Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008511.1 Hibiscus syriacus cultivar Beakdansim tig00111366_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: 2221980
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 3 of 9
Found at i:507620 original size:2 final size:2
Alignment explanation
Indices: 507613--507641 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
507603 CACAACATAC
507613 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
507642 GAGAGAGAGA
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:507646 original size:2 final size:2
Alignment explanation
Indices: 507641--507671 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
507631 ATATATATAT
507641 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
507672 TCCTGGGAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:513616 original size:26 final size:28
Alignment explanation
Indices: 513557--513631 Score: 73
Period size: 26 Copynumber: 2.7 Consensus size: 28
513547 CTACTCGTTA
* **
513557 AATATCTAAATTATTATTTATTTTATTTT
1 AATATCTAAATT-TTATTTATTTAAAATT
513586 AATATCTAAATTTTATTT-TTTAAAATT
1 AATATCTAAATTTTATTTATTTAAAATT
* *
513613 -ATATTTAAAATTTAGTTTA
1 AATATCTAAATTTTA-TTTA
513632 ATTTTATTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
26 12 0.31
27 9 0.23
28 6 0.15
29 12 0.31
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (28 bp):
AATATCTAAATTTTATTTATTTAAAATT
Found at i:515786 original size:14 final size:15
Alignment explanation
Indices: 515760--515788 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
515750 ATATTATATC
515760 AAATTATTTGAAAAA
1 AAATTATTTGAAAAA
515775 AAATTA-TTGAAAAA
1 AAATTATTTGAAAAA
515789 CATAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (15 bp):
AAATTATTTGAAAAA
Found at i:517214 original size:24 final size:24
Alignment explanation
Indices: 517170--517219 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
517160 ATAAAGAACC
*
517170 AAAATAAACTTAAATACACCATTA
1 AAAATAAACTTAAACACACCATTA
*
517194 AAAATAAAGTTCAAACA-ACCATTA
1 AAAATAAACTT-AAACACACCATTA
517218 AA
1 AA
517220 CCAACTACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.60, C:0.16, G:0.02, T:0.22
Consensus pattern (24 bp):
AAAATAAACTTAAACACACCATTA
Found at i:520501 original size:19 final size:20
Alignment explanation
Indices: 520479--520522 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
520469 GAGAAAAAGT
*
520479 AAAAGTTAA-AATGAAAGAG
1 AAAAGTTAATAAAGAAAGAG
*
520498 AAAAATTAATAAAGAAAGAG
1 AAAAGTTAATAAAGAAAGAG
520518 AAAAG
1 AAAAG
520523 AAAAAGTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.14
Consensus pattern (20 bp):
AAAAGTTAATAAAGAAAGAG
Found at i:525020 original size:19 final size:20
Alignment explanation
Indices: 524996--525052 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
524986 AAATGTCAAG
* *
524996 ACAATAAAAAATGGTAAA-A
1 ACAATAAAAAAAGATAAATA
525015 ACAATAAATAAAAGATAAATA
1 ACAATAAA-AAAAGATAAATA
525036 A-AATAAAAAGAAGATAA
1 ACAATAAAAA-AAGATAA
525053 TCCTCATGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
19 10 0.30
20 21 0.64
21 2 0.06
ACGTcount: A:0.72, C:0.04, G:0.09, T:0.16
Consensus pattern (20 bp):
ACAATAAAAAAAGATAAATA
Found at i:534740 original size:24 final size:24
Alignment explanation
Indices: 534696--534745 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
534686 ATAAAGAACC
*
534696 AAAATAAACTTAAATACACCATTA
1 AAAATAAACTTAAACACACCATTA
*
534720 AAAATAAAGTTCAAACA-ACCATTA
1 AAAATAAACTT-AAACACACCATTA
534744 AA
1 AA
534746 CCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.60, C:0.16, G:0.02, T:0.22
Consensus pattern (24 bp):
AAAATAAACTTAAACACACCATTA
Found at i:544631 original size:21 final size:21
Alignment explanation
Indices: 544592--544632 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
544582 TTAATTTCAG
*
544592 AATTAGAATTGAAGATTCAAA
1 AATTAGAAGTGAAGATTCAAA
* *
544613 AATTAGAAGTGGAGGTTCAA
1 AATTAGAAGTGAAGATTCAA
544633 CAACAGCAAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.05, G:0.22, T:0.27
Consensus pattern (21 bp):
AATTAGAAGTGAAGATTCAAA
Found at i:557180 original size:20 final size:22
Alignment explanation
Indices: 557139--557181 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
557129 TTCAAAGTAT
*
557139 ATATATAATTTATATTTTTAAA
1 ATATATAATTTATATTTATAAA
557161 ATAT-TAATTTAT-TTTATAAA
1 ATATATAATTTATATTTATAAA
557181 A
1 A
557182 AATCTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 8 0.40
22 4 0.20
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
ATATATAATTTATATTTATAAA
Found at i:557182 original size:21 final size:22
Alignment explanation
Indices: 557139--557182 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
557129 TTCAAAGTAT
*
557139 ATATATAATTTATATTTTTAAA
1 ATATATAATTTATATTTTAAAA
557161 ATAT-TAATTTAT-TTTATAAAA
1 ATATATAATTTATATTT-TAAAA
557182 A
1 A
557183 ATCTAAATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 3 0.15
21 13 0.65
22 4 0.20
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
ATATATAATTTATATTTTAAAA
Found at i:561952 original size:18 final size:19
Alignment explanation
Indices: 561926--561973 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
561916 AACGACTCCG
* *
561926 ACGATGAACCAGAAC-AGC
1 ACGAGGAACAAGAACGAGC
*
561944 ACGAGGAACAAGCACGAGC
1 ACGAGGAACAAGAACGAGC
561963 A-GAGGAACAAG
1 ACGAGGAACAAG
561974 CACAACCAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 22 0.85
19 4 0.15
ACGTcount: A:0.46, C:0.23, G:0.29, T:0.02
Consensus pattern (19 bp):
ACGAGGAACAAGAACGAGC
Found at i:561974 original size:18 final size:18
Alignment explanation
Indices: 561941--561986 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
561931 GAACCAGAAC
*
561941 AGCACGAGGAACAAGCACG
1 AGCA-GAGGAACAAGCACA
561960 AGCAGAGGAACAAGCACA
1 AGCAGAGGAACAAGCACA
*
561978 ACCAGAGGA
1 AGCAGAGGA
561987 TCAAATGCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 21 0.84
19 4 0.16
ACGTcount: A:0.46, C:0.24, G:0.30, T:0.00
Consensus pattern (18 bp):
AGCAGAGGAACAAGCACA
Found at i:564357 original size:6 final size:6
Alignment explanation
Indices: 564346--564374 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
564336 AAGCAAAAGG
564346 AAATCA AAATCA AAATCA AAATCA AAATC
1 AAATCA AAATCA AAATCA AAATCA AAATC
564375 CCAATCACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATCA
Found at i:566283 original size:21 final size:21
Alignment explanation
Indices: 566259--566313 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
566249 GCGGGCGTGA
566259 CCTCTTAAACGATGACAGGGG
1 CCTCTTAAACGATGACAGGGG
* * *
566280 CCTCTTCAATGATGAGAGGGG
1 CCTCTTAAACGATGACAGGGG
*
566301 CCTCTTGAACGAT
1 CCTCTTAAACGAT
566314 AGGATATGCC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (21 bp):
CCTCTTAAACGATGACAGGGG
Found at i:566801 original size:20 final size:21
Alignment explanation
Indices: 566748--566804 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
566738 ATCTTCACGT
*
566748 AAAGTACCGACCTCATGACGC
1 AAAGCACCGACCTCATGACGC
566769 AAAGCACCGACCTCATGACGC
1 AAAGCACCGACCTCATGACGC
566790 AAAGCA-CGACCTCAT
1 AAAGCACCGACCTCAT
566805 CACGTAACTC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
20 9 0.26
21 26 0.74
ACGTcount: A:0.35, C:0.35, G:0.18, T:0.12
Consensus pattern (21 bp):
AAAGCACCGACCTCATGACGC
Found at i:568864 original size:22 final size:22
Alignment explanation
Indices: 568804--568871 Score: 84
Period size: 22 Copynumber: 3.1 Consensus size: 22
568794 GATGGAGATA
568804 GACGGATTTC-CCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
* *
568825 GACGGATTTCGCCAGAGATAGG
1 GACGGATTTCGCCGGAGATGGG
* **
568847 GATGGATTTCGTTGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
568869 GAC
1 GAC
568872 AGATGTTGCC
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
21 10 0.26
22 28 0.74
ACGTcount: A:0.22, C:0.15, G:0.41, T:0.22
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:569055 original size:20 final size:20
Alignment explanation
Indices: 569030--569075 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
569020 TAAACGCGCT
*
569030 TTGCGAATTTGACTTTTGTG
1 TTGCGAATTTGACTTCTGTG
569050 TTGCGAATTTGACTTCTGTG
1 TTGCGAATTTGACTTCTGTG
569070 TTGCGA
1 TTGCGA
569076 TTTACAAATT
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:0.15, C:0.13, G:0.26, T:0.46
Consensus pattern (20 bp):
TTGCGAATTTGACTTCTGTG
Found at i:569655 original size:20 final size:20
Alignment explanation
Indices: 569630--569863 Score: 213
Period size: 20 Copynumber: 11.6 Consensus size: 20
569620 GATTTTCCAT
** *
569630 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATCCGTA
**
569650 AATCGCAACGCGAA-CATATA
1 AATCGCAACGCGAATC-CGTA
* *
569670 AATCGCAACGCGATTCTG-A
1 AATCGCAACGCGAATCCGTA
* * *
569689 CTATCGCAACGAGTATCCGTAA
1 -AATCGCAACGCGAATCCGT-A
*
569711 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
569731 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATCCGTA
* *
569751 AATCGCAACGCGTATCTGTA
1 AATCGCAACGCGAATCCGTA
* *
569771 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATCCGTA
* *
569791 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
*
569811 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATCCGT-A
*
569832 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
569852 AATCGCAACGCG
1 AATCGCAACGCG
569864 GTTTTTAAAG
Statistics
Matches: 174, Mismatches: 32, Indels: 16
0.78 0.14 0.07
Matches are distributed among these distances:
19 1 0.01
20 137 0.79
21 35 0.20
22 1 0.01
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.18
Consensus pattern (20 bp):
AATCGCAACGCGAATCCGTA
Found at i:569734 original size:81 final size:80
Alignment explanation
Indices: 569630--569861 Score: 263
Period size: 81 Copynumber: 2.9 Consensus size: 80
569620 GATTTTCCAT
* ** * *
569630 AATCGCAACGCGAATATGAAAATCGCAACGCGAACATATAAATCGCAACGCG-ATTCTG-ACTAT
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAACATATAAATCGCAACGCGTA-TCTGTA-AAT
* *
569693 CGCAACGAGTATCCGTAA
64 CGCAACGAGAATACGT-A
* * **
569711 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTAAATCGCAACGCGTATCTGTAAATCG
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAACATATAAATCGCAACGCGTATCTGTAAATCG
569776 CAACGAGAATACGTA
66 CAACGAGAATACGTA
* * * *
569791 AATCGCAATGCGTATCCGTAAATCGCAACGACAATACGTA-AAATCGCAACGCGTATCCGTAAAT
1 AATCGCAACGCGTATCCGTAAATCGCAACG-CGA-ACATATAAATCGCAACGCGTATCTGTAAAT
569855 CGCAACG
64 CGCAACG
569862 CGGTTTTTAA
Statistics
Matches: 128, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
80 30 0.23
81 95 0.74
82 3 0.02
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.19
Consensus pattern (80 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAACATATAAATCGCAACGCGTATCTGTAAATCG
CAACGAGAATACGTA
Found at i:570413 original size:19 final size:19
Alignment explanation
Indices: 570391--570456 Score: 114
Period size: 19 Copynumber: 3.5 Consensus size: 19
570381 GAAACCAAAA
570391 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
570410 TCGCATTGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
*
570429 TCGCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
570448 TCGCATTGC
1 TCGCATTGC
570457 AATTCTCTCG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 43 1.00
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:570474 original size:33 final size:33
Alignment explanation
Indices: 570391--570474 Score: 89
Period size: 38 Copynumber: 2.4 Consensus size: 33
570381 GAAACCAAAA
*
570391 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTAATT
1 TCGCGTTGCGATTTTCATTTCGCATTGC-----TAATT
570429 TCGCGTTGCGATTTTCATTTCGCATTGC-AATT
1 TCGCGTTGCGATTTTCATTTCGCATTGCTAATT
*
570461 CTCTCGTTGCGATT
1 -TCGCGTTGCGATT
570475 CTCTCGTTGC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
32 4 0.09
33 12 0.28
38 27 0.63
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.45
Consensus pattern (33 bp):
TCGCGTTGCGATTTTCATTTCGCATTGCTAATT
Found at i:570475 original size:14 final size:14
Alignment explanation
Indices: 570453--570487 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
570443 TCATTTCGCA
*
570453 TTGCAATTCTCTCG
1 TTGCGATTCTCTCG
570467 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
570481 TTGCGAT
1 TTGCGAT
570488 AGTCATTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.11, C:0.26, G:0.20, T:0.43
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:570522 original size:20 final size:20
Alignment explanation
Indices: 570472--570534 Score: 83
Period size: 20 Copynumber: 3.1 Consensus size: 20
570462 TCTCGTTGCG
**
570472 ATTCTCTCGTTGCGATAGTC
1 ATTCTCTCGTTGCGATTTTC
*
570492 ATT-TCTGCGTTGCGATTTTT
1 ATTCTCT-CGTTGCGATTTTC
570512 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
570532 ATT
1 ATT
570535 TCAACCAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
19 3 0.08
20 31 0.84
21 3 0.08
ACGTcount: A:0.13, C:0.21, G:0.17, T:0.49
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:574127 original size:19 final size:18
Alignment explanation
Indices: 574105--574203 Score: 63
Period size: 19 Copynumber: 5.7 Consensus size: 18
574095 AAAAATGACT
574105 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
574124 ATCGCAA-CG--A-GAGA
1 ATCGCAAGCGAAATGAAA
*
574138 ATCGCAATGCGAAATTAAA
1 ATCGCAA-GCGAAATGAAA
*
574157 ATCGCAA-CG--A-CAAA
1 ATCGCAAGCGAAATGAAA
574171 ATCGCAACGCGAAACT-AAA
1 ATCGCAA-GCGAAA-TGAAA
574190 ATCGCAACGCGAAA
1 ATCGCAA-GCGAAA
574204 CTAAATTCGC
Statistics
Matches: 65, Mismatches: 4, Indels: 22
0.71 0.04 0.24
Matches are distributed among these distances:
14 20 0.31
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 33 0.51
ACGTcount: A:0.46, C:0.22, G:0.19, T:0.12
Consensus pattern (18 bp):
ATCGCAAGCGAAATGAAA
Found at i:574147 original size:33 final size:32
Alignment explanation
Indices: 574105--574198 Score: 134
Period size: 33 Copynumber: 2.8 Consensus size: 32
574095 AAAAATGACT
* *
574105 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAAT-AAAATCGCAACGACAAA
574138 ATCGCAATGCGAAATTAAAATCGCAACGACAAA
1 ATCGCAATGCGAAA-TAAAATCGCAACGACAAA
*
574171 ATCGCAACGCGAAACTAAAATCGCAACG
1 ATCGCAATGCGAAA-TAAAATCGCAACG
574199 CGAAACTAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
33 55 0.98
34 1 0.02
ACGTcount: A:0.46, C:0.22, G:0.19, T:0.13
Consensus pattern (32 bp):
ATCGCAATGCGAAATAAAATCGCAACGACAAA
Found at i:574220 original size:19 final size:19
Alignment explanation
Indices: 574137--574213 Score: 92
Period size: 19 Copynumber: 4.3 Consensus size: 19
574127 GCAACGAGAG
* *
574137 AATCGCAATGCGAAATTAA
1 AATCGCAACGCGAAACTAA
574156 AATCGCAA--CG--AC-AA
1 AATCGCAACGCGAAACTAA
574170 AATCGCAACGCGAAACTAA
1 AATCGCAACGCGAAACTAA
574189 AATCGCAACGCGAAACTAA
1 AATCGCAACGCGAAACTAA
*
574208 ATTCGC
1 AATCGC
574214 GTTGCGATTT
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
14 10 0.20
15 1 0.02
16 2 0.04
17 2 0.04
18 2 0.04
19 34 0.67
ACGTcount: A:0.45, C:0.25, G:0.16, T:0.14
Consensus pattern (19 bp):
AATCGCAACGCGAAACTAA
Found at i:574231 original size:19 final size:19
Alignment explanation
Indices: 574209--574295 Score: 83
Period size: 19 Copynumber: 4.7 Consensus size: 19
574199 CGAAACTAAA
*
574209 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
* **
574228 TTCGTATTGCGATAGTCAT
1 TTCGCATTGCGATTTTCAT
*
574247 TTCCGCGTTGCGATTTTCA-
1 TT-CGCATTGCGATTTTCAT
*
574266 --CG-TTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
574282 TTCGCATTGCGATT
1 TTCGCATTGCGATT
574296 CTCTCGTTGC
Statistics
Matches: 53, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
15 12 0.23
16 2 0.04
18 2 0.04
19 25 0.47
20 12 0.23
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.45
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:574326 original size:34 final size:35
Alignment explanation
Indices: 574211--574328 Score: 123
Period size: 34 Copynumber: 3.3 Consensus size: 35
574201 AAACTAAATT
*
574211 CGCGTTGCGATTTTCATTTCGTATTGCGATAGTCATTTC
1 CGCGTTGCGATTCTCA---CGT-TTGCGATAGTCATTTC
* **
574250 CGCGTTGCGATTTTCACGTTTGCGATTTTCATTT-
1 CGCGTTGCGATTCTCACGTTTGCGATAGTCATTTC
* * *
574284 CGCATTGCGATTCTCTCG-TTGCGATAGTAATTTC
1 CGCGTTGCGATTCTCACGTTTGCGATAGTCATTTC
574318 CGCGTTGCGAT
1 CGCGTTGCGAT
574329 AGACATTAAG
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
33 12 0.17
34 25 0.36
35 13 0.19
36 3 0.04
39 16 0.23
ACGTcount: A:0.14, C:0.22, G:0.22, T:0.42
Consensus pattern (35 bp):
CGCGTTGCGATTCTCACGTTTGCGATAGTCATTTC
Found at i:576879 original size:24 final size:24
Alignment explanation
Indices: 576845--576898 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
576835 CTGAAAAATC
576845 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
576869 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
576893 ATCAAA
1 ATCAAA
576899 TTTAGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:577772 original size:20 final size:19
Alignment explanation
Indices: 577751--578010 Score: 146
Period size: 20 Copynumber: 12.9 Consensus size: 19
577741 GCGATAGTCA
*
577751 GAATCTCGTTGCGATTTAC
1 GAATCGCGTTGCGATTTAC
* *
577770 AGATTCGCATTGCGATTTAC
1 -GAATCGCGTTGCGATTTAC
**
577790 GTGTTCGCGTTGCGATTTAC
1 G-AATCGCGTTGCGATTTAC
* *
577810 GTATTCGCATTGCGATTTAC
1 G-AATCGCGTTGCGATTTAC
* * *
577830 GGATACGCATTACGATTTAC
1 GAAT-CGCGTTGCGATTTAC
* * *
577850 GTATTCTCATTGCGATTTAC
1 G-AATCGCGTTGCGATTTAC
577870 -AGATACGCGTTGCGATTTAC
1 GA-AT-CGCGTTGCGATTTAC
* *
577890 GTATTCTCGTTGCGATTTAC
1 G-AATCGCGTTGCGATTTAC
*
577910 GGATACGCGTTGCGATTTTAC
1 GAAT-CGCGTTGCGA-TTTAC
* *
577931 GTATTGTCGTTGCGATTTAC
1 GAATCG-CGTTGCGATTTAC
* *
577951 GGATACGCATTGCGATTTTAC
1 GAAT-CGCGTTGCGA-TTTAC
* * *
577972 GGATACTCGTTGCGATAGT-C
1 GAAT-CGCGTTGCGAT-TTAC
*
577992 AGAATCGCATTGCGATTTA
1 -GAATCGCGTTGCGATTTA
578011 TATGTTCGCG
Statistics
Matches: 191, Mismatches: 34, Indels: 30
0.75 0.13 0.12
Matches are distributed among these distances:
18 1 0.01
19 5 0.03
20 143 0.75
21 41 0.21
22 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (19 bp):
GAATCGCGTTGCGATTTAC
Found at i:577801 original size:40 final size:40
Alignment explanation
Indices: 577757--577968 Score: 286
Period size: 40 Copynumber: 5.3 Consensus size: 40
577747 GTCAGAATCT
*
577757 CGTTGCGATTTACAG-ATTCGCATTGCGATTTACGTG-TTCG
1 CGTTGCGATTTAC-GTATTCGCATTGCGATTTACG-GATACG
577797 CGTTGCGATTTACGTATTCGCATTGCGATTTACGGATACG
1 CGTTGCGATTTACGTATTCGCATTGCGATTTACGGATACG
* * * *
577837 CATTACGATTTACGTATTCTCATTGCGATTTACAGATACG
1 CGTTGCGATTTACGTATTCGCATTGCGATTTACGGATACG
* *
577877 CGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGTATTCGCATTGCGATTTACGGATACG
*
577917 CGTTGCGATTTTACGTATT-GTCGTTGCGATTTACGGATACG
1 CGTTGCGA-TTTACGTATTCG-CATTGCGATTTACGGATACG
*
577958 CATTGCGATTT
1 CGTTGCGATTT
577969 TACGGATACT
Statistics
Matches: 157, Mismatches: 11, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 2 0.01
40 118 0.75
41 37 0.24
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (40 bp):
CGTTGCGATTTACGTATTCGCATTGCGATTTACGGATACG
Found at i:577804 original size:60 final size:59
Alignment explanation
Indices: 577739--578028 Score: 196
Period size: 60 Copynumber: 4.8 Consensus size: 59
577729 AAATTCAGTA
*
577739 TTGCGATAGTCAGAATCTCGTTGCGATTTACAGATTCGCATTGCGATTTACGTG-TTCGCG
1 TTGCGAT-GTCAGAATCTCGTTGCGATTTACAGATTCGCATTGCGATTTACG-GATACGCG
* * * * * * * * *
577799 TTGCGAT-TTACGTAT-TCGCATTGCGATTTACGGATACGCATTACGATTTACGTATTCTCA
1 TTGCGATGTCA-GAATCTCG--TTGCGATTTACAGATTCGCATTGCGATTTACGGATACGCG
* * * *
577859 TTGCGATTTACAG-ATACGCGTTGCGATTTAC-GTATTCTCGTTGCGATTTACGGATACGCG
1 TTGCGATGT-CAGAAT-CTCGTTGCGATTTACAG-ATTCGCATTGCGATTTACGGATACGCG
* * * * * * *
577919 TTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGCATTGCGATTTTACGGATACTCG
1 TTGCGATGTCA-G-AATCTCGTTGCGATTTACAGATTCGCATTGCGA-TTTACGGATACGCG
* * * *
577981 TTGCGATAGTCAGAATCGCATTGCGATTTATATG-TTCGCGTTGCGATT
1 TTGCGAT-GTCAGAATCTCGTTGCGATTTACA-GATTCGCATTGCGATT
578029 ATGAAAAATC
Statistics
Matches: 178, Mismatches: 36, Indels: 32
0.72 0.15 0.13
Matches are distributed among these distances:
58 5 0.03
59 5 0.03
60 91 0.51
61 48 0.27
62 27 0.15
63 2 0.01
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (59 bp):
TTGCGATGTCAGAATCTCGTTGCGATTTACAGATTCGCATTGCGATTTACGGATACGCG
Found at i:578127 original size:20 final size:20
Alignment explanation
Indices: 578084--578131 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
578074 CATAATCGCT
*
578084 TTGCGATTCTGGGAACTGAT
1 TTGCGATTCTGGGAACTGAG
*
578104 TTGCGATTCTGGAGATC-GAG
1 TTGCGATTCTGG-GAACTGAG
578124 TTGCGATT
1 TTGCGATT
578132 TTTATTTCGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 22 0.88
21 3 0.12
ACGTcount: A:0.19, C:0.15, G:0.31, T:0.35
Consensus pattern (20 bp):
TTGCGATTCTGGGAACTGAG
Found at i:578757 original size:76 final size:77
Alignment explanation
Indices: 578623--578771 Score: 257
Period size: 76 Copynumber: 1.9 Consensus size: 77
578613 GATGATAAAA
578623 ATAACTTCATCAAGGGAAGCTATCAATGGGTGACTAAAATATCGTTTCACCACACGATCTGAATT
1 ATAACTTCATCAAGGGAAGCTATCAATGGGTGACTAAAATATCGTTTCACCACACGATCTGAATT
*
578688 AGTCGATCTATT
66 AATCGATCTATT
*
578700 ATAACTTCATCAAGGGAAGCTATTAAT-GGTGACTAAAATATCGTTTCACCATC-CGATCTGAAT
1 ATAACTTCATCAAGGGAAGCTATCAATGGGTGACTAAAATATCGTTTCACCA-CACGATCTGAAT
578763 TAATCGATC
65 TAATCGATC
578772 AATAGATCGG
Statistics
Matches: 69, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
76 42 0.61
77 27 0.39
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.30
Consensus pattern (77 bp):
ATAACTTCATCAAGGGAAGCTATCAATGGGTGACTAAAATATCGTTTCACCACACGATCTGAATT
AATCGATCTATT
Found at i:583909 original size:15 final size:16
Alignment explanation
Indices: 583878--583910 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
583868 ATGACCTTTG
583878 TTTCTATTTTAATTTT
1 TTTCTATTTTAATTTT
583894 TTTC-ATTTTCAATTTT
1 TTTCTATTTT-AATTTT
583910 T
1 T
583911 AGATTGAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTCTATTTTAATTTT
Found at i:584104 original size:18 final size:18
Alignment explanation
Indices: 584081--584116 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
584071 AAACTTATTC
584081 ATAATTATAAAT-TTTTTT
1 ATAATT-TAAATATTTTTT
584099 ATAATTTAAATATTTTTT
1 ATAATTTAAATATTTTTT
584117 GTTTTTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
ATAATTTAAATATTTTTT
Found at i:584114 original size:17 final size:18
Alignment explanation
Indices: 584081--584115 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
584071 AAACTTATTC
*
584081 ATAATTATAAATTTTTTT
1 ATAATTATAAATATTTTT
584099 ATAATT-TAAATATTTTT
1 ATAATTATAAATATTTTT
584116 TGTTTTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATAATTATAAATATTTTT
Found at i:585237 original size:16 final size:16
Alignment explanation
Indices: 585218--585263 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
585208 ATATTACTTC
585218 AATAATATATATTTAT
1 AATAATATATATTTAT
*
585234 AATAA-AAATATTT-T
1 AATAATATATATTTAT
585248 AATTAATATATATTTA
1 AA-TAATATATATTTA
585264 CTCTTGTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
14 3 0.12
15 10 0.40
16 12 0.48
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AATAATATATATTTAT
Found at i:586603 original size:28 final size:27
Alignment explanation
Indices: 586571--586630 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
586561 ATTCGCAACA
*
586571 CGAACTTGGACATATGTA-AATCGCAATG
1 CGAACTTGGAC-T-TGGACAATCGCAATG
*
586599 CGAACTTGGACTTGGACTATCGCAATG
1 CGAACTTGGACTTGGACAATCGCAATG
586626 CGAAC
1 CGAAC
586631 GTGAACTATC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 3 0.10
27 15 0.52
28 11 0.38
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (27 bp):
CGAACTTGGACTTGGACAATCGCAATG
Found at i:586758 original size:6 final size:6
Alignment explanation
Indices: 586747--586771 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
586737 GACACGTATT
586747 ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG A
586772 GACGAGACGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.48, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:587290 original size:6 final size:6
Alignment explanation
Indices: 587279--587314 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
587269 TCTCGTCTCG
587279 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
587315 AGTAATACGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.00, C:0.17, G:0.50, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:587425 original size:21 final size:21
Alignment explanation
Indices: 587399--587468 Score: 97
Period size: 21 Copynumber: 3.3 Consensus size: 21
587389 CAACCAGTCG
587399 TTGCGATAGCCGACTATCGCA
1 TTGCGATAGCCGACTATCGCA
* *
587420 TTGCGATAGTCCAAGT-TCGCA
1 TTGCGATAG-CCGACTATCGCA
*
587441 TTGCGATAGTCGACTATCGCA
1 TTGCGATAGCCGACTATCGCA
587462 TTGCGAT
1 TTGCGAT
587469 TTACATATTA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
20 3 0.07
21 35 0.83
22 4 0.10
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (21 bp):
TTGCGATAGCCGACTATCGCA
Found at i:587484 original size:20 final size:20
Alignment explanation
Indices: 587457--587524 Score: 99
Period size: 20 Copynumber: 3.6 Consensus size: 20
587447 TAGTCGACTA
587457 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
*
587477 TAGCATTGCGA--TAC-TA-
1 TCGCATTGCGATTTACATAT
587493 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
587513 TCGCATTGCGAT
1 TCGCATTGCGAT
587525 AGTCCAAGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
16 10 0.24
17 2 0.05
18 6 0.14
19 2 0.05
20 22 0.52
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.37
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:587500 original size:36 final size:36
Alignment explanation
Indices: 587453--587525 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
587443 GCGATAGTCG
587453 ACTATCGCATTGCGATTTACATATTAGCATTGCGAT
1 ACTATCGCATTGCGATTTACATATTAGCATTGCGAT
*
587489 ACTATCGCATTGCGATTTACATATTCGCATTGCGAT
1 ACTATCGCATTGCGATTTACATATTAGCATTGCGAT
587525 A
1 A
587526 GTCCAAGTTC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (36 bp):
ACTATCGCATTGCGATTTACATATTAGCATTGCGAT
Found at i:587542 original size:21 final size:21
Alignment explanation
Indices: 587512--587562 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
587502 GATTTACATA
*
587512 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
587533 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
587554 TTCGCGTTG
1 TTCGCGTTG
587563 TGAATCTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.18, C:0.22, G:0.29, T:0.31
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:597745 original size:8 final size:8
Alignment explanation
Indices: 597734--597775 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
597724 TTGACCCGAT
597734 CCGTTGAC
1 CCGTTGAC
597742 CCGTTGA-
1 CCGTTGAC
597749 CCGTTGAC
1 CCGTTGAC
*
597757 TCGTTGAC
1 CCGTTGAC
597765 CGGCGTTGAC
1 C--CGTTGAC
597775 C
1 C
597776 AGTGTTGACC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 7 0.24
8 14 0.48
10 8 0.28
ACGTcount: A:0.12, C:0.33, G:0.29, T:0.26
Consensus pattern (8 bp):
CCGTTGAC
Found at i:597754 original size:15 final size:15
Alignment explanation
Indices: 597734--597766 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
597724 TTGACCCGAT
597734 CCGTTGACCCGTTGA
1 CCGTTGACCCGTTGA
*
597749 CCGTTGACTCGTTGA
1 CCGTTGACCCGTTGA
597764 CCG
1 CCG
597767 GCGTTGACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.33, G:0.27, T:0.27
Consensus pattern (15 bp):
CCGTTGACCCGTTGA
Found at i:599101 original size:18 final size:18
Alignment explanation
Indices: 599075--599110 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
599065 TCGAAAGGAC
*
599075 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
599093 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
599111 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:600329 original size:24 final size:24
Alignment explanation
Indices: 600211--600326 Score: 171
Period size: 24 Copynumber: 4.8 Consensus size: 24
600201 TTCGATTTGA
*
600211 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATATGATACTTGACATGG
*
600235 ATTCTGATATGATA-TCTGACATAG
1 ATTCTGATATGATACT-TGACATGG
*
600259 ATTCTGATATGATACTTGACTTGG
1 ATTCTGATATGATACTTGACATGG
*
600283 ATTCTGATATGATACTTGACCTGG
1 ATTCTGATATGATACTTGACATGG
*
600307 ATTTTGATATGATACTTGAC
1 ATTCTGATATGATACTTGAC
600327 CTGATTTATG
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
23 1 0.01
24 82 0.98
25 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.40
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACATGG
Found at i:606666 original size:60 final size:59
Alignment explanation
Indices: 606550--606723 Score: 183
Period size: 60 Copynumber: 2.9 Consensus size: 59
606540 ATTATGACAC
* * * * *
606550 TCATTTTAAATTAGTCTTTAAACTTTTAAAC-TTTCTAATTTCATCCTTAAACTATGACTAT
1 TCATTCTAAATTAGTCCTCAAACTTTTGAACATTTC-AATTTCATCC-CAAACTATGA-TAT
* * * *
606611 T-ATTCTAGATTAGTCCTCAAACTTCTGAACATTTCAATTTCATGCCCAAAGTATGATTT
1 TCATTCTAAATTAGTCCTCAAACTTTTGAACATTTCAATTTCAT-CCCAAACTATGATAT
* *
606670 TCATTCTAAATTGGTCC-CAAACTTTTTGAACATTTCAATTCCATCCCAAACTAT
1 TCATTCTAAATTAGTCCTCAAAC-TTTTGAACATTTCAATTTCATCCCAAACTAT
606724 ATGTATATAC
Statistics
Matches: 95, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
59 17 0.18
60 71 0.75
61 7 0.07
ACGTcount: A:0.32, C:0.21, G:0.06, T:0.41
Consensus pattern (59 bp):
TCATTCTAAATTAGTCCTCAAACTTTTGAACATTTCAATTTCATCCCAAACTATGATAT
Found at i:606914 original size:60 final size:60
Alignment explanation
Indices: 606863--606978 Score: 142
Period size: 60 Copynumber: 1.9 Consensus size: 60
606853 TAGAAGATTC
** * * *
606863 AAAAGTTTGGGGACTAATTTAAAATTAAAATCATAATTTGGGGATGAAATTAAAATATCA
1 AAAAGTTTAAGGACTAATTTAAAATGAAAATCATAATTTGAGAATGAAATTAAAATATCA
* * * * *
606923 AAAAGTTTAAGGACTGATTTATAATGAGATTCATAATTTGAGAATGAAATTGAAAT
1 AAAAGTTTAAGGACTAATTTAAAATGAAAATCATAATTTGAGAATGAAATTAAAAT
606979 GTTTAAAAGA
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
60 46 1.00
ACGTcount: A:0.46, C:0.04, G:0.17, T:0.33
Consensus pattern (60 bp):
AAAAGTTTAAGGACTAATTTAAAATGAAAATCATAATTTGAGAATGAAATTAAAATATCA
Found at i:607876 original size:19 final size:19
Alignment explanation
Indices: 607854--607900 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
607844 GACCGATTTC
*
607854 GACCGGTTTGAATCGGTCT
1 GACCGGTCTGAATCGGTCT
*
607873 GACCGGTCTGAATCGGTTT
1 GACCGGTCTGAATCGGTCT
607892 GACCGGTCT
1 GACCGGTCT
607901 TACCCGACCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.15, C:0.23, G:0.32, T:0.30
Consensus pattern (19 bp):
GACCGGTCTGAATCGGTCT
Found at i:616574 original size:17 final size:17
Alignment explanation
Indices: 616533--616597 Score: 78
Period size: 17 Copynumber: 3.8 Consensus size: 17
616523 ATGTTTATGA
*
616533 GGGAATTGGAATCTGT-
1 GGGAATTGGAATCTATC
*
616549 GAAGGAATTAGAATCTATC
1 G--GGAATTGGAATCTATC
*
616568 GGGAATTGGAATCTGTC
1 GGGAATTGGAATCTATC
616585 GGGAATTGGAATC
1 GGGAATTGGAATC
616598 CAATTCCATA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
16 1 0.02
17 27 0.64
18 13 0.31
19 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.32, T:0.28
Consensus pattern (17 bp):
GGGAATTGGAATCTATC
Found at i:618839 original size:36 final size:37
Alignment explanation
Indices: 618768--618851 Score: 118
Period size: 37 Copynumber: 2.3 Consensus size: 37
618758 ATCCCATTAT
618768 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAACAAACATCTACCAAACTTTGAAAAAC
* * *
618804 TATTTTTCAAATAAACATTTACCAAACTTTG-AAAAC
1 CATTTTTCAAACAAACATCTACCAAACTTTGAAAAAC
618840 CATTTTTTCAAA
1 CA-TTTTTCAAA
618852 GTTGGTTACC
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
36 13 0.31
37 29 0.69
ACGTcount: A:0.43, C:0.20, G:0.02, T:0.35
Consensus pattern (37 bp):
CATTTTTCAAACAAACATCTACCAAACTTTGAAAAAC
Found at i:622938 original size:16 final size:16
Alignment explanation
Indices: 622914--622947 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
622904 TGTCGCCGAT
*
622914 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
622930 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
622946 CG
1 CG
622948 TGAATAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:623413 original size:36 final size:37
Alignment explanation
Indices: 623342--623425 Score: 118
Period size: 37 Copynumber: 2.3 Consensus size: 37
623332 ATCCCATTAT
623342 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAACAAACATCTACCAAACTTTGAAAAAC
* * *
623378 TATTTTTCAAATAAACATTTACCAAACTTTG-AAAAC
1 CATTTTTCAAACAAACATCTACCAAACTTTGAAAAAC
623414 CATTTTTTCAAA
1 CA-TTTTTCAAA
623426 GTTGGTTACC
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
36 13 0.31
37 29 0.69
ACGTcount: A:0.43, C:0.20, G:0.02, T:0.35
Consensus pattern (37 bp):
CATTTTTCAAACAAACATCTACCAAACTTTGAAAAAC
Found at i:624063 original size:5 final size:5
Alignment explanation
Indices: 624053--624087 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
624043 GATTTAAATT
624053 ATTAA ATTAA ATTAA ATTAAA ATTAA GATTAA ATT
1 ATTAA ATTAA ATTAA ATT-AA ATTAA -ATTAA ATT
624088 GAAAAACGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 18 0.64
6 10 0.36
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (5 bp):
ATTAA
Found at i:624068 original size:10 final size:10
Alignment explanation
Indices: 624053--624087 Score: 52
Period size: 11 Copynumber: 3.3 Consensus size: 10
624043 GATTTAAATT
624053 ATTAAATTAA
1 ATTAAATTAA
624063 ATTAAATTAAA
1 ATTAAATT-AA
624074 ATTAAGATTAA
1 ATTAA-ATTAA
624085 ATT
1 ATT
624088 GAAAAACGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 8 0.35
11 12 0.52
12 3 0.13
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (10 bp):
ATTAAATTAA
Found at i:627457 original size:30 final size:30
Alignment explanation
Indices: 627421--627487 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
627411 AAGGAACATA
* *
627421 TGGATAGTTGCCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATAACCTC
* * *
627451 TGGATAGTTACCGGGGTTCTTTGTAACCTC
1 TGGATAGTTACCGAGGATCTTTATAACCTC
627481 TGGATAG
1 TGGATAG
627488 GTCCTTCGGG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.19, C:0.18, G:0.28, T:0.34
Consensus pattern (30 bp):
TGGATAGTTACCGAGGATCTTTATAACCTC
Found at i:632357 original size:30 final size:30
Alignment explanation
Indices: 632321--632384 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
632311 AAGGAACATA
* *
632321 TGGATAGTTGCCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATAACCTC
* * *
632351 TGGATAGTTACCGGGGTTCTTTGTAACCTC
1 TGGATAGTTACCGAGGATCTTTATAACCTC
632381 TGGA
1 TGGA
632385 CAGGTCCTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (30 bp):
TGGATAGTTACCGAGGATCTTTATAACCTC
Found at i:639012 original size:23 final size:24
Alignment explanation
Indices: 638986--639040 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
638976 TTTCTTTTTT
*
638986 CTTAATCAAA-ACT-TTTAGTACTC
1 CTTAATCAAAGA-TATTCAGTACTC
639009 CTT-ATCAAAGATATTCAGTACTC
1 CTTAATCAAAGATATTCAGTACTC
*
639032 CTTATTCAA
1 CTTAATCAA
639041 TACCTCCACA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 7 0.26
23 16 0.59
24 4 0.15
ACGTcount: A:0.35, C:0.22, G:0.05, T:0.38
Consensus pattern (24 bp):
CTTAATCAAAGATATTCAGTACTC
Found at i:641055 original size:2 final size:2
Alignment explanation
Indices: 641050--641079 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
641040 ATACTTACAC
*
641050 AT AT AT AA 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
641080 CTTTTGGAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:651373 original size:17 final size:18
Alignment explanation
Indices: 651351--651384 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
651341 TTGAAGGGTC
*
651351 TGGAA-TAAATGATAAGT
1 TGGAATTAAATAATAAGT
651368 TGGAATTAAATAATAAG
1 TGGAATTAAATAATAAG
651385 ACAGAATTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (18 bp):
TGGAATTAAATAATAAGT
Found at i:657473 original size:172 final size:169
Alignment explanation
Indices: 657157--657498 Score: 657
Period size: 172 Copynumber: 2.0 Consensus size: 169
657147 TGAGGTCCGA
657157 ACTCGAAACTGTTTGTCTGCCACCGGTTGCTGACGATATCAGCTTTCTTTTGTTCTTTTGATATC
1 ACTCGAAACTGTTTGTCTGCCACCGGTTGCTGACGATATCAGCTTTCTTTTGTTCTTTTGATATC
657222 CGCCTCCGACGGGAACATTTCTCAAGATGGAATCGAGTAACACCAAGTTCGGTTACTACAACAAC
66 CGCCTCCGACGGGAACATTTCTCAAGATGGAATCGAGTAACACCAAGTTCGGTTACTACAACAAC
657287 TACAGTCTCACACAGCCTCGATAGTTTATCGCCGAGCCG
131 TACAGTCTCACACAGCCTCGATAGTTTATCGCCGAGCCG
657326 ACTCGAAACTGTTTGTCTGCCACCGGTTGCTGACGATATCAGCTGTTTCTTTTGTTCTTTTGATA
1 ACTCGAAACTGTTTGTCTGCCACCGGTTGCTGACGATATCAGC--TTTCTTTTGTTCTTTTGATA
657391 TCCGCCTCCGACGGGAACATTTCTCAAGATGTGAATCGAGTAACACCAAGTTCGGTTACTACAAC
64 TCCGCCTCCGACGGGAACATTTCTCAAGATG-GAATCGAGTAACACCAAGTTCGGTTACTACAAC
657456 AACTACAGTCTCACACAGCCTCGATAGTTTATCGCCGAGCCG
128 AACTACAGTCTCACACAGCCTCGATAGTTTATCGCCGAGCCG
657498 A
1 A
657499 GGCTGCCCAA
Statistics
Matches: 170, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
169 43 0.25
171 51 0.30
172 76 0.45
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (169 bp):
ACTCGAAACTGTTTGTCTGCCACCGGTTGCTGACGATATCAGCTTTCTTTTGTTCTTTTGATATC
CGCCTCCGACGGGAACATTTCTCAAGATGGAATCGAGTAACACCAAGTTCGGTTACTACAACAAC
TACAGTCTCACACAGCCTCGATAGTTTATCGCCGAGCCG
Found at i:659897 original size:33 final size:36
Alignment explanation
Indices: 659827--659905 Score: 92
Period size: 34 Copynumber: 2.3 Consensus size: 36
659817 TCCGACCTTG
* *
659827 TTTATATGATATTATATTATATGCTTATGTAACTTA
1 TTTATATGATAATATATTATATGCATATGTAACTTA
**
659863 TTTATAT-ATAATAT-TTATATGCATAT-TATGTTA
1 TTTATATGATAATATATTATATGCATATGTAACTTA
*
659896 TTTATGTGAT
1 TTTATATGAT
659906 TTATGTCATA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
33 11 0.30
34 13 0.35
35 6 0.16
36 7 0.19
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.54
Consensus pattern (36 bp):
TTTATATGATAATATATTATATGCATATGTAACTTA
Found at i:660020 original size:25 final size:25
Alignment explanation
Indices: 659985--660059 Score: 66
Period size: 25 Copynumber: 3.0 Consensus size: 25
659975 CATTATACCG
659985 TTATATGTATTATATTTATTTTTATA
1 TTATA-GTATTATATTTATTTTTATA
** *
660011 TTATAGTATTGA-ACATATATTTATA
1 TTATAGTATT-ATATTTATTTTTATA
660036 TTATA-TATT-TATTATATGTTTTAT
1 TTATAGTATTATATT-TAT-TTTTAT
660060 TTGGTATCAG
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
23 1 0.03
24 7 0.18
25 25 0.64
26 6 0.15
ACGTcount: A:0.33, C:0.01, G:0.05, T:0.60
Consensus pattern (25 bp):
TTATAGTATTATATTTATTTTTATA
Found at i:661131 original size:99 final size:100
Alignment explanation
Indices: 660991--661177 Score: 258
Period size: 100 Copynumber: 1.9 Consensus size: 100
660981 TTTGAGCTTT
* * *
660991 AATTTAATTTTAGTTTCTTTTTTTCTTTTAAATCTACCATTCA-TTTATTTCGTTTTTTTAATTT
1 AATTTAATTTTAATTTCTTTTTTTCTTTCAAATCTACCATTCATTTTATTTC--TTTTTTAATAT
661055 GGTCA-TTTTATTTAATTCATGTTACATTATGTTTTA
64 GGTCATTTTTATTTAATTCATGTTACATTATGTTTTA
*
661091 AATTTAA-TTTAATTT-TTCTTTTTCTTTCAAAT-TCGCCATTCATTTTATTTCTTTTTTAATAT
1 AATTTAATTTTAATTTCTT-TTTTTCTTTCAAATCT-ACCATTCATTTTATTTCTTTTTTAATAT
661153 GGTCATTTTTTATTTAATTCATGTT
64 GGTCA-TTTTTATTTAATTCATGTT
661178 TTTTTGTTTT
Statistics
Matches: 78, Mismatches: 4, Indels: 10
0.85 0.04 0.11
Matches are distributed among these distances:
98 18 0.23
99 27 0.35
100 33 0.42
ACGTcount: A:0.23, C:0.11, G:0.05, T:0.61
Consensus pattern (100 bp):
AATTTAATTTTAATTTCTTTTTTTCTTTCAAATCTACCATTCATTTTATTTCTTTTTTAATATGG
TCATTTTTATTTAATTCATGTTACATTATGTTTTA
Found at i:661211 original size:13 final size:12
Alignment explanation
Indices: 661184--661221 Score: 51
Period size: 13 Copynumber: 3.2 Consensus size: 12
661174 TGTTTTTTTG
661184 TTTT-TTTATTT
1 TTTTATTTATTT
661195 TTTTATTTATTT
1 TTTTATTTATTT
*
661207 CTTTTACTTATTT
1 -TTTTATTTATTT
661220 TT
1 TT
661222 ATTTTGTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
11 4 0.17
12 9 0.38
13 11 0.46
ACGTcount: A:0.13, C:0.05, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTATTTATTT
Found at i:661233 original size:29 final size:31
Alignment explanation
Indices: 661186--661244 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 31
661176 TTTTTTTGTT
* *
661186 TTTTTATTTTTTTATTTATTTCTTTTACTTA
1 TTTTTATTTTTGTATTTATTTCTTTCACTTA
661217 TTTTTA-TTTTGTA-TTATTTCTTTCACTT
1 TTTTTATTTTTGTATTTATTTCTTTCACTT
661245 TCATAGTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 14 0.54
30 6 0.23
31 6 0.23
ACGTcount: A:0.15, C:0.08, G:0.02, T:0.75
Consensus pattern (31 bp):
TTTTTATTTTTGTATTTATTTCTTTCACTTA
Found at i:662679 original size:23 final size:22
Alignment explanation
Indices: 662615--662688 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
662605 AATTTAAAAC
* *
662615 AAATATT-TTATTTTAAATTAAT
1 AAATATTATT-TTTAAAATAAAT
* *
662637 AAAT-TTACTTTTTATAATAATT
1 AAATATTA-TTTTTAAAATAAAT
*
662659 TAATATTATTTTTAAAGATAAAT
1 AAATATTATTTTTAAA-ATAAAT
662682 AAATATT
1 AAATATT
662689 TAATATCTTT
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
21 2 0.05
22 22 0.55
23 16 0.40
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (22 bp):
AAATATTATTTTTAAAATAAAT
Found at i:663688 original size:23 final size:23
Alignment explanation
Indices: 663662--663706 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
663652 CACCACAGCT
*
663662 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
663685 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
663707 ATATAATGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:665226 original size:21 final size:21
Alignment explanation
Indices: 665200--665244 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
665190 GATTTCTGGG
* *
665200 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
665221 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
665242 CAA
1 CAA
665245 ACGACAGAAT
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:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:665314 original size:23 final size:22
Alignment explanation
Indices: 665270--665314 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
665260 AATGCCAGAG
*
665270 GGGAACCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
*
665292 GGGAACCGATTCCCCCTAAAGGA
1 GGGAACCGATACCCCC-AAAGGA
665315 AAATGTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.31, C:0.33, G:0.27, T:0.09
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:665593 original size:24 final size:24
Alignment explanation
Indices: 665574--665620 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
665564 CCTATGTTTA
*
665574 ATGCATGA-ATATATTATATGTAT
1 ATGCATGACATAAATTATATGTAT
*
665597 ATGCATGACATAAATTGTATGTAT
1 ATGCATGACATAAATTATATGTAT
665621 GCATGATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.40
Consensus pattern (24 bp):
ATGCATGACATAAATTATATGTAT
Found at i:666586 original size:30 final size:30
Alignment explanation
Indices: 666551--666666 Score: 198
Period size: 30 Copynumber: 3.9 Consensus size: 30
666541 TATGGAAAGT
666551 TTACCGAGGATCTTTATGACCTCTGGACAG
1 TTACCGAGGATCTTTATGACCTCTGGACAG
666581 TTACCGAGGATCTTTATGACCTCTGGACAG
1 TTACCGAGGATCTTTATGACCTCTGGACAG
666611 TTACCGAGGATCTTTATGACCTCTGGACAG
1 TTACCGAGGATCTTTATGACCTCTGGACAG
* * *
666641 TTATCG-GGGTCTTTGTGACCTCTGGA
1 TTACCGAGGATCTTTATGACCTCTGGA
666667 TAGGTCCTTC
Statistics
Matches: 83, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
29 18 0.22
30 65 0.78
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.32
Consensus pattern (30 bp):
TTACCGAGGATCTTTATGACCTCTGGACAG
Found at i:667285 original size:30 final size:30
Alignment explanation
Indices: 667250--667365 Score: 198
Period size: 30 Copynumber: 3.9 Consensus size: 30
667240 TATGGAAAGT
667250 TTACCGAGGATCTTTATGACCTCTGGACAG
1 TTACCGAGGATCTTTATGACCTCTGGACAG
667280 TTACCGAGGATCTTTATGACCTCTGGACAG
1 TTACCGAGGATCTTTATGACCTCTGGACAG
*
667310 TTACTGAGGATCTTTATGACCTCTGGACAG
1 TTACCGAGGATCTTTATGACCTCTGGACAG
* *
667340 TTACCG-GGGTCTTTGTGACCTCTGGA
1 TTACCGAGGATCTTTATGACCTCTGGA
667366 TAGGTCCTTC
Statistics
Matches: 82, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
29 18 0.22
30 64 0.78
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.32
Consensus pattern (30 bp):
TTACCGAGGATCTTTATGACCTCTGGACAG
Found at i:667325 original size:699 final size:698
Alignment explanation
Indices: 666232--667632 Score: 2775
Period size: 699 Copynumber: 2.0 Consensus size: 698
666222 AAGTATGATT
666232 TATGTGAATAAGATATGATAAGTATGTTTACCTGAATAAAGGTGATTGGGTGAGAAATGATAGAA
1 TATGTGAATAAGATATGATAAGTATGTTTACCTGAATAAAGGTGATTGGGTGAGAAATGATAGAA
666297 ATTATCTGAAAACATGATATATGTGACATGTGAATTATATGGAAATGATCTACGTGTAAGTGAAC
66 ATTATCTGAAAACATGATATATGTGACATGTGAATTATATGGAAATGATCTACGTGTAAGTGAAC
666362 TATGTGACTATGTGATGATATGAAAGAAGCTATGCGATACGTGATATGTGAAAGTGAATTACAAG
131 TATGTGACTATGTGATGATATGAAAGAAGCTATGCGATACGTGATATGTGAAAGTGAATTACAAG
666427 TTTATGTGAATATTTGAAATGAAATTAATGATAACGCCCATGTTATGTGTCATGAGAGCTAGGGG
196 TTTATGTGAATATTTGAAATGAAATTAATGATAACGCCCATGTTATGTGTCATGAGAGCTAGGGG
666492 TATAGTTGGCATGCCAAGAGTCGAGGGTTTACCTATGTCTTTCGAGACATATGGAAAGTTTACCG
261 TATAGTTGGCATGCCAAGAGTCGAGGGTTTACCTATGTCTTTCGAGACATATGGAAAGTTTACCG
666557 AGGATCTTTATGACCTCTGGACAGTTACCGAGGATCTTTATGACCTCTGGACAGTTACCGAGGAT
326 AGGATCTTTATGACCTCTGGACAGTTACCGAGGATCTTTATGACCTCTGGACAGTTACCGAGGAT
*
666622 CTTTATGACCTCTGGACAGTTATCGGGGTCTTTGTGACCTCTGGATAGGTCCTTCGGGACATTTA
391 CTTTATGACCTCTGGACAGTTACCGGGGTCTTTGTGACCTCTGGATAGGTCCTTCGGGACATTTA
666687 TATGAGCTGTGGTGACAGCATAGTGGTGCACAACCTCAATAGACTCACATATCTACAGTTCTCAC
456 TATGAGCTGTGGTGACAGCATAGTGGTGCACAACCTCAATAGACTCACATATCTACAGTTCTCAC
666752 AGGTTCACATGGGCTAATAAGAGATAACATGGAATGTACTGTATATGATATATGTGTGTGAGTGA
521 AGGTTCACATGGGCTAATAAGAGATAACATGGAATGTACTGTATATGATATATGTGTGTGAGTGA
666817 TTATTGTATATGCTATAAGATATAGGATATGAGCTTAATTGATTATATGAACAAGAGAATAGAAA
586 TTATTGTATATGCTATAAGATATAGGATATGAGCTTAATTGATTATATGAACAAGAGAATAGAAA
666882 TATGAAAGGTGATAATATGATAATGATAGGAAAGAAGATAATTATATG
651 TATGAAAGGTGATAATATGATAATGATAGGAAAGAAGATAATTATATG
666930 TATGTGAATAAGATATGATAAGTATGTTTACCTGAATAAAGGTGATTGGGTGAGAAATGATAGAA
1 TATGTGAATAAGATATGATAAGTATGTTTACCTGAATAAAGGTGATTGGGTGAGAAATGATAGAA
666995 ATTATCTGAAAACATGATATATGTGACATGTGAATTATATGGAAATGATCTACGTGTAAGTGAAC
66 ATTATCTGAAAACATGATATATGTGACATGTGAATTATATGGAAATGATCTACGTGTAAGTGAAC
667060 TATGTGACTATGTGATGATATGAAAAGAAGCTATGCGATACGTGATATGTGAAAGTGAATTACAA
131 TATGTGACTATGTGATGATATG-AAAGAAGCTATGCGATACGTGATATGTGAAAGTGAATTACAA
667125 GTTTATGTGAATATTTGAAATGAAATTAATGATAACGCCCATGTTATGTGTCATGAGAGCTAGGG
195 GTTTATGTGAATATTTGAAATGAAATTAATGATAACGCCCATGTTATGTGTCATGAGAGCTAGGG
667190 GTATAGTTGGCATGCCAAGAGTCGAGGGTTTACCTATGTCTTTCGAGACATATGGAAAGTTTACC
260 GTATAGTTGGCATGCCAAGAGTCGAGGGTTTACCTATGTCTTTCGAGACATATGGAAAGTTTACC
*
667255 GAGGATCTTTATGACCTCTGGACAGTTACCGAGGATCTTTATGACCTCTGGACAGTTACTGAGGA
325 GAGGATCTTTATGACCTCTGGACAGTTACCGAGGATCTTTATGACCTCTGGACAGTTACCGAGGA
667320 TCTTTATGACCTCTGGACAGTTACCGGGGTCTTTGTGACCTCTGGATAGGTCCTTCGGGACATTT
390 TCTTTATGACCTCTGGACAGTTACCGGGGTCTTTGTGACCTCTGGATAGGTCCTTCGGGACATTT
667385 ATATGAGCTGTGGTGACAGCATAGTGGTGCACAACCTCAATAGACTCACATATCTACAGTTCTCA
455 ATATGAGCTGTGGTGACAGCATAGTGGTGCACAACCTCAATAGACTCACATATCTACAGTTCTCA
667450 CAGGTTCACATGGGCTAATAAGAGATAACATGGAATGTACTGTATATGATATATGTGTGTGAGTG
520 CAGGTTCACATGGGCTAATAAGAGATAACATGGAATGTACTGTATATGATATATGTGTGTGAGTG
667515 ATTATTGTATATGCTATAAGATATAGGATATGAGCTTAATTGATTATATGAACAAGAGAATAGAA
585 ATTATTGTATATGCTATAAGATATAGGATATGAGCTTAATTGATTATATGAACAAGAGAATAGAA
667580 ATATGAAAGGTGATAATATGATAATGATAGGAAAGAAGATAATTATATG
650 ATATGAAAGGTGATAATATGATAATGATAGGAAAGAAGATAATTATATG
667629 TATG
1 TATG
667633 CGTGGATATG
Statistics
Matches: 700, Mismatches: 2, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
698 152 0.22
699 548 0.78
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (698 bp):
TATGTGAATAAGATATGATAAGTATGTTTACCTGAATAAAGGTGATTGGGTGAGAAATGATAGAA
ATTATCTGAAAACATGATATATGTGACATGTGAATTATATGGAAATGATCTACGTGTAAGTGAAC
TATGTGACTATGTGATGATATGAAAGAAGCTATGCGATACGTGATATGTGAAAGTGAATTACAAG
TTTATGTGAATATTTGAAATGAAATTAATGATAACGCCCATGTTATGTGTCATGAGAGCTAGGGG
TATAGTTGGCATGCCAAGAGTCGAGGGTTTACCTATGTCTTTCGAGACATATGGAAAGTTTACCG
AGGATCTTTATGACCTCTGGACAGTTACCGAGGATCTTTATGACCTCTGGACAGTTACCGAGGAT
CTTTATGACCTCTGGACAGTTACCGGGGTCTTTGTGACCTCTGGATAGGTCCTTCGGGACATTTA
TATGAGCTGTGGTGACAGCATAGTGGTGCACAACCTCAATAGACTCACATATCTACAGTTCTCAC
AGGTTCACATGGGCTAATAAGAGATAACATGGAATGTACTGTATATGATATATGTGTGTGAGTGA
TTATTGTATATGCTATAAGATATAGGATATGAGCTTAATTGATTATATGAACAAGAGAATAGAAA
TATGAAAGGTGATAATATGATAATGATAGGAAAGAAGATAATTATATG
Found at i:667662 original size:2 final size:2
Alignment explanation
Indices: 667638--667689 Score: 77
Period size: 2 Copynumber: 26.0 Consensus size: 2
667628 GTATGCGTGG
* * *
667638 AT AT GT AT AT GT AT AT GT 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
667680 AT AT AT AT AT
1 AT AT AT AT AT
667690 GAAAGGTGCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:670818 original size:21 final size:21
Alignment explanation
Indices: 670792--670836 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
670782 GATTTCTGGG
* *
670792 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
670813 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
670834 CAA
1 CAA
670837 ACGACAGAAT
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:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:671211 original size:24 final size:24
Alignment explanation
Indices: 671167--671214 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
671157 CCTATGTTTA
*
671167 ATGCATGAATATTATTATATGTAT
1 ATGCATGAATATAATTATATGTAT
*
671191 ATGCATGACATA-AATTGTATGTAT
1 ATGCATGA-ATATAATTATATGTAT
671215 GCATGATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.42
Consensus pattern (24 bp):
ATGCATGAATATAATTATATGTAT
Found at i:672193 original size:30 final size:30
Alignment explanation
Indices: 672158--672271 Score: 198
Period size: 30 Copynumber: 3.9 Consensus size: 30
672148 TATGGAAAGT
672158 TTACCGAGGATCTTTATGACCTCTGGACAG
1 TTACCGAGGATCTTTATGACCTCTGGACAG
672188 TTACCGAGGATCTTTATGACCTCTGGACAG
1 TTACCGAGGATCTTTATGACCTCTGGACAG
672218 TTACCGAGGATCTTTATGACCTCTGGACAG
1 TTACCGAGGATCTTTATGACCTCTGGACAG
*
672248 TTACCG-GG-TCTTTGTGA-CTCTGGA
1 TTACCGAGGATCTTTATGACCTCTGGA
672272 TAGGTCCTTC
Statistics
Matches: 83, Mismatches: 1, Indels: 3
0.95 0.01 0.03
Matches are distributed among these distances:
27 7 0.08
28 8 0.10
29 2 0.02
30 66 0.80
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.32
Consensus pattern (30 bp):
TTACCGAGGATCTTTATGACCTCTGGACAG
Found at i:672554 original size:2 final size:2
Alignment explanation
Indices: 672542--672579 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
672532 GTATGCGTGG
*
672542 AT AT GT 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
672580 GAAAGGTGCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:673130 original size:2 final size:2
Alignment explanation
Indices: 673123--673182 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
673113 ATTTCATTTC
673123 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
673165 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
673183 CCTCAAGATT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:673442 original size:18 final size:18
Alignment explanation
Indices: 673421--673455 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
673411 TCCCATCTAG
673421 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
673439 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
673456 AATCTCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:674070 original size:21 final size:21
Alignment explanation
Indices: 674040--674083 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
674030 TCTTGTTCGT
*
674040 TTGAAGGGGTATCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
674061 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
674082 TT
1 TT
674084 TCCCAGAAAT
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:0.18, C:0.25, G:0.25, T:0.32
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:674952 original size:28 final size:29
Alignment explanation
Indices: 674887--674966 Score: 99
Period size: 28 Copynumber: 2.8 Consensus size: 29
674877 CGTATGACGA
674887 CAATGAGCCGGTGAGAACGGCAAATTTGAG
1 CAAT-AGCCGGTGAGAACGGCAAATTTGAG
** * **
674917 GGAGAGCCGGTGAGTGCGGCAAA-TTGAG
1 CAATAGCCGGTGAGAACGGCAAATTTGAG
674945 CAATAGCCGGTGAGAACGGCAA
1 CAATAGCCGGTGAGAACGGCAA
674967 TTTAAGACAG
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
28 22 0.55
29 17 0.43
30 1 0.03
ACGTcount: A:0.31, C:0.17, G:0.38, T:0.14
Consensus pattern (29 bp):
CAATAGCCGGTGAGAACGGCAAATTTGAG
Found at i:676276 original size:31 final size:31
Alignment explanation
Indices: 676238--676315 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
676228 CAGTTACGTC
*
676238 AGGGACCATATTGTAAACGGACTAAATGTGG
1 AGGGACCATATTGCAAACGGACTAAATGTGG
676269 AGGGACCATATTGCAAACGGACTAAATGTTGG
1 AGGGACCATATTGCAAACGGACTAAATG-TGG
**
676301 -GGGATTATATTGCAA
1 AGGGACCATATTGCAA
676316 GTTTTAAATG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
31 40 0.93
32 3 0.07
ACGTcount: A:0.35, C:0.13, G:0.28, T:0.24
Consensus pattern (31 bp):
AGGGACCATATTGCAAACGGACTAAATGTGG
Found at i:676835 original size:31 final size:31
Alignment explanation
Indices: 676762--676828 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
676752 CAGTTACGTC
* * *
676762 AGGGACCATATTGCATACGGACTAAATGTTG
1 AGGGACCATATTGCAAACAGACTAAATATTG
676793 AGGGACCATATTGCAAACAGACTAAATATTG
1 AGGGACCATATTGCAAACAGACTAAATATTG
*
676824 GGGGA
1 AGGGA
676829 TTATATTACA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.22
Consensus pattern (31 bp):
AGGGACCATATTGCAAACAGACTAAATATTG
Found at i:679317 original size:24 final size:24
Alignment explanation
Indices: 679272--679345 Score: 69
Period size: 24 Copynumber: 3.0 Consensus size: 24
679262 CGTTCGTGAA
**
679272 CGTTCGATTATATGTTTGTTTATGTT
1 CGTTC-ATT-TATGTTCATTTATGTT
*
679298 CGTTCATTTATGTTCATTTATATT
1 CGTTCATTTATGTTCATTTATGTT
* *
679322 CGTTTATGTT-CGTTCATTTATGTT
1 CGTTCAT-TTATGTTCATTTATGTT
679346 TATATAACTT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
24 31 0.76
25 5 0.12
26 5 0.12
ACGTcount: A:0.16, C:0.11, G:0.15, T:0.58
Consensus pattern (24 bp):
CGTTCATTTATGTTCATTTATGTT
Found at i:679335 original size:10 final size:10
Alignment explanation
Indices: 679299--679332 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
679289 GTTTATGTTC
679299 GTTCATTTAT
1 GTTCATTTAT
679309 GTTCATTTAT
1 GTTCATTTAT
* *
679319 ATTCGTTTAT
1 GTTCATTTAT
679329 GTTC
1 GTTC
679333 GTTCATTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.18, C:0.12, G:0.12, T:0.59
Consensus pattern (10 bp):
GTTCATTTAT
Found at i:679549 original size:23 final size:23
Alignment explanation
Indices: 679512--679556 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
679502 TTTGTTATTC
** *
679512 GTTTATGTTTGTTTATTGTGTTT
1 GTTTATGTTCATTTATTATGTTT
679535 GTTTATGTTCATTTATTATGTT
1 GTTTATGTTCATTTATTATGTT
679557 CGTTCATTTG
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:0.13, C:0.02, G:0.18, T:0.67
Consensus pattern (23 bp):
GTTTATGTTCATTTATTATGTTT
Found at i:679672 original size:16 final size:16
Alignment explanation
Indices: 679651--679683 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
679641 AAAAAAATTT
679651 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
679667 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
679683 T
1 T
679684 TTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:680662 original size:45 final size:45
Alignment explanation
Indices: 680566--680735 Score: 252
Period size: 45 Copynumber: 3.8 Consensus size: 45
680556 TATTGTTTTG
* *
680566 TTTTCCTTTGATTTACCGTGACATGGTTGGGGGGGGTAAGGGGGTC
1 TTTTTCTTTGATTGACCGTGACATGGTT-GGGGGGGTAAGGGGGTC
* *
680612 TTTTTCTTTGGTTGACCGTGACATGGTTGGAGGGGTAAGGGGGTC
1 TTTTTCTTTGATTGACCGTGACATGGTTGGGGGGGTAAGGGGGTC
* *
680657 TTTTTCTTTGGTTGACCGTGACATGGTT-GGGGGGTAAGGGTGTC
1 TTTTTCTTTGATTGACCGTGACATGGTTGGGGGGGTAAGGGGGTC
* *
680701 TTTTTGTTTGATTGACCGTGGCATGGTTGGGGGGG
1 TTTTTCTTTGATTGACCGTGACATGGTTGGGGGGG
680736 GGGGGTTTAA
Statistics
Matches: 114, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
44 39 0.34
45 50 0.44
46 25 0.22
ACGTcount: A:0.12, C:0.11, G:0.40, T:0.37
Consensus pattern (45 bp):
TTTTTCTTTGATTGACCGTGACATGGTTGGGGGGGTAAGGGGGTC
Found at i:680716 original size:44 final size:44
Alignment explanation
Indices: 680566--680734 Score: 248
Period size: 44 Copynumber: 3.8 Consensus size: 44
680556 TATTGTTTTG
* *
680566 TTTTCCTTTGATTTACCGTGACATGGTTGGGGGGGGTAAGGGGGTC
1 TTTTTCTTTGATTGACCGTGACATGGTT--GGGGGGTAAGGGGGTC
*
680612 TTTTTCTTTGGTTGACCGTGACATGGTTGGAGGGGTAAGGGGGTC
1 TTTTTCTTTGATTGACCGTGACATGGTTGG-GGGGTAAGGGGGTC
* *
680657 TTTTTCTTTGGTTGACCGTGACATGGTTGGGGGGTAAGGGTGTC
1 TTTTTCTTTGATTGACCGTGACATGGTTGGGGGGTAAGGGGGTC
* *
680701 TTTTTGTTTGATTGACCGTGGCATGGTTGGGGGG
1 TTTTTCTTTGATTGACCGTGACATGGTTGGGGGG
680735 GGGGGGTTTA
Statistics
Matches: 115, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
44 46 0.40
45 44 0.38
46 25 0.22
ACGTcount: A:0.12, C:0.11, G:0.40, T:0.37
Consensus pattern (44 bp):
TTTTTCTTTGATTGACCGTGACATGGTTGGGGGGTAAGGGGGTC
Found at i:680716 original size:89 final size:90
Alignment explanation
Indices: 680566--680735 Score: 252
Period size: 89 Copynumber: 1.9 Consensus size: 90
680556 TATTGTTTTG
* *
680566 TTTTCCTTTGATTTACCGTGACATGGTTGGGGGGGGTAAGGGGGTCTTTTTCTTTGGTTGACCGT
1 TTTTCCTTTGATTGACCGTGACATGGTT-GGGGGGGTAAGGGGGTCTTTTTCTTTGATTGACCGT
680631 GACATGGTTGGAGGGGTAAGGGGGTC
65 GACATGGTTGGAGGGGTAAGGGGGTC
* * * *
680657 TTTTTCTTTGGTTGACCGTGACATGGTT-GGGGGGTAAGGGTGTCTTTTTGTTTGATTGACCGTG
1 TTTTCCTTTGATTGACCGTGACATGGTTGGGGGGGTAAGGGGGTCTTTTTCTTTGATTGACCGTG
* *
680721 GCATGGTTGGGGGGG
66 ACATGGTTGGAGGGG
680736 GGGGGTTTAA
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
89 46 0.65
91 25 0.35
ACGTcount: A:0.12, C:0.11, G:0.40, T:0.37
Consensus pattern (90 bp):
TTTTCCTTTGATTGACCGTGACATGGTTGGGGGGGTAAGGGGGTCTTTTTCTTTGATTGACCGTG
ACATGGTTGGAGGGGTAAGGGGGTC
Found at i:683717 original size:5 final size:5
Alignment explanation
Indices: 683701--683790 Score: 59
Period size: 5 Copynumber: 18.8 Consensus size: 5
683691 TCGTTCGACT
* * *
683701 TTAT- TTATA TGATA TGATA TTATA TTATA TTATA TTAT- GTA-A CTTAT-
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA -TTATA
* *
683748 TTATA TTATA TAATA -TAT- TTATA TTTCATA TTATG TTAT- TTAT
1 TTATA TTATA TTATA TTATA TTATA -TT-ATA TTATA TTATA TTAT
683791 GTGATTTATG
Statistics
Matches: 70, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
4 19 0.27
5 44 0.63
6 4 0.06
7 3 0.04
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (5 bp):
TTATA
Found at i:683753 original size:18 final size:17
Alignment explanation
Indices: 683724--683772 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 17
683714 ATGATATTAT
*
683724 ATTATATTATATTATGTA
1 ATTAT-TTATATTATATA
683742 ACTTATTTATATTATATA
1 A-TTATTTATATTATATA
683760 ATATATTTATATT
1 AT-TATTTATATT
683773 TCATATTATG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 1 0.04
18 23 0.82
19 4 0.14
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (17 bp):
ATTATTTATATTATATA
Found at i:683779 original size:43 final size:43
Alignment explanation
Indices: 683701--683783 Score: 116
Period size: 43 Copynumber: 1.9 Consensus size: 43
683691 TCGTTCGACT
*
683701 TTATTTATATGATATGATATTATATTATATTATATTATGTAAC
1 TTATTTATATGATATAATATTATATTATATTATATTATGTAAC
*
683744 TTATTTATATTATATAATA-TAT-TTATATTTCATATTATGT
1 TTATTTATATGATATAATATTATATTATA-TT-ATATTATGT
683784 TATTTATGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
41 5 0.14
42 5 0.14
43 26 0.72
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (43 bp):
TTATTTATATGATATAATATTATATTATATTATATTATGTAAC
Found at i:684519 original size:25 final size:25
Alignment explanation
Indices: 684491--684539 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
684481 TTTCTAGGGG
*
684491 TTTTTGCTTCGTC-TTT-TTTTGGTT
1 TTTTTTCTTC-TCTTTTCTTTTGGTT
684515 TTTTTTCTTCTCTTTTCTTTTGGTT
1 TTTTTTCTTCTCTTTTCTTTTGGTT
684540 CGAAAAACCC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 2 0.09
24 12 0.55
25 8 0.36
ACGTcount: A:0.00, C:0.14, G:0.12, T:0.73
Consensus pattern (25 bp):
TTTTTTCTTCTCTTTTCTTTTGGTT
Found at i:687419 original size:31 final size:31
Alignment explanation
Indices: 687381--687449 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
687371 CAGGGATCAT
*
687381 ATTGCAAAC-AGACTAAATGTTGGGGGACCAC
1 ATTGCAAACGA-ACTAAATGTTAGGGGACCAC
* * *
687412 ATTGCAAACGAATTAAATGTTAGGGGACTAT
1 ATTGCAAACGAACTAAATGTTAGGGGACCAC
687443 ATTGCAA
1 ATTGCAA
687450 GTTTTAAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 32 0.97
32 1 0.03
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (31 bp):
ATTGCAAACGAACTAAATGTTAGGGGACCAC
Found at i:689167 original size:7 final size:7
Alignment explanation
Indices: 689155--689190 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
689145 TTAAATTATT
689155 TATTAAA
1 TATTAAA
*
689162 TTTTAAA
1 TATTAAA
689169 TATTAAA
1 TATTAAA
689176 TATTAAA
1 TATTAAA
689183 TATTAAA
1 TATTAAA
689190 T
1 T
689191 TTATTAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TATTAAA
Found at i:689173 original size:21 final size:21
Alignment explanation
Indices: 689136--689195 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
689126 TGTATAGAAT
*
689136 TTAAATTTATTAA-ATTATTTA
1 TTAAATTT-TAAATATTATTTA
**
689157 TTAAATTTTAAATATTAAATA
1 TTAAATTTTAAATATTATTTA
*
689178 TTAAATATTAAAT-TTATT
1 TTAAATTTTAAATATTATT
689196 AATTTTTTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
20 6 0.19
21 26 0.81
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TTAAATTTTAAATATTATTTA
Found at i:689878 original size:117 final size:117
Alignment explanation
Indices: 689671--689974 Score: 501
Period size: 117 Copynumber: 2.6 Consensus size: 117
689661 GGAACATTCT
* *
689671 CAAGATGTGAATCGAGTAACACCAAGTTCGGTTACTAC-A-ACTAC-GTCTCACATAGCCTCGAT
1 CAAGATGTGAATCGAGCAACACCAAGTTCGGTTACTACAACACTACAGTCTCACACAGCCTCGAT
* *
689733 ATTTTATCGCCGGGGCCGCCCAACTTACACATGTCCGGAAGCAGCAAAAGCC
66 AGTTTATCGCCGAGGCCGCCCAACTTACACATGTCCGGAAGCAGCAAAAGCC
689785 CAAGATGTGAATCGAGCAACACCAAGTTCGGTTACTACAACACTACAGTCTCACACAGCCTCGAT
1 CAAGATGTGAATCGAGCAACACCAAGTTCGGTTACTACAACACTACAGTCTCACACAGCCTCGAT
* *
689850 AGTTTATCGCCGAGGCTGCCCAACTTACACATGTCCGGAAGCAGCAAATGCC
66 AGTTTATCGCCGAGGCCGCCCAACTTACACATGTCCGGAAGCAGCAAAAGCC
*
689902 CAAGATGTGAATCGAGCAACACCAAGTTCGGTTACTACAACAACTACAG--TCACACAGCTTCGA
1 CAAGATGTGAATCGAGCAACACCAAGTTCGGTTACTACAAC-ACTACAGTCTCACACAGCCTCGA
689965 TAGTTTATCG
65 TAGTTTATCG
689975 TCAACAACTA
Statistics
Matches: 179, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
114 37 0.21
115 1 0.01
116 28 0.16
117 106 0.59
118 7 0.04
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.21
Consensus pattern (117 bp):
CAAGATGTGAATCGAGCAACACCAAGTTCGGTTACTACAACACTACAGTCTCACACAGCCTCGAT
AGTTTATCGCCGAGGCCGCCCAACTTACACATGTCCGGAAGCAGCAAAAGCC
Found at i:689989 original size:37 final size:37
Alignment explanation
Indices: 689939--690013 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
689929 TCGGTTACTA
689939 CAACAACTACAGTCACACAGCTTCGATAGTTTATCGT
1 CAACAACTACAGTCACACAGCTTCGATAGTTTATCGT
*
689976 CAACAACTACAGTCTCACAGCTTCGATAGTTTATCGT
1 CAACAACTACAGTCACACAGCTTCGATAGTTTATCGT
690013 C
1 C
690014 GGGGTTGCCC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (37 bp):
CAACAACTACAGTCACACAGCTTCGATAGTTTATCGT
Found at i:690125 original size:153 final size:152
Alignment explanation
Indices: 689822--690126 Score: 434
Period size: 153 Copynumber: 2.0 Consensus size: 152
689812 TCGGTTACTA
689822 CAACACTACAGTCTCACACAGCCTCGATAGTTTATCGCCGAGGCTGCCCAACTTACACATGTCCG
1 CAACACTACAGTCT-ACACAGCCTCGATAGTTTATCGCCGAGGCTGCCCAACTTACACATGTCCG
689887 GAAGCAGCAAATGCCCAAGATGTGAATCGAGCAACACCAAGTTCGGTTACTACAACAACTACAGT
65 GAAGCAGCAAATGCCCAAGATGTGAA-CGAGCAACACCAAGTTCGGTTACTACAACAACTACAGT
* * *
689952 CACACAGCTTCGATAGTTTATCGT
129 CACACAGCCTAGATACTTTATCGT
* * * *
689976 CAACAACTACAGTCT-CACAGCTTCGATAGTTTATCGTCGGGGTTGCCCAACTTACACATGTCCG
1 CAAC-ACTACAGTCTACACAGCCTCGATAGTTTATCGCCGAGGCTGCCCAACTTACACATGTCCG
* * * *
690040 GAAGCAGCAAATGCCCAAGATGTGAA-GAGTAACACCAAGTTTGGTTACTGCAACAACTGCAGTC
65 GAAGCAGCAAATGCCCAAGATGTGAACGAGCAACACCAAGTTCGGTTACTACAACAACTACAG--
* *
690104 TCTCACAGCCTATATACTTTATC
128 TCACACAGCCTAGATACTTTATC
690127 ATGTTCCCGT
Statistics
Matches: 135, Mismatches: 13, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
151 32 0.24
153 89 0.66
154 4 0.03
155 10 0.07
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.23
Consensus pattern (152 bp):
CAACACTACAGTCTACACAGCCTCGATAGTTTATCGCCGAGGCTGCCCAACTTACACATGTCCGG
AAGCAGCAAATGCCCAAGATGTGAACGAGCAACACCAAGTTCGGTTACTACAACAACTACAGTCA
CACAGCCTAGATACTTTATCGT
Found at i:697571 original size:21 final size:21
Alignment explanation
Indices: 697546--697604 Score: 84
Period size: 21 Copynumber: 2.8 Consensus size: 21
697536 TATTAATGTT
*
697546 TTAAAATTAATAATTTAA-TCA
1 TTAAAATTAACAATTTAACT-A
697567 TTAAAATTAACAATTTAACTA
1 TTAAAATTAACAATTTAACTA
*
697588 TTAAAATTACCAATTTA
1 TTAAAATTAACAATTTA
697605 TAATAAATCG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 34 0.97
22 1 0.03
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (21 bp):
TTAAAATTAACAATTTAACTA
Found at i:699170 original size:118 final size:112
Alignment explanation
Indices: 698944--699170 Score: 296
Period size: 118 Copynumber: 2.0 Consensus size: 112
698934 AAAAGGACAA
*
698944 GTTTGAAATCTATGAATAATGACCATTTTATAACTTTTAATAGTATAGAGACTTAAAAAATAATA
1 GTTTGAAATCTATGAATAATGACCATTTTATAACTTTTAATAGTAGAGAGACTTAAAAAATAATA
* *
699009 CCATATATCTAGAGGACCATTTCTTTACTTTACCCAATTTTTTCCTG
66 CCATATATCTAGAGGACCATTTCTGTACTTTACCCAATATTTTCCTG
*
699056 GTTTGAAATCTATGAATAGTTGGATGGCCATTTTATAACTTTTAATAGTAGAGAGACTTAATAAA
1 GTTTGAAATCTATGAATA-----ATGACCATTTTATAACTTTTAATAGTAGAGAGACTTAA-AAA
* * * *
699121 ATAATATCATATAGT-T-GAAGGACTATTTGTGTACTTTACCCCATATTTTC
60 ATAATACCATATA-TCTAG-AGGACCATTTCTGTACTTTACCCAATATTTTC
699171 TACTTTGTAT
Statistics
Matches: 99, Mismatches: 8, Indels: 10
0.85 0.07 0.09
Matches are distributed among these distances:
112 18 0.18
117 37 0.37
118 43 0.43
119 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (112 bp):
GTTTGAAATCTATGAATAATGACCATTTTATAACTTTTAATAGTAGAGAGACTTAAAAAATAATA
CCATATATCTAGAGGACCATTTCTGTACTTTACCCAATATTTTCCTG
Found at i:699767 original size:16 final size:16
Alignment explanation
Indices: 699748--699787 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
699738 ATTTTTTTTT
*
699748 AGTTCAATCCTTTTCG
1 AGTTCAAGCCTTTTCG
699764 AGTTCAAGCCTTTTCG
1 AGTTCAAGCCTTTTCG
699780 AGTTCAAG
1 AGTTCAAG
699788 TTTCAATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.38
Consensus pattern (16 bp):
AGTTCAAGCCTTTTCG
Found at i:700593 original size:60 final size:60
Alignment explanation
Indices: 700520--700663 Score: 150
Period size: 60 Copynumber: 2.4 Consensus size: 60
700510 TTGGGTGAAG
* * * * *
700520 TACACAAATGGTCCTCCGACTATACGATATTGTTTTGTTAAATCTCTCAACT-ATTTAAAGT
1 TACA-AAATGGTCCTCCGACTATACGACACTGCTTTGTTAAATCCCTCAA-TAATTAAAAGT
* * *
700581 TACAAAATGGTCC-CTTGACTATAGGACACTGCTTTGTTAAGTCCCTCAATAATTAAAAGT
1 TACAAAATGGTCCTC-CGACTATACGACACTGCTTTGTTAAATCCCTCAATAATTAAAAGT
700641 TACAAAAATGGTCACT-CGACTAT
1 TAC-AAAATGGTC-CTCCGACTAT
700664 TTATGTATTC
Statistics
Matches: 69, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
59 2 0.03
60 47 0.68
61 19 0.28
62 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.33
Consensus pattern (60 bp):
TACAAAATGGTCCTCCGACTATACGACACTGCTTTGTTAAATCCCTCAATAATTAAAAGT
Found at i:704506 original size:29 final size:29
Alignment explanation
Indices: 704461--704542 Score: 105
Period size: 28 Copynumber: 2.9 Consensus size: 29
704451 TAACGACAAT
**
704461 GAGCCGGTGAGAACGGCAAATTTGAGGGA
1 GAGCCGGTGAGAACGGCAAATTTGAGCAA
**
704490 GAGCCGGTGAGTGCGGCAAA-TTGAGCAA
1 GAGCCGGTGAGAACGGCAAATTTGAGCAA
*
704518 TAGCCGGTGAGAACGGC-AATTTGAG
1 GAGCCGGTGAGAACGGCAAATTTGAG
704543 ACAGGTAAGG
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
27 2 0.04
28 25 0.56
29 18 0.40
ACGTcount: A:0.29, C:0.16, G:0.39, T:0.16
Consensus pattern (29 bp):
GAGCCGGTGAGAACGGCAAATTTGAGCAA
Found at i:720683 original size:3 final size:3
Alignment explanation
Indices: 720675--720705 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
720665 TGCAAAAAGC
720675 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
720706 ATAATAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:720711 original size:3 final size:3
Alignment explanation
Indices: 720705--720794 Score: 130
Period size: 3 Copynumber: 30.7 Consensus size: 3
720695 AACAACAACA
720705 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
720753 AAT -AT AA- AAC AAC AAC AAC AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
720795 GGGTAAAGTA
Statistics
Matches: 84, Mismatches: 1, Indels: 4
0.94 0.01 0.04
Matches are distributed among these distances:
2 4 0.05
3 80 0.95
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:722988 original size:17 final size:17
Alignment explanation
Indices: 722966--723000 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
722956 TGTAATGGGT
722966 AAATAATACTTGTGTAG
1 AAATAATACTTGTGTAG
722983 AAATAATACTTGTGTAG
1 AAATAATACTTGTGTAG
723000 A
1 A
723001 TCGTGATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.34
Consensus pattern (17 bp):
AAATAATACTTGTGTAG
Found at i:723793 original size:18 final size:19
Alignment explanation
Indices: 723770--723805 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
723760 TGATGTTATT
*
723770 ATATTTT-ATACATATGTG
1 ATATTTTGATAAATATGTG
723788 ATATTTTGATAAATATGT
1 ATATTTTGATAAATATGT
723806 TTTATTATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.36, C:0.03, G:0.11, T:0.50
Consensus pattern (19 bp):
ATATTTTGATAAATATGTG
Found at i:724008 original size:51 final size:51
Alignment explanation
Indices: 723932--724033 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
723922 AAAGTAAGTG
723932 TATGGAGTAAGGAGCTAAGCCCAACATCAACTTTTGAAGATTAGATCTGCT
1 TATGGAGTAAGGAGCTAAGCCCAACATCAACTTTTGAAGATTAGATCTGCT
723983 TATGGAGTAAGGAGCTAAGCCCAACATCAACTTTTGAAGATTAGATCTGCT
1 TATGGAGTAAGGAGCTAAGCCCAACATCAACTTTTGAAGATTAGATCTGCT
724034 CCATAACCAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (51 bp):
TATGGAGTAAGGAGCTAAGCCCAACATCAACTTTTGAAGATTAGATCTGCT
Found at i:724453 original size:3 final size:3
Alignment explanation
Indices: 724445--724478 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
724435 GTGGGGTGAG
724445 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
724479 AGGGGTTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:726196 original size:3 final size:3
Alignment explanation
Indices: 726188--726236 Score: 71
Period size: 3 Copynumber: 16.3 Consensus size: 3
726178 GGCTGTTTAC
* * *
726188 TAT TAT TAT TAT TGT TAT TGT TAT TGT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
726236 T
1 T
726237 GTTTGATTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:726211 original size:12 final size:12
Alignment explanation
Indices: 726190--726239 Score: 82
Period size: 12 Copynumber: 4.2 Consensus size: 12
726180 CTGTTTACTA
726190 TTATTATTATTG
1 TTATTATTATTG
*
726202 TTATTGTTATTG
1 TTATTATTATTG
*
726214 TTATTATTATTA
1 TTATTATTATTG
726226 TTATTATTATTG
1 TTATTATTATTG
726238 TT
1 TT
726240 TGATTAAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (12 bp):
TTATTATTATTG
Found at i:729300 original size:75 final size:76
Alignment explanation
Indices: 729179--729332 Score: 238
Period size: 75 Copynumber: 2.0 Consensus size: 76
729169 TGACACCATG
* *
729179 TTTTAAATTGTGTTTTTTAAAAAGATTAGAACACAAAGCAAAATTTTGGTGCTCTTCCAGAAGTA
1 TTTTAAATTGTGTTTTTCAAAAAGATTAAAACACAAAGCAAAATTTTGGTGCTCTTCCAGAAGTA
729244 GTAATTTTCAA
66 GTAATTTTCAA
* * **
729255 TTTTAAATTGTG-TTTTCAAAGAGATTAAAACATATGGCAAAATTTTGGTGCTCTTCCAGAAGTA
1 TTTTAAATTGTGTTTTTCAAAAAGATTAAAACACAAAGCAAAATTTTGGTGCTCTTCCAGAAGTA
*
729319 GTAATTTTCGA
66 GTAATTTTCAA
729330 TTT
1 TTT
729333 ATGGTTGTCA
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
75 59 0.83
76 12 0.17
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (76 bp):
TTTTAAATTGTGTTTTTCAAAAAGATTAAAACACAAAGCAAAATTTTGGTGCTCTTCCAGAAGTA
GTAATTTTCAA
Done.