Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 172 of 199
Found at i:50146722 original size:28 final size:31
Alignment explanation
Indices: 50146663--50146729 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 31
50146653 TATTAAAATT
*
50146663 AAAACTAATTGTTATTAAAATTAATTGTTATC
1 AAAATTAATTGTTATTAAAA-TAATTGTTATC
50146695 AAAATTAATTGTTATT-AAA-AATTG-TATC
1 AAAATTAATTGTTATTAAAATAATTGTTATC
50146723 AAAATTA
1 AAAATTA
50146730 TATTTTTTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
28 11 0.32
29 5 0.15
31 3 0.09
32 15 0.44
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (31 bp):
AAAATTAATTGTTATTAAAATAATTGTTATC
Found at i:50146987 original size:10 final size:10
Alignment explanation
Indices: 50146954--50147128 Score: 55
Period size: 11 Copynumber: 17.1 Consensus size: 10
50146944 TATTTTTAAA
50146954 TTTAAATATTT
1 TTTAAAT-TTT
*
50146965 TTTACATACTTT
1 TTTA-A-ATTTT
50146977 TTT-AATTTT
1 TTTAAATTTT
50146986 TTTAAA--TT
1 TTTAAATTTT
*
50146994 TTAAAATATTT
1 TTTAAAT-TTT
*
50147005 TTAAAATACTTT
1 TTTAAAT--TTT
*
50147017 TTTTAATTTT
1 TTTAAATTTT
50147027 TTT-AA--TT
1 TTTAAATTTT
*
50147034 TTAAAATATTT
1 TTTAAAT-TTT
*
50147045 TTAAAATATATT
1 TTTAAAT-T-TT
*
50147057 TTTTAATTTT
1 TTTAAATTTT
50147067 TTT-AA--TT
1 TTTAAATTTT
*
50147074 TTAAAATATTT
1 TTTAAAT-TTT
*
50147085 TTAAAATATTT
1 TTTAAAT-TTT
*
50147096 TTAAAATACTTGT
1 TTTAAAT--TT-T
50147109 TTT-AATTTT
1 TTTAAATTTT
*
50147118 TTAAAATTTT
1 TTTAAATTTT
50147128 T
1 T
50147129 AAAATAAAAA
Statistics
Matches: 132, Mismatches: 13, Indels: 39
0.72 0.07 0.21
Matches are distributed among these distances:
7 8 0.06
8 11 0.08
9 14 0.11
10 23 0.17
11 45 0.34
12 27 0.20
13 4 0.03
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (10 bp):
TTTAAATTTT
Found at i:50147014 original size:40 final size:40
Alignment explanation
Indices: 50146946--50147134 Score: 228
Period size: 40 Copynumber: 4.7 Consensus size: 40
50146936 AATATATTTA
* *
50146946 TTTTTAAA-TTT-AAATATTTTTTACATACTTTTTTAATT
1 TTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTAATT
50146984 TTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTAATT
1 TTTTTAAATTTTAAAATATTTTTAAAATAC-TTTTTTAATT
*
50147025 TTTTT-AATTTTAAAATATTTTTAAAATATATTTTTTAATT
1 TTTTTAAATTTTAAAATATTTTTAAAATA-CTTTTTTAATT
*
50147065 TTTTT-AATTTTAAAATATTTTTAAAATA-TTTTTAAAATACT
1 TTTTTAAATTTTAAAATATTTTTAAAATACTTTTT-TAAT--T
* *
50147106 TGTTTTAATTTTTTAAA-ATTTTTAAAATA
1 T-TTTTAAATTTTAAAATATTTTTAAAATA
50147135 AAAATGGGCC
Statistics
Matches: 136, Mismatches: 6, Indels: 14
0.87 0.04 0.09
Matches are distributed among these distances:
38 13 0.10
39 6 0.04
40 76 0.56
41 17 0.12
42 16 0.12
43 8 0.06
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.60
Consensus pattern (40 bp):
TTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTAATT
Found at i:50147379 original size:43 final size:43
Alignment explanation
Indices: 50147331--50147500 Score: 182
Period size: 43 Copynumber: 3.8 Consensus size: 43
50147321 ATTTTGTTAG
* *
50147331 TAAAATTATTAATTGTTAATTGTATTAATGGTTACTAAAATTA
1 TAAAATTATTAATTATTAATTGTATTAATTGTTACTAAAATTA
*
50147374 TAAAATTATATCAGATTATTAA-T-TATTAATTGTTACTAACATTTTGTTA
1 TAAAATTAT-T-A-ATTATTAATTGTATTAATTGTTACTAA-A----ATTA
* * *
50147423 GTAAAATTATCAATTGTTAATTGTATTAATTGTTAGTAAAATTA
1 -TAAAATTATTAATTATTAATTGTATTAATTGTTACTAAAATTA
*
50147467 TCAAATTATTAATTATTAATTGTATTAATTGTTA
1 TAAAATTATTAATTATTAATTGTATTAATTGTTA
50147501 TAACAAAATC
Statistics
Matches: 106, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
43 40 0.38
44 19 0.18
45 3 0.03
46 7 0.07
47 7 0.07
48 3 0.03
49 18 0.17
50 9 0.08
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (43 bp):
TAAAATTATTAATTATTAATTGTATTAATTGTTACTAAAATTA
Found at i:50147441 original size:19 final size:19
Alignment explanation
Indices: 50147417--50147470 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 19
50147407 TACTAACATT
50147417 TTGTTAGTAAAATTATCAA
1 TTGTTAGTAAAATTATCAA
* *
50147436 TTG-T--T-AATTGTATTAA
1 TTGTTAGTAAAAT-TATCAA
50147452 TTGTTAGTAAAATTATCAA
1 TTGTTAGTAAAATTATCAA
50147471 ATTATTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 10
0.65 0.10 0.25
Matches are distributed among these distances:
15 3 0.12
16 9 0.35
17 1 0.04
18 1 0.04
19 9 0.35
20 3 0.12
ACGTcount: A:0.39, C:0.04, G:0.11, T:0.46
Consensus pattern (19 bp):
TTGTTAGTAAAATTATCAA
Found at i:50147455 original size:16 final size:16
Alignment explanation
Indices: 50147434--50147500 Score: 54
Period size: 16 Copynumber: 4.5 Consensus size: 16
50147424 TAAAATTATC
50147434 AATTGTTAATTGTATT
1 AATTGTTAATTGTATT
*
50147450 AATTGTT-A--GTA-A
1 AATTGTTAATTGTATT
* * *
50147462 AATTATCAAAT-TATT
1 AATTGTTAATTGTATT
*
50147477 AATTATTAATTGTATT
1 AATTGTTAATTGTATT
50147493 AATTGTTA
1 AATTGTTA
50147501 TAACAAAATC
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
12 5 0.13
13 4 0.10
14 2 0.05
15 10 0.26
16 18 0.46
ACGTcount: A:0.39, C:0.01, G:0.09, T:0.51
Consensus pattern (16 bp):
AATTGTTAATTGTATT
Found at i:50147463 original size:35 final size:34
Alignment explanation
Indices: 50147417--50147489 Score: 112
Period size: 35 Copynumber: 2.1 Consensus size: 34
50147407 TACTAACATT
*
50147417 TTGTTAGTAAAATTATC-AATTGTTAATTGTATTAA
1 TTGTTAGTAAAATTATCAAATTATTAA-T-TATTAA
50147452 TTGTTAGTAAAATTATCAAATTATTAATTATTAA
1 TTGTTAGTAAAATTATCAAATTATTAATTATTAA
50147486 TTGT
1 TTGT
50147490 ATTAATTGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
34 10 0.28
35 18 0.50
36 8 0.22
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.49
Consensus pattern (34 bp):
TTGTTAGTAAAATTATCAAATTATTAATTATTAA
Found at i:50147475 original size:93 final size:92
Alignment explanation
Indices: 50147316--50147505 Score: 296
Period size: 93 Copynumber: 2.1 Consensus size: 92
50147306 TTTGTAAAAT
*
50147316 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATGGTTACTAAAATTATAAAATT
1 CTAACATTTTGTTAGTAAAATTATCAATTGTTAATTGTATTAATGGTTACTAAAATTATAAAATT
50147381 ATATCAGATTATTAA-T-TATTAATTGTTA
66 AT-T-A-ATTATTAATTGTATTAATTGTTA
* * *
50147409 CTAACATTTTGTTAGTAAAATTATCAATTGTTAATTGTATTAATTGTTAGTAAAATTATCAAATT
1 CTAACATTTTGTTAGTAAAATTATCAATTGTTAATTGTATTAATGGTTACTAAAATTATAAAATT
50147474 ATTAATTATTAATTGTATTAATTGTTA
66 ATTAATTATTAATTGTATTAATTGTTA
50147501 -TAACA
1 CTAACA
50147506 AAATCTAACA
Statistics
Matches: 91, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
90 8 0.09
91 7 0.08
92 13 0.14
93 63 0.69
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.47
Consensus pattern (92 bp):
CTAACATTTTGTTAGTAAAATTATCAATTGTTAATTGTATTAATGGTTACTAAAATTATAAAATT
ATTAATTATTAATTGTATTAATTGTTA
Found at i:50165561 original size:150 final size:150
Alignment explanation
Indices: 50165290--50165564 Score: 478
Period size: 150 Copynumber: 1.8 Consensus size: 150
50165280 AGGTTGCAGT
*
50165290 TAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGGTGCAGTGGAACAGATTGAAGC
1 TAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGGTACAGTGGAACAGATTGAAGC
** *
50165355 TACAACAGCGGATCTTACTTTTCTAGCAGTGCAGTGGAACAGATTGAAGCTACAACAGCGGATTT
66 TACAACAGCGGATCTTACTTCCCTAGCAGTGCAATGGAACAGATTGAAGCTACAACAGCGGATTT
50165420 TGCTTCCCCGACATTGCGGC
131 TGCTTCCCCGACATTGCGGC
*
50165440 TAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGGTACGGTGGAACAGATTGAAGC
1 TAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGGTACAGTGGAACAGATTGAAGC
* * *
50165505 TACAACAGCGGATCTTACTTCCCTGGCGGTGCAATGGAATAGATTGAAGCTACAACAGCG
66 TACAACAGCGGATCTTACTTCCCTAGCAGTGCAATGGAACAGATTGAAGCTACAACAGCG
50165565 AATCTTACTT
Statistics
Matches: 117, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
150 117 1.00
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (150 bp):
TAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGGTACAGTGGAACAGATTGAAGC
TACAACAGCGGATCTTACTTCCCTAGCAGTGCAATGGAACAGATTGAAGCTACAACAGCGGATTT
TGCTTCCCCGACATTGCGGC
Found at i:50165575 original size:50 final size:50
Alignment explanation
Indices: 50165295--50165683 Score: 368
Period size: 50 Copynumber: 7.6 Consensus size: 50
50165285 GCAGTTAAAA
* *
50165295 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGGTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGGCGGTGCAGTGGAAC
** * *
50165345 AGATTGAAGCTACAACAGCGGATCTTACTTTTCTAGCAGTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGGCGGTGCAGTGGAAC
* * * * ** * * *
50165395 AGATTGAAGCTACAACAGCGGATTTTGCTTCCCCGACATTGCGGCT-AAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGGCGGTGCAG-TGGAAC
* * * *
50165445 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGGTACGGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGGCGGTGCAGTGGAAC
* *
50165495 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGGCGGTGCAATGGAAT
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGGCGGTGCAGTGGAAC
* ** * *
50165545 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACGAACCTTATTTCCA-TGGCAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTG--G---C---GGTGCAGTGGAAC
* *** * * * *
50165602 AGATTGAAGCTACAACGGTAAATCTTACTGCCCTGGTGTTGTAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGGCGGTGCAGTGGAAC
*
50165652 AGATTGAAGCTACAACAGCGAATCTTACTTCC
1 AGATTGAAGCTACAACAGCGGATCTTACTTCC
50165684 TTGACGAACC
Statistics
Matches: 279, Mismatches: 49, Indels: 22
0.80 0.14 0.06
Matches are distributed among these distances:
49 4 0.01
50 233 0.84
51 1 0.00
52 1 0.00
55 2 0.01
57 35 0.13
58 3 0.01
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (50 bp):
AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGGCGGTGCAGTGGAAC
Found at i:50165636 original size:107 final size:107
Alignment explanation
Indices: 50165493--50165712 Score: 323
Period size: 107 Copynumber: 2.1 Consensus size: 107
50165483 GTACGGTGGA
** * *
50165493 ACAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGGCGGTGCAATGGAATAGATTGAAGCTAC
1 ACAGATTGAAGCTACAACAGCAAATCTTACTGCCCTGGCGGTGCAATGGAACAGATTGAAGCTAC
*
50165558 AACAGCGAATCTTACTTCCCTGACGAACCTTATTTCCATGGC
66 AACAGCGAATCTTACTTCCCTGACGAACCTTATTTCCATAGC
* * * * * *
50165600 ACAGATTGAAGCTACAACGGTAAATCTTACTGCCCTGGTGTTGTAGTGGAACAGATTGAAGCTAC
1 ACAGATTGAAGCTACAACAGCAAATCTTACTGCCCTGGCGGTGCAATGGAACAGATTGAAGCTAC
* *
50165665 AACAGCGAATCTTACTTCCTTGACGAACCTTATTTCCCTAGC
66 AACAGCGAATCTTACTTCCCTGACGAACCTTATTTCCATAGC
50165707 ACAGAT
1 ACAGAT
50165713 GGAACAGACT
Statistics
Matches: 100, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
107 100 1.00
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (107 bp):
ACAGATTGAAGCTACAACAGCAAATCTTACTGCCCTGGCGGTGCAATGGAACAGATTGAAGCTAC
AACAGCGAATCTTACTTCCCTGACGAACCTTATTTCCATAGC
Found at i:50167273 original size:3 final size:3
Alignment explanation
Indices: 50167265--50167302 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
50167255 AATTATCTTG
*
50167265 TAT TAT TAT TAT TGAT TAT TAT TAC TAT TAT TAT TAT T
1 TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT T
50167303 TATTCATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:50167362 original size:17 final size:17
Alignment explanation
Indices: 50167340--50167373 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
50167330 ACTTTGTTAT
*
50167340 ATATATACATTTCTACA
1 ATATATACATTTATACA
*
50167357 ATATATATATTTATACA
1 ATATATACATTTATACA
50167374 CGTACATATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (17 bp):
ATATATACATTTATACA
Found at i:50167520 original size:2 final size:2
Alignment explanation
Indices: 50167515--50167555 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
50167505 TATACATACT
50167515 TA TA TA TA TA 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 TA TA TA TA TA T
50167556 TATTTTATAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:50167614 original size:8 final size:8
Alignment explanation
Indices: 50167603--50167637 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
50167593 ATATACATCC
50167603 TTTTATAT
1 TTTTATAT
50167611 TTTTATAT
1 TTTTATAT
50167619 TTTTATAT
1 TTTTATAT
*
50167627 TTTCATAT
1 TTTTATAT
50167635 TTT
1 TTT
50167638 ATTCATTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTTATAT
Found at i:50169166 original size:20 final size:20
Alignment explanation
Indices: 50169129--50169165 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
50169119 ATACAAGCTC
50169129 AATTTTTATTTTATTTTTCA
1 AATTTTTATTTTATTTTTCA
*
50169149 AATTTTT-TTTTGTTTTT
1 AATTTTTATTTTATTTTT
50169166 TTTAGCAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.76
Consensus pattern (20 bp):
AATTTTTATTTTATTTTTCA
Found at i:50171015 original size:13 final size:14
Alignment explanation
Indices: 50170992--50171028 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
50170982 ACGTTCCATC
50170992 TTTCTTTTATTATT-
1 TTTC-TTTATTATTA
50171006 TTTCTTTATTATTA
1 TTTCTTTATTATTA
50171020 TTT-TTTATT
1 TTTCTTTATT
50171029 TCTCTCTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTCTTTATTATTA
Found at i:50171768 original size:18 final size:18
Alignment explanation
Indices: 50171745--50171783 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
50171735 CATGGACATG
* *
50171745 CCACATGGGCATTTTGGC
1 CCACATGGGCAATTGGGC
50171763 CCACATGGGCAATTGGGC
1 CCACATGGGCAATTGGGC
50171781 CCA
1 CCA
50171784 AAATTCTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.21, C:0.31, G:0.28, T:0.21
Consensus pattern (18 bp):
CCACATGGGCAATTGGGC
Found at i:50173286 original size:18 final size:19
Alignment explanation
Indices: 50173250--50173289 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
50173240 TTAAATGCTA
*
50173250 AAATTTTATATATTGTTTT
1 AAATTTTATATATTCTTTT
50173269 AAATTTTA-ATATTCTTTT
1 AAATTTTATATATTCTTTT
50173287 AAA
1 AAA
50173290 GTTCAAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (19 bp):
AAATTTTATATATTCTTTT
Found at i:50173790 original size:25 final size:24
Alignment explanation
Indices: 50173757--50173810 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 24
50173747 ATTGCTTCAA
* *
50173757 TTTAAAATTATTTATATTTAATTAT
1 TTTAAAATTATTAAAATTTAATT-T
50173782 TTTAAAATTATTAAAATTTAATTT
1 TTTAAAATTATTAAAATTTAATTT
50173806 TTTAA
1 TTTAA
50173811 TTTTTAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 6 0.22
25 21 0.78
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TTTAAAATTATTAAAATTTAATTT
Found at i:50174532 original size:19 final size:18
Alignment explanation
Indices: 50174510--50174561 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
50174500 CTTAAAATCT
50174510 TTAAAAATAGAAATATATA
1 TTAAAAATAGAAATA-ATA
50174529 TTAAAAAATA-ACCAA-AATA
1 TT-AAAAATAGA--AATAATA
50174548 TTAAAAATAGAAAT
1 TTAAAAATAGAAAT
50174562 GCATAAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 11
0.72 0.00 0.28
Matches are distributed among these distances:
17 2 0.07
18 7 0.25
19 9 0.32
20 8 0.29
21 2 0.07
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (18 bp):
TTAAAAATAGAAATAATA
Found at i:50178325 original size:18 final size:18
Alignment explanation
Indices: 50178302--50178338 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
50178292 TGTTTACTCA
50178302 TTTTGTCATTTTGCCCTT
1 TTTTGTCATTTTGCCCTT
*
50178320 TTTTGTCATTTTGGCCTT
1 TTTTGTCATTTTGCCCTT
50178338 T
1 T
50178339 AACCTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.05, C:0.19, G:0.14, T:0.62
Consensus pattern (18 bp):
TTTTGTCATTTTGCCCTT
Found at i:50182959 original size:3 final size:3
Alignment explanation
Indices: 50182953--50182994 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
50182943 TACTACTAAC
50182953 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
50182995 ATTTATTTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:50186979 original size:23 final size:24
Alignment explanation
Indices: 50186939--50186983 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
50186929 AAAAGTTAAA
*
50186939 AATCAAATTTAACTAAAAAATAAG
1 AATCAAATTTAACAAAAAAATAAG
50186963 AATCAAA-TTAACAAAAAAATA
1 AATCAAATTTAACAAAAAAATA
50186984 TAAACATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.67, C:0.09, G:0.02, T:0.22
Consensus pattern (24 bp):
AATCAAATTTAACAAAAAAATAAG
Found at i:50190731 original size:2 final size:2
Alignment explanation
Indices: 50190724--50190767 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
50190714 TCCCTTACAA
50190724 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50190766 AT
1 AT
50190768 TATCCCAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50191401 original size:30 final size:30
Alignment explanation
Indices: 50191367--50191429 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
50191357 ACTTATTTTA
50191367 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
50191397 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
50191427 TTG
1 TTG
50191430 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:50196166 original size:44 final size:44
Alignment explanation
Indices: 50196098--50196407 Score: 173
Period size: 44 Copynumber: 6.9 Consensus size: 44
50196088 TTATGGCCGA
** * *
50196098 TCTTATCTTTCTGAAGTTGCAGTGGAGTAGATTGAAGCCACCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAG
* * * ** *
50196142 CCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAGATACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAG
* * * *
50196186 TCTTATCCCCCTAAAATTGCAGTGGGGCAGATTGAAGCCACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAG
* * * * * ** *
50196230 TCTTATATCCCTGATGTTGCAGTAGAGTAGACTGAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CAAG
* * * * * *
50196275 T-TTCATTTCCCTGAAATTGTAGTGGAACAAATTGAAGCTATAAATCACAG
1 TCTT-ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC----CA-CA-AG
* * * * *
50196325 ATCTTATCTCTCT-AGAGTTGCAGTTGAGTAGA-TCATA-TCA-AA-
1 -TCTTATCTCCCTGA-AGTTGCAGTGGAGCAGATTGA-AGCCACAAG
*
50196367 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCAC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAC
50196408 TTCCTGTACC
Statistics
Matches: 191, Mismatches: 60, Indels: 31
0.68 0.21 0.11
Matches are distributed among these distances:
41 28 0.15
42 5 0.03
43 1 0.01
44 100 0.52
45 28 0.15
46 1 0.01
49 3 0.02
50 4 0.02
51 19 0.10
52 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAG
Found at i:50196266 original size:88 final size:89
Alignment explanation
Indices: 50196114--50196312 Score: 222
Period size: 88 Copynumber: 2.2 Consensus size: 89
50196104 CTTTCTGAAG
* * * * * **
50196114 TTGCAGTGGAGTAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAG
1 TTGCAGTGGAGCAGATTGAAGCCACAAGCCTTATATCCCTGAAGTTGCAGTAGAGCAGACTGAAG
50196179 ATA-CAAATCTTATCCCCCTAAAA
66 ATAGCAAATCTTATCCCCCTAAAA
* * * *
50196202 TTGCAGTGGGGCAGATTGAAGCCACAAGTCTTATATCCCTGATGTTGCAGTAGAGTAGACTGAAG
1 TTGCAGTGGAGCAGATTGAAGCCACAAGCCTTATATCCCTGAAGTTGCAGTAGAGCAGACTGAAG
** *
50196267 ATAGCAAAT-TTCATTTCCCTGAAA
66 ATAGCAAATCTT-ATCCCCCTAAAA
* * *
50196291 TTGTAGTGGAACAAATTGAAGC
1 TTGCAGTGGAGCAGATTGAAGC
50196313 TATAAATCAC
Statistics
Matches: 91, Mismatches: 18, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
88 59 0.65
89 32 0.35
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (89 bp):
TTGCAGTGGAGCAGATTGAAGCCACAAGCCTTATATCCCTGAAGTTGCAGTAGAGCAGACTGAAG
ATAGCAAATCTTATCCCCCTAAAA
Found at i:50196628 original size:19 final size:20
Alignment explanation
Indices: 50196583--50196629 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
50196573 ATTTTGGCCT
50196583 AGACCTAAAACCAAATAAATA
1 AGACC-AAAACCAAATAAATA
* *
50196604 AAACCAAAA-CAAATAAATG
1 AGACCAAAACCAAATAAATA
50196623 AGACCAA
1 AGACCAA
50196630 GTCCAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 15 0.65
20 4 0.17
21 4 0.17
ACGTcount: A:0.64, C:0.19, G:0.06, T:0.11
Consensus pattern (20 bp):
AGACCAAAACCAAATAAATA
Found at i:50198177 original size:26 final size:27
Alignment explanation
Indices: 50198122--50198175 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
50198112 ATGTTGTGTA
*
50198122 TTATTTTAAACTTCTTTTTCTATTTAT
1 TTATTTTAAACTTCTTTATCTATTTAT
*
50198149 TTATTTTGAACTT-TTTATCTA-TTAT
1 TTATTTTAAACTTCTTTATCTATTTAT
50198174 TT
1 TT
50198176 TAATTCGTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 6 0.24
26 7 0.28
27 12 0.48
ACGTcount: A:0.22, C:0.09, G:0.02, T:0.67
Consensus pattern (27 bp):
TTATTTTAAACTTCTTTATCTATTTAT
Found at i:50199856 original size:16 final size:17
Alignment explanation
Indices: 50199823--50199861 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
50199813 ACGAATTTTC
*
50199823 TTTTTGAAACACAAAAA
1 TTTTTTAAACACAAAAA
*
50199840 TTTTTTAAA-ACACAAA
1 TTTTTTAAACACAAAAA
50199856 TTTTTT
1 TTTTTT
50199862 TTGAAAACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.44
Consensus pattern (17 bp):
TTTTTTAAACACAAAAA
Found at i:50199879 original size:18 final size:17
Alignment explanation
Indices: 50199823--50199880 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 17
50199813 ACGAATTTTC
*
50199823 TTTTTGAAACACAAAAAT
1 TTTTTGAAA-ACAAATAT
* *
50199841 TTTTTAAAACACAAATTT
1 TTTTTGAAA-ACAAATAT
50199859 TTTTTGAAAACATAATAT
1 TTTTTGAAAACA-AATAT
50199877 TTTT
1 TTTT
50199881 GATAAAATAC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
17 3 0.09
18 31 0.91
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.45
Consensus pattern (17 bp):
TTTTTGAAAACAAATAT
Found at i:50199933 original size:38 final size:38
Alignment explanation
Indices: 50199891--50200010 Score: 140
Period size: 38 Copynumber: 3.2 Consensus size: 38
50199881 GATAAAATAC
* *
50199891 GAAACACGAGGATTTTCTTTTG-AAACACGAAAATTTAT
1 GAAACACGAGAAATTT-TTTTGAAAACACGAAAATTTAT
* *
50199929 GAAACACG-GTCAATTTTTTTGAAAACACGAAAATTTTT
1 GAAACACGAG-AAATTTTTTTGAAAACACGAAAATTTAT
* *
50199967 GAAAGAC-A-AAATTTTTTTGAAAACACGGAAATTTAT
1 GAAACACGAGAAATTTTTTTGAAAACACGAAAATTTAT
50200003 GAAACACG
1 GAAACACG
50200011 GACCCCCCCT
Statistics
Matches: 70, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
36 31 0.44
37 6 0.09
38 33 0.47
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (38 bp):
GAAACACGAGAAATTTTTTTGAAAACACGAAAATTTAT
Found at i:50199987 original size:36 final size:37
Alignment explanation
Indices: 50199908--50200010 Score: 138
Period size: 36 Copynumber: 2.8 Consensus size: 37
50199898 GAGGATTTTC
**
50199908 TTTTG-AAACACGAAAATTTATGAAACACGGTCAATTT
1 TTTTGAAAACACGAAAATTTATGAAACAC-GAAAATTT
* *
50199945 TTTTGAAAACACGAAAATTTTTGAAAGAC-AAAATTT
1 TTTTGAAAACACGAAAATTTATGAAACACGAAAATTT
*
50199981 TTTTGAAAACACGGAAATTTATGAAACACG
1 TTTTGAAAACACGAAAATTTATGAAACACG
50200011 GACCCCCCCT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
36 31 0.54
37 5 0.09
38 21 0.37
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.31
Consensus pattern (37 bp):
TTTTGAAAACACGAAAATTTATGAAACACGAAAATTT
Found at i:50200012 original size:17 final size:17
Alignment explanation
Indices: 50199908--50200010 Score: 82
Period size: 17 Copynumber: 5.7 Consensus size: 17
50199898 GAGGATTTTC
50199908 TTTTGAAACACGAAAAT
1 TTTTGAAACACGAAAAT
* **
50199925 TTATGAAACACGGTCAATTT
1 TTTTGAAACAC-G--AAAAT
50199945 TTTTGAAAACACGAAAAT
1 TTTTG-AAACACGAAAAT
*
50199963 TTTTGAAAGAC-AAAATTT
1 TTTTGAAACACGAAAA--T
*
50199981 TTTTGAAAACACGGAAAT
1 TTTTG-AAACACGAAAAT
*
50199999 TTATGAAACACG
1 TTTTGAAACACG
50200011 GACCCCCCCT
Statistics
Matches: 68, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
16 4 0.06
17 22 0.32
18 20 0.29
19 5 0.07
20 11 0.16
21 6 0.09
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.31
Consensus pattern (17 bp):
TTTTGAAACACGAAAAT
Found at i:50200101 original size:18 final size:17
Alignment explanation
Indices: 50200078--50200135 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
50200068 AATTTTTTTG
50200078 TTGAAAACACGACAATTT
1 TTGAAAACACGA-AATTT
*
50200096 TTG-AAACACTGGAA-TT
1 TTGAAAACAC-GAAATTT
*
50200112 TTGAAAATACGAAGATTT
1 TTGAAAACACGAA-ATTT
50200130 TTGAAA
1 TTGAAA
50200136 TGCGAAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
16 7 0.21
17 14 0.42
18 12 0.36
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.31
Consensus pattern (17 bp):
TTGAAAACACGAAATTT
Found at i:50200136 original size:17 final size:17
Alignment explanation
Indices: 50200078--50200147 Score: 56
Period size: 17 Copynumber: 4.1 Consensus size: 17
50200068 AATTTTTTTG
*
50200078 TTGAAAACACGACAATTT
1 TTGAAAATACGA-AATTT
* *
50200096 TTG-AAACACTGGAA-TT
1 TTGAAAATAC-GAAATTT
50200112 TTGAAAATACGAAGATTT
1 TTGAAAATACGAA-ATTT
*
50200130 TTG-AAATGCGAAATTT
1 TTGAAAATACGAAATTT
50200146 TT
1 TT
50200148 TTTTTAAACA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
16 13 0.30
17 22 0.50
18 9 0.20
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (17 bp):
TTGAAAATACGAAATTT
Found at i:50200403 original size:17 final size:17
Alignment explanation
Indices: 50200381--50200429 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
50200371 TATTATTATT
*
50200381 ATTTTGAAACACGAGAA
1 ATTTTGAAACACGAAAA
*
50200398 ATTTTG-AAGACGTAAAA
1 ATTTTGAAACACG-AAAA
50200415 ATTTGTGAAACACGA
1 ATTT-TGAAACACGA
50200430 TTTTTTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 5 0.19
17 13 0.50
18 3 0.12
19 5 0.19
ACGTcount: A:0.45, C:0.10, G:0.18, T:0.27
Consensus pattern (17 bp):
ATTTTGAAACACGAAAA
Found at i:50200900 original size:20 final size:20
Alignment explanation
Indices: 50200875--50200913 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
50200865 GTGGGCCCTT
50200875 TTCCTTTTTTCTTT-TTTTTC
1 TTCCTTTTTT-TTTCTTTTTC
50200895 TTCCTTTTTTTTTCTTTTT
1 TTCCTTTTTTTTTCTTTTT
50200914 TTTTGGCCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (20 bp):
TTCCTTTTTTTTTCTTTTTC
Found at i:50201044 original size:22 final size:23
Alignment explanation
Indices: 50201019--50201062 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
50201009 GGCGGTACTG
50201019 GGCCTGCT-GCTGCTGCTGGGCT
1 GGCCTGCTAGCTGCTGCTGGGCT
* *
50201041 GGCCTGCTAGGTGCTGTTGGGC
1 GGCCTGCTAGCTGCTGCTGGGC
50201063 CTGGACTGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.02, C:0.27, G:0.43, T:0.27
Consensus pattern (23 bp):
GGCCTGCTAGCTGCTGCTGGGCT
Found at i:50201315 original size:7 final size:7
Alignment explanation
Indices: 50201305--50201396 Score: 66
Period size: 7 Copynumber: 13.3 Consensus size: 7
50201295 ACTTTTAAAT
50201305 TTTTTTC
1 TTTTTTC
50201312 TTTTTTC
1 TTTTTTC
*
50201319 TTTTTCTT
1 TTTTT-TC
50201327 TTTCTTTC
1 TTT-TTTC
50201335 TCTTTTTC
1 T-TTTTTC
50201343 -TTTTTC
1 TTTTTTC
50201349 -TTTTTC
1 TTTTTTC
* *
50201355 -TTCTCC
1 TTTTTTC
*
50201361 CTTTTTC
1 TTTTTTC
*
50201368 -TTCTTC
1 TTTTTTC
50201374 TTTTTTC
1 TTTTTTC
*
50201381 TTTCTTC
1 TTTTTTC
*
50201388 TTTCTTC
1 TTTTTTC
50201395 TT
1 TT
50201397 CTTCGGGCAG
Statistics
Matches: 71, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
6 21 0.30
7 36 0.51
8 10 0.14
9 4 0.06
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTTC
Found at i:50201322 original size:6 final size:6
Alignment explanation
Indices: 50201306--50201396 Score: 101
Period size: 6 Copynumber: 14.3 Consensus size: 6
50201296 CTTTTAAATT
*
50201306 TTTTTC TTTTTTC TTTTTC TTTTTC TTTCTC TTTTTC TTTTTC TTTTTC
1 TTTTTC -TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
** *
50201355 TTCTCCC TTTTTC TTCTTC TTTTTTC TTTCTTC TTTCTTC TT
1 TT-TTTC TTTTTC TTTTTC -TTTTTC TTT-TTC TTT-TTC TT
50201397 CTTCGGGCAG
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
6 46 0.63
7 27 0.37
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTTC
Found at i:50201345 original size:24 final size:24
Alignment explanation
Indices: 50201304--50201396 Score: 118
Period size: 24 Copynumber: 3.8 Consensus size: 24
50201294 GACTTTTAAA
50201304 TTTT-TTTCT-TTTTTCTTTTTCT
1 TTTTCTTTCTCTTTTTCTTTTTCT
50201326 TTTTCTTTCTCTTTTTCTTTTTCT
1 TTTTCTTTCTCTTTTTCTTTTTCT
* *
50201350 TTTTCTTCTCCCTTTTTCTTCTTCTT
1 TTTTCTT-TCTCTTTTTCTTTTTC-T
50201376 TTTTCTTTCTTCTTTCTTCTT
1 TTTTCTTTC-TCTTT-TTCTT
50201397 CTTCGGGCAG
Statistics
Matches: 62, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
22 4 0.06
23 5 0.08
24 20 0.32
25 16 0.26
26 12 0.19
27 5 0.08
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (24 bp):
TTTTCTTTCTCTTTTTCTTTTTCT
Found at i:50201349 original size:37 final size:39
Alignment explanation
Indices: 50201324--50201398 Score: 102
Period size: 38 Copynumber: 1.9 Consensus size: 39
50201314 TTTTCTTTTT
50201324 CTTTTTC-T-TTCTCTTTTTCTTTTTC-TTTTTCTTCTCC
1 CTTTTTCTTCTTCT-TTTTTCTTTTTCTTTTTTCTTCTCC
*
50201361 CTTTTTCTTCTTCTTTTTTCTTTCTTCTTTCTTCTTCT
1 CTTTTTCTTCTTCTTTTTTCTTT-TTCTTTTTTCTTCT
50201399 TCGGGCAGCA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
37 7 0.21
38 10 0.30
39 7 0.21
40 9 0.27
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (39 bp):
CTTTTTCTTCTTCTTTTTTCTTTTTCTTTTTTCTTCTCC
Found at i:50201354 original size:43 final size:43
Alignment explanation
Indices: 50201318--50201400 Score: 116
Period size: 43 Copynumber: 1.9 Consensus size: 43
50201308 TTTCTTTTTT
*
50201318 CTTTTTCTTTTTCTTTCTCTT-TTTCTT-TTTCTTTTTCTTCTCC
1 CTTTTTCTTCTTCTTT-T-TTCTTTCTTCTTTCTTTTTCTTCTCC
*
50201361 CTTTTTCTTCTTCTTTTTTCTTTCTTCTTTCTTCTTCTTC
1 CTTTTTCTTCTTCTTTTTTCTTTCTTCTTTCTTTTTCTTC
50201401 GGGCAGCACC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
41 2 0.06
42 7 0.19
43 27 0.75
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (43 bp):
CTTTTTCTTCTTCTTTTTTCTTTCTTCTTTCTTTTTCTTCTCC
Found at i:50201558 original size:19 final size:17
Alignment explanation
Indices: 50201536--50201574 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
50201526 TTTTCTTGTT
50201536 TTTTGCTGCTGCGTTTTTG
1 TTTTGCTGCT-C-TTTTTG
*
50201555 TTTTGCTTCTCTTTTTG
1 TTTTGCTGCTCTTTTTG
50201572 TTT
1 TTT
50201575 CACTTTCTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 1 0.05
19 9 0.47
ACGTcount: A:0.00, C:0.15, G:0.18, T:0.67
Consensus pattern (17 bp):
TTTTGCTGCTCTTTTTG
Found at i:50201976 original size:30 final size:28
Alignment explanation
Indices: 50201907--50202037 Score: 138
Period size: 29 Copynumber: 4.5 Consensus size: 28
50201897 ATTTGGGCTA
*
50201907 AAAATGTAATTTTAGGAAAA-TATGGGGCC
1 AAAATGTAATTTTA--AAAAGTTTGGGGCC
*
50201936 AAAATGTAATTTTCAAAAAGTTTAGGGGTC
1 AAAATGTAATTTT-AAAAAGTTT-GGGGCC
* *
50201966 AAAGTGTAATTTTGAGAAAGTTTGGGGCC
1 AAAATGTAATTTT-AAAAAGTTTGGGGCC
* *
50201995 AAAATGTAATTTTAGCAAAGTTTGGGGTC
1 AAAATGTAATTTTA-AAAAGTTTGGGGCC
50202024 AAAATGTAAATTTT
1 AAAATGT-AATTTT
50202038 TATTTTTTGT
Statistics
Matches: 88, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
28 5 0.06
29 51 0.58
30 32 0.36
ACGTcount: A:0.38, C:0.06, G:0.23, T:0.33
Consensus pattern (28 bp):
AAAATGTAATTTTAAAAAGTTTGGGGCC
Found at i:50201992 original size:59 final size:58
Alignment explanation
Indices: 50201898--50202037 Score: 176
Period size: 59 Copynumber: 2.4 Consensus size: 58
50201888 GACCAAAATA
* *
50201898 TTTGGGCTAAAAATGTAATTTTAGGAAAATATGGGGCCAAAATGTAATTTTCA-AAAAG
1 TTTGGGGTCAAAATGTAATTTTAGGAAAATATGGGGCCAAAATGTAATTTT-AGAAAAG
* * * *
50201956 TTTAGGGGTCAAAGTGTAATTTT-GAGAAAGTTTGGGGCCAAAATGTAATTTTAGCAAAG
1 TTT-GGGGTCAAAATGTAATTTTAG-GAAAATATGGGGCCAAAATGTAATTTTAGAAAAG
50202015 TTTGGGGTCAAAATGTAAATTTT
1 TTTGGGGTCAAAATGT-AATTTT
50202038 TATTTTTTGT
Statistics
Matches: 71, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
58 17 0.24
59 54 0.76
ACGTcount: A:0.36, C:0.06, G:0.24, T:0.34
Consensus pattern (58 bp):
TTTGGGGTCAAAATGTAATTTTAGGAAAATATGGGGCCAAAATGTAATTTTAGAAAAG
Found at i:50202394 original size:28 final size:28
Alignment explanation
Indices: 50202328--50202387 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
50202318 ATATAAGGTC
50202328 ATATACGAATAGTAGGAAGATTTAAAAT
1 ATATACGAATAGTAGGAAGATTTAAAAT
50202356 ATATACGAATAGTAGGAAGATTTAAAAT
1 ATATACGAATAGTAGGAAGATTTAAAAT
50202384 ATAT
1 ATAT
50202388 TTTAATAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.17, T:0.30
Consensus pattern (28 bp):
ATATACGAATAGTAGGAAGATTTAAAAT
Found at i:50208983 original size:12 final size:13
Alignment explanation
Indices: 50208966--50208994 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
50208956 TTCTTATTCG
50208966 ATTTATTTA-TTT
1 ATTTATTTATTTT
50208978 ATTTATTTATTTT
1 ATTTATTTATTTT
50208991 ATTT
1 ATTT
50208995 TCATTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
ATTTATTTATTTT
Found at i:50209953 original size:3 final size:3
Alignment explanation
Indices: 50209886--50209939 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
50209876 GTTTCATATC
50209886 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
50209934 TTA TTA
1 TTA TTA
50209940 GACTGTTTTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:50212111 original size:23 final size:24
Alignment explanation
Indices: 50212057--50212111 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
50212047 ATTTATTTAA
* *
50212057 AATAAGTAAATGAAATTAATAATT
1 AATAATTAAATGAAAATAATAATT
* *
50212081 ATTTATTAAAT-AAAATAATAATT
1 AATAATTAAATGAAAATAATAATT
50212104 AATAATTA
1 AATAATTA
50212112 TTTAAGACAA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
23 17 0.68
24 8 0.32
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (24 bp):
AATAATTAAATGAAAATAATAATT
Found at i:50215104 original size:14 final size:14
Alignment explanation
Indices: 50215071--50215107 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
50215061 CAATAAAGAA
50215071 AAAGAAA-AAATCG
1 AAAGAAAGAAATCG
50215084 AAA-AAAGAAATCG
1 AAAGAAAGAAATCG
50215097 AAAGAAAGAAA
1 AAAGAAAGAAA
50215108 AAAAATAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 3 0.14
13 12 0.55
14 7 0.32
ACGTcount: A:0.73, C:0.05, G:0.16, T:0.05
Consensus pattern (14 bp):
AAAGAAAGAAATCG
Found at i:50220982 original size:8 final size:7
Alignment explanation
Indices: 50220959--50220998 Score: 55
Period size: 8 Copynumber: 5.6 Consensus size: 7
50220949 TATATATAGA
50220959 TTTTA-T
1 TTTTATT
50220965 TTTTATT
1 TTTTATT
50220972 TTTTATAT
1 TTTTAT-T
50220980 TTTTATT
1 TTTTATT
50220987 TATTTATT
1 T-TTTATT
50220995 TTTT
1 TTTT
50220999 GCCTAAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
6 5 0.16
7 12 0.39
8 14 0.45
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTATT
Found at i:50220982 original size:15 final size:16
Alignment explanation
Indices: 50220958--50220998 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
50220948 TTATATATAG
50220958 ATTT-TATTTTTATTT
1 ATTTATATTTTTATTT
50220973 -TTTATATTTTTATTT
1 ATTTATATTTTTATTT
50220988 ATTTAT-TTTTT
1 ATTTATATTTTT
50220999 GCCTAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 3 0.12
15 16 0.67
16 5 0.21
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (16 bp):
ATTTATATTTTTATTT
Found at i:50224625 original size:34 final size:32
Alignment explanation
Indices: 50224594--50224657 Score: 92
Period size: 34 Copynumber: 1.9 Consensus size: 32
50224584 TTCTATATTC
50224594 ATACACGTGCATTTTCTTGATATAATATATATGT
1 ATACACGTGCATTTT-TTG-TATAATATATATGT
* *
50224628 ATATATGTGCATTTTTTGTATAATATATAT
1 ATACACGTGCATTTTTTGTATAATATATAT
50224658 ATTTAAACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 12 0.43
33 3 0.11
34 13 0.46
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.48
Consensus pattern (32 bp):
ATACACGTGCATTTTTTGTATAATATATATGT
Found at i:50224918 original size:30 final size:30
Alignment explanation
Indices: 50224857--50224939 Score: 76
Period size: 32 Copynumber: 2.6 Consensus size: 30
50224847 ATTAATTTCA
* *
50224857 ATATATGTAATTATTATTTTTATAATCTATAT
1 ATATATGT-A-TATAATTATTATAATCTATAT
* *
50224889 ATATATGTATATAATTATTATCATTTATAT
1 ATATATGTATATAATTATTATAATCTATAT
* *
50224919 ATGTACATGTATATATTTATT
1 A--TATATGTATATAATTATT
50224940 TATTTTTAAC
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
30 18 0.42
31 1 0.02
32 24 0.56
ACGTcount: A:0.37, C:0.04, G:0.05, T:0.54
Consensus pattern (30 bp):
ATATATGTATATAATTATTATAATCTATAT
Found at i:50225132 original size:2 final size:2
Alignment explanation
Indices: 50225127--50225175 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
50225117 TTATGTATTT
50225127 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
50225169 TA TA TA T
1 TA TA TA T
50225176 TCTATAACCC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:50227473 original size:24 final size:24
Alignment explanation
Indices: 50227446--50227491 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
50227436 AGAACAATCC
* *
50227446 CAAAAGGAAATGCAGGAGCAACTT
1 CAAAAGCAAATGAAGGAGCAACTT
*
50227470 CAAAAGCAAATGAATGAGCAAC
1 CAAAAGCAAATGAAGGAGCAAC
50227492 AAAAAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.50, C:0.17, G:0.22, T:0.11
Consensus pattern (24 bp):
CAAAAGCAAATGAAGGAGCAACTT
Found at i:50230303 original size:8 final size:8
Alignment explanation
Indices: 50230275--50230326 Score: 54
Period size: 8 Copynumber: 6.6 Consensus size: 8
50230265 TTTGAGTCGA
50230275 AAAAAATG
1 AAAAAATG
**
50230283 ATGAAATG
1 AAAAAATG
50230291 AAAAAAATG
1 -AAAAAATG
*
50230300 AAAAAGTG
1 AAAAAATG
50230308 -AAAAAT-
1 AAAAAATG
50230314 AAAAAATG
1 AAAAAATG
50230322 AAAAA
1 AAAAA
50230327 GTAAAATGGA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
7 11 0.31
8 18 0.51
9 6 0.17
ACGTcount: A:0.73, C:0.00, G:0.13, T:0.13
Consensus pattern (8 bp):
AAAAAATG
Found at i:50230309 original size:17 final size:17
Alignment explanation
Indices: 50230273--50230312 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
50230263 ACTTTGAGTC
*
50230273 GAAAAAAATGATGAAAT
1 GAAAAAAATGATAAAAT
50230290 GAAAAAAATGA-AAAAGT
1 GAAAAAAATGATAAAA-T
50230307 GAAAAA
1 GAAAAA
50230313 TAAAAAATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.12
Consensus pattern (17 bp):
GAAAAAAATGATAAAAT
Found at i:50230310 original size:22 final size:23
Alignment explanation
Indices: 50230284--50230334 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
50230274 AAAAAAATGA
50230284 TGAAATGA-AAAAAATGAAAAAG
1 TGAAATGATAAAAAATGAAAAAG
*
50230306 TGAAA-AATAAAAAATGAAAAAG
1 TGAAATGATAAAAAATGAAAAAG
*
50230328 TAAAATG
1 TGAAATG
50230335 GAGAGCCTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 23 0.96
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.16
Consensus pattern (23 bp):
TGAAATGATAAAAAATGAAAAAG
Found at i:50230311 original size:7 final size:7
Alignment explanation
Indices: 50230293--50230326 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
50230283 ATGAAATGAA
50230293 AAAAATG
1 AAAAATG
50230300 AAAAAGTG
1 AAAAA-TG
*
50230308 AAAAATA
1 AAAAATG
50230315 AAAAATG
1 AAAAATG
50230322 AAAAA
1 AAAAA
50230327 GTAAAATGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:50230311 original size:14 final size:14
Alignment explanation
Indices: 50230293--50230332 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
50230283 ATGAAATGAA
*
50230293 AAAAATGAAAAAGTG
1 AAAAAT-AAAAAATG
50230308 AAAAATAAAAAATG
1 AAAAATAAAAAATG
50230322 AAAAAGTAAAA
1 AAAAA-TAAAA
50230333 TGGAGAGCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (14 bp):
AAAAATAAAAAATG
Found at i:50232314 original size:132 final size:132
Alignment explanation
Indices: 50231694--50232286 Score: 981
Period size: 132 Copynumber: 4.5 Consensus size: 132
50231684 ATTGATAAGA
* * *
50231694 AGCAGATTGAAGATGGCAGATTTTACCTCCCTGTGGTAACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * *
50231759 TCTACTTCCCTGGACAACAGTAGAATAGATTGAAAATTTCAGATCTTATCTCTCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
50231824 GG
131 GG
* *
50231826 AGCAGATTGAAGATGGCGGATTTTACCTCCCTGTAGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
*
50231891 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATTTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
50231956 GG
131 GG
* *
50231958 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGATGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
*
50232023 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCTCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
50232088 GG
131 GG
*
50232090 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAATGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
** * *
50232155 TCTACTTCCCTGGGTAACAGTGGAATAGATTGAAGATTTCAGACCTTATATCCCTAAGCAGTAAG
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT-AG
50232220 -GG
130 TGG
* * * *
50232222 AGTAGATCGAAGATGGTGGATTATACCTCCTTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
50232287 CCTATCTCCC
Statistics
Matches: 434, Mismatches: 26, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
132 432 1.00
133 2 0.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (132 bp):
AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
GG
Found at i:50232482 original size:93 final size:94
Alignment explanation
Indices: 50232316--50232486 Score: 222
Period size: 93 Copynumber: 1.8 Consensus size: 94
50232306 GTGGAATAGG
* *
50232316 TTTTCTATCTTGATTAACTTATTCACTTCGAGCTTTGCTCTCAATAAATTTCATCTTATCCATTG
1 TTTTCTATCTTGATTAAC-TATTCACTTCGAGCTTAGCTCTCAACAAATTTCATCTTATCCATTG
50232381 AGATAATCTTTTTCATCTTATCTCAGCAAA
65 AGATAATCTTTTTCATCTTATCTCAGCAAA
* * * * *
50232411 TTTTGCTATCTTGATTAA-T-TT-ATTTCGAGCTTAGTTCTCAAGCAAATTTTATCTTGTCTATT
1 TTTT-CTATCTTGATTAACTATTCACTTCGAGCTTAGCTCTCAA-CAAATTTCATCTTATCCATT
*
50232473 GTGATAATCTTTTT
64 GAGATAATCTTTTT
50232487 TAAGAATTTT
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
92 17 0.26
93 31 0.47
94 1 0.02
95 4 0.06
96 13 0.20
ACGTcount: A:0.25, C:0.18, G:0.09, T:0.49
Consensus pattern (94 bp):
TTTTCTATCTTGATTAACTATTCACTTCGAGCTTAGCTCTCAACAAATTTCATCTTATCCATTGA
GATAATCTTTTTCATCTTATCTCAGCAAA
Found at i:50233136 original size:131 final size:131
Alignment explanation
Indices: 50232971--50233252 Score: 395
Period size: 131 Copynumber: 2.2 Consensus size: 131
50232961 AGATCAGAAG
** * *
50232971 CACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAGGATTGCAGATCTTATCTCCCTTAG
1 CACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGCGGAAGATTGCAGATCTTATCTCCCTAAG
* * *
50233036 CAGTAGTGGAGCAGATCGAAAACGGCAAATCTTATCTTTCCAAGATAGTGGGGAGTC-GATTTAA
66 CAGTAGTGGAGCAGATCGAAAACGGCAAATCTTATCTTCCCAAGATAGTAGGAAG-CAGATTTAA
50233100 GC
130 GC
* * * *
50233102 CACCAGCCTTGTCTCCTTGAGCAGCAGTGGAGTAGGCGGAAGATTGTAGATTTTATCTCCCTAAG
1 CACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGCGGAAGATTGCAGATCTTATCTCCCTAAG
* * * *
50233167 CAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGGTAGTAGGAAGCAGATTTAAG
66 CAGTAGTGGAGCAGATCGAAAACGGCAAATCTTATCTTCCCAAGATAGTAGGAAGCAGATTTAAG
50233232 C
131 C
**
50233233 CACCAATCTTATCTCCCTGA
1 CACCAGCCTTATCTCCCTGA
50233253 AGTTGCAGTG
Statistics
Matches: 131, Mismatches: 19, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
130 1 0.01
131 130 0.99
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (131 bp):
CACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGCGGAAGATTGCAGATCTTATCTCCCTAAG
CAGTAGTGGAGCAGATCGAAAACGGCAAATCTTATCTTCCCAAGATAGTAGGAAGCAGATTTAAG
C
Found at i:50233268 original size:44 final size:44
Alignment explanation
Indices: 50233220--50233492 Score: 138
Period size: 44 Copynumber: 6.4 Consensus size: 44
50233210 GGTAGTAGGA
* * *
50233220 AGCAGATTTAAGCCACCA-ATCTTATCTCCCTGAAGTTGCAGTGG
1 AGCAGATTAAAACCA-CAGATCTTATCTCCCTGAAGTTGCAGTAG
* *
50233264 AGCAGATTAAAACCACAGATCTTATCTCTCTGAAGTTGTAGTAG
1 AGCAGATTAAAACCACAGATCTTATCTCCCTGAAGTTGCAGTAG
** * * **** *
50233308 AGCAGATCGCATA--A-A-ATCTTATCT-CCTTAAGCAATAGTGG
1 AGCAGAT-TAAAACCACAGATCTTATCTCCCTGAAGTTGCAGTAG
** * * *
50233348 AGCAGACAGAAGAAAC-CA-ATCCTATCTCCCTGAAGTTACAGTCA-
1 AGCAGA-TTAA-AACCACAGATCTTATCTCCCTGAAGTTGCAGT-AG
* * * * *
50233392 AGCGGATTAAAACCACATATCTTATCTCTCTGAATTTGTAGTAG
1 AGCAGATTAAAACCACAGATCTTATCTCCCTGAAGTTGCAGTAG
*** * *
50233436 AGCAGA-TCGCATC-CAG-TCTTATCTCCCTGAAGTTGCAGTGG
1 AGCAGATTAAAACCACAGATCTTATCTCCCTGAAGTTGCAGTAG
* *
50233477 AACAGACTAAAACCAC
1 AGCAGATTAAAACCAC
50233493 GAATCTCGTC
Statistics
Matches: 168, Mismatches: 47, Indels: 29
0.69 0.19 0.12
Matches are distributed among these distances:
40 18 0.11
41 36 0.21
42 9 0.05
43 21 0.12
44 82 0.49
45 2 0.01
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (44 bp):
AGCAGATTAAAACCACAGATCTTATCTCCCTGAAGTTGCAGTAG
Found at i:50233289 original size:131 final size:131
Alignment explanation
Indices: 50232971--50233316 Score: 318
Period size: 131 Copynumber: 2.6 Consensus size: 131
50232961 AGATCAGAAG
* * ** ** *** *
50232971 CACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAGGATTGCAGATCTTATCTCCCTTAG
1 CACCAACCTTATCTCCCTGAGCAGCAGTGGAGCAGGAGGAAAACCACAGATCTTATCTCCCTAAG
* * *
50233036 CAGTAGTGGAGCAGATCGAAAACGGCAAATCTTATCTTTCCAAGATAGTGGGGAGTCGATTTAAG
66 CAGTAGTGGAGCAGATCGAAAACGGCAAATCTTATCTTCCCAAGATAGTAGGAAGTCGATTTAAG
50233101 C
131 C
* * * * * * **** *
50233102 CACCAGCCTTGTCTCCTTGAGCAGCAGTGGAGTAGGCGGAAGATTGTAGATTTTATCTCCCTAAG
1 CACCAACCTTATCTCCCTGAGCAGCAGTGGAGCAGGAGGAAAACCACAGATCTTATCTCCCTAAG
* * * *
50233167 CAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGGTAGTAGGAAG-CAGATTTAA
66 CAGTAGTGGAGCAGATCGAAAACGGCAAATCTTATCTTCCCAAGATAGTAGGAAGTC-GATTTAA
50233231 GC
130 GC
* ** ** *
50233233 CACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATTAAAACCACAGATCTTATCTCTCTGA
1 CACCAACCTTATCTCCCTG-AGCAGCAGTGGAGCAGGAGGAAAACCACAGATCTTATCTCCCT-A
** *
50233297 AGTTGTAGTAGAGCAGATCG
64 AGCAGTAGTGGAGCAGATCG
50233317 CATAAAATCT
Statistics
Matches: 177, Mismatches: 35, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
130 1 0.01
131 146 0.82
132 30 0.17
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.26
Consensus pattern (131 bp):
CACCAACCTTATCTCCCTGAGCAGCAGTGGAGCAGGAGGAAAACCACAGATCTTATCTCCCTAAG
CAGTAGTGGAGCAGATCGAAAACGGCAAATCTTATCTTCCCAAGATAGTAGGAAGTCGATTTAAG
C
Found at i:50233814 original size:19 final size:19
Alignment explanation
Indices: 50233790--50233835 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
50233780 TACTAAACCG
*
50233790 GCCCAAACATTAACCCTCA
1 GCCCAAACATTAACCCTAA
**
50233809 GCCCAAATTTTAACCCTAA
1 GCCCAAACATTAACCCTAA
50233828 GCCCAAAC
1 GCCCAAAC
50233836 CTAATAGCCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.37, C:0.39, G:0.07, T:0.17
Consensus pattern (19 bp):
GCCCAAACATTAACCCTAA
Found at i:50235773 original size:107 final size:106
Alignment explanation
Indices: 50235505--50236028 Score: 703
Period size: 107 Copynumber: 5.0 Consensus size: 106
50235495 TATCCACATA
* *
50235505 AAAATTTCAAAATAAGTCAATATTTTGCGTTTGGAAGTTCGAGAAAACGTGCCCTAACGTGCTGG
1 AAAATTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGG
* * *
50235570 GTTTCGATTTCTCGTTTGATCAAATAGCCGAATATCCTTTC
66 GTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTC
* * * * * *
50235611 AAAATTTTAAAGTGAGGAAATA-TTTGCGTTTGGAAATTCGAGAGAACGTGCCCTAACGCGCTGG
1 AAAATTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGG
* * * * * *
50235675 GTTTCAATTTTTCATTCGACCAAATAGCTAAAATATTCTTTA
66 GTTTCGATTTCTCGTTCGACCAAATAGC-CAAATATCCTTTC
** *
50235717 AAAATTTCAAAATAAGGCAATATTTTGCGTTTAAAAAATCGAGAAAACGTGCCCTAACGTGCTGG
1 AAAATTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGG
50235782 GTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTTC
66 GTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCC-TTTC
* * * *
50235824 AAACTTTCAAAATAAGGCAATATTTCGCGTTTGGAAGTTCGAGAAAACGTGCCCTAACATGCTGG
1 AAAATTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGG
* * *
50235889 GTTTCGATTTCTCGTTTGATCAAATAGCCGAATATCCTTTC
66 GTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTC
* * * * * *
50235930 GAAATTTCAAAGTGAGG-AA-ATATTGCGTTTGGAAATTCGAGAGAACGTGCCCTAATGTGCTGG
1 AAAATTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGG
*
50235993 GTTTCGATTTCTCGTTCGACCAAATAGCCTAATATC
66 GTTTCGATTTCTCGTTCGACCAAATAGCCAAATATC
50236029 TTCTTAACTT
Statistics
Matches: 360, Mismatches: 55, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
104 71 0.20
105 64 0.18
106 68 0.19
107 157 0.44
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (106 bp):
AAAATTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGG
GTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTC
Found at i:50238434 original size:13 final size:13
Alignment explanation
Indices: 50238416--50238458 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
50238406 TTTTAGTTTG
*
50238416 ATTTAAAATTAGA
1 ATTTAAAATTAAA
*
50238429 ATTTAAAAATAAA
1 ATTTAAAATTAAA
* *
50238442 ATTCAAAATTACA
1 ATTTAAAATTAAA
50238455 ATTT
1 ATTT
50238459 TGCATTGAGC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (13 bp):
ATTTAAAATTAAA
Found at i:50243609 original size:72 final size:72
Alignment explanation
Indices: 50243435--50243626 Score: 234
Period size: 72 Copynumber: 2.7 Consensus size: 72
50243425 CTTGTGAATA
* * * **
50243435 AATTTT-ATATCC-AAAATCATATATAAACAACTATTGATAAAACTA-ATTTAGTATAAATAAGT
1 AATTTTAATATCCAAAAACCAAAAATAAACAACTATTGATAAAACTAGATTTAACATAAATAAGT
50243497 AGAACAT
66 AGAACAT
* * * * *
50243504 AAATTCAA-ATCCAAAGACCAAACATAAACAACTATTAATAAAACTAGA-TTACACATAAATAAG
1 AATTTTAATATCCAAAAACCAAAAATAAACAACTATTGATAAAACTAGATTTA-ACATAAATAAG
50243567 TAGAACAT
65 TAGAACAT
*
50243575 AATTTTAATATCCAAAAACCAAAAATAAATAACTATTGATAAAACTAG-TTTA
1 AATTTTAATATCCAAAAACCAAAAATAAACAACTATTGATAAAACTAGATTTA
50243627 GCATTGTTGT
Statistics
Matches: 102, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
69 8 0.08
70 32 0.31
71 24 0.24
72 38 0.37
ACGTcount: A:0.54, C:0.13, G:0.05, T:0.28
Consensus pattern (72 bp):
AATTTTAATATCCAAAAACCAAAAATAAACAACTATTGATAAAACTAGATTTAACATAAATAAGT
AGAACAT
Found at i:50246418 original size:50 final size:50
Alignment explanation
Indices: 50246343--50247070 Score: 449
Period size: 50 Copynumber: 14.6 Consensus size: 50
50246333 GCAATGTCGA
* * * * *
50246343 GGAAGTAAGATTCGCCGTCGTAGCTTCAATCTTTTCCATTACATCGCCAG
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACCGCCTG
* * * ** * ** * *
50246393 GGAAGTAAGATTTGCTGTTGTAGCTTCAATCTATTTAAATGCAGTGTCGG
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACCGCCTG
** * *
50246443 GGAAGCGAGATTCGCCATCGTAGCTTCAATCTGTTCCATTGCACCGCCTG
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACCGCCTG
* * * ** ****
50246493 AGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATATC-G
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACCGCCTG
* * ***
50246542 ATGAAGTAAGATTCACCGTTGTAGCTTCAATCTGTTCTGCTGCACCGCCTG
1 -GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACCGCCTG
* * ** *
50246593 AGAAGTAAGATTCACCGTTGTAGCTTCAATCTGTTCCGCTGCACCGCTTG
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACCGCCTG
* * ** **** *
50246643 GGAAGTAAGATTTGCCGTTGTGGCTTCAATCCT-TTAAATTGCAATATCGG
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAAT-CTGTTCCATTGCACCGCCTG
* * * * *
50246693 GGAAGCAAGATTCACCGTTGTAGCTTCAACCTGTTCCACTGCACCGCTTG
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACCGCCTG
* * * ** ** * *
50246743 AGAAGTAAGATTCTCCGTTGTGGCTTCAATCAT-TTAAATTGCAATGTCGG
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATC-TGTTCCATTGCACCGCCTG
* * **
50246793 GGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCGCTGCACCGCCTG
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACCGCCTG
* * * * ** * ** * *
50246843 AGAAGTAATATTCACCGTTGTGGCTTCAATCCT-TTAAATTGTAATGTCAG
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAAT-CTGTTCCATTGCACCGCCTG
* * *** * *
50246893 GGAAGCAAGATTCGCCATTGTAGCTTCAATCTGTTCTGCTGTATCGCCTG
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACCGCCTG
* * * ** * ** * **
50246943 AGAAGTAAGATTCGCAGTTGTGGCTTCAATCCT-TTAAATTGGAATGTCAA
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAAT-CTGTTCCATTGCACCGCCTG
* * * * ** *
50246993 GGAAGCAAGATTCACCATTGTAGCTTCAATCTATTCCGCTGCACCGCTTG
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACCGCCTG
* *
50247043 AGAAGTAAGATTCGCCGTTGTGGCTTCA
1 GGAAGTAAGATTCGCCGTTGTAGCTTCA
50247071 GTCCTTTAAA
Statistics
Matches: 497, Mismatches: 171, Indels: 20
0.72 0.25 0.03
Matches are distributed among these distances:
49 8 0.02
50 481 0.97
51 8 0.02
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (50 bp):
GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACCGCCTG
Found at i:50246648 original size:100 final size:100
Alignment explanation
Indices: 50246592--50247082 Score: 716
Period size: 100 Copynumber: 4.9 Consensus size: 100
50246582 TGCACCGCCT
* * *
50246592 GAGAAGTAAGATTCACCGTTGTAGCTTCAATCTGTTCCGCTGCACCGCTTGGGAAGTAAGATTTG
1 GAGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCGCTGCACCGCTTGAGAAGTAAGATTCG
*
50246657 CCGTTGTGGCTTCAATCCTTTAAATTGCAATATCG
66 CCGTTGTGGCTTCAATCCTTTAAATTGCAATGTCG
* * * *
50246692 GGGAAGCAAGATTCACCGTTGTAGCTTCAACCTGTTCCACTGCACCGCTTGAGAAGTAAGATTCT
1 GAGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCGCTGCACCGCTTGAGAAGTAAGATTCG
*
50246757 CCGTTGTGGCTTCAATCATTTAAATTGCAATGTCG
66 CCGTTGTGGCTTCAATCCTTTAAATTGCAATGTCG
* * * *
50246792 GGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCGCTGCACCGCCTGAGAAGTAATATTCA
1 GAGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCGCTGCACCGCTTGAGAAGTAAGATTCG
*
50246857 CCGTTGTGGCTTCAATCCTTTAAATTGTAATGTCAG
66 CCGTTGTGGCTTCAATCCTTTAAATTGCAATGTC-G
* * * * * *
50246893 G-GAAGCAAGATTCGCCATTGTAGCTTCAATCTGTTCTGCTGTATCGCCTGAGAAGTAAGATTCG
1 GAGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCGCTGCACCGCTTGAGAAGTAAGATTCG
* *
50246957 CAGTTGTGGCTTCAATCCTTTAAATTGGAATGTC-
66 CCGTTGTGGCTTCAATCCTTTAAATTGCAATGTCG
* * *
50246991 AAGGAAGCAAGATTCACCATTGTAGCTTCAATCTATTCCGCTGCACCGCTTGAGAAGTAAGATTC
1 GA-GAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCGCTGCACCGCTTGAGAAGTAAGATTC
*
50247056 GCCGTTGTGGCTTCAGTCCTTTAAATT
65 GCCGTTGTGGCTTCAATCCTTTAAATT
50247083 ACAAACTATG
Statistics
Matches: 354, Mismatches: 34, Indels: 6
0.90 0.09 0.02
Matches are distributed among these distances:
100 352 0.99
101 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (100 bp):
GAGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCGCTGCACCGCTTGAGAAGTAAGATTCG
CCGTTGTGGCTTCAATCCTTTAAATTGCAATGTCG
Found at i:50246705 original size:200 final size:196
Alignment explanation
Indices: 50246494--50247082 Score: 678
Period size: 200 Copynumber: 2.9 Consensus size: 196
50246484 CACCGCCTGA
* * * *
50246494 GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATATCGATGAAGTAAGATTCACC
1 GAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTT--ACTGCAATATCGATGAAGTAAGATTCACC
* **** ** * *
50246559 GTTGTAGCTTCAATCTGTTCTGCTGCACCGCCTGAGAAGTAAGATTCACCGTTGTAGCTTCAATC
64 GTTGTGGCTTCAATCT-TTAAATTGCAATGTC-GAGAAGCAAGATTCACCGTTGTAGCTTCAATC
* *
50246624 TGTTCCGCTGCACCGCTTGGGAAGTAAGATTTGCCGTTGTGGCTTCAATCCTTTAAATTGCAATA
127 TGTTCCGCTGCACCGCTTGAGAAGTAAGATTCGCCGTTGTGGCTTCAATCCTTTAAATTGCAATA
*
50246689 TCGGG
192 TCAGG
* * *** * *
50246694 GAAGCAAGATTCACCGTTGTAGCTTCAACCTGTTCCACTGCACCGCTTGA-GAAGTAAGATTCTC
1 GAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTT--ACTGCA-ATATCGATGAAGTAAGATTCAC
*
50246758 CGTTGTGGCTTCAATCATTTAAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAAT
63 CGTTGTGGCTTCAATC-TTTAAATTGCAATGTC-GAGAAGCAAGATTCACCGTTGTAGCTTCAAT
* * * *
50246823 CTGTTCCGCTGCACCGCCTGAGAAGTAATATTCACCGTTGTGGCTTCAATCCTTTAAATTGTAAT
126 CTGTTCCGCTGCACCGCTTGAGAAGTAAGATTCGCCGTTGTGGCTTCAATCCTTTAAATTGCAAT
*
50246888 GTCAGG
191 ATCAGG
* ** * *
50246894 GAAGCAAGATTCGCCATTGTAGCTTCAATCTGTT-CTGCTGTATCGCCTGAGAAGTAAGATTCGC
1 GAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTACTGCAATATCG-AT--GAAGTAAGATTCAC
* * * *
50246958 AGTTGTGGCTTCAATCCTTTAAATTGGAATGTCAAGGAAGCAAGATTCACCATTGTAGCTTCAAT
63 CGTTGTGGCTTCAAT-CTTTAAATTGCAATGTCGA-GAAGCAAGATTCACCGTTGTAGCTTCAAT
* *
50247023 CTATTCCGCTGCACCGCTTGAGAAGTAAGATTCGCCGTTGTGGCTTCAGTCCTTTAAATT
126 CTGTTCCGCTGCACCGCTTGAGAAGTAAGATTCGCCGTTGTGGCTTCAATCCTTTAAATT
50247083 ACAAACTATG
Statistics
Matches: 329, Mismatches: 52, Indels: 16
0.83 0.13 0.04
Matches are distributed among these distances:
196 2 0.01
197 4 0.01
200 318 0.97
201 5 0.02
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.32
Consensus pattern (196 bp):
GAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTACTGCAATATCGATGAAGTAAGATTCACCGT
TGTGGCTTCAATCTTTAAATTGCAATGTCGAGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTT
CCGCTGCACCGCTTGAGAAGTAAGATTCGCCGTTGTGGCTTCAATCCTTTAAATTGCAATATCAG
G
Found at i:50264826 original size:26 final size:27
Alignment explanation
Indices: 50264774--50264836 Score: 110
Period size: 26 Copynumber: 2.3 Consensus size: 27
50264764 AAAAAATAAC
50264774 CCAAAATATTATAATTTTTTTTTATTTA
1 CCAAAATATTATAA-TTTTTTTTATTTA
50264802 CCAAAATATTATAA-TTTTTTTATTTA
1 CCAAAATATTATAATTTTTTTTATTTA
50264828 CCAAAATAT
1 CCAAAATAT
50264837 ACAAAAAAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
26 21 0.60
28 14 0.40
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.51
Consensus pattern (27 bp):
CCAAAATATTATAATTTTTTTTATTTA
Found at i:50265005 original size:8 final size:8
Alignment explanation
Indices: 50264988--50265259 Score: 100
Period size: 10 Copynumber: 31.4 Consensus size: 8
50264978 GAATGAGAGG
50264988 GAAAGAAA
1 GAAAGAAA
*
50264996 GAAAGGAA
1 GAAAGAAA
50265004 GAAAGAAA
1 GAAAGAAA
*
50265012 GGAAGGGAAA
1 -GAA-AGAAA
50265022 GAAAGAAAA
1 GAAAG-AAA
*
50265031 GGAAAGGAGAG
1 -GAAA-GA-AA
50265042 GAAAGAAA
1 GAAAGAAA
50265050 G-AA-AAA
1 GAAAGAAA
*
50265056 GAAGGAAA
1 GAAAGAAA
50265064 GAAAAGGAAA
1 G-AAA-GAAA
50265074 TGAGAAGAAA
1 -GA-AAGAAA
*
50265084 -AAATAAA
1 GAAAGAAA
50265091 G-AA-AAA
1 GAAAGAAA
*
50265097 GAAGGAAA
1 GAAAGAAA
50265105 GAAAAGGAAA
1 G-AAA-GAAA
50265115 GGAGAAGAAA
1 -GA-AAGAAA
50265125 -AAAGAAA
1 GAAAGAAA
50265132 GAAA-AAGA
1 GAAAGAA-A
50265140 GGAAAGAAAA
1 -GAAAG-AAA
50265150 GGAAAGGAGAA
1 -GAAA-GA-AA
50265161 GAAA-AAA
1 GAAAGAAA
50265168 GAAAGAAA
1 GAAAGAAA
50265176 -AAGAGGAAA
1 GAA-A-GAAA
50265185 GAAAAGGAAA
1 G-AAA-GAAA
50265195 GGAGAAGAAA
1 -GA-AAGAAA
50265205 -AAAGAAA
1 GAAAGAAA
*
50265212 GAAAATGAAT
1 G-AAA-GAAA
50265222 GAAAGAAAA
1 GAAAG-AAA
50265231 TGAAAGGAGAA
1 -GAAA-GA-AA
50265242 GAGAA-AAA
1 GA-AAGAAA
50265250 -AAAGAAA
1 GAAAGAAA
50265257 GAA
1 GAA
50265260 GAAGAAGAGG
Statistics
Matches: 208, Mismatches: 13, Indels: 86
0.68 0.04 0.28
Matches are distributed among these distances:
6 10 0.05
7 37 0.18
8 42 0.20
9 32 0.15
10 64 0.31
11 23 0.11
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (8 bp):
GAAAGAAA
Found at i:50265023 original size:14 final size:14
Alignment explanation
Indices: 50264985--50265072 Score: 63
Period size: 14 Copynumber: 6.1 Consensus size: 14
50264975 GGAGAATGAG
*
50264985 AGGGAAAGAAAGAA
1 AGGGAAAGAAAGGA
50264999 AGGAAGAAAGAAAGGA
1 AGG--GAAAGAAAGGA
*
50265015 AGGGAAAGAAAGAA
1 AGGGAAAGAAAGGA
* *
50265029 AAGGAAAGGAGAGGA
1 AGGGAAA-GAAAGGA
* *
50265044 A-AGAAAGAAAAAGA
1 AGGGAAAG-AAAGGA
50265058 A-GGAAAGAAAAGGA
1 AGGGAAAG-AAAGGA
50265072 A
1 A
50265073 ATGAGAAGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
13 1 0.02
14 40 0.67
15 6 0.10
16 13 0.22
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (14 bp):
AGGGAAAGAAAGGA
Found at i:50265143 original size:40 final size:41
Alignment explanation
Indices: 50265022--50265263 Score: 370
Period size: 41 Copynumber: 6.0 Consensus size: 41
50265012 GGAAGGGAAA
*
50265022 GAAAGAAAAGGAAAGGAG-AG--GAAAGAAAGAAAAAGAAG
1 GAAAGAAAAGGAAAGGAGAAGAAAAAAGAAAGAAAAAGAAG
* *
50265060 GAAAGAAAAGGAAATGAGAAGAAAAAATAAAGAAAAAGAAG
1 GAAAGAAAAGGAAAGGAGAAGAAAAAAGAAAGAAAAAGAAG
50265101 GAAAGAAAAGGAAAGGAGAAGAAAAAAGAAAGAAAAAG-AG
1 GAAAGAAAAGGAAAGGAGAAGAAAAAAGAAAGAAAAAGAAG
50265141 GAAAGAAAAGGAAAGGAGAAGAAAAAAGAAAGAAAAAG-AG
1 GAAAGAAAAGGAAAGGAGAAGAAAAAAGAAAGAAAAAGAAG
* *
50265181 GAAAGAAAAGGAAAGGAGAAGAAAAAAGAAAGAAAATGAAT
1 GAAAGAAAAGGAAAGGAGAAGAAAAAAGAAAGAAAAAGAAG
*
50265222 GAAAGAAAATGAAAGGAGAAGAGAAAAA-AAAGAAAGAAGAAG
1 GAAAGAAAAGGAAAGGAGAAGA-AAAAAGAAAGAAA-AAGAAG
50265264 AAGAGGGAAG
Statistics
Matches: 188, Mismatches: 10, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
38 17 0.09
39 2 0.01
40 79 0.42
41 81 0.43
42 9 0.05
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (41 bp):
GAAAGAAAAGGAAAGGAGAAGAAAAAAGAAAGAAAAAGAAG
Found at i:50266038 original size:27 final size:27
Alignment explanation
Indices: 50266008--50266062 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
50265998 AAATAGGCTG
50266008 ATGGAGGGGAATAAAAAGGCAGCACCA
1 ATGGAGGGGAATAAAAAGGCAGCACCA
*
50266035 ATGGAGGGGAATAAAAAGGCGGCACCA
1 ATGGAGGGGAATAAAAAGGCAGCACCA
50266062 A
1 A
50266063 AATGTGGCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.15, G:0.35, T:0.07
Consensus pattern (27 bp):
ATGGAGGGGAATAAAAAGGCAGCACCA
Found at i:50270217 original size:40 final size:39
Alignment explanation
Indices: 50270105--50270217 Score: 97
Period size: 40 Copynumber: 2.8 Consensus size: 39
50270095 CCACTAATCC
* * *
50270105 TAATAACTAAC-ACAATAATATTAATAGTTTTATACTCAAAA
1 TAATAACTAACTAAAATAATAAT-ATAG-TTT-TACTAAAAA
*
50270146 TAAT-ACTAACTAAAATTATTAAT-TAGGGTTTTACTAAAAA
1 TAATAACTAACTAAAA-TAATAATATA--GTTTTACTAAAAA
*
50270186 TAATAACTAACTATAATAATAATACTAGTTTT
1 TAATAACTAACTAAAATAATAATA-TAGTTTT
50270218 TTAGTAACTA
Statistics
Matches: 59, Mismatches: 6, Indels: 15
0.74 0.08 0.19
Matches are distributed among these distances:
40 31 0.53
41 20 0.34
42 8 0.14
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.37
Consensus pattern (39 bp):
TAATAACTAACTAAAATAATAATATAGTTTTACTAAAAA
Found at i:50270349 original size:3 final size:3
Alignment explanation
Indices: 50270331--50270369 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
50270321 AATAACATCT
* *
50270331 TAA TAC TAA CAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
50270370 CTAAAACTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:50270547 original size:12 final size:12
Alignment explanation
Indices: 50270532--50270567 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
50270522 CTCTTCTTCC
*
50270532 TCTTCTTTTTCT
1 TCTTATTTTTCT
50270544 TCTTATTTTTCT
1 TCTTATTTTTCT
50270556 TCTTATTTTTCT
1 TCTTATTTTTCT
50270568 CCCTTCAGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (12 bp):
TCTTATTTTTCT
Found at i:50270756 original size:26 final size:27
Alignment explanation
Indices: 50270702--50270764 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 27
50270692 TATTTTTTGG
** *
50270702 AATATTTTGATAAATAAAAAAAATTAT
1 AATATTTTGGCAAATAAAAAAAATAAT
*
50270729 AATATTTTGGCAAAT-AAAAAAGTAAT
1 AATATTTTGGCAAATAAAAAAAATAAT
50270755 AATATTTTGG
1 AATATTTTGG
50270765 TTATTTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 19 0.59
27 13 0.41
ACGTcount: A:0.52, C:0.02, G:0.10, T:0.37
Consensus pattern (27 bp):
AATATTTTGGCAAATAAAAAAAATAAT
Found at i:50271835 original size:16 final size:16
Alignment explanation
Indices: 50271797--50271833 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
50271787 TGTTCTTTTA
50271797 TTGTTTTCATTTGCTT
1 TTGTTTTCATTTGCTT
*
50271813 TTGTTTTCCTTTG-TT
1 TTGTTTTCATTTGCTT
50271828 TT-TTTT
1 TTGTTTT
50271834 TTTGGAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 4 0.20
15 4 0.20
16 12 0.60
ACGTcount: A:0.03, C:0.11, G:0.11, T:0.76
Consensus pattern (16 bp):
TTGTTTTCATTTGCTT
Found at i:50281317 original size:42 final size:41
Alignment explanation
Indices: 50281267--50281416 Score: 169
Period size: 42 Copynumber: 3.6 Consensus size: 41
50281257 TAGTTTTCGT
* * *
50281267 TTAGCTCTTATGAGCTTCTGTTCAACTCATATGAGTTTTTAA
1 TTAGCTCTTATGAGCTTCTGTTCAACCCTTATGGGTTTTT-A
* *
50281309 TTAGCTCTT-TCGAGCTTCTGTTTAACCCTTCTGGGTTTTTA
1 TTAGCTCTTAT-GAGCTTCTGTTCAACCCTTATGGGTTTTTA
*
50281350 TTCAACTCTTATGAGCTTCTGTTCAACCCTTATGGGTTTCTGT-
1 TT-AGCTCTTATGAGCTTCTGTTCAACCCTTATGGGTTT-T-TA
* *
50281393 TTAGCACTTATGTGCTTCTGTTCA
1 TTAGCTCTTATGAGCTTCTGTTCA
50281417 GCCTTCGAGC
Statistics
Matches: 92, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
41 4 0.04
42 83 0.90
43 4 0.04
44 1 0.01
ACGTcount: A:0.17, C:0.21, G:0.16, T:0.46
Consensus pattern (41 bp):
TTAGCTCTTATGAGCTTCTGTTCAACCCTTATGGGTTTTTA
Found at i:50281376 original size:21 final size:21
Alignment explanation
Indices: 50281271--50281416 Score: 89
Period size: 21 Copynumber: 7.0 Consensus size: 21
50281261 TTTCGTTTAG
50281271 CTCTTATGAGCTTCTGTTCAA
1 CTCTTATGAGCTTCTGTTCAA
* * * * *
50281292 CTCATATGAGTTTTTAATT-AG
1 CTCTTATGAGCTTCT-GTTCAA
*
50281313 CTCTT-TCGAGCTTCTGTTTAA
1 CTCTTAT-GAGCTTCTGTTCAA
* * * * * *
50281334 CCCTTCTGGGTTTTTATTCAA
1 CTCTTATGAGCTTCTGTTCAA
50281355 CTCTTATGAGCTTCTGTTCAA
1 CTCTTATGAGCTTCTGTTCAA
* * * * *
50281376 CCCTTATGGGTTTCTGTTTAG
1 CTCTTATGAGCTTCTGTTCAA
* *
50281397 CACTTATGTGCTTCTGTTCA
1 CTCTTATGAGCTTCTGTTCA
50281417 GCCTTCGAGC
Statistics
Matches: 90, Mismatches: 31, Indels: 8
0.70 0.24 0.06
Matches are distributed among these distances:
20 3 0.03
21 84 0.93
22 3 0.03
ACGTcount: A:0.17, C:0.21, G:0.16, T:0.46
Consensus pattern (21 bp):
CTCTTATGAGCTTCTGTTCAA
Found at i:50296772 original size:23 final size:23
Alignment explanation
Indices: 50296706--50296790 Score: 111
Period size: 23 Copynumber: 3.7 Consensus size: 23
50296696 AAAAAACGAG
* *
50296706 TGAACAGGAAATATTCTCTAGCA
1 TGAACAGTAAATATTCTCTGGCA
50296729 TGAACAGTAGAA-A-TCTCTGGCA
1 TGAACAGTA-AATATTCTCTGGCA
50296751 TGAACAGTAAATATTCTCTGGCA
1 TGAACAGTAAATATTCTCTGGCA
* *
50296774 TGAATAGTGAATATTCT
1 TGAACAGTAAATATTCT
50296791 TTGTAGTTTG
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
21 2 0.04
22 18 0.33
23 33 0.60
24 2 0.04
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.29
Consensus pattern (23 bp):
TGAACAGTAAATATTCTCTGGCA
Found at i:50297055 original size:13 final size:13
Alignment explanation
Indices: 50297037--50297067 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
50297027 AAAAATTTAA
50297037 CAAATTTTAATCT
1 CAAATTTTAATCT
*
50297050 CAAATTTTAATTT
1 CAAATTTTAATCT
50297063 CAAAT
1 CAAAT
50297068 ATCAAATTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (13 bp):
CAAATTTTAATCT
Found at i:50302474 original size:8 final size:8
Alignment explanation
Indices: 50302457--50302512 Score: 103
Period size: 8 Copynumber: 6.9 Consensus size: 8
50302447 TATTTCATGT
50302457 TTTTTAAAA
1 TTTTT-AAA
50302466 TTTTTAAA
1 TTTTTAAA
50302474 TTTTTAAA
1 TTTTTAAA
50302482 TTTTTAAA
1 TTTTTAAA
50302490 TTTTTAAA
1 TTTTTAAA
50302498 TTTTTAAA
1 TTTTTAAA
50302506 TTTTTAA
1 TTTTTAA
50302513 TTAATTTTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
8 42 0.89
9 5 0.11
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TTTTTAAA
Found at i:50302990 original size:22 final size:23
Alignment explanation
Indices: 50302959--50303017 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
50302949 CATTGTAGAG
*
50302959 AATCTCCATTGTTC-TTGCAAAA
1 AATCTTCATTGTTCATTGCAAAA
*
50302981 AATCTTCATTGTTCATTGCAAAG
1 AATCTTCATTGTTCATTGCAAAA
*
50303004 AATATTCATTGTTC
1 AATCTTCATTGTTC
50303018 GTCTTTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
22 13 0.39
23 20 0.61
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.41
Consensus pattern (23 bp):
AATCTTCATTGTTCATTGCAAAA
Found at i:50304345 original size:20 final size:20
Alignment explanation
Indices: 50304313--50304375 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
50304303 AAAGCACTAT
*
50304313 AGTGCAAACAGGGACACCAA
1 AGTGCAAACAGGGGCACCAA
* * *
50304333 AGTGTAAATAGGGGCACCGA
1 AGTGCAAACAGGGGCACCAA
50304353 AGTGCAAACAGGGGCACCAA
1 AGTGCAAACAGGGGCACCAA
50304373 AGT
1 AGT
50304376 ACAATCCCGT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.40, C:0.21, G:0.30, T:0.10
Consensus pattern (20 bp):
AGTGCAAACAGGGGCACCAA
Found at i:50311395 original size:399 final size:398
Alignment explanation
Indices: 50310085--50311518 Score: 1734
Period size: 405 Copynumber: 3.6 Consensus size: 398
50310075 CTACTCCTGA
* * * * *
50310085 GGAATGTGGCACCTCAGCTAGATTAGATTCGGGGCCTTGTTGAAAAGCACTCTGTATATCCTCCA
1 GGAATGTGGCAGCTCAGCTAGATTAGGTTCTGGGCCTTGTTG-AAAGCATTATGTATATCCTCCA
* * * * *
50310150 GAGATCTCGCCTCAACAACTGGTAAATCCGAATTGGTATCTGCATCACCCTGCTGATTCTCAATC
65 GAGATCTCGCCTCAACAACAGGTAAATCCGAAGTGGTATCTGCATGATCCGGCTGATTCTCAATC
* * * * *
50310215 ATGCTTGGAAGAATTATTTCCTCAACATCAACTCCTTCATGAAATTGCTTAAAAGCCAAATCGAT
130 ATACTTGGAAGAATTACTTCCTCAACATCCACTCCTTCATGAAGTTGCTTAAAAGCCAAATCAAT
* * * * *
50310280 GTCTTCCAA-TGATCTTGCTTCAAGAACAGGCAGCTCTGCATTGGTCTCCATCTTCATTTCCTCT
195 ATCTT-CAACCGATCTTGCTTCAAGAACAGGCAGCTCCGCATTGGTCTCCATCTTCAATTCTTCT
* * * * * * * *
50310344 GTTTCTTCATGGTCATTTTTTGGTTCACCGGCAGAATTCTGACTATTTTCTTGAATGCCAGAGAC
259 ATTTCTTCAT--TCATTTTTTGGTTCACCAGCAGCATTCTCACAATCTTCTTCAATACCAGAGAC
* ** ** * * *
50310409 GGCACAACCAACTTCAATCTCTTTATTAGAAACCACATCATGCTGCTCCATTTCTGATGATCCAT
322 AGCATTACCAACTTCAATCTC-TTAGAAGAAACCACATCATGCTGCTCTACTTCTGATGATCCAA
*
50310474 TTCTCAAGTCTGT
386 TCCTCAAGTCTGT
* * * * *
50310487 GGAAAGTGGCAGCTCGGCCAGATTAGGTTCTGGACCTTTTTGGAAAGCATTATGTATATCCTCCA
1 GGAATGTGGCAGCTCAGCTAGATTAGGTTCTGGGCCTTGTT-GAAAGCATTATGTATATCCTCCA
* * * ** * * * *
50310552 GAGATCTTGCCTCGACAACAGGTAACTTTGAAGTGGAATCTTCATGATCCAGCTGATCCTCAATC
65 GAGATCTCGCCTCAACAACAGGTAAATCCGAAGTGGTATCTGCATGATCCGGCTGATTCTCAATC
* * * * *
50310617 ATGCTTGCAAGAACTACTTCCTCAACATCTACACCTTCATGAAGTTGCTTAAAAGCCAAATCAAT
130 ATACTTGGAAGAATTACTTCCTCAACATCCACTCCTTCATGAAGTTGCTTAAAAGCCAAATCAAT
* *
50310682 ATCTTCAACCGATCTTGCATCCAGAACAGGCAGCTCCGCATTGGTCTCCATCTTCAATTCTTCTA
195 ATCTTCAACCGATCTTGCTTCAAGAACAGGCAGCTCCGCATTGGTCTCCATCTTCAATTCTTCTA
* *
50310747 TTTCTTCATATTCTTTTTTTGGTTCACCAGCAGCAACATTCTCA-AGATGTTCTTCAA-AGCCAG
260 TTTCTTC--ATTCATTTTTTGGTTCACCAGCAG---CATTCTCACA-ATCTTCTTCAATA-CCAG
* * *
50310810 AGACTGC-TTGGCCAACTTCAATCTCATTAGAAGAAACCACATCATGCAGCTCTACTTCTGATGA
318 AGACAGCATT-ACCAACTTCAATCTC-TTAGAAGAAACCACATCATGCTGCTCTACTTCTGATGA
50310874 TCC-ATGCCTCAAGTCTGCT
381 TCCAAT-CCTCAAGTCTG-T
* * * * * *
50310893 -GAATGCGGCAGCTCAGCTGGATTAGGTTCCGGTCCTTTTATGAAAGCATTATGTATATCATCCA
1 GGAATGTGGCAGCTCAGCTAGATTAGGTTCTGGGCCTTGT-TGAAAGCATTATGTATATCCTCCA
* * * * * *
50310957 GAGATCTTGCCTCGACAACAGG-AAATTCTGAAGTGGTATCTGTATGATCTGGCAGATTCTCAAT
65 GAGATCTCGCCTCAACAACAGGTAAA-TCCGAAGTGGTATCTGCATGATCCGGCTGATTCTCAAT
50311021 CATACTTGGAAGAATTACTTCCTCAACATCCACTCCTTCATGAAGTTGCTTAAAAGCCAAATCAA
129 CATACTTGGAAGAATTACTTCCTCAACATCCACTCCTTCATGAAGTTGCTTAAAAGCCAAATCAA
* * * ** * *
50311086 TATCTTCAACCGATCTTGCTTCAAGAACAGGTAGCTCCACATTGGTTTCTGTCTTTAGTTCTTCT
194 TATCTTCAACCGATCTTGCTTCAAGAACAGGCAGCTCCGCATTGGTCTCCATCTTCAATTCTTCT
* * *
50311151 ATTTCTTC-TTCATTTTTGGGTTCACCAGCAGCATTATCACAACCTTCTTCAATACCAGAGACAG
259 ATTTCTTCATTCATTTTTTGGTTCACCAGCAGCATTCTCACAATCTTCTTCAATACCAGAGACAG
* * * *
50311215 CATTACTAACTTCGATCTCTTCAGAAGAAACAACAACATGCTGCTCTACTTCTGATGATCCAATC
324 CATTACCAACTTCAATCTCTT-AGAAGAAACCACATCATGCTGCTCTACTTCTGATGATCCAATC
50311280 CTCAAGTCTGT
388 CTCAAGTCTGT
* *
50311291 GGAATGTGGCAGCTGAGCTAGATTAGGTTCTGGGTCTTGTTGCAAAGCATTATGTATATCCTCCA
1 GGAATGTGGCAGCTCAGCTAGATTAGGTTCTGGGCCTTGTTG-AAAGCATTATGTATATCCTCCA
*
50311356 GAGATCTCGCCTCAACAACAGGTAAATCCG-AGTTGGTATCTGCATGATCCGGCTGATTCTTAAT
65 GAGATCTCGCCTCAACAACAGGTAAATCCGAAG-TGGTATCTGCATGATCCGGCTGATTCTCAAT
* *
50311420 CATACTTGGAAGAATTACTTCCTCAAAATCCACTCCTTCATGAAGTTGCTTAAATGCCAAATCAA
129 CATACTTGGAAGAATTACTTCCTCAACATCCACTCCTTCATGAAGTTGCTTAAAAGCCAAATCAA
* * *
50311485 TATCTTCTACTGATCTTGTTTCAAGAACAGGCAG
194 TATCTTCAACCGATCTTGCTTCAAGAACAGGCAG
50311519 TCCCACACTG
Statistics
Matches: 887, Mismatches: 122, Indels: 49
0.84 0.12 0.05
Matches are distributed among these distances:
398 7 0.01
399 281 0.32
400 9 0.01
401 3 0.00
402 264 0.30
403 1 0.00
404 5 0.01
405 315 0.36
406 2 0.00
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.32
Consensus pattern (398 bp):
GGAATGTGGCAGCTCAGCTAGATTAGGTTCTGGGCCTTGTTGAAAGCATTATGTATATCCTCCAG
AGATCTCGCCTCAACAACAGGTAAATCCGAAGTGGTATCTGCATGATCCGGCTGATTCTCAATCA
TACTTGGAAGAATTACTTCCTCAACATCCACTCCTTCATGAAGTTGCTTAAAAGCCAAATCAATA
TCTTCAACCGATCTTGCTTCAAGAACAGGCAGCTCCGCATTGGTCTCCATCTTCAATTCTTCTAT
TTCTTCATTCATTTTTTGGTTCACCAGCAGCATTCTCACAATCTTCTTCAATACCAGAGACAGCA
TTACCAACTTCAATCTCTTAGAAGAAACCACATCATGCTGCTCTACTTCTGATGATCCAATCCTC
AAGTCTGT
Found at i:50316863 original size:30 final size:30
Alignment explanation
Indices: 50316827--50316908 Score: 119
Period size: 30 Copynumber: 2.7 Consensus size: 30
50316817 GATCAATAAA
* *
50316827 TCTTTTCCTAAAATATGTGTTGTGAATCAT
1 TCTTTTCTTAAAATATGTGTTATGAATCAT
**
50316857 TCTTTTCTTAACCTATGTGTTATGAATCAT
1 TCTTTTCTTAAAATATGTGTTATGAATCAT
50316887 TCTTTTCTTAAGAATATGTGTT
1 TCTTTTCTTAA-AATATGTGTT
50316909 TACTCAATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
30 37 0.82
31 8 0.18
ACGTcount: A:0.24, C:0.13, G:0.12, T:0.50
Consensus pattern (30 bp):
TCTTTTCTTAAAATATGTGTTATGAATCAT
Found at i:50321130 original size:26 final size:27
Alignment explanation
Indices: 50321093--50321143 Score: 79
Period size: 26 Copynumber: 1.9 Consensus size: 27
50321083 AAATATAATA
50321093 TGAGTGCTAGAAT-TATA-ATTTTTTT
1 TGAGTGCTAGAATATATATATTTTTTT
50321118 TGAGTGTCTAGAATATATATATTTTT
1 TGAGTG-CTAGAATATATATATTTTT
50321144 ATAATTAGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 6 0.26
26 7 0.30
27 4 0.17
28 6 0.26
ACGTcount: A:0.29, C:0.04, G:0.16, T:0.51
Consensus pattern (27 bp):
TGAGTGCTAGAATATATATATTTTTTT
Found at i:50321670 original size:40 final size:40
Alignment explanation
Indices: 50321625--50321759 Score: 116
Period size: 40 Copynumber: 3.4 Consensus size: 40
50321615 GTTTGGAACA
*
50321625 AAAGCGCCACAAAAAATCGAGCATTAGCGGCGATTTATCC
1 AAAGCGCCACAAAAAATAGAGCATTAGCGGCGATTTATCC
* * **
50321665 AAAGCGCCGCTAAAGGTAGAGC-TTCAGCGGCGA-TTATCC
1 AAAGCGCCACAAAAAATAGAGCATT-AGCGGCGATTTATCC
* * * * * *
50321704 GGAAGCGCCGCTAAAAATAG-GAATTAGCGGCGTTTTA-CAT
1 -AAAGCGCCACAAAAAATAGAGCATTAGCGGCGATTTATC-C
50321744 AAAGCGCCACAAAAAA
1 AAAGCGCCACAAAAAA
50321760 CCTAAGATCA
Statistics
Matches: 76, Mismatches: 14, Indels: 11
0.75 0.14 0.11
Matches are distributed among these distances:
39 30 0.39
40 46 0.61
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (40 bp):
AAAGCGCCACAAAAAATAGAGCATTAGCGGCGATTTATCC
Found at i:50322019 original size:41 final size:41
Alignment explanation
Indices: 50321798--50322117 Score: 326
Period size: 41 Copynumber: 7.8 Consensus size: 41
50321788 TTTTTTAAAC
* *
50321798 CTTTAGCGGCGTTTTTGTGTAAGCGCCGCTAATGCTCGGAT
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGAT
* *
50321839 CTTT-GACGGCGTTTTTCTCTAGGCGCCGCTAATGCTC-GAGT
1 CTTTAG-CGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGA-T
** * * *
50321880 CTTTAGCGGCGTTTTCGTGTAGGCACCGCTAATGCTCGGAT
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGAT
* * *
50321921 CTTTAGCAGCGTTTTTGTCTAGGCGCCGCTAATGCTCGGAT
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGAT
*
50321962 CTTTAGCGGCGTTTTTATAC-AAGCGCCGCTAATACTCGGAT
1 CTTTAGCGGCGTTTTTAT-CTAAGCGCCGCTAATGCTCGGAT
* * * * *
50322003 CTTTAGCGGCGTTTTTAACTGAGCGCCACTAATTCTCTTG-T
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTC-GGAT
* * * ** *
50322044 CTTCAGCGACGTTTGTATCTAAGCGCCGCTAATG-TATTGAC
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCT-CGGAT
* *
50322085 CTTTAGCGGCGTTTTTACCGAAGCGCCGCTAAT
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAAT
50322118 AGTAACAAAA
Statistics
Matches: 236, Mismatches: 34, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
40 7 0.03
41 224 0.95
42 5 0.02
ACGTcount: A:0.17, C:0.25, G:0.25, T:0.33
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGAT
Found at i:50326991 original size:23 final size:23
Alignment explanation
Indices: 50326960--50327006 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
50326950 TATTATACAT
50326960 AACTGACAACTTACATAACTTAC
1 AACTGACAACTTACATAACTTAC
*
50326983 AACTTACAACTTACATAACTTAC
1 AACTGACAACTTACATAACTTAC
50327006 A
1 A
50327007 TTTTTTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.26, G:0.02, T:0.28
Consensus pattern (23 bp):
AACTGACAACTTACATAACTTAC
Found at i:50327002 original size:16 final size:16
Alignment explanation
Indices: 50326955--50327007 Score: 65
Period size: 16 Copynumber: 3.3 Consensus size: 16
50326945 ATTAATATTA
*
50326955 TACATAACTGACAACT
1 TACATAACTTACAACT
50326971 TACATAACTTACAACT
1 TACATAACTTACAACT
50326987 TAC--AACTTACATAACT
1 TACATAACTTAC--AACT
50327003 TACAT
1 TACAT
50327008 TTTTTTAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
14 7 0.22
16 25 0.78
ACGTcount: A:0.43, C:0.25, G:0.02, T:0.30
Consensus pattern (16 bp):
TACATAACTTACAACT
Found at i:50327083 original size:34 final size:34
Alignment explanation
Indices: 50326927--50327103 Score: 133
Period size: 34 Copynumber: 5.4 Consensus size: 34
50326917 ACCCATCTCT
50326927 AATTACATAACTTAGTTAATTAATATTATACATA
1 AATTACATAACTTAGTTAATTAATATTATACATA
* * ** *
50326961 ACTGAC--AACTTACATAACTTACA-ACT-TAC--A
1 AATTACATAACTTAGTTAA-TTA-ATATTATACATA
* * ** * *
50326991 ACTTACATAACTTACATTTTTTTA-ATTATTCATA
1 AATTACATAACTTA-GTTAATTAATATTATACATA
*
50327025 AATCACATAAC--A--TACATTAATATTATACATA
1 AATTACATAACTTAGTTA-ATTAATATTATACATA
50327056 AATTACATAACTTAGTTAATTAATATTATACATA
1 AATTACATAACTTAGTTAATTAATATTATACATA
50327090 AATTACATAACTTA
1 AATTACATAACTTA
50327104 ATTTTATGTT
Statistics
Matches: 109, Mismatches: 20, Indels: 28
0.69 0.13 0.18
Matches are distributed among these distances:
29 1 0.01
30 9 0.08
31 22 0.20
32 23 0.21
33 7 0.06
34 45 0.41
35 2 0.02
ACGTcount: A:0.45, C:0.15, G:0.02, T:0.38
Consensus pattern (34 bp):
AATTACATAACTTAGTTAATTAATATTATACATA
Found at i:50327088 original size:25 final size:25
Alignment explanation
Indices: 50327059--50327239 Score: 89
Period size: 26 Copynumber: 6.8 Consensus size: 25
50327049 ATACATAAAT
*
50327059 TACATAACTTAGTTAATTAATATTA
1 TACATAACTTACTTAATTAATATTA
* * *
50327084 TACATAAATTACATAACTTAATTTTA
1 TACATAACTTACTTAA-TTAATATTA
* * *
50327110 TGTTCTTATACATAACTTACATTAATATTA
1 --TACATA-AC-TTACTTA-ATTAATATTA
50327140 TACATAACTTAC---ATTAATATTA
1 TACATAACTTACTTAATTAATATTA
* * *
50327162 TACATAAATTACATAACTTAATTTTA
1 TACATAACTTACTTAA-TTAATATTA
** *
50327188 TGTTATTATACATAACTTACATTAATATTA
1 T-ACA-TA-AC-TTACTTA-ATTAATATTA
* *
50327218 TACATAAATTACATAACTTAAT
1 TACATAACTTACTTAA-TTAAT
50327240 TAATTAATAT
Statistics
Matches: 114, Mismatches: 26, Indels: 31
0.67 0.15 0.18
Matches are distributed among these distances:
22 21 0.18
25 15 0.13
26 30 0.26
27 4 0.04
28 12 0.11
29 3 0.03
30 27 0.24
31 2 0.02
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.43
Consensus pattern (25 bp):
TACATAACTTACTTAATTAATATTA
Found at i:50327119 original size:34 final size:33
Alignment explanation
Indices: 50326993--50327333 Score: 159
Period size: 34 Copynumber: 10.4 Consensus size: 33
50326983 AACTTACAAC
*
50326993 TTACATAACTTACATTTT-TTTAATTATTCATAAA
1 TTACATAACTTA-ATTTTATTT-ATTATACATAAA
* * *
50327027 TCACATAACATACA--TTA-ATATTATACATAAA
1 TTACATAACTTA-ATTTTATTTATTATACATAAA
* *
50327058 TTACATAACTTAGTTAATTA-ATATTATACATAAA
1 TTACATAACTTAATT--TTATTTATTATACATAAA
* *
50327092 TTACATAACTTAATTTTATGTTCTTATACATAAC
1 TTACATAACTTAATTTTAT-TTATTATACATAAA
* *
50327126 TTACATTAATATTATACATAACTTACATTAATATTATACATAAA
1 TTACA-T-A-ACT-TA-AT---TT-TATT--TATTATACATAAA
*
50327170 TTACATAACTTAATTTTATGTTATTATACATAAC
1 TTACATAACTTAATTTTAT-TTATTATACATAAA
50327204 TTAC---A-TT-A----A--TATTATACATAAA
1 TTACATAACTTAATTTTATTTATTATACATAAA
* * *
50327226 TTACATAACTTAA--TTAATTAATATACATAAG
1 TTACATAACTTAATTTTATTTATTATACATAAA
* *
50327257 TTACATAACTTACA--TTA-ATATGATACATAAA
1 TTACATAACTTA-ATTTTATTTATTATACATAAA
* * **
50327288 TTACATAACTTAGTTAATTA-ATATTATACATATG
1 TTACATAACTTAATT--TTATTTATTATACATAAA
50327322 TTACATAACTTA
1 TTACATAACTTA
50327334 CATTAATATG
Statistics
Matches: 245, Mismatches: 29, Indels: 66
0.72 0.09 0.19
Matches are distributed among these distances:
22 16 0.07
25 2 0.01
26 2 0.01
27 1 0.00
29 2 0.01
30 2 0.01
31 67 0.27
32 10 0.04
34 101 0.41
35 3 0.01
36 4 0.02
37 2 0.01
38 2 0.01
39 4 0.02
40 2 0.01
41 2 0.01
42 4 0.02
43 3 0.01
44 16 0.07
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.42
Consensus pattern (33 bp):
TTACATAACTTAATTTTATTTATTATACATAAA
Found at i:50327143 original size:22 final size:22
Alignment explanation
Indices: 50327115--50327175 Score: 113
Period size: 22 Copynumber: 2.8 Consensus size: 22
50327105 TTTTATGTTC
50327115 TTATACATAACTTACATTAATA
1 TTATACATAACTTACATTAATA
50327137 TTATACATAACTTACATTAATA
1 TTATACATAACTTACATTAATA
*
50327159 TTATACATAAATTACAT
1 TTATACATAACTTACAT
50327176 AACTTAATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (22 bp):
TTATACATAACTTACATTAATA
Found at i:50327169 original size:78 final size:78
Alignment explanation
Indices: 50327074--50327231 Score: 298
Period size: 78 Copynumber: 2.0 Consensus size: 78
50327064 AACTTAGTTA
*
50327074 ATTAATATTATACATAAATTACATAACTTAATTTTATGTTCTTATACATAACTTACATTAATATT
1 ATTAATATTATACATAAATTACATAACTTAATTTTATGTTATTATACATAACTTACATTAATATT
*
50327139 ATACATAACTTAC
66 ATACATAAATTAC
50327152 ATTAATATTATACATAAATTACATAACTTAATTTTATGTTATTATACATAACTTACATTAATATT
1 ATTAATATTATACATAAATTACATAACTTAATTTTATGTTATTATACATAACTTACATTAATATT
50327217 ATACATAAATTAC
66 ATACATAAATTAC
50327230 AT
1 AT
50327232 AACTTAATTA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
78 78 1.00
ACGTcount: A:0.44, C:0.11, G:0.01, T:0.44
Consensus pattern (78 bp):
ATTAATATTATACATAAATTACATAACTTAATTTTATGTTATTATACATAACTTACATTAATATT
ATACATAAATTAC
Found at i:50327216 original size:22 final size:22
Alignment explanation
Indices: 50327191--50327293 Score: 76
Period size: 22 Copynumber: 4.9 Consensus size: 22
50327181 AATTTTATGT
*
50327191 TATTATACATAACTTACATTAA
1 TATTATACATAAATTACATTAA
50327213 TATTATACATAAATTACA-T-A
1 TATTATACATAAATTACATTAA
* *
50327233 -ACT-TA-ATTAATTA-ATATACA
1 TATTATACATAAATTACAT-TA-A
* *
50327253 TAAGT-TACATAACTTACATTAA
1 T-ATTATACATAAATTACATTAA
*
50327275 TATGATACATAAATTACAT
1 TATTATACATAAATTACAT
50327294 AACTTAGTTA
Statistics
Matches: 63, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
16 1 0.02
17 7 0.11
18 3 0.05
19 2 0.03
20 2 0.03
21 2 0.03
22 36 0.57
23 8 0.13
24 2 0.03
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.39
Consensus pattern (22 bp):
TATTATACATAAATTACATTAA
Found at i:50327269 original size:62 final size:65
Alignment explanation
Indices: 50327196--50327343 Score: 248
Period size: 62 Copynumber: 2.3 Consensus size: 65
50327186 TATGTTATTA
*
50327196 TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAATT-A-A-TATACATAAGT
1 TACATAACTTACATTAATATGATACATAAATTACATAACTTAATTAATTAATATTATACATAAGT
* *
50327258 TACATAACTTACATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATATGT
1 TACATAACTTACATTAATATGATACATAAATTACATAACTTAATTAATTAATATTATACATAAGT
50327323 TACATAACTTACATTAATATG
1 TACATAACTTACATTAATATG
50327344 NNNNNNNNNN
Statistics
Matches: 80, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
62 47 0.59
63 1 0.01
64 1 0.01
65 31 0.39
ACGTcount: A:0.46, C:0.11, G:0.03, T:0.39
Consensus pattern (65 bp):
TACATAACTTACATTAATATGATACATAAATTACATAACTTAATTAATTAATATTATACATAAGT
Found at i:50327327 original size:56 final size:56
Alignment explanation
Indices: 50327029--50327319 Score: 315
Period size: 56 Copynumber: 5.1 Consensus size: 56
50327019 TTCATAAATC
* *
50327029 ACATAACATACATTAATATTATACATAAATTACATAACTTAGTTAATTAATATTAT
1 ACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTAT
* * ** *** *
50327085 ACATAAATTACA-TAACTTAATTTTATGTTCTTATACATAACTT-A--CATTAATATTAT
1 ACATAACTTACATTAA--T-ATTATACATAAAT-TACATAACTTAATTAATTAATATTAT
*
50327141 ACATAACTTACATTAATATTATACATAAATTACATAACTTAATT--TTATGTTATTAT
1 ACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAATTA--ATATTAT
50327197 ACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAATTAATATACATAAGTT
1 ACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAATTAATAT---T-A--T
* *
50327259 ACATAACTTACATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTAT
1 ACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTAT
50327315 ACATA
1 ACATA
50327320 TGTTACATAA
Statistics
Matches: 196, Mismatches: 21, Indels: 36
0.77 0.08 0.14
Matches are distributed among these distances:
53 10 0.05
54 11 0.06
55 4 0.02
56 91 0.46
57 4 0.02
58 11 0.06
59 12 0.06
60 1 0.01
62 52 0.27
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.41
Consensus pattern (56 bp):
ACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTAT
Found at i:50333307 original size:66 final size:66
Alignment explanation
Indices: 50333146--50333316 Score: 220
Period size: 66 Copynumber: 2.6 Consensus size: 66
50333136 AGCAAATTAC
*
50333146 ACAACTTAAAGCGGATGCAACATCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGC
1 ACAACTTAAAGCAGATGCAACATCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGC
50333211 T
66 T
* * * *
50333212 ACAACTGAAAGCAGATGCATCAGCGAGAGAAGCTGAGGTTCAACGAAAG-TATGAAGAACTCCAG
1 ACAACTTAAAGCAGATGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAG
50333276 C-
65 CT
* ** * *
50333277 AGCAGCTTAAAGCAGATGCGGCATCAAGAGAAGCAGAGGT
1 A-CAACTTAAAGCAGATGCAACATCGAGAGAAGCTGAGGT
50333317 GGCAGCGAGA
Statistics
Matches: 91, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
65 1 0.01
66 86 0.95
67 4 0.04
ACGTcount: A:0.40, C:0.19, G:0.26, T:0.15
Consensus pattern (66 bp):
ACAACTTAAAGCAGATGCAACATCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGC
T
Found at i:50333320 original size:21 final size:21
Alignment explanation
Indices: 50333286--50333398 Score: 64
Period size: 21 Copynumber: 5.4 Consensus size: 21
50333276 CAGCAGCTTA
* *
50333286 AAGCAGATGCGGCATCAAGAG
1 AAGCAGAGGCGGCAGCAAGAG
* *
50333307 AAGCAGAGGTGGCAGCGAGAG
1 AAGCAGAGGCGGCAGCAAGAG
* * * * *
50333328 AAGTACAGGCTGCAGCGAGGG
1 AAGCAGAGGCGGCAGCAAGAG
* *** * *
50333349 AAGCAGATGCTAAAGCGAGGG
1 AAGCAGAGGCGGCAGCAAGAG
* * *
50333370 AAGCAGAGGCTGCAGCGAGGG
1 AAGCAGAGGCGGCAGCAAGAG
50333391 AAGCAGAG
1 AAGCAGAG
50333399 CAGCGTCAAA
Statistics
Matches: 75, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 75 1.00
ACGTcount: A:0.35, C:0.17, G:0.42, T:0.07
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCAAGAG
Found at i:50333352 original size:42 final size:41
Alignment explanation
Indices: 50333320--50333399 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 41
50333310 CAGAGGTGGC
*
50333320 AGCGAGAGAAGTACAGGCTGCAGCGAGGGAAGCAGATGCTAA
1 AGCGAGAGAAGCACAGGCTGCAGCGAGGGAAGCAGA-GCTAA
* *
50333362 AGCGAGGGAAGCAGAGGCTGCAGCGAGGGAAGCAGAGC
1 AGCGAGAGAAGCACAGGCTGCAGCGAGGGAAGCAGAGC
50333400 AGCGTCAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
41 2 0.06
42 33 0.94
ACGTcount: A:0.34, C:0.17, G:0.42, T:0.06
Consensus pattern (41 bp):
AGCGAGAGAAGCACAGGCTGCAGCGAGGGAAGCAGAGCTAA
Found at i:50333795 original size:43 final size:43
Alignment explanation
Indices: 50333748--50333978 Score: 216
Period size: 43 Copynumber: 5.2 Consensus size: 43
50333738 AGGTGTTGGC
* * * * *
50333748 CTTTAGTGGCATTTTTGGTCAAAGCGCCGCCAAAGATAAGGGT
1 CTTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
** * * **
50333791 CTTTAGCGGCGTTTGTGGAAAAAGTGCCACTAAAGATCATAGT
1 CTTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
* *
50333834 CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
* **
50333877 CTATT-GCGGCGTTTGAGGGGAAAGCGCCGCTAAAGATCAGGGT
1 CT-TTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
50333920 CTTAGTCTTCAGCGGCGTTTGT-G-CAAGATGCGCCGCTAAAGATCAGGGT
1 C----T-TT-AGCGGCGTTTGTGGTCAA-A-GCGCCGCTAAAGATCAGGGT
50333969 CTTTAGCGGC
1 CTTTAGCGGC
50333979 ACATTCATTA
Statistics
Matches: 152, Mismatches: 27, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
43 109 0.72
44 4 0.03
45 1 0.01
47 5 0.03
48 2 0.01
49 31 0.20
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
Found at i:50333853 original size:86 final size:87
Alignment explanation
Indices: 50333748--50333978 Score: 254
Period size: 86 Copynumber: 2.6 Consensus size: 87
50333738 AGGTGTTGGC
* * * * *
50333748 CTTTAGTGGCATTTTTGGTCAAAGCGCCGCCAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAA
1 CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGTCTTTAGCGGCGTTTGAGGAAAA
*
50333813 AGTGCCACTAAAGATCA-TAGT
66 AGCGCCACTAAAGATCAGTAGT
* **
50333834 CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGGTCTATT-GCGGCGTTTGAGGGGA
1 CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGTCT-TTAGCGGCGTTTGAGGAAA
*
50333898 AAGCGCCGCTAAAGATCAGGGTCTTAGT
65 AAGCGCCACTAAAGATCA--G---TAGT
* *
50333926 CTTCAGCGGCGTTTGT-G-CAAGATGCGCCGCTAAAGATCAGGGTCTTTAGCGGC
1 CTTTAGTGGCGTTTGTGGTCAA-A-GCGCCGCTAAAGATCAGGGTCTTTAGCGGC
50333979 ACATTCATTA
Statistics
Matches: 122, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
86 69 0.57
87 2 0.02
90 3 0.02
91 4 0.03
92 44 0.36
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (87 bp):
CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGTCTTTAGCGGCGTTTGAGGAAAA
AGCGCCACTAAAGATCAGTAGT
Found at i:50336569 original size:3 final size:3
Alignment explanation
Indices: 50336555--50336631 Score: 127
Period size: 3 Copynumber: 25.7 Consensus size: 3
50336545 GATTTAGTCC
* *
50336555 TAT TAG TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
50336603 TAT TAT TAT TAT TAT CAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
50336632 CCTACTTATT
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:50340161 original size:41 final size:40
Alignment explanation
Indices: 50340116--50340205 Score: 119
Period size: 40 Copynumber: 2.2 Consensus size: 40
50340106 AGCGGCACTT
50340116 TTAGCGGCGTTTGGACAAAAAACGCCAC-AAATAATCGAGCA
1 TTAGCGGCGTTT-GACAAAAAACGCCACAAAAT-ATCGAGCA
* * * *
50340157 TTAGCGGCATTTTACGAAAAACGCCGCAAAATATCGAGCA
1 TTAGCGGCGTTTGACAAAAAACGCCACAAAATATCGAGCA
50340197 TTAGCGGCG
1 TTAGCGGCG
50340206 CTACATAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
40 28 0.65
41 15 0.35
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (40 bp):
TTAGCGGCGTTTGACAAAAAACGCCACAAAATATCGAGCA
Found at i:50340256 original size:40 final size:41
Alignment explanation
Indices: 50340116--50340265 Score: 112
Period size: 40 Copynumber: 3.7 Consensus size: 41
50340106 AGCGGCACTT
* * * *
50340116 TTAGCGGCGTTTGGAC-AAAAAACGCCAC-AAATAATCGAGCA
1 TTAGCGGCGTTT-TACAAAAAAACGCCGCAAAAT-ACCAAGCA
* * * *
50340157 TTAGCGGCATTTTAC-GAAAAACGCCGCAAAATATCGAGCA
1 TTAGCGGCGTTTTACAAAAAAACGCCGCAAAATACCAAGCA
* ** * *
50340197 TTAGCGGCGCTACATAAAAAAACGCCGCTAAA-ACCAAGCA
1 TTAGCGGCGTTTTACAAAAAAACGCCGCAAAATACCAAGCA
* *
50340237 TTAGCAGCGTTTTAC-AAAAAGCGCCGCAA
1 TTAGCGGCGTTTTACAAAAAAACGCCGCAA
50340266 TAGAGTCACA
Statistics
Matches: 87, Mismatches: 20, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
39 12 0.14
40 46 0.53
41 29 0.33
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.17
Consensus pattern (41 bp):
TTAGCGGCGTTTTACAAAAAAACGCCGCAAAATACCAAGCA
Found at i:50340548 original size:114 final size:113
Alignment explanation
Indices: 50340245--50340589 Score: 546
Period size: 113 Copynumber: 3.0 Consensus size: 113
50340235 CATTAGCAGC
*
50340245 GTTTTACAAAAAGCGCCGCAATAGAGTCACACAGAACGACGCCGTTTTCATATATTTGGGAACAT
1 GTTTTACAAAAAGCGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAACAT
* *
50340310 TAGTGGCGGTTTTTCCCAAGCGCCGCTAAAACTCCGTTCTTCAGCGGT
66 TAGTGGCGGTTTTGCCCAAGCGCCGCTAATACTCCGTTCTTCAGCGGT
* * *
50340358 GTTTTATAAAAAGCGCCGCAATGGAGTAACACAGAACGACGCCGTTTTCATATGTTTGGGAACAT
1 GTTTTACAAAAAGCGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAACAT
* * *
50340423 TAGTGGCGGTTTTGCCCAAGCGCCACTAATACTTCATTCTTCAGCGGT
66 TAGTGGCGGTTTTGCCCAAGCGCCGCTAATACTCCGTTCTTCAGCGGT
*
50340471 GTTTTACAAAAAGCGTCGCAAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAACA
1 GTTTTACAAAAAGCGCCGC-AATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAACA
* * * *
50340536 CTAGTGGCGGTTTTTGCCCAAACGCCGCTAATAATCCGTTCTTCAGCGGC
65 TTAGTGGCGG-TTTTGCCCAAGCGCCGCTAATACTCCGTTCTTCAGCGGT
50340586 GTTT
1 GTTT
50340590 GGCGTTAAGC
Statistics
Matches: 210, Mismatches: 20, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
113 121 0.58
114 52 0.25
115 37 0.18
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (113 bp):
GTTTTACAAAAAGCGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAACAT
TAGTGGCGGTTTTGCCCAAGCGCCGCTAATACTCCGTTCTTCAGCGGT
Found at i:50343041 original size:16 final size:16
Alignment explanation
Indices: 50343017--50343047 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50343007 ATTTTCCCTA
50343017 TTCTAAAATCCCTAAG
1 TTCTAAAATCCCTAAG
*
50343033 TTCTGAAATCCCTAA
1 TTCTAAAATCCCTAA
50343048 CTCATAAACA
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:0.06, T:0.32
Consensus pattern (16 bp):
TTCTAAAATCCCTAAG
Found at i:50344245 original size:28 final size:28
Alignment explanation
Indices: 50344189--50344242 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 28
50344179 TAATAGATAA
50344189 TTTTATTTGTATTAACAATTTTTAAAAT
1 TTTTATTTGTATTAACAATTTTTAAAAT
50344217 TTTTA-TTGTATTAACAATTTTTAAAA
1 TTTTATTTGTATTAACAATTTTTAAAA
50344243 ATTACATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 21 0.81
28 5 0.19
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.56
Consensus pattern (28 bp):
TTTTATTTGTATTAACAATTTTTAAAAT
Found at i:50344257 original size:27 final size:27
Alignment explanation
Indices: 50344198--50344257 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
50344188 ATTTTATTTG
* ** *
50344198 TATTAACAATTTTTAAAATTTTTATTG
1 TATTAACAATTTTTAAAAATTACATTA
50344225 TATTAACAATTTTTAAAAATTACATTA
1 TATTAACAATTTTTAAAAATTACATTA
*
50344252 TTTTAA
1 TATTAA
50344258 TAAAAAAACA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.52
Consensus pattern (27 bp):
TATTAACAATTTTTAAAAATTACATTA
Done.