Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008530.1 Hibiscus syriacus cultivar Beakdansim tig00111408_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: 724678
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 4
Found at i:498760 original size:21 final size:21
Alignment explanation
Indices: 498720--498774 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
498710 GATTCTTGAA
498720 AATCGCAATGCGATAGTACA-
1 AATCGCAATGCGATAGTACAG
* **
498740 AATTCGCATTGCGATTTTACAG
1 AA-TCGCAATGCGATAGTACAG
*
498762 AATCGCAACGCGA
1 AATCGCAATGCGA
498775 ACACATAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 2 0.07
21 24 0.86
22 2 0.07
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.24
Consensus pattern (21 bp):
AATCGCAATGCGATAGTACAG
Found at i:498787 original size:20 final size:20
Alignment explanation
Indices: 498762--498934 Score: 242
Period size: 20 Copynumber: 8.6 Consensus size: 20
498752 GATTTTACAG
* *
498762 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
498782 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
498802 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
498822 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
498842 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
498862 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
498882 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGTATCCGT-A
498903 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
498923 AATCGCAACGCG
1 AATCGCAACGCG
498935 ATTTTTAAAG
Statistics
Matches: 137, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
20 118 0.86
21 19 0.14
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:499353 original size:33 final size:33
Alignment explanation
Indices: 499314--499384 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
499304 TTCACTTAGA
*
499314 TTTCATTTCGCGTTACGATTCTCTTGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
499347 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
499380 TTTCA
1 TTTCA
499385 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.17, T:0.49
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:499489 original size:21 final size:20
Alignment explanation
Indices: 499463--499526 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 20
499453 TGCAGAAGAG
499463 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* **
499484 TCGCAACGTGAAAATGACTA
1 TCGCAACGAGAAAATGAAAA
499504 TCTGCAACGAGAAAAATGAAAA
1 TC-GCAACGAG-AAAATGAAAA
499526 T
1 T
499527 ATTGCGATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
20 9 0.26
21 17 0.49
22 9 0.26
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.17
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:499564 original size:14 final size:14
Alignment explanation
Indices: 499545--499601 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
499535 TTTGGTTTCG
499545 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
499559 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
499578 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
499592 CGTTGCGATT
1 CGTTGCGATT
499602 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:499570 original size:33 final size:33
Alignment explanation
Indices: 499528--499650 Score: 147
Period size: 33 Copynumber: 3.5 Consensus size: 33
499518 AATGAAAATA
**
499528 TTGCGATTTTGGTTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
499561 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
499594 TTGCGATTTTCATTTCTCTCGTTGCGACAGTCATTCTCTCG
1 TTGCGATTTTCA-TT-TCGCGTT--G-C-G--ATTCTCTCG
499635 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
499651 AACCAAAAGA
Statistics
Matches: 79, Mismatches: 3, Indels: 10
0.86 0.03 0.11
Matches are distributed among these distances:
33 43 0.54
34 2 0.03
35 6 0.08
37 1 0.01
38 1 0.01
39 3 0.04
40 2 0.03
41 21 0.27
ACGTcount: A:0.10, C:0.24, G:0.20, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:499612 original size:21 final size:21
Alignment explanation
Indices: 499586--499650 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
499576 CGCGTTGCGA
499586 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
499607 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
499627 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
499648 TTC
1 TTC
499651 AACCAAAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.11, C:0.26, G:0.15, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:500463 original size:47 final size:47
Alignment explanation
Indices: 500394--500485 Score: 175
Period size: 47 Copynumber: 2.0 Consensus size: 47
500384 CCTGGACTAA
500394 CATCAGACCCTGGTGATGCTAATACAAACAGGACTACTTTGTTCTGG
1 CATCAGACCCTGGTGATGCTAATACAAACAGGACTACTTTGTTCTGG
*
500441 CATCAGACCCTGGTGATGCTAATACAAACAGTACTACTTTGTTCT
1 CATCAGACCCTGGTGATGCTAATACAAACAGGACTACTTTGTTCT
500486 CGGATGACAC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (47 bp):
CATCAGACCCTGGTGATGCTAATACAAACAGGACTACTTTGTTCTGG
Found at i:506166 original size:59 final size:58
Alignment explanation
Indices: 506033--506195 Score: 185
Period size: 59 Copynumber: 2.8 Consensus size: 58
506023 AGTATATAGT
*
506033 ATAGTTTGA-GAAAAAATTGAAATGTTTAAAA-TTTG-GGA-TCAATTTAGAATAAAGGC
1 ATAGTTTGAGGAATAAATTGAAATG-TTAAAAGTTTGAGGACT-AATTTAGAATAAAGGC
* *
506089 ATAGTTTGAGGAATAAATTGAAATGTTAAAAGTTTGAGGACTAATTTAGAATTATAGTC
1 ATAGTTTGAGGAATAAATTGAAATGTTAAAAGTTTGAGGACTAATTTAGAA-TAAAGGC
* * *
506148 ATAGTTT-AGGGATGAAATTGAAATATTAAAAGTTT-AGGTACCAATTTA
1 ATAGTTTGAGGAAT-AAATTGAAATGTTAAAAGTTTGAGG-ACTAATTTA
506196 AAATGAGAGT
Statistics
Matches: 94, Mismatches: 6, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
56 15 0.16
57 18 0.19
58 20 0.21
59 41 0.44
ACGTcount: A:0.42, C:0.04, G:0.20, T:0.34
Consensus pattern (58 bp):
ATAGTTTGAGGAATAAATTGAAATGTTAAAAGTTTGAGGACTAATTTAGAATAAAGGC
Found at i:506523 original size:24 final size:24
Alignment explanation
Indices: 506496--506543 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
506486 ATTAAATTTT
506496 TGAATTATTCAGACCAGTCAAATA
1 TGAATTATTCAGACCAGTCAAATA
*
506520 TGAATTATTCAGACCATTCAAATA
1 TGAATTATTCAGACCAGTCAAATA
506544 AAAAAGTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (24 bp):
TGAATTATTCAGACCAGTCAAATA
Found at i:511570 original size:31 final size:31
Alignment explanation
Indices: 511532--511685 Score: 238
Period size: 31 Copynumber: 4.9 Consensus size: 31
511522 CCCGAAGGAC
* *
511532 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TTCCGAAGAACATAGGTAAA
* *
511563 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
*
511594 CAGTCCCATATATTCCGAAGAACATAGGTAAA
1 CAGT-CCATATGTTCCGAAGAACATAGGTAAA
511626 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
511657 CAGTCCATATGTTCCGAAGAACATAGGTA
1 CAGTCCATATGTTCCGAAGAACATAGGTA
511686 CCCTCGACCC
Statistics
Matches: 113, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
31 84 0.74
32 29 0.26
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.22
Consensus pattern (31 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAAA
Found at i:511635 original size:63 final size:62
Alignment explanation
Indices: 511532--511685 Score: 245
Period size: 63 Copynumber: 2.5 Consensus size: 62
511522 CCCGAAGGAC
* * * *
511532 CAGTCCATAGATTCCGAAGAACCTAGGTAATCAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATATTCCGAAGAACATAGGTAAACAGTCCATATGTCCCGAAGAACATAGGTAAA
*
511594 CAGTCCCATATATTCCGAAGAACATAGGTAAACAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGT-CCATATATTCCGAAGAACATAGGTAAACAGTCCATATGTCCCGAAGAACATAGGTAAA
*
511657 CAGTCCATATGTTCCGAAGAACATAGGTA
1 CAGTCCATATATTCCGAAGAACATAGGTA
511686 CCCTCGACCC
Statistics
Matches: 85, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
62 28 0.33
63 57 0.67
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.22
Consensus pattern (62 bp):
CAGTCCATATATTCCGAAGAACATAGGTAAACAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:512528 original size:21 final size:21
Alignment explanation
Indices: 512498--512542 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
512488 ATTCTGTCGT
* *
512498 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
512519 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
512540 TTG
1 TTG
512543 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:513937 original size:20 final size:20
Alignment explanation
Indices: 513909--514097 Score: 209
Period size: 20 Copynumber: 9.4 Consensus size: 20
513899 AAATTTCAGT
* * *
513909 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
513929 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
513949 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
*
513969 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
513989 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
514009 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
514029 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
514049 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
514069 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
514089 GTTGCGATT
1 GTTGCGATT
514098 CTGTAAAATC
Statistics
Matches: 149, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
20 148 0.99
21 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:514115 original size:21 final size:20
Alignment explanation
Indices: 514091--514140 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
514081 ATATTCGCGT
514091 TGCGATTCTGTAAAATCGCAA
1 TGCGATT-TGTAAAATCGCAA
** *
514112 TGCGAATTTGTACTATCGCAT
1 TGCG-ATTTGTAAAATCGCAA
514133 TGCGATTT
1 TGCGATTT
514141 TCAAGAATCG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 4 0.16
21 18 0.72
22 3 0.12
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (20 bp):
TGCGATTTGTAAAATCGCAA
Found at i:521470 original size:2 final size:2
Alignment explanation
Indices: 521463--521488 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
521453 ATATAAAATA
521463 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
521489 GATCATTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:521998 original size:59 final size:60
Alignment explanation
Indices: 521892--522059 Score: 184
Period size: 60 Copynumber: 2.8 Consensus size: 60
521882 GTATATATGT
* * *
521892 ATAGTTTGA-GAAAAAATTGAAATGTTTAAAAATTTTGGGGA-TCAATTTAGAA-TAAAGGC
1 ATAGTTTGAGGAATAAATTGAAATG-TTAAAAAGTTTGAGGACT-AATTTAGAATTAAAGGC
* *
521951 ATAGTTTGAGGAATAAATTGAAATGTTAAAAAGTTTGAGGACTAATTTAGAATTATAGTC
1 ATAGTTTGAGGAATAAATTGAAATGTTAAAAAGTTTGAGGACTAATTTAGAATTAAAGGC
* * * *
522011 ATAGTTT-AGGGATGAAATTGAAATATTTAAAAGTTT-AGGTACCAATTTA
1 ATAGTTTGAGGAAT-AAATTGAAATGTTAAAAAGTTTGAGG-ACTAATTTA
522060 AAATGAGAGT
Statistics
Matches: 95, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
59 40 0.42
60 55 0.58
ACGTcount: A:0.42, C:0.04, G:0.20, T:0.35
Consensus pattern (60 bp):
ATAGTTTGAGGAATAAATTGAAATGTTAAAAAGTTTGAGGACTAATTTAGAATTAAAGGC
Found at i:522388 original size:24 final size:24
Alignment explanation
Indices: 522361--522408 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
522351 TTAAATTTTT
522361 TGAATTATTCAGACCAGTCAAATA
1 TGAATTATTCAGACCAGTCAAATA
*
522385 TGAATTATTCAGACCATTCAAATA
1 TGAATTATTCAGACCAGTCAAATA
522409 AAAAGTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (24 bp):
TGAATTATTCAGACCAGTCAAATA
Found at i:525764 original size:2 final size:2
Alignment explanation
Indices: 525712--525756 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
525702 CATAGTTGCT
* *
525712 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA AA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
525754 TA T
1 TA T
525757 CCATATATCA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:528405 original size:58 final size:57
Alignment explanation
Indices: 528275--528389 Score: 137
Period size: 58 Copynumber: 2.0 Consensus size: 57
528265 TGACTGAGAT
*
528275 ATGA-CCCCGACTATATGATACTACTTTGTTGAGTCATCCGACTGTTAAAGTTACAAA
1 ATGATCCCCGACTATATGATA-TACTTTGTTGAGTCATCCGACTATTAAAGTTACAAA
* *
528332 ATGATCCCCATACTATATGAGT-TGCTTTGTTGAGTCTAT-CGACTATTAAAAGTTACAA
1 ATGATCCCC-GACTATATGA-TATACTTTGTTGAGTC-ATCCGACTATT-AAAGTTACAA
528390 TATATCATCC
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
57 4 0.08
58 24 0.48
59 21 0.42
60 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (57 bp):
ATGATCCCCGACTATATGATATACTTTGTTGAGTCATCCGACTATTAAAGTTACAAA
Found at i:528833 original size:57 final size:59
Alignment explanation
Indices: 528772--528898 Score: 197
Period size: 59 Copynumber: 2.2 Consensus size: 59
528762 CGGATGACCA
* *
528772 TTGTAACTTTAATA-CCGGATGACTCGAC-AAGTAGTATCATATAGTCGATGGATCATT
1 TTGTAACTTTAATAGCCGGATGACTCGACAAAATAGTATCATATAGTCGAGGGATCATT
*
528829 TTGTAACTTTAATAGCCGGATGACTCGACAAAATAGTATCATATAGTCGGGGGATCATT
1 TTGTAACTTTAATAGCCGGATGACTCGACAAAATAGTATCATATAGTCGAGGGATCATT
528888 TGTGTAA-TTTA
1 T-TGTAACTTTA
528899 CCCTAATTTT
Statistics
Matches: 64, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
57 14 0.22
58 14 0.22
59 31 0.48
60 5 0.08
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.34
Consensus pattern (59 bp):
TTGTAACTTTAATAGCCGGATGACTCGACAAAATAGTATCATATAGTCGAGGGATCATT
Found at i:535203 original size:19 final size:19
Alignment explanation
Indices: 535178--535233 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
535168 GTGGGAATGT
535178 AAGATTACCAGTAGAATATA
1 AAGATTACCAGTAGAATA-A
*
535198 AA-ATTACCAGTGGGAATAA
1 AAGATTACCAGT-AGAATAA
535217 AAGATTACCAG-AGAATA
1 AAGATTACCAGTAGAATA
535234 GGATTAATGG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 5 0.16
19 12 0.38
20 15 0.47
ACGTcount: A:0.50, C:0.11, G:0.18, T:0.21
Consensus pattern (19 bp):
AAGATTACCAGTAGAATAA
Found at i:535223 original size:20 final size:20
Alignment explanation
Indices: 535167--535227 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
535157 TGACACTTAG
**
535167 AGTGGGAATGTAAGATTACC
1 AGTGGGAATAAAAGATTACC
*
535187 AGT-AGAATATAAA-ATTACC
1 AGTGGGAATA-AAAGATTACC
535206 AGTGGGAATAAAAGATTACC
1 AGTGGGAATAAAAGATTACC
535226 AG
1 AG
535228 AGAATAGGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
19 16 0.47
20 18 0.53
ACGTcount: A:0.44, C:0.10, G:0.23, T:0.23
Consensus pattern (20 bp):
AGTGGGAATAAAAGATTACC
Found at i:535455 original size:37 final size:37
Alignment explanation
Indices: 535386--535457 Score: 92
Period size: 38 Copynumber: 1.9 Consensus size: 37
535376 GAAAAATATC
* *
535386 TATATATTTTCTTTAAAAAATTTAAATTTATAAAATT
1 TATATATTTTCTTTAAAAAATTGAAATATATAAAATT
* *
535423 TATATAATTTTTTTTACAAAATTGAAA-ATATAAAA
1 TATAT-ATTTTCTTTAAAAAATTGAAATATATAAAA
535458 AGGTTTAATG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 12 0.40
38 18 0.60
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (37 bp):
TATATATTTTCTTTAAAAAATTGAAATATATAAAATT
Found at i:535527 original size:30 final size:31
Alignment explanation
Indices: 535474--535544 Score: 126
Period size: 30 Copynumber: 2.3 Consensus size: 31
535464 AATGAAAGAG
*
535474 TAAAATTTTATTTTAACCCCTGAACTTTATA
1 TAAAATTTTATTTTAACCCCTGAACTTCATA
535505 TAAAATTTTATTTTAA-CCCTGAACTTCATA
1 TAAAATTTTATTTTAACCCCTGAACTTCATA
535535 TAAAATTTTA
1 TAAAATTTTA
535545 ATTATAGATT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
30 23 0.59
31 16 0.41
ACGTcount: A:0.38, C:0.14, G:0.03, T:0.45
Consensus pattern (31 bp):
TAAAATTTTATTTTAACCCCTGAACTTCATA
Found at i:536795 original size:19 final size:19
Alignment explanation
Indices: 536764--536810 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
536754 AATTTCTTAT
536764 AACTATAGA-AAATATTTAA
1 AACTATA-ATAAATATTTAA
* *
536783 AATTATAATAAATATTTAT
1 AACTATAATAAATATTTAA
536802 AACTATAAT
1 AACTATAAT
536811 TGTAAATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 1 0.04
19 23 0.96
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.38
Consensus pattern (19 bp):
AACTATAATAAATATTTAA
Found at i:539959 original size:21 final size:21
Alignment explanation
Indices: 539919--539960 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
539909 AGAGATGGAT
* *
539919 ATTGCTATGATTCGGGCTAAC
1 ATTGCTATGATTCAGACTAAC
*
539940 ATTGCTATGATTCATACTAAC
1 ATTGCTATGATTCAGACTAAC
539961 CTAAAGTCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.36
Consensus pattern (21 bp):
ATTGCTATGATTCAGACTAAC
Found at i:548285 original size:34 final size:33
Alignment explanation
Indices: 548229--548353 Score: 105
Period size: 36 Copynumber: 3.6 Consensus size: 33
548219 ATTAAATATT
548229 AAAATAAAAATATTTTAAGAATAATATTTTTTAAAA
1 AAAATAAAAA-A-TTTAAGAATAATA-TTTTTAAAA
548265 AAAATAAAAAATTTAAG---AATATTTTT-AAA
1 AAAATAAAAAATTTAAGAATAATATTTTTAAAA
** *
548294 AAAATAAAGAAAAATAATGTAAAAATAATTTTTAAAA
1 AAAATAAA-AAATTTAA-G-AATAAT-ATTTTTAAAA
*
548331 AACAATAAAAGATTTAAAGAATA
1 AA-AATAAAAAATTT-AAGAATA
548354 TCTTAAAAAA
Statistics
Matches: 73, Mismatches: 6, Indels: 20
0.74 0.06 0.20
Matches are distributed among these distances:
29 11 0.15
30 11 0.15
31 5 0.07
34 6 0.08
35 4 0.05
36 19 0.26
37 9 0.12
38 8 0.11
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (33 bp):
AAAATAAAAAATTTAAGAATAATATTTTTAAAA
Found at i:556449 original size:28 final size:28
Alignment explanation
Indices: 556409--556462 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
556399 TCAAATCGGT
556409 AACAAGATTTTGTGTTGGACAATGCAGG
1 AACAAGATTTTGTGTTGGACAATGCAGG
556437 AACAAGATTTTGTGTTGGACAATGCA
1 AACAAGATTTTGTGTTGGACAATGCA
556463 TATTACTCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (28 bp):
AACAAGATTTTGTGTTGGACAATGCAGG
Found at i:560499 original size:6 final size:6
Alignment explanation
Indices: 560488--560524 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
560478 GACACGTATT
* *
560488 ACCACG ACCACG ACCACG ACCACA ACCACA ACCACG A
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG A
560525 GCCGAGCCGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.41, C:0.49, G:0.11, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:560946 original size:2 final size:2
Alignment explanation
Indices: 560909--560933 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
560899 GATGTGTAAG
560909 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
560934 CAAAAGTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:567822 original size:22 final size:22
Alignment explanation
Indices: 567789--567839 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
567779 TCAGCTGTTA
*
567789 TAACTCCCGAAATTATATCATG
1 TAACTCCCGAAATTAAATCATG
**
567811 TAAC-CCCTGAAATTAAATCAAA
1 TAACTCCC-GAAATTAAATCATG
567833 TAACTCC
1 TAACTCC
567840 TCTAACTCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 3 0.12
22 19 0.79
23 2 0.08
ACGTcount: A:0.41, C:0.25, G:0.06, T:0.27
Consensus pattern (22 bp):
TAACTCCCGAAATTAAATCATG
Found at i:568593 original size:2 final size:2
Alignment explanation
Indices: 568552--568580 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
568542 GATGTGTAAG
568552 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
568581 CAAAAGTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:569645 original size:22 final size:22
Alignment explanation
Indices: 569615--569656 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
569605 GCAGCTATTA
* *
569615 TAACTCCTGAAATTATATCATG
1 TAACCCCTGAAATTAAATCATG
*
569637 TAACCCCTGGAATTAAATCA
1 TAACCCCTGAAATTAAATCA
569657 AATAACTCCC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (22 bp):
TAACCCCTGAAATTAAATCATG
Found at i:569662 original size:22 final size:22
Alignment explanation
Indices: 569614--569662 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
569604 TGCAGCTATT
* * *
569614 ATAACTCCTGAAATTATATCAT
1 ATAACCCCTGAAATTAAATCAA
* *
569636 GTAACCCCTGGAATTAAATCAA
1 ATAACCCCTGAAATTAAATCAA
569658 ATAAC
1 ATAAC
569663 TCCCGTAACT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (22 bp):
ATAACCCCTGAAATTAAATCAA
Found at i:575110 original size:20 final size:20
Alignment explanation
Indices: 575085--575125 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
575075 TAAGAATATT
575085 TCCTGTTTCTTTTAGTTTCC
1 TCCTGTTTCTTTTAGTTTCC
575105 TCCTGTTTCTTTTAGTTTCC
1 TCCTGTTTCTTTTAGTTTCC
575125 T
1 T
575126 TTTAGTATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.05, C:0.24, G:0.10, T:0.61
Consensus pattern (20 bp):
TCCTGTTTCTTTTAGTTTCC
Found at i:582723 original size:23 final size:22
Alignment explanation
Indices: 582676--582723 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
582666 TTATTGTTTT
* *
582676 TTATTTTTTATTTTTCGATTGA
1 TTATTATTTATTTTTCGATTAA
*
582698 TTATTATTTATTTATTGGATTAA
1 TTATTATTTATTT-TTCGATTAA
582721 TTA
1 TTA
582724 GCTCAAAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.25, C:0.02, G:0.08, T:0.65
Consensus pattern (22 bp):
TTATTATTTATTTTTCGATTAA
Found at i:583035 original size:18 final size:19
Alignment explanation
Indices: 582999--583035 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
582989 ACTTAGAACT
*
582999 TTTCATATTTTTACTTTTC
1 TTTCATAATTTTACTTTTC
583018 TTTCATAATTTT-CTTTTC
1 TTTCATAATTTTACTTTTC
583036 ACAATGCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTCATAATTTTACTTTTC
Found at i:584270 original size:61 final size:61
Alignment explanation
Indices: 584223--584339 Score: 146
Period size: 61 Copynumber: 1.9 Consensus size: 61
584213 GCGAATTGGG
* * * *
584223 AAAATCGCAATGCA-ATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACG-AGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * * *
584284 AAAATCGTAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
584340 TTACATAGCG
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
60 1 0.02
61 46 0.98
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:584276 original size:20 final size:20
Alignment explanation
Indices: 584226--584339 Score: 95
Period size: 20 Copynumber: 5.7 Consensus size: 20
584216 AATTGGGAAA
*
584226 ATCGCAATGCAATACTGACT
1 ATCGCAATGCGATACTGACT
*
584246 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
584266 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* * *
584287 ATCGTAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
584307 TTCGCAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
* *
584327 TTCGCAACGCGAT
1 ATCGCAATGCGAT
584340 TTACATAGCG
Statistics
Matches: 78, Mismatches: 13, Indels: 6
0.80 0.13 0.06
Matches are distributed among these distances:
19 2 0.03
20 62 0.79
21 12 0.15
22 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:584902 original size:19 final size:19
Alignment explanation
Indices: 584857--584904 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
584847 TTCGAGAATG
*
584857 AAAATCGCAACGCGGAAAT
1 AAAATCGCAACGCGGAAAC
*
584876 AACTATCGCAACGC-GAAACC
1 AA-AATCGCAACGCGGAAA-C
584896 AAAATCGCA
1 AAAATCGCA
584905 TTGCGATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.46, C:0.27, G:0.17, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGGAAAC
Found at i:584922 original size:19 final size:19
Alignment explanation
Indices: 584900--585026 Score: 218
Period size: 19 Copynumber: 6.7 Consensus size: 19
584890 GAAACCAAAA
* *
584900 TCGCATTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
584919 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
584938 TCGCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
584957 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
584976 TCGCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
584995 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
585014 TCGCGTTGCGATT
1 TCGCGTTGCGATT
585027 CTCTCGTCGC
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 102 1.00
ACGTcount: A:0.11, C:0.22, G:0.21, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:587264 original size:42 final size:42
Alignment explanation
Indices: 587188--587390 Score: 194
Period size: 42 Copynumber: 4.8 Consensus size: 42
587178 GACTCGCTTG
* * * * * * *
587188 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
587230 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * * * * * * *
587272 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAAAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
587314 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
587356 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
587391 CCCGATTCAT
Statistics
Matches: 130, Mismatches: 29, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
41 4 0.03
42 124 0.95
43 2 0.02
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:587348 original size:21 final size:21
Alignment explanation
Indices: 587324--587390 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
587314 TCATTCCTCG
587324 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
587345 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
587366 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
587387 AGAG
1 AGAG
587391 CCCGATTCAT
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:587369 original size:84 final size:84
Alignment explanation
Indices: 587186--587360 Score: 341
Period size: 84 Copynumber: 2.1 Consensus size: 84
587176 CCGACTCGCT
*
587186 TGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCTC
1 TGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAAAGGCCCCTATCATTCCTCGAGAGTCCCCTC
587251 CCACCGTTCAAGAGGCCAC
66 CCACCGTTCAAGAGGCCAC
587270 TGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAAAGGCCCCTATCATTCCTCGAGAGTCCCCTC
1 TGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAAAGGCCCCTATCATTCCTCGAGAGTCCCCTC
587335 CCACCGTTCAAGAGGCCAC
66 CCACCGTTCAAGAGGCCAC
587354 TGTCATC
1 TGTCATC
587361 GTTGAAGAGG
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 90 1.00
ACGTcount: A:0.22, C:0.38, G:0.17, T:0.23
Consensus pattern (84 bp):
TGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAAAGGCCCCTATCATTCCTCGAGAGTCCCCTC
CCACCGTTCAAGAGGCCAC
Found at i:588767 original size:14 final size:14
Alignment explanation
Indices: 588748--588783 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
588738 ATTGTTTAAT
588748 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
588762 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
588776 TGATTTGT
1 TGATTTGT
588784 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:588914 original size:19 final size:18
Alignment explanation
Indices: 588890--588944 Score: 55
Period size: 19 Copynumber: 3.2 Consensus size: 18
588880 AAAAAGTACT
588890 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
588909 ATCGCAA-CG--A-GAGA
1 ATCGCAAGCGAAATGAAA
588923 ATCGCAACGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
588942 ATC
1 ATC
588945 TCAACGAGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
14 10 0.34
15 1 0.03
16 2 0.07
17 2 0.07
18 1 0.03
19 13 0.45
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.13
Consensus pattern (18 bp):
ATCGCAAGCGAAATGAAA
Found at i:588927 original size:14 final size:14
Alignment explanation
Indices: 588908--588964 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
588898 GCGAAATGAA
588908 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
588922 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
588941 AATCTCAACGAGAG
1 AATCGCAACGAGAG
588955 AATCGCAACG
1 AATCGCAACG
588965 CGAAATTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 9 0.26
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:588935 original size:33 final size:33
Alignment explanation
Indices: 588890--588979 Score: 144
Period size: 33 Copynumber: 2.7 Consensus size: 33
588880 AAAAAGTACT
*
588890 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
*
588923 ATCGCAACGCGAAATGAAAATCTCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
* *
588956 ATCGCAACGCGAAATTAAATTCGC
1 ATCGCAACGCGAAATGAAAATCGC
588980 GTTGCGATTT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.43, C:0.21, G:0.21, T:0.14
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:589003 original size:19 final size:19
Alignment explanation
Indices: 588975--589088 Score: 113
Period size: 19 Copynumber: 6.5 Consensus size: 19
588965 CGAAATTAAA
*
588975 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
* *
588994 TTTGCATTGCGA--TTC-C
1 TTCGCATTGCGATTTTCAT
*
589010 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
589027 TTCGCATTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
589046 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
*
589062 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
589079 TTCGCATTGC
1 TTCGCATTGC
589089 AATAGTAATT
Statistics
Matches: 76, Mismatches: 9, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
14 12 0.16
16 12 0.16
17 13 0.17
19 39 0.51
ACGTcount: A:0.12, C:0.24, G:0.18, T:0.46
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:589053 original size:52 final size:52
Alignment explanation
Indices: 588975--589088 Score: 201
Period size: 52 Copynumber: 2.2 Consensus size: 52
588965 CGAAATTAAA
* *
588975 TTCGCGTTGCGATTTTCATTTTGCATTGCGATTCCCTCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCAT
*
589027 TTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCAT
589079 TTCGCATTGC
1 TTCGCATTGC
589089 AATAGTAATT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 59 1.00
ACGTcount: A:0.12, C:0.24, G:0.18, T:0.46
Consensus pattern (52 bp):
TTCGCATTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCAT
Found at i:589100 original size:52 final size:52
Alignment explanation
Indices: 588992--589111 Score: 168
Period size: 52 Copynumber: 2.3 Consensus size: 52
588982 TGCGATTTTC
* * ** *
588992 ATTTTGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCAATAGTA
*
589044 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCAATAGTA
1 ATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCAATAGTA
*
589096 ATTTCTGCGTTGCGAT
1 ATTTC-GCATTGCGAT
589112 AGACATTAAG
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
52 51 0.85
53 9 0.15
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.44
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCAATAGTA
Found at i:591603 original size:24 final size:24
Alignment explanation
Indices: 591569--591622 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
591559 CTGAAACATC
*
591569 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
591593 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
591617 ATCAAA
1 ATCAAA
591623 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:592432 original size:20 final size:21
Alignment explanation
Indices: 592407--592458 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
592397 TTTTCCTAAT
*
592407 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
592427 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
592448 TCGCAATGCGA
1 TCGCAATGCGA
592459 TACTAACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:592480 original size:20 final size:20
Alignment explanation
Indices: 592447--592520 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
592437 AATTTGGAAA
* *
592447 ATCGCAATGCGATACTAACT
1 ATCGCAACGAGATACTAACT
* **
592467 ATCGCAACGAGATAATACAAA
1 ATCGCAACGAGATACTA-ACT
*
592488 ATCGCAACGAGATTCTAACT
1 ATCGCAACGAGATACTAACT
*
592508 TTCGCAACGAGAT
1 ATCGCAACGAGAT
592521 TCTGAAAATC
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.63
21 16 0.37
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.22
Consensus pattern (20 bp):
ATCGCAACGAGATACTAACT
Found at i:592823 original size:20 final size:20
Alignment explanation
Indices: 592748--592815 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
592738 CAACGGGGAA
592748 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
** ***
592768 ATCGCAATTCG-AAATGAAAA
1 ATCGCAACGCGAAAATG-GCT
592788 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
592808 ATCGCAAC
1 ATCGCAAC
592816 TAGAAAATCG
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
19 5 0.14
20 26 0.72
21 5 0.14
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:592827 original size:34 final size:34
Alignment explanation
Indices: 592732--592835 Score: 109
Period size: 40 Copynumber: 2.9 Consensus size: 34
592722 ATTCATTTGA
** *
592732 CTATCGCAACGGGGAAATCGCAACGCGAAAATGG
1 CTATCGCAACAAGAAAATCGCAACGCGAAAATGG
592766 CTATCGCAATTCGAAATGAAAAATCGCAACGCGAAAATGG
1 CTATCGCAA--C--AA-G-AAAATCGCAACGCGAAAATGG
* *
592806 CTATCGCAACTAGAAAATCGCAATGCGAAA
1 CTATCGCAACAAGAAAATCGCAACGCGAAA
592836 TGAAAATCGC
Statistics
Matches: 59, Mismatches: 5, Indels: 12
0.78 0.07 0.16
Matches are distributed among these distances:
34 25 0.42
35 1 0.02
36 2 0.03
38 1 0.02
39 1 0.02
40 29 0.49
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.15
Consensus pattern (34 bp):
CTATCGCAACAAGAAAATCGCAACGCGAAAATGG
Found at i:592883 original size:19 final size:19
Alignment explanation
Indices: 592842--592909 Score: 83
Period size: 19 Copynumber: 3.8 Consensus size: 19
592832 GAAATGAAAA
592842 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
592858 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
592875 TCGGATTGCGCTTTTCATT
1 TCGCATTGCGATTTTCATT
592894 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
592910 TCGTTGCGAT
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
14 11 0.25
16 3 0.07
17 3 0.07
19 27 0.61
ACGTcount: A:0.12, C:0.22, G:0.19, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:594958 original size:20 final size:19
Alignment explanation
Indices: 594935--595002 Score: 82
Period size: 20 Copynumber: 3.5 Consensus size: 19
594925 GAAACTTAAA
594935 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCG-AAATGACT
*
594955 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
594975 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
594994 ATCGCAACG
1 ATCGCAACG
595003 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
19 14 0.34
20 26 0.63
21 1 0.02
ACGTcount: A:0.38, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:595010 original size:14 final size:14
Alignment explanation
Indices: 594991--595081 Score: 83
Period size: 14 Copynumber: 5.9 Consensus size: 14
594981 ATGCGAAATG
594991 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
595005 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
595024 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
595038 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
595054 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
595070 AAAATCGCAACG
1 AAAATCGCAACG
595082 CGAAACACAA
Statistics
Matches: 64, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
14 31 0.48
15 1 0.02
16 10 0.16
17 2 0.03
18 10 0.16
19 10 0.16
ACGTcount: A:0.48, C:0.23, G:0.18, T:0.11
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:595066 original size:32 final size:33
Alignment explanation
Indices: 594975--595086 Score: 208
Period size: 33 Copynumber: 3.4 Consensus size: 33
594965 GGAAATGGCT
594975 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
595008 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
595041 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
595073 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
595087 CACAAATCGC
Statistics
Matches: 78, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
32 29 0.37
33 49 0.63
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:595094 original size:65 final size:66
Alignment explanation
Indices: 594975--595097 Score: 205
Period size: 65 Copynumber: 1.9 Consensus size: 66
594965 GGAAATGGCT
* *
594975 ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAATGCGAAATGAAAATCGCAACGACAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAACGCGAAATCAAAATCGCAACGACAA
595040 A
66 A
595041 ATCGCAATGCGAAATG-AAATCGCAACGACAAAATCGCAACGCGAAA-CACAAATCGCA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAACGCGAAATCA-AAATCGCA
595098 TTGCGATTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
64 1 0.02
65 37 0.69
66 16 0.30
ACGTcount: A:0.47, C:0.24, G:0.18, T:0.11
Consensus pattern (66 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAACGCGAAATCAAAATCGCAACGACAA
A
Found at i:595138 original size:14 final size:14
Alignment explanation
Indices: 595115--595172 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
595105 TTTCATTTCG
*
595115 CGTTGTGATTTTGT
1 CGTTGCGATTTTGT
*
595129 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
595145 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
595161 CGTTGCGATTTT
1 CGTTGCGATTTT
595173 CATTTCGCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 20 0.54
16 8 0.22
18 9 0.24
ACGTcount: A:0.10, C:0.16, G:0.24, T:0.50
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:595179 original size:33 final size:33
Alignment explanation
Indices: 595098--595188 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
595088 ACAAATCGCA
* *
595098 TTGCGATTTTCATTTCGCGTTGTGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
595131 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
595163 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
595189 AGCCATTTCC
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 30 0.55
33 25 0.45
ACGTcount: A:0.12, C:0.18, G:0.22, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:595215 original size:20 final size:19
Alignment explanation
Indices: 595093--595216 Score: 72
Period size: 19 Copynumber: 7.1 Consensus size: 19
595083 GAAACACAAA
* *
595093 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATATTCATT
* *
595112 TCGCGTTGTGAT-TT--TG
1 TCGCGTTGCGATATTCATT
595128 T--CGTTGCGAT-TTCATT
1 TCGCGTTGCGATATTCATT
* *
595144 TCGCATTGCGAT-TT--TG
1 TCGCGTTGCGATATTCATT
*
595160 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATATTCATT
* **
595177 TCGCATTGCGATAGCCATT
1 TCGCGTTGCGATATTCATT
595196 TCCGCGTTGCGATATTCATT
1 T-CGCGTTGCGATATTCATT
595216 T
1 T
595217 TCGTGTTGCT
Statistics
Matches: 79, Mismatches: 16, Indels: 19
0.69 0.14 0.17
Matches are distributed among these distances:
14 18 0.23
15 2 0.03
16 6 0.08
17 2 0.03
18 12 0.15
19 23 0.29
20 16 0.20
ACGTcount: A:0.14, C:0.20, G:0.21, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATATTCATT
Found at i:595224 original size:20 final size:20
Alignment explanation
Indices: 595161--595225 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 20
595151 GCGATTTTGT
*
595161 CGTTGCGATTTTCA-TTTCG
1 CGTTGCGATATTCATTTTCG
* ** *
595180 CATTGCGATAGCCATTTCCG
1 CGTTGCGATATTCATTTTCG
595200 CGTTGCGATATTCATTTTCG
1 CGTTGCGATATTCATTTTCG
*
595220 TGTTGC
1 CGTTGC
595226 TCAAGTAAAC
Statistics
Matches: 35, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
19 10 0.29
20 25 0.71
ACGTcount: A:0.14, C:0.23, G:0.22, T:0.42
Consensus pattern (20 bp):
CGTTGCGATATTCATTTTCG
Found at i:595735 original size:18 final size:18
Alignment explanation
Indices: 595709--595753 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
595699 GTCGATCAGA
* *
595709 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTAGGCGAGG
*
595727 TGATAGCTCTAGGCGAGG
1 TGATGGCTCTAGGCGAGG
595745 TGATGGCTC
1 TGATGGCTC
595754 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.16, G:0.42, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTAGGCGAGG
Found at i:597121 original size:20 final size:20
Alignment explanation
Indices: 597073--597131 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
597063 AATAGTTTCT
** *
597073 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
597093 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
**
597113 GAATTTGACTATCGCAACG
1 GAAAATGACTATCGCAACG
597132 AGAGAATCGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:597421 original size:22 final size:22
Alignment explanation
Indices: 597394--597437 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
597384 GATGGAGATA
597394 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
597416 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
597438 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:597720 original size:20 final size:20
Alignment explanation
Indices: 597605--597737 Score: 103
Period size: 20 Copynumber: 6.7 Consensus size: 20
597595 CGCTTTGAAA
*
597605 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* * *
597626 ATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATAGTCAGT
* *
597646 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * * *
597666 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
*
597687 ATCGCATT--GATAGTAAGT
1 ATCGCATTGCGATAGTCAGT
597705 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
597725 ATCGCATTGCGAT
1 ATCGCATTGCGAT
597738 TTTCCCAATT
Statistics
Matches: 92, Mismatches: 14, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
17 3 0.03
18 10 0.11
19 4 0.04
20 54 0.59
21 19 0.21
22 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:597725 original size:59 final size:60
Alignment explanation
Indices: 597605--597740 Score: 175
Period size: 59 Copynumber: 2.3 Consensus size: 60
597595 CGCTTTGAAA
* * * *
597605 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATT-CGAAAGTAAGAATCGCATTGCGAAAGTCAGT
* * * * *
597666 ATCTCGTTGCGATTTTGTATTATCGCATT-GATAGTAAGTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
597725 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
597741 CCCAATTCGC
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
59 39 0.61
61 25 0.39
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (60 bp):
ATCGCATTGCGATTTTGTATTATCGCATTCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
Found at i:599663 original size:15 final size:16
Alignment explanation
Indices: 599629--599666 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
599619 TTGATAATTA
599629 AAATTATTTAATTATTT
1 AAATT-TTTAATTATTT
*
599646 AAATTTTTTATT-TTT
1 AAATTTTTAATTATTT
599661 AAATTT
1 AAATTT
599667 CACATTCATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 9 0.45
16 6 0.30
17 5 0.25
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
AAATTTTTAATTATTT
Found at i:600520 original size:22 final size:22
Alignment explanation
Indices: 600495--600539 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
600485 CTTACAATTC
600495 TAATTGAAT-TTATTATAAAAAA
1 TAATTGAATATT-TTATAAAAAA
*
600517 TAATTTAATATTTTATAAAAAA
1 TAATTGAATATTTTATAAAAAA
600539 T
1 T
600540 TGAGAATTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
TAATTGAATATTTTATAAAAAA
Found at i:607214 original size:2 final size:2
Alignment explanation
Indices: 607207--607231 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
607197 AACTTTTCAG
607207 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
607232 ACAATGGAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:607651 original size:59 final size:59
Alignment explanation
Indices: 607584--607697 Score: 201
Period size: 59 Copynumber: 1.9 Consensus size: 59
607574 AAGTCTTTAA
607584 CATTTGAATTTATTATTATTTCATCCCAAACAGTTACGGTTGTGAACTGAGTACTAGGG
1 CATTTGAATTTATTATTATTTCATCCCAAACAGTTACGGTTGTGAACTGAGTACTAGGG
* **
607643 CATTTGAATTTATTATTCTTTCATCCCAAATTGTTACGGTTGTGAACTGAGTACT
1 CATTTGAATTTATTATTATTTCATCCCAAACAGTTACGGTTGTGAACTGAGTACT
607698 CCAGCACTTA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 52 1.00
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.40
Consensus pattern (59 bp):
CATTTGAATTTATTATTATTTCATCCCAAACAGTTACGGTTGTGAACTGAGTACTAGGG
Found at i:608821 original size:30 final size:30
Alignment explanation
Indices: 608778--608849 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
608768 GTTGTAGCCA
* * *
608778 CCGCCACCACCATAGCCACCGCCACCATAG
1 CCGCCACCGCCATAACCACCACCACCATAG
* **
608808 CCGCCACTGCCATAATTACCACCACCATAG
1 CCGCCACCGCCATAACCACCACCACCATAG
*
608838 CCACCACCGCCA
1 CCGCCACCGCCA
608850 AAGTTACGAG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.28, C:0.51, G:0.11, T:0.10
Consensus pattern (30 bp):
CCGCCACCGCCATAACCACCACCACCATAG
Found at i:608843 original size:15 final size:15
Alignment explanation
Indices: 608781--608845 Score: 67
Period size: 15 Copynumber: 4.3 Consensus size: 15
608771 GTAGCCACCG
608781 CCACCACCATAGCCA
1 CCACCACCATAGCCA
* *
608796 CCGCCACCATAGCCG
1 CCACCACCATAGCCA
** ***
608811 CCACTGCCATAATTA
1 CCACCACCATAGCCA
608826 CCACCACCATAGCCA
1 CCACCACCATAGCCA
608841 CCACC
1 CCACC
608846 GCCAAAGTTA
Statistics
Matches: 36, Mismatches: 14, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.29, C:0.51, G:0.09, T:0.11
Consensus pattern (15 bp):
CCACCACCATAGCCA
Found at i:613430 original size:67 final size:67
Alignment explanation
Indices: 613349--613485 Score: 238
Period size: 67 Copynumber: 2.0 Consensus size: 67
613339 CGATTTGAAC
*
613349 ATAATTTTTTTTCGAGTCGAGACAAGTTTATGAAATTACCAATTATTAAAATTTAACAACAACAA
1 ATAATATTTTTTCGAGTCGAGACAAGTTTATGAAATTACCAATTATTAAAATTTAACAACAACAA
613414 CA
66 CA
* **
613416 ATAATATTTTTTCGAGTCGATATGAGTTTATGAAATTACCAATTATTAAAATTTAACAACAACAA
1 ATAATATTTTTTCGAGTCGAGACAAGTTTATGAAATTACCAATTATTAAAATTTAACAACAACAA
613481 CA
66 CA
613483 ATA
1 ATA
613486 GTAATGAAAT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (67 bp):
ATAATATTTTTTCGAGTCGAGACAAGTTTATGAAATTACCAATTATTAAAATTTAACAACAACAA
CA
Found at i:614649 original size:60 final size:60
Alignment explanation
Indices: 614538--614699 Score: 182
Period size: 60 Copynumber: 2.7 Consensus size: 60
614528 TGAATTTGGA
* * * ** *
614538 GATGAAATTGAAAGATTCAAAAGTTTGGGGACCAATTTAAAAAAAGGGTCATAGTTTAGG
1 GATGCAATAGAAATATTCAAAAGTTTAAGGACCAATTTAAAAAAAGAGTCATAGTTTAGG
* ** * *
614598 GATGCAATCAG-AATGTTCAAAAGTTTAAGGATTAATTTAGAATAAGAGTCATAGTTTAGG
1 GATGCAAT-AGAAATATTCAAAAGTTTAAGGACCAATTTAAAAAAAGAGTCATAGTTTAGG
* * *
614658 GATGGAATTGAAATATTTAAAAGTTTAAGGACCAATTTAAAA
1 GATGCAATAGAAATATTCAAAAGTTTAAGGACCAATTTAAAA
614700 TGAAGGTTAT
Statistics
Matches: 82, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
59 1 0.01
60 80 0.98
61 1 0.01
ACGTcount: A:0.43, C:0.06, G:0.22, T:0.30
Consensus pattern (60 bp):
GATGCAATAGAAATATTCAAAAGTTTAAGGACCAATTTAAAAAAAGAGTCATAGTTTAGG
Found at i:615054 original size:21 final size:21
Alignment explanation
Indices: 615003--615055 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
614993 ATTATGACTA
615003 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
615024 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
615045 TCGCAATGCGA
1 TCGCAATGCGA
615056 ATAAGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:615088 original size:21 final size:21
Alignment explanation
Indices: 615045--615112 Score: 102
Period size: 21 Copynumber: 3.3 Consensus size: 21
615035 TTTTCCCAAT
** *
615045 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTTGGAAAA
615065 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTTGGAAAA
615086 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTTGGAAAA
615107 TCGCAA
1 TCGCAA
615113 CGCGGTACTG
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
20 12 0.27
21 32 0.73
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.22
Consensus pattern (21 bp):
TCGCAATGCGAATTTGGAAAA
Found at i:615191 original size:20 final size:20
Alignment explanation
Indices: 615081--615193 Score: 68
Period size: 20 Copynumber: 5.5 Consensus size: 20
615071 TGCGAATTTG
615081 GAAAATCGCAATGCGA-ATT-T
1 GAAAATCGCAA--CGAGATTCT
* * *
615101 GGAAAATCGCAACGCGGTACT
1 -GAAAATCGCAACGAGATTCT
** **
615122 GACTATCGCAACGAGATAAT
1 GAAAATCGCAACGAGATTCT
* *
615142 ACAAAATCGCAACAAGATTCT
1 -GAAAATCGCAACGAGATTCT
***
615163 GATTTTCGCAACGAGATTCT
1 GAAAATCGCAACGAGATTCT
615183 GAAAATCGCAA
1 GAAAATCGCAA
615194 TCATCTTCAA
Statistics
Matches: 67, Mismatches: 22, Indels: 7
0.70 0.23 0.07
Matches are distributed among these distances:
19 2 0.03
20 39 0.58
21 26 0.39
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.21
Consensus pattern (20 bp):
GAAAATCGCAACGAGATTCT
Found at i:616937 original size:40 final size:42
Alignment explanation
Indices: 616893--616983 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
616883 CCTCTTCAAC
*
616893 GATGACAGTG-GCCTCTTGAAC-GGTGG-GGGGACTCTTGAGG
1 GATGACAG-GAGCCTCTTGAACAAGTGGAGGGGACTCTTGAGG
* *
616933 GATGATAGGAGCCTCTTGAACAATTGGAGGGGACTCTTGAGG
1 GATGACAGGAGCCTCTTGAACAAGTGGAGGGGACTCTTGAGG
*
616975 AATGACAGG
1 GATGACAGG
616984 TGAGTCGGGC
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
39 1 0.02
40 18 0.42
41 3 0.07
42 21 0.49
ACGTcount: A:0.24, C:0.15, G:0.38, T:0.22
Consensus pattern (42 bp):
GATGACAGGAGCCTCTTGAACAAGTGGAGGGGACTCTTGAGG
Found at i:617357 original size:20 final size:20
Alignment explanation
Indices: 617334--617407 Score: 123
Period size: 20 Copynumber: 3.8 Consensus size: 20
617324 ACTTACTTTT
617334 GCAACGCGGAAATGACTATC
1 GCAACGCGGAAATGACTATC
617354 GCAACGCGGAAATGACTATC
1 GCAACGCGGAAATGACTATC
*
617374 GCAACGCGGAAATGGCTATC
1 GCAACGCGGAAATGACTATC
*
617394 GCAATGC-GAAATGA
1 GCAACGCGGAAATGA
617408 AAATCGCAGC
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
19 6 0.12
20 45 0.88
ACGTcount: A:0.35, C:0.23, G:0.27, T:0.15
Consensus pattern (20 bp):
GCAACGCGGAAATGACTATC
Found at i:617413 original size:19 final size:19
Alignment explanation
Indices: 617391--617449 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
617381 GGAAATGGCT
617391 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
617410 ATCGC-A-GCG--A-CAAA
1 ATCGCAATGCGAAATGAAA
617424 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
617443 ATCGCAA
1 ATCGCAA
617450 CGACAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 8 0.24
15 2 0.06
16 3 0.09
17 3 0.09
18 2 0.06
19 15 0.45
ACGTcount: A:0.46, C:0.20, G:0.20, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:617433 original size:33 final size:33
Alignment explanation
Indices: 617391--617463 Score: 128
Period size: 33 Copynumber: 2.2 Consensus size: 33
617381 GGAAATGGCT
*
617391 ATCGCAATGCGAAATGAAAATCGCAGCGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
617424 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
617457 ATTGCAA
1 ATCGCAA
617464 CGCAAAACAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.47, C:0.21, G:0.19, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:617478 original size:33 final size:33
Alignment explanation
Indices: 617391--617478 Score: 88
Period size: 33 Copynumber: 2.7 Consensus size: 33
617381 GGAAATGGCT
* ** *
617391 ATCGCAATGCGAAATGAAAATCGCAGCGACAAA
1 ATCGCAACGCGAAAACAAAATCGCAACGACAAA
* **
617424 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAAACAAAATCGCAACGACAAA
*
617457 ATTGCAACGC-AAAACACAAATC
1 ATCGCAACGCGAAAACA-AAATC
617479 ACATTGCGAT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
32 4 0.08
33 45 0.92
ACGTcount: A:0.48, C:0.23, G:0.17, T:0.12
Consensus pattern (33 bp):
ATCGCAACGCGAAAACAAAATCGCAACGACAAA
Found at i:617506 original size:19 final size:19
Alignment explanation
Indices: 617482--617612 Score: 84
Period size: 19 Copynumber: 7.3 Consensus size: 19
617472 ACAAATCACA
617482 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
617501 TTGCGA-TTT--TGT--CG
1 TTGCGATTTTCATTTCGCG
*
617515 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCG
*
617534 TTGCGA-TTT--TGT--CG
1 TTGCGATTTTCATTTCGCG
*
617548 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCG
***
617567 TTGCGATAGCCATTTCCGCG
1 TTGCGATTTTCATTT-CGCG
** *
617587 TTGCGATAGTCATTTTCGTG
1 TTGCGATTTTCA-TTTCGCG
617607 TTGCGA
1 TTGCGA
617613 AAGTAAACTA
Statistics
Matches: 87, Mismatches: 13, Indels: 23
0.71 0.11 0.19
Matches are distributed among these distances:
14 15 0.17
15 6 0.07
16 4 0.05
17 4 0.05
18 6 0.07
19 26 0.30
20 23 0.26
21 3 0.03
ACGTcount: A:0.13, C:0.20, G:0.23, T:0.44
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCG
Found at i:617518 original size:14 final size:14
Alignment explanation
Indices: 617499--617557 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
617489 TTTCATTTCG
617499 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
617513 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
617530 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
617546 CGTTGCGATTTT
1 CGTTGCGATTTT
617558 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 18 0.47
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 6 0.16
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:617524 original size:33 final size:33
Alignment explanation
Indices: 617482--617573 Score: 175
Period size: 33 Copynumber: 2.8 Consensus size: 33
617472 ACAAATCACA
*
617482 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
617515 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
617548 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
617574 AGCCATTTCC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.12, C:0.18, G:0.22, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:617592 original size:20 final size:19
Alignment explanation
Indices: 617558--617612 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
617548 TTGCGATTTT
*
617558 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
617577 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
617597 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
617613 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:618170 original size:18 final size:18
Alignment explanation
Indices: 618147--618194 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
618137 CGGGTCGATC
618147 AGGTGATGGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
*
618165 AGGTGATAGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
618183 AGGTGATGGCTC
1 AGGTGATGGCTC
618195 CCGAAGTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.15, C:0.12, G:0.46, T:0.27
Consensus pattern (18 bp):
AGGTGATGGCTCTGGGTG
Found at i:619562 original size:20 final size:20
Alignment explanation
Indices: 619514--619572 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
619504 AATAGTTTCT
* *
619514 GAAAATGAAAATCGCAACAC
1 GAAAATGACAATCGCAACGC
619534 GAAAATGACAATCGCAACGC
1 GAAAATGACAATCGCAACGC
** *
619554 GAATTTGACTATCGCAACG
1 GAAAATGACAATCGCAACG
619573 AGATAATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.44, C:0.22, G:0.19, T:0.15
Consensus pattern (20 bp):
GAAAATGACAATCGCAACGC
Found at i:620082 original size:20 final size:20
Alignment explanation
Indices: 620057--620123 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
620047 GTATTATCTC
*
620057 GTTGCGAAAGTCAGTATTGA
1 GTTGCGAAAGTCAGTATCGA
* * *
620077 GTTGCGAAATTAAGTATCAA
1 GTTGCGAAAGTCAGTATCGA
*
620097 GTTGCGAAAGTCAGTATCGC
1 GTTGCGAAAGTCAGTATCGA
620117 GTTGCGA
1 GTTGCGA
620124 TTTTGTATTA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.28
Consensus pattern (20 bp):
GTTGCGAAAGTCAGTATCGA
Found at i:620153 original size:41 final size:41
Alignment explanation
Indices: 620031--620168 Score: 152
Period size: 41 Copynumber: 3.4 Consensus size: 41
620021 CGTTTTGAAA
* * *
620031 ATCGCATTGCGATTATGTATTATCTCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATTTTGTATTATCACGTTGCGAAAGTCAGT
* * ** * * *
620072 ATTGAGTTGCGAAATT-AAGTATCAAGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATTTTGTATTATCACGTTGCGAAAGTCAGT
* *
620112 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAGT
1 ATCGCGTTGCGATTTTGTATTATCACGTTGCGAAAGTCAGT
*
620153 ACCGCGTTGCGATTTT
1 ATCGCGTTGCGATTTT
620169 CCAAATTCGC
Statistics
Matches: 76, Mismatches: 20, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
40 32 0.42
41 44 0.58
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.36
Consensus pattern (41 bp):
ATCGCGTTGCGATTTTGTATTATCACGTTGCGAAAGTCAGT
Found at i:620160 original size:20 final size:20
Alignment explanation
Indices: 620051--620165 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
620041 GATTATGTAT
* *
620051 TATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* * * * *
620071 TATTGAGTTGCGAAATTAAG
1 TATCGCGTTGCGATAGTCAG
** *
620091 TATCAAGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* *
620111 TATCGCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--TAGTCAG
620132 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
*
620152 TACCGCGTTGCGAT
1 TATCGCGTTGCGAT
620166 TTTCCAAATT
Statistics
Matches: 75, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
19 3 0.04
20 56 0.75
21 14 0.19
22 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (20 bp):
TATCGCGTTGCGATAGTCAG
Found at i:620184 original size:41 final size:41
Alignment explanation
Indices: 620098--620186 Score: 108
Period size: 41 Copynumber: 2.2 Consensus size: 41
620088 AAGTATCAAG
* * ** * *
620098 TTGCGAAAGTCAGTATCGCGTTGCGATTTTGTATTATCGCG
1 TTGCGATAGTCAGTACCGCGTTGCGATTTTCAAATATCGCA
620139 TTGCGATAGTCAGTACCGCGTTGCGATTTTCCAAAT-TCGCA
1 TTGCGATAGTCAGTACCGCGTTGCGATTTT-CAAATATCGCA
620180 TTGCGAT
1 TTGCGAT
620187 TTTCCAAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
41 39 0.95
42 2 0.05
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (41 bp):
TTGCGATAGTCAGTACCGCGTTGCGATTTTCAAATATCGCA
Found at i:620185 original size:21 final size:21
Alignment explanation
Indices: 620159--620226 Score: 93
Period size: 21 Copynumber: 3.3 Consensus size: 21
620149 CAGTACCGCG
620159 TTGCGATTTTCCAAATTCGCA
1 TTGCGATTTTCCAAATTCGCA
620180 TTGCGATTTTCCAAATTCGCA
1 TTGCGATTTTCCAAATTCGCA
* * **
620201 TTACGA-TTTACTTATTCGCA
1 TTGCGATTTTCCAAATTCGCA
620221 TTGCGA
1 TTGCGA
620227 ATTGGGAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 16 0.38
21 26 0.62
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.40
Consensus pattern (21 bp):
TTGCGATTTTCCAAATTCGCA
Found at i:620268 original size:21 final size:22
Alignment explanation
Indices: 620216--620268 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
620206 ATTTACTTAT
620216 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
620237 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
*
620258 TCGCGTTGCGA
1 TCGCATTGCGA
620269 TAGTCATAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.32, C:0.19, G:0.28, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:622258 original size:60 final size:60
Alignment explanation
Indices: 622084--622258 Score: 174
Period size: 60 Copynumber: 2.9 Consensus size: 60
622074 TGAATTTGGA
* * * *** * *
622084 GATGAAATTAAAAGATTCAAAAGCTTGGGGACCAATTTAAAAAGAGGGTCATAGTTTAGG
1 GATGAAATTAGAATATTCAAAAGTTTAAAGACCAATTTAAAATGAAGGTCATAGTTTAGG
* * * ** *
622144 GATGCAATTAGAATGTTCAAAAGTTTAAGGATTAATTTAGAAT-AAGAGTCATAGTTTAGG
1 GATGAAATTAGAATATTCAAAAGTTTAAAGACCAATTTAAAATGAAG-GTCATAGTTTAGG
* *
622204 GATGAAATT-GAAATATTTAAAAGTTTAAAGACCAATTTAAAATGAAGGTTATAGT
1 GATGAAATTAG-AATATTCAAAAGTTTAAAGACCAATTTAAAATGAAGGTCATAGT
622259 GTGAGGACAT
Statistics
Matches: 92, Mismatches: 20, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
59 3 0.03
60 86 0.93
61 3 0.03
ACGTcount: A:0.43, C:0.06, G:0.21, T:0.30
Consensus pattern (60 bp):
GATGAAATTAGAATATTCAAAAGTTTAAAGACCAATTTAAAATGAAGGTCATAGTTTAGG
Found at i:624408 original size:139 final size:138
Alignment explanation
Indices: 624126--624408 Score: 335
Period size: 139 Copynumber: 2.0 Consensus size: 138
624116 TTTATATTTT
624126 AATTTTCATATTTTTTAAAATTAAAAATTTTAATCTTGACTCAGATAATAGAGAAATAATACAAT
1 AATTTTCATATTTTTTAAAATTAAAAATTTTAATCTTGACTCAGATAATAGAGAAATAATACAAT
* * * * ** * * * * *
624191 TAAATTATTTGATTATCAACTATATCATGTATGAATTATGAATTTAACTTTTATATTTTAATTTA
66 TAAATTATATGATTA-CAACTAGAACATGAATGAATTATGAAACTAACATGTATATATAAAATTA
**
624256 ATTAGTTTT
130 ATTAGTTAG
624265 AATTTTCATATTTTTTAAAATTAAAAATTTTAATCTTGACTCAGATAATAGAGAAATAATACAAT
1 AATTTTCATATTTTTTAAAATTAAAAATTTTAATCTTGACTCAGATAATAGAGAAATAATACAAT
624330 TAAATTATATGACTTA-AACTTAGAGAACATGAACTGAATT-T-ACAACTAACATGTA-ATATAA
66 TAAATTATATGA-TTACAAC-T--AGAACATGAA-TGAATTATGA-AACTAACATGTATATATAA
624391 GAATTAATT-G-TAG
125 -AATTAATTAGTTAG
624404 AATTT
1 AATTT
624409 AACTTAACTT
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
138 3 0.02
139 83 0.67
140 9 0.07
141 23 0.19
142 6 0.05
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.42
Consensus pattern (138 bp):
AATTTTCATATTTTTTAAAATTAAAAATTTTAATCTTGACTCAGATAATAGAGAAATAATACAAT
TAAATTATATGATTACAACTAGAACATGAATGAATTATGAAACTAACATGTATATATAAAATTAA
TTAGTTAG
Found at i:625158 original size:60 final size:60
Alignment explanation
Indices: 625065--625271 Score: 272
Period size: 60 Copynumber: 3.5 Consensus size: 60
625055 GCACTGTTTT
* * ** *
625065 TCATCTAACTTGCATTAGTGGCACCTTTTTGCCAAAATGCACAGTTAAACATATAACTTA
1 TCATCTAACTTGCATTAATGACACCTTTTTGCCAAAATGCACAGTTAGGCATTTAACTTA
* * * * *
625125 TCATCTAACTTGTATTAATGACA-TTTTTCTGCCAAAATACACAATTAGGCATTTAACTGA
1 TCATCTAACTTGCATTAATGACACCTTTT-TGCCAAAATGCACAGTTAGGCATTTAACTTA
* **
625185 TCATCTAACTTGCATTAGTGACACCTTTTTGCCATTATGCACAGTTAGGCATTTAACTTA
1 TCATCTAACTTGCATTAATGACACCTTTTTGCCAAAATGCACAGTTAGGCATTTAACTTA
*
625245 TCATCTAACTTGCATTAATGGCACCTT
1 TCATCTAACTTGCATTAATGACACCTT
625272 ATATACCTCC
Statistics
Matches: 125, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
59 4 0.03
60 117 0.94
61 4 0.03
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (60 bp):
TCATCTAACTTGCATTAATGACACCTTTTTGCCAAAATGCACAGTTAGGCATTTAACTTA
Found at i:626362 original size:18 final size:18
Alignment explanation
Indices: 626340--626421 Score: 110
Period size: 18 Copynumber: 4.6 Consensus size: 18
626330 TTATCCCGCG
626340 GGACCACTTTGTCCCGAA
1 GGACCACTTTGTCCCGAA
* * *
626358 TGACCACTATGTCCCAAA
1 GGACCACTTTGTCCCGAA
*
626376 GGACCACTTTGTCCCGTA
1 GGACCACTTTGTCCCGAA
*
626394 GGACCACTTTGTCCCGTA
1 GGACCACTTTGTCCCGAA
*
626412 GAACCACTTT
1 GGACCACTTT
626422 TAACTCTCGA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 56 1.00
ACGTcount: A:0.23, C:0.33, G:0.18, T:0.26
Consensus pattern (18 bp):
GGACCACTTTGTCCCGAA
Found at i:627013 original size:22 final size:20
Alignment explanation
Indices: 626988--627035 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
626978 TCCAACTTGA
*
626988 GATACCTTTCCTCTAGGGTACC
1 GATACCTCTCC-CTA-GGTACC
*
627010 GATACC-CTCCCTAGGTATC
1 GATACCTCTCCCTAGGTACC
627029 GATACCT
1 GATACCT
627036 AATTTAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 11 0.48
20 3 0.13
21 3 0.13
22 6 0.26
ACGTcount: A:0.21, C:0.33, G:0.17, T:0.29
Consensus pattern (20 bp):
GATACCTCTCCCTAGGTACC
Found at i:633373 original size:15 final size:15
Alignment explanation
Indices: 633353--633387 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
633343 CCGTAGGACT
*
633353 ACTACGTTCCGAAGG
1 ACTACGTCCCGAAGG
633368 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
633383 ACTAC
1 ACTAC
633388 AATACCCTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.31, G:0.23, T:0.17
Consensus pattern (15 bp):
ACTACGTCCCGAAGG
Found at i:634042 original size:36 final size:37
Alignment explanation
Indices: 633995--634066 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 37
633985 TTCATTCAGG
633995 GGGGAATCGATACCCCCC-CAGGGGGAATCTGTTCCC
1 GGGGAATCGATACCCCCCACAGGGGGAATCTGTTCCC
*
634031 GGGGAATCGATACCCCCCAGAGGGGGAATCTGTTCC
1 GGGGAATCGATACCCCCCACAGGGGGAATCTGTTCC
634067 TCCTGCACAT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
36 18 0.53
37 16 0.47
ACGTcount: A:0.21, C:0.31, G:0.32, T:0.17
Consensus pattern (37 bp):
GGGGAATCGATACCCCCCACAGGGGGAATCTGTTCCC
Found at i:638326 original size:323 final size:323
Alignment explanation
Indices: 637738--638384 Score: 1222
Period size: 323 Copynumber: 2.0 Consensus size: 323
637728 CAAATATCAG
*
637738 ACCCTACCGCATTAGTCTGTCTGACTCTCATCTGATTTGATTCTCTGGCGGAGAATGCAACTAAT
1 ACCCTACCGCATTAGTCTGTCTGACTCTCATCTGATTTAATTCTCTGGCGGAGAATGCAACTAAT
*
637803 TCATATCTGATTTGAAGTTGAAAGCTAGAATCTCTATCTTTCTTTAATGGTGTTTAACTCTATTA
66 TCATATCTGATTTGAAGTTGAAAGCTAGAATCTCTATCTTTCTTTAATGGTGTTTAACCCTATTA
637868 AACACTAATTCTCTTAATCATCTAAAATTTATGTTCTCCAATCCTTTTATTCTTAGCTCTCTATA
131 AACACTAATTCTCTTAATCATCTAAAATTTATGTTCTCCAATCCTTTTATTCTTAGCTCTCTATA
*
637933 GAATTTTAACGTGATTAATCATTTCTTGAATTGAGAACAATTTCAAAACCAGTAACACTTTTTCA
196 GAATTTTAACGTGATTAATCATTTCTTGAATTGAGAACAATTTCAAAACCAGTAACACTCTTTCA
*
637998 ATTTAAGGTGCAAGCCCTAAACAACCAATCACATGTTCTTCCTTATCCTTCCTAATCAAAATT
261 ATTTAAGGCGCAAGCCCTAAACAACCAATCACATGTTCTTCCTTATCCTTCCTAATCAAAATT
*
638061 ACCCTACCGCTTTAGTCTGTCTGACTCTCATCTGATTTAATTCTCTGGCGGAGAATGCAACTAAT
1 ACCCTACCGCATTAGTCTGTCTGACTCTCATCTGATTTAATTCTCTGGCGGAGAATGCAACTAAT
638126 TCATATCTGATTTGAAGTTGAAAGCTAGAATCTCTATCTTTCTTTAATGGTGTTTAACCCTATTA
66 TCATATCTGATTTGAAGTTGAAAGCTAGAATCTCTATCTTTCTTTAATGGTGTTTAACCCTATTA
* *
638191 AACACTAATTCTCTTAATCATCTGAAATTTTTGTTCTCCAATCCTTTTATTCTTAGCTCTCTATA
131 AACACTAATTCTCTTAATCATCTAAAATTTATGTTCTCCAATCCTTTTATTCTTAGCTCTCTATA
*
638256 GAATTTTAACGTGATTAATCATTTCTTGAATTGAGAACAATTTGAAAACCAGTAACACTCTTTCA
196 GAATTTTAACGTGATTAATCATTTCTTGAATTGAGAACAATTTCAAAACCAGTAACACTCTTTCA
638321 ATTTAAGGCGCAAGCCCTAAACAACCAATCACATGTTCTTCCTTATCCTTCCTAATCAAAATT
261 ATTTAAGGCGCAAGCCCTAAACAACCAATCACATGTTCTTCCTTATCCTTCCTAATCAAAATT
638384 A
1 A
638385 ACACAACAAT
Statistics
Matches: 316, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
323 316 1.00
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.38
Consensus pattern (323 bp):
ACCCTACCGCATTAGTCTGTCTGACTCTCATCTGATTTAATTCTCTGGCGGAGAATGCAACTAAT
TCATATCTGATTTGAAGTTGAAAGCTAGAATCTCTATCTTTCTTTAATGGTGTTTAACCCTATTA
AACACTAATTCTCTTAATCATCTAAAATTTATGTTCTCCAATCCTTTTATTCTTAGCTCTCTATA
GAATTTTAACGTGATTAATCATTTCTTGAATTGAGAACAATTTCAAAACCAGTAACACTCTTTCA
ATTTAAGGCGCAAGCCCTAAACAACCAATCACATGTTCTTCCTTATCCTTCCTAATCAAAATT
Found at i:639808 original size:15 final size:15
Alignment explanation
Indices: 639785--639819 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
639775 CCGTAGGACC
639785 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
*
639800 ACTATGTCCCGAAGG
1 ACTACGTCCCGAAGG
639815 ACTAC
1 ACTAC
639820 AATACCCTCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.29, C:0.31, G:0.23, T:0.17
Consensus pattern (15 bp):
ACTACGTCCCGAAGG
Found at i:640474 original size:36 final size:36
Alignment explanation
Indices: 640427--640498 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
640417 TTTATTTAGG
640427 GGGGAATCGATACCCCCCCAGGGGGAATCTGTTCCC
1 GGGGAATCGATACCCCCCCAGGGGGAATCTGTTCCC
*
640463 GGGGAATCGATACCTCCCCAGGGGGAATCTGTTCCC
1 GGGGAATCGATACCCCCCCAGGGGGAATCTGTTCCC
640499 CCTGCACATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.19, C:0.32, G:0.31, T:0.18
Consensus pattern (36 bp):
GGGGAATCGATACCCCCCCAGGGGGAATCTGTTCCC
Found at i:640487 original size:21 final size:21
Alignment explanation
Indices: 640426--640491 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
640416 TTTTATTTAG
*
640426 GGGGGAATCGATACCCCCCCA
1 GGGGGAATCGATACCTCCCCA
640447 GGGGGAATCTG-T---T-CCC-
1 GGGGGAATC-GATACCTCCCCA
640463 -GGGGAATCGATACCTCCCCA
1 GGGGGAATCGATACCTCCCCA
640483 GGGGGAATC
1 GGGGGAATC
640492 TGTTCCCCCT
Statistics
Matches: 36, Mismatches: 1, Indels: 16
0.68 0.02 0.30
Matches are distributed among these distances:
14 1 0.03
15 9 0.25
17 3 0.08
18 1 0.03
19 3 0.08
21 18 0.50
22 1 0.03
ACGTcount: A:0.21, C:0.30, G:0.33, T:0.15
Consensus pattern (21 bp):
GGGGGAATCGATACCTCCCCA
Found at i:640498 original size:18 final size:18
Alignment explanation
Indices: 640442--640499 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 18
640432 ATCGATACCC
640442 CCCCAGGGGGAATCTGTT
1 CCCCAGGGGGAATCTGTT
640460 -CCC--GGGGAATC-GATACCT
1 CCCCAGGGGGAATCTG-T---T
640478 CCCCAGGGGGAATCTGTT
1 CCCCAGGGGGAATCTGTT
640496 CCCC
1 CCCC
640500 CTGCACATAC
Statistics
Matches: 32, Mismatches: 0, Indels: 16
0.67 0.00 0.33
Matches are distributed among these distances:
14 1 0.03
15 9 0.28
17 3 0.09
18 6 0.19
19 3 0.09
21 9 0.28
22 1 0.03
ACGTcount: A:0.17, C:0.34, G:0.29, T:0.19
Consensus pattern (18 bp):
CCCCAGGGGGAATCTGTT
Found at i:641413 original size:13 final size:13
Alignment explanation
Indices: 641395--641420 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
641385 ATCAGAGCAC
641395 TTATAACTTTAAA
1 TTATAACTTTAAA
641408 TTATAACTTTAAA
1 TTATAACTTTAAA
641421 CTGTAATTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
TTATAACTTTAAA
Found at i:641885 original size:18 final size:17
Alignment explanation
Indices: 641862--641936 Score: 55
Period size: 18 Copynumber: 4.2 Consensus size: 17
641852 CACTTAGAAT
641862 TTTGTCCCACGAGACCAC
1 TTTGTCCCA-GAGACCAC
*
641880 TTTGTCCC-GAAGGACAAC
1 TTTGTCCCAG-A-GACCAC
* *
641898 TATGTCCCAAAGGACCAC
1 TTTGTCCCAGA-GACCAC
641916 TTTGTCCC-GTAGGACCAC
1 TTTGTCCCAG-A-GACCAC
641934 TTT
1 TTT
641937 TAACCCTCGA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
16 1 0.02
17 1 0.02
18 45 0.96
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (17 bp):
TTTGTCCCAGAGACCAC
Found at i:647184 original size:37 final size:37
Alignment explanation
Indices: 647112--647184 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 37
647102 CACTTATAAT
* * *
647112 ATTTCTCAAATAAATTAATTTGTGTAAAATAATAAAA
1 ATTTATCAAATAAATTAATTTATGCAAAATAATAAAA
* * *
647149 ATTTATCAAATAAATTGATTTATGCACAATGATAAA
1 ATTTATCAAATAAATTAATTTATGCAAAATAATAAA
647185 TCTCTTTCTC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (37 bp):
ATTTATCAAATAAATTAATTTATGCAAAATAATAAAA
Found at i:650578 original size:31 final size:31
Alignment explanation
Indices: 650543--650652 Score: 107
Period size: 31 Copynumber: 3.4 Consensus size: 31
650533 TTAGGTCTAA
650543 AAGGAATTACCAGTCGATGCTGAACCTATAC
1 AAGGAATTACCAGTCGATGCTGAACCTATAC
* *
650574 AAGGAATTACCAGTAGCGA--CTGAACCTGCCAGAG
1 AAGGAATTACCAGT--CGATGCTGAACCT---ATAC
* * *
650608 ATAGGAATTATCAGTCGGTGCTGAACTTATAC
1 A-AGGAATTACCAGTCGATGCTGAACCTATAC
650640 AAGGAATTACCAG
1 AAGGAATTACCAG
650653 CAGCGACCAA
Statistics
Matches: 63, Mismatches: 8, Indels: 16
0.72 0.09 0.18
Matches are distributed among these distances:
31 33 0.52
32 3 0.05
33 5 0.08
34 3 0.05
35 19 0.30
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (31 bp):
AAGGAATTACCAGTCGATGCTGAACCTATAC
Found at i:650650 original size:66 final size:66
Alignment explanation
Indices: 650544--650668 Score: 196
Period size: 66 Copynumber: 1.9 Consensus size: 66
650534 TAGGTCTAAA
* **
650544 AGGAATTACCAGTCGATGCTGAACCTATACAAGGAATTACCAGTAGCGACTGAACCTGCCAGAGA
1 AGGAATTACCAGTCGATGCTGAACCTATACAAGGAATTACCAGCAGCGACCAAACCTGCCAGAGA
650609 T
66 T
* * *
650610 AGGAATTATCAGTCGGTGCTGAACTTATACAAGGAATTACCAGCAGCGACCAAACCTGC
1 AGGAATTACCAGTCGATGCTGAACCTATACAAGGAATTACCAGCAGCGACCAAACCTGC
650669 TAAAGTCTTC
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 53 1.00
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.20
Consensus pattern (66 bp):
AGGAATTACCAGTCGATGCTGAACCTATACAAGGAATTACCAGCAGCGACCAAACCTGCCAGAGA
T
Found at i:651444 original size:2 final size:2
Alignment explanation
Indices: 651437--651469 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
651427 GGACGGTACA
651437 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
651470 AACATCGATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:652243 original size:261 final size:260
Alignment explanation
Indices: 651779--652305 Score: 964
Period size: 261 Copynumber: 2.0 Consensus size: 260
651769 TCGGTGATTT
*
651779 CCCATATTCAAGTGGATCATAATTTAAGTTCTCAAGTCGTCTCTATTATCATATTCATCCATAAT
1 CCCATATTCAAGTGGATCATAATTTAAGTTCTCAAGTCGTCTATATTATCATATTCATCCATAAT
651844 CCTTTTACTCTTTAAGGGTATTATCATCATTTCATTCAATTCTGTCCATAGCATTACTTCGGGTA
66 CCTTTTACTCTTTAAGGGTATTATCATCATTTCATTCAATTCTGTCCATAGCATTACTTCGGGTA
* *
651909 ACTTAGGCTTGAAAGTATTCCAATTCCATTAAAGTTCAGAGTACTTTGCTCATTTGCTTACTGGA
131 ACTTAGGCTTGAAAGTATTCCAATTCCATTAAAGTTCAGAGTACTTTGCTCATTTGCTCACTAGA
651974 GGTTAATTTCACCACTAGGGAAAGTCTTGGTCATTTCTCAATACAAGGGTATTTTCGTAATTTTA
196 GGTTAATTTCACCACTAGGGAAAGTCTTGGTCATTTCTCAATACAAGGGTATTTTCGTAA-TTTA
652039 C
260 C
652040 CCCATATTCAAGTGGATCATAATTTAAGTTCTCAAGTCGTCTATATTATCATATTCATCCATAAT
1 CCCATATTCAAGTGGATCATAATTTAAGTTCTCAAGTCGTCTATATTATCATATTCATCCATAAT
* *
652105 CCTTTTACTCTTTAAGGGTATTATTATCATTTCATTCAATTTTGTCCATAGCATTACTTCGGGTA
66 CCTTTTACTCTTTAAGGGTATTATCATCATTTCATTCAATTCTGTCCATAGCATTACTTCGGGTA
* *
652170 ACTTAGGCTTGAAAGTATTCCAGTTCCATTAAAGTTCAGAGTATTTTGCTCATTTGCTCACTAGA
131 ACTTAGGCTTGAAAGTATTCCAATTCCATTAAAGTTCAGAGTACTTTGCTCATTTGCTCACTAGA
* *
652235 GGTTAATTTCACCACTAGGGAAAGTCTTGGTTATTTCTCAATACAAGGGTATTTTTGTAATTTAC
196 GGTTAATTTCACCACTAGGGAAAGTCTTGGTCATTTCTCAATACAAGGGTATTTTCGTAATTTAC
652300 CCCATA
1 CCCATA
652306 ATGATATTTT
Statistics
Matches: 257, Mismatches: 9, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
260 11 0.04
261 246 0.96
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (260 bp):
CCCATATTCAAGTGGATCATAATTTAAGTTCTCAAGTCGTCTATATTATCATATTCATCCATAAT
CCTTTTACTCTTTAAGGGTATTATCATCATTTCATTCAATTCTGTCCATAGCATTACTTCGGGTA
ACTTAGGCTTGAAAGTATTCCAATTCCATTAAAGTTCAGAGTACTTTGCTCATTTGCTCACTAGA
GGTTAATTTCACCACTAGGGAAAGTCTTGGTCATTTCTCAATACAAGGGTATTTTCGTAATTTAC
Found at i:655096 original size:37 final size:37
Alignment explanation
Indices: 655055--655162 Score: 198
Period size: 37 Copynumber: 2.9 Consensus size: 37
655045 AACATAACGT
*
655055 TAGAGTTTTATTATGATTCAAACTCCTAAAAATATGA
1 TAGAGTTTTACTATGATTCAAACTCCTAAAAATATGA
655092 TAGAGTTTTACTATGATTCAAACTCCTAAAAATATGA
1 TAGAGTTTTACTATGATTCAAACTCCTAAAAATATGA
*
655129 TAGAATTTTACTATGATTCAAACTCCTAAAAATA
1 TAGAGTTTTACTATGATTCAAACTCCTAAAAATA
655163 GGATCCATAA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (37 bp):
TAGAGTTTTACTATGATTCAAACTCCTAAAAATATGA
Found at i:655552 original size:3 final size:3
Alignment explanation
Indices: 655546--655580 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
655536 CATATAATTC
655546 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
655581 GTTTTATATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Done.