Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008569.1 Hibiscus syriacus cultivar Beakdansim tig00111493_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1513883
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 8
Found at i:604894 original size:11 final size:11
Alignment explanation
Indices: 604878--604902 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
604868 CTACTTTACT
604878 TTATGGGAAGG
1 TTATGGGAAGG
604889 TTATGGGAAGG
1 TTATGGGAAGG
604900 TTA
1 TTA
604903 ATGTGTCTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.40, T:0.32
Consensus pattern (11 bp):
TTATGGGAAGG
Found at i:609654 original size:37 final size:37
Alignment explanation
Indices: 609596--609699 Score: 120
Period size: 37 Copynumber: 2.8 Consensus size: 37
609586 CTTTTCGTCC
*
609596 TACTAGGATTCAAA-TTCCTAAATATAGGATAGAATTT
1 TACTAGGATTCAAACTT-CTAAAAATAGGATAGAATTT
* *
609633 TGCTAGGATTCAAACTTCTAAAAATAGGATAGAGTTT
1 TACTAGGATTCAAACTTCTAAAAATAGGATAGAATTT
** * * *
609670 TACTATTATTTAAACTCCTAAAGATAGGAT
1 TACTAGGATTCAAACTTCTAAAAATAGGAT
609700 CCACAAGCAT
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
37 55 0.96
38 2 0.04
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (37 bp):
TACTAGGATTCAAACTTCTAAAAATAGGATAGAATTT
Found at i:610157 original size:2 final size:2
Alignment explanation
Indices: 610150--610202 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
610140 TAACCCTTAT
610150 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
610192 TA TA TA TA TA T
1 TA TA TA TA TA T
610203 TTAATTATAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:610518 original size:25 final size:25
Alignment explanation
Indices: 610481--610538 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
610471 TATACATACA
*
610481 TTTTTA-TATTTTTATATATGTATAT
1 TTTTTATTATTTTTATATATAT-TAT
*
610506 TTTTTATTA-TTTTATTTATATTAT
1 TTTTTATTATTTTTATATATATTAT
610530 TTATTTATT
1 TT-TTTATT
610539 TTCATTATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 5 0.17
25 22 0.76
26 2 0.07
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (25 bp):
TTTTTATTATTTTTATATATATTAT
Found at i:610540 original size:22 final size:21
Alignment explanation
Indices: 610501--610561 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 21
610491 TTTATATATG
610501 TATATTTTT-TATTATTTT-ATT
1 TATATTTTTAT-TTATTTTCA-T
610522 TATATTATTTATTTATTTTCAT
1 TATATT-TTTATTTATTTTCAT
610544 TATATTTTTAGTTT-TTTT
1 TATATTTTTA-TTTATTTT
610562 GCTCTTATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
21 14 0.39
22 20 0.56
23 2 0.06
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.74
Consensus pattern (21 bp):
TATATTTTTATTTATTTTCAT
Found at i:610553 original size:17 final size:15
Alignment explanation
Indices: 610503--610558 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 15
610493 TATATATGTA
610503 TATTTT-TTATTATTT
1 TATTTTATTATT-TTT
610518 TATTTATATTATTTATT
1 TATTT-TATTATTT-TT
610535 TATTTTCATTATATTTT
1 TATTTT-ATTAT-TTTT
610552 TAGTTTT
1 TA-TTTT
610559 TTTGCTCTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.14
16 3 0.09
17 21 0.60
18 6 0.17
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (15 bp):
TATTTTATTATTTTT
Found at i:614969 original size:16 final size:14
Alignment explanation
Indices: 614931--614997 Score: 75
Period size: 15 Copynumber: 4.7 Consensus size: 14
614921 AGATTCAATC
*
614931 AGAACAAAAAGGGAA
1 AGAACAAAAA-AGAA
*
614946 AAAACAAAAAAGAAA
1 AGAACAAAAAAG-AA
614961 AGAAGCAAAAAAG-A
1 AGAA-CAAAAAAGAA
614975 AGAA-AAAAAAGAA
1 AGAACAAAAAAGAA
614988 AGAACAAAAA
1 AGAACAAAAA
614998 TCAAAAAGAA
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
12 7 0.16
13 5 0.11
14 11 0.24
15 14 0.31
16 8 0.18
ACGTcount: A:0.78, C:0.06, G:0.16, T:0.00
Consensus pattern (14 bp):
AGAACAAAAAAGAA
Found at i:614984 original size:23 final size:23
Alignment explanation
Indices: 614944--615009 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 23
614934 ACAAAAAGGG
614944 AAAAAACAAAAAAGAAAAGAAGC
1 AAAAAACAAAAAAGAAAAGAAGC
*
614967 AAAAAAGAAGAAAA-AAAAGAAAGAAC
1 AAAAAACAA-AAAAGAAAAG-AAG--C
*
614993 AAAAATC-AAAAAGAAAA
1 AAAAAACAAAAAAGAAAA
615010 AGGGACAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
23 13 0.37
24 11 0.31
25 5 0.14
26 6 0.17
ACGTcount: A:0.80, C:0.06, G:0.12, T:0.02
Consensus pattern (23 bp):
AAAAAACAAAAAAGAAAAGAAGC
Found at i:616746 original size:106 final size:106
Alignment explanation
Indices: 616620--617776 Score: 1821
Period size: 106 Copynumber: 10.9 Consensus size: 106
616610 CAAGATAACA
* * *
616620 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCCAAATTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
*
616685 ATTTCAACTTCACAGCGAAGGATATTAGACTCCAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * *
616726 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAACTTCTCAATTTCATAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* *
616791 ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* *
616832 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* *
616897 ATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
** *
616938 CAAGTTCAACTTCATAACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
617003 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* *
617044 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTTAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* *
617109 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACA
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
*
617150 CAGGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
*
617215 ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * * *
617256 TAAGTTCAACTTCACGACGAAGGGACCGCTAGTTGTCAACAAACAATTTCCCAATTTCGGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* *
617321 ATTTCAACTTCACAGCGAATGATATTGGACTCCAGACAATG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* *
617362 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* *
617427 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGTCAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * *
617468 CAAGTTCAACTTTACGAGGAAGGGACTGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* *
617533 ATTTCAACTGCACAGCGAAGGATATTGGACTCGAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * *
617574 CAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* * * * *
617639 ATTTCAATTTCACAACAAAGGATATTGGACTCGAGACAACA
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * * * * * *
617680 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTGAACAAACAATTTCCCGATTCCAGAGTCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
*
617745 ATTTCAACTTCAC-GACGGAGGATATTGGACTC
66 ATTTCAACTTCACAG-CGAAGGATATTGGACTC
617777 GGAACAATGC
Statistics
Matches: 967, Mismatches: 83, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
106 967 1.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.23
Consensus pattern (106 bp):
CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
Found at i:618579 original size:37 final size:37
Alignment explanation
Indices: 618527--618630 Score: 145
Period size: 37 Copynumber: 2.8 Consensus size: 37
618517 CTTTTCGTCC
618527 TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
1 TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
* * *
618564 TGCTAGGATTCAAACTCCTAAAAATAAGATAGAGTTT
1 TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
** * *
618601 TACTATTATTTAAACTCCTAAAGATAGGAT
1 TACTAGGATTCAAACTCCTAAAAATAGGAT
618631 CCACAAGCAT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.32
Consensus pattern (37 bp):
TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
Found at i:619139 original size:24 final size:25
Alignment explanation
Indices: 619102--619148 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
619092 TATATATATA
619102 TATAATTATATTTTATTT-ATTTAT
1 TATAATTATATTTTATTTCATTTAT
* * *
619126 TATAATTCTCTTTTTTTTCATTT
1 TATAATTATATTTTATTTCATTT
619149 TTTTTGCGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (25 bp):
TATAATTATATTTTATTTCATTTAT
Found at i:624080 original size:34 final size:32
Alignment explanation
Indices: 624012--624081 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 32
624002 CCTTACAAAC
* *
624012 TCCCTAGTTTTTCCGGGATAAACTAGAGCCTT
1 TCCCTAGTTTTTCCGGGATAAACTAGAACATT
* *
624044 TCCCTAGTTTTTACACGGGTTAAGCTAGAACATT
1 TCCCTAGTTTTT-C-CGGGATAAACTAGAACATT
624078 TCCC
1 TCCC
624082 CTTTACAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 12 0.38
33 1 0.03
34 19 0.59
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (32 bp):
TCCCTAGTTTTTCCGGGATAAACTAGAACATT
Found at i:624486 original size:19 final size:19
Alignment explanation
Indices: 624430--624486 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
624420 CCGTTAGATA
* *
624430 GGGGGAATCGGTACCCCCGG
1 GGGGGAATCTGTA-CCCCTG
624450 GGGGGAATCTGTACCCCTG
1 GGGGGAATCTGTACCCCTG
624469 GGGGGAATCTGTACCCCT
1 GGGGGAATCTGTACCCCT
624487 TGGACAATCT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 23 0.66
20 12 0.34
ACGTcount: A:0.16, C:0.28, G:0.39, T:0.18
Consensus pattern (19 bp):
GGGGGAATCTGTACCCCTG
Found at i:624497 original size:18 final size:19
Alignment explanation
Indices: 624455--624497 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
624445 CCCGGGGGGG
**
624455 AATCTGTACCCCTGGGGGG
1 AATCTGTACCCCTGGGGAC
*
624474 AATCTGTACCCCT-TGGAC
1 AATCTGTACCCCTGGGGAC
624492 AATCTG
1 AATCTG
624498 ATTTTTCTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.21, C:0.28, G:0.26, T:0.26
Consensus pattern (19 bp):
AATCTGTACCCCTGGGGAC
Found at i:625935 original size:19 final size:20
Alignment explanation
Indices: 625892--625939 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
625882 TGTAAATCCT
*
625892 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
625912 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
625931 TTTTCAAAA
1 TTTTCAAAA
625940 GAAAATCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:626838 original size:32 final size:34
Alignment explanation
Indices: 626797--626866 Score: 108
Period size: 34 Copynumber: 2.1 Consensus size: 34
626787 CCTTACAAAC
626797 TCCCTAGTTTTT-C-CGGGATAAACTAGAACCTT
1 TCCCTAGTTTTTACACGGGATAAACTAGAACCTT
* *
626829 TCCCTAGTTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAGTTTTTACACGGGATAAACTAGAACCTT
626863 TCCC
1 TCCC
626867 CTTTACTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 12 0.35
33 1 0.03
34 21 0.62
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.33
Consensus pattern (34 bp):
TCCCTAGTTTTTACACGGGATAAACTAGAACCTT
Found at i:627241 original size:21 final size:20
Alignment explanation
Indices: 627215--627317 Score: 113
Period size: 20 Copynumber: 5.0 Consensus size: 20
627205 CATTAGACAA
627215 GGGGGAATC-GATACCCCCTAG
1 GGGGGAATCTG-TACCCCCT-G
*
627236 GGGGGAATCTGTTCCCCCTG
1 GGGGGAATCTGTACCCCCTG
*
627256 GGGGGAAATCAGTA-CCCCTG
1 GGGGG-AATCTGTACCCCCTG
*
627276 GAGGGGAATCTGT-TCCCCTGG
1 G-GGGGAATCTGTACCCCCT-G
627297 GGGGGAATCTGTACCCCCTG
1 GGGGGAATCTGTACCCCCTG
627317 G
1 G
627318 ACAATCTGAT
Statistics
Matches: 71, Mismatches: 5, Indels: 13
0.80 0.06 0.15
Matches are distributed among these distances:
20 37 0.52
21 33 0.46
22 1 0.01
ACGTcount: A:0.17, C:0.27, G:0.36, T:0.19
Consensus pattern (20 bp):
GGGGGAATCTGTACCCCCTG
Found at i:627274 original size:41 final size:40
Alignment explanation
Indices: 627229--627318 Score: 128
Period size: 41 Copynumber: 2.2 Consensus size: 40
627219 GAATCGATAC
627229 CCCCTAGG-GGGGAATCTGTTCCCCCTGGGGGGAAATCAGTA
1 CCCCT-GGAGGGGAATCTGTT-CCCCTGGGGGGAAATCAGTA
* *
627270 CCCCTGGAGGGGAATCTGTTCCCCTGGGGGGGAATCTGTA
1 CCCCTGGAGGGGAATCTGTTCCCCTGGGGGGAAATCAGTA
627310 CCCCCTGGA
1 -CCCCTGGA
627319 CAATCTGATT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
40 20 0.44
41 25 0.56
ACGTcount: A:0.17, C:0.29, G:0.34, T:0.20
Consensus pattern (40 bp):
CCCCTGGAGGGGAATCTGTTCCCCTGGGGGGAAATCAGTA
Found at i:631316 original size:54 final size:54
Alignment explanation
Indices: 631230--631346 Score: 146
Period size: 54 Copynumber: 2.2 Consensus size: 54
631220 GAAGACAAAG
** *
631230 AATTATTAACAATAAACCTTTCACTAATATTCTTGCAACATTAATTATCAATAA
1 AATTATTAACAATAAACCTACCACTAACATTCTTGCAACATTAATTATCAATAA
* ** * *
631284 AATTATTAACAATAAACCTACCA-TAAGCATTCTTGTAGTATTTATTATTAATAA
1 AATTATTAACAATAAACCTACCACTAA-CATTCTTGCAACATTAATTATCAATAA
631338 AATTATTAA
1 AATTATTAA
631347 TAGCAACATT
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
53 3 0.06
54 51 0.94
ACGTcount: A:0.44, C:0.14, G:0.03, T:0.38
Consensus pattern (54 bp):
AATTATTAACAATAAACCTACCACTAACATTCTTGCAACATTAATTATCAATAA
Found at i:632421 original size:35 final size:35
Alignment explanation
Indices: 632348--632422 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
632338 CGTCACTAAC
**
632348 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGGTA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
*
632383 AGTAAGGCCCTGAGCACACAGCCGAGGAACCTCCA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
632418 AGTAA
1 AGTAA
632423 TCTTCCTCCA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.33, C:0.29, G:0.28, T:0.09
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
Found at i:632561 original size:23 final size:23
Alignment explanation
Indices: 632501--632575 Score: 105
Period size: 24 Copynumber: 3.2 Consensus size: 23
632491 CATAATTCAA
*
632501 GTCAAGTATCATATCAGAATCCAG
1 GTCAA-TATCAGATCAGAATCCAG
* *
632525 GTCATGTATCAGATCAGAATCCAT
1 GTCA-ATATCAGATCAGAATCCAG
632549 GTCAATATCAGATCAGAATCCAG
1 GTCAATATCAGATCAGAATCCAG
632572 GTCA
1 GTCA
632576 GGATCATAAC
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
23 21 0.47
24 24 0.53
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.25
Consensus pattern (23 bp):
GTCAATATCAGATCAGAATCCAG
Found at i:632581 original size:23 final size:23
Alignment explanation
Indices: 632505--632590 Score: 109
Period size: 23 Copynumber: 3.7 Consensus size: 23
632495 ATTCAAGTCA
*
632505 AGTATCATATCAGAATCCAGGTC
1 AGTATCAGATCAGAATCCAGGTC
*
632528 ATGTATCAGATCAGAATCCATGTC
1 A-GTATCAGATCAGAATCCAGGTC
*
632552 AATATCAGATCAGAATCCAGGTC
1 AGTATCAGATCAGAATCCAGGTC
* * *
632575 AGGATCATAACAGAAT
1 AGTATCAGATCAGAAT
632591 TCAAGTCGGA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
23 33 0.61
24 21 0.39
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.24
Consensus pattern (23 bp):
AGTATCAGATCAGAATCCAGGTC
Found at i:632608 original size:47 final size:47
Alignment explanation
Indices: 632484--632597 Score: 131
Period size: 47 Copynumber: 2.4 Consensus size: 47
632474 TATATCAAAA
* * * * *
632484 ATCAAAACATAATTCAAGTCAAGTATCATATCAGAATCCAGGTCATGT
1 ATCAGAACAGAATCCAAGTCAA-TATCAGATCAGAATCCAGGTCATGG
* *
632532 ATCAGATCAGAATCCATGTCAATATCAGATCAGAATCCAGGTCA-GG
1 ATCAGAACAGAATCCAAGTCAATATCAGATCAGAATCCAGGTCATGG
* *
632578 ATCATAACAGAATTCAAGTC
1 ATCAGAACAGAATCCAAGTC
632598 GGAAATCAGA
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
46 17 0.31
47 21 0.38
48 17 0.31
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (47 bp):
ATCAGAACAGAATCCAAGTCAATATCAGATCAGAATCCAGGTCATGG
Found at i:635078 original size:7 final size:7
Alignment explanation
Indices: 635066--635097 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
635056 TGGTCAACGC
635066 CGGTCAA
1 CGGTCAA
635073 CGGTCAA
1 CGGTCAA
635080 CGGGTCAA
1 C-GGTCAA
635088 CGGTCAA
1 CGGTCAA
635095 CGG
1 CGG
635098 GTCGGGTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.25, C:0.28, G:0.34, T:0.12
Consensus pattern (7 bp):
CGGTCAA
Found at i:635087 original size:8 final size:8
Alignment explanation
Indices: 635047--635131 Score: 72
Period size: 8 Copynumber: 10.5 Consensus size: 8
635037 TCAAAGTTTT
635047 GGTCAACAG
1 GGTCAAC-G
635056 TGGTCAACG
1 -GGTCAACG
635065 CCGGTCAAC-
1 --GGTCAACG
635074 GGTCAACG
1 GGTCAACG
635082 GGTCAAC-
1 GGTCAACG
635089 GGTCAACG
1 GGTCAACG
635097 GGT---CG
1 GGTCAACG
635102 GGTCAACG
1 GGTCAACG
*
635110 GGTCGAGTCG
1 GGTC-A-ACG
635120 GGTCAACG
1 GGTCAACG
635128 GGTC
1 GGTC
635132 GGGTAAACAG
Statistics
Matches: 64, Mismatches: 3, Indels: 18
0.75 0.04 0.21
Matches are distributed among these distances:
5 5 0.08
7 14 0.22
8 22 0.34
9 3 0.05
10 20 0.31
ACGTcount: A:0.21, C:0.26, G:0.38, T:0.15
Consensus pattern (8 bp):
GGTCAACG
Found at i:635087 original size:15 final size:15
Alignment explanation
Indices: 635057--635113 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
635047 GGTCAACAGT
635057 GGTCAACGCCGGTCAAC
1 GGTCAACG--GGTCAAC
635074 GGTCAACGGGTCAAC
1 GGTCAACGGGTCAAC
*
635089 GGTCAACGGGTC--G
1 GGTCAACGGGTCAAC
635102 GGTCAACGGGTC
1 GGTCAACGGGTC
635114 GAGTCGGGTC
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
13 12 0.31
15 19 0.49
17 8 0.21
ACGTcount: A:0.21, C:0.28, G:0.37, T:0.14
Consensus pattern (15 bp):
GGTCAACGGGTCAAC
Found at i:635107 original size:13 final size:13
Alignment explanation
Indices: 635074--635149 Score: 62
Period size: 13 Copynumber: 5.3 Consensus size: 13
635064 GCCGGTCAAC
*
635074 GGTCAACGGGTCAAC
1 GGTCAACGGGTC--G
635089 GGTCAACGGGTCG
1 GGTCAACGGGTCG
635102 GGTCAACGGGTCGAGTCG
1 GGTCAAC--G--G-GTCG
635120 GGTCAACGGGTCG
1 GGTCAACGGGTCG
* *
635133 GGTAAACAGGTCG
1 GGTCAACGGGTCG
635146 GGTC
1 GGTC
635150 GGGTAAACGG
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
13 25 0.48
14 1 0.02
15 13 0.25
16 1 0.02
17 1 0.02
18 11 0.21
ACGTcount: A:0.20, C:0.22, G:0.42, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:635121 original size:18 final size:18
Alignment explanation
Indices: 635098--635132 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
635088 CGGTCAACGG
635098 GTCGGGTCAACGGGTCGA
1 GTCGGGTCAACGGGTCGA
635116 GTCGGGTCAACGGGTCG
1 GTCGGGTCAACGGGTCG
635133 GGTAAACAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.23, G:0.46, T:0.17
Consensus pattern (18 bp):
GTCGGGTCAACGGGTCGA
Found at i:635127 original size:31 final size:31
Alignment explanation
Indices: 635074--635167 Score: 122
Period size: 31 Copynumber: 3.1 Consensus size: 31
635064 GCCGGTCAAC
*
635074 GGTCAACGGGTC-A-AC-GGTCAACGGGTCG
1 GGTCAACGGGTCGAGTCGGGTCAACGGGTCG
635102 GGTCAACGGGTCGAGTCGGGTCAACGGGTCG
1 GGTCAACGGGTCGAGTCGGGTCAACGGGTCG
* * * *
635133 GGTAAACAGGTCGGGTCGGGTAAACGGGTCG
1 GGTCAACGGGTCGAGTCGGGTCAACGGGTCG
635164 GGTC
1 GGTC
635168 GGGTTGTGAC
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
28 12 0.21
29 1 0.02
30 1 0.02
31 43 0.75
ACGTcount: A:0.19, C:0.21, G:0.44, T:0.16
Consensus pattern (31 bp):
GGTCAACGGGTCGAGTCGGGTCAACGGGTCG
Found at i:635147 original size:18 final size:18
Alignment explanation
Indices: 635126--635171 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
635116 GTCGGGTCAA
635126 CGGGTCGGGTAAACAGGT
1 CGGGTCGGGTAAACAGGT
*
635144 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTAAACAGGT
635162 CGGGTCGGGT
1 CGGGTCGGGT
635172 TGTGACCGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.15, C:0.17, G:0.50, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTAAACAGGT
Found at i:637270 original size:35 final size:35
Alignment explanation
Indices: 637197--637271 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
637187 CGTCACTAAC
**
637197 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGGTA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
*
637232 AGTAAGGCCCTGAGCACACAGCCGAGGAACCTCCA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
637267 AGTAA
1 AGTAA
637272 TCTTCCTCCA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.33, C:0.29, G:0.28, T:0.09
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
Found at i:637379 original size:24 final size:24
Alignment explanation
Indices: 637352--637441 Score: 121
Period size: 23 Copynumber: 3.8 Consensus size: 24
637342 CATAATTCAA
637352 GTCAAGTATCATATCAGAATCCAG
1 GTCAAGTATCATATCAGAATCCAG
* *
637376 GTCATGTATCATATCAGAATCCAT
1 GTCAAGTATCATATCAGAATCCAG
*
637400 GTCAA-TATCAGATCAGAATCCAG
1 GTCAAGTATCATATCAGAATCCAG
* *
637423 GTC-AGGATCATAACAGAAT
1 GTCAAGTATCATATCAGAAT
637442 TCAAGTCGGA
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
22 1 0.02
23 30 0.53
24 26 0.46
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.26
Consensus pattern (24 bp):
GTCAAGTATCATATCAGAATCCAG
Found at i:637459 original size:47 final size:47
Alignment explanation
Indices: 637335--637448 Score: 140
Period size: 47 Copynumber: 2.4 Consensus size: 47
637325 TATATCAAAA
* * * * *
637335 ATCAAAACATAATTCAAGTCAAGTATCATATCAGAATCCAGGTCATGT
1 ATCATAACAGAATCCAAGTCAA-TATCAGATCAGAATCCAGGTCATGG
* *
637383 ATCATATCAGAATCCATGTCAATATCAGATCAGAATCCAGGTCA-GG
1 ATCATAACAGAATCCAAGTCAATATCAGATCAGAATCCAGGTCATGG
*
637429 ATCATAACAGAATTCAAGTC
1 ATCATAACAGAATCCAAGTC
637449 GGAAATCAGA
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
46 18 0.32
47 21 0.38
48 17 0.30
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.25
Consensus pattern (47 bp):
ATCATAACAGAATCCAAGTCAATATCAGATCAGAATCCAGGTCATGG
Found at i:639927 original size:7 final size:7
Alignment explanation
Indices: 639915--639946 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
639905 TGGTCAACGC
639915 CGGTCAA
1 CGGTCAA
639922 CGGTCAA
1 CGGTCAA
639929 CGGGTCAA
1 C-GGTCAA
639937 CGGTCAA
1 CGGTCAA
639944 CGG
1 CGG
639947 GTCGGGTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.25, C:0.28, G:0.34, T:0.12
Consensus pattern (7 bp):
CGGTCAA
Found at i:639936 original size:8 final size:8
Alignment explanation
Indices: 639896--639980 Score: 72
Period size: 8 Copynumber: 10.5 Consensus size: 8
639886 TCAAAGTTTT
639896 GGTCAACAG
1 GGTCAAC-G
639905 TGGTCAACG
1 -GGTCAACG
639914 CCGGTCAAC-
1 --GGTCAACG
639923 GGTCAACG
1 GGTCAACG
639931 GGTCAAC-
1 GGTCAACG
639938 GGTCAACG
1 GGTCAACG
639946 GGT---CG
1 GGTCAACG
639951 GGTCAACG
1 GGTCAACG
*
639959 GGTCGAGTCG
1 GGTC-A-ACG
639969 GGTCAACG
1 GGTCAACG
639977 GGTC
1 GGTC
639981 GGGTAAACAG
Statistics
Matches: 64, Mismatches: 3, Indels: 18
0.75 0.04 0.21
Matches are distributed among these distances:
5 5 0.08
7 14 0.22
8 22 0.34
9 3 0.05
10 20 0.31
ACGTcount: A:0.21, C:0.26, G:0.38, T:0.15
Consensus pattern (8 bp):
GGTCAACG
Found at i:639936 original size:15 final size:15
Alignment explanation
Indices: 639906--639962 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
639896 GGTCAACAGT
639906 GGTCAACGCCGGTCAAC
1 GGTCAACG--GGTCAAC
639923 GGTCAACGGGTCAAC
1 GGTCAACGGGTCAAC
*
639938 GGTCAACGGGTC--G
1 GGTCAACGGGTCAAC
639951 GGTCAACGGGTC
1 GGTCAACGGGTC
639963 GAGTCGGGTC
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
13 12 0.31
15 19 0.49
17 8 0.21
ACGTcount: A:0.21, C:0.28, G:0.37, T:0.14
Consensus pattern (15 bp):
GGTCAACGGGTCAAC
Found at i:639956 original size:13 final size:13
Alignment explanation
Indices: 639923--639998 Score: 62
Period size: 13 Copynumber: 5.3 Consensus size: 13
639913 GCCGGTCAAC
*
639923 GGTCAACGGGTCAAC
1 GGTCAACGGGTC--G
639938 GGTCAACGGGTCG
1 GGTCAACGGGTCG
639951 GGTCAACGGGTCGAGTCG
1 GGTCAAC--G--G-GTCG
639969 GGTCAACGGGTCG
1 GGTCAACGGGTCG
* *
639982 GGTAAACAGGTCG
1 GGTCAACGGGTCG
639995 GGTC
1 GGTC
639999 GGGTAAACGG
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
13 25 0.48
14 1 0.02
15 13 0.25
16 1 0.02
17 1 0.02
18 11 0.21
ACGTcount: A:0.20, C:0.22, G:0.42, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:639970 original size:18 final size:18
Alignment explanation
Indices: 639947--639981 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
639937 CGGTCAACGG
639947 GTCGGGTCAACGGGTCGA
1 GTCGGGTCAACGGGTCGA
639965 GTCGGGTCAACGGGTCG
1 GTCGGGTCAACGGGTCG
639982 GGTAAACAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.23, G:0.46, T:0.17
Consensus pattern (18 bp):
GTCGGGTCAACGGGTCGA
Found at i:639976 original size:31 final size:31
Alignment explanation
Indices: 639923--640016 Score: 122
Period size: 31 Copynumber: 3.1 Consensus size: 31
639913 GCCGGTCAAC
*
639923 GGTCAACGGGTC-A-AC-GGTCAACGGGTCG
1 GGTCAACGGGTCGAGTCGGGTCAACGGGTCG
639951 GGTCAACGGGTCGAGTCGGGTCAACGGGTCG
1 GGTCAACGGGTCGAGTCGGGTCAACGGGTCG
* * * *
639982 GGTAAACAGGTCGGGTCGGGTAAACGGGTCG
1 GGTCAACGGGTCGAGTCGGGTCAACGGGTCG
640013 GGTC
1 GGTC
640017 GGGTTGTGAC
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
28 12 0.21
29 1 0.02
30 1 0.02
31 43 0.75
ACGTcount: A:0.19, C:0.21, G:0.44, T:0.16
Consensus pattern (31 bp):
GGTCAACGGGTCGAGTCGGGTCAACGGGTCG
Found at i:639996 original size:18 final size:18
Alignment explanation
Indices: 639975--640020 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
639965 GTCGGGTCAA
639975 CGGGTCGGGTAAACAGGT
1 CGGGTCGGGTAAACAGGT
*
639993 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTAAACAGGT
640011 CGGGTCGGGT
1 CGGGTCGGGT
640021 TGTGACCGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.15, C:0.17, G:0.50, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTAAACAGGT
Found at i:643776 original size:51 final size:50
Alignment explanation
Indices: 643721--643881 Score: 155
Period size: 51 Copynumber: 3.2 Consensus size: 50
643711 GTGTTAAGTA
*
643721 CTACATTTTTTTATTTTATTCACTTACACCGGTGTGAGTATAAATTAAATG
1 CTACA-TTTTTTATTTTATTCACTTACACCGGTGTAAGTATAAATTAAATG
* * * * **
643772 CTACA-CTTTT-TTTTATTCACTCATACCGGTGTAATTATGTATTAAATG
1 CTACATTTTTTATTTTATTCACTTACACCGGTGTAAGTATAAATTAAATG
* * * * ** *
643820 CTACACTTGTTTATTTTATTCACTTACACTGATATAAGTATATGTTAAGTG
1 CTACA-TTTTTTATTTTATTCACTTACACCGGTGTAAGTATAAATTAAATG
*
643871 TTACATTTTTT
1 CTACATTTTTT
643882 TGTAATATGA
Statistics
Matches: 87, Mismatches: 20, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
48 37 0.43
49 4 0.05
50 8 0.09
51 38 0.44
ACGTcount: A:0.28, C:0.14, G:0.11, T:0.47
Consensus pattern (50 bp):
CTACATTTTTTATTTTATTCACTTACACCGGTGTAAGTATAAATTAAATG
Found at i:643801 original size:48 final size:50
Alignment explanation
Indices: 643728--643848 Score: 156
Period size: 48 Copynumber: 2.4 Consensus size: 50
643718 GTACTACATT
* *
643728 TTTTTATTTTATTCACTTACACCGGTGTGAGTATAAATTAAATGCTACAC
1 TTTTTATTTTATTCACTCACACCGGTGTAAGTATAAATTAAATGCTACAC
* * **
643778 -TTTT-TTTTATTCACTCATACCGGTGTAATTATGTATTAAATGCTACAC
1 TTTTTATTTTATTCACTCACACCGGTGTAAGTATAAATTAAATGCTACAC
*
643826 TTGTTTATTTTATTCACTTACAC
1 TT-TTTATTTTATTCACTCACAC
643849 TGATATAAGT
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
48 38 0.63
49 5 0.08
50 3 0.05
51 14 0.23
ACGTcount: A:0.27, C:0.17, G:0.10, T:0.46
Consensus pattern (50 bp):
TTTTTATTTTATTCACTCACACCGGTGTAAGTATAAATTAAATGCTACAC
Found at i:645872 original size:22 final size:22
Alignment explanation
Indices: 645846--645888 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
645836 AAAAAAATAC
645846 AAAACAATAA-AAAACATGTCAG
1 AAAAC-ATAAGAAAACATGTCAG
*
645868 AAAACATAAGAAAATATGTCA
1 AAAACATAAGAAAACATGTCA
645889 TAAAGTAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.63, C:0.12, G:0.09, T:0.16
Consensus pattern (22 bp):
AAAACATAAGAAAACATGTCAG
Found at i:653368 original size:2 final size:2
Alignment explanation
Indices: 653363--653406 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
653353 TTTTTTCTTT
653363 TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
653404 TA T
1 TA T
653407 TCAAATGTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:653916 original size:10 final size:10
Alignment explanation
Indices: 653901--653926 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
653891 AAGGATCATA
653901 ATATATATCT
1 ATATATATCT
653911 ATATATATCT
1 ATATATATCT
653921 ATATAT
1 ATATAT
653927 TCAAATTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (10 bp):
ATATATATCT
Found at i:658355 original size:150 final size:149
Alignment explanation
Indices: 658085--658385 Score: 566
Period size: 150 Copynumber: 2.0 Consensus size: 149
658075 AACCCAGATA
658085 AATATGGTGCTCAAGAAACTTAAGTGCAAATGCCTCAACAACGCCCTTTTGCATGCCAACAAGAT
1 AATATGGTGCTCAAGAAACTTAAGTGCAAATGCCTCAACAACGCCCTTTTGCATGCCAACAAGAT
* *
658150 TAGTTTGGTTCTTGGCTAGTTGACTTGGGAACCAATTATAATGTTACTCCAAATTTGGCAGCCTT
66 TAGTTTGGTGCTTGGCTAGTTGACTTGGGAAACAATTATAATGTTACTCCAAATTTGGCAGCCTT
658215 GAGTATTGCCAACGACGGC
131 GAGTATTGCCAACGACGGC
*
658234 AATATGGTGCTCAAGAAACTTTAGTGCAAATGCCTCAACAACGCCCTTTTTGCATGCCAACAAGA
1 AATATGGTGCTCAAGAAACTTAAGTGCAAATGCCTCAACAACGCCC-TTTTGCATGCCAACAAGA
658299 TTAGTTTGGTGCTTGGCTAGTTGACTTGGGAAACAATTATAATGTTACTCCAAATTTGGCAGCCT
65 TTAGTTTGGTGCTTGGCTAGTTGACTTGGGAAACAATTATAATGTTACTCCAAATTTGGCAGCCT
658364 TGAGTATTGCCAACGACGGC
130 TGAGTATTGCCAACGACGGC
658384 AA
1 AA
658386 AGGTTTTTAC
Statistics
Matches: 148, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
149 45 0.30
150 103 0.70
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (149 bp):
AATATGGTGCTCAAGAAACTTAAGTGCAAATGCCTCAACAACGCCCTTTTGCATGCCAACAAGAT
TAGTTTGGTGCTTGGCTAGTTGACTTGGGAAACAATTATAATGTTACTCCAAATTTGGCAGCCTT
GAGTATTGCCAACGACGGC
Found at i:658435 original size:34 final size:36
Alignment explanation
Indices: 658353--658449 Score: 110
Period size: 34 Copynumber: 2.7 Consensus size: 36
658343 TTACTCCAAA
* **
658353 TTTGGCAGCCTTGAGTATTGCCAACGACGGCAAAGGTT
1 TTTGGCAGCCTTGAGTATTGCCAACAACGGC--ACCTT
*
658391 TTT-ACAAGCCTTGAGTATTGCCAACAAC-GC-CCTT
1 TTTGGC-AGCCTTGAGTATTGCCAACAACGGCACCTT
658425 TTTGGCAGCCTTGAGTATTGCCAAC
1 TTTGGCAGCCTTGAGTATTGCCAAC
658450 TGCCCCTTCA
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
34 24 0.46
35 1 0.02
37 3 0.06
38 24 0.46
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.29
Consensus pattern (36 bp):
TTTGGCAGCCTTGAGTATTGCCAACAACGGCACCTT
Found at i:662651 original size:18 final size:17
Alignment explanation
Indices: 662628--662661 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
662618 TGCATGCCAA
662628 CAAGACAACTATGGTGCT
1 CAAGACAACTA-GGTGCT
662646 CAAGACAACTAGGTGC
1 CAAGACAACTAGGTGC
662662 ATATGCCTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.18
Consensus pattern (17 bp):
CAAGACAACTAGGTGCT
Found at i:666015 original size:7 final size:7
Alignment explanation
Indices: 666003--666117 Score: 54
Period size: 7 Copynumber: 15.3 Consensus size: 7
665993 AAATAACAAT
666003 TAAATAA
1 TAAATAA
666010 TAAATAAA
1 TAAAT-AA
*
666018 TATTATAA
1 TA-AATAA
666026 T-AATAA
1 TAAATAA
666032 T-AATAA
1 TAAATAA
*
666038 TATAATAG
1 TA-AATAA
666046 TAAATATA
1 TAAATA-A
666054 TATACTATAA
1 TA-A--ATAA
*
666064 TATATAA
1 TAAATAA
*
666071 TATATAA
1 TAAATAA
*
666078 TATACTATA
1 TA-AATA-A
*
666087 TAATTATA
1 TAAATA-A
666095 TAAATAA
1 TAAATAA
*
666102 TATATAA
1 TAAATAA
*
666109 TATATAA
1 TAAATAA
666116 TA
1 TA
666118 TTATATATTG
Statistics
Matches: 88, Mismatches: 10, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
6 11 0.12
7 38 0.43
8 27 0.31
9 6 0.07
10 3 0.03
11 3 0.03
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.39
Consensus pattern (7 bp):
TAAATAA
Found at i:666113 original size:26 final size:26
Alignment explanation
Indices: 666013--666194 Score: 108
Period size: 26 Copynumber: 6.7 Consensus size: 26
666003 TAAATAATAA
* *
666013 ATAAATATTATAATAATA-ATAATAAT
1 ATAAATAATAT-ATAATATATAATTAT
666039 ATAATAGTAA-ATATATATACTATAA-TAT
1 ATAA-A-TAATATATA-ATA-TATAATTAT
*
666067 AT-AATATATAATATACTATATAATTAT
1 ATAAATA-AT-ATATAATATATAATTAT
666094 ATAAATAATATATAATATATAA-TAT
1 ATAAATAATATATAATATATAATTAT
* * *
666119 -TATATATTGTATAAATACTATAATATAT
1 ATAAATAATATAT-AATA-TATAAT-TAT
*
666147 ATAATATCATATCATATAATATAT-ACTAT
1 ATAA-AT-A-AT-ATATAATATATAATTAT
*
666176 ATAAAATAACATATAATAT
1 AT-AAATAATATATAATAT
666195 GATATGATAC
Statistics
Matches: 124, Mismatches: 12, Indels: 40
0.70 0.07 0.23
Matches are distributed among these distances:
24 9 0.07
25 9 0.07
26 40 0.32
27 17 0.14
28 19 0.15
29 13 0.10
30 5 0.04
31 4 0.03
32 5 0.04
33 3 0.02
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (26 bp):
ATAAATAATATATAATATATAATTAT
Found at i:666118 original size:12 final size:12
Alignment explanation
Indices: 666012--666199 Score: 107
Period size: 12 Copynumber: 14.8 Consensus size: 12
666002 TTAAATAATA
666012 AATA-AATATTAT
1 AATATAATA-TAT
666024 AATAATAATA-AT
1 AAT-ATAATATAT
666036 AATATAATAGTA-
1 AATATAATA-TAT
666048 AATATATATACTAT
1 AATATA-ATA-TAT
666062 AATATATAATATAT
1 -A-ATATAATATAT
*
666076 AATATACTATAT
1 AATATAATATAT
*
666088 AAT-TATATAAAT
1 AATATA-ATATAT
666100 AATATATAATATAT
1 -A-ATATAATATAT
*
666114 AATATTATATAT
1 AATATAATATAT
**
666126 TGTATAAATACTAT
1 AATAT-AATA-TAT
666140 AATATATATAATAT
1 AATATA-AT-ATAT
* *
666154 CATATCATATA-
1 AATATAATATAT
*
666165 ATATATACTATAT
1 A-ATATAATATAT
* *
666178 AAAATAACATAT
1 AATATAATATAT
*
666190 AATATGATAT
1 AATATAATAT
666200 GATACAATAA
Statistics
Matches: 136, Mismatches: 22, Indels: 36
0.70 0.11 0.19
Matches are distributed among these distances:
11 8 0.06
12 70 0.51
13 17 0.12
14 29 0.21
15 7 0.05
16 5 0.04
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (12 bp):
AATATAATATAT
Found at i:666118 original size:14 final size:14
Alignment explanation
Indices: 666006--666194 Score: 129
Period size: 14 Copynumber: 14.0 Consensus size: 14
665996 TAACAATTAA
*
666006 ATAATAAATAA-AT
1 ATAATATATAATAT
*
666019 ATTATA-ATAATA-
1 ATAATATATAATAT
666031 ATAATAATATAATAGT
1 ATAAT-ATATAATA-T
666047 A-AATATAT-ATACT
1 ATAATATATAATA-T
666060 ATAATATATAATAT
1 ATAATATATAATAT
*
666074 AT-A-ATATACTAT
1 ATAATATATAATAT
*
666086 ATAAT-TAT-ATAA
1 ATAATATATAATAT
666098 ATAATATATAATAT
1 ATAATATATAATAT
666112 ATAATAT-T-ATAT
1 ATAATATATAATAT
**
666124 ATTGTATA-AATACT
1 ATAATATATAATA-T
666138 ATAATATAT-ATAAT
1 ATAATATATAAT-AT
666152 ATCATATCATATAATAT
1 AT-A-AT-ATATAATAT
*
666169 ATACTATATAA-A-
1 ATAATATATAATAT
*
666181 ATAACATATAATAT
1 ATAATATATAATAT
666195 GATATGATAC
Statistics
Matches: 140, Mismatches: 14, Indels: 43
0.71 0.07 0.22
Matches are distributed among these distances:
12 43 0.31
13 26 0.19
14 48 0.34
15 9 0.06
16 4 0.03
17 8 0.06
18 2 0.01
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (14 bp):
ATAATATATAATAT
Found at i:666189 original size:31 final size:31
Alignment explanation
Indices: 666065--666199 Score: 112
Period size: 31 Copynumber: 4.3 Consensus size: 31
666055 ATACTATAAT
* *
666065 ATATAATATATAATATACT-ATATAATTATATA
1 ATATAATATATAATATA-TAAAATAA-CATATA
* * * *
666097 A-ATAATATATAATATATAATATTATATATT
1 ATATAATATATAATATATAAAATAACATATA
* * * *
666127 GTATAAATACTATAATATATATAATATCATATC
1 ATAT-AATA-TATAATATATAAAATAACATATA
*
666160 ATATAATATATACTATATAAAATAACATATA
1 ATATAATATATAATATATAAAATAACATATA
*
666191 ATATGATAT
1 ATATAATAT
666200 GATACAATAA
Statistics
Matches: 84, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
30 6 0.07
31 49 0.58
32 9 0.11
33 20 0.24
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.41
Consensus pattern (31 bp):
ATATAATATATAATATATAAAATAACATATA
Found at i:666985 original size:22 final size:22
Alignment explanation
Indices: 666931--666974 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
666921 TAAAAGTCAG
666931 TCAATAATGGCGGTGCATGATT
1 TCAATAATGGCGGTGCATGATT
666953 TCAATAATGGCGGTGCATGATT
1 TCAATAATGGCGGTGCATGATT
666975 CAAAGGTTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (22 bp):
TCAATAATGGCGGTGCATGATT
Found at i:669981 original size:22 final size:22
Alignment explanation
Indices: 669953--669996 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
669943 TAAAAGTCAG
669953 TCAATAATGGCAGTGCATGATT
1 TCAATAATGGCAGTGCATGATT
* *
669975 TCAATAATGGCGGTGCTTGATT
1 TCAATAATGGCAGTGCATGATT
669997 CAAAGGTTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (22 bp):
TCAATAATGGCAGTGCATGATT
Found at i:680001 original size:16 final size:16
Alignment explanation
Indices: 679980--680019 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
679970 AATAAATTTA
679980 CATGAATCTTGAATAC
1 CATGAATCTTGAATAC
679996 CATGAATCTTGAATAC
1 CATGAATCTTGAATAC
680012 CATGAATC
1 CATGAATC
680020 ATCGATTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (16 bp):
CATGAATCTTGAATAC
Found at i:680682 original size:31 final size:31
Alignment explanation
Indices: 680647--680754 Score: 119
Period size: 31 Copynumber: 3.5 Consensus size: 31
680637 TAAGACGATC
680647 CTTGGGTAGGCTCTGAGGCCCCGAGATCTTT
1 CTTGGGTAGGCTCTGAGGCCCCGAGATCTTT
* *
680678 CTTGGGTAGGC-CTTGCGGCCCCGAGATCCTT
1 CTTGGGTAGGCTC-TGAGGCCCCGAGATCTTT
* * * *
680709 CTTGGGTAGGCCCCGTGGCCCCGAGTAACTTT
1 CTTGGGTAGGCTCTGAGGCCCCGAG-ATCTTT
* *
680741 TTTAGGTAGGCTCT
1 CTTGGGTAGGCTCT
680755 CGGCCCCCAA
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
30 1 0.02
31 48 0.75
32 15 0.23
ACGTcount: A:0.12, C:0.28, G:0.31, T:0.29
Consensus pattern (31 bp):
CTTGGGTAGGCTCTGAGGCCCCGAGATCTTT
Found at i:685648 original size:150 final size:149
Alignment explanation
Indices: 685378--685678 Score: 566
Period size: 150 Copynumber: 2.0 Consensus size: 149
685368 AACCCAGATA
685378 AATATGGTGCTCAAGAAACTTAAGTGCAAATGCCTCAACAACGCCCTTTTGCATGCCAACAAGAT
1 AATATGGTGCTCAAGAAACTTAAGTGCAAATGCCTCAACAACGCCCTTTTGCATGCCAACAAGAT
* *
685443 TAGTTTGGTTCTTGGCTAGTTGACTTGGGAACCAATTATAATGTTACTCCAAATTTGGCAGCCTT
66 TAGTTTGGTGCTTGGCTAGTTGACTTGGGAAACAATTATAATGTTACTCCAAATTTGGCAGCCTT
685508 GAGTATTGCCAACGACGGC
131 GAGTATTGCCAACGACGGC
*
685527 AATATGGTGCTCAAGAAACTTTAGTGCAAATGCCTCAACAACGCCCTTTTTGCATGCCAACAAGA
1 AATATGGTGCTCAAGAAACTTAAGTGCAAATGCCTCAACAACGCCC-TTTTGCATGCCAACAAGA
685592 TTAGTTTGGTGCTTGGCTAGTTGACTTGGGAAACAATTATAATGTTACTCCAAATTTGGCAGCCT
65 TTAGTTTGGTGCTTGGCTAGTTGACTTGGGAAACAATTATAATGTTACTCCAAATTTGGCAGCCT
685657 TGAGTATTGCCAACGACGGC
130 TGAGTATTGCCAACGACGGC
685677 AA
1 AA
685679 AGGTTTTTAC
Statistics
Matches: 148, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
149 45 0.30
150 103 0.70
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (149 bp):
AATATGGTGCTCAAGAAACTTAAGTGCAAATGCCTCAACAACGCCCTTTTGCATGCCAACAAGAT
TAGTTTGGTGCTTGGCTAGTTGACTTGGGAAACAATTATAATGTTACTCCAAATTTGGCAGCCTT
GAGTATTGCCAACGACGGC
Found at i:685728 original size:34 final size:36
Alignment explanation
Indices: 685646--685742 Score: 110
Period size: 34 Copynumber: 2.7 Consensus size: 36
685636 TTACTCCAAA
* **
685646 TTTGGCAGCCTTGAGTATTGCCAACGACGGCAAAGGTT
1 TTTGGCAGCCTTGAGTATTGCCAACAACGGC--ACCTT
*
685684 TTT-ACAAGCCTTGAGTATTGCCAACAAC-GC-CCTT
1 TTTGGC-AGCCTTGAGTATTGCCAACAACGGCACCTT
685718 TTTGGCAGCCTTGAGTATTGCCAAC
1 TTTGGCAGCCTTGAGTATTGCCAAC
685743 TGCCCCTTCA
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
34 24 0.46
35 1 0.02
37 3 0.06
38 24 0.46
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.29
Consensus pattern (36 bp):
TTTGGCAGCCTTGAGTATTGCCAACAACGGCACCTT
Found at i:689957 original size:18 final size:17
Alignment explanation
Indices: 689934--689967 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
689924 TGCATGCCAA
689934 CAAGACAACTATGGTGCT
1 CAAGACAACTA-GGTGCT
689952 CAAGACAACTAGGTGC
1 CAAGACAACTAGGTGC
689968 ATATGCCTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.18
Consensus pattern (17 bp):
CAAGACAACTAGGTGCT
Found at i:692607 original size:7 final size:7
Alignment explanation
Indices: 692595--692706 Score: 50
Period size: 7 Copynumber: 15.3 Consensus size: 7
692585 AAATAACAAT
692595 TAAATAA
1 TAAATAA
692602 TAAATAA
1 TAAATAA
* *
692609 -ATATTA
1 TAAATAA
692615 T-AATAA
1 TAAATAA
692621 T-AATAA
1 TAAATAA
*
692627 TATAATAG
1 TA-AATAA
692635 TAAATATA
1 TAAATA-A
692643 TATACTATAA
1 TA-A--ATAA
*
692653 TATATAA
1 TAAATAA
*
692660 TATATAA
1 TAAATAA
*
692667 TATACTATA
1 TA-AATA-A
*
692676 TAATTATA
1 TAAATA-A
692684 TAAATAA
1 TAAATAA
*
692691 TATATAA
1 TAAATAA
*
692698 TATATAA
1 TAAATAA
692705 TA
1 TA
692707 TTATATATTG
Statistics
Matches: 84, Mismatches: 12, Indels: 18
0.74 0.11 0.16
Matches are distributed among these distances:
6 14 0.17
7 40 0.48
8 20 0.24
9 4 0.05
10 3 0.04
11 3 0.04
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.39
Consensus pattern (7 bp):
TAAATAA
Found at i:692630 original size:14 final size:14
Alignment explanation
Indices: 692598--692706 Score: 75
Period size: 14 Copynumber: 7.6 Consensus size: 14
692588 TAACAATTAA
*
692598 ATAATAAATAAATATT
1 ATAAT-AAT-AATAAT
692614 ATAATAATAATAAT
1 ATAATAATAATAAT
*
692628 ATAATAGT-A-AAT
1 ATAATAATAATAAT
*
692640 ATATATACT-ATAAT
1 ATA-ATAATAATAAT
692654 AT-ATAATATATAAT
1 ATAATAATA-ATAAT
* *
692668 ATACTATATAATTAT
1 ATAATA-ATAATAAT
692683 ATAAATAATATATAAT
1 AT-AATAATA-ATAAT
692699 AT-ATAATA
1 ATAATAATA
692707 TTATATATTG
Statistics
Matches: 77, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
12 10 0.13
13 6 0.08
14 30 0.39
15 14 0.18
16 17 0.22
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.39
Consensus pattern (14 bp):
ATAATAATAATAAT
Found at i:692639 original size:33 final size:35
Alignment explanation
Indices: 692597--692766 Score: 122
Period size: 33 Copynumber: 4.9 Consensus size: 35
692587 ATAACAATTA
*
692597 AATAATAAATA-A-ATATTATAATA-ATAATAATAT
1 AATAATAAATATATATACTATAATATATAAT-ATAT
*
692630 AATAGTAAATATATATACTATAATATATAATATAT
1 AATAATAAATATATATACTATAATATATAATATAT
* * *
692665 AAT-AT-ACTATATA-ATTAT-ATAAATAATATAT
1 AATAATAAATATATATACTATAATATATAATATAT
**
692696 AATATATAATATTATATATTGTATAAATACTATAATATAT
1 AATA-ATAA-A-TATATATACTAT-AATA-TATAATATAT
* * *
692736 -ATAATATCATATCATATAATATACTATATAA
1 AATAATA-AATAT-ATATACTATAATATATAA
692767 ATAACATATA
Statistics
Matches: 109, Mismatches: 14, Indels: 25
0.74 0.09 0.17
Matches are distributed among these distances:
31 15 0.14
32 4 0.04
33 19 0.17
34 3 0.03
35 17 0.16
36 16 0.15
37 9 0.08
38 11 0.10
39 6 0.06
40 9 0.08
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.41
Consensus pattern (35 bp):
AATAATAAATATATATACTATAATATATAATATAT
Found at i:692642 original size:12 final size:14
Alignment explanation
Indices: 692623--692765 Score: 99
Period size: 14 Copynumber: 10.7 Consensus size: 14
692613 TATAATAATA
*
692623 ATAATATA-ATAGT
1 ATAATATATATACT
692636 A-AATATATATACT
1 ATAATATATATACT
692649 ATAATATATAATA-T
1 ATAATATAT-ATACT
*
692663 ATAATATA-CTA-T
1 ATAATATATATACT
*
692675 ATAAT-TATATA-A
1 ATAATATATATACT
692687 ATAATATATAATA-T
1 ATAATATAT-ATACT
692701 ATAATAT-TATA-T
1 ATAATATATATACT
** *
692713 ATTGTATAAATACT
1 ATAATATATATACT
*
692727 ATAATATATATAAT
1 ATAATATATATACT
* *
692741 ATCATATCATATAAT
1 ATAATAT-ATATACT
*
692756 ATACTATATA
1 ATAATATATA
692766 AATAACATAT
Statistics
Matches: 106, Mismatches: 15, Indels: 17
0.77 0.11 0.12
Matches are distributed among these distances:
11 2 0.02
12 30 0.28
13 13 0.12
14 46 0.43
15 15 0.14
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.42
Consensus pattern (14 bp):
ATAATATATATACT
Found at i:692726 original size:78 final size:80
Alignment explanation
Indices: 692605--692780 Score: 202
Period size: 78 Copynumber: 2.2 Consensus size: 80
692595 TAAATAATAA
* *
692605 ATAAATATTATAATAATA-ATAATATAATAGTAAATATATATACTATAATATATA-ATATATAAT
1 ATAAATAATAT-ATAATATATAATATAATAGTAAATATAAATACTATAATATATATA-ATATAAT
*
692668 AT-ACTAT-ATA-ATTAT
64 ATCA-TATAATATACTAT
* ** *
692683 ATAAATAATATATAATATATAATATTATA-TATTGTATAAATACTATAATATATATAATATCATA
1 ATAAATAATATATAATATATAATATAATAGTA-AATATAAATACTATAATATATATAATATAATA
692747 TCATATAATATACTAT
65 TCATATAATATACTAT
*
692763 ATAAATAACATATAATAT
1 ATAAATAATATATAATAT
692781 GATATGATAC
Statistics
Matches: 84, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
77 8 0.10
78 50 0.60
79 5 0.06
80 21 0.25
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (80 bp):
ATAAATAATATATAATATATAATATAATAGTAAATATAAATACTATAATATATATAATATAATAT
CATATAATATACTAT
Found at i:692768 original size:45 final size:43
Alignment explanation
Indices: 692642--692785 Score: 157
Period size: 45 Copynumber: 3.2 Consensus size: 43
692632 TAGTAAATAT
*
692642 ATATACTATAATATATAATATATAATATACTATATAATTA-TATAA
1 ATATA-TATAATATAT-ATATATAATATACTATATAAATACTAT-A
* * *
692687 ATAATATATAATATATA-ATATTATATATTGTATAAATACTATA
1 AT-ATATATAATATATATATATAATATACTATATAAATACTATA
692730 ATATATATAATATCATATCATATAATATACTATATAAATAACATATA
1 ATATATATAATAT-ATAT-ATATAATATACTATATAAAT-AC-TATA
692777 ATATGATAT
1 ATAT-ATAT
692786 GATACAATAA
Statistics
Matches: 84, Mismatches: 7, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
42 11 0.13
43 23 0.27
44 4 0.05
45 29 0.35
46 5 0.06
47 8 0.10
48 4 0.05
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (43 bp):
ATATATATAATATATATATATAATATACTATATAAATACTATA
Found at i:693571 original size:22 final size:22
Alignment explanation
Indices: 693517--693560 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
693507 TAAAAGTCAG
693517 TCAATAATGGCGGTGCATGATT
1 TCAATAATGGCGGTGCATGATT
693539 TCAATAATGGCGGTGCATGATT
1 TCAATAATGGCGGTGCATGATT
693561 CAAAGGTTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (22 bp):
TCAATAATGGCGGTGCATGATT
Found at i:696565 original size:22 final size:22
Alignment explanation
Indices: 696537--696580 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
696527 TAAAAGTCAG
696537 TCAATAATGGCAGTGCATGATT
1 TCAATAATGGCAGTGCATGATT
* *
696559 TCAATAATGGCGGTGCTTGATT
1 TCAATAATGGCAGTGCATGATT
696581 CAAAGGTTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (22 bp):
TCAATAATGGCAGTGCATGATT
Found at i:706584 original size:16 final size:16
Alignment explanation
Indices: 706563--706602 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
706553 AATAAATTTA
706563 CATGAATCTTGAATAC
1 CATGAATCTTGAATAC
706579 CATGAATCTTGAATAC
1 CATGAATCTTGAATAC
706595 CATGAATC
1 CATGAATC
706603 ATCGATTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (16 bp):
CATGAATCTTGAATAC
Found at i:707265 original size:31 final size:31
Alignment explanation
Indices: 707230--707337 Score: 119
Period size: 31 Copynumber: 3.5 Consensus size: 31
707220 TAAGACGATC
707230 CTTGGGTAGGCTCTGAGGCCCCGAGATCTTT
1 CTTGGGTAGGCTCTGAGGCCCCGAGATCTTT
* *
707261 CTTGGGTAGGC-CTTGCGGCCCCGAGATCCTT
1 CTTGGGTAGGCTC-TGAGGCCCCGAGATCTTT
* * * *
707292 CTTGGGTAGGCCCCGTGGCCCCGAGTAACTTT
1 CTTGGGTAGGCTCTGAGGCCCCGAG-ATCTTT
* *
707324 TTTAGGTAGGCTCT
1 CTTGGGTAGGCTCT
707338 CGGCCCCCAA
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
30 1 0.02
31 48 0.75
32 15 0.23
ACGTcount: A:0.12, C:0.28, G:0.31, T:0.29
Consensus pattern (31 bp):
CTTGGGTAGGCTCTGAGGCCCCGAGATCTTT
Found at i:720328 original size:37 final size:36
Alignment explanation
Indices: 720287--720398 Score: 101
Period size: 37 Copynumber: 3.1 Consensus size: 36
720277 AATTAAATAA
720287 TATAATAATAATAATATAATAGTAAATATATATATAC
1 TATAATAATAATAATATAATA-TAAATATATATATAC
* *
720324 TATAAAATATAAT-ATATAATATACTATATAATTATATA-
1 TATAATA-ATAATAATATAATATA-AATAT-A-TATATAC
*
720362 AATAAT-ATAATAATAT-ATA-ATAATATATA-ATAC
1 TATAATAATAATAATATAATATA-AATATATATATAC
720395 TATA
1 TATA
720399 TATTGTATAA
Statistics
Matches: 62, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
32 3 0.05
33 5 0.08
34 1 0.02
35 5 0.08
36 10 0.16
37 22 0.35
38 10 0.16
39 6 0.10
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (36 bp):
TATAATAATAATAATATAATATAAATATATATATAC
Found at i:720337 original size:5 final size:5
Alignment explanation
Indices: 720283--720484 Score: 106
Period size: 5 Copynumber: 40.2 Consensus size: 5
720273 ATAAAATTAA
* *
720283 ATAAT AT-A- ATAAT AATAAT ATAAT AGTAAAT ATATAT ATACT ATAAA
1 ATAAT ATAAT ATAAT -ATAAT ATAAT A-T-AAT ATA-AT ATAAT ATAAT
720330 AT-AT A-ATAT ATAAT ATACTAT ATAAT -T-AT ATAA- ATAAT ATAAT
1 ATAAT ATA-AT ATAAT ATA--AT ATAAT ATAAT ATAAT ATAAT ATAAT
** *
720373 A-ATAT ATAAT A-ATAT ATAAT ACTATAT ATTGT ATAA- ATACT ATAAT
1 ATA-AT ATAAT ATA-AT ATAAT A-TA-AT ATAAT ATAAT ATAAT ATAAT
* * *
720419 AT-AT ATAAT ATCAT ATCAT ATAAT AT-AT ACT-AT ATAAA ATAAT ATTTAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT A-TAAT ATAAT ATAAT A--TAAT
*
720469 ATAAT ATAAT ACAAT A
1 ATAAT ATAAT ATAAT A
720485 GAAAGGAACC
Statistics
Matches: 156, Mismatches: 15, Indels: 52
0.70 0.07 0.23
Matches are distributed among these distances:
3 4 0.03
4 23 0.15
5 94 0.60
6 18 0.12
7 17 0.11
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:720374 original size:12 final size:12
Alignment explanation
Indices: 720280--720484 Score: 73
Period size: 12 Copynumber: 17.5 Consensus size: 12
720270 GAAATAAAAT
720280 TAAATAATATAA
1 TAAATAATATAA
720292 T-AAT-A-ATAA
1 TAAATAATATAA
*
720301 TATAATAGTA-AA
1 TA-AATAATATAA
* *
720313 TATAT-ATATAC
1 TAAATAATATAA
720324 TATAA-AATATAA
1 TA-AATAATATAA
* *
720336 TATATAATATAC
1 TAAATAATATAA
*
720348 TATATAAT-TATA
1 TAAATAATATA-A
720360 TAAATAATATAA
1 TAAATAATATAA
720372 T-AAT-ATATAA
1 TAAATAATATAA
720382 T-AAT-ATATAA
1 TAAATAATATAA
* *
720392 T-ACTATATATTGTA
1 TAAATA-ATA-T-AA
*
720406 TAAATACTATAA
1 TAAATAATATAA
*
720418 TATATATAATATCA
1 TA-A-ATAATATAA
*
720432 T--ATCATATAA
1 TAAATAATATAA
* *
720442 TATATACTAT-A
1 TAAATAATATAA
*
720453 TAAAATAATAT-T
1 T-AAATAATATAA
720465 TAATATAATATAA
1 TAA-ATAATATAA
720478 TACAATA
1 TA-AATA
720485 GAAAGGAACC
Statistics
Matches: 145, Mismatches: 25, Indels: 45
0.67 0.12 0.21
Matches are distributed among these distances:
9 5 0.03
10 30 0.21
11 21 0.14
12 62 0.43
13 11 0.08
14 13 0.09
15 3 0.02
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.40
Consensus pattern (12 bp):
TAAATAATATAA
Found at i:720375 original size:39 final size:39
Alignment explanation
Indices: 720280--720477 Score: 141
Period size: 41 Copynumber: 5.1 Consensus size: 39
720270 GAAATAAAAT
720280 TAAATAATATAATAATA-ATAATATA-ATAGTAAATATATA
1 TAAATAATATAATAATATATAATATATATA-T-AATATATA
*
720319 TATACTATAAAAT-ATAATATATAATATACTATATAAT-TATA
1 TA-A--ATAATATAATAATATATAATATA-TATATAATATATA
720360 TAAATAATATAATAATATATAATA-ATATATAATACTATA
1 TAAATAATATAATAATATATAATATATATATAATA-TATA
**
720399 T--ATTGTAT-A-AATACTAT-A-ATATATATAATATCATA
1 TAAATAATATAATAATA-TATAATATATATATAATAT-ATA
* * * *
720434 TCATATAATAT-ATACTATATAAAATAATATTTAATATAATA
1 T-AAATAATATAATAATATATAATAT-ATATATAATAT-ATA
720475 TAA
1 TAA
720478 TACAATAGAA
Statistics
Matches: 130, Mismatches: 10, Indels: 37
0.73 0.06 0.21
Matches are distributed among these distances:
34 2 0.02
35 19 0.15
36 4 0.03
37 13 0.10
38 16 0.12
39 24 0.18
40 5 0.04
41 26 0.20
42 17 0.13
43 1 0.01
44 3 0.02
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.40
Consensus pattern (39 bp):
TAAATAATATAATAATATATAATATATATATAATATATA
Found at i:721236 original size:22 final size:22
Alignment explanation
Indices: 721208--721251 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
721198 TAAAAGTCAG
721208 TCAATAATGGCGGTGCATGATT
1 TCAATAATGGCGGTGCATGATT
*
721230 TCAATAATGGTGGTGCATGATT
1 TCAATAATGGCGGTGCATGATT
721252 CAAAGGTTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.34
Consensus pattern (22 bp):
TCAATAATGGCGGTGCATGATT
Found at i:721893 original size:22 final size:21
Alignment explanation
Indices: 721865--721912 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 21
721855 TAAAAGTCAG
*
721865 TCAATAATGGCGGTGCATGATT
1 TCAATAATGGCGGTGCAT-AAT
*
721887 TCAATAATGGTGGTGCATAAT
1 TCAATAATGGCGGTGCATAAT
721908 TCAAT
1 TCAAT
721913 GGTTGGCACC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.33
Consensus pattern (21 bp):
TCAATAATGGCGGTGCATAAT
Found at i:722023 original size:657 final size:658
Alignment explanation
Indices: 720757--722075 Score: 2559
Period size: 657 Copynumber: 2.0 Consensus size: 658
720747 TCATATTACT
720757 CCAAATTTGGCAGCCTTGAATATTGCCAAAGACCGCAAAGGCGATAATAAAATCCCAGTTGGAAG
1 CCAAATTTGGCAGCCTTGAATATTGCCAAAGACCGCAAAGGCGATAATAAAATCCCAGTTGGAAG
720822 TGGTCAAGGTCTGGAAATCTCTCACATTGGCATTGGTTTTTTTACCTCACCCTCGAAATTCCTTT
66 TGGTCAAGGTCTGGAAATCTCTCACATTGGCATTGGTTTTTTTACCTCACCCTCGAAATTCCTTT
720887 TTTTATAAGAATAATCTTTATTTGTTCCTCTCATTTTTCTTTTGATAAATTTTCGTCATCTGTGG
131 TTTTATAAGAATAATCTTTATTTGTTCCTCTCATTTTTCTTTTGATAAATTTTCGTCATCTGTGG
720952 AAAATCAAATTCAGTACTGGAAAAATGAAATGCAAACGTTTTGAAACCGATCTTACTGTAATAAT
196 AAAATCAAATTCAGTACTGGAAAAATGAAATGCAAACGTTTTGAAACCGATCTTACTGTAATAAT
721017 CAGATAGATCTGTAGACAAAATTCCAATGCCTAAAATTAAAGCATTTTAAAGGTTTAATGCCTAA
261 CAGATAGATCTGTAGACAAAATTCCAATGCCTAAAATTAAAGCATTTTAAAGGTTTAATGCCTAA
721082 TATACAAATATATTAAAAGTCAGTCAGTTTTAAAAGAAATGATTATGCATTGTGTATAGAATAAG
326 TATACAAATATATTAAAAGTCAGTCAGTTTTAAAAGAAATGATTATGCATTGTGTATAGAATAAG
*
721147 AGTATAATCACATTCAAGTTGTTTTGTATAAATGATTGTTGGAGGCTGTGTTAAAAGTCAGTCAA
391 AGTATAATCACATTCAAGTTGTTTTGTATAAATGATTGTTGGAGACTGTGTTAAAAGTCAGTCAA
*
721212 TAATGGCGGTGCATGATTTCAATAATGGTGGTGCATGATTCAAAGGTTGGCACCGAAAAGATTTT
456 TAATGGCGGTGCATGATTTCAATAATGGTGGTGCATAATTCAAAGGTTGGCACCGAAAAGATTTT
*
721277 TTTTTTGAAAATGGTAATGGGATAATTTTATTTTAGTCCCTGCAGATTTTATGATATTTATAAGA
521 TTTGTTGAAAATGGTAATGGGATAATTTTATTTTAGTCCCTGCAGATTTTATGATATTTATAAGA
721342 TTAGTCCTTAAGCTTCAACTATAAATACCCTAACTCATTTAGCTTCAAAGTCATCCCAAATCATT
586 TTAGTCCTTAAGCTTCAACTATAAATACCCTAACTCATTTAGCTTCAAAGTCATCCCAAATCATT
721407 TCTTTCTC
651 TCTTTCTC
*
721415 CCAAATTTGG-TGCCTTGAATATTGCCAAAGACCGCAAAGGCGATAATAAAATCCCAGTTGGAAG
1 CCAAATTTGGCAGCCTTGAATATTGCCAAAGACCGCAAAGGCGATAATAAAATCCCAGTTGGAAG
721479 TGGTCAAGGTCTGGAAATCTCTCACATTGGCATTGGTTTTTTTACCTCACCCTCGAAATTCCTTT
66 TGGTCAAGGTCTGGAAATCTCTCACATTGGCATTGGTTTTTTTACCTCACCCTCGAAATTCCTTT
*
721544 TTTTATAAGAATAATCTTTATTTGTTCCTCTCATTTTTCTTTTGATAAATTTTCGTCGTCTGTGG
131 TTTTATAAGAATAATCTTTATTTGTTCCTCTCATTTTTCTTTTGATAAATTTTCGTCATCTGTGG
721609 AAAATCAAATTCAGTACTGGAAAAATGAAATGCAAACGTTTTGAAACCGATCTTACTGTAATAAT
196 AAAATCAAATTCAGTACTGGAAAAATGAAATGCAAACGTTTTGAAACCGATCTTACTGTAATAAT
721674 CAGATAGATCTGTAGACAAAATTCCAATGCCTAAAATTAAAGCATTTTAAAGGTTTAATGCCTAA
261 CAGATAGATCTGTAGACAAAATTCCAATGCCTAAAATTAAAGCATTTTAAAGGTTTAATGCCTAA
* *
721739 TATACAAATATATTAAAAGTTAGTCGGTTTTAAAAGAAATGATTATGCATTGTGTATAGAATAAG
326 TATACAAATATATTAAAAGTCAGTCAGTTTTAAAAGAAATGATTATGCATTGTGTATAGAATAAG
721804 AGTATAATCACATTCAAGTTGTTTTGTATAAATGATTGTTGGAGACTGTGTTAAAAGTCAGTCAA
391 AGTATAATCACATTCAAGTTGTTTTGTATAAATGATTGTTGGAGACTGTGTTAAAAGTCAGTCAA
*
721869 TAATGGCGGTGCATGATTTCAATAATGGTGGTGCATAATTCAATGGTTGGCACCGAAAAGATTTT
456 TAATGGCGGTGCATGATTTCAATAATGGTGGTGCATAATTCAAAGGTTGGCACCGAAAAGATTTT
721934 TTTGTTGAAAATGGTAATGGGATAATTTTATTTTAGTCCCTGCAGATTTTATGATATTTATAAGA
521 TTTGTTGAAAATGGTAATGGGATAATTTTATTTTAGTCCCTGCAGATTTTATGATATTTATAAGA
721999 TTAGTCCTTAAGCTTCAACTATAAATACCCTAACTCATTTAGCTTCAAAGTCATCCCAAATCATT
586 TTAGTCCTTAAGCTTCAACTATAAATACCCTAACTCATTTAGCTTCAAAGTCATCCCAAATCATT
722064 TCTTTCTC
651 TCTTTCTC
722072 CCAA
1 CCAA
722076 TACTAGAGAG
Statistics
Matches: 653, Mismatches: 8, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
657 643 0.98
658 10 0.02
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.35
Consensus pattern (658 bp):
CCAAATTTGGCAGCCTTGAATATTGCCAAAGACCGCAAAGGCGATAATAAAATCCCAGTTGGAAG
TGGTCAAGGTCTGGAAATCTCTCACATTGGCATTGGTTTTTTTACCTCACCCTCGAAATTCCTTT
TTTTATAAGAATAATCTTTATTTGTTCCTCTCATTTTTCTTTTGATAAATTTTCGTCATCTGTGG
AAAATCAAATTCAGTACTGGAAAAATGAAATGCAAACGTTTTGAAACCGATCTTACTGTAATAAT
CAGATAGATCTGTAGACAAAATTCCAATGCCTAAAATTAAAGCATTTTAAAGGTTTAATGCCTAA
TATACAAATATATTAAAAGTCAGTCAGTTTTAAAAGAAATGATTATGCATTGTGTATAGAATAAG
AGTATAATCACATTCAAGTTGTTTTGTATAAATGATTGTTGGAGACTGTGTTAAAAGTCAGTCAA
TAATGGCGGTGCATGATTTCAATAATGGTGGTGCATAATTCAAAGGTTGGCACCGAAAAGATTTT
TTTGTTGAAAATGGTAATGGGATAATTTTATTTTAGTCCCTGCAGATTTTATGATATTTATAAGA
TTAGTCCTTAAGCTTCAACTATAAATACCCTAACTCATTTAGCTTCAAAGTCATCCCAAATCATT
TCTTTCTC
Found at i:723142 original size:15 final size:15
Alignment explanation
Indices: 723118--723148 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
723108 TGGCAGATCG
*
723118 AAATCCAGAATGGGA
1 AAATCAAGAATGGGA
723133 AAATCAAGAATGGGA
1 AAATCAAGAATGGGA
723148 A
1 A
723149 GAAAGATTTT
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:0.52, C:0.10, G:0.26, T:0.13
Consensus pattern (15 bp):
AAATCAAGAATGGGA
Found at i:729100 original size:51 final size:51
Alignment explanation
Indices: 729040--729152 Score: 217
Period size: 51 Copynumber: 2.2 Consensus size: 51
729030 GCATCACATA
729040 ACTCATATCTTATACCTTGTTTTCTCATGTTCACATATATCATGTCATATG
1 ACTCATATCTTATACCTTGTTTTCTCATGTTCACATATATCATGTCATATG
729091 ACTCATATCTTATACCTTGTTTTCTCATGTTCACATATATCATGTCATATG
1 ACTCATATCTTATACCTTGTTTTCTCATGTTCACATATATCATGTCATATG
*
729142 GCTCATATCTT
1 ACTCATATCTT
729153 TCTCATACAG
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.25, C:0.22, G:0.08, T:0.45
Consensus pattern (51 bp):
ACTCATATCTTATACCTTGTTTTCTCATGTTCACATATATCATGTCATATG
Found at i:729711 original size:64 final size:63
Alignment explanation
Indices: 729588--729724 Score: 143
Period size: 64 Copynumber: 2.2 Consensus size: 63
729578 CCTTTAACAT
* * * *
729588 GTGCATCTATGCACTACCCATGCATCGATACACCAATCACCTTCGATGTTTTCATTTTAAGGGG
1 GTGCATCGATGCACTACCCATGCATCGATACACCAATCACATTCGATGTTTTCATTTTAA-AGA
* * * ** *
729652 GTGCATCGATGCACT-CCTTATGCATCGATGCACTAATTGCATTCGATGTTTT-TTCTTTAAAGA
1 GTGCATCGATGCACTACC-CATGCATCGATACACCAATCACATTCGATGTTTTCAT-TTTAAAGA
729715 GTGCATCGAT
1 GTGCATCGAT
729725 ACACATTGAA
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
63 14 0.23
64 47 0.77
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.34
Consensus pattern (63 bp):
GTGCATCGATGCACTACCCATGCATCGATACACCAATCACATTCGATGTTTTCATTTTAAAGA
Found at i:733757 original size:51 final size:51
Alignment explanation
Indices: 733681--733793 Score: 217
Period size: 51 Copynumber: 2.2 Consensus size: 51
733671 GAATCACATA
733681 GCTCATATCTTATACCTTGTTTTCTCATGTTCACATATATCATGTCATATG
1 GCTCATATCTTATACCTTGTTTTCTCATGTTCACATATATCATGTCATATG
*
733732 GCTCATATCTTATTCCTTGTTTTCTCATGTTCACATATATCATGTCATATG
1 GCTCATATCTTATACCTTGTTTTCTCATGTTCACATATATCATGTCATATG
733783 GCTCATATCTT
1 GCTCATATCTT
733794 TCTCATGCAG
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.22, C:0.22, G:0.10, T:0.46
Consensus pattern (51 bp):
GCTCATATCTTATACCTTGTTTTCTCATGTTCACATATATCATGTCATATG
Found at i:735128 original size:23 final size:23
Alignment explanation
Indices: 735094--735159 Score: 87
Period size: 23 Copynumber: 2.9 Consensus size: 23
735084 CATCTTATAT
*
735094 GGCACTTCGGTGCATTTCTACGC
1 GGCACTTCGGTGCATTTATACGC
* * * *
735117 GGCACTTAGGTGTAATTATACGT
1 GGCACTTCGGTGCATTTATACGC
735140 GGCACTTCGGTGCATTTATA
1 GGCACTTCGGTGCATTTATA
735160 AGAGCTGTGG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.33
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTATACGC
Found at i:743733 original size:30 final size:30
Alignment explanation
Indices: 743662--743734 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
743652 TCTTCCTCCT
* *
743662 CCTCTGTCGCTGCAGTCTCACTATTCTCAC
1 CCTCTGTAGCAGCAGTCTCACTATTCTCAC
** **
743692 TGTCTACAGCAGCAGTCTCACTATTCTCAC
1 CCTCTGTAGCAGCAGTCTCACTATTCTCAC
743722 CCTCTGTAGCAGC
1 CCTCTGTAGCAGC
743735 TTCTGATGAC
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.18, C:0.37, G:0.15, T:0.30
Consensus pattern (30 bp):
CCTCTGTAGCAGCAGTCTCACTATTCTCAC
Found at i:749430 original size:14 final size:14
Alignment explanation
Indices: 749411--749442 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
749401 TCTGCATCAA
749411 ATTTAAAACATAAG
1 ATTTAAAACATAAG
749425 ATTTAAAACATAAG
1 ATTTAAAACATAAG
749439 ATTT
1 ATTT
749443 GAAGCACATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.34
Consensus pattern (14 bp):
ATTTAAAACATAAG
Found at i:760728 original size:17 final size:18
Alignment explanation
Indices: 760688--760735 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
760678 AATGTTTATG
760688 AGGAATTGGAATCTGTGA
1 AGGAATTGGAATCTGTGA
*
760706 AGGAATTGGAATCTGT-C
1 AGGAATTGGAATCTGTGA
760723 AGGAATTGGAATC
1 AGGAATTGGAATC
760736 CAATTCCATA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 13 0.45
18 16 0.55
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.27
Consensus pattern (18 bp):
AGGAATTGGAATCTGTGA
Found at i:761330 original size:27 final size:28
Alignment explanation
Indices: 761264--761320 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
761254 CCTAAACCCG
761264 AACCCGACCCGAATATCACACTTAAAAA
1 AACCCGACCCGAATATCACACTTAAAAA
* *
761292 AACCCGATCCGAATATCACATTTAAAAA
1 AACCCGACCCGAATATCACACTTAAAAA
761320 A
1 A
761321 GTCGACCCGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.47, C:0.28, G:0.07, T:0.18
Consensus pattern (28 bp):
AACCCGACCCGAATATCACACTTAAAAA
Found at i:762912 original size:2 final size:2
Alignment explanation
Indices: 762907--762946 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
762897 AATAAAAAAG
762907 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
762947 TAAAGGAGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:763455 original size:35 final size:35
Alignment explanation
Indices: 763408--763493 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 35
763398 AAAACAGTCA
* * *
763408 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
* * * *
763443 TCAATTTTATTCTAAACCCTAAATTCTAAAATACT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
*
763478 TCAATTAAATTCTAAA
1 TCAATTTAATTCTAAA
763494 ATACTTCAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.41, C:0.21, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
Found at i:763487 original size:21 final size:21
Alignment explanation
Indices: 763462--763504 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
763452 TTCTAAACCC
763462 TAAATTCTAAAATACTTCAAT
1 TAAATTCTAAAATACTTCAAT
763483 TAAATTCTAAAATACTTCAAT
1 TAAATTCTAAAATACTTCAAT
763504 T
1 T
763505 TAAGGTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATTCTAAAATACTTCAAT
Found at i:763659 original size:16 final size:18
Alignment explanation
Indices: 763627--763660 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
763617 TATTAATGTA
763627 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
763645 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
763661 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:764331 original size:130 final size:130
Alignment explanation
Indices: 764128--764375 Score: 433
Period size: 130 Copynumber: 1.9 Consensus size: 130
764118 AATTTTCTTC
* *
764128 TAATTAGGAGGTGACATGTGTCACCAATAACACATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGAGGTAACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
*
764193 CCTGATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * * *
764258 TAATTAGGTGGTAACATGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGAGGTAACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
764323 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGAT
764376 TATATAAATA
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
130 111 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.36
Consensus pattern (130 bp):
TAATTAGGAGGTAACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:765993 original size:16 final size:16
Alignment explanation
Indices: 765953--765995 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
765943 TCGGCATAGA
765953 AGGGGGAA-GTGGGAG
1 AGGGGGAAGGTGGGAG
765968 AGGGGAGAAGGTAGGG-G
1 AGGGG-GAAGGT-GGGAG
765985 AGGGGGAAGGT
1 AGGGGGAAGGT
765996 TGGTGTTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 5 0.20
16 9 0.36
17 8 0.32
18 3 0.12
ACGTcount: A:0.28, C:0.00, G:0.65, T:0.07
Consensus pattern (16 bp):
AGGGGGAAGGTGGGAG
Found at i:772021 original size:23 final size:22
Alignment explanation
Indices: 771960--772033 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 22
771950 GGAACATGCC
* *
771960 ACAAGAGTAGAAAAAAAGCGTATA
1 ACAAGAATAG-AAAAAA-TGTATA
***
771984 ACAAGAACCTAAAAAATGTATA
1 ACAAGAATAGAAAAAATGTATA
*
772006 ACAAGAATAGAGAAAAATGTATC
1 ACAAGAATAGA-AAAAATGTATA
772029 ACAAG
1 ACAAG
772034 GACAAAGATT
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
22 13 0.32
23 21 0.52
24 6 0.15
ACGTcount: A:0.58, C:0.11, G:0.16, T:0.15
Consensus pattern (22 bp):
ACAAGAATAGAAAAAATGTATA
Found at i:774299 original size:3 final size:3
Alignment explanation
Indices: 774293--774360 Score: 91
Period size: 3 Copynumber: 22.0 Consensus size: 3
774283 TTTACCCATT
* * *
774293 TTA TTA TTA TTA TAA TTA TTA TTA TAA TTA TTA TTA TTA TAA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
774341 TATA TATA TTA TTA TTA TTA
1 T-TA T-TA TTA TTA TTA TTA
774361 AAAAAATAAT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
3 51 0.88
4 7 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:776039 original size:25 final size:25
Alignment explanation
Indices: 776004--776057 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
775994 ATATTTCTAA
776004 ATAAATAAATATTTTATTTATAAAT
1 ATAAATAAATATTTTATTTATAAAT
* * *
776029 ATAAATTAATATTTTTTTTATAATT
1 ATAAATAAATATTTTATTTATAAAT
776054 ATAA
1 ATAA
776058 TTTCGAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
ATAAATAAATATTTTATTTATAAAT
Found at i:779909 original size:15 final size:15
Alignment explanation
Indices: 779889--779920 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
779879 ATCAATACCT
779889 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
779904 TTTTGCATACATTCA
1 TTTTGCATACATGCA
779919 TT
1 TT
779921 ATTCATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:787257 original size:10 final size:10
Alignment explanation
Indices: 787242--787303 Score: 72
Period size: 12 Copynumber: 5.9 Consensus size: 10
787232 ATTATGCTTG
787242 AAGAAAAAAA
1 AAGAAAAAAA
787252 AAG-AAAAAA
1 AAGAAAAAAA
787261 AAGAAAAAAA
1 AAGAAAAAAA
*
787271 GGGAGAAAAAAA
1 --AAGAAAAAAA
787283 GAGAGAAAAAAA
1 -A-AGAAAAAAA
787295 AAGAAAAAA
1 AAGAAAAAA
787304 GAAAAAGGGG
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
9 9 0.20
10 17 0.37
11 2 0.04
12 18 0.39
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (10 bp):
AAGAAAAAAA
Found at i:787262 original size:12 final size:12
Alignment explanation
Indices: 787245--787310 Score: 51
Period size: 13 Copynumber: 4.8 Consensus size: 12
787235 ATGCTTGAAG
787245 AAAAAAAAAGAA
1 AAAAAAAAAGAA
*
787257 AAAAAAGAAAAAA
1 AAAAAA-AAAGAA
787270 AGGGAGAAAAAAAGAGA
1 A---A-AAAAAAAGA-A
787287 GAAAAAAAAAGAA
1 -AAAAAAAAAGAA
787300 AAAAGAAAAAG
1 AAAA-AAAAAG
787311 GGGGTCAAGA
Statistics
Matches: 44, Mismatches: 2, Indels: 15
0.72 0.03 0.25
Matches are distributed among these distances:
12 10 0.23
13 13 0.30
14 9 0.20
15 1 0.02
16 5 0.11
17 5 0.11
18 1 0.02
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAGAA
Found at i:788845 original size:92 final size:92
Alignment explanation
Indices: 788688--789068 Score: 726
Period size: 92 Copynumber: 4.1 Consensus size: 92
788678 GAACAAGTGC
*
788688 AATGTGATCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCAC
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCAC
788753 AGAACCAATCATTGAATTTGGAAGATG
66 AGAACCAATCATTGAATTTGGAAGATG
788780 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCAC
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCAC
788845 AGAACCAATCATTGAATTTGGAAGATG
66 AGAACCAATCATTGAATTTGGAAGATG
788872 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCAC
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCAC
788937 AGAACCAATCATTGAATTTGGAAGATG
66 AGAACCAATCATTGAATTTGGAAGATG
* *
788964 AATATGCTCATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCAC
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCAC
*
789029 AGAACCAATCATTGAATTTGAAAGATG
66 AGAACCAATCATTGAATTTGGAAGATG
789056 AATGTGCTCATAG
1 AATGTGCTCATAG
789069 TAGAAATAAG
Statistics
Matches: 284, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 284 1.00
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (92 bp):
AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCAC
AGAACCAATCATTGAATTTGGAAGATG
Found at i:789960 original size:24 final size:23
Alignment explanation
Indices: 789917--789961 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
789907 GTTCATAATG
*
789917 AGAAGAATTCATCTGAAGAAGGA
1 AGAAGAATTCATATGAAGAAGGA
789940 AGAAGAAGTTCATAATG-AGAAG
1 AGAAGAA-TTCAT-ATGAAGAAG
789962 AATTTGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 7 0.37
24 10 0.53
25 2 0.11
ACGTcount: A:0.49, C:0.07, G:0.27, T:0.18
Consensus pattern (23 bp):
AGAAGAATTCATATGAAGAAGGA
Found at i:790290 original size:228 final size:229
Alignment explanation
Indices: 789868--790667 Score: 1068
Period size: 228 Copynumber: 3.5 Consensus size: 229
789858 TAGCAAAGAT
* * * *
789868 TCAAATCCATCATTTGATGGATCAGCTTTTCAAGAAAAAGTTCATAATGAGAAGAATTCATCTGA
1 TCAAATCCATCATTTGATAGATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
789933 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGA
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGA
*
789998 TGGATTAACATTG-AAGGTAGAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAA
131 TGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAA
790062 ATTCATAATGAGAAGAATTTATTCAACCTTTCAC
196 ATTCATAATGAGAAGAATTTATTCAACCTTTCAC
790096 TCAAATCCATCATTTGA-AGATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATAGATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
790160 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGA
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGA
790225 TGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAA
131 TGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAA
* **
790290 ATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
196 ATTCATAATGAGAAGAATTTATTCAACCTTTCAC
* *
790324 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATAGATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
* * * * *
790389 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGCTCAAATCCATCACTTGA
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGA
* *** *
790454 TGGATCAGTTTTTCCA-G-AGAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAA-G-A-AA-A
131 TGGATTAACATTGCCAGGTAG-AGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGA
* * * **
790510 AGTTCACAATGATAAGAGCTTATTCAACCTTTTGCA-
195 AATTCATAATGAGAAGAATTTATTCAACC-TTT-CAC
* * * * *
790546 T-AATTCTATCACAGAAGCAGATAGATTAGCATCAACCTTTCCAGAGAAAGTTCATAATGAGAAG
1 TCAA----ATC-C---ATCA-TTTGA-TAG-ATCAACTTTTCCAGAAAAAGTTCATAATGAGAAG
* * ** *
790610 AACTCATCTGAAGGAGAAAGAAGAAGTTCATAATGAGAAGAGCTTATTCAACCTTTTG
55 AACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG
790668 AATGACTCTA
Statistics
Matches: 515, Mismatches: 41, Indels: 28
0.88 0.07 0.05
Matches are distributed among these distances:
221 26 0.05
222 6 0.01
223 1 0.00
224 1 0.00
225 15 0.03
226 2 0.00
227 123 0.24
228 134 0.26
229 119 0.23
230 3 0.01
231 2 0.00
232 83 0.16
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (229 bp):
TCAAATCCATCATTTGATAGATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGA
TGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAA
ATTCATAATGAGAAGAATTTATTCAACCTTTCAC
Found at i:790438 original size:113 final size:113
Alignment explanation
Indices: 789868--790667 Score: 932
Period size: 113 Copynumber: 7.0 Consensus size: 113
789858 TAGCAAAGAT
* * *
789868 TCAAATCCATCATTTGATGGATCAGCTTTTCAAGAAAAAGTTCATAATGAGAAGAATTCATCTGA
1 TCAAATCCATCATTTGATGGATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
*
789933 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGT
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* * * * ** ** *
789981 TTAAATTCATCATTTGATGGATTAAC-ATTGAAGGTAGAGTTCATAATGAGAAGAACTCATCATC
1 TCAAATCCATCATTTGATGGATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAA--C-TCATC
* * **
790045 TGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTATTCAACCTTTCAC
63 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
790096 TCAAATCCATCATTTGA-AGATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
*
790160 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGT
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* * * * * ** *
790208 TTAAATTCATCATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCATC
1 TCAAATCCATCATTTGATGGATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAA--C-TCATC
*
790273 TGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
63 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
790324 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
*
790389 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* ** *
790437 TCAAATCCATCACTTGATGGATCAGTTTTTCCAG-AGAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
* * ** *
790501 AGAA-G-A-AA-AAGTTCACAATGATAAGAGCTTATTCAACCTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* * * * * *
790545 AT-AATTCTATCACAGAAGCAGATAGATTAGCATCAACCTTTCCAGAGAAAGTTCATAATGAGAA
1 -TCAA----ATC-C---ATCA-TTTGA-T-GGATCAACTTTTCCAGAAAAAGTTCATAATGAGAA
* * ** *
790609 GAACTCATCTGAAGGAGAAAGAAGAAGTTCATAATGAGAAGAGCTTATTCAACCTTTTG
54 GAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG
790668 AATGACTCTA
Statistics
Matches: 588, Mismatches: 74, Indels: 39
0.84 0.11 0.06
Matches are distributed among these distances:
108 32 0.05
109 3 0.01
110 1 0.00
111 1 0.00
112 126 0.21
113 141 0.24
114 7 0.01
115 90 0.15
116 104 0.18
117 3 0.01
118 1 0.00
119 12 0.02
120 31 0.05
122 1 0.00
123 2 0.00
124 33 0.06
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (113 bp):
TCAAATCCATCATTTGATGGATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
Found at i:790703 original size:124 final size:122
Alignment explanation
Indices: 790464--790749 Score: 372
Period size: 124 Copynumber: 2.4 Consensus size: 122
790454 TGGATCAGTT
*
790464 TTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTG-A-AGAAGAAAAAGTTCACAATGATAAG
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGAAGAAAAAGTTCACAATGAGAAG
* * * * *
790526 AGCTTATTCAACCTTTTGCATAATTCTATCACAGAAGCAGATAGATTAGCATCAACC
66 AGCTTATTCAACCTTTTGAATAACTCTATCACAGAAGCAAATAGATCAACATCAACC
* *
790583 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGGAGAAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA-GAG-AAGAAAAAGTTCACAATGAGA
* * *
790648 AGAGCTTATTCAACCTTTTGAATGACTCTATCACAGAAGGAAATATG-TCAACATCATCC
64 AGAGCTTATTCAACCTTTTGAATAACTCTATCACAGAAGCAAATA-GATCAACATCAACC
*
790707 ---CCAGCGAAAAGTTCATAATGAGAAGAACTCATCTGAAGA-AAGA
1 TTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAGAAGA
790750 GAAGAATTTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
119 13 0.09
120 27 0.18
121 8 0.05
122 30 0.20
123 2 0.01
124 67 0.45
125 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.24
Consensus pattern (122 bp):
TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGAAGAAAAAGTTCACAATGAGAAG
AGCTTATTCAACCTTTTGAATAACTCTATCACAGAAGCAAATAGATCAACATCAACC
Found at i:790897 original size:3 final size:3
Alignment explanation
Indices: 790891--790957 Score: 82
Period size: 3 Copynumber: 22.0 Consensus size: 3
790881 TTTACCCATT
* * *
790891 TTA TTA TTA TTA TAA TTA TTA TTA TAA TTA TTA TTA TTA TAA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
790939 -TA TATA TATA TTA TTA TTA
1 TTA T-TA T-TA TTA TTA TTA
790958 AAAAAATAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
2 2 0.04
3 47 0.84
4 7 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:792648 original size:24 final size:25
Alignment explanation
Indices: 792605--792657 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
792595 ATATTTCTAA
792605 ATAAATAAATATTTTATTTATAAAT
1 ATAAATAAATATTTTATTTATAAAT
* * *
792630 ATAAATTAAT-TTTTTTTTATAATT
1 ATAAATAAATATTTTATTTATAAAT
792654 ATAA
1 ATAA
792658 TTTCGAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 16 0.64
25 9 0.36
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
ATAAATAAATATTTTATTTATAAAT
Found at i:796464 original size:18 final size:17
Alignment explanation
Indices: 796428--796464 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
796418 TGTATATAAA
*
796428 ATTTAAAAAATTATTTT
1 ATTTAAAAAATTATATT
796445 ATTTAAAAAATTAATATT
1 ATTTAAAAAATT-ATATT
796463 AT
1 AT
796465 AAATTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTTAAAAAATTATATT
Found at i:797458 original size:31 final size:31
Alignment explanation
Indices: 797423--797499 Score: 145
Period size: 31 Copynumber: 2.5 Consensus size: 31
797413 AGCAAAAAAA
*
797423 AAATTAAGCACTAAATTATATTTTGAGGTAT
1 AAATTAAGCACTAAATCATATTTTGAGGTAT
797454 AAATTAAGCACTAAATCATATTTTGAGGTAT
1 AAATTAAGCACTAAATCATATTTTGAGGTAT
797485 AAATTAAGCACTAAA
1 AAATTAAGCACTAAA
797500 AAATGTATTA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.34
Consensus pattern (31 bp):
AAATTAAGCACTAAATCATATTTTGAGGTAT
Found at i:799298 original size:83 final size:83
Alignment explanation
Indices: 799211--799378 Score: 318
Period size: 83 Copynumber: 2.0 Consensus size: 83
799201 ATCAAGACCA
*
799211 AATCCATAATAAAAATTAGACGAATTATCTCGACAAGTTTAAATAAAAGAACATTTCCTTTTCCT
1 AATCCATAATAAAAATTAGACGAATTATCTCGACAAGTTAAAATAAAAGAACATTTCCTTTTCCT
799276 TTTAATCTTGATTAATTT
66 TTTAATCTTGATTAATTT
*
799294 AATCCATAATAAAAATTAGATGAATTATCTCGACAAGTTAAAATAAAAGAACATTTCCTTTTCCT
1 AATCCATAATAAAAATTAGACGAATTATCTCGACAAGTTAAAATAAAAGAACATTTCCTTTTCCT
799359 TTTAATCTTGATTAATTT
66 TTTAATCTTGATTAATTT
799377 AA
1 AA
799379 GCATACTCGC
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 83 1.00
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.38
Consensus pattern (83 bp):
AATCCATAATAAAAATTAGACGAATTATCTCGACAAGTTAAAATAAAAGAACATTTCCTTTTCCT
TTTAATCTTGATTAATTT
Found at i:800175 original size:38 final size:37
Alignment explanation
Indices: 800090--800175 Score: 111
Period size: 38 Copynumber: 2.3 Consensus size: 37
800080 TCGGGCTGGG
800090 TATATAT-ATTTAAATTAAATATATAAATATTATATA
1 TATATATAATTTAAATTAAATATATAAATATTATATA
* * * *
800126 TATTTTTTAATTTAAATTAAATTTATTAATATTATATA
1 TA-TATATAATTTAAATTAAATATATAAATATTATATA
800164 TATATAATAATT
1 TATAT-ATAATT
800176 ATTTTTAATA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
36 2 0.05
37 5 0.12
38 34 0.83
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (37 bp):
TATATATAATTTAAATTAAATATATAAATATTATATA
Found at i:800204 original size:13 final size:13
Alignment explanation
Indices: 800188--800220 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
800178 TTTTAATATT
800188 TATCGGGGCTGGG
1 TATCGGGGCTGGG
800201 TATC-GGGCTGGG
1 TATCGGGGCTGGG
800213 TAATCGGG
1 T-ATCGGG
800221 TAATCAGGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 9 0.50
13 7 0.39
14 2 0.11
ACGTcount: A:0.12, C:0.15, G:0.48, T:0.24
Consensus pattern (13 bp):
TATCGGGGCTGGG
Found at i:800471 original size:46 final size:47
Alignment explanation
Indices: 800413--800502 Score: 130
Period size: 46 Copynumber: 1.9 Consensus size: 47
800403 ACTTAAGGAC
* *
800413 TAAAATTAAATAAATAAAAAGAAAAG-AGAA-AAAAATTAAATGTGCA
1 TAAAATTAAAT-AATAAAAAGAAAAGAACAATAAAAATAAAATGTGCA
*
800459 TAAAATTAAATAATAAAAATAAAAGAACAATAAAAATAAAATGT
1 TAAAATTAAATAATAAAAAGAAAAGAACAATAAAAATAAAATGT
800503 TATTGTTAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
45 13 0.33
46 14 0.36
47 12 0.31
ACGTcount: A:0.69, C:0.02, G:0.08, T:0.21
Consensus pattern (47 bp):
TAAAATTAAATAATAAAAAGAAAAGAACAATAAAAATAAAATGTGCA
Found at i:800697 original size:18 final size:18
Alignment explanation
Indices: 800674--800710 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
800664 TAGAAATATT
800674 AGCAGAGTCCGAACCATA
1 AGCAGAGTCCGAACCATA
*
800692 AGCAGAGTCCGAACTATA
1 AGCAGAGTCCGAACCATA
800710 A
1 A
800711 TAATGTGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.24, G:0.22, T:0.14
Consensus pattern (18 bp):
AGCAGAGTCCGAACCATA
Found at i:801944 original size:22 final size:22
Alignment explanation
Indices: 801919--802053 Score: 243
Period size: 22 Copynumber: 6.1 Consensus size: 22
801909 TTCTTAGTAC
801919 CTACGTGTAAAACACTTACACG
1 CTACGTGTAAAACACTTACACG
801941 CTACGTGTAAAACACTTACACG
1 CTACGTGTAAAACACTTACACG
801963 CTACGTGTAAAACACTTACACG
1 CTACGTGTAAAACACTTACACG
*
801985 CTATGTGTAAAACACTTACACG
1 CTACGTGTAAAACACTTACACG
802007 CTACGTGTAAAACACTTACACG
1 CTACGTGTAAAACACTTACACG
* *
802029 CTACATGTAAAATACTTACACG
1 CTACGTGTAAAACACTTACACG
802051 CTA
1 CTA
802054 AGTCATAGAC
Statistics
Matches: 109, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 109 1.00
ACGTcount: A:0.37, C:0.26, G:0.13, T:0.24
Consensus pattern (22 bp):
CTACGTGTAAAACACTTACACG
Found at i:802428 original size:31 final size:30
Alignment explanation
Indices: 802363--802482 Score: 132
Period size: 31 Copynumber: 3.9 Consensus size: 30
802353 GAAGGACCTA
* * *
802363 TCCATATGTTCCGAAGAACATATGTAACTG
1 TCCATATGTCCCGAAGGACATAGGTAACTG
* *
802393 TCCATATGTCCCTAAGGACATAGGTATCCTG
1 TCCATATGTCCCGAAGGACATAGGTA-ACTG
* * *
802424 TCCATATGTCCCGAATGATATAGGTAAACTA
1 TCCATATGTCCCGAAGGACATAGGT-AACTG
* *
802455 TCCATATGTCTCGAAAGACATAGGTAAC
1 TCCATATGTCCCGAAGGACATAGGTAAC
802483 CCTCGACTCT
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
30 25 0.33
31 49 0.65
32 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (30 bp):
TCCATATGTCCCGAAGGACATAGGTAACTG
Found at i:802475 original size:62 final size:61
Alignment explanation
Indices: 802363--802480 Score: 148
Period size: 62 Copynumber: 1.9 Consensus size: 61
802353 GAAGGACCTA
* * * * *
802363 TCCATATGTTCCGAAGAACATATGTAACTGTCCATATGTCCCTAAGGACATAGGTATCCTG
1 TCCATATGTCCCGAAGAACATAGGTAACTATCCATATGTCCCGAAAGACATAGGTATCCTG
* *
802424 TCCATATGTCCCGAATG-ATATAGGTAAACTATCCATATGTCTCGAAAGACATAGGTA
1 TCCATATGTCCCGAA-GAACATAGGT-AACTATCCATATGTCCCGAAAGACATAGGTA
802481 ACCCTCGACT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
61 20 0.42
62 28 0.58
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (61 bp):
TCCATATGTCCCGAAGAACATAGGTAACTATCCATATGTCCCGAAAGACATAGGTATCCTG
Found at i:802902 original size:2 final size:2
Alignment explanation
Indices: 802895--802961 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
802885 TATCAAGTCT
802895 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
802937 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 T
802962 TATCTCTTAT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:805817 original size:6 final size:6
Alignment explanation
Indices: 805808--805832 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
805798 TTTATATCCC
805808 TTAAAA TTAAAA TTAAAA TTAAAA T
1 TTAAAA TTAAAA TTAAAA TTAAAA T
805833 AAATAACTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
TTAAAA
Found at i:808504 original size:28 final size:28
Alignment explanation
Indices: 808475--808532 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
808465 TTTAATAATA
808475 TTTTATATATCTT-TAACAATATATTTTAT
1 TTTTAT-TATCTTATAA-AATATATTTTAT
* *
808504 TTTTATTTTCTTATTAAATATATTTTAT
1 TTTTATTATCTTATAAAATATATTTTAT
808532 T
1 T
808533 ATTAGCTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 18 0.69
29 8 0.31
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (28 bp):
TTTTATTATCTTATAAAATATATTTTAT
Found at i:808592 original size:33 final size:33
Alignment explanation
Indices: 808555--808620 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
808545 TCAAAATAAT
808555 TTATTATTATTTT-AA-TTTAAAATATATATTTTA
1 TTATTATTATTTTAAATTTTAAAA-ATAT-TTTTA
808588 TTATTATTATTTTAAATTTTAAAAATATTTTTA
1 TTATTATTATTTTAAATTTTAAAAATATTTTTA
808621 AATTAAGAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 18 0.58
34 6 0.19
35 7 0.23
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (33 bp):
TTATTATTATTTTAAATTTTAAAAATATTTTTA
Found at i:808604 original size:27 final size:28
Alignment explanation
Indices: 808486--808603 Score: 102
Period size: 27 Copynumber: 4.2 Consensus size: 28
808476 TTTATATATC
* **
808486 TTTAACAATATATTTTATTTTTATTTTCT
1 TTTAA-AATATATTTTATTATTATTTAAT
*
808515 TATT-AAATATATTTTATTATTAGCTTAAT
1 T-TTAAAATATATTTTATTATTA-TTTAAT
*
808544 TTCAAAATA-A-TTTATTATTATTTTAAT
1 TTTAAAATATATTTTATTATTA-TTTAAT
*
808571 TTAAAATATATATTTTATTATTA-TT-AT
1 TTTAAA-ATATATTTTATTATTATTTAAT
808598 TTTAAA
1 TTTAAA
808604 TTTTAAAAAT
Statistics
Matches: 74, Mismatches: 9, Indels: 14
0.76 0.09 0.14
Matches are distributed among these distances:
27 27 0.36
28 23 0.31
29 12 0.16
30 12 0.16
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.58
Consensus pattern (28 bp):
TTTAAAATATATTTTATTATTATTTAAT
Done.