Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr1
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: 35726063
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1821929 characters in sequence are not A, C, G, or T
File 18 of 109
Found at i:5996535 original size:33 final size:33
Alignment explanation
Indices: 5996495--5996558 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 33
5996485 ATTATTCAGA
5996495 TAATTATT-TTA-TTATTATTTTCATTATTATTAT
1 TAATTATTATTAGTT-TTATTTTCATT-TTATTAT
*
5996528 TAATTATTATTAGTTTTATTTTCCTTTTATT
1 TAATTATTATTAGTTTTATTTTCATTTTATT
5996559 TATTTGTGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 13 0.46
34 13 0.46
35 2 0.07
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.67
Consensus pattern (33 bp):
TAATTATTATTAGTTTTATTTTCATTTTATTAT
Found at i:5999348 original size:15 final size:15
Alignment explanation
Indices: 5999330--5999361 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
5999320 ACCACACTCC
5999330 TTTAATTCACATAAT
1 TTTAATTCACATAAT
5999345 TTTAATTCACATAAT
1 TTTAATTCACATAAT
5999360 TT
1 TT
5999362 GCTCCATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (15 bp):
TTTAATTCACATAAT
Found at i:6007925 original size:56 final size:56
Alignment explanation
Indices: 6007857--6007977 Score: 219
Period size: 56 Copynumber: 2.2 Consensus size: 56
6007847 AGTCATGTTC
6007857 ATTGT-GT-GTAGGAGTATTGTCTTTGTAGGTGTTTGCGTCATTACTTATTGATTG
1 ATTGTGGTAGTAGGAGTATTGTCTTTGTAGGTGTTTGCGTCATTACTTATTGATTG
*
6007911 ATTGTGGTAGTAGGAGTATTGTCTTTGTAGGTGTTTGTGTCATTACTTATTGATTG
1 ATTGTGGTAGTAGGAGTATTGTCTTTGTAGGTGTTTGCGTCATTACTTATTGATTG
6007967 ATTGTGGTAGT
1 ATTGTGGTAGT
6007978 TCAGTTGGAC
Statistics
Matches: 64, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
54 5 0.08
55 2 0.03
56 57 0.89
ACGTcount: A:0.17, C:0.06, G:0.29, T:0.48
Consensus pattern (56 bp):
ATTGTGGTAGTAGGAGTATTGTCTTTGTAGGTGTTTGCGTCATTACTTATTGATTG
Found at i:6013754 original size:17 final size:17
Alignment explanation
Indices: 6013712--6013755 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
6013702 AACGAAACAG
6013712 AGAAGG-AAAGAAAGAA
1 AGAAGGAAAAGAAAGAA
**
6013728 AGAAATAAAAGAAAGAA
1 AGAAGGAAAAGAAAGAA
6013745 AGAAGGAAAAG
1 AGAAGGAAAAG
6013756 GGAAAAAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.70, C:0.00, G:0.27, T:0.02
Consensus pattern (17 bp):
AGAAGGAAAAGAAAGAA
Found at i:6014490 original size:22 final size:22
Alignment explanation
Indices: 6014464--6014513 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
6014454 CTAGCATGAC
6014464 AGTGCTCTCCGTTTAGCACATTT
1 AGTGCTCTCCGTTTAGCAC-TTT
**
6014487 -GTGCTCTCTTTTTAGCACTTT
1 AGTGCTCTCCGTTTAGCACTTT
6014508 AGTGCT
1 AGTGCT
6014514 TTCTGTTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 3 0.12
22 21 0.88
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (22 bp):
AGTGCTCTCCGTTTAGCACTTT
Found at i:6018331 original size:24 final size:23
Alignment explanation
Indices: 6018255--6018332 Score: 56
Period size: 24 Copynumber: 3.3 Consensus size: 23
6018245 CACCCATATT
6018255 ATTTTTA-ATTTAA-TAT-TTAA
1 ATTTTTATATTTAATTATCTTAA
*
6018275 TGATTTTATATATTT-TTTATTCATTAA
1 --ATTTT-TATATTTAATTA-TC-TTAA
*
6018302 AATTTTATATTTAATTATCTTAA
1 ATTTTTATATTTAATTATCTTAA
6018325 CATTTTTA
1 -ATTTTTA
6018333 ATGTTTACAT
Statistics
Matches: 44, Mismatches: 4, Indels: 14
0.71 0.06 0.23
Matches are distributed among these distances:
22 5 0.11
23 6 0.14
24 21 0.48
25 8 0.18
27 4 0.09
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (23 bp):
ATTTTTATATTTAATTATCTTAA
Found at i:6020492 original size:14 final size:15
Alignment explanation
Indices: 6020475--6020503 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6020465 TTGTTTTCCT
6020475 CTTCT-TTTTTTTTC
1 CTTCTATTTTTTTTC
6020489 CTTCTATTTTTTTTC
1 CTTCTATTTTTTTTC
6020504 TTGATCTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (15 bp):
CTTCTATTTTTTTTC
Found at i:6031668 original size:16 final size:17
Alignment explanation
Indices: 6031637--6031672 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 17
6031627 TAATTTTTTA
6031637 AAAATATTAATTTAATAT
1 AAAATATT-ATTTAATAT
6031655 AAAATATT-TTTAATAT
1 AAAATATTATTTAATAT
6031671 AA
1 AA
6031673 TAATTATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
18 8 0.44
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAAATATTATTTAATAT
Found at i:6033742 original size:20 final size:20
Alignment explanation
Indices: 6033717--6033754 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6033707 AAAGGTTAAC
6033717 TTAGTAAAATAATAATAATG
1 TTAGTAAAATAATAATAATG
* *
6033737 TTAGTATAATGATAATAA
1 TTAGTAAAATAATAATAA
6033755 AATAAAACAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.37
Consensus pattern (20 bp):
TTAGTAAAATAATAATAATG
Found at i:6034668 original size:42 final size:42
Alignment explanation
Indices: 6034615--6034840 Score: 434
Period size: 42 Copynumber: 5.4 Consensus size: 42
6034605 CTATATGAAC
6034615 GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAATA
1 GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAATA
6034657 GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAATA
1 GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAATA
6034699 GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAATA
1 GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAATA
6034741 GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAATA
1 GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAATA
**
6034783 GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAACG
1 GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAATA
6034825 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
6034841 TACCGAGAGC
Statistics
Matches: 182, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 182 1.00
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.27
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAATA
Found at i:6034969 original size:17 final size:18
Alignment explanation
Indices: 6034933--6034983 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
6034923 TAGGGGTGTG
*
6034933 CAAAATTCGGGTAAAACCGA
1 CAAAATTC-GGT-TAACCGA
6034953 -AAAATTCGGTTAACCGA
1 CAAAATTCGGTTAACCGA
**
6034970 CCGAATTCGGTTAA
1 CAAAATTCGGTTAA
6034984 TCGGTCGGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 6 0.22
18 14 0.52
19 7 0.26
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.22
Consensus pattern (18 bp):
CAAAATTCGGTTAACCGA
Found at i:6035916 original size:23 final size:22
Alignment explanation
Indices: 6035882--6035940 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
6035872 CGATTCAAGT
6035882 CCAATTTTGGTGTAAAAATACTG
1 CCAA-TTTGGTGTAAAAATACTG
** * *
6035905 CCCAATTTGGTGTCTATATGCTG
1 -CCAATTTGGTGTAAAAATACTG
6035928 CCAATTTGGTGTA
1 CCAATTTGGTGTA
6035941 TATTTGTTGT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 12 0.40
23 14 0.47
24 4 0.13
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.37
Consensus pattern (22 bp):
CCAATTTGGTGTAAAAATACTG
Found at i:6036023 original size:23 final size:25
Alignment explanation
Indices: 6035978--6036023 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
6035968 AAATGTTGTA
*
6035978 CAATTTGATATATATATATGCTGCC
1 CAATTTGATATATATAGATGCTGCC
*
6036003 CAATTTGATGTATA-AGA-GCTG
1 CAATTTGATATATATAGATGCTG
6036024 TACAAACAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 2 0.11
25 13 0.68
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (25 bp):
CAATTTGATATATATAGATGCTGCC
Found at i:6036977 original size:18 final size:19
Alignment explanation
Indices: 6036954--6036992 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
6036944 TACAAATACA
*
6036954 AACATT-ACATAATTATTT
1 AACATTCACATAATAATTT
*
6036972 AACATTCACATCATAATTT
1 AACATTCACATAATAATTT
6036991 AA
1 AA
6036993 TCTTAGCATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (19 bp):
AACATTCACATAATAATTT
Found at i:6037496 original size:31 final size:30
Alignment explanation
Indices: 6037453--6037511 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
6037443 CCATGTATTT
*
6037453 ACAACATATTTCATATTCTATTTTCAATTC
1 ACAACATATTTCACATTCTATTTTCAATTC
*
6037483 ACAATCATTTTTCACATTCTATTTTCAAT
1 ACAA-CATATTTCACATTCTATTTTCAAT
6037512 GCACTATCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 4 0.15
31 22 0.85
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.47
Consensus pattern (30 bp):
ACAACATATTTCACATTCTATTTTCAATTC
Found at i:6037787 original size:25 final size:25
Alignment explanation
Indices: 6037613--6037779 Score: 202
Period size: 25 Copynumber: 6.9 Consensus size: 25
6037603 CTAATGAACA
* *
6037613 GAGAGCACTGAAGTGCT-AT-A-CA
1 GAGAGCACTGACGTGCTAATAATCG
* *
6037635 GAGAGCACTGA--TG-TACTAAACG
1 GAGAGCACTGACGTGCTAATAATCG
* * *
6037657 GAGAGCACTGATGTGCGAATAATCA
1 GAGAGCACTGACGTGCTAATAATCG
6037682 GAGAGCACTGACGTGCTAATAATCG
1 GAGAGCACTGACGTGCTAATAATCG
6037707 GAGAGCACTGACGTGCTAATAATCG
1 GAGAGCACTGACGTGCTAATAATCG
* *
6037732 GAGAGCATTGACGTGCTAATAATTG
1 GAGAGCACTGACGTGCTAATAATCG
*
6037757 GAGAGCACTGATGTGCTAATAAT
1 GAGAGCACTGACGTGCTAATAAT
6037780 TAAAGAGCGC
Statistics
Matches: 126, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
19 1 0.01
20 3 0.02
21 1 0.01
22 23 0.18
24 2 0.02
25 96 0.76
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.22
Consensus pattern (25 bp):
GAGAGCACTGACGTGCTAATAATCG
Found at i:6063693 original size:20 final size:20
Alignment explanation
Indices: 6063668--6063710 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
6063658 TTGTTAATGA
6063668 AAGATTAAGTTAATATAATT
1 AAGATTAAGTTAATATAATT
*
6063688 AAGATTAAGTTAATTTAATT
1 AAGATTAAGTTAATATAATT
6063708 AAG
1 AAG
6063711 TTGTTAAGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.40
Consensus pattern (20 bp):
AAGATTAAGTTAATATAATT
Found at i:6065058 original size:2 final size:2
Alignment explanation
Indices: 6065051--6065097 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
6065041 ATGGAATTGT
6065051 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
6065093 TG TG T
1 TG TG T
6065098 TTTGTGTTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:6066530 original size:453 final size:453
Alignment explanation
Indices: 6065684--6066590 Score: 1762
Period size: 453 Copynumber: 2.0 Consensus size: 453
6065674 AGTTGATATG
6065684 AAGTTAAATGTGGTTATTTGTACTTGAATGGTATGTATTTGGAGTGTTTTTGTGGAGGTGAAGTT
1 AAGTTAAATGTGGTTATTTGTACTTGAATGGTATGTATTTGGAGTGTTTTTGTGGAGGTGAAGTT
6065749 AGCCATTTGAGCACAATTTGATGAAATAGTTTGGAAGCACTGAAATAGGTACCAAATGGTTCATT
66 AGCCATTTGAGCACAATTTGATGAAATAGTTTGGAAGCACTGAAATAGGTACCAAATGGTTCATT
6065814 TTTACCAAAAATAGAGTCCACGTCCCGACGAGTAACCTTCCTCGTCGCAATGTCGACCAATAGTG
131 TTTACCAAAAATAGAGTCCACGTCCCGACGAGTAACCTTCCTCGTCGCAATGTCGACCAATAGTG
6065879 AGTCACATCGCGACGTCGAGTGGCTTGAGGTCACGACGTGACAGACTGTTTGGCAACGTCATGAC
196 AGTCACATCGCGACGTCGAGTGGCTTGAGGTCACGACGTGACAGACTGTTTGGCAACGTCATGAC
6065944 ATGGAGGAGGTGGAGTTATGACATCGATTTTGAATTTTTAAAATTTTTTAATTTGGTCCTATTTC
261 ATGGAGGAGGTGGAGTTATGACATCGATTTTGAATTTTTAAAATTTTTTAATTTGGTCCTATTTC
*
6066009 ATGCTCGGGTCAACAAAAGAGCTTTCGTAATCTCAATTAAGGCTTAGATTTAATTGTGAATCATA
326 ATGCTCGGGTCAACAAAAGAGCTTTCGTAATCTCAATTAAGGCTCAGATTTAATTGTGAATCATA
*
6066074 ATATTAATATGTTTATGATATGATTGATTGTTTGAATGATTTATTTGTGATGTATTCGATGGT
391 ATATTAATATGTTTATGATATGATTGATTGTTTGAATGATTTATTTGCGATGTATTCGATGGT
6066137 AAGTTAAATGTGGTTATTTGTACTTGAATGGTATGTATTTGGAGTGTTTTTGTGGAGGTGAAGTT
1 AAGTTAAATGTGGTTATTTGTACTTGAATGGTATGTATTTGGAGTGTTTTTGTGGAGGTGAAGTT
6066202 AGCCATTTGAGCACAATTTGATGAAATAGTTTGGAAGCACTGAAATAGGTACCAAATGGTTCATT
66 AGCCATTTGAGCACAATTTGATGAAATAGTTTGGAAGCACTGAAATAGGTACCAAATGGTTCATT
*
6066267 TTTACCAAAAATAGAGTCCACGTCCCGACGAGTAACCTTCCTCGTCGCAATGTCGACCGATAGTG
131 TTTACCAAAAATAGAGTCCACGTCCCGACGAGTAACCTTCCTCGTCGCAATGTCGACCAATAGTG
6066332 AGTCACATCGCGACGTCGAGTGGCTTGAGGTCACGACGTGACAGACTGTTTGGCAACGTCATGAC
196 AGTCACATCGCGACGTCGAGTGGCTTGAGGTCACGACGTGACAGACTGTTTGGCAACGTCATGAC
*
6066397 ATGGAGGAGGTGGCGTTATGACATCGATTTTGAATTTTT-AAATTTTTTCAATTTGGTCCTATTT
261 ATGGAGGAGGTGGAGTTATGACATCGATTTTGAATTTTTAAAATTTTTT-AATTTGGTCCTATTT
6066461 CATGCTCGGGTCAACAAAAGAGCTTTCGTAATCTCAATTAAGGCTCAGATTTAATTGTGAATCAT
325 CATGCTCGGGTCAACAAAAGAGCTTTCGTAATCTCAATTAAGGCTCAGATTTAATTGTGAATCAT
6066526 AATATTAATATGTTTATGATATGATTGATTGTTTGAATGATTTATTTGCGATGTATTCGATGGT
390 AATATTAATATGTTTATGATATGATTGATTGTTTGAATGATTTATTTGCGATGTATTCGATGGT
6066590 A
1 A
6066591 GTTGCTCTGG
Statistics
Matches: 449, Mismatches: 4, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
452 9 0.02
453 440 0.98
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (453 bp):
AAGTTAAATGTGGTTATTTGTACTTGAATGGTATGTATTTGGAGTGTTTTTGTGGAGGTGAAGTT
AGCCATTTGAGCACAATTTGATGAAATAGTTTGGAAGCACTGAAATAGGTACCAAATGGTTCATT
TTTACCAAAAATAGAGTCCACGTCCCGACGAGTAACCTTCCTCGTCGCAATGTCGACCAATAGTG
AGTCACATCGCGACGTCGAGTGGCTTGAGGTCACGACGTGACAGACTGTTTGGCAACGTCATGAC
ATGGAGGAGGTGGAGTTATGACATCGATTTTGAATTTTTAAAATTTTTTAATTTGGTCCTATTTC
ATGCTCGGGTCAACAAAAGAGCTTTCGTAATCTCAATTAAGGCTCAGATTTAATTGTGAATCATA
ATATTAATATGTTTATGATATGATTGATTGTTTGAATGATTTATTTGCGATGTATTCGATGGT
Found at i:6067074 original size:22 final size:22
Alignment explanation
Indices: 6067049--6067094 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
6067039 TATTATAATT
*
6067049 ATTTATAAGATGT-TTTATTAAA
1 ATTT-TAAGATATATTTATTAAA
*
6067071 ATTTTAATATATATTTATTAAA
1 ATTTTAAGATATATTTATTAAA
6067093 AT
1 AT
6067095 AATTATATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (22 bp):
ATTTTAAGATATATTTATTAAA
Found at i:6067102 original size:22 final size:21
Alignment explanation
Indices: 6067062--6067106 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
6067052 TATAAGATGT
*
6067062 TTTATTAAAATTTTAATATATA
1 TTTATTAAAATATTAATAT-TA
6067084 TTTATTAAAATAATT-ATATTA
1 TTTATTAAAAT-ATTAATATTA
6067105 TT
1 TT
6067107 GAAATTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 4 0.19
22 15 0.71
23 2 0.10
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTATTAAAATATTAATATTA
Found at i:6072607 original size:18 final size:17
Alignment explanation
Indices: 6072580--6072613 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
6072570 ACCAAAACTT
*
6072580 ATAAATTAAATATATTTC
1 ATAAAATAAA-ATATTTC
6072598 ATAAAATAAAATATTT
1 ATAAAATAAAATATTT
6072614 AAATAAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
ATAAAATAAAATATTTC
Found at i:6073198 original size:10 final size:10
Alignment explanation
Indices: 6073182--6073231 Score: 57
Period size: 10 Copynumber: 5.1 Consensus size: 10
6073172 TTACCAATTC
6073182 AGTTAATTTT
1 AGTTAATTTT
* *
6073192 GGTTAATTTC
1 AGTTAATTTT
*
6073202 AGCTAATTTT
1 AGTTAATTTT
*
6073212 AGTTAA-TTC
1 AGTTAATTTT
6073221 AGTTAATTTT
1 AGTTAATTTT
6073231 A
1 A
6073232 ATTTAGTTAA
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
9 8 0.26
10 23 0.74
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.52
Consensus pattern (10 bp):
AGTTAATTTT
Found at i:6073208 original size:20 final size:19
Alignment explanation
Indices: 6073177--6073231 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 19
6073167 ATATATTACC
*
6073177 AATTCAGTTAATTTTGGTT
1 AATTCAGTTAATTTTAGTT
*
6073196 AATTTCAGCTAATTTTAGTT
1 AA-TTCAGTTAATTTTAGTT
6073216 AATTCAGTTAATTTTA
1 AATTCAGTTAATTTTA
6073232 ATTTAGTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.31, C:0.07, G:0.11, T:0.51
Consensus pattern (19 bp):
AATTCAGTTAATTTTAGTT
Found at i:6074377 original size:16 final size:17
Alignment explanation
Indices: 6074356--6074389 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
6074346 AAACAAATAA
6074356 GAAATAA-TTTATCTTT
1 GAAATAAGTTTATCTTT
*
6074372 GAAATAAGTTTATTTTT
1 GAAATAAGTTTATCTTT
6074389 G
1 G
6074390 TGGTTAGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.35, C:0.03, G:0.12, T:0.50
Consensus pattern (17 bp):
GAAATAAGTTTATCTTT
Found at i:6078036 original size:2 final size:2
Alignment explanation
Indices: 6077986--6078017 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6077976 CTTCTATACA
6077986 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
6078018 GCGTGTATCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6078696 original size:30 final size:30
Alignment explanation
Indices: 6078628--6078712 Score: 82
Period size: 31 Copynumber: 2.8 Consensus size: 30
6078618 GATTAAATCA
* *
6078628 AAATTAAAGTTTCAAGTATACATTTGAATC
1 AAATTAAAGTTTCAAGTATACAATTGAACC
* * * *
6078658 ACAATTAAAGTTTCACGTGTATAATTGCACC
1 A-AATTAAAGTTTCAAGTATACAATTGAACC
**
6078689 AAATTAAAG-TTCGTGTATACAATT
1 AAATTAAAGTTTCAAGTATACAATT
6078713 ACACATTAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
29 11 0.25
30 9 0.20
31 24 0.55
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (30 bp):
AAATTAAAGTTTCAAGTATACAATTGAACC
Found at i:6082115 original size:57 final size:57
Alignment explanation
Indices: 6082046--6082153 Score: 171
Period size: 57 Copynumber: 1.9 Consensus size: 57
6082036 TCATCAGGAA
* *
6082046 CTTTCCTAAATAGTTTCACTCCTAACCCATCCTTTTTGGCTGATTCTAAGGGTGGAG
1 CTTTCCTAAATAGTTTCACTCCTAACCCATCCTTTTTGGCTAACTCTAAGGGTGGAG
** *
6082103 CTTTCCTAAATAGTTTCACTGGTAACCCATCCTTTTTTGCTAACTCTAAGG
1 CTTTCCTAAATAGTTTCACTCCTAACCCATCCTTTTTGGCTAACTCTAAGG
6082154 TTGAGTTTGG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 46 1.00
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (57 bp):
CTTTCCTAAATAGTTTCACTCCTAACCCATCCTTTTTGGCTAACTCTAAGGGTGGAG
Found at i:6085144 original size:2 final size:2
Alignment explanation
Indices: 6085137--6085167 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6085127 AAGGTGATTG
6085137 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 A
6085168 ACTAAATAGG
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:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6087468 original size:2 final size:2
Alignment explanation
Indices: 6087461--6087495 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6087451 ATTCACTGAA
6087461 AT 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 AT A
6087496 ACCATTATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6088538 original size:21 final size:21
Alignment explanation
Indices: 6088505--6088557 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
6088495 CATTGTTTCT
** *
6088505 AATCTCATGGCTACAATATCC
1 AATCTCACCGCTACAATAACC
* *
6088526 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAATAACC
6088547 AATCTCACCGC
1 AATCTCACCGC
6088558 CACCGCTGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.32, C:0.34, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAATAACC
Found at i:6088866 original size:22 final size:23
Alignment explanation
Indices: 6088840--6088883 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
6088830 TAAATGCATC
*
6088840 AATATTGTGAACAATA-AATATA
1 AATATTGTGAAAAATACAATATA
*
6088862 AATATTGTTAAAAATACAATAT
1 AATATTGTGAAAAATACAATAT
6088884 TATTTTGTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.34
Consensus pattern (23 bp):
AATATTGTGAAAAATACAATATA
Found at i:6093251 original size:227 final size:225
Alignment explanation
Indices: 6092850--6093266 Score: 568
Period size: 227 Copynumber: 1.8 Consensus size: 225
6092840 TTTTAAAAAA
** * * *
6092850 TTAATTAATTTATACAACTAATCCGTAGATCACACATATTAAAAAATTAATATAACAAATCATTT
1 TTAATTAATACATACAACTAATCCGCAAATAACACATATTAAAAAATTAATATAACAAATCATTT
* * *
6092915 AATTTAAACAAACAAACTTAGTACACATTCAAAATTTTTTTTGGTAAATTATAATAATAGGGCAA
66 AATTTAAACAAACAAACTTAGTACACACTCAAAATTTTTTTTGGTAAATTACAATAATAAGGCAA
* * ** * *
6092980 AGCCCGAACAACTAACACAACTGGCGGAACTAGAACTCAAACCACACCTGAAACGATGAATACAC
131 AGCCCAAACAACCAACACAACTAACAGAACTAGAACTCAAACCACACCTAAAACGATGAATACAC
6093045 TTGACTGTCAGACCATCATACAAAAATAAT
196 TTGACTGTCAGACCATCATACAAAAATAAT
6093075 TTAATTAATACATACAACTAATCCGCAAATAACACATAATTAAAAAAATTAATATAACAAATCAT
1 TTAATTAATACATACAACTAATCCGCAAATAACACAT-ATT-AAAAAATTAATATAACAAATCAT
** *
6093140 TTAATTTAAACAAACAAACTTAGTACACACTCAATTTTTTTTTTGGTGAATTACAATAATAAGGC
64 TTAATTTAAACAAACAAACTTAGTACACACTCAAAATTTTTTTTGGTAAATTACAATAATAAGGC
* * * * * * *
6093205 AAAGCCTAAATAACCAACGCGACTAATAGAATTCA-AAC-CTAAACCACACTTAAAACGATGAA
129 AAAGCCCAAACAACCAACACAACTAACAGAACT-AGAACTC-AAACCACACCTAAAACGATGAA
6093267 CATTCTTAAC
Statistics
Matches: 164, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
225 32 0.20
226 4 0.02
227 127 0.77
228 1 0.01
ACGTcount: A:0.47, C:0.18, G:0.08, T:0.27
Consensus pattern (225 bp):
TTAATTAATACATACAACTAATCCGCAAATAACACATATTAAAAAATTAATATAACAAATCATTT
AATTTAAACAAACAAACTTAGTACACACTCAAAATTTTTTTTGGTAAATTACAATAATAAGGCAA
AGCCCAAACAACCAACACAACTAACAGAACTAGAACTCAAACCACACCTAAAACGATGAATACAC
TTGACTGTCAGACCATCATACAAAAATAAT
Found at i:6095890 original size:17 final size:18
Alignment explanation
Indices: 6095868--6095917 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 18
6095858 TCAATTAATT
6095868 AATTTTTTAAAATTTTA-
1 AATTTTTTAAAATTTTAG
* *
6095885 AA-TTTTAAAAATATTAG
1 AATTTTTTAAAATTTTAG
6095902 AATTATTTTAATAATT
1 AATT-TTTTAA-AATT
6095918 ATATATATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
16 12 0.48
17 4 0.16
18 1 0.04
19 5 0.20
20 3 0.12
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
AATTTTTTAAAATTTTAG
Found at i:6102771 original size:19 final size:21
Alignment explanation
Indices: 6102738--6102777 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
6102728 ATTTTTATAC
6102738 ATTTTAATAAGATAT-TTTTA
1 ATTTTAATAAGATATATTTTA
*
6102758 ATTTT-ATAATATATATTTTA
1 ATTTTAATAAGATATATTTTA
6102778 TTTAATCTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (21 bp):
ATTTTAATAAGATATATTTTA
Found at i:6108170 original size:26 final size:26
Alignment explanation
Indices: 6108112--6108172 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 26
6108102 TTGATTAATG
*
6108112 AAATATATTCAAATTATATTATTTTAA
1 AAATA-ATTCAAAGTATATTATTTTAA
6108139 ATAATAATT-AAAGTATATTTATTTTAA
1 A-AATAATTCAAAGTATA-TTATTTTAA
6108166 AAATAAT
1 AAATAAT
6108173 ATAATAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
26 13 0.42
27 14 0.45
28 4 0.13
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (26 bp):
AAATAATTCAAAGTATATTATTTTAA
Found at i:6108560 original size:30 final size:29
Alignment explanation
Indices: 6108524--6108581 Score: 98
Period size: 30 Copynumber: 2.0 Consensus size: 29
6108514 CTTAACAAGC
6108524 AAATGTCTCTAAAATAATAACAAAATTAAA
1 AAATGTCTCTAAAAT-ATAACAAAATTAAA
*
6108554 AAATGTCTTTAAAATATAACAAAATTAA
1 AAATGTCTCTAAAATATAACAAAATTAA
6108582 CAATAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 13 0.48
30 14 0.52
ACGTcount: A:0.59, C:0.09, G:0.03, T:0.29
Consensus pattern (29 bp):
AAATGTCTCTAAAATATAACAAAATTAAA
Found at i:6111019 original size:13 final size:14
Alignment explanation
Indices: 6110999--6111031 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
6110989 TCGATTCTCG
6110999 ATCCAAATGATTCA
1 ATCCAAATGATTCA
*
6111013 A-CCAAATGGTTCA
1 ATCCAAATGATTCA
6111026 ATCCAA
1 ATCCAA
6111032 TTCAAACAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.42, C:0.24, G:0.09, T:0.24
Consensus pattern (14 bp):
ATCCAAATGATTCA
Found at i:6119420 original size:15 final size:16
Alignment explanation
Indices: 6119392--6119422 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
6119382 CCATGTTTGA
6119392 ATTCTAGATTTATATT
1 ATTCTAGATTTATATT
6119408 ATTCTAG-TTTATATT
1 ATTCTAGATTTATATT
6119423 CCAACATGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.58
Consensus pattern (16 bp):
ATTCTAGATTTATATT
Found at i:6126936 original size:2 final size:2
Alignment explanation
Indices: 6126929--6126955 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6126919 CATCATTTTC
6126929 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
6126956 TCATGAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6131199 original size:418 final size:418
Alignment explanation
Indices: 6130422--6131201 Score: 1560
Period size: 418 Copynumber: 1.9 Consensus size: 418
6130412 NNNNNNNNNN
6130422 TTTTATTATTTAAATTAATAAATTGAATGAAATATTAATTTAGATCAAGATTGGGTGGAAATTCG
1 TTTTATTATTTAAATTAATAAATTGAATGAAATATTAATTTAGATCAAGATTGGGTGGAAATTCG
6130487 AAGAAAATAGAAAATTACCAAAATTCAGGGAATTTTGGTATTTCTGCAATTTAGCCTGATAAGTT
66 AAGAAAATAGAAAATTACCAAAATTCAGGGAATTTTGGTATTTCTGCAATTTAGCCTGATAAGTT
6130552 CGTATGAATTATATTCTGTATAATTTTAATTAAATTAAATGTTATTTGGTGATGAATATTATATA
131 CGTATGAATTATATTCTGTATAATTTTAATTAAATTAAATGTTATTTGGTGATGAATATTATATA
6130617 AATATGTGTTTTATTATTGGAATTGAATTATTGTTGGTAATAAATATAATTATTAGATGCATTGA
196 AATATGTGTTTTATTATTGGAATTGAATTATTGTTGGTAATAAATATAATTATTAGATGCATTGA
6130682 CATGATTATCGAAAGCTCGATGGGATTGGAAGCTTGTCGAAGATATATCACACTATCCATTGGTT
261 CATGATTATCGAAAGCTCGATGGGATTGGAAGCTTGTCGAAGATATATCACACTATCCATTGGTT
6130747 CTATCAATAATTTTGGATGATTAGATTCTGGTTATAAGTAAGGGTAAATTTGTAAAAATGTCAAA
326 CTATCAATAATTTTGGATGATTAGATTCTGGTTATAAGTAAGGGTAAATTTGTAAAAATGTCAAA
6130812 AAGCGACCAACTTGCATGAAATGAATTG
391 AAGCGACCAACTTGCATGAAATGAATTG
6130840 TTTTATTATTTAAATTAATAAATTGAATGAAATATTAATTTAGATCAAGATTGGGTGGAAATTCG
1 TTTTATTATTTAAATTAATAAATTGAATGAAATATTAATTTAGATCAAGATTGGGTGGAAATTCG
6130905 AAGAAAATAGAAAATTACCAAAATTCAGGGAATTTTGGTATTTCTGCAATTTAGCCTGATAAGTT
66 AAGAAAATAGAAAATTACCAAAATTCAGGGAATTTTGGTATTTCTGCAATTTAGCCTGATAAGTT
6130970 CGTATGAATTATATTCTGTATAATTTTAATTAAATTAAATGTTATTTGGTGATGAATATTATATA
131 CGTATGAATTATATTCTGTATAATTTTAATTAAATTAAATGTTATTTGGTGATGAATATTATATA
6131035 AATATGTGTTTTATTATTGGAATTGAATTATTGTTGGTAATAAATATAATTATTAGATGCATTGA
196 AATATGTGTTTTATTATTGGAATTGAATTATTGTTGGTAATAAATATAATTATTAGATGCATTGA
6131100 CATGATTATCGAAAGCTCGATGGGATTGGAAGCTTGTCGAAGATATATCACACTATCCATTGGTT
261 CATGATTATCGAAAGCTCGATGGGATTGGAAGCTTGTCGAAGATATATCACACTATCCATTGGTT
6131165 CTATCAATAATTTTGGATGATTAGATTCTGGTTATAA
326 CTATCAATAATTTTGGATGATTAGATTCTGGTTATAA
6131202 TGGCATGAAT
Statistics
Matches: 362, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
418 362 1.00
ACGTcount: A:0.36, C:0.07, G:0.17, T:0.39
Consensus pattern (418 bp):
TTTTATTATTTAAATTAATAAATTGAATGAAATATTAATTTAGATCAAGATTGGGTGGAAATTCG
AAGAAAATAGAAAATTACCAAAATTCAGGGAATTTTGGTATTTCTGCAATTTAGCCTGATAAGTT
CGTATGAATTATATTCTGTATAATTTTAATTAAATTAAATGTTATTTGGTGATGAATATTATATA
AATATGTGTTTTATTATTGGAATTGAATTATTGTTGGTAATAAATATAATTATTAGATGCATTGA
CATGATTATCGAAAGCTCGATGGGATTGGAAGCTTGTCGAAGATATATCACACTATCCATTGGTT
CTATCAATAATTTTGGATGATTAGATTCTGGTTATAAGTAAGGGTAAATTTGTAAAAATGTCAAA
AAGCGACCAACTTGCATGAAATGAATTG
Found at i:6131531 original size:19 final size:20
Alignment explanation
Indices: 6131509--6131547 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6131499 TTTAGTTATG
6131509 TTATTCT-TCTTCTCCTTTT
1 TTATTCTCTCTTCTCCTTTT
*
6131528 TTATTCTCTCTTCTTCTTTT
1 TTATTCTCTCTTCTCCTTTT
6131548 CATAACCCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.05, C:0.26, G:0.00, T:0.69
Consensus pattern (20 bp):
TTATTCTCTCTTCTCCTTTT
Found at i:6134955 original size:99 final size:101
Alignment explanation
Indices: 6134831--6135021 Score: 368
Period size: 99 Copynumber: 1.9 Consensus size: 101
6134821 TTTTATTAAA
6134831 GTGTGATTAGGTCACCTAAAACGACTTTGGTCTACGAATTTTAGAAAAATGGGTTCAGAAGTCGG
1 GTGTGATTAGGTCACCTAAAACGACTTTGGTCTACGAATTTTAGAAAAATGGGTTCAGAAGTCGG
6134896 TTACGTATGAGGAAGGATTAGCACCCTTATTACGCC
66 TTACGTATGAGGAAGGATTAGCACCCTTATTACGCC
6134932 GTGTGATTA-G-CACCTAAAACGACTTTGGTCTACGAATTTTAGAAAAATGGGTTCAGAAGTCGG
1 GTGTGATTAGGTCACCTAAAACGACTTTGGTCTACGAATTTTAGAAAAATGGGTTCAGAAGTCGG
6134995 TTACGTATGAGGAAGGATTAGCACCCT
66 TTACGTATGAGGAAGGATTAGCACCCT
6135022 CTTATCGCCC
Statistics
Matches: 90, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
99 80 0.89
100 1 0.01
101 9 0.10
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.28
Consensus pattern (101 bp):
GTGTGATTAGGTCACCTAAAACGACTTTGGTCTACGAATTTTAGAAAAATGGGTTCAGAAGTCGG
TTACGTATGAGGAAGGATTAGCACCCTTATTACGCC
Found at i:6149338 original size:19 final size:19
Alignment explanation
Indices: 6149314--6149420 Score: 137
Period size: 19 Copynumber: 5.7 Consensus size: 19
6149304 CAAATCTTCT
6149314 AAGATTGCATATCATATCA
1 AAGATTGCATATCATATCA
** * *
6149333 AAGATTATACATCATATCT
1 AAGATTGCATATCATATCA
6149352 AAGATTGCATATCATATC-
1 AAGATTGCATATCATATCA
*
6149370 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCA
*
6149389 AGGATTGCATATCATAT-A
1 AAGATTGCATATCATATCA
6149407 TAAGATTGCATATC
1 -AAGATTGCATATC
6149421 CTCAAAAATT
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
18 18 0.24
19 58 0.76
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (19 bp):
AAGATTGCATATCATATCA
Found at i:6149384 original size:56 final size:56
Alignment explanation
Indices: 6149314--6149420 Score: 160
Period size: 56 Copynumber: 1.9 Consensus size: 56
6149304 CAAATCTTCT
* *
6149314 AAGATTGCATATCATATCAAAGATTATACATCATATCTAAGATTGCATATCATATC
1 AAGATTGCATATCATATCAAAGATTACACATCATATATAAGATTGCATATCATATC
* * * *
6149370 AAGATTGCATATCATATCTAGGATTGCATATCATATATAAGATTGCATATC
1 AAGATTGCATATCATATCAAAGATTACACATCATATATAAGATTGCATATC
6149421 CTCAAAAATT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 45 1.00
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (56 bp):
AAGATTGCATATCATATCAAAGATTACACATCATATATAAGATTGCATATCATATC
Found at i:6161678 original size:23 final size:21
Alignment explanation
Indices: 6161646--6161695 Score: 82
Period size: 23 Copynumber: 2.3 Consensus size: 21
6161636 CTCATGCTCA
6161646 CAATTTAAATCATATCACTGAG
1 CAATTTAAATCATATCACT-AG
6161668 CATATTTAAATCATATCACTAG
1 CA-ATTTAAATCATATCACTAG
6161690 CAATTT
1 CAATTT
6161696 CCATTTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.15
22 6 0.22
23 17 0.63
ACGTcount: A:0.40, C:0.18, G:0.06, T:0.36
Consensus pattern (21 bp):
CAATTTAAATCATATCACTAG
Found at i:6162137 original size:51 final size:51
Alignment explanation
Indices: 6162059--6162175 Score: 216
Period size: 51 Copynumber: 2.3 Consensus size: 51
6162049 AGGATCACAT
* *
6162059 TTATCACTTGTCACTTGTCCCTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCACTAATCAGATAAGTGTAGCTAAAGCTACCAC
6162110 TTATCACTTGTCACTTGTCACTAATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCACTAATCAGATAAGTGTAGCTAAAGCTACCAC
6162161 TTATCACTTGTCACT
1 TTATCACTTGTCACT
6162176 GATTAGAAGT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTTGTCACTAATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:6164724 original size:32 final size:33
Alignment explanation
Indices: 6164677--6164748 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 33
6164667 ATTTTATGAC
* * *
6164677 TTTTTAAAAATTA-TTTAACAAAATTTTAAAGTG
1 TTTTTATAAATTATTTTAA-AAAAATTTAAAGTA
*
6164710 TTTTTATAAA-TATTTTAAAAAAATTTAAATTA
1 TTTTTATAAATTATTTTAAAAAAATTTAAAGTA
6164742 TTTTTAT
1 TTTTTAT
6164749 TATTTTAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 20 0.59
33 14 0.41
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.51
Consensus pattern (33 bp):
TTTTTATAAATTATTTTAAAAAAATTTAAAGTA
Found at i:6170055 original size:3 final size:3
Alignment explanation
Indices: 6170047--6170086 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
6170037 TGTTAAAGCC
6170047 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
6170087 CGGAATAGGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:6170424 original size:26 final size:27
Alignment explanation
Indices: 6170380--6170430 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
6170370 TTCTATCCCA
*
6170380 CTTCAATTTAAATAATTAAACATAATT
1 CTTCAATTAAAATAATTAAACATAATT
*
6170407 CTTCAA-TAAAATATTTAAACATAA
1 CTTCAATTAAAATAATTAAACATAA
6170431 AATATATGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (27 bp):
CTTCAATTAAAATAATTAAACATAATT
Found at i:6182096 original size:16 final size:17
Alignment explanation
Indices: 6182077--6182109 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
6182067 TATATAATGC
6182077 ACTACTATTAT-ATATA
1 ACTACTATTATAATATA
*
6182093 ACTATTATTATAATATA
1 ACTACTATTATAATATA
6182110 GATTATAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (17 bp):
ACTACTATTATAATATA
Found at i:6183148 original size:24 final size:25
Alignment explanation
Indices: 6183094--6183162 Score: 70
Period size: 25 Copynumber: 2.7 Consensus size: 25
6183084 ATTGTTATTG
* * *
6183094 TATAAAAGTAAAATGAATTATTACAT
1 TATAAAATTAAAAT-ATTTATAACAT
6183120 T-TAAAATTAAAATATTTATAAC-T
1 TATAAAATTAAAATATTTATAACAT
6183143 TATAAAATTTAAAATTATTT
1 TATAAAA-TTAAAA-TATTT
6183163 GAATCCGTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
23 2 0.05
24 12 0.32
25 17 0.46
26 6 0.16
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (25 bp):
TATAAAATTAAAATATTTATAACAT
Found at i:6187875 original size:18 final size:18
Alignment explanation
Indices: 6187852--6187902 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
6187842 CCAAAAAGTT
6187852 AATTAATATATATAAT-TA
1 AATTAATAT-TATAATATA
6187870 AATTAATATTATAATATA
1 AATTAATATTATAATATA
* *
6187888 AATTTATTTTATAAT
1 AATTAATATTATAAT
6187903 GCGAGAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.20
18 24 0.80
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AATTAATATTATAATATA
Found at i:6196006 original size:24 final size:24
Alignment explanation
Indices: 6195979--6196025 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
6195969 AGCCTATAAC
*
6195979 GGGTAGCTGCGAAGAGCAATTAAT
1 GGGTAGCTCCGAAGAGCAATTAAT
*
6196003 GGGTAGCTCCGAAGAGCACTTAA
1 GGGTAGCTCCGAAGAGCAATTAA
6196026 CGGGAAGCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.32, C:0.17, G:0.32, T:0.19
Consensus pattern (24 bp):
GGGTAGCTCCGAAGAGCAATTAAT
Found at i:6196129 original size:26 final size:25
Alignment explanation
Indices: 6196076--6196144 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 25
6196066 AGCACTAATT
6196076 GGAAGCTCACAAAGAGCCTTTAATCG
1 GGAAGCTCACAAAGAG-CTTTAATCG
*
6196102 GGAAGCTCACGAAGAGCTATATAA-CG
1 GGAAGCTCACAAAGAGCT-T-TAATCG
* *
6196128 GGATGCTCA-TAAGAGCT
1 GGAAGCTCACAAAGAGCT
6196145 GCGATGTGCC
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
25 9 0.24
26 26 0.68
27 3 0.08
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.19
Consensus pattern (25 bp):
GGAAGCTCACAAAGAGCTTTAATCG
Found at i:6199422 original size:85 final size:86
Alignment explanation
Indices: 6199278--6199452 Score: 343
Period size: 85 Copynumber: 2.0 Consensus size: 86
6199268 TATAAATTAT
6199278 AATATATTCATATATTAAACATAAATATACAAGTTTTTCTTAAGTTACTCATACAACCACAATTG
1 AATATATTCATATATTAAACATAAATATACAAGTTTTTCTTAAGTTACTCATACAACCACAATTG
6199343 CAATTTCAAATAATACAATCA
66 CAATTTCAAATAATACAATCA
6199364 AATATATTCATATA-TAAACATAAATATACAAGTTTTTCTTAAGTTACTCATACAACCACAATTG
1 AATATATTCATATATTAAACATAAATATACAAGTTTTTCTTAAGTTACTCATACAACCACAATTG
6199428 CAATTTCAAATAATACAATCA
66 CAATTTCAAATAATACAATCA
6199449 AATA
1 AATA
6199453 ACTATAATTA
Statistics
Matches: 89, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 75 0.84
86 14 0.16
ACGTcount: A:0.46, C:0.16, G:0.03, T:0.34
Consensus pattern (86 bp):
AATATATTCATATATTAAACATAAATATACAAGTTTTTCTTAAGTTACTCATACAACCACAATTG
CAATTTCAAATAATACAATCA
Found at i:6207291 original size:185 final size:185
Alignment explanation
Indices: 6206979--6207350 Score: 728
Period size: 185 Copynumber: 2.0 Consensus size: 185
6206969 AATTTAATCT
6206979 TTCAATCTTTTCCTAACTAAATTGATAGGGTTCAATCGTTTAAGGGTTGCTCGCATAAGAGCCAA
1 TTCAATCTTTTCCTAACTAAATTGATAGGGTTCAATCGTTTAAGGGTTGCTCGCATAAGAGCCAA
6207044 ACATTTCAAAATGGTTATATTGATTCGATTCGATTCAATTGGATTTTTTGAACCATCCATCATAA
66 ACATTTCAAAATGGTTATATTGATTCGATTCGATTCAATTGGATTTTTTGAACCATCCATCATAA
6207109 TTCGGCTCGGCTCGCTTCATTTCTTGAATTTTCCATGTTAATATTTGGTTTTGGA
131 TTCGGCTCGGCTCGCTTCATTTCTTGAATTTTCCATGTTAATATTTGGTTTTGGA
6207164 TTCAATC-TTTCTCTAACTAAATTGATAGGGTTCAATCGTTTAAGGGTTGCTCGCATAAGAGCCA
1 TTCAATCTTTTC-CTAACTAAATTGATAGGGTTCAATCGTTTAAGGGTTGCTCGCATAAGAGCCA
6207228 AACATTTCAAAATGGTTATATTGATTCGATTCGATTCAATTGGATTTTTTGAACCATCCATCATA
65 AACATTTCAAAATGGTTATATTGATTCGATTCGATTCAATTGGATTTTTTGAACCATCCATCATA
6207293 ATTCGGCTCGGCTCGCTTCATTTCTTGAATTTTCCATGTTAATATTTGGTTTTGGA
130 ATTCGGCTCGGCTCGCTTCATTTCTTGAATTTTCCATGTTAATATTTGGTTTTGGA
6207349 TT
1 TT
6207351 TTTAGGCTTA
Statistics
Matches: 186, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
184 4 0.02
185 182 0.98
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (185 bp):
TTCAATCTTTTCCTAACTAAATTGATAGGGTTCAATCGTTTAAGGGTTGCTCGCATAAGAGCCAA
ACATTTCAAAATGGTTATATTGATTCGATTCGATTCAATTGGATTTTTTGAACCATCCATCATAA
TTCGGCTCGGCTCGCTTCATTTCTTGAATTTTCCATGTTAATATTTGGTTTTGGA
Found at i:6219678 original size:21 final size:21
Alignment explanation
Indices: 6219654--6219755 Score: 66
Period size: 21 Copynumber: 4.9 Consensus size: 21
6219644 ACGAGCTTCT
*
6219654 GTTTAACTCATATGAGTTTTC
1 GTTTAACTCTTATGAGTTTTC
* *
6219675 GTTTAGCTC-TATTGAG-CTTC
1 GTTTAACTCTTA-TGAGTTTTC
* * * *
6219695 TATTTAACCCTTATGGGTTTCC
1 -GTTTAACTCTTATGAGTTTTC
* *
6219717 GTTCAACTCTTATGAGCTTTC
1 GTTTAACTCTTATGAGTTTTC
* *
6219738 GTTCAAC-CCTATGAGTTT
1 GTTTAACTCTTATGAGTTT
6219756 CTGTTTAGCA
Statistics
Matches: 61, Mismatches: 16, Indels: 9
0.71 0.19 0.10
Matches are distributed among these distances:
20 14 0.23
21 43 0.70
22 4 0.07
ACGTcount: A:0.20, C:0.21, G:0.16, T:0.44
Consensus pattern (21 bp):
GTTTAACTCTTATGAGTTTTC
Found at i:6219692 original size:42 final size:41
Alignment explanation
Indices: 6219628--6219783 Score: 120
Period size: 42 Copynumber: 3.8 Consensus size: 41
6219618 CCTCGTGTAC
* * * *
6219628 TTTTCATTTGGCTCTCACGAGCTTCTGTTTAACTCATATGAG
1 TTTTCGTTTAGCTCTTATGAGCTTCTGTTTAAC-CATATGAG
* * *
6219670 TTTTCGTTTAGCTC-TATTGAGCTTCTATTTAACCCTTATGGG
1 TTTTCGTTTAGCTCTTA-TGAGCTTCTGTTTAA-CCATATGAG
* * * * *
6219712 TTTCCGTTCAACTCTTATGAGCTT-TCGTTCAACCCTATGAG
1 TTTTCGTTTAGCTCTTATGAGCTTCT-GTTTAACCATATGAG
* *
6219753 -TTTCTGTTTAGCACTTATGTGCTTCTGTTTA
1 TTTTC-GTTTAGCTCTTATGAGCTTCTGTTTA
6219784 GCCTTTGGGC
Statistics
Matches: 88, Mismatches: 20, Indels: 13
0.73 0.17 0.11
Matches are distributed among these distances:
40 3 0.03
41 28 0.32
42 54 0.61
43 3 0.03
ACGTcount: A:0.17, C:0.21, G:0.16, T:0.46
Consensus pattern (41 bp):
TTTTCGTTTAGCTCTTATGAGCTTCTGTTTAACCATATGAG
Found at i:6219797 original size:19 final size:21
Alignment explanation
Indices: 6219754--6219798 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
6219744 CCCTATGAGT
*
6219754 TTCTGTTTAGCACTTATGTGC
1 TTCTGTTTAGCACTTATGGGC
6219775 TTCTGTTTAGC-CTT-TGGGC
1 TTCTGTTTAGCACTTATGGGC
6219794 TTCTG
1 TTCTG
6219799 AAAATGATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.39
20 3 0.13
21 11 0.48
ACGTcount: A:0.09, C:0.20, G:0.22, T:0.49
Consensus pattern (21 bp):
TTCTGTTTAGCACTTATGGGC
Found at i:6228064 original size:18 final size:18
Alignment explanation
Indices: 6228041--6228076 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
6228031 TGTAATCTCA
6228041 ATTTTC-TTCTTTTCTATT
1 ATTTTCTTTCTTTT-TATT
6228059 ATTTTCTTTCTTTTTATT
1 ATTTTCTTTCTTTTTATT
6228077 GTTACTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.75
Consensus pattern (18 bp):
ATTTTCTTTCTTTTTATT
Found at i:6236872 original size:23 final size:22
Alignment explanation
Indices: 6236846--6236995 Score: 205
Period size: 21 Copynumber: 6.8 Consensus size: 22
6236836 ACTTTATTTT
*
6236846 AAAAAAAAGAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAGAAAAA
6236868 AAAAAAAAAAAAAAAA-AAAAA
1 AAAAAAAAAAAAAAAAGAAAAA
6236889 AAAAAAAAAAAAAAAA-AAAAA
1 AAAAAAAAAAAAAAAAGAAAAA
6236910 AAAAAAAAAAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAGAAAAA
*
6236932 AAAAAAAGAAAAGAAAAGAAAAA
1 AAAAAAA-AAAAAAAAAGAAAAA
* *
6236955 AGAAAAAAAGAAAAAAAGAAGAA
1 A-AAAAAAAAAAAAAAAGAAAAA
* * *
6236978 GAAAAAGAAAAGAAAAGA
1 AAAAAAAAAAAAAAAAGA
6236996 GAAAGGAGAG
Statistics
Matches: 116, Mismatches: 9, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
21 42 0.36
22 41 0.35
23 27 0.23
24 6 0.05
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (22 bp):
AAAAAAAAAAAAAAAAGAAAAA
Found at i:6236901 original size:40 final size:40
Alignment explanation
Indices: 6236846--6236993 Score: 197
Period size: 40 Copynumber: 3.6 Consensus size: 40
6236836 ACTTTATTTT
*
6236846 AAAAAAAAGAAAAAAAGAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAGAAAAAAAAAAAAAAAAAAAAAAA
*
6236886 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAGAAAAAAAAAAAAAAAAAAAAAAA
* * *
6236926 GAAAAAAAAAAAAGAAAAGAAAAGAAAAAAGAAAAAAAGAAA
1 -AAAAAAAAAAAA-AAAAGAAAAAAAAAAAAAAAAAAAAAAA
* * * *
6236968 AAAAGAAGAAGAAAAAGAAAAGAAAA
1 AAAAAAAAAAAAAAAAGAAAAAAAAA
6236994 GAGAAAGGAG
Statistics
Matches: 97, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
40 52 0.54
41 21 0.22
42 24 0.25
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (40 bp):
AAAAAAAAAAAAAAAAGAAAAAAAAAAAAAAAAAAAAAAA
Found at i:6236906 original size:45 final size:45
Alignment explanation
Indices: 6236847--6236999 Score: 191
Period size: 44 Copynumber: 3.2 Consensus size: 45
6236837 CTTTATTTTA
6236847 AAAAAAAGAAAAAAAGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAGAAAAAAA-AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
6236893 AAAAAAA-AAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAAAAAAA
1 AAAAAAAGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
6236937 AAGAAAAGAAAAGAAAAAAGAAAAAAAGAAAAAAAGAAGAAGAAAAAGAAAA
1 AAAAAAAGAAAA-AAAAAA-AAAAAAA-AAAAAAA-AA-AA-AAAAA-AAAA
* *
6236989 GAAAAGAGAAA
1 AAAAAAAGAAA
6237000 GGAGAGGCCA
Statistics
Matches: 93, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
44 35 0.38
45 11 0.12
46 13 0.14
47 7 0.08
48 7 0.08
49 2 0.02
50 1 0.01
51 5 0.05
52 12 0.13
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (45 bp):
AAAAAAAGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
Found at i:6236983 original size:1 final size:1
Alignment explanation
Indices: 6236846--6236971 Score: 180
Period size: 1 Copynumber: 126.0 Consensus size: 1
6236836 ACTTTATTTT
* *
6236846 AAAAAAAAGAAAAAAAGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * *
6236911 AAAAAAAAAAAAAAAGAAAAAAAAAAAAGAAAAGAAAAGAAAAAAGAAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
6236972 GAAGAAGAAA
Statistics
Matches: 109, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
1 109 1.00
ACGTcount: A:0.94, C:0.00, G:0.06, T:0.00
Consensus pattern (1 bp):
A
Found at i:6236999 original size:40 final size:39
Alignment explanation
Indices: 6236847--6236999 Score: 196
Period size: 38 Copynumber: 4.1 Consensus size: 39
6236837 CTTTATTTTA
6236847 AAAAAAAGAAAAAAAGAAAAA-AAAAA-AAAA-AAAAAA-
1 AAAAAAAGAAAAAAA-AAAAAGAAAAAGAAAAGAAAAAAG
* *
6236883 AAAAAAA-AAAAAAAAAAAA-AAAAA-AAAAAAAAAAAA
1 AAAAAAAGAAAAAAAAAAAAGAAAAAGAAAAGAAAAAAG
6236919 AAAAAAAGAAAAAAAAAAAAG-AAAAGAAAAGAAAAAAG
1 AAAAAAAGAAAAAAAAAAAAGAAAAAGAAAAGAAAAAAG
* *
6236957 AAAAAAAGAAAAAAAGAAGAAGAAAAAGAAAAGAAAAGAG
1 AAAAAAAGAAAAAAA-AAAAAGAAAAAGAAAAGAAAAAAG
6236997 AAA
1 AAA
6237000 GGAGAGGCCA
Statistics
Matches: 106, Mismatches: 4, Indels: 10
0.88 0.03 0.08
Matches are distributed among these distances:
34 14 0.13
35 13 0.12
36 14 0.13
37 16 0.15
38 25 0.24
39 5 0.05
40 19 0.18
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (39 bp):
AAAAAAAGAAAAAAAAAAAAGAAAAAGAAAAGAAAAAAG
Found at i:6237952 original size:44 final size:44
Alignment explanation
Indices: 6237881--6238585 Score: 399
Period size: 44 Copynumber: 15.8 Consensus size: 44
6237871 CATGGCGAAT
* * * *
6237881 CTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGCCACAAAC
1 CTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAAC
* * *
6237925 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAG-TAACAAAC
1 CTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCT-ACAAAC
* * ** * * *
6237969 CTTATTTCCCTGAAGTTGCAGTGGAATATATTAAAGCTAACATAT
1 CTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCT-ACAAAC
* * * *
6238014 TTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATA--T-CAAAC
1 CTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAAC
* * * *
6238055 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACTAATC
1 CTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTAC-AAAC
* * * * * *
6238100 C-TATCT-TCCTAAAGTTGTAGTGGAGCGGATTAAA-ATGATGAATC
1 CTTATCTCT-CTGAAGTTGCAGTGGAGCAGATTAAAGCT-A-CAAAC
* *
6238144 C-TATAC-CTCTGAAGTTGCAGTAGG-TC-GAATTAAATCTACCATAAC
1 CTTAT-CTCTCTGAAGTTGCAGT-GGAGCAG-ATTAAAGCTA-CA-AAC
*
6238189 AAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTGCAAAC
1 ----CTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAAC
* * * ** * * * *
6238237 CTTATCTCCCTGAAGTTACAGTGGATCAGGCTGAAGATACCAAT
1 CTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAAC
* *
6238281 CTTATCTC-CTTGAAGTTGCAGTGGAGCAGATTGAAGCTACTAATC
1 CTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTAAAGCTAC-AAAC
* * * * * *
6238326 C-TATCT-TCCTAAAGTTGTAGTGGAGCGGATTAAA-ATGATGAATC
1 CTTATCTCT-CTGAAGTTGCAGTGGAGCAGATTAAAGCT-A-CAAAC
* *
6238370 C-TATAC-CTCTGAAGTTGCAGT--ATGTCGGATTAAATCTACCATAAC
1 CTTAT-CTCTCTGAAGTTGCAGTGGA-G-CAGATTAAAGCTA-CA-AAC
*
6238415 AAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTGCAAAC
1 ----CTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAAC
* * * * * * * *
6238463 CTTATCTCCCTGAAGTTACAGTGGATCAGGTTGAAGATACCAAT
1 CTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAAC
* *
6238507 CTTATCTC-CTTGAAGTTGCAGTGGAGCAGATTGAAGCTACTAATC
1 CTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTAAAGCTAC-AAAC
* ** *
6238552 C-TATCTCCCTGAAGTTGTTGTGGAGCGGATTAAA
1 CTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAA
6238586 ATGATGAATC
Statistics
Matches: 510, Mismatches: 105, Indels: 92
0.72 0.15 0.13
Matches are distributed among these distances:
41 31 0.06
42 1 0.00
43 8 0.02
44 342 0.67
45 54 0.11
48 6 0.01
49 10 0.02
50 55 0.11
51 2 0.00
52 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (44 bp):
CTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAAC
Found at i:6238079 original size:86 final size:88
Alignment explanation
Indices: 6237881--6238091 Score: 257
Period size: 86 Copynumber: 2.4 Consensus size: 88
6237871 CATGGCGAAT
* * *
6237881 CTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGCCACAAACCTTATCTCTCTGAAGTTGCAG
1 CTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGCAACAAACCTTATCTCTCTGAAGTTGCAG
*
6237946 TAGAGCAGGTTGAAGTAACAAAC
66 TAGAGCAGGATGAAGTAACAAAC
* * * * * **
6237969 CTTATTTCCCTGAAGTTGCAGTGGAATATATTAAAGCTAACATATTTTATCTCTCTGAAGTTGCA
1 CTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGC-AACAAACCTTATCTCTCTGAAGTTGCA
* *
6238034 GTAGAGCA-GAT-CA-TATCAAAC
65 GTAGAGCAGGATGAAGTAACAAAC
* *
6238055 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGC
1 CTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGC
6238092 TACTAATCCT
Statistics
Matches: 103, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
86 38 0.37
87 1 0.01
88 33 0.32
89 31 0.30
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.29
Consensus pattern (88 bp):
CTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGCAACAAACCTTATCTCTCTGAAGTTGCAG
TAGAGCAGGATGAAGTAACAAAC
Found at i:6238705 original size:226 final size:226
Alignment explanation
Indices: 6238055--6238679 Score: 1151
Period size: 226 Copynumber: 2.8 Consensus size: 226
6238045 CATATCAAAC
* *
6238055 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACTAATCCTATCTTCCTAAAGTTGTAG
1 CTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACTAATCCTATCTTCCTAAAGTTGTAG
*
6238120 TGGAGCGGATTAAAATGATGAATCCTATACCTCTGAAGTTGCAGTAGGTCGAATTAAATCTACCA
66 TGGAGCGGATTAAAATGATGAATCCTATACCTCTGAAGTTGCAGTAGGTCGGATTAAATCTACCA
6238185 TAACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTGCAAACCTTATCTCCCTGA
131 TAACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTGCAAACCTTATCTCCCTGA
6238250 AGTTACAGTGGATCAGGCTGAAGATACCAAT
196 AGTTACAGTGGATCAGGCTGAAGATACCAAT
6238281 CTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACTAATCCTATCTTCCTAAAGTTGTAG
1 CTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACTAATCCTATCTTCCTAAAGTTGTAG
*
6238346 TGGAGCGGATTAAAATGATGAATCCTATACCTCTGAAGTTGCAGTATGTCGGATTAAATCTACCA
66 TGGAGCGGATTAAAATGATGAATCCTATACCTCTGAAGTTGCAGTAGGTCGGATTAAATCTACCA
6238411 TAACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTGCAAACCTTATCTCCCTGA
131 TAACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTGCAAACCTTATCTCCCTGA
*
6238476 AGTTACAGTGGATCAGGTTGAAGATACCAAT
196 AGTTACAGTGGATCAGGCTGAAGATACCAAT
* * *
6238507 CTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACTAATCCTATCTCCCTGAAGTTGTTG
1 CTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACTAATCCTATCTTCCTAAAGTTGTAG
*
6238572 TGGAGCGGATTAAAATGATGAATCCTATACCTCTGAAGTTGCAGTAGGTCGGATTAAATCTATCA
66 TGGAGCGGATTAAAATGATGAATCCTATACCTCTGAAGTTGCAGTAGGTCGGATTAAATCTACCA
* *
6238637 TAACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAA
131 TAACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAA
6238680 ACCATAAATC
Statistics
Matches: 387, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
226 387 1.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (226 bp):
CTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACTAATCCTATCTTCCTAAAGTTGTAG
TGGAGCGGATTAAAATGATGAATCCTATACCTCTGAAGTTGCAGTAGGTCGGATTAAATCTACCA
TAACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTGCAAACCTTATCTCCCTGA
AGTTACAGTGGATCAGGCTGAAGATACCAAT
Found at i:6240285 original size:20 final size:20
Alignment explanation
Indices: 6240245--6240285 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
6240235 ATTTTCCTTA
* *
6240245 TATATATATATATATTGTTT
1 TATATATATATATACTATTT
*
6240265 TATATATATATTTACTATTT
1 TATATATATATATACTATTT
6240285 T
1 T
6240286 TATTTATTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (20 bp):
TATATATATATATACTATTT
Found at i:6242533 original size:134 final size:134
Alignment explanation
Indices: 6242293--6242565 Score: 519
Period size: 134 Copynumber: 2.0 Consensus size: 134
6242283 TTGGGGGGAA
*
6242293 AATTTTATTGACTAATATATAGTTGCTAATACGGAACAAAGAACGCAAAGGCTAATCATACTAAG
1 AATTTTATTGACTAATATATAGTTGCTAATACGAAACAAAGAACGCAAAGGCTAATCATACTAAG
6242358 AGTTTTACAGAAAAGTAGAACATTGCTAGGGTGATATCGATTTGGTCGAGTTTTTGAATTGTCCA
66 AGTTTTACAGAAAAGTAGAACATTGCTAGGGTGATATCGATTTGGTCGAGTTTTTGAATTGTCCA
6242423 TTAT
131 TTAT
*
6242427 AATTTTATTGACTAATATATAGTTGCTAATACGAAACAAAGAACGCAAAGGCTAATCGTACTAAG
1 AATTTTATTGACTAATATATAGTTGCTAATACGAAACAAAGAACGCAAAGGCTAATCATACTAAG
*
6242492 AGTTTTAGAGAAAAGTAGAACATTGCTAGGGTGATATCGATTTGGTCGAGTTTTTGAATTGTCCA
66 AGTTTTACAGAAAAGTAGAACATTGCTAGGGTGATATCGATTTGGTCGAGTTTTTGAATTGTCCA
6242557 TTAT
131 TTAT
6242561 AATTT
1 AATTT
6242566 AGTTCGGTTT
Statistics
Matches: 136, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
134 136 1.00
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.33
Consensus pattern (134 bp):
AATTTTATTGACTAATATATAGTTGCTAATACGAAACAAAGAACGCAAAGGCTAATCATACTAAG
AGTTTTACAGAAAAGTAGAACATTGCTAGGGTGATATCGATTTGGTCGAGTTTTTGAATTGTCCA
TTAT
Found at i:6244328 original size:219 final size:219
Alignment explanation
Indices: 6243949--6244391 Score: 850
Period size: 219 Copynumber: 2.0 Consensus size: 219
6243939 CGATATATTT
6243949 AAAAAGCCATGAATTGGAATTTTCCAAAGCAACTTGTATAACCTTATCATATTTTAGTGTGCGAT
1 AAAAAGCCATGAATTGGAATTTTCCAAAGCAACTTGTATAACCTTATCATATTTTAGTGTGCGAT
6244014 GGTGAAGCTTTAAGAAGGCTCTTAGTTTGTTCTTAATTGCATGTATCATGTGAATACCTACAACA
66 GGTGAAGCTTTAAGAAGGCTCTTAGTTTGTTCTTAATTGCATGTATCATGTGAATACCTACAACA
6244079 TGGAAGCGATGGAAAAGAGTTTGCTAGACAGAGATTAAGACATTTGGATACAAAAAAGAATAAAC
131 TGGAAGCGATGGAAAAGAGTTTGCTAGACAGAGATTAAGACATTTGGATACAAAAAAGAATAAAC
6244144 AAAGTAAAAAAGGGAAGTCAAAGG
196 AAAGTAAAAAAGGGAAGTCAAAGG
*
6244168 AAAAAGCCATGAATTGGAATTTTCTAAAGCAACTTGTATAACCTTATCATATTTTAGTGTGCGAT
1 AAAAAGCCATGAATTGGAATTTTCCAAAGCAACTTGTATAACCTTATCATATTTTAGTGTGCGAT
* *
6244233 GGTGAAGCTTTAAGAAGGCTCTTAGTTTGTTCTTAATTGCTTGTATCATGTGAATATCTACAACA
66 GGTGAAGCTTTAAGAAGGCTCTTAGTTTGTTCTTAATTGCATGTATCATGTGAATACCTACAACA
*
6244298 TGGAAGCGATGGAAAAGAGTTTGCTAGACAGAGATTAAGACATTTGGATATAAAAAAGAATAAAC
131 TGGAAGCGATGGAAAAGAGTTTGCTAGACAGAGATTAAGACATTTGGATACAAAAAAGAATAAAC
6244363 AAAGTAAAAAAGGGAAGTCAAAGG
196 AAAGTAAAAAAGGGAAGTCAAAGG
6244387 AAAAA
1 AAAAA
6244392 ATTATCTATG
Statistics
Matches: 220, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
219 220 1.00
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.28
Consensus pattern (219 bp):
AAAAAGCCATGAATTGGAATTTTCCAAAGCAACTTGTATAACCTTATCATATTTTAGTGTGCGAT
GGTGAAGCTTTAAGAAGGCTCTTAGTTTGTTCTTAATTGCATGTATCATGTGAATACCTACAACA
TGGAAGCGATGGAAAAGAGTTTGCTAGACAGAGATTAAGACATTTGGATACAAAAAAGAATAAAC
AAAGTAAAAAAGGGAAGTCAAAGG
Found at i:6244861 original size:216 final size:216
Alignment explanation
Indices: 6244478--6244914 Score: 838
Period size: 216 Copynumber: 2.0 Consensus size: 216
6244468 AAAGTTTTCC
* *
6244478 AATTTTTTTGGAGTGCCTTTGGATGGTCATACACCCATGCCTTTGTTTGGATATCTGTCCAACAT
1 AATTTATTTGGAGTGCCTTTGGATGGTCACACACCCATGCCTTTGTTTGGATATCTGTCCAACAT
*
6244543 GGGTACTTCAAGAAAAATTAAGACTTGGAGCAACATAGTTGAATTGAAGTCATCGACTTATGGCC
66 GGGTACTTCAAGAAAAAATAAGACTTGGAGCAACATAGTTGAATTGAAGTCATCGACTTATGGCC
*
6244608 TGGTAATAATGACATTGAGCTGATATGGCTTATGGTATACCATTTAAGGAATAAGAAAGATCAAT
131 TGGTAATAATGACATTGAGCTGATATGGCTAATGGTATACCATTTAAGGAATAAGAAAGATCAAT
6244673 GTATGTCCCTGGTGGAATAAA
196 GTATGTCCCTGGTGGAATAAA
6244694 AATTTATTTGGAGTGCCTTTGGATGGTCACACACCCATGCCTTTGTTTGGATATCTGTCCAACAT
1 AATTTATTTGGAGTGCCTTTGGATGGTCACACACCCATGCCTTTGTTTGGATATCTGTCCAACAT
6244759 GGGTACTTCAAGAAAAAATAAGACTTGGAGCAACATAGTTGAATTGAAGTCATCGACTTATGGCC
66 GGGTACTTCAAGAAAAAATAAGACTTGGAGCAACATAGTTGAATTGAAGTCATCGACTTATGGCC
6244824 TGGTAATAATGACATTGAGCTGATATGGCTAATGGTATACCATTTAAGGAATAAGAAAGATCAAT
131 TGGTAATAATGACATTGAGCTGATATGGCTAATGGTATACCATTTAAGGAATAAGAAAGATCAAT
6244889 GTATGTCCCTGGTGGAATAAA
196 GTATGTCCCTGGTGGAATAAA
6244910 AATTT
1 AATTT
6244915 TAAGTTACCT
Statistics
Matches: 217, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
216 217 1.00
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (216 bp):
AATTTATTTGGAGTGCCTTTGGATGGTCACACACCCATGCCTTTGTTTGGATATCTGTCCAACAT
GGGTACTTCAAGAAAAAATAAGACTTGGAGCAACATAGTTGAATTGAAGTCATCGACTTATGGCC
TGGTAATAATGACATTGAGCTGATATGGCTAATGGTATACCATTTAAGGAATAAGAAAGATCAAT
GTATGTCCCTGGTGGAATAAA
Found at i:6246779 original size:1 final size:1
Alignment explanation
Indices: 6246746--6246771 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
6246736 TTTGGAGAAG
6246746 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
6246772 CCTTTTTTNN
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:6251608 original size:3 final size:3
Alignment explanation
Indices: 6251600--6251654 Score: 60
Period size: 3 Copynumber: 18.3 Consensus size: 3
6251590 AGCTATTATG
* *
6251600 TAA TAA TAA TAA T-A TGA TAA GTAA CAA TAA TAGA -AA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TA-A TAA TAA TAA TAA
6251645 TAA TAA TAA T
1 TAA TAA TAA T
6251655 TACTGAAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
2 3 0.07
3 38 0.84
4 4 0.09
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:6255479 original size:21 final size:21
Alignment explanation
Indices: 6255453--6255513 Score: 113
Period size: 21 Copynumber: 2.9 Consensus size: 21
6255443 ACACACTTAT
6255453 AGAAGCTCAAAAGAGCTGAAC
1 AGAAGCTCAAAAGAGCTGAAC
*
6255474 AGAAGCTCAGAAGAGCTGAAC
1 AGAAGCTCAAAAGAGCTGAAC
6255495 AGAAGCTCAAAAGAGCTGA
1 AGAAGCTCAAAAGAGCTGA
6255514 TCCACCCGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.46, C:0.18, G:0.26, T:0.10
Consensus pattern (21 bp):
AGAAGCTCAAAAGAGCTGAAC
Found at i:6262103 original size:20 final size:22
Alignment explanation
Indices: 6262054--6262132 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 22
6262044 TAAAGTTGGG
6262054 TGACTAAAATGAATGTATGTAA
1 TGACTAAAATGAATGTATGTAA
*
6262076 TGAC--AAATTAATG-ATG-AA
1 TGACTAAAATGAATGTATGTAA
*
6262094 TGACTAAAATGATAAATGTAACTGTAG
1 TGACTAAAATG---AATGT-A-TGTAA
6262121 TGACTAAAATGA
1 TGACTAAAATGA
6262133 TAAAAGTATG
Statistics
Matches: 45, Mismatches: 3, Indels: 16
0.70 0.05 0.25
Matches are distributed among these distances:
18 6 0.13
19 3 0.07
20 12 0.27
22 4 0.09
23 4 0.09
24 1 0.02
25 1 0.02
26 2 0.04
27 12 0.27
ACGTcount: A:0.47, C:0.06, G:0.18, T:0.29
Consensus pattern (22 bp):
TGACTAAAATGAATGTATGTAA
Found at i:6262104 original size:27 final size:27
Alignment explanation
Indices: 6262074--6262132 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
6262064 GAATGTATGT
6262074 AATGACAAAT-TAA-TGATGAATGACTAA
1 AATGACAAATGTAACTG-T-AATGACTAA
* *
6262101 AATGATAAATGTAACTGTAGTGACTAA
1 AATGACAAATGTAACTGTAATGACTAA
6262128 AATGA
1 AATGA
6262133 TAAAAGTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 22 0.79
28 4 0.14
29 2 0.07
ACGTcount: A:0.49, C:0.07, G:0.17, T:0.27
Consensus pattern (27 bp):
AATGACAAATGTAACTGTAATGACTAA
Found at i:6263805 original size:16 final size:17
Alignment explanation
Indices: 6263777--6263814 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
6263767 AAAATAAACA
6263777 TTTAAACATTTTTAATT
1 TTTAAACATTTTTAATT
*
6263794 TTTAAA-ATTTTTATTT
1 TTTAAACATTTTTAATT
6263810 TTTAA
1 TTTAA
6263815 GAATAAAGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTAAACATTTTTAATT
Found at i:6264753 original size:28 final size:29
Alignment explanation
Indices: 6264699--6264753 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 29
6264689 AATTCTTGAA
* * *
6264699 TTATTTTTGCTATCTTAAATATAAAATAT
1 TTATTTTTGATATCATAAAAATAAAATAT
*
6264728 TTATTTTT-ATATCATAAAAATTAAAT
1 TTATTTTTGATATCATAAAAATAAAAT
6264754 TAATTATATA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 14 0.64
29 8 0.36
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (29 bp):
TTATTTTTGATATCATAAAAATAAAATAT
Found at i:6264760 original size:29 final size:29
Alignment explanation
Indices: 6264697--6264760 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 29
6264687 AGAATTCTTG
* * *
6264697 AATTATTTTTGCTATCTTAAATATAAAAT
1 AATTATTTTTGATATCATAAAAATAAAAT
* *
6264726 ATTTATTTTT-ATATCATAAAAATTAAATT
1 AATTATTTTTGATATCATAAAAA-TAAAAT
6264755 AATTAT
1 AATTAT
6264761 ATATTAAATA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
28 9 0.32
29 19 0.68
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.50
Consensus pattern (29 bp):
AATTATTTTTGATATCATAAAAATAAAAT
Found at i:6265470 original size:405 final size:407
Alignment explanation
Indices: 6264709--6265520 Score: 1610
Period size: 405 Copynumber: 2.0 Consensus size: 407
6264699 TTATTTTTGC
6264709 TATCTTAAATATAAAATATTTATTTTTATATCATAAAAATTAAATTAATTATATATTAAATAAAA
1 TATCTTAAATATAAAATATTTATTTTTATATCATAAAAATTAAATTAATTATATATTAAATAAAA
6264774 AATATTCAATTCGATTTTAAATAACCACAATTTTTTGACTTACATTCCGTCGAACGTTCAAATAC
66 AATATTCAATTCGATTTTAAATAACCACAATTTTTTGACTTACATTCCGTCGAACGTTCAAATAC
6264839 TTCAGTTCAAGTTGATTTTCAATTTGACAGCCCTACCCTTACTCCTAATATTGTATCAAAAAAAG
131 TTCAGTTCAAGTTGATTTTCAATTTGACAGCCCTACCCTTACTCCTAATATTGTATCAAAAAAAG
6264904 AAAAATTATGATTCATCAAACCTTTTGGAGAGCTAGTGGCTATTGGTAAAATTTACCAACTTGTT
196 AAAAATTATGATTCATCAAACCTTTTGGAGAGCTAGTGGCTATTGGTAAAATTTACCAACTTGTT
6264969 TTATAACCTAAATTACATAAATGCTCATTAAAATTTTATTAAAAATATTTTATGATTAAATAAAT
261 TTATAACCTAAATTACATAAATGCTCATTAAAATTTTATTAAAAATATTTTATGATTAAATAAAT
6265034 TAGCACAAAAAAATTGATTGGTCTATAAATTTTTTTTAAACAATATTGTTGGATTTTTTGTTATC
326 TAGCACAAAAAAATTGATTGGTCTATAAATTTTTTTTAAACAATATTGTTGGATTTTTTGTTATC
6265099 TAATTTTTTTTCTTAAA
391 TAATTTTTTTTCTTAAA
6265116 TATCTT-AA-ATAAAATATTTATTTTTATATCATAAAAATTAAATTAATTATATATTAAATAAAA
1 TATCTTAAATATAAAATATTTATTTTTATATCATAAAAATTAAATTAATTATATATTAAATAAAA
6265179 AATATTCAATTCGATTTTAAATAACCACAATTTTTTGACTTACATTCCGTCGAACGTTCAAATAC
66 AATATTCAATTCGATTTTAAATAACCACAATTTTTTGACTTACATTCCGTCGAACGTTCAAATAC
6265244 TTCAGTTCAAGTTGATTTTCAATTTGACAGCCCTACCCTTACTCCTAATATTGTATCAAAAAAAG
131 TTCAGTTCAAGTTGATTTTCAATTTGACAGCCCTACCCTTACTCCTAATATTGTATCAAAAAAAG
6265309 AAAAATTATGATTCATCAAACCTTTTGGAGAGCTAGTGGCTATTGGTAAAATTTACCAACTTGTT
196 AAAAATTATGATTCATCAAACCTTTTGGAGAGCTAGTGGCTATTGGTAAAATTTACCAACTTGTT
6265374 TTATAACCTAAATTACATAAATGCTCATTAAAATTTTATTAAAAATATTTTATGATTAAATAAAT
261 TTATAACCTAAATTACATAAATGCTCATTAAAATTTTATTAAAAATATTTTATGATTAAATAAAT
6265439 TAGCACAAAAAAATTGATTGGTCTATAAATTTTTTTTAAACAATATTGTTGGATTTTTTGTTATC
326 TAGCACAAAAAAATTGATTGGTCTATAAATTTTTTTTAAACAATATTGTTGGATTTTTTGTTATC
6265504 TAATTTTTTTTCTTAAA
391 TAATTTTTTTTCTTAAA
6265521 ATTTATATAT
Statistics
Matches: 405, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
405 397 0.98
406 2 0.00
407 6 0.01
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (407 bp):
TATCTTAAATATAAAATATTTATTTTTATATCATAAAAATTAAATTAATTATATATTAAATAAAA
AATATTCAATTCGATTTTAAATAACCACAATTTTTTGACTTACATTCCGTCGAACGTTCAAATAC
TTCAGTTCAAGTTGATTTTCAATTTGACAGCCCTACCCTTACTCCTAATATTGTATCAAAAAAAG
AAAAATTATGATTCATCAAACCTTTTGGAGAGCTAGTGGCTATTGGTAAAATTTACCAACTTGTT
TTATAACCTAAATTACATAAATGCTCATTAAAATTTTATTAAAAATATTTTATGATTAAATAAAT
TAGCACAAAAAAATTGATTGGTCTATAAATTTTTTTTAAACAATATTGTTGGATTTTTTGTTATC
TAATTTTTTTTCTTAAA
Found at i:6272921 original size:42 final size:42
Alignment explanation
Indices: 6272843--6272922 Score: 97
Period size: 42 Copynumber: 1.9 Consensus size: 42
6272833 TGTTTGTTGC
* ** *
6272843 TTGGTTTAAGGTTGTTGATGTAGGAGGCTTAGTGGTTGCTAG
1 TTGGTTTAAGGTGGTTGATGTAGGAGGCACAATGGTTGCTAG
* * *
6272885 TTGGTTTGAGGTGGTTGTTGTAGGATGCACAATGGTTG
1 TTGGTTTAAGGTGGTTGATGTAGGAGGCACAATGGTTG
6272923 GTGCCAAGTC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 31 1.00
ACGTcount: A:0.16, C:0.05, G:0.39, T:0.40
Consensus pattern (42 bp):
TTGGTTTAAGGTGGTTGATGTAGGAGGCACAATGGTTGCTAG
Found at i:6275055 original size:20 final size:21
Alignment explanation
Indices: 6275032--6275077 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
6275022 TTTTTTTCAA
*
6275032 ATTTTTATGAA-CTTTTATAT
1 ATTTTTATGAATATTTTATAT
6275052 ATTTTT-TGAATATTTTATAT
1 ATTTTTATGAATATTTTATAT
6275072 -TTTTTA
1 ATTTTTA
6275078 AATGATGTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.65
Consensus pattern (21 bp):
ATTTTTATGAATATTTTATAT
Found at i:6280616 original size:18 final size:18
Alignment explanation
Indices: 6280590--6280624 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6280580 TTATATATTC
6280590 TTTAGAATTTTTTAAAAT
1 TTTAGAATTTTTTAAAAT
*
6280608 TTTATAATTTTTTAAAA
1 TTTAGAATTTTTTAAAA
6280625 AATATAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
TTTAGAATTTTTTAAAAT
Found at i:6280630 original size:17 final size:19
Alignment explanation
Indices: 6280595--6280636 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
6280585 TATTCTTTAG
**
6280595 AATTTTTTAAAATTTTAT-
1 AATTTTTTAAAATAATATA
6280613 AATTTTTTAAAA-AATATA
1 AATTTTTTAAAATAATATA
6280631 AATTTT
1 AATTTT
6280637 GATTCTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
AATTTTTTAAAATAATATA
Found at i:6282324 original size:15 final size:15
Alignment explanation
Indices: 6282304--6282334 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6282294 CTTATAATAT
*
6282304 AAAAAAAAAAAGGCA
1 AAAAAAAAAAAAGCA
6282319 AAAAAAAAAAAAGCA
1 AAAAAAAAAAAAGCA
6282334 A
1 A
6282335 GGCAAGCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.84, C:0.06, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAGCA
Found at i:6282992 original size:30 final size:29
Alignment explanation
Indices: 6282956--6283017 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 29
6282946 ATAAAATTAG
* *
6282956 AAAAATAGTAATTGAAAATATAATATATTC
1 AAAAATAATAATTGAAAA-AGAATATATTC
*
6282986 AAAAATAATAATTGAGAAAGAATATATTC
1 AAAAATAATAATTGAAAAAGAATATATTC
6283015 AAA
1 AAA
6283018 TAATTAAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 13 0.45
30 16 0.55
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.29
Consensus pattern (29 bp):
AAAAATAATAATTGAAAAAGAATATATTC
Found at i:6282995 original size:15 final size:14
Alignment explanation
Indices: 6282956--6283041 Score: 55
Period size: 15 Copynumber: 5.6 Consensus size: 14
6282946 ATAAAATTAG
* *
6282956 AAAAATAGTAATTG
1 AAAAATAATAATTC
6282970 AAAATATAATATATTC
1 AAAA-ATAATA-ATTC
*
6282986 AAAAATAATAATTG
1 AAAAATAATAATTC
* *
6283000 AGAAAGAATATATTC
1 AAAAATAATA-ATTC
6283015 AAATAATTAAAGTAATTC
1 AAA-AA-T-AA-TAATTC
6283033 AAACAATAA
1 AAA-AATAA
6283042 CATTAAAATT
Statistics
Matches: 56, Mismatches: 9, Indels: 12
0.73 0.12 0.16
Matches are distributed among these distances:
14 15 0.27
15 16 0.29
16 11 0.20
17 1 0.02
18 11 0.20
19 2 0.04
ACGTcount: A:0.59, C:0.05, G:0.07, T:0.29
Consensus pattern (14 bp):
AAAAATAATAATTC
Found at i:6283623 original size:40 final size:41
Alignment explanation
Indices: 6283487--6283623 Score: 145
Period size: 41 Copynumber: 3.4 Consensus size: 41
6283477 GACGCTAATG
* * *
6283487 GAAAAACGCCGCAATAGGTAAAGTAATAGCGGCGTTTATGA
1 GAAAAACGCCGCAAAAGGTAAAGCAATAGCGACGTTTATGA
* * *
6283528 GAAAAACGCTGCAAAAGGTCAAA-CAGTAGC-AGCGTTTATAA
1 GAAAAACGCCGCAAAAGGT-AAAGCAATAGCGA-CGTTTATGA
* *
6283569 GGAAAATGCCGCAAAAGGT-AAGCAATAGCGACGTTTATGA
1 GAAAAACGCCGCAAAAGGTAAAGCAATAGCGACGTTTATGA
* *
6283609 GAAAAAAGCTGCAAA
1 GAAAAACGCCGCAAA
6283624 GTACAATTTT
Statistics
Matches: 78, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
39 2 0.03
40 26 0.33
41 47 0.60
42 3 0.04
ACGTcount: A:0.43, C:0.15, G:0.25, T:0.17
Consensus pattern (41 bp):
GAAAAACGCCGCAAAAGGTAAAGCAATAGCGACGTTTATGA
Found at i:6285229 original size:43 final size:43
Alignment explanation
Indices: 6285181--6285325 Score: 116
Period size: 43 Copynumber: 3.4 Consensus size: 43
6285171 CCACAAGCGG
6285181 CGCTAAAAGTCATGTTCTATAGCGGCGCTTTTACTAAAAACGC
1 CGCTAAAAGTCATGTTCTATAGCGGCGCTTTTACTAAAAACGC
* * * * * * *
6285224 CGCTAAAAAAT-ATGATC-ATTAGTGGCGCTTTTCCCATAAACGT
1 CGCT-AAAAGTCATGTTCTA-TAGCGGCGCTTTTACTAAAAACGC
* * * * * *
6285267 TGCT-AAAGATCATGTTCTTTAGCAGCGTTTTTAGTAAAAGCGC
1 CGCTAAAAG-TCATGTTCTATAGCGGCGCTTTTACTAAAAACGC
*
6285310 CGCTAAAGGTCATGTT
1 CGCTAAAAGTCATGTT
6285326 AAAAATGACG
Statistics
Matches: 74, Mismatches: 22, Indels: 12
0.69 0.20 0.11
Matches are distributed among these distances:
41 3 0.04
42 2 0.03
43 61 0.82
44 8 0.11
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (43 bp):
CGCTAAAAGTCATGTTCTATAGCGGCGCTTTTACTAAAAACGC
Found at i:6285414 original size:32 final size:32
Alignment explanation
Indices: 6285378--6285438 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
6285368 TTTTGCGGCG
6285378 CTTATCAAAACTTGCAAATTGTTTTAACGACA
1 CTTATCAAAACTTGCAAATTGTTTTAACGACA
6285410 CTTATCAAAACTTGCAAATTGTTTTAACG
1 CTTATCAAAACTTGCAAATTGTTTTAACG
6285439 GTGCTTATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (32 bp):
CTTATCAAAACTTGCAAATTGTTTTAACGACA
Found at i:6287136 original size:41 final size:40
Alignment explanation
Indices: 6287091--6287212 Score: 126
Period size: 37 Copynumber: 3.1 Consensus size: 40
6287081 CTTCGAGTCT
* *
6287091 ATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATTCG
1 ATGAGACACTAGGTGTCAATTTACT-CTTCGGATTAATCCG
* * * * *
6287132 ATGAGGCACTAGGTGCCAATTTACT-TT-AGTTTAA-CCA
1 ATGAGACACTAGGTGTCAATTTACTCTTCGGATTAATCCG
* *
6287169 ATGAGACACTAGGTGTCAATTTATTCTTCGAATT-ATCCG
1 ATGAGACACTAGGTGTCAATTTACTCTTCGGATTAATCCG
6287208 ATGAG
1 ATGAG
6287213 GCATTGGGTG
Statistics
Matches: 64, Mismatches: 14, Indels: 8
0.74 0.16 0.09
Matches are distributed among these distances:
37 23 0.36
38 8 0.12
39 11 0.17
41 22 0.34
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (40 bp):
ATGAGACACTAGGTGTCAATTTACTCTTCGGATTAATCCG
Found at i:6289232 original size:30 final size:31
Alignment explanation
Indices: 6289164--6289235 Score: 78
Period size: 30 Copynumber: 2.3 Consensus size: 31
6289154 TAAAGACCAA
6289164 TTTTTAATAGTAAAATGAACAATTTATTCTT
1 TTTTTAATAGTAAAATGAACAATTTATTCTT
* *
6289195 TAATTTAATA-T-ACATGAACTAATTTATT-TAT
1 T-TTTTAATAGTAAAATGAAC-AATTTATTCT-T
6289226 TTTTTAATAG
1 TTTTTAATAG
6289236 AGAAGAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
30 15 0.44
31 12 0.35
32 7 0.21
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.50
Consensus pattern (31 bp):
TTTTTAATAGTAAAATGAACAATTTATTCTT
Found at i:6291469 original size:3 final size:3
Alignment explanation
Indices: 6291451--6291559 Score: 130
Period size: 3 Copynumber: 36.3 Consensus size: 3
6291441 AAGTGTAAAT
* * * * * *
6291451 ATA ATG ATA GTA ATA ATA ATA TTA GTA ATA ATA CTA ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
6291499 ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATGA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A
*
6291548 ACA A-A ATA ATA A
1 ATA ATA ATA ATA A
6291560 AACTACTGAA
Statistics
Matches: 90, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
2 2 0.02
3 86 0.96
4 2 0.02
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:6292757 original size:13 final size:13
Alignment explanation
Indices: 6292731--6292763 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
6292721 CTTGGGGTAG
*
6292731 TGGGT-TTAGGTT
1 TGGGTATTAGATT
6292743 TGGGTATTAGATT
1 TGGGTATTAGATT
6292756 TGGGTATT
1 TGGGTATT
6292764 TGGTTTGGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.15, C:0.00, G:0.36, T:0.48
Consensus pattern (13 bp):
TGGGTATTAGATT
Found at i:6292770 original size:13 final size:13
Alignment explanation
Indices: 6292739--6292782 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
6292729 AGTGGGTTTA
*
6292739 GGTTTGGGTATTA
1 GGTTTGGGTATTT
*
6292752 GATTTGGGTATTT
1 GGTTTGGGTATTT
*
6292765 GGTTTGGGAATTT
1 GGTTTGGGTATTT
6292778 CGGTT
1 -GGTT
6292783 GCAAAAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
13 22 0.85
14 4 0.15
ACGTcount: A:0.14, C:0.02, G:0.36, T:0.48
Consensus pattern (13 bp):
GGTTTGGGTATTT
Found at i:6293165 original size:51 final size:51
Alignment explanation
Indices: 6293106--6293209 Score: 136
Period size: 51 Copynumber: 2.0 Consensus size: 51
6293096 AACATCATTT
* * *
6293106 ATATGAAATAACAGTTCTTACCAAATTACAACTCATGCAAAATAATAGTTC
1 ATATGAAATAACAGTTCATACCAAATAACAACTCATGCAAAATAACAGTTC
* ** * *
6293157 ATATGAAATATCAGTTCATACTGAATAACAATTCATGCAAAATCACAGTTC
1 ATATGAAATAACAGTTCATACCAAATAACAACTCATGCAAAATAACAGTTC
6293208 AT
1 AT
6293210 GCTCCATCAT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.44, C:0.17, G:0.09, T:0.30
Consensus pattern (51 bp):
ATATGAAATAACAGTTCATACCAAATAACAACTCATGCAAAATAACAGTTC
Found at i:6293880 original size:18 final size:18
Alignment explanation
Indices: 6293855--6293905 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
6293845 ACAATTTGGA
6293855 AAATTAATACAGTTCACC
1 AAATTAATACAGTTCACC
* *
6293873 AGATTAATACAGATCACC
1 AAATTAATACAGTTCACC
*
6293891 AAATTAACACAGTTC
1 AAATTAATACAGTTC
6293906 GCCATAATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.45, C:0.22, G:0.08, T:0.25
Consensus pattern (18 bp):
AAATTAATACAGTTCACC
Found at i:6293917 original size:36 final size:36
Alignment explanation
Indices: 6293855--6293935 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
6293845 ACAATTTGGA
* *
6293855 AAATTAATACAGTTCACCAGATTAATACAGAT-CACC
1 AAATTAACACAGTTCACCAGAATAATACA-ATCCACC
* * *
6293891 AAATTAACACAGTTCGCCATAATAATATAATCCACC
1 AAATTAACACAGTTCACCAGAATAATACAATCCACC
*
6293927 AAGTTAACA
1 AAATTAACA
6293936 TGGTTCACAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
35 2 0.05
36 36 0.95
ACGTcount: A:0.46, C:0.22, G:0.07, T:0.25
Consensus pattern (36 bp):
AAATTAACACAGTTCACCAGAATAATACAATCCACC
Found at i:6298635 original size:24 final size:24
Alignment explanation
Indices: 6298608--6298653 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
6298598 CTTGAAACCA
6298608 TTTCCACAGCTCCTCTCTTCACCC
1 TTTCCACAGCTCCTCTCTTCACCC
6298632 TTTCCACAGCTCCTCTCTTCAC
1 TTTCCACAGCTCCTCTCTTCAC
6298654 TCTCTTCACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.13, C:0.48, G:0.04, T:0.35
Consensus pattern (24 bp):
TTTCCACAGCTCCTCTCTTCACCC
Found at i:6300242 original size:586 final size:586
Alignment explanation
Indices: 6299130--6300304 Score: 2242
Period size: 586 Copynumber: 2.0 Consensus size: 586
6299120 CAACCACATC
6299130 AATACAAAATTACAAACTTTAGCACCTCATCATGCATGCGTATGCTATATAGCTTCTGCTATCTT
1 AATACAAAATTACAAACTTTAGCACCTCATCATGCATGCGTATGCTATATAGCTTCTGCTATCTT
6299195 TGCTAAATTTTACCGTATGAATATAGCTTTATCAGTAACAGGTAAGCACAATATCCTTGCAAAAG
66 TGCTAAATTTTACCGTATGAATATAGCTTTATCAGTAACAGGTAAGCACAATATCCTTGCAAAAG
6299260 CAAAATTATATTTATAGACAAAAACTGTAGCATAGTACAGTGAAGAACCTTTAACTTAAAAAGCT
131 CAAAATTATATTTATAGACAAAAACTGTAGCATAGTACAGTGAAGAACCTTTAACTTAAAAAGCT
*
6299325 TTAAAAGCCCGACAATTGGTTTATTCTCTAACAAAACACTCAAGAGTCCATTTAGAGGAAGATAT
196 TTAAAAGCCCGACAATTGGTTTATTCTCTAACAAAACACTCAAGAGTCCATTTAGAGGAAGAGAT
*
6299390 TAGATTTAGATAAATAAATCACTATATTATAGCTTCAAAAAAACTTGGCTGCAATTCTACAGTCA
261 TAGATTTAGATAAATAAATCACTATATTATAGCTTCAAAAAAACTTGGCTGCAAGTCTACAGTCA
6299455 TTGTTTCATGTTTCTCTAGTTAATTGACTCTCAACTGGAATCTTCAACACCGTAGCAAGTAATTC
326 TTGTTTCATGTTTCTCTAGTTAATTGACTCTCAACTGGAATCTTCAACACCGTAGCAAGTAATTC
*
6299520 CATGCTATCCTCCAACTTGGTCGATTTAGAACCGTCAGTGATTGGTAATTCTTGAACTTTACCGT
391 CATGCTATCCTCCAACTTGGTCGATTTAGAACCGTCAGTGATTGGCAATTCTTGAACTTTACCGT
6299585 TCTCTGTTGCTGTTGAGTTCTTCTGATCTTTACTTTTGCCCCATAGCACAGTGTAGAGTCCAAAT
456 TCTCTGTTGCTGTTGAGTTCTTCTGATCTTTACTTTTGCCCCATAGCACAGTGTAGAGTCCAAAT
6299650 ATTATGATTACAGTTCCTATTATGCTTGGAAAAAACAAAAGAAATTTACATGAGTGAATAATGCT
521 ATTATGATTACAGTTCCTATTATGCTTGGAAAAAACAAAAGAAATTTACATGAGTGAATAATGCT
6299715 A
586 A
6299716 AATACAAAATTACAAACTTTAGCACCTCATCATGCATGCGTATGCTATATAGCTTCTGCTATCTT
1 AATACAAAATTACAAACTTTAGCACCTCATCATGCATGCGTATGCTATATAGCTTCTGCTATCTT
6299781 TGCTAAATTTTACCGTATGAATATAGCTTTATCAGTAACAGGTAAGCACAATATCCTTGCAAAAG
66 TGCTAAATTTTACCGTATGAATATAGCTTTATCAGTAACAGGTAAGCACAATATCCTTGCAAAAG
*
6299846 CAAAATTATATTTATAGACAAGAACTGTAGCATAGTACAGTGAAGAACCTTTAACTTAAAAAGCT
131 CAAAATTATATTTATAGACAAAAACTGTAGCATAGTACAGTGAAGAACCTTTAACTTAAAAAGCT
*
6299911 TTAAAAGCCCGACAATTGGTTTATTCTCTAACAAAACACTCAATAGTCCATTTAGAGGAAGAGAT
196 TTAAAAGCCCGACAATTGGTTTATTCTCTAACAAAACACTCAAGAGTCCATTTAGAGGAAGAGAT
*
6299976 TAGATTTAGATATATAAATCACTATATTATAGCTTCAAAAAAACTTGGCTGCAAGTCTACAGTCA
261 TAGATTTAGATAAATAAATCACTATATTATAGCTTCAAAAAAACTTGGCTGCAAGTCTACAGTCA
* * * * *
6300041 TTGTTTCATGTTTCTCTAGTTAATTGACTCTCAGCTGGAATCTTCAATATCTTAGCAGGTAATTC
326 TTGTTTCATGTTTCTCTAGTTAATTGACTCTCAACTGGAATCTTCAACACCGTAGCAAGTAATTC
*
6300106 CATGCTATCCTCCAACTTGGTCGATTTAGAACCGTCAGTGATTGGCAATTCTTGGACTTTACCGT
391 CATGCTATCCTCCAACTTGGTCGATTTAGAACCGTCAGTGATTGGCAATTCTTGAACTTTACCGT
6300171 TCTCTGTTGCTGTTGAGTTCTTCTGATCTTTACTTTTGCCCCATAGCACAGTGTAGAGTCCAAAT
456 TCTCTGTTGCTGTTGAGTTCTTCTGATCTTTACTTTTGCCCCATAGCACAGTGTAGAGTCCAAAT
6300236 ATTATGATTACAGTTCCTATTATGCTTGGAAAAAACAAAAGAAATTTACATGAGTGAATAATGCT
521 ATTATGATTACAGTTCCTATTATGCTTGGAAAAAACAAAAGAAATTTACATGAGTGAATAATGCT
6300301 A
586 A
6300302 AAT
1 AAT
6300305 GGAAAGGAAA
Statistics
Matches: 577, Mismatches: 12, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
586 577 1.00
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (586 bp):
AATACAAAATTACAAACTTTAGCACCTCATCATGCATGCGTATGCTATATAGCTTCTGCTATCTT
TGCTAAATTTTACCGTATGAATATAGCTTTATCAGTAACAGGTAAGCACAATATCCTTGCAAAAG
CAAAATTATATTTATAGACAAAAACTGTAGCATAGTACAGTGAAGAACCTTTAACTTAAAAAGCT
TTAAAAGCCCGACAATTGGTTTATTCTCTAACAAAACACTCAAGAGTCCATTTAGAGGAAGAGAT
TAGATTTAGATAAATAAATCACTATATTATAGCTTCAAAAAAACTTGGCTGCAAGTCTACAGTCA
TTGTTTCATGTTTCTCTAGTTAATTGACTCTCAACTGGAATCTTCAACACCGTAGCAAGTAATTC
CATGCTATCCTCCAACTTGGTCGATTTAGAACCGTCAGTGATTGGCAATTCTTGAACTTTACCGT
TCTCTGTTGCTGTTGAGTTCTTCTGATCTTTACTTTTGCCCCATAGCACAGTGTAGAGTCCAAAT
ATTATGATTACAGTTCCTATTATGCTTGGAAAAAACAAAAGAAATTTACATGAGTGAATAATGCT
A
Found at i:6302696 original size:18 final size:18
Alignment explanation
Indices: 6302655--6302697 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
6302645 TTATTGCAAT
*
6302655 ATATGTAAAAATTATTTA
1 ATATATAAAAATTATTTA
*
6302673 AAATATAAAAATT-TATTA
1 ATATATAAAAATTAT-TTA
6302691 ATATATA
1 ATATATA
6302698 TTAATATATG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 1 0.05
18 20 0.95
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (18 bp):
ATATATAAAAATTATTTA
Found at i:6303139 original size:29 final size:30
Alignment explanation
Indices: 6303096--6303154 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
6303086 TTGATACCTA
* *
6303096 TACTATTATAAATGTTTAATGCGGTACTTG
1 TACTATTAAAAATGTTTAATGCGATACTTG
*
6303126 TACTA-TAAAAATGTTTAATGTGATACTTG
1 TACTATTAAAAATGTTTAATGCGATACTTG
6303155 AATTATCAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.34, C:0.08, G:0.15, T:0.42
Consensus pattern (30 bp):
TACTATTAAAAATGTTTAATGCGATACTTG
Found at i:6303197 original size:90 final size:90
Alignment explanation
Indices: 6303084--6303275 Score: 242
Period size: 90 Copynumber: 2.1 Consensus size: 90
6303074 ATAATATTAA
* ** * *
6303084 ATTTGATACCTATACTATTATAAATGTTTAATGCGGTACTTGTACTATAAAAATGTTTAATGTGA
1 ATTTGATACCTATACTATTATAAATATCCAATGCGGTACTTGTACTATAAAAATGTCTAACGTGA
* *
6303149 TACTTGAATTATCAATTTGTGTATT
66 TACTTGAAGTATCAATTTGTATATT
* * * * *
6303174 ATTTGGTACCTATA-TTTTCATAAATATCCAATGTGGTATTTGTACTTTAAAAATGTCTAACGTG
1 ATTTGATACCTATACTATT-ATAAATATCCAATGCGGTACTTGTACTATAAAAATGTCTAACGTG
6303238 ATACTTGAAGTATCAATTTGTATATT
65 ATACTTGAAGTATCAATTTGTATATT
*
6303264 ATTATAATACCT
1 ATT-TGATACCT
6303276 GGAGTTAATG
Statistics
Matches: 86, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
89 3 0.03
90 77 0.90
91 6 0.07
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.44
Consensus pattern (90 bp):
ATTTGATACCTATACTATTATAAATATCCAATGCGGTACTTGTACTATAAAAATGTCTAACGTGA
TACTTGAAGTATCAATTTGTATATT
Found at i:6311049 original size:41 final size:41
Alignment explanation
Indices: 6310981--6311134 Score: 229
Period size: 41 Copynumber: 3.8 Consensus size: 41
6310971 CTGACTTTTT
* *
6310981 GGGGCTTTAGCGAG-GTTTTTGACAAAGCGCCGCTAATGCTT
1 GGGGCTTTAGCG-GCGTTTTTGACAAAGCGCCGCTAACGCTC
* * *
6311022 AGGGCTTTAGCGGCGTTTGTGAGAAAGCGCCGCTAACGCTC
1 GGGGCTTTAGCGGCGTTTTTGACAAAGCGCCGCTAACGCTC
*
6311063 GGGGATTTAGCGGCGTTTTTGACAAAGCGCCGCTAACGCTC
1 GGGGCTTTAGCGGCGTTTTTGACAAAGCGCCGCTAACGCTC
*
6311104 GGGGCTTTAGCGGCATTTTTGACAAAGCGCC
1 GGGGCTTTAGCGGCGTTTTTGACAAAGCGCC
6311135 ACAAAAATAT
Statistics
Matches: 101, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
40 1 0.01
41 100 0.99
ACGTcount: A:0.19, C:0.23, G:0.32, T:0.25
Consensus pattern (41 bp):
GGGGCTTTAGCGGCGTTTTTGACAAAGCGCCGCTAACGCTC
Found at i:6311438 original size:88 final size:88
Alignment explanation
Indices: 6311334--6311510 Score: 327
Period size: 88 Copynumber: 2.0 Consensus size: 88
6311324 ATTGTAAAAG
6311334 ATATGATAGTATTAATTTTAAAATATTTAATTAATTATCATTATAGTTTAGGGTTTAATATATAT
1 ATATGATAGTATTAATTTTAAAATATTTAATTAATTATCATTATAGTTTAGGGTTTAATATATAT
* *
6311399 GGTTTAGGGTATATGGTTAATTT
66 GGTTTAAGGTATATGGTGAATTT
6311422 ATATGATAGTATTAATTTTAAAATATTTAATTAATTATCATTATAGTTTAGGGTTTAATATATAT
1 ATATGATAGTATTAATTTTAAAATATTTAATTAATTATCATTATAGTTTAGGGTTTAATATATAT
*
6311487 GGTTTAATGTATATGGTGAATTT
66 GGTTTAAGGTATATGGTGAATTT
6311510 A
1 A
6311511 AGATTTAAGG
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
88 86 1.00
ACGTcount: A:0.36, C:0.01, G:0.14, T:0.49
Consensus pattern (88 bp):
ATATGATAGTATTAATTTTAAAATATTTAATTAATTATCATTATAGTTTAGGGTTTAATATATAT
GGTTTAAGGTATATGGTGAATTT
Found at i:6311492 original size:14 final size:14
Alignment explanation
Indices: 6311473--6311503 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6311463 TATAGTTTAG
6311473 GGTTTAATATATAT
1 GGTTTAATATATAT
*
6311487 GGTTTAATGTATAT
1 GGTTTAATATATAT
6311501 GGT
1 GGT
6311504 GAATTTAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (14 bp):
GGTTTAATATATAT
Found at i:6311581 original size:14 final size:15
Alignment explanation
Indices: 6311553--6311585 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
6311543 AAGGTTTATA
6311553 GATTATGGAATTAGG
1 GATTATGGAATTAGG
6311568 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
6311582 GATT
1 GATT
6311586 TTGGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:6311622 original size:14 final size:14
Alignment explanation
Indices: 6311605--6311648 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
6311595 GTGTTGTGAT
6311605 TTAGGGTTTAAGGG
1 TTAGGGTTTAAGGG
* * *
6311619 TTAGAGATTAAGAG
1 TTAGGGTTTAAGGG
*
6311633 TTAGGGTTTTAGGG
1 TTAGGGTTTAAGGG
6311647 TT
1 TT
6311649 TATAGATTTA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (14 bp):
TTAGGGTTTAAGGG
Found at i:6311930 original size:14 final size:14
Alignment explanation
Indices: 6311845--6311932 Score: 61
Period size: 14 Copynumber: 6.1 Consensus size: 14
6311835 TAGATTTAAG
*
6311845 TTAAGGTTTAGGGGT
1 TTAAGGGTTA-GGGT
* * *
6311860 TTAAGAGTAAGGAT
1 TTAAGGGTTAGGGT
* *
6311874 TTAAGGTTTAGGGG
1 TTAAGGGTTAGGGT
* *
6311888 TTAAAGGTTAGACG-
1 TTAAGGGTTAG-GGT
*
6311902 TTATGGGTTAGGGGT
1 TTAAGGGTTA-GGGT
6311917 TTAAGGGTTAGGGT
1 TTAAGGGTTAGGGT
6311931 TT
1 TT
6311933 TTGGTTTAGA
Statistics
Matches: 54, Mismatches: 16, Indels: 7
0.70 0.21 0.09
Matches are distributed among these distances:
14 36 0.67
15 18 0.33
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (14 bp):
TTAAGGGTTAGGGT
Found at i:6311941 original size:29 final size:29
Alignment explanation
Indices: 6311849--6311941 Score: 91
Period size: 29 Copynumber: 3.2 Consensus size: 29
6311839 TTTAAGTTAA
* * * *
6311849 GGTTTAGGGGTTTAAGAGTAAGGATTTAA
1 GGTTTAGGGGTTTAAGGGTTAGGGTTTAT
* *
6311878 GGTTTAGGGG-TTAAAGGTTAGACG-TTAT
1 GGTTTAGGGGTTTAAGGGTTAG-GGTTTAT
* *
6311906 GGGTTAGGGGTTTAAGGGTTAGGGTTTTT
1 GGTTTAGGGGTTTAAGGGTTAGGGTTTAT
6311935 GGTTTAG
1 GGTTTAG
6311942 ATTAATTATT
Statistics
Matches: 50, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
28 21 0.42
29 29 0.58
ACGTcount: A:0.23, C:0.01, G:0.39, T:0.38
Consensus pattern (29 bp):
GGTTTAGGGGTTTAAGGGTTAGGGTTTAT
Found at i:6312309 original size:15 final size:15
Alignment explanation
Indices: 6312289--6312420 Score: 77
Period size: 15 Copynumber: 7.5 Consensus size: 15
6312279 AATAATTAAG
6312289 TTTAAATAAAATATA
1 TTTAAATAAAATATA
6312304 TTTAAATATTTAAATATTA
1 TTTAAATA---AAATA-TA
6312323 GTTTAAATAAAATTAATAA
1 -TTTAAATAAAA-T-AT-A
6312342 TTAAGTTTAAATAAAATATA
1 -T----TTAAATAAAATATA
6312362 TTTAAATATTTAAATATTA
1 TTTAAATA---AAATA-TA
6312381 GTTTAAATAAAAT-TAA
1 -TTTAAATAAAATAT-A
6312397 TTTAAAATAAAATATA
1 TTT-AAATAAAATATA
6312413 TTTAAATA
1 TTTAAATA
6312421 TTTAAATATT
Statistics
Matches: 96, Mismatches: 1, Indels: 40
0.70 0.01 0.29
Matches are distributed among these distances:
15 24 0.25
16 14 0.15
17 8 0.08
18 12 0.12
19 8 0.08
20 17 0.18
21 2 0.02
22 1 0.01
23 10 0.10
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (15 bp):
TTTAAATAAAATATA
Found at i:6312333 original size:35 final size:35
Alignment explanation
Indices: 6312287--6312463 Score: 120
Period size: 35 Copynumber: 4.9 Consensus size: 35
6312277 TTAATAATTA
6312287 AGTTTAAATAAAATATATTTAAATATTTAAATATT
1 AGTTTAAATAAAATATATTTAAATATTTAAATATT
* *
6312322 AGTTTAAATAAAATTAATAATT-AA-GTTTAAATAAAATAT
1 AGTTTAAATAAAA-T-ATATTTAAATATTTAAAT---AT-T
6312361 A-TTTAAATATTTAAATATTAGTTT-AA-A--TAAA-ATT
1 AGTTTAAATA---AAATA-TA-TTTAAATATTTAAATATT
*
6312395 AATTTAAAATAAAATATATTTAAATATTTAAATATT
1 AGTTT-AAATAAAATATATTTAAATATTTAAATATT
* * *
6312431 AGTTTAAATAGAAT-TAATAAATATATTTAAATA
1 AGTTTAAATAAAATATATTTAA-ATATTTAAATA
6312464 AAATATTTTT
Statistics
Matches: 115, Mismatches: 8, Indels: 38
0.71 0.05 0.24
Matches are distributed among these distances:
31 3 0.03
32 4 0.03
33 6 0.05
34 7 0.06
35 48 0.42
36 15 0.13
37 5 0.04
38 10 0.09
39 7 0.06
40 3 0.03
41 7 0.06
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (35 bp):
AGTTTAAATAAAATATATTTAAATATTTAAATATT
Found at i:6312365 original size:58 final size:57
Alignment explanation
Indices: 6312275--6312469 Score: 303
Period size: 58 Copynumber: 3.5 Consensus size: 57
6312265 NNNNNNNNNN
6312275 AATTAATAATTAAGTTTAAATAAAATATATTTAAATATTTAAATATTAGTTTAAATAA
1 AATTAATAATTAA-TTTAAATAAAATATATTTAAATATTTAAATATTAGTTTAAATAA
6312333 AATTAATAATTAAGTTTAAATAAAATATATTTAAATATTTAAATATTAGTTTAAATAA
1 AATTAATAATTAA-TTTAAATAAAATATATTTAAATATTTAAATATTAGTTTAAATAA
*
6312391 AATTAAT--TT-A---AAATAAAATATATTTAAATATTTAAATATTAGTTTAAATAG
1 AATTAATAATTAATTTAAATAAAATATATTTAAATATTTAAATATTAGTTTAAATAA
*
6312442 AATTAATAAATATATTTAAATAAAATAT
1 AATTAATAATTA-ATTTAAATAAAATAT
6312470 TTTTTGTTCA
Statistics
Matches: 128, Mismatches: 2, Indels: 14
0.89 0.01 0.10
Matches are distributed among these distances:
51 47 0.37
53 1 0.01
55 2 0.02
56 2 0.02
58 76 0.59
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (57 bp):
AATTAATAATTAATTTAAATAAAATATATTTAAATATTTAAATATTAGTTTAAATAA
Found at i:6312391 original size:16 final size:16
Alignment explanation
Indices: 6312330--6312438 Score: 64
Period size: 16 Copynumber: 6.2 Consensus size: 16
6312320 TTAGTTTAAA
6312330 TAAAATTAATAATTAAGTT
1 TAAAA-TAA-AATT-AGTT
6312349 T-AAATAAAATATA-TT
1 TAAAATAAAAT-TAGTT
6312364 TAAATATTTAAATATTAGTT
1 TAAA-A--TAAA-ATTAGTT
*
6312384 T-AAATAAAATTAATT
1 TAAAATAAAATTAGTT
6312399 TAAAATAAAATATA-TT
1 TAAAATAAAAT-TAGTT
6312415 TAAATATTTAAATATTAGTT
1 TAAA-A--TAAA-ATTAGTT
6312435 TAAA
1 TAAA
6312439 TAGAATTAAT
Statistics
Matches: 75, Mismatches: 1, Indels: 27
0.73 0.01 0.26
Matches are distributed among these distances:
15 10 0.13
16 25 0.33
17 8 0.11
18 4 0.05
19 15 0.20
20 13 0.17
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (16 bp):
TAAAATAAAATTAGTT
Found at i:6312413 original size:51 final size:51
Alignment explanation
Indices: 6312282--6312448 Score: 246
Period size: 51 Copynumber: 3.1 Consensus size: 51
6312272 NNNAATTAAT
6312282 AATTAAGTTT-AAATAAAATATATTTAAATATTTAAATATTAGTTTAAATAA
1 AATTAA-TTTAAAATAAAATATATTTAAATATTTAAATATTAGTTTAAATAA
6312333 AATTAATAATTAAGTTTAAATAAAATATATTTAAATATTTAAATATTAGTTTAAATAA
1 AATTAAT--TT-A----AAATAAAATATATTTAAATATTTAAATATTAGTTTAAATAA
*
6312391 AATTAATTTAAAATAAAATATATTTAAATATTTAAATATTAGTTTAAATAG
1 AATTAATTTAAAATAAAATATATTTAAATATTTAAATATTAGTTTAAATAA
6312442 AATTAAT
1 AATTAAT
6312449 AAATATATTT
Statistics
Matches: 107, Mismatches: 1, Indels: 16
0.86 0.01 0.13
Matches are distributed among these distances:
50 1 0.01
51 53 0.50
52 2 0.02
55 1 0.01
56 2 0.02
58 48 0.45
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (51 bp):
AATTAATTTAAAATAAAATATATTTAAATATTTAAATATTAGTTTAAATAA
Found at i:6316688 original size:43 final size:43
Alignment explanation
Indices: 6316641--6316723 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
6316631 TTATATCTTT
* * *
6316641 GATTTCCTTGATTAAGTAAATGTATTATATCTTTTATTACTAA
1 GATTTACTTGATTAAGAAAATGCATTATATCTTTTATTACTAA
* *
6316684 GATTTACTTGATTAAGAAAATGCATTGTATGTTTTATTAC
1 GATTTACTTGATTAAGAAAATGCATTATATCTTTTATTAC
6316724 CTTGCATATG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (43 bp):
GATTTACTTGATTAAGAAAATGCATTATATCTTTTATTACTAA
Found at i:6317059 original size:43 final size:42
Alignment explanation
Indices: 6316997--6317219 Score: 286
Period size: 43 Copynumber: 5.3 Consensus size: 42
6316987 TAGCAGTGTT
*
6316997 TTTGT-GAAAAGTGCCGCTAAAGGTCTTGATCTATAGCGGCG
1 TTTGTGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCG
* * ** *
6317038 TTTGTGAGAAAAGCGTCGCTAAAGGTCTTGAGCTATAGCAACA
1 TTTGTG-GAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCG
**
6317081 TTTGTTGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGTAGCG
1 TTTG-TGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCG
* * * * *
6317124 TTTGTGTAAAAAGCGTCGCTAAAGATTTTGAGCTATAGCGGCG
1 TTTGTG-GAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCG
*
6317167 TTTGTGGAGAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCG
1 TTTGTGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCG
6317209 TTTGTGGAAAA
1 TTTGTGGAAAA
6317220 AACGTTGCTA
Statistics
Matches: 153, Mismatches: 25, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
41 5 0.03
42 42 0.27
43 104 0.68
44 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (42 bp):
TTTGTGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCG
Found at i:6317248 original size:43 final size:43
Alignment explanation
Indices: 6317011--6317249 Score: 277
Period size: 43 Copynumber: 5.6 Consensus size: 43
6317001 TGAAAAGTGC
6317011 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGT-GAGAAAAGCGT
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGA-AAAAGCGT
* ** * *
6317054 CGCTAAAGGTCTTGAGCTATAGCAACATTTGTTGG-AAAAGCGC
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTTG-TGGAAAAAGCGT
** *
6317097 CGCTAAAGGTCTTGATCTATAGTAGCGTTTGTGTAAAAAGCGT
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGCGT
* * * * *
6317140 CGCTAAAGATTTTGAGCTATAGCGGCGTTTGTGG-AGAAGCGC
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGCGT
*
6317182 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAACGT
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGCGT
* * * *
6317225 TGCTAAAGGTCGTGGTCTTTAGCGG
1 CGCTAAAGGTCTTGATCTATAGCGG
6317250 TCTTTAGCGG
Statistics
Matches: 163, Mismatches: 29, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
42 39 0.24
43 122 0.75
44 1 0.01
45 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.28
Consensus pattern (43 bp):
CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGCGT
Done.