Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 201 of 250
Found at i:62627084 original size:22 final size:21
Alignment explanation
Indices: 62627031--62627099 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 21
62627021 ATTATTTTAA
** *
62627031 ATTATTTTTAAAATTTTGAAT
1 ATTATTTTTAAAAAATTAAAT
62627052 ATTATTTTTTAAAAAATTAAAT
1 ATTA-TTTTTAAAAAATTAAAT
* *
62627074 ATATATTTTTAATAATATAAAAT
1 AT-TATTTTTAA-AAAATTAAAT
62627097 ATT
1 ATT
62627100 TAAATATTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
21 4 0.10
22 24 0.60
23 12 0.30
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (21 bp):
ATTATTTTTAAAAAATTAAAT
Found at i:62627468 original size:14 final size:15
Alignment explanation
Indices: 62627449--62627481 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
62627439 ATCTTTAAAA
62627449 ATAATTTAAAA-ATT
1 ATAATTTAAAATATT
62627463 ATAATTTAAAATATT
1 ATAATTTAAAATATT
62627478 ATAA
1 ATAA
62627482 AACAAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAATTTAAAATATT
Found at i:62627559 original size:19 final size:19
Alignment explanation
Indices: 62627537--62627579 Score: 59
Period size: 22 Copynumber: 2.1 Consensus size: 19
62627527 TTGAAAGTTT
62627537 AAAATATTTAAATATTAAAAA
1 AAAATATTTAAA-ATT-AAAA
62627558 AATAATATTTAAAATTAAAA
1 AA-AATATTTAAAATTAAAA
62627578 AA
1 AA
62627580 GTAATTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.29
21 5 0.24
22 10 0.48
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAATATTTAAAATTAAAA
Found at i:62627569 original size:31 final size:31
Alignment explanation
Indices: 62627456--62627572 Score: 96
Period size: 31 Copynumber: 3.6 Consensus size: 31
62627446 AAAATAATTT
* *
62627456 AAAAATTATAATTTAAAATATTATAAAA-CAA
1 AAAAATAAT-ATTTAAAATATTATAAAATTAA
* *
62627487 ATTAAATAATATTTAAATTATTATAAAATTAA
1 A-AAAATAATATTTAAAATATTATAAAATTAA
62627519 TAATAAATTTGAA-AGTTTAAAATATT-TAAATATTAA
1 -AA-AAA--T-AATA-TTTAAAATATTATAAA-ATTAA
62627555 AAAAATAATATTTAAAAT
1 AAAAATAATATTTAAAAT
62627573 TAAAAAAGTA
Statistics
Matches: 70, Mismatches: 6, Indels: 20
0.73 0.06 0.21
Matches are distributed among these distances:
31 28 0.40
32 10 0.14
33 4 0.06
34 3 0.04
35 8 0.11
36 17 0.24
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.38
Consensus pattern (31 bp):
AAAAATAATATTTAAAATATTATAAAATTAA
Found at i:62627576 original size:21 final size:21
Alignment explanation
Indices: 62627539--62627592 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
62627529 GAAAGTTTAA
62627539 AATATTTAAATATTAAAAAAAT
1 AATATTTAAA-ATTAAAAAAAT
*
62627561 AATATTTAAAATTAAAAAAGT
1 AATATTTAAAATTAAAAAAAT
*
62627582 AAT-TTAAAAAT
1 AATATTTAAAAT
62627593 ATATATTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 7 0.23
21 13 0.43
22 10 0.33
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (21 bp):
AATATTTAAAATTAAAAAAAT
Found at i:62627656 original size:4 final size:4
Alignment explanation
Indices: 62627647--62627686 Score: 53
Period size: 4 Copynumber: 9.5 Consensus size: 4
62627637 AGTTAATAAT
*
62627647 AATA AATA AATA AGTAA AATA AATA AATAA AATA AATA AA
1 AATA AATA AATA AAT-A AATA AATA AAT-A AATA AATA AA
62627687 AAGACAAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 25 0.78
5 7 0.22
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:62627668 original size:13 final size:13
Alignment explanation
Indices: 62627650--62627686 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
62627640 TAATAATAAT
*
62627650 AAATAAATAAGTA
1 AAATAAATAAATA
62627663 AAATAAATAAATA
1 AAATAAATAAATA
62627676 AAATAAATAAA
1 AAATAAATAAA
62627687 AAGACAAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (13 bp):
AAATAAATAAATA
Found at i:62627683 original size:17 final size:17
Alignment explanation
Indices: 62627641--62627686 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
62627631 TTTTAAAGTT
62627641 AATAATAATAAATAAATA
1 AATAA-AATAAATAAATA
*
62627659 AGTAAAATAAATAAATA
1 AATAAAATAAATAAATA
62627676 AA-ATAAATAAA
1 AATA-AAATAAA
62627687 AAGACAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 1 0.04
17 20 0.80
18 4 0.16
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (17 bp):
AATAAAATAAATAAATA
Found at i:62627720 original size:20 final size:20
Alignment explanation
Indices: 62627683--62627720 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
62627673 ATAAAATAAA
*
62627683 TAAAAAGACAAAAGAAAAGT
1 TAAAAAGACAAAAAAAAAGT
62627703 TAAAAAGTA-AAAAAAAAA
1 TAAAAAG-ACAAAAAAAAA
62627721 TTGACATGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 15 0.94
21 1 0.06
ACGTcount: A:0.76, C:0.03, G:0.11, T:0.11
Consensus pattern (20 bp):
TAAAAAGACAAAAAAAAAGT
Found at i:62631802 original size:134 final size:133
Alignment explanation
Indices: 62631556--62631802 Score: 286
Period size: 134 Copynumber: 1.8 Consensus size: 133
62631546 ATCACACTAA
* * * * * *
62631556 TGGTCTTTTATTCATCTAGACATCCACAATATGCAAAATACATGTATTACAATATTTCGTTTTGG
1 TGGTCTTTTATTCATCTAGACATCAACAACATGCAAAATACATGTAGTACAACATTTCG-CTTAG
* * * *
62631621 ATGATTATTTACTATGAATATATTTCATTAAAATTTTGTGAAAAAAAAACCCGATGAGGTAAAAG
65 ATGACTATTTACTATGAACATATTTCATTAAAATCTTGTCAAAAAAAAACCCGATGAGGTAAAAG
62631686 CTAT
130 CTAT
* *
62631690 TGGTCTTTTATGT-ATCTAGCCATCAACAACATGCAAAATGCATGTAGTACAACACTTTTC-CTT
1 TGGTCTTTTAT-TCATCTAGACATCAACAACATGCAAAATACATGTAGTACAACA--TTTCGCTT
* *
62631753 AGATGACTATTCT-CTATGAACATGTCTT-ATTAAAATCTTGTCAAGAAAAA
63 AGATGACTATT-TACTATGAACATAT-TTCATTAAAATCTTGTCAAAAAAAA
62631803 TCCAATAAGA
Statistics
Matches: 94, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
134 86 0.91
135 4 0.04
136 4 0.04
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (133 bp):
TGGTCTTTTATTCATCTAGACATCAACAACATGCAAAATACATGTAGTACAACATTTCGCTTAGA
TGACTATTTACTATGAACATATTTCATTAAAATCTTGTCAAAAAAAAACCCGATGAGGTAAAAGC
TAT
Found at i:62643689 original size:25 final size:25
Alignment explanation
Indices: 62643655--62643707 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
62643645 TTGAAGTCAA
*
62643655 AATTATGTACTCAACCTAAATACAT
1 AATTATGTACTCAACCTAAATAAAT
62643680 AATTATGTACTCAACCTAAATAAAT
1 AATTATGTACTCAACCTAAATAAAT
62643705 AAT
1 AAT
62643708 AAGGTTTTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.47, C:0.17, G:0.04, T:0.32
Consensus pattern (25 bp):
AATTATGTACTCAACCTAAATAAAT
Found at i:62657319 original size:24 final size:24
Alignment explanation
Indices: 62657292--62657337 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
62657282 TAAAATTTTA
62657292 AAAAT-CAAGTAATAGAAAGAATTC
1 AAAATGCAAGT-ATAGAAAGAATTC
* *
62657316 AAAATGTAAGTATAGAATGAAT
1 AAAATGCAAGTATAGAAAGAAT
62657338 CCGAACAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.57, C:0.04, G:0.15, T:0.24
Consensus pattern (24 bp):
AAAATGCAAGTATAGAAAGAATTC
Found at i:62659877 original size:14 final size:15
Alignment explanation
Indices: 62659858--62659890 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
62659848 GTTAATTAGG
62659858 TTTAATTAT-AATAA
1 TTTAATTATGAATAA
62659872 TTTAATTATGAATAA
1 TTTAATTATGAATAA
62659887 TTTA
1 TTTA
62659891 TCATTGGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (15 bp):
TTTAATTATGAATAA
Found at i:62660592 original size:24 final size:24
Alignment explanation
Indices: 62660565--62660616 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
62660555 GAGTAAAGAT
62660565 TATTAAAAATT-GTAAATATTAAAA
1 TATTAAAAATTAG-AAATATTAAAA
* *
62660589 TATTAATAATTAGAAATTTTAAAA
1 TATTAAAAATTAGAAATATTAAAA
62660613 -ATTA
1 TATTA
62660617 TAGTAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 4 0.16
24 20 0.80
25 1 0.04
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (24 bp):
TATTAAAAATTAGAAATATTAAAA
Found at i:62662855 original size:27 final size:27
Alignment explanation
Indices: 62662783--62662853 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
62662773 TAAATAAGTA
62662783 AAATA-ATAAAATTTTAAAATTTAAATT
1 AAATATAT-AAATTTTAAAATTTAAATT
*
62662810 AAATATATATATTTT-AAATTTAAGATT
1 AAATATATAAATTTTAAAATTTAA-ATT
62662837 AAAT-T-TAAATTTTAAAA
1 AAATATATAAATTTTAAAA
62662854 ATATTAACTT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
25 7 0.18
26 12 0.31
27 18 0.46
28 2 0.05
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (27 bp):
AAATATATAAATTTTAAAATTTAAATT
Found at i:62663060 original size:13 final size:12
Alignment explanation
Indices: 62663037--62663071 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
62663027 CATGTATCTC
62663037 TATTTTTTTAAA
1 TATTTTTTTAAA
62663049 TATTTATTTTAAA
1 TATTT-TTTTAAA
*
62663062 TAGTTTTTTA
1 TATTTTTTTA
62663072 TACTCCTACG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (12 bp):
TATTTTTTTAAA
Found at i:62663272 original size:23 final size:23
Alignment explanation
Indices: 62663246--62663299 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
62663236 AATTATTTTT
62663246 AATTAAATTTT-TAAGATTTTAAA
1 AATTAAATTTTATAA-ATTTTAAA
* * *
62663269 AATTCAGTTTTATAATTTTTAAA
1 AATTAAATTTTATAAATTTTAAA
62663292 AACTTAAA
1 AA-TTAAA
62663300 AAAAATTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
23 18 0.75
24 6 0.25
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (23 bp):
AATTAAATTTTATAAATTTTAAA
Found at i:62663485 original size:22 final size:22
Alignment explanation
Indices: 62663460--62663503 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
62663450 GTCAATACTT
62663460 GACACATGACATTTTCTTATTG
1 GACACATGACATTTTCTTATTG
62663482 GACACATGACATTTTCTTATTG
1 GACACATGACATTTTCTTATTG
62663504 ATTGAATGTG
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:0.18, G:0.14, T:0.41
Consensus pattern (22 bp):
GACACATGACATTTTCTTATTG
Found at i:62669387 original size:15 final size:15
Alignment explanation
Indices: 62669363--62669401 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
62669353 CTCCGCTCAA
62669363 TTATTCTTCTCTCACT
1 TTATTCTTCTCT-ACT
62669379 TTATT-TTCTCTACT
1 TTATTCTTCTCTACT
62669393 TT-TTCTTCT
1 TTATTCTTCT
62669402 TTTCTCTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 2 0.09
14 9 0.41
15 6 0.27
16 5 0.23
ACGTcount: A:0.10, C:0.26, G:0.00, T:0.64
Consensus pattern (15 bp):
TTATTCTTCTCTACT
Found at i:62669417 original size:19 final size:19
Alignment explanation
Indices: 62669382--62669418 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
62669372 TCTCACTTTA
* *
62669382 TTTTCTCTACTTTTTCTTC
1 TTTTCTCTAATTCTTCTTC
62669401 TTTTCTCTAATTCTTCTT
1 TTTTCTCTAATTCTTCTT
62669419 TCTTGAATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTCTCTAATTCTTCTTC
Found at i:62674746 original size:14 final size:14
Alignment explanation
Indices: 62674706--62674735 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
62674696 CCGTTAGTGA
*
62674706 ATAAATACATAAAT
1 ATAAATAAATAAAT
62674720 ATAAATAAATAAAT
1 ATAAATAAATAAAT
62674734 AT
1 AT
62674736 TTATATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (14 bp):
ATAAATAAATAAAT
Found at i:62679555 original size:4 final size:4
Alignment explanation
Indices: 62679546--62679571 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
62679536 TTTAGAAGAA
62679546 AATT AATT AATT AATT AATT AATT AA
1 AATT AATT AATT AATT AATT AATT AA
62679572 ATGGATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (4 bp):
AATT
Found at i:62682548 original size:46 final size:46
Alignment explanation
Indices: 62682404--62682620 Score: 208
Period size: 46 Copynumber: 4.6 Consensus size: 46
62682394 TTTGTAAGCT
** * *
62682404 AGTGTAAGACATGTCTGGGACATGCATCAACCAT--ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGA-GACGAGAGCC
* * *
62682450 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGAGAGCC
62682498 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-AGAGCC
** * * *
62682544 AGTGTAAGACATGTCTGGGGTATGCATCGG-CTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGAGAGCC
* *
62682590 AGTATAAGACCATGTCTGGGATATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
62682621 ACTTTAGATA
Statistics
Matches: 147, Mismatches: 15, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
45 3 0.02
46 72 0.49
47 43 0.29
48 28 0.19
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGAGAGCC
Found at i:62682645 original size:47 final size:45
Alignment explanation
Indices: 62682400--62682661 Score: 183
Period size: 47 Copynumber: 5.6 Consensus size: 45
62682390 TTTGTTTGTA
* *
62682400 AGCTAGTGTAAGACATGTCTGGGACATGCATCAAC-C-ATATTATGAG
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGACTCGAGA-TAT--G
* * * *
62682446 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGA-G
1 AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGAC-TCGAGA-TATG
* ** *
62682494 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA
1 AGCTAGTGTAAGACATGTCTGGGACATGCATC-GACTCGAGATATG
* ** *
62682540 AGCCAGTGTAAGACATGTCTGGGGTATGCATCGGCTACGAGATGAT-
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGACT-CGAGAT-ATG
* * **
62682586 AG-TCAGTATAAGACCATGTCTGGGATATGGCATCGACTTTAGATATG
1 AGCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGACTCGAGATATG
* *
62682633 AGCTAGTGTAAGACCATATTTGGGACATG
1 AGCTAGTGTAAGA-CATGTCTGGGACATG
62682662 GCATGGGCAC
Statistics
Matches: 173, Mismatches: 29, Indels: 28
0.75 0.13 0.12
Matches are distributed among these distances:
45 3 0.02
46 69 0.40
47 70 0.40
48 28 0.16
51 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (45 bp):
AGCTAGTGTAAGACATGTCTGGGACATGCATCGACTCGAGATATG
Found at i:62690502 original size:19 final size:19
Alignment explanation
Indices: 62690460--62690502 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
62690450 TGTAATTCCT
* *
62690460 AAAATACATACATCACATG
1 AAAATACATACAGCACAAG
*
62690479 AAAATACATCCAGCACAAG
1 AAAATACATACAGCACAAG
*
62690498 TAAAT
1 AAAAT
62690503 TATTATATCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.53, C:0.21, G:0.07, T:0.19
Consensus pattern (19 bp):
AAAATACATACAGCACAAG
Found at i:62692131 original size:6 final size:6
Alignment explanation
Indices: 62692124--62692161 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
62692114 GTGGCCATGG
*
62692124 AAATGG AAATGC AAATGC AAATGC AAATGC AAATGC AA
1 AAATGC AAATGC AAATGC AAATGC AAATGC AAATGC AA
62692162 CATTAGACTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.53, C:0.13, G:0.18, T:0.16
Consensus pattern (6 bp):
AAATGC
Found at i:62693153 original size:13 final size:11
Alignment explanation
Indices: 62693104--62693146 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
62693094 TCTAAAATTC
62693104 AAAATATTTAT
1 AAAATATTTAT
*
62693115 AAAATATTTTTT
1 AAAATA-TTTAT
62693127 AAAA-ATTCTAT
1 AAAATATT-TAT
62693138 AAAATATTT
1 AAAATATTT
62693147 GTATAAATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
10 2 0.07
11 14 0.52
12 11 0.41
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (11 bp):
AAAATATTTAT
Found at i:62693163 original size:22 final size:23
Alignment explanation
Indices: 62693115--62693165 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
62693105 AAATATTTAT
* * *
62693115 AAAATATTTTTTAAAAATTCTAT
1 AAAATATTTTGTAAAAATTCAAA
*
62693138 AAAATA-TTTGTATAAATTCAAA
1 AAAATATTTTGTAAAAATTCAAA
62693160 AAAATA
1 AAAATA
62693166 AACTTATTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (23 bp):
AAAATATTTTGTAAAAATTCAAA
Found at i:62693197 original size:11 final size:9
Alignment explanation
Indices: 62693170--62693204 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
62693160 AAAATAAACT
62693170 TATTAAAAA
1 TATTAAAAA
62693179 TATTAAAAA
1 TATTAAAAA
62693188 TATATAAAAA
1 TAT-TAAAAA
*
62693198 TACTAAA
1 TATTAAA
62693205 TTATAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 16 0.67
10 8 0.33
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (9 bp):
TATTAAAAA
Found at i:62701354 original size:46 final size:46
Alignment explanation
Indices: 62701285--62701374 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 46
62701275 AGTCGTGAGA
* * *
62701285 TACTATATTATATGCATAGTATTTGTTTGTATAAAAGACAATGTCT
1 TACTATATTATACGCATAATATTTGTTTCTATAAAAGACAATGTCT
* *
62701331 TACTATATTGTACGCATAATATTTGTTTCTGTAAAAGACAATGT
1 TACTATATTATACGCATAATATTTGTTTCTATAAAAGACAATGT
62701375 ATTGATTTTC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.42
Consensus pattern (46 bp):
TACTATATTATACGCATAATATTTGTTTCTATAAAAGACAATGTCT
Found at i:62701472 original size:18 final size:18
Alignment explanation
Indices: 62701440--62701486 Score: 64
Period size: 17 Copynumber: 2.7 Consensus size: 18
62701430 TTTATACTGA
62701440 GTTAATTTTAATT-AATT
1 GTTAATTTTAATTAAATT
62701457 GTTAATTTTGAATTAAATT
1 GTTAATTTT-AATTAAATT
62701476 G-TAA-TTTAATT
1 GTTAATTTTAATT
62701487 TCAAATTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
16 4 0.14
17 12 0.43
18 7 0.25
19 5 0.18
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (18 bp):
GTTAATTTTAATTAAATT
Found at i:62728794 original size:12 final size:12
Alignment explanation
Indices: 62728777--62728807 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
62728767 CGTGCCCAGT
62728777 AAAATAAAATTA
1 AAAATAAAATTA
62728789 AAAATAAAATTA
1 AAAATAAAATTA
*
62728801 ATAATAA
1 AAAATAA
62728808 TTAATAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (12 bp):
AAAATAAAATTA
Found at i:62729550 original size:6 final size:6
Alignment explanation
Indices: 62729539--62729738 Score: 400
Period size: 6 Copynumber: 33.3 Consensus size: 6
62729529 TTACCCAAAC
62729539 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
62729587 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
62729635 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
62729683 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
62729731 ATACAT AT
1 ATACAT AT
62729739 GGGAATTAAC
Statistics
Matches: 194, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 194 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.34
Consensus pattern (6 bp):
ATACAT
Found at i:62737319 original size:21 final size:20
Alignment explanation
Indices: 62737295--62737343 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
62737285 AATTAATTAA
62737295 TTAATTCTTATACT-TATATTT
1 TTAATT-TTATA-TATATATTT
*
62737316 TTAATTTTTTATATATATTT
1 TTAATTTTATATATATATTT
*
62737336 TTTATTTT
1 TTAATTTT
62737344 TATTTTGCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 1 0.04
20 18 0.72
21 6 0.24
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (20 bp):
TTAATTTTATATATATATTT
Found at i:62737349 original size:5 final size:6
Alignment explanation
Indices: 62737311--62737377 Score: 62
Period size: 6 Copynumber: 10.2 Consensus size: 6
62737301 CTTATACTTA
* *
62737311 TATTTT TAATTTTT TATATA TATTTTT TATTTT TATTTT GCTATTTT TATTTT
1 TATTTT T-A-TTTT TATTTT TA-TTTT TATTTT TATTTT --TATTTT TATTTT
62737364 TATTTTT TATTTT T
1 TA-TTTT TATTTT T
62737378 TTCGTATTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
6 28 0.55
7 12 0.24
8 11 0.22
ACGTcount: A:0.19, C:0.01, G:0.01, T:0.78
Consensus pattern (6 bp):
TATTTT
Found at i:62737355 original size:14 final size:12
Alignment explanation
Indices: 62737311--62737377 Score: 62
Period size: 13 Copynumber: 5.1 Consensus size: 12
62737301 CTTATACTTA
62737311 TATTTTTAATTTTT
1 TATTTTT-A-TTTT
* *
62737325 TATATATATTTTT
1 TATTTTTA-TTTT
62737338 TATTTTTATTTT
1 TATTTTTATTTT
62737350 GCTATTTTTATTTT
1 --TATTTTTATTTT
62737364 TATTTTTTATTTT
1 TA-TTTTTATTTT
62737377 T
1 T
62737378 TTCGTATTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
12 6 0.13
13 23 0.50
14 17 0.37
ACGTcount: A:0.19, C:0.01, G:0.01, T:0.78
Consensus pattern (12 bp):
TATTTTTATTTT
Found at i:62737377 original size:20 final size:21
Alignment explanation
Indices: 62737331--62737378 Score: 73
Period size: 20 Copynumber: 2.4 Consensus size: 21
62737321 TTTTTATATA
62737331 TATTTTTTATTTTTATTTTGC
1 TATTTTTTATTTTTATTTTGC
*
62737352 TA-TTTTTATTTTTATTTT-T
1 TATTTTTTATTTTTATTTTGC
62737371 TATTTTTT
1 TATTTTTT
62737379 TCGTATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.84
21 2 0.08
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.81
Consensus pattern (21 bp):
TATTTTTTATTTTTATTTTGC
Found at i:62738486 original size:10 final size:10
Alignment explanation
Indices: 62738471--62738500 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
62738461 CATTGTTCTA
62738471 AAAAAAAATG
1 AAAAAAAATG
*
62738481 AAAAAAAGTG
1 AAAAAAAATG
62738491 AAAAAAAATG
1 AAAAAAAATG
62738501 CATTTATGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (10 bp):
AAAAAAAATG
Found at i:62742748 original size:7 final size:7
Alignment explanation
Indices: 62742736--62742763 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
62742726 ATCATTCAAA
62742736 CATAAAT
1 CATAAAT
62742743 CATAAAT
1 CATAAAT
62742750 CATAAAT
1 CATAAAT
62742757 CATAAAT
1 CATAAAT
62742764 GTTAAAATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (7 bp):
CATAAAT
Found at i:62750237 original size:34 final size:34
Alignment explanation
Indices: 62750194--62750264 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
62750184 CAATTGAGAA
62750194 GTCATTACTCCCTCACTCATTTGTTTTCATAATT
1 GTCATTACTCCCTCACTCATTTGTTTTCATAATT
62750228 GTCATTACTCCCTCACTCATTTGTTTTCATAATT
1 GTCATTACTCCCTCACTCATTTGTTTTCATAATT
62750262 GTC
1 GTC
62750265 TTTATATTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.20, C:0.27, G:0.07, T:0.46
Consensus pattern (34 bp):
GTCATTACTCCCTCACTCATTTGTTTTCATAATT
Found at i:62752514 original size:23 final size:25
Alignment explanation
Indices: 62752488--62752534 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
62752478 TATCATTCAT
*
62752488 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
62752511 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
62752535 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:62752695 original size:13 final size:13
Alignment explanation
Indices: 62752677--62752706 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
62752667 TTCTTGTAAA
62752677 CATTTCACATAAC
1 CATTTCACATAAC
*
62752690 CATTTCATATAAC
1 CATTTCACATAAC
62752703 CATT
1 CATT
62752707 CGTCATCTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.27, G:0.00, T:0.37
Consensus pattern (13 bp):
CATTTCACATAAC
Found at i:62752855 original size:46 final size:46
Alignment explanation
Indices: 62752795--62753144 Score: 455
Period size: 46 Copynumber: 8.0 Consensus size: 46
62752785 TTTGACGTGA
* * * * * *
62752795 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* ** * * *
62752841 TGCCATGGTATCTTTCAACCATGGTATTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
62752887 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
62752933 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
62752979 TGCCATGGTATCTTTCAACCATGGTCTTACACA---C--AT---GT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
62753017 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
62753063 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
62753101 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
62753145 AGAGCACACT
Statistics
Matches: 272, Mismatches: 15, Indels: 34
0.85 0.05 0.11
Matches are distributed among these distances:
38 68 0.25
39 1 0.00
40 3 0.01
41 4 0.01
43 4 0.01
44 3 0.01
45 5 0.02
46 184 0.68
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:62752911 original size:92 final size:88
Alignment explanation
Indices: 62752795--62753144 Score: 455
Period size: 84 Copynumber: 4.0 Consensus size: 88
62752785 TTTGACGTGA
* * *
62752795 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTAC-CA--TTCT-TCATGTTGCCATGGTATCTTTCAAC
* ** * * *
62752860 CATGGTATTATTCTTTTCATGTCACGT
62 CATGGTCTTACACATTTCATATCAGGT
*
62752887 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTAC-CAT-TC-T-TCATGTTGCCATGGTATCTTTCAAC
62752952 CATGGTCTTACACATTTCATATCAGGT
62 CATGGTCTTACACATTTCATATCAGGT
*
62752979 TGCCATGGTATCTTTCAACCATGGTCTTA-CA--C-ACATGTTGCCATGGTATCTTTCAACCATG
1 TGCCATGGTATCTTTCAACCATGGTCTTACCATTCTTCATGTTGCCATGGTATCTTTCAACCATG
62753040 GTCTTACACATTTCATATCAGGT
66 GTCTTACACATTTCATATCAGGT
* *
62753063 TGCCATGGTATCTTTCAACCATGGTCTTA-CA--C-ACAGGTTGCCATGGTATCTTTCAACCATG
1 TGCCATGGTATCTTTCAACCATGGTCTTACCATTCTTCATGTTGCCATGGTATCTTTCAACCATG
62753124 GTCTTACACATTTCATATCAG
66 GTCTTACACATTTCATATCAG
62753145 AGAGCACACT
Statistics
Matches: 241, Mismatches: 15, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
84 131 0.54
87 1 0.00
90 3 0.01
91 2 0.01
92 104 0.43
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (88 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACCATTCTTCATGTTGCCATGGTATCTTTCAACCATG
GTCTTACACATTTCATATCAGGT
Found at i:62753028 original size:38 final size:38
Alignment explanation
Indices: 62752977--62753133 Score: 233
Period size: 38 Copynumber: 3.9 Consensus size: 38
62752967 TTCATATCAG
62752977 GTTGCCATGGTATCTTTCAACCATGGTCTTACACACAT
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACACAT
62753015 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACA---C--AT
*
62753058 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACACAG
1 ---GTTGCCATGGTATCTTTCAACCATGGTCTTACACACAT
62753099 GTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACA
62753134 TTTCATATCA
Statistics
Matches: 110, Mismatches: 1, Indels: 16
0.87 0.01 0.13
Matches are distributed among these distances:
38 70 0.64
41 2 0.02
43 3 0.03
46 35 0.32
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (38 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACACAT
Found at i:62756388 original size:5 final size:5
Alignment explanation
Indices: 62756378--62756409 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
62756368 CATTCTGTGA
62756378 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
62756410 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:62756403 original size:9 final size:9
Alignment explanation
Indices: 62756379--62756409 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
62756369 ATTCTGTGAA
62756379 AAATAAAAT
1 AAATAAAAT
62756388 AAAATAAAAT
1 -AAATAAAAT
62756398 AAATAAAAT
1 AAATAAAAT
62756407 AAA
1 AAA
62756410 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:62760393 original size:263 final size:263
Alignment explanation
Indices: 62759926--62760452 Score: 1018
Period size: 263 Copynumber: 2.0 Consensus size: 263
62759916 TTCACCATCG
*
62759926 CAGTAGTCATCTACAACATCAGCTTCACCGGAATTTTCTGGTTGTTTTCCCTTTTAATTCGCAGC
1 CAGTAGTCATCTACAACATCAGCTTCACCAGAATTTTCTGGTTGTTTTCCCTTTTAATTCGCAGC
62759991 CTCCCTTTTAATCTTATTTTGTAGCTTATAGCACTCAGATTTAATGTGCCCTTTCTTCTTACAGA
66 CTCCCTTTTAATCTTATTTTGTAGCTTATAGCACTCAGATTTAATGTGCCCTTTCTTCTTACAGA
62760056 AGTTACAAGTTTTACCTCTGTTTGAAGACTTCGATCTACCCTTAGATTTACCACGAGGATTCCGT
131 AGTTACAAGTTTTACCTCTGTTTGAAGACTTCGATCTACCCTTAGATTTACCACGAGGATTCCGT
*
62760121 TCCTGTGTCCTACCACGATCATCATCAGCATTCCGATCTTGTCTCCCACGAACAATGAGACCCTC
196 TCCTGTGTCCTACCACGATCATCATCAGCATTCCGATCTTGTCTCCCACGAACAATGAAACCCTC
62760186 TTC
261 TTC
*
62760189 CAGTAGTCATCTACAACATCAGCTTCACCAGAATTTTCTGGTTGTTTTCCCTTTTGATTCGCAGC
1 CAGTAGTCATCTACAACATCAGCTTCACCAGAATTTTCTGGTTGTTTTCCCTTTTAATTCGCAGC
*
62760254 CTCCCTTTTAATCTTATTTTGTAGCTTATAGCACTCAGATTTAATGTGCCCTTTCTTCTTGCAGA
66 CTCCCTTTTAATCTTATTTTGTAGCTTATAGCACTCAGATTTAATGTGCCCTTTCTTCTTACAGA
62760319 AGTTACAAGTTTTACCTCTGTTTGAAGACTTCGATCTACCCTTAGATTTACCACGAGGATTCCGT
131 AGTTACAAGTTTTACCTCTGTTTGAAGACTTCGATCTACCCTTAGATTTACCACGAGGATTCCGT
62760384 TCCTGTGTCCTACCACGATCATCATCAGCATTCCGATCTTGTCTCCCACGAACAATGAAACCCTC
196 TCCTGTGTCCTACCACGATCATCATCAGCATTCCGATCTTGTCTCCCACGAACAATGAAACCCTC
62760449 TTC
261 TTC
62760452 C
1 C
62760453 TGAGAGTCGG
Statistics
Matches: 260, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
263 260 1.00
ACGTcount: A:0.22, C:0.28, G:0.14, T:0.36
Consensus pattern (263 bp):
CAGTAGTCATCTACAACATCAGCTTCACCAGAATTTTCTGGTTGTTTTCCCTTTTAATTCGCAGC
CTCCCTTTTAATCTTATTTTGTAGCTTATAGCACTCAGATTTAATGTGCCCTTTCTTCTTACAGA
AGTTACAAGTTTTACCTCTGTTTGAAGACTTCGATCTACCCTTAGATTTACCACGAGGATTCCGT
TCCTGTGTCCTACCACGATCATCATCAGCATTCCGATCTTGTCTCCCACGAACAATGAAACCCTC
TTC
Found at i:62764140 original size:18 final size:18
Alignment explanation
Indices: 62764117--62764168 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
62764107 AAAATGTGAG
*
62764117 AAATGATATTCACATTTT
1 AAATGATATTCACATTTC
* *
62764135 AAATGATGTTCAGATTTC
1 AAATGATATTCACATTTC
*
62764153 AAATGATTTTCACATT
1 AAATGATATTCACATT
62764169 GATGGGAACG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.42
Consensus pattern (18 bp):
AAATGATATTCACATTTC
Found at i:62764709 original size:72 final size:72
Alignment explanation
Indices: 62764592--62764903 Score: 380
Period size: 72 Copynumber: 4.3 Consensus size: 72
62764582 CAATGCTAAA
*
62764592 CTAGTTTTATCAATAGTTA-TTTATGTTTGGTTTTTGGATATTGAATTTTTGTTCTACTTATTTA
1 CTAGTTTTATCAATAG-TAGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTA
62764656 TGTGTAAT
65 TGTGTAAT
* * * *
62764664 CTAGTTTTATCAATGGCAGTTTATGTTTGGTTTTTAGATATTGAATTTATATTCTACTTATTTAT
1 CTAGTTTTATCAATAGTAGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
62764729 GTGTAAT
66 GTGTAAT
* * * * * *
62764736 CTAGTTTTATTAATAGTTGTTTATGTTTGGTCTTTGGATGTTGAATTTATGGTCTAATTATTTAT
1 CTAGTTTTATCAATAGTAGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
**
62764801 GCT-TAGGG
66 G-TGTA-AT
* * * *
62764809 CTAGTTTTATCAATAATTGTTTATGTTTGATTTTTGGATATTAAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTAGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
* *
62764874 ACT-AAAT
66 -GTGTAAT
*
62764881 -TAGTTTTATCAATAGTTGTTTAT
1 CTAGTTTTATCAATAGTAGTTTAT
62764904 ATATGATTTT
Statistics
Matches: 206, Mismatches: 30, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
71 23 0.11
72 123 0.60
73 60 0.29
ACGTcount: A:0.24, C:0.06, G:0.15, T:0.54
Consensus pattern (72 bp):
CTAGTTTTATCAATAGTAGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
GTGTAAT
Found at i:62769692 original size:27 final size:27
Alignment explanation
Indices: 62769321--62769811 Score: 653
Period size: 27 Copynumber: 18.2 Consensus size: 27
62769311 AAAGTACTCC
*
62769321 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
62769348 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * * *
62769375 CGATTTTTAAAATTACCATTTTATCCT
1 CGATTTACAGAATTACCGTTTTACCCT
62769402 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
62769429 C-AGTTTACAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
**
62769456 CGATTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
62769483 CAATTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
62769510 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
62769537 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
62769564 CGATTTACAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
62769591 CAATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
62769618 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
62769645 CAATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
62769672 CGACTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
62769699 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * * *
62769726 TAATTTACAAAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
62769753 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
62769780 CGATTTACAGAATTGCCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
62769807 TGATT
1 CGATT
62769812 GTGAAATTAC
Statistics
Matches: 410, Mismatches: 50, Indels: 8
0.88 0.11 0.02
Matches are distributed among these distances:
26 2 0.00
27 406 0.99
28 2 0.00
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:62769846 original size:27 final size:27
Alignment explanation
Indices: 62769816--62769992 Score: 210
Period size: 27 Copynumber: 6.6 Consensus size: 27
62769806 TTGATTGTGA
*
62769816 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
62769843 AATTTCCGAAATACCCCTATAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
62769870 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
62769897 AATTACCAAAATACCTCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
62769924 AATTATTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
62769951 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
62769978 AATTATCGAGATACC
1 AATTACCGAAATACC
62769993 TTTGGGGGGT
Statistics
Matches: 123, Mismatches: 27, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 123 1.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.27
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:62769983 original size:54 final size:54
Alignment explanation
Indices: 62769816--62769982 Score: 244
Period size: 54 Copynumber: 3.1 Consensus size: 54
62769806 TTGATTGTGA
* * * *
62769816 AATTACTGAAATACCCCTGTAGGGTAGAATTTCCGAAATACCCCTATAGGGTAA
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * *
62769870 AATTACTGAAATACCCTTATAGGATAGAATTACCAAAATACCTCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* *
62769924 AATTATTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
62769978 AATTA
1 AATTA
62769983 TCGAGATACC
Statistics
Matches: 99, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 99 1.00
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:62769992 original size:54 final size:54
Alignment explanation
Indices: 62769823--62770011 Score: 227
Period size: 54 Copynumber: 3.5 Consensus size: 54
62769813 TGAAATTACT
* * * *
62769823 GAAATACCCCTGTAGGGTAGAATTTCCGAAATACCCCTATAGGGTAAAATTA-C
1 GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATC
* * * * *
62769876 TGAAATACCCTTATAGGATAGAATTACCAAAATACCTCTGTAGGGTAGAATTATT
1 -GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATC
*
62769931 GAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATC
* * ** *
62769985 GAGATACCTTTGGGGGGTAAAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
62770012 ATTTTGCCCC
Statistics
Matches: 113, Mismatches: 21, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
54 113 1.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.26
Consensus pattern (54 bp):
GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATC
Found at i:62770248 original size:27 final size:26
Alignment explanation
Indices: 62770210--62770292 Score: 121
Period size: 27 Copynumber: 3.1 Consensus size: 26
62770200 CGGAGGAAGC
*
62770210 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
62770237 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* *
62770263 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
62770290 GTT
1 GTT
62770293 GACCGATCGA
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
26 10 0.19
27 42 0.81
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:62770625 original size:27 final size:27
Alignment explanation
Indices: 62770595--62770671 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
62770585 TATTCTGTTA
* *
62770595 GGTGGCTTTGCCACATTATCTG-ATTCT
1 GGTGGCTCTGCCACAATATCTGTA-TCT
62770622 GGTGGCTCTGCCACAATATCTGTATCT
1 GGTGGCTCTGCCACAATATCTGTATCT
* * *
62770649 GGTGACTCTGTCACGATATCTGT
1 GGTGGCTCTGCCACAATATCTGT
62770672 TCTAGCAGCC
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
27 43 0.98
28 1 0.02
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.36
Consensus pattern (27 bp):
GGTGGCTCTGCCACAATATCTGTATCT
Found at i:62770828 original size:6 final size:6
Alignment explanation
Indices: 62770819--62770974 Score: 135
Period size: 6 Copynumber: 25.8 Consensus size: 6
62770809 CTGTCACCTA
* *
62770819 ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATACTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG
* * *
62770867 ATTCTG -TTACTG ATTTTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* * *
62770916 ATTCTG -TTACTA ATAT-TG ATTTTG ATTTTG ATTCTG -TTACTG ATTCTG
1 ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG
62770964 ATTCTG ATTCT
1 ATTCTG ATTCT
62770975 CATTTTGGTT
Statistics
Matches: 124, Mismatches: 13, Indels: 26
0.76 0.08 0.16
Matches are distributed among these distances:
5 10 0.08
6 104 0.84
7 8 0.06
8 2 0.02
ACGTcount: A:0.20, C:0.15, G:0.14, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:62770856 original size:30 final size:30
Alignment explanation
Indices: 62770798--62770974 Score: 162
Period size: 30 Copynumber: 6.2 Consensus size: 30
62770788 ATTCACATTA
* *
62770798 TGATTCTGATTCTGTCACCTAATTCTGATTC
1 TGATTCTGATTCTGTTA-CTAATACTGATTC
62770829 TGATTCTGATTCTGTTACTAATACTGATTC
1 TGATTCTGATTCTGTTACTAATACTGATTC
*
62770859 TGATTCTGATTCTG----T--TACTGATTT
1 TGATTCTGATTCTGTTACTAATACTGATTC
* *
62770883 TGATTCTGATTCTGTCACCTAATTCTGA---
1 TGATTCTGATTCTGTTA-CTAATACTGATTC
* *
62770911 T---TCTGATTCTGTTACTAATATTGATTT
1 TGATTCTGATTCTGTTACTAATACTGATTC
* * *
62770938 TGATTTTGATTCTGTTACTGATTCTGATTC
1 TGATTCTGATTCTGTTACTAATACTGATTC
62770968 TGATTCT
1 TGATTCT
62770975 CATTTTGGTT
Statistics
Matches: 120, Mismatches: 13, Indels: 27
0.75 0.08 0.17
Matches are distributed among these distances:
24 30 0.25
25 12 0.10
26 1 0.01
27 1 0.01
28 1 0.01
29 1 0.01
30 53 0.44
31 21 0.17
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (30 bp):
TGATTCTGATTCTGTTACTAATACTGATTC
Found at i:62770929 original size:79 final size:81
Alignment explanation
Indices: 62770798--62770974 Score: 268
Period size: 79 Copynumber: 2.2 Consensus size: 81
62770788 ATTCACATTA
62770798 TGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCTGAT
1 TGATTCTGATTCTGTCACCTAA---T-ATTCTGATTCTGATTCTGTTACTAATACTGATTCTGAT
*
62770863 TCTGATTCTGTTACTGATTT
62 TCTGATTCTGTTACTGATTC
* * *
62770883 TGATTCTGATTCTGTCACCT-A-ATTCTGATTCTGATTCTGTTACTAATATTGATTTTGATTTTG
1 TGATTCTGATTCTGTCACCTAATATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTG
62770946 ATTCTGTTACTGATTC
66 ATTCTGTTACTGATTC
62770962 TGATTCTGATTCT
1 TGATTCTGATTCT
62770975 CATTTTGGTT
Statistics
Matches: 88, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
79 67 0.76
84 1 0.01
85 20 0.23
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (81 bp):
TGATTCTGATTCTGTCACCTAATATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTG
ATTCTGTTACTGATTC
Found at i:62781355 original size:43 final size:43
Alignment explanation
Indices: 62781294--62781381 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
62781284 ATATCTTCGA
62781294 TGTTAGCTCAGAAGTATGTGAGAATGGGTTGTGAAGCTTACTT
1 TGTTAGCTCAGAAGTATGTGAGAATGGGTTGTGAAGCTTACTT
62781337 TGTTAGCTCAGAAGTATGTGAGAATGGGTTGTGAAGCTTACTT
1 TGTTAGCTCAGAAGTATGTGAGAATGGGTTGTGAAGCTTACTT
62781380 TG
1 TG
62781382 CATATGTGCT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.25, C:0.09, G:0.31, T:0.35
Consensus pattern (43 bp):
TGTTAGCTCAGAAGTATGTGAGAATGGGTTGTGAAGCTTACTT
Found at i:62785524 original size:45 final size:46
Alignment explanation
Indices: 62785473--62785564 Score: 150
Period size: 45 Copynumber: 2.0 Consensus size: 46
62785463 AATTAAATTA
* * *
62785473 ACCATTATTAGCAGGTTTAGTTTTA-TTTAAGTCATGCATATATAT
1 ACCATTATTAGCAGGTTTAGCTTCATTTTAAGTCAAGCATATATAT
62785518 ACCATTATTAGCAGGTTTAGCTTCATTTTAAGTCAAGCATATATAT
1 ACCATTATTAGCAGGTTTAGCTTCATTTTAAGTCAAGCATATATAT
62785564 A
1 A
62785565 TTAATGCATA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
45 23 0.53
46 20 0.47
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (46 bp):
ACCATTATTAGCAGGTTTAGCTTCATTTTAAGTCAAGCATATATAT
Found at i:62796180 original size:19 final size:21
Alignment explanation
Indices: 62796151--62796192 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
62796141 AGCTTATCGA
62796151 AAAAGAAGAAAAA-AGAAGGG
1 AAAAGAAGAAAAAGAGAAGGG
62796171 AAAA-AAGAAAAAGAGAAGGG
1 AAAAGAAGAAAAAGAGAAGGG
62796191 AA
1 AA
62796193 TTTTCGGCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (21 bp):
AAAAGAAGAAAAAGAGAAGGG
Found at i:62797059 original size:15 final size:15
Alignment explanation
Indices: 62797039--62797072 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
62797029 GCTTGGAAAG
62797039 TAAATCTGAGTTGGA
1 TAAATCTGAGTTGGA
62797054 TAAATCTGAGTTGGA
1 TAAATCTGAGTTGGA
62797069 TAAA
1 TAAA
62797073 GATGGTGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.38, C:0.06, G:0.24, T:0.32
Consensus pattern (15 bp):
TAAATCTGAGTTGGA
Found at i:62800678 original size:45 final size:42
Alignment explanation
Indices: 62800629--62800783 Score: 134
Period size: 41 Copynumber: 3.6 Consensus size: 42
62800619 TGTTTTCATG
* *
62800629 TAAGACCACGTCTGGGACGTTGGCATCGATATATGTGGTTACGTA
1 TAAGACCATGTCTGGGACGTTGGCATCGATAT-T-T-GTTACATA
* * *
62800674 TAAGACCATGTCTGGGACATTGGCATC-ATATTTGTTTCATG
1 TAAGACCATGTCTGGGACGTTGGCATCGATATTTGTTACATA
* ** * *
62800715 TAAGACCTTGTCTGGGACAG-TGGCATCGATATGAGATAGCATG
1 TAAGACCATGTCTGGGAC-GTTGGCATCGATATTTGTTA-CATA
* * *
62800758 TAAGACCACGTTTGGAACGTTGGCAT
1 TAAGACCATGTCTGGGACGTTGGCAT
62800784 TGTACGATAT
Statistics
Matches: 91, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
41 29 0.32
42 8 0.09
43 25 0.27
44 4 0.04
45 25 0.27
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (42 bp):
TAAGACCATGTCTGGGACGTTGGCATCGATATTTGTTACATA
Found at i:62800731 original size:41 final size:45
Alignment explanation
Indices: 62800614--62800746 Score: 166
Period size: 45 Copynumber: 3.0 Consensus size: 45
62800604 ACATAGTTTG
* * *
62800614 ATATGTGTTTTCATGTAAGACCACGTCTGGGACGTTGGCATCGAT
1 ATATGTGGTTTCATGTAAGACCATGTCTGGGACATTGGCATCGAT
* * *
62800659 ATATGTGGTTACGTATAAGACCATGTCTGGGACATTGGCATC-AT
1 ATATGTGGTTTCATGTAAGACCATGTCTGGGACATTGGCATCGAT
* *
62800703 AT-T-T-GTTTCATGTAAGACCTTGTCTGGGACAGTGGCATCGAT
1 ATATGTGGTTTCATGTAAGACCATGTCTGGGACATTGGCATCGAT
62800745 AT
1 AT
62800747 GAGATAGCAT
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
41 30 0.39
42 5 0.07
43 1 0.01
44 4 0.05
45 36 0.47
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.34
Consensus pattern (45 bp):
ATATGTGGTTTCATGTAAGACCATGTCTGGGACATTGGCATCGAT
Found at i:62802274 original size:13 final size:14
Alignment explanation
Indices: 62802247--62802277 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
62802237 AAGTGGACAA
62802247 TTGTTAAAGCATAT
1 TTGTTAAAGCATAT
62802261 TTGTTAAA-CATAT
1 TTGTTAAAGCATAT
62802274 TTGT
1 TTGT
62802278 AATCGGCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.48
Consensus pattern (14 bp):
TTGTTAAAGCATAT
Found at i:62808760 original size:15 final size:15
Alignment explanation
Indices: 62808742--62808785 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
62808732 GAAGCCTAGA
62808742 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
62808757 ATAAAGAAATCCATG
1 ATAAAGAAATCCAAG
*
62808772 ATAAGGAAATCCAA
1 ATAAAGAAATCCAA
62808786 TTTACAACAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.16
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:62812193 original size:39 final size:39
Alignment explanation
Indices: 62812139--62812213 Score: 150
Period size: 39 Copynumber: 1.9 Consensus size: 39
62812129 ATAGAGTGAT
62812139 GTCGGGATTACCAGTCCAGGCTAAATCCCTTGTGACAAC
1 GTCGGGATTACCAGTCCAGGCTAAATCCCTTGTGACAAC
62812178 GTCGGGATTACCAGTCCAGGCTAAATCCCTTGTGAC
1 GTCGGGATTACCAGTCCAGGCTAAATCCCTTGTGAC
62812214 GACAAACACT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
GTCGGGATTACCAGTCCAGGCTAAATCCCTTGTGACAAC
Found at i:62814684 original size:10 final size:10
Alignment explanation
Indices: 62814671--62814697 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
62814661 AAATTTTTTC
62814671 AAAGTTCGTG
1 AAAGTTCGTG
62814681 AAAGTTCGTG
1 AAAGTTCGTG
62814691 AAAGTTC
1 AAAGTTC
62814698 CTTAAGTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (10 bp):
AAAGTTCGTG
Found at i:62815700 original size:21 final size:21
Alignment explanation
Indices: 62815676--62815715 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
62815666 TTAGAGGCGC
62815676 TTTTTAGGCCTTTAGCGGCTT
1 TTTTTAGGCCTTTAGCGGCTT
* *
62815697 TTTTTGGGCTTTTAGCGGC
1 TTTTTAGGCCTTTAGCGGC
62815716 GTTTATAAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.07, C:0.17, G:0.28, T:0.47
Consensus pattern (21 bp):
TTTTTAGGCCTTTAGCGGCTT
Found at i:62815942 original size:85 final size:86
Alignment explanation
Indices: 62815799--62815985 Score: 259
Period size: 85 Copynumber: 2.2 Consensus size: 86
62815789 GTTTATGTGG
* * * * * *
62815799 AAAAACGCCACTATAGAACATGACCCTTAGCGGCGCTTCTCTCACAAATGCCGCTAAAGAACATG
1 AAAAACGCCGCTAAAGAACATGACCCTTAGCAGCACTTCTCCCACAAATGCCACTAAAGAACATG
62815864 ACCTTTAG-CGCGCTTCTCCC
66 ACCTTTAGTCGCGCTTCTCCC
* * *
62815884 AAAAATGCCGCTAAAGAACATGACCTTTAGCAGCACTTCTCCCTCAAATGCCACTAAAGAACATG
1 AAAAACGCCGCTAAAGAACATGACCCTTAGCAGCACTTCTCCCACAAATGCCACTAAAGAACATG
*
62815949 ACCTTTAGTGGCGCTTCTCCC
66 ACCTTTAGTCGCGCTTCTCCC
* *
62815970 ACAAACGCTGCTAAAG
1 AAAAACGCCGCTAAAG
62815986 GTTATTAAAA
Statistics
Matches: 88, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
85 64 0.73
86 24 0.27
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.21
Consensus pattern (86 bp):
AAAAACGCCGCTAAAGAACATGACCCTTAGCAGCACTTCTCCCACAAATGCCACTAAAGAACATG
ACCTTTAGTCGCGCTTCTCCC
Found at i:62815984 original size:43 final size:43
Alignment explanation
Indices: 62815813--62815985 Score: 249
Period size: 43 Copynumber: 4.0 Consensus size: 43
62815803 ACGCCACTAT
* *
62815813 AGAACATGACCCTTAGCGGCGCTTCTCTCACAAATGCCGCTAA
1 AGAACATGACCTTTAGCGGCGCTTCTCCCACAAATGCCGCTAA
*
62815856 AGAACATGACCTTTAGC-GCGCTTCTCCCAAAAATGCCGCTAA
1 AGAACATGACCTTTAGCGGCGCTTCTCCCACAAATGCCGCTAA
* * * *
62815898 AGAACATGACCTTTAGCAGCACTTCTCCCTCAAATGCCACTAA
1 AGAACATGACCTTTAGCGGCGCTTCTCCCACAAATGCCGCTAA
* * *
62815941 AGAACATGACCTTTAGTGGCGCTTCTCCCACAAACGCTGCTAA
1 AGAACATGACCTTTAGCGGCGCTTCTCCCACAAATGCCGCTAA
62815984 AG
1 AG
62815986 GTTATTAAAA
Statistics
Matches: 115, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
42 40 0.35
43 75 0.65
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (43 bp):
AGAACATGACCTTTAGCGGCGCTTCTCCCACAAATGCCGCTAA
Found at i:62817503 original size:32 final size:31
Alignment explanation
Indices: 62817455--62817551 Score: 151
Period size: 30 Copynumber: 3.1 Consensus size: 31
62817445 AAAAAGAAAG
*
62817455 AAAAACAATCCATTAGATTAAATTCATTAAA
1 AAAAACAATTCATTAGATTAAATTCATTAAA
* *
62817486 AAATAATAATTCGTTAGATTAAATTCATT-AA
1 AAA-AACAATTCATTAGATTAAATTCATTAAA
62817517 AAAAACAATTCATTAGATTAAATTCATTAAA
1 AAAAACAATTCATTAGATTAAATTCATTAAA
62817548 AAAA
1 AAAA
62817552 GAATAACAAT
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
30 23 0.39
31 14 0.24
32 22 0.37
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.32
Consensus pattern (31 bp):
AAAAACAATTCATTAGATTAAATTCATTAAA
Found at i:62819936 original size:23 final size:22
Alignment explanation
Indices: 62819910--62819963 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 22
62819900 TGTATACGCG
62819910 TACATAATAAAAATATATACTAA
1 TACATAATAAAAATA-ATACTAA
* *
62819933 TACATAATAATAATAATAGTAA
1 TACATAATAAAAATAATACTAA
62819955 TAC-TAATAA
1 TACATAATAA
62819964 TACTAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 6 0.21
22 9 0.31
23 14 0.48
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.31
Consensus pattern (22 bp):
TACATAATAAAAATAATACTAA
Found at i:62819944 original size:3 final size:3
Alignment explanation
Indices: 62819913--62819982 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
62819903 ATACGCGTAC
* * * *
62819913 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATA GTA ATA CTA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
*
62819960 ATA ATA CTA ATA AT- ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
62819983 CAAGGATATT
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
2 4 0.08
3 43 0.81
4 6 0.11
ACGTcount: A:0.61, C:0.06, G:0.01, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:62821338 original size:44 final size:45
Alignment explanation
Indices: 62821309--62821883 Score: 121
Period size: 44 Copynumber: 12.8 Consensus size: 45
62821299 CCTTTATTTT
*
62821309 AATCCACTCCACTGTAATCTCAGGCAGATAGGAT-TACTATCTTC
1 AATCCACTCCACTGTAATCTCAGGCAGATAAGATCTACTATCTTC
* * * * *
62821353 AATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGA-AATTTTTC
1 AATCCACTCCACTGTAATCTCAGGCAGATAAGATCT-ACTA-TCTTC
** *** * * *
62821399 GGTCTGTTCCACTGTAATCTCAGGGAGATAAGATCTGA-AATTTTTC
1 AATCCACTCCACTGTAATCTCAGGCAGATAAGATCT-ACTA-TCTTC
** *** * **
62821445 GGTCTGTTCCACTGTAATCTCAGGGAGATAAGATCT-CTGGCTTC
1 AATCCACTCCACTGTAATCTCAGGCAGATAAGATCTACTATCTTC
* * * *
62821489 AATCTGATGTGATCTACTCTACTGTAA-CTTCAAAG-AGATAAGATCCT-TTAT-TTT
1 AATC---------C-ACTCCACTGTAATC-TC-AGGCAGATAAGAT-CTACTATCTTC
* * *
62821543 AATCCGCTCCACTGTAA-CTTCAGAG-AGATAGGAT-TACTAGCTTC
1 AATCCACTCCACTGTAATC-TCAG-GCAGATAAGATCTACTATCTTC
* * **
62821587 AATCTACT-CGCTGTAATCTCAGAG-AGATAAGATCT-CTGGCTTC
1 AATCCACTCCACTGTAATCTCAG-GCAGATAAGATCTACTATCTTC
** * * *
62821630 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGA-AATTCTTC
1 AATCCACTCCACTGTAATCTCAGGCAGATAAGATCT-ACTA-TCTTC
** * * ** *
62821676 GGTCTACTCC-CTGTAACCTCAGGGTGATAAGA-C--CTGA--TGC
1 AATCCACTCCACTGTAATCTCAGGCAGATAAGATCTACT-ATCTTC
* * ** * *
62821716 GATCTACTCTGCTGTAA-CTTCAGAG-AGATAAGATCCT-TTAT-TTT
1 AATCCACTCCACTGTAATC-TCAG-GCAGATAAGAT-CTACTATCTTC
* * *
62821760 AATCCGCTCCACTGTAA-CTTCAGAG-AGATAGGAT-TACTAGCTTC
1 AATCCACTCCACTGTAATC-TCAG-GCAGATAAGATCTACTATCTTC
* * **
62821804 AATCTACTCCGCTGTAATCTCAGAG-AGATAAGATCT-CTGGCTTC
1 AATCCACTCCACTGTAATCTCAG-GCAGATAAGATCTACTATCTTC
** * *
62821848 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT
1 AATCCACTCCACTGTAATCTCAGGCAGATAAGATCT
62821884 GAAATTCTTC
Statistics
Matches: 417, Mismatches: 73, Indels: 82
0.73 0.13 0.14
Matches are distributed among these distances:
40 11 0.03
41 17 0.04
42 3 0.01
43 45 0.11
44 190 0.46
45 26 0.06
46 93 0.22
53 1 0.00
54 26 0.06
55 5 0.01
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (45 bp):
AATCCACTCCACTGTAATCTCAGGCAGATAAGATCTACTATCTTC
Found at i:62821420 original size:46 final size:46
Alignment explanation
Indices: 62821364--62821480 Score: 234
Period size: 46 Copynumber: 2.5 Consensus size: 46
62821354 ATCTACTCCG
62821364 CTGTAATCTCAGGGAGATAAGATCTGAAATTTTTCGGTCTGTTCCA
1 CTGTAATCTCAGGGAGATAAGATCTGAAATTTTTCGGTCTGTTCCA
62821410 CTGTAATCTCAGGGAGATAAGATCTGAAATTTTTCGGTCTGTTCCA
1 CTGTAATCTCAGGGAGATAAGATCTGAAATTTTTCGGTCTGTTCCA
62821456 CTGTAATCTCAGGGAGATAAGATCT
1 CTGTAATCTCAGGGAGATAAGATCT
62821481 CTGGCTTCAA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.33
Consensus pattern (46 bp):
CTGTAATCTCAGGGAGATAAGATCTGAAATTTTTCGGTCTGTTCCA
Found at i:62821907 original size:218 final size:217
Alignment explanation
Indices: 62821492--62822011 Score: 979
Period size: 218 Copynumber: 2.4 Consensus size: 217
62821482 TGGCTTCAAT
* * *
62821492 CTGATGTGATCTACTCTACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
62821557 TAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCGCTGTAATCTCAGAGAGATAAGATCT
66 TAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCGCTGTAATCTCAGAGAGATAAGATCT
62821622 CTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCC
131 CTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCC
62821687 TGTAACCTCAGGGTGATAAGAC
196 TGTAACCTCAGGGTGATAAGAC
62821709 CTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
62821774 TAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAGATAAGATC
66 TAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACT-CGCTGTAATCTCAGAGAGATAAGATC
62821839 TCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCC
130 TCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCC
62821904 CTGTAACCTCAGGGTGATAAGAC
195 CTGTAACCTCAGGGTGATAAGAC
62821927 CTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
*
62821992 TAA-TCTCAGGGAGATAGGAT
66 TAACT-TCAGAGAGATAGGAT
62822012 CTGAAATTCT
Statistics
Matches: 297, Mismatches: 4, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
217 101 0.34
218 196 0.66
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (217 bp):
CTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
TAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCGCTGTAATCTCAGAGAGATAAGATCT
CTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCC
TGTAACCTCAGGGTGATAAGAC
Found at i:62821957 original size:130 final size:131
Alignment explanation
Indices: 62821805--62822060 Score: 356
Period size: 130 Copynumber: 2.0 Consensus size: 131
62821795 ACTAGCTTCA
* *
62821805 ATCTACTCCGCTGTAATCTCAGAGAGATAAGAT-CTCTGGCTTCAATCTGCTCCACTGTAACCTC
1 ATCTACTCCGCTGTAATCTCAGAGAGATAAGATCCT-TGACTTCAATCCGCTCCACTGTAACCTC
*
62821869 AGGGAGATAAGATCTGAAATTCTTCGGTCTACTCC-CTGTAACCTCAGGGTGATAAGACCTGATG
65 AGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATG
62821933 CG
130 CG
* * * * *
62821935 ATCTACTCTGCTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTC
1 ATCTACTCCGCTGTAATC-TCAGAGAGATAAGATCCTTGACTTCAATCCGCTCCACTGTAACCTC
* * ** *
62821999 AGGGAGATAGGATCTGAAATTCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTG
65 AGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTG
62822061 TATAATAAAC
Statistics
Matches: 110, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
129 1 0.01
130 83 0.75
131 26 0.24
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (131 bp):
ATCTACTCCGCTGTAATCTCAGAGAGATAAGATCCTTGACTTCAATCCGCTCCACTGTAACCTCA
GGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGC
G
Found at i:62834811 original size:23 final size:22
Alignment explanation
Indices: 62834785--62834838 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 22
62834775 TGTATACGCG
62834785 TACATAATAAAAATATATACTAA
1 TACATAATAAAAATA-ATACTAA
* *
62834808 TACATAATAATAATAATAGTAA
1 TACATAATAAAAATAATACTAA
62834830 TAC-TAATAA
1 TACATAATAA
62834839 TACTAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 6 0.21
22 9 0.31
23 14 0.48
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.31
Consensus pattern (22 bp):
TACATAATAAAAATAATACTAA
Found at i:62834819 original size:3 final size:3
Alignment explanation
Indices: 62834788--62834857 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
62834778 ATACGCGTAC
* * * *
62834788 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATA GTA ATA CTA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
*
62834835 ATA ATA CTA ATA AT- ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
62834858 CAAGGATATT
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
2 4 0.08
3 43 0.81
4 6 0.11
ACGTcount: A:0.61, C:0.06, G:0.01, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:62838658 original size:8 final size:8
Alignment explanation
Indices: 62838647--62838733 Score: 72
Period size: 8 Copynumber: 10.9 Consensus size: 8
62838637 GACTAAAATA
62838647 TTAAATTT
1 TTAAATTT
*
62838655 TTAAGTTT
1 TTAAATTT
62838663 TT-AATTT
1 TTAAATTT
*
62838670 TTTAATTT
1 TTAAATTT
*
62838678 TT-TATTT
1 TTAAATTT
62838685 TTAAA-TT
1 TTAAATTT
62838692 TTAAATTT
1 TTAAATTT
* *
62838700 TCAATTTT
1 TTAAATTT
62838708 TTGAAGATTT
1 TT-AA-ATTT
*
62838718 TTATCATTT
1 TTA-AATTT
62838727 TTAAATT
1 TTAAATT
62838734 AACATATAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
7 19 0.30
8 29 0.46
9 10 0.16
10 5 0.08
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.64
Consensus pattern (8 bp):
TTAAATTT
Found at i:62838663 original size:7 final size:7
Alignment explanation
Indices: 62838650--62838708 Score: 64
Period size: 7 Copynumber: 8.0 Consensus size: 7
62838640 TAAAATATTA
62838650 AATTTTT
1 AATTTTT
62838657 AAGTTTTT
1 AA-TTTTT
62838665 AATTTTTT
1 AA-TTTTT
62838673 AATTTTT
1 AATTTTT
*
62838680 TATTTTT
1 AATTTTT
*
62838687 AAATTTTA
1 -AATTTTT
*
62838695 AATTTTC
1 AATTTTT
62838702 AATTTTT
1 AATTTTT
62838709 TGAAGATTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
7 25 0.57
8 19 0.43
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (7 bp):
AATTTTT
Found at i:62838670 original size:15 final size:14
Alignment explanation
Indices: 62838650--62838708 Score: 64
Period size: 15 Copynumber: 4.0 Consensus size: 14
62838640 TAAAATATTA
62838650 AATTTTTAAGTTTTT
1 AATTTTTAA-TTTTT
62838665 AATTTTTTAATTTTT
1 AA-TTTTTAATTTTT
* *
62838680 TATTTTTAAATTTTA
1 AATTTTT-AATTTTT
*
62838695 AATTTTCAATTTTT
1 AATTTTTAATTTTT
62838709 TGAAGATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
14 11 0.30
15 19 0.51
16 7 0.19
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (14 bp):
AATTTTTAATTTTT
Found at i:62839878 original size:14 final size:14
Alignment explanation
Indices: 62839859--62839890 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
62839849 TCATAGACAT
62839859 TAAACCTTAAATCA
1 TAAACCTTAAATCA
*
62839873 TAAACCTTAAATCC
1 TAAACCTTAAATCA
62839887 TAAA
1 TAAA
62839891 ATATTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (14 bp):
TAAACCTTAAATCA
Found at i:62839882 original size:21 final size:21
Alignment explanation
Indices: 62839826--62839892 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
62839816 TAAACATTAT
* *
62839826 ATCATAAGCCTTAAAACCCAAA
1 ATCATAAACCTT-AAACCTAAA
* * *
62839848 ATCATAGACATTAAACCTTAA
1 ATCATAAACCTTAAACCTAAA
62839869 ATCATAAACCTTAAATCCTAAA
1 ATCATAAACCTTAAA-CCTAAA
62839891 AT
1 AT
62839893 ATTTTTTTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
21 20 0.56
22 16 0.44
ACGTcount: A:0.49, C:0.22, G:0.03, T:0.25
Consensus pattern (21 bp):
ATCATAAACCTTAAACCTAAA
Found at i:62840033 original size:40 final size:39
Alignment explanation
Indices: 62839988--62840129 Score: 176
Period size: 40 Copynumber: 3.6 Consensus size: 39
62839978 GCGTTTTCTG
*
62839988 AAAAGCACCGCTAATGCTCGATCTTTCGCAGCGTTTTTCA
1 AAAAGCGCCGCTAATGCTCGATCTTT-GCAGCGTTTTTCA
* ** * * *
62840028 AAAAGCGCCGCTAATTCTCGATCTATTGTGGCATTTTCCT
1 AAAAGCGCCGCTAATGCTCGATCT-TTGCAGCGTTTTTCA
* *
62840068 AAAAGCGCCGCTAGTGCTCGATCTTTAGCTGCGTTTTTCA
1 AAAAGCGCCGCTAATGCTCGATCTTT-GCAGCGTTTTTCA
62840108 AAAAGCGCCGCTAATGCTCGAT
1 AAAAGCGCCGCTAATGCTCGAT
62840130 ATTAAAAATA
Statistics
Matches: 85, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 2 0.02
40 81 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (39 bp):
AAAAGCGCCGCTAATGCTCGATCTTTGCAGCGTTTTTCA
Found at i:62840692 original size:27 final size:27
Alignment explanation
Indices: 62840639--62840693 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
62840629 GATTTTTAAT
*
62840639 TATTAAAATAATAAAAATATAATTATA
1 TATTAAAATAATAAAAATATAAATATA
*
62840666 TATTAAAATACTATAAAAT-TAAATATA
1 TATTAAAATAATA-AAAATATAAATATA
62840693 T
1 T
62840694 TTGTCTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 20 0.80
28 5 0.20
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (27 bp):
TATTAAAATAATAAAAATATAAATATA
Found at i:62844149 original size:31 final size:29
Alignment explanation
Indices: 62844114--62844182 Score: 77
Period size: 34 Copynumber: 2.2 Consensus size: 29
62844104 CCCATATCAT
*
62844114 TTTTTA-AAAAATTTAAAATATATTTATATTA
1 TTTTTATAAAAATTTAAAAT-T-TTAATA-TA
62844145 TTTTTAATTAAAAATTTAAAATTTTAATATA
1 TTTTT-A-TAAAAATTTAAAATTTTAATATA
62844176 TTTTTAT
1 TTTTTAT
62844183 TTATTAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
29 1 0.03
30 1 0.03
31 12 0.35
32 6 0.18
33 1 0.03
34 13 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (29 bp):
TTTTTATAAAAATTTAAAATTTTAATATA
Found at i:62844191 original size:34 final size:34
Alignment explanation
Indices: 62844120--62844181 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
62844110 TCATTTTTTA
62844120 AAAAATTTAAAATATATTTATATTATTTTTAATT
1 AAAAATTTAAAATATATTTATATTATTTTTAATT
*
62844154 AAAAATTTAAAAT-T-TTAATA-TATTTTTA
1 AAAAATTTAAAATATATTTATATTATTTTTA
62844182 TTTATTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 8 0.30
32 5 0.19
33 1 0.04
34 13 0.48
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (34 bp):
AAAAATTTAAAATATATTTATATTATTTTTAATT
Found at i:62845706 original size:58 final size:58
Alignment explanation
Indices: 62845599--62845708 Score: 132
Period size: 58 Copynumber: 1.9 Consensus size: 58
62845589 CCGATGGTAG
* * * *
62845599 TGATTTGACACAGTTTTCATCACGTAAGTTCAAGTCGAGTAGGCTTGGTTGAAAGCTA
1 TGATTCGACACAGTTTTCATCACGTAAATTCAAGTCGAGTAGACCTGGTTGAAAGCTA
* * * *
62845657 TGATTCGACAC-GATTTTCATTATGTAAATTCAAGTTGATTAGACCTGGTTGA
1 TGATTCGACACAG-TTTTCATCACGTAAATTCAAGTCGAGTAGACCTGGTTGA
62845709 CGTGATTTGA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
57 1 0.02
58 42 0.98
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (58 bp):
TGATTCGACACAGTTTTCATCACGTAAATTCAAGTCGAGTAGACCTGGTTGAAAGCTA
Found at i:62845930 original size:49 final size:49
Alignment explanation
Indices: 62845825--62845947 Score: 124
Period size: 49 Copynumber: 2.5 Consensus size: 49
62845815 TTGAAGCAAG
* * * * *
62845825 ATCTTTTTACTTTCCGTAAGCCTCCATCCATGCGTTTGGGAGTAGGGTC
1 ATCTTATTACTTTCCGTAAGCCTCCATCCATGCATCTAGGAATAGGGTC
* * *
62845874 A-CTTTATTACTTTCCATAAGCCTCTC-TCCATGTATCTAGGAATAGGGTT
1 ATC-TTATTACTTTCCGTAAGCCTC-CATCCATGCATCTAGGAATAGGGTC
* *
62845923 ATCTTATTACCTTCTGTAAGCCTCC
1 ATCTTATTACTTTCCGTAAGCCTCC
62845948 CCTTATACAT
Statistics
Matches: 60, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
48 2 0.03
49 56 0.93
50 2 0.03
ACGTcount: A:0.20, C:0.25, G:0.16, T:0.38
Consensus pattern (49 bp):
ATCTTATTACTTTCCGTAAGCCTCCATCCATGCATCTAGGAATAGGGTC
Found at i:62846028 original size:98 final size:95
Alignment explanation
Indices: 62845926--62846144 Score: 215
Period size: 98 Copynumber: 2.2 Consensus size: 95
62845916 TAGGGTTATC
* * *
62845926 TTATTACCTTCTGTAAGCCTCCCCTTATACATCTGGGAGTAACGTCATGTTATCACTTTTCGTAA
1 TTATTACCTT-TGTAAGCCTCCCC-T-TACATCTAGGAATAACGTCATATTATCACTTTTCGTAA
*
62845991 GCGTCCCCCTATACGTTTAGGAGCA-AGGTCACT
63 GCCTCCCCCTATACGTTTAGGAGCAGA-GTCACT
* * * * * * * *
62846024 TTATTACTTTTTTTAAGTCTTACCCCTTGCGTCTAGGAATAAGGTTATATTATTACTTTTCGTAA
1 TTATTAC-CTTTGTAAG-CCT-CCCCTTACATCTAGGAATAACGTCATATTATCACTTTTCGTAA
** * *
62846089 GCCTCCCCCTATGTGTTTGGGAGCAGAGTTACT
63 GCCTCCCCCTATACGTTTAGGAGCAGAGTCACT
62846122 TTATTACCTTTCGTAAGCCTCCC
1 TTATTACCTTT-GTAAGCCTCCC
62846145 TCTATGCTAT
Statistics
Matches: 97, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
96 3 0.03
97 5 0.05
98 79 0.81
99 6 0.06
100 4 0.04
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.38
Consensus pattern (95 bp):
TTATTACCTTTGTAAGCCTCCCCTTACATCTAGGAATAACGTCATATTATCACTTTTCGTAAGCC
TCCCCCTATACGTTTAGGAGCAGAGTCACT
Found at i:62846033 original size:49 final size:49
Alignment explanation
Indices: 62845975--62846194 Score: 198
Period size: 49 Copynumber: 4.5 Consensus size: 49
62845965 TAACGTCATG
* * * *
62845975 TTATCACTTTTCGTAAGCGTCCCCCTATACGTTTAGGAGCAAGGTCACT
1 TTATTACTTTTCGTAAGCCTCCCCCTATGCGTTTAGGAGCAAGGTTACT
** * * * **
62846024 TTATTACTTTTTTTAAGTCTTACCCCT-TGCGTCTAGGAATAAGGTTA-T
1 TTATTACTTTTCGTAAG-CCTCCCCCTATGCGTTTAGGAGCAAGGTTACT
* *
62846072 ATTATTACTTTTCGTAAGCCTCCCCCTATGTGTTTGGGAGC-AGAGTTACT
1 -TTATTACTTTTCGTAAGCCTCCCCCTATGCGTTTAGGAGCAAG-GTTACT
* * * *
62846122 TTATTACCTTTCGTAAGCCTCCCTCTATGC-TATTAGAAGCAGGGTTACT
1 TTATTACTTTTCGTAAGCCTCCCCCTATGCGT-TTAGGAGCAAGGTTACT
*
62846171 TTATTAC-TTACTGTAAGCCTCCCC
1 TTATTACTTTTC-GTAAGCCTCCCC
62846195 TGTGCATTTG
Statistics
Matches: 136, Mismatches: 27, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
48 14 0.10
49 113 0.83
50 9 0.07
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (49 bp):
TTATTACTTTTCGTAAGCCTCCCCCTATGCGTTTAGGAGCAAGGTTACT
Found at i:62852073 original size:19 final size:19
Alignment explanation
Indices: 62852049--62852139 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
62852039 AATCATATCT
*
62852049 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
62852068 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
62852086 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
62852103 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATA
62852122 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
62852140 TGAAGATTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 34 0.52
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:62852107 original size:35 final size:37
Alignment explanation
Indices: 62852049--62852139 Score: 141
Period size: 35 Copynumber: 2.5 Consensus size: 37
62852039 AATCATATCT
*
62852049 TCTAAGATTGTATATCATATCTAAGATTGCA-ATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCATATCACA
62852086 TCTAAGATTG-TATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGATATCATATCTAAGATTGCATATCACA
62852122 TCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
62852140 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
35 19 0.38
36 15 0.30
37 10 0.20
38 6 0.12
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (37 bp):
TCTAAGATTGATATCATATCTAAGATTGCATATCACA
Found at i:62852118 original size:14 final size:15
Alignment explanation
Indices: 62852063--62852118 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
62852053 AGATTGTATA
62852063 TCATATCTAAGATTG
1 TCATATCTAAGATTG
62852078 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
62852096 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
62852113 -CATATC
1 TCATATC
62852119 ACATCTAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:62853193 original size:119 final size:118
Alignment explanation
Indices: 62852753--62853385 Score: 1014
Period size: 119 Copynumber: 5.3 Consensus size: 118
62852743 CTGGAGTCTG
* * * * **
62852753 TTTGAGAACATCTGAGATTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACATAAGAATGT
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* * *
62852818 CAAATCATCTTGGATCTGGCTTCAGTACAAACATCTGAAGGTTAGATCTGCTTTG
66 CAAATCATCTTGGATCT-GCTTCAGTATAAACATCTGAA-GTTAGATCTGCTATA
*
62852873 TGTCTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGGTCCTTGTAAACACAAGAAT
1 T-T-TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAAT
62852938 ACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGTTTAGATCTGCTATA
64 ACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAG-TTAGATCTGCTATA
62852994 TGTCTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAAT
1 T-T-TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAAT
62853059 ACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGTTTAGATCTGCTATA
64 ACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAG-TTAGATCTGCTATA
62853115 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* * * *
62853180 CAAATTATCTTGGATCTGTTTCAGTATAAACATCTAAAAGCTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCT-GAAGTTAGATCTGCTATA
*
62853234 TTTGAGAACATCTAAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* *
62853299 CAAATCATCTTGGATCTGTTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTG-AAGTTAGATCTGCTATA
*
62853353 TTTGAGAACATCTGAGAGTCAAATCTACTATGT
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGT
62853386 TCAACTTGTT
Statistics
Matches: 488, Mismatches: 20, Indels: 11
0.94 0.04 0.02
Matches are distributed among these distances:
119 255 0.52
120 6 0.01
121 154 0.32
122 73 0.15
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.33
Consensus pattern (118 bp):
TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGTTAGATCTGCTATA
Found at i:62854414 original size:8 final size:8
Alignment explanation
Indices: 62854401--62854450 Score: 52
Period size: 8 Copynumber: 6.6 Consensus size: 8
62854391 GGCCTCTCCA
62854401 TTTTTCTT
1 TTTTTCTT
62854409 TTTTTC-T
1 TTTTTCTT
*
62854416 CTTTT-TT
1 TTTTTCTT
* *
62854423 ATTTT-TA
1 TTTTTCTT
62854430 TTTTTCTT
1 TTTTTCTT
62854438 TTTTTCTT
1 TTTTTCTT
62854446 TTTTT
1 TTTTT
62854451 TAAATAGAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
7 15 0.43
8 20 0.57
ACGTcount: A:0.04, C:0.10, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTTTCTT
Found at i:62854449 original size:21 final size:21
Alignment explanation
Indices: 62854409--62854448 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
62854399 CATTTTTCTT
62854409 TTTTTCTCTTTTTTATTTTTA
1 TTTTTCTCTTTTTTATTTTTA
*
62854430 TTTTTCT-TTTTTTCTTTTT
1 TTTTTCTCTTTTTTATTTTT
62854449 TTTAAATAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.05, C:0.10, G:0.00, T:0.85
Consensus pattern (21 bp):
TTTTTCTCTTTTTTATTTTTA
Found at i:62855835 original size:13 final size:13
Alignment explanation
Indices: 62855817--62855841 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62855807 CTGTAATTTG
62855817 TTTTTTTTTCTTC
1 TTTTTTTTTCTTC
62855830 TTTTTTTTTCTT
1 TTTTTTTTTCTT
62855842 TTGGCAACTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTTTTCTTC
Found at i:62858293 original size:17 final size:18
Alignment explanation
Indices: 62858252--62858346 Score: 131
Period size: 17 Copynumber: 5.3 Consensus size: 18
62858242 TAAAATTGTA
*
62858252 TATCATATCTGAGATTGC
1 TATCATATCTAAGATTGC
*
62858270 AATCATATCTAAGATTG-
1 TATCATATCTAAGATTGC
62858287 TATCATATCTAAGATTGC
1 TATCATATCTAAGATTGC
* *
62858305 AATCATATCCAAGATTG-
1 TATCATATCTAAGATTGC
62858322 TATCATATCTAAGATTGC
1 TATCATATCTAAGATTGC
62858340 ATATCAT
1 -TATCAT
62858347 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
17 31 0.46
18 30 0.45
19 6 0.09
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.37
Consensus pattern (18 bp):
TATCATATCTAAGATTGC
Found at i:62858294 original size:35 final size:35
Alignment explanation
Indices: 62858252--62858346 Score: 163
Period size: 35 Copynumber: 2.7 Consensus size: 35
62858242 TAAAATTGTA
* *
62858252 TATCATATCTGAGATTGCAATCATATCTAAGATTG
1 TATCATATCTAAGATTGCAATCATATCCAAGATTG
62858287 TATCATATCTAAGATTGCAATCATATCCAAGATTG
1 TATCATATCTAAGATTGCAATCATATCCAAGATTG
62858322 TATCATATCTAAGATTGCATATCAT
1 TATCATATCTAAGATTGCA-ATCAT
62858347 TGAAGATTAT
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
35 52 0.91
36 5 0.09
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.37
Consensus pattern (35 bp):
TATCATATCTAAGATTGCAATCATATCCAAGATTG
Found at i:62862946 original size:21 final size:21
Alignment explanation
Indices: 62862921--62862985 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
62862911 TAGCCTTCGG
62862921 GCTTCCGTTTAGCACTTGTGT
1 GCTTCCGTTTAGCACTTGTGT
*
62862942 GCTTCAG-TTAGC-CTTCG-G-
1 GCTTCCGTTTAGCACTT-GTGT
*
62862960 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTGTGT
62862981 GCTTC
1 GCTTC
62862986 AGCTAGACTT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
18 6 0.17
19 9 0.25
20 10 0.28
21 11 0.31
ACGTcount: A:0.11, C:0.26, G:0.23, T:0.40
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTGTGT
Found at i:62862946 original size:39 final size:39
Alignment explanation
Indices: 62862888--62863003 Score: 178
Period size: 39 Copynumber: 3.0 Consensus size: 39
62862878 TGGGGTTTCA
* * *
62862888 GTTTAGCTCTAATGAGCTTCAGTTAGCCTTCGGGCTTCC
1 GTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCC
*
62862927 GTTTAGCACTTGTGTGCTTCAGTTAGCCTTCGGGCTTCC
1 GTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCC
* *
62862966 GTTTAGCACTTATGTGCTTCAGCTAGACTTCGGGCTTC
1 GTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTC
62863004 AAATCACGAT
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 70 1.00
ACGTcount: A:0.14, C:0.25, G:0.24, T:0.37
Consensus pattern (39 bp):
GTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCC
Found at i:62868587 original size:45 final size:42
Alignment explanation
Indices: 62868515--62868635 Score: 109
Period size: 41 Copynumber: 2.8 Consensus size: 42
62868505 ATGTGTTCTT
* **
62868515 GTGTAAAACCACATCTGGGATGCTGGCATCGATATATGTGATTAC
1 GTGTAAAACCACATCTGAGACACTGGCATCGATAT-T-TGATT-C
* * *
62868560 GTGTAACACCACATCTGAGACATTGGCATCG-TATTTGATTT
1 GTGTAAAACCACATCTGAGACACTGGCATCGATATTTGATTC
* *** *
62868601 GTGTAAGACCTTGTCTGAGACAGTGGCATCGATAT
1 GTGTAAAACCACATCTGAGACACTGGCATCGATAT
62868636 GAGATAGCAT
Statistics
Matches: 64, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
41 26 0.41
42 8 0.12
43 1 0.02
44 3 0.05
45 26 0.41
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (42 bp):
GTGTAAAACCACATCTGAGACACTGGCATCGATATTTGATTC
Found at i:62871365 original size:56 final size:56
Alignment explanation
Indices: 62871298--62871409 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
62871288 AAACTTCTGG
*
62871298 TTTGTAGTAACATGTGACTCAATTGCACTAATATGCGTATAATATAAACCTGATGA
1 TTTGTAGTAACATGTGACTCAATTGCACTAATATGCGTAAAATATAAACCTGATGA
62871354 TTTGTAGTAACATGTGACTCAATTGCACTAATATGCGTAAAATATAAACCTGATGA
1 TTTGTAGTAACATGTGACTCAATTGCACTAATATGCGTAAAATATAAACCTGATGA
62871410 AAAAGTAGGT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (56 bp):
TTTGTAGTAACATGTGACTCAATTGCACTAATATGCGTAAAATATAAACCTGATGA
Found at i:62873784 original size:18 final size:19
Alignment explanation
Indices: 62873751--62873786 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
62873741 GATATGATAC
*
62873751 TAAAACTATTTAAAAAAAT
1 TAAAACTATATAAAAAAAT
62873770 TAAAA-TATATAAAAAAA
1 TAAAACTATATAAAAAAA
62873787 AATCAGGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (19 bp):
TAAAACTATATAAAAAAAT
Found at i:62874078 original size:22 final size:21
Alignment explanation
Indices: 62874043--62874169 Score: 69
Period size: 19 Copynumber: 6.5 Consensus size: 21
62874033 AAAAGGTATC
* *
62874043 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
62874064 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
62874087 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
62874106 TGC-AATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
**
62874124 T--GTATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
62874141 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
62874160 TGCAAATCAT
1 TACAAATCAT
62874170 TGAAGATTAT
Statistics
Matches: 93, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
17 15 0.16
18 15 0.16
19 35 0.38
21 3 0.03
22 15 0.16
23 10 0.11
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:62874086 original size:23 final size:22
Alignment explanation
Indices: 62874043--62874100 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
62874033 AAAAGGTATC
* *
62874043 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
62874064 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
62874087 TGCATATCATATCT
1 TACAAATCATATCT
62874101 AAGATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:62874103 original size:19 final size:19
Alignment explanation
Indices: 62874079--62874169 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
62874069 AATCATATCT
62874079 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
62874098 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
62874116 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
62874133 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
62874152 TCTAAGATTGCAAATCAT
1 TCTAAGATTGCATATCAT
62874170 TGAAGATTAT
Statistics
Matches: 68, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 36 0.53
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:62874135 original size:35 final size:37
Alignment explanation
Indices: 62874072--62874161 Score: 143
Period size: 35 Copynumber: 2.5 Consensus size: 37
62874062 ATTACAAAAT
62874072 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
62874108 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
62874143 CATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
62874162 CAAATCATTG
Statistics
Matches: 51, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
35 22 0.43
36 19 0.37
37 10 0.20
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:62874148 original size:14 final size:15
Alignment explanation
Indices: 62874093--62874148 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
62874083 AGATTGCATA
62874093 TCATATCTAAGATTG
1 TCATATCTAAGATTG
62874108 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
62874126 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
62874143 -CATATC
1 TCATATC
62874149 ATATCTAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:62874580 original size:45 final size:45
Alignment explanation
Indices: 62874524--62874717 Score: 255
Period size: 45 Copynumber: 4.3 Consensus size: 45
62874514 CGAAACCTGC
* * *
62874524 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACACTAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGT
*
62874569 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGC
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGT
* * *
62874614 T-TCTTCAATCTGCTCCTCGTCTAATACAGAGATGCCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGT
* * * * *
62874658 TATCTCCAATTTGCTCCCCGTCTAATACAGAGATGCCAAATTTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGT
* *
62874703 CATCTTGGATCTGCT
1 TATCTTCGATCTGCT
62874718 TCGATGTAAA
Statistics
Matches: 131, Mismatches: 17, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
44 40 0.31
45 91 0.69
ACGTcount: A:0.25, C:0.28, G:0.14, T:0.32
Consensus pattern (45 bp):
TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGT
Found at i:62874639 original size:89 final size:89
Alignment explanation
Indices: 62874532--62874698 Score: 262
Period size: 89 Copynumber: 1.9 Consensus size: 89
62874522 GCTATCTTTG
* * *
62874532 ATCTGCTCCCCGTCTAATACAGAGACACTAAATCTGTTATCTTCGATCTGCTCCCCGTCTAATAC
1 ATCTGCTCCCCGTCTAATACAGAGACACCAAATCTGTTATCTCCAATCTGCTCCCCGTCTAATAC
62874597 AGAGACGCCAAATCTGCTTCTTCA
66 AGAGACGCCAAATCTGCTTCTTCA
* ** *
62874621 ATCTGCTCCTCGTCTAATACAGAGATGCCAAATCTGTTATCTCCAATTTGCTCCCCGTCTAATAC
1 ATCTGCTCCCCGTCTAATACAGAGACACCAAATCTGTTATCTCCAATCTGCTCCCCGTCTAATAC
*
62874686 AGAGATGCCAAAT
66 AGAGACGCCAAAT
62874699 TTGTCATCTT
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
89 70 1.00
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.29
Consensus pattern (89 bp):
ATCTGCTCCCCGTCTAATACAGAGACACCAAATCTGTTATCTCCAATCTGCTCCCCGTCTAATAC
AGAGACGCCAAATCTGCTTCTTCA
Found at i:62874860 original size:78 final size:78
Alignment explanation
Indices: 62874731--62875025 Score: 439
Period size: 78 Copynumber: 3.8 Consensus size: 78
62874721 ATGTAAACAC
* * *
62874731 ATGAAGGTCAGATTTGCTATGCCTTCGATCTGCTCCCCGTCTACTACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
62874796 TAGATCTGCTTCA
66 TAGATCTGCTTCA
* ** *
62874809 ATGAAGGTCCA-ATCTGTTATGTCTTCGATCTGCTCCTTGTCTAATACAGAGATGCCAAATAATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
* * *
62874873 TTGGATCTACTTTA
65 TTAGATCTGCTTCA
*
62874887 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
62874952 TAGATCTGCTTCA
66 TAGATCTGCTTCA
* * **
62874965 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
62875026 TGTTTCTTCG
Statistics
Matches: 192, Mismatches: 23, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
77 2 0.01
78 188 0.98
79 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TAGATCTGCTTCA
Found at i:62875017 original size:156 final size:156
Alignment explanation
Indices: 62874731--62875964 Score: 514
Period size: 156 Copynumber: 7.5 Consensus size: 156
62874721 ATGTAAACAC
* *
62874731 ATGAAGGTCAGATTTGCTATGCCTTCGATCTGCTCCCCGTCTACTACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGCCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
* * *
62874796 TAGATCTGCTTCAATGAAGGTCCAATCTGTTATGTCTTCGATCTGCTCCTTGTCTAATACAGAGA
66 TAGATCTGCTTCAATGAAGGTCCAATCTGCTATGTCTTCGATCTGCTCCTCGTCGAATACAGAGA
62874861 TGCCAAATAATCTTGGATCTACTTTA
131 TGCCAAATAATCTTGGATCTACTTTA
* *
62874887 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGCCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
**
62874952 TAGATCTGCTTCAATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCT-CTCCGTCGAATATGGA
66 TAGATCTGCTTCAATGAAGGTCCA-ATCTGCTATGTCTTCGATCTGCTCCT-CGTCGAATACAGA
** * **
62875015 GATGCCAAATCTGTTTCTTCGAT-TTGTTCT-
129 GATGCCAAA--T-AATCTTGGATCTACTT-TA
* * * * * * * * *
62875045 CT-AACAGTACAGAGAT-TCCAAAT-CATCTTAGATCTGCT-TCAG-CGTAA-ACACGTGAAAGC
1 ATGAA-GGT-C--AGATCTGC-TATGC--CTTCGATCTGCTCCCCGTC-TAATACA-GAG-ATGC
* * * ** *
62875104 TAAATCTGCTATGTCTTCGATCTGCTCCTTGTCAACGCAAGGATGCCAAATCATATTGGATCTAC
56 CAAA--T-C-A--TCTTAGATCTG---C-T-TCAATG-AAGG-T-CC-AATC-TGCT--ATGT-C
* * * *** ** * * *
62875169 TTCGATGTAAAG-ACATC--CGAAT-GTTAGAT--CTGATATGTCTTTGATCTGCTCTCCGTCGA
102 TTCGATCT---GCTCCTCGTCGAATACAGAGATGCCAAATA-ATCTTGGATCTACT-T---T--A
* * * * * *** * **
62875228 AT-ATAGAGATGCCAAATCTG-T-T-TCTTCGATTTGTTCTCTAAC-AATACAGAAATGTTAAAT
1 ATGA-AG-G-T--CAGATCTGCTATGCCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAAT
* *
62875288 CATCTTAGATCTGCTTCAGCGTAAACACGTGAAAG-CCAAATCTGTTATGTCTTCGATCTGCTCC
61 CATCTTAGATCTGCTT---C----A-A--TGAAGGTCC-AATCTGCTATGTCTTCGATCTGCTCC
* ** *
62875352 TTGTC-AACGCA-AGGATGCCAAATCATCTTGGATCTACTTCGATGTGAAA
115 TCGTCGAATACAGA-GATGCCAAATAATCTTGGATCTAC-T---T-T---A
* * * * *
62875401 CATCCGAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATCA
1 -AT--GAAGGTCAGATCTGCTATGCCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCA
* *
62875466 TCTTAGATCTGCTTCAGCGTAAACACATGAAAG-CCAAATCTGCTATGTCTTCGATCTGCTCCTT
63 TCTTAGATCTGC-T-----T---CA-ATGAAGGTCC-AATCTGCTATGTCTTCGATCTGCTCCTC
* * * *
62875530 GT-AAACACA-AGGATGCTAAATCATCTTGGATCTACTTCGATGTGAAAA
117 GTCGAATACAGA-GATGCCAAATAATCTTGGATCTAC-T---T-T----A
* * * *
62875578 CATCCAAAGGTTAGATCTGATATGTCTTCGATCTGCT-CCCGTCTAATACAGAGATGCCAAATCA
1 -AT--GAAGGTCAGATCTGCTATGCCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCA
* * * * * *
62875642 TCTTGGATCTGCTTCAATGAAGGTCCAATCTGTTATGTCTTTGATCTGCTCCCCGTCTAATAAAG
63 TCTTAGATCTGCTTCAATGAAGGTCCAATCTGCTATGTCTTCGATCTGCTCCTCGTCGAATACAG
* * *
62875707 AGATGCCAAATCATCTTGGATCTGCTTCA
128 AGATGCCAAATAATCTTGGATCTACTTTA
* * *
62875736 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCTTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGCCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
* * *
62875801 TGGATCTGCTTCAATGAAGGT-CAGATCTGCTATGTCTTCGATCTACT-CTCCGTCGAATATAGA
66 TAGATCTGCTTCAATGAAGGTCCA-ATCTGCTATGTCTTCGATCTGCTCCT-CGTCGAATACAGA
* * *
62875864 GATGCCAAATCATCTTGGATCTGCTTCA
129 GATGCCAAATAATCTTGGATCTACTTTA
* *
62875892 ATGAAGGTCCA-ATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGCCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
*
62875956 TTGGATCTG
65 TTAGATCTG
62875965 ATTCGATGTG
Statistics
Matches: 848, Mismatches: 130, Indels: 200
0.72 0.11 0.17
Matches are distributed among these distances:
155 35 0.04
156 298 0.35
157 6 0.01
158 8 0.01
159 9 0.01
160 6 0.01
161 12 0.01
162 17 0.02
163 1 0.00
164 1 0.00
165 1 0.00
166 34 0.04
167 31 0.04
168 14 0.02
169 4 0.00
170 14 0.02
171 15 0.02
172 13 0.02
173 20 0.02
174 16 0.02
175 20 0.02
176 151 0.18
177 50 0.06
178 10 0.01
179 6 0.01
180 20 0.02
181 18 0.02
182 5 0.01
183 3 0.00
184 7 0.01
185 2 0.00
186 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.32
Consensus pattern (156 bp):
ATGAAGGTCAGATCTGCTATGCCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TAGATCTGCTTCAATGAAGGTCCAATCTGCTATGTCTTCGATCTGCTCCTCGTCGAATACAGAGA
TGCCAAATAATCTTGGATCTACTTTA
Found at i:62875356 original size:220 final size:219
Alignment explanation
Indices: 62874967--62875464 Score: 863
Period size: 220 Copynumber: 2.3 Consensus size: 219
62874957 CTGCTTCAAT
* *
62874967 GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATCTGTTTC
* *
62875032 TTCGATTTGTTCTCTAACAGTACAGAGATTCCAAATCATCTTAGATCTGCTTCAGCGTAAACACG
66 TTCGATTTGTTCTCTAACAATACAGAAATTCCAAATCATCTTAGATCTGCTTCAGCGTAAACACG
*
62875097 TGAAAGCTAAATCTGCTATGTCTTCGATCTGCTCCTTGTCAACGCAAGGATGCCAAATCATATTG
131 TGAAAGCCAAATCTGCTATGTCTTCGATCTGCTCCTTGTCAACGCAAGGATGCCAAATCATATTG
62875162 GATCTACTTCGATGTAAAGACATCC
196 GATCTACTTCGATGTAAA-ACATCC
* * *
62875187 GAATGTTAGATCTGATATGTCTTTGATCTGCTCTCCGTCGAATATAGAGATGCCAAATCTGTTTC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATCTGTTTC
*
62875252 TTCGATTTGTTCTCTAACAATACAGAAATGT-TAAATCATCTTAGATCTGCTTCAGCGTAAACAC
66 TTCGATTTGTTCTCTAACAATACAGAAAT-TCCAAATCATCTTAGATCTGCTTCAGCGTAAACAC
* *
62875316 GTGAAAGCCAAATCTGTTATGTCTTCGATCTGCTCCTTGTCAACGCAAGGATGCCAAATCATCTT
130 GTGAAAGCCAAATCTGCTATGTCTTCGATCTGCTCCTTGTCAACGCAAGGATGCCAAATCATATT
*
62875381 GGATCTACTTCGATGTGAAACATCC
195 GGATCTACTTCGATGTAAAACATCC
62875406 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATC
62875465 ATCTTAGATC
Statistics
Matches: 262, Mismatches: 15, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
219 62 0.24
220 199 0.76
221 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.32
Consensus pattern (219 bp):
GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATCTGTTTC
TTCGATTTGTTCTCTAACAATACAGAAATTCCAAATCATCTTAGATCTGCTTCAGCGTAAACACG
TGAAAGCCAAATCTGCTATGTCTTCGATCTGCTCCTTGTCAACGCAAGGATGCCAAATCATATTG
GATCTACTTCGATGTAAAACATCC
Found at i:62875432 original size:88 final size:91
Alignment explanation
Indices: 62875327--62876042 Score: 422
Period size: 78 Copynumber: 8.6 Consensus size: 91
62875317 TGAAAGCCAA
* * *
62875327 ATCTGTTATGTCTTCGATCTGCTCCTTGTC-AACGCAAG-GATGCCAAATCATCTTGGATCTACT
1 ATCTGCTATGTCTTCGATCTGCTCCTCGTCGAACACAAGAGATGCCAAATCATCTTGGATCTACT
62875390 TCGATGTG-AAACATCCGAAGGTTAG
66 TCGATGTGAAAACATCCGAAGGTTAG
* * * *
62875415 ATCTGCTATGTCTTCGATCTGCT-CTCCGTCGAATA-TAGAGATGCCAAATCATCTTAGATCTGC
1 ATCTGCTATGTCTTCGATCTGCTCCT-CGTCGAACACAAGAGATGCCAAATCATCTTGGATCTAC
* * ** *
62875478 TTC-A-GCGTAAACACAT--GAAAGCCAA
65 TTCGATGTG-AAA-ACATCCGAAGGTTAG
* * *
62875503 ATCTGCTATGTCTTCGATCTGCTCCTTGT-AAACACAAG-GATGCTAAATCATCTTGGATCTACT
1 ATCTGCTATGTCTTCGATCTGCTCCTCGTCGAACACAAGAGATGCCAAATCATCTTGGATCTACT
*
62875566 TCGATGTGAAAACATCCAAAGGTTAG
66 TCGATGTGAAAACATCCGAAGGTTAG
* * * *
62875592 ATCTGATATGTCTTCGATCTGCTCC-CGTCTAATAC-AGAGATGCCAAATCATCTTGGATCTGCT
1 ATCTGCTATGTCTTCGATCTGCTCCTCGTCGAACACAAGAGATGCCAAATCATCTTGGATCTACT
*
62875655 TC---------A-AT--GAAGGTCCA-
66 TCGATGTGAAAACATCCGAAGGT-TAG
* * * * * *
62875669 ATCTGTTATGTCTTTGATCTGCTCCCCGTCTAATA-AAGAGATGCCAAATCATCTTGGATCTGCT
1 ATCTGCTATGTCTTCGATCTGCTCCTCGTCGAACACAAGAGATGCCAAATCATCTTGGATCTACT
*
62875733 TC---------A-AT--GAAGGTCAG
66 TCGATGTGAAAACATCCGAAGGTTAG
* * * * * *
62875747 ATCTGCTGTGTCTTCGATCTGCTCCCCTTCTAATAC-AGAGATGCCAAATCATCTTGGATCTGCT
1 ATCTGCTATGTCTTCGATCTGCTCCTCGTCGAACACAAGAGATGCCAAATCATCTTGGATCTACT
*
62875811 TC---------A-AT--GAAGGTCAG
66 TCGATGTGAAAACATCCGAAGGTTAG
* * * *
62875825 ATCTGCTATGTCTTCGATCTACT-CTCCGTCGAATA-TAGAGATGCCAAATCATCTTGGATCTGC
1 ATCTGCTATGTCTTCGATCTGCTCCT-CGTCGAACACAAGAGATGCCAAATCATCTTGGATCTAC
*
62875888 TTC---------A-AT--GAAGGTCCA-
65 TTCGATGTGAAAACATCCGAAGGT-TAG
* * * *
62875903 ATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATAC-AGAGATGCCAAATCATCTTGGATCTGA-
1 ATCTGCTATGTCTTCGATCTGCTCCTCGTCGAACACAAGAGATGCCAAATCATCTTGGATCT-AC
62875966 TTCGATGTGAAAACATCCGAAGGTTAG
65 TTCGATGTGAAAACATCCGAAGGTTAG
* * * **
62875993 ATCTACTATGTCTTAGATCTGCT-CTCCGTCGAATA-TGGAGATGCCAAATC
1 ATCTGCTATGTCTTCGATCTGCTCCT-CGTCGAACACAAGAGATGCCAAATC
62876043 TGTTTCTTCG
Statistics
Matches: 532, Mismatches: 56, Indels: 78
0.80 0.08 0.12
Matches are distributed among these distances:
77 31 0.06
78 246 0.46
79 5 0.01
80 1 0.00
87 36 0.07
88 70 0.13
89 92 0.17
90 51 0.10
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (91 bp):
ATCTGCTATGTCTTCGATCTGCTCCTCGTCGAACACAAGAGATGCCAAATCATCTTGGATCTACT
TCGATGTGAAAACATCCGAAGGTTAG
Found at i:62875633 original size:176 final size:176
Alignment explanation
Indices: 62875270--62875657 Score: 643
Period size: 176 Copynumber: 2.2 Consensus size: 176
62875260 GTTCTCTAAC
* ** * *
62875270 AATACAGAAATGTTAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGTTA
1 AATACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACATGAAAGCCAAATCTGCTA
* *
62875335 TGTCTTCGATCTGCTCCTTGTCAACGCAAGGATGCCAAATCATCTTGGATCTACTTCGATGTGAA
66 TGTCTTCGATCTGCTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTACTTCGATGTGAA
* *
62875400 ACATCCGAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCG
131 ACATCCAAAGGTTAGATCTGATATGTCTTCGATCTGCTCTCCGTCG
*
62875446 AATATAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACATGAAAGCCAAATCTGCTA
1 AATACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACATGAAAGCCAAATCTGCTA
*
62875511 TGTCTTCGATCTGCTCCTTGTAAACACAAGGATGCTAAATCATCTTGGATCTACTTCGATGTGAA
66 TGTCTTCGATCTGCTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTACTTCGATGTG-A
*
62875576 AACATCCAAAGGTTAGATCTGATATGTCTTCGATCTGCTC-CCGTCT
130 AACATCCAAAGGTTAGATCTGATATGTCTTCGATCTGCTCTCCGTCG
*
62875622 AATACAGAGATGCCAAATCATCTTGGATCTGCTTCA
1 AATACAGAGATGCCAAATCATCTTAGATCTGCTTCA
62875658 ATGAAGGTCC
Statistics
Matches: 197, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
176 158 0.80
177 39 0.20
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (176 bp):
AATACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACATGAAAGCCAAATCTGCTA
TGTCTTCGATCTGCTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTACTTCGATGTGAA
ACATCCAAAGGTTAGATCTGATATGTCTTCGATCTGCTCTCCGTCG
Done.