Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 79 of 125
Found at i:15865368 original size:20 final size:21
Alignment explanation
Indices: 15865311--15865376 Score: 75
Period size: 20 Copynumber: 3.2 Consensus size: 21
15865301 ATGCCTTGTG
* *
15865311 GTCAAACATT-GTTAAACATGA
1 GTCAAAC-TTAGTCAAACTTGA
15865332 -TCAAACTTAGTCAAACTTG-
1 GTCAAACTTAGTCAAACTTGA
*
15865351 GTCAAATTTAGTCAAACTTGA
1 GTCAAACTTAGTCAAACTTGA
15865372 GTCAA
1 GTCAA
15865377 CCCTTGGATT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
19 2 0.05
20 32 0.82
21 5 0.13
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (21 bp):
GTCAAACTTAGTCAAACTTGA
Found at i:15867557 original size:20 final size:19
Alignment explanation
Indices: 15867528--15867571 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
15867518 AAAACATTAA
*
15867528 AAACCTAAACTCTAAAATC
1 AAACCTAAACCCTAAAATC
15867547 AAACTCTAAACCCTAAAATC
1 AAAC-CTAAACCCTAAAATC
15867567 AAACC
1 AAACC
15867572 CCAAACCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.52, C:0.30, G:0.00, T:0.18
Consensus pattern (19 bp):
AAACCTAAACCCTAAAATC
Found at i:15867577 original size:20 final size:20
Alignment explanation
Indices: 15867534--15867578 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
15867524 TTAAAAACCT
* * *
15867534 AAACTCTAAAATCAAACTCT
1 AAACCCTAAAATCAAACCCC
15867554 AAACCCTAAAATCAAACCCC
1 AAACCCTAAAATCAAACCCC
15867574 AAACC
1 AAACC
15867579 AAACATTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.51, C:0.33, G:0.00, T:0.16
Consensus pattern (20 bp):
AAACCCTAAAATCAAACCCC
Found at i:15886791 original size:21 final size:21
Alignment explanation
Indices: 15886765--15886815 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
15886755 TGTATGGGAC
15886765 ATCATCAATGGTTAGATGATA
1 ATCATCAATGGTTAGATGATA
15886786 ATCATCAATGGTTAGATGATA
1 ATCATCAATGGTTAGATGATA
15886807 ATCATCAAT
1 ATCATCAAT
15886816 TTAGATTCGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (21 bp):
ATCATCAATGGTTAGATGATA
Found at i:15888267 original size:12 final size:12
Alignment explanation
Indices: 15888252--15888292 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
15888242 TATGTCCGTT
15888252 TTTTTTTCTTTA
1 TTTTTTTCTTTA
15888264 TTTTTTT-TTTA
1 TTTTTTTCTTTA
*
15888275 -TTATTTCTATTA
1 TTTTTTTCT-TTA
15888287 TTTTTT
1 TTTTTT
15888293 GGAAAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
10 5 0.21
11 5 0.21
12 10 0.42
13 4 0.17
ACGTcount: A:0.12, C:0.05, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTTTTCTTTA
Found at i:15893028 original size:3 final size:3
Alignment explanation
Indices: 15893020--15893053 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
15893010 TTTGAATTTA
15893020 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT A
1 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT A
15893054 ATAATAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
AGT
Found at i:15893058 original size:3 final size:3
Alignment explanation
Indices: 15893052--15893090 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
15893042 GTAGTAGTAG
15893052 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
15893091 ATTTTATGCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:15903112 original size:21 final size:21
Alignment explanation
Indices: 15903086--15903135 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
15903076 TTTAAATACC
15903086 AAAAATTAAGACCATTTTAGT
1 AAAAATTAAGACCATTTTAGT
15903107 AAAAATTAAGACCATTTTAGT
1 AAAAATTAAGACCATTTTAGT
*
15903128 CAAAATTA
1 AAAAATTA
15903136 GAAGATAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.50, C:0.10, G:0.08, T:0.32
Consensus pattern (21 bp):
AAAAATTAAGACCATTTTAGT
Found at i:15910447 original size:24 final size:23
Alignment explanation
Indices: 15910407--15910463 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 23
15910397 TGCTGAACAT
* *
15910407 GAAGATGAGCAATAGCCGTTCAG
1 GAAGATGAGCAACAGCCATTCAG
15910430 GAAGATGTAGCAACAGCCATTCAG
1 GAAGATG-AGCAACAGCCATTCAG
15910454 GAAGATGAGC
1 GAAGATGAGC
15910464 CTCTTATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
23 10 0.32
24 21 0.68
ACGTcount: A:0.37, C:0.18, G:0.30, T:0.16
Consensus pattern (23 bp):
GAAGATGAGCAACAGCCATTCAG
Found at i:15914180 original size:7 final size:7
Alignment explanation
Indices: 15914166--15914226 Score: 52
Period size: 7 Copynumber: 8.6 Consensus size: 7
15914156 AAAAAAAAAC
15914166 TAAA-AA
1 TAAATAA
15914172 TAAATAA
1 TAAATAA
*
15914179 TAAAGAA
1 TAAATAA
*
15914186 TAAAAAA
1 TAAATAA
*
15914193 CCAAAATAA
1 --TAAATAA
* *
15914202 AAAAGAA
1 TAAATAA
15914209 TAAATAA
1 TAAATAA
15914216 TAAATAA
1 TAAATAA
15914223 TAAA
1 TAAA
15914227 AGACTCATAA
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
6 4 0.09
7 36 0.80
9 5 0.11
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.18
Consensus pattern (7 bp):
TAAATAA
Found at i:15915208 original size:22 final size:22
Alignment explanation
Indices: 15915168--15915220 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
15915158 TTTAGATTTG
* *
15915168 TAAGACCTTCGAGCTTAATCTC
1 TAAGACCTTCAAGCATAATCTC
* *
15915190 TAAGACTTTCAAGCATAATTTC
1 TAAGACCTTCAAGCATAATCTC
15915212 TAAGACCTT
1 TAAGACCTT
15915221 TGGGCAAATC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (22 bp):
TAAGACCTTCAAGCATAATCTC
Found at i:15915355 original size:96 final size:96
Alignment explanation
Indices: 15915201--15915380 Score: 288
Period size: 96 Copynumber: 1.9 Consensus size: 96
15915191 AAGACTTTCA
* * * * *
15915201 AGCATAATTTCTAAGACCTTTGGGCAAATCATTTTAAATTTTTAAAATTTTAATGCCTTTATTAT
1 AGCATAATTTCCAAGACCTTTAGGCAAAACATTTTAAAATTTTAAAATTTCAATGCCTTTATTAT
*
15915266 GAGGAGCATTCAAAGATTTCAAAGACCTCTG
66 AAGGAGCATTCAAAGATTTCAAAGACCTCTG
*
15915297 AGCATAATTTCCAAGACCTTTAGGCAAAACATTTTAAAATTTTAAAGTTTCAATGCCTTTATTAT
1 AGCATAATTTCCAAGACCTTTAGGCAAAACATTTTAAAATTTTAAAATTTCAATGCCTTTATTAT
*
15915362 AAGGAGTATTCAAAGATTT
66 AAGGAGCATTCAAAGATTT
15915381 TTTAGATTTG
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
96 76 1.00
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (96 bp):
AGCATAATTTCCAAGACCTTTAGGCAAAACATTTTAAAATTTTAAAATTTCAATGCCTTTATTAT
AAGGAGCATTCAAAGATTTCAAAGACCTCTG
Found at i:15923345 original size:51 final size:52
Alignment explanation
Indices: 15923264--15923364 Score: 152
Period size: 51 Copynumber: 2.0 Consensus size: 52
15923254 TATAACCATA
* * *
15923264 CAAACTTGCCTATTAAGAGTCCTTTTTCTCTTAGAATTCTT-TTTTGCAAAT
1 CAAAATTGCCTATTAAGAATCCTTTGTCTCTTAGAATTCTTCTTTTGCAAAT
15923315 CAAAATTGCCTATTAAGAAT-CTCTTGTCTCTTAGAATTCTTCTTTTGCAA
1 CAAAATTGCCTATTAAGAATCCT-TTGTCTCTTAGAATTCTTCTTTTGCAA
15923365 GTCTTCTTGT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
50 2 0.04
51 35 0.78
52 8 0.18
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.44
Consensus pattern (52 bp):
CAAAATTGCCTATTAAGAATCCTTTGTCTCTTAGAATTCTTCTTTTGCAAAT
Found at i:15924134 original size:12 final size:12
Alignment explanation
Indices: 15924111--15924145 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
15924101 AAGTTTTACT
15924111 ATAAAAAAAAAG
1 ATAAAAAAAAAG
15924123 A-AAAAAATAAAG
1 ATAAAAAA-AAAG
15924135 ATAAAAAAAAA
1 ATAAAAAAAAA
15924146 TTCAAACAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 6 0.29
12 9 0.43
13 6 0.29
ACGTcount: A:0.86, C:0.00, G:0.06, T:0.09
Consensus pattern (12 bp):
ATAAAAAAAAAG
Found at i:15926069 original size:67 final size:63
Alignment explanation
Indices: 15925989--15926177 Score: 155
Period size: 67 Copynumber: 2.9 Consensus size: 63
15925979 TACCAAATGT
* * * *
15925989 ATTGGAGAGTTTTCTTGTGATTGAAAAATTAATTTTTGAGATTAAATTGATAAAATCGTACAAAC
1 ATTGGAGA-TTTTCATG-GATT-AAAAAATAATTTTTGAGATTAAATTCATAAAATCATACAAA-
15926054 CC
62 CC
* * * *
15926056 ATTGGAGGATTTTCAT-GAGTTCAAAAAAATAACTTTTGAGATTAAATTCAAAAAATCATGCCAA
1 ATTGGA-GATTTTCATGGA-TT--AAAAAATAATTTTTGAGATTAAATTCATAAAATCATACAAA
*
15926120 CT
62 CC
* * * * *
15926122 ATTAGAACATTTTCATGAATTTAAAAATAATTTTTGAGATTAAAATTTATAAAATC
1 ATT-GGAGATTTTCATGGATTAAAAAATAATTTTTGAGATT-AAATTCATAAAATC
15926178 TTATTAAACT
Statistics
Matches: 99, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
64 18 0.18
65 14 0.14
66 16 0.16
67 49 0.49
68 2 0.02
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.37
Consensus pattern (63 bp):
ATTGGAGATTTTCATGGATTAAAAAATAATTTTTGAGATTAAATTCATAAAATCATACAAACC
Found at i:15926185 original size:20 final size:20
Alignment explanation
Indices: 15926160--15926203 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
15926150 AATTTTTGAG
15926160 ATTAAA-ATTTATAAAATCTT
1 ATTAAACATTTA-AAAATCTT
*
15926180 ATTAAACTATTTAAAAATTTT
1 ATTAAAC-ATTTAAAAATCTT
15926201 ATT
1 ATT
15926204 GATTTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 6 0.29
21 10 0.48
22 5 0.24
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (20 bp):
ATTAAACATTTAAAAATCTT
Found at i:15926189 original size:66 final size:65
Alignment explanation
Indices: 15926012--15926190 Score: 166
Period size: 67 Copynumber: 2.7 Consensus size: 65
15926002 CTTGTGATTG
* * * * ** *
15926012 AAAAATTAATTTTTGAGATTAAATTGATAAAATCGTA-CAAACCCATTGGAGGATTTTCATGAGT
1 AAAAAATAATTTTTGAGATTAAATTCATAAAATC-TATCAAA-CTATTAGAACATTTTCATGAAT
15926076 TCA
64 T-A
* * *
15926079 AAAAAATAACTTTTGAGATTAAATTCAAAAAATC-ATGCCAACTATTAGAACATTTTCATGAATT
1 AAAAAATAATTTTTGAGATTAAATTCATAAAATCTAT-CAAACTATTAGAACATTTTCATGAATT
15926143 -
65 A
* * *
15926143 TAAAAATAATTTTTGAGATTAAAATTTATAAAATCTTATTAAACTATT
1 AAAAAATAATTTTTGAGATT-AAATTCATAAAATC-TATCAAACTATT
15926191 TAAAAATTTT
Statistics
Matches: 91, Mismatches: 16, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
64 18 0.20
65 13 0.14
66 25 0.27
67 35 0.38
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (65 bp):
AAAAAATAATTTTTGAGATTAAATTCATAAAATCTATCAAACTATTAGAACATTTTCATGAATTA
Found at i:15926200 original size:66 final size:63
Alignment explanation
Indices: 15926080--15926213 Score: 139
Period size: 65 Copynumber: 2.1 Consensus size: 63
15926070 ATGAGTTCAA
* *
15926080 AAAAATAACTTTTGAGATTAAATTCAAAAAATCATGCCAACTATTAGAACATTTTCA-TGAATTT
1 AAAAATAACTTTTGAGATTAAATTCAAAAAATCATGCAAACTATTAGAAAATTTT-ATTG-ATTT
* * * *
15926144 AAAAATAATTTTTGAGATTAAAATTTATAAAATCTTAT-TAAACTATTTA-AAAATTTTATTGAT
1 AAAAATAACTTTTGAGATT-AAATTCAAAAAATC--ATGCAAACTA-TTAGAAAATTTTATTGAT
15926207 TT
62 TT
15926209 AAAAA
1 AAAAA
15926214 ATATAAAATT
Statistics
Matches: 59, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
64 18 0.31
65 22 0.37
66 14 0.24
67 5 0.08
ACGTcount: A:0.48, C:0.07, G:0.06, T:0.39
Consensus pattern (63 bp):
AAAAATAACTTTTGAGATTAAATTCAAAAAATCATGCAAACTATTAGAAAATTTTATTGATTT
Found at i:15927424 original size:24 final size:26
Alignment explanation
Indices: 15927374--15927426 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
15927364 TTTGATAAAA
* *
15927374 TTTAAGAAAATTTCTCACCTAAGAAT
1 TTTAAGAAAATCTCTCACCTAACAAT
*
15927400 TTTAAGAAAATCTC-CA-CTTACAAT
1 TTTAAGAAAATCTCTCACCTAACAAT
15927424 TTT
1 TTT
15927427 CTTTCAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 9 0.38
25 2 0.08
26 13 0.54
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.38
Consensus pattern (26 bp):
TTTAAGAAAATCTCTCACCTAACAAT
Found at i:15928651 original size:25 final size:25
Alignment explanation
Indices: 15928623--15928674 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
15928613 TTAAGAATCA
*
15928623 AAGTCTCCAATGGCCCCACAAGTTT
1 AAGTCTCCAAAGGCCCCACAAGTTT
* **
15928648 AAGTTTCCAAAGGTTCCACAAGTTT
1 AAGTCTCCAAAGGCCCCACAAGTTT
15928673 AA
1 AA
15928675 AATGGAAGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (25 bp):
AAGTCTCCAAAGGCCCCACAAGTTT
Found at i:15930706 original size:36 final size:37
Alignment explanation
Indices: 15930621--15930724 Score: 113
Period size: 36 Copynumber: 2.8 Consensus size: 37
15930611 ATCCATATCT
* *
15930621 TTTCTAGACTTAAGATAGCAACCTCTAA-CTCCTTATC
1 TTTCTAG-CCTAAGATAGCAACCTCTAATCTCCTTACC
* * * * *
15930658 TTTTTGGGCTAAGATAACAACCTCTAATTTCC-TACC
1 TTTCTAGCCTAAGATAGCAACCTCTAATCTCCTTACC
*
15930694 TTTCTAGCCTAAGGTAGCAACCTCTAATCTC
1 TTTCTAGCCTAAGATAGCAACCTCTAATCTC
15930725 ACCAAATGAG
Statistics
Matches: 53, Mismatches: 13, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
36 45 0.85
37 8 0.15
ACGTcount: A:0.28, C:0.27, G:0.11, T:0.35
Consensus pattern (37 bp):
TTTCTAGCCTAAGATAGCAACCTCTAATCTCCTTACC
Found at i:15931797 original size:14 final size:14
Alignment explanation
Indices: 15931778--15931808 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
15931768 TCATATAACA
15931778 ATATATTCAAGCAC
1 ATATATTCAAGCAC
*
15931792 ATATATTCAAGCTC
1 ATATATTCAAGCAC
15931806 ATA
1 ATA
15931809 CCAAATGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.19, G:0.06, T:0.32
Consensus pattern (14 bp):
ATATATTCAAGCAC
Found at i:15938973 original size:36 final size:36
Alignment explanation
Indices: 15938927--15939015 Score: 115
Period size: 36 Copynumber: 2.5 Consensus size: 36
15938917 TTCTAGACTC
* * *
15938927 AAGATAGCAACCTTTCACTCCCTATCTTTCTAAGCT
1 AAGATAGCAACCTCTAACTCCCTACCTTTCTAAGCT
*
15938963 AAGATAGCAACCTCTAACTCCCTACCTTTCTAGGCT
1 AAGATAGCAACCTCTAACTCCCTACCTTTCTAAGCT
* * *
15938999 ATGGTAGTAACCTCTAA
1 AAGATAGCAACCTCTAA
15939016 TCTTGCAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.30
Consensus pattern (36 bp):
AAGATAGCAACCTCTAACTCCCTACCTTTCTAAGCT
Found at i:15943068 original size:18 final size:20
Alignment explanation
Indices: 15943045--15943081 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
15943035 TTCATGTTGT
15943045 TAATTTTT-CAAGT-AAAAC
1 TAATTTTTACAAGTCAAAAC
15943063 TAATTTTTACAAGTCAAAA
1 TAATTTTTACAAGTCAAAA
15943082 GTCCATTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 5 0.29
20 4 0.24
ACGTcount: A:0.46, C:0.11, G:0.05, T:0.38
Consensus pattern (20 bp):
TAATTTTTACAAGTCAAAAC
Found at i:15943551 original size:42 final size:42
Alignment explanation
Indices: 15943481--15943728 Score: 187
Period size: 42 Copynumber: 5.8 Consensus size: 42
15943471 CAAGATGATG
* * * *
15943481 ACTTGTGTAAAGCAGATTTCCATTATGCTGATCAATGGATTA
1 ACTTGTGTAAAGTAGTTTTCCATCATGCTTATCAATGGATTA
* * * *
15943523 ACTTGTGTAAAGTAGTTTTCAATCATGCTTCTCAATGAATTG
1 ACTTGTGTAAAGTAGTTTTCCATCATGCTTATCAATGGATTA
* * * * *
15943565 ACTTATGCAAATTAGTCTTTCGTCATGC-TTCTTTTTTCAATGGATTA
1 ACTTGTGTAAAGTAGT-TTTC--CAT-CATGC--TTATCAATGGATTA
* * *
15943612 ACTTGTGAAAAGTAGTGTTCCATCATGCTTTTCAATGGA-TA
1 ACTTGTGTAAAGTAGTTTTCCATCATGCTTATCAATGGATTA
* * * * * *
15943653 ACTTGTGTAAGGCAGTCTTCCATCATACTTCTCAATGGATTG
1 ACTTGTGTAAAGTAGTTTTCCATCATGCTTATCAATGGATTA
* * *
15943695 ACTTATGCAAAGTAATCTTT-CATCATGCTTATCA
1 ACTTGTGTAAAGTAGT-TTTCCATCATGCTTATCA
15943729 CATTTTACAA
Statistics
Matches: 161, Mismatches: 36, Indels: 18
0.75 0.17 0.08
Matches are distributed among these distances:
41 35 0.22
42 82 0.51
43 7 0.04
44 5 0.03
45 4 0.02
46 4 0.02
47 24 0.15
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (42 bp):
ACTTGTGTAAAGTAGTTTTCCATCATGCTTATCAATGGATTA
Found at i:15943703 original size:130 final size:133
Alignment explanation
Indices: 15943481--15943813 Score: 372
Period size: 130 Copynumber: 2.5 Consensus size: 133
15943471 CAAGATGATG
* * * ** * * *
15943481 ACTTGTGTAAAGCAGATTTCCATTATGCTGATCAATGGATTAACTTGTGTAAAGTAGTTTTCAAT
1 ACTTGTGAAAAGTAG-TTTCCATCATGCTTTTCAATGGATTAACTTGTGTAAAGCAGTCTTCCAT
* * * * * *
15943546 CATGCTTCTCAATGAATTGACTTATGCAAATTAGTCTTTCGTCATGC-T-T-CTTTTTTCAATGG
65 CATACTTCTCAATGAATTGACTTATGCAAAGTAATCTTTCATCATGCTTATACATTTTACAATGG
15943608 ATTA
130 ATTA
*
15943612 ACTTGTGAAAAGTAGTGTTCCATCATGCTTTTCAATGGA-TAACTTGTGTAAGGCAGTCTTCCAT
1 ACTTGTGAAAAGTAGT-TTCCATCATGCTTTTCAATGGATTAACTTGTGTAAAGCAGTCTTCCAT
*
15943676 CATACTTCTCAATGGATTGACTTATGCAAAGTAATCTTTCATCATGCTTATCACATTTTACAATG
65 CATACTTCTCAATGAATTGACTTATGCAAAGTAATCTTTCATCATGCTTAT-ACATTTTACAATG
15943741 GATTA
129 GATTA
* * * * * *
15943746 ACTTGTGCAAAGTGACCTTT-CTTCATGCCTTTT-AATGGATTAACTTGTTTAATGCAGCCTTCC
1 ACTTGTGAAAAGT-A-GTTTCCATCATG-CTTTTCAATGGATTAACTTGTGTAAAGCAGTCTTCC
15943809 ATCAT
63 ATCAT
15943814 GCATTTTTAC
Statistics
Matches: 171, Mismatches: 22, Indels: 14
0.83 0.11 0.07
Matches are distributed among these distances:
130 64 0.37
131 33 0.19
132 1 0.01
134 39 0.23
135 33 0.19
136 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (133 bp):
ACTTGTGAAAAGTAGTTTCCATCATGCTTTTCAATGGATTAACTTGTGTAAAGCAGTCTTCCATC
ATACTTCTCAATGAATTGACTTATGCAAAGTAATCTTTCATCATGCTTATACATTTTACAATGGA
TTA
Found at i:15944019 original size:86 final size:86
Alignment explanation
Indices: 15943839--15944028 Score: 213
Period size: 86 Copynumber: 2.2 Consensus size: 86
15943829 TCATTGACGT
* ** * *
15943839 AAGTCCATAAAATCTTTCTTTTGCTTAGGAATCAGGTTTTCATCTTTAGCTTGAATTCTTTGCAT
1 AAGTCCACAAAATCTTTCTTTTGCTTAGGAATCAGGTTCACATCTTTAACTTGAATTCTTCGCAT
* *
15943904 CTATATGGAACTCATTGAGGC
66 CTATATAGAACTCATTAAGGC
* * *
15943925 ATGACCACAAAATTTTTCTTTTGCTT-GGAAATCAGGTTCACAT-TTTCAACTTGAATTCTTCGC
1 AAGTCCACAAAATCTTTCTTTTGCTTAGG-AATCAGGTTCACATCTTT-AACTTGAATTCTTCGC
* * ** *
15943988 ATCTTTGTAGAACTTGTTAATGC
64 ATCTATATAGAACTCATTAAGGC
15944011 AAGTCCACAAAATCTTTC
1 AAGTCCACAAAATCTTTC
15944029 CTTCCATCTC
Statistics
Matches: 84, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
85 5 0.06
86 79 0.94
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.39
Consensus pattern (86 bp):
AAGTCCACAAAATCTTTCTTTTGCTTAGGAATCAGGTTCACATCTTTAACTTGAATTCTTCGCAT
CTATATAGAACTCATTAAGGC
Found at i:15951176 original size:21 final size:21
Alignment explanation
Indices: 15951153--15951192 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
15951143 TTAATTTAAA
15951153 AAAATCCA-TCAATAATAGTT
1 AAAATCCAGTCAATAATAGTT
*
15951173 AAAATTCAGTCAATAATAGT
1 AAAATCCAGTCAATAATAGT
15951193 ATATAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.30
Consensus pattern (21 bp):
AAAATCCAGTCAATAATAGTT
Found at i:15952472 original size:23 final size:23
Alignment explanation
Indices: 15952445--15952498 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
15952435 AAAAAATTAA
*
15952445 ATATTTTGGTTAAATAAATTGTT
1 ATATTTTGGTTAAATAAATTATT
15952468 ATATTTTGGTTAAATAAATTATT
1 ATATTTTGGTTAAATAAATTATT
*
15952491 AAATTTTG
1 ATATTTTG
15952499 AAAAAATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (23 bp):
ATATTTTGGTTAAATAAATTATT
Found at i:15952505 original size:23 final size:23
Alignment explanation
Indices: 15952456--15952508 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
15952446 TATTTTGGTT
* * ***
15952456 AAATAAATTGTTATATTTTGGTT
1 AAATAAATTATTAAATTTTGAAA
15952479 AAATAAATTATTAAATTTTGAAA
1 AAATAAATTATTAAATTTTGAAA
15952502 AAATAAA
1 AAATAAA
15952509 AAATAATTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.42
Consensus pattern (23 bp):
AAATAAATTATTAAATTTTGAAA
Found at i:15952597 original size:38 final size:38
Alignment explanation
Indices: 15952555--15952661 Score: 114
Period size: 38 Copynumber: 2.9 Consensus size: 38
15952545 AAGTAAACTT
15952555 AATATTAAAAAAAACTACAAAATTTCTAAAAATTTCAA
1 AATATTAAAAAAAACTACAAAATTTCTAAAAATTTCAA
* *** * *
15952593 AATATTGAAAATTTCTAGAAAATTTCT--AAATTTCTA
1 AATATTAAAAAAAACTACAAAATTTCTAAAAATTTCAA
15952629 AATATTAAAAAAAA-TACAAAGACTTTC-AAAAAT
1 AATATTAAAAAAAACTACAAA-A-TTTCTAAAAAT
15952662 GAAACTAAAA
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
35 5 0.09
36 19 0.35
37 4 0.07
38 26 0.48
ACGTcount: A:0.56, C:0.09, G:0.03, T:0.32
Consensus pattern (38 bp):
AATATTAAAAAAAACTACAAAATTTCTAAAAATTTCAA
Found at i:15952615 original size:11 final size:10
Alignment explanation
Indices: 15952573--15952630 Score: 54
Period size: 8 Copynumber: 6.2 Consensus size: 10
15952563 AAAAAACTAC
15952573 AAAATTTCTA
1 AAAATTTCTA
15952583 AAAATTTC--
1 AAAATTTCTA
* *
15952591 AAAATAT-TG
1 AAAATTTCTA
15952600 AAAATTTCTA
1 AAAATTTCTA
15952610 GAAAATTTCT-
1 -AAAATTTCTA
15952620 -AAATTTCTA
1 AAAATTTCTA
15952629 AA
1 AA
15952631 TATTAAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
8 14 0.36
9 6 0.15
10 10 0.26
11 9 0.23
ACGTcount: A:0.50, C:0.09, G:0.03, T:0.38
Consensus pattern (10 bp):
AAAATTTCTA
Found at i:15952631 original size:27 final size:27
Alignment explanation
Indices: 15952572--15952639 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 27
15952562 AAAAAAACTA
15952572 CAAAATTTCTAAAAATTTCAAAATATT
1 CAAAATTTCTAAAAATTTCAAAATATT
* *
15952599 GAAAATTTCTAGAAAATTTCTAAAT-TT
1 CAAAATTTCTA-AAAATTTCAAAATATT
* *
15952626 CTAAATAT-TAAAAA
1 CAAAATTTCTAAAAA
15952640 AAATACAAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 4 0.11
26 2 0.06
27 17 0.49
28 12 0.34
ACGTcount: A:0.51, C:0.09, G:0.03, T:0.37
Consensus pattern (27 bp):
CAAAATTTCTAAAAATTTCAAAATATT
Found at i:15953566 original size:22 final size:23
Alignment explanation
Indices: 15953536--15953579 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
15953526 TATTTTTTTA
15953536 ATCTAATCATAT-TTATAATATC
1 ATCTAATCATATCTTATAATATC
* *
15953558 ATCTTATCATATCTTATTATAT
1 ATCTAATCATATCTTATAATAT
15953580 TTTGTGTACC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (23 bp):
ATCTAATCATATCTTATAATATC
Found at i:15957602 original size:57 final size:57
Alignment explanation
Indices: 15957449--15957588 Score: 172
Period size: 57 Copynumber: 2.5 Consensus size: 57
15957439 CACAACTAAA
* * * * *
15957449 AAAATGCAAATGAGTTCAAATATCACCACTAAAGAAAAATTAAATATCACTATAGAG
1 AAAATGCAAATGACTTCAGATATCACCACTGAAGAAAACTCAAATATCACTATAGAG
** *
15957506 AAAATGCAAATGACTTCAGATATTGCCACTGAAGAAAACTCAAATATCACTATTGAG
1 AAAATGCAAATGACTTCAGATATCACCACTGAAGAAAACTCAAATATCACTATAGAG
* * **
15957563 AAAGTGTAAATGACTTTGGATATCAC
1 AAAATGCAAATGACTTCAGATATCAC
15957589 TATTGAGAGA
Statistics
Matches: 69, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
57 69 1.00
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (57 bp):
AAAATGCAAATGACTTCAGATATCACCACTGAAGAAAACTCAAATATCACTATAGAG
Found at i:15966062 original size:21 final size:23
Alignment explanation
Indices: 15966023--15966074 Score: 74
Period size: 21 Copynumber: 2.4 Consensus size: 23
15966013 ATGGGTGGTT
15966023 TTGTGG-TTTATGATTGAATCTA
1 TTGTGGTTTTATGATTGAATCTA
15966045 TTGTGGTTTTA-G-TTGAATCTA
1 TTGTGGTTTTATGATTGAATCTA
*
15966066 TTATGGTTT
1 TTGTGGTTT
15966075 AAGTAGTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 17 0.61
22 7 0.25
23 4 0.14
ACGTcount: A:0.19, C:0.04, G:0.23, T:0.54
Consensus pattern (23 bp):
TTGTGGTTTTATGATTGAATCTA
Found at i:15966643 original size:22 final size:23
Alignment explanation
Indices: 15966618--15966666 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
15966608 AAAGCAAAAA
* * *
15966618 AAAAAGAAGAAAA-TAAAGAAGG
1 AAAAAGAAAAAAAGAAAAAAAGG
15966640 AAAAAGAAAAAAAGAAAAAAAGG
1 AAAAAGAAAAAAAGAAAAAAAGG
15966663 AAAA
1 AAAA
15966667 TGAGAATGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (23 bp):
AAAAAGAAAAAAAGAAAAAAAGG
Found at i:15966643 original size:23 final size:23
Alignment explanation
Indices: 15966603--15966692 Score: 58
Period size: 24 Copynumber: 3.8 Consensus size: 23
15966593 AAATAATGAA
**
15966603 AAAAAAAAGCAAAAAAAAAAGAAG
1 AAAAAAAAG-AAGGAAAAAAGAAG
* *
15966627 AAAATAAAGAAGG-AAAAAGAAA
1 AAAAAAAAGAAGGAAAAAAGAAG
* *
15966649 AAAAGAAAAAAAGGAAAATGAGAATG
1 AAAA-AAAAGAAGGAAAA-AAGAA-G
* *
15966675 AGAAGAAAGAA-GAAAAAA
1 AAAAAAAAGAAGGAAAAAA
15966693 TAAGCAATGA
Statistics
Matches: 50, Mismatches: 12, Indels: 9
0.70 0.17 0.13
Matches are distributed among these distances:
22 12 0.24
23 10 0.20
24 16 0.32
25 9 0.18
26 3 0.06
ACGTcount: A:0.77, C:0.01, G:0.19, T:0.03
Consensus pattern (23 bp):
AAAAAAAAGAAGGAAAAAAGAAG
Found at i:15966654 original size:27 final size:26
Alignment explanation
Indices: 15966600--15966661 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 26
15966590 GTGAAATAAT
*
15966600 GAAAAAAAAAAGCAAAAAAAAAAGAA
1 GAAAAAAAGAAGCAAAAAAAAAAGAA
*
15966626 GAAAATAAAGAAGGAAAAAGAAAAA-AA
1 GAAAA-AAAGAAGCAAAAA-AAAAAGAA
15966653 GAAAAAAAG
1 GAAAAAAAG
15966662 GAAAATGAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 9 0.28
27 18 0.56
28 5 0.16
ACGTcount: A:0.81, C:0.02, G:0.16, T:0.02
Consensus pattern (26 bp):
GAAAAAAAGAAGCAAAAAAAAAAGAA
Found at i:15966665 original size:9 final size:8
Alignment explanation
Indices: 15966604--15966666 Score: 65
Period size: 8 Copynumber: 7.5 Consensus size: 8
15966594 AATAATGAAA
15966604 AAAAAAAG
1 AAAAAAAG
*
15966612 CAAAAAA-
1 AAAAAAAG
*
15966619 AAAAGAAG
1 AAAAAAAG
15966627 AAAATAAAG
1 AAAA-AAAG
15966636 AAGGAAAAAG
1 AA--AAAAAG
15966646 AAAAAAAG
1 AAAAAAAG
15966654 AAAAAAAGG
1 AAAAAAA-G
15966663 AAAA
1 AAAA
15966667 TGAGAATGAG
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
7 5 0.11
8 23 0.50
9 10 0.22
10 6 0.13
11 2 0.04
ACGTcount: A:0.81, C:0.02, G:0.16, T:0.02
Consensus pattern (8 bp):
AAAAAAAG
Found at i:15967742 original size:12 final size:12
Alignment explanation
Indices: 15967715--15967799 Score: 62
Period size: 12 Copynumber: 6.9 Consensus size: 12
15967705 TAAAAAATTT
15967715 AAAATAATAAACAA
1 AAAATAA-AAA-AA
15967729 AAAATAAAAAAA
1 AAAATAAAAAAA
* *
15967741 AAAATCAAATAA
1 AAAATAAAAAAA
* * * *
15967753 AAGATCATAGAA
1 AAAATAAAAAAA
*
15967765 ATAATAAAAAAA
1 AAAATAAAAAAA
* * *
15967777 GAAATAAAATAC
1 AAAATAAAAAAA
15967789 AAAATAAAAAA
1 AAAATAAAAAA
15967800 TAGAAGGCAA
Statistics
Matches: 55, Mismatches: 16, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
12 45 0.82
13 3 0.05
14 7 0.13
ACGTcount: A:0.78, C:0.05, G:0.04, T:0.14
Consensus pattern (12 bp):
AAAATAAAAAAA
Found at i:15968593 original size:16 final size:15
Alignment explanation
Indices: 15968572--15968606 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
15968562 TAAATCTATG
15968572 ATTTGATTGTGATTTT
1 ATTTGATT-TGATTTT
15968588 ATTTGATTTGATTTT
1 ATTTGATTTGATTTT
15968603 -TTTG
1 ATTTG
15968607 TGAATTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.21
15 7 0.37
16 8 0.42
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.66
Consensus pattern (15 bp):
ATTTGATTTGATTTT
Found at i:15969389 original size:28 final size:28
Alignment explanation
Indices: 15969339--15969408 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
15969329 GATTCCAAGA
*
15969339 TTTGTAAAGATTCTCAAAATTCACAAAGG
1 TTTGTAAAGGTT-TCAAAATTCACAAAGG
*
15969368 TTTGTAAAGGTTTCAAAGTTCACAAAGG
1 TTTGTAAAGGTTTCAAAATTCACAAAGG
* *
15969396 TTTATAAAAGTTT
1 TTTGTAAAGGTTT
15969409 TAAGATTATC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 26 0.70
29 11 0.30
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.36
Consensus pattern (28 bp):
TTTGTAAAGGTTTCAAAATTCACAAAGG
Found at i:15969424 original size:18 final size:17
Alignment explanation
Indices: 15969397--15969433 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
15969387 TCACAAAGGT
*
15969397 TTATAAAAGTTTTAAGA
1 TTATAAAAGTTTCAAGA
15969414 TTATCAAAAGTTTCAAGA
1 TTAT-AAAAGTTTCAAGA
15969432 TT
1 TT
15969434 TGTAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.41
Consensus pattern (17 bp):
TTATAAAAGTTTCAAGA
Found at i:15969545 original size:18 final size:18
Alignment explanation
Indices: 15969485--15969550 Score: 71
Period size: 18 Copynumber: 3.7 Consensus size: 18
15969475 TGAAAGGTTT
15969485 CAAGATTTGCAAAAACTC
1 CAAGATTTGCAAAAACTC
* ** * *
15969503 CAATATTCACAAAGA-TT
1 CAAGATTTGCAAAAACTC
*
15969520 CTAGATTTGCAAAAACTC
1 CAAGATTTGCAAAAACTC
15969538 CAAGATTTGCAAA
1 CAAGATTTGCAAA
15969551 GATTTCAGAT
Statistics
Matches: 35, Mismatches: 12, Indels: 2
0.71 0.24 0.04
Matches are distributed among these distances:
17 11 0.31
18 24 0.69
ACGTcount: A:0.44, C:0.20, G:0.11, T:0.26
Consensus pattern (18 bp):
CAAGATTTGCAAAAACTC
Found at i:15969561 original size:35 final size:36
Alignment explanation
Indices: 15969467--15969561 Score: 115
Period size: 35 Copynumber: 2.7 Consensus size: 36
15969457 GTAAAATTTT
*
15969467 CAAGATTCTG-AAAGGTTTCAAGATTTGCAAAAACTC
1 CAAGATT-TGCAAAGATTTCAAGATTTGCAAAAACTC
* ** *
15969503 CAATATTCACAAAGA-TTCTAGATTTGCAAAAACTC
1 CAAGATTTGCAAAGATTTCAAGATTTGCAAAAACTC
15969538 CAAGATTTGCAAAGATTTC-AGATT
1 CAAGATTTGCAAAGATTTCAAGATT
15969562 CACAAGAATT
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
35 36 0.73
36 13 0.27
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (36 bp):
CAAGATTTGCAAAGATTTCAAGATTTGCAAAAACTC
Found at i:15969573 original size:16 final size:16
Alignment explanation
Indices: 15969549--15969587 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
15969539 AAGATTTGCA
* *
15969549 AAGATTTCAGATTCAC
1 AAGAATTCAAATTCAC
15969565 AAGAATTCAAATTCAC
1 AAGAATTCAAATTCAC
15969581 AAGAATT
1 AAGAATT
15969588 TCAGTTTACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.28
Consensus pattern (16 bp):
AAGAATTCAAATTCAC
Found at i:15969646 original size:33 final size:34
Alignment explanation
Indices: 15969542--15969648 Score: 119
Period size: 33 Copynumber: 3.2 Consensus size: 34
15969532 AAACTCCAAG
* *
15969542 ATTTGCAAAGATTTCAGATTCACAAGAA-TTCAA
1 ATTTGCAAAAATTTCAGATTAACAAGAATTTCAA
** * * * *
15969575 ATTCACAAGAATTTCAGTTTACCAAGAATTTCAT
1 ATTTGCAAAAATTTCAGATTAACAAGAATTTCAA
*
15969609 ATTTGCAAAAATTT-AGACTAACAAGAATTTCAA
1 ATTTGCAAAAATTTCAGATTAACAAGAATTTCAA
15969642 ATTTGCA
1 ATTTGCA
15969649 GTTGTAATTT
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
33 43 0.74
34 15 0.26
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (34 bp):
ATTTGCAAAAATTTCAGATTAACAAGAATTTCAA
Found at i:15969858 original size:22 final size:22
Alignment explanation
Indices: 15969833--15969894 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 22
15969823 TTCTCCTTAA
15969833 AAAATTTTAAAGATTCACACCC
1 AAAATTTTAAAGATTCACACCC
* ** * **
15969855 AAAA-CTTAGGGATTCGCATTC
1 AAAATTTTAAAGATTCACACCC
15969876 AAAATTTTAAAGATTCACA
1 AAAATTTTAAAGATTCACA
15969895 TTTGAAAAAC
Statistics
Matches: 29, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
21 15 0.52
22 14 0.48
ACGTcount: A:0.44, C:0.18, G:0.10, T:0.29
Consensus pattern (22 bp):
AAAATTTTAAAGATTCACACCC
Found at i:15969896 original size:22 final size:22
Alignment explanation
Indices: 15969833--15969989 Score: 91
Period size: 22 Copynumber: 7.0 Consensus size: 22
15969823 TTCTCCTTAA
**
15969833 AAAATTTTAAAGATTCACACCC
1 AAAATTTTAAAGATTCACATTC
* ** *
15969855 AAAA-CTTAGGGATTCGCATTC
1 AAAATTTTAAAGATTCACATTC
*
15969876 AAAATTTTAAAGATTCACATTTGA
1 AAAATTTTAAAGATTCACA-TT-C
* ** * *
15969900 AAAACTTTAGTGTTTCACATCC
1 AAAATTTTAAAGATTCACATTC
* *
15969922 AAAATTTTAAAGGTTCTCATTC
1 AAAATTTTAAAGATTCACATTC
** * * *
15969944 AAATAATTTTAGGGTTTCATATCC
1 -AA-AATTTTAAAGATTCACATTC
*
15969968 AAAATTTTAAATATTCACATTC
1 AAAATTTTAAAGATTCACATTC
15969990 GATAAGTTTT
Statistics
Matches: 95, Mismatches: 35, Indels: 10
0.68 0.25 0.07
Matches are distributed among these distances:
21 15 0.16
22 44 0.46
23 7 0.07
24 29 0.31
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (22 bp):
AAAATTTTAAAGATTCACATTC
Found at i:15969952 original size:24 final size:23
Alignment explanation
Indices: 15969911--15969978 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
15969901 AAACTTTAGT
* *
15969911 GTTTCACATCCAAAATTTTAAAG
1 GTTTCATATCAAAAATTTTAAAG
*
15969934 GTTCTCAT-TCAAATAATTTT-AGG
1 GTT-TCATATCAAA-AATTTTAAAG
*
15969957 GTTTCATATCCAAAATTTTAAA
1 GTTTCATATCAAAAATTTTAAA
15969979 TATTCACATT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
22 10 0.28
23 17 0.47
24 9 0.25
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.40
Consensus pattern (23 bp):
GTTTCATATCAAAAATTTTAAAG
Found at i:15969989 original size:46 final size:45
Alignment explanation
Indices: 15969833--15969989 Score: 174
Period size: 46 Copynumber: 3.5 Consensus size: 45
15969823 TTCTCCTTAA
* * * * *
15969833 AAAATTTTAAAGATTCACA-CCCAAAAC-TTAGGGATTCGCATTC
1 AAAATTTTAAAGATTCACATTCAAAAACTTTAGGGTTTCACATCC
* *
15969876 AAAATTTTAAAGATTCACATTTGAAAAACTTTAGTGTTTCACATCC
1 AAAATTTTAAAGATTCACA-TTCAAAAACTTTAGGGTTTCACATCC
* * * *
15969922 AAAATTTTAAAGGTTCTCATTCAAATAATTTTAGGGTTTCATATCC
1 AAAATTTTAAAGATTCACATTCAAA-AACTTTAGGGTTTCACATCC
*
15969968 AAAATTTTAAATATTCACATTC
1 AAAATTTTAAAGATTCACATTC
15969990 GATAAGTTTT
Statistics
Matches: 94, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
43 19 0.20
45 10 0.11
46 65 0.69
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (45 bp):
AAAATTTTAAAGATTCACATTCAAAAACTTTAGGGTTTCACATCC
Found at i:15970009 original size:46 final size:43
Alignment explanation
Indices: 15969875--15970029 Score: 123
Period size: 46 Copynumber: 3.4 Consensus size: 43
15969865 GATTCGCATT
* * * *
15969875 CAAAATTTTAAAGATTCACATTTGAAAAACTTTAGTGTTTCACATC
1 CAAAATTTTAAAGATTCACATTCG-ATAATTTTA--GTTTCATATC
* * *
15969921 CAAAATTTTAAAGGTTCTCATTCAAATAATTTTAGGGTTTCATATC
1 CAAAATTTTAAAGATTCACATTC-GATAATTTTA--GTTTCATATC
*
15969967 CAAAATTTTAAATATTCACATTCGATAAGTTTTAGATATTCATAAT-
1 CAAAATTTTAAAGATTCACATTCGATAA-TTTTAG-T-TTCAT-ATC
* *
15970013 CAAAATTTCACAGATTC
1 CAAAATTTTAAAGATTC
15970030 TTATTTGAAA
Statistics
Matches: 89, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
44 1 0.01
45 5 0.06
46 81 0.91
47 2 0.02
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.39
Consensus pattern (43 bp):
CAAAATTTTAAAGATTCACATTCGATAATTTTAGTTTCATATC
Found at i:15971214 original size:19 final size:21
Alignment explanation
Indices: 15971191--15971248 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
15971181 TAAGTCTTCC
*
15971191 TTTTTTCTCTTTTTTTTTTC-
1 TTTTTACTCTTTTTTTTTTCA
15971211 TTTTTAC-CTTTCATTTTTTTCA
1 TTTTTACTCTTT--TTTTTTTCA
*
15971233 TTTTTATTCTTTTTTT
1 TTTTTACTCTTTTTTT
15971249 CTCTATTTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
19 4 0.12
20 6 0.19
21 12 0.38
22 6 0.19
23 4 0.12
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTTACTCTTTTTTTTTTCA
Found at i:15972490 original size:44 final size:44
Alignment explanation
Indices: 15972427--15972512 Score: 109
Period size: 44 Copynumber: 2.0 Consensus size: 44
15972417 TTGAAAGTAA
* **
15972427 GACAAGTTTTTATTGAGTGACCCATATTCCCATTATGGTAATAT
1 GACAAGTTTCTATAAAGTGACCCATATTCCCATTATGGTAATAT
** **
15972471 GACAAGTTTCTATAAAGTGATGCATATTCTTATTATGGTAAT
1 GACAAGTTTCTATAAAGTGACCCATATTCCCATTATGGTAAT
15972513 CACAATGGCA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (44 bp):
GACAAGTTTCTATAAAGTGACCCATATTCCCATTATGGTAATAT
Found at i:15975300 original size:3 final size:3
Alignment explanation
Indices: 15975294--15975325 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
15975284 AAAAAAAAAG
15975294 TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
15975326 ATGAATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:15984237 original size:22 final size:21
Alignment explanation
Indices: 15984186--15984260 Score: 80
Period size: 22 Copynumber: 3.4 Consensus size: 21
15984176 TCTTCATTTA
* *
15984186 AAAAAATAAATTTAATTTTTT
1 AAAAAATATATTTTATTTTTT
15984207 CAAATAAATATTATTTTATTTTTT
1 -AAA-AAATA-TATTTTATTTTTT
15984231 AAAAAATCATATTTCTA-TTTTT
1 AAAAAAT-ATATTT-TATTTTTT
15984253 AAAAAATA
1 AAAAAATA
15984261 GTTTTCTGCT
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
21 1 0.02
22 24 0.51
23 11 0.23
24 11 0.23
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (21 bp):
AAAAAATATATTTTATTTTTT
Found at i:15984674 original size:19 final size:18
Alignment explanation
Indices: 15984625--15984679 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 18
15984615 CGATTGTTAA
15984625 AAAATTTTGAAAAAAA--
1 AAAATTTTGAAAAAAATT
*
15984641 AAAGATTTTTAAAAAAAATT
1 AAA-A-TTTTGAAAAAAATT
15984661 AAAATATTTGAAAAAAATT
1 AAAAT-TTTGAAAAAAATT
15984680 TAAGTTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
16 3 0.09
17 1 0.03
18 12 0.38
19 13 0.41
20 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (18 bp):
AAAATTTTGAAAAAAATT
Found at i:15984674 original size:20 final size:19
Alignment explanation
Indices: 15984625--15984682 Score: 66
Period size: 17 Copynumber: 3.1 Consensus size: 19
15984615 CGATTGTTAA
15984625 AAAATTTTGAAAAAAAA--
1 AAAATTTTGAAAAAAAATT
* *
15984642 AAGATTTTTAAAAAAAATT
1 AAAATTTTGAAAAAAAATT
*
15984661 AAAATATTTGAAAAAAATTT
1 AAAAT-TTTGAAAAAAAATT
15984681 AA
1 AA
15984683 GTTTAAAGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
17 15 0.45
19 4 0.12
20 14 0.42
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (19 bp):
AAAATTTTGAAAAAAAATT
Found at i:15986518 original size:20 final size:20
Alignment explanation
Indices: 15986489--15986531 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
15986479 TTATTAATAA
*
15986489 TTTCTATTTTTATATGTTAT
1 TTTCTATTTTTATATCTTAT
* *
15986509 TTTCTCTTTTTCTATCTTAT
1 TTTCTATTTTTATATCTTAT
15986529 TTT
1 TTT
15986532 ATGTTAGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.14, C:0.12, G:0.02, T:0.72
Consensus pattern (20 bp):
TTTCTATTTTTATATCTTAT
Found at i:15988965 original size:14 final size:15
Alignment explanation
Indices: 15988937--15988969 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
15988927 ATAAATAATT
*
15988937 TTTTAACTATGAATA
1 TTTTAACTATAAATA
15988952 TTTT-ACTATAAATA
1 TTTTAACTATAAATA
15988966 TTTT
1 TTTT
15988970 TTAAAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (15 bp):
TTTTAACTATAAATA
Found at i:15991010 original size:24 final size:24
Alignment explanation
Indices: 15990965--15991014 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
15990955 TAAGTTGATT
15990965 TGTGGAAAAACTAAGAAATAAAAC
1 TGTGGAAAAACTAAGAAATAAAAC
* *
15990989 TGTGTGAAAAATTAA-AAGTAAAAC
1 TGTG-GAAAAACTAAGAAATAAAAC
15991013 TG
1 TG
15991015 AATGTATATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.54, C:0.06, G:0.18, T:0.22
Consensus pattern (24 bp):
TGTGGAAAAACTAAGAAATAAAAC
Found at i:15991183 original size:22 final size:22
Alignment explanation
Indices: 15991158--15991201 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
15991148 TTTTTTGTCC
* *
15991158 TTAATTCTAGGGATATAAATAT
1 TTAATTCTAGAGATACAAATAT
15991180 TTAATTCTAGAGATACAAATAT
1 TTAATTCTAGAGATACAAATAT
15991202 AAATGCACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (22 bp):
TTAATTCTAGAGATACAAATAT
Found at i:15998515 original size:16 final size:16
Alignment explanation
Indices: 15998494--15998528 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
15998484 ATACAAGCTC
*
15998494 ATACTAATTGTTAAGG
1 ATACTAATTGTTAAAG
15998510 ATACTAATTGTTAAAG
1 ATACTAATTGTTAAAG
15998526 ATA
1 ATA
15998529 TGTTATCACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.37
Consensus pattern (16 bp):
ATACTAATTGTTAAAG
Found at i:16000752 original size:23 final size:24
Alignment explanation
Indices: 16000726--16000770 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
16000716 TCATATAGGC
* *
16000726 ATGTTTAACAATCA-AAAATCAAT
1 ATGTATAAAAATCACAAAATCAAT
16000749 ATGTATAAAAATCACAAAATCA
1 ATGTATAAAAATCACAAAATCA
16000771 TTTCCATCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.56, C:0.13, G:0.04, T:0.27
Consensus pattern (24 bp):
ATGTATAAAAATCACAAAATCAAT
Found at i:16002881 original size:17 final size:17
Alignment explanation
Indices: 16002859--16002891 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16002849 CAATAAATTG
16002859 ATGAACTATAAGCAAAT
1 ATGAACTATAAGCAAAT
*
16002876 ATGAACTATAATCAAA
1 ATGAACTATAAGCAAA
16002892 ATAAAGAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.12, G:0.09, T:0.24
Consensus pattern (17 bp):
ATGAACTATAAGCAAAT
Found at i:16005505 original size:17 final size:17
Alignment explanation
Indices: 16005483--16005517 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
16005473 TCCACTAGCT
16005483 ATCCTTTTAAGTACCCA
1 ATCCTTTTAAGTACCCA
16005500 ATCCTTTTAAGTACCCA
1 ATCCTTTTAAGTACCCA
16005517 A
1 A
16005518 CCCCAAGGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (17 bp):
ATCCTTTTAAGTACCCA
Found at i:16007554 original size:20 final size:22
Alignment explanation
Indices: 16007516--16007555 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
16007506 GTTTCTGTCG
16007516 TAAGTATTGAGGTTGATAGAGC
1 TAAGTATTGAGGTTGATAGAGC
16007538 TAAG-ATTGAGG-TGATAGA
1 TAAGTATTGAGGTTGATAGA
16007556 ATGATTGCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.35, C:0.03, G:0.33, T:0.30
Consensus pattern (22 bp):
TAAGTATTGAGGTTGATAGAGC
Found at i:16011719 original size:18 final size:18
Alignment explanation
Indices: 16011696--16011750 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
16011686 AGAAAATAAT
*
16011696 AGAACCTAGGCATGCACC
1 AGAACCCAGGCATGCACC
*
16011714 AGAACCCAAGCATGCACC
1 AGAACCCAGGCATGCACC
* *
16011732 AAAACCCAGACATGCACC
1 AGAACCCAGGCATGCACC
16011750 A
1 A
16011751 ACATCAGTGC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.40, C:0.36, G:0.16, T:0.07
Consensus pattern (18 bp):
AGAACCCAGGCATGCACC
Found at i:16013235 original size:29 final size:29
Alignment explanation
Indices: 16013191--16013246 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
16013181 TTACTTTTAA
*
16013191 AAAAATTTTAAAAAAATA-AAATAAATGG
1 AAAAATTGTAAAAAAATATAAATAAATGG
*
16013219 AAAAATTGTAAATAAAATATAATTAAAT
1 AAAAATTGTAAA-AAAATATAAATAAAT
16013247 ATGATTGACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 11 0.46
29 6 0.25
30 7 0.29
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (29 bp):
AAAAATTGTAAAAAAATATAAATAAATGG
Found at i:16013578 original size:4 final size:4
Alignment explanation
Indices: 16013571--16013615 Score: 81
Period size: 4 Copynumber: 11.2 Consensus size: 4
16013561 ATACACATAC
*
16013571 GTAT GTAT GTAT GTAC GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
16013616 AAACTATAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.24, C:0.02, G:0.27, T:0.47
Consensus pattern (4 bp):
GTAT
Found at i:16014351 original size:16 final size:16
Alignment explanation
Indices: 16014326--16014373 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
16014316 TCGTGTTTGC
16014326 TTTA-GGTTTTTTTTT
1 TTTAGGGTTTTTTTTT
** *
16014341 TTTAGGGTTTTTCATG
1 TTTAGGGTTTTTTTTT
16014357 TTTAGGGTTCTTTTTTT
1 TTTAGGGTT-TTTTTTT
16014374 ATTTGTTTAG
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
15 4 0.16
16 17 0.68
17 4 0.16
ACGTcount: A:0.08, C:0.04, G:0.19, T:0.69
Consensus pattern (16 bp):
TTTAGGGTTTTTTTTT
Found at i:16014396 original size:16 final size:16
Alignment explanation
Indices: 16014341--16014398 Score: 53
Period size: 16 Copynumber: 3.2 Consensus size: 16
16014331 GTTTTTTTTT
16014341 TTTAGGGTTTTTCATG
1 TTTAGGGTTTTTCATG
*
16014357 TTTAGGGTTCTTTTTTTATTTG
1 TTTAGGG----TTTTTCA--TG
16014379 TTTAGGGTTTTTCATG
1 TTTAGGGTTTTTCATG
16014395 TTTA
1 TTTA
16014399 AAAATTTTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
16 13 0.38
18 6 0.18
20 6 0.18
22 9 0.26
ACGTcount: A:0.12, C:0.05, G:0.21, T:0.62
Consensus pattern (16 bp):
TTTAGGGTTTTTCATG
Found at i:16019969 original size:21 final size:20
Alignment explanation
Indices: 16019945--16020003 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 20
16019935 TAGCAACACG
16019945 TAGCTCTTTCTTTTCAACCTT
1 TAGCTCTTTC-TTTCAACCTT
* *
16019966 TAGCTCCTCCTTTCAACCTT
1 TAGCTCTTTCTTTCAACCTT
*
16019986 TAACTCTTTCTTTCAACC
1 TAGCTCTTTCTTTCAACC
16020004 CTCAATTCCT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
20 25 0.76
21 8 0.24
ACGTcount: A:0.17, C:0.34, G:0.03, T:0.46
Consensus pattern (20 bp):
TAGCTCTTTCTTTCAACCTT
Found at i:16020545 original size:34 final size:34
Alignment explanation
Indices: 16020502--16020570 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
16020492 GTTAAATTTT
16020502 ATTTATTTAAATGTTATGCATTAGGTAATATTAG
1 ATTTATTTAAATGTTATGCATTAGGTAATATTAG
16020536 ATTTATTTAAATGTTATGCATTAGGTAATATTAG
1 ATTTATTTAAATGTTATGCATTAGGTAATATTAG
16020570 A
1 A
16020571 CAAAAAATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.36, C:0.03, G:0.14, T:0.46
Consensus pattern (34 bp):
ATTTATTTAAATGTTATGCATTAGGTAATATTAG
Found at i:16020827 original size:7 final size:7
Alignment explanation
Indices: 16020813--16020849 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
16020803 AAGTTAAAAA
16020813 TTATTTT
1 TTATTTT
*
16020820 TTAGTTT
1 TTATTTT
16020827 TTATTTT
1 TTATTTT
16020834 TTATTTT
1 TTATTTT
16020841 TTATTTT
1 TTATTTT
16020848 TT
1 TT
16020850 TTAATCTTGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.84
Consensus pattern (7 bp):
TTATTTT
Found at i:16020956 original size:20 final size:20
Alignment explanation
Indices: 16020933--16020972 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
16020923 AATATAAAAT
*
16020933 AAAATTTATATTATTAAATAA
1 AAAATTAAT-TTATTAAATAA
16020954 AAAATTAATTTATTAAATA
1 AAAATTAATTTATTAAATA
16020973 TATATAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AAAATTAATTTATTAAATAA
Found at i:16025653 original size:26 final size:28
Alignment explanation
Indices: 16025624--16025686 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 28
16025614 TTTAATTAAA
* *
16025624 TATTTATATTTTAATA-TATT-TTTTAT
1 TATTTATATTTAAAAATTATTATTTTAT
*
16025650 TA-TTATAATTAAAAATTATTATTTTAT
1 TATTTATATTTAAAAATTATTATTTTAT
*
16025677 TATATATATT
1 TATTTATATT
16025687 AAATTAAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
25 10 0.34
26 6 0.21
27 8 0.28
28 5 0.17
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (28 bp):
TATTTATATTTAAAAATTATTATTTTAT
Found at i:16025697 original size:24 final size:26
Alignment explanation
Indices: 16025644--16025697 Score: 60
Period size: 27 Copynumber: 2.1 Consensus size: 26
16025634 TTAATATATT
*
16025644 TTTTATTATTATAATTAAAAATTATTA
1 TTTTATTATTATAATT-AAAATTATAA
16025671 TTTTATTA-TATATATT-AAATTA-AA
1 TTTTATTATTATA-ATTAAAATTATAA
16025695 TTT
1 TTT
16025698 AAGCTCAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
24 4 0.16
25 6 0.24
26 4 0.16
27 11 0.44
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
TTTTATTATTATAATTAAAATTATAA
Found at i:16029009 original size:12 final size:13
Alignment explanation
Indices: 16028982--16029007 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16028972 ACAATAAAGG
16028982 ATTAAATAAAAAA
1 ATTAAATAAAAAA
16028995 ATTAAATAAAAAA
1 ATTAAATAAAAAA
16029008 TTTCAACATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
ATTAAATAAAAAA
Found at i:16035739 original size:22 final size:22
Alignment explanation
Indices: 16035711--16035753 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
16035701 TAAGATTCTG
16035711 TTGGAGTTAGATCTATGTTATT
1 TTGGAGTTAGATCTATGTTATT
16035733 TTGGAGTTAGATCTATGTTAT
1 TTGGAGTTAGATCTATGTTAT
16035754 GTCGTCGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.05, G:0.23, T:0.49
Consensus pattern (22 bp):
TTGGAGTTAGATCTATGTTATT
Found at i:16040358 original size:30 final size:28
Alignment explanation
Indices: 16040322--16040431 Score: 96
Period size: 30 Copynumber: 3.6 Consensus size: 28
16040312 TTTATTATAT
16040322 TTAAATAAATTCTTAATATTTAATTTACA
1 TTAAATAAATT-TTAATATTTAATTTACA
*
16040351 TTCAAATAAATTTTTAACT-TTCAATTTACA
1 TT-AAATAAA-TTTTAA-TATTTAATTTACA
* *
16040381 TATAAATAAACTTTTAAAATTTTAATTTATAA
1 T-TAAATAAA-TTTTAATA-TTTAATTTA-CA
*
16040413 TAAAATAAAATTTTAATAT
1 TTAAAT-AAATTTTAATAT
16040432 AAAGCATTAG
Statistics
Matches: 66, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
29 2 0.03
30 36 0.55
31 23 0.35
32 5 0.08
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.46
Consensus pattern (28 bp):
TTAAATAAATTTTAATATTTAATTTACA
Found at i:16040419 original size:31 final size:29
Alignment explanation
Indices: 16040324--16040428 Score: 86
Period size: 31 Copynumber: 3.4 Consensus size: 29
16040314 TATTATATTT
* * *
16040324 AAATAAATTCTTAATA-TTTAATTTACATTC
1 AAATAAATT-TTAAAATTTTAATTTA-AATA
* * * *
16040354 AAATAAATTTTTAACTTTCAATTTACATA
1 AAATAAATTTTAAAATTTTAATTTAAATA
16040383 TAAATAAACTTTTAAAATTTTAATTTATAATA
1 -AAATAAA-TTTTAAAATTTTAATTTA-AATA
16040415 AAATAAAATTTTAA
1 AAAT-AAATTTTAA
16040429 TATAAAGCAT
Statistics
Matches: 59, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
29 4 0.07
30 24 0.41
31 25 0.42
32 6 0.10
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.45
Consensus pattern (29 bp):
AAATAAATTTTAAAATTTTAATTTAAATA
Found at i:16040522 original size:30 final size:30
Alignment explanation
Indices: 16040446--16040518 Score: 121
Period size: 29 Copynumber: 2.5 Consensus size: 30
16040436 CATTAGAATA
* *
16040446 ATAAAAATTTATTTGAATATAAATCAAAAT
1 ATAAAAATTTATTTAAATATAAATAAAAAT
16040476 ATAAAAATTTATTTAAATAT-AATAAAAAT
1 ATAAAAATTTATTTAAATATAAATAAAAAT
16040505 ATAAAAATTTATTT
1 ATAAAAATTTATTT
16040519 TAAAAAATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 22 0.54
30 19 0.46
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (30 bp):
ATAAAAATTTATTTAAATATAAATAAAAAT
Found at i:16040664 original size:1 final size:1
Alignment explanation
Indices: 16040629--16040654 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
16040619 CTAAAATCAG
16040629 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
16040655 CATGAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:16044134 original size:21 final size:22
Alignment explanation
Indices: 16044110--16044150 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
16044100 TTATTCATGA
*
16044110 TTTAAGGTT-ATTATATGTTAG
1 TTTAAGGTTAATTACATGTTAG
*
16044131 TTTATGGTTAATTACATGTT
1 TTTAAGGTTAATTACATGTT
16044151 TTTAAGTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.27, C:0.02, G:0.17, T:0.54
Consensus pattern (22 bp):
TTTAAGGTTAATTACATGTTAG
Found at i:16051428 original size:19 final size:19
Alignment explanation
Indices: 16051404--16051441 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
16051394 CTTTTAACAG
16051404 AAATGATGACATGAATACC
1 AAATGATGACATGAATACC
16051423 AAATGATGACATGAATACC
1 AAATGATGACATGAATACC
16051442 TTCACAGTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.21
Consensus pattern (19 bp):
AAATGATGACATGAATACC
Found at i:16055008 original size:11 final size:11
Alignment explanation
Indices: 16054973--16055023 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
16054963 AAAAAGAAAG
* *
16054973 AAAAAAAGAAA
1 AAAAGAAGAAT
*
16054984 AAAAGAAG-AC
1 AAAAGAAGAAT
16054994 AAAAGAAGAAT
1 AAAAGAAGAAT
*
16055005 AAAAGAGAAAAT
1 AAAAGA-AGAAT
16055017 AAAAGAA
1 AAAAGAA
16055024 AATTAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
10 9 0.26
11 15 0.44
12 10 0.29
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.04
Consensus pattern (11 bp):
AAAAGAAGAAT
Found at i:16055072 original size:12 final size:12
Alignment explanation
Indices: 16055051--16055090 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
16055041 GAAGAATTTT
*
16055051 AAAAATGAAAAA
1 AAAAAAGAAAAA
16055063 AAAAAAGAAAAAA
1 AAAAAAG-AAAAA
16055076 AAAGAAAGAAAAA
1 AAA-AAAGAAAAA
16055089 AA
1 AA
16055091 TATAGATGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 6 0.24
13 15 0.60
14 4 0.16
ACGTcount: A:0.88, C:0.00, G:0.10, T:0.03
Consensus pattern (12 bp):
AAAAAAGAAAAA
Found at i:16055073 original size:10 final size:10
Alignment explanation
Indices: 16055060--16055089 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
16055050 TAAAAATGAA
16055060 AAAAAAAAAG
1 AAAAAAAAAG
16055070 AAAAAAAAAG
1 AAAAAAAAAG
16055080 AAAGAAAAAA
1 AAA-AAAAAA
16055090 ATATAGATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 13 0.68
11 6 0.32
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:16055075 original size:14 final size:14
Alignment explanation
Indices: 16055058--16055090 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
16055048 TTTAAAAATG
16055058 AAAAAAAAAAAGAA
1 AAAAAAAAAAAGAA
*
16055072 AAAAAAAGAAAGAA
1 AAAAAAAAAAAGAA
16055086 AAAAA
1 AAAAA
16055091 TATAGATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAGAA
Found at i:16055584 original size:35 final size:35
Alignment explanation
Indices: 16055514--16055587 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 35
16055504 GCATAATTTT
** * **
16055514 TATACCTATTTAAATTTTGGGCAAGGTCATTTATA
1 TATACCTATTTAAATTTTGCCCAAAGTCACATATA
*
16055549 TATACCTATTTAAATTTTGCCCAAATTCACATATA
1 TATACCTATTTAAATTTTGCCCAAAGTCACATATA
16055584 TATA
1 TATA
16055588 AATTAAAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.42
Consensus pattern (35 bp):
TATACCTATTTAAATTTTGCCCAAAGTCACATATA
Found at i:16061506 original size:12 final size:12
Alignment explanation
Indices: 16061489--16061523 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
16061479 GACAGATTGA
16061489 TGAGTTAAGGAT
1 TGAGTTAAGGAT
*
16061501 TGAGTTAAAGAT
1 TGAGTTAAGGAT
*
16061513 TGAGTTGAGGA
1 TGAGTTAAGGA
16061524 CTGAACTTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (12 bp):
TGAGTTAAGGAT
Found at i:16063729 original size:3 final size:3
Alignment explanation
Indices: 16063723--16063755 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
16063713 ACCTTAGTAG
*
16063723 TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
16063756 AGCTCTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:16071306 original size:55 final size:55
Alignment explanation
Indices: 16071245--16071413 Score: 180
Period size: 55 Copynumber: 3.1 Consensus size: 55
16071235 TAGTATAGAC
* *
16071245 TTTTAATTTTTTTACCTATACTAACGCTTAAAGCCCGTTAGTATAGATTTGTATG
1 TTTTAATTTTTTTACCTATACTAACGATTAAAGCCCGTTAGTATAGATTTGTATA
* * * ** * * *
16071300 TTTTAATTTTTTCACCTATACCAACGGTTAGTGCCCATTAGTATAGACTTATATA
1 TTTTAATTTTTTTACCTATACTAACGATTAAAGCCCGTTAGTATAGATTTGTATA
* * * *
16071355 TTTTAATTTTTTTGACTTATACTGACAATTAACA-CCTGTTAGTATAGATTTGTA-A
1 TTTTAATTTTTTT-ACCTATACTAACGATTAA-AGCCCGTTAGTATAGATTTGTATA
16071410 TTTT
1 TTTT
16071414 TCTTATCTAT
Statistics
Matches: 91, Mismatches: 21, Indels: 4
0.78 0.18 0.03
Matches are distributed among these distances:
55 63 0.69
56 28 0.31
ACGTcount: A:0.28, C:0.14, G:0.11, T:0.46
Consensus pattern (55 bp):
TTTTAATTTTTTTACCTATACTAACGATTAAAGCCCGTTAGTATAGATTTGTATA
Found at i:16072767 original size:29 final size:30
Alignment explanation
Indices: 16072710--16072766 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
16072700 GCTTGCATCA
*
16072710 TAAAAAAGCCTTTTCAAAAGAAAAAAAAGG
1 TAAAAAAGCCTTCTCAAAAGAAAAAAAAGG
*
16072740 TAAAAAAGCCTTCTCAAAGGAAAAAAA
1 TAAAAAAGCCTTCTCAAAAGAAAAAAA
16072767 GTAAGCTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.60, C:0.12, G:0.12, T:0.16
Consensus pattern (30 bp):
TAAAAAAGCCTTCTCAAAAGAAAAAAAAGG
Found at i:16076004 original size:194 final size:195
Alignment explanation
Indices: 16075675--16076065 Score: 696
Period size: 194 Copynumber: 2.0 Consensus size: 195
16075665 ATGATATAAC
*
16075675 CAATGTATTTCCTAACAATATTAGTTAGACCATGAGCAAGCCATCTAAGTTGATCTATCATGTTT
1 CAATGTATTTCCTAACAATATCAGTTAGACCATGAGCAAGCCATCTAAGTTGATCTATCATGTTT
*
16075740 GTATCTCCATGTTGATCCAAATTGGTAACCTATCCATTTTCATATTTGGTTAAAATAATAATCTA
66 GTATCTCCATGTTGATCCAAATAGGTAACCTATCCATTTTCATATTTGGTTAAAATAATAATCTA
16075805 ACTATAAAAACTTTAATTACATATTCTAAACCATGATATG-TAACTTACATGATCACG-AACCAA
131 ACTATAAAAACTTTAATTACATATTCTAAACCATGATATGCT-ACTTACATGATCACGAAACCAA
16075868 T
195 T
* * *
16075869 CAATGTATTTTCTAACAGTATCAGTTGGACCATGAGCAAGCCATCTAAGTTGATCTATCATGTTT
1 CAATGTATTTCCTAACAATATCAGTTAGACCATGAGCAAGCCATCTAAGTTGATCTATCATGTTT
**
16075934 GTATCTCTTTGTTGATCCAAATAGGTAACCTATCCATTTTCATATTTGGTTAAAATAATAATCTA
66 GTATCTCCATGTTGATCCAAATAGGTAACCTATCCATTTTCATATTTGGTTAAAATAATAATCTA
16075999 ACTATAAAAACTTTAATTACATATTCTAAACCATGATATGCTACTTACATGATCACGAAACCAAT
131 ACTATAAAAACTTTAATTACATATTCTAAACCATGATATGCTACTTACATGATCACGAAACCAAT
16076064 CA
1 CA
16076066 TGAAAAGTTT
Statistics
Matches: 188, Mismatches: 7, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
194 178 0.95
195 10 0.05
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.36
Consensus pattern (195 bp):
CAATGTATTTCCTAACAATATCAGTTAGACCATGAGCAAGCCATCTAAGTTGATCTATCATGTTT
GTATCTCCATGTTGATCCAAATAGGTAACCTATCCATTTTCATATTTGGTTAAAATAATAATCTA
ACTATAAAAACTTTAATTACATATTCTAAACCATGATATGCTACTTACATGATCACGAAACCAAT
Found at i:16080710 original size:23 final size:23
Alignment explanation
Indices: 16080645--16080728 Score: 98
Period size: 23 Copynumber: 3.5 Consensus size: 23
16080635 TTTGTTTTGG
*
16080645 TATTATTTATATTCTTTGA-TATATG
1 TATT-TTT-TATTCTTT-ACTATATA
* *
16080670 TATTTTTTTGTTCCTTACTATATA
1 TA-TTTTTTATTCTTTACTATATA
16080694 TATTTTTTATTCTTTACTATATA
1 TATTTTTTATTCTTTACTATATA
16080717 TATTTTTTATTC
1 TATTTTTTATTC
16080729 ATTCTACCGT
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
23 32 0.62
24 13 0.25
25 5 0.10
26 2 0.04
ACGTcount: A:0.24, C:0.08, G:0.04, T:0.64
Consensus pattern (23 bp):
TATTTTTTATTCTTTACTATATA
Found at i:16082553 original size:21 final size:22
Alignment explanation
Indices: 16082511--16082553 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
16082501 CCATGAAGTA
* * *
16082511 TGATTTTGTTTATTATATTTAT
1 TGATTTGGTTTATAATACTTAT
16082533 TGATTTGGTTT-TAATACTTAT
1 TGATTTGGTTTATAATACTTAT
16082554 ATTTTATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.23, C:0.02, G:0.12, T:0.63
Consensus pattern (22 bp):
TGATTTGGTTTATAATACTTAT
Found at i:16084512 original size:125 final size:123
Alignment explanation
Indices: 16084291--16084518 Score: 298
Period size: 125 Copynumber: 1.8 Consensus size: 123
16084281 CATTTTTTTA
** * * *
16084291 GGATTATTAAAGGCATTTTTGTGAGAAAAAGTCTTGAATAATCCCTTAGAAAATTTGAATGGGGT
1 GGATTATTAAAGGCATTTTTGCCAGAAAAAGCCTTGAATAATCCCTTACAAAATTTAAATGGGGT
*
16084356 TAGTTAAGCCGTTTATGGCCAAAAATGCCTTAAATAATCTCTTTCAATTTTTGTGATG
66 TAGTTAAGCCGTTTATGGCCAAAAATACCTTAAATAATCTCTTTCAATTTTTGTGATG
***
16084414 GGATTATTAAAGGCATTTTTAGCCAGAAAATA-CCTTGAATAATTTTTTACAAAATATTAAATGG
1 GGATTATTAAAGGCATTTTT-GCCAGAAAA-AGCCTTGAATAATCCCTTACAAAAT-TTAAATGG
* * *
16084478 GGTTA-TTGAAGGCGTTTCTGGCTAAAAATACCTTAAATAAT
63 GGTTAGTT-AAGCCGTTTATGGCCAAAAATACCTTAAATAAT
16084519 TTATGGTCTA
Statistics
Matches: 89, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
123 20 0.22
124 27 0.30
125 42 0.47
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (123 bp):
GGATTATTAAAGGCATTTTTGCCAGAAAAAGCCTTGAATAATCCCTTACAAAATTTAAATGGGGT
TAGTTAAGCCGTTTATGGCCAAAAATACCTTAAATAATCTCTTTCAATTTTTGTGATG
Found at i:16086630 original size:20 final size:20
Alignment explanation
Indices: 16086605--16086644 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
16086595 ATCGAATATG
16086605 AAAGAAATAGTAGCAAAATT
1 AAAGAAATAGTAGCAAAATT
16086625 AAAGAAATAGTAGCAAAATT
1 AAAGAAATAGTAGCAAAATT
16086645 TTGTGTTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.60, C:0.05, G:0.15, T:0.20
Consensus pattern (20 bp):
AAAGAAATAGTAGCAAAATT
Found at i:16089002 original size:31 final size:30
Alignment explanation
Indices: 16088966--16089025 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
16088956 TTTTCATTTG
*
16088966 AAATAATGACTTATTTAAATATAAATAAAAA
1 AAATAAGGACTTATTTAAATAT-AATAAAAA
* *
16088997 AAATAAGGGCTTATTTGAATATAATAAAA
1 AAATAAGGACTTATTTAAATATAATAAAA
16089026 GTATATGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 7 0.27
31 19 0.73
ACGTcount: A:0.57, C:0.03, G:0.08, T:0.32
Consensus pattern (30 bp):
AAATAAGGACTTATTTAAATATAATAAAAA
Found at i:16090589 original size:29 final size:30
Alignment explanation
Indices: 16090557--16090623 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 30
16090547 AATAATATGG
*
16090557 ATATACATGAATAAATATGACTAACAC-AT
1 ATATACATGAATAAACATGACTAACACAAT
* *
16090586 ATATATATGAATAGACATGACTAACACGAAT
1 ATATACATGAATAAACATGACTAACAC-AAT
16090617 ATATACA
1 ATATACA
16090624 AAAAATACAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 24 0.75
31 8 0.25
ACGTcount: A:0.51, C:0.13, G:0.09, T:0.27
Consensus pattern (30 bp):
ATATACATGAATAAACATGACTAACACAAT
Found at i:16091878 original size:32 final size:33
Alignment explanation
Indices: 16091838--16091922 Score: 109
Period size: 32 Copynumber: 2.5 Consensus size: 33
16091828 AAATTGTAAA
*
16091838 TTAGAAAATAAAGATGACTAGGACT-CCACAAG
1 TTAGAAAATAAAGATGACTAAGACTACCACAAG
*
16091870 TTAGAAAATAAAGATGATTAAGACTGAACCACAAG
1 TTAGAAAATAAAGATGACTAAGACT--ACCACAAG
*
16091905 TTAAAAAAATAAAGATGA
1 TT-AGAAAATAAAGATGA
16091923 TCGAAACTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
32 23 0.50
35 9 0.20
36 14 0.30
ACGTcount: A:0.53, C:0.11, G:0.16, T:0.20
Consensus pattern (33 bp):
TTAGAAAATAAAGATGACTAAGACTACCACAAG
Found at i:16092144 original size:33 final size:34
Alignment explanation
Indices: 16092097--16092189 Score: 98
Period size: 33 Copynumber: 2.7 Consensus size: 34
16092087 AAATTATTAA
*
16092097 GACTAAACCACAAGTAAAAAAATGAA-ATAATTG
1 GACTAAACCACAAGTAAAAAAATAAAGATAATTG
** * *
16092130 GACTAAACTGCAAGTCAAAAAATAAAGATAATCG
1 GACTAAACCACAAGTAAAAAAATAAAGATAATTG
* * *
16092164 AGACTGAACCATAAGTTAAAAAATAA
1 -GACTAAACCACAAGTAAAAAAATAA
16092190 GGATGACGGG
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
33 22 0.46
34 6 0.12
35 20 0.42
ACGTcount: A:0.56, C:0.13, G:0.13, T:0.18
Consensus pattern (34 bp):
GACTAAACCACAAGTAAAAAAATAAAGATAATTG
Found at i:16092185 original size:35 final size:34
Alignment explanation
Indices: 16092141--16092261 Score: 109
Period size: 35 Copynumber: 3.4 Consensus size: 34
16092131 ACTAAACTGC
* *
16092141 AAGTCAAAAAATAAAGATAATCGAGACTGAACCAT
1 AAGTTAAAAAATAAAGATGATCG-GACTGAACCAT
* * * *
16092176 AAGTTAAAAAATAAGGATGA-CGGGGGCTAAACCGT
1 AAGTTAAAAAATAAAGATGATC--GGACTGAACCAT
* *
16092211 AAGTTAAAGAAATAAAAATGATCGGTACTGAATCAT
1 AAGTTAAA-AAATAAAGATGATCGG-ACTGAACCAT
*
16092247 AAGTAAAAAAATAAA
1 AAGTTAAAAAATAAA
16092262 ATTGACTGGG
Statistics
Matches: 68, Mismatches: 13, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
34 1 0.01
35 42 0.62
36 24 0.35
37 1 0.01
ACGTcount: A:0.53, C:0.10, G:0.18, T:0.19
Consensus pattern (34 bp):
AAGTTAAAAAATAAAGATGATCGGACTGAACCAT
Found at i:16092412 original size:35 final size:35
Alignment explanation
Indices: 16092315--16092756 Score: 165
Period size: 35 Copynumber: 12.6 Consensus size: 35
16092305 AGATTGAATC
* * *
16092315 GTAAGTTAGAAAATAAAGATGAACT-GAACTAAA-T
1 GTAAGTTAAAAAATAAAAATG-ACTAGGACTAAACT
* * * * *
16092349 CGCAAGTGAAAAAGTAAAAATGATTAGGATTAAACT
1 -GTAAGTTAAAAAATAAAAATGACTAGGACTAAACT
* *
16092385 GTAAGTTAAAAAATAAAGATGACTAGGACTGAACCT
1 GTAAGTTAAAAAATAAAAATGACTAGGACT-AAACT
* * ** * *
16092421 -CAAGTCAAAAAATAAATTTGA-TAAGGACTGAACC
1 GTAAGTTAAAAAATAAAAATGACT-AGGACTAAACT
* * * * * *
16092455 GTAAGTCAAGAAATAAAAAT-AATTGAGATTGAA-T
1 GTAAGTTAAAAAATAAAAATGACTAG-GACTAAACT
*
16092489 CGTAA-TTGAAAAAAATAAAGATGA-TAGGGACTAAACT
1 -GTAAGTT--AAAAAATAAAAATGACTA-GGACTAAACT
*
16092526 GTAAGTTAAAAAATAAAAATGACT-GGAGCTGAA-T
1 GTAAGTTAAAAAATAAAAATGACTAGGA-CTAAACT
* ** * * *
16092560 AGCAAGTTAGGAAACAAAAATGA-TCGAGACTGAACT
1 -GTAAGTTAAAAAATAAAAATGACTAG-GACTAAACT
* * * * * * * *
16092596 GCAAGTCAGAAAAT-AAAATGACCATGATTGAATCC
1 GTAAGTTAAAAAATAAAAATGACTAGGACT-AAACT
* * ** *
16092631 CTAAGTCAAAAAATAAAAATGACTAAAACTGAACT
1 GTAAGTTAAAAAATAAAAATGACTAGGACTAAACT
* * * *
16092666 GTAAGCTAGAAAA-AAAAATGA-TTGAAACTAAACT
1 GTAAGTTAAAAAATAAAAATGACTAG-GACTAAACT
* * * * * *
16092700 GCAAGTCAAAAAATAAAGATGACAAGGACTGAACC
1 GTAAGTTAAAAAATAAAAATGACTAGGACTAAACT
* *
16092735 GTAAGTTAGAAACTAAAAATGA
1 GTAAGTTAAAAAATAAAAATGA
16092757 TCAAGCTGAA
Statistics
Matches: 298, Mismatches: 83, Indels: 52
0.69 0.19 0.12
Matches are distributed among these distances:
33 1 0.00
34 48 0.16
35 202 0.68
36 42 0.14
37 5 0.02
ACGTcount: A:0.51, C:0.10, G:0.18, T:0.21
Consensus pattern (35 bp):
GTAAGTTAAAAAATAAAAATGACTAGGACTAAACT
Found at i:16092425 original size:70 final size:69
Alignment explanation
Indices: 16092315--16092756 Score: 216
Period size: 70 Copynumber: 6.3 Consensus size: 69
16092305 AGATTGAATC
* * * * * * * *
16092315 GTAAGTTAGAAAATAAAGATGAACTGAACTAAATCGCAAGTGAAAAAGTAAAAATGATTAGGATT
1 GTAAGTTAAAAAATAAAAATG-ACTGGACTGAACCTCAAGTGAAAAAATAAAAATGATTAGGACT
16092380 AAACT
65 AAACT
* * ** *
16092385 GTAAGTTAAAAAATAAAGATGACTAGGACTGAACCTCAAGTCAAAAAATAAATTTGATAAGGACT
1 GTAAGTTAAAAAATAAAAATGACT-GGACTGAACCTCAAGTGAAAAAATAAAAATGATTAGGACT
* *
16092450 GAACC
65 AAACT
* * * * * * * *
16092455 GTAAGTCAAGAAATAAAAATAATTGAGATTGAATCGT-AATTGAAAAAAATAAAGATGA-TAGGG
1 GTAAGTTAAAAAATAAAAATGACTG-GACTGAA-CCTCAAGTG-AAAAAATAAAAATGATTA-GG
16092518 ACTAAACT
62 ACTAAACT
*** * ** * *
16092526 GTAAGTTAAAAAATAAAAATGACTGGAGCTGAATAGCAAGTTAGGAAACAAAAATGA-TCGAGAC
1 GTAAGTTAAAAAATAAAAATGACTGGA-CTGAACCTCAAGTGAAAAAATAAAAATGATTAG-GAC
*
16092590 TGAACT
64 TAAACT
* * * * * * **
16092596 GCAAGTCAGAAAAT-AAAATGACCAT-GATTGAATCC-CTAAGTCAAAAAATAAAAATGACTAAA
1 GTAAGTTAAAAAATAAAAATGA-C-TGGACTGAA-CCTC-AAGTGAAAAAATAAAAATGATTAGG
*
16092658 ACTGAACT
62 ACTAAACT
* * * * * * * **
16092666 GTAAGCTAGAAAA-AAAAATGATTGAAACT-AAACTGCAAGTCAAAAAATAAAGATGACAAGGAC
1 GTAAGTTAAAAAATAAAAATGACTG-GACTGAACCT-CAAGTGAAAAAATAAAAATGATTAGGAC
* *
16092729 TGAACC
64 TAAACT
* *
16092735 GTAAGTTAGAAACTAAAAATGA
1 GTAAGTTAAAAAATAAAAATGA
16092757 TCAAGCTGAA
Statistics
Matches: 283, Mismatches: 70, Indels: 38
0.72 0.18 0.10
Matches are distributed among these distances:
68 2 0.01
69 58 0.20
70 170 0.60
71 53 0.19
ACGTcount: A:0.51, C:0.10, G:0.18, T:0.21
Consensus pattern (69 bp):
GTAAGTTAAAAAATAAAAATGACTGGACTGAACCTCAAGTGAAAAAATAAAAATGATTAGGACTA
AACT
Found at i:16092591 original size:141 final size:141
Alignment explanation
Indices: 16092357--16092754 Score: 328
Period size: 141 Copynumber: 2.8 Consensus size: 141
16092347 ATCGCAAGTG
* * * **
16092357 AAAAAGTAAAAATGATTAGGATTAAACTGTAAGTTAAAAAATAAAGATGACTAGGACTGAACCTC
1 AAAAAATAAAAATGATTAGGACTAAACTGTAAGTTAAAAAATAAAAATGACTAGGACTGAACAGC
* ** *
16092422 AAGTCAAAAAATAAATTTGATAAGGACTGAACCGTAAGTCA-AGAAATAAAAATAATTGAGATTG
66 AAGTCAAAAAACAAAAATGATAAGGACTGAACCGCAAGTCAGA-AAATAAAAATAATTGAGATTG
16092486 AATCGTAATTGA
130 AATCGTAATTGA
* *
16092498 AAAAAATAAAGATGA-TAGGGACTAAACTGTAAGTTAAAAAATAAAAATGACT-GGAGCTGAATA
1 AAAAAATAAAAATGATTA-GGACTAAACTGTAAGTTAAAAAATAAAAATGACTAGGA-CTGAACA
* ** * * * **
16092561 GCAAGTTAGGAAACAAAAATGAT-CGAGACTGAACTGCAAGTCAGAAAAT-AAAATGA-CCATGA
64 GCAAGTCAAAAAACAAAAATGATAAG-GACTGAACCGCAAGTCAGAAAATAAAAATAATTGA-GA
* * *
16092623 TTGAATCCCTAAGT-C
127 TTGAAT-CGTAATTGA
* ** * * * * * * *
16092638 AAAAAATAAAAATGACTAAAACTGAACTGTAAGCTAGAAAA-AAAAATGA-TTGAAACTAAACTG
1 AAAAAATAAAAATGATTAGGACTAAACTGTAAGTTAAAAAATAAAAATGACTAG-GACTGAACAG
* * * * * *
16092701 CAAGTCAAAAAATAAAGATGACAAGGACTGAACCGTAAGTTAGAAACTAAAAAT
65 CAAGTCAAAAAACAAAAATGATAAGGACTGAACCGCAAGTCAGAAAATAAAAAT
16092755 GATCAAGCTG
Statistics
Matches: 203, Mismatches: 43, Indels: 23
0.75 0.16 0.09
Matches are distributed among these distances:
138 1 0.00
139 50 0.25
140 59 0.29
141 92 0.45
142 1 0.00
ACGTcount: A:0.52, C:0.11, G:0.17, T:0.21
Consensus pattern (141 bp):
AAAAAATAAAAATGATTAGGACTAAACTGTAAGTTAAAAAATAAAAATGACTAGGACTGAACAGC
AAGTCAAAAAACAAAAATGATAAGGACTGAACCGCAAGTCAGAAAATAAAAATAATTGAGATTGA
ATCGTAATTGA
Found at i:16092798 original size:104 final size:104
Alignment explanation
Indices: 16092498--16092790 Score: 274
Period size: 104 Copynumber: 2.8 Consensus size: 104
16092488 TCGTAATTGA
* * * * **
16092498 AAAAAATAAAGATGATAGGGACTAAACTGTAAGTTAAAAAATAAAAATGACTGGAGCTGAATAGC
1 AAAAAATAAAGATGACAAGGACTGAACCGTAAGTTAAAAAATAAAAATGACTAAAGCTGAA-A-C
* * * * *
16092563 AAG-TTAGGAAACAAAAATGATCGAGACTGAACTGCAAGTC
64 ATGATAAGGAAAAAAAAATGATCGAAACTAAACTGCAAGTC
* * * * * * *
16092603 AGAAAATAAA-ATGACCATGATTGAATCCCTAAGTCAAAAAATAAAAATGACTAAAACTG-AAC-
1 AAAAAATAAAGATGACAAGGACTGAA-CCGTAAGTTAAAAAATAAAAATGACTAAAGCTGAAACA
*
16092665 TG-TAAGCTAGAAAAAAAAATGATTGAAACTAAACTGCAAGTC
65 TGATAAG---GAAAAAAAAATGATCGAAACTAAACTGCAAGTC
* * *
16092707 AAAAAATAAAGATGACAAGGACTGAACCGTAAGTTAGAAACTAAAAATGA-TCAAGCTGAAACAT
1 AAAAAATAAAGATGACAAGGACTGAACCGTAAGTTAAAAAATAAAAATGACTAAAGCTGAAACAT
*
16092771 GAATAAGGAAATAAAAATGA
66 G-ATAAGGAAAAAAAAATGA
16092791 CCAAAACTTA
Statistics
Matches: 149, Mismatches: 30, Indels: 19
0.75 0.15 0.10
Matches are distributed among these distances:
101 4 0.03
102 1 0.01
103 7 0.05
104 83 0.56
105 50 0.34
107 4 0.03
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (104 bp):
AAAAAATAAAGATGACAAGGACTGAACCGTAAGTTAAAAAATAAAAATGACTAAAGCTGAAACAT
GATAAGGAAAAAAAAATGATCGAAACTAAACTGCAAGTC
Found at i:16093189 original size:20 final size:20
Alignment explanation
Indices: 16093164--16093202 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
16093154 TATAGTCGAT
16093164 GATTCACAAATGAGACTCTG
1 GATTCACAAATGAGACTCTG
*
16093184 GATTCATAAATGAGACTCT
1 GATTCACAAATGAGACTCT
16093203 AAATTCACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (20 bp):
GATTCACAAATGAGACTCTG
Found at i:16093208 original size:20 final size:20
Alignment explanation
Indices: 16093165--16093211 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
16093155 ATAGTCGATG
**
16093165 ATTCACAAATGAGACTCTGG
1 ATTCACAAATGAGACTCTAA
*
16093185 ATTCATAAATGAGACTCTAA
1 ATTCACAAATGAGACTCTAA
16093205 ATTCACA
1 ATTCACA
16093212 TATGGTCAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (20 bp):
ATTCACAAATGAGACTCTAA
Found at i:16093431 original size:41 final size:41
Alignment explanation
Indices: 16093304--16093435 Score: 113
Period size: 41 Copynumber: 3.2 Consensus size: 41
16093294 AAAACTCAAT
* * * * *
16093304 ATTCACATTAGAGTTAACAATTCACAATTGTAGAACTCTAG
1 ATTCACATTAAAGTAAAAAATTCACAATTGAAGAACTCTGG
* * * ** * *
16093345 ATTCACATAAAAGTAAAAAATTCACAACTAAAGGTCTTTGA
1 ATTCACATTAAAGTAAAAAATTCACAATTGAAGAACTCTGG
* * **
16093386 ATTCACATTAAATTCAATGATTCACAATTGAAGAACTCTGG
1 ATTCACATTAAAGTAAAAAATTCACAATTGAAGAACTCTGG
16093427 ATTCA-ATTA
1 ATTCACATTA
16093436 GAGTTAACGA
Statistics
Matches: 68, Mismatches: 23, Indels: 1
0.74 0.25 0.01
Matches are distributed among these distances:
40 4 0.06
41 64 0.94
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.31
Consensus pattern (41 bp):
ATTCACATTAAAGTAAAAAATTCACAATTGAAGAACTCTGG
Found at i:16093850 original size:23 final size:23
Alignment explanation
Indices: 16093820--16093864 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
16093810 AATTTACTTT
16093820 AAATCATATTTT-AATAAGTTTAA
1 AAATCATATTTTGAATAA-TTTAA
16093843 AAATCATATTTTGAATAATTTA
1 AAATCATATTTTGAATAATTTA
16093865 TATAATTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.44
Consensus pattern (23 bp):
AAATCATATTTTGAATAATTTAA
Found at i:16095933 original size:24 final size:26
Alignment explanation
Indices: 16095894--16095944 Score: 88
Period size: 24 Copynumber: 2.0 Consensus size: 26
16095884 TTTTTTATAA
16095894 AAAAAAATAAATATTATAGATTGCTT
1 AAAAAAATAAATATTATAGATTGCTT
16095920 AAAAAAA-AAA-ATTATAGATTGCTT
1 AAAAAAATAAATATTATAGATTGCTT
16095944 A
1 A
16095945 GGTAACGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 15 0.60
25 3 0.12
26 7 0.28
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.31
Consensus pattern (26 bp):
AAAAAAATAAATATTATAGATTGCTT
Found at i:16102304 original size:14 final size:14
Alignment explanation
Indices: 16102285--16102313 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
16102275 CCAAGCATAA
16102285 AGTGAGTAAAGTAG
1 AGTGAGTAAAGTAG
16102299 AGTGAGTAAAGTAG
1 AGTGAGTAAAGTAG
16102313 A
1 A
16102314 TGACTTTGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.34, T:0.21
Consensus pattern (14 bp):
AGTGAGTAAAGTAG
Found at i:16105575 original size:2 final size:2
Alignment explanation
Indices: 16105568--16105612 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
16105558 AGAATAGAAA
16105568 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16105610 AT A
1 AT A
16105613 CACACACACA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:16105925 original size:20 final size:21
Alignment explanation
Indices: 16105889--16105939 Score: 79
Period size: 22 Copynumber: 2.5 Consensus size: 21
16105879 TCCGAAATTA
16105889 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTA-TTTTTAAAAT
16105911 ATAAAATATTATTTTT-AAAT
1 ATAAAATATTATTTTTAAAAT
16105931 AT-AAATATT
1 ATAAAATATT
16105940 TAAAAATATC
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 7 0.24
20 6 0.21
21 5 0.17
22 11 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:16105936 original size:19 final size:21
Alignment explanation
Indices: 16105888--16105939 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
16105878 ATCCGAAATT
16105888 AATA-AAATATTATTTTTTAA
1 AATATAAATATTATTTTTTAA
16105908 AATATAAAATATTA-TTTTT-A
1 AATAT-AAATATTATTTTTTAA
16105928 AATATAAATATT
1 AATATAAATATT
16105940 TAAAAATATC
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.23
20 10 0.33
21 5 0.17
22 8 0.27
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
AATATAAATATTATTTTTTAA
Found at i:16106003 original size:15 final size:16
Alignment explanation
Indices: 16105950--16105997 Score: 53
Period size: 18 Copynumber: 2.9 Consensus size: 16
16105940 TAAAAATATC
*
16105950 ATTATATAAATATATATA
1 ATTAAATAAATA-AT-TA
*
16105968 AATAAATAAATAATTA
1 ATTAAATAAATAATTA
16105984 ATTAAA-AAATAATT
1 ATTAAATAAATAATT
16105998 TTTTAATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 8 0.30
16 7 0.26
17 2 0.07
18 10 0.37
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
ATTAAATAAATAATTA
Done.