Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 71 of 316
Found at i:20980134 original size:89 final size:88
Alignment explanation
Indices: 20979790--20980821 Score: 443
Period size: 89 Copynumber: 11.4 Consensus size: 88
20979780 TGCATATACC
* * * * * * * *
20979790 ACTTCAAGGAGATAAGATTCGT-AGCTTCAATCTGCTCCGCTGCGACTTTAGGGAGATGAGATTA
1 ACTTCAGGGAGATAAGATTTGTAATCTTTAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTT
* * * *
20979854 GTGATTTTTAACCTGCTCCACTGCA
66 GT-A-CTTTAATCTACTCTACTGCA
* * * ** * * * * * * *
20979879 ACTTCAGGGAGATAAGGTTTGTAGT-TTTGATCTGCTCTACTACAGCTTAAAGAAGATGAGATTA
1 ACTTCAGGGAGATAAGATTTGTAATCTTTAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTT
* * *
20979943 GTGATTTTTAACCTGCTAC-ACTGCA
66 GT-A-CTTTAATCTACT-CTACTGCA
* * ** * * *
20979968 ACTTCAGGGAGATAAGGTTTGT-AGCTTTAATCTGCTCTACTGCAGCTTCAGAGAGACAAGATTT
1 ACTTCAGGGAGATAAGATTTGTAATCTTTAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTT
*
20980032 GATATTTTCAATCTACTCTACTGCA
66 G-TACTTT-AATCTACTCTACTGCA
* *
20980057 ACTTCAGGGAGATAAGATTTGTAATCTTTAACCTGCTCCGCTGCAACTTCAGGGAGATAAGGTTT
1 ACTTCAGGGAGATAAGATTTGTAATCTTTAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTT
* * *
20980122 GTGGCTTTAATCTACTCCACTGCG
66 GT-ACTTTAATCTACTCTACTGCA
* * * *
20980146 ACTTCAGAGAGATAAGATTTGTAA-CTTTGATCTACTCCAG-TGCAACTTCAGGGAGATAAGATC
1 ACTTCAGGGAGATAAGATTTGTAATCTTTAATCTGCTCC-GCTGCAACTTCAGGGAGATAAGATT
* *
20980209 TATAACTTTAACCTACTCTACTGCA
65 TGT-ACTTTAATCTACTCTACTGCA
* * * * * * * * *
20980234 ACTTCTGGGAGATAATATTTGTAATTTGTAGCTTTAATCTGTTCCACTACAAATTTAAGGATATA
1 ACTTCAGGGAGATAAGATTTGTAA----T--CTTTAATCTGCTCCGCTGCAACTTCAGGGAGATA
** * * ** * **
20980299 AGATTCACTATCTTCAGTCTGTTCCACTATA
60 AGATT-TGTA-CTTTAATCTACTCTACTGCA
* * * * * * * *
20980330 ATTTCAGGGAGATAAGACTTGTAA-CTTCAACCTACTCCACTCCAACTTCAGGGAGATAAGGTTT
1 ACTTCAGGGAGATAAGATTTGTAATCTTTAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTT
* * * * *
20980394 GTTATCTTCAGTCTGCTCCACTACA
66 G-TA-CTTTAATCTACTCTACTGCA
* * * ** * * *
20980419 ACTTCAGGGAGATAAGACTT-AAAGT-TTTAATCTACTCTACTGCAACTTCAGAGAGGTAATATT
1 ACTTCAGGGAGATAAGATTTGTAA-TCTTTAATCTGCTCCGCTGCAACTTCAGGGAGATAAGA-T
* ** * *
20980482 TTTTATCTTCGATCTACTCCACTGTA
64 TTGTA-CTTTAATCTACTCTACTGCA
** * * * * *
20980508 ACTTCAATGAGATAAGATCTATAA-CTTCAATCTGCTCCACTGCAACTTCAGGGAGATCCGATTT
1 ACTTCAGGGAGATAAGATTTGTAATCTTTAATCTGCTCCGCTGCAACTTCAGGGAGAT---A--A
* * * *
20980572 GTAATTTGTAGCCTTAATCTATTCCACTGTA
61 G--ATTTGTA-CTTTAATCTACTCTACTGCA
* * * * * * *
20980603 AATTTAGGGAAATAAGATTCGCT-ATCTTTAGTCTACTCCACTGCAACTTCAGGGAGATGAGACT
1 ACTTCAGGGAGATAAGATTTG-TAATCTTTAATCTGCTCCGCTGCAACTTCAGGGAGAT-A-A--
* ** * *
20980667 TGTAATTTATAGCTTTAATCTGTTCCACTACA
61 -G--ATTTGTA-CTTTAATCTACTCTACTGCA
* * * * * ** *
20980699 ACTTCAGGGAAATAAGATTCGCT-ATCTTCAGTCTGTTCCATTGCAACTTCAGGGAGATAAGACT
1 ACTTCAGGGAGATAAGATTTG-TAATCTTTAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATT
* * *
20980763 TGTAACTTTAACCTGCTCCACTGCA
65 TGT-ACTTTAATCTACTCTACTGCA
* * * *
20980788 ACTTCAAGGAGATAAGGTTTAT-AGCTTTAATCTG
1 ACTTCAGGGAGATAAGATTTGTAATCTTTAATCTG
20980822 TTCTAAGATT
Statistics
Matches: 740, Mismatches: 165, Indels: 77
0.75 0.17 0.08
Matches are distributed among these distances:
88 89 0.12
89 392 0.53
90 46 0.06
91 1 0.00
92 1 0.00
94 3 0.00
95 65 0.09
96 143 0.19
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (88 bp):
ACTTCAGGGAGATAAGATTTGTAATCTTTAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTT
GTACTTTAATCTACTCTACTGCA
Found at i:20980345 original size:45 final size:43
Alignment explanation
Indices: 20980271--20980803 Score: 165
Period size: 45 Copynumber: 11.7 Consensus size: 43
20980261 GTAGCTTTAA
* * * * *
20980271 TCTGTTCCACTACAAATTTAAGGATATAAGATTCACTATCTTCAG
1 TCTGCTCCACTACAACTTCAGGGAGATAAGATT--CTATCTTCAG
* * * * * *
20980316 TCTGTTCCACTATAATTTCAGGGAGATAAGACTTGTAACTTCAA
1 TCTGCTCCACTACAACTTCAGGGAGATAAGA-TTCTATCTTCAG
* * * * *
20980360 CCTACTCCACTCCAACTTCAGGGAGATAAGGTTTGTTATCTTCAG
1 TCTGCTCCACTACAACTTCAGGGAGATAA-GATT-CTATCTTCAG
** * *
20980405 TCTGCTCCACTACAACTTCAGGGAGATAAGACTTAAAGT-TTTAA
1 TCTGCTCCACTACAACTTCAGGGAGATAAGA-TTCTA-TCTTCAG
* * * * * * *
20980449 TCTACTCTACTGCAACTTCAGAGAGGTAATATTTTTTATCTTC-G
1 TCTGCTCCACTACAACTTCAGGGAGATAAGA--TTCTATCTTCAG
* ** ** *
20980493 ATCTACTCCACTGTAACTTCAATGAGATAAGA-TCTATAACTTCAA
1 -TCTGCTCCACTACAACTTCAGGGAGATAAGATTCTAT--CTTCAG
* ** * * *
20980538 TCTGCTCCACTGCAACTTCAGGGAGATCCGATTTGTAATTTGTAGCCTTAA
1 TCTGCTCCACTACAACTTCAGGGAGATAAGA-TTCT-ATCT-T---C--AG
** ** * * * *
20980589 TCTATTCCACTGTAAATTTAGGGAAATAAGATTCGCTATCTTTAG
1 TCTGCTCCACTACAACTTCAGGGAGATAAGATT--CTATCTTCAG
* * * *
20980634 TCTACTCCACTGCAACTTCAGGGAGATGAGACTTGTAATT-TATAGCTTTAA
1 TCTGCTCCACTACAACTTCAGGGAGAT-A-A---G--ATTCTAT--CTTCAG
* *
20980685 TCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAG
1 TCTGCTCCACTACAACTTCAGGGAGATAAGATT--CTATCTTCAG
* * * * * * *
20980730 TCTGTTCCATTGCAACTTCAGGGAGATAAGACTTGTAACTTTAA
1 TCTGCTCCACTACAACTTCAGGGAGATAAGA-TTCTATCTTCAG
* * *
20980774 CCTGCTCCACTGCAACTTCAAGGAGATAAG
1 TCTGCTCCACTACAACTTCAGGGAGATAAG
20980804 GTTTATAGCT
Statistics
Matches: 365, Mismatches: 88, Indels: 71
0.70 0.17 0.14
Matches are distributed among these distances:
42 4 0.01
44 127 0.35
45 149 0.41
46 9 0.02
47 6 0.02
49 5 0.01
50 5 0.01
51 56 0.15
52 4 0.01
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (43 bp):
TCTGCTCCACTACAACTTCAGGGAGATAAGATTCTATCTTCAG
Found at i:20980659 original size:96 final size:96
Alignment explanation
Indices: 20980532--20980772 Score: 320
Period size: 96 Copynumber: 2.5 Consensus size: 96
20980522 AGATCTATAA
* * * * *
20980532 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATCCGATTTGTAATTTGTAGCCTTAATCTATTCC
1 CTTCAGTCTACTCCACTGCAACTTCAGGGAGATCAGACTTGTAATTTATAGCCTTAATCTATTCC
** *
20980597 ACTGTAAATTTAGGGAAATAAGATTCGCTAT
66 ACTACAAATTCAGGGAAATAAGATTCGCTAT
* * * *
20980628 CTTTAGTCTACTCCACTGCAACTTCAGGGAGATGAGACTTGTAATTTATAGCTTTAATCTGTTCC
1 CTTCAGTCTACTCCACTGCAACTTCAGGGAGATCAGACTTGTAATTTATAGCCTTAATCTATTCC
*
20980693 ACTACAACTTCAGGGAAATAAGATTCGCTAT
66 ACTACAAATTCAGGGAAATAAGATTCGCTAT
** * *
20980724 CTTCAGTCTGTTCCATTGCAACTTCAGGGAGATAAGACTTGTAACTTTA
1 CTTCAGTCTACTCCACTGCAACTTCAGGGAGATCAGACTTGTAA-TTTA
20980773 ACCTGCTCCA
Statistics
Matches: 126, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
96 122 0.97
97 4 0.03
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (96 bp):
CTTCAGTCTACTCCACTGCAACTTCAGGGAGATCAGACTTGTAATTTATAGCCTTAATCTATTCC
ACTACAAATTCAGGGAAATAAGATTCGCTAT
Found at i:20980905 original size:44 final size:44
Alignment explanation
Indices: 20980851--20980963 Score: 118
Period size: 44 Copynumber: 2.6 Consensus size: 44
20980841 CGATCTACTT
*
20980851 CACTGTAACTTCAGGAAGATAAGATCTATAACTTCAACCTGCTC
1 CACTGCAACTTCAGGAAGATAAGATCTATAACTTCAACCTGCTC
** * * ** * *
20980895 CACTGCAACTTCAAAAAGATAAGGTTTATGGCTTTAATCTGCTC
1 CACTGCAACTTCAGGAAGATAAGATCTATAACTTCAACCTGCTC
* * *
20980939 CATTACAACTTCAGGGAGATAAGAT
1 CACTGCAACTTCAGGAAGATAAGAT
20980964 TTGCTACGAT
Statistics
Matches: 54, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (44 bp):
CACTGCAACTTCAGGAAGATAAGATCTATAACTTCAACCTGCTC
Found at i:20987498 original size:23 final size:23
Alignment explanation
Indices: 20987472--20987516 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
20987462 TGGGTATGTG
*
20987472 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
20987495 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
20987517 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:20989336 original size:26 final size:24
Alignment explanation
Indices: 20989307--20989358 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
20989297 TTATTATAAT
20989307 GAATTAACATTGGCACTATGTGTGCA
1 GAATTAA-A-TGGCACTATGTGTGCA
* *
20989333 GAATTAAATGTCACTTTGTGTGCA
1 GAATTAAATGGCACTATGTGTGCA
20989357 GA
1 GA
20989359 TTTTATATGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 16 0.67
25 1 0.04
26 7 0.29
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.33
Consensus pattern (24 bp):
GAATTAAATGGCACTATGTGTGCA
Found at i:20989432 original size:94 final size:94
Alignment explanation
Indices: 20989280--20989532 Score: 445
Period size: 94 Copynumber: 2.7 Consensus size: 94
20989270 TATGTTAATT
*
20989280 GAAGTAAGTTAATTGCCTTATTATAATGAATTAACATTGGCACTATGTGTGCAGAATTAAATGTC
1 GAAGTAAGTTAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCAGAATTAAATGTC
20989345 ACTTTGTGTGCAGATTTTATATGCTATTC
66 ACTTTGTGTGCAGATTTTATATGCTATTC
*
20989374 GAAGTAAGTTAATTGCCTTATTATAATGAGTTAGCATTGGCACTATGTGTGC-GAAATTAAATGT
1 GAAGTAAGTTAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCAG-AATTAAATGT
20989438 CACTTTGTGTGCAGATTTTATATGCTATTC
65 CACTTTGTGTGCAGATTTTATATGCTATTC
* * *
20989468 GAAGTAAGTTAATTGCCTTATTATAATGAGTTAACATTGGCACTATATGTGCAGATTTGAATGTC
1 GAAGTAAGTTAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCAGAATTAAATGTC
20989533 GATGCATAAG
Statistics
Matches: 151, Mismatches: 6, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
93 1 0.01
94 149 0.99
95 1 0.01
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.39
Consensus pattern (94 bp):
GAAGTAAGTTAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCAGAATTAAATGTC
ACTTTGTGTGCAGATTTTATATGCTATTC
Found at i:20989586 original size:24 final size:24
Alignment explanation
Indices: 20989554--20989617 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 24
20989544 GAAAATTTCA
* *
20989554 GGCACTATGTGTGCG-GTTTAGTAT
1 GGCACTATGTGTGCGAGCTTAAT-T
20989578 GGCACTATGTGTGCGAGCTTAATT
1 GGCACTATGTGTGCGAGCTTAATT
*
20989602 AGCACTATGTGTGCGA
1 GGCACTATGTGTGCGA
20989618 ATTCGGGTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 31 0.86
25 5 0.14
ACGTcount: A:0.20, C:0.16, G:0.31, T:0.33
Consensus pattern (24 bp):
GGCACTATGTGTGCGAGCTTAATT
Found at i:21003459 original size:53 final size:53
Alignment explanation
Indices: 21003333--21003440 Score: 189
Period size: 53 Copynumber: 2.0 Consensus size: 53
21003323 AAATAAAATA
21003333 ACAATGATGATAATAAAAAATGTACCAATAAAAACATGTGTAAAATCCAATTT
1 ACAATGATGATAATAAAAAATGTACCAATAAAAACATGTGTAAAATCCAATTT
* * *
21003386 ACAATGATGATAATAAAAAATGTACCGATAAAAGCATGTGTACAATCCAATTT
1 ACAATGATGATAATAAAAAATGTACCAATAAAAACATGTGTAAAATCCAATTT
21003439 AC
1 AC
21003441 GAGTATGTGT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.50, C:0.13, G:0.11, T:0.26
Consensus pattern (53 bp):
ACAATGATGATAATAAAAAATGTACCAATAAAAACATGTGTAAAATCCAATTT
Found at i:21003470 original size:15 final size:15
Alignment explanation
Indices: 21003450--21003479 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21003440 CGAGTATGTG
21003450 TAAAAAAAATAAAAA
1 TAAAAAAAATAAAAA
*
21003465 TAAAAATAATAAAAA
1 TAAAAAAAATAAAAA
21003480 CAAATATATG
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:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (15 bp):
TAAAAAAAATAAAAA
Found at i:21003575 original size:19 final size:20
Alignment explanation
Indices: 21003551--21003603 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
21003541 CAAAGGCACA
21003551 AAAAGAAAATAAAA-AAGAT
1 AAAAGAAAATAAAACAAGAT
*
21003570 AAAAGAAAA-AAAAGCACGAT
1 AAAAGAAAATAAAA-CAAGAT
*
21003590 AAAGGAAAATAAAA
1 AAAAGAAAATAAAA
21003604 TAAAAAACAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 4 0.14
19 9 0.31
20 12 0.41
21 4 0.14
ACGTcount: A:0.75, C:0.04, G:0.13, T:0.08
Consensus pattern (20 bp):
AAAAGAAAATAAAACAAGAT
Found at i:21003666 original size:4 final size:4
Alignment explanation
Indices: 21003637--21003678 Score: 59
Period size: 4 Copynumber: 10.8 Consensus size: 4
21003627 AAAATGGTAA
* *
21003637 AAAT -AAT AAAT AAGT AAAT AAGT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
21003679 GGACTCAATC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 3 0.09
4 30 0.91
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:21010116 original size:16 final size:18
Alignment explanation
Indices: 21010080--21010116 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
21010070 TAGTGTTTTG
*
21010080 TATTTTGTTATAGTTATT
1 TATTTTGTTATAGTAATT
21010098 TATTTTGTTA-A-TAATT
1 TATTTTGTTATAGTAATT
21010114 TAT
1 TAT
21010117 GGGATTAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 1 0.06
18 10 0.56
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (18 bp):
TATTTTGTTATAGTAATT
Found at i:21010273 original size:106 final size:106
Alignment explanation
Indices: 21010144--21010553 Score: 541
Period size: 106 Copynumber: 3.9 Consensus size: 106
21010134 TGATAGTGTT
* * *
21010144 TAGTGTTTTAG-GGTATTAGTGTATTGTGGTTTTTTTAATAATATATTTTTAAAAAATAATTTTA
1 TAGTG-TTTAGTGGTATTAGTGTATTAT-GATTTTTTAATAATATATTTTAAAAAAATAATTTTA
21010208 TAGCTATTTTATTAGTAATTTATGATTAGGTTACATAAATTGC
64 TAGCTATTTTATTAGTAATTTATGATTAGGTTACATAAATTGC
*
21010251 TAGTGTTTAGTGGT-TTAGTGTATTATGATTTTTTAGTAATGCAT-TTTTAAAAAAATAATTTTA
1 TAGTGTTTAGTGGTATTAGTGTATTATGATTTTTTAATAAT--ATATTTTAAAAAAATAATTTTA
* *
21010314 TAGTTATTTTGTTAGTAATTTATGATTAGGTTACATAAATTGC
64 TAGCTATTTTATTAGTAATTTATGATTAGGTTACATAAATTGC
*
21010357 TA--G-TTAGT-GTATTAGTGTATTGTGATTCTTTTAGTAATAATATATTTTAAAAAAATAATTT
1 TAGTGTTTAGTGGTATTAGTGTATTATGA-T-TTTT--TAATAATATATTTTAAAAAAATAATTT
* *
21010418 TATAGCTATTTTATTAGTAATTTATGATTAGGTTATATAAATTGT
62 TATAGCTATTTTATTAGTAATTTATGATTAGGTTACATAAATTGC
* * *
21010463 TAGTGTTTAGTGGT-TTAGTGTATTATGATTTTTTAGTAATGTA-TTTAAAAAAATAATTTTTTA
1 TAGTGTTTAGTGGTATTAGTGTATTATGATTTTTTAATAATATATTTTAAAAAAATAATTTTATA
* *
21010526 GTTATTTTGTGTTAGTAATTTATGATTA
66 GCTA-TTT-TATTAGTAATTTATGATTA
21010554 TAAATTTTAG
Statistics
Matches: 270, Mismatches: 18, Indels: 31
0.85 0.06 0.10
Matches are distributed among these distances:
102 2 0.01
103 18 0.07
104 24 0.09
105 29 0.11
106 155 0.57
107 20 0.07
108 2 0.01
109 18 0.07
110 2 0.01
ACGTcount: A:0.32, C:0.02, G:0.15, T:0.51
Consensus pattern (106 bp):
TAGTGTTTAGTGGTATTAGTGTATTATGATTTTTTAATAATATATTTTAAAAAAATAATTTTATA
GCTATTTTATTAGTAATTTATGATTAGGTTACATAAATTGC
Found at i:21010412 original size:212 final size:209
Alignment explanation
Indices: 21010151--21010553 Score: 684
Period size: 212 Copynumber: 1.9 Consensus size: 209
21010141 GTTTAGTGTT
* *
21010151 TTAGGGTATTAGTGTATTGTGGTTTTTTTAATAATATATTTTTAAAAAATAATTTTATAGCTATT
1 TTAGGGTATTAGTGTATTGTGATTTTTTTAATAATATATTTTAAAAAAATAATTTTATAGCTATT
21010216 TTATTAGTAATTTATGATTAGGTTACATAAATTGCTAGTGTTTAGTGGTTTAGTGTATTATGATT
66 TTATTAGTAATTTATGATTAGGTTACATAAATTGCTAGTGTTTAGTGGTTTAGTGTATTATGATT
*
21010281 TTTTAGTAATGCATTTTTAAAAAAATAATTTTATAGTTA-TTT-TGTTAGTAATTTATGATTAGG
131 TTTTAGTAATG--TATTTAAAAAAATAATTTTATAGTTATTTTGTGTTAGTAATTTATGATTAGG
21010344 TTACATAAATTGCTAG
194 TTACATAAATTGCTAG
*
21010360 TTAGTGTATTAGTGTATTGTGATTCTTTTAGTAATAATATATTTTAAAAAAATAATTTTATAGCT
1 TTAGGGTATTAGTGTATTGTGATT-TTTT--TAATAATATATTTTAAAAAAATAATTTTATAGCT
* *
21010425 ATTTTATTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTATG
63 ATTTTATTAGTAATTTATGATTAGGTTACATAAATTGCTAGTGTTTAGTGGTTTAGTGTATTATG
*
21010490 ATTTTTTAGTAATGTATTTAAAAAAATAATTTTTTAGTTATTTTGTGTTAGTAATTTATGATTA
128 ATTTTTTAGTAATGTATTTAAAAAAATAATTTTATAGTTATTTTGTGTTAGTAATTTATGATTA
21010554 TAAATTTTAG
Statistics
Matches: 182, Mismatches: 7, Indels: 7
0.93 0.04 0.04
Matches are distributed among these distances:
209 22 0.12
210 28 0.15
211 3 0.02
212 129 0.71
ACGTcount: A:0.32, C:0.02, G:0.15, T:0.51
Consensus pattern (209 bp):
TTAGGGTATTAGTGTATTGTGATTTTTTTAATAATATATTTTAAAAAAATAATTTTATAGCTATT
TTATTAGTAATTTATGATTAGGTTACATAAATTGCTAGTGTTTAGTGGTTTAGTGTATTATGATT
TTTTAGTAATGTATTTAAAAAAATAATTTTATAGTTATTTTGTGTTAGTAATTTATGATTAGGTT
ACATAAATTGCTAG
Found at i:21012693 original size:24 final size:24
Alignment explanation
Indices: 21012666--21012719 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
21012656 TCCAGTCATC
*
21012666 CCGACTCATATCTACCTCAGTACT
1 CCGACTCATATCTACCACAGTACT
* * *
21012690 CCGACCCGTATCTACCACCGTACT
1 CCGACTCATATCTACCACAGTACT
21012714 CC-ACTC
1 CCGACTC
21012720 CTTAGAGCCG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 3 0.12
24 22 0.88
ACGTcount: A:0.22, C:0.44, G:0.09, T:0.24
Consensus pattern (24 bp):
CCGACTCATATCTACCACAGTACT
Found at i:21013328 original size:19 final size:19
Alignment explanation
Indices: 21013306--21013345 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
21013296 AGAGAATGAG
21013306 TATTAAAAACAATCAATTT
1 TATTAAAAACAATCAATTT
*
21013325 TATTAAAAACAATTAATTT
1 TATTAAAAACAATCAATTT
21013344 TA
1 TA
21013346 AAATACTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (19 bp):
TATTAAAAACAATCAATTT
Found at i:21016398 original size:24 final size:24
Alignment explanation
Indices: 21016353--21016398 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
21016343 ACTTCTGTTC
* * *
21016353 TGCTAAATTTTGTGTTTTTTGCAA
1 TGCTAAATTTTCTGTATGTTGCAA
21016377 TGCTAAATTTTCTGTATGTTGC
1 TGCTAAATTTTCTGTATGTTGC
21016399 TCATCTAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.20, C:0.11, G:0.17, T:0.52
Consensus pattern (24 bp):
TGCTAAATTTTCTGTATGTTGCAA
Found at i:21017068 original size:11 final size:11
Alignment explanation
Indices: 21017052--21017108 Score: 62
Period size: 11 Copynumber: 5.0 Consensus size: 11
21017042 TAAATTAATC
21017052 AAAATTTTTAA
1 AAAATTTTTAA
*
21017063 AAAATTTGTAA
1 AAAATTTTTAA
*
21017074 ATAAA-TATTAA
1 A-AAATTTTTAA
21017085 ATAAATTTTTAA
1 A-AAATTTTTAA
21017097 AAAATTTATTAA
1 AAAATTT-TTAA
21017109 TATTTATTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
11 26 0.67
12 13 0.33
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (11 bp):
AAAATTTTTAA
Found at i:21017110 original size:23 final size:23
Alignment explanation
Indices: 21017052--21017110 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
21017042 TAAATTAATC
*
21017052 AAAATTT-TTAAAAAATTTGTAA
1 AAAATTTATTAATAAATTTGTAA
*
21017074 ATAAA--TATTAAATAAATTTTTAA
1 A-AAATTTATT-AATAAATTTGTAA
21017097 AAAATTTATTAATA
1 AAAATTTATTAATA
21017111 TTTATTTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
21 1 0.03
22 6 0.20
23 19 0.63
24 4 0.13
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (23 bp):
AAAATTTATTAATAAATTTGTAA
Found at i:21031338 original size:37 final size:40
Alignment explanation
Indices: 21031242--21031381 Score: 106
Period size: 40 Copynumber: 3.5 Consensus size: 40
21031232 AACATACTAG
* * * *
21031242 TTTGGCACCCAGTGCCTTATCAGATAATTCGAAGTAATAA
1 TTTGGCACCCAGTGCCTCATCGGATAAATCAAAGTAATAA
* ** *
21031282 TTTGACACCCAGTATCTCATCGGCTAAATCAAAGT-A-AA
1 TTTGGCACCCAGTGCCTCATCGGATAAATCAAAGTAATAA
* * * *
21031320 -TTGGCACCCAGTGCCTCATCGAATTAATCCGAAGTAGTAA
1 TTTGGCACCCAGTGCCTCATCGGATAAAT-CAAAGTAATAA
* * * *
21031360 ATTGACACCCAATGTCTCATCG
1 TTTGGCACCCAGTGCCTCATCG
21031382 ACTCGAAGTC
Statistics
Matches: 77, Mismatches: 19, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
37 22 0.29
38 7 0.09
39 1 0.01
40 29 0.38
41 18 0.23
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.27
Consensus pattern (40 bp):
TTTGGCACCCAGTGCCTCATCGGATAAATCAAAGTAATAA
Found at i:21031369 original size:41 final size:40
Alignment explanation
Indices: 21031247--21031382 Score: 111
Period size: 41 Copynumber: 3.5 Consensus size: 40
21031237 ACTAGTTTGG
* * *
21031247 CACCCAGTGCCTTATC-AGA-TAATTCGAAGTAATAATTTGA
1 CACCCAGTGCCTCATCGA-ATTAA-TCGAAGTAGTAAATTGA
** ** * *
21031287 CACCCAGTATCTCATCGGCTAAATC-AA--AGTAAATTGG
1 CACCCAGTGCCTCATCGAATTAATCGAAGTAGTAAATTGA
21031324 CACCCAGTGCCTCATCGAATTAATCCGAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCGAATTAAT-CGAAGTAGTAAATTGA
* *
21031365 CACCCAATGTCTCATCGA
1 CACCCAGTGCCTCATCGA
21031383 CTCGAAGTCG
Statistics
Matches: 73, Mismatches: 17, Indels: 11
0.72 0.17 0.11
Matches are distributed among these distances:
37 26 0.36
38 1 0.01
39 4 0.05
40 15 0.21
41 27 0.37
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (40 bp):
CACCCAGTGCCTCATCGAATTAATCGAAGTAGTAAATTGA
Found at i:21040110 original size:43 final size:45
Alignment explanation
Indices: 21040049--21040143 Score: 140
Period size: 43 Copynumber: 2.2 Consensus size: 45
21040039 CTGCTTTGGG
** *
21040049 AGATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTCAGAA
1 AGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAA
*
21040094 AGATAAGA-C-TCAATCTTCAACCTGCTCTCTTGCTACCTCAGAG
1 AGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAA
21040137 AGATAAG
1 AGATAAG
21040144 GCCAGTGGTA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 37 0.80
44 1 0.02
45 8 0.17
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (45 bp):
AGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAA
Found at i:21041804 original size:21 final size:20
Alignment explanation
Indices: 21041780--21041822 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
21041770 TCATTCATTT
* *
21041780 AACAAATCCATAACATGATCA
1 AACAAACCCAAAACATG-TCA
*
21041801 AACACACCCAAAACATGTCA
1 AACAAACCCAAAACATGTCA
21041821 AA
1 AA
21041823 ACAATCATCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.53, C:0.28, G:0.05, T:0.14
Consensus pattern (20 bp):
AACAAACCCAAAACATGTCA
Found at i:21042530 original size:40 final size:40
Alignment explanation
Indices: 21042471--21042547 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
21042461 AACACACCAG
* **
21042471 TTTGGCACCCAGTGCCTCATCGGATAATTCGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATAAACCGAAGTAATAA
* * *
21042511 TTTGACACCTAGTGTCTCATCGGCTAAACCGAAGTAA
1 TTTGACACCCAGTGCCTCATCGGATAAACCGAAGTAA
21042548 ATTAACATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.27
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATCGGATAAACCGAAGTAATAA
Found at i:21042687 original size:21 final size:21
Alignment explanation
Indices: 21042663--21042702 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
21042653 CATGCCATCT
21042663 ATATCCGACTCAACCCGATTA
1 ATATCCGACTCAACCCGATTA
21042684 ATATCCGACTCAACCCGAT
1 ATATCCGACTCAACCCGAT
21042703 ACAGTTAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.35, G:0.10, T:0.23
Consensus pattern (21 bp):
ATATCCGACTCAACCCGATTA
Found at i:21047809 original size:13 final size:13
Alignment explanation
Indices: 21047788--21047817 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
21047778 ACTTTTCTAC
*
21047788 AGCATTTCTCAAA
1 AGCACTTCTCAAA
21047801 AGCACTTCTCAAA
1 AGCACTTCTCAAA
21047814 AGCA
1 AGCA
21047818 TTATCAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.27, G:0.10, T:0.23
Consensus pattern (13 bp):
AGCACTTCTCAAA
Found at i:21047817 original size:26 final size:26
Alignment explanation
Indices: 21047770--21047819 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
21047760 ATCAAGTTTT
* * *
21047770 TCAAAAACACTTTTCTACAGCATTTC
1 TCAAAAACACTTCTCAAAAGCATTTC
*
21047796 TCAAAAGCACTTCTCAAAAGCATT
1 TCAAAAACACTTCTCAAAAGCATT
21047820 ATCAAATTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.38, C:0.26, G:0.06, T:0.30
Consensus pattern (26 bp):
TCAAAAACACTTCTCAAAAGCATTTC
Found at i:21054537 original size:25 final size:25
Alignment explanation
Indices: 21054509--21054559 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
21054499 TTTCTTATAA
**
21054509 ACTTTAAATTAGGAATTCTATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
21054534 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
21054559 A
1 A
21054560 TTTTCCTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTAGATTAGG
Found at i:21054558 original size:12 final size:12
Alignment explanation
Indices: 21054512--21054559 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
21054502 CTTATAAACT
21054512 TTAAATTAGGAA
1 TTAAATTAGGAA
** *
21054524 TTCTATTAGGACT
1 TTAAATTAGGA-A
21054537 TTAAATTAGGAA
1 TTAAATTAGGAA
*
21054549 TTAGATTAGGA
1 TTAAATTAGGA
21054560 TTTTCCTTTG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
12 19 0.68
13 9 0.32
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.38
Consensus pattern (12 bp):
TTAAATTAGGAA
Found at i:21070438 original size:21 final size:21
Alignment explanation
Indices: 21070414--21070457 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
21070404 GTAACATTAA
21070414 ACTAAAGATTAAAGAGTGATT
1 ACTAAAGATTAAAGAGTGATT
21070435 ACTAAAGATTAAAGAGTGATT
1 ACTAAAGATTAAAGAGTGATT
21070456 AC
1 AC
21070458 AACTACTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.48, C:0.07, G:0.18, T:0.27
Consensus pattern (21 bp):
ACTAAAGATTAAAGAGTGATT
Found at i:21080637 original size:35 final size:35
Alignment explanation
Indices: 21080596--21080673 Score: 147
Period size: 35 Copynumber: 2.2 Consensus size: 35
21080586 CAAACATACG
21080596 AAGTAATAATTAAATAATGCATGATATACAAAAAA
1 AAGTAATAATTAAATAATGCATGATATACAAAAAA
21080631 AAGTAATAATTAAATAATGCATGATATACAAAAAA
1 AAGTAATAATTAAATAATGCATGATATACAAAAAA
*
21080666 GAGTAATA
1 AAGTAATA
21080674 CAATATCAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.59, C:0.05, G:0.10, T:0.26
Consensus pattern (35 bp):
AAGTAATAATTAAATAATGCATGATATACAAAAAA
Found at i:21083315 original size:16 final size:15
Alignment explanation
Indices: 21083294--21083328 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 15
21083284 TCATAAACTG
21083294 AAATAAAAAATATAAA
1 AAATAAAAAATA-AAA
21083310 AAATAAAAAATAAAA
1 AAATAAAAAATAAAA
21083325 AAAT
1 AAAT
21083329 TGAAATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (15 bp):
AAATAAAAAATAAAA
Found at i:21083991 original size:35 final size:35
Alignment explanation
Indices: 21083945--21084014 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
21083935 TCTCTCGGCC
21083945 TCGTTTATCCTTGATTTCTTCCTAGGGTTGTCAAT
1 TCGTTTATCCTTGATTTCTTCCTAGGGTTGTCAAT
21083980 TCGTTTATCCTTGATTTCTTCCTAGGGTTGTCAAT
1 TCGTTTATCCTTGATTTCTTCCTAGGGTTGTCAAT
21084015 CCTAGTATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.14, C:0.20, G:0.17, T:0.49
Consensus pattern (35 bp):
TCGTTTATCCTTGATTTCTTCCTAGGGTTGTCAAT
Found at i:21088235 original size:16 final size:16
Alignment explanation
Indices: 21088196--21088269 Score: 73
Period size: 16 Copynumber: 4.7 Consensus size: 16
21088186 AATTTCCCAT
*
21088196 TTTCTTTCTTT-TCTCC
1 TTTCTTTCTTTCTCT-A
21088212 TTTCTTTCTTTC-CTA
1 TTTCTTTCTTTCTCTA
*
21088227 TTTCGTTTCATTCTCTA
1 TTTC-TTTCTTTCTCTA
*
21088244 TTTCTTTCTTTATCT-
1 TTTCTTTCTTTCTCTA
*
21088259 TTTGTTTCTTT
1 TTTCTTTCTTT
21088270 ATTTTATGTA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
15 14 0.28
16 29 0.58
17 7 0.14
ACGTcount: A:0.05, C:0.23, G:0.03, T:0.69
Consensus pattern (16 bp):
TTTCTTTCTTTCTCTA
Found at i:21088303 original size:5 final size:5
Alignment explanation
Indices: 21088289--21088322 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
21088279 ATTTTATGTT
*
21088289 TAAT- TAATA TAATA TAATA TATTA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA
21088323 ATATTTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
TAATA
Found at i:21088316 original size:15 final size:16
Alignment explanation
Indices: 21088296--21088327 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
21088286 GTTTAATTAA
21088296 TATAATATAAT-ATAT
1 TATAATATAATAATAT
21088311 TATAATATAATAATAT
1 TATAATATAATAATAT
21088327 T
1 T
21088328 TTATATATGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATATAATAATAT
Found at i:21090474 original size:64 final size:64
Alignment explanation
Indices: 21090268--21090584 Score: 291
Period size: 64 Copynumber: 4.9 Consensus size: 64
21090258 CATAATTTTG
* * * * *
21090268 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAC-TTTATCTCGTA
1 GCTCTCTTGT-CTACATGGTGTACACATAGTATCACCCATGTGACCTAGCTACATATATCTCGTA
* * * * * * * ** *
21090331 GCTCTCTTGTTTACATGGTGTCCTTCACTTGGAACCACACATGCAACCTAGCTACATTTATCTCG
1 GCTCTCTTGTCTACATGGTG---TACACATAGTATCACCCATGTGACCTAGCTACATATATCTCG
21090396 TA
63 TA
*
21090398 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGTGACCTAGCTACATATATCCCGTA
1 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGTGACCTAGCTACATATATCTCGTA
** * *
21090462 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATACGATCTAGCTACCTCATAATGTCTC
1 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGTGACCTAGCTA---CAT-ATATCTC
21090527 GTA
62 GTA
* ** * *
21090530 GCTCTCTTGTAC-ACATGGTATACATC-CCGTATTACACATGTGACCTAGCTACATA
1 GCTCTCTTGT-CTACATGGTGTACA-CATAGTATCACCCATGTGACCTAGCTACATA
21090585 CCATCTGTAT
Statistics
Matches: 210, Mismatches: 33, Indels: 21
0.80 0.12 0.08
Matches are distributed among these distances:
63 18 0.09
64 83 0.40
65 3 0.01
66 24 0.11
67 33 0.16
68 47 0.22
69 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.32
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGTGACCTAGCTACATATATCTCGTA
Found at i:21090548 original size:132 final size:128
Alignment explanation
Indices: 21090268--21090584 Score: 325
Period size: 132 Copynumber: 2.4 Consensus size: 128
21090258 CATAATTTTG
* * * * *
21090268 GCTCTCTTGTACACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAC-TTTATCTCGTAG
1 GCTCTCTTGTACACATGGTGTACAC-TAGTATCACCCATGTGACCTAGCTACATATATCCCGTAG
* * * * * *
21090332 CTCTCTTGTTTACATGGTGTCCTTCACTTGGAACCACACATGCAACCTAGCTACATTTATCTCGT
65 CTCTCTTGTCTACATGGTG--CTACACATAGAACCACACATACAACCTAGCTACATATATCTCGT
21090397 A
128 A
21090398 GCTCTCTTGT-CTACATGGTGTACACATAGTATCACCCATGTGACCTAGCTACATATATCCCGTA
1 GCTCTCTTGTAC-ACATGGTGTACAC-TAGTATCACCCATGTGACCTAGCTACATATATCCCGTA
* * * * * *
21090462 GCTCTCTTGTCTACATGGTG-TACACATAGTATCACCCATACGATCTAGCTACCTCATAATGTCT
64 GCTCTCTTGTCTACATGGTGCTACACATAGAACCACACATACAACCTAGCTA---CAT-ATATCT
21090526 CGTA
125 CGTA
* ** * *
21090530 GCTCTCTTGTACACATGGTATACATCCCGTATTACACATGTGACCTAGCTACATA
1 GCTCTCTTGTACACATGGTGTACA-CTAGTATCACCCATGTGACCTAGCTACATA
21090585 CCATCTGTAT
Statistics
Matches: 156, Mismatches: 23, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
128 22 0.14
129 1 0.01
130 46 0.29
131 31 0.20
132 54 0.35
133 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.32
Consensus pattern (128 bp):
GCTCTCTTGTACACATGGTGTACACTAGTATCACCCATGTGACCTAGCTACATATATCCCGTAGC
TCTCTTGTCTACATGGTGCTACACATAGAACCACACATACAACCTAGCTACATATATCTCGTA
Found at i:21091067 original size:30 final size:30
Alignment explanation
Indices: 21091033--21091093 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
21091023 TCCTTAACTC
21091033 AAACTTTTGAAAAATTACAATTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
21091063 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
21091093 A
1 A
21091094 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:21099301 original size:25 final size:25
Alignment explanation
Indices: 21099248--21099360 Score: 90
Period size: 25 Copynumber: 4.6 Consensus size: 25
21099238 TTACCGATTG
*
21099248 CAGCTCGTGA-GAGCTTAC-AATTCT
1 CAGCTCGT-ATGAGCTTACTGATTCT
*
21099272 CAGCTCGTATGTGCTTACTGATTCT
1 CAGCTCGTATGAGCTTACTGATTCT
* * *
21099297 TAGCTTGTATGAGCTTACTGGTT-T
1 CAGCTCGTATGAGCTTACTGATTCT
* * * *
21099321 ACAGCTCGTGA-AAGCATACTAATTCA
1 -CAGCTCGT-ATGAGCTTACTGATTCT
21099347 CAGCTCGTATGAGC
1 CAGCTCGTATGAGC
21099361 ATACATGTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
23 1 0.01
24 17 0.25
25 50 0.72
26 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACTGATTCT
Found at i:21115682 original size:2 final size:2
Alignment explanation
Indices: 21115669--21115704 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
21115659 CTAACGAATA
*
21115669 TG TG TA TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
21115705 AGAGAGAGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.03, C:0.00, G:0.47, T:0.50
Consensus pattern (2 bp):
TG
Found at i:21115709 original size:2 final size:2
Alignment explanation
Indices: 21115704--21115730 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
21115694 GTGTGTGTGT
21115704 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
21115731 TTGAAGATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:21120082 original size:35 final size:35
Alignment explanation
Indices: 21120036--21120105 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
21120026 GAAGAAGAAG
21120036 AAAAAAGAGGAAATGGAGATGATCTGAGATGAGAT
1 AAAAAAGAGGAAATGGAGATGATCTGAGATGAGAT
21120071 AAAAAAGAGGAAATGGAGATGATCTGAGATGAGAT
1 AAAAAAGAGGAAATGGAGATGATCTGAGATGAGAT
21120106 GAGATGAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.49, C:0.03, G:0.31, T:0.17
Consensus pattern (35 bp):
AAAAAAGAGGAAATGGAGATGATCTGAGATGAGAT
Found at i:21120255 original size:3 final size:3
Alignment explanation
Indices: 21120247--21120271 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
21120237 AGAATTTTTC
21120247 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
21120272 GCATAGCGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:21122539 original size:3 final size:3
Alignment explanation
Indices: 21122531--21122570 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
21122521 AAATGTATAT
21122531 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
21122571 AAAAAAGAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:21123070 original size:8 final size:7
Alignment explanation
Indices: 21123059--21123103 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
21123049 TTGAGTAAAA
21123059 ATTTAAAT
1 ATTT-AAT
21123067 ATTTAAT
1 ATTTAAT
21123074 ATTTAAT
1 ATTTAAT
*
21123081 ATTCAAT
1 ATTTAAT
*
21123088 ATTCAAT
1 ATTTAAT
*
21123095 ATTCAAT
1 ATTTAAT
21123102 AT
1 AT
21123104 GAAATTGAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
7 32 0.89
8 4 0.11
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (7 bp):
ATTTAAT
Found at i:21123076 original size:7 final size:7
Alignment explanation
Indices: 21123064--21123103 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
21123054 TAAAAATTTA
*
21123064 AATATTT
1 AATATTC
*
21123071 AATATTT
1 AATATTC
21123078 AATATTC
1 AATATTC
21123085 AATATTC
1 AATATTC
21123092 AATATTC
1 AATATTC
21123099 AATAT
1 AATAT
21123104 GAAATTGAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.47
Consensus pattern (7 bp):
AATATTC
Found at i:21123083 original size:14 final size:14
Alignment explanation
Indices: 21123059--21123103 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
21123049 TTGAGTAAAA
*
21123059 ATTTAAATATTTAAT
1 ATTT-AATATTCAAT
21123074 ATTTAATATTCAAT
1 ATTTAATATTCAAT
*
21123088 ATTCAATATTCAAT
1 ATTTAATATTCAAT
21123102 AT
1 AT
21123104 GAAATTGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
14 24 0.86
15 4 0.14
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (14 bp):
ATTTAATATTCAAT
Found at i:21126908 original size:22 final size:22
Alignment explanation
Indices: 21126877--21126918 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
21126867 CTTTATTCCT
* *
21126877 AATTTCTATATATTAATAAAGG
1 AATTTATATAGATTAATAAAGG
21126899 AATTTATATAGATTAATAAA
1 AATTTATATAGATTAATAAA
21126919 TTAGCATGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.40
Consensus pattern (22 bp):
AATTTATATAGATTAATAAAGG
Found at i:21134204 original size:13 final size:13
Alignment explanation
Indices: 21134186--21134212 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21134176 ACCTACTTAA
21134186 AATTTTAGTTTAG
1 AATTTTAGTTTAG
21134199 AATTTTAGTTTAG
1 AATTTTAGTTTAG
21134212 A
1 A
21134213 TGTAGAGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (13 bp):
AATTTTAGTTTAG
Found at i:21153713 original size:176 final size:176
Alignment explanation
Indices: 21153178--21153724 Score: 752
Period size: 176 Copynumber: 3.1 Consensus size: 176
21153168 AGATTACAAG
* * * * * * * * * *
21153178 CCTTATCTCTCTGAAGTGGCAGTGGAACAGGCTCAATATGCAAGCCTTTTCTTCTTGAAGTTGCA
1 CCTTATCTCTCTGAAGTTGCAG-AGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCA
* *
21153243 GGAAGCAGGCTAAAAATTACAGATCTTATCTCCATGTATCGGCTATTGAGCAGATCGAGGATGGC
65 GGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATTGAGCAGATCGAGGATGGC
*
21153308 GAGCCTTATCTCCATGTATCGGTTATGGAGCAGATTTTAGCCACTAA
130 GAGCCTTATCTCTATGTATCGGTTATGGAGCAGATTTTAGCCACTAA
* * * * * *
21153355 CCTTATATCTTTGAAGTTGCAGAGAGTAGGTTGAAGATACAAGTCTTATCTTCCTAAAGTTACAA
1 CCTTATCTCTCTGAAGTTGCAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAG
21153420 GAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATTGAGCAGATCGAGGATGGCG
66 GAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATTGAGCAGATCGAGGATGGCG
*
21153485 AGCCTTATCTCTATGCATCGGTTATGGAGCAGATTTTAGCCACTAA
131 AGCCTTATCTCTATGTATCGGTTATGGAGCAGATTTTAGCCACTAA
*
21153531 CCTTATCTCTTTGAAGTTGCAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAG
1 CCTTATCTCTCTGAAGTTGCAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAG
* * * *
21153596 GAAGCAGACTGAAAACTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAGACGGCG
66 GAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATTGAGCAGATCGAGGATGGCG
** * * ** * * ** *
21153661 AATCTTATCTGTATGTATTGGCAATGGAGCAGAGTTAAGTTACTAG
131 AGCCTTATCTCTATGTATCGGTTATGGAGCAGATTTTAGCCACTAA
*
21153707 CCTTATCTCCCTGAAGTT
1 CCTTATCTCTCTGAAGTT
21153725 TCAGTGGAGC
Statistics
Matches: 327, Mismatches: 43, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
176 308 0.94
177 19 0.06
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (176 bp):
CCTTATCTCTCTGAAGTTGCAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAG
GAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATTGAGCAGATCGAGGATGGCG
AGCCTTATCTCTATGTATCGGTTATGGAGCAGATTTTAGCCACTAA
Found at i:21155266 original size:19 final size:18
Alignment explanation
Indices: 21155239--21155274 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
21155229 AAATATTTTC
21155239 TTAAATTATATATATATT
1 TTAAATTATATATATATT
*
21155257 TTAAATTTATTTATATAT
1 TTAAA-TTATATATATAT
21155275 AATTTGGTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTAAATTATATATATATT
Found at i:21156360 original size:23 final size:23
Alignment explanation
Indices: 21156330--21156377 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
21156320 TAAAATGATC
21156330 AAGGTAATCCGATCACACCTCAG
1 AAGGTAATCCGATCACACCTCAG
21156353 AAGGTAATCCGATCACACCTCAG
1 AAGGTAATCCGATCACACCTCAG
21156376 AA
1 AA
21156378 AGGATCGATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.29, G:0.17, T:0.17
Consensus pattern (23 bp):
AAGGTAATCCGATCACACCTCAG
Found at i:21158594 original size:7 final size:7
Alignment explanation
Indices: 21158584--21158609 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
21158574 ATTCTAACTC
21158584 TTAAATA
1 TTAAATA
21158591 TTAAATA
1 TTAAATA
21158598 TTAAATA
1 TTAAATA
21158605 TTAAA
1 TTAAA
21158610 GTTTAATTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
TTAAATA
Found at i:21158608 original size:21 final size:21
Alignment explanation
Indices: 21158559--21158609 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
21158549 TTAAAATTTA
*
21158559 AAATA-TAAATGTTAAATTCT
1 AAATATTAAATATTAAATTCT
* *
21158579 AACTCTTAAATATTAAATAT-T
1 AAATATTAAATATTAAAT-TCT
21158600 AAATATTAAA
1 AAATATTAAA
21158610 GTTTAATTGT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
20 3 0.12
21 20 0.83
22 1 0.04
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (21 bp):
AAATATTAAATATTAAATTCT
Found at i:21158931 original size:24 final size:26
Alignment explanation
Indices: 21158903--21158950 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
21158893 CTTTTTTTAT
*
21158903 TAAAT-AAA-AAATTTTAAAATATAA
1 TAAATCAAATAAATTTAAAAATATAA
*
21158927 TAAATCAAATACATTTAAAAATAT
1 TAAATCAAATAAATTTAAAAATAT
21158951 TAAAACAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 3 0.15
26 12 0.60
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (26 bp):
TAAATCAAATAAATTTAAAAATATAA
Found at i:21158954 original size:24 final size:25
Alignment explanation
Indices: 21158915--21158961 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
21158905 AATAAAAAAT
*
21158915 TTTAAAATATAATAAATCAAATACA
1 TTTAAAATATAATAAAACAAATACA
*
21158940 TTTAAAA-ATATTAAAACAAATA
1 TTTAAAATATAATAAAACAAATA
21158962 TTAAAACAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (25 bp):
TTTAAAATATAATAAAACAAATACA
Found at i:21158960 original size:12 final size:12
Alignment explanation
Indices: 21158945--21158971 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
21158935 ATACATTTAA
21158945 AAATATTAAAAC
1 AAATATTAAAAC
21158957 AAATATTAAAAC
1 AAATATTAAAAC
21158969 AAA
1 AAA
21158972 AAACAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.22
Consensus pattern (12 bp):
AAATATTAAAAC
Found at i:21159546 original size:22 final size:21
Alignment explanation
Indices: 21159503--21159547 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
21159493 TAATATTATT
* *
21159503 ATATTAATTTATAATTTTAAA
1 ATATTAATTTATAATATCAAA
21159524 ATATTAATATTATAATATCAAA
1 ATATTAAT-TTATAATATCAAA
21159546 AT
1 AT
21159548 TCTTCAACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
ATATTAATTTATAATATCAAA
Found at i:21160122 original size:23 final size:26
Alignment explanation
Indices: 21160069--21160129 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 26
21160059 TGCAGAAACT
*
21160069 TATGACATATTTTAACTTGATATAGAA
1 TATGA-ATATTTCAACTTGATATAGAA
21160096 TATGAATATTTCAA-TT-ATATA-AA
1 TATGAATATTTCAACTTGATATAGAA
*
21160119 TATGAGTATTT
1 TATGAATATTT
21160130 GTTTAAATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 12 0.38
24 5 0.16
25 2 0.06
26 8 0.25
27 5 0.16
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (26 bp):
TATGAATATTTCAACTTGATATAGAA
Found at i:21168009 original size:8 final size:8
Alignment explanation
Indices: 21167988--21168017 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
21167978 ATTTCTAGGA
21167988 AAAAAATT
1 AAAAAATT
21167996 ATAAAAATT
1 A-AAAAATT
21168005 AAAAAATT
1 AAAAAATT
21168013 AAAAA
1 AAAAA
21168018 TATGTCCATC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AAAAAATT
Found at i:21168808 original size:24 final size:23
Alignment explanation
Indices: 21168781--21168839 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
21168771 TTATATAATT
*
21168781 ATTTTATATTCATATTATACTTTAA
1 ATTTTATATTCAT-TCATA-TTTAA
* *
21168806 TTTTTTTATTCATTCATATTTAAA
1 ATTTTATATTCATTCATATTT-AA
21168830 ATTTTATATT
1 ATTTTATATT
21168840 TATAAAATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
23 3 0.11
24 14 0.50
25 11 0.39
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (23 bp):
ATTTTATATTCATTCATATTTAA
Found at i:21169256 original size:27 final size:27
Alignment explanation
Indices: 21169226--21169308 Score: 89
Period size: 28 Copynumber: 3.0 Consensus size: 27
21169216 CCCACCCATA
21169226 TTATTTTTTATTATATTTAAAATTTTT
1 TTATTTTTTATTATATTTAAAATTTTT
21169253 TTATTTTATT-TTAATATTTAATAATTTTAT
1 TTATTTT-TTATT-ATATTTAA-AATTTT-T
** *
21169283 ACATTTTTTATT-TATTAAAAATTTTT
1 TTATTTTTTATTATATTTAAAATTTTT
21169309 ATATAGTCAT
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
26 1 0.02
27 15 0.31
28 16 0.33
29 8 0.17
30 8 0.17
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (27 bp):
TTATTTTTTATTATATTTAAAATTTTT
Found at i:21169272 original size:28 final size:28
Alignment explanation
Indices: 21169226--21169308 Score: 84
Period size: 27 Copynumber: 3.0 Consensus size: 28
21169216 CCCACCCATA
21169226 TTATTTTTTATTATATTTAA-AATTTTT
1 TTATTTTTTATTATATTTAATAATTTTT
21169253 TTATTTTATT-TTAATATTTAATAATTTTAT
1 TTATTTT-TTATT-ATATTTAATAATTTT-T
** *
21169283 ACATTTTTTATT-TA-TTAAAAATTTTT
1 TTATTTTTTATTATATTTAATAATTTTT
21169309 ATATAGTCAT
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
26 1 0.02
27 19 0.40
28 12 0.25
29 8 0.17
30 8 0.17
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (28 bp):
TTATTTTTTATTATATTTAATAATTTTT
Found at i:21175629 original size:76 final size:76
Alignment explanation
Indices: 21175496--21175643 Score: 176
Period size: 76 Copynumber: 1.9 Consensus size: 76
21175486 AACAAAGAGA
* * * * **
21175496 TTGAACCAATTGTATTAGAAACTACACGAAATAGATAAAAATTGAAATTTGGAACAAAAATCGGT
1 TTGAACCAATTGTATTAGAAACTACACGAAAAAGATAAAAATCGAAACTAGGAACAAAAATCAAT
21175561 AGTTGAAGGGG
66 AGTTGAAGGGG
* *
21175572 TTGAACCAATTGTATTA-AAAGCTGCTCGAAACAAG-TAAAAATCGAAAACTAGG-ACAAAAATC
1 TTGAACCAATTGTATTAGAAA-CTACACGAAA-AAGATAAAAATCG-AAACTAGGAACAAAAATC
21175634 AATAGTTGAA
63 AATAGTTGAA
21175644 CAGGTTGTAC
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
75 3 0.05
76 50 0.82
77 8 0.13
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.24
Consensus pattern (76 bp):
TTGAACCAATTGTATTAGAAACTACACGAAAAAGATAAAAATCGAAACTAGGAACAAAAATCAAT
AGTTGAAGGGG
Found at i:21181784 original size:16 final size:16
Alignment explanation
Indices: 21181763--21181801 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
21181753 TTTGGTTTGC
21181763 TGTAATGGAATAGAGT
1 TGTAATGGAATAGAGT
**
21181779 TGTAATTTAATAGAGT
1 TGTAATGGAATAGAGT
21181795 TGTAATG
1 TGTAATG
21181802 AGTAATTCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.26, T:0.38
Consensus pattern (16 bp):
TGTAATGGAATAGAGT
Found at i:21181941 original size:30 final size:31
Alignment explanation
Indices: 21181907--21181965 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
21181897 AAAAATTGAA
21181907 ATGATTAGAATA-CCTTAAAAGAATCTACCT
1 ATGATTAGAATACCCTTAAAAGAATCTACCT
*
21181937 ATGATTAGAATACCCTTAACAGAATCTAC
1 ATGATTAGAATACCCTTAAAAGAATCTAC
21181966 ATAAGAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 12 0.44
31 15 0.56
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (31 bp):
ATGATTAGAATACCCTTAAAAGAATCTACCT
Found at i:21182032 original size:13 final size:13
Alignment explanation
Indices: 21182014--21182038 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21182004 TTAATCATAT
21182014 TTTAATATAATTA
1 TTTAATATAATTA
21182027 TTTAATATAATT
1 TTTAATATAATT
21182039 TAATAAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTAATATAATTA
Found at i:21194991 original size:46 final size:46
Alignment explanation
Indices: 21194924--21195058 Score: 182
Period size: 46 Copynumber: 2.9 Consensus size: 46
21194914 GTGTGCTCTC
*
21194924 TGATATGAAATGTATAAGATCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGATCATGGTTGAAAGATACCATGGCAACG
21194970 TGATATGAAATGAATAAGATCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGATCATGGTTGAAAGATACCATGGCAACG
* * * * * * *
21195016 TGACA-GAAAATGAGTAAGACCATAGTTGGAAGACACTATGGCA
1 TGATATG-AAATGAATAAGATCATGGTTGAAAGATACCATGGCA
21195059 TCATATCAAA
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
45 1 0.01
46 79 0.99
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.23
Consensus pattern (46 bp):
TGATATGAAATGAATAAGATCATGGTTGAAAGATACCATGGCAACG
Found at i:21200847 original size:58 final size:59
Alignment explanation
Indices: 21200738--21200932 Score: 169
Period size: 58 Copynumber: 3.2 Consensus size: 59
21200728 TTATTATAAC
* * * * *
21200738 ATTTGGTACTTAAACTTGACATTTTTTTTCTAATTTTGTGCATAAA-ATTTTTTGTCCA
1 ATTTGGTACTTAAACTTGACATTTTTTTCCTAATTTGGTACCTAAACTTTTTTTGTCCA
* * * * * *
21200796 ATTTGGTACTTTAACTTGACA-CTTTTTCCTAATATGGTACCTAAACTTTTTTGGGGCTTA
1 ATTTGGTACTTAAACTTGACATTTTTTTCCTAATTTGGTACCTAAACTTTTTT-TGTC-CA
* * * * *
21200856 ATTTGGTACTTGAACTTGGCATTTTTTTCCCTAGTTTGGTACCTAAGCTATTTTTTAGGTTCA
1 ATTTGGTACTTAAACTTGACATTTTTTT-CCTAATTTGGTACCTAAACT-TTTTTT--GTCCA
*
21200919 ATTTGGTACATAAA
1 ATTTGGTACTTAAA
21200933 TTTATTAAAT
Statistics
Matches: 106, Mismatches: 23, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
57 18 0.17
58 25 0.24
59 2 0.02
60 20 0.19
61 5 0.05
62 17 0.16
63 18 0.17
64 1 0.01
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.47
Consensus pattern (59 bp):
ATTTGGTACTTAAACTTGACATTTTTTTCCTAATTTGGTACCTAAACTTTTTTTGTCCA
Found at i:21200882 original size:60 final size:63
Alignment explanation
Indices: 21200794--21200927 Score: 159
Period size: 60 Copynumber: 2.2 Consensus size: 63
21200784 ATTTTTTGTC
* *
21200794 CAATTTGGTACTTTAACTTGACA-CTTTTT-CCTAATATGGTACCTAAACT-TTTTTGGGGCTT
1 CAATTTGGTACTTGAACTTGACATCTTTTTCCCTAATATGGTACCTAAACTATTTTTGAGG-TT
* * * * * *
21200855 -AATTTGGTACTTGAACTTGGCATTTTTTTCCCTAGTTTGGTACCTAAGCTATTTTTTAGGTT
1 CAATTTGGTACTTGAACTTGACATCTTTTTCCCTAATATGGTACCTAAACTATTTTTGAGGTT
21200917 CAATTTGGTAC
1 CAATTTGGTAC
21200928 ATAAATTTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
60 20 0.33
61 5 0.08
62 19 0.31
63 17 0.28
ACGTcount: A:0.22, C:0.16, G:0.16, T:0.46
Consensus pattern (63 bp):
CAATTTGGTACTTGAACTTGACATCTTTTTCCCTAATATGGTACCTAAACTATTTTTGAGGTT
Found at i:21201386 original size:60 final size:61
Alignment explanation
Indices: 21201308--21201423 Score: 137
Period size: 60 Copynumber: 1.9 Consensus size: 61
21201298 ATCGAACAAA
* * *
21201308 AAAAGAAGATTAGATACCAAATTAGGAAAAAGAGTTAAGTTTAGGTATCAAATTAGACACC
1 AAAAGAAGATTAGATACCAAATTAGAAAAAAGAGTCAAGTTTAGGTACCAAATTAGACACC
* ** **
21201369 AAAA-AAGATTA-ACTACCAACTTTTAAAAAATTGTCAAGTTTAGGTACCAAATTAG
1 AAAAGAAGATTAGA-TACCAAATTAGAAAAAAGAGTCAAGTTTAGGTACCAAATTAG
21201424 GAAGTGTCAA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
59 1 0.02
60 41 0.89
61 4 0.09
ACGTcount: A:0.48, C:0.11, G:0.15, T:0.26
Consensus pattern (61 bp):
AAAAGAAGATTAGATACCAAATTAGAAAAAAGAGTCAAGTTTAGGTACCAAATTAGACACC
Found at i:21201463 original size:31 final size:31
Alignment explanation
Indices: 21201394--21201479 Score: 115
Period size: 28 Copynumber: 2.9 Consensus size: 31
21201384 CCAACTTTTA
*
21201394 AAAAATTGTCAAGTTTAGGTACCAAATTAGG
1 AAAAAGTGTCAAGTTTAGGTACCAAATTAGG
*
21201425 ---AAGTGTCAAGTTTAGGTACTAAATTAGG
1 AAAAAGTGTCAAGTTTAGGTACCAAATTAGG
**
21201453 AAAAAGTGTCAAGTTTATATACCAAAT
1 AAAAAGTGTCAAGTTTAGGTACCAAAT
21201480 GTTATATTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
28 26 0.55
31 21 0.45
ACGTcount: A:0.42, C:0.09, G:0.19, T:0.30
Consensus pattern (31 bp):
AAAAAGTGTCAAGTTTAGGTACCAAATTAGG
Found at i:21201868 original size:19 final size:17
Alignment explanation
Indices: 21201844--21201878 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
21201834 ATTGTTAGGA
21201844 TATTGTATAACTTTTATTT
1 TATTGT-TAA-TTTTATTT
21201863 TATTGTTAATTTTATT
1 TATTGTTAATTTTATT
21201879 ACTATTTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.66
Consensus pattern (17 bp):
TATTGTTAATTTTATTT
Found at i:21206146 original size:30 final size:30
Alignment explanation
Indices: 21206097--21206153 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
21206087 AAAAATTTGA
21206097 AATTTAGTTCCTATATTTTTAT-TTTTAGG
1 AATTTAGTTCCTATATTTTTATATTTTAGG
* *
21206126 AATTTAGTTTCTCTACTTTTTATATTTT
1 AATTTAGTTCCTATA-TTTTTATATTTT
21206154 TAAATTCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 13 0.54
30 7 0.29
31 4 0.17
ACGTcount: A:0.23, C:0.09, G:0.07, T:0.61
Consensus pattern (30 bp):
AATTTAGTTCCTATATTTTTATATTTTAGG
Found at i:21208688 original size:7 final size:7
Alignment explanation
Indices: 21208676--21208701 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
21208666 TAGTCGTTTT
21208676 GTATTTA
1 GTATTTA
21208683 GTATTTA
1 GTATTTA
21208690 GTATTTA
1 GTATTTA
21208697 GTATT
1 GTATT
21208702 ATGTATATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:21208707 original size:14 final size:13
Alignment explanation
Indices: 21208673--21208707 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
21208663 AAATAGTCGT
21208673 TTTGTATTTAGTA
1 TTTGTATTTAGTA
21208686 TTTAGTATTTAGTA
1 TTT-GTATTTAGTA
21208700 TTATGTAT
1 TT-TGTAT
21208708 ATCAATAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 3 0.15
14 16 0.80
15 1 0.05
ACGTcount: A:0.26, C:0.00, G:0.14, T:0.60
Consensus pattern (13 bp):
TTTGTATTTAGTA
Found at i:21209612 original size:21 final size:21
Alignment explanation
Indices: 21209563--21209614 Score: 79
Period size: 20 Copynumber: 2.5 Consensus size: 21
21209553 CACCCACAAC
*
21209563 CGAAGCAATCACAACCCCCGT
1 CGAAGCAACCACAACCCCCGT
*
21209584 CG-AGCAACCACAACCTCCGT
1 CGAAGCAACCACAACCCCCGT
21209604 CGAAGCAACCA
1 CGAAGCAACCA
21209615 ATAAGGAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 18 0.64
21 10 0.36
ACGTcount: A:0.35, C:0.42, G:0.15, T:0.08
Consensus pattern (21 bp):
CGAAGCAACCACAACCCCCGT
Found at i:21211786 original size:13 final size:13
Alignment explanation
Indices: 21211768--21211794 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21211758 ATTTTATGTT
21211768 TTATTATATTATA
1 TTATTATATTATA
21211781 TTATTATATTATA
1 TTATTATATTATA
21211794 T
1 T
21211795 ACTTAAATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTATTATATTATA
Found at i:21215535 original size:125 final size:126
Alignment explanation
Indices: 21215310--21215687 Score: 488
Period size: 126 Copynumber: 3.0 Consensus size: 126
21215300 GGCCAATCAT
* * * * * *
21215310 GAACTACTGTAGAAAAAGAGCGTCTATGTGGGAGCTTTTTTCAAAAATTTTGGTGACATTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCTATAATTTTGCTGACAGTGCATC
* * * * *
21215375 CTGCTTGAAGCATTTTTCACACTATTTGTTCAGAAACATCTTCTTAAAAATA-TTTTTCAG
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
* * * *
21215435 GAACTACTATAGAAAAAGAACGTCCACGTGGGAGCCTTTTTCTATAATTTTGCTGACAGTGTATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCTATAATTTTGCTGACAGTGCATC
* * *
21215500 CTGCTTGAAGCGTTTTTGACACTATTTATTTAGAAACGTCTTCTCAAAATTATTTTTTCAC
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
* *** * * * *
21215561 GAACTACTGTAGAAAAAGAGCGTCCACATAAAAGATTTTTTCTGTAATTTTGTTGATAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCTATAATTTTGCTGACAGTGCATC
* * *
21215626 TTGCTTGAAACGTTTTTGACATTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
21215687 G
1 G
21215688 GTACAAAATA
Statistics
Matches: 216, Mismatches: 36, Indels: 1
0.85 0.14 0.00
Matches are distributed among these distances:
125 100 0.46
126 116 0.54
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCTATAATTTTGCTGACAGTGCATC
CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
Found at i:21215818 original size:30 final size:29
Alignment explanation
Indices: 21215773--21215869 Score: 86
Period size: 34 Copynumber: 3.1 Consensus size: 29
21215763 ATTTAACCCT
* *
21215773 AAACCCTACACCCTAATTTAATTTATTTA
1 AAACCATAAACCCTAATTTAATTTATTTA
* *
21215802 AAACCCTAGAATCCTAATTTACTTAATTTATTTA
1 AAACCATA-AACCCTAA--T--TTAATTTATTTA
* *
21215836 GAAATCATAAACCCTAATTTAACTTATTTA
1 -AAACCATAAACCCTAATTTAATTTATTTA
21215866 AAAC
1 AAAC
21215870 ACTAATTTAT
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
29 11 0.20
30 17 0.31
32 2 0.04
34 19 0.35
35 6 0.11
ACGTcount: A:0.41, C:0.20, G:0.02, T:0.37
Consensus pattern (29 bp):
AAACCATAAACCCTAATTTAATTTATTTA
Found at i:21215828 original size:34 final size:35
Alignment explanation
Indices: 21215790--21215865 Score: 95
Period size: 34 Copynumber: 2.2 Consensus size: 35
21215780 ACACCCTAAT
* *
21215790 TTAATTTATTTA-AAACCCTAGAATCCTAATTT-AC
1 TTAATTTATTTAGAAACCATA-AACCCTAATTTAAC
*
21215824 TTAATTTATTTAGAAATCATAAACCCTAATTTAAC
1 TTAATTTATTTAGAAACCATAAACCCTAATTTAAC
21215859 TT-ATTTA
1 TTAATTTA
21215866 AAACACTAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
34 27 0.73
35 10 0.27
ACGTcount: A:0.39, C:0.14, G:0.03, T:0.43
Consensus pattern (35 bp):
TTAATTTATTTAGAAACCATAAACCCTAATTTAAC
Found at i:21216000 original size:34 final size:34
Alignment explanation
Indices: 21215932--21216001 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 34
21215922 TAGAACCCTA
*
21215932 ACTTAATTTATTTAAAACCTTAAAAACCCCAATTT
1 ACTTAATTTATTTAAAACCCT-AAAACCCCAATTT
*
21215967 ACTTAATTTATTTAACAACCCT-AAACCCTAATTT
1 ACTTAATTTATTTAA-AACCCTAAAACCCCAATTT
21216001 A
1 A
21216002 AATAATTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
34 12 0.38
35 15 0.47
36 5 0.16
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.37
Consensus pattern (34 bp):
ACTTAATTTATTTAAAACCCTAAAACCCCAATTT
Found at i:21216008 original size:34 final size:34
Alignment explanation
Indices: 21215935--21216017 Score: 89
Period size: 34 Copynumber: 2.4 Consensus size: 34
21215925 AACCCTAACT
* **
21215935 TAATTTATTTAAAACCTTAAAAACCCCAATTTACT
1 TAATTTATTTAAAACCCT-AAAACCCCAATTTAAA
*
21215970 TAATTTATTTAACAACCCT-AAACCCTAATTTAAA
1 TAATTTATTTAA-AACCCTAAAACCCCAATTTAAA
21216004 TAATTT-TTATAAAA
1 TAATTTATT-TAAAA
21216018 TAATACTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
33 4 0.10
34 21 0.50
35 12 0.29
36 5 0.12
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.39
Consensus pattern (34 bp):
TAATTTATTTAAAACCCTAAAACCCCAATTTAAA
Found at i:21221366 original size:28 final size:26
Alignment explanation
Indices: 21221334--21221433 Score: 100
Period size: 26 Copynumber: 3.8 Consensus size: 26
21221324 AAATTTGTTA
*
21221334 TTTTATTTTCAATTTATTTATATTCATT
1 TTTTATTTTCAATTT-TATATATTC-TT
21221362 TTTTATTTTC-ATTTTATATATTCTT
1 TTTTATTTTCAATTTTATATATTCTT
*
21221387 TATTTTTATTTCAA-TTT-TATATT-TT
1 T-TTTAT-TTTCAATTTTATATATTCTT
*
21221412 TTTTATTTTCAATATATATATA
1 TTTTATTTTCAAT-TTTATATA
21221434 CATTAATTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 14
0.77 0.05 0.17
Matches are distributed among these distances:
23 6 0.10
24 4 0.06
25 8 0.13
26 22 0.35
27 11 0.18
28 11 0.18
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (26 bp):
TTTTATTTTCAATTTTATATATTCTT
Found at i:21221390 original size:50 final size:49
Alignment explanation
Indices: 21221335--21221432 Score: 119
Period size: 50 Copynumber: 2.0 Consensus size: 49
21221325 AATTTGTTAT
* *
21221335 TTTATTTTCAATTT-A-TTTATATTCATTTTTTATTTTCATTTTATATATTC
1 TTTATTTT-AATTTAATTTTATATT--TTTTTTATTTTCAATATATATATTC
*
21221385 TTTATTTTTATTTCAATTTTATATTTTTTTTATTTTCAATATATATAT
1 TTTATTTTAATTT-AATTTTATATTTTTTTTATTTTCAATATATATAT
21221433 ACATTAATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
49 4 0.10
50 29 0.69
51 1 0.02
52 8 0.19
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (49 bp):
TTTATTTTAATTTAATTTTATATTTTTTTTATTTTCAATATATATATTC
Found at i:21221596 original size:55 final size:55
Alignment explanation
Indices: 21221532--21221641 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
21221522 AAAAAATAGG
21221532 AATGTTTAAGATGAACCCACGTGTCAGCTCAATGCATGTCCACATCAACAAAATC
1 AATGTTTAAGATGAACCCACGTGTCAGCTCAATGCATGTCCACATCAACAAAATC
21221587 AATGTTTAAGATGAACCCACGTGTCAGCTCAATGCATGTCCACATCAACAAAATC
1 AATGTTTAAGATGAACCCACGTGTCAGCTCAATGCATGTCCACATCAACAAAATC
21221642 TTGAAAAAAC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (55 bp):
AATGTTTAAGATGAACCCACGTGTCAGCTCAATGCATGTCCACATCAACAAAATC
Found at i:21223483 original size:43 final size:43
Alignment explanation
Indices: 21223422--21223509 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
21223412 TAAAATAGAC
* *
21223422 TAAAATTAGAGTTCTAATATGATTATAATATTGCTAGAATAAT
1 TAAAACTAGAGTTCTAATATGATTATAATATTCCTAGAATAAT
21223465 TAAAACTAGAGTTCTAATATGATTATAATATTCCTAGAATAAT
1 TAAAACTAGAGTTCTAATATGATTATAATATTCCTAGAATAAT
21223508 TA
1 TA
21223510 GAGTTTAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.39
Consensus pattern (43 bp):
TAAAACTAGAGTTCTAATATGATTATAATATTCCTAGAATAAT
Found at i:21223489 original size:23 final size:22
Alignment explanation
Indices: 21223422--21223494 Score: 55
Period size: 23 Copynumber: 3.3 Consensus size: 22
21223412 TAAAATAGAC
21223422 TAAAATTAGAGTTCTAATATGAT
1 TAAAA-TAGAGTTCTAATATGAT
* *
21223445 TATAAT--A-TTGCTAGA-ATAAT
1 TAAAATAGAGTT-CTA-ATATGAT
21223465 TAAAACTAGAGTTCTAATATGAT
1 TAAAA-TAGAGTTCTAATATGAT
*
21223488 TATAATA
1 TAAAATA
21223495 TTCCTAGAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 15
0.66 0.09 0.26
Matches are distributed among these distances:
19 2 0.05
20 12 0.32
21 2 0.05
22 4 0.11
23 16 0.42
24 2 0.05
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.38
Consensus pattern (22 bp):
TAAAATAGAGTTCTAATATGAT
Found at i:21233871 original size:25 final size:25
Alignment explanation
Indices: 21233843--21233986 Score: 75
Period size: 25 Copynumber: 5.8 Consensus size: 25
21233833 AGCATGTAAC
* * * *
21233843 GGGAAGCTCTTCCGAGCTATATAAT
1 GGGAAGCTCGTACGAGCCAAATAAT
*
21233868 GGGAAGCTCGTACGAGCCAAATATT
1 GGGAAGCTCGTACGAGCCAAATAAT
*
21233893 GGGAAGCTCAAG-A-GAGCC-ATTAATT
1 GGGAAGCTC--GTACGAGCCAAATAA-T
* *
21233918 GGGAAGCTCATGA-GAGCCAAA-CAT
1 GGGAAGCTCGT-ACGAGCCAAATAAT
* * * *
21233942 CGGAATGCTCATAAGAGCTAAATAAT
1 GGGAA-GCTCGTACGAGCCAAATAAT
*
21233968 AGGAAGCTCGTGA-GAGCCA
1 GGGAAGCTCGT-ACGAGCCA
21233987 TTGTGTGTCT
Statistics
Matches: 93, Mismatches: 16, Indels: 20
0.72 0.12 0.16
Matches are distributed among these distances:
24 9 0.10
25 74 0.80
26 9 0.10
27 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.19
Consensus pattern (25 bp):
GGGAAGCTCGTACGAGCCAAATAAT
Found at i:21233952 original size:50 final size:50
Alignment explanation
Indices: 21233856--21233986 Score: 135
Period size: 50 Copynumber: 2.6 Consensus size: 50
21233846 AAGCTCTTCC
* * *
21233856 GAGCTATATAATGGGAAGCTCGT-ACGAGCCAAATATTGGGAAGCTCA-AGA
1 GAGCTAAATAATGGGAAGCTCGTGA-GAGCCAAACATTCGGAAGCTCATA-A
* * *
21233906 GAGC-CATTAATTGGGAAGCTCATGAGAGCCAAACA-TCGGAATGCTCATAA
1 GAGCTAAATAA-TGGGAAGCTCGTGAGAGCCAAACATTCGGAA-GCTCATAA
*
21233956 GAGCTAAATAATAGGAAGCTCGTGAGAGCCA
1 GAGCTAAATAATGGGAAGCTCGTGAGAGCCA
21233987 TTGTGTGTCT
Statistics
Matches: 66, Mismatches: 10, Indels: 10
0.77 0.12 0.12
Matches are distributed among these distances:
49 8 0.12
50 52 0.79
51 6 0.09
ACGTcount: A:0.37, C:0.18, G:0.27, T:0.19
Consensus pattern (50 bp):
GAGCTAAATAATGGGAAGCTCGTGAGAGCCAAACATTCGGAAGCTCATAA
Found at i:21236011 original size:63 final size:63
Alignment explanation
Indices: 21235912--21236035 Score: 194
Period size: 63 Copynumber: 2.0 Consensus size: 63
21235902 CTAATAACTA
* * * * *
21235912 TTATTATATGAGAATTTGATTAACGACAGATATTTCTCCCAATTGCCTTCGAACTCTAAAATG
1 TTATTATATGAGAATTCGATTAACAACAAATATTTCTCCCAATTACCTTCAAACTCTAAAATG
*
21235975 TTATTATATGAGAATTCGATTAACAACAAATATTTCTCCTAATTACCTTCAAACTCTAAAA
1 TTATTATATGAGAATTCGATTAACAACAAATATTTCTCCCAATTACCTTCAAACTCTAAAA
21236036 CACAACACCG
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
63 55 1.00
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.36
Consensus pattern (63 bp):
TTATTATATGAGAATTCGATTAACAACAAATATTTCTCCCAATTACCTTCAAACTCTAAAATG
Found at i:21251368 original size:46 final size:46
Alignment explanation
Indices: 21251301--21251393 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
21251291 AGAAAGTTAA
21251301 AAACTTCACTGTCGACACCACATAGTCATGTGATTGCCCGTGTGGT
1 AAACTTCACTGTCGACACCACATAGTCATGTGATTGCCCGTGTGGT
21251347 AAACTTCACTGTCGACACCACATAGTCATGTGATTGCCCGTGTGGT
1 AAACTTCACTGTCGACACCACATAGTCATGTGATTGCCCGTGTGGT
21251393 A
1 A
21251394 GGCCGTGTGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.28
Consensus pattern (46 bp):
AAACTTCACTGTCGACACCACATAGTCATGTGATTGCCCGTGTGGT
Found at i:21260630 original size:27 final size:29
Alignment explanation
Indices: 21260590--21260643 Score: 76
Period size: 27 Copynumber: 1.9 Consensus size: 29
21260580 AGTCATTTAT
*
21260590 TATTTTTCTATGTTAGTATAATTTGATTA
1 TATTTTTCTATGTTAATATAATTTGATTA
*
21260619 TATTTTT-T-TGTTAATATAGTTTGAT
1 TATTTTTCTATGTTAATATAATTTGAT
21260644 GGCATGTACC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 15 0.65
28 1 0.04
29 7 0.30
ACGTcount: A:0.26, C:0.02, G:0.11, T:0.61
Consensus pattern (29 bp):
TATTTTTCTATGTTAATATAATTTGATTA
Found at i:21260688 original size:80 final size:82
Alignment explanation
Indices: 21260555--21260716 Score: 274
Period size: 80 Copynumber: 2.0 Consensus size: 82
21260545 GTTCTTTTGT
* * *
21260555 TAGTTTCATGTCATGTACCTAAGAGAGTCATTTATTATTTTTCTATGTTAGTATAATTTGATTAT
1 TAGTTTCATGGCATGTACCTAAGAGAGTCATTTAGTATTTTGCTATGTTAGTATAATTTGATTAT
21260620 AT-TTTT-TTGTTAATA
66 ATGTTTTGTTGTTAATA
*
21260635 TAGTTTGATGGCATGTACCTAAGAGAGTCATTTAGTATTTTGCTATGTTAGTATAATTTGATTAT
1 TAGTTTCATGGCATGTACCTAAGAGAGTCATTTAGTATTTTGCTATGTTAGTATAATTTGATTAT
21260700 ATGTTTTGTTGTTAATA
66 ATGTTTTGTTGTTAATA
21260717 GACAATATGC
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
80 63 0.83
81 4 0.05
82 9 0.12
ACGTcount: A:0.27, C:0.07, G:0.16, T:0.50
Consensus pattern (82 bp):
TAGTTTCATGGCATGTACCTAAGAGAGTCATTTAGTATTTTGCTATGTTAGTATAATTTGATTAT
ATGTTTTGTTGTTAATA
Found at i:21262859 original size:23 final size:23
Alignment explanation
Indices: 21262796--21262885 Score: 74
Period size: 23 Copynumber: 3.9 Consensus size: 23
21262786 TAAATGCTAG
*
21262796 CAAAAGTATGTTTCAAATGTTGT-
1 CAAAA-TATGTTTTAAATGTTGTC
* * * *
21262819 TAAACTAAGATTTAAATGTTGTC
1 CAAAATATGTTTTAAATGTTGTC
**
21262842 CAAAATATGTTTTAAATGTCATC
1 CAAAATATGTTTTAAATGTTGTC
** *
21262865 CAAAACGTGTTTTAAGTGTTG
1 CAAAATATGTTTTAAATGTTG
21262886 CCTAACCTAG
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
22 14 0.28
23 36 0.72
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.39
Consensus pattern (23 bp):
CAAAATATGTTTTAAATGTTGTC
Found at i:21263515 original size:72 final size:72
Alignment explanation
Indices: 21263403--21263627 Score: 252
Period size: 72 Copynumber: 3.1 Consensus size: 72
21263393 TTATTTTTTG
** * * * *
21263403 ATTTTACCGACCAGCGCAGAACACACTTATTTGTCAGTTATACTAACTAGTGCTGGGCATACTCA
1 ATTTTACCGACCAGCGCAGGGCACACTTATTTGTCAGTTATACTAACCAATGCTGGGCACAATCA
21263468 TTTTTCA
66 TTTTTCA
* * * * * *
21263475 ATTTTACCGACCAGCGCAGGGTACACTTATTTGTCGGTTATACCAACCAATACTGGGCACATTTA
1 ATTTTACCGACCAGCGCAGGGCACACTTATTTGTCAGTTATACTAACCAATGCTGGGCACAATCA
**
21263540 TTTTTTG
66 TTTTTCA
* ** * * * * *
21263547 GTTTTACCGACCAATGCAAGGCGCAATTATTTGTCAGTTATACTGACCAATGTTGGGCACAATCA
1 ATTTTACCGACCAGCGCAGGGCACACTTATTTGTCAGTTATACTAACCAATGCTGGGCACAATCA
21263612 TTTTTCA
66 TTTTTCA
21263619 ATTTTACCG
1 ATTTTACCG
21263628 GCTAGCCCAA
Statistics
Matches: 123, Mismatches: 30, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
72 123 1.00
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (72 bp):
ATTTTACCGACCAGCGCAGGGCACACTTATTTGTCAGTTATACTAACCAATGCTGGGCACAATCA
TTTTTCA
Found at i:21266791 original size:49 final size:49
Alignment explanation
Indices: 21266734--21266965 Score: 221
Period size: 49 Copynumber: 4.7 Consensus size: 49
21266724 CTGGTACGCA
* * *
21266734 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGCACACG
1 TAGTAGCCTACACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* * ** * *
21266783 TAGTAGCCTGCACTTAGTACTACACATATGACCTAACCATCTGATACACG
1 TAGTAGCCTACACTTAGTACTACACATGTGACC-AATTATCCGGTACACG
* * * * * * *
21266833 TAGTAGCCTATACTTAGTACTACGCACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTACACTTAGTACTACACATGTGA-CCAA-TTATCCGGTACACG
* * * *
21266884 TAGTAGCCTCCACTTAGTACTACACATGAGACTAATTATTCGGTACACG
1 TAGTAGCCTACACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* * * *
21266933 TACTAGCCCACATTTAGTACTACACACGTGACC
1 TAGTAGCCTACACTTAGTACTACACATGTGACC
21266966 TCACAACAGA
Statistics
Matches: 144, Mismatches: 36, Indels: 6
0.77 0.19 0.03
Matches are distributed among these distances:
49 67 0.47
50 42 0.29
51 35 0.24
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTACACTTAGTACTACACATGTGACCAATTATCCGGTACACG
Found at i:21266853 original size:50 final size:49
Alignment explanation
Indices: 21266734--21266855 Score: 154
Period size: 50 Copynumber: 2.5 Consensus size: 49
21266724 CTGGTACGCA
* ** *
21266734 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGCACACG
1 TAGTAGCCTGCACTTAGTACTACACATACGACCAACCATCCGACACACG
* * *
21266783 TAGTAGCCTGCACTTAGTACTACACATATGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATACGACC-AACCATCCGACACACG
**
21266833 TAGTAGCCTATACTTAGTACTAC
1 TAGTAGCCTGCACTTAGTACTAC
21266856 GCACGTGATC
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
49 31 0.49
50 32 0.51
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATACGACCAACCATCCGACACACG
Found at i:21267242 original size:27 final size:27
Alignment explanation
Indices: 21267212--21267265 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
21267202 TCATACAACC
* *
21267212 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
21267239 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
21267266 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:21276336 original size:46 final size:43
Alignment explanation
Indices: 21276286--21276459 Score: 168
Period size: 46 Copynumber: 3.8 Consensus size: 43
21276276 GTTGAGCATT
21276286 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA--TC
*** * *
21276332 CGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GGAATC
* * *
21276379 CGAGCTCTTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACACC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-G-A-ATC
* *
21276425 CGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21276460 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
45 1 0.01
46 66 0.62
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (43 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATC
Found at i:21277602 original size:13 final size:13
Alignment explanation
Indices: 21277584--21277609 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21277574 ACGGAATTGG
21277584 ATTTCGAGTTTCA
1 ATTTCGAGTTTCA
21277597 ATTTCGAGTTTCA
1 ATTTCGAGTTTCA
21277610 TAACTCGAGA
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:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (13 bp):
ATTTCGAGTTTCA
Found at i:21287246 original size:23 final size:23
Alignment explanation
Indices: 21287216--21287260 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
21287206 CCAACATAAA
21287216 ACGTACTCTCCTTTGATTGCAAT
1 ACGTACTCTCCTTTGATTGCAAT
21287239 ACGTACTCTCCTTTGATTGCAA
1 ACGTACTCTCCTTTGATTGCAA
21287261 ATCATATAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.38
Consensus pattern (23 bp):
ACGTACTCTCCTTTGATTGCAAT
Found at i:21291639 original size:46 final size:46
Alignment explanation
Indices: 21291577--21291689 Score: 138
Period size: 46 Copynumber: 2.5 Consensus size: 46
21291567 TTTGACATGA
* * * * *
21291577 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACTATGGTCTTACACA-TTTCATATCAGGT
* *
21291623 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACTATGGTCTTACACATTTCATATCAGGT
*
21291669 TGCCATGGTATATTTCAACTA
1 TGCCATGGTATCTTTCAACTA
21291690 GAGCTGATCA
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
45 4 0.07
46 52 0.93
ACGTcount: A:0.22, C:0.21, G:0.15, T:0.42
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACTATGGTCTTACACATTTCATATCAGGT
Found at i:21291890 original size:38 final size:38
Alignment explanation
Indices: 21291814--21291897 Score: 107
Period size: 38 Copynumber: 2.2 Consensus size: 38
21291804 GTTTAGAAAA
* *
21291814 CGGGCCGGGCCTCGAGTAAGAGTTTTTTTGCCTAGGCC
1 CGGGCCGGGCCTCGAGTAAGAGTTTTTTTACCCAGGCC
* *
21291852 CGGGCCGGGCCTC-AGGTAATAGTTTTTTTACCCGGGCC
1 CGGGCCGGGCCTCGA-GTAAGAGTTTTTTTACCCAGGCC
*
21291890 CGGCCCGG
1 CGGGCCGG
21291898 CCCGGCCCGA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
37 1 0.03
38 39 0.98
ACGTcount: A:0.12, C:0.30, G:0.35, T:0.24
Consensus pattern (38 bp):
CGGGCCGGGCCTCGAGTAAGAGTTTTTTTACCCAGGCC
Found at i:21292035 original size:21 final size:22
Alignment explanation
Indices: 21292009--21292051 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
21291999 GTTTTAAGAA
*
21292009 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
21292030 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
21292052 ATTTTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.19, C:0.00, G:0.09, T:0.72
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:21292042 original size:12 final size:12
Alignment explanation
Indices: 21291997--21292055 Score: 52
Period size: 12 Copynumber: 5.2 Consensus size: 12
21291987 AATTTGTGTA
* *
21291997 TTGTTTTAAGAA
1 TTGTTTTAATAT
*
21292009 TTGTTTTAGTA-
1 TTGTTTTAATAT
*
21292020 TTATTTT--TAT
1 TTGTTTTAATAT
21292030 TTGTTTTAATAT
1 TTGTTTTAATAT
*
21292042 TTGTTTTTATAT
1 TTGTTTTAATAT
21292054 TT
1 TT
21292056 TAAAATATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
9 2 0.05
10 6 0.15
11 6 0.15
12 25 0.64
ACGTcount: A:0.22, C:0.00, G:0.10, T:0.68
Consensus pattern (12 bp):
TTGTTTTAATAT
Found at i:21292357 original size:46 final size:46
Alignment explanation
Indices: 21292285--21292380 Score: 156
Period size: 46 Copynumber: 2.1 Consensus size: 46
21292275 ATCACCTCTA
* *
21292285 CTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATAGTAT
1 CTTTCAACCATGATCTTACACATTTCATATCAAGCTGCCATAGTAT
* *
21292331 CTTTGAACCATGATCTTACACATTTCATATCAAGCTGCCATGGTAT
1 CTTTCAACCATGATCTTACACATTTCATATCAAGCTGCCATAGTAT
21292377 CTTT
1 CTTT
21292381 ATAAATAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.36
Consensus pattern (46 bp):
CTTTCAACCATGATCTTACACATTTCATATCAAGCTGCCATAGTAT
Found at i:21294317 original size:30 final size:30
Alignment explanation
Indices: 21294250--21294317 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 30
21294240 CACCCTTAAA
* *
21294250 ATATTTGCACTATTAGTCCTTCAAATTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
21294280 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
21294309 AGTATTTAC
1 A-TATTTAC
21294318 TCTTGGGCCA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 17 0.50
30 17 0.50
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:21298442 original size:26 final size:24
Alignment explanation
Indices: 21298413--21298495 Score: 89
Period size: 24 Copynumber: 3.4 Consensus size: 24
21298403 GCTATGATCG
21298413 GTAAGCTCCT-TCTAAGCTGATGAACA
1 GTAAGCT-CTATC-AAGCTGA-GAACA
* *
21298439 GTAAGCTCTATCGAGCTGAAAACA
1 GTAAGCTCTATCAAGCTGAGAACA
*
21298463 GTAAGCTCTGA-CAAGCTGAGAATA
1 GTAAGCTCT-ATCAAGCTGAGAACA
21298487 GTAAGCTCT
1 GTAAGCTCT
21298496 TACGAGTTGA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
24 32 0.64
25 9 0.18
26 9 0.18
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (24 bp):
GTAAGCTCTATCAAGCTGAGAACA
Found at i:21298466 original size:24 final size:25
Alignment explanation
Indices: 21298435--21298530 Score: 92
Period size: 24 Copynumber: 3.9 Consensus size: 25
21298425 TAAGCTGATG
21298435 AACAGTAAGCTCTAT-CGAGCTGAA
1 AACAGTAAGCTCTATACGAGCTGAA
* * *
21298459 AACAGTAAGCTCT-GACAAGCTGAG
1 AACAGTAAGCTCTATACGAGCTGAA
* *
21298483 AATAGTAAGCTCT-TACGAGTTGATA
1 AACAGTAAGCTCTATACGAGCTGA-A
*
21298508 TATCAGTAAGCTC-ATACGAGCTG
1 -AACAGTAAGCTCTATACGAGCTG
21298531 CGGTGGGTCC
Statistics
Matches: 57, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
24 39 0.68
26 18 0.32
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (25 bp):
AACAGTAAGCTCTATACGAGCTGAA
Found at i:21299970 original size:19 final size:19
Alignment explanation
Indices: 21299946--21299983 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
21299936 CTCAATAACA
*
21299946 TAGCTCATTTCATGTACAC
1 TAGCTCATTTCATATACAC
21299965 TAGCTCATTTCATATACAC
1 TAGCTCATTTCATATACAC
21299984 ACCTTTTCGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.26, G:0.08, T:0.37
Consensus pattern (19 bp):
TAGCTCATTTCATATACAC
Found at i:21300313 original size:45 final size:43
Alignment explanation
Indices: 21300249--21300368 Score: 143
Period size: 45 Copynumber: 2.7 Consensus size: 43
21300239 TTGAAGGATC
* *
21300249 TCATAGTGTCTTTCAACCATGGTCCTATTCATTCTCGACTTAATG-
1 TCATAGTGTCTTTCAACCATGGTCTTATT-ATT-T-GACATAATGT
* *
21300294 TCATAGTGTCTTTCAACCATGGTCTTATATATTTTACATCATGT
1 TCATAGTGTCTTTCAACCATGGTCTTAT-TATTTGACATAATGT
21300338 TGCCATAGTGTCTTTCAACCATGGTCTTATT
1 T--CATAGTGTCTTTCAACCATGGTCTTATT
21300369 TGTCTGATTC
Statistics
Matches: 67, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
43 6 0.09
44 2 0.03
45 31 0.46
46 28 0.42
ACGTcount: A:0.23, C:0.22, G:0.13, T:0.42
Consensus pattern (43 bp):
TCATAGTGTCTTTCAACCATGGTCTTATTATTTGACATAATGT
Found at i:21303990 original size:42 final size:42
Alignment explanation
Indices: 21303897--21303990 Score: 100
Period size: 42 Copynumber: 2.2 Consensus size: 42
21303887 GAGTTATATG
* * * * *
21303897 GCCTAGACACACGCCCATGTCCTTGCCCGTGTGGCTCACACG
1 GCCTAGGCACACACCCATGTCCTTACCCGTATGGCTCACACA
*
21303939 GCCTCGGCACACACCCATGTCCTTACCTC-TATGGCTCACACA
1 GCCTAGGCACACACCCATGTCCTTACC-CGTATGGCTCACACA
**
21303981 GTTTAGGCAC
1 GCCTAGGCAC
21303991 TCGTTGATGT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
42 41 0.98
43 1 0.02
ACGTcount: A:0.19, C:0.39, G:0.20, T:0.21
Consensus pattern (42 bp):
GCCTAGGCACACACCCATGTCCTTACCCGTATGGCTCACACA
Found at i:21305333 original size:64 final size:64
Alignment explanation
Indices: 21305260--21305468 Score: 156
Period size: 64 Copynumber: 3.1 Consensus size: 64
21305250 CTGGGCCAGA
*
21305260 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * * *
21305324 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTAGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
21305386 ACTGGGCCAGA-
54 A-TGGCCCATAG
*
21305397 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
21305461 GCCCATTT
1 GCCCATTT
21305469 GGAAATACAT
Statistics
Matches: 103, Mismatches: 25, Indels: 34
0.64 0.15 0.21
Matches are distributed among these distances:
63 9 0.09
64 23 0.22
65 5 0.05
66 1 0.01
67 12 0.12
68 5 0.05
69 5 0.05
70 12 0.12
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:21305475 original size:137 final size:136
Alignment explanation
Indices: 21305226--21305508 Score: 521
Period size: 137 Copynumber: 2.1 Consensus size: 136
21305216 CATTGGGCCT
*
21305226 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
21305291 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
21305356 CATATGC
130 CATATGC
21305363 AAGCCCATTTAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
**
21305428 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTGGAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
21305493 ATATGC
131 ATATGC
21305499 AAGCCCATTT
1 AAGCCCATTT
21305509 GGGGAGACTA
Statistics
Matches: 142, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
136 19 0.13
137 123 0.87
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:21307331 original size:26 final size:26
Alignment explanation
Indices: 21307295--21307378 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
21307285 CATGAAATTC
21307295 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
21307321 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
21307347 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
21307373 TTATCA
1 TTATCA
21307379 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:21308084 original size:30 final size:31
Alignment explanation
Indices: 21308049--21308107 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
21308039 TTTCGGGATG
21308049 TTACAAT-TTTTTAAAATTT-TAATAATTTTT
1 TTACAATCTTTTT-AAATTTCTAATAATTTTT
*
21308079 TTACAATCTTTTTCAATTTCTAATAATTT
1 TTACAATCTTTTTAAATTTCTAATAATTT
21308108 ATTATAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 12 0.46
31 14 0.54
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (31 bp):
TTACAATCTTTTTAAATTTCTAATAATTTTT
Found at i:21308241 original size:21 final size:21
Alignment explanation
Indices: 21308217--21308258 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
21308207 ATATTAATAA
*
21308217 ATTTAGAATTTTTATAATTTT
1 ATTTAGAATTTTTAAAATTTT
* *
21308238 ATTTATATTTTTTAAAATTTT
1 ATTTAGAATTTTTAAAATTTT
21308259 TACAATTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
ATTTAGAATTTTTAAAATTTT
Done.