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 122 of 202
Found at i:37830525 original size:16 final size:16
Alignment explanation
Indices: 37830504--37830535 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
37830494 TGATTGAAAG
*
37830504 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
37830520 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
37830536 GCAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:37832142 original size:29 final size:29
Alignment explanation
Indices: 37832109--37832202 Score: 70
Period size: 29 Copynumber: 3.2 Consensus size: 29
37832099 TTTGAAAGTT
37832109 TTTAATTTGGATGAAATTTTATAACTCGA
1 TTTAATTTGGATGAAATTTTATAACTCGA
** * *
37832138 TTTAATATGTTTAT-AAATAATTTGA-AAGT--T
1 TTTAAT-T-TGGATGAAAT--TTT-ATAACTCGA
*
37832168 TTTAATTTGGATGAAATTTCATAACTCGA
1 TTTAATTTGGATGAAATTTTATAACTCGA
37832197 TTTAAT
1 TTTAAT
37832203 ATGTTTATAA
Statistics
Matches: 47, Mismatches: 9, Indels: 18
0.64 0.12 0.24
Matches are distributed among these distances:
26 1 0.02
27 5 0.11
28 3 0.06
29 17 0.36
30 11 0.23
31 3 0.06
32 6 0.13
33 1 0.02
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.47
Consensus pattern (29 bp):
TTTAATTTGGATGAAATTTTATAACTCGA
Found at i:37832186 original size:59 final size:59
Alignment explanation
Indices: 37832094--37832212 Score: 229
Period size: 59 Copynumber: 2.0 Consensus size: 59
37832084 ACTCGAAGAT
*
37832094 AATAATTTGAAAGTTTTTAATTTGGATGAAATTTTATAACTCGATTTAATATGTTTATA
1 AATAATTTGAAAGTTTTTAATTTGGATGAAATTTCATAACTCGATTTAATATGTTTATA
37832153 AATAATTTGAAAGTTTTTAATTTGGATGAAATTTCATAACTCGATTTAATATGTTTATA
1 AATAATTTGAAAGTTTTTAATTTGGATGAAATTTCATAACTCGATTTAATATGTTTATA
37832212 A
1 A
37832213 GTGTATTTAT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.38, C:0.04, G:0.12, T:0.46
Consensus pattern (59 bp):
AATAATTTGAAAGTTTTTAATTTGGATGAAATTTCATAACTCGATTTAATATGTTTATA
Found at i:37833392 original size:21 final size:22
Alignment explanation
Indices: 37833351--37833394 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
37833341 TTTGAAGTTG
*
37833351 AAAATACGTGTTTGTCTTGAAA
1 AAAATACGTGTGTGTCTTGAAA
37833373 AAAATA-GTGTGTGT-TGTGAAA
1 AAAATACGTGTGTGTCT-TGAAA
37833394 A
1 A
37833395 CTTATTTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 1 0.05
21 13 0.65
22 6 0.30
ACGTcount: A:0.39, C:0.05, G:0.23, T:0.34
Consensus pattern (22 bp):
AAAATACGTGTGTGTCTTGAAA
Found at i:37833931 original size:27 final size:27
Alignment explanation
Indices: 37833894--37833958 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
37833884 AGTCGAGCTG
*
37833894 CCAGT-ACAGT-ATATGTGGCATAGCCA
1 CCAGTAACAGTAAT-TGTGGCAGAGCCA
*
37833920 CCAGTAACAGTAATTGTGGTAGAGCCA
1 CCAGTAACAGTAATTGTGGCAGAGCCA
*
37833947 CCAGAAACAGTA
1 CCAGTAACAGTA
37833959 CTTCCTCCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.15
27 27 0.79
28 2 0.06
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (27 bp):
CCAGTAACAGTAATTGTGGCAGAGCCA
Found at i:37834408 original size:26 final size:26
Alignment explanation
Indices: 37834126--37834411 Score: 403
Period size: 26 Copynumber: 11.0 Consensus size: 26
37834116 GATATTTCAA
*
37834126 TAATTTACCCATC-AGGGTATTTCGG
1 TAATTTACCCATCGAGGGTATTTTGG
* * *
37834151 TAATTTACCCATCAAGGGTATTTCGA
1 TAATTTACCCATCGAGGGTATTTTGG
* **
37834177 TAATTTATCCATCGAGGGTATTTCAG
1 TAATTTACCCATCGAGGGTATTTTGG
* *
37834203 TAATTTACCCATCAAGGGTATTTTAG
1 TAATTTACCCATCGAGGGTATTTTGG
*
37834229 TAATTTACCCATCGAGGGTAATTTGG
1 TAATTTACCCATCGAGGGTATTTTGG
***
37834255 TAATTTACCCATCGAGGGTATTTAAA
1 TAATTTACCCATCGAGGGTATTTTGG
*
37834281 TAATTTACCCATCGAGGGTATTTTGT
1 TAATTTACCCATCGAGGGTATTTTGG
37834307 TAATTTACCCATCGAGGGTATTTTGG
1 TAATTTACCCATCGAGGGTATTTTGG
** *
37834333 TAATTTACCCATTAAGGGTATTTCGG
1 TAATTTACCCATCGAGGGTATTTTGG
*
37834359 TAATTTACCCATCGAGGGTCTTTTGG
1 TAATTTACCCATCGAGGGTATTTTGG
37834385 TAATTTACCCATCGAGGGTATTTTGG
1 TAATTTACCCATCGAGGGTATTTTGG
37834411 T
1 T
37834412 CAACACCGTG
Statistics
Matches: 233, Mismatches: 27, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
25 13 0.06
26 220 0.94
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (26 bp):
TAATTTACCCATCGAGGGTATTTTGG
Found at i:37840970 original size:46 final size:46
Alignment explanation
Indices: 37840903--37840997 Score: 190
Period size: 46 Copynumber: 2.1 Consensus size: 46
37840893 TTTTGAGCAA
37840903 GGTTTGCTCCGTTTCCTTGATTCATATTCTCAAAGTTTATCTCTTT
1 GGTTTGCTCCGTTTCCTTGATTCATATTCTCAAAGTTTATCTCTTT
37840949 GGTTTGCTCCGTTTCCTTGATTCATATTCTCAAAGTTTATCTCTTT
1 GGTTTGCTCCGTTTCCTTGATTCATATTCTCAAAGTTTATCTCTTT
37840995 GGT
1 GGT
37840998 CCTTCTCTGG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.15, C:0.21, G:0.15, T:0.49
Consensus pattern (46 bp):
GGTTTGCTCCGTTTCCTTGATTCATATTCTCAAAGTTTATCTCTTT
Found at i:37842363 original size:12 final size:11
Alignment explanation
Indices: 37842336--37842373 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
37842326 GAAAATAGTC
37842336 AAAATTAATA-
1 AAAATTAATAT
37842346 AAAATTAACTAT
1 AAAATTAA-TAT
37842358 AAAATTAAT-T
1 AAAATTAATAT
37842368 AAAATT
1 AAAATT
37842374 CATCTTGTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 15 0.58
11 3 0.12
12 8 0.31
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (11 bp):
AAAATTAATAT
Found at i:37845237 original size:25 final size:25
Alignment explanation
Indices: 37845207--37845300 Score: 116
Period size: 25 Copynumber: 3.8 Consensus size: 25
37845197 GTTTCGACCC
*
37845207 ACAGCTCGTGTCAGCATACCGATTT
1 ACAGCTCGTGTGAGCATACCGATTT
* * * *
37845232 ATAGCTCGTGAGAGCATACCAATCT
1 ACAGCTCGTGTGAGCATACCGATTT
* *
37845257 ACAGCTCGAGTGAGCATACCGATTC
1 ACAGCTCGTGTGAGCATACCGATTT
*
37845282 ACAGCTCGTATGAGCATAC
1 ACAGCTCGTGTGAGCATAC
37845301 ATGTAAAGGA
Statistics
Matches: 56, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (25 bp):
ACAGCTCGTGTGAGCATACCGATTT
Found at i:37847658 original size:37 final size:37
Alignment explanation
Indices: 37847605--37847680 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
37847595 TTGATACATA
*
37847605 TTTCCTTATTTGATTTCTTACTTTTCATTTATTTAAT
1 TTTCCTTATTTGATTTCTTACCTTTCATTTATTTAAT
* *
37847642 TTTCCTTATTTTATTTCTTACCTTTCATTTGTTTAAT
1 TTTCCTTATTTGATTTCTTACCTTTCATTTATTTAAT
37847679 TT
1 TT
37847681 CTTTTATGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.17, C:0.14, G:0.03, T:0.66
Consensus pattern (37 bp):
TTTCCTTATTTGATTTCTTACCTTTCATTTATTTAAT
Found at i:37850353 original size:12 final size:12
Alignment explanation
Indices: 37850336--37850365 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
37850326 CCCCACACGC
37850336 CCGTGTGCTAGG
1 CCGTGTGCTAGG
37850348 CCGTGTGCTAGG
1 CCGTGTGCTAGG
*
37850360 TCGTGT
1 CCGTGT
37850366 AACTCACTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.23, G:0.40, T:0.30
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:37856119 original size:22 final size:22
Alignment explanation
Indices: 37856094--37856136 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
37856084 CCAATGGATA
*
37856094 ATTGAGCCTTAAAGTTGAACCC
1 ATTGAGCCCTAAAGTTGAACCC
37856116 ATTGAGCCCTAAAGTTGAACC
1 ATTGAGCCCTAAAGTTGAACC
37856137 TAAATTGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.26
Consensus pattern (22 bp):
ATTGAGCCCTAAAGTTGAACCC
Found at i:37858178 original size:50 final size:50
Alignment explanation
Indices: 37858102--37858292 Score: 229
Period size: 50 Copynumber: 3.8 Consensus size: 50
37858092 TTAAGGGAAT
* * * *
37858102 GAGGTCCCATGTAAGATCATGCCTGGGACATGGCGTTGGCACCGAGATAA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGA
* * *
37858152 GAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTAGGCACCGAGATGA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGA
** * * *
37858202 GAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGG
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGA
** * * *
37858252 GAACTCCTATGTAAGACCATATCTGGGATATGGCATTGGCA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
37858293 ATACAGAAAA
Statistics
Matches: 121, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 121 1.00
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.21
Consensus pattern (50 bp):
GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGA
Found at i:37858572 original size:16 final size:16
Alignment explanation
Indices: 37858546--37858587 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
37858536 TTATTTAAGT
*
37858546 AAGCAAGTAAGTAAAC
1 AAGCGAGTAAGTAAAC
* *
37858562 AAGTGAGTAAGTAAAG
1 AAGCGAGTAAGTAAAC
37858578 AAGCGAGTAA
1 AAGCGAGTAA
37858588 AGATTCTAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.52, C:0.07, G:0.26, T:0.14
Consensus pattern (16 bp):
AAGCGAGTAAGTAAAC
Found at i:37863901 original size:2 final size:2
Alignment explanation
Indices: 37863896--37863920 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
37863886 AATAAAAAAC
37863896 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
37863921 AAGCAATGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:37868375 original size:23 final size:23
Alignment explanation
Indices: 37868348--37868455 Score: 91
Period size: 23 Copynumber: 4.9 Consensus size: 23
37868338 TTCACCATAA
*
37868348 AGGCACTTTATGTGTCATATATC
1 AGGCACCTTATGTGTCATATATC
* * *
37868371 AGGCACTTTATGTGTCGTATTTC
1 AGGCACCTTATGTGTCATATATC
** *
37868394 AGGCACCTCGTGTGTC--GTATC
1 AGGCACCTTATGTGTCATATATC
*
37868415 AGGCACCTCATGTGTCAT-T-TC
1 AGGCACCTTATGTGTCATATATC
* *
37868436 AGACA-CTTATGTGTCGTATA
1 AGGCACCTTATGTGTCATATA
37868456 CGGATTAGGT
Statistics
Matches: 70, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
20 10 0.14
21 25 0.36
22 1 0.01
23 34 0.49
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (23 bp):
AGGCACCTTATGTGTCATATATC
Found at i:37868416 original size:21 final size:21
Alignment explanation
Indices: 37868367--37868454 Score: 88
Period size: 21 Copynumber: 4.1 Consensus size: 21
37868357 ATGTGTCATA
* *
37868367 TATCAGGCACTTTATGTGTCG
1 TATCAGGCACCTCATGTGTCG
*
37868388 TATTTCAGGCACCTCGTGTGTCG
1 TA--TCAGGCACCTCATGTGTCG
*
37868411 TATCAGGCACCTCATGTGTCA
1 TATCAGGCACCTCATGTGTCG
* * *
37868432 TTTCAGACA-CTTATGTGTCG
1 TATCAGGCACCTCATGTGTCG
37868452 TAT
1 TAT
37868455 ACGGATTAGG
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
20 11 0.20
21 26 0.47
23 18 0.33
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (21 bp):
TATCAGGCACCTCATGTGTCG
Found at i:37868428 original size:44 final size:41
Alignment explanation
Indices: 37868367--37868454 Score: 104
Period size: 44 Copynumber: 2.1 Consensus size: 41
37868357 ATGTGTCATA
* * * *
37868367 TATCAGGCACTTTATGTGTCGTATTTCAGGCACCTCGTGTGTCG
1 TATCAGGCACCTCATGTGTC--ATTTCAGACA-CTCATGTGTCG
*
37868411 TATCAGGCACCTCATGTGTCATTTCAGACACTTATGTGTCG
1 TATCAGGCACCTCATGTGTCATTTCAGACACTCATGTGTCG
37868452 TAT
1 TAT
37868455 ACGGATTAGG
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
41 12 0.31
42 9 0.23
44 18 0.46
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (41 bp):
TATCAGGCACCTCATGTGTCATTTCAGACACTCATGTGTCG
Found at i:37868768 original size:18 final size:18
Alignment explanation
Indices: 37868747--37868784 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
37868737 TGATATTGTT
37868747 AATTAA-TGAAAGTTTAAG
1 AATTAATTGAAA-TTTAAG
*
37868765 AATTAATTGATATTTAAG
1 AATTAATTGAAATTTAAG
37868783 AA
1 AA
37868785 ATTGGATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (18 bp):
AATTAATTGAAATTTAAG
Found at i:37880345 original size:22 final size:22
Alignment explanation
Indices: 37880311--37880353 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
37880301 CTTTTGTAGC
* *
37880311 GTTGTTTCTCTTTAATTTCCCT
1 GTTGATTCCCTTTAATTTCCCT
37880333 GTTGATTCCCTTTAATTTCCC
1 GTTGATTCCCTTTAATTTCCC
37880354 ATTCCTCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.12, C:0.26, G:0.09, T:0.53
Consensus pattern (22 bp):
GTTGATTCCCTTTAATTTCCCT
Found at i:37883335 original size:27 final size:27
Alignment explanation
Indices: 37883305--37883419 Score: 158
Period size: 27 Copynumber: 4.3 Consensus size: 27
37883295 TATAACAGTC
* *
37883305 ATTTTACCCTACGGGGGTATTTTGATA
1 ATTTTACCCTTCGGGGGTATTTCGATA
*
37883332 ATTTTACCCTTTGGGGGTATTTCGATA
1 ATTTTACCCTTCGGGGGTATTTCGATA
* * * *
37883359 GTTTTATCTTTCGAGGGTATTTCGATA
1 ATTTTACCCTTCGGGGGTATTTCGATA
*
37883386 ATTTTACCCTTCGGAGGTATTTCGATA
1 ATTTTACCCTTCGGGGGTATTTCGATA
37883413 ATTTTAC
1 ATTTTAC
37883420 AACCTTTTCG
Statistics
Matches: 75, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 75 1.00
ACGTcount: A:0.21, C:0.15, G:0.20, T:0.44
Consensus pattern (27 bp):
ATTTTACCCTTCGGGGGTATTTCGATA
Found at i:37885304 original size:15 final size:15
Alignment explanation
Indices: 37885284--37885315 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
37885274 CATTTCACTA
*
37885284 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
37885299 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
37885314 TT
1 TT
37885316 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:37888360 original size:43 final size:43
Alignment explanation
Indices: 37888299--37888388 Score: 171
Period size: 43 Copynumber: 2.1 Consensus size: 43
37888289 CCCTTTTATG
*
37888299 CCATAAAGCTTACTTGTTCACCACTAGATCATGCCATGGCTAA
1 CCATAAAGCTTACCTGTTCACCACTAGATCATGCCATGGCTAA
37888342 CCATAAAGCTTACCTGTTCACCACTAGATCATGCCATGGCTAA
1 CCATAAAGCTTACCTGTTCACCACTAGATCATGCCATGGCTAA
37888385 CCAT
1 CCAT
37888389 GGACTTTTTA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.27
Consensus pattern (43 bp):
CCATAAAGCTTACCTGTTCACCACTAGATCATGCCATGGCTAA
Found at i:37893721 original size:52 final size:51
Alignment explanation
Indices: 37893650--37893858 Score: 275
Period size: 52 Copynumber: 4.1 Consensus size: 51
37893640 ATCAAGTGAC
* * *
37893650 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGT-G
* *
37893702 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* *
37893753 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC-----
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
*
37893800 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC-AAGTG
37893852 ATAAGTG
1 A-AAGTG
37893859 GCTACACTTA
Statistics
Matches: 141, Mismatches: 8, Indels: 15
0.86 0.05 0.09
Matches are distributed among these distances:
46 43 0.30
51 1 0.01
52 92 0.65
53 5 0.04
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
Found at i:37893772 original size:98 final size:98
Alignment explanation
Indices: 37893636--37893858 Score: 251
Period size: 98 Copynumber: 2.3 Consensus size: 98
37893626 TTTGAGTACT
* *
37893636 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTAC-ACT-TATCTGATCAAGTGA-CAA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTATAGCTACGACTATA-CTGATC---TGATCAA
* * *
37893698 GTG-GAAAGTGATAAGTGATAGCTTCGGCTACACTTA
62 GAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
* * * *
37893734 TCTGATCAAGTGAC-AAGTGAAAAGTGATAAG-TGATAGCTTCGGCTATACTTATCTGATCAAGA
1 TCTGATCAAGTGACAAAGTGATAAGTGAT-AGCT-ATAGCTACGACTATACTGATCTGATCAAGA
*
37893797 GACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
64 GACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
37893832 TCTGATCAAGAGACAAAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
37893859 GCTACACTTA
Statistics
Matches: 106, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
96 3 0.03
97 18 0.17
98 65 0.61
99 18 0.17
100 2 0.02
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTATAGCTACGACTATACTGATCTGATCAAGAGA
CAAAGTGATAAGTGATAGCTTCAGCTACACTTA
Found at i:37893866 original size:37 final size:37
Alignment explanation
Indices: 37893822--37894004 Score: 316
Period size: 37 Copynumber: 5.0 Consensus size: 37
37893812 GATAGCTTTA
37893822 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
37893859 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
37893896 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
37893933 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
37893970 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
37894005 ATCATACGTA
Statistics
Matches: 141, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
35 11 0.08
36 4 0.03
37 126 0.89
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:37898754 original size:15 final size:16
Alignment explanation
Indices: 37898719--37898753 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
37898709 TTTCTAAACC
37898719 AAAATTTTTCAACATT
1 AAAATTTTTCAACATT
37898735 AAAATTTTTCAACATT
1 AAAATTTTTCAACATT
37898751 AAA
1 AAA
37898754 TGCAATTGTT
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:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (16 bp):
AAAATTTTTCAACATT
Found at i:37899810 original size:29 final size:28
Alignment explanation
Indices: 37899764--37899823 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 28
37899754 AATCTGAACA
* * *
37899764 TAAATTAATTAAGTGTTTCTAATTTGTTC
1 TAAATTAATTAAGAGTTT-TAATATGTCC
**
37899793 TAAATTAATTGTGAGTTTTAATATGTCC
1 TAAATTAATTAAGAGTTTTAATATGTCC
37899821 TAA
1 TAA
37899824 TTCATTGCAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 11 0.42
29 15 0.58
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.48
Consensus pattern (28 bp):
TAAATTAATTAAGAGTTTTAATATGTCC
Found at i:37908843 original size:23 final size:24
Alignment explanation
Indices: 37908807--37908853 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
37908797 TGGTGTTTTT
37908807 TATTTTTATGT-AAATTTGTAAAA
1 TATTTTTATGTAAAATTTGTAAAA
* * *
37908830 TATTTTTCTTTAAAATTTTTAAAA
1 TATTTTTATGTAAAATTTGTAAAA
37908854 ATTGAAGTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.55
Consensus pattern (24 bp):
TATTTTTATGTAAAATTTGTAAAA
Found at i:37910183 original size:22 final size:22
Alignment explanation
Indices: 37910155--37910218 Score: 101
Period size: 22 Copynumber: 2.9 Consensus size: 22
37910145 CTACCAGTAA
37910155 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
37910177 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
* * *
37910199 CATGAGGGTTTAGTTCGTTA
1 CATGAGAGCTTAGTACGTTA
37910219 ATTGGTGGCA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAGC
Found at i:37910939 original size:18 final size:19
Alignment explanation
Indices: 37910902--37910939 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
37910892 TACATTCTAG
* *
37910902 ATGTTTTTAGTAAGTTTAT
1 ATGTTTCTAATAAGTTTAT
37910921 ATGTTTCTAATAA-TTTAT
1 ATGTTTCTAATAAGTTTAT
37910939 A
1 A
37910940 AAATATCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.32, C:0.03, G:0.11, T:0.55
Consensus pattern (19 bp):
ATGTTTCTAATAAGTTTAT
Found at i:37911239 original size:9 final size:9
Alignment explanation
Indices: 37911225--37911285 Score: 54
Period size: 9 Copynumber: 6.8 Consensus size: 9
37911215 TATTATAGCC
37911225 TTTTTTATA
1 TTTTTTATA
37911234 TTTTTTAATA
1 TTTTTT-ATA
* *
37911244 CTTTTTAAA
1 TTTTTTATA
37911253 TTTTTTATA
1 TTTTTTATA
*
37911262 -ATTTTAT-
1 TTTTTTATA
*
37911269 TTGTTATATA
1 TT-TTTTATA
37911279 TTTTTTA
1 TTTTTTA
37911286 AAAATAATAA
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
8 6 0.15
9 24 0.60
10 10 0.25
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (9 bp):
TTTTTTATA
Found at i:37913801 original size:19 final size:18
Alignment explanation
Indices: 37913761--37913801 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
37913751 ACATTATGTG
*
37913761 AAATTTTAAATAAAATAC
1 AAATTTTAAATAAAATAA
*
37913779 AAATTTTAAATTAAATTAA
1 AAATTTTAAA-TAAAATAA
37913798 AAAT
1 AAAT
37913802 AAATTAACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATTTTAAATAAAATAA
Found at i:37916865 original size:15 final size:15
Alignment explanation
Indices: 37916847--37916888 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
37916837 GTCTGGAGGA
37916847 TGTGAACAAGTCTGT
1 TGTGAACAAGTCTGT
*
37916862 TGTGAA-AGTGTCTGT
1 TGTGAACA-AGTCTGT
*
37916877 TGTGAGCAAGTC
1 TGTGAACAAGTC
37916889 ACTGCATGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
14 1 0.05
15 20 0.91
16 1 0.05
ACGTcount: A:0.24, C:0.12, G:0.31, T:0.33
Consensus pattern (15 bp):
TGTGAACAAGTCTGT
Found at i:37920104 original size:26 final size:28
Alignment explanation
Indices: 37920036--37920143 Score: 96
Period size: 29 Copynumber: 3.9 Consensus size: 28
37920026 CAGTTTCTAT
* *
37920036 AAGGAAGCCTTTGTGACTATCTTTGTTA
1 AAGGAAGCCTTTGTGGCTATCTTTGTGA
* *
37920064 AA-AAAACCTTTGTGGCTAT-TTT-TGA
1 AAGGAAGCCTTTGTGGCTATCTTTGTGA
* * *
37920089 AAGGAAGCCTTTGTGGCGATCTCTGTTAA
1 AAGGAAGCCTTTGTGGCTATCTTTG-TGA
* * *
37920118 AATGATGCCTTTATGGCTATCTTTGT
1 AAGGAAGCCTTTGTGGCTATCTTTGT
37920144 TAAATGAATG
Statistics
Matches: 62, Mismatches: 14, Indels: 8
0.74 0.17 0.10
Matches are distributed among these distances:
25 4 0.06
26 17 0.27
27 16 0.26
28 3 0.05
29 22 0.35
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.39
Consensus pattern (28 bp):
AAGGAAGCCTTTGTGGCTATCTTTGTGA
Found at i:37924259 original size:46 final size:47
Alignment explanation
Indices: 37924190--37924396 Score: 206
Period size: 46 Copynumber: 4.5 Consensus size: 47
37924180 ATGCGTTTCC
* * * * *
37924190 ACATCTGCAGGAGCTAGGAACCTAAAAT-TGTATTCTCTAGTTCGCA
1 ACATATGCAAGAGCTGGGAACCTAAAATATGTATTCTCCAGTCCGCA
* * **
37924236 ACATATGCAAGAGTTGGGAACCTAAACT-TGTATTCTCCAGTTTGCA
1 ACATATGCAAGAGCTGGGAACCTAAAATATGTATTCTCCAGTCCGCA
* * * *
37924282 ACATATGCAGGAGTTGGGAACCT-GAATCTGTATTCTCCAGTCCGCA
1 ACATATGCAAGAGCTGGGAACCTAAAATATGTATTCTCCAGTCCGCA
** * * **
37924328 ACATATATAGGAACTGGGAA-CTTGAATATGTATTCTCCAGTCCGCA
1 ACATATGCAAGAGCTGGGAACCTAAAATATGTATTCTCCAGTCCGCA
*
37924374 ACATATGCAAGAGCTGAGAACCT
1 ACATATGCAAGAGCTGGGAACCT
37924397 GGGCAAAAAC
Statistics
Matches: 136, Mismatches: 22, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
45 4 0.03
46 130 0.96
47 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (47 bp):
ACATATGCAAGAGCTGGGAACCTAAAATATGTATTCTCCAGTCCGCA
Found at i:37926725 original size:27 final size:27
Alignment explanation
Indices: 37926702--37926766 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
37926692 AGGATAGGGT
*
37926702 TGTAATGGAATAAGATTGTAATAGGAC
1 TGTAATGGAATAAGAGTGTAATAGGAC
**
37926729 TGTAATCAAATAAGAGTGTAATAGGAC
1 TGTAATGGAATAAGAGTGTAATAGGAC
37926756 TGTAATGGAAT
1 TGTAATGGAAT
37926767 GGAATAAGAC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.42, C:0.05, G:0.25, T:0.29
Consensus pattern (27 bp):
TGTAATGGAATAAGAGTGTAATAGGAC
Found at i:37934585 original size:2 final size:2
Alignment explanation
Indices: 37934578--37934602 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
37934568 AAAGAACAGA
37934578 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
37934603 AAGCATTAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:37936810 original size:20 final size:20
Alignment explanation
Indices: 37936787--37936861 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
37936777 CTAGTTATGT
37936787 ACTTCGGTGCCTTTGTTTGC
1 ACTTCGGTGCCTTTGTTTGC
* ** * *
37936807 ACTTTGGTGCCGCTATATGC
1 ACTTCGGTGCCTTTGTTTGC
*
37936827 ACTTCGGTGTCTTTGTTTGC
1 ACTTCGGTGCCTTTGTTTGC
*
37936847 ACATT-GGTGTCTTTG
1 AC-TTCGGTGCCTTTG
37936862 ATTACATTTC
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.09, C:0.21, G:0.25, T:0.44
Consensus pattern (20 bp):
ACTTCGGTGCCTTTGTTTGC
Found at i:37939491 original size:26 final size:26
Alignment explanation
Indices: 37939434--37939492 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
37939424 TCTTATCTCA
* *
37939434 ATTTTACCCCCAGTAAAAGTTTGACG
1 ATTTTACCCCCAATAAAAGTTTAACG
* * *
37939460 ACTTTACCCCCAATAAAATTTTAATG
1 ATTTTACCCCCAATAAAAGTTTAACG
37939486 ATTTTAC
1 ATTTTAC
37939493 TTCTAGTAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.36
Consensus pattern (26 bp):
ATTTTACCCCCAATAAAAGTTTAACG
Found at i:37943298 original size:24 final size:23
Alignment explanation
Indices: 37943244--37943301 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
37943234 GGGAATGGAG
*
37943244 ATTTATTGCATTTTTACTGGCAA
1 ATTTTTTGCATTTTTACTGGCAA
* * * *
37943267 CTTGTTTGCATTTTTATTGGTATA
1 ATTTTTTGCATTTTTACTGGCA-A
37943291 ATTTTTTGCAT
1 ATTTTTTGCAT
37943302 ATTGTTATCG
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
23 17 0.63
24 10 0.37
ACGTcount: A:0.21, C:0.10, G:0.14, T:0.55
Consensus pattern (23 bp):
ATTTTTTGCATTTTTACTGGCAA
Found at i:37957242 original size:16 final size:16
Alignment explanation
Indices: 37957221--37957251 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37957211 AATTAGTTTA
*
37957221 AATTAATTAATTTTCC
1 AATTAAATAATTTTCC
37957237 AATTAAATAATTTTC
1 AATTAAATAATTTTC
37957252 TCAACACAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTAAATAATTTTCC
Found at i:37971301 original size:16 final size:17
Alignment explanation
Indices: 37971272--37971304 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
37971262 TAAAAAATAA
*
37971272 TTATGTTTATTTAATTT
1 TTATGTTTAATTAATTT
37971289 TTAT-TTTAATTAATTT
1 TTATGTTTAATTAATTT
37971305 ACTTTTTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (17 bp):
TTATGTTTAATTAATTT
Found at i:37971872 original size:15 final size:16
Alignment explanation
Indices: 37971835--37971870 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
37971825 TTATTTTTTA
*
37971835 AAAAATATAATAAATC
1 AAAAATATAAAAAATC
*
37971851 AAAAATATAAAAAATT
1 AAAAATATAAAAAATC
37971867 AAAA
1 AAAA
37971871 TAAATATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (16 bp):
AAAAATATAAAAAATC
Found at i:37972093 original size:24 final size:24
Alignment explanation
Indices: 37972066--37972115 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
37972056 AAAAAACAAG
* *
37972066 AAAATAACAAAAAAATAGTAAAAA
1 AAAACAACAAAAAAACAGTAAAAA
* *
37972090 AAAACAGCAATAAAACAGTAAAAA
1 AAAACAACAAAAAAACAGTAAAAA
37972114 AA
1 AA
37972116 TAGATTTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.76, C:0.08, G:0.06, T:0.10
Consensus pattern (24 bp):
AAAACAACAAAAAAACAGTAAAAA
Found at i:37972113 original size:35 final size:33
Alignment explanation
Indices: 37972044--37972118 Score: 87
Period size: 35 Copynumber: 2.2 Consensus size: 33
37972034 AAATGGTAGC
* *
37972044 AAAATAGTGAAAAAAAAACAAGAAAATAACAAA
1 AAAATAGTAAAAAAAAAACAAGAAAACAACAAA
* **
37972077 AAAATAGTAAAAAAAAACAGCAATAAAACAGTAAA
1 AAAATAGTAAAAAAAAA-A-CAAGAAAACAACAAA
37972112 AAAATAG
1 AAAATAG
37972119 ATTTTTTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
33 16 0.46
34 1 0.03
35 18 0.51
ACGTcount: A:0.73, C:0.07, G:0.09, T:0.11
Consensus pattern (33 bp):
AAAATAGTAAAAAAAAAACAAGAAAACAACAAA
Found at i:37978707 original size:20 final size:20
Alignment explanation
Indices: 37978683--37978732 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
37978673 ACAGAGACAA
37978683 CGAAGTGCAAACAAAGGCA-
1 CGAAGTGCAAACAAAGGCAT
* *
37978702 CTGAAGTGTAAACAGAGGCAT
1 C-GAAGTGCAAACAAAGGCAT
37978723 CGAAGTGCAA
1 CGAAGTGCAA
37978733 TCTCGTACAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 24 0.92
21 1 0.04
ACGTcount: A:0.42, C:0.18, G:0.28, T:0.12
Consensus pattern (20 bp):
CGAAGTGCAAACAAAGGCAT
Found at i:37980151 original size:5 final size:5
Alignment explanation
Indices: 37980141--37980167 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
37980131 TGGTCCATAT
37980141 AAATA AAATA AAATA AAATA AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AA
37980168 TTACAGACTC
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:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:37987019 original size:30 final size:30
Alignment explanation
Indices: 37986983--37987040 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
37986973 CTGGGTTAGA
37986983 GTGTGTTAGTTAATTTAATATGTCGGAAGT
1 GTGTGTTAGTTAATTTAATATGTCGGAAGT
37987013 GTGTGTTAGTTAATTTAATATGTCGGAA
1 GTGTGTTAGTTAATTTAATATGTCGGAA
37987041 CTGTCCGCTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.28, C:0.03, G:0.26, T:0.43
Consensus pattern (30 bp):
GTGTGTTAGTTAATTTAATATGTCGGAAGT
Found at i:37992597 original size:565 final size:565
Alignment explanation
Indices: 37991515--37992626 Score: 1992
Period size: 565 Copynumber: 2.0 Consensus size: 565
37991505 AATCTGCATA
*
37991515 CTACGGTGTTGTATGCTCACTCAGCATGATCTGATGGATATCTACCCTAAATAATTGCTCATCTA
1 CTACGGTGTTGTATGCTCACTCAGCATGATCTGATGGATATCTAACCTAAATAATTGCTCATCTA
*
37991580 CGAAAGTTTCTTTAATTTCTCCAATATTCTCTACTTTTAAATCATTCTCAAGTTTAGATAAATTA
66 CGAAAGTTTCTTTAATTTCTCCAATATTCTCTACTTTTAAATCATTCTCAAGTTTAGATAAATGA
*
37991645 TCTGCAATTTGGTTCTCAGTCCCCTTCCTATCCATTATCCATAAATCGAATTCCTGAAGTAGTAA
131 TCTGCAATTTGGTTCTCAGTCCCCTTCCTATCCATTATCCATAAATCGAATTCCTGAAGCAGTAA
*
37991710 AACCCATCTCATTAGTCTAGCTTTTGTTTCTTTATTCTTCATAACATATTTTAAGGCAGAATGGT
196 AACCCATCTCATTAGTCTAGCTTTGGTTTCTTTATTCTTCATAACATATTTTAAGGCAGAATGGT
37991775 CAATATACACATATACTCTATTTATAATTAAGTAAGGTTAAAATTTTTCACAAGTGAACACTACA
261 CAATATACACATATACTCTATTTATAATTAAGTAAGGTTAAAATTTTTCACAAGTGAACACTACA
37991840 ACTAGCATCTCTTTTTCAGTTGTAGCGTAGTTGCAGTGCCGAATTTAACATTTTACTACCATAAT
326 ACTAGCATCTCTTTTTCAGTTGTAGCGTAGTTGCAGTGCCGAATTTAACATTTTACTACCATAAT
* *
37991905 GAATAGCCCCAAAGAAGTTATTATACTTTTGTCTCAAGACTGCACTTGCTACATAATCACTAGCA
391 GAATAGCCCCAAAGAAGTTATTATACTTTTGTCCCAAGACTGCACCTGCTACATAATCACTAGCA
37991970 TCACACATAATAATAAAAAGTTCTGACTAGTTAGGGGTGATGATAACTGAAGCAGGTATCAATTT
456 TCACACATAATAATAAAAAGTTCTGACTAGTTAGGGGTGATGATAACTGAAGCAGGTATCAATTT
37992035 TTATTTTATTACCTCAAAAGCTTTAACACATAATAATATGTTATT
521 TTATTTTATTACCTCAAAAGCTTTAACACATAATAATATGTTATT
* * *
37992080 CTACGGTGTTGTATGCTCACTCAGCATGATCTGATGGATATCTAATCTAAATAGTTGCTCATCTG
1 CTACGGTGTTGTATGCTCACTCAGCATGATCTGATGGATATCTAACCTAAATAATTGCTCATCTA
* *
37992145 CGAAAGTTTCTTTAATTTCTCCAATATTCTCTACTTTTAAATCATTCTCAATTTTGGATAAATGA
66 CGAAAGTTTCTTTAATTTCTCCAATATTCTCTACTTTTAAATCATTCTCAAGTTTAGATAAATGA
* *
37992210 TCTGCAATTTGGTTCTCAGTCCTCTTCCTATCCATTATCCATAAATTGAATTCCTGAAGCAGTAA
131 TCTGCAATTTGGTTCTCAGTCCCCTTCCTATCCATTATCCATAAATCGAATTCCTGAAGCAGTAA
*
37992275 AACCCATCTCATTAGTCTAGCTTTGGTTTCTTTATTCTTCATAACATATTTTAATGCAGAATGGT
196 AACCCATCTCATTAGTCTAGCTTTGGTTTCTTTATTCTTCATAACATATTTTAAGGCAGAATGGT
* *
37992340 CAATATACACATATACTCTATTTATAATTAAGTAGGGTTAAAGTTTTTCACAAGTGAACACTACA
261 CAATATACACATATACTCTATTTATAATTAAGTAAGGTTAAAATTTTTCACAAGTGAACACTACA
*
37992405 ACTAGCATCTCTTTTTCAGTTGTAGCGTAGTTGCAGTGCCGAATTTAACATTTTACTAGCATAAT
326 ACTAGCATCTCTTTTTCAGTTGTAGCGTAGTTGCAGTGCCGAATTTAACATTTTACTACCATAAT
* * * *
37992470 GAATAGCCCCAAAGATGTTATTCTGCTTTTGTCCCAAGACTGCACCTGTTACATAATCACTAGCA
391 GAATAGCCCCAAAGAAGTTATTATACTTTTGTCCCAAGACTGCACCTGCTACATAATCACTAGCA
* * *
37992535 TCACACATAATAATAAAAGGTTCTGACTAGTTAGGGGTGATGATAATTGGAGC-GGATATCAATT
456 TCACACATAATAATAAAAAGTTCTGACTAGTTAGGGGTGATGATAACTGAAGCAGG-TATCAATT
37992599 TTTATTTTATTACCTCAAAAGCTTTAAC
520 TTTATTTTATTACCTCAAAAGCTTTAAC
37992627 GCAACTTTGG
Statistics
Matches: 522, Mismatches: 24, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
564 2 0.00
565 520 1.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (565 bp):
CTACGGTGTTGTATGCTCACTCAGCATGATCTGATGGATATCTAACCTAAATAATTGCTCATCTA
CGAAAGTTTCTTTAATTTCTCCAATATTCTCTACTTTTAAATCATTCTCAAGTTTAGATAAATGA
TCTGCAATTTGGTTCTCAGTCCCCTTCCTATCCATTATCCATAAATCGAATTCCTGAAGCAGTAA
AACCCATCTCATTAGTCTAGCTTTGGTTTCTTTATTCTTCATAACATATTTTAAGGCAGAATGGT
CAATATACACATATACTCTATTTATAATTAAGTAAGGTTAAAATTTTTCACAAGTGAACACTACA
ACTAGCATCTCTTTTTCAGTTGTAGCGTAGTTGCAGTGCCGAATTTAACATTTTACTACCATAAT
GAATAGCCCCAAAGAAGTTATTATACTTTTGTCCCAAGACTGCACCTGCTACATAATCACTAGCA
TCACACATAATAATAAAAAGTTCTGACTAGTTAGGGGTGATGATAACTGAAGCAGGTATCAATTT
TTATTTTATTACCTCAAAAGCTTTAACACATAATAATATGTTATT
Found at i:37997894 original size:31 final size:32
Alignment explanation
Indices: 37997838--37997900 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
37997828 AGATAATTTT
37997838 AAAGAGTTTTATTAGGATTTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTTCAATTACTCTTG
37997870 AAAGAGTTTTATTAGGA-TTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTTCAATTACTCTTG
37997901 TAATTTGCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 14 0.45
32 17 0.55
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.43
Consensus pattern (32 bp):
AAAGAGTTTTATTAGGATTTCAATTACTCTTG
Found at i:37998451 original size:12 final size:13
Alignment explanation
Indices: 37998425--37998484 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
37998415 CTTATTCTTT
*
37998425 AAAAAAATAGCAA
1 AAAAAAAAAGCAA
*
37998438 AAAAAAAAAGAAA
1 AAAAAAAAAGCAA
*
37998451 AAAAGTAAAAAGCGA
1 AAAA--AAAAAGCAA
**
37998466 AAAAAAACCGCAA
1 AAAAAAAAAGCAA
37998479 AAAAAA
1 AAAAAA
37998485 GTTGCCTACC
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
13 27 0.71
15 11 0.29
ACGTcount: A:0.78, C:0.08, G:0.10, T:0.03
Consensus pattern (13 bp):
AAAAAAAAAGCAA
Found at i:37998527 original size:3 final size:3
Alignment explanation
Indices: 37998521--37998560 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
37998511 CTTCTTTTCC
* *
37998521 TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TTT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
37998561 TCTCCCAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:38005651 original size:119 final size:119
Alignment explanation
Indices: 38005440--38005662 Score: 446
Period size: 119 Copynumber: 1.9 Consensus size: 119
38005430 TGAAATAGGT
38005440 GAAAGGAATGACTTGAAATTGCCTTATTTCTTGTCCACACGGTCTAAGACACGGGTGTGTGTCTC
1 GAAAGGAATGACTTGAAATTGCCTTATTTCTTGTCCACACGGTCTAAGACACGGGTGTGTGTCTC
38005505 CTGTTGGTTTTTAAAGGTTGCATTTCGAGAGTTACACGGTCAAGCCACATGCCC
66 CTGTTGGTTTTTAAAGGTTGCATTTCGAGAGTTACACGGTCAAGCCACATGCCC
38005559 GAAAGGAATGACTTGAAATTGCCTTATTTCTTGTCCACACGGTCTAAGACACGGGTGTGTGTCTC
1 GAAAGGAATGACTTGAAATTGCCTTATTTCTTGTCCACACGGTCTAAGACACGGGTGTGTGTCTC
38005624 CTGTTGGTTTTTAAAGGTTGCATTTCGAGAGTTACACGG
66 CTGTTGGTTTTTAAAGGTTGCATTTCGAGAGTTACACGG
38005663 CCTAGCACAT
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
119 104 1.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.32
Consensus pattern (119 bp):
GAAAGGAATGACTTGAAATTGCCTTATTTCTTGTCCACACGGTCTAAGACACGGGTGTGTGTCTC
CTGTTGGTTTTTAAAGGTTGCATTTCGAGAGTTACACGGTCAAGCCACATGCCC
Found at i:38006365 original size:20 final size:22
Alignment explanation
Indices: 38006340--38006379 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
38006330 TTATTGGATT
38006340 TAACAAAA-CTTAAT-AAAACA
1 TAACAAAATCTTAATGAAAACA
38006360 TAACAAAATCTTAATGAAAA
1 TAACAAAATCTTAATGAAAA
38006380 TACTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 6 0.33
22 4 0.22
ACGTcount: A:0.62, C:0.12, G:0.03, T:0.23
Consensus pattern (22 bp):
TAACAAAATCTTAATGAAAACA
Found at i:38012784 original size:26 final size:26
Alignment explanation
Indices: 38012740--38013013 Score: 282
Period size: 26 Copynumber: 10.5 Consensus size: 26
38012730 GAAATAATGA
*
38012740 AAAGCCTTTGTGGCATAATATGAAAG
1 AAAGCCTTTGTGGCGTAATATGAAAG
* * **
38012766 AAAACCTTTATAACGTAATATGAAAG
1 AAAGCCTTTGTGGCGTAATATGAAAG
* * *
38012792 GAAGCCTTTGTGGCGTAGTATGGAAG
1 AAAGCCTTTGTGGCGTAATATGAAAG
*
38012818 AAAGCCTTTGTGGCGTAATATGGAAG
1 AAAGCCTTTGTGGCGTAATATGAAAG
* * *
38012844 AAAGCATTTGTGGCATAGTATGAACA-
1 AAAGCCTTTGTGGCGTAATATGAA-AG
* * * *
38012870 AAAGCATTTGTGGTGTAGTATGGAAG
1 AAAGCCTTTGTGGCGTAATATGAAAG
* *
38012896 AAAGCCATTGTGGCGTAATATGGAAG
1 AAAGCCTTTGTGGCGTAATATGAAAG
* * * *
38012922 AAAGCTTTTATGGCATAGTATGAAAG
1 AAAGCCTTTGTGGCGTAATATGAAAG
*
38012948 AAAGCCTTTGTGGCGTAATAT-AAACT
1 AAAGCCTTTGTGGCGTAATATGAAA-G
* *
38012974 AAAGCCTTTGTGGCGTAAAATGAATTG
1 AAAGCCTTTGTGGCGTAATATGAA-AG
38013001 AAAGCCTTTGTGG
1 AAAGCCTTTGTGG
38013014 AAAACCATGA
Statistics
Matches: 204, Mismatches: 39, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
25 4 0.02
26 184 0.90
27 16 0.08
ACGTcount: A:0.35, C:0.11, G:0.26, T:0.28
Consensus pattern (26 bp):
AAAGCCTTTGTGGCGTAATATGAAAG
Found at i:38012837 original size:78 final size:78
Alignment explanation
Indices: 38012740--38012997 Score: 313
Period size: 78 Copynumber: 3.3 Consensus size: 78
38012730 GAAATAATGA
* * * ** * * *
38012740 AAAGCCTTTGTGGCATAATATGAAAGAAAACCTTTATAACGTAATATGAAAGGAAGCCTTTGTGG
1 AAAGCCTTTGTGGCGTAATATGAAAGAAAGCATTTATGGCATAGTATGAAAGAAAGCCTTTGTGG
38012805 CGTAGTATGGAAG
66 CGTAGTATGGAAG
* * *
38012818 AAAGCCTTTGTGGCGTAATATGGAAGAAAGCATTTGTGGCATAGTATGAACA-AAAGCATTTGTG
1 AAAGCCTTTGTGGCGTAATATGAAAGAAAGCATTTATGGCATAGTATGAA-AGAAAGCCTTTGTG
*
38012882 GTGTAGTATGGAAG
65 GCGTAGTATGGAAG
* * *
38012896 AAAGCCATTGTGGCGTAATATGGAAGAAAGCTTTTATGGCATAGTATGAAAGAAAGCCTTTGTGG
1 AAAGCCTTTGTGGCGTAATATGAAAGAAAGCATTTATGGCATAGTATGAAAGAAAGCCTTTGTGG
* * *
38012961 CGTAATAT-AAACT
66 CGTAGTATGGAA-G
*
38012974 AAAGCCTTTGTGGCGTAAAATGAA
1 AAAGCCTTTGTGGCGTAATATGAA
38012998 TTGAAAGCCT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
77 3 0.02
78 150 0.97
79 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.28
Consensus pattern (78 bp):
AAAGCCTTTGTGGCGTAATATGAAAGAAAGCATTTATGGCATAGTATGAAAGAAAGCCTTTGTGG
CGTAGTATGGAAG
Found at i:38013400 original size:26 final size:26
Alignment explanation
Indices: 38013368--38013590 Score: 241
Period size: 26 Copynumber: 8.5 Consensus size: 26
38013358 AAAATAATGA
38013368 AAAGCCTTTGTGGCGTAATATGAAAG
1 AAAGCCTTTGTGGCGTAATATGAAAG
*
38013394 GAAGCCTTTGTGGCGTAATATGAAAG
1 AAAGCCTTTGTGGCGTAATATGAAAG
* * * *
38013420 AAAACCTTTGTGCCGTAGTATGAAAA
1 AAAGCCTTTGTGGCGTAATATGAAAG
* *
38013446 AAAGCCTTTGTGGTGTAATATGGAAG
1 AAAGCCTTTGTGGCGTAATATGAAAG
*
38013472 AAAGCCTTTGTGGCGTAGTATGAAAG
1 AAAGCCTTTGTGGCGTAATATGAAAG
** *
38013498 AAAAACTTTGTGGCGTGATAT-AAATG
1 AAAGCCTTTGTGGCGTAATATGAAA-G
* *
38013524 AAAGCCTTTGTCGCGCAATATGAAAG
1 AAAGCCTTTGTGGCGTAATATGAAAG
*** * *
38013550 AACAATGTTTGTGGCGTAAAATGAATTG
1 AA-AGCCTTTGTGGCGTAATATGAA-AG
*
38013578 AAAGGCTTTGTGG
1 AAAGCCTTTGTGG
38013591 AAAACCATGA
Statistics
Matches: 159, Mismatches: 34, Indels: 7
0.80 0.17 0.04
Matches are distributed among these distances:
25 3 0.02
26 126 0.79
27 27 0.17
28 3 0.02
ACGTcount: A:0.34, C:0.11, G:0.27, T:0.28
Consensus pattern (26 bp):
AAAGCCTTTGTGGCGTAATATGAAAG
Found at i:38013886 original size:578 final size:575
Alignment explanation
Indices: 38012793--38013901 Score: 1618
Period size: 578 Copynumber: 1.9 Consensus size: 575
38012783 ATATGAAAGG
* * * * *
38012793 AAGCCTTTGTGGCGTAGTATGGAAGAAAGCCTTTGTGGCGTAATATGGAAGAAAGCATTTGTGGC
1 AAGCCTTTGTGGCGTAATATGAAAGAAAGCCTTTGTGGCGTAATATGAAAGAAAACATTTGTGCC
* * *
38012858 ATAGTATGAACAAAAGCATTTGTGGTGTAGTATGGAAGAAAGCCATTGTGGCGTAATATGGAAGA
66 ATAGTATGAAAAAAAGCATTTGTGGTGTAATATGGAAGAAAGCCATTGTGGCGTAATATGAAAGA
* * * *
38012923 AAGCTTTTATGGCATAGTATGAAAGAAAGCCTTTGTGGCGTAATATAAACTAAAGCCTTTGTGGC
131 AAACTTTTATGGCATAGTATGAAAGAAAGCCTTTGTCGCGCAATATAAACAAAAG-CTTTGTGGC
*
38012988 GTAAAATGAATTGAAAGCCTTTGTGGAAAACCATGAAAAAAAAGCCTTTGTGGTAAATCACAAGA
195 GTAAAATGAATTGAAAGCCTTTGTGGAAAACCATGAAAAAAAAGCCTTTGTGATAAATCACAAGA
* * *
38013053 TGAAAGCTTTTATGGCAGTCTCTGAAAGGAGATTCTCTTGGCGTGGAATGATAAGAATATTAATG
260 TGAAAGCTTTTATGGCAGTCTCTAAAAGGAGATGCTCTTGACGTGGAATGATAAGAATATTAATG
* * *
38013118 GCATATTATAAAAGATATCCTTTTCAGCGGATTCTATATCAAATTTTTTGGTGCATTGTCAAAAG
325 GCATACTATAAAAGATATCCTTGTCAGCGGATTCTATATCAAATTATTTGGTGCATTGTCAAAAG
* * * * *
38013183 AGGTATTTTGGGACTTTAAACACAAATTCTGAAAGGAAAAGTCCATGGCCATGGCACACTTTAAA
390 AGGTATATCGGGAATTTAAACACAAATTCTAAAAGGAAAAGTCCATGGCCATGGAACACTTTAAA
* *
38013248 GCAACTTAAAGGAAGGTTATTACCCAAAGGGGTTTTTTTGTGTGTCCCATGCGATGATGGGAAAA
455 GCAACTTAAAGGAAGGTTATTACCCAAAGAGGTTTTTTTGCGTGTCCCATGCGATGATGGGAAAA
38013313 CCTCACATAAGTGAGTTTAGGCAAATCAATATCACAAAAACACGAAAAATAATGAA
520 CCTCACATAAGTGAGTTTAGGCAAATCAATATCACAAAAACACGAAAAATAATGAA
* *
38013369 AAGCCTTTGTGGCGTAATATGAAAGGAAGCCTTTGTGGCGTAATATGAAAGAAAACCTTTGTGCC
1 AAGCCTTTGTGGCGTAATATGAAAGAAAGCCTTTGTGGCGTAATATGAAAGAAAACATTTGTGCC
* * * *
38013434 GTAGTATGAAAAAAAGCCTTTGTGGTGTAATATGGAAGAAAGCCTTTGTGGCGTAGTATGAAAGA
66 ATAGTATGAAAAAAAGCATTTGTGGTGTAATATGGAAGAAAGCCATTGTGGCGTAATATGAAAG-
* * *
38013499 AAAAC-TTTGTGGCGT-GATAT-AAATGAAAGCCTTTGTCGCGCAATATGAAAGAACAATG-TTT
130 AAAACTTTTATGGCATAG-TATGAAA-GAAAGCCTTTGTCGCGCAATAT-AAACAA-AA-GCTTT
* *
38013560 GTGGCGTAAAATGAATTGAAAGGCTTTGTGGAAAACCATGAAAAAAAAAGTCTTTGTGATAAATC
190 GTGGCGTAAAATGAATTGAAAGCCTTTGTGGAAAACCATG-AAAAAAAAGCCTTTGTGATAAATC
* *
38013625 ACAAGATGAAAGCTTTTATGGCTA-TCTCTAAAAGGAGATGCTCTTGATGTGTAATGATAAGAAT
254 ACAAGATGAAAGCTTTTATGGC-AGTCTCTAAAAGGAGATGCTCTTGACGTGGAATGATAAGAAT
* * * * *
38013689 CTTAATGGCGTACTGTAAAAGATATCCTCTGT-GGCGGATTCTATATCAAATTATTTGGTGTATT
318 ATTAATGGCATACTATAAAAGATATCCT-TGTCAGCGGATTCTATATCAAATTATTTGGTGCATT
* * ** *
38013753 GTCAACAGAGGTCTATCGGGAATTTAAACATGAATTCTAAAAGGAAAAGTCCATGGCTATGGAAC
382 GTCAAAAGAGGTATATCGGGAATTTAAACACAAATTCTAAAAGGAAAAGTCCATGGCCATGGAAC
* * *
38013818 TCTTTAAAGGAACTTAAAGGAAGGTTATTACCCAAAGAGGTTTTTTTGCGTGTCTCATGCGATGA
447 ACTTTAAAGCAACTTAAAGGAAGGTTATTACCCAAAGAGGTTTTTTTGCGTGTCCCATGCGATGA
38013883 TGGGAAAACCTCACATAAG
512 TGGGAAAACCTCACATAAG
38013902 AATAGCCTTT
Statistics
Matches: 472, Mismatches: 52, Indels: 16
0.87 0.10 0.03
Matches are distributed among these distances:
575 4 0.01
576 146 0.31
577 50 0.11
578 268 0.57
579 4 0.01
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (575 bp):
AAGCCTTTGTGGCGTAATATGAAAGAAAGCCTTTGTGGCGTAATATGAAAGAAAACATTTGTGCC
ATAGTATGAAAAAAAGCATTTGTGGTGTAATATGGAAGAAAGCCATTGTGGCGTAATATGAAAGA
AAACTTTTATGGCATAGTATGAAAGAAAGCCTTTGTCGCGCAATATAAACAAAAGCTTTGTGGCG
TAAAATGAATTGAAAGCCTTTGTGGAAAACCATGAAAAAAAAGCCTTTGTGATAAATCACAAGAT
GAAAGCTTTTATGGCAGTCTCTAAAAGGAGATGCTCTTGACGTGGAATGATAAGAATATTAATGG
CATACTATAAAAGATATCCTTGTCAGCGGATTCTATATCAAATTATTTGGTGCATTGTCAAAAGA
GGTATATCGGGAATTTAAACACAAATTCTAAAAGGAAAAGTCCATGGCCATGGAACACTTTAAAG
CAACTTAAAGGAAGGTTATTACCCAAAGAGGTTTTTTTGCGTGTCCCATGCGATGATGGGAAAAC
CTCACATAAGTGAGTTTAGGCAAATCAATATCACAAAAACACGAAAAATAATGAA
Found at i:38018916 original size:57 final size:56
Alignment explanation
Indices: 38018855--38018980 Score: 137
Period size: 57 Copynumber: 2.2 Consensus size: 56
38018845 CCTTTATGGA
** * * *
38018855 AAAACTCTGAAAAGGG-AAGCCTTTGTGGCGAACTTGTTAAAGGATGGCCTTTGCGGC
1 AAAACTCT-AAAAGGGTAAGCCTTCATGGCAAACCTCTTAAAGGAT-GCCTTTGCGGC
* * *
38018912 AAAACTCTAGAAGGGTAAGCCTTCATGGCAAACCTCTTCAAGGATGCCTTTGTGGC
1 AAAACTCTAAAAGGGTAAGCCTTCATGGCAAACCTCTTAAAGGATGCCTTTGCGGC
* *
38018968 AAGACTCTTAAAG
1 AAAACTCTAAAAG
38018981 TAAAGCCTTT
Statistics
Matches: 57, Mismatches: 11, Indels: 3
0.80 0.15 0.04
Matches are distributed among these distances:
56 26 0.46
57 31 0.54
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (56 bp):
AAAACTCTAAAAGGGTAAGCCTTCATGGCAAACCTCTTAAAGGATGCCTTTGCGGC
Found at i:38025157 original size:57 final size:53
Alignment explanation
Indices: 38025066--38025204 Score: 127
Period size: 57 Copynumber: 2.5 Consensus size: 53
38025056 CCTTTATGGA
* * * *
38025066 AAAACTCTGAAAAGGGAAGCCTTTGTGGCGAACCTGTT-AGAGGATGGCCTTTGCGGC
1 AAAACTCT--AAAGGGAAGCC-TTATGGCAAACCTCTTCA-AGGAT-GACTTTGCGGC
*
38025123 AAAACTCTAGAAGGGTAAGCCTTCATGGCAAACCTCTTCAAGGATGACTTTGTGGC
1 AAAACTCTA-AAGGG-AAGCCTT-ATGGCAAACCTCTTCAAGGATGACTTTGCGGC
* *
38025179 AAGACTCTAAACGGAAAGCCTTATGG
1 AAAACTCTAAA-GGGAAGCCTTATGG
38025205 TGAATATTTA
Statistics
Matches: 70, Mismatches: 7, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
54 4 0.06
55 10 0.14
56 26 0.37
57 29 0.41
58 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (53 bp):
AAAACTCTAAAGGGAAGCCTTATGGCAAACCTCTTCAAGGATGACTTTGCGGC
Found at i:38031993 original size:57 final size:57
Alignment explanation
Indices: 38031920--38032051 Score: 160
Period size: 57 Copynumber: 2.3 Consensus size: 57
38031910 AAAACAACTA
* * * * * *
38031920 TTAAATGACAGTCTTTGTGCCAGAACTCTAGAAAGGC-AAGCCTTTGTGGCGAACCTG
1 TTAAATGATAGCCTTTGTGCCAAAACTCTAG-AAGGCTAAGCCTTCGTGGCAAACCTC
**
38031977 TTAAATGATAGCCTTTGTGGTAAAACTCTAGAAGGCTAAGCCTTCGTGGCAAACCTC
1 TTAAATGATAGCCTTTGTGCCAAAACTCTAGAAGGCTAAGCCTTCGTGGCAAACCTC
*
38032034 TTAAATGAT-GCTTTTGTG
1 TTAAATGATAGCCTTTGTG
38032052 GCGAGACTCT
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
56 13 0.20
57 52 0.80
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (57 bp):
TTAAATGATAGCCTTTGTGCCAAAACTCTAGAAGGCTAAGCCTTCGTGGCAAACCTC
Found at i:38039410 original size:52 final size:52
Alignment explanation
Indices: 38039332--38039498 Score: 226
Period size: 52 Copynumber: 3.2 Consensus size: 52
38039322 TAAGGAAAAA
* * *
38039332 CCTTTGTGGTGTAGTATGAAAGAAAGCCTTTATGGCGTAGTATGAAAGAAAG
1 CCTTTGTGGTGTAATATGAAAGAAAGCCTTTGTGGCGTAATATGAAAGAAAG
*
38039384 CCTTTGTGGTGTAATATGAAAGAAAGCCTTTGTGGCGTAATATGAAAGAATG
1 CCTTTGTGGTGTAATATGAAAGAAAGCCTTTGTGGCGTAATATGAAAGAAAG
* * * * * *
38039436 CCTTTGAGGTGCAATATGAAAGAGTAGCCTTTGTGGCATAAAATGAATTGAAAG
1 CCTTTGTGGTGTAATATGAAAGA-AAGCCTTTGTGGCGTAATATGAA-AGAAAG
38039490 CCTTTGTGG
1 CCTTTGTGG
38039499 CAAACCATGA
Statistics
Matches: 101, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
52 69 0.68
53 20 0.20
54 12 0.12
ACGTcount: A:0.32, C:0.11, G:0.28, T:0.30
Consensus pattern (52 bp):
CCTTTGTGGTGTAATATGAAAGAAAGCCTTTGTGGCGTAATATGAAAGAAAG
Found at i:38039481 original size:27 final size:26
Alignment explanation
Indices: 38039332--38039499 Score: 201
Period size: 26 Copynumber: 6.4 Consensus size: 26
38039322 TAAGGAAAAA
* *
38039332 CCTTTGTGGTGTAGTATGAAAGAAAG
1 CCTTTGTGGCGTAATATGAAAGAAAG
* *
38039358 CCTTTATGGCGTAGTATGAAAGAAAG
1 CCTTTGTGGCGTAATATGAAAGAAAG
*
38039384 CCTTTGTGGTGTAATATGAAAGAAAG
1 CCTTTGTGGCGTAATATGAAAGAAAG
*
38039410 CCTTTGTGGCGTAATATGAAAGAATG
1 CCTTTGTGGCGTAATATGAAAGAAAG
* * * *
38039436 CCTTTGAGGTGCAATATGAAAGAGTAG
1 CCTTTGTGGCGTAATATGAAAGA-AAG
* * *
38039463 CCTTTGTGGCATAAAATGAATTGAAAG
1 CCTTTGTGGCGTAATATGAA-AGAAAG
38039490 CCTTTGTGGC
1 CCTTTGTGGC
38039500 AAACCATGAA
Statistics
Matches: 121, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
26 91 0.75
27 28 0.23
28 2 0.02
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.30
Consensus pattern (26 bp):
CCTTTGTGGCGTAATATGAAAGAAAG
Found at i:38039508 original size:27 final size:27
Alignment explanation
Indices: 38039350--38039519 Score: 116
Period size: 26 Copynumber: 6.4 Consensus size: 27
38039340 GTGTAGTATG
* * **
38039350 AAAGAAAGCCTTTATGGCGTAGTATG-
1 AAAGAAAGCCTTTGTGGCATAAAATGA
** *
38039376 AAAGAAAGCCTTTGTGGTGTAATATG-
1 AAAGAAAGCCTTTGTGGCATAAAATGA
* *
38039402 AAAGAAAGCCTTTGTGGCGTAATATG-
1 AAAGAAAGCCTTTGTGGCATAAAATGA
* * *** *
38039428 AAAGAATGCCTTTGAGGTGCAATATG-
1 AAAGAAAGCCTTTGTGGCATAAAATGA
*
38039454 AAAGAGTAGCCTTTGTGGCATAAAATGA
1 AAAGA-AAGCCTTTGTGGCATAAAATGA
** *
38039482 ATTGAAAGCCTTTGTGGCA-AACCATGA
1 AAAGAAAGCCTTTGTGGCATAA-AATGA
38039509 AAAGAAAGCCT
1 AAAGAAAGCCT
38039520 CTTTGGTAAA
Statistics
Matches: 120, Mismatches: 21, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
26 77 0.64
27 40 0.33
28 3 0.03
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.26
Consensus pattern (27 bp):
AAAGAAAGCCTTTGTGGCATAAAATGA
Found at i:38041112 original size:4 final size:4
Alignment explanation
Indices: 38041103--38041129 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
38041093 CTGGTTTTCT
38041103 TTAG TTAG TTAG TTAG TTAG TTAG TTA
1 TTAG TTAG TTAG TTAG TTAG TTAG TTA
38041130 ACATTATAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TTAG
Found at i:38061565 original size:8 final size:8
Alignment explanation
Indices: 38061549--38061579 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
38061539 AGCCATGCCA
38061549 AATTTAAC
1 AATTTAAC
*
38061557 AACTTAAC
1 AATTTAAC
38061565 AATTTAAC
1 AATTTAAC
38061573 AATTTAA
1 AATTTAA
38061580 TCTTTAAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (8 bp):
AATTTAAC
Found at i:38062719 original size:18 final size:18
Alignment explanation
Indices: 38062686--38062735 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
38062676 ATTCACCTAA
*
38062686 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
* *
38062705 ATCCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
*
38062723 ACCCAAGCCAACC
1 ACCCAACCCAACC
38062736 TAATCATAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 21 0.81
19 5 0.19
ACGTcount: A:0.40, C:0.46, G:0.04, T:0.10
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:38064597 original size:26 final size:26
Alignment explanation
Indices: 38064566--38064760 Score: 200
Period size: 26 Copynumber: 7.5 Consensus size: 26
38064556 CAGATAAGGA
*
38064566 AAAGCCTTTGTGGCGTAGTATGAAAG
1 AAAGCCTTTGTGGCGTAATATGAAAG
*
38064592 AAAGCCTTTGT---GTAGTATGAAAG
1 AAAGCCTTTGTGGCGTAATATGAAAG
38064615 AAAGCCTTTGTGGCGTAATATGAAAG
1 AAAGCCTTTGTGGCGTAATATGAAAG
* * *
38064641 AAAGCCCTTGTGGCATAATTTGAAAG
1 AAAGCCTTTGTGGCGTAATATGAAAG
* * * *
38064667 AAAGCCTTTGTAGTGAAATATAAAAG
1 AAAGCCTTTGTGGCGTAATATGAAAG
* *
38064693 AATAGCCTTTGTGGCGTAAAATGAATTG
1 AA-AGCCTTTGTGGCGTAATATGAA-AG
* *
38064721 AAAGCCTTTGTGGC-AAACCATGAAAAG
1 AAAGCCTTTGTGGCGTAA-TATG-AAAG
*
38064748 AAAGCCTCTGTGG
1 AAAGCCTTTGTGG
38064761 TAAATCACGA
Statistics
Matches: 141, Mismatches: 21, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
23 23 0.16
26 68 0.48
27 45 0.32
28 5 0.04
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (26 bp):
AAAGCCTTTGTGGCGTAATATGAAAG
Found at i:38064638 original size:49 final size:50
Alignment explanation
Indices: 38064566--38064734 Score: 178
Period size: 49 Copynumber: 3.3 Consensus size: 50
38064556 CAGATAAGGA
* *
38064566 AAAGCCTTTGTGGCGTAGTATGAAAGAAAGCCTTTGTG-TAGTATGAAAG
1 AAAGCCTTTGTGGCGTAATATGAAAGAAAGCCTTTGTGATAATATGAAAG
* *
38064615 AAAGCCTTTGTGGCGTAATATGAAAGAAAGCCCTTGTGGCATAATTTGAAAG
1 AAAGCCTTTGTGGCGTAATATGAAAGAAAGCCTTTGT-G-ATAATATGAAAG
* * * * * * *
38064667 AAAGCCTTTGTAGTGAAATATAAAAGAATAGCCTTTGTGGCGTAAAATGAATTG
1 AAAGCCTTTGTGGCGTAATATGAAAGAA-AGCCTTTGT-G-ATAATATGAA-AG
38064721 AAAGCCTTTGTGGC
1 AAAGCCTTTGTGGC
38064735 AAACCATGAA
Statistics
Matches: 100, Mismatches: 15, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
49 35 0.35
50 1 0.01
52 33 0.33
53 18 0.18
54 13 0.13
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.28
Consensus pattern (50 bp):
AAAGCCTTTGTGGCGTAATATGAAAGAAAGCCTTTGTGATAATATGAAAG
Found at i:38064777 original size:27 final size:27
Alignment explanation
Indices: 38064719--38064777 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
38064709 TAAAATGAAT
* *
38064719 TGAAAGCCTTTGTGGCAAACCATGAAA
1 TGAAAGCCTCTGTGGCAAACCACGAAA
* * * *
38064746 AGAAAGCCTCTGTGGTAAATCACGAGA
1 TGAAAGCCTCTGTGGCAAACCACGAAA
38064773 TGAAA
1 TGAAA
38064778 ACTTTTGTAG
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (27 bp):
TGAAAGCCTCTGTGGCAAACCACGAAA
Found at i:38068895 original size:12 final size:12
Alignment explanation
Indices: 38068880--38068904 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38068870 ATAAAAATTA
38068880 AATATATTTTTT
1 AATATATTTTTT
38068892 AATATATTTTTT
1 AATATATTTTTT
38068904 A
1 A
38068905 CGATAAAGTT
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
AATATATTTTTT
Found at i:38072053 original size:52 final size:52
Alignment explanation
Indices: 38071950--38072059 Score: 157
Period size: 52 Copynumber: 2.1 Consensus size: 52
38071940 AAATTTGTTG
* * *
38071950 ACTTTTTTCTATTTATGATCAAATTGATAGAATGTGTAAACATGAGGGGGCT
1 ACTTTTTTATATTTAGGATCAAATTGATAGAATGTGTAAACATGAGAGGGCT
* * *
38072002 ACTTTTTTATATTTAGGATCAAATTGATAGAATGTGTAAATATTATAGGGCT
1 ACTTTTTTATATTTAGGATCAAATTGATAGAATGTGTAAACATGAGAGGGCT
*
38072054 AATTTT
1 ACTTTT
38072060 GTTACTAGAT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (52 bp):
ACTTTTTTATATTTAGGATCAAATTGATAGAATGTGTAAACATGAGAGGGCT
Found at i:38074849 original size:29 final size:31
Alignment explanation
Indices: 38074816--38074891 Score: 93
Period size: 29 Copynumber: 2.5 Consensus size: 31
38074806 TTTACCTCAA
38074816 GTTACATTTTAGTCACTTAT-AT-TTGGAAT
1 GTTACATTTTAGTCACTTATGATATTGGAAT
* * * *
38074845 GTTACGTTTTAGTCACTTATGTTATTGTATT
1 GTTACATTTTAGTCACTTATGATATTGGAAT
*
38074876 GTAACATTTTAGTCAC
1 GTTACATTTTAGTCAC
38074892 CGAGCCATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 19 0.49
30 1 0.03
31 19 0.49
ACGTcount: A:0.25, C:0.12, G:0.14, T:0.49
Consensus pattern (31 bp):
GTTACATTTTAGTCACTTATGATATTGGAAT
Found at i:38074889 original size:31 final size:29
Alignment explanation
Indices: 38074819--38074891 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 29
38074809 ACCTCAAGTT
*
38074819 ACATTTTAGTCACTTATATTTGGAATGTT
1 ACATTTTAGTCACTTATATTTGGAATGTA
* * * *
38074848 ACGTTTTAGTCACTTATGTTATTGTATTGTA
1 ACATTTTAGTCACTTAT-AT-TTGGAATGTA
38074879 ACATTTTAGTCAC
1 ACATTTTAGTCAC
38074892 CGAGCCATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
29 16 0.44
30 1 0.03
31 19 0.53
ACGTcount: A:0.26, C:0.12, G:0.14, T:0.48
Consensus pattern (29 bp):
ACATTTTAGTCACTTATATTTGGAATGTA
Found at i:38078162 original size:16 final size:17
Alignment explanation
Indices: 38078136--38078168 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
38078126 ATAAATGGCT
38078136 AAAAATGATTTTTTAAA
1 AAAAATGATTTTTTAAA
38078153 AAAAAT-ATTTTTTAAA
1 AAAAATGATTTTTTAAA
38078169 GTTTTTAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
AAAAATGATTTTTTAAA
Found at i:38079834 original size:26 final size:27
Alignment explanation
Indices: 38079805--38079880 Score: 84
Period size: 26 Copynumber: 2.9 Consensus size: 27
38079795 ATTTCGAATA
38079805 GTATATGTATATATATTATAAAAAAT-
1 GTATATGTATATATATTATAAAAAATG
* *
38079831 GTATATATATATGA-ATTATAAAATATG
1 GTATATGTATAT-ATATTATAAAAAATG
* * *
38079858 GAAAATGTATAAATATTATAAAA
1 GTATATGTATATATATTATAAAA
38079881 TATAAATGTA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
26 23 0.56
27 18 0.44
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (27 bp):
GTATATGTATATATATTATAAAAAATG
Found at i:38079892 original size:24 final size:24
Alignment explanation
Indices: 38079809--38079894 Score: 82
Period size: 24 Copynumber: 3.4 Consensus size: 24
38079799 CGAATAGTAT
* **
38079809 ATGTATATATATTATAAAAAATGT
1 ATGTATATATATTATAAAATATAA
*
38079833 ATATATATATGAATTATAAAATATGGAAA
1 ATGTATATAT--ATTATAAAATAT---AA
*
38079862 ATGTATAAATATTATAAAATATAA
1 ATGTATATATATTATAAAATATAA
38079886 ATGTATATA
1 ATGTATATA
38079895 CATATATATG
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
24 19 0.38
26 11 0.22
27 12 0.24
29 8 0.16
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.38
Consensus pattern (24 bp):
ATGTATATATATTATAAAATATAA
Found at i:38081555 original size:116 final size:116
Alignment explanation
Indices: 38081341--38081569 Score: 352
Period size: 116 Copynumber: 2.0 Consensus size: 116
38081331 GAGACAGGAT
*
38081341 CTACAATCTTCAACCTACTTCACTACTGCTCAGGGAGAAGGGATTGATGGCTTAAATATGCTTCC
1 CTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGAAGGGATTGATGGCTTAAATATGCTTCC
* * * *
38081406 CTACTACCTTGGGAAGATAGGATTTGCCATCTTCGATCTGCTCCACTATTG
66 CTAATACCTTGGGAAGATAAGATTCGCCATCTTCGATCTGCCCCACTATTG
* * *
38081457 CTACAATCTTCAACCTACTCCACTACTGCTTAGGGAGATA-GGATTGGTGGCTTAAATTTGCTTC
1 CTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGA-AGGGATTGATGGCTTAAATATGCTTC
* *
38081521 CCTAATACCTTGGGAAGATAAGATTCGTCGTCTTCGATCTGCCCCACTA
65 CCTAATACCTTGGGAAGATAAGATTCGCCATCTTCGATCTGCCCCACTA
38081570 CTGCAGAATC
Statistics
Matches: 102, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
116 101 0.99
117 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (116 bp):
CTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGAAGGGATTGATGGCTTAAATATGCTTCC
CTAATACCTTGGGAAGATAAGATTCGCCATCTTCGATCTGCCCCACTATTG
Found at i:38081760 original size:96 final size:96
Alignment explanation
Indices: 38081596--38081788 Score: 271
Period size: 96 Copynumber: 2.0 Consensus size: 96
38081586 CTTTGACCTA
* * *** *
38081596 CTCCACTGCTGCTCAGGGAGATAGGACTGGTGTCTTCGATCTACTTCGCTGCCAGCACAAGAAGA
1 CTCCACTGCTACTCAGGGAGATAAGACTGGCCACTTCGATCTACTTCGCTGCCAACACAAGAAGA
*
38081661 CAAGATTTGCTATCTTTGATCTACTTCGCTG
66 CAAGATCTGCTATCTTTGATCTACTTCGCTG
* * * *
38081692 CTCCACTGCTACTCAGGGAGATAAGACT-GCCACATTTGATCTACTTCGCTGCCAATATAGGAAG
1 CTCCACTGCTACTCAGGGAGATAAGACTGGCCAC-TTCGATCTACTTCGCTGCCAACACAAGAAG
38081756 ACAAGATCTGCTATCTTTGATCTACTTCGCTG
65 ACAAGATCTGCTATCTTTGATCTACTTCGCTG
38081788 C
1 C
38081789 CAATACAGGA
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
95 2 0.02
96 83 0.98
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (96 bp):
CTCCACTGCTACTCAGGGAGATAAGACTGGCCACTTCGATCTACTTCGCTGCCAACACAAGAAGA
CAAGATCTGCTATCTTTGATCTACTTCGCTG
Found at i:38081898 original size:90 final size:90
Alignment explanation
Indices: 38081729--38081899 Score: 270
Period size: 90 Copynumber: 1.9 Consensus size: 90
38081719 TGCCACATTT
* * * * *
38081729 GATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGCTATCTTTGATCTACTTCGCTGCCAATA
1 GATCTACTACACTACCAATATAGGAAGACAAGATCTACTATCTTTGATCTACTTCACTGCCAATA
**
38081794 CAGGAAGATTAGATCTATTATCTTC
66 CAGGAAGACAAGATCTATTATCTTC
*
38081819 GATCTACTACACTACCAATATATGAAGACAAGATCTACTATCTTTGATCTACTTCACTGCCAATA
1 GATCTACTACACTACCAATATAGGAAGACAAGATCTACTATCTTTGATCTACTTCACTGCCAATA
38081884 CAGGAAGACAAGATCT
66 CAGGAAGACAAGATCT
38081900 GCTATTTTCA
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
90 73 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.30
Consensus pattern (90 bp):
GATCTACTACACTACCAATATAGGAAGACAAGATCTACTATCTTTGATCTACTTCACTGCCAATA
CAGGAAGACAAGATCTATTATCTTC
Found at i:38081923 original size:45 final size:45
Alignment explanation
Indices: 38081726--38081904 Score: 241
Period size: 45 Copynumber: 4.0 Consensus size: 45
38081716 GACTGCCACA
* * *
38081726 TTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGCTATC
1 TTTGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACTATC
* ** *
38081771 TTTGATCTACTTCGCTGCCAATACAGGAAGATTAGATCTATTATC
1 TTTGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACTATC
* * * * *
38081816 TTCGATCTACTACACTACCAATATATGAAGACAAGATCTACTATC
1 TTTGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACTATC
*
38081861 TTTGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTAT
1 TTTGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACTAT
38081905 TTTCAACCTG
Statistics
Matches: 114, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 114 1.00
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (45 bp):
TTTGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACTATC
Found at i:38082392 original size:88 final size:87
Alignment explanation
Indices: 38082237--38082457 Score: 273
Period size: 88 Copynumber: 2.5 Consensus size: 87
38082227 TCTAGTTCAA
* * * * * * *
38082237 CTGCTTCGCTACAACCCAGGGGGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAAGA
1 CTGCTTCGCTGCAA-CCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCAGTACAAGA
* *
38082302 AGGCAAGATCTGCTATTTTTAAC
65 AGGCAAGATCTACTATCTTTAAC
* *
38082325 CTGCTTCGCTGCAACTCAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTCAGTACAGGA
1 CTGCTTCGCTGCAAC-CAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCAGTACAAGA
*
38082390 AGGTAAGATCTACTATCTTTAAC
65 AGGCAAGATCTACTATCTTTAAC
* *
38082413 CTG-TCCTGCTGCAACCGAGAGAGGCAAGGCTAGTGTCTTCGATCT
1 CTGCTTC-GCTGCAACC-AGGGAGGCAAGGCTAGTGTCTTCGATCT
38082458 ACTCCACTAC
Statistics
Matches: 115, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
87 4 0.03
88 111 0.97
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (87 bp):
CTGCTTCGCTGCAACCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCAGTACAAGAA
GGCAAGATCTACTATCTTTAAC
Found at i:38082599 original size:44 final size:43
Alignment explanation
Indices: 38082456--38082599 Score: 121
Period size: 44 Copynumber: 3.3 Consensus size: 43
38082446 TGTCTTCGAT
* *
38082456 CTACTCCACTACTGCTTAGGGAGATAACATCTGTAATTTTCAAC
1 CTACTCCACTACTGCTTAGGGAGATAAGATCTGTAA-TTTCAGC
* * * * * * ** * *
38082500 CTACTCCGCTGCTACTCAGGGAAATAAG-GCTGGGGACTTC-GAT
1 CTACTCCACTACTGCTTAGGGAGATAAGATCT-GTAATTTCAG-C
*
38082543 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTCTCAGC
1 CTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATT-TCAGC
38082587 CTACTCCACTACT
1 CTACTCCACTACT
38082600 ACTCAAGGAG
Statistics
Matches: 71, Mismatches: 24, Indels: 10
0.68 0.23 0.10
Matches are distributed among these distances:
43 30 0.42
44 40 0.56
45 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (43 bp):
CTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCAGC
Found at i:38082639 original size:44 final size:44
Alignment explanation
Indices: 38082547--38082894 Score: 228
Period size: 44 Copynumber: 7.9 Consensus size: 44
38082537 TTCGATCTGC
* * * *
38082547 TCCACTACTG-CTTAGGGAGATAAGA-TCTGTAAT-TCTCAGCCTAC
1 TCCACTACTGAC-CAGGGAGATAAGATTC-GTAATCT-TCAACTTAT
* * *** *
38082591 TCCACTACT-ACTCAAGGAGATAGGATTCACGATCTTCCACTTAT
1 TCCACTACTGAC-CAGGGAGATAAGATTCGTAATCTTCAACTTAT
** *
38082635 TCCACTGTTGACCAGGGAGATAACATTCGTAATCTTCAACTTAT
1 TCCACTACTGACCAGGGAGATAAGATTCGTAATCTTCAACTTAT
* *
38082679 TCCACTATTGACCAGGGAGATAAGATTCGTAATCTTCAACCTAT
1 TCCACTACTGACCAGGGAGATAAGATTCGTAATCTTCAACTTAT
* * * *
38082723 TCCACTGCT-ACCCAGGGAGATAGGACTT-GCAATCTTCAACCTAT
1 TCCACTACTGA-CCAGGGAGATAAGA-TTCGTAATCTTCAACTTAT
* * * *
38082767 TCTACTGCTG-CTCAGGGAGATAAG-TCTTGTAATCTTCAACCTAT
1 TCCACTACTGAC-CAGGGAGATAAGAT-TCGTAATCTTCAACTTAT
* * * * ** *
38082811 TCCACTACTGTCTAGGGAGATAGGACTCACAATCTTCAACCTAT
1 TCCACTACTGACCAGGGAGATAAGATTCGTAATCTTCAACTTAT
* * * * **
38082855 TTCGCTGCT-ATCCAGGGAGATAGGATTCACAATCTTCAAC
1 TCCACTACTGA-CCAGGGAGATAAGATTCGTAATCTTCAAC
38082895 CTATGTCGCT
Statistics
Matches: 248, Mismatches: 43, Indels: 26
0.78 0.14 0.08
Matches are distributed among these distances:
42 1 0.00
43 3 0.01
44 236 0.95
45 8 0.03
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (44 bp):
TCCACTACTGACCAGGGAGATAAGATTCGTAATCTTCAACTTAT
Found at i:38082727 original size:132 final size:129
Alignment explanation
Indices: 38082547--38082898 Score: 365
Period size: 132 Copynumber: 2.7 Consensus size: 129
38082537 TTCGATCTGC
* * * * *
38082547 TCCACTACTG-CTTAGGGAGATAAGATCTGTAAT-TCTCAGCCTACTCCACTACTACTCAAGGAG
1 TCCACTACTGAC-CAGGGAGATAAGATC-GTAATCT-TCAACCTATTCCACTGCTACTCAGGGAG
* * *
38082610 ATAGGATTCACGATCTTCCACTTATTCCACTGTTGAC-CAGGGAGATAA-CATTCGTAATCTTCA
63 ATAGGATTCAC-ATCTTCAACCTATTCCACTGCTG-CTCAGGGAGATAAGC-TT-GTAATCTTCA
*
38082673 ACTTAT
124 ACCTAT
* *
38082679 TCCACTATTGACCAGGGAGATAAGATTCGTAATCTTCAACCTATTCCACTGCTACCCAGGGAGAT
1 TCCACTACTGACCAGGGAGATAAGA-TCGTAATCTTCAACCTATTCCACTGCTACTCAGGGAGAT
*
38082744 AGGACTTGCA-ATCTTCAACCTATTCTACTGCTGCTCAGGGAGATAAGTCTTGTAATCTTCAACC
65 AGGA-TT-CACATCTTCAACCTATTCCACTGCTGCTCAGGGAGATAAG-CTTGTAATCTTCAACC
38082808 TAT
127 TAT
* * * ** * *
38082811 TCCACTACTGTCTAGGGAGATAGGACTCACAATCTTCAACCTATTTCGCTGCTA-TCCAGGGAGA
1 TCCACTACTGACCAGGGAGATAAGA-TCGTAATCTTCAACCTATTCCACTGCTACT-CAGGGAGA
38082875 TAGGATTCACAATCTTCAACCTAT
64 TAGGATTCAC-ATCTTCAACCTAT
38082899 GTCGCTATTG
Statistics
Matches: 187, Mismatches: 22, Indels: 22
0.81 0.10 0.10
Matches are distributed among these distances:
130 2 0.01
131 3 0.02
132 171 0.91
133 8 0.04
134 3 0.02
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (129 bp):
TCCACTACTGACCAGGGAGATAAGATCGTAATCTTCAACCTATTCCACTGCTACTCAGGGAGATA
GGATTCACATCTTCAACCTATTCCACTGCTGCTCAGGGAGATAAGCTTGTAATCTTCAACCTAT
Found at i:38082895 original size:44 final size:44
Alignment explanation
Indices: 38082606--38082935 Score: 267
Period size: 44 Copynumber: 7.5 Consensus size: 44
38082596 TACTACTCAA
* * * *
38082606 GGAGATAGGATTCACGATCTTCCACTTATTCCACTGTTGA-CCAG
1 GGAGATAGGATTCACAATCTTCAACCTATTCCACTGCT-ATCCAG
** ** * **
38082650 GGAGATAACATTCGTAATCTTCAACTTATTCCACTATTGA-CCAG
1 GGAGATAGGATTCACAATCTTCAACCTATTCCACTGCT-ATCCAG
* ** *
38082694 GGAGATAAGATTCGTAATCTTCAACCTATTCCACTGCTACCCAG
1 GGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTATCCAG
* * *
38082738 GGAGATAGGACTT-GCAATCTTCAACCTATTCTACTGCT-GCTCAG
1 GGAGATAGGA-TTCACAATCTTCAACCTATTCCACTGCTATC-CAG
* *** * * *
38082782 GGAGATAAG-TCTTGTAATCTTCAACCTATTCCACTACTGTCTAG
1 GGAGATAGGAT-TCACAATCTTCAACCTATTCCACTGCTATCCAG
* * *
38082826 GGAGATAGGACTCACAATCTTCAACCTATTTCGCTGCTATCCAG
1 GGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTATCCAG
* ** * *
38082870 GGAGATAGGATTCACAATCTTCAACCTATGT-CGCTATTGTCCAA
1 GGAGATAGGATTCACAATCTTCAACCTAT-TCCACTGCTATCCAG
38082914 GGAGATAGGATTCACAATCTTC
1 GGAGATAGGATTCACAATCTTC
38082936 GATCTATTTC
Statistics
Matches: 242, Mismatches: 36, Indels: 16
0.82 0.12 0.05
Matches are distributed among these distances:
42 1 0.00
43 3 0.01
44 234 0.97
45 4 0.02
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (44 bp):
GGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTATCCAG
Found at i:38082933 original size:132 final size:130
Alignment explanation
Indices: 38082586--38082935 Score: 346
Period size: 132 Copynumber: 2.6 Consensus size: 130
38082576 TAATTCTCAG
* * * * * * * * *
38082586 CCTACTCCACTACTACTCAAGGAGATAGGATTCACGATCTTCCACTTATTCCACTGTTGACCAGG
1 CCTATTCCACTGCTACCCAGGGAGATAGGATTCACAATCTTCAACCTATT-C-CTATTGTCCAGG
* * * * **
38082651 GAGATAACATTCGTAATCTTCAACTTATTCCACTATTGACCAGGGAGATAAGATTCGTAATCTTC
64 GAGATAAGATTCGTAATCTTCAACCTATTCCACTACTGACCAGGGAGATAAGACTCACAATCTTC
38082716 AA
129 AA
* *
38082718 CCTATTCCACTGCTACCCAGGGAGATAGGACTT-GCAATCTTCAACCTATT-CTACTGCTGCTCA
1 CCTATTCCACTGCTACCCAGGGAGATAGGA-TTCACAATCTTCAACCTATTCCTATTG-T-C-CA
* * * *
38082781 GGGAGATAAG-TCTTGTAATCTTCAACCTATTCCACTACTGTCTAGGGAGATAGGACTCACAATC
62 GGGAGATAAGAT-TCGTAATCTTCAACCTATTCCACTACTGACCAGGGAGATAAGACTCACAATC
38082845 TTCAA
126 TTCAA
* * * *
38082850 CCTATTTCGCTGCTATCCAGGGAGATAGGATTCACAATCTTCAACCTATGTCGCTATTGTCCAAG
1 CCTATTCCACTGCTACCCAGGGAGATAGGATTCACAATCTTCAACCTAT-TC-CTATTGTCCAGG
* **
38082915 GAGATAGGATTCACAATCTTC
64 GAGATAAGATTCGTAATCTTC
38082936 GATCTATTTC
Statistics
Matches: 177, Mismatches: 31, Indels: 20
0.78 0.14 0.09
Matches are distributed among these distances:
129 4 0.02
131 4 0.02
132 158 0.89
133 5 0.03
134 1 0.01
135 5 0.03
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (130 bp):
CCTATTCCACTGCTACCCAGGGAGATAGGATTCACAATCTTCAACCTATTCCTATTGTCCAGGGA
GATAAGATTCGTAATCTTCAACCTATTCCACTACTGACCAGGGAGATAAGACTCACAATCTTCAA
Found at i:38084950 original size:57 final size:57
Alignment explanation
Indices: 38084862--38084978 Score: 216
Period size: 57 Copynumber: 2.1 Consensus size: 57
38084852 GGCTCTCATC
* *
38084862 TGAAATGGATTCCAATTCTTTAATATACCCTGCAATAAACCCTGATATATCTTGAAT
1 TGAAATGGATTCCAATTCTTTAATACACCCTGCAATAAACCCTAATATATCTTGAAT
38084919 TGAAATGGATTCCAATTCTTTAATACACCCTGCAATAAACCCTAATATATCTTGAAT
1 TGAAATGGATTCCAATTCTTTAATACACCCTGCAATAAACCCTAATATATCTTGAAT
38084976 TGA
1 TGA
38084979 TTGTTTGATA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (57 bp):
TGAAATGGATTCCAATTCTTTAATACACCCTGCAATAAACCCTAATATATCTTGAAT
Found at i:38087947 original size:20 final size:20
Alignment explanation
Indices: 38087922--38087967 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
38087912 CAGATGGCCA
38087922 TAAATATGCTGCCTCCACCC
1 TAAATATGCTGCCTCCACCC
38087942 TAAATATGCTGCCTCCACCC
1 TAAATATGCTGCCTCCACCC
38087962 TAAATA
1 TAAATA
38087968 CAAACCACCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.30, C:0.35, G:0.09, T:0.26
Consensus pattern (20 bp):
TAAATATGCTGCCTCCACCC
Found at i:38089478 original size:10 final size:10
Alignment explanation
Indices: 38089463--38089490 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
38089453 ATTTATTAAC
38089463 AAACACATTA
1 AAACACATTA
38089473 AAACACATTA
1 AAACACATTA
38089483 AAACACAT
1 AAACACAT
38089491 ATTAGACTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.61, C:0.21, G:0.00, T:0.18
Consensus pattern (10 bp):
AAACACATTA
Found at i:38089620 original size:19 final size:19
Alignment explanation
Indices: 38089593--38089685 Score: 77
Period size: 19 Copynumber: 5.1 Consensus size: 19
38089583 TTATTCCAGC
*
38089593 AACTAAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
38089612 AACTTAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
* *** *
38089631 -A-GTAATTTGTTCCAG--G
1 AACTTAATTAACT-AAGATG
*
38089647 AACTTAATTAACTAAAATG
1 AACTTAATTAACTAAGATG
*
38089666 AACTCAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
38089685 A
1 A
38089686 GTAATTTATT
Statistics
Matches: 55, Mismatches: 14, Indels: 10
0.70 0.18 0.13
Matches are distributed among these distances:
16 1 0.02
17 8 0.15
18 9 0.16
19 37 0.67
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.30
Consensus pattern (19 bp):
AACTTAATTAACTAAGATG
Found at i:38089656 original size:54 final size:54
Alignment explanation
Indices: 38089583--38089708 Score: 207
Period size: 54 Copynumber: 2.3 Consensus size: 54
38089573 CAACAATAAA
* *
38089583 TTATTCCAGCAACTAAATTAACTAAGATGAACTTAATTAACTAAGATGAGTAAT
1 TTATTCCAGCAACTAAATTAACTAAAATGAACTCAATTAACTAAGATGAGTAAT
* * *
38089637 TTGTTCCAGGAACTTAATTAACTAAAATGAACTCAATTAACTAAGATGAGTAAT
1 TTATTCCAGCAACTAAATTAACTAAAATGAACTCAATTAACTAAGATGAGTAAT
38089691 TTATTCCAGCAACTAAAT
1 TTATTCCAGCAACTAAAT
38089709 ACTTATTCCA
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 64 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (54 bp):
TTATTCCAGCAACTAAATTAACTAAAATGAACTCAATTAACTAAGATGAGTAAT
Found at i:38093091 original size:24 final size:24
Alignment explanation
Indices: 38093007--38093093 Score: 95
Period size: 24 Copynumber: 3.6 Consensus size: 24
38092997 GGGGTTACAA
*
38093007 AAAGATGAAAGGTTTAAGGAAGATG
1 AAAGGTGAAAGG-TTAAGGAAGATG
* *
38093032 AAAGGCT-AAAAGTTAAAGAAGATG
1 AAAGG-TGAAAGGTTAAGGAAGATG
* * *
38093056 GAAGGTGGAAGGTTAAGGGAGATG
1 AAAGGTGAAAGGTTAAGGAAGATG
38093080 AAAGGTGAAAGGTT
1 AAAGGTGAAAGGTT
38093094 GAACATCCAC
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
23 1 0.02
24 40 0.80
25 8 0.16
26 1 0.02
ACGTcount: A:0.45, C:0.01, G:0.36, T:0.18
Consensus pattern (24 bp):
AAAGGTGAAAGGTTAAGGAAGATG
Found at i:38099341 original size:3 final size:3
Alignment explanation
Indices: 38099333--38099378 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
38099323 GTTAGTACTC
38099333 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
38099379 AACCATGTAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:38103586 original size:25 final size:25
Alignment explanation
Indices: 38103534--38103603 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
38103524 ATAAAATACA
*
38103534 TCTTTACATTCATTTTTGAGCAAATAT
1 TCTTT-CATTC-TTTTTGAACAAATAT
* *
38103561 TCTTTCATTCTTTTTGAATAATTAT
1 TCTTTCATTCTTTTTGAACAAATAT
38103586 TCTTTCATTC-TTTTGAAC
1 TCTTTCATTCTTTTTGAAC
38103604 TCTCTTCCAC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
24 7 0.18
25 22 0.56
26 5 0.13
27 5 0.13
ACGTcount: A:0.24, C:0.16, G:0.06, T:0.54
Consensus pattern (25 bp):
TCTTTCATTCTTTTTGAACAAATAT
Found at i:38104376 original size:6 final size:6
Alignment explanation
Indices: 38104367--38104394 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
38104357 AAAAGTGATA
38104367 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
38104395 TAAAAATGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:38105818 original size:44 final size:44
Alignment explanation
Indices: 38105678--38105823 Score: 222
Period size: 44 Copynumber: 3.3 Consensus size: 44
38105668 GAAGTAGATC
*
38105678 GAAGATTGTGAA-TCCTATCTCCATGGACAGCAGTGGAATAGGTT
1 GAAGATTGT-AAGCCCTATCTCCATGGACAGCAGTGGAATAGGTT
* * *
38105722 GAAGATTGCAAGTCCTATCTCCTTGGACAGCAGTGGAATAGGTT
1 GAAGATTGTAAGCCCTATCTCCATGGACAGCAGTGGAATAGGTT
* *
38105766 GAAGATTGTAAGCCCTATCTCCCTGGACAGCAGTGGAATAAGTT
1 GAAGATTGTAAGCCCTATCTCCATGGACAGCAGTGGAATAGGTT
38105810 GAAGATTGTAAGCC
1 GAAGATTGTAAGCC
38105824 TTGCCTCCCT
Statistics
Matches: 95, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
43 2 0.02
44 93 0.98
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (44 bp):
GAAGATTGTAAGCCCTATCTCCATGGACAGCAGTGGAATAGGTT
Found at i:38105843 original size:88 final size:88
Alignment explanation
Indices: 38105678--38105856 Score: 220
Period size: 88 Copynumber: 2.0 Consensus size: 88
38105668 GAAGTAGATC
* *
38105678 GAAGATTGTGAATCCTATCTCCATGGACAGCAGTGGAATAGGTTGAAGATTGCAAGTCCTATCTC
1 GAAGATTGTGAACCCTATCTCCATGGACAGCAGTGGAATAAGTTGAAGATTGCAAGTCCTATCTC
* *
38105743 CTTGGACAGCAGTGGAATAGGTT
66 CCTGGACAGCAGTGGAATAGGCT
* *
38105766 GAAGATTGT-AAGCCCTATCTCCCTGGACAGCAGTGGAATAAGTTGAAGATTGTAAG-CCT-TGC
1 GAAGATTGTGAA-CCCTATCTCCATGGACAGCAGTGGAATAAGTTGAAGATTGCAAGTCCTAT--
*** *
38105828 CTCCCTGGGTTGCAGTGGAGTAGGCT
63 CTCCCTGGACAGCAGTGGAATAGGCT
38105854 GAA
1 GAA
38105857 AACACCAGAT
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
86 1 0.01
87 5 0.06
88 72 0.92
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.26
Consensus pattern (88 bp):
GAAGATTGTGAACCCTATCTCCATGGACAGCAGTGGAATAAGTTGAAGATTGCAAGTCCTATCTC
CCTGGACAGCAGTGGAATAGGCT
Found at i:38106110 original size:50 final size:49
Alignment explanation
Indices: 38106052--38106228 Score: 187
Period size: 50 Copynumber: 3.6 Consensus size: 49
38106042 CAATACAGAT
38106052 GAAAAGATTGAAGCTACAACAGCGAATCTTACTTCCCAGGTGGTGCAGTG
1 GAAAAGATTGAAGCTACAACAGCGAATCTTACTTCCCAGGT-GTGCAGTG
* * * ** *
38106102 GAACAGATTGAAGCCACAA-AGGCGAATCTTGCTTCCCCGACAT-TGCAGTT
1 GAAAAGATTGAAGCTACAACA-GCGAATCTTACTT-CCC-AGGTGTGCAGTG
* * *
38106152 AAAAAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCTGTGCAATG
1 GAAAAGATTGAAGCTACAACAGCGAATCTTACTTCCCAGG-TGTGCAGTG
* * *
38106202 GAATAGATTGAAGCTACGACAGTGAAT
1 GAAAAGATTGAAGCTACAACAGCGAAT
38106229 ATTGTTTCCC
Statistics
Matches: 102, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
49 5 0.05
50 91 0.89
51 4 0.04
52 2 0.02
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (49 bp):
GAAAAGATTGAAGCTACAACAGCGAATCTTACTTCCCAGGTGTGCAGTG
Found at i:38106198 original size:100 final size:100
Alignment explanation
Indices: 38106053--38106264 Score: 284
Period size: 100 Copynumber: 2.1 Consensus size: 100
38106043 AATACAGATG
*
38106053 AAAAGATTGAAGCTACAACAGCGAATCTTACTTCCCAGGTGGTGCAGTGGAACAGATTGAAGCCA
1 AAAAGATTGAAGCTACAACAGCGAATCTTACTTCCCAGGTGGTGCAATGGAACAGATTGAAGCCA
* * *
38106118 C-AAAGGCGAATCTTGCTTCCCCGACATTGCAGTTA
66 CGAAA-GCGAATATTGCTTCCCCAACATTACAGTTA
* * *
38106153 AAAAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCT-GTGCAATGGAATAGATTGAAGCT
1 AAAAGATTGAAGCTACAACAGCGAATCTTACTTCCCAGG-TGGTGCAATGGAACAGATTGAAGCC
* * * *
38106217 ACGACAGTGAATATTGTTTCCCCAATATTACAGTTA
65 ACGAAAGCGAATATTGCTTCCCCAACATTACAGTTA
*
38106253 AAAAAATTGAAG
1 AAAAGATTGAAG
38106265 AAAATAATCC
Statistics
Matches: 98, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
100 95 0.97
101 3 0.03
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.25
Consensus pattern (100 bp):
AAAAGATTGAAGCTACAACAGCGAATCTTACTTCCCAGGTGGTGCAATGGAACAGATTGAAGCCA
CGAAAGCGAATATTGCTTCCCCAACATTACAGTTA
Found at i:38106535 original size:85 final size:85
Alignment explanation
Indices: 38106402--38106849 Score: 325
Period size: 85 Copynumber: 5.3 Consensus size: 85
38106392 GAAACAATCC
* ** * * *
38106402 TATCTCCCTAAAGTTGCAGTGGAGTGGAT-TAA-AACCACAGATCTTATCTCTCTGAAGTTGCAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAGAAAC-CA-ATCCTATCTCTCTGAAGTTGCAG
*
38106465 TAGAGCAGATCGTATCCAGTCT
64 TAGAGCAGATCGTAACCAGTCT
*
38106487 TATCTCCCTGAAGTTACAGTGGAGCAGATAGAAGAAACCAATCCTATCT-TCCTGAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAGAAACCAATCCTATCTCT-CTGAAGTTGCAGT
* *
38106551 GGAGCAGAT--TAAACAGATCT
65 AGAGCAGATCGTAACCAG-TCT
* * * * * * * * * *
38106571 TATCTCTCTGAAGTTGCAGTAGAGCAGAT---CGTATCCAGTCTTATCTCCCTGAAGTGGTAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAGAAACCAATCCTATCTCTCTGAAGTTGCAGT-
* * * *
38106633 GAGCAGACAGA-AGAAACCAATCC
65 -AG-AG-CAGATCGTAACCAGTCT
* ** * *
38106656 TATCTCCCTGAAGTTGCAGT--AG-AG-TGGATTAAA-CAGATCTTATCTCTCTAAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAGAAACCA-ATCCTATCTCTCTGAAGTTGCAGT
* *
38106716 AGAGCAGATCCTATCCAGTCT
65 AGAGCAGATCGTAACCAGTCT
* * * * *
38106737 TATCTCCCTGAAGTTGCAGTGGCGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTACAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAGAAACCAATCCTATCTCTCTGAAGTTGCAGTA
* *
38106802 GAGCAGATTG-AA-AAGATCT
66 GAGCAGATCGTAACCAG-TCT
** *
38106821 TATCTATCTGAAGTTGCAGTAGAGCAGAT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGAT
38106850 CACATCCAGT
Statistics
Matches: 280, Mismatches: 61, Indels: 45
0.73 0.16 0.12
Matches are distributed among these distances:
80 4 0.01
81 52 0.19
82 4 0.01
83 13 0.05
84 82 0.29
85 112 0.40
86 10 0.04
87 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (85 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAGAAACCAATCCTATCTCTCTGAAGTTGCAGTA
GAGCAGATCGTAACCAGTCT
Found at i:38106602 original size:125 final size:126
Alignment explanation
Indices: 38106261--38106887 Score: 915
Period size: 125 Copynumber: 5.0 Consensus size: 126
38106251 TAAAAAAATT
**
38106261 GAAGAAAATAATCCTATCTCCCT-AAGGTTGCAGTGGAGTGGATTAAAACCAAAGATCTTATCTC
1 GAAGAAACCAATCCTATCTCCCTGAA-GTTGCAGTGGAGTGGATTAAAA-C--AGATCTTATCTC
* * * *
38106325 TCTGAAGTTGCAG-AGAGCAGATTGCATACAGTCTTGTCTCCCTGAAGTTGCAGTGGAGCAGACA
62 TCTGAAGTTGCAGTAGAGCAGATCGTATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA
* *
38106389 AAAGAAA-CAATCCTATCTCCCTAAAGTTGCAGTGGAGTGGATTAAAACCACAGATCTTATCTCT
1 GAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATT-AAA--ACAGATCTTATCTCT
* *
38106453 CTGAAGTTGCAGTAGAGCAGATCGTATCCAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGATA
63 CTGAAGTTGCAGTAGAGCAGATCGTATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA
* **
38106517 GAAGAAACCAATCCTATCTTCCTGAAGTTGCAGTGGAGCAGATT-AAACAGATCTTATCTCTCTG
1 GAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACAGATCTTATCTCTCTG
* *
38106581 AAGTTGCAGTAGAGCAGATCGTATCCAGTCTTATCTCCCTGAAGTGGTAGTGGAGCAGACA
66 AAGTTGCAGTAGAGCAGATCGTATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA
* *
38106642 GAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTAGAGTGGATT-AAACAGATCTTATCTCTCTA
1 GAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACAGATCTTATCTCTCTG
* *
38106706 AAGTTGCAGTAGAGCAGATCCTATCCAGTCTTATCTCCCTGAAGTTGCAGTGGCGCAGACA
66 AAGTTGCAGTAGAGCAGATCGTATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA
* ** * *
38106767 GAAGAAACCAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAA-AGATCTTATCTATCTG
1 GAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACAGATCTTATCTCTCTG
**
38106831 AAGTTGCAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCA
66 AAGTTGCAGTAGAGCAGATCGTATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCA
38106888 AATTAAAACC
Statistics
Matches: 457, Mismatches: 35, Indels: 17
0.90 0.07 0.03
Matches are distributed among these distances:
125 299 0.65
126 3 0.01
127 59 0.13
128 62 0.14
129 33 0.07
130 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (126 bp):
GAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACAGATCTTATCTCTCTG
AAGTTGCAGTAGAGCAGATCGTATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA
Found at i:38106794 original size:210 final size:207
Alignment explanation
Indices: 38106531--38107015 Score: 531
Period size: 210 Copynumber: 2.3 Consensus size: 207
38106521 AAACCAATCC
* ** * * *
38106531 TATCTTCCTGAAGTTGCAGT-GG-AG-CAGATTAAA-CAGATCTTATCTCTCTGAAGTTGCAGTA
1 TATCTCCCTGAAGTTGCAGTGGGCAGACAGAAGAAACCA-ATCCTATCTCCCTGAAGTTGCAGTG
** * * *
38106592 GAGCAGATCGTATCCAG-TCTTATCTCCCTGAAGTGGTAGTGGAGCAGA-CAGAAGAAACCAATC
65 GAGCAGATCG-A-AAAGATCTTATCTACCTGAAGTGGCAGTAGAGCAGATC---A-AAACCAATC
*** * *
38106655 CTATCTCCCTGAAGTTGCAGTAGAGTGGATT-AA-ACAGATCTTATCTCT-CTAAAGTTGCAGTA
124 CTATCTCCCTGAAGTTGCAGTAGAGCAAATTAAACACAGATATTATCT-TGCTAAAGTTACAGTA
38106717 GAGCAGATC-CTATCCAGTCT
188 GAGCAGATCGC-ATCCAGTCT
*
38106737 TATCTCCCTGAAGTTGCAGTGGCGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTACAGTG
1 TATCTCCCTGAAGTTGCAGTGG-GCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTG
* * * * * * *
38106802 GAGCAGATTGAAAAGATCTTATCTATCTGAAGTTGCAGTAGAGCAGATCACATCCAGTCTTATCT
65 GAGCAGATCGAAAAGATCTTATCTACCTGAAGTGGCAGTAGAGCAGATCAAAACCAATCCTATCT
* *
38106867 CCCTGAAGTTGCAGTGGAGCAAATTAAAACCACATATATTATCTTGCTAAAGTTACAGTAGAGCA
130 CCCTGAAGTTGCAGTAGAGCAAATT-AAA-CACAGATATTATCTTGCTAAAGTTACAGTAGAGCA
38106932 GATCGCATCCAGTCT
193 GATCGCATCCAGTCT
* *
38106947 TATCTCCCCGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGCTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGG-GCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTG
38107012 GAGC
65 GAGC
38107016 GGATTAAAGC
Statistics
Matches: 236, Mismatches: 30, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
206 51 0.22
207 2 0.01
208 5 0.02
209 30 0.13
210 145 0.61
211 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.26
Consensus pattern (207 bp):
TATCTCCCTGAAGTTGCAGTGGGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGG
AGCAGATCGAAAAGATCTTATCTACCTGAAGTGGCAGTAGAGCAGATCAAAACCAATCCTATCTC
CCTGAAGTTGCAGTAGAGCAAATTAAACACAGATATTATCTTGCTAAAGTTACAGTAGAGCAGAT
CGCATCCAGTCT
Found at i:38106941 original size:85 final size:81
Alignment explanation
Indices: 38106781--38106972 Score: 251
Period size: 85 Copynumber: 2.3 Consensus size: 81
38106771 AAACCAATCC
* * * * * *
38106781 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAAAGATCTTATCTATCTGAAGTTGCAGTAGAGC
1 TATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAAAGATATTATCTATCTAAAGTTACAGTAGAGC
38106846 AGATCACATCCAGTCT
66 AGATCACATCCAGTCT
*
38106862 TATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAACCACATATATTATCT-TGCTAAAGTTACAGT
1 TATCTCCCTGAAGTTGCAGTGGAGCAAATT-AAA--A-AGATATTATCTAT-CTAAAGTTACAGT
*
38106926 AGAGCAGATCGCATCCAGTCT
61 AGAGCAGATCACATCCAGTCT
*
38106947 TATCTCCCCGAAGTTGCAGTGGAGCA
1 TATCTCCCTGAAGTTGCAGTGGAGCA
38106973 GACAGAAGAA
Statistics
Matches: 97, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
81 28 0.29
82 2 0.02
84 2 0.02
85 65 0.67
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (81 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAAAGATATTATCTATCTAAAGTTACAGTAGAGC
AGATCACATCCAGTCT
Found at i:38121151 original size:15 final size:15
Alignment explanation
Indices: 38121127--38121156 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
38121117 TCCATGTAGT
*
38121127 AGGATTTGATTTATC
1 AGGATATGATTTATC
38121142 AGGATATGATTTATC
1 AGGATATGATTTATC
38121157 CCTCCTACAT
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:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (15 bp):
AGGATATGATTTATC
Found at i:38125027 original size:39 final size:39
Alignment explanation
Indices: 38124979--38125069 Score: 125
Period size: 38 Copynumber: 2.4 Consensus size: 39
38124969 AAAAAATCTA
* *
38124979 ATTTCTAAATTTATTTGCT-GATATTTTATTTTTAATCTC
1 ATTTCTAAATTTATTTG-TAAATATTTTATTTTTAATCAC
*
38125018 GTTTCTAAATTTA-TTGTAAATATTTTATTTTTAATCAC
1 ATTTCTAAATTTATTTGTAAATATTTTATTTTTAATCAC
38125056 ATTTCT-AATTTATT
1 ATTTCTAAATTTATT
38125070 AATTATTTTG
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
37 7 0.15
38 27 0.59
39 12 0.26
ACGTcount: A:0.29, C:0.09, G:0.04, T:0.58
Consensus pattern (39 bp):
ATTTCTAAATTTATTTGTAAATATTTTATTTTTAATCAC
Found at i:38128232 original size:21 final size:21
Alignment explanation
Indices: 38128208--38128248 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
38128198 ACGATGTGGG
38128208 GTTTGAGGTTTAAGG-TTTATA
1 GTTTGAGGTTT-AGGATTTATA
*
38128229 GTTTGGGGTTTAGGATTTAT
1 GTTTGAGGTTTAGGATTTAT
38128249 GATTAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.49
Consensus pattern (21 bp):
GTTTGAGGTTTAGGATTTATA
Found at i:38128418 original size:15 final size:16
Alignment explanation
Indices: 38128386--38128424 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
38128376 GAAATTCTAG
38128386 ATTAATATAAATGAAA
1 ATTAATATAAATGAAA
38128402 A-TAATATAAAT-ATAA
1 ATTAATATAAATGA-AA
38128417 ATTAATAT
1 ATTAATAT
38128425 TTAAAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 1 0.05
15 13 0.62
16 7 0.33
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTAATATAAATGAAA
Found at i:38128596 original size:25 final size:25
Alignment explanation
Indices: 38128568--38128625 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
38128558 TATAATTAAA
*
38128568 ATAAATTTTTAT-TTATATTCAATAC
1 ATAAATATTTATATT-TATTCAATAC
*
38128593 ATAAATATTTATATTTATTCAATAT
1 ATAAATATTTATATTTATTCAATAC
*
38128618 AAAAATAT
1 ATAAATAT
38128626 ACTGATGTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 27 0.93
26 2 0.07
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (25 bp):
ATAAATATTTATATTTATTCAATAC
Found at i:38131755 original size:20 final size:20
Alignment explanation
Indices: 38131727--38131894 Score: 127
Period size: 20 Copynumber: 8.7 Consensus size: 20
38131717 TGGAAATAAC
*
38131727 ATAAAATTAAGATAACTTAT
1 ATAATATTAAGATAACTTAT
*
38131747 ATAATATTAAGATTACTTAT
1 ATAATATTAAGATAACTTAT
* * *
38131767 ATAGTATTAAGACAAAATT-T
1 ATAATATTAAGA-TAACTTAT
* *
38131787 CT-A-ATT-ACATAACTTAT
1 ATAATATTAAGATAACTTAT
38131804 ATAAATATTAAGATAACTTAT
1 AT-AATATTAAGATAACTTAT
*
38131825 ATAATATTAAGATAAAATT-T
1 ATAATATTAAGAT-AACTTAT
* * *
38131845 CT-A-ATT-ACATAACTTCT
1 ATAATATTAAGATAACTTAT
*
38131862 ATAATATTAAGATAAGTTAT
1 ATAATATTAAGATAACTTAT
* *
38131882 ATTATTTTAAGAT
1 ATAATATTAAGAT
38131895 TAAATTTGGA
Statistics
Matches: 114, Mismatches: 23, Indels: 22
0.72 0.14 0.14
Matches are distributed among these distances:
16 8 0.07
17 9 0.08
18 7 0.06
19 5 0.04
20 66 0.58
21 19 0.17
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (20 bp):
ATAATATTAAGATAACTTAT
Found at i:38131900 original size:57 final size:57
Alignment explanation
Indices: 38131738--38131928 Score: 276
Period size: 57 Copynumber: 3.3 Consensus size: 57
38131728 TAAAATTAAG
* *
38131738 ATAACTTATATAATATTAAGATTACTTATA-TAGTATTAAGACAAAATTTCTAATTAC
1 ATAACTTATATAATATTAAGATAACTTATATTA-TATTAAGATAAAATTTCTAATTAC
*
38131795 ATAACTTATATAAATATTAAGATAACTTATATAATATTAAGATAAAATTTCTAATTAC
1 ATAACTTATAT-AATATTAAGATAACTTATATTATATTAAGATAAAATTTCTAATTAC
* * * * **
38131853 ATAACTTCTATAATATTAAGATAAGTTATATTATTTTAAGATTAAATTTGGAATTAC
1 ATAACTTATATAATATTAAGATAACTTATATTATATTAAGATAAAATTTCTAATTAC
38131910 ATAACTTATATAATATTAA
1 ATAACTTATATAATATTAA
38131929 ATTGTAATTT
Statistics
Matches: 121, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
57 69 0.57
58 51 0.42
59 1 0.01
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.41
Consensus pattern (57 bp):
ATAACTTATATAATATTAAGATAACTTATATTATATTAAGATAAAATTTCTAATTAC
Found at i:38131927 original size:94 final size:90
Alignment explanation
Indices: 38131816--38132056 Score: 267
Period size: 94 Copynumber: 2.6 Consensus size: 90
38131806 AAATATTAAG
*
38131816 ATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTCTATAATATTAAGATAAGTTA
1 ATAACTTATATAATATTAA-AT--AATTTCTAATTACATAACTT-TATAATATTAAGATAACTTA
* * * *
38131881 TATTATTTTAAGATTAAATTTGGAATTAC
62 TATAATATTAAGATAAAATTTCGAATTAC
* * *
38131910 ATAACTTATATAATATTAAATTGTAATTTCTAAGTACACATAAATTTAT-ATATTTAGATAACTT
1 ATAACTTATATAATATTAAA---TAATTTCTAA-T-TACATAACTTTATAATATTAAGATAACTT
*
38131974 ATATAATATTAAGATAAAATTTCGAATTGC
61 ATATAATATTAAGATAAAATTTCGAATTAC
*
38132004 ATAACTTATATAATA-T---TAATTTCTCATTACATAACTTATATAATATTAAGATA
1 ATAACTTATATAATATTAAATAATTTCTAATTACATAACTT-TATAATATTAAGATA
38132057 CAATTTCTAA
Statistics
Matches: 127, Mismatches: 13, Indels: 21
0.79 0.08 0.13
Matches are distributed among these distances:
85 8 0.06
86 4 0.03
87 19 0.15
93 2 0.02
94 81 0.64
95 4 0.03
96 9 0.07
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (90 bp):
ATAACTTATATAATATTAAATAATTTCTAATTACATAACTTTATAATATTAAGATAACTTATATA
ATATTAAGATAAAATTTCGAATTAC
Found at i:38132009 original size:37 final size:35
Alignment explanation
Indices: 38131967--38132073 Score: 118
Period size: 37 Copynumber: 3.1 Consensus size: 35
38131957 ATATATTTAG
*
38131967 ATAACTTATATAATATTAAGATAAAATTTCGAATTGC
1 ATAACTTATATAATATTAAGAT-AAATTTC-AATTAC
38132004 ATAACTTATATAATATT-A-AT---TTCTC-ATTAC
1 ATAACTTATATAATATTAAGATAAATT-TCAATTAC
38132034 ATAACTTATATAATATTAAGATACAATTTCTAATTAC
1 ATAACTTATATAATATTAAGATA-AATTTC-AATTAC
38132071 ATA
1 ATA
38132074 TCAGTTTCTA
Statistics
Matches: 60, Mismatches: 1, Indels: 18
0.76 0.01 0.23
Matches are distributed among these distances:
30 21 0.35
31 3 0.05
32 4 0.07
35 4 0.07
36 3 0.05
37 25 0.42
ACGTcount: A:0.45, C:0.10, G:0.04, T:0.41
Consensus pattern (35 bp):
ATAACTTATATAATATTAAGATAAATTTCAATTAC
Found at i:38132025 original size:30 final size:30
Alignment explanation
Indices: 38131991--38132052 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
38131981 ATTAAGATAA
*
38131991 AATTTCGAATTGCATAACTTATATAATATT
1 AATTTCGAATTACATAACTTATATAATATT
**
38132021 AATTTCTCATTACATAACTTATATAATATT
1 AATTTCGAATTACATAACTTATATAATATT
38132051 AA
1 AA
38132053 GATACAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.42, C:0.11, G:0.03, T:0.44
Consensus pattern (30 bp):
AATTTCGAATTACATAACTTATATAATATT
Found at i:38132178 original size:9 final size:9
Alignment explanation
Indices: 38132162--38132551 Score: 134
Period size: 9 Copynumber: 46.3 Consensus size: 9
38132152 CACAACTTAA
38132162 TACATAACT
1 TACATAACT
*
38132171 TTCATAACT
1 TACATAACT
38132180 TAACATAA--
1 T-ACATAACT
38132188 TACATAACGT
1 TACATAAC-T
38132198 T-CATAACT
1 TACATAACT
*
38132206 TACATTA-T
1 TACATAACT
*
38132214 T-CACAACT
1 TACATAACT
38132222 TACATAA--
1 TACATAACT
*
38132229 TACACAACTT
1 TACATAAC-T
*
38132239 AATACATAATT
1 --TACATAACT
*
38132250 TTCATAACT
1 TACATAACT
38132259 TAACATAA--
1 T-ACATAACT
*
38132267 TATATAACT
1 TACATAACT
*
38132276 TTCATAACT
1 TACATAACT
*
38132285 TACATTA-T
1 TACATAACT
*
38132293 T-CACAACT
1 TACATAACT
*
38132301 TACATAGCT
1 TACATAACT
38132310 TA-AT-AC-
1 TACATAACT
*
38132316 -AAATTAAACTT
1 TACA-T-AAC-T
38132327 ATACATAACT
1 -TACATAACT
38132337 TACAT-A--
1 TACATAACT
38132343 T--ATAACT
1 TACATAACT
*
38132350 CACATAACT
1 TACATAACT
*
38132359 TACATAGCT
1 TACATAACT
38132368 T--ATAACT
1 TACATAACT
* *
38132375 GA-ACAACT
1 TACATAACT
*
38132383 TACATAACA
1 TACATAACT
38132392 TACATAA--
1 TACATAACT
* *
38132399 TATATAACC
1 TACATAACT
* *
38132408 GACATAAGT
1 TACATAACT
*
38132417 AACATAA--
1 TACATAACT
*
38132424 TACATAGCT
1 TACATAACT
38132433 TACATAA--
1 TACATAACT
*
38132440 TACACAACT
1 TACATAACT
*
38132449 TACATAGCT
1 TACATAACT
38132458 TACAT-AC-
1 TACATAACT
*
38132465 TAAATAACT
1 TACATAACT
**
38132474 TACATAAAA
1 TACATAACT
38132483 TAC--AACT
1 TACATAACT
*
38132490 TACATAGCT
1 TACATAACT
*
38132499 CACATAA--
1 TACATAACT
*
38132506 TACGTAACT
1 TACATAACT
38132515 TACATAACT
1 TACATAACT
*
38132524 TATATAA--
1 TACATAACT
38132531 TACATAACT
1 TACATAACT
*
38132540 TACATAATT
1 TACATAACT
38132549 TAC
1 TAC
38132552 TTAATACAGA
Statistics
Matches: 275, Mismatches: 60, Indels: 92
0.64 0.14 0.22
Matches are distributed among these distances:
4 2 0.01
5 2 0.01
6 2 0.01
7 67 0.24
8 24 0.09
9 153 0.56
10 12 0.04
11 4 0.01
12 7 0.03
13 2 0.01
ACGTcount: A:0.45, C:0.20, G:0.03, T:0.32
Consensus pattern (9 bp):
TACATAACT
Found at i:38132195 original size:26 final size:26
Alignment explanation
Indices: 38132159--38132312 Score: 141
Period size: 26 Copynumber: 5.9 Consensus size: 26
38132149 ATACACAACT
38132159 TAATACATAACTTTCATAACTTAACA
1 TAATACATAACTTTCATAACTTAACA
*
38132185 TAATACATAACGTTCATAACTT-ACA
1 TAATACATAACTTTCATAACTTAACA
* * * * ** *
38132210 TTATTCACAACTTACATAATACACAACT
1 TAATACATAACTTTCAT-A-ACTTAACA
*
38132238 TAATACATAATTTTCATAACTTAACA
1 TAATACATAACTTTCATAACTTAACA
*
38132264 TAATATATAACTTTCATAACTT-ACA
1 TAATACATAACTTTCATAACTTAACA
* * * * *
38132289 TTATTCACAACTTACATAGCTTAA
1 TAATACATAACTTTCATAACTTAA
38132313 TACAAATTAA
Statistics
Matches: 99, Mismatches: 25, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
25 34 0.34
26 48 0.48
27 3 0.03
28 14 0.14
ACGTcount: A:0.44, C:0.19, G:0.01, T:0.36
Consensus pattern (26 bp):
TAATACATAACTTTCATAACTTAACA
Found at i:38132227 original size:79 final size:79
Alignment explanation
Indices: 38132139--38132306 Score: 300
Period size: 79 Copynumber: 2.1 Consensus size: 79
38132129 TAGCTTAAAT
*
38132139 AACTAACATAATACACAACTTAATACATAACTTTCATAACTTAACATAATACATAACGTTCATAA
1 AACTTACATAATACACAACTTAATACATAACTTTCATAACTTAACATAATACATAACGTTCATAA
38132204 CTTACATTATTCAC
66 CTTACATTATTCAC
* * *
38132218 AACTTACATAATACACAACTTAATACATAATTTTCATAACTTAACATAATATATAACTTTCATAA
1 AACTTACATAATACACAACTTAATACATAACTTTCATAACTTAACATAATACATAACGTTCATAA
38132283 CTTACATTATTCAC
66 CTTACATTATTCAC
38132297 AACTTACATA
1 AACTTACATA
38132307 GCTTAATACA
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 85 1.00
ACGTcount: A:0.45, C:0.20, G:0.01, T:0.34
Consensus pattern (79 bp):
AACTTACATAATACACAACTTAATACATAACTTTCATAACTTAACATAATACATAACGTTCATAA
CTTACATTATTCAC
Found at i:38132234 original size:16 final size:16
Alignment explanation
Indices: 38132202--38132239 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
38132192 TAACGTTCAT
* *
38132202 AACTTACATTATTCAC
1 AACTTACATAATACAC
38132218 AACTTACATAATACAC
1 AACTTACATAATACAC
38132234 AACTTA
1 AACTTA
38132240 ATACATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.32
Consensus pattern (16 bp):
AACTTACATAATACAC
Found at i:38132450 original size:16 final size:16
Alignment explanation
Indices: 38132418--38132454 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
38132408 GACATAAGTA
* *
38132418 ACATAATACATAGCTT
1 ACATAATACACAACTT
38132434 ACATAATACACAACTT
1 ACATAATACACAACTT
38132450 ACATA
1 ACATA
38132455 GCTTACATAC
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:0.49, C:0.22, G:0.03, T:0.27
Consensus pattern (16 bp):
ACATAATACACAACTT
Done.