Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_pilon, 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: 7662336
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 35 of 38
Found at i:7086351 original size:28 final size:29
Alignment explanation
Indices: 7086270--7086359 Score: 87
Period size: 28 Copynumber: 3.0 Consensus size: 29
7086260 GATAAATAAT
*
7086270 AAATATAAT-TTATAATAATTTTATTTTAATA
1 AAATATAATAATATAAT-ATTTTA-TTT-ATA
*
7086301 AAATATAATAATCATAATTTTTTATTTATA
1 AAATATAATAAT-ATAATATTTTATTTATA
*
7086331 AAAT-T-ATAGATATAATATTTTAATTATA
1 AAATATAATA-ATATAATATTTTATTTATA
7086359 A
1 A
7086360 TATTGACATA
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
28 19 0.37
29 3 0.06
30 7 0.13
31 12 0.23
32 6 0.12
33 5 0.10
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (29 bp):
AAATATAATAATATAATATTTTATTTATA
Found at i:7086358 original size:14 final size:14
Alignment explanation
Indices: 7086291--7086363 Score: 51
Period size: 14 Copynumber: 5.3 Consensus size: 14
7086281 ATAATAATTT
*
7086291 TATTTTAA-TAAAA
1 TATTTTAATTATAA
** *
7086304 TATAATAATCATAA
1 TATTTTAATTATAA
* *
7086318 TTTTTTATTTATAA
1 TATTTTAATTATAA
* *
7086332 AATTATAGA-TATAA
1 TATTTTA-ATTATAA
7086346 TATTTTAATTATAA
1 TATTTTAATTATAA
7086360 TATT
1 TATT
7086364 GACATAAATA
Statistics
Matches: 42, Mismatches: 15, Indels: 5
0.68 0.24 0.08
Matches are distributed among these distances:
13 7 0.17
14 35 0.83
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (14 bp):
TATTTTAATTATAA
Found at i:7086968 original size:788 final size:790
Alignment explanation
Indices: 7084525--7087706 Score: 5270
Period size: 791 Copynumber: 4.0 Consensus size: 790
7084515 AAAACCGGTA
7084525 TATT-TATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTAACAT
1 TATTGTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTAACAT
* *
7084589 ATGTGTCGATACTTTTAGAAAATGTATCGACACATACGTTTAACTATTCTCTCATTATAATATAA
66 ATGTGTCAATACTTTTAGAAAATGTATCGACACATATGTTTAACTATTCTCTCATTATAATATAA
7084654 TTAATGATATATTATTCTTATTATAATAAATAATAAATATAATTTATAATAATTTTATTTTAATA
131 TTAATGATATATTATTCTTATTATAATAAATAATAAATATAATTTATAATAATTTTATTTTAATA
*
7084719 AAATATAATAATCATAA-TTTTTATTTATAAAATTATAGATATAATATTTTAATTAAAATATTGA
196 AAATATAATAATCATAATTTTTTATTTATAAAATTATAGATATAATATTTTAATTATAATATTGA
** *
7084783 CATAAATAATATTAAATAAATCGTTCTAATATTTT-AAAATAATATTATTATTTTGTTAATAAAT
261 CATAAATAATATTAAATAAATTATTCTAATATTTTAAAAATAATAATATTATTTTGTTAATAAAT
*
7084847 AATATTATTTTATTGTATTTGATGTTTATAGTTATATTGTAATTATGATTATTTTTCATCACTTC
326 AATATTATTTTATTATATTTGATGTTTATAGTTATATTGTAATTATGATTATTTTTCATCACTTC
* * * * * *
7084912 ATTGTAATTATTTTTAAAATTATATTGTAATTGTATATAA--TATTTTA--TTATTATTAGATAG
391 ATTATGATTTTTTTTAAAATTATATTGTAATTATATATAATTTTTTTTATTTTATTATTAGAAAG
*
7084973 CTAATATCGAAATAGAAATACCGTGTCCTTTTTTTCATTAGTTATATTGTGGCAACTTTCAAACT
456 CTAATATCGAAATAGAAATACCGTGTCCTTTTTTTCATTAGTTATATTGTGGCAACTTACAAACT
*
7085038 AAAAAATTAAAATTAAAATTAATTTGTATAATTTGTGTTTACTAATTTTATCATTAAAAAGTATA
521 ----AA--AAAATTAAAATTAATTTGTATAATTTGTGTTTACTAATTTTATCATTAAAAAGTCTA
* * *
7085103 TTTTTACCGATTTTGTTATTGTTGGGCATAATAAAACCGGTAAAAATTACATAAAATATTATTAT
580 TTTTTACCGATTTTGTTATTGTTGGGCATAACAAAACCGGTAAAAATTACCTAAAACATTATTAT
*
7085168 TTCTACCTAAAACATCAATGTTTTTTAACATTTCCGGTAAAATGCTCAACAATAACAAAACCGAT
645 TTCTACCTAAAACATCAATGTTTTTTAACATTTCCGGTAAAATGCCCAACAATAACAAAACCGAT
7085233 AAAAAAAATAACAAAACCGGTAGCGCTTTACCGGTTTTGTTAAAATAATGATGTTTTCGGTAATT
710 -AAAAAAATAACAAAACCGGTAGCGCTTTACCGGTTTTGTTAAAATAATGATGTTTTCGGTAATT
7085298 TTTACCGGTTTTGTTAT
774 TTTACCGGTTTTGTTAT
* *
7085315 TGTTGTATACCGGTTACATTGTAAATTTACCTATCACATTATAATTATCGGTTTCGATGTAACAT
1 TATTGTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTAACAT
*
7085380 ATGTGTCGATACTTTTAGAAAATGTATCGACACATATGTTTAACTATTCTCTCATTATAATATAA
66 ATGTGTCAATACTTTTAGAAAATGTATCGACACATATGTTTAACTATTCTCTCATTATAATATAA
*
7085445 TTAATGATATATTATTTTTATTATAATAAATAATAAATATAATTTATAATAATTTTATTTTAATA
131 TTAATGATATATTATTCTTATTATAATAAATAATAAATATAATTTATAATAATTTTATTTTAATA
7085510 AAATATAATAATCATAATTTTTTATTTATAAAATTATAGATATAATATTTTAATTATAATATTGA
196 AAATATAATAATCATAATTTTTTATTTATAAAATTATAGATATAATATTTTAATTATAATATTGA
7085575 CATAAATAATATTAAATAAATTATTCTAATATTTTAAAAATAATAATATTATTTTGTTAATAAAT
261 CATAAATAATATTAAATAAATTATTCTAATATTTTAAAAATAATAATATTATTTTGTTAATAAAT
*
7085640 AATATTATTTTATTATATTTGATGTTTATAGTTATATTGTAATTATGATTATTTTTTATCACTTC
326 AATATTATTTTATTATATTTGATGTTTATAGTTATATTGTAATTATGATTATTTTTCATCACTTC
*
7085705 ATTATGATTTTTTTTTAAAATTATATTGTAATTATATATAATTTTTTTTTATTTTATTATTAAAA
391 ATTATGA-TTTTTTTTAAAATTATATTGTAATTATATATAA-TTTTTTTTATTTTATTATTAGAA
* * *
7085770 AGCTATTATCGAAATAGAAATATCATGTCCTTTTTTTCATTAGTTATATTGTGG-AACTTACAAA
454 AGCTAATATCGAAATAGAAATACCGTGTCCTTTTTTTCATTAGTTATATTGTGGCAACTTACAAA
*
7085834 CTAAAAAATTAAAATTAATTTGTATAATTTGTGTTTACTAATTTTGTCATTAAAAAGTCTATTTT
519 CTAAAAAATTAAAATTAATTTGTATAATTTGTGTTTACTAATTTTATCATTAAAAAGTCTATTTT
* * *
7085899 TACCGATTTTGTTATTGTTAGGCATAATAAAACCGGTAAAGATTACCTAAAACATTATTATTTCT
584 TACCGATTTTGTTATTGTTGGGCATAACAAAACCGGTAAAAATTACCTAAAACATTATTATTTCT
* **
7085964 ACCTAAAACATCAATATTTTTTAACATTTAGGGTAAAATGCCCAACAATAACAAAACCGATAAAA
649 ACCTAAAACATCAATGTTTTTTAACATTTCCGGTAAAATGCCCAACAATAACAAAACCGATAAAA
* *
7086029 AAATAAGAAAACCGGTAGCGCTTTACCGGTTTTGTTAAAATAATGATGTTTTCGATAATTTTTAC
714 AAATAACAAAACCGGTAGCGCTTTACCGGTTTTGTTAAAATAATGATGTTTTCGGTAATTTTTAC
7086094 CGGTTTTGTTAT
779 CGGTTTTGTTAT
* *
7086106 TGTTGTATACCGGTTACATTGTAAATTTACATATTACATTATAATTATCGGTTTCGATGTAACAT
1 TATTGTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTAACAT
7086171 ATGTGTCAATACTTTTAGAAAATGTATCGACACATATGTTTAACTATTCTCTCATTATAATATAA
66 ATGTGTCAATACTTTTAGAAAATGTATCGACACATATGTTTAACTATTCTCTCATTATAATATAA
* *
7086236 TTAATGATATATTATTTTTATTATGATAAATAATAAATATAATTTATAATAATTTTATTTTAATA
131 TTAATGATATATTATTCTTATTATAATAAATAATAAATATAATTTATAATAATTTTATTTTAATA
7086301 AAATATAATAATCATAATTTTTTATTTATAAAATTATAGATATAATATTTTAATTATAATATTGA
196 AAATATAATAATCATAATTTTTTATTTATAAAATTATAGATATAATATTTTAATTATAATATTGA
7086366 CATAAATAATATTAAATAAATTATTCTAATATTTTAAAAATAATAATATTATTTTGTTAATAAAT
261 CATAAATAATATTAAATAAATTATTCTAATATTTTAAAAATAATAATATTATTTTGTTAATAAAT
7086431 AATATTATTTTATTATATTTGATGTTTATAGTTATATTGTAATTATGATTATTTTTCATCACTTC
326 AATATTATTTTATTATATTTGATGTTTATAGTTATATTGTAATTATGATTATTTTTCATCACTTC
7086496 ATTATGATTTTTTTTAAAATTATATTGTAATTATATATAA-TTTTTTTATTTTATTATTAGAAAG
391 ATTATGATTTTTTTTAAAATTATATTGTAATTATATATAATTTTTTTTATTTTATTATTAGAAAG
* *
7086560 CTATTATCGAAATAGAAATATCGTGTCC-TTTTTTCATTAGTTATATTGTGGCAACTTACAAACT
456 CTAATATCGAAATAGAAATACCGTGTCCTTTTTTTCATTAGTTATATTGTGGCAACTTACAAACT
7086624 AAAAAATTAAAATTAATTTGTATAATTTGTGTTTACTAATTTTATCATTAAAAAGTCTATTTTTA
521 AAAAAATTAAAATTAATTTGTATAATTTGTGTTTACTAATTTTATCATTAAAAAGTCTATTTTTA
* *
7086689 CCGGTTTTGTTATTGTTGGACATAACAAAACCGGTAAAAATTACCTAAAACATTATTATTTCTAC
586 CCGATTTTGTTATTGTTGGGCATAACAAAACCGGTAAAAATTACCTAAAACATTATTATTTCTAC
* *
7086754 CTAAAACATCAATGTTTTTTAACATTTCCGGTAAAATGCCCAACAATAACAAAATCGGTAAAAAA
651 CTAAAACATCAATGTTTTTTAACATTTCCGGTAAAATGCCCAACAATAACAAAACCGATAAAAAA
* * * * *
7086819 ATAACAAAATCGGTAACGCTTTATCGGTTTTGTTAAAATAATAATTTTTTCGGTAATTTTTACCG
716 ATAACAAAACCGGTAGCGCTTTACCGGTTTTGTTAAAATAATGATGTTTTCGGTAATTTTTACCG
7086884 GTTTTGTTAT
781 GTTTTGTTAT
* * *
7086894 TATTGTATACCAGTTACATTGTAAATTTACCTATTATATTATAATTATTGGTTTCGATGTAACAT
1 TATTGTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTAACAT
*
7086959 ATGTGTCAATACTTTTAGAAAATGTATCGACGCATATGTTTAACTATTCTCTCATTATAATATAA
66 ATGTGTCAATACTTTTAGAAAATGTATCGACACATATGTTTAACTATTCTCTCATTATAATATAA
*
7087024 TTAATGATATATTATTCTTATTATAATAAATAATAAATATAATTTATAATAATTTTATTCTAATA
131 TTAATGATATATTATTCTTATTATAATAAATAATAAATATAATTTATAATAATTTTATTTTAATA
* *
7087089 AAATATAATAATCATAATTTTTTATTTATAAAATTATAGATATAATATTTTTAATAATAATATGG
196 AAATATAATAATCATAATTTTTTATTTATAAAATTATAGATATAATA-TTTTAATTATAATATTG
* *
7087154 ACATAAATAAAATTAAATAAATTATTCTAATATTTTAAAAATAATTATTTTGTTTATAATATTTT
260 ACATAAATAATATTAAATAAATTATTCTAATATTTTAAAAATAA-TA--------ATATTATTTT
*
7087219 GTTAATAAATAATATTATTTTATTGTATTTGATGTTTATAGTTATATTGTAATTATGATTATTTT
316 GTTAATAAATAATATTATTTTATTATATTTGATGTTTATAGTTATATTGTAATTATGATTATTTT
* ** *
7087284 TTATCACTTCATTATGATTATTTTTCATCACTTCATTATGATTTTTTTTAAATTATATATAATTT
381 TCATCACTTCATTATGATT-TTTTT--T-A--AAATTAT-A----TTGT-AATTATATATAA--T
* *
7087349 TTTAAATTTTTTTATTATTATTAGAAAACTAATATCGAAATAGAAATACCGTGTCC-TTTTTTCA
432 TTT---TTTTATT-TTATTATTAGAAAGCTAATATCGAAATAGAAATACCGTGTCCTTTTTTTCA
7087413 TTAGTTATATTGTGGCAACTTACAAACTAAAAAATTAAAATTAATTTGTATAATTTGTGTTTACT
493 TTAGTTATATTGTGGCAACTTACAAACTAAAAAATTAAAATTAATTTGTATAATTTGTGTTTACT
* * *
7087478 AATTTTATCATTAAAAAGTCTATTTTTACTGGTTTTGTTATTGTTGGGCATAACAAAACCGATAA
558 AATTTTATCATTAAAAAGTCTATTTTTACCGATTTTGTTATTGTTGGGCATAACAAAACCGGTAA
*
7087543 AAATTACCTAAAACATTATTATTTCTACCTAAAACATCAATGTTTTTTAACATTTCTGGTAAAAT
623 AAATTACCTAAAACATTATTATTTCTACCTAAAACATCAATGTTTTTTAACATTTCCGGTAAAAT
* *
7087608 GCCCAACAATAACAAAACCGGTAAAAAAATAAAAAAACCGGTAGCGCTTTACCGGTTTTGTTAAA
688 GCCCAACAATAACAAAACCGATAAAAAAATAACAAAACCGGTAGCGCTTTACCGGTTTTGTTAAA
* *
7087673 ATAATGATATTTTCGGTAATTTTTACCGATTTTG
753 ATAATGATGTTTTCGGTAATTTTTACCGGTTTTG
7087707 CTATGCACAA
Statistics
Matches: 2261, Mismatches: 92, Indels: 51
0.94 0.04 0.02
Matches are distributed among these distances:
787 23 0.01
788 547 0.24
789 58 0.03
790 38 0.02
791 675 0.30
792 256 0.11
793 96 0.04
794 33 0.01
797 6 0.00
798 102 0.05
799 66 0.03
801 1 0.00
802 1 0.00
804 5 0.00
805 1 0.00
809 3 0.00
810 12 0.01
813 3 0.00
816 6 0.00
817 329 0.15
ACGTcount: A:0.38, C:0.09, G:0.08, T:0.45
Consensus pattern (790 bp):
TATTGTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTAACAT
ATGTGTCAATACTTTTAGAAAATGTATCGACACATATGTTTAACTATTCTCTCATTATAATATAA
TTAATGATATATTATTCTTATTATAATAAATAATAAATATAATTTATAATAATTTTATTTTAATA
AAATATAATAATCATAATTTTTTATTTATAAAATTATAGATATAATATTTTAATTATAATATTGA
CATAAATAATATTAAATAAATTATTCTAATATTTTAAAAATAATAATATTATTTTGTTAATAAAT
AATATTATTTTATTATATTTGATGTTTATAGTTATATTGTAATTATGATTATTTTTCATCACTTC
ATTATGATTTTTTTTAAAATTATATTGTAATTATATATAATTTTTTTTATTTTATTATTAGAAAG
CTAATATCGAAATAGAAATACCGTGTCCTTTTTTTCATTAGTTATATTGTGGCAACTTACAAACT
AAAAAATTAAAATTAATTTGTATAATTTGTGTTTACTAATTTTATCATTAAAAAGTCTATTTTTA
CCGATTTTGTTATTGTTGGGCATAACAAAACCGGTAAAAATTACCTAAAACATTATTATTTCTAC
CTAAAACATCAATGTTTTTTAACATTTCCGGTAAAATGCCCAACAATAACAAAACCGATAAAAAA
ATAACAAAACCGGTAGCGCTTTACCGGTTTTGTTAAAATAATGATGTTTTCGGTAATTTTTACCG
GTTTTGTTAT
Found at i:7087216 original size:14 final size:15
Alignment explanation
Indices: 7087193--7087226 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
7087183 ATATTTTAAA
7087193 AATAATTATTTTGTT
1 AATAATTATTTTGTT
*
7087208 TATAA-TATTTTGTT
1 AATAATTATTTTGTT
7087222 AATAA
1 AATAA
7087227 ATAATATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (15 bp):
AATAATTATTTTGTT
Found at i:7087287 original size:24 final size:24
Alignment explanation
Indices: 7087270--7087333 Score: 112
Period size: 24 Copynumber: 2.7 Consensus size: 24
7087260 TTATATTGTA
7087270 ATTATGATTATTTTTTATCACTTC
1 ATTATGATTATTTTTTATCACTTC
*
7087294 ATTATGATTATTTTTCATCACTTC
1 ATTATGATTATTTTTTATCACTTC
7087318 ATTATGATT-TTTTTTA
1 ATTATGATTATTTTTTA
7087334 AATTATATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
23 6 0.16
24 32 0.84
ACGTcount: A:0.25, C:0.11, G:0.05, T:0.59
Consensus pattern (24 bp):
ATTATGATTATTTTTTATCACTTC
Found at i:7089137 original size:28 final size:28
Alignment explanation
Indices: 7089106--7089175 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
7089096 CATTTGTAAA
*
7089106 AGCACAGAGGTGTTGGATTTTAAATTAC
1 AGCACAGAGGTGCTGGATTTTAAATTAC
* *
7089134 AGCACAGAGGTGCTGGATTTTAGATTGC
1 AGCACAGAGGTGCTGGATTTTAAATTAC
*
7089162 ATCACAGAGGTGCT
1 AGCACAGAGGTGCT
7089176 CAATCATCCT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (28 bp):
AGCACAGAGGTGCTGGATTTTAAATTAC
Found at i:7089208 original size:54 final size:54
Alignment explanation
Indices: 7089134--7089344 Score: 201
Period size: 54 Copynumber: 3.9 Consensus size: 54
7089124 TTTAAATTAC
*** * *
7089134 AGCACAGAGGTGCTGGATTTTAGATTGCATCACAGAGGTGCTCAATCATCCTAA
1 AGCACAGAGGTGCCAAATTTTAGATTGAAGCACAGAGGTGCTCAATCATCCTAA
* * * *
7089188 TGCATAGAGGTGCCATATTTTAGATTGAAGCACAGAGATGCTCAATCATCCTAA
1 AGCACAGAGGTGCCAAATTTTAGATTGAAGCACAGAGGTGCTCAATCATCCTAA
* ** *
7089242 AGCACAGATGTGCCAAATCCTAGATTAAAGCACAGAGGTGCTCAATCAAT--TAAA
1 AGCACAGAGGTGCCAAATTTTAGATTGAAGCACAGAGGTGCTCAATC-ATCCT-AA
* * * * * * * *
7089296 AGCACAAATGTGCCAGATTTTATACTGAAGTACAAAGGTGCTCAGTCAT
1 AGCACAGAGGTGCCAAATTTTAGATTGAAGCACAGAGGTGCTCAATCAT
7089345 TTTTTAACTG
Statistics
Matches: 129, Mismatches: 26, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
53 3 0.02
54 124 0.96
55 2 0.02
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (54 bp):
AGCACAGAGGTGCCAAATTTTAGATTGAAGCACAGAGGTGCTCAATCATCCTAA
Found at i:7089275 original size:28 final size:25
Alignment explanation
Indices: 7089239--7089310 Score: 74
Period size: 28 Copynumber: 2.7 Consensus size: 25
7089229 TCAATCATCC
7089239 TAAAGCACAGATGTGCCAAATCCTAGAT
1 TAAAGCACAGATGTGCCAAAT-C-A-AT
*
7089267 TAAAGCACAGAGGTGCTC-AATCAAT
1 TAAAGCACAGATGTGC-CAAATCAAT
*
7089292 TAAAAGCACAAATGTGCCA
1 T-AAAGCACAGATGTGCCA
7089311 GATTTTATAC
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
25 4 0.11
26 14 0.37
27 1 0.03
28 18 0.47
29 1 0.03
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.19
Consensus pattern (25 bp):
TAAAGCACAGATGTGCCAAATCAAT
Found at i:7089391 original size:56 final size:55
Alignment explanation
Indices: 7089325--7089452 Score: 143
Period size: 55 Copynumber: 2.3 Consensus size: 55
7089315 TTATACTGAA
* * * *
7089325 GTACAAAGGTGCTCAGTCATTTTTTAACTGCATAGAGGTGTCAGTTCTCGATTGAG
1 GTACAAAGGTGCTCAATCA-GTTTTAACTACATAGAGGTGTCAGCTCTCGATTGAG
* ** *
7089381 GTACATAGGTGCTCAATCAGTTTTAGTTATATAGAGGTGTCAGCTCTCGATTGA-
1 GTACAAAGGTGCTCAATCAGTTTTAACTACATAGAGGTGTCAGCTCTCGATTGAG
7089435 -TACACAGAGGTGCTCAAT
1 GTACA-A-AGGTGCTCAAT
7089453 TGTTAATTTA
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
53 4 0.07
55 40 0.66
56 17 0.28
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (55 bp):
GTACAAAGGTGCTCAATCAGTTTTAACTACATAGAGGTGTCAGCTCTCGATTGAG
Found at i:7095510 original size:2 final size:2
Alignment explanation
Indices: 7095503--7095532 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7095493 TGTCAAAACA
7095503 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
7095533 TCAAGCACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7095781 original size:3 final size:3
Alignment explanation
Indices: 7095768--7095819 Score: 88
Period size: 3 Copynumber: 17.3 Consensus size: 3
7095758 AATATATGTA
7095768 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
7095813 AAT AAT A
1 AAT AAT A
7095820 TTTTTTGTGA
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.04
3 42 0.89
4 3 0.06
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7096191 original size:22 final size:23
Alignment explanation
Indices: 7096166--7096215 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 23
7096156 TTCCAGAATA
*
7096166 CTACAGGAGTATCGATACCC-TG
1 CTACAGGAGTACCGATACCCTTG
*
7096188 CTACA-GTGTACCGATACCCTTG
1 CTACAGGAGTACCGATACCCTTG
7096210 CTACAG
1 CTACAG
7096216 TAATTTCGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (23 bp):
CTACAGGAGTACCGATACCCTTG
Found at i:7096633 original size:18 final size:18
Alignment explanation
Indices: 7096577--7096640 Score: 69
Period size: 18 Copynumber: 3.6 Consensus size: 18
7096567 TACATATACC
7096577 ATCATTATCAA-AGTCAAT
1 ATCATTATCAATA-TCAAT
* **
7096595 ATCGTTATC-ATGATCTCT
1 ATCATTATCAAT-ATCAAT
7096613 ATCATTATCAATATCAAT
1 ATCATTATCAATATCAAT
7096631 ATCATTATCA
1 ATCATTATCA
7096641 TTAACCTATT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
17 1 0.03
18 33 0.89
19 3 0.08
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.39
Consensus pattern (18 bp):
ATCATTATCAATATCAAT
Found at i:7096958 original size:22 final size:22
Alignment explanation
Indices: 7096930--7096987 Score: 91
Period size: 22 Copynumber: 2.7 Consensus size: 22
7096920 GGCATGTGAA
7096930 ATTTGTCCCGAAAGACCTATGT
1 ATTTGTCCCGAAAGACCTATGT
* *
7096952 ATTTGTCCCGAATGACCTCTGT
1 ATTTGTCCCGAAAGACCTATGT
7096974 ATTTGTCCC-AAAGA
1 ATTTGTCCCGAAAGA
7096988 ACCACGTAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
21 4 0.12
22 29 0.88
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (22 bp):
ATTTGTCCCGAAAGACCTATGT
Found at i:7099279 original size:75 final size:75
Alignment explanation
Indices: 7099118--7099261 Score: 184
Period size: 75 Copynumber: 1.9 Consensus size: 75
7099108 ATAGGTAATT
* ** *
7099118 ATAAGATTTATAAATTGAATTTATCTTCTTTCTGTACTCTTTGTTATGCTAATATGTGTTTGATG
1 ATAAGATTT-TAAATTGAATTTATCTTCTTTCTGTACTCTTTGTTATGATAATATGTAATTGAAG
*
7099183 ATTGGGTTAGA
65 ATTGGATTAGA
*
7099194 ATAAGTATTTT-AATTGAATTTATCTTCTTTCTGTACTTTTTGTTAT-ATACATATGTAATTGTA
1 ATAAG-ATTTTAAATTGAATTTATCTTCTTTCTGTACTCTTTGTTATGATA-ATATGTAATTG-A
7099257 AGATT
63 AGATT
7099262 TATTAAATAT
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
74 2 0.03
75 43 0.72
76 11 0.18
77 4 0.07
ACGTcount: A:0.28, C:0.08, G:0.14, T:0.51
Consensus pattern (75 bp):
ATAAGATTTTAAATTGAATTTATCTTCTTTCTGTACTCTTTGTTATGATAATATGTAATTGAAGA
TTGGATTAGA
Found at i:7100594 original size:44 final size:44
Alignment explanation
Indices: 7100544--7100685 Score: 221
Period size: 44 Copynumber: 3.2 Consensus size: 44
7100534 CATTGTCTGG
* *
7100544 TATCGATACTGCTATATATAGAAGTATTGATACTCCTTGGACGA
1 TATCGATACTACTATATATAGAAGTATCGATACTCCTTGGACGA
* * *
7100588 TATCGATACTATTATATATAGAAGTATCGATACTTCTTGGACGG
1 TATCGATACTACTATATATAGAAGTATCGATACTCCTTGGACGA
* *
7100632 TAACGATACTACTATATATAGAAGTATCGATACTCTTTGGACGA
1 TATCGATACTACTATATATAGAAGTATCGATACTCCTTGGACGA
7100676 TATCGATACT
1 TATCGATACT
7100686 GTTGCTTCTA
Statistics
Matches: 87, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 87 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (44 bp):
TATCGATACTACTATATATAGAAGTATCGATACTCCTTGGACGA
Found at i:7100662 original size:24 final size:24
Alignment explanation
Indices: 7100543--7100665 Score: 82
Period size: 24 Copynumber: 5.5 Consensus size: 24
7100533 CCATTGTCTG
*
7100543 GTATCGATACTGCTATATATAGAA
1 GTATCGATACTACTATATATAGAA
* * ** *
7100567 GTATTGATACTCCT-TGGA-CG-A
1 GTATCGATACTACTATATATAGAA
*
7100588 -TATCGATACTATTATATATAGAA
1 GTATCGATACTACTATATATAGAA
* ** *
7100611 GTATCGATACTTCT-TGGA-CG--
1 GTATCGATACTACTATATATAGAA
*
7100631 GTAACGATACTACTATATATAGAA
1 GTATCGATACTACTATATATAGAA
7100655 GTATCGATACT
1 GTATCGATACT
7100666 CTTTGGACGA
Statistics
Matches: 69, Mismatches: 22, Indels: 16
0.64 0.21 0.15
Matches are distributed among these distances:
20 22 0.32
21 5 0.07
22 4 0.06
23 5 0.07
24 33 0.48
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (24 bp):
GTATCGATACTACTATATATAGAA
Found at i:7103354 original size:15 final size:15
Alignment explanation
Indices: 7103334--7103370 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
7103324 GCAATAGGTG
7103334 CAATAATATGATGCC
1 CAATAATATGATGCC
*
7103349 CAATAATATGATGCG
1 CAATAATATGATGCC
7103364 CAATAAT
1 CAATAAT
7103371 CATAAACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (15 bp):
CAATAATATGATGCC
Found at i:7106403 original size:17 final size:16
Alignment explanation
Indices: 7106372--7106406 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
7106362 AAATTTAAAA
7106372 AATATAATATATATAT
1 AATATAATATATATAT
*
7106388 AATATAAGTTTATATAT
1 AATATAA-TATATATAT
7106405 AA
1 AA
7106407 ACTATATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (16 bp):
AATATAATATATATAT
Found at i:7106416 original size:17 final size:18
Alignment explanation
Indices: 7106396--7106431 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
7106386 ATAATATAAG
7106396 TTTATA-TATAAACTATA
1 TTTATATTATAAACTATA
7106413 TTTATATTATAAACTATA
1 TTTATATTATAAACTATA
7106431 T
1 T
7106432 AATTATTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTATATTATAAACTATA
Found at i:7106418 original size:15 final size:15
Alignment explanation
Indices: 7106400--7106504 Score: 56
Period size: 15 Copynumber: 6.9 Consensus size: 15
7106390 TATAAGTTTA
7106400 TATATAAACTATATTT
1 TATATAAACTATA-TT
7106416 ATATTATAAACTATATAAT
1 -TA-TATAAACTATAT--T
*
7106435 TAT-TATAAGT-TATT
1 TATATA-AACTATATT
* *
7106449 TATATAAATTATGTT
1 TATATAAACTATATT
*
7106464 TATATCAACTATA--
1 TATATAAACTATATT
* * *
7106477 TATGTAAACTATGTA
1 TATATAAACTATATT
*
7106492 TGTATAAACTATA
1 TATATAAACTATA
7106505 AAAGATATAT
Statistics
Matches: 68, Mismatches: 12, Indels: 18
0.69 0.12 0.18
Matches are distributed among these distances:
13 10 0.15
14 7 0.10
15 25 0.37
16 5 0.07
17 7 0.10
18 13 0.19
19 1 0.01
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.46
Consensus pattern (15 bp):
TATATAAACTATATT
Found at i:7106438 original size:18 final size:17
Alignment explanation
Indices: 7106397--7106442 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 17
7106387 TAATATAAGT
*
7106397 TTATATATAAACTATATT
1 TTAT-TATAAACTATATA
7106415 TATATTATAAACTATATAA
1 T-TATTATAAACTATAT-A
7106434 TTATTATAA
1 TTATTATAA
7106443 GTTATTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 21 0.84
19 4 0.16
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (17 bp):
TTATTATAAACTATATA
Found at i:7106584 original size:68 final size:68
Alignment explanation
Indices: 7106451--7106600 Score: 155
Period size: 68 Copynumber: 2.2 Consensus size: 68
7106441 AAGTTATTTA
* *
7106451 TATAAATTATGTTTATATCAACTATATATGTAAACTATGTATGTATAAACTATAAAAGATATATA
1 TATAAATTATATTTATATCAACTATATATATAAACTATGTATGTATAAACTATAAAAGATATATA
*
7106516 GGT
66 GAT
* * * *
7106519 TATAAATTATAATTTATATTAA-TATATA-ATATA-TATGTATGTAT-AACTAATATAAGTAATT
1 TATAAATTAT-ATTTATATCAACTATATATATAAACTATGTATGTATAAACT-ATAAAAG--ATA
7106580 TATAGAT
62 TATAGAT
*
7106587 TATATATATATATT
1 TATAAAT-TATATT
7106601 ATAGAAACAC
Statistics
Matches: 69, Mismatches: 8, Indels: 10
0.79 0.09 0.11
Matches are distributed among these distances:
65 4 0.06
66 17 0.25
67 3 0.04
68 33 0.48
69 12 0.17
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.44
Consensus pattern (68 bp):
TATAAATTATATTTATATCAACTATATATATAAACTATGTATGTATAAACTATAAAAGATATATA
GAT
Found at i:7106982 original size:20 final size:22
Alignment explanation
Indices: 7106944--7107020 Score: 76
Period size: 19 Copynumber: 3.7 Consensus size: 22
7106934 TAAATAATTT
*
7106944 TATATAATATGTATGTATAAA-TC
1 TATAT-ATA-GTATATATAAACTC
*
7106967 -ATGTATAGTATATATAAACTC
1 TATATATAGTATATATAAACTC
7106988 TATATATA-TATATAT-AAC-C
1 TATATATAGTATATATAAACTC
7107007 TATATATA-TATATA
1 TATATATAGTATATA
7107021 CTATATAAAG
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
19 15 0.31
20 13 0.27
21 12 0.24
22 9 0.18
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.43
Consensus pattern (22 bp):
TATATATAGTATATATAAACTC
Found at i:7107001 original size:21 final size:19
Alignment explanation
Indices: 7106970--7107020 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 19
7106960 ATAAATCATG
7106970 TATAGTATATATA-AACTCTA
1 TATA-TATATATATAAC-CTA
7106990 TATATATATATATAACCTA
1 TATATATATATATAACCTA
7107009 TATATATATATA
1 TATATATATATA
7107021 CTATATAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 23 0.77
20 7 0.23
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.43
Consensus pattern (19 bp):
TATATATATATATAACCTA
Found at i:7107010 original size:15 final size:15
Alignment explanation
Indices: 7106990--7107027 Score: 58
Period size: 17 Copynumber: 2.4 Consensus size: 15
7106980 ATAAACTCTA
7106990 TATATATATATATAACC
1 TATATATATATAT-A-C
7107007 TATATATATATATAC
1 TATATATATATATAC
7107022 TATATA
1 TATATA
7107028 AAGTAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 7 0.33
16 1 0.05
17 13 0.62
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (15 bp):
TATATATATATATAC
Found at i:7108190 original size:228 final size:228
Alignment explanation
Indices: 7107793--7108245 Score: 879
Period size: 228 Copynumber: 2.0 Consensus size: 228
7107783 GGGAGGTAGG
*
7107793 GTAGTAGGCTGCCCCCAAACGCCAGGTTTGAGAGCAGCTTCCGTGTAAGACCTCCAGCAATCAGA
1 GTAGTAGGCTGCCCCCAAACGCCAGGTTTAAGAGCAGCTTCCGTGTAAGACCTCCAGCAATCAGA
7107858 AAATTAAAAAGAAAGATAAAATGCAATGCATGTATAAATAAATAGAATAAATACATAGCTGAAAC
66 AAATTAAAAAGAAAGATAAAATGCAATGCATGTATAAATAAATAGAATAAATACATAGCTGAAAC
7107923 ATGCATCATATGCAGTCCACGTATGCGCGTCTTTAATGGGAAGTAATCCTTGCAAATAAATCTCT
131 ATGCATCATATGCAGTCCACGTATGCGCGTCTTTAATGGGAAGTAATCCTTGCAAATAAATCTCT
* *
7107988 GCGTGAAAATCTCTGTATATAGATAGAAACATA
196 GCATGAAAATCTCTGCATATAGATAGAAACATA
7108021 GTAGTAGGCTGCCCCCAAACGCCAGGTTTAAGAGCAGCTTCCGTGTAAGACCTCCAGCAATCAGA
1 GTAGTAGGCTGCCCCCAAACGCCAGGTTTAAGAGCAGCTTCCGTGTAAGACCTCCAGCAATCAGA
7108086 AAATTAAAAAGAAAGATAAAATGCAATGCATGTATAAATAAATAGAATAAATACATAGCTGAAAC
66 AAATTAAAAAGAAAGATAAAATGCAATGCATGTATAAATAAATAGAATAAATACATAGCTGAAAC
7108151 ATGCATCATATGCAGTCCACGTATGCGCGTCTTTAATGGGAAGTAATCCTTGCAAATAAATCTCT
131 ATGCATCATATGCAGTCCACGTATGCGCGTCTTTAATGGGAAGTAATCCTTGCAAATAAATCTCT
7108216 GCATGAAAATCTCTGCATATAGATAGAAAC
196 GCATGAAAATCTCTGCATATAGATAGAAAC
7108246 GTAAGACCCG
Statistics
Matches: 222, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
228 222 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.24
Consensus pattern (228 bp):
GTAGTAGGCTGCCCCCAAACGCCAGGTTTAAGAGCAGCTTCCGTGTAAGACCTCCAGCAATCAGA
AAATTAAAAAGAAAGATAAAATGCAATGCATGTATAAATAAATAGAATAAATACATAGCTGAAAC
ATGCATCATATGCAGTCCACGTATGCGCGTCTTTAATGGGAAGTAATCCTTGCAAATAAATCTCT
GCATGAAAATCTCTGCATATAGATAGAAACATA
Found at i:7110189 original size:16 final size:16
Alignment explanation
Indices: 7110157--7110223 Score: 80
Period size: 16 Copynumber: 4.2 Consensus size: 16
7110147 CGGATCATTT
* *
7110157 ACAGGTCAGTTTAAAA
1 ACAGGTCAGGTTGAAA
* * *
7110173 AGAGGTTAGATTGAAA
1 ACAGGTCAGGTTGAAA
*
7110189 ACATGTCAGGTTGAAA
1 ACAGGTCAGGTTGAAA
7110205 ACAGGTCAGGTTGAAA
1 ACAGGTCAGGTTGAAA
7110221 ACA
1 ACA
7110224 TGTCGGGTAA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 42 1.00
ACGTcount: A:0.42, C:0.10, G:0.25, T:0.22
Consensus pattern (16 bp):
ACAGGTCAGGTTGAAA
Found at i:7110197 original size:32 final size:32
Alignment explanation
Indices: 7110161--7110227 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
7110151 TCATTTACAG
* * *
7110161 GTCAGTTTAAAAAGAGGTTAGATTGAAAACAT
1 GTCAGGTTAAAAACAGGTCAGATTGAAAACAT
* *
7110193 GTCAGGTTGAAAACAGGTCAGGTTGAAAACAT
1 GTCAGGTTAAAAACAGGTCAGATTGAAAACAT
7110225 GTC
1 GTC
7110228 GGGTAATACC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.39, C:0.10, G:0.25, T:0.25
Consensus pattern (32 bp):
GTCAGGTTAAAAACAGGTCAGATTGAAAACAT
Found at i:7113655 original size:65 final size:63
Alignment explanation
Indices: 7113501--7113658 Score: 169
Period size: 65 Copynumber: 2.4 Consensus size: 63
7113491 AAATAGCCAG
*
7113501 AGTGCATCGATGCATGGCTGGTGCATCAATACATCAAATGCATTCGATGCTTTCATAAAATCCTC
1 AGTGCATCGATGCATGGTTGGTGCATCAATACATCAAATGCATTCGATGC-TTCATAAAAT-CTC
* * * * **
7113566 AGTGCATCGGTGCATGGTAT-GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAAT-TC
1 AGTGCATCGATGCATGGT-TGGTGCATCAATACATCAAATGCATTCGATGCTTC-ATAAAATCTC
7113628 ATGGTGCATCGATGCATGGATTGGTGCATCA
1 A--GTGCATCGATGCATGG-TTGGTGCATCA
7113659 CTCTGAAAAA
Statistics
Matches: 78, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
62 3 0.04
63 3 0.04
64 21 0.27
65 50 0.64
66 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (63 bp):
AGTGCATCGATGCATGGTTGGTGCATCAATACATCAAATGCATTCGATGCTTCATAAAATCTC
Found at i:7114594 original size:19 final size:19
Alignment explanation
Indices: 7114570--7114608 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
7114560 CTGGAACGTG
7114570 ATCATCGATATCTTGCATA
1 ATCATCGATATCTTGCATA
7114589 ATCATCGATATCTTGCATA
1 ATCATCGATATCTTGCATA
7114608 A
1 A
7114609 GTTGATGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (19 bp):
ATCATCGATATCTTGCATA
Found at i:7116305 original size:21 final size:20
Alignment explanation
Indices: 7116276--7116347 Score: 56
Period size: 21 Copynumber: 3.5 Consensus size: 20
7116266 CAAGGCGTGC
*
7116276 ATCGGTGCACCTTCATGGTGT
1 ATCGATGCACCTTCA-GGTGT
* *
7116297 ATCGATGCACATTCAAGGATGC
1 ATCGATGCACCTTC-AGG-TGT
* *
7116319 ATTGATGCA-CTGTTAGGTGT
1 ATCGATGCACCT-TCAGGTGT
7116339 ATCGATGCA
1 ATCGATGCA
7116348 TGAAGCACAA
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
20 10 0.25
21 18 0.45
22 12 0.30
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (20 bp):
ATCGATGCACCTTCAGGTGT
Found at i:7123381 original size:30 final size:28
Alignment explanation
Indices: 7123315--7123421 Score: 83
Period size: 30 Copynumber: 3.7 Consensus size: 28
7123305 TAATTAGCAC
* * *
7123315 AAAAAATAATTAATTAATA-AATTTAAAT
1 AAAAAATAA-TAATAAATATTATTTTAAT
*
7123343 AAATAATAATTATATAAATATTATTTTAAT
1 AAAAAATAA-TA-ATAAATATTATTTTAAT
* * *
7123373 AAAAAATAATATTTATATAATTATATTAAT
1 AAAAAATAATA-ATAAAT-ATTATTTTAAT
*
7123403 ATAAAAT-ATAATAAATATT
1 AAAAAATAATAATAAATATT
7123422 TTAAAAAAAT
Statistics
Matches: 65, Mismatches: 11, Indels: 7
0.78 0.13 0.08
Matches are distributed among these distances:
27 3 0.05
28 15 0.23
29 16 0.25
30 31 0.48
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (28 bp):
AAAAAATAATAATAAATATTATTTTAAT
Found at i:7123425 original size:24 final size:22
Alignment explanation
Indices: 7123389--7123432 Score: 52
Period size: 24 Copynumber: 1.9 Consensus size: 22
7123379 TAATATTTAT
*
7123389 ATAATTATATTAATATAAAATATA
1 ATAAATATATTAA-A-AAAATATA
*
7123413 ATAAATATTTTAAAAAAATA
1 ATAAATATATTAAAAAAATA
7123433 CTAACTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.33
23 1 0.06
24 11 0.61
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
ATAAATATATTAAAAAAATATA
Found at i:7124670 original size:27 final size:27
Alignment explanation
Indices: 7124588--7124662 Score: 141
Period size: 27 Copynumber: 2.8 Consensus size: 27
7124578 CCACTATCAC
7124588 CACTTTGAACTTGAAACTCCATAGCAT
1 CACTTTGAACTTGAAACTCCATAGCAT
7124615 CACTTTGAACTTGAAACTCCATAGCAT
1 CACTTTGAACTTGAAACTCCATAGCAT
*
7124642 CACTTTGAACTTGAAAGTCCA
1 CACTTTGAACTTGAAACTCCA
7124663 CAACATCAAG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.29
Consensus pattern (27 bp):
CACTTTGAACTTGAAACTCCATAGCAT
Found at i:7124912 original size:30 final size:30
Alignment explanation
Indices: 7124876--7124949 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
7124866 ACAGAACCGA
* *
7124876 CGGTTCACACCGGTTTTGTCAGTTCCCAGC
1 CGGTTCACACCGGTTTTGCCAGTTCCCAAC
* *
7124906 CGGTTCACACCGGTATTGCCGGTTCCCAAC
1 CGGTTCACACCGGTTTTGCCAGTTCCCAAC
*
7124936 CGGTTC-TACCGGTT
1 CGGTTCACACCGGTT
7124950 CTTTAGTGGT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
29 6 0.16
30 32 0.84
ACGTcount: A:0.14, C:0.34, G:0.24, T:0.28
Consensus pattern (30 bp):
CGGTTCACACCGGTTTTGCCAGTTCCCAAC
Found at i:7125547 original size:26 final size:26
Alignment explanation
Indices: 7125516--7125566 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
7125506 AATAATAAAT
*
7125516 AAAACAAG-AAAAAAATGGAAAATAAC
1 AAAACAAGTAAAAAAAT-AAAAATAAC
*
7125542 AAAACACGTAAAAAAATAAAAATAA
1 AAAACAAGTAAAAAAATAAAAATAA
7125567 AAATAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.75, C:0.08, G:0.08, T:0.10
Consensus pattern (26 bp):
AAAACAAGTAAAAAAATAAAAATAAC
Found at i:7125574 original size:15 final size:14
Alignment explanation
Indices: 7125550--7125594 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 14
7125540 ACAAAACACG
7125550 TAAAAAAATAAAAA
1 TAAAAAAATAAAAA
7125564 TAAAAATAATAAAAA
1 TAAAAA-AATAAAAA
7125579 TAAACAAAATGAAAAA
1 TAAA-AAAAT-AAAAA
7125595 AATGTTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.21
15 15 0.54
16 7 0.25
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (14 bp):
TAAAAAAATAAAAA
Found at i:7125745 original size:36 final size:37
Alignment explanation
Indices: 7125705--7125799 Score: 99
Period size: 36 Copynumber: 2.6 Consensus size: 37
7125695 TAGTATTTAC
7125705 TAAAACAAATAAAAATAATAAATATACA-ATACTAAG
1 TAAAACAAATAAAAATAATAAATATACAGATACTAAG
* * *
7125741 TAAAACAAGTAAAAAATAA-AGATATACATGATATTAAG
1 TAAAACAAAT-AAAAATAATAAATATACA-GATACTAAG
*
7125779 -AAAA-AAATAAAATAAAATAAA
1 TAAAACAAATAAAA-ATAATAAA
7125800 ATAAAGTAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
35 4 0.08
36 23 0.48
37 14 0.29
38 7 0.15
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.21
Consensus pattern (37 bp):
TAAAACAAATAAAAATAATAAATATACAGATACTAAG
Found at i:7125818 original size:26 final size:25
Alignment explanation
Indices: 7125781--7125850 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 25
7125771 ATATTAAGAA
7125781 AAAAATAAAATAAA-ATAAAATAAAGT
1 AAAAATAAAATAAATAT-AAATAAA-T
* *
7125807 AAAAATATAATATATATAAATAAAT
1 AAAAATAAAATAAATATAAATAAAT
*
7125832 AAAAACAAAAATAGAATAT
1 AAAAA-TAAAATA-AATAT
7125851 TAAGAAAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
25 6 0.17
26 24 0.67
27 6 0.17
ACGTcount: A:0.73, C:0.01, G:0.03, T:0.23
Consensus pattern (25 bp):
AAAAATAAAATAAATATAAATAAAT
Found at i:7125934 original size:14 final size:14
Alignment explanation
Indices: 7125926--7125963 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
7125916 TATAAGATAT
7125926 ATATAATAAAAATA
1 ATATAATAAAAATA
*
7125940 ATATAATATAAATA
1 ATATAATAAAAATA
7125954 A-ATAAATAAA
1 ATAT-AATAAA
7125964 TAAAAGAGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 2 0.10
14 19 0.90
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
ATATAATAAAAATA
Found at i:7127390 original size:20 final size:20
Alignment explanation
Indices: 7127365--7127410 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
7127355 TCGTGAAGTT
7127365 GAAATTGGCTCTGGAACTGG
1 GAAATTGGCTCTGGAACTGG
*
7127385 GAAATTGGCTCTGGAATTGG
1 GAAATTGGCTCTGGAACTGG
7127405 GAAATT
1 GAAATT
7127411 ATTTGTTGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.11, G:0.33, T:0.28
Consensus pattern (20 bp):
GAAATTGGCTCTGGAACTGG
Found at i:7128424 original size:68 final size:65
Alignment explanation
Indices: 7128330--7128503 Score: 233
Period size: 65 Copynumber: 2.6 Consensus size: 65
7128320 AAGATATATG
* * *
7128330 TTGTTTCATGA-AAACAGTCTCAAGGGAAACAAAATTTTGTTTTAACGGAAATAAATTTAAAGAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAA-TTTGTTTTAACGGAAATAAATTCAAAGA-
7128394 TT
64 TT
* **
7128396 TGTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTATTTTAGGGGAAATAAATTCAAAGAT
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTGTTTTAACGGAAATAAATTCAAAGAT
7128461 T
65 T
* * *
7128462 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTTGTTT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTGTTT
7128504 CAAGAGAGAC
Statistics
Matches: 96, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
65 37 0.39
66 4 0.04
67 33 0.34
68 22 0.23
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.33
Consensus pattern (65 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTGTTTTAACGGAAATAAATTCAAAGATT
Found at i:7128499 original size:65 final size:66
Alignment explanation
Indices: 7128330--7128486 Score: 228
Period size: 67 Copynumber: 2.4 Consensus size: 66
7128320 AAGATATATG
* * * *
7128330 TTGTTTCATGA-AAACAGTCTCAAGGGAAACAAAATTTTGTTTTAACGGAAATAAATTTAAAGAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAA-TTTATTTTAACGGAAATAAATTCAAAGAT
7128394 TT
65 TT
**
7128396 TGTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTATTTTAGGGGAAATAAATTCAAAGA-
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTATTTTAACGGAAATAAATTCAAAGAT
7128460 TT
65 TT
7128462 TTGTTTCAAGAGAAACTGTCTCAAG
1 TTGTTTCAAGAGAAACTGTCTCAAG
7128487 AGAGACGAAA
Statistics
Matches: 83, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
65 24 0.29
66 4 0.05
67 33 0.40
68 22 0.27
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.32
Consensus pattern (66 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTATTTTAACGGAAATAAATTCAAAGATT
T
Found at i:7128702 original size:37 final size:37
Alignment explanation
Indices: 7128651--7128721 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
7128641 TCAATGTTTA
* *
7128651 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGAGAAACTATCTCAAGGGAGAAAAAATTT
* *
7128688 TGTTTCAAGGGAAACTATCTCAAGTGAGAAAAAA
1 TGTTTCAAGAGAAACTATCTCAAGGGAGAAAAAA
7128722 ATATTCTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.25
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTATCTCAAGGGAGAAAAAATTT
Found at i:7134980 original size:26 final size:25
Alignment explanation
Indices: 7134946--7135009 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 25
7134936 ATATTAAGAA
7134946 AAAAATATAATA-AAATAAAATAAAGT
1 AAAAATATAATATAAAT-AAATAAA-T
*
7134972 AAAAGTATAATATAAATAAATAAAT
1 AAAAATATAATATAAATAAATAAAT
*
7134997 AAAAATAGAATAT
1 AAAAATATAATAT
7135010 TAAGAAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
25 12 0.35
26 18 0.53
27 4 0.12
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (25 bp):
AAAAATATAATATAAATAAATAAAT
Found at i:7135060 original size:23 final size:21
Alignment explanation
Indices: 7135016--7135060 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 21
7135006 ATATTAAGAA
**
7135016 AAAATATATATAAAAACGTAT
1 AAAATATATATAAAAAAATAT
7135037 AAAATATAATATTAAAAAAATAT
1 AAAATAT-ATA-TAAAAAAATAT
7135060 A
1 A
7135061 TATATAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 3 0.15
23 10 0.50
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAATATATATAAAAAAATAT
Found at i:7135063 original size:15 final size:17
Alignment explanation
Indices: 7135037--7135068 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
7135027 AAAAACGTAT
7135037 AAAATATAATAT-TAAA
1 AAAATATAATATATAAA
7135053 AAAATAT-ATATATAAA
1 AAAATATAATATATAAA
7135069 TTGCAAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAATATAATATATAAA
Found at i:7135145 original size:25 final size:23
Alignment explanation
Indices: 7135101--7135147 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 23
7135091 ACATCTATAC
* *
7135101 ATATATATATATAATGATATAAG
1 ATATATATATAAAATAATATAAG
7135124 ATATATATAATAAAAATAATATAA
1 ATATATAT-AT-AAAATAATATAA
7135148 TATAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (23 bp):
ATATATATATAAAATAATATAAG
Found at i:7135679 original size:23 final size:23
Alignment explanation
Indices: 7135653--7135707 Score: 110
Period size: 23 Copynumber: 2.4 Consensus size: 23
7135643 CTCCTTGCTC
7135653 GGTTGTTGCACGTTTGTTGGTGT
1 GGTTGTTGCACGTTTGTTGGTGT
7135676 GGTTGTTGCACGTTTGTTGGTGT
1 GGTTGTTGCACGTTTGTTGGTGT
7135699 GGTTGTTGC
1 GGTTGTTGC
7135708 TTTAAAAGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.04, C:0.09, G:0.40, T:0.47
Consensus pattern (23 bp):
GGTTGTTGCACGTTTGTTGGTGT
Found at i:7136176 original size:10 final size:10
Alignment explanation
Indices: 7136161--7136211 Score: 56
Period size: 10 Copynumber: 5.5 Consensus size: 10
7136151 GATAATTCAT
7136161 AATTTAATAA
1 AATTTAATAA
7136171 AATTTAAT--
1 AATTTAATAA
*
7136179 AATTAAATAA
1 AATTTAATAA
7136189 AATTTAAT--
1 AATTTAATAA
*
7136197 AATTAAATAA
1 AATTTAATAA
7136207 AATTT
1 AATTT
7136212 TAACGTCTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
8 14 0.42
10 19 0.58
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
AATTTAATAA
Found at i:7136224 original size:23 final size:18
Alignment explanation
Indices: 7136159--7136211 Score: 97
Period size: 18 Copynumber: 2.9 Consensus size: 18
7136149 GTGATAATTC
*
7136159 ATAATTTAATAAAATTTA
1 ATAATTAAATAAAATTTA
7136177 ATAATTAAATAAAATTTA
1 ATAATTAAATAAAATTTA
7136195 ATAATTAAATAAAATTT
1 ATAATTAAATAAAATTT
7136212 TAACGTCTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATAATTAAATAAAATTTA
Found at i:7136385 original size:29 final size:29
Alignment explanation
Indices: 7136343--7136456 Score: 212
Period size: 29 Copynumber: 3.9 Consensus size: 29
7136333 CAGTGGCAAC
7136343 ATAGGTCGCCATGCACGCCCGGCGTCCTT
1 ATAGGTCGCCATGCACGCCCGGCGTCCTT
7136372 ATAGGTCGCCATGCACGCCCGGCGTCCTT
1 ATAGGTCGCCATGCACGCCCGGCGTCCTT
7136401 ATAGGTCGCCATGCACGCCCGGCGTCC-T
1 ATAGGTCGCCATGCACGCCCGGCGTCCTT
7136429 ATAAGGTCGCCATGCACGCCCGGCGTCC
1 AT-AGGTCGCCATGCACGCCCGGCGTCC
7136457 ATCATTATTT
Statistics
Matches: 84, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
28 3 0.04
29 81 0.96
ACGTcount: A:0.15, C:0.39, G:0.28, T:0.18
Consensus pattern (29 bp):
ATAGGTCGCCATGCACGCCCGGCGTCCTT
Found at i:7136521 original size:31 final size:31
Alignment explanation
Indices: 7136486--7136550 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
7136476 TTTGGTTCTT
*
7136486 TGCCCGTTGTTGCTCGCTGATGCTGCTTTGG
1 TGCCCGCTGTTGCTCGCTGATGCTGCTTTGG
7136517 TGCCCGCTGTTGCTCGCTGATGCTGCTTTGG
1 TGCCCGCTGTTGCTCGCTGATGCTGCTTTGG
7136548 TGC
1 TGC
7136551 TATGCATGGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.03, C:0.28, G:0.32, T:0.37
Consensus pattern (31 bp):
TGCCCGCTGTTGCTCGCTGATGCTGCTTTGG
Found at i:7136741 original size:25 final size:26
Alignment explanation
Indices: 7136706--7136794 Score: 99
Period size: 29 Copynumber: 3.2 Consensus size: 26
7136696 CGGTTCTATC
* *
7136706 GTAGGTTGCCATGG-CCGGCGACATG
1 GTAGGTCGCCATGGCCCGACGACATG
7136731 GTAGGTCGCCATGGAGTCCCGACGACATG
1 GTAGGTCGCCAT-G-G-CCCGACGACATG
7136760 GTAGGTCGCCATGGAGTCCCGACGACATG
1 GTAGGTCGCCAT-G-G-CCCGACGACATG
7136789 GTAGGT
1 GTAGGT
7136795 GGTAGGGTAG
Statistics
Matches: 58, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
25 11 0.19
26 1 0.02
27 1 0.02
29 45 0.78
ACGTcount: A:0.19, C:0.25, G:0.37, T:0.19
Consensus pattern (26 bp):
GTAGGTCGCCATGGCCCGACGACATG
Found at i:7136763 original size:29 final size:29
Alignment explanation
Indices: 7136724--7136794 Score: 142
Period size: 29 Copynumber: 2.4 Consensus size: 29
7136714 CCATGGCCGG
7136724 CGACATGGTAGGTCGCCATGGAGTCCCGA
1 CGACATGGTAGGTCGCCATGGAGTCCCGA
7136753 CGACATGGTAGGTCGCCATGGAGTCCCGA
1 CGACATGGTAGGTCGCCATGGAGTCCCGA
7136782 CGACATGGTAGGT
1 CGACATGGTAGGT
7136795 GGTAGGGTAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.21, C:0.25, G:0.35, T:0.18
Consensus pattern (29 bp):
CGACATGGTAGGTCGCCATGGAGTCCCGA
Found at i:7136805 original size:12 final size:12
Alignment explanation
Indices: 7136788--7136812 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7136778 CCGACGACAT
7136788 GGTAGGTGGTAG
1 GGTAGGTGGTAG
7136800 GGTAGGTGGTAG
1 GGTAGGTGGTAG
7136812 G
1 G
7136813 TCGCCATGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.60, T:0.24
Consensus pattern (12 bp):
GGTAGGTGGTAG
Found at i:7137346 original size:21 final size:21
Alignment explanation
Indices: 7137321--7137364 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
7137311 AATCTAGTTA
7137321 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
7137342 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
7137363 AT
1 AT
7137365 ATATTATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:7137793 original size:17 final size:17
Alignment explanation
Indices: 7137764--7137796 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
7137754 GTGAGTAATT
7137764 TATTATTTTTTGTTGTC
1 TATTATTTTTTGTTGTC
7137781 TATT-TTTTATTGTTGT
1 TATTATTTT-TTGTTGT
7137797 GTATGTGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.12, C:0.03, G:0.12, T:0.73
Consensus pattern (17 bp):
TATTATTTTTTGTTGTC
Found at i:7138192 original size:26 final size:25
Alignment explanation
Indices: 7138163--7138227 Score: 62
Period size: 26 Copynumber: 2.6 Consensus size: 25
7138153 AAATCATATT
*
7138163 ATTATTAAATCATTAAATATCAAATC
1 ATTATTAAAT-AATAAATATCAAATC
* *
7138189 ATTAGATT-AATAATAATTATTAAATC
1 ATT--ATTAAATAATAAATATCAAATC
7138215 ATTATT-AATAATA
1 ATTATTAAATAATA
7138228 TTAGTAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 10 0.29
26 18 0.53
27 3 0.09
28 3 0.09
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.42
Consensus pattern (25 bp):
ATTATTAAATAATAAATATCAAATC
Found at i:7141092 original size:11 final size:11
Alignment explanation
Indices: 7141076--7141112 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
7141066 TTAATCATTA
7141076 TAAAAATGATT
1 TAAAAATGATT
7141087 TAAAAATGATT
1 TAAAAATGATT
*
7141098 TAATAATGATT
1 TAAAAATGATT
7141109 TAAA
1 TAAA
7141113 TAAATAATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
TAAAAATGATT
Found at i:7141153 original size:14 final size:14
Alignment explanation
Indices: 7141136--7141844 Score: 292
Period size: 14 Copynumber: 51.3 Consensus size: 14
7141126 GATGATTTAG
*
7141136 TAATGATTTGATAA
1 TAATGATTTAATAA
*
7141150 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
7141162 TAATGATTTTATAA
1 TAATGATTTAATAA
* *
7141176 TAATTATTTAGT--
1 TAATGATTTAATAA
* *
7141188 T-ATTATTTAGTAA
1 TAATGATTTAATAA
7141201 T--T-ATTT-ATAA
1 TAATGATTTAATAA
*
7141211 TAATGATTTAATAC
1 TAATGATTTAATAA
7141225 TAATGATTTAATAATTTA
1 TAATGATTTAAT-A---A
*
7141243 GTAATGATTTAATAC
1 -TAATGATTTAATAA
7141258 TAATGA-TT--TAA
1 TAATGATTTAATAA
*
7141269 TAATGATTTAAATATT
1 TAATGATTT-AATA-A
*
7141285 TAATGATTTAATAC
1 TAATGATTTAATAA
7141299 TAATGATTTAATAATTTA
1 TAATGATTTAAT-A---A
*
7141317 GTAATGATTTAATAC
1 -TAATGATTTAATAA
*
7141332 TAATGATTTAATAC
1 TAATGATTTAATAA
*
7141346 TAATGATTTAATAC
1 TAATGATTTAATAA
7141360 TAATGA-TT--TAA
1 TAATGATTTAATAA
*
7141371 TAATGATTTAATAC
1 TAATGATTTAATAA
7141385 TAATGA-TT--TAA
1 TAATGATTTAATAA
*
7141396 TAATGATTTAAATATT
1 TAATGATTT-AATA-A
*
7141412 TAATGATTTGATGATTTAG
1 TAATGATTT-A--A--TAA
*
7141431 TAATGATTTGATAA
1 TAATGATTTAATAA
*
7141445 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
7141457 TAATGATTTAGTAA
1 TAATGATTTAATAA
*
7141471 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
7141483 AAATGA-TT--TAA
1 TAATGATTTAATAA
*
7141494 TAATGATTTAAATATT
1 TAATGATTT-AATA-A
*
7141510 TAATGATTTGATGATTTAG
1 TAATGATTT-A--A--TAA
*
7141529 TAATGATTTGATAA
1 TAATGATTTAATAA
*
7141543 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
7141555 TAATGATTTTATAA
1 TAATGATTTAATAA
* *
7141569 TAATTATTTAGT--
1 TAATGATTTAATAA
* *
7141581 T-ATTATTTAGTAA
1 TAATGATTTAATAA
7141594 T--T-ATTT-ATAA
1 TAATGATTTAATAA
*
7141604 TAATGATTTAATAC
1 TAATGATTTAATAA
7141618 TAATGA-TT--TAA
1 TAATGATTTAATAA
*
7141629 TAATGATTTAAATATT
1 TAATGATTT-AATA-A
*
7141645 TAATGATTTGATGATTTAG
1 TAATGATTT-A--A--TAA
*
7141664 TAATGATTTGATAA
1 TAATGATTTAATAA
*
7141678 TAATTA-TT-ATAA
1 TAATGATTTAATAA
*
7141690 TAATGATTTTATAA
1 TAATGATTTAATAA
* *
7141704 TAATTATTTAGT--
1 TAATGATTTAATAA
* *
7141716 T-ATTATTTAGTAA
1 TAATGATTTAATAA
7141729 T--T-ATTT-ATAA
1 TAATGATTTAATAA
*
7141739 TAATGATTTAATAC
1 TAATGATTTAATAA
*
7141753 TAATGATTTCATAATTTAG
1 TAATGA-TT--TAA--TAA
*
7141772 TAATGATTTAATAC
1 TAATGATTTAATAA
*
7141786 TAATGATTTAATAC
1 TAATGATTTAATAA
7141800 TAATGA-TT--TAA
1 TAATGATTTAATAA
*
7141811 TAATGATTTAAATATT
1 TAATGATTT-AATA-A
*
7141827 TAATGATTTAATAC
1 TAATGATTTAATAA
7141841 TAAT
1 TAAT
7141845 AATAATGATT
Statistics
Matches: 554, Mismatches: 60, Indels: 162
0.71 0.08 0.21
Matches are distributed among these distances:
10 12 0.02
11 90 0.16
12 66 0.12
13 43 0.08
14 192 0.35
15 22 0.04
16 54 0.10
17 3 0.01
18 7 0.01
19 59 0.11
20 6 0.01
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.47
Consensus pattern (14 bp):
TAATGATTTAATAA
Found at i:7141192 original size:11 final size:11
Alignment explanation
Indices: 7141176--7141211 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
7141166 GATTTTATAA
7141176 TAATTATTTAG
1 TAATTATTTAG
*
7141187 TTATTATTTAG
1 TAATTATTTAG
7141198 TAATTATTTA-
1 TAATTATTTAG
7141208 TAAT
1 TAAT
7141212 AATGATTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 4 0.17
11 19 0.83
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (11 bp):
TAATTATTTAG
Found at i:7141253 original size:33 final size:33
Alignment explanation
Indices: 7141211--7141374 Score: 203
Period size: 33 Copynumber: 4.9 Consensus size: 33
7141201 TTATTTATAA
7141211 TAATGATTTAATACTAATGATTTAATAATTTAG
1 TAATGATTTAATACTAATGATTTAATAATTTAG
*
7141244 TAATGATTTAATACTAATGATTTAATAATGATTTAAATATT
1 TAATGATTTAATACTAATGATTTAAT-A--A-TT---TA-G
7141285 TAATGATTTAATACTAATGATTTAATAATTTAG
1 TAATGATTTAATACTAATGATTTAATAATTTAG
*
7141318 TAATGATTTAATACTAATGA-TT--TAA--TAC
1 TAATGATTTAATACTAATGATTTAATAATTTAG
7141346 TAATGATTTAATACTAATGATTTAATAAT
1 TAATGATTTAATACTAATGATTTAATAAT
7141375 GATTTAATAC
Statistics
Matches: 116, Mismatches: 3, Indels: 25
0.81 0.02 0.17
Matches are distributed among these distances:
28 22 0.19
29 2 0.02
30 3 0.03
31 3 0.03
32 2 0.02
33 46 0.40
34 3 0.03
36 1 0.01
37 4 0.03
38 1 0.01
40 3 0.03
41 26 0.22
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (33 bp):
TAATGATTTAATACTAATGATTTAATAATTTAG
Found at i:7141289 original size:74 final size:75
Alignment explanation
Indices: 7141198--7141383 Score: 278
Period size: 74 Copynumber: 2.5 Consensus size: 75
7141188 TATTATTTAG
* *
7141198 TAATTATTT-ATAATAATGATTTAATACTAATGATTTAATAATTTAGTAATGATTTAATACTAAT
1 TAATGATTTAATACTAATGATTTAATACTAATGATTTAATAATTTAGTAATGATTTAATACTAAT
7141262 GATTT-A-A-
66 GATTTAATAC
*
7141269 TAATGATTTAAATATTTAATGATTTAATACTAATGATTTAATAATTTAGTAATGATTTAATACTA
1 TAATGATTT-AATA-CTAATGATTTAATACTAATGATTTAATAATTTAGTAATGATTTAATACTA
7141334 ATGATTTAATAC
64 ATGATTTAATAC
7141346 TAATGATTTAATACTAATGATTT-A-A-TAATGATTTAATA
1 TAATGATTTAATACTAATGATTTAATACTAATGATTTAATA
7141384 CTAATGATTT
Statistics
Matches: 106, Mismatches: 3, Indels: 11
0.88 0.03 0.09
Matches are distributed among these distances:
71 8 0.08
72 13 0.12
73 4 0.04
74 57 0.54
75 10 0.09
76 5 0.05
77 9 0.08
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.46
Consensus pattern (75 bp):
TAATGATTTAATACTAATGATTTAATACTAATGATTTAATAATTTAGTAATGATTTAATACTAAT
GATTTAATAC
Found at i:7141351 original size:135 final size:131
Alignment explanation
Indices: 7141127--7141814 Score: 580
Period size: 135 Copynumber: 5.2 Consensus size: 131
7141117 TAATGATTTG
* * * * *
7141127 ATGATTTAGTAATGATTTGATAATAATCATTATAATAATGATTTTATAATAATTATTTAGTTATT
1 ATGATTTAATAATGATTTAATAATAATGATTATAATAATGATTTTATAAT-ATTATTAAGATATT
*
7141192 ATTTAGTAATTATTTATAATAATGATTTAATACTAATGATTTAATAATTTAGTAATGATTTAATA
65 ATATAGTAATTATTTATAATAATGATTTAATACTAATGATTTAATAATTTA-TAATGATTTAATA
7141257 CTA
129 CTA
* * * *
7141260 ATGATTTAATAATGATTTAAATATTTAATGATTTAATACTAATGATTTAATAAT-TTAGTAATGA
1 ATGATTTAATAATGATTT-AATA-ATAATGA-TT-ATAATAATGATTTTATAATATTATTAA-GA
* * *
7141324 T-TTA-ATACTAATGATTTAATACTAATGATTTAATACTAATGA-TT--T-A---ATAATGATTT
61 TATTATATAGTAATTATTT-ATAATAATGATTTAATACTAATGATTTAATAATTTATAATGATTT
7141380 AATACTA
125 AATACTA
* *
7141387 ATGATTTAATAATGATTTAAATATTTAATGA-T-T--TGATGA-TTTAGTAATGATT-TGATAAT
1 ATGATTTAATAATGATTT-AATA-ATAATGATTATAATAATGATTTTA-TAAT-ATTAT--TAA-
* * *
7141446 AATCATTATA-A-TAATGATTTAGTAATAATCATTATAA-A--AATGATTTAATAATGATT-TAA
59 GAT-ATTATATAGTAATTATTTA-TAATAATGATT-TAATACTAATGATTTAATAAT--TTAT-A
* *
7141505 AT-ATTTAATGATTTG
118 ATGATTTAAT-A-CTA
* * * * *
7141520 ATGATTTAGTAATGATTTGATAATAATCATTATAATAATGATTTTATAATAATTATTTAGTTATT
1 ATGATTTAATAATGATTTAATAATAATGATTATAATAATGATTTTATAAT-ATTATTAAGATATT
*
7141585 ATTTAGTAATTATTTATAATAATGATTTAATACTAATGATTTAATAATGATT-TAAAT-ATTTAA
65 ATATAGTAATTATTTATAATAATGATTTAATACTAATGATTTAATAAT--TTAT-AATGATTTAA
* *
7141648 TGATTTG
127 T-A-CTA
* * * * *
7141655 ATGATTTAGTAATGATTTGATAATAATTATTATAATAATGATTTTATAATAATTATTTAGTTATT
1 ATGATTTAATAATGATTTAATAATAATGATTATAATAATGATTTTATAAT-ATTATTAAGATATT
* *
7141720 ATTTAGTAATTATTTATAATAATGATTTAATACTAATGATTTCATAATTTAGTAATGATTTAATA
65 ATATAGTAATTATTTATAATAATGATTTAATACTAATGATTTAATAATTTA-TAATGATTTAATA
7141785 CTA
129 CTA
7141788 ATGATTTAATACTAATGATTTAATAAT
1 ATGATTT-A-A-TAATGATTTAATAAT
7141815 GATTTAAATA
Statistics
Matches: 471, Mismatches: 39, Indels: 87
0.79 0.07 0.15
Matches are distributed among these distances:
120 3 0.01
121 9 0.02
123 8 0.02
124 9 0.02
125 20 0.04
126 8 0.02
127 49 0.10
128 1 0.00
131 14 0.03
132 17 0.04
133 59 0.13
134 31 0.07
135 203 0.43
136 23 0.05
137 17 0.04
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.47
Consensus pattern (131 bp):
ATGATTTAATAATGATTTAATAATAATGATTATAATAATGATTTTATAATATTATTAAGATATTA
TATAGTAATTATTTATAATAATGATTTAATACTAATGATTTAATAATTTATAATGATTTAATACT
A
Found at i:7141460 original size:26 final size:26
Alignment explanation
Indices: 7141431--7141637 Score: 141
Period size: 26 Copynumber: 8.3 Consensus size: 26
7141421 GATGATTTAG
7141431 TAATGATTTGATAATAATCATTATAA
1 TAATGATTTGATAATAATCATTATAA
7141457 TAATGATTT-AGTAATAATCATTATAA
1 TAATGATTTGA-TAATAATCATTATAA
* * *
7141483 AAATGATTTAATAATGAT--TTA-AA
1 TAATGATTTGATAATAATCATTATAA
* * * * * * *
7141506 TATTTA-ATGAT-TTGATGATT-TAG
1 TAATGATTTGATAATAATCATTATAA
7141529 TAATGATTTGATAATAATCATTATAA
1 TAATGATTTGATAATAATCATTATAA
* * *
7141555 TAATGATTTTATAATAATTATT-TAG
1 TAATGATTTGATAATAATCATTATAA
* * *
7141580 TTATTATTT-AGTAATTAT--TTATAA
1 TAATGATTTGA-TAATAATCATTATAA
* * *
7141604 TAATGATTTAATACTAATGATT-TAA
1 TAATGATTTGATAATAATCATTATAA
7141629 TAATGATTT
1 TAATGATTT
7141638 AAATATTTAA
Statistics
Matches: 141, Mismatches: 27, Indels: 27
0.72 0.14 0.14
Matches are distributed among these distances:
21 4 0.03
22 3 0.02
23 14 0.10
24 22 0.16
25 35 0.25
26 62 0.44
27 1 0.01
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.47
Consensus pattern (26 bp):
TAATGATTTGATAATAATCATTATAA
Found at i:7141533 original size:72 final size:72
Alignment explanation
Indices: 7141457--7141704 Score: 288
Period size: 72 Copynumber: 3.6 Consensus size: 72
7141447 ATCATTATAA
7141457 TAATGATTT-AGTAATAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGA
1 TAATGATTTGA-TAATAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGA
7141521 TGATTTAG
65 TGATTTAG
* * *
7141529 TAATGATTTGATAATAATCATTATAATAATGATTT--T-AT-A-ATAATTATTT-A-G--TT-AT
1 TAATGATTTGATAATAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGAT
*
7141584 TATTTAG
66 GATTTAG
* *
7141591 TAATTATTT-ATAATAATGATT-TAATACTAATGATTTAATAATGATTTAAATATTTAATGATTT
1 TAATGATTTGATAATAATCATTATAA-A--AATGATTTAATAATGATTTAAATATTTAATGATTT
7141654 GATGATTTAG
63 GATGATTTAG
* * *
7141664 TAATGATTTGATAATAATTATTATAATAATGATTTTATAAT
1 TAATGATTTGATAATAATCATTATAAAAATGATTTAATAAT
7141705 AATTATTTAG
Statistics
Matches: 146, Mismatches: 14, Indels: 32
0.76 0.07 0.17
Matches are distributed among these distances:
60 3 0.02
61 11 0.08
62 16 0.11
63 10 0.07
65 2 0.01
66 3 0.02
67 9 0.06
68 9 0.06
69 3 0.02
70 2 0.01
72 47 0.32
73 17 0.12
74 11 0.08
75 3 0.02
ACGTcount: A:0.42, C:0.01, G:0.09, T:0.48
Consensus pattern (72 bp):
TAATGATTTGATAATAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGAT
GATTTAG
Found at i:7141802 original size:47 final size:46
Alignment explanation
Indices: 7141720--7141814 Score: 154
Period size: 47 Copynumber: 2.0 Consensus size: 46
7141710 TTTAGTTATT
* *
7141720 ATTTAGTAATTATTTATAATAATGATTTAATACTAATGATTTCATA
1 ATTTAGTAATGATTTATAATAATGATTTAATACTAATGATTTAATA
*
7141766 ATTTAGTAATGATTTAATACTAATGATTTAATACTAATGATTTAATA
1 ATTTAGTAATGATTT-ATAATAATGATTTAATACTAATGATTTAATA
7141813 AT
1 AT
7141815 GATTTAAATA
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
46 14 0.31
47 31 0.69
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.46
Consensus pattern (46 bp):
ATTTAGTAATGATTTATAATAATGATTTAATACTAATGATTTAATA
Found at i:7141871 original size:393 final size:385
Alignment explanation
Indices: 7141067--7141871 Score: 1012
Period size: 393 Copynumber: 2.1 Consensus size: 385
7141057 ATGTATTTAT
* *
7141067 TAATCATTA-TAAAAATGATTTAAAAATGATTTAATAATGATTTAAATAAATAATGATTTGATGA
1 TAATGATTACTAAAAATCATTTAAAAATGATTTAATAATGATTTAAATAAATAATGATTTGATGA
7141131 TTTAGTAATGATTTGATAATAATCATTATAATAATGATTTTATAATAATTATTTAGTTATTATTT
66 TTTAGTAATGATTTGATAATAATCATTATAATAATGATTTTATAATAATTATTTAGTTATTATTT
7141196 AGTAATTATTTATAATAATGATTTAATACTAATGATTTAATAATTTAGTAATGATTTAATACTAA
131 AGTAATTATTTATAATAATGATTTAATACTAATGATTTAATAATTTAG-AATGATTTAATACTAA
*
7141261 TGATTTAATAATGATTTAAATATTTAATGATTTAATACTAATGATTTAATAATTTAGTAATGATT
195 TGATTTAATAATGATTTAAATATTTAATGATTTAATAATAATGATTTAATAATTTAGTAATGATT
* *
7141326 TAATACTAATGATTTAATACTAATGATTTAATACTAATGATTTAATAATGATTTAATACTAATGA
260 TAATAATAATGATTTAATACTAATGATTT-ATAC-AATAATTTAATAATGATTTAATACTAATGA
* * * *
7141391 TTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTATA
323 TTTAATAATGATTT-AATA-TTAATGATTTAATGATTTA-TAATGATTTAATAATAATAATAATA
7141456 A
385 A
* * **
7141457 TAATGATTTAGTAATAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGAT
1 TAATGA-TTACTAAAAATCATT-TAAAAATGATTTAATAATGATTTAAATAAATAATGATTTGAT
7141522 GATTTAGTAATGATTTGATAATAATCATTATAATAATGATTTTATAATAATTATTTAGTTATTAT
64 GATTTAGTAATGATTTGATAATAATCATTATAATAATGATTTTATAATAATTATTTAGTTATTAT
7141587 TTAGTAATTATTTATAATAATGATTTAATACTAATGATTTAATAATGATTTA-AAT-ATTTAATG
129 TTAGTAATTATTTATAATAATGATTTAATACTAATGATTTAAT-A--ATTTAGAATGATTTAAT-
* * * * *
7141650 ATTTGATGATTTAGTAATGATTTGATAATAATTATTATAATAATGATTTTATAATAATTATTTAG
190 A-CTAATGATTTAATAATGA-TT--T-A-AA-TA-T-T--TAATGATTTAATAATAATGATTTA-
* * *
7141715 TTATTATTTAGTAATTATTT-ATAATAATGATTTAATACTAATGA-TT-T-C-ATAATTTAGTAA
243 --ATAATTTAGTAATGATTTAATAATAATGATTTAATACTAATGATTTATACAATAATTTAATAA
7141775 TGATTTAATACTAATGATTTAATACTAATGATTT-A-A-TAATGATTTAA--ATATT-TAATGAT
306 TGATTTAATACTAATGATTT-A-A-TAATGATTTAATATTAATGATTTAATGAT-TTATAATGAT
* *
7141834 TTAATACTAATAATAATGA
367 TTAATAATAATAATAATAA
*
7141853 T-TTGA-TACTAAAAATCATT
1 TAATGATTACTAAAAATCATT
7141872 GTTAAGGTTA
Statistics
Matches: 365, Mismatches: 25, Indels: 47
0.84 0.06 0.11
Matches are distributed among these distances:
390 5 0.01
391 3 0.01
392 9 0.02
393 167 0.46
394 5 0.01
395 18 0.05
396 29 0.08
397 2 0.01
398 3 0.01
399 11 0.03
400 2 0.01
401 33 0.09
402 3 0.01
403 3 0.01
404 10 0.03
405 21 0.06
406 2 0.01
407 23 0.06
408 16 0.04
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.46
Consensus pattern (385 bp):
TAATGATTACTAAAAATCATTTAAAAATGATTTAATAATGATTTAAATAAATAATGATTTGATGA
TTTAGTAATGATTTGATAATAATCATTATAATAATGATTTTATAATAATTATTTAGTTATTATTT
AGTAATTATTTATAATAATGATTTAATACTAATGATTTAATAATTTAGAATGATTTAATACTAAT
GATTTAATAATGATTTAAATATTTAATGATTTAATAATAATGATTTAATAATTTAGTAATGATTT
AATAATAATGATTTAATACTAATGATTTATACAATAATTTAATAATGATTTAATACTAATGATTT
AATAATGATTTAATATTAATGATTTAATGATTTATAATGATTTAATAATAATAATAATAA
Found at i:7144027 original size:15 final size:14
Alignment explanation
Indices: 7144004--7144034 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
7143994 TACAACACTA
7144004 AACTTTAATATAAT
1 AACTTTAATATAAT
7144018 AACTTATAATATAAT
1 AACTT-TAATATAAT
7144033 AA
1 AA
7144035 ACTAATAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (14 bp):
AACTTTAATATAAT
Found at i:7144042 original size:16 final size:16
Alignment explanation
Indices: 7144009--7144055 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
7143999 CACTAAACTT
*
7144009 TAATATAAT-AACTTA
1 TAATATAATAAACTAA
7144024 TAATATAATAAACTAA
1 TAATATAATAAACTAA
*
7144040 TAA-ACTAACAAACTAA
1 TAATA-TAATAAACTAA
7144056 ACTTTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 10 0.36
16 18 0.64
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.30
Consensus pattern (16 bp):
TAATATAATAAACTAA
Found at i:7144171 original size:32 final size:34
Alignment explanation
Indices: 7144096--7144177 Score: 100
Period size: 34 Copynumber: 2.5 Consensus size: 34
7144086 CTAAACCCTT
* *
7144096 AAAC-AACTAATAAAATATTTTTTTATATAACTA
1 AAACTAACTAATAAACTATTTTTTCATATAACTA
7144129 AAACTAACTAATAAACTATTTTTTCATTATAA-T-
1 AAACTAACTAATAAACTATTTTTTCA-TATAACTA
*
7144162 ATACT-ACTAATAAACT
1 AAACTAACTAATAAACT
7144178 TACTAACTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
32 11 0.25
33 8 0.18
34 20 0.45
35 5 0.11
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (34 bp):
AAACTAACTAATAAACTATTTTTTCATATAACTA
Found at i:7144295 original size:46 final size:48
Alignment explanation
Indices: 7144218--7144309 Score: 136
Period size: 46 Copynumber: 2.0 Consensus size: 48
7144208 CAACAAACAA
*
7144218 ATATAACTTAACTATTTAACTAACACAAACTAATTAAATAATTTTTTTT
1 ATATAACTTAACTATTTAACTAAAACAAACTAATT-AATAATTTTTTTT
*
7144267 ATATAAC-TAACTA-TTAAC-AAAACAAACTAATTAATTATTTTTT
1 ATATAACTTAACTATTTAACTAAAACAAACTAATTAATAATTTTTT
7144310 AACTATATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
45 10 0.24
46 13 0.32
47 5 0.12
48 6 0.15
49 7 0.17
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (48 bp):
ATATAACTTAACTATTTAACTAAAACAAACTAATTAATAATTTTTTTT
Found at i:7144320 original size:47 final size:48
Alignment explanation
Indices: 7144218--7144322 Score: 135
Period size: 47 Copynumber: 2.2 Consensus size: 48
7144208 CAACAAACAA
* *
7144218 ATATAACTTAACTATTTAACTAACACAAACTAATTAAATAATTTTTTTT
1 ATATAAC-TAACTATTTAACTAAAACAAACTAATTAAATAATTTTTTCT
*
7144267 ATATAACTAACTA-TTAAC-AAAACAAACTAATT-AATTATTTTTTAACT
1 ATATAACTAACTATTTAACTAAAACAAACTAATTAAATAATTTTTT--CT
7144314 ATATAACTA
1 ATATAACTA
7144323 TCAAACATAT
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
45 10 0.20
46 13 0.25
47 15 0.29
48 6 0.12
49 7 0.14
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (48 bp):
ATATAACTAACTATTTAACTAAAACAAACTAATTAAATAATTTTTTCT
Found at i:7144378 original size:41 final size:40
Alignment explanation
Indices: 7144290--7144378 Score: 90
Period size: 41 Copynumber: 2.2 Consensus size: 40
7144280 TTAACAAAAC
* *
7144290 AAACTAATTAATTATTTTTTAACTATATAACTATCAAACAT
1 AAACTAATTAAATAATTTTTAACTATATAACTAT-AAACAT
* * * *
7144331 ATACTAATTAAATAATTTTTAATTTATGTATACTAT-AACTT
1 AAACTAATTAAATAATTTTTAA-CTATATA-ACTATAAACAT
7144372 AAACTAA
1 AAACTAA
7144379 CAATCATATA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
41 29 0.74
42 5 0.13
43 5 0.13
ACGTcount: A:0.46, C:0.10, G:0.01, T:0.43
Consensus pattern (40 bp):
AAACTAATTAAATAATTTTTAACTATATAACTATAAACAT
Found at i:7144818 original size:29 final size:29
Alignment explanation
Indices: 7144776--7144867 Score: 148
Period size: 29 Copynumber: 3.2 Consensus size: 29
7144766 ACGCCGGGGT
7144776 GACCTACAAGGTCGCCGGGACTACATGGC
1 GACCTACAAGGTCGCCGGGACTACATGGC
7144805 GACCTACAAGGTCGCCGGGACTACATGGC
1 GACCTACAAGGTCGCCGGGACTACATGGC
* ** *
7144834 GACCTATAAGGTCGCCCTGACTGCATGGC
1 GACCTACAAGGTCGCCGGGACTACATGGC
7144863 GACCT
1 GACCT
7144868 CTCCATTGAC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 59 1.00
ACGTcount: A:0.23, C:0.32, G:0.29, T:0.16
Consensus pattern (29 bp):
GACCTACAAGGTCGCCGGGACTACATGGC
Found at i:7144963 original size:20 final size:20
Alignment explanation
Indices: 7144934--7144972 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
7144924 ACCTCTCAAT
7144934 TGGCTCGTATGGCTCGTATA
1 TGGCTCGTATGGCTCGTATA
*
7144954 TGGCTTGTATGGCTCGTAT
1 TGGCTCGTATGGCTCGTAT
7144973 GTCACCCCGT
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:0.13, C:0.18, G:0.31, T:0.38
Consensus pattern (20 bp):
TGGCTCGTATGGCTCGTATA
Found at i:7144992 original size:9 final size:9
Alignment explanation
Indices: 7144934--7144973 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
7144924 ACCTCTCAAT
7144934 TGGCTCGTA
1 TGGCTCGTA
7144943 TGGCTCGTATA
1 TGGCTCG--TA
*
7144954 TGGCTTGTA
1 TGGCTCGTA
7144963 TGGCTCGTA
1 TGGCTCGTA
7144972 TG
1 TG
7144974 TCACCCCGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 19 0.70
11 8 0.30
ACGTcount: A:0.12, C:0.17, G:0.33, T:0.38
Consensus pattern (9 bp):
TGGCTCGTA
Found at i:7145003 original size:20 final size:21
Alignment explanation
Indices: 7144960--7145005 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
7144950 TATATGGCTT
7144960 GTATGGCTCGTATGTCACCCC
1 GTATGGCTCGTATGTCACCCC
*
7144981 GTATGGCTCGTATGTC-TCCC
1 GTATGGCTCGTATGTCACCCC
7145001 GTATG
1 GTATG
7145006 TCGCCTGGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.13, C:0.28, G:0.26, T:0.33
Consensus pattern (21 bp):
GTATGGCTCGTATGTCACCCC
Found at i:7145048 original size:29 final size:29
Alignment explanation
Indices: 7145006--7145065 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
7144996 CTCCCGTATG
7145006 TCGCCTGGATTGCATGGCGTCCTACAAGA
1 TCGCCTGGATTGCATGGCGTCCTACAAGA
*
7145035 TCGCCTGGATTGCATGGCGTCCTACGAGA
1 TCGCCTGGATTGCATGGCGTCCTACAAGA
7145064 TC
1 TC
7145066 ACTGTAGAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.18, C:0.28, G:0.28, T:0.25
Consensus pattern (29 bp):
TCGCCTGGATTGCATGGCGTCCTACAAGA
Found at i:7145633 original size:31 final size:31
Alignment explanation
Indices: 7145588--7145777 Score: 159
Period size: 31 Copynumber: 6.1 Consensus size: 31
7145578 GTTTGATCCT
* * * * *
7145588 TAAACTTTACATAAAATACTACTTTAATCTT
1 TAAACTTTAGATAAAATATTATTTTAACCTC
* * *
7145619 TGAACTTTAGATAAAATAATATTTTGACCTC
1 TAAACTTTAGATAAAATATTATTTTAACCTC
* *
7145650 TAAACTTTAGATAAAATATTAATTTGACC-C
1 TAAACTTTAGATAAAATATTATTTTAACCTC
* * *
7145680 TTAAACCTTAGATAGAATATTATTTTAATCTC
1 -TAAACTTTAGATAAAATATTATTTTAACCTC
* * *
7145712 TAAACTATAGATAAAATATCATTTTGATCCT-
1 TAAACTTTAGATAAAATATTATTTT-AACCTC
* * * * *
7145743 TAAACTCTAAATAAAATATGAATTTAACCTT
1 TAAACTTTAGATAAAATATTATTTTAACCTC
7145774 TAAA
1 TAAA
7145778 TTCGACCAAA
Statistics
Matches: 129, Mismatches: 26, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
30 5 0.04
31 120 0.93
32 4 0.03
ACGTcount: A:0.43, C:0.13, G:0.05, T:0.39
Consensus pattern (31 bp):
TAAACTTTAGATAAAATATTATTTTAACCTC
Found at i:7145730 original size:62 final size:62
Alignment explanation
Indices: 7145625--7145777 Score: 175
Period size: 62 Copynumber: 2.5 Consensus size: 62
7145615 TCTTTGAACT
* * *
7145625 TTAGATAAAATAATATTTTGACCTCTAAACTTTAGATAAAATATTAATTTGACCCTTAAACC
1 TTAGATAAAATAATATTTTAACCTCTAAACTATAGATAAAATATCAATTTGACCCTTAAACC
* * * * *
7145687 TTAGATAGAATATTATTTTAATCTCTAAACTATAGATAAAATATCATTTTGATCCTTAAA-C
1 TTAGATAAAATAATATTTTAACCTCTAAACTATAGATAAAATATCAATTTGACCCTTAAACC
* * *
7145748 TCTAAATAAAAT-ATGAATTTAACCTTTAAA
1 T-TAGATAAAATAAT-ATTTTAACCTCTAAA
7145778 TTCGACCAAA
Statistics
Matches: 75, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
61 3 0.04
62 72 0.96
ACGTcount: A:0.43, C:0.12, G:0.06, T:0.39
Consensus pattern (62 bp):
TTAGATAAAATAATATTTTAACCTCTAAACTATAGATAAAATATCAATTTGACCCTTAAACC
Found at i:7145736 original size:93 final size:93
Alignment explanation
Indices: 7145579--7145777 Score: 240
Period size: 93 Copynumber: 2.1 Consensus size: 93
7145569 TAATTTTTAG
* * * * *
7145579 TTTGATCCTTAAACTTTACATAAAATACTACTTTAATCTTTGAACTTTAGATAAAATAATATTTT
1 TTTGACCCTTAAACCTTACATAAAATACTACTTTAATCTCTAAACTATAGATAAAATAATATTTT
* * *
7145644 GA-CCTCTAAACTTTAGATAAAATATTAA
66 GATCCT-TAAACTCTAAATAAAATATGAA
* * * *
7145672 TTTGACCCTTAAACCTTAGATAGAATATTATTTTAATCTCTAAACTATAGATAAAAT-ATCATTT
1 TTTGACCCTTAAACCTTACATAAAATACTACTTTAATCTCTAAACTATAGATAAAATAAT-ATTT
7145736 TGATCCTTAAACTCTAAATAAAATATGAA
65 TGATCCTTAAACTCTAAATAAAATATGAA
* *
7145765 TTTAACCTTTAAA
1 TTTGACCCTTAAA
7145778 TTCGACCAAA
Statistics
Matches: 90, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
92 2 0.02
93 85 0.94
94 3 0.03
ACGTcount: A:0.41, C:0.14, G:0.06, T:0.40
Consensus pattern (93 bp):
TTTGACCCTTAAACCTTACATAAAATACTACTTTAATCTCTAAACTATAGATAAAATAATATTTT
GATCCTTAAACTCTAAATAAAATATGAA
Found at i:7145861 original size:18 final size:18
Alignment explanation
Indices: 7145838--7145872 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7145828 GTCACATTAA
7145838 TATATTAAATATTTATAG
1 TATATTAAATATTTATAG
*
7145856 TATATTATATATTTATA
1 TATATTAAATATTTATA
7145873 TATTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
TATATTAAATATTTATAG
Found at i:7145888 original size:15 final size:15
Alignment explanation
Indices: 7145833--7145888 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
7145823 CATCAGTCAC
*
7145833 ATTAATATATTAAAT
1 ATTAATATATTATAT
7145848 ATTTATAGTATATTATAT
1 A-TTA-A-TATATTATAT
*
7145866 ATTTATATATTATA-
1 ATTAATATATTATAT
7145880 ATTAA-ATAT
1 ATTAATATAT
7145889 GCACGAACCA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
13 4 0.11
14 4 0.11
15 10 0.29
16 4 0.11
17 3 0.09
18 10 0.29
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (15 bp):
ATTAATATATTATAT
Found at i:7147594 original size:22 final size:24
Alignment explanation
Indices: 7147554--7147598 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
7147544 TATCAATACT
*
7147554 CTCTTGAGAGTATCTATACTCCCC
1 CTCTTGAGAGTATCGATACTCCCC
7147578 CTCTTG-G-GTATCGATACTCCC
1 CTCTTGAGAGTATCGATACTCCC
7147599 TTAAGTATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 13 0.65
23 1 0.05
24 6 0.30
ACGTcount: A:0.18, C:0.33, G:0.16, T:0.33
Consensus pattern (24 bp):
CTCTTGAGAGTATCGATACTCCCC
Found at i:7155206 original size:14 final size:15
Alignment explanation
Indices: 7155183--7155220 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
7155173 ATGGCATTCT
*
7155183 ATGTTTTTTAAAAAA
1 ATGTTTTTAAAAAAA
7155198 ATGTTTTTAAAAAAA
1 ATGTTTTTAAAAAAA
7155213 ATGTTTTT
1 ATGTTTTT
7155221 GTGTTAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (15 bp):
ATGTTTTTAAAAAAA
Found at i:7165394 original size:31 final size:31
Alignment explanation
Indices: 7165359--7165464 Score: 115
Period size: 31 Copynumber: 3.3 Consensus size: 31
7165349 CAGTTGGTGT
7165359 TGAACCTATAAAAGGAATTACCAGCAGTGAC
1 TGAACCTATAAAAGGAATTACCAGCAGTGAC
* * *
7165390 TGAACCTGCCAGAGATAGGAATTACCAGTCGGTG-C
1 TGAACCT---ATA-AAAGGAATTACCAG-CAGTGAC
* *
7165425 AGAACCTATACAAGGAATTACCAGCAGTGAC
1 TGAACCTATAAAAGGAATTACCAGCAGTGAC
7165456 TGAACCTAT
1 TGAACCTAT
7165465 CAGAGTCTTC
Statistics
Matches: 60, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
30 4 0.07
31 28 0.47
32 2 0.03
34 2 0.03
35 20 0.33
36 4 0.07
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (31 bp):
TGAACCTATAAAAGGAATTACCAGCAGTGAC
Found at i:7165469 original size:66 final size:66
Alignment explanation
Indices: 7165342--7165469 Score: 202
Period size: 66 Copynumber: 1.9 Consensus size: 66
7165332 GGTTTATAAA
* ** *
7165342 GAATTACCAGTTGGTGTTGAACCTATAAAAGGAATTACCAGCAGTGACTGAACCTGCCAGAGATA
1 GAATTACCAGTCGGTGCAGAACCTATAAAAGGAATTACCAGCAGTGACTGAACCTACCAGAGATA
7165407 G
66 G
* *
7165408 GAATTACCAGTCGGTGCAGAACCTATACAAGGAATTACCAGCAGTGACTGAACCTATCAGAG
1 GAATTACCAGTCGGTGCAGAACCTATAAAAGGAATTACCAGCAGTGACTGAACCTACCAGAG
7165470 TCTTCATACA
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 56 1.00
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.21
Consensus pattern (66 bp):
GAATTACCAGTCGGTGCAGAACCTATAAAAGGAATTACCAGCAGTGACTGAACCTACCAGAGATA
G
Found at i:7167679 original size:28 final size:28
Alignment explanation
Indices: 7167647--7167707 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
7167637 TAACGTCGGA
*
7167647 GGCGACTGGAATCGTCGAAGATACACTT
1 GGCGACTGGAATCGTCGAAGATACACTC
*
7167675 GGCGACTGGAATCGTCGAAGATATACTC
1 GGCGACTGGAATCGTCGAAGATACACTC
7167703 GGCGA
1 GGCGA
7167708 TGGGGATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.28, C:0.21, G:0.31, T:0.20
Consensus pattern (28 bp):
GGCGACTGGAATCGTCGAAGATACACTC
Found at i:7168174 original size:15 final size:17
Alignment explanation
Indices: 7168156--7168191 Score: 51
Period size: 14 Copynumber: 2.3 Consensus size: 17
7168146 TTAGGGTTTA
7168156 AAAAAAAT-TAT-TAAT
1 AAAAAAATATATATAAT
7168171 -AAAAAATATATATAAT
1 AAAAAAATATATATAAT
7168187 AAAAA
1 AAAAA
7168192 TTTAAATTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
14 7 0.39
15 3 0.17
16 4 0.22
17 4 0.22
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAAAAATATATATAAT
Found at i:7168192 original size:15 final size:14
Alignment explanation
Indices: 7168153--7168191 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 14
7168143 ATTTTAGGGT
7168153 TTAA-AAAAAATTA
1 TTAATAAAAAATTA
7168166 TTAATAAAAAATATA
1 TTAATAAAAAAT-TA
7168181 TATAATAAAAA
1 T-TAATAAAAA
7168192 TTTAAATTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.17
14 7 0.30
15 3 0.13
16 9 0.39
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
TTAATAAAAAATTA
Found at i:7169034 original size:42 final size:42
Alignment explanation
Indices: 7168984--7169078 Score: 127
Period size: 42 Copynumber: 2.3 Consensus size: 42
7168974 AATATTCATA
* ** *
7168984 TAATTCATTTTTTGAAAAATGTTTTTTCGTGTTTGTTTCACG
1 TAATTCATTTTTCGAAAAATGTTTTCCCGTGTTTATTTCACG
* *
7169026 TAATTCATTTTTCGGAAAATGTTTTCCCGTGTTTATTTTACG
1 TAATTCATTTTTCGAAAAATGTTTTCCCGTGTTTATTTCACG
*
7169068 TAATTGATTTT
1 TAATTCATTTT
7169079 CCGGAATGTA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.22, C:0.11, G:0.14, T:0.54
Consensus pattern (42 bp):
TAATTCATTTTTCGAAAAATGTTTTCCCGTGTTTATTTCACG
Found at i:7169313 original size:32 final size:31
Alignment explanation
Indices: 7169267--7169326 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 31
7169257 AAATATTATT
*
7169267 TATTTATTTATTAATATTTTATAATAATATAA
1 TATTTATTTATTAATATTATATAA-AATATAA
7169299 TATTATATTT-TTAATATTATATAAAATA
1 TATT-TATTTATTAATATTATATAAAATA
7169327 ATCAATTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 4 0.15
32 17 0.65
33 5 0.19
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (31 bp):
TATTTATTTATTAATATTATATAAAATATAA
Found at i:7169382 original size:54 final size:52
Alignment explanation
Indices: 7169285--7169387 Score: 138
Period size: 54 Copynumber: 1.9 Consensus size: 52
7169275 TATTAATATT
*
7169285 TTATAATAATATAATATTATATTTTTAATATTATATAAAATAATCAATTATA
1 TTATAATAATATAATATTATATTTTTAATATTATATAAAATAATAAATTATA
*
7169337 TTATAATAATATAAGATATTATATTTTT-ATTTTA-ATAATATATAATAAATT
1 TTATAATAATAT-A-ATATTATATTTTTAATATTATATAA-A-ATAATAAATT
7169388 TTTTATATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
52 16 0.36
53 7 0.16
54 22 0.49
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.50
Consensus pattern (52 bp):
TTATAATAATATAATATTATATTTTTAATATTATATAAAATAATAAATTATA
Found at i:7169429 original size:28 final size:29
Alignment explanation
Indices: 7169266--7169436 Score: 111
Period size: 29 Copynumber: 5.8 Consensus size: 29
7169256 AAAATATTAT
* * *
7169266 TTATTTATTTA-TTAATATTTTATAATAA
1 TTATTTATATATTTAATAATATATAATAA
* *
7169294 TATAATATTATATTTTTAATATTATATAAAATAA
1 T-T-AT-TTATATATTTAATA--ATATATAATAA
* * * *
7169328 TCAATTATAT-TATAATAATATA-AGATAT
1 TTATTTATATATTTAATAATATATA-ATAA
*
7169356 TATATTTTTAT-TTTAATAATATATAATAAA
1 T-TATTTATATATTTAATAATATATAAT-AA
*
7169386 TTTTTTATATATTTAATAATGA-ATAAT-A
1 TTATTTATATATTTAATAAT-ATATAATAA
7169414 TTATTTATATATTTAAATAATAT
1 TTATTTATATATTT-AATAATAT
7169437 TTTAATAAAG
Statistics
Matches: 112, Mismatches: 17, Indels: 27
0.72 0.11 0.17
Matches are distributed among these distances:
27 1 0.01
28 25 0.22
29 33 0.29
30 25 0.22
31 12 0.11
32 7 0.06
34 9 0.08
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.53
Consensus pattern (29 bp):
TTATTTATATATTTAATAATATATAATAA
Found at i:7169465 original size:23 final size:23
Alignment explanation
Indices: 7169439--7169483 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
7169429 AATAATATTT
7169439 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
7169462 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
7169484 ATATAACACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:7176121 original size:24 final size:24
Alignment explanation
Indices: 7176076--7176120 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
7176066 CTATTCTTTC
* *
7176076 GCTTCAATTGAGCTCAAATTTTAG
1 GCTTCAATCGAACTCAAATTTTAG
7176100 GCTTCAATCGAACT-AAATTTT
1 GCTTCAATCGAACTCAAATTTT
7176121 TTTTGAGTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (24 bp):
GCTTCAATCGAACTCAAATTTTAG
Found at i:7177812 original size:24 final size:23
Alignment explanation
Indices: 7177785--7177857 Score: 85
Period size: 24 Copynumber: 3.0 Consensus size: 23
7177775 CATTTGAATG
7177785 ATAAACAAATACAAATG-AACGAAC
1 ATAAAC-AA-ACAAATGTAACGAAC
* *
7177809 ATAAACGAACGAATGTATACGAAC
1 ATAAACAAACAAATGTA-ACGAAC
7177833 ATAAACAAACAAATGTAATCGAAC
1 ATAAACAAACAAATGTAA-CGAAC
7177857 A
1 A
7177858 CAATAAATGA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
22 6 0.14
23 3 0.07
24 33 0.79
ACGTcount: A:0.58, C:0.16, G:0.11, T:0.15
Consensus pattern (23 bp):
ATAAACAAACAAATGTAACGAAC
Found at i:7178068 original size:14 final size:14
Alignment explanation
Indices: 7178051--7178107 Score: 69
Period size: 14 Copynumber: 4.1 Consensus size: 14
7178041 ATGAACGCAC
*
7178051 ATAAACGAACATAA
1 ATAAACAAACATAA
*
7178065 ATAAATAAACATAA
1 ATAAACAAACATAA
*
7178079 ATGAACAAACATAA
1 ATAAACAAACATAA
* *
7178093 ATAAGCGAACATAA
1 ATAAACAAACATAA
7178107 A
1 A
7178108 CGAACATATT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 36 1.00
ACGTcount: A:0.65, C:0.12, G:0.07, T:0.16
Consensus pattern (14 bp):
ATAAACAAACATAA
Found at i:7178070 original size:28 final size:27
Alignment explanation
Indices: 7178034--7178115 Score: 91
Period size: 24 Copynumber: 3.0 Consensus size: 27
7178024 GATTTGGCTA
7178034 AACATAAATGAACGCACATAAACGAACAT
1 AACATAAAT-AACG-ACATAAACGAACAT
*
7178063 AA-ATAAATAA--ACATAAATGAACA-
1 AACATAAATAACGACATAAACGAACAT
7178086 AACATAAATAAGCGAACATAAACGAACAT
1 AACATAAATAA-CG-ACATAAACGAACAT
7178115 A
1 A
7178116 TTACCGAACG
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
23 2 0.04
24 20 0.44
27 2 0.04
28 18 0.40
29 3 0.07
ACGTcount: A:0.61, C:0.16, G:0.09, T:0.15
Consensus pattern (27 bp):
AACATAAATAACGACATAAACGAACAT
Found at i:7178076 original size:24 final size:27
Alignment explanation
Indices: 7178034--7178115 Score: 82
Period size: 28 Copynumber: 3.0 Consensus size: 27
7178024 GATTTGGCTA
*
7178034 AACATAAATGAACGCACATAAACGAACAT
1 AACATAAAT-AA-GAACATAAACGAACAT
*
7178063 AA-ATAAAT-A-AACATAAATGAACA-
1 AACATAAATAAGAACATAAACGAACAT
7178086 AACATAAATAAGCGAACATAAACGAACAT
1 AACATAAATAA--GAACATAAACGAACAT
7178115 A
1 A
7178116 TTACCGAACG
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
23 2 0.05
24 18 0.41
25 1 0.02
26 1 0.02
28 19 0.43
29 3 0.07
ACGTcount: A:0.61, C:0.16, G:0.09, T:0.15
Consensus pattern (27 bp):
AACATAAATAAGAACATAAACGAACAT
Found at i:7178360 original size:4 final size:4
Alignment explanation
Indices: 7178351--7178379 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
7178341 GCATTCACAG
7178351 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
7178380 TATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:7178384 original size:2 final size:2
Alignment explanation
Indices: 7178377--7178467 Score: 182
Period size: 2 Copynumber: 45.5 Consensus size: 2
7178367 AAATAAATAA
7178377 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
7178419 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
7178461 AT AT AT A
1 AT AT AT A
7178468 AAGCCAGTTG
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 89 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7190126 original size:42 final size:42
Alignment explanation
Indices: 7190035--7190284 Score: 188
Period size: 42 Copynumber: 6.0 Consensus size: 42
7190025 ATTAAATTAT
* ** * *
7190035 GGGCTTCAATTATAAAAGTAAAGAGTTG-GACT-AAAAATTA-
1 GGGCTTCAATTATAAAGGTAAA-AAATGAGATTAAAAAAATAG
*
7190075 GGGCATCAATTATAAAGGTAAAAAATGAGATTAAAAAAATAG
1 GGGCTTCAATTATAAAGGTAAAAAATGAGATTAAAAAAATAG
7190117 GGGCTTCAATTATAAAGGTAAAAAATGAGATTGAAAAAAATTAG
1 GGGCTTCAATTATAAAGGTAAAAAATGAGATT-AAAAAAA-TAG
* * * * * * * *
7190161 AGGCCTCAATTATAAAGGTAAAAAGTGACAATGAAAATATTAT
1 GGGCTTCAATTATAAAGGTAAAAAATGA-GATTAAAAAAATAG
* * * * * *
7190204 AGTCCTCAATTATAAAGGT-AAAAA-GTGTTTGAAAAAATTAG
1 GGGCTTCAATTATAAAGGTAAAAAATGAGATT-AAAAAAATAG
* * **
7190245 GGACCTT-AGTTATAAATATAAAAAATGAGATTAAAAAAAT
1 GG-GCTTCAATTATAAAGGTAAAAAATGAGATTAAAAAAAT
7190285 TTAAGGCTTT
Statistics
Matches: 168, Mismatches: 32, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
39 3 0.02
40 24 0.14
41 26 0.15
42 49 0.29
43 31 0.18
44 33 0.20
45 2 0.01
ACGTcount: A:0.50, C:0.06, G:0.18, T:0.26
Consensus pattern (42 bp):
GGGCTTCAATTATAAAGGTAAAAAATGAGATTAAAAAAATAG
Found at i:7190155 original size:43 final size:43
Alignment explanation
Indices: 7190067--7190284 Score: 212
Period size: 42 Copynumber: 5.2 Consensus size: 43
7190057 GAGTTGGACT
* *
7190067 AAAAATTA-GGGCATCAATTATAAAGGTAAAAAATGAGATT-A
1 AAAAAATAGGGGCCTCAATTATAAAGGTAAAAAATGAGATTGA
*
7190108 AAAAAATAGGGGCTTCAATTATAAAGGTAAAAAATGAGATTGA
1 AAAAAATAGGGGCCTCAATTATAAAGGTAAAAAATGAGATTGA
* * * *
7190151 AAAAAATTAGAGGCCTCAATTATAAAGGTAAAAAGTGACAATGA
1 AAAAAA-TAGGGGCCTCAATTATAAAGGTAAAAAATGAGATTGA
* * ** * * *
7190195 AAATATTATAGTCCTCAATTATAAAGGT-AAAAA-GTGTTTGA
1 AAAAAATAGGGGCCTCAATTATAAAGGTAAAAAATGAGATTGA
* * * * **
7190236 AAAAATTAGGGACCTTAGTTATAAATATAAAAAATGAGATT-A
1 AAAAAATAGGGGCCTCAATTATAAAGGTAAAAAATGAGATTGA
7190278 AAAAAAT
1 AAAAAAT
7190285 TTAAGGCTTT
Statistics
Matches: 145, Mismatches: 27, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
41 31 0.21
42 47 0.32
43 31 0.21
44 36 0.25
ACGTcount: A:0.52, C:0.06, G:0.17, T:0.26
Consensus pattern (43 bp):
AAAAAATAGGGGCCTCAATTATAAAGGTAAAAAATGAGATTGA
Found at i:7190304 original size:43 final size:43
Alignment explanation
Indices: 7190067--7190303 Score: 234
Period size: 43 Copynumber: 5.6 Consensus size: 43
7190057 GAGTTGGACT
*
7190067 AAAAATTAG-GGCATCAATTATAAAGGTAAAAAATGAGATTAA
1 AAAAATTAGAGGCCTCAATTATAAAGGTAAAAAATGAGATTAA
* *
7190109 AAAAA-TAGGGGCTTCAATTATAAAGGTAAAAAATGAGATTGAA
1 AAAAATTAGAGGCCTCAATTATAAAGGTAAAAAATGAGATT-AA
* * * *
7190152 AAAAATTAGAGGCCTCAATTATAAAGGTAAAAAGTGACAATGA
1 AAAAATTAGAGGCCTCAATTATAAAGGTAAAAAATGAGATTAA
* * * * * *
7190195 AAATATTATAGTCCTCAATTATAAAGGT-AAAAA-GTGTTTGA
1 AAAAATTAGAGGCCTCAATTATAAAGGTAAAAAATGAGATTAA
* * **
7190236 AAAAATTAG-GGACCTTAGTTATAAATATAAAAAATGAGATTAA
1 AAAAATTAGAGG-CCTCAATTATAAAGGTAAAAAATGAGATTAA
* *
7190279 AAAAATTTA-AGGCTTTAATTATAAA
1 AAAAA-TTAGAGGCCTCAATTATAAA
7190304 TCAAGGGCTC
Statistics
Matches: 160, Mismatches: 27, Indels: 15
0.79 0.13 0.07
Matches are distributed among these distances:
40 1 0.01
41 26 0.16
42 44 0.28
43 54 0.34
44 35 0.22
ACGTcount: A:0.51, C:0.06, G:0.16, T:0.27
Consensus pattern (43 bp):
AAAAATTAGAGGCCTCAATTATAAAGGTAAAAAATGAGATTAA
Found at i:7192115 original size:22 final size:23
Alignment explanation
Indices: 7192090--7192135 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
7192080 TATAGATGAT
7192090 TTATTATCTTTTAGGA-TTAAAG
1 TTATTATCTTTTAGGAGTTAAAG
*
7192112 TTATTATTTTTTAGGAGTTAAAG
1 TTATTATCTTTTAGGAGTTAAAG
7192135 T
1 T
7192136 CGAGTTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.30, C:0.02, G:0.15, T:0.52
Consensus pattern (23 bp):
TTATTATCTTTTAGGAGTTAAAG
Found at i:7195667 original size:9 final size:9
Alignment explanation
Indices: 7195645--7195687 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
7195635 TGCAAATTTA
7195645 AAAAAATCAG
1 AAAAAAT-AG
*
7195655 AAAAAATAT
1 AAAAAATAG
7195664 AAAAAATAG
1 AAAAAATAG
* *
7195673 AAAAATTAC
1 AAAAAATAG
7195682 AAAAAA
1 AAAAAA
7195688 ATTTAGTATG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
9 21 0.75
10 7 0.25
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.14
Consensus pattern (9 bp):
AAAAAATAG
Found at i:7195674 original size:18 final size:19
Alignment explanation
Indices: 7195645--7195687 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
7195635 TGCAAATTTA
*
7195645 AAAAAATCAGAAAAAATAT
1 AAAAAATCAGAAAAAATAC
*
7195664 AAAAAAT-AGAAAAATTAC
1 AAAAAATCAGAAAAAATAC
7195682 AAAAAA
1 AAAAAA
7195688 ATTTAGTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.14
Consensus pattern (19 bp):
AAAAAATCAGAAAAAATAC
Found at i:7195946 original size:12 final size:12
Alignment explanation
Indices: 7195929--7195954 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7195919 ACATTGTACT
7195929 TATATATACATA
1 TATATATACATA
7195941 TATATATACATA
1 TATATATACATA
7195953 TA
1 TA
7195955 CGTATTTTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATACATA
Found at i:7201923 original size:18 final size:18
Alignment explanation
Indices: 7201900--7201935 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
7201890 TGGAGGATTT
7201900 AGTCAAGTGAGAGTCTTC
1 AGTCAAGTGAGAGTCTTC
7201918 AGTCAAGTGAGAGTCTTC
1 AGTCAAGTGAGAGTCTTC
7201936 CATGAAAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (18 bp):
AGTCAAGTGAGAGTCTTC
Found at i:7204257 original size:36 final size:36
Alignment explanation
Indices: 7204215--7204346 Score: 120
Period size: 36 Copynumber: 3.7 Consensus size: 36
7204205 ATCATTAACC
* * *
7204215 AACACATGTATATTATGCTTATAATAATTAGTAGCG
1 AACACATGTATATCATGCTTATAATCATTAGTAGCA
* * * * *
7204251 AGCACATGTGTATCATGCATATGATCATCAGTAGCA
1 AACACATGTATATCATGCTTATAATCATTAGTAGCA
* * * *
7204287 AATACATATATATCATGCTTATAATCATTAGTAACC
1 AACACATGTATATCATGCTTATAATCATTAGTAGCA
** * *
7204323 AACGTATCTATATCATGCATATAA
1 AACACATGTATATCATGCTTATAA
7204347 ATATCAATAT
Statistics
Matches: 74, Mismatches: 22, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
36 74 1.00
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (36 bp):
AACACATGTATATCATGCTTATAATCATTAGTAGCA
Found at i:7205182 original size:18 final size:19
Alignment explanation
Indices: 7205148--7205201 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
7205138 CATAAAACAT
*
7205148 ATTTCCAACTTTAAAAT-AG
1 ATTTCCAAC-CTAAAATCAG
*
7205167 ATTTCCAACCTAAAATCTG
1 ATTTCCAACCTAAAATCAG
* *
7205186 ACTTCCAATCTAAAAT
1 ATTTCCAACCTAAAAT
7205202 TTGGGTTGCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 6 0.20
19 24 0.80
ACGTcount: A:0.41, C:0.22, G:0.04, T:0.33
Consensus pattern (19 bp):
ATTTCCAACCTAAAATCAG
Found at i:7205730 original size:24 final size:25
Alignment explanation
Indices: 7205703--7205760 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
7205693 ATCAAGAAAA
* *
7205703 AAACCTCAAC-ATGCTTAATTACTC
1 AAACCCCAACAATACTTAATTACTC
7205727 AAACCCCAACAAATACTTAATTACTC
1 AAACCCCAAC-AATACTTAATTACTC
7205753 AAACCCCA
1 AAACCCCA
7205761 GCAAATCGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 9 0.30
26 21 0.70
ACGTcount: A:0.43, C:0.33, G:0.02, T:0.22
Consensus pattern (25 bp):
AAACCCCAACAATACTTAATTACTC
Found at i:7205751 original size:26 final size:26
Alignment explanation
Indices: 7205716--7205766 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
7205706 CCTCAACATG
7205716 CTTAATTACTCAAACCCCAACAAATA
1 CTTAATTACTCAAACCCCAACAAATA
*
7205742 CTTAATTACTCAAACCCCAGCAAAT
1 CTTAATTACTCAAACCCCAACAAAT
7205767 CGTCATGCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.43, C:0.31, G:0.02, T:0.24
Consensus pattern (26 bp):
CTTAATTACTCAAACCCCAACAAATA
Found at i:7208196 original size:43 final size:43
Alignment explanation
Indices: 7208117--7208379 Score: 170
Period size: 43 Copynumber: 6.1 Consensus size: 43
7208107 AATGCCGCAA
** * * ** * *
7208117 TAGGTGTTGTTATTTAGCGGCGTTTGTCAGAAAAACGCCGTAA
1 TAGGTGTTAATATTTAGCGGCATTTTTCCTACAAACGCCGTAG
* * **
7208160 TAGGTGTTAATGTTTAGCAGCATTTTTCCTACAAACGTTGTAG
1 TAGGTGTTAATATTTAGCGGCATTTTTCCTACAAACGCCGTAG
* * * * * * *
7208203 TAGGTGTTGAGATTTAGCGGCGTTTTACTTACGAACGCCGCAG
1 TAGGTGTTAATATTTAGCGGCATTTTTCCTACAAACGCCGTAG
* * * * * * *
7208246 TAGGTGTTGATATTTTGTGGCATTTTTCCCACAAATGTCGCAG
1 TAGGTGTTAATATTTAGCGGCATTTTTCCTACAAACGCCGTAG
* * *
7208289 TAGGTGTTAATATTTTGTGGCATTTTTACC-ACAAACGACGTAG
1 TAGGTGTTAATATTTAGCGGCATTTTT-CCTACAAACGCCGTAG
* * * ** * *
7208332 TAGGTGATGATTTTTAGCGGTGTTTTTTCC-ACAAACGTCGCAG
1 TAGGTGTTAATATTTAGCGG-CATTTTTCCTACAAACGCCGTAG
7208375 TAGGT
1 TAGGT
7208380 TTTTTAGATT
Statistics
Matches: 172, Mismatches: 46, Indels: 4
0.77 0.21 0.02
Matches are distributed among these distances:
43 165 0.96
44 7 0.04
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (43 bp):
TAGGTGTTAATATTTAGCGGCATTTTTCCTACAAACGCCGTAG
Found at i:7208490 original size:44 final size:45
Alignment explanation
Indices: 7208431--7208526 Score: 142
Period size: 44 Copynumber: 2.2 Consensus size: 45
7208421 AGAGTTGAGA
* *
7208431 ATTAGCGGCGTTTCTAGTATAAAAACGCCGCTAAATGTATGGTAT
1 ATTAGCGGCATTTCTAGTATAAAAACGCCACTAAATGTATGGTAT
* *
7208476 ATTA-CGGCATTTCTAGTATACAAATGCCACTAAATGTATGGTAT
1 ATTAGCGGCATTTCTAGTATAAAAACGCCACTAAATGTATGGTAT
7208520 ATT-GCGG
1 ATTAGCGG
7208527 TGGTTTTTTG
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
44 42 0.91
45 4 0.09
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (45 bp):
ATTAGCGGCATTTCTAGTATAAAAACGCCACTAAATGTATGGTAT
Found at i:7208893 original size:21 final size:21
Alignment explanation
Indices: 7208869--7208935 Score: 89
Period size: 21 Copynumber: 3.2 Consensus size: 21
7208859 GCTGATATGT
7208869 TGCTTCTCTCTGTGCTGCCGC
1 TGCTTCTCTCTGTGCTGCCGC
*
7208890 TGCTTCTCTCTGTGCTGCCAC
1 TGCTTCTCTCTGTGCTGCCGC
* * * *
7208911 TACTTCTTTCTCTGCTTCCGC
1 TGCTTCTCTCTGTGCTGCCGC
7208932 TGCT
1 TGCT
7208936 GCTTCTACTG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.03, C:0.37, G:0.18, T:0.42
Consensus pattern (21 bp):
TGCTTCTCTCTGTGCTGCCGC
Done.