Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 350 of 444
Found at i:101399106 original size:17 final size:17
Alignment explanation
Indices: 101399084--101399118 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
101399074 AAAACCCTAA
*
101399084 ATATTTTTTTAAAATTT
1 ATATTTTTATAAAATTT
*
101399101 ATATTTTTATCAAATTT
1 ATATTTTTATAAAATTT
101399118 A
1 A
101399119 CCCTATTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (17 bp):
ATATTTTTATAAAATTT
Found at i:101406623 original size:13 final size:13
Alignment explanation
Indices: 101406605--101406629 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
101406595 GAATAAAAAT
101406605 TAAATATGTGTTC
1 TAAATATGTGTTC
101406618 TAAATATGTGTT
1 TAAATATGTGTT
101406630 TAATAATAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.16, T:0.48
Consensus pattern (13 bp):
TAAATATGTGTTC
Found at i:101408955 original size:44 final size:44
Alignment explanation
Indices: 101408907--101409191 Score: 435
Period size: 44 Copynumber: 6.5 Consensus size: 44
101408897 CCTTGTCAAT
* * *
101408907 ACAGAGACGCCAAATCTGTTATCTTCGATCTGTTTTCCGCCAAA
1 ACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCAAA
* *
101408951 ACAGAGACTCTAAATCTGCTATCTTCGATCTGCTCTCCGCCAAA
1 ACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCAAA
* *
101408995 ACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGCCAAT
1 ACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCAAA
* * *
101409039 ACAGAGACGCCAAATCTGCTATCTTTGATCTGCTCCCCGCCAAT
1 ACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCAAA
* *
101409083 ACAGAGACTCTAAATCTGCTATCTTCGATCTGCTCTCCGCCAAA
1 ACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCAAA
* * *
101409127 ACAGAGACGCCAAATCTGCTATCTTCGATCTACTCTCTGCCAAT
1 ACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCAAA
101409171 ACAGAGACGCCAAATCTGCTA
1 ACAGAGACGCCAAATCTGCTA
101409192 GATTTACCAA
Statistics
Matches: 219, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 219 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.26
Consensus pattern (44 bp):
ACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCAAA
Found at i:101409121 original size:132 final size:132
Alignment explanation
Indices: 101408884--101409191 Score: 519
Period size: 132 Copynumber: 2.3 Consensus size: 132
101408874 AGATTCGTCG
* * * * **
101408884 TCTTCGATTTGCTC-CTTGTCAATACAGAGACGCCAAATCTGTTATCTTCGATCTGTTTTCCGCC
1 TCTTCGATCTGCTCTC-TGCCAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCCCCGCC
101408948 AAAACAGAGACTCTAAATCTGCTATCTTCGATCTGCTCTCCGCCAAAACAGAGACGCCAAATCTG
65 AAAACAGAGACTCTAAATCTGCTATCTTCGATCTGCTCTCCGCCAAAACAGAGACGCCAAATCTG
101409013 CTA
130 CTA
*
101409016 TCTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTTTGATCTGCTCCCCGCCA
1 TCTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCCCCGCCA
*
101409081 ATACAGAGACTCTAAATCTGCTATCTTCGATCTGCTCTCCGCCAAAACAGAGACGCCAAATCTGC
66 AAACAGAGACTCTAAATCTGCTATCTTCGATCTGCTCTCCGCCAAAACAGAGACGCCAAATCTGC
101409146 TA
131 TA
*
101409148 TCTTCGATCTACTCTCTGCCAATACAGAGACGCCAAATCTGCTA
1 TCTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTA
101409192 GATTTACCAA
Statistics
Matches: 166, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
132 165 0.99
133 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (132 bp):
TCTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCCCCGCCA
AAACAGAGACTCTAAATCTGCTATCTTCGATCTGCTCTCCGCCAAAACAGAGACGCCAAATCTGC
TA
Found at i:101422201 original size:13 final size:13
Alignment explanation
Indices: 101422183--101422207 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
101422173 GAATAAAAAT
101422183 TAAATATGTGTTC
1 TAAATATGTGTTC
101422196 TAAATATGTGTT
1 TAAATATGTGTT
101422208 TAATAATAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.16, T:0.48
Consensus pattern (13 bp):
TAAATATGTGTTC
Found at i:101422428 original size:2 final size:2
Alignment explanation
Indices: 101422421--101422452 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
101422411 TAGAAAACAA
101422421 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
101422453 CATGTGGACC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:101435586 original size:22 final size:22
Alignment explanation
Indices: 101435561--101435603 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
101435551 CTAGAATTTA
101435561 TAAAA-ATTTGAGAAAGTTTAAT
1 TAAAATATTTGA-AAAGTTTAAT
*
101435583 TAAAATATTTGAAAATTTTAA
1 TAAAATATTTGAAAAGTTTAA
101435604 AGTGTATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (22 bp):
TAAAATATTTGAAAAGTTTAAT
Found at i:101449442 original size:15 final size:14
Alignment explanation
Indices: 101449418--101449451 Score: 59
Period size: 15 Copynumber: 2.4 Consensus size: 14
101449408 TCCATTTTCG
101449418 TTTTTTTATTTTGT
1 TTTTTTTATTTTGT
101449432 TTTTCTTTATTTTGT
1 TTTT-TTTATTTTGT
101449447 TTTTT
1 TTTTT
101449452 AGTTTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.06, C:0.03, G:0.06, T:0.85
Consensus pattern (14 bp):
TTTTTTTATTTTGT
Found at i:101449444 original size:20 final size:20
Alignment explanation
Indices: 101449412--101449449 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
101449402 TCTTTGTCCA
101449412 TTTTCGTTTTTTTATTTTGT
1 TTTTCGTTTTTTTATTTTGT
*
101449432 TTTTC-TTTATTTTGTTTT
1 TTTTCGTTT-TTTTATTTT
101449450 TTAGTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.05, C:0.05, G:0.08, T:0.82
Consensus pattern (20 bp):
TTTTCGTTTTTTTATTTTGT
Found at i:101449500 original size:24 final size:23
Alignment explanation
Indices: 101449420--101449509 Score: 83
Period size: 24 Copynumber: 3.7 Consensus size: 23
101449410 CATTTTCGTT
*
101449420 TTTTTATTTTGTTTTTCTTTATTTTG
1 TTTTTA-TTTG-TTTTATTTA-TTTG
*
101449446 TTTTTTAGTT-TTTTATTTATTTG
1 -TTTTTATTTGTTTTATTTATTTG
*
101449469 TCCTTTATTTGTTTTATTTATTTG
1 T-TTTTATTTGTTTTATTTATTTG
*
101449493 TTTATTATTGGTTTTAT
1 TTT-TTATTTGTTTTAT
101449510 AATATTTAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
22 1 0.02
23 11 0.20
24 34 0.63
26 2 0.04
27 6 0.11
ACGTcount: A:0.12, C:0.03, G:0.09, T:0.76
Consensus pattern (23 bp):
TTTTTATTTGTTTTATTTATTTG
Found at i:101449508 original size:12 final size:12
Alignment explanation
Indices: 101449442--101449509 Score: 54
Period size: 11 Copynumber: 5.8 Consensus size: 12
101449432 TTTTCTTTAT
101449442 TTTGTTTT-TTA
1 TTTGTTTTATTA
*
101449453 GTT-TTTTATTTA
1 TTTGTTTTA-TTA
**
101449465 TTTGTCCT-TTA
1 TTTGTTTTATTA
101449476 TTTGTTTTATTTA
1 TTTGTTTTA-TTA
101449489 TTTG-TTTATTA
1 TTTGTTTTATTA
*
101449500 TTGGTTTTAT
1 TTTGTTTTAT
101449510 AATATTTAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 11
0.71 0.11 0.18
Matches are distributed among these distances:
10 4 0.09
11 17 0.39
12 14 0.32
13 9 0.20
ACGTcount: A:0.13, C:0.03, G:0.10, T:0.74
Consensus pattern (12 bp):
TTTGTTTTATTA
Found at i:101453743 original size:20 final size:21
Alignment explanation
Indices: 101453720--101453772 Score: 85
Period size: 20 Copynumber: 2.7 Consensus size: 21
101453710 TTTTATAACA
101453720 AAATATATATTTTTAAA-TTT
1 AAATATATATTTTTAAATTTT
101453740 AAATAT-TATTTTTAAATTTT
1 AAATATATATTTTTAAATTTT
101453760 AAATATA-ATTTTT
1 AAATATATATTTTT
101453773 TAATATTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 10 0.32
20 21 0.68
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
AAATATATATTTTTAAATTTT
Found at i:101453790 original size:20 final size:21
Alignment explanation
Indices: 101453720--101453784 Score: 73
Period size: 20 Copynumber: 3.1 Consensus size: 21
101453710 TTTTATAACA
101453720 AAATAT-ATATTTTTAAATT-T
1 AAATATAAT-TTTTTAAATTAT
* *
101453740 AAATATTA-TTTTTAAATTTT
1 AAATATAATTTTTTAAATTAT
101453760 AAATATAATTTTTTAATATTAT
1 AAATATAATTTTTTAA-ATTAT
101453782 AAA
1 AAA
101453785 AAATTTAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
19 10 0.26
20 14 0.36
21 8 0.21
22 7 0.18
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
AAATATAATTTTTTAAATTAT
Found at i:101453816 original size:33 final size:32
Alignment explanation
Indices: 101453753--101453816 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
101453743 TATTATTTTT
* *
101453753 AAATTTTAAATATAATTTTTTAATATTATAAA
1 AAATTTAAAATATAATTTTTTAATAATATAAA
*
101453785 AAATTTAAAATATATTATTTTTAA-AGATATAA
1 AAATTTAAAATATAAT-TTTTTAATA-ATATAA
101453817 CCTTTCAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 15 0.56
33 12 0.44
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (32 bp):
AAATTTAAAATATAATTTTTTAATAATATAAA
Found at i:101453914 original size:15 final size:16
Alignment explanation
Indices: 101453889--101453919 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
101453879 TATTTTTAAA
101453889 ATTTTTAAAAATTATT
1 ATTTTTAAAAATTATT
101453905 ATTTTT-AAAATTATT
1 ATTTTTAAAAATTATT
101453920 TTTAAAGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTTTTAAAAATTATT
Found at i:101453931 original size:12 final size:12
Alignment explanation
Indices: 101453869--101453925 Score: 62
Period size: 12 Copynumber: 4.6 Consensus size: 12
101453859 ATTTTAAAAA
101453869 TTTTAAATATTAT
1 TTTTAAA-ATTAT
101453882 TTTTAAAATT-T
1 TTTTAAAATTAT
**
101453893 TTAAAAATTATTAT
1 TTTTAAA--ATTAT
101453907 TTTTAAAATTAT
1 TTTTAAAATTAT
101453919 TTTTAAA
1 TTTTAAA
101453926 GATATTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
11 6 0.16
12 15 0.41
13 10 0.27
14 6 0.16
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TTTTAAAATTAT
Found at i:101453963 original size:22 final size:22
Alignment explanation
Indices: 101453847--101453963 Score: 76
Period size: 22 Copynumber: 5.0 Consensus size: 22
101453837 GTTTATAATA
*
101453847 TTTTAAATGTATATTTTAAAA-AT
1 TTTTAAAT-TATA-TTTAAAATTT
* *
101453870 TTTAAATATTATTTTTAAAATTT
1 TTTTAA-ATTATATTTAAAATTT
**
101453893 TTAAAAATTATTATTTTTAAAATTAT
1 TTTTAAATTA-TA--TTTAAAATT-T
* * *
101453919 TTTTAAA-GATATTCAAACTTTT
1 TTTTAAATTATATTTAAA-ATTT
101453941 TTTTAAATTATATTTAAAATTT
1 TTTTAAATTATATTTAAAATTT
101453963 T
1 T
101453964 AAAAAATAAT
Statistics
Matches: 73, Mismatches: 13, Indels: 17
0.71 0.13 0.17
Matches are distributed among these distances:
22 28 0.38
23 25 0.34
24 4 0.05
25 10 0.14
26 6 0.08
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (22 bp):
TTTTAAATTATATTTAAAATTT
Found at i:101460247 original size:10 final size:10
Alignment explanation
Indices: 101460224--101460258 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
101460214 AAATATACAT
*
101460224 AAAATATTATA
1 AAAAAATTA-A
101460235 AAAAAATTAA
1 AAAAAATTAA
101460245 AAAAAATTAA
1 AAAAAATTAA
101460255 AAAA
1 AAAA
101460259 GAATAAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 15 0.65
11 8 0.35
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (10 bp):
AAAAAATTAA
Found at i:101460265 original size:10 final size:9
Alignment explanation
Indices: 101460232--101460301 Score: 52
Period size: 9 Copynumber: 7.3 Consensus size: 9
101460222 ATAAAATATT
101460232 ATAAAAAAA
1 ATAAAAAAA
*
101460241 TTAAAAAAA
1 ATAAAAAAA
101460250 ATTAAAAAAGA
1 A-TAAAAAA-A
*
101460261 AT-AAACAA
1 ATAAAAAAA
101460269 ATAAAAAACA
1 ATAAAAAA-A
*
101460279 AAAAAGGAAAA
1 ATAAA--AAAA
*
101460290 ATAAATAAA
1 ATAAAAAAA
101460299 ATA
1 ATA
101460302 TTATTTTTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
8 3 0.06
9 22 0.46
10 13 0.27
11 7 0.15
12 3 0.06
ACGTcount: A:0.79, C:0.03, G:0.04, T:0.14
Consensus pattern (9 bp):
ATAAAAAAA
Found at i:101460369 original size:23 final size:23
Alignment explanation
Indices: 101460315--101460442 Score: 63
Period size: 22 Copynumber: 5.4 Consensus size: 23
101460305 TTTTTTAAAT
* *
101460315 TTTAAATATAATTTTAAAAAAACA
1 TTTAAAAAT-ATTTTAAAAATACA
*
101460339 TTT--CAATATCTTTAAAAATA-A
1 TTTAAAAATAT-TTTAAAAATACA
101460360 TTTAAAAATAATAGTTTAAAAAAATA-A
1 TTTAAAAAT-AT--TTT--AAAAATACA
* * *
101460387 TTTTTAAAATTTTTTAAAAATAATA
1 -TTTAAAAATATTTTAAAAAT-ACA
101460412 TTTAAAAA-A-TTTAAAATATACA
1 TTTAAAAATATTTTAAAA-ATACA
101460434 -TTAAAAATA
1 TTTAAAAATA
101460443 CTATAAACCA
Statistics
Matches: 82, Mismatches: 10, Indels: 26
0.69 0.08 0.22
Matches are distributed among these distances:
21 13 0.16
22 21 0.26
23 11 0.13
24 13 0.16
25 7 0.09
27 9 0.11
28 8 0.10
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (23 bp):
TTTAAAAATATTTTAAAAATACA
Found at i:101460420 original size:25 final size:25
Alignment explanation
Indices: 101460349--101460423 Score: 73
Period size: 25 Copynumber: 3.0 Consensus size: 25
101460339 TTTCAATATC
* **
101460349 TTTAAAAATAAT-TTAAAAATAATAG
1 TTTAAAAATAATATTTAAAA-AATTT
**
101460374 TTTAAAAA-AATAATTTTTAAAATTT
1 TTTAAAAATAAT-ATTTAAAAAATTT
101460399 TTTAAAAATAATATTTAAAAAATTT
1 TTTAAAAATAATATTTAAAAAATTT
101460424 AAAATATACA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
24 3 0.08
25 30 0.75
26 7 0.17
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (25 bp):
TTTAAAAATAATATTTAAAAAATTT
Found at i:101460421 original size:14 final size:13
Alignment explanation
Indices: 101460349--101460419 Score: 62
Period size: 11 Copynumber: 5.6 Consensus size: 13
101460339 TTTCAATATC
101460349 TTTAAAAAT-A-A
1 TTTAAAAATAATA
101460360 TTTAAAAATAATA
1 TTTAAAAATAATA
101460373 GTTTAAAAA-AATAA
1 -TTTAAAAATAAT-A
* *
101460387 TTTTTAAAAT--TT
1 -TTTAAAAATAATA
101460399 TTTAAAAATAATA
1 TTTAAAAATAATA
101460412 TTTAAAAA
1 TTTAAAAA
101460420 ATTTAAAATA
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
11 17 0.35
12 1 0.02
13 14 0.29
14 16 0.33
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (13 bp):
TTTAAAAATAATA
Found at i:101460536 original size:21 final size:21
Alignment explanation
Indices: 101460496--101460549 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
101460486 ATATATTTTA
101460496 AATATTTTATAATATTAAAAAAT
1 AATA-TTTA-AATATTAAAAAAT
*
101460519 AATATTTAAATTTTAAAAAAT
1 AATATTTAAATATTAAAAAAT
*
101460540 AATTTTTAAA
1 AATATTTAAA
101460550 AAATATATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 21 0.72
22 4 0.14
23 4 0.14
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AATATTTAAATATTAAAAAAT
Found at i:101460546 original size:14 final size:13
Alignment explanation
Indices: 101460529--101460563 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
101460519 AATATTTAAA
101460529 TTTTAAAAAATAAT
1 TTTTAAAAAAT-AT
101460543 TTTTAAAAAATAT
1 TTTTAAAAAATAT
*
101460556 ATTTAAAA
1 TTTTAAAA
101460564 TTTTAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
TTTTAAAAAATAT
Found at i:101460572 original size:22 final size:21
Alignment explanation
Indices: 101460543--101460609 Score: 89
Period size: 21 Copynumber: 3.0 Consensus size: 21
101460533 AAAAAATAAT
101460543 TTTTAAAAAATATATTTAAAA
1 TTTTAAAAAATATATTTAAAA
101460564 TTTTAAAAAATAATATTATAAAA
1 TTTTAAAAAAT-ATATT-TAAAA
* *
101460587 TATTTAAAATATACATTTAAAA
1 T-TTTAAAAAATATATTTAAAA
101460609 T
1 T
101460610 ATTACAAATC
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
21 11 0.27
22 11 0.27
23 10 0.24
24 9 0.22
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (21 bp):
TTTTAAAAAATATATTTAAAA
Found at i:101460589 original size:34 final size:34
Alignment explanation
Indices: 101460504--101460596 Score: 129
Period size: 35 Copynumber: 2.8 Consensus size: 34
101460494 TAAATATTTT
101460504 ATAATATTAAAAAATAATATTT-AAATTTTAAAAA
1 ATAATATTAAAAAAT-ATATTTAAAATTTTAAAAA
*
101460538 ATAATTTTTAAAAAATATATTTAAAATTTTAAAAA
1 ATAA-TATTAAAAAATATATTTAAAATTTTAAAAA
*
101460573 ATAATATT-ATAAA-ATATTTAAAAT
1 ATAATATTAAAAAATATATTTAAAAT
101460597 ATACATTTAA
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
32 11 0.20
33 4 0.07
34 13 0.24
35 26 0.48
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (34 bp):
ATAATATTAAAAAATATATTTAAAATTTTAAAAA
Found at i:101460610 original size:22 final size:22
Alignment explanation
Indices: 101460544--101460612 Score: 95
Period size: 22 Copynumber: 3.1 Consensus size: 22
101460534 AAAAATAATT
101460544 TTTAAAAAATATATTTAAAAT-
1 TTTAAAAAATATATTTAAAATA
101460565 TTTAAAAAATAATATTATAAAATA
1 TTTAAAAAAT-ATATT-TAAAATA
* *
101460589 TTTAAAATATACATTTAAAATA
1 TTTAAAAAATATATTTAAAATA
101460611 TT
1 TT
101460613 ACAAATCGAA
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
21 10 0.23
22 14 0.33
23 10 0.23
24 9 0.21
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (22 bp):
TTTAAAAAATATATTTAAAATA
Found at i:101462130 original size:74 final size:74
Alignment explanation
Indices: 101462009--101462160 Score: 295
Period size: 74 Copynumber: 2.1 Consensus size: 74
101461999 CAAAAACATT
101462009 GTACAATAAGTTAAAAAACATCCTTAATAATTTTTGGTGGAGGAATAATAAATCGCTTAAAAGAA
1 GTACAATAAGTTAAAAAACATCCTTAATAATTTTTGGTGGAGGAATAATAAATCGCTTAAAAGAA
101462074 CTCATTGAA
66 CTCATTGAA
*
101462083 GTACAATAAGTTAAAAAACATCCTTAATAATTTTTGGTGGAGGAATAATAAATCGCTTAAAGGAA
1 GTACAATAAGTTAAAAAACATCCTTAATAATTTTTGGTGGAGGAATAATAAATCGCTTAAAAGAA
101462148 CTCATTGAA
66 CTCATTGAA
101462157 GTAC
1 GTAC
101462161 TTGACAATGC
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 77 1.00
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.30
Consensus pattern (74 bp):
GTACAATAAGTTAAAAAACATCCTTAATAATTTTTGGTGGAGGAATAATAAATCGCTTAAAAGAA
CTCATTGAA
Found at i:101463835 original size:30 final size:31
Alignment explanation
Indices: 101463799--101463867 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
101463789 GGTTTCATTT
* *
101463799 CAGTCACTCAACTTT-C-GAAAAGTTACAAAA
1 CAGTCACT-AACTTTACAAAAAAGTGACAAAA
101463829 CAGTCACTAACTTTACAAAAAAGTGACAAAA
1 CAGTCACTAACTTTACAAAAAAGTGACAAAA
101463860 CAGTCACT
1 CAGTCACT
101463868 GACTAACAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
29 6 0.17
30 9 0.26
31 20 0.57
ACGTcount: A:0.45, C:0.23, G:0.10, T:0.22
Consensus pattern (31 bp):
CAGTCACTAACTTTACAAAAAAGTGACAAAA
Found at i:101463929 original size:21 final size:20
Alignment explanation
Indices: 101463901--101463945 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
101463891 TAAACATAAG
101463901 AACTGCTGATGTGG-CAAGTT
1 AACTGCTGATGTGGCCAA-TT
101463921 AACTAGCTGATGTGGCCAATT
1 AACT-GCTGATGTGGCCAATT
101463942 AACT
1 AACT
101463946 TGCCACGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 4 0.17
21 16 0.70
22 3 0.13
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (20 bp):
AACTGCTGATGTGGCCAATT
Found at i:101465203 original size:3 final size:3
Alignment explanation
Indices: 101465195--101465231 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
101465185 TTTCAGCTTT
* *
101465195 TTC TTC TTC TTC TTC CTA TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
101465232 CTGTTAAAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:101465314 original size:21 final size:21
Alignment explanation
Indices: 101465288--101465328 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
101465278 CAACGTGGCA
101465288 AGTTAACTGGCCACATCAGCT
1 AGTTAACTGGCCACATCAGCT
*
101465309 AGTTAACTTGCCACATCAGC
1 AGTTAACTGGCCACATCAGC
101465329 CGCTCTGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.24
Consensus pattern (21 bp):
AGTTAACTGGCCACATCAGCT
Found at i:101465956 original size:18 final size:19
Alignment explanation
Indices: 101465921--101465955 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
101465911 TTAAATAATT
101465921 TTGAATATTATAAGTTTTA
1 TTGAATATTATAAGTTTTA
101465940 TTGAA-ATTA-AAGTTTT
1 TTGAATATTATAAGTTTT
101465956 TCTATTTACC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 4 0.25
19 5 0.31
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.51
Consensus pattern (19 bp):
TTGAATATTATAAGTTTTA
Found at i:101474677 original size:18 final size:18
Alignment explanation
Indices: 101474654--101474688 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
101474644 GTAGGTTTCC
*
101474654 AAAAATAGAAATAGAAAT
1 AAAAATAAAAATAGAAAT
*
101474672 AAAAATAAAAATGGAAA
1 AAAAATAAAAATAGAAA
101474689 CTTGTAATCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.14
Consensus pattern (18 bp):
AAAAATAAAAATAGAAAT
Found at i:101478104 original size:40 final size:40
Alignment explanation
Indices: 101478059--101478266 Score: 213
Period size: 40 Copynumber: 5.2 Consensus size: 40
101478049 CGGAATACAA
*
101478059 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * * * *
101478099 CCGGATAGAACGACTTGCACAAATACCTTCGGGTATTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* *
101478139 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* ** * *
101478179 CCGGATGTAGTCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACGAA-TGCCTTCGGGTCTTAGC
** * * * *
101478219 CCGGATATAATTACTAGCA-TAGATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTTGCACGA-ATGCCTTCGGGTCTTAGC
101478259 CCGGATAT
1 CCGGATAT
101478267 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 2 0.01
40 138 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:101485209 original size:15 final size:15
Alignment explanation
Indices: 101485189--101485249 Score: 56
Period size: 15 Copynumber: 4.1 Consensus size: 15
101485179 GCCATTTTTA
101485189 TTTTTA-TTGTAATTT
1 TTTTTAGTT-TAATTT
101485204 TTTTTAGTTTAA-TT
1 TTTTTAGTTTAATTT
**
101485218 TTTGCA-TTCTAATTT
1 TTTTTAGTT-TAATTT
*
101485233 TTTTCAGTTTAATTT
1 TTTTTAGTTTAATTT
101485248 TT
1 TT
101485250 GCATTCTAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
13 2 0.05
14 9 0.23
15 24 0.62
16 4 0.10
ACGTcount: A:0.20, C:0.05, G:0.07, T:0.69
Consensus pattern (15 bp):
TTTTTAGTTTAATTT
Found at i:101485241 original size:29 final size:29
Alignment explanation
Indices: 101485198--101485266 Score: 129
Period size: 29 Copynumber: 2.4 Consensus size: 29
101485188 ATTTTTATTG
*
101485198 TAATTTTTTTTAGTTTAATTTTTGCATTC
1 TAATTTTTTTCAGTTTAATTTTTGCATTC
101485227 TAATTTTTTTCAGTTTAATTTTTGCATTC
1 TAATTTTTTTCAGTTTAATTTTTGCATTC
101485256 TAATTTTTTTC
1 TAATTTTTTTC
101485267 TTCTTTTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.20, C:0.09, G:0.06, T:0.65
Consensus pattern (29 bp):
TAATTTTTTTCAGTTTAATTTTTGCATTC
Found at i:101485263 original size:15 final size:15
Alignment explanation
Indices: 101485216--101485264 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
101485206 TTTAGTTTAA
101485216 TTTTTGCATTCTAAT
1 TTTTTGCATTCTAAT
*
101485231 TTTTTTCAGTT-TAA-
1 TTTTTGCA-TTCTAAT
101485245 TTTTTGCATTCTAAT
1 TTTTTGCATTCTAAT
101485260 TTTTT
1 TTTTT
101485265 TCTTCTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
13 2 0.07
14 10 0.34
15 15 0.52
16 2 0.07
ACGTcount: A:0.18, C:0.10, G:0.06, T:0.65
Consensus pattern (15 bp):
TTTTTGCATTCTAAT
Found at i:101485270 original size:14 final size:15
Alignment explanation
Indices: 101485189--101485270 Score: 68
Period size: 14 Copynumber: 5.7 Consensus size: 15
101485179 GCCATTTTTA
*
101485189 TTTTT-ATTGTAATT
1 TTTTTCATTCTAATT
*
101485203 TTTTTTAGTT-TAA-T
1 TTTTTCA-TTCTAATT
*
101485217 TTTTGCATTCTAATT
1 TTTTTCATTCTAATT
101485232 TTTTTCAGTT-TAA-T
1 TTTTTCA-TTCTAATT
*
101485246 TTTTGCATTCTAATT
1 TTTTTCATTCTAATT
101485261 TTTTTC-TTCT
1 TTTTTCATTCT
101485271 TTTATTTGCT
Statistics
Matches: 56, Mismatches: 5, Indels: 14
0.75 0.07 0.19
Matches are distributed among these distances:
13 4 0.07
14 28 0.50
15 20 0.36
16 4 0.07
ACGTcount: A:0.18, C:0.09, G:0.06, T:0.67
Consensus pattern (15 bp):
TTTTTCATTCTAATT
Found at i:101488806 original size:29 final size:28
Alignment explanation
Indices: 101488767--101488822 Score: 94
Period size: 29 Copynumber: 2.0 Consensus size: 28
101488757 AACTTTGTGC
*
101488767 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTAGTGTGTTTTGGA-GGATTATAT
101488796 TATTCTAGTGTGTTTTGGAGGATTATA
1 TATTCTAGTGTGTTTTGGAGGATTATA
101488823 CTGGTGTGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 8 0.31
29 18 0.69
ACGTcount: A:0.20, C:0.04, G:0.27, T:0.50
Consensus pattern (28 bp):
TATTCTAGTGTGTTTTGGAGGATTATAT
Found at i:101489073 original size:20 final size:20
Alignment explanation
Indices: 101489050--101489107 Score: 62
Period size: 21 Copynumber: 2.9 Consensus size: 20
101489040 TGTCGTATTT
101489050 CAGGCACTTGTGTGTCGCAG
1 CAGGCACTTGTGTGTCGCAG
* ***
101489070 CAGGCACCTCGTGTGTCGTTT
1 CAGGCA-CTTGTGTGTCGCAG
*
101489091 CAGGCACTTTTGTGTCG
1 CAGGCACTTGTGTGTCG
101489108 TATTCTGATC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.12, C:0.26, G:0.31, T:0.31
Consensus pattern (20 bp):
CAGGCACTTGTGTGTCGCAG
Found at i:101489094 original size:21 final size:21
Alignment explanation
Indices: 101489038--101489097 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
101489028 AGGCACTTTA
*
101489038 TGTGTCGTATTTCAGGCA-CTTG
1 TGTGTCG--TTTCAGGCACCTCG
***
101489060 TGTGTCGCAGCAGGCACCTCG
1 TGTGTCGTTTCAGGCACCTCG
101489081 TGTGTCGTTTCAGGCAC
1 TGTGTCGTTTCAGGCAC
101489098 TTTTGTGTCG
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
20 6 0.20
21 17 0.57
22 7 0.23
ACGTcount: A:0.13, C:0.25, G:0.30, T:0.32
Consensus pattern (21 bp):
TGTGTCGTTTCAGGCACCTCG
Found at i:101489108 original size:20 final size:20
Alignment explanation
Indices: 101489026--101489108 Score: 76
Period size: 20 Copynumber: 4.0 Consensus size: 20
101489016 GCTTTACTGA
*
101489026 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCAC-TTGTGTGTCG--TT
**
101489049 TCAGGCACTTGTGTGTCGCA
1 TCAGGCACTTGTGTGTCGTT
* *
101489069 GCAGGCACCTCGTGTGTCGTT
1 TCAGGCA-CTTGTGTGTCGTT
*
101489090 TCAGGCACTTTTGTGTCGT
1 TCAGGCACTTGTGTGTCGT
101489109 ATTCTGATCA
Statistics
Matches: 49, Mismatches: 10, Indels: 5
0.77 0.16 0.08
Matches are distributed among these distances:
20 16 0.33
21 16 0.33
22 9 0.18
23 8 0.16
ACGTcount: A:0.13, C:0.23, G:0.28, T:0.36
Consensus pattern (20 bp):
TCAGGCACTTGTGTGTCGTT
Found at i:101500754 original size:15 final size:15
Alignment explanation
Indices: 101500734--101500763 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
101500724 CTTTTTTTTC
101500734 CTTTTTCTTATTCTT
1 CTTTTTCTTATTCTT
101500749 CTTTTTCTTATTCTT
1 CTTTTTCTTATTCTT
101500764 ATACTTTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.73
Consensus pattern (15 bp):
CTTTTTCTTATTCTT
Found at i:101500826 original size:12 final size:12
Alignment explanation
Indices: 101500806--101500844 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
101500796 CTACTATTTC
*
101500806 TATTATTTTTAG
1 TATTTTTTTTAG
101500818 TA-TTTTTTTAG
1 TATTTTTTTTAG
*
101500829 TATTTTTTTTAC
1 TATTTTTTTTAG
101500841 TATT
1 TATT
101500845 ACCTTTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 10 0.42
12 14 0.58
ACGTcount: A:0.21, C:0.03, G:0.05, T:0.72
Consensus pattern (12 bp):
TATTTTTTTTAG
Found at i:101500834 original size:10 final size:11
Alignment explanation
Indices: 101500806--101500837 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
101500796 CTACTATTTC
101500806 TATTATTTTTAG
1 TATT-TTTTTAG
101500818 TATTTTTTTAG
1 TATTTTTTTAG
101500829 TATTTTTTT
1 TATTTTTTT
101500838 TACTATTACC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 16 0.80
12 4 0.20
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (11 bp):
TATTTTTTTAG
Found at i:101500907 original size:19 final size:19
Alignment explanation
Indices: 101500871--101500926 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
101500861 GTATCATTGA
*
101500871 GTTTATTTCTTTTCTTTTT
1 GTTTATTTCTTTTATTTTT
101500890 GTTTATTT-TTATTATTTTT
1 GTTTATTTCTT-TTATTTTT
*
101500909 -TTTAGTTGC-TTTATTTTT
1 GTTTA-TTTCTTTTATTTTT
101500927 ATTTTCTTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
18 14 0.44
19 18 0.56
ACGTcount: A:0.11, C:0.05, G:0.07, T:0.77
Consensus pattern (19 bp):
GTTTATTTCTTTTATTTTT
Found at i:101505454 original size:13 final size:13
Alignment explanation
Indices: 101505438--101505462 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
101505428 TTTTTCAAGA
101505438 AAATTCTTTAATC
1 AAATTCTTTAATC
101505451 AAATTCTTTAAT
1 AAATTCTTTAAT
101505463 TGAACAATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (13 bp):
AAATTCTTTAATC
Found at i:101507899 original size:16 final size:16
Alignment explanation
Indices: 101507874--101507904 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
101507864 ATAATATCCC
101507874 CTAACAGTCAAATTCT
1 CTAACAGTCAAATTCT
*
101507890 CTAACGGTCAAATTC
1 CTAACAGTCAAATTC
101507905 CCAACGACCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.26, G:0.10, T:0.29
Consensus pattern (16 bp):
CTAACAGTCAAATTCT
Found at i:101510696 original size:16 final size:16
Alignment explanation
Indices: 101510675--101510711 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
101510665 CTAAAACCCT
* *
101510675 CAAACAAAATCTTAAA
1 CAAACAAAACCCTAAA
101510691 CAAACAAAACCCTAAA
1 CAAACAAAACCCTAAA
101510707 CAAAC
1 CAAAC
101510712 CTTAAAGCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.62, C:0.27, G:0.00, T:0.11
Consensus pattern (16 bp):
CAAACAAAACCCTAAA
Found at i:101511431 original size:17 final size:17
Alignment explanation
Indices: 101511409--101511441 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
101511399 TGTGACAATA
*
101511409 CTTAAAAATTAAAAAAT
1 CTTAAAAAATAAAAAAT
101511426 CTTAAAAAATAAAAAA
1 CTTAAAAAATAAAAAA
101511442 ATTATAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (17 bp):
CTTAAAAAATAAAAAAT
Found at i:101511595 original size:2 final size:2
Alignment explanation
Indices: 101511583--101511635 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
101511573 AAAGAATTTT
*
101511583 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
101511625 TA TA TA TA TA T
1 TA TA TA TA TA T
101511636 TTTCTTAATT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:101514233 original size:9 final size:9
Alignment explanation
Indices: 101514202--101514252 Score: 57
Period size: 9 Copynumber: 5.7 Consensus size: 9
101514192 TTCATGCTGC
101514202 TCCTCTTGT
1 TCCTCTTGT
*
101514211 TCATCTTGT
1 TCCTCTTGT
* *
101514220 ACCTCCTGT
1 TCCTCTTGT
* *
101514229 TCCTCGTGA
1 TCCTCTTGT
101514238 TCCTCTTGT
1 TCCTCTTGT
101514247 TCCTCT
1 TCCTCT
101514253 ACATTTCCTC
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.06, C:0.35, G:0.12, T:0.47
Consensus pattern (9 bp):
TCCTCTTGT
Found at i:101527425 original size:43 final size:43
Alignment explanation
Indices: 101527362--101527519 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 43
101527352 GTACAATATC
* * * *
101527362 ATATCCTAGATATGGTCTTACATGTTATCACATATCGATGCCA
1 ATATCCCAGACATGGTCTTACACGTAATCACATATCGATGCCA
* * *
101527405 TTATCCCAGACA-GGCTCTTACACGTAATCGA-TTAACGATGCCA
1 ATATCCCAGACATGG-TCTTACACGTAATC-ACATATCGATGCCA
* * *
101527448 ATGTCTCAGACATGGTCTTACACGTAATCACA-ATACAATGCCA
1 ATATCCCAGACATGGTCTTACACGTAATCACATAT-CGATGCCA
* *
101527491 ATATCCCAGACATAGTCTTACATGTAATC
1 ATATCCCAGACATGGTCTTACACGTAATC
101527520 TCATCTTGGC
Statistics
Matches: 93, Mismatches: 17, Indels: 10
0.77 0.14 0.08
Matches are distributed among these distances:
42 4 0.04
43 86 0.92
44 3 0.03
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (43 bp):
ATATCCCAGACATGGTCTTACACGTAATCACATATCGATGCCA
Found at i:101528626 original size:36 final size:36
Alignment explanation
Indices: 101528579--101528688 Score: 193
Period size: 36 Copynumber: 3.1 Consensus size: 36
101528569 TTTTCTCAAA
*
101528579 TTAACCACTTAAATGACAAAATTAGCATACGAAACT
1 TTAACCACTTAAATGATAAAATTAGCATACGAAACT
*
101528615 TTAACCACTTAAATGATAAAATTCGCATACGAAACT
1 TTAACCACTTAAATGATAAAATTAGCATACGAAACT
*
101528651 TTAACCACTTAAATGATAAAATTAGCATATGAAACT
1 TTAACCACTTAAATGATAAAATTAGCATACGAAACT
101528687 TT
1 TT
101528689 CACACATACA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 70 1.00
ACGTcount: A:0.45, C:0.17, G:0.08, T:0.29
Consensus pattern (36 bp):
TTAACCACTTAAATGATAAAATTAGCATACGAAACT
Found at i:101533802 original size:55 final size:55
Alignment explanation
Indices: 101533742--101533857 Score: 126
Period size: 55 Copynumber: 2.1 Consensus size: 55
101533732 AAACGGCACT
* ** * *
101533742 GGCGTGCGACATACCCGTGCCTTG-AAGTCGTGGCCGAACCTATCAAATTAACACG
1 GGCGTGCGACACACCCGTGCCAAGTAACT-GTGGCCGAACCTATCAAATTAACACA
* * * * *
101533797 GGCGTGTGACACGCCCGTGCCAAGTAACTGTGGGCGAACCTGTTAAATTAACACA
1 GGCGTGCGACACACCCGTGCCAAGTAACTGTGGCCGAACCTATCAAATTAACACA
101533852 GGCGTG
1 GGCGTG
101533858 GGCCTACATA
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
55 47 0.94
56 3 0.06
ACGTcount: A:0.25, C:0.27, G:0.28, T:0.20
Consensus pattern (55 bp):
GGCGTGCGACACACCCGTGCCAAGTAACTGTGGCCGAACCTATCAAATTAACACA
Found at i:101540030 original size:2 final size:2
Alignment explanation
Indices: 101540023--101540053 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
101540013 TTTCCCCCTT
101540023 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
101540054 TTTTTTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:101541499 original size:29 final size:29
Alignment explanation
Indices: 101541463--101541567 Score: 124
Period size: 29 Copynumber: 3.6 Consensus size: 29
101541453 AATAATCTAT
* *
101541463 CTCGCACACTTAGTGCCATGTGATTTAAG
1 CTCGCACACTTAGTGCCATATAATTTAAG
*
101541492 CTCGCACACATAGTGCCATATAATTTAAG
1 CTCGCACACTTAGTGCCATATAATTTAAG
* **
101541521 TTCGCACACTTAGTGCCATA-CCTTTCAAG
1 CTCGCACACTTAGTGCCATATAATTT-AAG
101541550 C-CGGCACACTTAGTGCCA
1 CTC-GCACACTTAGTGCCA
101541568 ATCTTGTCAC
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
28 4 0.06
29 62 0.94
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.28
Consensus pattern (29 bp):
CTCGCACACTTAGTGCCATATAATTTAAG
Found at i:101544399 original size:17 final size:16
Alignment explanation
Indices: 101544349--101544406 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 16
101544339 GGGTGAGAAG
101544349 TAAAAGTTTAGGGGAAAAA
1 TAAAAGTTTA-GGG--AAA
*
101544368 TAAAAAGTTTTGGGAAA
1 T-AAAAGTTTAGGGAAA
101544385 TAAAAGTTTGAGGGAAA
1 TAAAAGTTT-AGGGAAA
101544402 GTAAA
1 -TAAA
101544407 TAGGGAGGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
16 8 0.24
17 10 0.29
18 4 0.12
19 4 0.12
20 8 0.24
ACGTcount: A:0.50, C:0.00, G:0.26, T:0.24
Consensus pattern (16 bp):
TAAAAGTTTAGGGAAA
Found at i:101546815 original size:18 final size:18
Alignment explanation
Indices: 101546789--101546823 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
101546779 CTTGACCTCC
101546789 GGCTGTGGCTCGGGCTCG
1 GGCTGTGGCTCGGGCTCG
* *
101546807 GGCTTTGGCTCTGGCTC
1 GGCTGTGGCTCGGGCTC
101546824 AGGATCTGGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.00, C:0.29, G:0.43, T:0.29
Consensus pattern (18 bp):
GGCTGTGGCTCGGGCTCG
Found at i:101547275 original size:45 final size:45
Alignment explanation
Indices: 101547211--101547300 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
101547201 GTGTGTTAGT
*
101547211 GCACCACAATTGAGAATGAATGTAGGCAGACA-AGGGTATAATAGC
1 GCACCACAATTGAGAATGAATGTAAGCAGA-AGAGGGTATAATAGC
101547256 GCACCACAATTGAGAATGAATGTAAGCAGAAGAGGGTATAATAGC
1 GCACCACAATTGAGAATGAATGTAAGCAGAAGAGGGTATAATAGC
101547301 TGCAATTTTC
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
44 1 0.02
45 42 0.98
ACGTcount: A:0.41, C:0.14, G:0.27, T:0.18
Consensus pattern (45 bp):
GCACCACAATTGAGAATGAATGTAAGCAGAAGAGGGTATAATAGC
Found at i:101549213 original size:17 final size:17
Alignment explanation
Indices: 101549145--101549182 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
101549135 AAAAAAGTTA
101549145 TTTTTTCGTATTTTATT
1 TTTTTTCGTATTTTATT
*
101549162 TCTTTTCGTATTTTATT
1 TTTTTTCGTATTTTATT
101549179 TTTT
1 TTTT
101549183 CATTAAGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.11, C:0.08, G:0.05, T:0.76
Consensus pattern (17 bp):
TTTTTTCGTATTTTATT
Found at i:101549221 original size:15 final size:15
Alignment explanation
Indices: 101549142--101549214 Score: 65
Period size: 15 Copynumber: 4.7 Consensus size: 15
101549132 CCCAAAAAAG
*
101549142 TTATTTTTTCGTATT
1 TTATTTTTTAGTATT
*
101549157 TTATTTCTTTTCGTATT
1 TTA-TT-TTTTAGTATT
* **
101549174 TTATTTTTTCATTAAG
1 TTATTTTTT-AGTATT
*
101549190 ATATTTTTTAGTATT
1 TTATTTTTTAGTATT
101549205 TTATTTTTTA
1 TTATTTTTTA
101549215 TTTTTTTTTG
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
15 19 0.41
16 14 0.30
17 13 0.28
ACGTcount: A:0.19, C:0.05, G:0.05, T:0.70
Consensus pattern (15 bp):
TTATTTTTTAGTATT
Found at i:101549736 original size:16 final size:16
Alignment explanation
Indices: 101549700--101549757 Score: 66
Period size: 16 Copynumber: 3.6 Consensus size: 16
101549690 TGCAGCTTGC
* *
101549700 TTCTCCTTCTCTTTC-
1 TTCTTCTTCTCCTTCT
101549715 TTCTTCTTC-CCTTCTT
1 TTCTTCTTCTCCTTC-T
101549731 TTCTTCTTCTCCTTCT
1 TTCTTCTTCTCCTTCT
101549747 TTCTTCCTTCT
1 TTCTT-CTTCT
101549758 TTCAAGCAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
14 4 0.11
15 8 0.22
16 15 0.41
17 10 0.27
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (16 bp):
TTCTTCTTCTCCTTCT
Found at i:101549740 original size:31 final size:28
Alignment explanation
Indices: 101549700--101549759 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 28
101549690 TGCAGCTTGC
*
101549700 TTCTCCTTCTCTTTCTTCTTCTTCCCTTCTT
1 TTCTCCTTCTCCTTC-T-TTCTT-CCTTCTT
*
101549731 TTCTTCTTCTCCTTCTTTCTTCCTTCTT
1 TTCTCCTTCTCCTTCTTTCTTCCTTCTT
101549759 T
1 T
101549760 CAAGCAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 8 0.30
29 5 0.19
30 1 0.04
31 13 0.48
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (28 bp):
TTCTCCTTCTCCTTCTTTCTTCCTTCTT
Found at i:101549760 original size:11 final size:10
Alignment explanation
Indices: 101549699--101549758 Score: 58
Period size: 11 Copynumber: 6.3 Consensus size: 10
101549689 GTGCAGCTTG
101549699 CTTC-TCCTT
1 CTTCTTCCTT
*
101549708 C-TCTTTCTT
1 CTTCTTCCTT
101549717 CTTCTTCCCTT
1 CTTCTT-CCTT
101549728 CTT-TT-CTT
1 CTTCTTCCTT
101549736 CTTC-TCCTT
1 CTTCTTCCTT
101549745 CTTTCTTCCTT
1 C-TTCTTCCTT
101549756 CTT
1 CTT
101549759 TCAAGCAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 13
0.74 0.04 0.23
Matches are distributed among these distances:
8 9 0.21
9 10 0.24
10 11 0.26
11 12 0.29
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
CTTCTTCCTT
Found at i:101551436 original size:17 final size:17
Alignment explanation
Indices: 101551402--101551436 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
101551392 TCTCCCCTAT
*
101551402 TATTATTATCATTTTTA
1 TATTATTATCATTCTTA
*
101551419 TATTATTATTATTCTTA
1 TATTATTATCATTCTTA
101551436 T
1 T
101551437 TAGTACATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.66
Consensus pattern (17 bp):
TATTATTATCATTCTTA
Found at i:101551766 original size:23 final size:22
Alignment explanation
Indices: 101551721--101551766 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
101551711 ATATCGTTGA
**
101551721 TTTCATATATCCATTTTTTATT
1 TTTCATATATCCATTTTAAATT
*
101551743 TTTCATACTATCTATTTTAAATT
1 TTTCATA-TATCCATTTTAAATT
101551766 T
1 T
101551767 ACTTATCATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.26, C:0.13, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTCATATATCCATTTTAAATT
Found at i:101557455 original size:5 final size:5
Alignment explanation
Indices: 101557445--101557475 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
101557435 AATATTTACG
101557445 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT A
101557476 TTTTAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:101557565 original size:16 final size:17
Alignment explanation
Indices: 101557544--101557577 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
101557534 AACTACATTC
101557544 TTATTGCT-TTTTACTA
1 TTATTGCTATTTTACTA
*
101557560 TTATTGCTATTTTTCTA
1 TTATTGCTATTTTACTA
101557577 T
1 T
101557578 AGCACGAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.65
Consensus pattern (17 bp):
TTATTGCTATTTTACTA
Found at i:101557704 original size:31 final size:31
Alignment explanation
Indices: 101557662--101557782 Score: 93
Period size: 31 Copynumber: 3.9 Consensus size: 31
101557652 CACTTTTTTG
*
101557662 TTTTTTGAAAATTTTAATTAAACCCTTCAAT
1 TTTTTTAAAAATTTTAATTAAACCCTTCAAT
* *
101557693 TTTTTTAAAAATTCTT-ATTAAA-CTTATCAAA
1 TTTTTTAAAAATT-TTAATTAAACCCT-TCAAT
* * * ** * *
101557724 ATTTTTAAAAATTTCAATTAGATACTTTATT
1 TTTTTTAAAAATTTTAATTAAACCCTTCAAT
* *
101557755 TTTTTTTAAAATTTTGATTAAAACCCTT
1 TTTTTTAAAAATTTTAATT-AAACCCTT
101557783 GAAATTTCAA
Statistics
Matches: 67, Mismatches: 18, Indels: 9
0.71 0.19 0.10
Matches are distributed among these distances:
30 3 0.04
31 56 0.84
32 8 0.12
ACGTcount: A:0.37, C:0.10, G:0.02, T:0.50
Consensus pattern (31 bp):
TTTTTTAAAAATTTTAATTAAACCCTTCAAT
Found at i:101558057 original size:58 final size:58
Alignment explanation
Indices: 101557986--101558098 Score: 199
Period size: 58 Copynumber: 1.9 Consensus size: 58
101557976 TAAGTTTTTT
*
101557986 TCGAGTTAATTTGTGACATCAATTCAATTAACGACATTATCAATATACGAACAATTTG
1 TCGAGTTAATTTGTGACACCAATTCAATTAACGACATTATCAATATACGAACAATTTG
* *
101558044 TCGAGTTGATTTGTGACACCAATTTAATTAACGACATTATCAATATACGAACAAT
1 TCGAGTTAATTTGTGACACCAATTCAATTAACGACATTATCAATATACGAACAAT
101558099 GTGGGAATCA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (58 bp):
TCGAGTTAATTTGTGACACCAATTCAATTAACGACATTATCAATATACGAACAATTTG
Found at i:101568759 original size:24 final size:24
Alignment explanation
Indices: 101568706--101568751 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
101568696 TTTTTGTAGA
* *
101568706 ATATTTAGTATTTATTAGTATAAT
1 ATATTTAGCATTTATTAGCATAAT
101568730 ATATTTAGCATTTATTAGCATA
1 ATATTTAGCATTTATTAGCATA
101568752 GTTTATTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.37, C:0.04, G:0.09, T:0.50
Consensus pattern (24 bp):
ATATTTAGCATTTATTAGCATAAT
Found at i:101573119 original size:71 final size:71
Alignment explanation
Indices: 101573035--101573198 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
101573025 CGATTTGTCT
101573035 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
101573100 CTTTCA
66 CTTTCA
101573106 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
101573171 CTTTCA
66 CTTTCA
101573177 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
101573199 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:101573236 original size:71 final size:70
Alignment explanation
Indices: 101573035--101573232 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
101573025 CGATTTGTCT
* * * *
101573035 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
101573100 CTTTCA
65 CTTTCA
* * * *
101573106 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
101573171 CTTTCA
65 CTTTCA
* *
101573177 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
101573233 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:101580686 original size:71 final size:71
Alignment explanation
Indices: 101580602--101580765 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
101580592 CGATTTGTCT
101580602 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
101580667 CTTTCA
66 CTTTCA
101580673 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
101580738 CTTTCA
66 CTTTCA
101580744 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
101580766 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:101580803 original size:71 final size:70
Alignment explanation
Indices: 101580602--101580799 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
101580592 CGATTTGTCT
* * * *
101580602 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
101580667 CTTTCA
65 CTTTCA
* * * *
101580673 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
101580738 CTTTCA
65 CTTTCA
* *
101580744 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
101580800 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:101582341 original size:39 final size:39
Alignment explanation
Indices: 101582287--101582365 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
101582277 GGAGGTTAAG
101582287 TAAGGTTAAACAATTTAACTTCGTTATCATCCATTAGGC
1 TAAGGTTAAACAATTTAACTTCGTTATCATCCATTAGGC
* *
101582326 TAAGGTTAAACAATTTATCTTCGTTATCCTCCATTAGGC
1 TAAGGTTAAACAATTTAACTTCGTTATCATCCATTAGGC
101582365 T
1 T
101582366 TCACTAATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (39 bp):
TAAGGTTAAACAATTTAACTTCGTTATCATCCATTAGGC
Found at i:101583903 original size:71 final size:71
Alignment explanation
Indices: 101583819--101583982 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
101583809 CGATTTGTCT
101583819 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
101583884 CTTTCA
66 CTTTCA
101583890 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
101583955 CTTTCA
66 CTTTCA
101583961 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
101583983 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:101584020 original size:71 final size:70
Alignment explanation
Indices: 101583819--101584016 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
101583809 CGATTTGTCT
* * * *
101583819 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
101583884 CTTTCA
65 CTTTCA
* * * *
101583890 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
101583955 CTTTCA
65 CTTTCA
* *
101583961 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
101584017 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:101591470 original size:71 final size:71
Alignment explanation
Indices: 101591386--101591549 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
101591376 CGATTTGTCT
101591386 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
101591451 CTTTCA
66 CTTTCA
101591457 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
101591522 CTTTCA
66 CTTTCA
101591528 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
101591550 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:101591587 original size:71 final size:70
Alignment explanation
Indices: 101591386--101591583 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
101591376 CGATTTGTCT
* * * *
101591386 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
101591451 CTTTCA
65 CTTTCA
* * * *
101591457 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
101591522 CTTTCA
65 CTTTCA
* *
101591528 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
101591584 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:101593135 original size:39 final size:39
Alignment explanation
Indices: 101593081--101593159 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
101593071 GGAGGTTAAG
101593081 TAAGGTTAAACAATTTAACTTCGTTATCATCCATTAGGC
1 TAAGGTTAAACAATTTAACTTCGTTATCATCCATTAGGC
* *
101593120 TAAGGTTAAACAATTTATCTTCGTTATCCTCCATTAGGC
1 TAAGGTTAAACAATTTAACTTCGTTATCATCCATTAGGC
101593159 T
1 T
101593160 TCACTAATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (39 bp):
TAAGGTTAAACAATTTAACTTCGTTATCATCCATTAGGC
Found at i:101594124 original size:23 final size:22
Alignment explanation
Indices: 101594063--101594126 Score: 56
Period size: 23 Copynumber: 2.8 Consensus size: 22
101594053 TTGGTTAAAT
* * *
101594063 TTTATTAAATTTTGAGAATATA
1 TTTAATAAATTTTAAAAATATA
* * *
101594085 TTCAATTATATTCTAAAAATAATA
1 TTTAA-TAAATTTTAAAAAT-ATA
101594109 TTTAATAAATTTTAAAAA
1 TTTAATAAATTTTAAAAA
101594127 ATACATTGTA
Statistics
Matches: 31, Mismatches: 9, Indels: 3
0.72 0.21 0.07
Matches are distributed among these distances:
22 3 0.10
23 21 0.68
24 7 0.23
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (22 bp):
TTTAATAAATTTTAAAAATATA
Found at i:101596301 original size:15 final size:15
Alignment explanation
Indices: 101596281--101596311 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
101596271 TTATCACATC
101596281 AACAAATATTTAAAA
1 AACAAATATTTAAAA
101596296 AACAAATATTTAAAA
1 AACAAATATTTAAAA
101596311 A
1 A
101596312 TTAAAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
AACAAATATTTAAAA
Found at i:101604450 original size:16 final size:17
Alignment explanation
Indices: 101604429--101604462 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
101604419 ATAGAAATTT
*
101604429 TTATAA-AGATGTTTTA
1 TTATAATAGATATTTTA
101604445 TTATAATAGATATTTTA
1 TTATAATAGATATTTTA
101604462 T
1 T
101604463 ATATCATAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (17 bp):
TTATAATAGATATTTTA
Found at i:101604465 original size:16 final size:16
Alignment explanation
Indices: 101604418--101604465 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
101604408 CTTCCTAAAC
*
101604418 AATAGAAATTTT-TAT
1 AATAGATATTTTATAT
*
101604433 AA-AGATGTTTTATTAT
1 AATAGATATTTTA-TAT
101604449 AATAGATATTTTATAT
1 AATAGATATTTTATAT
101604465 A
1 A
101604466 TCATAACTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
14 7 0.26
15 2 0.07
16 9 0.33
17 9 0.33
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (16 bp):
AATAGATATTTTATAT
Found at i:101606522 original size:13 final size:13
Alignment explanation
Indices: 101606504--101606531 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
101606494 ACGAAATTGG
101606504 AAAGATGAAAAAT
1 AAAGATGAAAAAT
101606517 AAAGATGAAAAAT
1 AAAGATGAAAAAT
101606530 AA
1 AA
101606532 TAAAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (13 bp):
AAAGATGAAAAAT
Found at i:101607604 original size:25 final size:26
Alignment explanation
Indices: 101607552--101607604 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
101607542 GAGCTTTCCA
* * *
101607552 ATTAAAGACTCTTTGTGAGCTTCTTG
1 ATTAAAGACTCTCTGTGAGCTACGTG
*
101607578 ATTAATGACTCTCTG-GAGCTACGTG
1 ATTAAAGACTCTCTGTGAGCTACGTG
101607603 AT
1 AT
101607605 ATGGCTTGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTAAAGACTCTCTGTGAGCTACGTG
Found at i:101610007 original size:29 final size:30
Alignment explanation
Indices: 101609936--101610043 Score: 109
Period size: 29 Copynumber: 3.8 Consensus size: 30
101609926 ACCCCTACAT
*
101609936 ACATGCATATGGCCCA-CTAGGCCCAA-TC
1 ACATTCATATGGCCCATCTAGGCCCAATTC
** * *
101609964 TTATTCAAATGGCCCATCT-GGCCCAGTTC
1 ACATTCATATGGCCCATCTAGGCCCAATTC
* * *
101609993 ATATTCTTATGGCCCA-CTAGGCCTAATTC
1 ACATTCATATGGCCCATCTAGGCCCAATTC
101610022 ACATTCATATGGCCCAT-TAGGC
1 ACATTCATATGGCCCATCTAGGC
101610044 TCAAATCATA
Statistics
Matches: 64, Mismatches: 12, Indels: 7
0.77 0.14 0.08
Matches are distributed among these distances:
28 20 0.31
29 44 0.69
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.28
Consensus pattern (30 bp):
ACATTCATATGGCCCATCTAGGCCCAATTC
Found at i:101610053 original size:58 final size:57
Alignment explanation
Indices: 101609943--101610055 Score: 138
Period size: 58 Copynumber: 2.0 Consensus size: 57
101609933 CATACATGCA
** **
101609943 TATGGCCCACTAGGCCCAATCTTATTCAAATGGCCCATCTGGCCCAGTTCATATTCT
1 TATGGCCCACTAGGCCCAATCACATTCAAATGGCCCATCTGGCCCAAATCATATTCT
* * *
101610000 TATGGCCCACTAGGCCTAATTCACATTCATATGGCCCAT-TAGGCTCAAATCATATT
1 TATGGCCCACTAGGCCCAA-TCACATTCAAATGGCCCATCT-GGCCCAAATCATATT
101610056 ATATTCATGC
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
57 19 0.40
58 28 0.60
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (57 bp):
TATGGCCCACTAGGCCCAATCACATTCAAATGGCCCATCTGGCCCAAATCATATTCT
Found at i:101610161 original size:19 final size:19
Alignment explanation
Indices: 101610137--101610174 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
101610127 CAGCCCATCA
101610137 GGCCCATTTAGCCAATTCT
1 GGCCCATTTAGCCAATTCT
*
101610156 GGCCCATTTGGCCAATTCT
1 GGCCCATTTAGCCAATTCT
101610175 AAACCCAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.18, C:0.32, G:0.18, T:0.32
Consensus pattern (19 bp):
GGCCCATTTAGCCAATTCT
Found at i:101611130 original size:31 final size:31
Alignment explanation
Indices: 101611092--101611154 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
101611082 CCTATTCGGC
*
101611092 TCCATCACTTCTCTCTTCTCATCTCCTCGTT
1 TCCATCACTTCTCACTTCTCATCTCCTCGTT
101611123 TCCATCACTTCTCACTTCTCATCTCCTCGTT
1 TCCATCACTTCTCACTTCTCATCTCCTCGTT
101611154 T
1 T
101611155 TTCTCCCTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.11, C:0.41, G:0.03, T:0.44
Consensus pattern (31 bp):
TCCATCACTTCTCACTTCTCATCTCCTCGTT
Found at i:101614441 original size:29 final size:29
Alignment explanation
Indices: 101614376--101614473 Score: 85
Period size: 29 Copynumber: 3.4 Consensus size: 29
101614366 GTATATGGCT
* * *
101614376 CACTAGGCCTAA-TCTTATTCAAAT-GACC
1 CACTAGGCCCAATTCATATTCATATAG-CC
* * *
101614404 CATCT-GGCCCAGTTCATATTCTTATGGCC
1 CA-CTAGGCCCAATTCATATTCATATAGCC
*
101614433 TACTAGGCCCAATTCATATTCATATAGCC
1 CACTAGGCCCAATTCATATTCATATAGCC
*
101614462 CATTAGGCCCAA
1 CACTAGGCCCAA
101614474 ATAATATTAT
Statistics
Matches: 55, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
28 9 0.16
29 45 0.82
30 1 0.02
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.30
Consensus pattern (29 bp):
CACTAGGCCCAATTCATATTCATATAGCC
Found at i:101614587 original size:19 final size:19
Alignment explanation
Indices: 101614563--101614599 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
101614553 CAACCATCAG
101614563 GCCCATTTAG-CCAATTCTA
1 GCCCATTT-GCCCAATTCTA
101614582 GCCCATTTGCCCAATTCT
1 GCCCATTTGCCCAATTCT
101614600 CAACCCAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 1 0.06
19 16 0.94
ACGTcount: A:0.22, C:0.35, G:0.11, T:0.32
Consensus pattern (19 bp):
GCCCATTTGCCCAATTCTA
Found at i:101618228 original size:22 final size:20
Alignment explanation
Indices: 101618203--101618268 Score: 51
Period size: 25 Copynumber: 2.9 Consensus size: 20
101618193 AGCATACTGG
101618203 AATTCATACTTTTCATGAACAT
1 AATTCATACTTTTCAT-AA-AT
101618225 AATTATACATACTTTGATCATAAAT
1 AA-T-T-CATACTTT--TCATAAAT
*
101618250 AATTCATACCTTTCCATAA
1 AATTCATA-CTTTTCATAA
101618269 GTTCCTAAGT
Statistics
Matches: 37, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
21 5 0.14
22 6 0.16
23 6 0.16
24 2 0.05
25 12 0.32
26 2 0.05
27 4 0.11
ACGTcount: A:0.39, C:0.18, G:0.03, T:0.39
Consensus pattern (20 bp):
AATTCATACTTTTCATAAAT
Found at i:101618251 original size:25 final size:26
Alignment explanation
Indices: 101618207--101618258 Score: 65
Period size: 25 Copynumber: 2.0 Consensus size: 26
101618197 TACTGGAATT
101618207 CATACTTTTCATGAACATAATT-ATA
1 CATACTTTTCATGAACATAATTCATA
101618232 CATACTTTGATCAT-AA-ATAATTCATA
1 CATACTTT--TCATGAACATAATTCATA
101618258 C
1 C
101618259 CTTTCCATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 14 0.58
26 6 0.25
27 4 0.17
ACGTcount: A:0.40, C:0.17, G:0.04, T:0.38
Consensus pattern (26 bp):
CATACTTTTCATGAACATAATTCATA
Found at i:101620192 original size:41 final size:40
Alignment explanation
Indices: 101620146--101620227 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 40
101620136 AATTATGGGA
*
101620146 TACTGAATATTGTTTTGAATACCGA-ATTGAACTGTGAAAAT
1 TACTGAATATTGTTATGAATA-CGACATTGAACTGT-AAAAT
*
101620187 TACTGAATATTGTTATGAATACTACATTGAACTGTAAAAT
1 TACTGAATATTGTTATGAATACGACATTGAACTGTAAAAT
101620227 T
1 T
101620228 TCAGATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
40 8 0.21
41 30 0.79
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (40 bp):
TACTGAATATTGTTATGAATACGACATTGAACTGTAAAAT
Found at i:101620506 original size:45 final size:45
Alignment explanation
Indices: 101620438--101620531 Score: 145
Period size: 45 Copynumber: 2.1 Consensus size: 45
101620428 GCCGACTATT
*
101620438 GTTACTGTTACCGATTCGACACTTTGTGTGTCGAATACTGTTACC
1 GTTACTGTTACAGATTCGACACTTTGTGTGTCGAATACTGTTACC
* *
101620483 GTTACTGTTACAGATTC-AGCACTTTGTGTGTTGAATACTGTTACT
1 GTTACTGTTACAGATTCGA-CACTTTGTGTGTCGAATACTGTTACC
101620528 GTTA
1 GTTA
101620532 TGATTACTGT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 1 0.02
45 44 0.98
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.40
Consensus pattern (45 bp):
GTTACTGTTACAGATTCGACACTTTGTGTGTCGAATACTGTTACC
Found at i:101620529 original size:6 final size:6
Alignment explanation
Indices: 101620518--101620567 Score: 57
Period size: 6 Copynumber: 8.2 Consensus size: 6
101620508 GTGTGTTGAA
* *
101620518 TACTGT TACTGT TA-TGAT TACTGT TACTGC TACTGT TAGTGAT TACTGT
1 TACTGT TACTGT TACTG-T TACTGT TACTGT TACTGT TACTG-T TACTGT
101620567 T
1 T
101620568 TAGGTATTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
5 2 0.05
6 28 0.76
7 7 0.19
ACGTcount: A:0.20, C:0.14, G:0.18, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:101621296 original size:14 final size:13
Alignment explanation
Indices: 101621280--101621305 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
101621270 GAAATTTATA
101621280 AAAAAAATAAAAT
1 AAAAAAATAAAAT
101621293 AAAAAAATAAAAT
1 AAAAAAATAAAAT
101621306 TCCGGAGTAC
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAAAATAAAAT
Found at i:101623767 original size:43 final size:43
Alignment explanation
Indices: 101623608--101623771 Score: 149
Period size: 43 Copynumber: 3.8 Consensus size: 43
101623598 CATAGGATTC
* *
101623608 CGATATGTGATTTCATGTAAGACCAAGTCTGGGAC-GTTGGCAT
1 CGATATGTGAGTTCATGTAAGACCACGTCTGGGACAG-TGGCAT
* * * * * * *
101623651 CGATTTGTGATTTGCGTGTAAGACAATGTCTGGGACA-TCAGTAT
1 CGATATGTGAGTT-CATGTAAGACCACGTCTGGGACAGT-GGCAT
* *
101623695 CG-TATATGAGTTCATGTAATACC-CTGTCTGGGACAGTGGCAT
1 CGATATGTGAGTTCATGTAAGACCAC-GTCTGGGACAGTGGCAT
101623737 CGATATGTGA-TTACATGTAAGACCACGTCTGGGAC
1 CGATATGTGAGTT-CATGTAAGACCACGTCTGGGAC
101623772 GTTGGTGTTG
Statistics
Matches: 96, Mismatches: 17, Indels: 16
0.74 0.13 0.12
Matches are distributed among these distances:
42 25 0.26
43 46 0.48
44 25 0.26
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (43 bp):
CGATATGTGAGTTCATGTAAGACCACGTCTGGGACAGTGGCAT
Found at i:101631542 original size:43 final size:43
Alignment explanation
Indices: 101631381--101631552 Score: 215
Period size: 43 Copynumber: 4.0 Consensus size: 43
101631371 CATAGGATTC
* *
101631381 CGATATGTGATTTCGTGTAAGACCAAGTCTGGGACGTTGGCAT
1 CGATATGTGAGTTCGTGTAAGACCATGTCTGGGACGTTGGCAT
* * * *
101631424 CGATTTGTGATTTGCGTGTAAGACCATGTCTGGGACATCGGCAT
1 CGATATGTGAGTT-CGTGTAAGACCATGTCTGGGACGTTGGCAT
* *
101631468 C-ATATATGAGTTCGTGTAAGACCCTGTCTGGGACAG-TGGCAT
1 CGATATGTGAGTTCGTGTAAGACCATGTCTGGGAC-GTTGGCAT
*
101631510 CGATATGTGA-TTACATGTAAGACCATGTCTGGGACGTTGGCAT
1 CGATATGTGAGTT-CGTGTAAGACCATGTCTGGGACGTTGGCAT
101631553 TGTATGAGCT
Statistics
Matches: 111, Mismatches: 13, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
42 30 0.27
43 53 0.48
44 28 0.25
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.30
Consensus pattern (43 bp):
CGATATGTGAGTTCGTGTAAGACCATGTCTGGGACGTTGGCAT
Found at i:101635291 original size:20 final size:20
Alignment explanation
Indices: 101635268--101635310 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
101635258 ATATAGTTAG
101635268 GTAGTTATTAAGCTTGTTTA
1 GTAGTTATTAAGCTTGTTTA
*
101635288 GTAGTTATTAAGTTTGTTTA
1 GTAGTTATTAAGCTTGTTTA
101635308 GTA
1 GTA
101635311 AACTATTAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.02, G:0.21, T:0.51
Consensus pattern (20 bp):
GTAGTTATTAAGCTTGTTTA
Found at i:101638334 original size:4 final size:4
Alignment explanation
Indices: 101638325--101638350 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
101638315 CATCCTCATT
101638325 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
101638351 CACCTCACCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:101639678 original size:14 final size:14
Alignment explanation
Indices: 101639659--101639687 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
101639649 CATCTAACTA
101639659 TGAAAAGTTACAAG
1 TGAAAAGTTACAAG
101639673 TGAAAAGTTACAAG
1 TGAAAAGTTACAAG
101639687 T
1 T
101639688 TAGATACTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.07, G:0.21, T:0.24
Consensus pattern (14 bp):
TGAAAAGTTACAAG
Found at i:101639855 original size:56 final size:56
Alignment explanation
Indices: 101639766--101639873 Score: 146
Period size: 56 Copynumber: 1.9 Consensus size: 56
101639756 GATGACAAAA
* *
101639766 AAAAAAAAATACTGATAATTAAGTAATCATTTTAT-AATTTTTCATAATTAAATGAT
1 AAAAAAAAATACTAATAATTAAGTAACCATTTTATAAATTTTT-ATAATTAAATGAT
* * * *
101639822 AAAAAAATATATTAATAATTAAGTGACCGTTTTATAAATTTTTATAATTAAA
1 AAAAAAAAATACTAATAATTAAGTAACCATTTTATAAATTTTTATAATTAAA
101639874 AGAAAATATA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
56 38 0.84
57 7 0.16
ACGTcount: A:0.50, C:0.05, G:0.06, T:0.40
Consensus pattern (56 bp):
AAAAAAAAATACTAATAATTAAGTAACCATTTTATAAATTTTTATAATTAAATGAT
Found at i:101649741 original size:26 final size:25
Alignment explanation
Indices: 101649712--101649763 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
101649702 AAATATATCT
*
101649712 TTTA-ATATGTATTATTTAAAAATTAA
1 TTTAGATATGT-TTAGTT-AAAATTAA
101649738 TTTAGTATATGTTTAGTTAAAATTAA
1 TTTAG-ATATGTTTAGTTAAAATTAA
101649764 AAATAATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 12 0.52
27 5 0.22
28 6 0.26
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (25 bp):
TTTAGATATGTTTAGTTAAAATTAA
Found at i:101654709 original size:22 final size:22
Alignment explanation
Indices: 101654679--101654728 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
101654669 TTAGCTCACG
*
101654679 AGCTTACCCCTAGCTCGTTACT
1 AGCTCACCCCTAGCTCGTTACT
101654701 AGCTCACCCCTAGCTCGTTACT
1 AGCTCACCCCTAGCTCGTTACT
101654723 AGCTCA
1 AGCTCA
101654729 TGCACCTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.38, G:0.14, T:0.28
Consensus pattern (22 bp):
AGCTCACCCCTAGCTCGTTACT
Found at i:101656031 original size:14 final size:14
Alignment explanation
Indices: 101655996--101656054 Score: 66
Period size: 14 Copynumber: 4.2 Consensus size: 14
101655986 ACCTAAACCG
*
101655996 ACCAATTCGTTCAT
1 ACCATTTCGTTCAT
101656010 ATCC-TTTCGTTCAT
1 A-CCATTTCGTTCAT
* *
101656024 ACCATTTCATTCCT
1 ACCATTTCGTTCAT
*
101656038 ACCATTTCGTTCGT
1 ACCATTTCGTTCAT
101656052 ACC
1 ACC
101656055 CTCTTTCTTC
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
13 2 0.05
14 34 0.89
15 2 0.05
ACGTcount: A:0.20, C:0.32, G:0.07, T:0.41
Consensus pattern (14 bp):
ACCATTTCGTTCAT
Found at i:101659881 original size:36 final size:35
Alignment explanation
Indices: 101659841--101659991 Score: 170
Period size: 38 Copynumber: 4.2 Consensus size: 35
101659831 CATAAAGGTG
*
101659841 TAATAGTATTATAAAATTTAAG-TTAAATATATAT-
1 TAATA-TATTATAAAACTTAAGATTAAATATATATA
101659875 T-ATA-A-TATAAAAGCTTAAGAATTAAATATATATA
1 TAATATATTATAAAA-CTTAAG-ATTAAATATATATA
101659909 T-ATATATTATAAAAGCTTAAGAATTAAATATATATA
1 TAATATATTATAAAA-CTTAAG-ATTAAATATATATA
101659945 TATATATATTATAAAAGCTTAAGAATTAAATATATATA
1 TA-ATATATTATAAAA-CTTAAG-ATTAAATATATATA
101659983 TATATATAT
1 TA-ATATAT
101659992 ATATTATAAA
Statistics
Matches: 108, Mismatches: 1, Indels: 12
0.89 0.01 0.10
Matches are distributed among these distances:
30 7 0.06
31 6 0.06
33 15 0.14
34 5 0.05
35 1 0.01
36 30 0.28
38 44 0.41
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.40
Consensus pattern (35 bp):
TAATATATTATAAAACTTAAGATTAAATATATATA
Found at i:101659951 original size:38 final size:38
Alignment explanation
Indices: 101659867--101659991 Score: 220
Period size: 38 Copynumber: 3.4 Consensus size: 38
101659857 TTTAAGTTAA
*
101659867 ATATATAT-TATAATATAAAAGCTTAAGAATT-AA-AT
1 ATATATATATATATTATAAAAGCTTAAGAATTAAATAT
101659902 ATATATATATATATTATAAAAGCTTAAGAATTAAATAT
1 ATATATATATATATTATAAAAGCTTAAGAATTAAATAT
101659940 ATATATATATATATTATAAAAGCTTAAGAATTAAATAT
1 ATATATATATATATTATAAAAGCTTAAGAATTAAATAT
101659978 ATATATATATATAT
1 ATATATATATATAT
101659992 ATATTATAAA
Statistics
Matches: 86, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
35 8 0.09
36 22 0.26
37 2 0.02
38 54 0.63
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (38 bp):
ATATATATATATATTATAAAAGCTTAAGAATTAAATAT
Found at i:101660071 original size:17 final size:17
Alignment explanation
Indices: 101660049--101660084 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
101660039 AAGCTAAAAC
101660049 AAAAA-GGAAAGAAAAGA
1 AAAAAGGGAAAG-AAAGA
101660066 AAAAAGGGAAAGAAAGA
1 AAAAAGGGAAAGAAAGA
101660083 AA
1 AA
101660085 GGAGAAAGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (17 bp):
AAAAAGGGAAAGAAAGA
Found at i:101660079 original size:13 final size:15
Alignment explanation
Indices: 101660061--101660093 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
101660051 AAAGGAAAGA
101660061 AAAGAAA-AAAGG-G
1 AAAGAAAGAAAGGAG
101660074 AAAGAAAGAAAGGAG
1 AAAGAAAGAAAGGAG
101660089 AAAGA
1 AAAGA
101660094 CAAGGCTAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 5 0.28
15 6 0.33
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (15 bp):
AAAGAAAGAAAGGAG
Found at i:101660976 original size:41 final size:39
Alignment explanation
Indices: 101660931--101661034 Score: 113
Period size: 37 Copynumber: 2.7 Consensus size: 39
101660921 CAACTTCGAG
*
101660931 TCGATGAGACATTGGGTGTCAATTTATTACTTAGGATTTAT
1 TCGATGAGACATTGGGTGTCAATTT-TTACTTAGG-TTTAA
* * * * *
101660972 TCGATGAGGCACTGAGTGCCAA--TTTACTTCGGTTTAA
1 TCGATGAGACATTGGGTGTCAATTTTTACTTAGGTTTAA
*
101661009 TCGATGAGACATTGGGTGTTAATTTT
1 TCGATGAGACATTGGGTGTCAATTTT
101661035 AGTACTTCAA
Statistics
Matches: 50, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
37 21 0.42
38 8 0.16
39 3 0.06
41 18 0.36
ACGTcount: A:0.25, C:0.12, G:0.24, T:0.38
Consensus pattern (39 bp):
TCGATGAGACATTGGGTGTCAATTTTTACTTAGGTTTAA
Found at i:101661444 original size:17 final size:18
Alignment explanation
Indices: 101661412--101661449 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
101661402 AAATATGGTT
101661412 TTAAATATTCAATTGTGC
1 TTAAATATTCAATTGTGC
*
101661430 TTAAA-ATTTAATTGTGC
1 TTAAATATTCAATTGTGC
101661447 TTA
1 TTA
101661450 TTATATTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.47
Consensus pattern (18 bp):
TTAAATATTCAATTGTGC
Found at i:101669397 original size:131 final size:133
Alignment explanation
Indices: 101669252--101669490 Score: 299
Period size: 131 Copynumber: 1.8 Consensus size: 133
101669242 AAATGATGTC
****
101669252 ATATTTTATCCTACTTATTAAT-ATTTTTTTTCCAAATCCATATACCAAATTTTAAATTTTTTTC
1 ATATTTTATCCTACTTATTAATAAAAAATTTT-CAAATCCATATACCAAATTTTAAA-TTTTTTC
* *
101669316 TC-CAAAA-A-AA-TAAAAATAAAAATAAAAGTGCTCATTTTAAGTTTCAAGTTTAATAAATACT
64 TCAAAAAACAGAAGTAAAAAT-AAAATAAAAATGCTCATTTTAAGTTTCAAGTTTAATAAATACT
101669377 GATATT
128 GATATT
* * * * *
101669383 ATATTTTATTCTACTTGTTAATAAAAAATTTTCAGATCCATTTACCAACTTTTAAATTTTTTCTC
1 ATATTTTATCCTACTTATTAATAAAAAATTTTCAAATCCATATACCAAATTTTAAATTTTTTCTC
*
101669448 AAAAAACAGAAGTTAAGAATAAAATAAAAATGCTCATTTTAAG
66 AAAAAACAGAAG-TAAAAATAAAATAAAAATGCTCATTTTAAG
101669491 GTTTTTTTTT
Statistics
Matches: 90, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
130 9 0.10
131 45 0.50
132 6 0.07
133 2 0.02
134 22 0.24
135 6 0.07
ACGTcount: A:0.42, C:0.12, G:0.05, T:0.41
Consensus pattern (133 bp):
ATATTTTATCCTACTTATTAATAAAAAATTTTCAAATCCATATACCAAATTTTAAATTTTTTCTC
AAAAAACAGAAGTAAAAATAAAATAAAAATGCTCATTTTAAGTTTCAAGTTTAATAAATACTGAT
ATT
Found at i:101671068 original size:24 final size:26
Alignment explanation
Indices: 101671010--101671077 Score: 77
Period size: 24 Copynumber: 2.7 Consensus size: 26
101671000 TAATTGTACT
*
101671010 ATCCCTTTTGCTCTCCCAACTCTCCCA
1 ATCCCTTTTGATCT-CCAACTCTCCCA
* *
101671037 ATCGCTTTTGATCTCCAA-T-TCCTA
1 ATCCCTTTTGATCTCCAACTCTCCCA
*
101671061 ATCCCTTTTGATTTCCA
1 ATCCCTTTTGATCTCCA
101671078 TCATCCTTTG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
24 19 0.53
25 1 0.03
26 4 0.11
27 12 0.33
ACGTcount: A:0.18, C:0.37, G:0.06, T:0.40
Consensus pattern (26 bp):
ATCCCTTTTGATCTCCAACTCTCCCA
Found at i:101690152 original size:21 final size:21
Alignment explanation
Indices: 101690118--101690160 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
101690108 CATGTTTGAT
101690118 TTTGGTTATCTTT-GCTTATGG
1 TTTGGTTATCTTTGGC-TATGG
101690139 TTTGAGTTAT-TTTGGCTATGG
1 TTTG-GTTATCTTTGGCTATGG
101690160 T
1 T
101690161 ATTTTATGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.12, C:0.07, G:0.26, T:0.56
Consensus pattern (21 bp):
TTTGGTTATCTTTGGCTATGG
Found at i:101693520 original size:47 final size:45
Alignment explanation
Indices: 101693417--101693677 Score: 174
Period size: 47 Copynumber: 5.6 Consensus size: 45
101693407 GTAAGGTGTC
*
101693417 GATGCCATGTCCCAGACATGGTCTTACACTGGCAC-AT-ATTTCAAG-T
1 GATG-CATGTCCCAGACAT-GTCTTACACT-G-ACTATCATCTCAAGCT
* *
101693463 CAAAGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCATAGCT
1 -GATG-CATGTCCCAGACAT-GTCTTACACTGACTATCATCTCA-AGCT
* * * *
101693512 GACGCATGTCCCAGACATGTCTTACACT-AGCT-TACGTCTCGAGCCC
1 GATGCATGTCCCAGACATGTCTTACACTGA-CTAT-CATCTCAAG-CT
* * *
101693558 GATGCATGTCCCAAACATGTCTTACACT-AGCTCTCGTCTCAATGCT
1 GATGCATGTCCCAGACATGTCTTACACTGA-CTATCATCTCAA-GCT
* * * * ***
101693604 GGTGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGACTATCAT-CTCAAGCT
*
101693652 GATGTATGTCCCAGACATGTCTTACA
1 GATGCATGTCCCAGACATGTCTTACA
101693678 TTGGCTCACA
Statistics
Matches: 179, Mismatches: 22, Indels: 27
0.79 0.10 0.12
Matches are distributed among these distances:
45 6 0.03
46 70 0.39
47 75 0.42
48 26 0.15
49 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGACTATCATCTCAAGCT
Done.