Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold7
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: 6555642
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 349864 characters in sequence are not A, C, G, or T
File 36 of 37
Found at i:6264675 original size:107 final size:108
Alignment explanation
Indices: 6264547--6264798 Score: 334
Period size: 112 Copynumber: 2.3 Consensus size: 108
6264537 TTAATGTAGT
*
6264547 TTTTTTAAAATTTAATTAAATATCATTTTTATTTTATTATAAAATAATAAAAAATACTTTTT-A-
1 TTTTTTAAAATTTAATTAAATATTATTTTTATTTTATTA-AAAATAATAAAAAATACTTTTTAAT
*
6264610 TT-TTTATAA-AAACATATAATTAATATTTTAATTT-TTTAGAGTAA
65 TTATTTATAATAAA-A-ATAATTAATATTTTAATTTATTCA-AGTAA
* *
6264654 TTTTTTAAAATTTAATTAAATATTATTTTTAATTTTATTAAAAATAATAATAAATCCTTTTTAAT
1 TTTTTTAAAATTTAATTAAATATTATTTTT-ATTTTATTAAAAATAATAAAAAATACTTTTTAAT
* *
6264719 TTAATTTTTAATTTAAAAATAATTAATATTTTAATTTATTCATGTAA
65 TT-ATTTATAA--TAAAAATAATTAATATTTTAATTTATTCAAGTAA
*
6264766 TTTTTTAAAAATTAATTAAATATTATTTTTATT
1 TTTTTTAAAATTTAATTAAATATTATTTTTATT
6264799 ATAAAATAAT
Statistics
Matches: 129, Mismatches: 7, Indels: 14
0.86 0.05 0.09
Matches are distributed among these distances:
107 49 0.38
108 10 0.08
109 2 0.02
111 9 0.07
112 52 0.40
113 4 0.03
114 3 0.02
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (108 bp):
TTTTTTAAAATTTAATTAAATATTATTTTTATTTTATTAAAAATAATAAAAAATACTTTTTAATT
TATTTATAATAAAAATAATTAATATTTTAATTTATTCAAGTAA
Found at i:6264841 original size:112 final size:111
Alignment explanation
Indices: 6264547--6264838 Score: 282
Period size: 112 Copynumber: 2.7 Consensus size: 111
6264537 TTAATGTAGT
* * * * * *
6264547 TTTTTTAAAATTTAATTAAATATCATTTTTATTTTATTATAAAATAATAAAAAAT-ACTTTT---
1 TTTTTTAAAAATTAATTAAATATTATTTTTAATTTA-TAAAAAATAATAATAAATCATTTTTAAC
** *
6264608 T--ATTTTT-ATAAAAACATATAATTAATATTTTAATTTTTTAGAGTAA
65 TAAATTTTTAATTTAAA-A-ATAATTAATATTTTAATTTTTCAGAGTAA
* * * *
6264654 TTTTTTAAAATTTAATTAAATATTATTTTTAATTTTATTAAAAATAATAATAAATCCTTTTTAAT
1 TTTTTTAAAAATTAATTAAATATTATTTTTAA-TTTATAAAAAATAATAATAAATCATTTTTAAC
* *
6264719 TTAATTTTTAATTTAAAAATAATTAATATTTTAATTTATTCA-TGTAA
65 TAAATTTTTAATTTAAAAATAATTAATATTTTAATTT-TTCAGAGTAA
* *
6264766 TTTTTTAAAAATTAATTAAATATTATTTTT-A-TTATAAAATAATAATTAATATATTATTATTT-
1 TTTTTTAAAAATTAATTAAATATTATTTTTAATTTATAAAA-AATAA-TAATAAATCATT-TTTA
6264828 ACTAAATTTTT
63 ACTAAATTTTT
6264839 TAAATTTTAT
Statistics
Matches: 155, Mismatches: 18, Indels: 20
0.80 0.09 0.10
Matches are distributed among these distances:
107 45 0.29
108 8 0.05
109 7 0.05
110 5 0.03
111 20 0.13
112 55 0.35
113 10 0.06
114 5 0.03
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.53
Consensus pattern (111 bp):
TTTTTTAAAAATTAATTAAATATTATTTTTAATTTATAAAAAATAATAATAAATCATTTTTAACT
AAATTTTTAATTTAAAAATAATTAATATTTTAATTTTTCAGAGTAA
Found at i:6266354 original size:22 final size:22
Alignment explanation
Indices: 6266314--6266356 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
6266304 GACTTTAAAT
* *
6266314 ACTGACGAGTTTGGCTCCAAAC
1 ACTGACGAATTTAGCTCCAAAC
*
6266336 ACTGACGAATTTAGTTCCAAA
1 ACTGACGAATTTAGCTCCAAA
6266357 AACTAATACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.26
Consensus pattern (22 bp):
ACTGACGAATTTAGCTCCAAAC
Found at i:6268936 original size:22 final size:22
Alignment explanation
Indices: 6268910--6268951 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
6268900 TTATGTTATT
6268910 TAAAT-TTAATTATAAAAATATA
1 TAAATATTAA-TATAAAAATATA
6268932 TAAATATTAATATAAAAATA
1 TAAATATTAATATAAAAATA
6268952 AATATTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAATATTAATATAAAAATATA
Found at i:6269115 original size:18 final size:19
Alignment explanation
Indices: 6269081--6269117 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
6269071 TCTTAATGAC
6269081 AAATTTTAAAAAGAATAAA
1 AAATTTTAAAAAGAATAAA
6269100 AAATTTTAAAAA-AATAAA
1 AAATTTTAAAAAGAATAAA
6269118 TCATTCATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (19 bp):
AAATTTTAAAAAGAATAAA
Found at i:6277434 original size:13 final size:13
Alignment explanation
Indices: 6277411--6277451 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
6277401 CAAAATTTTT
6277411 AAAAAATATTTGA
1 AAAAAATATTTGA
6277424 AAATAAA-ATTT-A
1 AAA-AAATATTTGA
*
6277436 AAAAAATTTTTGA
1 AAAAAATATTTGA
6277449 AAA
1 AAA
6277452 GAACATTAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
11 3 0.12
12 7 0.29
13 11 0.46
14 3 0.12
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (13 bp):
AAAAAATATTTGA
Found at i:6277447 original size:25 final size:26
Alignment explanation
Indices: 6277402--6277451 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
6277392 GACTTTGTTC
*
6277402 AAAATTTTTAAAAAATATTTGAAAAT
1 AAAATTTTAAAAAAATATTTGAAAAT
*
6277428 AAAA-TTTAAAAAAATTTTTGAAAA
1 AAAATTTTAAAAAAATATTTGAAAA
6277452 GAACATTAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (26 bp):
AAAATTTTAAAAAAATATTTGAAAAT
Found at i:6278716 original size:22 final size:22
Alignment explanation
Indices: 6278682--6278733 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
6278672 GTTTACCAAT
* * *
6278682 CTTATTTTCATAATTATCTCTAA
1 CTTAATTTAATAATTATATC-AA
6278705 -TTAATTTAATAATTATATCAA
1 CTTAATTTAATAATTATATCAA
6278726 CTTAATTT
1 CTTAATTT
6278734 TACCCAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 2 0.08
22 23 0.92
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.52
Consensus pattern (22 bp):
CTTAATTTAATAATTATATCAA
Found at i:6280325 original size:69 final size:69
Alignment explanation
Indices: 6280215--6280357 Score: 207
Period size: 69 Copynumber: 2.1 Consensus size: 69
6280205 CACAAATGTT
* *
6280215 TAATCAACAGTAAGATCAGCAGGCGAATATACGGCTGTGGCTCGGCC-AATGACATGCAATGCAA
1 TAATCAACAGTAAGATCAGCAAGCGAATATACGGCTGTGGCTCAGCCAAATGACATGCAATGCAA
6280279 AGGC
66 AGGC
* * *
6280283 TAATCAACCGTAAGACTCAGCAAGCGAATGTACGGCTTTGGCTCAGCCAAATGACATGCAATGCA
1 TAATCAACAGTAAGA-TCAGCAAGCGAATATACGGCTGTGGCTCAGCCAAATGACATGCAATGCA
* *
6280348 ATGTC
65 AAGGC
6280353 TAATC
1 TAATC
6280358 GGGGACAAGC
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
68 14 0.21
69 28 0.42
70 24 0.36
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (69 bp):
TAATCAACAGTAAGATCAGCAAGCGAATATACGGCTGTGGCTCAGCCAAATGACATGCAATGCAA
AGGC
Found at i:6280450 original size:6 final size:6
Alignment explanation
Indices: 6280439--6280507 Score: 56
Period size: 6 Copynumber: 11.8 Consensus size: 6
6280429 TAGTTTAAAA
* * *
6280439 AAATTT AAATTTT AAGTTT AGATTT GAATTT AAA-TT AAA-TT AAATTT
1 AAATTT AAA-TTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
*
6280486 ATTATTT --ATTT AAATTT AAATT
1 A-AATTT AAATTT AAATTT AAATT
6280508 ATTATTTAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
4 4 0.08
5 10 0.20
6 28 0.55
7 9 0.18
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (6 bp):
AAATTT
Found at i:6280486 original size:28 final size:28
Alignment explanation
Indices: 6280439--6280508 Score: 72
Period size: 28 Copynumber: 2.4 Consensus size: 28
6280429 TAGTTTAAAA
*
6280439 AAATTTAAATTTTAAGTTTA-GATTTGAATTT
1 AAATTTAAA--TTAAATTTATGATTT--ATTT
*
6280470 AAA-TTAAATTAAATTTATTATTTATTT
1 AAATTTAAATTAAATTTATGATTTATTT
6280497 AAATTTAAATTA
1 AAATTTAAATTA
6280509 TTATTTAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
27 7 0.20
28 16 0.46
29 4 0.11
30 5 0.14
31 3 0.09
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (28 bp):
AAATTTAAATTAAATTTATGATTTATTT
Found at i:6280498 original size:22 final size:22
Alignment explanation
Indices: 6280473--6280515 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
6280463 TGAATTTAAA
6280473 TTAAA-TTAAATTTATTATTTAT
1 TTAAATTTAAA-TTATTATTTAT
6280495 TTAAATTTAAATTATTATTTA
1 TTAAATTTAAATTATTATTTA
6280516 AAATATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TTAAATTTAAATTATTATTTAT
Found at i:6280510 original size:19 final size:19
Alignment explanation
Indices: 6280478--6280556 Score: 65
Period size: 20 Copynumber: 4.1 Consensus size: 19
6280468 TTAAATTAAA
6280478 TTAAATTT--ATTATTTAT
1 TTAAATTTAAATTATTTAT
6280495 TTAAATTTAAATTA-TTAT
1 TTAAATTTAAATTATTTAT
* *
6280513 TTAAAATATTAAAATATTATTT
1 TT-AAAT-TTAAATTATT-TAT
* *
6280535 TTATATTAAAATTTATTTAT
1 TTAAATTTAAA-TTATTTAT
6280555 TT
1 TT
6280557 TATAATTAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
17 8 0.16
18 6 0.12
19 8 0.16
20 15 0.31
21 8 0.16
22 4 0.08
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTAAATTTAAATTATTTAT
Found at i:6280543 original size:27 final size:27
Alignment explanation
Indices: 6280509--6280604 Score: 71
Period size: 32 Copynumber: 3.6 Consensus size: 27
6280499 ATTTAAATTA
6280509 TTAT-TTAAAATATTAAAATATTATTT
1 TTATATTAAAATATTAAAATATTATTT
6280535 TTATATTAAAAT-TT---AT-TTA-TT
1 TTATATTAAAATATTAAAATATTATTT
*
6280556 TTATAATTAAATATAAATTAAAATATTTTATT
1 TTAT-ATTAAA-AT--ATTAAAATATTAT-TT
*
6280588 TTATTTTTAAAATATTA
1 TTA-TATTAAAATATTA
6280605 TTTTTAATTA
Statistics
Matches: 55, Mismatches: 2, Indels: 23
0.69 0.03 0.29
Matches are distributed among these distances:
21 6 0.11
22 9 0.16
23 4 0.07
26 8 0.15
27 7 0.13
29 6 0.11
30 2 0.04
31 2 0.04
32 10 0.18
33 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (27 bp):
TTATATTAAAATATTAAAATATTATTT
Found at i:6280557 original size:21 final size:19
Alignment explanation
Indices: 6280518--6280615 Score: 64
Period size: 19 Copynumber: 5.4 Consensus size: 19
6280508 ATTATTTAAA
6280518 ATATTAAAATATTATTTTT
1 ATATTAAAATATTATTTTT
6280537 ATATTAAAAT-TTA--TTT
1 ATATTAAAATATTATTTTT
* * ** *
6280553 AT-TTTATA-ATTAAATAT
1 ATATTAAAATATTATTTTT
* *
6280570 AAATTAAAATATTTTATTTT
1 ATATTAAAATATTAT-TTTT
*
6280590 ATTTTTAAAATATTATTTTT
1 A-TATTAAAATATTATTTTT
6280610 A-ATTAA
1 ATATTAA
6280616 GTTGAGTCAT
Statistics
Matches: 58, Mismatches: 14, Indels: 15
0.67 0.16 0.17
Matches are distributed among these distances:
15 7 0.12
16 5 0.09
17 3 0.05
18 11 0.19
19 13 0.22
20 8 0.14
21 11 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
ATATTAAAATATTATTTTT
Found at i:6282515 original size:2 final size:2
Alignment explanation
Indices: 6282504--6282533 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6282494 ATGTTTTATG
6282504 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6282534 TTTTCTTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6282625 original size:18 final size:19
Alignment explanation
Indices: 6282594--6282630 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
6282584 TTTTTACATA
6282594 ATTTATTAAGTTTATAAAT
1 ATTTATTAAGTTTATAAAT
*
6282613 ATTTATTTA-TTTATAAAT
1 ATTTATTAAGTTTATAAAT
6282631 TAATATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (19 bp):
ATTTATTAAGTTTATAAAT
Found at i:6282813 original size:12 final size:12
Alignment explanation
Indices: 6282798--6282823 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6282788 TCTAATAAAG
6282798 TTTTTAATATCA
1 TTTTTAATATCA
6282810 TTTTTAATATCA
1 TTTTTAATATCA
6282822 TT
1 TT
6282824 ATAATAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTTTAATATCA
Found at i:6282962 original size:17 final size:17
Alignment explanation
Indices: 6282940--6282980 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
6282930 ACTGTACATG
*
6282940 ATATTATTAAATTTTAA
1 ATATTATTAAATTTAAA
6282957 ATATTATTAAATTTAAA
1 ATATTATTAAATTTAAA
6282974 ACTATTA
1 A-TATTA
6282981 AAATAATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (17 bp):
ATATTATTAAATTTAAA
Found at i:6282984 original size:16 final size:17
Alignment explanation
Indices: 6282944--6282984 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
6282934 TACATGATAT
* *
6282944 TATTAAATTTTAAATAT
1 TATTAAAATTTAAATAC
6282961 TATT-AAATTTAAA-AC
1 TATTAAAATTTAAATAC
6282976 TATTAAAAT
1 TATTAAAAT
6282985 AATTATGCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 5 0.24
16 12 0.57
17 4 0.19
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
TATTAAAATTTAAATAC
Found at i:6284466 original size:21 final size:20
Alignment explanation
Indices: 6284438--6284478 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
6284428 TAAAAAATTT
6284438 ATTTA-TTTATTTAAATTTAA
1 ATTTATTTTATTT-AATTTAA
6284458 ATTTCATTTTATTTAATTTAA
1 ATTT-ATTTTATTTAATTTAA
6284479 TAAAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 8 0.42
22 7 0.37
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTTATTTTATTTAATTTAA
Found at i:6284486 original size:27 final size:24
Alignment explanation
Indices: 6284428--6284489 Score: 63
Period size: 27 Copynumber: 2.5 Consensus size: 24
6284418 TTATTCAAAT
6284428 TAAAAAATTTATTTATTTATTTAA
1 TAAAAAATTTATTTATTTATTTAA
**
6284452 -ATTTAAATTTCATTTTATTTAATTTAA
1 TA-AAAAATTT-A-TTTATTT-ATTTAA
6284479 TAAAAAATTTA
1 TAAAAAATTTA
6284490 ATAATTTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
23 1 0.03
24 6 0.21
25 1 0.03
26 8 0.28
27 12 0.41
28 1 0.03
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (24 bp):
TAAAAAATTTATTTATTTATTTAA
Found at i:6284536 original size:16 final size:15
Alignment explanation
Indices: 6284513--6284570 Score: 71
Period size: 16 Copynumber: 3.7 Consensus size: 15
6284503 GATTAATATA
*
6284513 AAATTAAAATAACTT
1 AAATTAAAATAATTT
6284528 AAATCTAAAAGTAATTT
1 AAAT-TAAAA-TAATTT
6284545 AAATTCAAAATAATTT
1 AAATT-AAAATAATTT
*
6284561 AAATTTAAAT
1 AAATTAAAAT
6284571 TAAGTAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
15 8 0.21
16 17 0.45
17 13 0.34
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (15 bp):
AAATTAAAATAATTT
Found at i:6285150 original size:19 final size:19
Alignment explanation
Indices: 6285110--6285152 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
6285100 TACATGTTAA
* *
6285110 AATAATATTTTAAACATAT
1 AATAATATATTAAAAATAT
6285129 AATAATATATTAATAAAT-T
1 AATAATATATTAA-AAATAT
6285148 AATAA
1 AATAA
6285153 AATGTTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 18 0.86
20 3 0.14
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
AATAATATATTAAAAATAT
Found at i:6289729 original size:3 final size:3
Alignment explanation
Indices: 6289721--6289772 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
6289711 ATTGTGCATC
*
6289721 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6289769 ATA A
1 ATA A
6289773 GATAATTTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:6291247 original size:11 final size:11
Alignment explanation
Indices: 6291231--6291255 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6291221 AATAAGATAC
6291231 AATATAAAAAT
1 AATATAAAAAT
6291242 AATATAAAAAT
1 AATATAAAAAT
6291253 AAT
1 AAT
6291256 TTTTGTCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
AATATAAAAAT
Found at i:6291364 original size:17 final size:17
Alignment explanation
Indices: 6291342--6291382 Score: 75
Period size: 16 Copynumber: 2.5 Consensus size: 17
6291332 ACACAAAAAA
6291342 TTATAATTTTTATTAAG
1 TTATAATTTTTATTAAG
6291359 TTATAA-TTTTATTAAG
1 TTATAATTTTTATTAAG
6291375 TTATAATT
1 TTATAATT
6291383 GTTTTTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 16 0.70
17 7 0.30
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (17 bp):
TTATAATTTTTATTAAG
Found at i:6292004 original size:5 final size:5
Alignment explanation
Indices: 6291984--6292074 Score: 55
Period size: 5 Copynumber: 18.2 Consensus size: 5
6291974 TATCAAAAAT
* * * * *
6291984 AATAA AA-AA TATAA AATAA AATAA GATAT AATAA AA-AA ATTAA TA-AA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA
* *
6292031 AAT-A ATTAA AATAGA ATATAA CATAAA AATAA AATAA ATATAA A
1 AATAA AATAA AATA-A A-ATAA AAT-AA AATAA AATAA A-ATAA A
6292075 TTTTTATTCA
Statistics
Matches: 64, Mismatches: 14, Indels: 15
0.69 0.15 0.16
Matches are distributed among these distances:
4 12 0.19
5 37 0.58
6 12 0.19
7 3 0.05
ACGTcount: A:0.73, C:0.01, G:0.02, T:0.24
Consensus pattern (5 bp):
AATAA
Found at i:6292065 original size:42 final size:41
Alignment explanation
Indices: 6291969--6292075 Score: 94
Period size: 42 Copynumber: 2.6 Consensus size: 41
6291959 TAAAAATCGA
* * *
6291969 ATAAATATCAAAAATAAT-AAAA-AATATAAAATAAAATAAG
1 ATAAAAAT-AAAATTAATAAAAATAATATAAAATAAAATAAC
*
6292009 ATATAATAAAAAAATTAATAAAAATAAT-TAAAATAGAATATAAC
1 ATA-AA-AATAAAATTAATAAAAATAATATAAAATA-AA-ATAAC
* *
6292053 ATAAAAATAAAATAAATATAAAT
1 ATAAAAATAAAATTAATAAAAAT
6292076 TTTTATTCAC
Statistics
Matches: 54, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
40 3 0.06
41 10 0.19
42 27 0.50
43 7 0.13
44 7 0.13
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (41 bp):
ATAAAAATAAAATTAATAAAAATAATATAAAATAAAATAAC
Found at i:6292108 original size:27 final size:28
Alignment explanation
Indices: 6292026--6292111 Score: 79
Period size: 27 Copynumber: 3.0 Consensus size: 28
6292016 AAAAAAATTA
*
6292026 ATAAAAATAATTAAAATAGAA-TA-TAAC
1 ATAAAAATAAATAAAATA-AATTATTAAC
*
6292053 ATAAAAATAAAATAAATATAAATTTTTATTCAC
1 ATAAAAAT-AAATAAA-ATAAA---TTATTAAC
6292086 ATAAAAATAAAT-AAATAAATTATTAA
1 ATAAAAATAAATAAAATAAATTATTAA
6292112 TACTCCCCAC
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
27 14 0.29
28 8 0.16
29 3 0.06
30 5 0.10
31 2 0.04
32 6 0.12
33 11 0.22
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.31
Consensus pattern (28 bp):
ATAAAAATAAATAAAATAAATTATTAAC
Found at i:6292147 original size:20 final size:19
Alignment explanation
Indices: 6292122--6292163 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
6292112 TACTCCCCAC
*
6292122 TCTTTCTTTTTCCTTCCTTT
1 TCTTTCTTTCT-CTTCCTTT
*
6292142 TCTTTCTTTCTCTTCTTTT
1 TCTTTCTTTCTCTTCCTTT
6292161 TCT
1 TCT
6292164 CTCCTTCCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (19 bp):
TCTTTCTTTCTCTTCCTTT
Found at i:6292770 original size:21 final size:22
Alignment explanation
Indices: 6292740--6292782 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
6292730 GATTAATCGT
*
6292740 ATTTAATCATAAATTGTACAAA
1 ATTTAATCATAAATTATACAAA
*
6292762 ATTT-ATCATATATTATACAAA
1 ATTTAATCATAAATTATACAAA
6292783 CAATTCCTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (22 bp):
ATTTAATCATAAATTATACAAA
Found at i:6293631 original size:16 final size:16
Alignment explanation
Indices: 6293610--6293651 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
6293600 TTACATTCAA
*
6293610 ATCATTTTGAATTTTG
1 ATCATTTTGAATTTAG
**
6293626 ATCATTTTGGGTTTAG
1 ATCATTTTGAATTTAG
6293642 ATCATTTTGA
1 ATCATTTTGA
6293652 GTTCGAATTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.24, C:0.07, G:0.17, T:0.52
Consensus pattern (16 bp):
ATCATTTTGAATTTAG
Found at i:6293753 original size:22 final size:23
Alignment explanation
Indices: 6293728--6293771 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
6293718 GTCATTCTGA
6293728 ATTCAAGTT-AATCAGGTTTAAC
1 ATTCAAGTTAAATCAGGTTTAAC
** *
6293750 ATTCGGGTTAAATCGGGTTTAA
1 ATTCAAGTTAAATCAGGTTTAA
6293772 GTCATTTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.36
Consensus pattern (23 bp):
ATTCAAGTTAAATCAGGTTTAAC
Found at i:6296884 original size:22 final size:22
Alignment explanation
Indices: 6296856--6296910 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
6296846 TGGACATGTT
6296856 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
6296878 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
6296900 AAAAATGCATG
1 AAAAATGCATG
6296911 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.18
Consensus pattern (22 bp):
AAAAATGCATGAAACATAATAA
Found at i:6297848 original size:20 final size:19
Alignment explanation
Indices: 6297819--6297894 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 19
6297809 AAAAAGACAT
6297819 AATGTATCGATACATTGAA
1 AATGTATCGATACATTGAA
* *
6297838 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTGA-A
* *
6297859 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTG-AA
6297879 AATGTATCGATACATT
1 AATGTATCGATACATT
6297895 TGGGTAAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 44 0.96
21 2 0.04
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (19 bp):
AATGTATCGATACATTGAA
Found at i:6297876 original size:40 final size:39
Alignment explanation
Indices: 6297816--6297894 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 39
6297806 GGTAAAAAGA
*
6297816 CATAATGTATCGATACATTGAAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
6297855 CATACATGTATCGATATATTGAAAAATGTATCGATACATT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACATT
6297895 TGGGTAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 32 0.89
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.34
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:6298560 original size:29 final size:28
Alignment explanation
Indices: 6298538--6300260 Score: 2125
Period size: 29 Copynumber: 60.4 Consensus size: 28
6298528 TAACTTGCGT
* *
6298538 GGCTTTAAAAGGATGCCACTAACTTGCGTG
1 GGCTTTGAAAGGATGCCACTGACTT--GTG
6298568 GGCTTTGAAAGGATGCCACTGACTTGTG
1 GGCTTTGAAAGGATGCCACTGACTTGTG
*
6298596 GGCTTTGAAA-GAGTGCCACTGACTCGTG
1 GGCTTTGAAAGGA-TGCCACTGACTTGTG
*
6298624 GGCTTTGAAA-GAGTGCCACTGACTCGTG
1 GGCTTTGAAAGGA-TGCCACTGACTTGTG
*
6298652 GGCTTTGAAAAAGG-TGCCACTGACTCGTG
1 GGCTTTG--AAAGGATGCCACTGACTTGTG
*
6298681 GGCTTTGAAAAGG-TGCCACTAACTTGCGTG
1 GGCTTTG-AAAGGATGCCACTGACTT--GTG
* * *
6298711 GGCTTTAAAAGGGTGCCACTAACTTGCGTG
1 GGCTTTGAAAGGATGCCACTGACTT--GTG
*
6298741 GGCTTTGAAAAGATGCCACTGACTTGTG
1 GGCTTTGAAAGGATGCCACTGACTTGTG
*
6298769 GGCTTTGAAA-GAGTGCCACTGACTCGTG
1 GGCTTTGAAAGGA-TGCCACTGACTTGTG
*
6298797 GGCTTTGAAAAGG-TGCCACTGACTCGTG
1 GGCTTTG-AAAGGATGCCACTGACTTGTG
* *
6298825 GGC-TTGAAAGGGTGCCACTGACTCGTG
1 GGCTTTGAAAGGATGCCACTGACTTGTG
*
6298852 GGCTTTAAAAGGAGTGCCACTGACTTGTGTG
1 GGCTTTGAAAGGA-TGCCACTGAC-T-TGTG
* *
6298883 GGCTTTGAAAGGGTGCCACTGACTCGTG
1 GGCTTTGAAAGGATGCCACTGACTTGTG
6298911 GGCTTTGAAA-GAGTGCCACTGACTTGTG
1 GGCTTTGAAAGGA-TGCCACTGACTTGTG
* *
6298939 GGCTTTTAAAGG-TGCCACTGACTCGTG
1 GGCTTTGAAAGGATGCCACTGACTTGTG
* *
6298966 GGCTTTGAAAAGG-TACCACTGACTCGTG
1 GGCTTTG-AAAGGATGCCACTGACTTGTG
* *
6298994 GGC-TTGAAAGGGTGCCACTAACTTGTG
1 GGCTTTGAAAGGATGCCACTGACTTGTG
*
6299021 GGCTTTGAAA-GAGTGCCACTGACTCGTG
1 GGCTTTGAAAGGA-TGCCACTGACTTGTG
* *
6299049 GGCTTTGAAAGGGTGCCATTGACTTGCGTG
1 GGCTTTGAAAGGATGCCACTGACTT--GTG
*
6299079 GGCTTTGAAA-GAGTGCCACTGAATTGTG
1 GGCTTTGAAAGGA-TGCCACTGACTTGTG
* *
6299107 GGCTTCGCAATGG-TGCCACTGACTTGTG
1 GGCTTTG-AAAGGATGCCACTGACTTGTG
* * *
6299135 GGCTTCGAAAGGGTGCTACTGACTTGTG
1 GGCTTTGAAAGGATGCCACTGACTTGTG
* * *
6299163 GGCTCTGAAAGGGTGCCACTAACTTGTG
1 GGCTTTGAAAGGATGCCACTGACTTGTG
*
6299191 GGCTTTGAAAGGGTGCCACTGACTTGTG
1 GGCTTTGAAAGGATGCCACTGACTTGTG
*
6299219 GGCTTTGAAAGGAGTGCCACTGATTTGTG
1 GGCTTTGAAAGGA-TGCCACTGACTTGTG
*
6299248 GGCTTTGAAAAGAGTGCCACTGACTTGTG
1 GGCTTTGAAAGGA-TGCCACTGACTTGTG
*
6299277 GGCTTTGAAAAGAGTGCCACTGACTTGTG
1 GGCTTTGAAAGGA-TGCCACTGACTTGTG
*
6299306 GGCTTTGAAAGGGTGCCACTGACTTGTG
1 GGCTTTGAAAGGATGCCACTGACTTGTG
* *
6299334 GGCTTTGAAAAGAGTGCCACTGATTTGTG
1 GGCTTTGAAAGGA-TGCCACTGACTTGTG
*
6299363 GGCTTTGAAA-AATGTGCCACTGACTTGTG
1 GGCTTTGAAAGGA--TGCCACTGACTTGTG
6299392 GGCTTTGAAAGGAGTGCCACTGACTTGTG
1 GGCTTTGAAAGGA-TGCCACTGACTTGTG
* *
6299421 GGCTTTGAAAGGGTGCCACTGACTTATG
1 GGCTTTGAAAGGATGCCACTGACTTGTG
*
6299449 GGCTTTGAAAGGGTGCCACTGACTTGTG
1 GGCTTTGAAAGGATGCCACTGACTTGTG
* *
6299477 GGCTTTGAAAAGAGTGCCACTGATTTGTG
1 GGCTTTGAAAGGA-TGCCACTGACTTGTG
6299506 GGCTTTGAAAGGAGTGCCACTGACTTGTG
1 GGCTTTGAAAGGA-TGCCACTGACTTGTG
*
6299535 GGCTTTGAAAAGAGTGCCACTGACTTGTG
1 GGCTTTGAAAGGA-TGCCACTGACTTGTG
*
6299564 GGCTTTGAAAAGG-TGCCACTGATTTGTG
1 GGCTTTG-AAAGGATGCCACTGACTTGTG
*
6299592 GGCTTTGAAAAGAGTGCCACTGACTTGTG
1 GGCTTTGAAAGGA-TGCCACTGACTTGTG
*
6299621 GGCTTTGAAAGGAGTGCCACTAACTTGTG
1 GGCTTTGAAAGGA-TGCCACTGACTTGTG
* *
6299650 GGCTTTGAAAGGGTGCTACTGACTTGTG
1 GGCTTTGAAAGGATGCCACTGACTTGTG
* * *
6299678 AGCTTTGAAAAGAGTGCCACTGATTTGTG
1 GGCTTTGAAAGGA-TGCCACTGACTTGTG
*
6299707 GGCTTTGAAAAGAGTGCCACTGACTTGTG
1 GGCTTTGAAAGGA-TGCCACTGACTTGTG
6299736 GGCTTTGAAAGGAGTGCCACTGACTTGTG
1 GGCTTTGAAAGGA-TGCCACTGACTTGTG
* *
6299765 AGCTTTGAAAGGGTGCCACTGACTTGTG
1 GGCTTTGAAAGGATGCCACTGACTTGTG
* * *
6299793 AGCTTTGAAAAGAGTGCCACTGATTTGTG
1 GGCTTTGAAAGGA-TGCCACTGACTTGTG
*
6299822 GGCTTTGAAAAGAGTGCCACTGACTTGTG
1 GGCTTTGAAAGGA-TGCCACTGACTTGTG
*
6299851 GGCTTTGAAAGGAGTGCCACTAACTTGTG
1 GGCTTTGAAAGGA-TGCCACTGACTTGTG
* * *
6299880 AGCTTTAAAAGGGTGCCACTGACTTGTG
1 GGCTTTGAAAGGATGCCACTGACTTGTG
* *
6299908 GGCTTTGAAAGGGTGCCACTAACTTGT-
1 GGCTTTGAAAGGATGCCACTGACTTGTG
*
6299935 GGCTTTGAAAAGCG-TGCCACTGATTTGTG
1 GGCTTTG-AAAG-GATGCCACTGACTTGTG
6299964 GGCTTTGAAAGGAGTGCCACTGACTTGTG
1 GGCTTTGAAAGGA-TGCCACTGACTTGTG
6299993 GGCTTTGAAAGGAGTGCCACTGACTTGTG
1 GGCTTTGAAAGGA-TGCCACTGACTTGTG
* *
6300022 GGCTTTGAAAGGGTGCCACTAACTTGTG
1 GGCTTTGAAAGGATGCCACTGACTTGTG
*
6300050 GGCTTTGAAAGGAGTGCCACTAACTTGTG
1 GGCTTTGAAAGGA-TGCCACTGACTTGTG
*
6300079 GGCTTTGAAAGGGTGCCACTGACTTGTG
1 GGCTTTGAAAGGATGCCACTGACTTGTG
*
6300107 GGCTTTGAAAAGAGTGCCACTGACTTGTG
1 GGCTTTGAAAGGA-TGCCACTGACTTGTG
*
6300136 GGCTTTGAAAGGGTGCCACTGACTTGTG
1 GGCTTTGAAAGGATGCCACTGACTTGTG
* *
6300164 GGCTTTGAAAGGGTGCCACTGAC-TATG
1 GGCTTTGAAAGGATGCCACTGACTTGTG
* * *
6300191 GGCTTTGAAAAGAGTGCCACTGATTTATG
1 GGCTTTGAAAGGA-TGCCACTGACTTGTG
6300220 GGCTTTGAAAGGAGTGCCACTGACTTGTG
1 GGCTTTGAAAGGA-TGCCACTGACTTGTG
6300249 GGCTTTGAAAGG
1 GGCTTTGAAAGG
6300261 GATGAACATT
Statistics
Matches: 1527, Mismatches: 119, Indels: 95
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.01
27 95 0.06
28 645 0.42
29 648 0.42
30 114 0.07
31 15 0.01
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (28 bp):
GGCTTTGAAAGGATGCCACTGACTTGTG
Found at i:6298605 original size:28 final size:29
Alignment explanation
Indices: 6298538--6300260 Score: 2412
Period size: 28 Copynumber: 60.4 Consensus size: 29
6298528 TAACTTGCGT
* *
6298538 GGCTTTAAAAGGA-TGCCACTAACTTGCGTG
1 GGCTTTGAAAGGAGTGCCACTGACTT--GTG
6298568 GGCTTTGAAAGGA-TGCCACTGACTTGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
*
6298596 GGCTTTGAAA-GAGTGCCACTGACTCGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
*
6298624 GGCTTTGAAA-GAGTGCCACTGACTCGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
* *
6298652 GGCTTTGAAA-AAGGTGCCACTGACTCGTG
1 GGCTTTGAAAGGA-GTGCCACTGACTTGTG
* *
6298681 GGCTTTGAAAAG-GTGCCACTAACTTGCGTG
1 GGCTTTGAAAGGAGTGCCACTGACTT--GTG
* *
6298711 GGCTTTAAAAGG-GTGCCACTAACTTGCGTG
1 GGCTTTGAAAGGAGTGCCACTGACTT--GTG
*
6298741 GGCTTTGAAAAGA-TGCCACTGACTTGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
*
6298769 GGCTTTGAAA-GAGTGCCACTGACTCGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
* *
6298797 GGCTTTGAAAAG-GTGCCACTGACTCGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
*
6298825 GGC-TTGAAAGG-GTGCCACTGACTCGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
*
6298852 GGCTTTAAAAGGAGTGCCACTGACTTGTGTG
1 GGCTTTGAAAGGAGTGCCACTGAC-T-TGTG
*
6298883 GGCTTTGAAAGG-GTGCCACTGACTCGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
6298911 GGCTTTGAAA-GAGTGCCACTGACTTGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
* *
6298939 GGCTTTTAAA-G-GTGCCACTGACTCGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
* * *
6298966 GGCTTTGAAAAG-GTACCACTGACTCGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
*
6298994 GGC-TTGAAAGG-GTGCCACTAACTTGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
*
6299021 GGCTTTGAAA-GAGTGCCACTGACTCGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
*
6299049 GGCTTTGAAAGG-GTGCCATTGACTTGCGTG
1 GGCTTTGAAAGGAGTGCCACTGACTT--GTG
*
6299079 GGCTTTGAAA-GAGTGCCACTGAATTGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
* * *
6299107 GGCTTCGCAATG-GTGCCACTGACTTGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
* *
6299135 GGCTTCGAAAGG-GTGCTACTGACTTGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
* *
6299163 GGCTCTGAAAGG-GTGCCACTAACTTGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
6299191 GGCTTTGAAAGG-GTGCCACTGACTTGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
*
6299219 GGCTTTGAAAGGAGTGCCACTGATTTGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
*
6299248 GGCTTTGAAAAGAGTGCCACTGACTTGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
*
6299277 GGCTTTGAAAAGAGTGCCACTGACTTGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
6299306 GGCTTTGAAAGG-GTGCCACTGACTTGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
* *
6299334 GGCTTTGAAAAGAGTGCCACTGATTTGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
*
6299363 GGCTTTGAAA-AATGTGCCACTGACTTGTG
1 GGCTTTGAAAGGA-GTGCCACTGACTTGTG
6299392 GGCTTTGAAAGGAGTGCCACTGACTTGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
*
6299421 GGCTTTGAAAGG-GTGCCACTGACTTATG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
6299449 GGCTTTGAAAGG-GTGCCACTGACTTGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
* *
6299477 GGCTTTGAAAAGAGTGCCACTGATTTGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
6299506 GGCTTTGAAAGGAGTGCCACTGACTTGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
*
6299535 GGCTTTGAAAAGAGTGCCACTGACTTGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
* *
6299564 GGCTTTGAAAAG-GTGCCACTGATTTGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
*
6299592 GGCTTTGAAAAGAGTGCCACTGACTTGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
*
6299621 GGCTTTGAAAGGAGTGCCACTAACTTGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
*
6299650 GGCTTTGAAAGG-GTGCTACTGACTTGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
* * *
6299678 AGCTTTGAAAAGAGTGCCACTGATTTGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
*
6299707 GGCTTTGAAAAGAGTGCCACTGACTTGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
6299736 GGCTTTGAAAGGAGTGCCACTGACTTGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
*
6299765 AGCTTTGAAAGG-GTGCCACTGACTTGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
* * *
6299793 AGCTTTGAAAAGAGTGCCACTGATTTGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
*
6299822 GGCTTTGAAAAGAGTGCCACTGACTTGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
*
6299851 GGCTTTGAAAGGAGTGCCACTAACTTGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
* *
6299880 AGCTTTAAAAGG-GTGCCACTGACTTGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
*
6299908 GGCTTTGAAAGG-GTGCCACTAACTTGT-
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
* * *
6299935 GGCTTTGAAAAGCGTGCCACTGATTTGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
6299964 GGCTTTGAAAGGAGTGCCACTGACTTGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
6299993 GGCTTTGAAAGGAGTGCCACTGACTTGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
*
6300022 GGCTTTGAAAGG-GTGCCACTAACTTGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
*
6300050 GGCTTTGAAAGGAGTGCCACTAACTTGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
6300079 GGCTTTGAAAGG-GTGCCACTGACTTGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
*
6300107 GGCTTTGAAAAGAGTGCCACTGACTTGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
6300136 GGCTTTGAAAGG-GTGCCACTGACTTGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
*
6300164 GGCTTTGAAAGG-GTGCCACTGAC-TATG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
* * *
6300191 GGCTTTGAAAAGAGTGCCACTGATTTATG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
6300220 GGCTTTGAAAGGAGTGCCACTGACTTGTG
1 GGCTTTGAAAGGAGTGCCACTGACTTGTG
6300249 GGCTTTGAAAGG
1 GGCTTTGAAAGG
6300261 GATGAACATT
Statistics
Matches: 1555, Mismatches: 103, Indels: 71
0.90 0.06 0.04
Matches are distributed among these distances:
27 104 0.07
28 664 0.43
29 661 0.43
30 112 0.07
31 14 0.01
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (29 bp):
GGCTTTGAAAGGAGTGCCACTGACTTGTG
Found at i:6298641 original size:86 final size:85
Alignment explanation
Indices: 6298508--6300259 Score: 2342
Period size: 86 Copynumber: 20.5 Consensus size: 85
6298498 GGCACGTGTA
** * * * *
6298508 GGCTTTGAATAGAGTGTTACTAACTTGCGTGGCTTTAAAAG-GATGCCACTAACTTGCGTGGGCT
1 GGCTTTGAA-AGAGTGCCACTGACTTGTG-GGCTTTGAAAGAG-TGCCACTGACTT--GTGGGCT
6298572 TTGAAAGGA-TGCCACTGACTTGTG
61 TTGAAAGGAGTGCCACTGACTTGTG
* *
6298596 GGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAA
1 GGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAA
* *
6298661 A-AAGGTGCCACTGACTCGTG
66 AGGA-GTGCCACTGACTTGTG
* * * *
6298681 GGCTTTGAAA-AGGTGCCACTAACTTGCGTGGGCTTTAAAAGGGTGCCACTAACTTGCGTGGGCT
1 GGCTTTGAAAGA-GTGCCACTGACTT--GTGGGCTTTGAAAGAGTGCCACTGACTT--GTGGGCT
*
6298745 TTGAAAAGA-TGCCACTGACTTGTG
61 TTGAAAGGAGTGCCACTGACTTGTG
* *
6298769 GGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAA-AGGTGCCACTGACTCGTGGGC-TTGA
1 GGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGA-GTGCCACTGACTTGTGGGCTTTGA
*
6298832 AAGG-GTGCCACTGACTCGTG
65 AAGGAGTGCCACTGACTTGTG
* * *
6298852 GGCTTTAAAAGGAGTGCCACTGACTTGTGTGGGCTTTGAAAGGGTGCCACTGACTCGTGGGCTTT
1 GGCTTTGAAA-GAGTGCCACTGAC-T-TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTT
6298917 GAAA-GAGTGCCACTGACTTGTG
63 GAAAGGAGTGCCACTGACTTGTG
* * * *
6298939 GGCTTTTAAAG-GTGCCACTGACTCGTGGGCTTTGAAA-AGGTACCACTGACTCGTGGGC-TTGA
1 GGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGA-GTGCCACTGACTTGTGGGCTTTGA
*
6299001 AAGG-GTGCCACTAACTTGTG
65 AAGGAGTGCCACTGACTTGTG
* * *
6299021 GGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAGGGTGCCATTGACTTGCGTGGGCTTTG
1 GGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTT--GTGGGCTTTG
*
6299086 AAA-GAGTGCCACTGAATTGTG
64 AAAGGAGTGCCACTGACTTGTG
* * * * * *
6299107 GGCTTCGCAATG-GTGCCACTGACTTGTGGGCTTCGAAAGGGTGCTACTGACTTGTGGGCTCTGA
1 GGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGA
*
6299171 AAGG-GTGCCACTAACTTGTG
65 AAGGAGTGCCACTGACTTGTG
* *
6299191 GGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGATTTGTGGGCTTTGA
1 GGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAA-GAGTGCCACTGACTTGTGGGCTTTGA
*
6299256 AAAGAGTGCCACTGACTTGTG
65 AAGGAGTGCCACTGACTTGTG
*
6299277 GGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGA
1 GGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGA
* *
6299342 AAAGAGTGCCACTGATTTGTG
65 AAGGAGTGCCACTGACTTGTG
*
6299363 GGCTTTGAAAAATGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTG
1 GGCTTTGAAAGA-GTGCCACTGACTTGTGGGCTTTGAAA-GAGTGCCACTGACTTGTGGGCTTTG
*
6299428 AAAGG-GTGCCACTGACTTATG
64 AAAGGAGTGCCACTGACTTGTG
* *
6299449 GGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGA
1 GGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGA
6299514 AAGGAGTGCCACTGACTTGTG
65 AAGGAGTGCCACTGACTTGTG
*
6299535 GGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAA-AGGTGCCACTGATTTGTGGGCTTTG
1 GGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAAGA-GTGCCACTGACTTGTGGGCTTTG
*
6299599 AAAAGAGTGCCACTGACTTGTG
64 AAAGGAGTGCCACTGACTTGTG
* * * *
6299621 GGCTTTGAAAGGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCTACTGACTTGTGAGCTTTGA
1 GGCTTTGAAA-GAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGA
* *
6299686 AAAGAGTGCCACTGATTTGTG
65 AAGGAGTGCCACTGACTTGTG
*
6299707 GGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGAGCTTTG
1 GGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAA-GAGTGCCACTGACTTGTGGGCTTTG
6299772 AAAGG-GTGCCACTGACTTGTG
64 AAAGGAGTGCCACTGACTTGTG
* *
6299793 AGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
1 GGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTG
*
6299858 AAAGGAGTGCCACTAACTTGTG
64 AAAGGAGTGCCACTGACTTGTG
* * * * *
6299880 AGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGT-GGCTTTGAA
1 GGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAA
* * *
6299944 AAGCGTGCCACTGATTTGTG
66 AGGAGTGCCACTGACTTGTG
6299964 GGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTG
1 GGCTTTGAAA-GAGTGCCACTGACTTGTGGGCTTTGAAA-GAGTGCCACTGACTTGTGGGCTTTG
*
6300029 AAAGG-GTGCCACTAACTTGTG
64 AAAGGAGTGCCACTGACTTGTG
* *
6300050 GGCTTTGAAAGGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGA
1 GGCTTTGAAA-GAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGA
*
6300115 AAAGAGTGCCACTGACTTGTG
65 AAGGAGTGCCACTGACTTGTG
* * *
6300136 GGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGAC-TATGGGCTTTGAA
1 GGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAA
* * *
6300200 AAGAGTGCCACTGATTTATG
66 AGGAGTGCCACTGACTTGTG
6300220 GGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAG
1 GGCTTTGAAA-GAGTGCCACTGACTTGTGGGCTTTGAAAG
6300260 GGATGAACAT
Statistics
Matches: 1498, Mismatches: 117, Indels: 101
0.87 0.07 0.06
Matches are distributed among these distances:
82 31 0.02
83 102 0.07
84 164 0.11
85 280 0.19
86 640 0.43
87 222 0.15
88 44 0.03
89 14 0.01
90 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (85 bp):
GGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAA
AGGAGTGCCACTGACTTGTG
Found at i:6301495 original size:1 final size:1
Alignment explanation
Indices: 6301491--6301552 Score: 79
Period size: 1 Copynumber: 62.0 Consensus size: 1
6301481 TTTTTTGCTA
* * * * *
6301491 TTTTTTTCTTTTTTTTTTGTTTTTTTGTTTTCTTTTTTTTTTGTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
6301553 GGGTGTAAAG
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:0.00, C:0.03, G:0.05, T:0.92
Consensus pattern (1 bp):
T
Found at i:6301521 original size:24 final size:23
Alignment explanation
Indices: 6301491--6301552 Score: 108
Period size: 24 Copynumber: 2.7 Consensus size: 23
6301481 TTTTTTGCTA
6301491 TTTTTTTCTTTTTTTTTTGTTTT
1 TTTTTTTCTTTTTTTTTTGTTTT
6301514 TTTGTTTTCTTTTTTTTTTGTTTT
1 TTT-TTTTCTTTTTTTTTTGTTTT
6301538 TTTTTTT-TTTTTTTT
1 TTTTTTTCTTTTTTTT
6301553 GGGTGTAAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
22 8 0.21
23 7 0.18
24 23 0.61
ACGTcount: A:0.00, C:0.03, G:0.05, T:0.92
Consensus pattern (23 bp):
TTTTTTTCTTTTTTTTTTGTTTT
Found at i:6314635 original size:22 final size:23
Alignment explanation
Indices: 6314607--6314662 Score: 105
Period size: 22 Copynumber: 2.5 Consensus size: 23
6314597 TAGACATGTT
6314607 AAAAATGCATGAAACATAAT-AA
1 AAAAATGCATGAAACATAATAAA
6314629 AAAAATGCATGAAACATAATAAA
1 AAAAATGCATGAAACATAATAAA
6314652 AAAAATGCATG
1 AAAAATGCATG
6314663 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 20 0.61
23 13 0.39
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.18
Consensus pattern (23 bp):
AAAAATGCATGAAACATAATAAA
Found at i:6315619 original size:20 final size:20
Alignment explanation
Indices: 6315572--6315646 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
6315562 AAAAAGACAT
* *
6315572 AATGTATCGATACATTGAAG
1 AATGTATCGATACATTCAAA
** *
6315592 AACATATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* * *
6315612 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCAAA
6315632 AATGTATCGATACAT
1 AATGTATCGATACAT
6315647 CTGGGTAAAA
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.32
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:6315629 original size:40 final size:39
Alignment explanation
Indices: 6315569--6315646 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
6315559 GGTAAAAAGA
*
6315569 CATAATGTATCGATACATTGAAGAACATATCGATACATT
1 CATAATGTATCGATACATTGAAAAACATATCGATACATT
* **
6315608 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAACATATCGATACAT
6315647 CTGGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAACATATCGATACATT
Found at i:6320723 original size:48 final size:48
Alignment explanation
Indices: 6320662--6320756 Score: 156
Period size: 48 Copynumber: 2.0 Consensus size: 48
6320652 TTCGAATTTA
*
6320662 GGTCATTTCGACTTT-AAGTAATTTTGTATTCAAGTCATTTTGGGTTTG
1 GGTCATTTCGACTTTGAA-TAATTTTGTATTCAAGTCATTTTGAGTTTG
*
6320710 GGTCATTTTGACTTTGAATAATTTTGTATTCAAGTCATTTTGAGTTT
1 GGTCATTTCGACTTTGAATAATTTTGTATTCAAGTCATTTTGAGTTT
6320757 AGTCTATTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
48 42 0.95
49 2 0.05
ACGTcount: A:0.22, C:0.09, G:0.19, T:0.49
Consensus pattern (48 bp):
GGTCATTTCGACTTTGAATAATTTTGTATTCAAGTCATTTTGAGTTTG
Found at i:6320779 original size:32 final size:32
Alignment explanation
Indices: 6320743--6320827 Score: 102
Period size: 32 Copynumber: 2.7 Consensus size: 32
6320733 TTGTATTCAA
6320743 GTCATTTTGAGTTT-AGTCTATTATAAATTCGG
1 GTCATTTTGAGTTTGAGT-TATTATAAATTCGG
* *
6320775 GTCATTTCGAGTTTGAGTTATTATGAATTCGG
1 GTCATTTTGAGTTTGAGTTATTATAAATTCGG
* * *
6320807 TTTATTTTG-GGTTGAGTTATT
1 GTCATTTTGAGTTTGAGTTATT
6320828 TTAGGGTTTA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
31 11 0.24
32 32 0.70
33 3 0.07
ACGTcount: A:0.21, C:0.07, G:0.22, T:0.49
Consensus pattern (32 bp):
GTCATTTTGAGTTTGAGTTATTATAAATTCGG
Found at i:6322752 original size:14 final size:14
Alignment explanation
Indices: 6322733--6322806 Score: 67
Period size: 14 Copynumber: 4.9 Consensus size: 14
6322723 CCTATACTAG
6322733 ATTTAATAATTTAT
1 ATTTAATAATTTAT
* *
6322747 ATTTAAAAATATAT
1 ATTTAATAATTTAT
6322761 ATTTATATAAATTTTAAT
1 ATTTA-AT-AA-TTT-AT
6322779 ATATTAATAATTTAT
1 AT-TTAATAATTTAT
*
6322794 ATTATAAAAATTT
1 ATT-TAATAATTT
6322807 TAATATATTT
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
14 18 0.37
15 13 0.27
16 5 0.10
17 4 0.08
18 6 0.12
19 3 0.06
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
ATTTAATAATTTAT
Found at i:6322780 original size:18 final size:18
Alignment explanation
Indices: 6322759--6322812 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 18
6322749 TTAAAAATAT
6322759 ATATTTATATAAATTTTA
1 ATATTTATATAAATTTTA
6322777 ATATATTA-AT-AA-TTT-
1 ATAT-TTATATAAATTTTA
*
6322792 ATA-TTATAAAAATTTTA
1 ATATTTATATAAATTTTA
6322809 ATAT
1 ATAT
6322813 ATTTATATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 12
0.69 0.02 0.29
Matches are distributed among these distances:
13 3 0.10
14 1 0.03
15 5 0.17
16 6 0.21
17 5 0.17
18 6 0.21
19 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
ATATTTATATAAATTTTA
Found at i:6322805 original size:32 final size:33
Alignment explanation
Indices: 6322744--6322815 Score: 101
Period size: 32 Copynumber: 2.2 Consensus size: 33
6322734 TTTAATAATT
*
6322744 TATATTTAAAAATATATATTTATATAAATTTTAA
1 TATA-TTAAAAATATATATTTATAAAAATTTTAA
* *
6322778 TATATTAATAATTTATA-TTATAAAAATTTTAA
1 TATATTAAAAATATATATTTATAAAAATTTTAA
6322810 TATATT
1 TATATT
6322816 TATATATTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
32 20 0.57
33 11 0.31
34 4 0.11
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (33 bp):
TATATTAAAAATATATATTTATAAAAATTTTAA
Found at i:6322828 original size:24 final size:24
Alignment explanation
Indices: 6322734--6322820 Score: 70
Period size: 24 Copynumber: 3.6 Consensus size: 24
6322724 CTATACTAGA
6322734 TTTAATAATTTATATT-TAAAAAT
1 TTTAATAATTTATATTATAAAAAT
* * * * * * *
6322757 ATATATTTATATAAATT-TTAATAT
1 -TTTAATAATTTATATTATAAAAAT
*
6322781 ATTAATAATTTATATTATAAAAAT
1 TTTAATAATTTATATTATAAAAAT
6322805 TTTAATATATTTATAT
1 TTTAATA-ATTTATAT
6322821 ATTCAAATCA
Statistics
Matches: 45, Mismatches: 16, Indels: 3
0.70 0.25 0.05
Matches are distributed among these distances:
23 10 0.22
24 27 0.60
25 8 0.18
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
TTTAATAATTTATATTATAAAAAT
Found at i:6323856 original size:8 final size:7
Alignment explanation
Indices: 6323844--6323874 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
6323834 TTTGAAAATT
6323844 TAAAAAA
1 TAAAAAA
6323851 TAAAAAA
1 TAAAAAA
6323858 TGAAAAAA
1 T-AAAAAA
6323866 TAAAAAA
1 TAAAAAA
6323873 TA
1 TA
6323875 TTAATTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (7 bp):
TAAAAAA
Found at i:6323863 original size:15 final size:15
Alignment explanation
Indices: 6323845--6323873 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6323835 TTGAAAATTT
6323845 AAAAAATAAAAAATG
1 AAAAAATAAAAAATG
6323860 AAAAAATAAAAAAT
1 AAAAAATAAAAAAT
6323874 ATTAATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (15 bp):
AAAAAATAAAAAATG
Found at i:6324829 original size:17 final size:17
Alignment explanation
Indices: 6324781--6324891 Score: 73
Period size: 17 Copynumber: 6.5 Consensus size: 17
6324771 CTGTCTAGCA
*
6324781 TTTTACGCACCTA-CCT
1 TTTTAAGCACCTAGCCT
* * *
6324797 TCTTTAGGGACTTAGCCT
1 T-TTTAAGCACCTAGCCT
* *
6324815 TTTTAAACATCTAGCCT
1 TTTTAAGCACCTAGCCT
* * *
6324832 CTTGAAGTACCTAGCCT
1 TTTTAAGCACCTAGCCT
* *
6324849 TTTTAGGCACCTA-ACT
1 TTTTAAGCACCTAGCCT
*
6324865 TTTTCAAGCATCTAGCCT
1 TTTT-AAGCACCTAGCCT
*
6324883 TTTCAAGCA
1 TTTTAAGCA
6324892 TCACCACGTC
Statistics
Matches: 69, Mismatches: 22, Indels: 7
0.70 0.22 0.07
Matches are distributed among these distances:
16 7 0.10
17 53 0.77
18 9 0.13
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.37
Consensus pattern (17 bp):
TTTTAAGCACCTAGCCT
Found at i:6326224 original size:20 final size:20
Alignment explanation
Indices: 6326199--6326254 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
6326189 AAAAATCCAG
*
6326199 AATGTATTGATACAATGAAT
1 AATGTATCGATACAATGAAT
6326219 AATGTATCGATACAATGAAT
1 AATGTATCGATACAATGAAT
*
6326239 AATGTATCAATACAAT
1 AATGTATCGATACAAT
6326255 TTCTTTCCAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.46, C:0.09, G:0.12, T:0.32
Consensus pattern (20 bp):
AATGTATCGATACAATGAAT
Found at i:6326415 original size:21 final size:22
Alignment explanation
Indices: 6326391--6326433 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
6326381 GTTGGGACCT
*
6326391 TGTATTGATACATTT-AATAAA
1 TGTATCGATACATTTAAATAAA
*
6326412 TGTATCGATATATTTAAATAAA
1 TGTATCGATACATTTAAATAAA
6326434 AATATGACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (22 bp):
TGTATCGATACATTTAAATAAA
Found at i:6327184 original size:15 final size:16
Alignment explanation
Indices: 6327164--6327193 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6327154 TTTATAGTAT
6327164 TTACAT-AATTTTAAG
1 TTACATCAATTTTAAG
6327179 TTACATCAATTTTAA
1 TTACATCAATTTTAA
6327194 CCAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.40, C:0.10, G:0.03, T:0.47
Consensus pattern (16 bp):
TTACATCAATTTTAAG
Found at i:6328386 original size:23 final size:21
Alignment explanation
Indices: 6328364--6328404 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6328354 AATTAATATA
6328364 ATAAAATTTTTATTATATTTAT
1 ATAAAA-TTTTATTATATTTAT
* *
6328386 ATTAAATTTTATTTTATTT
1 ATAAAATTTTATTATATTT
6328405 TTTTCATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
ATAAAATTTTATTATATTTAT
Found at i:6331339 original size:61 final size:61
Alignment explanation
Indices: 6331273--6331392 Score: 222
Period size: 61 Copynumber: 2.0 Consensus size: 61
6331263 GTTATGGCTC
*
6331273 TCAGAATTTAATTTAATTTAACTTAATTTATGAATATTTTATTTTTTATAAAAACAATCTT
1 TCAGAATTTAATTTAATTTAACTTAATTTATGAATACTTTATTTTTTATAAAAACAATCTT
*
6331334 TCAGAATTTAATTTAATTTAACTTAATTTATGAATACTTTATTTTTTATAAAAATAATC
1 TCAGAATTTAATTTAATTTAACTTAATTTATGAATACTTTATTTTTTATAAAAACAATC
6331393 ATCATAAATT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (61 bp):
TCAGAATTTAATTTAATTTAACTTAATTTATGAATACTTTATTTTTTATAAAAACAATCTT
Found at i:6332938 original size:16 final size:14
Alignment explanation
Indices: 6332904--6332946 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 14
6332894 GAAAAAAGAG
*
6332904 TTGATTTTTATAAAA
1 TTGATTTTT-TATAA
6332919 TTGACTTTGTTTATAA
1 TTGA-TTT-TTTATAA
6332935 TTGATTTTTTAT
1 TTGATTTTTTAT
6332947 TTATTATTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 5 0.20
15 7 0.28
16 11 0.44
17 2 0.08
ACGTcount: A:0.28, C:0.02, G:0.09, T:0.60
Consensus pattern (14 bp):
TTGATTTTTTATAA
Found at i:6332949 original size:18 final size:18
Alignment explanation
Indices: 6332928--6332963 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6332918 ATTGACTTTG
*
6332928 TTTATAATTGATTTTTTA
1 TTTATAATTGACTTTTTA
*
6332946 TTTATTATTGACTTTTTA
1 TTTATAATTGACTTTTTA
6332964 AGTTCGACTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.03, G:0.06, T:0.67
Consensus pattern (18 bp):
TTTATAATTGACTTTTTA
Found at i:6338986 original size:20 final size:20
Alignment explanation
Indices: 6338961--6339127 Score: 136
Period size: 20 Copynumber: 7.8 Consensus size: 20
6338951 ACAAAGATAG
*
6338961 AATGTATCGATATATTGAAA
1 AATGTATCGATACATTGAAA
* *
6338981 AATGTATCGATACATTCATA
1 AATGTATCGATACATTGAAA
*
6339001 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTGAAA
6339021 AATGTATCGATACATCTGGGTAAAAAGATA
1 AATGTATCGATACAT-T--G-----A-A-A
*
6339051 GAATGTATCGATACATTGAAG
1 -AATGTATCGATACATTGAAA
* * * *
6339072 ACTATATCGATACATTCATA
1 AATGTATCGATACATTGAAA
* *
6339092 CATGTATCGATAGATTGAAA
1 AATGTATCGATACATTGAAA
6339112 AATGTATCGATACATT
1 AATGTATCGATACATT
6339128 TGAGTAAAAA
Statistics
Matches: 115, Mismatches: 21, Indels: 22
0.73 0.13 0.14
Matches are distributed among these distances:
20 91 0.79
21 1 0.01
22 1 0.01
23 2 0.02
28 2 0.02
29 1 0.01
30 2 0.02
31 15 0.13
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.32
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:6339069 original size:91 final size:91
Alignment explanation
Indices: 6338912--6339137 Score: 346
Period size: 91 Copynumber: 2.5 Consensus size: 91
6338902 TTAACTAGAC
* * *
6338912 GTATCGATACATTG-AAAATGTATCGATCCATCTGGGAAAACAAAGATAGAATGTATCGATATAT
1 GTATCGATACATTGAAAAATGTATCGATACATCTGGG-TAA-AAAGATAGAATGTATCGATACAT
*
6338976 TGAAAAATGTATCGATACATTCATACAT
64 TGAAAAATATATCGATACATTCATACAT
6339004 GTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGATAGAATGTATCGATACATTG
1 GTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGATAGAATGTATCGATACATTG
* *
6339069 AAGACTATATCGATACATTCATACAT
66 AAAAATATATCGATACATTCATACAT
* * *
6339095 GTATCGATAGATTGAAAAATGTATCGATACATTTGAGTAAAAA
1 GTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAA
6339138 TGTGACTTTT
Statistics
Matches: 124, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
91 87 0.70
92 16 0.13
93 21 0.17
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.30
Consensus pattern (91 bp):
GTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGATAGAATGTATCGATACATTG
AAAAATATATCGATACATTCATACAT
Found at i:6339922 original size:48 final size:48
Alignment explanation
Indices: 6339861--6340268 Score: 527
Period size: 48 Copynumber: 8.6 Consensus size: 48
6339851 GAGGAGTGCT
* * * * *
6339861 AATGTGCTAATTCAAGGCCAACGAAATCGAGCTAAAGGAAAAGTGGAC
1 AATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGAC
*
6339909 AATGTGCTGATTCAAGGCCAGGGACATTGAGCTAAGGGAAAAGTGGAC
1 AATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGAC
* * * *
6339957 AATATGCTGATTCAAGGCCAGCGACATTGGGCTAA--TAAAAATGGAC
1 AATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGAC
* * * * * *
6340003 AATGTGATAATTCAAGGCTAGTGACATTAAACTAAGGGAAAAGTGGAC
1 AATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGAC
*
6340051 AATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAATGTGGAC
1 AATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGAC
* * *
6340099 AATGTGCTAATTCAAGGCCAGCAACATTGAGCTAAAGGAAAAGTGGAC
1 AATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGAC
* *
6340147 AATGTGTTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAATGTGGAC
1 AATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGAC
* * * *
6340195 AATGTGCTGATTCAAGGCCAGCGACATTGAGCTAA--TAAAGGTAGAT
1 AATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGAC
* * *
6340241 AATGTGTTGATTTAAGGCTAGCGACATT
1 AATGTGCTGATTCAAGGCCAGCGACATT
6340269 AGACTTAAAG
Statistics
Matches: 313, Mismatches: 45, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
46 68 0.22
48 245 0.78
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.22
Consensus pattern (48 bp):
AATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGAC
Found at i:6340371 original size:52 final size:49
Alignment explanation
Indices: 6340245--6340572 Score: 166
Period size: 52 Copynumber: 6.8 Consensus size: 49
6340235 GTAGATAATG
* * *
6340245 TGTTGATTTAAGGCTAGCGACATTAGACTTAAAGATGAAAGTGCCAACG
1 TGTTGATTCAAGGCTAGCGACATTGGACTTAAAGATGAAAGTGCCAACA
* * * *
6340294 TGCTGATTCAAGGATAGCGACATTGGACTTAAAGATGGTGAATGTGCCAATA
1 TGTTGATTCAAGGCTAGCGACATTGGACTTAAAGA---TGAAAGTGCCAACA
* * * * *
6340346 TGTTGATTCAAGGCCAGTGATATTGGACTTAAAGGTG---TTG-----A
1 TGTTGATTCAAGGCTAGCGACATTGGACTTAAAGATGAAAGTGCCAACA
* *
6340387 TGTACTGATTCAAGGCTAGCGACATTTGACTTAAAGATGACAAAG-GCACCAATA
1 TGT--TGATTCAAGGCTAGCGACATTGGACTTAAAGATG--AAAGTG--CCAACA
* * * **
6340441 TGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G---GTGCCAATG
1 TGTTGATTCAAGGCTAGCGACATTGGACTTAAAGATGAAAGTGCCAACA
* * * * *
6340484 TGCTAATTCAAGGCCAGCAACATTGGACTTAAAGATGACAAAG-GCACCAATA
1 TGTTGATTCAAGGCTAGCGACATTGGACTTAAAGATG--AAAGTG--CCAACA
* * * * *
6340536 TGCTGATTCAACGCCAGCAATATTGGACTTAAAGATG
1 TGTTGATTCAAGGCTAGCGACATTGGACTTAAAGATG
6340573 CCAATGTGTT
Statistics
Matches: 219, Mismatches: 32, Indels: 53
0.72 0.11 0.17
Matches are distributed among these distances:
41 4 0.02
43 61 0.28
44 3 0.01
45 2 0.01
46 3 0.01
47 1 0.00
49 34 0.16
50 2 0.01
51 3 0.01
52 103 0.47
54 3 0.01
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (49 bp):
TGTTGATTCAAGGCTAGCGACATTGGACTTAAAGATGAAAGTGCCAACA
Found at i:6340395 original size:95 final size:95
Alignment explanation
Indices: 6340285--6340609 Score: 416
Period size: 95 Copynumber: 3.4 Consensus size: 95
6340275 AAAGATGAAA
* * * *** * ** *
6340285 GTGCCAACGTGCTGATTCAAGGATAGCGACATTGGACTTAAAGATGGTGAATGTGCCAATATGTT
1 GTGCCAATGTACTGATTCAAGGCTAGCGACATTGGACTTAAAGATGACAAAGGCACCAATATGCT
*
6340350 GATTCAAGGCCAGTGATATTGGACTTAAAG
66 GATTCAAGGCCAGCGATATTGGACTTAAAG
*** *
6340380 GTGTTGATGTACTGATTCAAGGCTAGCGACATTTGACTTAAAGATGACAAAGGCACCAATATGCT
1 GTGCCAATGTACTGATTCAAGGCTAGCGACATTGGACTTAAAGATGACAAAGGCACCAATATGCT
6340445 GATTCAAGGCCAGCGATATTGGACTTAAAG
66 GATTCAAGGCCAGCGATATTGGACTTAAAG
* * * *
6340475 GTGCCAATGTGCTAATTCAAGGCCAGCAACATTGGACTTAAAGATGACAAAGGCACCAATATGCT
1 GTGCCAATGTACTGATTCAAGGCTAGCGACATTGGACTTAAAGATGACAAAGGCACCAATATGCT
* *
6340540 GATTCAACGCCAGCAATATTGGACTTAAAG
66 GATTCAAGGCCAGCGATATTGGACTTAAAG
* ** * *
6340570 ATGCCAATGTGTTGATTCAAGGCCAGCGACATTGGGCTTA
1 GTGCCAATGTACTGATTCAAGGCTAGCGACATTGGACTTA
6340610 GAAGGAAATG
Statistics
Matches: 200, Mismatches: 30, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
95 200 1.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (95 bp):
GTGCCAATGTACTGATTCAAGGCTAGCGACATTGGACTTAAAGATGACAAAGGCACCAATATGCT
GATTCAAGGCCAGCGATATTGGACTTAAAG
Found at i:6340412 original size:238 final size:234
Alignment explanation
Indices: 6339865--6340318 Score: 581
Period size: 238 Copynumber: 1.9 Consensus size: 234
6339855 AGTGCTAATG
* *
6339865 TGCTAATTCAAGGCCAACGAA-ATCGAGCTAAAGGAAAAGTGGACAATGTGCTGATTCAAGGCCA
1 TGCTAATTCAAGGCCAGC-AACATTGAGCTAAAGG--AAGTGG--AATGTGCTGATTCAAGGCCA
* *
6339929 GGGACATTGAGCTAAGGGAAAAGTGGACAATATGCTGATTCAAGGCCAGCGACATTGGGCTAATA
61 GCGACATTGAGCTAAGGGAAAAGTGGACAATATGCTGATTCAAGGCCAGCGACATTGAGCTAATA
* * *
6339994 AAAATGGACAATGTGATAATTCAAGGCTAGTGACATTAAACTAAGGGAAAAGTGGACAATGTGCT
126 AAAATAGACAATGTGATAATTCAAGGCTAGCGACATTAAACTAAGGGAAAAGTGGACAACGTGCT
* *
6340059 GATTCAAGGCCAGCGACATTGAGCTAAGGGAAATGTGGACAATG
191 GATTCAAGGACAGCGACATTGAGCTAAGGGAAATGTGGACAATA
*
6340103 TGCTAATTCAAGGCCAGCAACATTGAGCTAAAGGAAAAGTGGACAATGTGTTGATTCAAGGCCAG
1 TGCTAATTCAAGGCCAGCAACATTGAGCTAAAGG--AAGTGG--AATGTGCTGATTCAAGGCCAG
* *
6340168 CGACATTGAGCTAAGGGAAATGTGGACAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAATAA
62 CGACATTGAGCTAAGGGAAAAGTGGACAATATGCTGATTCAAGGCCAGCGACATTGAGCTAATAA
** * * * * * * *
6340233 AGGTAGATAATGTGTTGATTTAAGGCTAGCGACATTAGACTTAA-AGATGAAAGT-GCCAACGTG
127 AAATAGACAATGTGATAATTCAAGGCTAGCGACATTAAAC-TAAGGGA--AAAGTGGACAACGTG
*
6340296 CTGATTCAAGGATAGCGACATTG
189 CTGATTCAAGGACAGCGACATTG
6340319 GACTTAAAGA
Statistics
Matches: 191, Mismatches: 21, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
237 2 0.01
238 153 0.80
239 31 0.16
240 5 0.03
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.22
Consensus pattern (234 bp):
TGCTAATTCAAGGCCAGCAACATTGAGCTAAAGGAAGTGGAATGTGCTGATTCAAGGCCAGCGAC
ATTGAGCTAAGGGAAAAGTGGACAATATGCTGATTCAAGGCCAGCGACATTGAGCTAATAAAAAT
AGACAATGTGATAATTCAAGGCTAGCGACATTAAACTAAGGGAAAAGTGGACAACGTGCTGATTC
AAGGACAGCGACATTGAGCTAAGGGAAATGTGGACAATA
Found at i:6340493 original size:43 final size:43
Alignment explanation
Indices: 6340435--6340614 Score: 162
Period size: 43 Copynumber: 4.0 Consensus size: 43
6340425 GACAAAGGCA
* *
6340435 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCAACATTGGACTTAAAGGTG
* * *
6340478 CCAATGTGCTAATTCAAGGCCAGCAACATTGGACTTAAAGATGACAAAGG
1 CCAATATGCTGATTCAAGGCCAGCAACATTGGACTTAAAG--G-----TG
* * *
6340528 CACCAATATGCTGATTCAACGCCAGCAATATTGGACTTAAAGATG
1 --CCAATATGCTGATTCAAGGCCAGCAACATTGGACTTAAAGGTG
* * * *
6340573 CCAATGTGTTGATTCAAGGCCAGCGACATTGGGCTTAGAAGG
1 CCAATATGCTGATTCAAGGCCAGCAACATTGGACTTA-AAGG
6340615 AAATGCCACC
Statistics
Matches: 109, Mismatches: 18, Indels: 19
0.75 0.12 0.13
Matches are distributed among these distances:
43 67 0.61
44 3 0.03
45 2 0.02
50 1 0.01
52 36 0.33
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (43 bp):
CCAATATGCTGATTCAAGGCCAGCAACATTGGACTTAAAGGTG
Found at i:6340724 original size:65 final size:62
Alignment explanation
Indices: 6340618--6340876 Score: 285
Period size: 62 Copynumber: 4.1 Consensus size: 62
6340608 TAGAAGGAAA
* * *
6340618 TGCCACCAACTTGTGTGGGCTTTTGAAAAAAAGTTGCCACCGACTTGTGTGGGCTTT-AGAGGGG
1 TGCCACCAACTTGTGTGGGC-TTTG---AAAGGGTGCCACCGACTTGTGTGGGCTTTAAGAAGGG
6340682 AT
62 -T
*
6340684 TGCCACCAACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTAAGAAGGGT
1 TGCCACCAACTTGTGTGGGCTTT-G--AAAGGGTGCCACCGACTTGTGTGGGCTTTAAGAAGGGT
* * * *
6340749 TGCCACTGAA-TTGTGTGGGCTTTGGAGGGGTGCCACCGACTTGTGTGGGCTTTAAAAAGGGT
1 TGCCAC-CAACTTGTGTGGGCTTTGAAAGGGTGCCACCGACTTGTGTGGGCTTTAAGAAGGGT
** * *
6340811 TGCCACTGACTTGTGTGGGCTTTGAAAGGGTGCCACTGAC-T-TGTGGGCTTTGA-AAGGGT
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGGTGCCACCGACTTGTGTGGGCTTTAAGAAGGGT
6340870 ATGCCAC
1 -TGCCAC
6340877 TGAATTATGG
Statistics
Matches: 175, Mismatches: 13, Indels: 16
0.86 0.06 0.08
Matches are distributed among these distances:
59 6 0.03
60 17 0.10
61 2 0.01
62 67 0.38
64 1 0.01
65 53 0.30
66 29 0.17
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (62 bp):
TGCCACCAACTTGTGTGGGCTTTGAAAGGGTGCCACCGACTTGTGTGGGCTTTAAGAAGGGT
Found at i:6340809 original size:62 final size:61
Alignment explanation
Indices: 6340652--6340882 Score: 288
Period size: 62 Copynumber: 3.7 Consensus size: 61
6340642 GAAAAAAAGT
* * *
6340652 TGCCACCGACTTGTGTGGGCTTTAGAGGGGATTGCCAC-CAACTTGTGTGGGCTTTAGAAAAAGG
1 TGCCACCGACTTGTGTGGGCTTTAAAAGGG-TTGCCACTGAA-TTGTGTGGGCTTT-G--AAAGG
*
6340716 T
61 G
* *
6340717 TGCCACCGACTTGTGTGGGCTTTAAGAAGGGTTGCCACTGAATTGTGTGGGCTTTGGAGGGG
1 TGCCACCGACTTGTGTGGGCTTTAA-AAGGGTTGCCACTGAATTGTGTGGGCTTTGAAAGGG
*
6340779 TGCCACCGACTTGTGTGGGCTTTAAAAAGGGTTGCCACTGACTTGTGTGGGCTTTGAAAGGG
1 TGCCACCGACTTGTGTGGGCTTT-AAAAGGGTTGCCACTGAATTGTGTGGGCTTTGAAAGGG
* *
6340841 TGCCACTGAC-T-TGTGGGCTTTGAAAGGGTATGCCACTGAATT
1 TGCCACCGACTTGTGTGGGCTTTAAAAGGGT-TGCCACTGAATT
6340883 ATGGTCTTTT
Statistics
Matches: 150, Mismatches: 12, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
59 7 0.05
60 21 0.14
61 1 0.01
62 68 0.45
63 2 0.01
64 1 0.01
65 44 0.29
66 6 0.04
ACGTcount: A:0.19, C:0.18, G:0.34, T:0.29
Consensus pattern (61 bp):
TGCCACCGACTTGTGTGGGCTTTAAAAGGGTTGCCACTGAATTGTGTGGGCTTTGAAAGGG
Found at i:6340875 original size:30 final size:31
Alignment explanation
Indices: 6340626--6340879 Score: 257
Period size: 32 Copynumber: 8.0 Consensus size: 31
6340616 AATGCCACCA
** *
6340626 ACTTGTGTGGGCTTTTGAAAAAAAGTTGCCACCG
1 ACTTGTGTGGGC-TTTG--AAAGGGTTGCCACTG
* **
6340660 ACTTGTGTGGGCTTT-AGAGGGGATTGCCACCA
1 ACTTGTGTGGGCTTTGA-AAGGG-TTGCCACTG
* *
6340692 ACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCG
1 ACTTGTGTGGGCTTT-G-AAAGGGTTGCCACTG
*
6340725 ACTTGTGTGGGCTTTAAGAAGGGTTGCCACTG
1 ACTTGTGTGGGCTTTGA-AAGGGTTGCCACTG
* * * *
6340757 AATTGTGTGGGCTTTG-GAGGGGTGCCACCG
1 ACTTGTGTGGGCTTTGAAAGGGTTGCCACTG
*
6340787 ACTTGTGTGGGCTTTAAAAAGGGTTGCCACTG
1 ACTTGTGTGGGCTTT-GAAAGGGTTGCCACTG
6340819 ACTTGTGTGGGCTTTGAAAGGG-TGCCACTG
1 ACTTGTGTGGGCTTTGAAAGGGTTGCCACTG
6340849 AC-T-TGTGGGCTTTGAAAGGGTATGCCACTG
1 ACTTGTGTGGGCTTTGAAAGGGT-TGCCACTG
6340879 A
1 A
6340880 ATTATGGTCT
Statistics
Matches: 189, Mismatches: 21, Indels: 24
0.81 0.09 0.10
Matches are distributed among these distances:
28 17 0.09
29 1 0.01
30 45 0.24
31 9 0.05
32 75 0.40
33 26 0.14
34 15 0.08
35 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.29
Consensus pattern (31 bp):
ACTTGTGTGGGCTTTGAAAGGGTTGCCACTG
Found at i:6342122 original size:1 final size:1
Alignment explanation
Indices: 6342116--6342203 Score: 59
Period size: 1 Copynumber: 88.0 Consensus size: 1
6342106 ATTTGAACCC
* * * * * * ** * * *
6342116 TTTTTTTGTTTGTTTGTTTTTTTTTGTTTTTATTTATTTTTGGTTTTTTTATTTTTTTCTTGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
6342181 TTTTTGTTTTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTT
6342204 GGGTACGAAA
Statistics
Matches: 63, Mismatches: 24, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 63 1.00
ACGTcount: A:0.03, C:0.01, G:0.10, T:0.85
Consensus pattern (1 bp):
T
Found at i:6342164 original size:9 final size:9
Alignment explanation
Indices: 6342116--6342204 Score: 94
Period size: 9 Copynumber: 9.9 Consensus size: 9
6342106 ATTTGAACCC
6342116 TTTTTTTG-
1 TTTTTTTGT
*
6342124 TTTGTTTGTT
1 TTTTTTTG-T
6342134 TTTTTTTGT
1 TTTTTTTGT
*
6342143 TTTTATT-T
1 TTTTTTTGT
* *
6342151 ATTTTTGGT
1 TTTTTTTGT
6342160 TTTTTTAT-T
1 TTTTTT-TGT
6342169 TTTTTCTTGT
1 TTTTT-TTGT
6342179 TTTTTTTGT
1 TTTTTTTGT
6342188 TTTTTTTGT
1 TTTTTTTGT
6342197 TTTTTTTG
1 TTTTTTTG
6342205 GGTACGAAAG
Statistics
Matches: 67, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
8 12 0.18
9 41 0.61
10 14 0.21
ACGTcount: A:0.03, C:0.01, G:0.11, T:0.84
Consensus pattern (9 bp):
TTTTTTTGT
Found at i:6353896 original size:81 final size:80
Alignment explanation
Indices: 6353756--6353930 Score: 219
Period size: 81 Copynumber: 2.2 Consensus size: 80
6353746 AACGGGGCTA
* * * * * *
6353756 GAGTATCCTCGATTATGAAAAATCGGTGTTCTAGAAATAAAAATCGGGGTTGGAGTATCCCCTCG
1 GAGTATCCTCGATTATGAAAAATCGGTATTCTAGAAATAAAAAACAGGGTTGAAGTATCCCCGCA
6353821 AAAATAACAGGGTTG
66 AAAATAACAGGGTTG
* *
6353836 GAGTATCCTTGATTATAGAAAAAT-GGTATT-TTGAAACTAAAATAACAGGGTTGAAGTATCCCC
1 GAGTATCCTCGATTAT-GAAAAATCGGTATTCTAGAAA-TAAAA-AACAGGGTTGAAGTATCCCC
*
6353899 GCAAAAATAACGGGGTTG
63 GCAAAAATAACAGGGTTG
*
6353917 GAGTATCCCCGATT
1 GAGTATCCTCGATT
6353931 GGGAGAAATT
Statistics
Matches: 81, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
79 5 0.06
80 25 0.31
81 51 0.63
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (80 bp):
GAGTATCCTCGATTATGAAAAATCGGTATTCTAGAAATAAAAAACAGGGTTGAAGTATCCCCGCA
AAAATAACAGGGTTG
Found at i:6353914 original size:28 final size:28
Alignment explanation
Indices: 6353874--6353927 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
6353864 TTTTGAAACT
6353874 AAAATAACAGGGTTGAAGTATCCCCGCA
1 AAAATAACAGGGTTGAAGTATCCCCGCA
* *
6353902 AAAATAACGGGGTTGGAGTATCCCCG
1 AAAATAACAGGGTTGAAGTATCCCCG
6353928 ATTGGGAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.19
Consensus pattern (28 bp):
AAAATAACAGGGTTGAAGTATCCCCGCA
Found at i:6353949 original size:81 final size:81
Alignment explanation
Indices: 6353756--6353959 Score: 200
Period size: 81 Copynumber: 2.5 Consensus size: 81
6353746 AACGGGGCTA
* * * * * * * * *
6353756 GAGTATCCTCGATTA-TGAAAAATCGGTGTTCTAGAAATAAAA-ATCGGGGTTGGAGTATCCCCT
1 GAGTATCCCCGATTAGAGAAAAAT-GGTATTTTGGAAATAAAATAACAGGGTTGAAGTATCCCCG
*
6353819 CGAAAATAACAGGGTTG
65 CAAAAATAACAGGGTTG
** *
6353836 GAGTATCCTTGATTATAGAAAAATGGTATTTT-GAAACTAAAATAACAGGGTTGAAGTATCCCCG
1 GAGTATCCCCGATTAGAGAAAAATGGTATTTTGGAAA-TAAAATAACAGGGTTGAAGTATCCCCG
*
6353900 CAAAAATAACGGGGTTG
65 CAAAAATAACAGGGTTG
* * *
6353917 GAGTATCCCCGATT-GGGAGAAATTGGTGTTTTGGAAATAAAAT
1 GAGTATCCCCGATTAGAGA-AAAATGGTATTTTGGAAATAAAAT
6353960 CGGAGTTGGA
Statistics
Matches: 103, Mismatches: 16, Indels: 9
0.80 0.12 0.07
Matches are distributed among these distances:
79 4 0.04
80 27 0.26
81 68 0.66
82 4 0.04
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (81 bp):
GAGTATCCCCGATTAGAGAAAAATGGTATTTTGGAAATAAAATAACAGGGTTGAAGTATCCCCGC
AAAAATAACAGGGTTG
Found at i:6353976 original size:51 final size:51
Alignment explanation
Indices: 6353913--6354028 Score: 180
Period size: 51 Copynumber: 2.3 Consensus size: 51
6353903 AAATAACGGG
* * *
6353913 GTTGGAGTATCCCCGATTG-GGAGAAATTGGTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCAATTGTGGA-AAATTGGTATTTTAGAAATAAAATCGGA
*
6353964 GTTGGAGTATCCCCAATTGTGGAAAATTGGTATTTTAGAAATAAAATCGGG
1 GTTGGAGTATCCCCAATTGTGGAAAATTGGTATTTTAGAAATAAAATCGGA
6354015 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
6354029 TAGGAAATAA
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
51 57 0.95
52 3 0.05
ACGTcount: A:0.29, C:0.12, G:0.28, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCAATTGTGGAAAATTGGTATTTTAGAAATAAAATCGGA
Found at i:6354036 original size:31 final size:28
Alignment explanation
Indices: 6354011--6354083 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
6354001 GAAATAAAAT
*
6354011 CGGGGTTGGAGTATCCCCTAGGAAATAA
1 CGGGATTGGAGTATCCCCTAGGAAATAA
* *
6354039 CGGGATTGGAGTATCCCCGATGAAA-AA
1 CGGGATTGGAGTATCCCCTAGGAAATAA
* *
6354066 CGGGGTTGGAGTACCCCC
1 CGGGATTGGAGTATCCCC
6354084 GATTATGAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 18 0.45
28 22 0.55
ACGTcount: A:0.26, C:0.22, G:0.33, T:0.19
Consensus pattern (28 bp):
CGGGATTGGAGTATCCCCTAGGAAATAA
Found at i:6354075 original size:27 final size:27
Alignment explanation
Indices: 6354006--6354086 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 27
6353996 TTTTAGAAAT
* * *
6354006 AAAATCGGGGTTGGAGTATCCCCTAGG
1 AAAAACGGGGTTGGAGTATCCCCGATG
*
6354033 AAATAACGGGATTGGAGTATCCCCGATG
1 AAA-AACGGGGTTGGAGTATCCCCGATG
*
6354061 AAAAACGGGGTTGGAGTACCCCCGAT
1 AAAAACGGGGTTGGAGTATCCCCGAT
6354087 TATGAAAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 24 0.51
28 23 0.49
ACGTcount: A:0.30, C:0.20, G:0.31, T:0.20
Consensus pattern (27 bp):
AAAAACGGGGTTGGAGTATCCCCGATG
Found at i:6354164 original size:156 final size:157
Alignment explanation
Indices: 6353875--6354183 Score: 410
Period size: 156 Copynumber: 2.0 Consensus size: 157
6353865 TTTGAAACTA
* * *
6353875 AAATAACAGGGTTGAAGTATCCCCGCAAAAATAACGGGGTTGGAGTATCCCCGATTGGGAGAAAT
1 AAATAACAGGGTTGAAGTATCCCCGCAAAAATAACGGGGTTGGAGTACCCCCGATTAGGAAAAAT
* * * *
6353940 TGGTGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCAATTGTGGAAAATTGGTATTTTAGAAA
66 TGGTGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCAATTGCGGAAAATCGATACTTTAGAAA
* *
6354005 TAAAATCGGGGTTGGAGTATCCCCTAGG
131 T-AAACCGGAGTTGGAGTATCCCCTAGG
* * *
6354033 AAATAAC-GGGATTGGAGTATCCCCG-ATGAAA-AACGGGGTTGGAGTACCCCCGATTATGAAAA
1 AAATAACAGGG-TTGAAGTATCCCCGCA-AAAATAACGGGGTTGGAGTACCCCCGATTAGGAAAA
* * ** *
6354095 ATTGGTGTTTT-TAGATAAAATCGGAGTTGGAGTATCCCTGATTGCGGTAAATCGATACTTTAGA
64 ATTGGTGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCAATTGCGGAAAATCGATACTTTAGA
6354159 AATAAACCGGAGTTGGAGTATCCCC
129 AATAAACCGGAGTTGGAGTATCCCC
6354184 GATTAAGAAA
Statistics
Matches: 132, Mismatches: 17, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
155 20 0.15
156 47 0.36
157 42 0.32
158 23 0.17
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.27
Consensus pattern (157 bp):
AAATAACAGGGTTGAAGTATCCCCGCAAAAATAACGGGGTTGGAGTACCCCCGATTAGGAAAAAT
TGGTGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCAATTGCGGAAAATCGATACTTTAGAAA
TAAACCGGAGTTGGAGTATCCCCTAGG
Found at i:6354211 original size:50 final size:50
Alignment explanation
Indices: 6353913--6354211 Score: 127
Period size: 51 Copynumber: 5.8 Consensus size: 50
6353903 AAATAACGGG
** * * *
6353913 GTTGGAGTATCCCCGATTGGGAGAAATTGGTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTT-GAAATAAAACCGGA
* ** * * * * *
6353964 GTTGGAGTATCCCCAATTGTGGAAAATTGGTATTTTAGAAATAAAATCGGG
1 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTT-GAAATAAAACCGGA
* ** * ***** * *
6354015 GTTGGAGTATCCCCTAGGAA-ATAACGGGATTGGA-GTATCCCCGATGAAAAACGGG
1 GTTGGAGTATCCCCGATTAAGA-AA---AATT-GATGT-TTTGAAAT-AAAACCGGA
* * * * * *
6354070 GTTGGAGTACCCCCGATTATGAAAAATTGGTGTTTTTAGATAAAATCGGA
1 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGAAATAAAACCGGA
* ** ** * * *
6354120 GTTGGAGTATCCCTGATTGCGGTAAATCGATACTTTAGAAAT-AAACCGGA
1 GTTGGAGTATCCCCGATTAAGAAAAATTGAT-GTTTTGAAATAAAACCGGA
*
6354170 GTTGGAGTATCCCCGATTAAGAAAAATTGACGTTTTGGAAAT
1 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTT-GAAAT
6354212 GGAACCGAGA
Statistics
Matches: 180, Mismatches: 57, Indels: 23
0.69 0.22 0.09
Matches are distributed among these distances:
49 3 0.02
50 66 0.37
51 72 0.40
52 5 0.03
54 6 0.03
55 27 0.15
56 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGAAATAAAACCGGA
Found at i:6356524 original size:20 final size:19
Alignment explanation
Indices: 6356499--6356552 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 19
6356489 AAAATGCCTG
6356499 AATGTATCGATACAATAAGC-
1 AATGTATCGATACAAT--GCA
6356519 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATGC-A
6356539 AATGTATCGATACA
1 AATGTATCGATACA
6356553 TCTGGGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
18 2 0.06
20 30 0.94
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (19 bp):
AATGTATCGATACAATGCA
Found at i:6356589 original size:13 final size:13
Alignment explanation
Indices: 6356571--6356596 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6356561 AACTTCCTAG
6356571 ATGTATCGATACA
1 ATGTATCGATACA
6356584 ATGTATCGATACA
1 ATGTATCGATACA
6356597 TTGAATAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:6363257 original size:20 final size:20
Alignment explanation
Indices: 6363232--6363394 Score: 92
Period size: 20 Copynumber: 7.7 Consensus size: 20
6363222 AAAAAGATAG
* *
6363232 AATGTATCGATATATTGAAA
1 AATGTATCGATACATTCAAA
** *
6363252 AATGTATTAATACATTCATA
1 AATGTATCGATACATTCAAA
* *
6363272 CATGTATCGATACACTCAAA
1 AATGTATCGATACATTCAAA
*
6363292 AATGTATCGATACATATGGGTAAAAAACA
1 AATGTATCGATAC--AT---T---CAA-A
* *
6363321 GAATGTATCGATACATTGAAG
1 -AATGTATCGATACATTCAAA
* *
6363342 ATTGTATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* * * *
6363362 CACGTATTGATACATTGAAA
1 AATGTATCGATACATTCAAA
6363382 AATGTATCGATAC
1 AATGTATCGATAC
6363395 TTTGGGTAAA
Statistics
Matches: 105, Mismatches: 28, Indels: 20
0.69 0.18 0.13
Matches are distributed among these distances:
20 82 0.78
22 3 0.03
25 2 0.02
28 4 0.04
29 1 0.01
30 13 0.12
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:6363362 original size:90 final size:91
Alignment explanation
Indices: 6363180--6363406 Score: 305
Period size: 90 Copynumber: 2.5 Consensus size: 91
6363170 TTTTAACTAG
** * *
6363180 ATGTATCGATACATTGAAAAATGTATCGATACATCTTGGAAAAAAAAGATAGAATGTATCGATAT
1 ATGTATCGATACATTGAAAAATGTATCGATACAT-TTGG-GTAAAAAGACAGAATGTATCGATAC
*
6363245 ATTGAAAAATGTATTAATACATTCATAC
64 ATTGAAAAATGTATCAATACATTCATAC
* * *
6363273 ATGTATCGATACACTCAAAAATGTATCGATACATATGGGTAAAAA-ACAGAATGTATCGATACAT
1 ATGTATCGATACATTGAAAAATGTATCGATACATTTGGGTAAAAAGACAGAATGTATCGATACAT
* * *
6363337 TGAAGATTGTATCGATACATTCATAC
66 TGAAAAATGTATCAATACATTCATAC
* *
6363363 ACGTATTGATACATTGAAAAATGTATCGATAC-TTTGGGTAAAAA
1 ATGTATCGATACATTGAAAAATGTATCGATACATTTGGGTAAAAA
6363407 TGTGACTTTT
Statistics
Matches: 118, Mismatches: 16, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
89 11 0.09
90 67 0.57
91 5 0.04
92 3 0.03
93 32 0.27
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.30
Consensus pattern (91 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATTTGGGTAAAAAGACAGAATGTATCGATACAT
TGAAAAATGTATCAATACATTCATAC
Found at i:6368730 original size:158 final size:157
Alignment explanation
Indices: 6368485--6368974 Score: 506
Period size: 157 Copynumber: 3.1 Consensus size: 157
6368475 TACCTGATAC
* * *
6368485 CCCTAAAGGACTTAAAAATGACTATAAAAGGGATGAACATATCCTAAATATCTACCTTTGGTATA
1 CCCTAAAGGACTTAAAAAAGACTATAAAAGGGATGAACCTATCCTAAATATCTACCTTTGGCATA
* * *
6368550 AAAGCAGACTCGGCGATGACCTAGGACTCGGTTCTAAAAAAAATTATGAAAATGCCTCTAAGAGA
66 AAAGCAGACTCGGAGATGACCTAAGACTTGGTTCTAAAAAAAATTAT-AAAATGCCTCTAAGAGA
* * * *
6368615 TACTTTTGACGTGAAAGTATTCCAGTAG
130 TACCTTTGACATGAAAGTATCCCAGTAA
*
6368643 CCCTAAAGGACTTAAAAAAGACTATAAAAAGGG-TTAACCTATCCTAAATATCTACCTTTGGCAT
1 CCCTAAAGGACTTAAAAAAGACTAT-AAAAGGGATGAACCTATCCTAAATATCTACCTTTGGCAT
* * * * * *
6368707 AAAAACAGACCCGGAGATAACCTAAGACTTGATTCT--AAAAAATTATAAAACTGCC-CTTATGG
65 AAAAGCAGACTCGGAGATGACCTAAGACTTGGTTCTAAAAAAAATTATAAAA-TGCCTC-TAAGA
* **
6368769 GTATACCTTCGACATGAAAGTATCCCAACAA
128 G-ATACCTTTGACATGAAAGTATCCCAGTAA
* * * ** * * *
6368800 CCCTAAATGACTT-AAAAAGACCCATAAAAGGGATGAACCTGTCCTAAATGCCCACCTTCGTCAT
1 CCCTAAAGGACTTAAAAAAGA-CTATAAAAGGGATGAACCTATCCTAAATATCTACCTTTGGCAT
* * * * * * * *
6368864 AAAAGCGGACTTGGTGACGACTTAAGAGTTGGTTCTAAAAAAAATTATAAAAATGCCTTTAGGAG
65 AAAAGCAGACTCGGAGATGACCTAAGACTTGGTTCTAAAAAAAATTAT-AAAATGCCTCTAAGAG
* * * *
6368929 ATACCTTTGACTTAAAAGTA-CCCGGTAC
129 ATACCTTTGACATGAAAGTATCCCAGTAA
*
6368957 CCCTAAAGGGCTTAAAAA
1 CCCTAAAGGACTTAAAAA
6368975 GATTGGTAAT
Statistics
Matches: 270, Mismatches: 51, Indels: 22
0.79 0.15 0.06
Matches are distributed among these distances:
155 5 0.02
156 32 0.12
157 102 0.38
158 102 0.38
159 25 0.09
160 4 0.01
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.25
Consensus pattern (157 bp):
CCCTAAAGGACTTAAAAAAGACTATAAAAGGGATGAACCTATCCTAAATATCTACCTTTGGCATA
AAAGCAGACTCGGAGATGACCTAAGACTTGGTTCTAAAAAAAATTATAAAATGCCTCTAAGAGAT
ACCTTTGACATGAAAGTATCCCAGTAA
Found at i:6368857 original size:157 final size:156
Alignment explanation
Indices: 6368485--6368848 Score: 430
Period size: 158 Copynumber: 2.3 Consensus size: 156
6368475 TACCTGATAC
* *
6368485 CCCTAAAGGACTTAAAAATGACTATAAAAGGGATGAACATATCCTAAATATCTACCTTTGGTATA
1 CCCTAAAGGACTTAAAAA-GACTATAAAAGGGATGAACCTATCCTAAATATCTACCTTTGGCATA
* * * * * *
6368550 AAAGCAGACTCGGCGATGACCTAGGACTCGGTTCTAAAAAAAATTATGAAAATGCCTCTAAGAGA
65 AAAACAGACCCGGAGATAACCTAAGACTCGATTCT-AAAAAAATTATGAAAATGCCTCTAAGAGA
* * * * ** *
6368615 TACTTTTGACGTGAAAGTATTCCAGTAG
129 TACCTTCGACATGAAAGTATCCCAACAA
*
6368643 CCCTAAAGGACTTAAAAAAGACTATAAAAAGGG-TTAACCTATCCTAAATATCTACCTTTGGCAT
1 CCCTAAAGGACTT-AAAAAGACTAT-AAAAGGGATGAACCTATCCTAAATATCTACCTTTGGCAT
* * *
6368707 AAAAACAGACCCGGAGATAACCTAAGACTTGATTCT-AAAAAATTAT-AAAACTGCC-CTTATGG
64 AAAAACAGACCCGGAGATAACCTAAGACTCGATTCTAAAAAAATTATGAAAA-TGCCTC-TAAGA
6368769 GTATACCTTCGACATGAAAGTATCCCAACAA
127 G-ATACCTTCGACATGAAAGTATCCCAACAA
* * *
6368800 CCCTAAATGACTTAAAAAGACCCATAAAAGGGATGAACCTGTCCTAAAT
1 CCCTAAAGGACTTAAAAAGA-CTATAAAAGGGATGAACCTATCCTAAAT
6368849 GCCCACCTTC
Statistics
Matches: 176, Mismatches: 23, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
155 5 0.03
156 32 0.18
157 51 0.29
158 76 0.43
159 12 0.07
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (156 bp):
CCCTAAAGGACTTAAAAAGACTATAAAAGGGATGAACCTATCCTAAATATCTACCTTTGGCATAA
AAACAGACCCGGAGATAACCTAAGACTCGATTCTAAAAAAATTATGAAAATGCCTCTAAGAGATA
CCTTCGACATGAAAGTATCCCAACAA
Found at i:6371156 original size:11 final size:11
Alignment explanation
Indices: 6371140--6371164 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6371130 ATGAAAAATA
6371140 TTAGATACATT
1 TTAGATACATT
6371151 TTAGATACATT
1 TTAGATACATT
6371162 TTA
1 TTA
6371165 AAAATTTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (11 bp):
TTAGATACATT
Found at i:6371547 original size:163 final size:163
Alignment explanation
Indices: 6371292--6371747 Score: 505
Period size: 163 Copynumber: 2.8 Consensus size: 163
6371282 GAAAATAGGG
* * * *
6371292 ATTTCAAAG-AAAAATTCAAAAACTCAAGAAGATGAATGAATTTTTGAAAAATGAATTACTATGA
1 ATTTCAAGGAAAAAATTTAAAAACTC-AGAAAATGAAT-AATTTTTGAAAAATGAATTAATATGA
* ** *
6371356 AATAAATAATGATGCTTCATGAATTTTAAAATTGAAAACCTCA-AAAAATCCTCTCGAAAAAAAT
64 AATAAATGATGATATTTGATGAATTTTAAAATTGAAAA--TCAGAAAAATCCTCTC-AAAAAAAT
* * **
6371420 TAC-GGAGTAGAAAACACCATATTTTGGAAAAAG-AAA
126 TACTAGAGTAGAAAACACCATAATTTAAAAAAAGAAAA
* * *
6371456 ATTTTAAGGAAAAAATTTAAAAACTCAGAAAATGAATAATTTTTGAAAACTAAATTAATATGAAA
1 ATTTCAAGGAAAAAATTTAAAAACTCAGAAAATGAATAATTTTTGAAAAATGAATTAATATGAAA
* * *
6371521 TAAATGATGATATTTGATGGATTTTAAAAATTGAAAAACAGAAAAA-CCCCTCAAAAAAATT-CT
66 TAAATGATGATATTTGATGAATTTT-AAAATTGAAAATCAGAAAAATCCTCTCAAAAAAATTACT
*
6371584 AGAGTAGAAAACACCGTAATTTAAAAAAAGAAAA
130 AGAGTAGAAAACACCATAATTTAAAAAAAGAAAA
* * **
6371618 ATTTCAAGGAAAAAA-ATCAAAACTCATGAAAATGAATTAATTTTT-ACAAAATGGTTTAATATG
1 ATTTCAAGGAAAAAATTTAAAAACTCA-GAAAATGAA-TAATTTTTGA-AAAATGAATTAATATG
* ** * *
6371681 AAATAAATGATCATATTTGATGAATTTTAAAAATAAAAAATTAAGAAAAATCCTCCCAAAAAAAT
63 AAATAAATGATGATATTTGATGAATTTT-AAAATTGAAAA-TCAGAAAAATCCTCTCAAAAAAAT
6371746 TA
126 TA
6371748 TGAAGAAGAA
Statistics
Matches: 247, Mismatches: 34, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
160 1 0.00
161 43 0.17
162 34 0.14
163 106 0.43
164 35 0.14
165 28 0.11
ACGTcount: A:0.53, C:0.09, G:0.11, T:0.27
Consensus pattern (163 bp):
ATTTCAAGGAAAAAATTTAAAAACTCAGAAAATGAATAATTTTTGAAAAATGAATTAATATGAAA
TAAATGATGATATTTGATGAATTTTAAAATTGAAAATCAGAAAAATCCTCTCAAAAAAATTACTA
GAGTAGAAAACACCATAATTTAAAAAAAGAAAA
Found at i:6377656 original size:18 final size:18
Alignment explanation
Indices: 6377633--6377712 Score: 74
Period size: 18 Copynumber: 4.5 Consensus size: 18
6377623 GTGTATATAT
6377633 ATATATATACTAAAATTA
1 ATATATATACTAAAATTA
*
6377651 ATATATATACTAAAATTTT
1 ATATATATACTAAAA-TTA
* * * * * *
6377670 TTAAAAAAATTAATA-T-
1 ATATATATACTAAAATTA
6377686 ATATATATACTAAAATTA
1 ATATATATACTAAAATTA
6377704 ATATATATA
1 ATATATATA
6377713 TATATATACT
Statistics
Matches: 46, Mismatches: 13, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
16 9 0.20
17 2 0.04
18 24 0.52
19 11 0.24
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (18 bp):
ATATATATACTAAAATTA
Found at i:6377702 original size:22 final size:22
Alignment explanation
Indices: 6377675--6377716 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
6377665 ATTTTTTAAA
6377675 AAAATTAATATATATATATACT
1 AAAATTAATATATATATATACT
6377697 AAAATTAATATATATATATA
1 AAAATTAATATATATATATA
6377717 TATACTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAATTAATATATATATATACT
Found at i:6377714 original size:26 final size:26
Alignment explanation
Indices: 6377626--6377761 Score: 141
Period size: 26 Copynumber: 5.0 Consensus size: 26
6377616 GAAATTTGTG
6377626 TATATATATATATATACTAAAATTAA
1 TATATATATATATATACTAAAATTAA
* * ** *
6377652 TATATATACTAAAATTTTTTAAAA-AAA
1 TATATATA-T-ATATATACTAAAATTAA
6377679 T-TAATATATATATATACTAAAATTAA
1 TAT-ATATATATATATACTAAAATTAA
6377705 TATATATATATATATACTAAAATTTTAGTA
1 TATATATATATATATACTAAAA--TTA--A
*
6377735 TATATATATATATATACAAAAATTAA
1 TATATATATATATATACTAAAATTAA
6377761 T
1 T
6377762 TTCTTAAAAA
Statistics
Matches: 90, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
25 9 0.10
26 34 0.38
27 10 0.11
28 15 0.17
30 22 0.24
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.43
Consensus pattern (26 bp):
TATATATATATATATACTAAAATTAA
Found at i:6377832 original size:2 final size:2
Alignment explanation
Indices: 6377827--6377852 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6377817 AAAAAATTCT
6377827 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
6377853 AGATATCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6378684 original size:3 final size:3
Alignment explanation
Indices: 6378669--6378698 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
6378659 AATCATTAGA
*
6378669 ATT ATT GTT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
6378699 GTTGTTGTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:6378703 original size:3 final size:3
Alignment explanation
Indices: 6378697--6378740 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
6378687 ATTATTATTA
6378697 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
6378741 CCCTGATTCC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:6380096 original size:53 final size:52
Alignment explanation
Indices: 6380017--6380122 Score: 160
Period size: 53 Copynumber: 2.0 Consensus size: 52
6380007 CAAAGGAATG
* *
6380017 TACTTTTTTATGTTTCATCTTAAAGGCTTTGTTTGGT-AGGGTAGAAAGAAAA
1 TACTTTTTTATGTTTAATCTTAAAGGCTTTGTTTGATGA-GGTAGAAAGAAAA
*
6380069 TACTTTGTTTATGTTTAATCTTGAAGGCTTTGTTTGATGAGGTAGAAAGAAAA
1 TACTTT-TTTATGTTTAATCTTAAAGGCTTTGTTTGATGAGGTAGAAAGAAAA
6380122 T
1 T
6380123 TGAAAAGCTG
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
52 6 0.12
53 42 0.86
54 1 0.02
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.42
Consensus pattern (52 bp):
TACTTTTTTATGTTTAATCTTAAAGGCTTTGTTTGATGAGGTAGAAAGAAAA
Found at i:6383792 original size:18 final size:20
Alignment explanation
Indices: 6383750--6383793 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
6383740 AAAATTAACT
*
6383750 TTAAAAAAATTAACTTTTTA
1 TTAAAAAAATTAACTTTATA
*
6383770 GTAAAAAAA-TAA-TTTATA
1 TTAAAAAAATTAACTTTATA
6383788 TTAAAA
1 TTAAAA
6383794 TAATCTTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 10 0.48
19 3 0.14
20 8 0.38
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (20 bp):
TTAAAAAAATTAACTTTATA
Found at i:6384330 original size:46 final size:45
Alignment explanation
Indices: 6384202--6384337 Score: 155
Period size: 46 Copynumber: 3.0 Consensus size: 45
6384192 AAAAAATTTG
* * * *
6384202 TTTAACAACAAAGACTTCAAACCTATCCATAGGCTCACTTGTTCCA
1 TTTAACACCAAAGACTTCAAACTTATCCATAAGCTCTC-TGTTCCA
* * *
6384248 TTTAACACCAAAGATTTCGAAGTTATCCATAAGCTCTCTGCTTCCA
1 TTTAACACCAAAGACTTCAAACTTATCCATAAGCTCTCTG-TTCCA
* * *
6384294 TTTAACACCAAAGGCTTCAAACTTACCCATATGCTCTCTAGTTC
1 TTTAACACCAAAGACTTCAAACTTATCCATAAGCTCTCT-GTTC
6384338 GGTATCTTGT
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
45 2 0.03
46 72 0.96
47 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.10, T:0.31
Consensus pattern (45 bp):
TTTAACACCAAAGACTTCAAACTTATCCATAAGCTCTCTGTTCCA
Found at i:6386227 original size:6 final size:6
Alignment explanation
Indices: 6386216--6386241 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
6386206 ATCTTGGTCC
6386216 ATAAAT ATAAAT ATAAAT ATAAAT AT
1 ATAAAT ATAAAT ATAAAT ATAAAT AT
6386242 TATTAATTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
ATAAAT
Found at i:6395029 original size:31 final size:30
Alignment explanation
Indices: 6394994--6395090 Score: 89
Period size: 30 Copynumber: 3.4 Consensus size: 30
6394984 GCTTGTAAGG
6394994 CATTAGTATTTAGTGATTTCATGTAAACAAA
1 CATTA-TATTTAGTGATTTCATGTAAACAAA
** * **
6395025 CATTATATTT--T-ATAGCTTGT--A-AGG
1 CATTATATTTAGTGATTTCATGTAAACAAA
6395049 CATTAGTATTTAGTGATTTCATGTAAACAAA
1 CATTA-TATTTAGTGATTTCATGTAAACAAA
6395080 CATTATATTTA
1 CATTATATTTA
6395091 ATTAATGTTA
Statistics
Matches: 49, Mismatches: 10, Indels: 15
0.66 0.14 0.20
Matches are distributed among these distances:
24 6 0.12
25 6 0.12
27 7 0.14
28 7 0.14
30 12 0.24
31 11 0.22
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.42
Consensus pattern (30 bp):
CATTATATTTAGTGATTTCATGTAAACAAA
Found at i:6395047 original size:55 final size:55
Alignment explanation
Indices: 6394982--6395089 Score: 216
Period size: 55 Copynumber: 2.0 Consensus size: 55
6394972 GCCAATCGTT
6394982 TAGCTTGTAAGGCATTAGTATTTAGTGATTTCATGTAAACAAACATTATATTTTA
1 TAGCTTGTAAGGCATTAGTATTTAGTGATTTCATGTAAACAAACATTATATTTTA
6395037 TAGCTTGTAAGGCATTAGTATTTAGTGATTTCATGTAAACAAACATTATATTT
1 TAGCTTGTAAGGCATTAGTATTTAGTGATTTCATGTAAACAAACATTATATTT
6395090 AATTAATGTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.42
Consensus pattern (55 bp):
TAGCTTGTAAGGCATTAGTATTTAGTGATTTCATGTAAACAAACATTATATTTTA
Found at i:6395074 original size:28 final size:28
Alignment explanation
Indices: 6394987--6395074 Score: 76
Period size: 28 Copynumber: 3.2 Consensus size: 28
6394977 TCGTTTAGCT
6394987 TGTAAGGCATTAGTATTTAGTGATTTCA
1 TGTAAGGCATTAGTATTTAGTGATTTCA
** ** *
6395015 TGTAAACAAACATTA-TATTT--T-ATAGCT
1 TGT--A-AGGCATTAGTATTTAGTGATTTCA
6395042 TGTAAGGCATTAGTATTTAGTGATTTCA
1 TGTAAGGCATTAGTATTTAGTGATTTCA
6395070 TGTAA
1 TGTAA
6395075 ACAAACATTA
Statistics
Matches: 43, Mismatches: 10, Indels: 14
0.64 0.15 0.21
Matches are distributed among these distances:
24 6 0.14
25 6 0.14
27 7 0.16
28 12 0.28
30 6 0.14
31 6 0.14
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (28 bp):
TGTAAGGCATTAGTATTTAGTGATTTCA
Found at i:6397906 original size:2 final size:2
Alignment explanation
Indices: 6397895--6397941 Score: 80
Period size: 2 Copynumber: 24.5 Consensus size: 2
6397885 GAAAGACACC
6397895 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6397936 -T AT AT A
1 AT AT AT A
6397942 GTCTCCAATC
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 41 0.95
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:6407548 original size:20 final size:22
Alignment explanation
Indices: 6407523--6407574 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
6407513 GTTCAAAACT
6407523 AATTTAAT-TAAAAAAATA-TA
1 AATTTAATATAAAAAAATATTA
* *
6407543 AATTTAATGATAAAGAATTATTA
1 AATTTAAT-ATAAAAAAATATTA
6407566 AATTTAATA
1 AATTTAATA
6407575 AATAATTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 8 0.30
22 9 0.33
23 10 0.37
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (22 bp):
AATTTAATATAAAAAAATATTA
Found at i:6407581 original size:20 final size:21
Alignment explanation
Indices: 6407552--6407591 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6407542 AAATTTAATG
*
6407552 ATAAAGAA-TTATTAAATTTA
1 ATAAAGAATTTATAAAATTTA
*
6407572 ATAAATAATTTATAAAATTT
1 ATAAAGAATTTATAAAATTT
6407592 TATCTTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (21 bp):
ATAAAGAATTTATAAAATTTA
Found at i:6408878 original size:25 final size:26
Alignment explanation
Indices: 6408835--6408887 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
6408825 AAAAAATTTT
*
6408835 AAAATTTATATTTGTATTTTTATAGAA
1 AAAATTTATATTTGTATTTATATA-AA
6408862 AAAATTT-TATTTG-ATTTATATAAA
1 AAAATTTATATTTGTATTTATATAAA
6408886 AA
1 AA
6408888 TTTTTAAGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 4 0.16
25 8 0.32
26 6 0.24
27 7 0.28
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (26 bp):
AAAATTTATATTTGTATTTATATAAA
Found at i:6408886 original size:23 final size:25
Alignment explanation
Indices: 6408835--6408893 Score: 68
Period size: 23 Copynumber: 2.4 Consensus size: 25
6408825 AAAAAATTTT
6408835 AAAATTTATATTTGTATTTTTATAGAA
1 AAAATTT-TATTTGTA-TTTTATAGAA
*
6408862 AAAATTTTATTTG-A-TTTATATAA
1 AAAATTTTATTTGTATTTTATAGAA
*
6408885 AAATTTTTA
1 AAAATTTTA
6408894 AGATATATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 16 0.53
25 1 0.03
26 6 0.20
27 7 0.23
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (25 bp):
AAAATTTTATTTGTATTTTATAGAA
Found at i:6408912 original size:6 final size:6
Alignment explanation
Indices: 6408901--6408930 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
6408891 TTAAGATATA
6408901 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
6408931 AAATATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:6408937 original size:18 final size:18
Alignment explanation
Indices: 6408887--6408942 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
6408877 TTATATAAAA
*
6408887 ATTTTTA-AGATATATTTT
1 ATTTTTATAAATAT-TTTT
***
6408905 ATTTTTATTTTTATTTTT
1 ATTTTTATAAATATTTTT
6408923 ATTTTTATAAATATTTTT
1 ATTTTTATAAATATTTTT
6408941 AT
1 AT
6408943 AATCTTAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
18 28 0.90
19 3 0.10
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.70
Consensus pattern (18 bp):
ATTTTTATAAATATTTTT
Found at i:6410191 original size:39 final size:39
Alignment explanation
Indices: 6410137--6410215 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
6410127 AAAAAGGGGT
6410137 TGGCATGGTAATAGGAACTTGGGCAATGCAAAGTAACAA
1 TGGCATGGTAATAGGAACTTGGGCAATGCAAAGTAACAA
6410176 TGGCATGGTAATAGGAACTTGGGCAATGCAAAGTAACAA
1 TGGCATGGTAATAGGAACTTGGGCAATGCAAAGTAACAA
6410215 T
1 T
6410216 CTCATTACCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.38, C:0.13, G:0.28, T:0.22
Consensus pattern (39 bp):
TGGCATGGTAATAGGAACTTGGGCAATGCAAAGTAACAA
Found at i:6410876 original size:21 final size:21
Alignment explanation
Indices: 6410818--6410876 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
6410808 TTTAAAAAAA
*
6410818 TTAAAAATAATTAATAATTATTT
1 TTAAAAAT-TTTAA-AATTATTT
* **
6410841 TTAAAAAATAAAAAATTATTT
1 TTAAAAATTTTAAAATTATTT
6410862 TTAAAAATTTTAAAA
1 TTAAAAATTTTAAAA
6410877 ACGATATTTA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
21 20 0.69
22 2 0.07
23 7 0.24
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TTAAAAATTTTAAAATTATTT
Found at i:6410936 original size:92 final size:92
Alignment explanation
Indices: 6410830--6411008 Score: 243
Period size: 92 Copynumber: 1.9 Consensus size: 92
6410820 AAAAATAATT
* * * *
6410830 AATAATTATTTTTAAAAAATAAAAAATTATTTTTAAAAATTTTAAAAACGATATTTAG-TCTCTA
1 AATAATTATCTTTAAAAAATAAAAAATTAATCTTAAAAATTTTAAAAACAATATTTAGATC-CTA
* * *
6410894 ATAATCATCTTTTAAAATCACGTCTTTC
65 ATAATAATCCTCTAAAATCACGTCTTTC
* * *
6410922 AATAATTATCTTTAAAAGATAAAAATTTAATCTTAAAAATTTTAAAATCAATATTTAGATCCTAA
1 AATAATTATCTTTAAAAAATAAAAAATTAATCTTAAAAATTTTAAAAACAATATTTAGATCCTAA
*
6410987 TAATAATCCTCTAAAATTACGT
66 TAATAATCCTCTAAAATCACGT
6411009 TTTTAAAAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
92 73 0.97
93 2 0.03
ACGTcount: A:0.46, C:0.10, G:0.03, T:0.40
Consensus pattern (92 bp):
AATAATTATCTTTAAAAAATAAAAAATTAATCTTAAAAATTTTAAAAACAATATTTAGATCCTAA
TAATAATCCTCTAAAATCACGTCTTTC
Found at i:6412190 original size:27 final size:27
Alignment explanation
Indices: 6412149--6412206 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
6412139 ATATAATTAT
* *
6412149 ATTAATATTAATATTATTTAATTTAAA
1 ATTAATATTAATATTAATTAATTAAAA
* *
6412176 ATTAATTTTATTATTAATTAATTAAAA
1 ATTAATATTAATATTAATTAATTAAAA
6412203 ATTA
1 ATTA
6412207 GTAACAAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
ATTAATATTAATATTAATTAATTAAAA
Found at i:6412931 original size:12 final size:12
Alignment explanation
Indices: 6412910--6412956 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
6412900 AGTCACTTTA
*
6412910 TAATAATAATGT
1 TAATAATAATAT
*
6412922 TAATATTAATAT
1 TAATAATAATAT
*
6412934 TAATAATATTAT
1 TAATAATAATAT
*
6412946 T-ATTATAATAT
1 TAATAATAATAT
6412957 ATAACTATAA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
11 8 0.28
12 21 0.72
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (12 bp):
TAATAATAATAT
Found at i:6412960 original size:21 final size:20
Alignment explanation
Indices: 6412907--6412960 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
6412897 ATCAGTCACT
*
6412907 TTATAATAATAATGTTAATA
1 TTATAATAATAATATTAATA
* *
6412927 TTAATATTAATAATATTATTA
1 TT-ATAATAATAATATTAATA
6412948 TTATAATATATAA
1 TTATAATA-ATAA
6412961 CTATAATACA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 7 0.25
21 21 0.75
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
TTATAATAATAATATTAATA
Found at i:6413564 original size:13 final size:13
Alignment explanation
Indices: 6413531--6413576 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
6413521 AGTAGAGGAG
6413531 AGAAA-AAAA-AA
1 AGAAAGAAAAGAA
* *
6413542 AAAAAAAAAAGAA
1 AGAAAGAAAAGAA
6413555 AGAAAGAAAAGAA
1 AGAAAGAAAAGAA
*
6413568 AGGAAGAAA
1 AGAAAGAAA
6413577 GAGAGAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
11 4 0.14
12 4 0.14
13 21 0.72
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (13 bp):
AGAAAGAAAAGAA
Found at i:6413800 original size:12 final size:11
Alignment explanation
Indices: 6413792--6413875 Score: 52
Period size: 11 Copynumber: 7.7 Consensus size: 11
6413782 AACTAAATTA
6413792 ATATTTAAAAT
1 ATATTTAAAAT
6413803 ATATTTAATAA-
1 ATATTTAA-AAT
*
6413814 A-ATGT-AAAT
1 ATATTTAAAAT
*
6413823 ATATTTAATAAA
1 ATATTTAA-AAT
* *
6413835 ATA-TCAATAT
1 ATATTTAAAAT
6413845 AT-TTAATAAAAT
1 ATATT--TAAAAT
6413857 ATATTTAAAAT
1 ATATTTAAAAT
*
6413868 ACATTTAA
1 ATATTTAA
6413876 TAAAACATAT
Statistics
Matches: 55, Mismatches: 9, Indels: 18
0.67 0.11 0.22
Matches are distributed among these distances:
8 2 0.04
9 2 0.04
10 10 0.18
11 26 0.47
12 13 0.24
13 2 0.04
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (11 bp):
ATATTTAAAAT
Found at i:6413824 original size:20 final size:20
Alignment explanation
Indices: 6413799--6413859 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
6413789 TTAATATTTA
*
6413799 AAATATATTTAATAAAATGT
1 AAATATATTTAATAAAATAT
6413819 AAATATATTTAATAAAATAT
1 AAATATATTTAATAAAATAT
*
6413839 CAATATATTTAATAAAATAT
1 AAATATATTTAATAAAATAT
6413859 A
1 A
6413860 TTTAAAATAC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (20 bp):
AAATATATTTAATAAAATAT
Found at i:6413868 original size:16 final size:14
Alignment explanation
Indices: 6413840--6413889 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 14
6413830 ATAAAATATC
6413840 AATATATTTAATAA
1 AATATATTTAATAA
6413854 AATATA-TT--TAA
1 AATATATTTAATAA
*
6413865 AATACATTTAATAA
1 AATATATTTAATAA
*
6413879 AACATATTTAA
1 AATATATTTAA
6413890 AATCGAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
11 8 0.27
12 2 0.07
13 2 0.07
14 18 0.60
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATATTTAATAA
Found at i:6413868 original size:25 final size:23
Alignment explanation
Indices: 6413791--6413892 Score: 99
Period size: 20 Copynumber: 4.5 Consensus size: 23
6413781 TAACTAAATT
6413791 AATATTTAAAATATATTTAAT-A
1 AATATTTAAAATATATTTAATAA
*
6413813 AA-ATGT-AAATATATTTAATAA
1 AATATTTAAAATATATTTAATAA
*
6413834 AATA--T-CAATATATTTAATAAA
1 AATATTTAAAATATATTTAAT-AA
*
6413855 ATATATTTAAAATACATTTAATAAA
1 A-ATATTTAAAATATATTTAAT-AA
6413880 ACATATTTAAAAT
1 A-ATATTTAAAAT
6413893 CGAAAAAATC
Statistics
Matches: 68, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
20 26 0.38
21 9 0.13
22 6 0.09
24 1 0.01
25 26 0.38
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (23 bp):
AATATTTAAAATATATTTAATAA
Done.