCCTATTTCATCATTTTATTC
31425142 AAC
1 AAC
31425145 ATAGACTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.27, C:0.29, G:0.00, T:0.43
Consensus pattern (24 bp):
AACCCCTATTTCATCATTTTATTC
Found at i:31434518 original size:20 final size:22
Alignment explanation
Indices: 31434472--31434529 Score: 68
Period size: 20 Copynumber: 2.8 Consensus size: 22
31434462 TAATTTTTCA
*
31434472 TAAAATT-AATAAAAAAATATT
1 TAAAATTCTATAAAAAAATATT
* *
31434493 TAAAATTTTATAAAAACATA-T
1 TAAAATTCTATAAAAAAATATT
31434514 T-AAATTCTATAAAAAA
1 TAAAATTCTATAAAAAA
31434530 TCATAAAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 13 0.41
21 9 0.28
22 10 0.31
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (22 bp):
TAAAATTCTATAAAAAAATATT
Found at i:31435140 original size:16 final size:18
Alignment explanation
Indices: 31435115--31435151 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
31435105 TATATTAATC
31435115 TTAATATTTT-T-ATTTT
1 TTAATATTTTATAATTTT
*
31435131 TTAATTTTTTATAATTTT
1 TTAATATTTTATAATTTT
31435149 TTA
1 TTA
31435152 TAGAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 9 0.50
17 1 0.06
18 8 0.44
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (18 bp):
TTAATATTTTATAATTTT
Found at i:31437948 original size:16 final size:16
Alignment explanation
Indices: 31437927--31437961 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
31437917 GACCAAGTGC
31437927 TATTGATACCTGAACT
1 TATTGATACCTGAACT
31437943 TATTGATACCTGAACT
1 TATTGATACCTGAACT
31437959 TAT
1 TAT
31437962 GGCAGGTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.40
Consensus pattern (16 bp):
TATTGATACCTGAACT
Found at i:31448253 original size:14 final size:15
Alignment explanation
Indices: 31448226--31448267 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
31448216 TAAGCAAGCC
*
31448226 TATTAATTATAATT-
1 TATTAATTAAAATTA
*
31448240 TATTAATAAAAATTA
1 TATTAATTAAAATTA
*
31448255 TCTTAATTAAAAT
1 TATTAATTAAAAT
31448268 ATTTCAATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
TATTAATTAAAATTA
Found at i:31448588 original size:17 final size:17
Alignment explanation
Indices: 31448566--31448598 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
31448556 TTTACAAAAT
31448566 TATCTCTCTATAATAAC
1 TATCTCTCTATAATAAC
31448583 TATCTCTCTATAATAA
1 TATCTCTCTATAATAA
31448599 GTAAAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.42
Consensus pattern (17 bp):
TATCTCTCTATAATAAC
Found at i:31458462 original size:41 final size:42
Alignment explanation
Indices: 31458417--31458495 Score: 99
Period size: 41 Copynumber: 1.9 Consensus size: 42
31458407 TGCAGGGGAC
* *
31458417 ACACGATCT-ATCAACATGCCTGTGTG-CAAGCCGTGTGTCTT
1 ACACGATCTGATC-ACATGCCCGTATGACAAGCCGTGTGTCTT
* *
31458458 ACACGGTCTGATCACATGCCCGTATGACATGCCGTGTG
1 ACACGATCTGATCACATGCCCGTATGACAAGCCGTGTG
31458496 GACTCAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
41 19 0.59
42 13 0.41
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.27
Consensus pattern (42 bp):
ACACGATCTGATCACATGCCCGTATGACAAGCCGTGTGTCTT
Found at i:31459691 original size:15 final size:15
Alignment explanation
Indices: 31459671--31459732 Score: 52
Period size: 15 Copynumber: 3.9 Consensus size: 15
31459661 AAACCCTATT
*
31459671 TTTCCTTTCTTTTTC
1 TTTCCTTTCTATTTC
31459686 TTTCCTTTCTATTTC
1 TTTCCTTTCTATTTC
* * *
31459701 GTTTTCATTCTCTGTTC
1 -TTTCCTTTCTAT-TTC
*
31459718 TTTCTTTTTCTATTT
1 TTTC-CTTTCTATTT
31459733 TGTTTCTTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
15 14 0.39
16 14 0.39
17 8 0.22
ACGTcount: A:0.05, C:0.23, G:0.03, T:0.69
Consensus pattern (15 bp):
TTTCCTTTCTATTTC
Found at i:31459772 original size:8 final size:8
Alignment explanation
Indices: 31459759--31459797 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
31459749 TTTAACTATT
31459759 TTATTATA
1 TTATTATA
31459767 TTATTATA
1 TTATTATA
* *
31459775 ATAATATA
1 TTATTATA
31459783 TTATTATA
1 TTATTATA
31459791 TATATTA
1 T-TATTA
31459798 AATATCTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
8 21 0.81
9 5 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (8 bp):
TTATTATA
Found at i:31465046 original size:33 final size:33
Alignment explanation
Indices: 31465008--31465074 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
31464998 TTTCAGAGAT
31465008 AGACTGATTTATTGAACTAATATTGTCCATTTA
1 AGACTGATTTATTGAACTAATATTGTCCATTTA
31465041 AGACTGATTTATTGAACTAATATTGTCCATTTA
1 AGACTGATTTATTGAACTAATATTGTCCATTTA
31465074 A
1 A
31465075 TTAATTTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (33 bp):
AGACTGATTTATTGAACTAATATTGTCCATTTA
Found at i:31465508 original size:21 final size:21
Alignment explanation
Indices: 31465475--31465518 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
31465465 TTCTTATTTA
*
31465475 TTTTCCTCTCTTCTCATTTTC
1 TTTTCCTCCCTTCTCATTTTC
* *
31465496 TTTTTCTCCCTTCTCCTTTTC
1 TTTTCCTCCCTTCTCATTTTC
31465517 TT
1 TT
31465519 CAAAATCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTCCTCCCTTCTCATTTTC
Found at i:31467248 original size:80 final size:81
Alignment explanation
Indices: 31467109--31467257 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 81
31467099 TTTGTTTACC
* *
31467109 TTATACATTAAAATATTAAATCCATGGATATATGAGTTAACTATATGATCTTTTGTATCCTTATA
1 TTATACATTAAAATATGAAATCCATGGATATATGAGTTAACTATATGATATTTTGTATCCTTATA
31467174 TTAAGGACAATTAATT
66 TTAAGGACAATTAATT
* * * * *
31467190 TTATA-ATTAAGATATGCAATCCATGGATATGTGAGTTGA-TTTAGTGATATTTTGTATCCTTAT
1 TTATACATTAAAATATGAAATCCATGGATATATGAGTTAACTATA-TGATATTTTGTATCCTTAT
*
31467253 GTTAA
65 ATTAA
31467258 TGATGATTGA
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
79 3 0.05
80 51 0.86
81 5 0.08
ACGTcount: A:0.35, C:0.09, G:0.13, T:0.43
Consensus pattern (81 bp):
TTATACATTAAAATATGAAATCCATGGATATATGAGTTAACTATATGATATTTTGTATCCTTATA
TTAAGGACAATTAATT
Found at i:31476203 original size:13 final size:13
Alignment explanation
Indices: 31476184--31476217 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
31476174 CCTCTTTGTC
31476184 TTTATTTTATTT-
1 TTTATTTTATTTG
31476196 TATTATTTTATTTG
1 T-TTATTTTATTTG
31476210 TTTATTTT
1 TTTATTTT
31476218 TTTATTCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 1 0.05
13 18 0.90
14 1 0.05
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (13 bp):
TTTATTTTATTTG
Found at i:31476232 original size:22 final size:21
Alignment explanation
Indices: 31476189--31476236 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
31476179 TTGTCTTTAT
*
31476189 TTTATTTTATTATTTTATTTG
1 TTTATTTTATTATTTTAATTG
*
31476210 TTTATTTTTTTATTCTTAATTG
1 TTTATTTTATTATT-TTAATTG
31476232 TTTAT
1 TTTAT
31476237 CATTTATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.75
Consensus pattern (21 bp):
TTTATTTTATTATTTTAATTG
Found at i:31476309 original size:22 final size:22
Alignment explanation
Indices: 31476284--31476337 Score: 108
Period size: 22 Copynumber: 2.5 Consensus size: 22
31476274 TTATCTACTT
31476284 GTTTTCTTTTGCTTTGATTTTA
1 GTTTTCTTTTGCTTTGATTTTA
31476306 GTTTTCTTTTGCTTTGATTTTA
1 GTTTTCTTTTGCTTTGATTTTA
31476328 GTTTTCTTTT
1 GTTTTCTTTT
31476338 CAATTCTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.07, C:0.09, G:0.13, T:0.70
Consensus pattern (22 bp):
GTTTTCTTTTGCTTTGATTTTA
Found at i:31478023 original size:26 final size:25
Alignment explanation
Indices: 31477993--31478059 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 25
31477983 TGTTTTATTT
31477993 TTATTTTTATTTTTATCGTCTTAG-AC
1 TTATTTTTATTTTTATC-T-TTAGAAC
* *
31478019 TTA-TTTCATTTTTATCTTTTGAAC
1 TTATTTTTATTTTTATCTTTAGAAC
31478043 TATATTTTTATTTTTAT
1 T-TATTTTTATTTTTAT
31478060 AGTTGTTTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
23 3 0.09
24 4 0.11
25 14 0.40
26 14 0.40
ACGTcount: A:0.21, C:0.09, G:0.04, T:0.66
Consensus pattern (25 bp):
TTATTTTTATTTTTATCTTTAGAAC
Found at i:31478277 original size:21 final size:21
Alignment explanation
Indices: 31478233--31478285 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
31478223 TCCCTCTCTT
31478233 ATGATATTATGTTTATACTATG
1 ATGATA-TATGTTTATACTATG
* *
31478255 ATTATATATGTTTGTAC-ATTG
1 ATGATATATGTTTATACTA-TG
31478276 ATGATA-ATGT
1 ATGATATATGT
31478286 ATGATTGAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 5 0.19
21 17 0.63
22 5 0.19
ACGTcount: A:0.32, C:0.04, G:0.15, T:0.49
Consensus pattern (21 bp):
ATGATATATGTTTATACTATG
Found at i:31481185 original size:20 final size:21
Alignment explanation
Indices: 31481151--31481189 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
31481141 TGAGTCTTCA
*
31481151 AAAATAAATAGAAATAAAAGT
1 AAAATAAATAAAAATAAAAGT
31481172 AAAAT-AATAAAAATAAAA
1 AAAATAAATAAAAATAAAA
31481190 CGAGTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (21 bp):
AAAATAAATAAAAATAAAAGT
Found at i:31488274 original size:22 final size:24
Alignment explanation
Indices: 31488236--31488279 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
31488226 AGTATTTTAA
*
31488236 TTTTTAAATCAACATT-CAAAATT
1 TTTTTAAATCAAAATTCCAAAATT
31488259 TTTTTAAAT-AAAATTCCAAAA
1 TTTTTAAATCAAAATTCCAAAA
31488280 CATAAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (24 bp):
TTTTTAAATCAAAATTCCAAAATT
Found at i:31490557 original size:9 final size:9
Alignment explanation
Indices: 31490539--31490587 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
31490529 TTACAAGAAT
*
31490539 GATGATGAC
1 GATGAGGAC
*
31490548 GATGAAGAC
1 GATGAGGAC
*
31490557 GATGAGGAT
1 GATGAGGAC
31490566 GATGAGGAC
1 GATGAGGAC
*
31490575 GATGAGGAT
1 GATGAGGAC
31490584 GATG
1 GATG
31490588 TTTCTTTGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.35, C:0.06, G:0.41, T:0.18
Consensus pattern (9 bp):
GATGAGGAC
Found at i:31490569 original size:18 final size:18
Alignment explanation
Indices: 31490548--31490587 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
31490538 TGATGATGAC
31490548 GATGAAGACGATGAGGAT
1 GATGAAGACGATGAGGAT
*
31490566 GATGAGGACGATGAGGAT
1 GATGAAGACGATGAGGAT
31490584 GATG
1 GATG
31490588 TTTCTTTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.35, C:0.05, G:0.42, T:0.17
Consensus pattern (18 bp):
GATGAAGACGATGAGGAT
Found at i:31490806 original size:22 final size:22
Alignment explanation
Indices: 31490788--31490834 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
31490778 GTTTTTTTGT
**
31490788 GCTGTTTTGTTGCTATTTTGGA
1 GCTGTTTTGGAGCTATTTTGGA
*
31490810 GCTGTTTTGGAGCTATTTTGAA
1 GCTGTTTTGGAGCTATTTTGGA
31490832 GCT
1 GCT
31490835 ATCTTGGTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.13, C:0.11, G:0.28, T:0.49
Consensus pattern (22 bp):
GCTGTTTTGGAGCTATTTTGGA
Found at i:31490819 original size:11 final size:11
Alignment explanation
Indices: 31490799--31490841 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
31490789 CTGTTTTGTT
31490799 GCTATTTTGGA
1 GCTATTTTGGA
*
31490810 GCTGTTTTGGA
1 GCTATTTTGGA
*
31490821 GCTATTTTGAA
1 GCTATTTTGGA
*
31490832 GCTATCTTGG
1 GCTATTTTGG
31490842 TGTTGTTTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.16, C:0.12, G:0.28, T:0.44
Consensus pattern (11 bp):
GCTATTTTGGA
Found at i:31491471 original size:26 final size:25
Alignment explanation
Indices: 31491442--31491501 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
31491432 TTAAAAGTTT
31491442 ATAAAAATAGGGATAAATATATAAAA
1 ATAAAAATAGGGA-AAATATATAAAA
* * *
31491468 ATAAAATATATGTAAAATATCTAAAA
1 ATAAAA-ATAGGGAAAATATATAAAA
31491494 ATATAAAA
1 ATA-AAAA
31491502 AAAATTATCA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 21 0.72
27 8 0.28
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.27
Consensus pattern (25 bp):
ATAAAAATAGGGAAAATATATAAAA
Found at i:31494045 original size:22 final size:22
Alignment explanation
Indices: 31494020--31494061 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
31494010 TAAGATAATT
31494020 TTAAAAAACAAAT-AATAAAATC
1 TTAAAAAA-AAATGAATAAAATC
*
31494042 TTAAATAAAAATGAATAAAA
1 TTAAAAAAAAATGAATAAAA
31494062 GCATAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (22 bp):
TTAAAAAAAAATGAATAAAATC
Found at i:31494068 original size:22 final size:21
Alignment explanation
Indices: 31494029--31494071 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
31494019 TTTAAAAAAC
* *
31494029 AAATAATAAAATCTTAAATAA
1 AAATAATAAAAGCATAAATAA
31494050 AAATGAATAAAAGCATAAATAA
1 AAAT-AATAAAAGCATAAATAA
31494072 GTAAATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (21 bp):
AAATAATAAAAGCATAAATAA
Found at i:31497462 original size:15 final size:14
Alignment explanation
Indices: 31497438--31497468 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
31497428 TCTTATTGTT
31497438 AAAAAAATCGAAAA
1 AAAAAAATCGAAAA
31497452 AAAAGAAATCGAAAA
1 AAAA-AAATCGAAAA
31497467 AA
1 AA
31497469 TATATATTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.77, C:0.06, G:0.10, T:0.06
Consensus pattern (14 bp):
AAAAAAATCGAAAA
Found at i:31498005 original size:15 final size:15
Alignment explanation
Indices: 31497985--31498016 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
31497975 CAATGCATGA
31497985 TTATTTATGGATTAT
1 TTATTTATGGATTAT
31498000 TTATTTATGGATTAT
1 TTATTTATGGATTAT
31498015 TT
1 TT
31498017 TGAGACATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.12, T:0.62
Consensus pattern (15 bp):
TTATTTATGGATTAT
Found at i:31503248 original size:4 final size:4
Alignment explanation
Indices: 31503241--31503268 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
31503231 GACAAAGGAA
31503241 GGAG GGAG GGAG GGAG GGAG GGAG GGAG
1 GGAG GGAG GGAG GGAG GGAG GGAG GGAG
31503269 AGAGAGAGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.75, T:0.00
Consensus pattern (4 bp):
GGAG
Found at i:31506906 original size:25 final size:25
Alignment explanation
Indices: 31506872--31506922 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
31506862 ATAAATTTCG
31506872 TACTTTAATTTTCAACGCTTAACTT
1 TACTTTAATTTTCAACGCTTAACTT
*
31506897 TACTTTAATTTTCAATGCTTAACTT
1 TACTTTAATTTTCAACGCTTAACTT
31506922 T
1 T
31506923 TTAGTTTATC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.27, C:0.18, G:0.04, T:0.51
Consensus pattern (25 bp):
TACTTTAATTTTCAACGCTTAACTT
Found at i:31509312 original size:24 final size:24
Alignment explanation
Indices: 31509274--31509321 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
31509264 TACTTAGTAG
*
31509274 TATGTTGAGTAGTATTACGTTCCC
1 TATGTTGAATAGTATTACGTTCCC
*
31509298 TATGTTGAATCGTATTACGTTCCC
1 TATGTTGAATAGTATTACGTTCCC
31509322 GCAATCTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.42
Consensus pattern (24 bp):
TATGTTGAATAGTATTACGTTCCC
Found at i:31509702 original size:15 final size:14
Alignment explanation
Indices: 31509650--31509709 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 14
31509640 TCAATAGGTG
31509650 TATCTTTTCATAAGA
1 TATCTTTT-ATAAGA
*
31509665 TA-CTTTTTATATGGA
1 TATC-TTTTATA-AGA
31509680 TGTATCTTTTAATAAGA
1 --TATCTTTT-ATAAGA
31509697 TATCTTTTATAAG
1 TATCTTTTATAAG
31509710 GTTGTAATGT
Statistics
Matches: 37, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
14 9 0.24
15 16 0.43
17 8 0.22
18 4 0.11
ACGTcount: A:0.32, C:0.08, G:0.10, T:0.50
Consensus pattern (14 bp):
TATCTTTTATAAGA
Found at i:31509727 original size:32 final size:32
Alignment explanation
Indices: 31509648--31509715 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 32
31509638 ATTCAATAGG
* *
31509648 TGTATCTTTTCATAAGATACTTTTTATATGGA
1 TGTATCTTTTAATAAGATACTTTTTATAAGGA
*
31509680 TGTATCTTTTAATAAGATA-TCTTTTATAAGGT
1 TGTATCTTTTAATAAGATACT-TTTTATAAGGA
31509712 TGTA
1 TGTA
31509716 ATGTTTTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
31 1 0.03
32 31 0.97
ACGTcount: A:0.29, C:0.07, G:0.13, T:0.50
Consensus pattern (32 bp):
TGTATCTTTTAATAAGATACTTTTTATAAGGA
Found at i:31513649 original size:22 final size:24
Alignment explanation
Indices: 31513621--31513665 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
31513611 TATATATTTC
*
31513621 AAATTTA-A-GCATCAAAATAAAA
1 AAATTTAGAGGCACCAAAATAAAA
31513643 AAATTTAGAGGCACCAAAATAAA
1 AAATTTAGAGGCACCAAAATAAA
31513666 TATAAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
23 1 0.05
24 12 0.60
ACGTcount: A:0.60, C:0.11, G:0.09, T:0.20
Consensus pattern (24 bp):
AAATTTAGAGGCACCAAAATAAAA
Found at i:31517072 original size:24 final size:24
Alignment explanation
Indices: 31517040--31517089 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
31517030 GTCTCAAACA
31517040 TACTCATAAGCAATTGAATACCTT
1 TACTCATAAGCAATTGAATACCTT
31517064 TACTCATAAGCAATTGAATACCTT
1 TACTCATAAGCAATTGAATACCTT
31517088 TA
1 TA
31517090 TTTTCGTGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.34
Consensus pattern (24 bp):
TACTCATAAGCAATTGAATACCTT
Found at i:31520471 original size:14 final size:13
Alignment explanation
Indices: 31520446--31520470 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31520436 GTTTATTTAT
31520446 TTCAATTTTTTTC
1 TTCAATTTTTTTC
31520459 TTCAATTTTTTT
1 TTCAATTTTTTT
31520471 TATCTAACTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (13 bp):
TTCAATTTTTTTC
Found at i:31524864 original size:13 final size:13
Alignment explanation
Indices: 31524846--31524870 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31524836 TGAATCTAAA
31524846 AAGAAGCTGCCAC
1 AAGAAGCTGCCAC
31524859 AAGAAGCTGCCA
1 AAGAAGCTGCCA
31524871 GAAAAGAAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.28, G:0.24, T:0.08
Consensus pattern (13 bp):
AAGAAGCTGCCAC
Found at i:31540849 original size:21 final size:20
Alignment explanation
Indices: 31540823--31540861 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
31540813 TGTGAATTGA
31540823 ATTAAATTGAGTATAAAATGG
1 ATTAAATTGA-TATAAAATGG
*
31540844 ATTAAATTGATATTAAAT
1 ATTAAATTGATATAAAAT
31540862 TTTTTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (20 bp):
ATTAAATTGATATAAAATGG
Found at i:31541536 original size:24 final size:23
Alignment explanation
Indices: 31541488--31541539 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
31541478 AGCCCGGACA
*
31541488 AGCTTCCCAATAGGCTCTTTATG
1 AGCTTCCCAATAGGCTCTATATG
*
31541511 AGCTTCCCGAA-ATGGCTCTATGTG
1 AGCTTCCC-AATA-GGCTCTATATG
31541535 AGCTT
1 AGCTT
31541540 AAGAGAGAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 9 0.36
24 16 0.64
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (23 bp):
AGCTTCCCAATAGGCTCTATATG
Found at i:31542871 original size:26 final size:26
Alignment explanation
Indices: 31542842--31542894 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
31542832 TGCATAAATT
* *
31542842 GGGCATTGAGGGTCTATTCAACGGAC
1 GGGCATCGAGGGTCCATTCAACGGAC
*
31542868 GGGCATCGAGGGTCCATTCAAGGGAC
1 GGGCATCGAGGGTCCATTCAACGGAC
31542894 G
1 G
31542895 ATATGATTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.23, C:0.21, G:0.38, T:0.19
Consensus pattern (26 bp):
GGGCATCGAGGGTCCATTCAACGGAC
Found at i:31545083 original size:17 final size:17
Alignment explanation
Indices: 31545061--31545105 Score: 90
Period size: 17 Copynumber: 2.6 Consensus size: 17
31545051 TGTGATGAAG
31545061 AAGCAATTCTTGTTGTT
1 AAGCAATTCTTGTTGTT
31545078 AAGCAATTCTTGTTGTT
1 AAGCAATTCTTGTTGTT
31545095 AAGCAATTCTT
1 AAGCAATTCTT
31545106 ACTATTTAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.44
Consensus pattern (17 bp):
AAGCAATTCTTGTTGTT
Found at i:31546311 original size:91 final size:91
Alignment explanation
Indices: 31546123--31546334 Score: 239
Period size: 91 Copynumber: 2.3 Consensus size: 91
31546113 GGAGGTTCTT
* * * * *
31546123 ACGTGTTATCAATT-GAAAAGCTTTTATGAGCAATTTGGCGTGTTATCAGGGGAGAATATTTAGC
1 ACGTGTTATCAGTTAG-AAAGCTCTTATGAGAAATTTGGCATGTTACCAGGGGAGAATATTTAGC
* *
31546187 CTACGAGCTTTGTACTATGCACATCTG
65 CTACGAGCTTTGCACTATGCACATCTA
** *
31546214 GTGTGTTATCGGTTAGAAAGCTCTTATGAGAAATTTGGCATGTTACC-GAGGGAGAATATTTAGC
1 ACGTGTTATCAGTTAGAAAGCTCTTATGAGAAATTTGGCATGTTACCAG-GGGAGAATATTTAGC
* * **
31546278 CTATGGGCTTTGCACTATGTGCATCTA
65 CTACGAGCTTTGCACTATGCACATCTA
* *
31546305 ACGTGTTATCAGTTGGAATAACTCTTATGA
1 ACGTGTTATCAGTTAGAA-AGCTCTTATGA
31546335 ACAAACTGGC
Statistics
Matches: 99, Mismatches: 19, Indels: 5
0.80 0.15 0.04
Matches are distributed among these distances:
90 1 0.01
91 87 0.88
92 11 0.11
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (91 bp):
ACGTGTTATCAGTTAGAAAGCTCTTATGAGAAATTTGGCATGTTACCAGGGGAGAATATTTAGCC
TACGAGCTTTGCACTATGCACATCTA
Found at i:31553286 original size:18 final size:17
Alignment explanation
Indices: 31553247--31553288 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
31553237 TAATTTTAAA
*
31553247 ATATATT-TACAAATTC
1 ATATATTATAAAAATTC
*
31553263 AAATATTATAAAAATTAC
1 ATATATTATAAAAATT-C
31553281 ATATATTA
1 ATATATTA
31553289 AACCCCATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 6 0.29
17 7 0.33
18 8 0.38
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATATTATAAAAATTC
Found at i:31553738 original size:18 final size:17
Alignment explanation
Indices: 31553712--31553780 Score: 68
Period size: 18 Copynumber: 3.9 Consensus size: 17
31553702 AAAATTATAA
*
31553712 AAATAAAAATACCAAAAT
1 AAATAAAAAT-CAAAAAT
*
31553730 AAATCAAAATCAAAAAT
1 AAATAAAAATCAAAAAT
*
31553747 AAA-AAAAATAAAAAAGT
1 AAATAAAAATCAAAAA-T
*
31553764 TAATAAAAATTCAAAAA
1 AAATAAAAA-TCAAAAA
31553781 AAAAATAGCA
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
16 10 0.24
17 12 0.29
18 14 0.33
19 6 0.14
ACGTcount: A:0.74, C:0.07, G:0.01, T:0.17
Consensus pattern (17 bp):
AAATAAAAATCAAAAAT
Found at i:31554755 original size:38 final size:41
Alignment explanation
Indices: 31554706--31554785 Score: 105
Period size: 39 Copynumber: 2.0 Consensus size: 41
31554696 TTTATATGTC
*
31554706 AAATCACAAAT-AATTTA-AGATTTATAAAAAT-T-TTCAAA
1 AAATCACAAATAAATTTATA-ATTTAAAAAAATGTCTTCAAA
*
31554744 AAATCATAAATAAATTTATAATTTAAAAAAATGTCTTCAAA
1 AAATCACAAATAAATTTATAATTTAAAAAAATGTCTTCAAA
31554785 A
1 A
31554786 TTAAAAATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
38 10 0.28
39 17 0.47
40 2 0.06
41 7 0.19
ACGTcount: A:0.56, C:0.07, G:0.03, T:0.34
Consensus pattern (41 bp):
AAATCACAAATAAATTTATAATTTAAAAAAATGTCTTCAAA
Found at i:31556072 original size:21 final size:21
Alignment explanation
Indices: 31556033--31556072 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
31556023 AATGTTTAAG
* *
31556033 ATTTTGAATGATTGTTGATGA
1 ATTTTGAAAGATTGATGATGA
*
31556054 ATTTTGAAAGCTTGATGAT
1 ATTTTGAAAGATTGATGAT
31556073 AGATTATAAT
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:0.30, C:0.03, G:0.23, T:0.45
Consensus pattern (21 bp):
ATTTTGAAAGATTGATGATGA
Found at i:31556696 original size:43 final size:43
Alignment explanation
Indices: 31556648--31556815 Score: 146
Period size: 43 Copynumber: 4.0 Consensus size: 43
31556638 TATCGAGTTG
* *
31556648 TGATTACATGTAAGACCATGTTTGGGACATTGGCATTGTATTA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTA
* * *
31556691 TGATTACGTGTAAGACCATGTCAGGGGCATTGGCATCGTA-TA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTA
* * * * * * *
31556733 TTGATT-CGTTTAAGACCCTGTTTGGGATAGTGGCATCG-ATATG
1 -TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT-TA
* * * *
31556776 TGATAACATGTAAGACCATATCTGGGATA-TGGCATTGTAT
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
31556816 GAGCTTATGT
Statistics
Matches: 100, Mismatches: 20, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
41 1 0.01
42 38 0.38
43 61 0.61
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.34
Consensus pattern (43 bp):
TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTA
Found at i:31556767 original size:42 final size:44
Alignment explanation
Indices: 31556648--31556794 Score: 158
Period size: 43 Copynumber: 3.4 Consensus size: 44
31556638 TATCGAGTTG
* *
31556648 TGATTACATGTAAGACCATGTTTGGGACATTGGCATTGTAT-TA
1 TGATTACGTGTAAGACCATGTTTGGGACATTGGCATCGTATATA
** *
31556691 TGATTACGTGTAAGACCATGTCAGGGGCATTGGCATCGTATAT-
1 TGATTACGTGTAAGACCATGTTTGGGACATTGGCATCGTATATA
* * * * *
31556734 TGATT-CGTTTAAGACCCTGTTTGGGATAGTGGCATCG-ATATG
1 TGATTACGTGTAAGACCATGTTTGGGACATTGGCATCGTATATA
* *
31556776 TGATAACATGTAAGACCAT
1 TGATTACGTGTAAGACCAT
31556795 ATCTGGGATA
Statistics
Matches: 85, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
41 4 0.05
42 29 0.34
43 51 0.60
44 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.33
Consensus pattern (44 bp):
TGATTACGTGTAAGACCATGTTTGGGACATTGGCATCGTATATA
Found at i:31565698 original size:56 final size:56
Alignment explanation
Indices: 31565612--31565719 Score: 198
Period size: 56 Copynumber: 1.9 Consensus size: 56
31565602 ATGAATTCCG
31565612 TGAACCACTTACTCATCATTTAGAAGAAGTCTTGCTTAGCCTCTCCCCTTTGGCTA
1 TGAACCACTTACTCATCATTTAGAAGAAGTCTTGCTTAGCCTCTCCCCTTTGGCTA
* *
31565668 TGAACCTCTTACTCATCATTTAGAAGAAGTCTTGCTTAGCCTGTCCCCTTTG
1 TGAACCACTTACTCATCATTTAGAAGAAGTCTTGCTTAGCCTCTCCCCTTTG
31565720 ACTACTCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (56 bp):
TGAACCACTTACTCATCATTTAGAAGAAGTCTTGCTTAGCCTCTCCCCTTTGGCTA
Found at i:31567658 original size:40 final size:40
Alignment explanation
Indices: 31567574--31567667 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 40
31567564 CTTGTTATCA
* * *
31567574 CACACTTAGTGCCACATATAGCCGAAGCTATTCCAACTCT
1 CACACTAAGTGCCACATATAGCCGAAGCTATTCCAACACG
* * *
31567614 CACACTAAGTGCTATATATAGCCGAAGCTATCTCGAA-ACG
1 CACACTAAGTGCCACATATAGCCGAAGCTAT-TCCAACACG
31567654 CACACTAAGTGCCA
1 CACACTAAGTGCCA
31567668 AACATAATTG
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
40 42 0.91
41 4 0.09
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.22
Consensus pattern (40 bp):
CACACTAAGTGCCACATATAGCCGAAGCTATTCCAACACG
Found at i:31571403 original size:17 final size:17
Alignment explanation
Indices: 31571381--31571415 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
31571371 AACCATGGAA
*
31571381 GATGGAATTTTATGAAG
1 GATGGAATTCTATGAAG
31571398 GATGGAATTCTATGAAG
1 GATGGAATTCTATGAAG
31571415 G
1 G
31571416 CACACTATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.03, G:0.31, T:0.31
Consensus pattern (17 bp):
GATGGAATTCTATGAAG
Found at i:31590095 original size:26 final size:26
Alignment explanation
Indices: 31590066--31590173 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
31590056 TGATACAAAT
31590066 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
31590092 TGATAATGAGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
31590118 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
31590144 TGATAATGGGTTAGATAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
31590170 TGAT
1 TGAT
31590174 TGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:31591931 original size:21 final size:21
Alignment explanation
Indices: 31591905--31591952 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
31591895 ATTCCCCACA
31591905 TGGAGTGTAG-GGCTGGTAGGG
1 TGGAGTGTAGTGGCTGGT-GGG
*
31591926 TGGAGTGTAGTGGTTGGTGGG
1 TGGAGTGTAGTGGCTGGTGGG
*
31591947 TTGAGT
1 TGGAGT
31591953 AGTCTCCCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.12, C:0.02, G:0.54, T:0.31
Consensus pattern (21 bp):
TGGAGTGTAGTGGCTGGTGGG
Found at i:31597142 original size:26 final size:26
Alignment explanation
Indices: 31597113--31597220 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
31597103 TGATACAAAT
*
31597113 TGATAATGGGTTAGCTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
31597139 TGATAATGGGTTAGGTAAACGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
31597165 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
31597191 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
31597217 TGAT
1 TGAT
31597221 TGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.31, C:0.08, G:0.26, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:31611059 original size:16 final size:15
Alignment explanation
Indices: 31611009--31611060 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
31610999 TTATATACTT
*
31611009 ATGAATTGAGTATGGT
1 ATGAATTGAGTAT-GC
* *
31611025 ATGAAATGATGTATTC
1 ATGAATTGA-GTATGC
31611041 ATGAATTGAGTACTGC
1 ATGAATTGAGTA-TGC
31611057 ATGA
1 ATGA
31611061 CTGATACCAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 3 0.10
16 22 0.76
17 4 0.14
ACGTcount: A:0.35, C:0.06, G:0.25, T:0.35
Consensus pattern (15 bp):
ATGAATTGAGTATGC
Found at i:31615000 original size:39 final size:39
Alignment explanation
Indices: 31614847--31614988 Score: 230
Period size: 39 Copynumber: 3.6 Consensus size: 39
31614837 TGTGTGAGAT
* *
31614847 TTATATCTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTGCTGGTG
*
31614886 TTATATCCGGGCTAAGTCCCGAAGGTATTCATGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTGCTGGTG
*
31614925 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTGTTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTGCTGGTG
**
31614964 TTATATCTAGGCTAAGTCCCGAAGG
1 TTATATCCGGGCTAAGTCCCGAAGG
31614989 CTTTTGTGTT
Statistics
Matches: 96, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 96 1.00
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGTATTCGTGCTGGTG
Found at i:31618067 original size:46 final size:46
Alignment explanation
Indices: 31618015--31618103 Score: 178
Period size: 46 Copynumber: 1.9 Consensus size: 46
31618005 ATTTGGGCAT
31618015 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
31618061 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
31618104 GCTCACACTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (46 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:31619929 original size:19 final size:20
Alignment explanation
Indices: 31619907--31619945 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
31619897 TAAAATAGAG
31619907 AAATAAATA-AAAAAAATAA
1 AAATAAATATAAAAAAATAA
* *
31619926 AAATACATATAAAATAATAA
1 AAATAAATATAAAAAAATAA
31619946 CAATGTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (20 bp):
AAATAAATATAAAAAAATAA
Found at i:31628011 original size:92 final size:92
Alignment explanation
Indices: 31627893--31628170 Score: 538
Period size: 92 Copynumber: 3.0 Consensus size: 92
31627883 ATCCTGCCCA
*
31627893 CCCCCATCCACTACACACCTTCTCTGACCATTCCAACATATCATTAAGGGCATTTAATACCCATC
1 CCCCCATCCACTACACACCTTATCTGACCATTCCAACATATCATTAAGGGCATTTAATACCCATC
31627958 CAGCCCTACACACCATATAGTGTCGGT
66 CAGCCCTACACACCATATAGTGTCGGT
31627985 CCCCCATCCACTACACACCTTATCTGACCATTCCAACATATCATTAAGGGCATTTAATACCCATC
1 CCCCCATCCACTACACACCTTATCTGACCATTCCAACATATCATTAAGGGCATTTAATACCCATC
31628050 CAGCCCTACACACCATATAGTGTCGGT
66 CAGCCCTACACACCATATAGTGTCGGT
31628077 CCCCCATCCACTACACACCTTATCTGACCATTCCAACATATCATTAAGGGCATTTAATACCCATC
1 CCCCCATCCACTACACACCTTATCTGACCATTCCAACATATCATTAAGGGCATTTAATACCCATC
*
31628142 CAGCCCTACACACCATATAGTGTTGGT
66 CAGCCCTACACACCATATAGTGTCGGT
31628169 CC
1 CC
31628171 GACACGTACA
Statistics
Matches: 184, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 184 1.00
ACGTcount: A:0.29, C:0.36, G:0.10, T:0.25
Consensus pattern (92 bp):
CCCCCATCCACTACACACCTTATCTGACCATTCCAACATATCATTAAGGGCATTTAATACCCATC
CAGCCCTACACACCATATAGTGTCGGT
Found at i:31631701 original size:12 final size:12
Alignment explanation
Indices: 31631684--31631708 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31631674 TAAATTTCGG
31631684 CCTCGAAATTTA
1 CCTCGAAATTTA
31631696 CCTCGAAATTTA
1 CCTCGAAATTTA
31631708 C
1 C
31631709 TTGACTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (12 bp):
CCTCGAAATTTA
Found at i:31640159 original size:75 final size:75
Alignment explanation
Indices: 31640032--31640183 Score: 277
Period size: 75 Copynumber: 2.0 Consensus size: 75
31640022 ATCCTTTACA
31640032 TAATTCCCATCCAATGCAAATGTAGATTACCGAAGTCAAGAGCATATACACAGTTATTCAGATTC
1 TAATTCCCATCCAATGCAAATGTAGATTACCGAAGTCAAGAGCATATACACAGTTATTCAGATTC
31640097 AATTCATAGT
66 AATTCATAGT
* * *
31640107 TAATTCCCATCGAATGCAAATGTAGATTACCGATGTCAAGAGCATATGCACAGTTATTCAGATTC
1 TAATTCCCATCCAATGCAAATGTAGATTACCGAAGTCAAGAGCATATACACAGTTATTCAGATTC
31640172 AATTCATAGT
66 AATTCATAGT
31640182 TA
1 TA
31640184 GGTGATACGG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.30
Consensus pattern (75 bp):
TAATTCCCATCCAATGCAAATGTAGATTACCGAAGTCAAGAGCATATACACAGTTATTCAGATTC
AATTCATAGT
Found at i:31641096 original size:5 final size:5
Alignment explanation
Indices: 31641081--31641138 Score: 68
Period size: 5 Copynumber: 11.8 Consensus size: 5
31641071 TCCAAGGAAC
*
31641081 AAAAG AGAAG AAAAG AAAAG AAAAG AAAA- AAAATG --AAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA-G AAAAG AAAAG AAAAG
31641129 AAAAAG AAAA
1 -AAAAG AAAA
31641139 ATGAACGAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
3 1 0.02
4 6 0.13
5 34 0.74
6 5 0.11
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (5 bp):
AAAAG
Found at i:31641121 original size:23 final size:23
Alignment explanation
Indices: 31641093--31641165 Score: 83
Period size: 26 Copynumber: 2.9 Consensus size: 23
31641083 AAGAGAAGAA
31641093 AAGAAAAGAAAAGAAAAAAAATG
1 AAGAAAAGAAAAGAAAAAAAATG
31641116 AAGAAAAGAAAAGAAAAAGAAAAATG
1 AAGAAAAGAAAAG--AAA-AAAAATG
*
31641142 AACGAAAGAGAAACGATAAAAAAA
1 AA-GAAA-AGAAAAGA-AAAAAAA
31641166 GAAAGGAAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
23 13 0.30
25 3 0.07
26 15 0.35
27 6 0.14
28 6 0.14
ACGTcount: A:0.75, C:0.03, G:0.18, T:0.04
Consensus pattern (23 bp):
AAGAAAAGAAAAGAAAAAAAATG
Found at i:31641701 original size:132 final size:132
Alignment explanation
Indices: 31641464--31641724 Score: 495
Period size: 132 Copynumber: 2.0 Consensus size: 132
31641454 ACAAAGCCAT
*
31641464 AAATACATAAATTTAATTACTACAGAATCCTAAAATTAAACATTCAAATTTCTAGGGCATTACGA
1 AAATACATAAATTTAATTACTACAGAATCCTAAAATTAAACATTCAAATTTCTAGGGCATTACAA
*
31641529 AGTCATGTCGTGACGAGGAATTCCCTCACGTCACGATGTTGACCCTAAAGGTTTGAAGCATTTCC
66 AGTCATGTCGTGACGAGGAATTCCCTCACGTCACGATGTTGACCCTAAAGGTTTGAAACATTTCC
31641594 AG
131 AG
31641596 AAATACATAAATTTAATTACTACAGAATCCTAAAATTAAACATTCAAATTTCTAGGGCATTACAA
1 AAATACATAAATTTAATTACTACAGAATCCTAAAATTAAACATTCAAATTTCTAGGGCATTACAA
*
31641661 AGTCATGTCGTGACGAGGAATTCCCTCACGTCACGATGTTGACCCTAAAGTTTTGAAACATTTC
66 AGTCATGTCGTGACGAGGAATTCCCTCACGTCACGATGTTGACCCTAAAGGTTTGAAACATTTC
31641725 ATTTTAATCC
Statistics
Matches: 126, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
132 126 1.00
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.30
Consensus pattern (132 bp):
AAATACATAAATTTAATTACTACAGAATCCTAAAATTAAACATTCAAATTTCTAGGGCATTACAA
AGTCATGTCGTGACGAGGAATTCCCTCACGTCACGATGTTGACCCTAAAGGTTTGAAACATTTCC
AG
Found at i:31643944 original size:17 final size:18
Alignment explanation
Indices: 31643914--31643948 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
31643904 ATGTGGCTTA
31643914 CCTGTGTGGGCCCACATG
1 CCTGTGTGGGCCCACATG
31643932 CCTGTGT-GGCCCACATG
1 CCTGTGTGGGCCCACATG
31643949 GCCCAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.11, C:0.34, G:0.31, T:0.23
Consensus pattern (18 bp):
CCTGTGTGGGCCCACATG
Found at i:31649186 original size:27 final size:27
Alignment explanation
Indices: 31649155--31649332 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
31649145 TAAATTGTAC
31649155 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
31649182 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31649208 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
31649236 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
31649264 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31649291 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
31649318 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
31649333 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:31649269 original size:82 final size:81
Alignment explanation
Indices: 31649156--31649311 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
31649146 AAATTGTACA
* *
31649156 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
31649220 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
31649237 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
31649302 TGCGAGTTGA
65 TGCGAATTGA
31649312 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:31649323 original size:82 final size:81
Alignment explanation
Indices: 31649152--31649332 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
31649142 GATTAAATTG
* *
31649152 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
31649217 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
31649233 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
31649297 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
31649315 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
31649333 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:31651514 original size:55 final size:55
Alignment explanation
Indices: 31651438--31651576 Score: 163
Period size: 55 Copynumber: 2.5 Consensus size: 55
31651428 GCGATATGGT
* * * *
31651438 CGTGGTCAAGCCTGCTAAAACAACAC-GGACGTGCGACACACCCGTGTGGAAGAAC
1 CGTGGTCAAACCTGTTAAAACAACACAGG-CGTGCGACACACCCGTGTAGAACAAC
* * * *
31651493 CGTGGGCAAACCTGTTAAAACAGCACAGGCGTTCGACACACCCGTGTAGAACACC
1 CGTGGTCAAACCTGTTAAAACAACACAGGCGTGCGACACACCCGTGTAGAACAAC
* **
31651548 CGTGGTCGAACCTGTTAAATTAACACAGG
1 CGTGGTCAAACCTGTTAAAACAACACAGG
31651577 TGTGGGGCTT
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
55 68 0.97
56 2 0.03
ACGTcount: A:0.31, C:0.28, G:0.25, T:0.16
Consensus pattern (55 bp):
CGTGGTCAAACCTGTTAAAACAACACAGGCGTGCGACACACCCGTGTAGAACAAC
Found at i:31653837 original size:7 final size:7
Alignment explanation
Indices: 31653825--31653857 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
31653815 TCAAACTCCC
31653825 TTTTATT
1 TTTTATT
31653832 TTTTATT
1 TTTTATT
31653839 TATTTA-T
1 T-TTTATT
31653846 TTTTATT
1 TTTTATT
31653853 TTTTA
1 TTTTA
31653858 GCAGATTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 4 0.17
7 16 0.67
8 4 0.17
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTATT
Found at i:31655565 original size:46 final size:46
Alignment explanation
Indices: 31655384--31655565 Score: 276
Period size: 46 Copynumber: 4.0 Consensus size: 46
31655374 TTTGACATGA
* * * * * *
31655384 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*
31655430 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
31655476 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
31655522 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
31655566 AGAGCACACT
Statistics
Matches: 125, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
45 4 0.03
46 121 0.97
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:31657692 original size:56 final size:55
Alignment explanation
Indices: 31657593--31657702 Score: 202
Period size: 56 Copynumber: 2.0 Consensus size: 55
31657583 GAATTTTTGG
*
31657593 AGGAAGGACTAAATTGTAAGAAAAGGAAAACTTTCTTTCTTCTTCTTCTTCTCAT
1 AGGAAGGACTAAATTGTAAGAAAAGGAAAACTTTCTTTCTTCTTCTTCCTCTCAT
31657648 AGGAAGGACTAAATTGTAAGAAAAAGGAAAACTTTCTTTCTTCTTCTTCCTCTCA
1 AGGAAGGACTAAATTGTAAG-AAAAGGAAAACTTTCTTTCTTCTTCTTCCTCTCA
31657703 CGTTAGTTGC
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
55 20 0.38
56 33 0.62
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.35
Consensus pattern (55 bp):
AGGAAGGACTAAATTGTAAGAAAAGGAAAACTTTCTTTCTTCTTCTTCCTCTCAT
Found at i:31666540 original size:14 final size:14
Alignment explanation
Indices: 31666521--31666547 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
31666511 TCAACTCCGC
31666521 TTAATTATGACAAA
1 TTAATTATGACAAA
31666535 TTAATTATGACAA
1 TTAATTATGACAA
31666548 TTTTACTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.37
Consensus pattern (14 bp):
TTAATTATGACAAA
Found at i:31699382 original size:41 final size:41
Alignment explanation
Indices: 31699325--31699563 Score: 290
Period size: 41 Copynumber: 5.8 Consensus size: 41
31699315 GAATATAATA
* *
31699325 CAGACGTTACGTCTAGCAGGCTTAATGCCGGTGAAGTA-A-TT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG-A-TACATTT
*
31699366 CAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
31699407 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* *
31699448 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* * *
31699489 CAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG-TAC-TGAAT
1 CAGACTTTAAGTCTAGCAGGCTTAA-TGCCGGTGATACAT--TT
* * **
31699530 CAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
31699564 ATCTGTTTAA
Statistics
Matches: 179, Mismatches: 12, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
39 3 0.02
40 8 0.04
41 166 0.93
42 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (41 bp):
CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
Found at i:31699546 original size:123 final size:123
Alignment explanation
Indices: 31699335--31699563 Score: 322
Period size: 123 Copynumber: 1.9 Consensus size: 123
31699325 CAGACGTTAC
*
31699335 GTCTAGCAGGCTTAATGCCGGTGAAGTAATTCAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGA
1 GTCTAGCAGGCTTAATGCCGGTGAAGTAATTCAGACTATAAGTCTAGCAGGCTAAATGCCGGTGA
* * **
31699400 TACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATAT
66 TACATATCAGACTTTAAGCCTAGCAGGCAAAATGCCGGTGATACATTTCAGACTATAT
* *
31699458 GTCTAGCAGGCTTAATGCCGGTG-A-TACATTTCAGACTATATGTCTAGCAGGCTAAGTGCCGGT
1 GTCTAGCAGGCTTAATGCCGGTGAAGTA-A-TTCAGACTATAAGTCTAGCAGGCTAAATGCCGGT
*
31699521 G-TAC-TGAATCAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
64 GATACAT--ATCAGACTTTAAGCCTAGCAGGCAAAATGCCGGTGA
31699564 ATCTGTTTAA
Statistics
Matches: 94, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
121 3 0.03
122 5 0.05
123 86 0.91
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (123 bp):
GTCTAGCAGGCTTAATGCCGGTGAAGTAATTCAGACTATAAGTCTAGCAGGCTAAATGCCGGTGA
TACATATCAGACTTTAAGCCTAGCAGGCAAAATGCCGGTGATACATTTCAGACTATAT
Found at i:31701063 original size:18 final size:17
Alignment explanation
Indices: 31701038--31701072 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
31701028 CCACTACCCC
*
31701038 CTCCACCACCATCCTTA
1 CTCCACCACCACCCTTA
31701055 CTCCAACCACCACCCTTA
1 CTCC-ACCACCACCCTTA
31701073 ACGCCGTCAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.26, C:0.54, G:0.00, T:0.20
Consensus pattern (17 bp):
CTCCACCACCACCCTTA
Found at i:31701188 original size:16 final size:16
Alignment explanation
Indices: 31701167--31701203 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
31701157 TTTTATTTTA
31701167 TAATTCCTTAGTTATT
1 TAATTCCTTAGTTATT
* *
31701183 TAATTCCTTATTTTTT
1 TAATTCCTTAGTTATT
31701199 TAATT
1 TAATT
31701204 ATTATTAGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.24, C:0.11, G:0.03, T:0.62
Consensus pattern (16 bp):
TAATTCCTTAGTTATT
Found at i:31701220 original size:27 final size:26
Alignment explanation
Indices: 31701190--31701250 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
31701180 ATTTAATTCC
* *
31701190 TTATTTTTTTAATTATTATTAGTCATT
1 TTATTTTTTTAATAATGATTAG-CATT
* *
31701217 TTATTTCTTTACTAATGATTAGCATT
1 TTATTTTTTTAATAATGATTAGCATT
*
31701243 ATATTTTT
1 TTATTTTT
31701251 AGTAATTCTT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
26 10 0.36
27 18 0.64
ACGTcount: A:0.26, C:0.07, G:0.05, T:0.62
Consensus pattern (26 bp):
TTATTTTTTTAATAATGATTAGCATT
Found at i:31702455 original size:15 final size:15
Alignment explanation
Indices: 31702435--31702465 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
31702425 GACGGTTCCG
31702435 TGTGCTCTGATTCAT
1 TGTGCTCTGATTCAT
31702450 TGTGCTCTGATTCAT
1 TGTGCTCTGATTCAT
31702465 T
1 T
31702466 ACTGATACAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.19, G:0.19, T:0.48
Consensus pattern (15 bp):
TGTGCTCTGATTCAT
Found at i:31704998 original size:30 final size:30
Alignment explanation
Indices: 31704963--31705020 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
31704953 TAGGCACTTC
*
31704963 CACACGGGTAATCCACACGCCCGTGTGTGA
1 CACACGGGTAAGCCACACGCCCGTGTGTGA
* *
31704993 CACACGGGTAGGCCACACGCTCGTGTGT
1 CACACGGGTAAGCCACACGCCCGTGTGT
31705021 CATGGACGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.21, C:0.33, G:0.29, T:0.17
Consensus pattern (30 bp):
CACACGGGTAAGCCACACGCCCGTGTGTGA
Found at i:31709284 original size:16 final size:17
Alignment explanation
Indices: 31709263--31709296 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
31709253 TAAATAACTA
31709263 TATTTTTATT-TTTTTT
1 TATTTTTATTCTTTTTT
*
31709279 TATTTTTCTTCTTTTTT
1 TATTTTTATTCTTTTTT
31709296 T
1 T
31709297 TATATGTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.09, C:0.06, G:0.00, T:0.85
Consensus pattern (17 bp):
TATTTTTATTCTTTTTT
Found at i:31711150 original size:26 final size:26
Alignment explanation
Indices: 31711121--31711173 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
31711111 TCAAACATGC
31711121 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
31711147 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
31711173 A
1 A
31711174 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:31712690 original size:26 final size:26
Alignment explanation
Indices: 31712659--31712766 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
31712649 TGAAATGCCC
*
31712659 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
31712685 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
31712711 ATCATGGAATATTTACCTAATCTATT
1 ATCATGGAACATTTACCTAACCCATT
*
31712737 ATCATGGAACATTTTCCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
31712763 ATCA
1 ATCA
31712767 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.35, C:0.23, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:31714667 original size:6 final size:6
Alignment explanation
Indices: 31714640--31714701 Score: 74
Period size: 6 Copynumber: 10.3 Consensus size: 6
31714630 AAATAACAAT
*
31714640 AAACATA AAAATA GAAAC-A AAACTA AAACTA AAACTA AAACTA AAACTA
1 AAAC-TA AAACTA -AAACTA AAACTA AAACTA AAACTA AAACTA AAACTA
*
31714689 AAAATA AAA-TA AA
1 AAACTA AAACTA AA
31714702 TGGACTTAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
5 8 0.16
6 36 0.72
7 6 0.12
ACGTcount: A:0.73, C:0.11, G:0.02, T:0.15
Consensus pattern (6 bp):
AAACTA
Found at i:31720954 original size:43 final size:43
Alignment explanation
Indices: 31720809--31720955 Score: 124
Period size: 43 Copynumber: 3.4 Consensus size: 43
31720799 ATGTGTTCTT
*
31720809 GTGTAAGACCACGTCTGGCAC-GTTGGCATCGA-ATTATGATTAC
1 GTGTAAGACCACGTCTGGGACAG-TGGCATCGATATT-TGATTAC
** * ** **
31720852 GTGTAAGACCATTTTTGGGACA-TCAACATCG-TATTTGATTTT
1 GTGTAAGACCACGTCTGGGACAGT-GGCATCGATATTTGATTAC
* *
31720894 GTGTAAGACC-CTATCTGGGACAGTGGCATCGATATTTGGTTAC
1 GTGTAAGACCAC-GTCTGGGACAGTGGCATCGATATTTGATTAC
*
31720937 ATGTAAGACCACGTCTGGG
1 GTGTAAGACCACGTCTGGG
31720956 GCGTTGGCAT
Statistics
Matches: 79, Mismatches: 18, Indels: 14
0.71 0.16 0.13
Matches are distributed among these distances:
42 29 0.37
43 49 0.62
44 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
GTGTAAGACCACGTCTGGGACAGTGGCATCGATATTTGATTAC
Found at i:31722579 original size:6 final size:6
Alignment explanation
Indices: 31722551--31722620 Score: 56
Period size: 6 Copynumber: 11.7 Consensus size: 6
31722541 TGCTAGAAGC
* * *
31722551 AAAT-A AAATAA AAATTTAGA AAATAA AAATTA AACTAA AAACAA AAAT-A
1 AAATAA AAATAA AAA--TA-A AAATAA AAATAA AAATAA AAATAA AAATAA
*
31722600 AAAT-A CAATAA AAATAA AAAT
1 AAATAA AAATAA AAATAA AAAT
31722621 CGCTAAAGTA
Statistics
Matches: 52, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
5 13 0.25
6 31 0.60
7 2 0.04
8 2 0.04
9 4 0.08
ACGTcount: A:0.74, C:0.04, G:0.01, T:0.20
Consensus pattern (6 bp):
AAATAA
Found at i:31729701 original size:55 final size:56
Alignment explanation
Indices: 31729636--31729750 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
31729626 AGCATGGCTG
* * *
31729636 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
31729692 CCAGA-ACAGATATACGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
31729747 CCAG
1 CCAG
31729751 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 21 0.41
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:31729747 original size:28 final size:27
Alignment explanation
Indices: 31729661--31729750 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
31729651 GTGACAGAGT
*
31729661 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
31729690 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
31729717 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
31729745 CACCAG
1 CACCAG
31729751 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:31729903 original size:28 final size:28
Alignment explanation
Indices: 31729856--31729920 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
31729846 AAATTAACCC
*
31729856 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
31729884 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
31729912 TAGGGGTAT
1 TAGGGGTAT
31729921 TCTAGTACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:31730416 original size:28 final size:28
Alignment explanation
Indices: 31730369--31730461 Score: 159
Period size: 28 Copynumber: 3.3 Consensus size: 28
31730359 AAATTAACCT
* *
31730369 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
31730397 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
*
31730425 TAGGGTTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
31730453 TAGGGGTAT
1 TAGGGGTAT
31730462 TCTAGTACAT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 61 1.00
ACGTcount: A:0.31, C:0.08, G:0.26, T:0.35
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:31730724 original size:8 final size:8
Alignment explanation
Indices: 31730708--31730739 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
31730698 CCCAAAATAC
31730708 CGGCTTTT
1 CGGCTTTT
*
31730716 CGGCATTT
1 CGGCTTTT
31730724 CGGCTTTT
1 CGGCTTTT
31730732 CGGCTTTT
1 CGGCTTTT
31730740 GCCGATCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.03, C:0.25, G:0.25, T:0.47
Consensus pattern (8 bp):
CGGCTTTT
Found at i:31737629 original size:55 final size:56
Alignment explanation
Indices: 31737564--31737678 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
31737554 AGCATGGCTG
* *
31737564 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
31737620 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
31737675 CCAG
1 CCAG
31737679 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:31737641 original size:27 final size:27
Alignment explanation
Indices: 31737589--31737678 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
31737579 GTGACAGAGT
31737589 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
31737618 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
31737645 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
31737673 CACCAG
1 CACCAG
31737679 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:31737824 original size:28 final size:28
Alignment explanation
Indices: 31737784--31737848 Score: 130
Period size: 28 Copynumber: 2.3 Consensus size: 28
31737774 AAATTAACCC
31737784 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
31737812 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
31737840 TAGGGGTAT
1 TAGGGGTAT
31737849 TCTAGTACAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.31, C:0.06, G:0.28, T:0.35
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:31742120 original size:4 final size:4
Alignment explanation
Indices: 31742111--31742147 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
31742101 TGTTCTTAAA
31742111 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
31742148 TTAGTATTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:31748810 original size:5 final size:6
Alignment explanation
Indices: 31748791--31748825 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
31748781 TACTTTTTCA
31748791 TTTATT TTTATT TTTATT TTTATT CTTTACTT TTT
1 TTTATT TTTATT TTTATT TTTATT -TTTA-TT TTT
31748826 TGGGTTTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 18 0.67
7 7 0.26
8 2 0.07
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTATT
Found at i:31749880 original size:14 final size:14
Alignment explanation
Indices: 31749861--31749900 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
31749851 TCTGAGTTGG
*
31749861 TACATTTGCATTCA
1 TACATTTGCATACA
31749875 TACATTTGCATACA
1 TACATTTGCATACA
*
31749889 TCCATTTGCATA
1 TACATTTGCATA
31749901 AACCATTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (14 bp):
TACATTTGCATACA
Found at i:31749910 original size:14 final size:14
Alignment explanation
Indices: 31749863--31749908 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
31749853 TGAGTTGGTA
*
31749863 CATTTGCATTCATA-
1 CATTTGCATACA-AC
*
31749877 CATTTGCATACATC
1 CATTTGCATACAAC
31749891 CATTTGCATA-AAC
1 CATTTGCATACAAC
31749904 CATTT
1 CATTT
31749909 TGGGGTTGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 7 0.25
14 21 0.75
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (14 bp):
CATTTGCATACAAC
Found at i:31752680 original size:3 final size:3
Alignment explanation
Indices: 31752674--31752712 Score: 69
Period size: 3 Copynumber: 12.7 Consensus size: 3
31752664 AAAAGAAGAA
31752674 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT CAAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AA
31752713 GTAAATAACT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:31757717 original size:16 final size:17
Alignment explanation
Indices: 31757686--31757719 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
31757676 AATAAAAAAT
*
31757686 GAATACTACGATATAAA
1 GAATAATACGATATAAA
31757703 GAATAATAC-ATATAAA
1 GAATAATACGATATAAA
31757719 G
1 G
31757720 CAAAAAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.24
Consensus pattern (17 bp):
GAATAATACGATATAAA
Found at i:31758154 original size:4 final size:4
Alignment explanation
Indices: 31758129--31758169 Score: 55
Period size: 4 Copynumber: 9.5 Consensus size: 4
31758119 TATTAATTTA
31758129 AAAT GAAAT AATAT ATAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT -AAAT AA-AT A-AAT AAAT AAAT AAAT AAAT AAAT AA
31758170 TGAAATGTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
4 23 0.68
5 10 0.29
6 1 0.03
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (4 bp):
AAAT
Found at i:31758155 original size:23 final size:20
Alignment explanation
Indices: 31758129--31758169 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
31758119 TATTAATTTA
31758129 AAATGAAATAATATATAATAAAT
1 AAAT-AAATAA-ATA-AATAAAT
31758152 AAATAAATAAATAAATAA
1 AAATAAATAAATAAATAA
31758170 TGAAATGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 3 0.17
22 6 0.33
23 4 0.22
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (20 bp):
AAATAAATAAATAAATAAAT
Found at i:31758160 original size:19 final size:19
Alignment explanation
Indices: 31758129--31758175 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
31758119 TATTAATTTA
*
31758129 AAATGAAATAATATATAAT
1 AAATGAAATAATAAATAAT
31758148 AAAT-AAATAAATAAATAA-
1 AAATGAAAT-AATAAATAAT
31758166 ATAATGAAAT
1 A-AATGAAAT
31758176 GTGTATATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 5 0.21
19 15 0.62
20 4 0.17
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (19 bp):
AAATGAAATAATAAATAAT
Found at i:31758298 original size:25 final size:25
Alignment explanation
Indices: 31758270--31758349 Score: 62
Period size: 25 Copynumber: 3.3 Consensus size: 25
31758260 GTATAATTGG
31758270 TAATATATGATATATATATATAAAA
1 TAATATATGATATATATATATAAAA
* * *
31758295 TAATA-AGTAATATAAAAATA-AAACA
1 TAATATA-TGATATATATATATAAA-A
*
31758320 TAATACATG-T-TATATA-ATAAAA
1 TAATATATGATATATATATATAAAA
*
31758342 TAAAATAT
1 TAATATAT
31758350 AAATATACGT
Statistics
Matches: 43, Mismatches: 8, Indels: 11
0.69 0.13 0.18
Matches are distributed among these distances:
22 8 0.19
23 7 0.16
24 5 0.12
25 22 0.51
26 1 0.02
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.34
Consensus pattern (25 bp):
TAATATATGATATATATATATAAAA
Found at i:31758405 original size:20 final size:22
Alignment explanation
Indices: 31758377--31758453 Score: 63
Period size: 23 Copynumber: 3.5 Consensus size: 22
31758367 AACAATGTGT
31758377 AATAAATAAA-AGT-TTTTATA
1 AATAAATAAATAGTATTTTATA
*
31758397 AATATATAAATAGTATTTTAGT-
1 AATAAATAAATAGTATTTTA-TA
* *
31758419 AATAATATAAGTA-TATTTTTTTA
1 AATAA-ATAAATAGTA-TTTTATA
31758442 TAATAAATAAAT
1 -AATAAATAAAT
31758454 TATATAAAGA
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
20 9 0.20
21 3 0.07
22 12 0.27
23 16 0.36
24 5 0.11
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (22 bp):
AATAAATAAATAGTATTTTATA
Found at i:31758426 original size:23 final size:23
Alignment explanation
Indices: 31758375--31758437 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 23
31758365 TAAACAATGT
31758375 GTAATAA-ATAAA-AGT-TTTTA
1 GTAATAATATAAATAGTATTTTA
31758395 -TAA-ATATATAAATAGTATTTTA
1 GTAATA-ATATAAATAGTATTTTA
*
31758417 GTAATAATATAAGTA-TATTTT
1 GTAATAATATAAATAGTATTTT
31758438 TTTATAATAA
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
18 1 0.03
19 4 0.11
20 5 0.14
21 3 0.08
22 11 0.31
23 11 0.31
24 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (23 bp):
GTAATAATATAAATAGTATTTTA
Found at i:31760136 original size:83 final size:82
Alignment explanation
Indices: 31760020--31760206 Score: 293
Period size: 83 Copynumber: 2.3 Consensus size: 82
31760010 GATTTGTAGA
*
31760020 GATGCCAAATCATCTTGATCTATTTGAGAACTTTTGAGAATCATATCTACTATGTCCTCGATTTG
1 GATGCCAAACCATCTTGATCTATTTGAGAACTTTTGAGAATCATATCTACTATGTCCTCGATTTG
31760085 TTCCTTGTAAACACAAG
66 TTCCTTGTAAACACAAG
* * *
31760102 GATGCCAAACCGTCTTTGATCTATTTGAGAACTTTTGAGAGTCATATCTGCTATGTCCTCGATTT
1 GATGCCAAACCATC-TTGATCTATTTGAGAACTTTTGAGAATCATATCTACTATGTCCTCGATTT
31760167 GTTCCTTGTAAACACAAG
65 GTTCCTTGTAAACACAAG
* * *
31760185 AATACCAAATCATCTTGGATCT
1 GATGCCAAACCATCTT-GATCT
31760207 GCTTCAGTAT
Statistics
Matches: 95, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
82 14 0.15
83 81 0.85
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (82 bp):
GATGCCAAACCATCTTGATCTATTTGAGAACTTTTGAGAATCATATCTACTATGTCCTCGATTTG
TTCCTTGTAAACACAAG
Found at i:31760385 original size:83 final size:83
Alignment explanation
Indices: 31760246--31760403 Score: 217
Period size: 83 Copynumber: 1.9 Consensus size: 83
31760236 CTGCTATATC
* * * * * *
31760246 TGAGAACGTCTGAGAATCAAATCTTCTATGTCCTCGATTTGTCCCTTGTAAGCACAAGGATGCCA
1 TGAGAACATCTGAGAATCAAATCTGCAATGTCCTCGATTTGTCCCTTGTAAACACAAGAATACCA
31760311 AACCATCTTGAGTTTGTT
66 AACCATCTTGAGTTTGTT
* * * *
31760329 TGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
1 TGAGAACATCTGAGAATCAAATCTGCAATGTCCTCGATTTGTCCCTTGTAAACACAAGAATACCA
*
31760394 AATCATCTTG
66 AACCATCTTG
31760404 GATCTGCTTC
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
83 64 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (83 bp):
TGAGAACATCTGAGAATCAAATCTGCAATGTCCTCGATTTGTCCCTTGTAAACACAAGAATACCA
AACCATCTTGAGTTTGTT
Found at i:31760390 original size:202 final size:201
Alignment explanation
Indices: 31760044--31760527 Score: 770
Period size: 202 Copynumber: 2.4 Consensus size: 201
31760034 TTGATCTATT
* * *
31760044 TGAGAACTTTTGAGAATCATATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGGATGCCA
1 TGAGAACATCTGAGAATCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGGATGCCA
* * *
31760109 AACCGTCTTTGATCTATTTGAGAACTTTTGAGAGTCATATCTGCTATGTCCTCGATTTGTTCCTT
66 AACCATC-TTGATCTATTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTT
31760174 GTAAACACAAGAATACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTG
130 GTAAACACAAGAATACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTG
31760239 CTATATC
195 CTATATC
* * * *
31760246 TGAGAACGTCTGAGAATCAAATCTTCTATGTCCTCGATTTGTCCCTTGTAAGCACAAGGATGCCA
1 TGAGAACATCTGAGAATCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGGATGCCA
* *
31760311 AACCATCTTGAGTTTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTT
66 AACCATCTTGA-TCTATTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTT
31760376 GTAAACACAAGAATACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTG
130 GTAAACACAAGAATACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTG
*
31760441 CTATATT
195 CTATATC
* * * * *
31760448 TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
1 TGAGAACATCTGAGAATCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGGATGCCA
*
31760513 AATCATCTTGGATCT
66 AACCATCTT-GATCT
31760528 GCTTCAGCAT
Statistics
Matches: 258, Mismatches: 22, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
201 4 0.02
202 252 0.98
203 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (201 bp):
TGAGAACATCTGAGAATCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGGATGCCA
AACCATCTTGATCTATTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTG
TAAACACAAGAATACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGC
TATATC
Found at i:31760540 original size:119 final size:119
Alignment explanation
Indices: 31760327--31760559 Score: 387
Period size: 119 Copynumber: 2.0 Consensus size: 119
31760317 CTTGAGTTTG
* *
31760327 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCAATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
*
31760392 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGT-TAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGCATAAACATCTGAA-GTCTAGATCTGCTATA
* *
31760446 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCAATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
**
31760511 CAAATCATCTTGGATCTGCTTCAGCATAAATGTCTGAAGTCTAGATCTG
66 CAAATCATCTTGGATCTGCTTCAGCATAAACATCTGAAGTCTAGATCTG
31760560 TTGTCTTCAA
Statistics
Matches: 106, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
118 2 0.02
119 104 0.98
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.33
Consensus pattern (119 bp):
TTTGAGAACATCTGAGAGTCAAATCTGCAATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTCAGCATAAACATCTGAAGTCTAGATCTGCTATA
Found at i:31766438 original size:36 final size:36
Alignment explanation
Indices: 31766391--31766462 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
31766381 CCCTCACTGG
*
31766391 CTCGTTAACAGGTACTTCACTCTTTTTCTTAATTTC
1 CTCGTTAACAGGTACTTCACTCTTTTTCTCAATTTC
31766427 CTCGTTAACAGGTACTTCACTCTTTTTCTCAATTTC
1 CTCGTTAACAGGTACTTCACTCTTTTTCTCAATTTC
31766463 AACATTCTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.19, C:0.26, G:0.08, T:0.46
Consensus pattern (36 bp):
CTCGTTAACAGGTACTTCACTCTTTTTCTCAATTTC
Done.