Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr4
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: 30015117
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1306243 characters in sequence are not A, C, G, or T
File 8 of 85
Found at i:2872394 original size:59 final size:59
Alignment explanation
Indices: 2872323--2872439 Score: 155
Period size: 59 Copynumber: 2.0 Consensus size: 59
2872313 AATAAAAAAA
* * * * * * *
2872323 TTATATTTTGACCCCTTAATTTTTTCAAATTTTGTTTTGACCCCTTAGATTTT-TTCAAT
1 TTATATTTTGACCCCTCAACTTCTTAAAATTATATTTTGACCCC-TAAATTTTCTTCAAT
2872382 TTATATTTTGACCCCTCAACTTCTTAAAATTATATTTTGACCCCTAAATTTTCTTCAA
1 TTATATTTTGACCCCTCAACTTCTTAAAATTATATTTTGACCCCTAAATTTTCTTCAA
2872440 ATTACACTTG
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
58 7 0.14
59 43 0.86
ACGTcount: A:0.26, C:0.20, G:0.05, T:0.50
Consensus pattern (59 bp):
TTATATTTTGACCCCTCAACTTCTTAAAATTATATTTTGACCCCTAAATTTTCTTCAAT
Found at i:2872443 original size:30 final size:29
Alignment explanation
Indices: 2872320--2872443 Score: 149
Period size: 29 Copynumber: 4.2 Consensus size: 29
2872310 AAAAATAAAA
*
2872320 AAATTATATTTTGACCCCTTAATTTTTTC
1 AAATTATATTTTGACCCCTAAATTTTTTC
* * *
2872349 AAATTTTGTTTTGACCCCTTAGATTTTTTC
1 AAATTATATTTTGACCCC-TAAATTTTTTC
* * * * *
2872379 AATTTATATTTTGACCCCTCAACTTCTTA
1 AAATTATATTTTGACCCCTAAATTTTTTC
2872408 AAATTATATTTTGACCCCTAAATTTTCTTC
1 AAATTATATTTTGACCCCTAAATTTT-TTC
2872438 AAATTA
1 AAATTA
2872444 CACTTGGCCC
Statistics
Matches: 76, Mismatches: 17, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
29 44 0.58
30 32 0.42
ACGTcount: A:0.28, C:0.19, G:0.05, T:0.48
Consensus pattern (29 bp):
AAATTATATTTTGACCCCTAAATTTTTTC
Found at i:2873921 original size:21 final size:21
Alignment explanation
Indices: 2873896--2873937 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
2873886 TAAAATTTCC
2873896 CGTG-TTTCAAAAAAATATATT
1 CGTGTTTTCAAAAAAAT-TATT
*
2873917 CGTGTTTTTAAAAAAATTATT
1 CGTGTTTTCAAAAAAATTATT
2873938 TCCGTATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (21 bp):
CGTGTTTTCAAAAAAATTATT
Found at i:2874052 original size:18 final size:18
Alignment explanation
Indices: 2874005--2874044 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
2873995 ACTTTTCGCT
*
2874005 TTTTCAAAAATGT-TCGTG
1 TTTTC-AAAATTTCTCGTG
2874023 TTTTCAAAATTTCTCGTG
1 TTTTCAAAATTTCTCGTG
2874041 TTTT
1 TTTT
2874045 AAATATTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.23, C:0.12, G:0.12, T:0.53
Consensus pattern (18 bp):
TTTTCAAAATTTCTCGTG
Found at i:2874053 original size:27 final size:26
Alignment explanation
Indices: 2874023--2874080 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
2874013 AATGTTCGTG
* *
2874023 TTTTCAAAATTTCTCGTGTTTTAAATA
1 TTTTCAAAATTTCTCGT-TTTCAAAAA
* **
2874050 TTTTCGACTTTTCTCGTTTTCAAAAA
1 TTTTCAAAATTTCTCGTTTTCAAAAA
2874076 TTTTC
1 TTTTC
2874081 GTGTTTTAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 12 0.46
27 14 0.54
ACGTcount: A:0.24, C:0.16, G:0.07, T:0.53
Consensus pattern (26 bp):
TTTTCAAAATTTCTCGTTTTCAAAAA
Found at i:2874070 original size:61 final size:62
Alignment explanation
Indices: 2873948--2874109 Score: 195
Period size: 61 Copynumber: 2.6 Consensus size: 62
2873938 TCCGTATTTC
* * * *
2873948 AAATTTTCATGTTTTCAAAAATTTCTCTTGTTTAAAAAAAAATTTCGACTTTTCGCTTTTTCAA
1 AAATTTTCGTGTTTTC-AAAATTTCTCGTGTTT-ATAAAAAATTTCGACTTTTCGCGTTTTCAA
* * * *
2874012 AAATGTTCGTGTTTTCAAAATTTCTCGTGTTT-TAAATATTTTCGACTTTTCTCGTTTTCAA
1 AAATTTTCGTGTTTTCAAAATTTCTCGTGTTTATAAAAAATTTCGACTTTTCGCGTTTTCAA
*
2874073 AAATTTTCGTGTTTT-AGAAATTT-TCGTGTTTCTAAAA
1 AAATTTTCGTGTTTTCA-AAATTTCTCGTGTTTATAAAA
2874110 TTCTTGTATT
Statistics
Matches: 86, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
60 9 0.10
61 48 0.56
63 15 0.17
64 14 0.16
ACGTcount: A:0.28, C:0.13, G:0.10, T:0.49
Consensus pattern (62 bp):
AAATTTTCGTGTTTTCAAAATTTCTCGTGTTTATAAAAAATTTCGACTTTTCGCGTTTTCAA
Found at i:2874086 original size:18 final size:18
Alignment explanation
Indices: 2874065--2874145 Score: 71
Period size: 17 Copynumber: 4.6 Consensus size: 18
2874055 GACTTTTCTC
2874065 GTTTTCAAAAATTTTCGT
1 GTTTTCAAAAATTTTCGT
*
2874083 GTTTT-AGAAATTTTCGT
1 GTTTTCAAAAATTTTCGT
*
2874100 G-TTTCTAAAATTCTT-GT
1 GTTTTCAAAAATT-TTCGT
* *
2874117 -ATTTCAAAAAATTTCCGT
1 GTTTTC-AAAAATTTTCGT
*
2874135 GTTCTCAAAAA
1 GTTTTCAAAAA
2874146 AATTATTATC
Statistics
Matches: 50, Mismatches: 7, Indels: 12
0.72 0.10 0.17
Matches are distributed among these distances:
16 3 0.06
17 24 0.48
18 20 0.40
19 3 0.06
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.46
Consensus pattern (18 bp):
GTTTTCAAAAATTTTCGT
Found at i:2874600 original size:29 final size:28
Alignment explanation
Indices: 2874567--2874631 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 28
2874557 TGAATCTCAA
2874567 AATTATAT-ATGAACTTTAATTTAATGTGT
1 AATTATATAATGAACTTTAATTT-A-GTGT
2874596 AATTATATACATGAACTTTAATTTAGTGT
1 AATTATATA-ATGAACTTTAATTTAGTGT
2874625 AATTATA
1 AATTATA
2874632 CACGTGAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
29 19 0.56
30 1 0.03
31 14 0.41
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.46
Consensus pattern (28 bp):
AATTATATAATGAACTTTAATTTAGTGT
Found at i:2874639 original size:29 final size:31
Alignment explanation
Indices: 2874575--2874639 Score: 98
Period size: 29 Copynumber: 2.2 Consensus size: 31
2874565 AAAATTATAT
*
2874575 ATGAACTTTAATTTAATGTGTAATTATATAC
1 ATGAACTTTAATTTAATGTGTAATTATACAC
2874606 ATGAACTTTAATTT-A-GTGTAATTATACAC
1 ATGAACTTTAATTTAATGTGTAATTATACAC
*
2874635 GTGAA
1 ATGAA
2874640 ATTCTATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 17 0.53
30 1 0.03
31 14 0.44
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (31 bp):
ATGAACTTTAATTTAATGTGTAATTATACAC
Found at i:2876949 original size:18 final size:18
Alignment explanation
Indices: 2876907--2877019 Score: 60
Period size: 17 Copynumber: 6.4 Consensus size: 18
2876897 ATACAATAAT
*
2876907 AATTTTTGAAAACACGGA
1 AATTTTTGAAAACACTGA
*
2876925 ATTTTTTTGAAAACACTGA
1 A-ATTTTTGAAAACACTGA
* *
2876944 AATTTTCG-ATACA-TGA
1 AATTTTTGAAAACACTGA
***
2876960 GAATTTTT-TTGACAC-GAA
1 -AATTTTTGAAAACACTG-A
*
2876978 AAATTTTGAAAACAC-GAA
1 AATTTTTGAAAACACTG-A
2876996 AATTTTT-AAAACA-TGA
1 AATTTTTGAAAACACTGA
2877012 ATATTTTT
1 A-ATTTTT
2877020 TTTAAACACG
Statistics
Matches: 74, Mismatches: 13, Indels: 17
0.71 0.12 0.16
Matches are distributed among these distances:
16 5 0.07
17 33 0.45
18 20 0.27
19 16 0.22
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.37
Consensus pattern (18 bp):
AATTTTTGAAAACACTGA
Found at i:2876949 original size:19 final size:18
Alignment explanation
Indices: 2876909--2877133 Score: 113
Period size: 18 Copynumber: 11.9 Consensus size: 18
2876899 ACAATAATAA
*
2876909 TTTTTGAAAACACGGAATT
1 TTTTTGAAAACAC-GAAAT
2876928 TTTTTGAAAACACTGAAA-
1 TTTTTGAAAACAC-GAAAT
* * *
2876946 TTTTCG-ATACATGAGAATT
1 TTTTTGAAAACACGA-AA-T
*
2876965 TTTTTG---ACACGAAAA
1 TTTTTGAAAACACGAAAT
* *
2876980 ATTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAT
*
2876998 TTTTT-AAAACATGAATAT
1 TTTTTGAAAACACGAA-AT
** *
2877016 TTTTTTTAAACACGAATT
1 TTTTTGAAAACACGAAAT
* *
2877034 TTTTTAAAAAAAACATGAGAAT
1 TTTTT---GAAAACACGA-AAT
2877056 TTTTTGAAAACACGAACACAT
1 TTTTTGAAAACACG-A-A-AT
* *
2877077 GAAAATTTTGAAAACACGAAAA
1 ----TTTTTGAAAACACGAAAT
2877099 TTTTTG-AAACACGAGAAT
1 TTTTTGAAAACACGA-AAT
2877117 TTTTTGAAAACACGAAA
1 TTTTTGAAAACACGAAA
2877134 ACACGAAAAT
Statistics
Matches: 160, Mismatches: 26, Indels: 41
0.70 0.11 0.18
Matches are distributed among these distances:
15 5 0.03
16 4 0.03
17 28 0.17
18 45 0.28
19 44 0.28
20 2 0.01
21 9 0.06
22 8 0.05
23 1 0.01
24 1 0.01
25 13 0.08
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAT
Found at i:2877019 original size:17 final size:17
Alignment explanation
Indices: 2876980--2877042 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 17
2876970 GACACGAAAA
* *
2876980 ATTTTGAAAACACGAAA
1 ATTTTTAAAACACGAAT
*
2876997 ATTTTTAAAACATGAAT
1 ATTTTTAAAACACGAAT
*
2877014 ATTTTTTTTAAACACGAAT
1 A--TTTTTAAAACACGAAT
*
2877033 TTTTTTAAAA
1 ATTTTTAAAA
2877043 AAAACATGAG
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
17 23 0.62
19 14 0.38
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.41
Consensus pattern (17 bp):
ATTTTTAAAACACGAAT
Found at i:2877073 original size:25 final size:25
Alignment explanation
Indices: 2877029--2877096 Score: 63
Period size: 23 Copynumber: 2.8 Consensus size: 25
2877019 TTTTAAACAC
* *
2877029 GAATTTTTTTAAAA-A-AAACATGA
1 GAATTTTTTGAAAACACGAACATGA
2877052 GAATTTTTTGAAAACACGAACACATGA
1 GAATTTTTTGAAAACACG-A-ACATGA
*
2877079 -AA-ATTTTGAAAACACGAA
1 GAATTTTTTGAAAACACGAA
2877097 AATTTTTGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
23 14 0.37
24 2 0.05
25 13 0.34
26 3 0.08
27 6 0.16
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.28
Consensus pattern (25 bp):
GAATTTTTTGAAAACACGAACATGA
Found at i:2877234 original size:23 final size:22
Alignment explanation
Indices: 2877204--2877251 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
2877194 TTCACGAGAG
*
2877204 TTTTTTTTTG-AAACATGAGAAA
1 TTTTTTTTTGAAAACACGA-AAA
2877226 TTTTTTTTTGAAAACACGAAAA
1 TTTTTTTTTGAAAACACGAAAA
2877248 TTTT
1 TTTT
2877252 CAAACACGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.48
Consensus pattern (22 bp):
TTTTTTTTTGAAAACACGAAAA
Found at i:2877249 original size:105 final size:97
Alignment explanation
Indices: 2877130--2877479 Score: 486
Period size: 105 Copynumber: 3.5 Consensus size: 97
2877120 TTGAAAACAC
* * **
2877130 GAAAACACGAAAATTTGTCAAATACGGAATTTTTTTTTTGAAACACGATAACATCAAAAAAATAT
1 GAAAACACGAAAATTT-TCAAACACGGAA---ATTTTTAAAAACACGATAACATCAAAAAAATAT
*
2877195 TCACGAGAGTTTTTTTTTGAAACATGAGAAATTTTTTTTT
62 TCACGAGAG--TTTTTTTGAAACACGAG-AA-TTTTTTTT
2877235 GAAAACACGAAAATTTTCAAACACGGAAATTTTTAAAAACACGATAACATCAAAAAAATATTCAC
1 GAAAACACGAAAATTTTCAAACACGGAAATTTTTAAAAACACGATAACATCAAAAAAATATTCAC
2877300 GAGAGTTTTTTTGAAACACGAGAATTTTTTTT
66 GAGAGTTTTTTTGAAACACGAGAATTTTTTTT
2877332 GAAAACACGAAAACATGAAATTTTTCAAACACGGAAATTTTTAAAAACACGATAACATCAAAAAA
1 GAAAACACG-----A--AAA-TTTTCAAACACGGAAATTTTTAAAAACACGATAACATCAAAAAA
2877397 ATATTCACGAGAGTTTTTTTGAAACACGAGAA-TTTTTTT
58 ATATTCACGAGAGTTTTTTTGAAACACGAGAATTTTTTTT
* *
2877436 GAAAACACGAAAATTTTCAAACACGGGAATTTTTGAAAACACGA
1 GAAAACACGAAAATTTTCAAACACGGAAATTTTTAAAAACACGA
2877480 AAATTTTTTA
Statistics
Matches: 230, Mismatches: 7, Indels: 25
0.88 0.03 0.10
Matches are distributed among these distances:
96 29 0.13
97 20 0.09
98 2 0.01
99 17 0.07
101 39 0.17
102 1 0.00
104 30 0.13
105 92 0.40
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.31
Consensus pattern (97 bp):
GAAAACACGAAAATTTTCAAACACGGAAATTTTTAAAAACACGATAACATCAAAAAAATATTCAC
GAGAGTTTTTTTGAAACACGAGAATTTTTTTT
Found at i:2877268 original size:17 final size:16
Alignment explanation
Indices: 2877237--2877267 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2877227 TTTTTTTTGA
2877237 AAACACGAAAATTTTC
1 AAACACGAAAATTTTC
*
2877253 AAACACGGAAATTTT
1 AAACACGAAAATTTT
2877268 TAAAAACACG
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:0.48, C:0.16, G:0.10, T:0.26
Consensus pattern (16 bp):
AAACACGAAAATTTTC
Found at i:2877276 original size:18 final size:17
Alignment explanation
Indices: 2877230--2877277 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
2877220 GAGAAATTTT
2877230 TTTTTGAAAACAC-GAAA
1 TTTTT-AAAACACGGAAA
* *
2877247 ATTTTCAAACACGGAAA
1 TTTTTAAAACACGGAAA
2877264 TTTTTAAAAACACG
1 TTTTT-AAAACACG
2877278 ATAACATCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
16 6 0.24
17 12 0.48
18 7 0.28
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.29
Consensus pattern (17 bp):
TTTTTAAAACACGGAAA
Found at i:2877321 original size:19 final size:21
Alignment explanation
Indices: 2877297--2877341 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
2877287 AAAAAATATT
2877297 CACGAG-AGTTTTTTTG-AAA
1 CACGAGAAGTTTTTTTGAAAA
*
2877316 CACGAGAATTTTTTTTGAAAA
1 CACGAGAAGTTTTTTTGAAAA
2877337 CACGA
1 CACGA
2877342 AAACATGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.26
20 9 0.39
21 8 0.35
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (21 bp):
CACGAGAAGTTTTTTTGAAAA
Found at i:2877379 original size:18 final size:17
Alignment explanation
Indices: 2877348--2877382 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
2877338 ACGAAAACAT
*
2877348 GAAATTTTTCAAACACG
1 GAAATTTTTAAAACACG
2877365 GAAATTTTTAAAAACACG
1 GAAATTTTT-AAAACACG
2877383 ATAACATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.29
Consensus pattern (17 bp):
GAAATTTTTAAAACACG
Found at i:2877459 original size:16 final size:17
Alignment explanation
Indices: 2877432--2877558 Score: 69
Period size: 17 Copynumber: 7.2 Consensus size: 17
2877422 ACGAGAATTT
2877432 TTTTGAAAACACGAAAA
1 TTTTGAAAACACGAAAA
* * *
2877449 TTTT-CAAACACGGGAAT
1 TTTTGAAAACAC-GAAAA
2877466 TTTTGAAAACACGAAAA
1 TTTTGAAAACACGAAAA
** ** *
2877483 TTTTTTATTCACGAGAAT
1 TTTTGAAAACACGA-AAA
* *
2877501 TTTTG-AAACATGAAGATT
1 TTTTGAAAACACGAA-A-A
* *
2877519 TTTTGAAAACATGGAAATT
1 TTTTGAAAACA-CGAAA-A
*
2877538 TTTTGAAAACACGGAAA
1 TTTTGAAAACACGAAAA
2877555 TTTT
1 TTTT
2877559 ATTATTATTT
Statistics
Matches: 84, Mismatches: 19, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
16 7 0.08
17 34 0.40
18 21 0.25
19 19 0.23
20 3 0.04
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (17 bp):
TTTTGAAAACACGAAAA
Found at i:2877553 original size:19 final size:19
Alignment explanation
Indices: 2877411--2877558 Score: 111
Period size: 19 Copynumber: 8.2 Consensus size: 19
2877401 TCACGAGAGT
*
2877411 TTTTTTG-AAACACGAGAAT
1 TTTTTTGAAAACACG-GAAA
2877430 TTTTTTGAAAACAC-GAAA
1 TTTTTTGAAAACACGGAAA
* * *
2877448 -ATTTT-CAAACACGGGAA
1 TTTTTTGAAAACACGGAAA
*
2877465 -TTTTTGAAAACACGAAAA
1 TTTTTTGAAAACACGGAAA
**
2877483 TTTTTT--ATTCAC-GAGAA
1 TTTTTTGAAAACACGGA-AA
*
2877500 -TTTTTG-AAACA-TGAAGA
1 TTTTTTGAAAACACGGAA-A
*
2877517 TTTTTTGAAAACATGGAAA
1 TTTTTTGAAAACACGGAAA
2877536 TTTTTTGAAAACACGGAAA
1 TTTTTTGAAAACACGGAAA
2877555 TTTT
1 TTTT
2877559 ATTATTATTT
Statistics
Matches: 103, Mismatches: 15, Indels: 22
0.74 0.11 0.16
Matches are distributed among these distances:
16 13 0.13
17 23 0.22
18 18 0.17
19 40 0.39
20 9 0.09
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (19 bp):
TTTTTTGAAAACACGGAAA
Found at i:2878176 original size:15 final size:15
Alignment explanation
Indices: 2878158--2878186 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2878148 GGCGTTAGGC
2878158 TGGGCAGTGGCCTGT
1 TGGGCAGTGGCCTGT
2878173 TGGGCAGTGGCCTG
1 TGGGCAGTGGCCTG
2878187 CTGCGGGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.21, G:0.48, T:0.24
Consensus pattern (15 bp):
TGGGCAGTGGCCTGT
Found at i:2878303 original size:11 final size:12
Alignment explanation
Indices: 2878289--2878344 Score: 57
Period size: 11 Copynumber: 4.9 Consensus size: 12
2878279 TTTTTTTTTC
2878289 TTTTTC-TTCTA
1 TTTTTCTTTCTA
* *
2878300 TTTTTCTTTTTG
1 TTTTTCTTTCTA
2878312 TTTCTT-TTTCT-
1 TTT-TTCTTTCTA
2878323 TTTTTCTTTCTA
1 TTTTTCTTTCTA
2878335 -TTTTCTTTCT
1 TTTTTCTTTCT
2878345 TCCCCTTCTT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
10 2 0.05
11 24 0.63
12 10 0.26
13 2 0.05
ACGTcount: A:0.04, C:0.16, G:0.02, T:0.79
Consensus pattern (12 bp):
TTTTTCTTTCTA
Found at i:2878303 original size:17 final size:17
Alignment explanation
Indices: 2878283--2878342 Score: 70
Period size: 17 Copynumber: 3.5 Consensus size: 17
2878273 TCTTTGTTTT
2878283 TTTTTCTTTTTCTTCTA
1 TTTTTCTTTTTCTTCTA
* *
2878300 TTTTTCTTTTTGTT-TC
1 TTTTTCTTTTTCTTCTA
2878316 TTTTTCTTTTTTCTTTCTA
1 TTTTTC-TTTTTC-TTCTA
2878335 -TTTTCTTT
1 TTTTTCTTT
2878343 CTTCCCCTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
16 7 0.19
17 21 0.58
18 7 0.19
19 1 0.03
ACGTcount: A:0.03, C:0.15, G:0.02, T:0.80
Consensus pattern (17 bp):
TTTTTCTTTTTCTTCTA
Found at i:2878316 original size:27 final size:27
Alignment explanation
Indices: 2878268--2878345 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
2878258 GCTGCTATTT
* *
2878268 TTTATTCTTTGTTTTTTTTTCTTTTTC
1 TTTATTCTTTCTTTTTCTTTCTTTTTC
*
2878295 TTCTATT-TTTCTTTTTGTTTCTTTTTC
1 TT-TATTCTTTCTTTTTCTTTCTTTTTC
*
2878322 TTTTTTCTTTCTATTTTCTTTCTT
1 TTTATTCTTTCT-TTTTCTTTCTT
2878346 CCCCTTCTTC
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
26 3 0.07
27 27 0.61
28 14 0.32
ACGTcount: A:0.04, C:0.14, G:0.03, T:0.79
Consensus pattern (27 bp):
TTTATTCTTTCTTTTTCTTTCTTTTTC
Found at i:2878320 original size:34 final size:34
Alignment explanation
Indices: 2878266--2878342 Score: 97
Period size: 34 Copynumber: 2.3 Consensus size: 34
2878256 CTGCTGCTAT
*
2878266 TTTTTATTCTTTGTTTTTTTT-TCTTTTTC-TTCTA
1 TTTTTCTT-TTTGTTTTTTTTCT-TTTTTCTTTCTA
2878300 TTTTTCTTTTTGTTTCTTTTTCTTTTTTCTTTCTA
1 TTTTTCTTTTTGTTT-TTTTTCTTTTTTCTTTCTA
2878335 -TTTTCTTT
1 TTTTTCTTT
2878343 CTTCCCCTTC
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
33 7 0.18
34 26 0.67
35 6 0.15
ACGTcount: A:0.04, C:0.13, G:0.03, T:0.81
Consensus pattern (34 bp):
TTTTTCTTTTTGTTTTTTTTCTTTTTTCTTTCTA
Found at i:2878326 original size:23 final size:22
Alignment explanation
Indices: 2878266--2878331 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 22
2878256 CTGCTGCTAT
* *
2878266 TTTTTATTCTTTGTTTTTTTTTC
1 TTTTTCTTCTTT-TTTCTTTTTC
*
2878289 TTTTTCTTCTATTTTTCTTTTTG
1 TTTTTCTTCT-TTTTTCTTTTTC
*
2878312 TTTCTTTTTCTTTTTTCTTT
1 TTT-TTCTTCTTTTTTCTTT
2878332 CTATTTTCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
23 29 0.78
24 8 0.22
ACGTcount: A:0.03, C:0.12, G:0.03, T:0.82
Consensus pattern (22 bp):
TTTTTCTTCTTTTTTCTTTTTC
Found at i:2878489 original size:20 final size:21
Alignment explanation
Indices: 2878436--2878490 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
2878426 GGCCGGTATC
*
2878436 TCCTTTC-CTCTTT-TTTCTT
1 TCCTTTCTCTCTTTCCTTCTT
*
2878455 TTCTTTCTCTCCTTTCCTT-TT
1 TCCTTTCTCT-CTTTCCTTCTT
2878476 TCCTTTCTCTCTTTC
1 TCCTTTCTCTCTTTC
2878491 TCTCTTTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 6 0.20
20 7 0.23
21 15 0.50
22 2 0.07
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (21 bp):
TCCTTTCTCTCTTTCCTTCTT
Found at i:2878668 original size:22 final size:22
Alignment explanation
Indices: 2878642--2878689 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
2878632 ATGAGGGCCC
* * *
2878642 TTTTGCTGCTTTTTTTTTGATT
1 TTTTGCTGCTGTTTTCTTAATT
2878664 TTTTGCTGCTGTTTTCTTAATT
1 TTTTGCTGCTGTTTTCTTAATT
2878686 TTTT
1 TTTT
2878690 TCTTTTTCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.06, C:0.10, G:0.12, T:0.71
Consensus pattern (22 bp):
TTTTGCTGCTGTTTTCTTAATT
Found at i:2879016 original size:30 final size:30
Alignment explanation
Indices: 2878982--2879089 Score: 96
Period size: 30 Copynumber: 3.6 Consensus size: 30
2878972 AAAAGCTAAG
2878982 GGGTTAAAATGTAATTTAAAGAAAA-TTTAA
1 GGGTTAAAATGTAATTTAAAGAAAAGTTT-A
** *
2879012 GGGTTTGAATGTAATTTATAGAAAAGTTTA
1 GGGTTAAAATGTAATTTAAAGAAAAGTTTA
* * **
2879042 GGGTCAAAATGTAAATTT-CA-AAAAGTACA
1 GGGTTAAAATGT-AATTTAAAGAAAAGTTTA
*
2879071 GGGGCTAAAATGTAATTTA
1 -GGGTTAAAATGTAATTTA
2879090 TATTTTTTGT
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
29 12 0.19
30 43 0.68
31 8 0.13
ACGTcount: A:0.44, C:0.04, G:0.20, T:0.32
Consensus pattern (30 bp):
GGGTTAAAATGTAATTTAAAGAAAAGTTTA
Found at i:2879121 original size:18 final size:18
Alignment explanation
Indices: 2879086--2879124 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
2879076 TAAAATGTAA
*
2879086 TTTATATTTTTTGTATTT
1 TTTATATTTTTTGGATTT
2879104 TTTAT-TTTTTTGAGATTT
1 TTTATATTTTTTG-GATTT
2879122 TTT
1 TTT
2879125 TACTACTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (18 bp):
TTTATATTTTTTGGATTT
Found at i:2879556 original size:79 final size:77
Alignment explanation
Indices: 2879453--2880117 Score: 633
Period size: 79 Copynumber: 8.3 Consensus size: 77
2879443 AGTTGAGCTC
* * *
2879453 TGAAAAATAGAAATTGAAAATACCTCAGCGT-AACCCGAGGCTCAACTCACTTCTAGCATTATGA
1 TGAAAAACAGAAATTGAAAATACCTCAGCGTGGACCCGAGGCTCAACTCACTTCTCGCATTATGA
2879517 GTTGATTTTTTTTT
66 GTTGA--TTTTTTT
*
2879531 TGAAAAAACAGAAATTGAAATTACCTCAGCGT-GACCCGAGGCTCAAAC-CA-TCTCTCGCATTA
1 TG-AAAAACAGAAATTGAAAATACCTCAGCGTGGACCCGAGGCTC-AACTCACT-TCTCGCATTA
2879593 TGAGTTGATTTTTTT
63 TGAGTTGATTTTTTT
* *
2879608 TGAAAAA-AGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAA
1 TGAAAAACAGAAA-TT--GA-AAATACCTCAGCGTG-GACCCGAGGCTCAACTCACTTCTCGCAT
2879672 TATGAGTTGA-TTTTTT
61 TATGAGTTGATTTTTTT
*
2879688 TGAAAAACAGAGAAACATAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTC
1 TGAAAAAC--AG------AAATTGAAAATACCTCAGCGTG-GACCCGAGGCTCAACTCACTTCTC
*
2879753 ACATTATGAGTTGA--TTTTT
57 GCATTATGAGTTGATTTTTTT
* * *
2879772 TG-AAAAGAGAAATTTAAAAGAAATACCTCAGCGTGGGACCCGAGGCTCAACTCACTTCTCGCAA
1 TGAAAAACAGAAA-TT--GA-AAATACCTCAGCGT-GGACCCGAGGCTCAACTCACTTCTCGCAT
2879836 TATGAGTTGA-TTTTTT
61 TATGAGTTGATTTTTTT
* * *
2879852 TGAAAAACAGAGAAACATAAATTGAAAATACCTCAGCGT-GACCCTAGGTTCAACTCACCTCTCG
1 TGAAAAAC--AG------AAATTGAAAATACCTCAGCGTGGACCCGAGGCTCAACTCACTTCTCG
2879916 CATTATGAGTTGA-TTTTTT
58 CATTATGAGTTGATTTTTTT
* *
2879935 TGAAAAA-AGAAATTTAAAAGAAATACCTCAGCGTGGGACCCGAGGCTCAACTCACTTCTCGCAA
1 TGAAAAACAGAAA-TT--GA-AAATACCTCAGCGT-GGACCCGAGGCTCAACTCACTTCTCGCAT
2879999 TATGAGTTGA-TTTTTT
61 TATGAGTTGATTTTTTT
** * *
2880015 TGAAAAACAGAGAAACATAAATTGAAAATACCTCAGCGT-GATTCGAGACTCAACTCACTTTTCG
1 TGAAAAAC--AG------AAATTGAAAATACCTCAGCGTGGACCCGAGGCTCAACTCACTTCTCG
2880079 CATTATGAGTTGA-TTTTTT
58 CATTATGAGTTGATTTTTTT
2880098 TGAAAAACAGAAATTGAAAA
1 TGAAAAACAGAAATTGAAAA
2880118 ATATTTCTTA
Statistics
Matches: 504, Mismatches: 33, Indels: 103
0.79 0.05 0.16
Matches are distributed among these distances:
74 3 0.01
75 20 0.04
76 9 0.02
77 10 0.02
78 19 0.04
79 119 0.24
80 76 0.15
81 39 0.08
82 1 0.00
83 104 0.21
84 7 0.01
85 79 0.16
86 3 0.01
88 6 0.01
89 9 0.02
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (77 bp):
TGAAAAACAGAAATTGAAAATACCTCAGCGTGGACCCGAGGCTCAACTCACTTCTCGCATTATGA
GTTGATTTTTTT
Found at i:2880014 original size:163 final size:163
Alignment explanation
Indices: 2879470--2880117 Score: 1006
Period size: 163 Copynumber: 4.0 Consensus size: 163
2879460 TAGAAATTGA
* * * ***
2879470 AAATACCTCAGCGT--AACCCGAGGCTCAACTCACTTCTAGCATTATGAGTTGATTTTTTT-TTT
1 AAATACCTCAGCGTGGGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAA
* * * *
2879532 GA-A-A-AAACAGAAATTGAAATTACCTCAGCGTGACCCGAGGCTCAAAC-CATCTCTCGCATTA
66 AACAGAGAAACATAAATTGAAAATACCTCAGCGTGACCCGAGGCTC-AACTCACCTCTCGCATTA
2879593 TGAGTTGATTTTTTTTGAAAAAAGAAATTTAAAAG
130 TGAGTTGA-TTTTTTTGAAAAAAGAAATTTAAAAG
*
2879628 AAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAA
1 AAATACCTCAGCGTGGGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAA
*
2879693 AACAGAGAAACATAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCACATT
66 AACAGAGAAACATAAATTGAAAATACCTCAGCGT--GACCCGAGGCTCAACTCACCTCTCGCATT
*
2879758 ATGAGTTGA-TTTTTTGAAAAGAGAAATTTAAAAG
129 ATGAGTTGATTTTTTTGAAAAAAGAAATTTAAAAG
2879792 AAATACCTCAGCGTGGGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAA
1 AAATACCTCAGCGTGGGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAA
* *
2879857 AACAGAGAAACATAAATTGAAAATACCTCAGCGTGACCCTAGGTTCAACTCACCTCTCGCATTAT
66 AACAGAGAAACATAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCATTAT
2879922 GAGTTGATTTTTTTGAAAAAAGAAATTTAAAAG
131 GAGTTGATTTTTTTGAAAAAAGAAATTTAAAAG
2879955 AAATACCTCAGCGTGGGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAA
1 AAATACCTCAGCGTGGGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAA
** * * *
2880020 AACAGAGAAACATAAATTGAAAATACCTCAGCGTGATTCGAGACTCAACTCACTTTTCGCATTAT
66 AACAGAGAAACATAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCATTAT
*
2880085 GAGTTGATTTTTTTGAAAAACAGAAATTGAAAA
131 GAGTTGATTTTTTTGAAAAA-AGAAATTTAAAA
2880118 ATATTTCTTA
Statistics
Matches: 454, Mismatches: 25, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
158 14 0.03
160 42 0.09
161 1 0.00
162 36 0.08
163 168 0.37
164 158 0.35
165 3 0.01
166 32 0.07
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.29
Consensus pattern (163 bp):
AAATACCTCAGCGTGGGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAA
AACAGAGAAACATAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCATTAT
GAGTTGATTTTTTTGAAAAAAGAAATTTAAAAG
Found at i:2880112 original size:327 final size:321
Alignment explanation
Indices: 2879470--2880117 Score: 996
Period size: 327 Copynumber: 2.0 Consensus size: 321
2879460 TAGAAATTGA
* ****
2879470 AAATACCTCAGCGTAACCCGAGGCTCAACTCACTTCTAGCATTATGAGTTGATTTTTTTTTTGAA
1 AAATACCTCAGCGTAACCCGAGGCTCAACTCACTTCTAGCAATATGAGTTGATTTTTTTAAAAAA
* *
2879535 AAAACAGAAATTGAAATTACCTCAGCGTGACCCGAGGCTCAAACCATCTCTCGCATTATGAGTTG
66 AAAACAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAAACCACCTCTCGCATTATGAGTTG
2879600 ATTTTTTTTGAAAAAAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTT
131 ATTTTTTTTGAAAAAAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTT
2879665 CTCGCAATATGAGTTGATTTTTTTGAAAAACAGAGAAACATAAATTGAAAATACCTCAGCGTGCG
196 CTCGCAATATGAGTTGATTTTTTTGAAAAACAGAGAAACATAAATTGAAAATACCTCAGCGT-CG
* * *
2879730 ACCCGAGGCTCAACTCACCTCTCACATTATGAGTTGATTTTTTGAAAAGAGAAATTTAAAAG
260 ACCCGAGACTCAACTCACCTCTCACATTATGAGTTGATTTTTTGAAAACAGAAATTGAAAAG
* *
2879792 AAATACCTCAGCGTGGGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAA
1 AAATACCTCAGCGT--AACCCGAGGCTCAACTCACTTCTAGCAATATGAGTTGATTTTTTT-AAA
* * *
2879857 AACAGAGAAACATAAATTGAAAATACCTCAGCGTGACCCTAGGTTC-AACTCACCTCTCGCATTA
63 AA-A-A-AAACAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAAAC-CACCTCTCGCATTA
*
2879921 TGAGTTGA-TTTTTTTGAAAAAAGAAATTTAAAAGAAATACCTCAGCGTGGGACCCGAGGCTCAA
124 TGAGTTGATTTTTTTTGAAAAAAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAA
2879985 CTCACTTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAGAAACATAAATTGAAAATACCTCA
189 CTCACTTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAGAAACATAAATTGAAAATACCTCA
** * * *
2880050 GCGT-GATTCGAGACTCAACTCACTTTTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAATTG
254 GCGTCGACCCGAGACTCAACTCACCTCTCACATTATGAGTTGA-TTTTTTG-AAAACAGAAATTG
2880114 AAAA
317 AAAA
2880118 ATATTTCTTA
Statistics
Matches: 296, Mismatches: 21, Indels: 13
0.90 0.06 0.04
Matches are distributed among these distances:
322 14 0.05
324 42 0.14
325 33 0.11
326 8 0.03
327 143 0.48
328 56 0.19
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.29
Consensus pattern (321 bp):
AAATACCTCAGCGTAACCCGAGGCTCAACTCACTTCTAGCAATATGAGTTGATTTTTTTAAAAAA
AAAACAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAAACCACCTCTCGCATTATGAGTTG
ATTTTTTTTGAAAAAAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTT
CTCGCAATATGAGTTGATTTTTTTGAAAAACAGAGAAACATAAATTGAAAATACCTCAGCGTCGA
CCCGAGACTCAACTCACCTCTCACATTATGAGTTGATTTTTTGAAAACAGAAATTGAAAAG
Found at i:2881015 original size:15 final size:15
Alignment explanation
Indices: 2880978--2881028 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
2880968 TGATTTTTTC
* *
2880978 TTTTTCTTTGTTTTG
1 TTTTTTTTTGCTTTG
2880993 TGTTTTTTTTG--TTG
1 T-TTTTTTTTGCTTTG
2881007 TTTTTTTTTGCTTTG
1 TTTTTTTTTGCTTTG
2881022 TTTTTTT
1 TTTTTTT
2881029 CAGGCATAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 9 0.28
14 4 0.12
15 11 0.34
16 8 0.25
ACGTcount: A:0.00, C:0.04, G:0.14, T:0.82
Consensus pattern (15 bp):
TTTTTTTTTGCTTTG
Found at i:2891720 original size:23 final size:23
Alignment explanation
Indices: 2891690--2891740 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
2891680 GTCGGTTACG
2891690 CGCGAGGAAGGTATTAGCACCCT
1 CGCGAGGAAGGTATTAGCACCCT
2891713 CGCGAGGAAGGTATTAGCACCCT
1 CGCGAGGAAGGTATTAGCACCCT
2891736 CGCGA
1 CGCGA
2891741 CGCCCAGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.25, C:0.27, G:0.31, T:0.16
Consensus pattern (23 bp):
CGCGAGGAAGGTATTAGCACCCT
Found at i:2891928 original size:20 final size:19
Alignment explanation
Indices: 2891890--2892051 Score: 69
Period size: 17 Copynumber: 8.8 Consensus size: 19
2891880 ACAATAATAA
*
2891890 TTTTTGAAAACACGGAATT
1 TTTTTGAAAACACGAAATT
2891909 TTTTTGAAAACACTGAAA--
1 TTTTTGAAAACAC-GAAATT
* * *
2891927 TTTTCG-ATACATGAGAATT
1 TTTTTGAAAACACGA-AATT
* *
2891946 TTTTTG---ACATGAAA-A
1 TTTTTGAAAACACGAAATT
*
2891961 ATTTTGAAAACACGAAA--
1 TTTTTGAAAACACGAAATT
* *
2891978 ATTTTGAAAACATGAATATT
1 TTTTTGAAAACACGAA-ATT
* *
2891998 TTTTT-TAAACACG-GATT
1 TTTTTGAAAACACGAAATT
* *
2892015 TTTTTAAAAAAACATGAGAA-T
1 TTTTT--GAAAACACGA-AATT
2892036 TTTTTGAAAACACGAA
1 TTTTTGAAAACACGAA
2892052 CACATGAAAA
Statistics
Matches: 110, Mismatches: 18, Indels: 31
0.69 0.11 0.19
Matches are distributed among these distances:
15 5 0.05
16 4 0.04
17 35 0.32
18 14 0.13
19 32 0.29
20 13 0.12
21 6 0.05
22 1 0.01
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.36
Consensus pattern (19 bp):
TTTTTGAAAACACGAAATT
Found at i:2891930 original size:17 final size:18
Alignment explanation
Indices: 2891860--2891989 Score: 51
Period size: 17 Copynumber: 7.3 Consensus size: 18
2891850 CTTTGTTTTT
2891860 AAACAC-GAGAATTTTGA
1 AAACACTGAGAATTTTGA
* * *
2891877 AATACAATAATAATTTTTGA
1 AA-ACACTGAGAA-TTTTGA
2891897 AAACAC-G-GAATTTTTTTGA
1 AAACACTGAGAA---TTTTGA
2891916 AAACACTGA-AATTTTCG-
1 AAACACTGAGAATTTT-GA
* **
2891933 ATACA-TGAGAATTTTTT
1 AAACACTGAGAATTTTGA
** *
2891950 TGACA-TGAAAAATTTTGA
1 AAACACTG-AGAATTTTGA
*
2891968 AAACAC-GAAAATTTTGA
1 AAACACTGAGAATTTTGA
2891985 AAACA
1 AAACA
2891990 TGAATATTTT
Statistics
Matches: 86, Mismatches: 15, Indels: 24
0.69 0.12 0.19
Matches are distributed among these distances:
16 3 0.03
17 38 0.44
18 15 0.17
19 19 0.22
20 11 0.13
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.32
Consensus pattern (18 bp):
AAACACTGAGAATTTTGA
Found at i:2891930 original size:19 final size:19
Alignment explanation
Indices: 2891890--2892113 Score: 82
Period size: 18 Copynumber: 11.9 Consensus size: 19
2891880 ACAATAATAA
* *
2891890 TTTTTGAAAACACGGAATT
1 TTTTTGAAAACACTGAAAT
2891909 TTTTTGAAAACACTGAAA-
1 TTTTTGAAAACACTGAAAT
* *
2891927 TTTTCG-ATACA-TGAGAATT
1 TTTTTGAAAACACTGA-AA-T
*
2891946 TTTTTG---ACA-TGAAAA
1 TTTTTGAAAACACTGAAAT
*
2891961 ATTTTGAAAACAC-GAAA-
1 TTTTTGAAAACACTGAAAT
*
2891978 ATTTTGAAAACA-TGAATAT
1 TTTTTGAAAACACTGAA-AT
** * *
2891997 TTTTTTTAAACAC-GGATT
1 TTTTTGAAAACACTGAAAT
* *
2892015 TTTTTAAAAAAACATGAGAAT
1 TTTTTGAAAACAC-TGA-AAT
2892036 TTTTTGAAAACAC-GAACACAT
1 TTTTTGAAAACACTG-A-A-AT
* *
2892057 GAAAATTTTGAAAACA-TGAAAA
1 ----TTTTTGAAAACACTGAAAT
* *
2892079 TTTTTG-AAACACGGGAAT
1 TTTTTGAAAACACTGAAAT
2892097 TTTTTGAAAACAC-GAAA
1 TTTTTGAAAACACTGAAA
2892114 ACACGAAAAT
Statistics
Matches: 155, Mismatches: 27, Indels: 47
0.68 0.12 0.21
Matches are distributed among these distances:
15 5 0.03
16 5 0.03
17 32 0.21
18 41 0.26
19 39 0.25
20 3 0.02
21 15 0.10
22 1 0.01
23 1 0.01
24 1 0.01
25 12 0.08
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (19 bp):
TTTTTGAAAACACTGAAAT
Found at i:2892114 original size:44 final size:45
Alignment explanation
Indices: 2892066--2892262 Score: 152
Period size: 44 Copynumber: 4.3 Consensus size: 45
2892056 TGAAAATTTT
*
2892066 GAAAACATGAAAATTTTTGAAACACGGGAA-TTTTTTGAAAACAC
1 GAAAACATGAAAATTTTTCAAACACGGGAATTTTTTTGAAAACAC
* * *
2892110 GAAAACACGAAAATTTGTCAAATACGGGAATTTTTTTTG-AAACAC
1 GAAAACATGAAAATTTTTCAAACACGGGAA-TTTTTTTGAAAACAC
* * * * *
2892155 GATAACATCAAAAAAATATTCAAGAAAACACGAGAATTTTTTTTTGAAAACAC
1 GAAAACAT--GAAAATTTTTC----AAACACGGGAA--TTTTTTTGAAAACAC
* * *
2892208 GAAAACAT-TAAATTTTTCAAACAC-GGAA-ATTTTTAAAAACAC
1 GAAAACATGAAAATTTTTCAAACACGGGAATTTTTTTGAAAACAC
* *
2892250 GATAACATCAAAA
1 GAAAACATGAAAA
2892263 AAATATTCAC
Statistics
Matches: 121, Mismatches: 21, Indels: 23
0.73 0.13 0.14
Matches are distributed among these distances:
42 19 0.16
43 3 0.02
44 26 0.21
45 15 0.12
46 13 0.11
47 7 0.06
50 7 0.06
51 9 0.07
52 9 0.07
53 13 0.11
ACGTcount: A:0.48, C:0.13, G:0.12, T:0.27
Consensus pattern (45 bp):
GAAAACATGAAAATTTTTCAAACACGGGAATTTTTTTGAAAACAC
Found at i:2892247 original size:18 final size:17
Alignment explanation
Indices: 2892217--2892250 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2892207 CGAAAACATT
*
2892217 AAATTTTTCAAACACGG
1 AAATTTTTAAAACACGG
2892234 AAATTTTTAAAAACACG
1 AAATTTTT-AAAACACG
2892251 ATAACATCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.47, C:0.15, G:0.09, T:0.29
Consensus pattern (17 bp):
AAATTTTTAAAACACGG
Found at i:2892248 original size:95 final size:98
Alignment explanation
Indices: 2892096--2892271 Score: 268
Period size: 95 Copynumber: 1.8 Consensus size: 98
2892086 AACACGGGAA
* * **
2892096 TTTTTTGAAAACACGAAAACACGAAAATTTGTCAAATACGGGAATTTTTTTTGAAACACGATAAC
1 TTTTTTGAAAACACGAAAACACGAAAATTTGTCAAACACGGGAATATTTTTAAAAACACGATAAC
2892161 ATCAAAAAAATATTCAAGAAAACACGAGAATTT
66 ATCAAAAAAATATTCAAGAAAACACGAGAATTT
** *
2892194 TTTTTTGAAAACACGAAAACA-TTAAATTTTTCAAACAC-GGAA-ATTTTTAAAAACACGATAAC
1 TTTTTTGAAAACACGAAAACACGAAAATTTGTCAAACACGGGAATATTTTTAAAAACACGATAAC
2892256 ATCAAAAAAATATTCA
66 ATCAAAAAAATATTCA
2892272 CGAGAGTTTT
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
95 33 0.46
96 4 0.06
97 13 0.18
98 21 0.30
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.28
Consensus pattern (98 bp):
TTTTTTGAAAACACGAAAACACGAAAATTTGTCAAACACGGGAATATTTTTAAAAACACGATAAC
ATCAAAAAAATATTCAAGAAAACACGAGAATTT
Found at i:2892294 original size:19 final size:19
Alignment explanation
Indices: 2892270--2892306 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2892260 AAAAAATATT
*
2892270 CACGAGAGTTTTTTTGAAG
1 CACGAGAATTTTTTTGAAG
2892289 CACGAGAATTTTTTTGAA
1 CACGAGAATTTTTTTGAA
2892307 AACATGGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.38
Consensus pattern (19 bp):
CACGAGAATTTTTTTGAAG
Found at i:2892398 original size:19 final size:21
Alignment explanation
Indices: 2892374--2892418 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
2892364 AAAAAATATT
2892374 CACGAG-AGTTTTTTTG-AAA
1 CACGAGAAGTTTTTTTGAAAA
*
2892393 CACGAGAATTTTTTTTGAAAA
1 CACGAGAAGTTTTTTTGAAAA
2892414 CACGA
1 CACGA
2892419 AAACACGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.26
20 9 0.39
21 8 0.35
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (21 bp):
CACGAGAAGTTTTTTTGAAAA
Found at i:2892441 original size:105 final size:105
Alignment explanation
Indices: 2892180--2892460 Score: 465
Period size: 104 Copynumber: 2.7 Consensus size: 105
2892170 ATATTCAAGA
*
2892180 AAACACGAGAATTTTTTTTTGAAAACACGAAAACATTAAATTTTTCAAACACGGAAATTTTTAAA
1 AAACACGAGAA-TTTTTTTTGAAAACACGAAAACATGAAATTTTTCAAACACGGAAATTTTTAAA
2892245 AACACGATAACATCAAAAAAATATTCACGAGAGTTTTTTTG
65 AACACGATAACATCAAAAAAATATTCACGAGAGTTTTTTTG
* * *
2892286 AAGCACGAGAA-TTTTTTTGAAAACATGGAAACATGAAATTTTTCAAACACGGAAATTTTTAAAA
1 AAACACGAGAATTTTTTTTGAAAACACGAAAACATGAAATTTTTCAAACACGGAAATTTTTAAAA
*
2892350 ATACGATAACATCAAAAAAATATTCACGAGAGTTTTTTTG
66 ACACGATAACATCAAAAAAATATTCACGAGAGTTTTTTTG
* * * *
2892390 AAACACGAGAATTTTTTTTGAAAACACGAAAACACGAAAATTTTCAAACACGGGAATTTTTGAAA
1 AAACACGAGAATTTTTTTTGAAAACACGAAAACATGAAATTTTTCAAACACGGAAATTTTTAAAA
2892455 ACACGA
66 ACACGA
2892461 AATTTTTTTA
Statistics
Matches: 161, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
104 99 0.61
105 52 0.32
106 10 0.06
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.29
Consensus pattern (105 bp):
AAACACGAGAATTTTTTTTGAAAACACGAAAACATGAAATTTTTCAAACACGGAAATTTTTAAAA
ACACGATAACATCAAAAAAATATTCACGAGAGTTTTTTTG
Found at i:2892464 original size:17 final size:17
Alignment explanation
Indices: 2892417--2892539 Score: 97
Period size: 17 Copynumber: 6.9 Consensus size: 17
2892407 TTGAAAACAC
*
2892417 GAAAACACGAAAATTTT
1 GAAAACACGAAATTTTT
* *
2892434 -CAAACACGGGAATTTTT
1 GAAAACAC-GAAATTTTT
2892451 GAAAACACGAAATTTTT
1 GAAAACACGAAATTTTT
** ** *
2892468 TTATTCGCGAGAATTTTT
1 GAAAACACGA-AATTTTT
2892486 G-AAACACGAAGATTTTTT
1 GAAAACACGAA-A-TTTTT
2892504 GAAAACACGGAAATTTTTT
1 GAAAACAC-GAAA-TTTTT
2892523 GAAAACACGGAAATTTT
1 GAAAACAC-GAAATTTT
2892540 ATTATTATTT
Statistics
Matches: 85, Mismatches: 14, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
16 7 0.08
17 26 0.31
18 23 0.27
19 26 0.31
20 3 0.04
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (17 bp):
GAAAACACGAAATTTTT
Found at i:2892503 original size:19 final size:18
Alignment explanation
Indices: 2892481--2892539 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 18
2892471 TTCGCGAGAA
2892481 TTTTTG-AAACACGAAGAT
1 TTTTTGAAAACACGAA-AT
2892499 TTTTTGAAAACACGGAAAT
1 TTTTTGAAAACAC-GAAAT
2892518 TTTTTGAAAACACGGAAAT
1 TTTTTGAAAACAC-GAAAT
2892537 TTT
1 TTT
2892540 ATTATTATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
18 6 0.15
19 30 0.77
20 3 0.08
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAT
Found at i:2893279 original size:11 final size:12
Alignment explanation
Indices: 2893263--2893318 Score: 57
Period size: 11 Copynumber: 4.9 Consensus size: 12
2893253 TGTTTTTTTC
2893263 TTTTTC-TTCTA
1 TTTTTCTTTCTA
* *
2893274 TTTTTCTTTTTC
1 TTTTTCTTTCTA
2893286 TTTCTT-TTTCT-
1 TTT-TTCTTTCTA
2893297 TTTTTCTTTCTA
1 TTTTTCTTTCTA
2893309 -TTTTCTTTCT
1 TTTTTCTTTCT
2893319 TCTCCTTCCT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
10 2 0.05
11 24 0.63
12 10 0.26
13 2 0.05
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTCTTTCTA
Found at i:2893283 original size:23 final size:23
Alignment explanation
Indices: 2893248--2893305 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
2893238 CTATTTTTTA
*
2893248 TTCTTTGTT-TTTTTCTTT-TTC
1 TTCTTTTTTCTTTTTCTTTCTTC
*
2893269 TTCTATTTTTCTTTTTCTTTCTTT
1 TTCT-TTTTTCTTTTTCTTTCTTC
2893293 TTCTTTTTTCTTT
1 TTCTTTTTTCTTT
2893306 CTATTTTCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 4 0.12
22 4 0.12
23 18 0.56
24 6 0.19
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.81
Consensus pattern (23 bp):
TTCTTTTTTCTTTTTCTTTCTTC
Found at i:2893294 original size:35 final size:35
Alignment explanation
Indices: 2893257--2893321 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
2893247 ATTCTTTGTT
2893257 TTTTTC-TTTTTC-TTCTATTTTTCTTT-TTCTTTC
1 TTTTTCTTTTTTCTTTCTA-TTTTCTTTCTTCTTTC
2893290 TTTTTCTTTTTTCTTTCTATTTTCTTTCTTCT
1 TTTTTCTTTTTTCTTTCTATTTTCTTTCTTCT
2893322 CCTTCCTCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 6 0.21
34 14 0.48
35 9 0.31
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.78
Consensus pattern (35 bp):
TTTTTCTTTTTTCTTTCTATTTTCTTTCTTCTTTC
Found at i:2893297 original size:27 final size:28
Alignment explanation
Indices: 2893255--2893319 Score: 91
Period size: 27 Copynumber: 2.4 Consensus size: 28
2893245 TTATTCTTTG
2893255 TTTT-TTTCTTTTTCTTCTATT-TTTCT-
1 TTTTCTTTCTTTTTCTT-TATTCTTTCTA
*
2893281 TTTTCTTTCTTTTTCTTTTTTCTTTCTA
1 TTTTCTTTCTTTTTCTTTATTCTTTCTA
2893309 TTTTCTTTCTT
1 TTTTCTTTCTT
2893320 CTCCTTCCTC
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
26 7 0.20
27 17 0.49
28 11 0.31
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (28 bp):
TTTTCTTTCTTTTTCTTTATTCTTTCTA
Found at i:2893313 original size:18 final size:18
Alignment explanation
Indices: 2893258--2893321 Score: 82
Period size: 17 Copynumber: 3.7 Consensus size: 18
2893248 TTCTTTGTTT
2893258 TTTTC-TTTTTC-TTCTA
1 TTTTCTTTTTTCTTTCTA
2893274 TTTT-TCTTTTTCTTTCT-
1 TTTTCT-TTTTTCTTTCTA
2893291 TTTTCTTTTTTCTTTCTA
1 TTTTCTTTTTTCTTTCTA
*
2893309 TTTTCTTTCTTCT
1 TTTTCTTTTTTCT
2893322 CCTTCCTCTT
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
16 4 0.10
17 21 0.50
18 17 0.40
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTCTTTTTTCTTTCTA
Found at i:2893976 original size:30 final size:30
Alignment explanation
Indices: 2893942--2893999 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
2893932 TAAGCGGTCA
2893942 AAATGTAATTTAAAGAAAA-TTTAGGGGTTT
1 AAATGTAATTTAAAGAAAAGTTT-GGGGTTT
*
2893972 AAATGTAATTTATAGAAAAGTTTGGGGT
1 AAATGTAATTTAAAGAAAAGTTTGGGGT
2894000 CAAAATATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 23 0.88
31 3 0.12
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.36
Consensus pattern (30 bp):
AAATGTAATTTAAAGAAAAGTTTGGGGTTT
Found at i:2898595 original size:304 final size:304
Alignment explanation
Indices: 2898046--2898656 Score: 990
Period size: 304 Copynumber: 2.0 Consensus size: 304
2898036 TTTCTCGTTG
*
2898046 AAACAAAAATCAGAAGTTGCTGGTGTCTTCTGGAAATTCAAAGCCAGAGTTGAGAATGAAAGTGG
1 AAACAAAAATCAAAAGTTGCTGGTGTCTTCTGGAAATTCAAAGCCAGAGTTGAGAATGAAAGTGG
* * * *
2898111 ATGCATGATTTAGATTTTAAGATTTAATAATGGTAAGGAGTACAATTCAAAAACCTTTAATAGGT
66 ATGCATGAATCAGATTTTAAGATCTAATAATGGCAAGGAGTACAATTCAAAAACCTTTAATAGGT
* * * *
2898176 TTTGTGAAGAGGATGAAATTGAGCATCAGTTGATGGTGCCATACACTCCACAATAAAATGGAGTC
131 TTTATGAAGAGGATGAAATTGAACATCAGTTGACGGTGCCATACACTCCACAACAAAATGGAGTC
2898241 AGTGAAAGGAGGAACAGATTCATAATAGAGATGACTCGATGTATGCTTCATGAAAAGAATC-TTC
196 AGTGAAAGGAGGAACAGATTCATAATAGAGATGACTCGATGTATGCTTCATGAAAAGAATCTTTC
* * *
2898305 CAAAAAGCTTTTGGGGAGAAGCTGCAAACACTGCTGTGTTCTTGC
261 C-AAAAGATTTTGGGGAGAAGCTGCAAACACTACTGTGTTCTTAC
* * * * *
2898350 AAACAAAAATTAAAATTTGTTGGTGTGTTTTGGAAATTCAAAGCCAGAGTTGAGAATGAAAGTGG
1 AAACAAAAATCAAAAGTTGCTGGTGTCTTCTGGAAATTCAAAGCCAGAGTTGAGAATGAAAGTGG
* * *
2898415 ATGCATGAATCAGATTTTAAGATCTGATAATGGCAAGGAGTACACTTCAGAAACCTTTAATAGGT
66 ATGCATGAATCAGATTTTAAGATCTAATAATGGCAAGGAGTACAATTCAAAAACCTTTAATAGGT
* *
2898480 TTTATGAAGAGGTTGGAATTGAACATCAGTTGACGGTGCCATACACTCCACAACAAAATGGAGTC
131 TTTATGAAGAGGATGAAATTGAACATCAGTTGACGGTGCCATACACTCCACAACAAAATGGAGTC
* *
2898545 AGTGAAAGGAGGAACAGATTCATAATGGAGATGACTCGATGTATGCTTCATGAGAAGAATCTTTC
196 AGTGAAAGGAGGAACAGATTCATAATAGAGATGACTCGATGTATGCTTCATGAAAAGAATCTTTC
2898610 CAAAAGATTTTGGGGAGAAGCTGCAAACACTACTGTGTTCTTAC
261 CAAAAGATTTTGGGGAGAAGCTGCAAACACTACTGTGTTCTTAC
2898654 AAA
1 AAA
2898657 ATCAGATTTC
Statistics
Matches: 282, Mismatches: 24, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
304 278 0.99
305 4 0.01
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.27
Consensus pattern (304 bp):
AAACAAAAATCAAAAGTTGCTGGTGTCTTCTGGAAATTCAAAGCCAGAGTTGAGAATGAAAGTGG
ATGCATGAATCAGATTTTAAGATCTAATAATGGCAAGGAGTACAATTCAAAAACCTTTAATAGGT
TTTATGAAGAGGATGAAATTGAACATCAGTTGACGGTGCCATACACTCCACAACAAAATGGAGTC
AGTGAAAGGAGGAACAGATTCATAATAGAGATGACTCGATGTATGCTTCATGAAAAGAATCTTTC
CAAAAGATTTTGGGGAGAAGCTGCAAACACTACTGTGTTCTTAC
Found at i:2903496 original size:16 final size:17
Alignment explanation
Indices: 2903477--2903510 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
2903467 GACTCAAATT
2903477 TAATAACTCATAT-TAA
1 TAATAACTCATATGTAA
*
2903493 TAATAATTCATATGTAA
1 TAATAACTCATATGTAA
2903510 T
1 T
2903511 TAATTTAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (17 bp):
TAATAACTCATATGTAA
Found at i:2903676 original size:19 final size:17
Alignment explanation
Indices: 2903645--2903683 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
2903635 TACTCCACTA
*
2903645 ATATTATATTATATTTT
1 ATATTATATTATATATT
2903662 ATATATATATATATATATT
1 ATAT-TATAT-TATATATT
2903681 ATA
1 ATA
2903684 CCACAAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 5 0.26
19 10 0.53
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATATTATATTATATATT
Found at i:2905094 original size:151 final size:150
Alignment explanation
Indices: 2904189--2905091 Score: 1736
Period size: 150 Copynumber: 6.0 Consensus size: 150
2904179 CCCATGTTGG
*
2904189 ATGGATCCAATTAGGAATATTGAAAGACAAAGATGAAGACTTTTATAAAATCAATCGAGGAAAAG
1 ATGGATCCAATTAGGAATATTGAAAGACAAAGATGAAGACTTTTATAAAATCAATCGATGAAAAG
2904254 ACTCGGCGTGCAATTCTCATTGGAAGGGAACCTCTTGCAAGTTGCAACCAATTTCAAGGCTTTGA
66 ACTCGGCGTGCAATTCTCATTGGAAGGGAACCTCTTGCAAGTTGCAACCAATTTCAAGGCTTTGA
2904319 ATGCCATTTTGTGGAAGAAA
131 ATGCCATTTTGTGGAAGAAA
2904339 ATGGATCCAATTAGGAATATTGAAAGACAAAGATGAAGACTTTTATAAAATCAATCGATGAAAAG
1 ATGGATCCAATTAGGAATATTGAAAGACAAAGATGAAGACTTTTATAAAATCAATCGATGAAAAG
2904404 ACTCGGCGTGCAATTCTCATTGGAAGGGAACCTCTTGCAAGTTGCAACCAATTTCAAGGCTTTGA
66 ACTCGGCGTGCAATTCTCATTGGAAGGGAACCTCTTGCAAGTTGCAACCAATTTCAAGGCTTTGA
2904469 ATGCCATTTTGTGGAAGAAA
131 ATGCCATTTTGTGGAAGAAA
2904489 ATGGATCCAATTAGGAATATTGAAAGACAAAGATGAAGACTTTTATAAAATCAATCGATGAAAAG
1 ATGGATCCAATTAGGAATATTGAAAGACAAAGATGAAGACTTTTATAAAATCAATCGATGAAAAG
2904554 ACTCGGCGTGCAATTCTCATTGGAAGGGAACCTCTTGCAAGTTGCAACCAATTTCAAGGCTTTGA
66 ACTCGGCGTGCAATTCTCATTGGAAGGGAACCTCTTGCAAGTTGCAACCAATTTCAAGGCTTTGA
2904619 ATGCCATTTTGTGGAAGAAA
131 ATGCCATTTTGTGGAAGAAA
2904639 ATGGATCCAATTAGGAATATTGAAAGACAAAGATGAAGACTTTTATAAAATCAATCGATGAAAAG
1 ATGGATCCAATTAGGAATATTGAAAGACAAAGATGAAGACTTTTATAAAATCAATCGATGAAAAG
2904704 ACTCGGCGTGCAATTCTCATTGGAAGGGAACCTCTTGCAAGTTGCAACCAATTTCAAGGCTTTGA
66 ACTCGGCGTGCAATTCTCATTGGAAGGGAACCTCTTGCAAGTTGCAACCAATTTCAAGGCTTTGA
*
2904769 ATGCCAATTTGTGGAAGAAAA
131 ATGCCATTTTGTGGAAG-AAA
2904790 ATGGATCCAATTAGGAATATTGAAAGACAAAGATGAAGACTTTTATAAAATCAATCGATGAAAAG
1 ATGGATCCAATTAGGAATATTGAAAGACAAAGATGAAGACTTTTATAAAATCAATCGATGAAAAG
2904855 ACTCGGCGTGCAATTCTCATTGGAAGGGAACCTCTTGCAAGTTGCAACCAATTTCAAGGGCTTTG
66 ACTCGGCGTGCAATTCTCATTGGAAGGGAACCTCTTGCAAGTTGCAACCAATTTCAA-GGCTTTG
*
2904920 AATG-CAATTTGTGGAAGAAAA
130 AATGCCATTTTGTGGAAG-AAA
2904941 ATGGATCCAATTAGGAATATTGAAAGACAAAGATGAAGACTTTTATAAAATCAATCGATGAAAAG
1 ATGGATCCAATTAGGAATATTGAAAGACAAAGATGAAGACTTTTATAAAATCAATCGATGAAAAG
*
2905006 ACTCGGCGTGCAATTCTCATTGGAAGGGAACCTCTTGCAAGTTGTAACCAATTTCAAGGCTTTGA
66 ACTCGGCGTGCAATTCTCATTGGAAGGGAACCTCTTGCAAGTTGCAACCAATTTCAAGGCTTTGA
2905071 ATGCCATTTTGTGGAAGAAA
131 ATGCCATTTTGTGGAAGAAA
2905091 A
1 A
2905092 ATGTGATATT
Statistics
Matches: 746, Mismatches: 4, Indels: 6
0.99 0.01 0.01
Matches are distributed among these distances:
150 460 0.62
151 275 0.37
152 11 0.01
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.26
Consensus pattern (150 bp):
ATGGATCCAATTAGGAATATTGAAAGACAAAGATGAAGACTTTTATAAAATCAATCGATGAAAAG
ACTCGGCGTGCAATTCTCATTGGAAGGGAACCTCTTGCAAGTTGCAACCAATTTCAAGGCTTTGA
ATGCCATTTTGTGGAAGAAA
Found at i:2906316 original size:19 final size:19
Alignment explanation
Indices: 2906273--2906318 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
2906263 AATTTTATTT
*
2906273 AATTAT-TTAAAATTATAA
1 AATTATATTAAAATGATAA
2906291 AGA-TATATTAAAATGATAA
1 A-ATTATATTAAAATGATAA
2906310 AATTATATT
1 AATTATATT
2906319 TTTAGTATCG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (19 bp):
AATTATATTAAAATGATAA
Found at i:2907902 original size:16 final size:16
Alignment explanation
Indices: 2907856--2907905 Score: 75
Period size: 16 Copynumber: 3.1 Consensus size: 16
2907846 AAGCCAAATT
2907856 AAAATAAGAGGAA-ATG
1 AAAATAAGAGGAAGA-G
2907872 AAAATAGAGAGGAAGAG
1 AAAATA-AGAGGAAGAG
2907889 AAAATAAGAGGAAGAG
1 AAAATAAGAGGAAGAG
2907905 A
1 A
2907906 GTGTACCATG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
16 17 0.53
17 14 0.44
18 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.30, T:0.08
Consensus pattern (16 bp):
AAAATAAGAGGAAGAG
Found at i:2929757 original size:19 final size:19
Alignment explanation
Indices: 2929713--2929783 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 19
2929703 TATTTTGATA
*
2929713 TTAACTTGTTTTGAAACAGTT
1 TTAACTTG-ATTGAAACA-TT
2929734 TTAACTTGATTGAAA-ATGT
1 TTAACTTGATTGAAACAT-T
**
2929753 TTAACTCAATTGAAACCATT
1 TTAACTTGATTGAAA-CATT
2929773 TTAACTTGATT
1 TTAACTTGATT
2929784 TTATCATTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
18 1 0.02
19 15 0.36
20 16 0.38
21 10 0.24
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.44
Consensus pattern (19 bp):
TTAACTTGATTGAAACATT
Found at i:2939135 original size:29 final size:31
Alignment explanation
Indices: 2939077--2939135 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 31
2939067 ATATATAAAT
*
2939077 TTTAATTTAATGTATAATTATATACATGAAC
1 TTTAATTTAATGTATAATTATACACATGAAC
* *
2939108 TTTAATTT-A-GTGTAATTATACACGTGAA
1 TTTAATTTAATGTATAATTATACACATGAA
2939136 ATTCTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 16 0.64
30 1 0.04
31 8 0.32
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (31 bp):
TTTAATTTAATGTATAATTATACACATGAAC
Found at i:2940106 original size:27 final size:29
Alignment explanation
Indices: 2940076--2940132 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
2940066 TAAGAATTGA
*
2940076 ATTAAAT-A-AATTAAAATTCATATACAC
1 ATTAAATCATAATTAAAATCCATATACAC
*
2940103 ATTAAATCATATTTAAAATCCATATACAC
1 ATTAAATCATAATTAAAATCCATATACAC
2940132 A
1 A
2940133 AAATTAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 7 0.27
28 1 0.04
29 18 0.69
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (29 bp):
ATTAAATCATAATTAAAATCCATATACAC
Found at i:2942886 original size:30 final size:30
Alignment explanation
Indices: 2942853--2942978 Score: 150
Period size: 30 Copynumber: 4.2 Consensus size: 30
2942843 TTTTATTTTG
*
2942853 CATTTTGACCCCTAAACTTTTCTAAAATTG
1 CATTTTGACCCCTAAACTTTTCTAAAATTA
2942883 CATTTTGACCCCTAAAC-TTTCTCAAAATTA
1 CATTTTGACCCCTAAACTTTTCT-AAAATTA
* *
2942913 TATTTAT-ACACCTAAACTTTTCT-AAATTA
1 CATTT-TGACCCCTAAACTTTTCTAAAATTA
* * * *
2942942 CATTTGGGCCCCTAAACTTTCCAAAAATTA
1 CATTTTGACCCCTAAACTTTTCTAAAATTA
2942972 CATTTTG
1 CATTTTG
2942979 GCCTCATATT
Statistics
Matches: 81, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
29 27 0.33
30 48 0.59
31 6 0.07
ACGTcount: A:0.33, C:0.23, G:0.06, T:0.39
Consensus pattern (30 bp):
CATTTTGACCCCTAAACTTTTCTAAAATTA
Found at i:2942956 original size:59 final size:60
Alignment explanation
Indices: 2942863--2942976 Score: 169
Period size: 59 Copynumber: 1.9 Consensus size: 60
2942853 CATTTTGACC
* * *
2942863 CCTAAACTTTTCTAAAATTGCATTTTGACCCCTAAACTTTCTC-AAAATTATATTTATACA
1 CCTAAACTTTTCTAAAATTACATTTGGACCCCTAAACTTTC-CAAAAATTACATTTATACA
*
2942923 CCTAAACTTTTCT-AAATTACATTTGGGCCCCTAAACTTTCCAAAAATTACATTT
1 CCTAAACTTTTCTAAAATTACATTTGGACCCCTAAACTTTCCAAAAATTACATTT
2942977 TGGCCTCATA
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
58 1 0.02
59 35 0.71
60 13 0.27
ACGTcount: A:0.34, C:0.23, G:0.04, T:0.39
Consensus pattern (60 bp):
CCTAAACTTTTCTAAAATTACATTTGGACCCCTAAACTTTCCAAAAATTACATTTATACA
Found at i:2943345 original size:25 final size:25
Alignment explanation
Indices: 2943329--2943377 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
2943319 AACAAGCATA
2943329 AACAAAAAAACAGCAAACAAGAAAC
1 AACAAAAAAACAGCAAACAAGAAAC
*
2943354 AACAAAAAAACAGCAAAGAAGAAA
1 AACAAAAAAACAGCAAACAAGAAA
2943378 AAGGAGAGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.73, C:0.16, G:0.10, T:0.00
Consensus pattern (25 bp):
AACAAAAAAACAGCAAACAAGAAAC
Found at i:2943537 original size:17 final size:18
Alignment explanation
Indices: 2943512--2943562 Score: 70
Period size: 17 Copynumber: 2.9 Consensus size: 18
2943502 AGAAAAGAAA
*
2943512 AAAGAAAAA-AAAGAGGG
1 AAAGAAAAAGAAAGAAGG
*
2943529 AAGGAAAAAGAAA-AAGG
1 AAAGAAAAAGAAAGAAGG
2943546 AAAGAAAAAGAAAGAAG
1 AAAGAAAAAGAAAGAAG
2943563 AAAAAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 23 0.79
18 6 0.21
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (18 bp):
AAAGAAAAAGAAAGAAGG
Found at i:2943565 original size:17 final size:17
Alignment explanation
Indices: 2943505--2943569 Score: 64
Period size: 17 Copynumber: 3.9 Consensus size: 17
2943495 ACGAAGAAGA
*
2943505 AAAGAAAAAAGAAAAA-
1 AAAGAAGAAAGAAAAAG
* *
2943521 AAAGAGGGAAGGAAAAAG
1 AAAGA-AGAAAGAAAAAG
2943539 AAA-AAGGAAAGAAAAAG
1 AAAGAA-GAAAGAAAAAG
2943556 AAAGAAGAAA-AAAA
1 AAAGAAGAAAGAAAA
2943570 TTTAAAACAG
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
16 9 0.22
17 26 0.65
18 5 0.12
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (17 bp):
AAAGAAGAAAGAAAAAG
Found at i:2943568 original size:31 final size:30
Alignment explanation
Indices: 2943497--2943568 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 30
2943487 GGGGCCGAAC
**
2943497 GAAGAAGAAAAGAAAAAAGAAAAAAAAGAGG
1 GAAGAA-AAAAGAAAAAAGAAAAAAAAGAAA
* *
2943528 GAAGGAAAAAGAAAAAGGAAAGAAAAAGAAA
1 GAAGAAAAAAGAAAAAAGAAA-AAAAAGAAA
2943559 GAAGAAAAAA
1 GAAGAAAAAA
2943569 ATTTAAAACA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 14 0.40
31 21 0.60
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (30 bp):
GAAGAAAAAAGAAAAAAGAAAAAAAAGAAA
Found at i:2944048 original size:17 final size:17
Alignment explanation
Indices: 2944023--2944073 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
2944013 ATCGCATATT
2944023 TTTAAGTTTTT-TTTGTA
1 TTTAAGTTTTTATTT-TA
*
2944040 TTTATGTTTTTATTTTA
1 TTTAAGTTTTTATTTTA
*
2944057 TTTTA--TTTTATTTTA
1 TTTAAGTTTTTATTTTA
2944072 TT
1 TT
2944074 CGTTAAAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 12 0.40
17 15 0.50
18 3 0.10
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (17 bp):
TTTAAGTTTTTATTTTA
Found at i:2944057 original size:5 final size:5
Alignment explanation
Indices: 2944047--2944073 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
2944037 GTATTTATGT
2944047 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
2944074 CGTTAAAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:2944401 original size:18 final size:18
Alignment explanation
Indices: 2944378--2944423 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
2944368 AAACTAATTG
2944378 TGTTTCAAAAATTT-TCA
1 TGTTTCAAAAATTTCTCA
*
2944395 TGTTTTC-AAAATTTCTCG
1 TG-TTTCAAAAATTTCTCA
2944413 TGTTTCAAAAA
1 TGTTTCAAAAA
2944424 AATAATACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.46
Consensus pattern (18 bp):
TGTTTCAAAAATTTCTCA
Found at i:2944630 original size:37 final size:36
Alignment explanation
Indices: 2944480--2944706 Score: 144
Period size: 37 Copynumber: 6.2 Consensus size: 36
2944470 TTCGTATTTC
* *
2944480 AAAAATTTCCGTGTTTTTAAAAATTTCCGTGTTTT--A
1 AAAAATTTCC-TG-TTTTATAAATTTTCGTGTTTTCAA
* * * *
2944516 AAAATTTTCGTGTTTTCAAAAAATTTCCCGTGTTTTC--
1 AAAAATTTCCTGTTTT--ATAAATTT-TCGTGTTTTCAA
* * ** * *
2944553 AAAAATTCTCGTATTTCGT-AACTTTCTTGTTTTCAGA
1 AAAAATT-TCCTGTTTTATAAATTTTCGTGTTTTCA-A
2944590 AAAAATTTCCATGTTTTATAAATTTTCGTGTTTTCAA
1 AAAAATTTCC-TGTTTTATAAATTTTCGTGTTTTCAA
* *
2944627 AAAAA-TTCCTGTCTTTTAAAAATTTTTGTGTTTTCAA
1 AAAAATTTCCTG--TTTTATAAATTTTCGTGTTTTCAA
* * *
2944664 AAAAATTGACCGTGTTTCATAAATTTCCGTG-TTTCAA
1 AAAAATT-TCC-TGTTTTATAAATTTTCGTGTTTTCAA
2944701 AAAAAT
1 AAAAAT
2944707 CCTCGTGTTT
Statistics
Matches: 153, Mismatches: 23, Indels: 29
0.75 0.11 0.14
Matches are distributed among these distances:
34 12 0.08
35 8 0.05
36 22 0.14
37 72 0.47
38 35 0.23
39 2 0.01
40 2 0.01
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.45
Consensus pattern (36 bp):
AAAAATTTCCTGTTTTATAAATTTTCGTGTTTTCAA
Found at i:2944665 original size:18 final size:18
Alignment explanation
Indices: 2944476--2944703 Score: 157
Period size: 17 Copynumber: 12.5 Consensus size: 18
2944466 AAACTTCGTA
2944476 TTTCAAAAATTTCCGTGT
1 TTTCAAAAATTTCCGTGT
*
2944494 TTTTAAAAATTTCCGTGT
1 TTTCAAAAATTTCCGTGT
*
2944512 TTT-AAAAATTTTCGTGT
1 TTTCAAAAATTTCCGTGT
2944529 TTTCAAAAAATTTCCCGTGT
1 TTTC-AAAAATTT-CCGTGT
*
2944549 TTTCAAAAA-TTCTCGT-A
1 TTTCAAAAATTTC-CGTGT
** * *
2944566 TTTCGTAACTTT-CTTGT
1 TTTCAAAAATTTCCGTGT
*
2944583 TTTCAGAAAAAATTTCCATGT
1 TTTC---AAAAATTTCCGTGT
* *
2944604 TTT-ATAAATTTTCGTGT
1 TTTCAAAAATTTCCGTGT
*
2944621 TTTCAAAAAAATTCC-TGT
1 TTTC-AAAAATTTCCGTGT
* **
2944639 CTTTTAAAAATTTTTGTGT
1 -TTTCAAAAATTTCCGTGT
*
2944658 TTTCAAAAAAATTGACCGTG-
1 TTTC--AAAAATT-TCCGTGT
*
2944678 TTTCATAAATTTCCGTG-
1 TTTCAAAAATTTCCGTGT
2944695 TTTCAAAAA
1 TTTCAAAAA
2944704 AATCCTCGTG
Statistics
Matches: 163, Mismatches: 30, Indels: 35
0.71 0.13 0.15
Matches are distributed among these distances:
16 2 0.01
17 54 0.33
18 46 0.28
19 26 0.16
20 25 0.15
21 10 0.06
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.46
Consensus pattern (18 bp):
TTTCAAAAATTTCCGTGT
Found at i:2944791 original size:20 final size:21
Alignment explanation
Indices: 2944728--2944792 Score: 64
Period size: 22 Copynumber: 3.2 Consensus size: 21
2944718 ATAATTTATC
* * *
2944728 AAAATTTTTGTGTTCTCAAAA
1 AAAATTATCGTGTTTTCAAAA
*
2944749 TAAAATTATTGTGTTTT--AAA
1 -AAAATTATCGTGTTTTCAAAA
2944769 AAAATT-TCGTGTTTTCAAAA
1 AAAATTATCGTGTTTTCAAAA
2944789 AAAA
1 AAAA
2944793 AAGTTGTGCT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
18 8 0.21
19 6 0.16
20 10 0.26
22 14 0.37
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.42
Consensus pattern (21 bp):
AAAATTATCGTGTTTTCAAAA
Found at i:2952224 original size:14 final size:14
Alignment explanation
Indices: 2952207--2952233 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2952197 CTTTTAAGAA
2952207 TTATATTTTTCAAT
1 TTATATTTTTCAAT
2952221 TTATATTTTTCAA
1 TTATATTTTTCAA
2952234 AAAAATCAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (14 bp):
TTATATTTTTCAAT
Found at i:2952345 original size:75 final size:75
Alignment explanation
Indices: 2952236--2952729 Score: 817
Period size: 75 Copynumber: 6.5 Consensus size: 75
2952226 TTTTTCAAAA
* * * *
2952236 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCATGCTAAGGTATTTCTTTTAAATT
1 AAATCAACTCATAATACGATAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTCTTTTAAATT
2952301 TCTGTTTTTT
66 TCTGTTTTTT
2952311 AAATCAACTCATAATACGATAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTCTTTTAAATT
1 AAATCAACTCATAATACGATAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTCTTTTAAATT
2952376 TCTGTTTTTT
66 TCTGTTTTTT
2952386 AAATCAACTCATAATACGATAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTCTTTTAAATT
1 AAATCAACTCATAATACGATAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTCTTTTAAATT
2952451 TCTGTTTTTT
66 TCTGTTTTTT
2952461 AAATCAACTCATAATACGATAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTCTTTTAAATT
1 AAATCAACTCATAATACGATAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTCTTTTAAATT
2952526 TCTGTTTTTT
66 TCTGTTTTTT
2952536 AAATCAACTCATAATACGATAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTCTTTTAAATT
1 AAATCAACTCATAATACGATAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTCTTTTAAATT
**
2952601 TCTGTTTTCAA
66 TCTGTTTT-TT
* * * ** *
2952612 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCACGCTGAGGTATTTTTTTTAAATT
1 AAATCAACTCATAATACGATAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTCTTTTAAATT
*
2952677 TCTGTTTTTCAA
66 TCTGTTTTT--T
* * *
2952689 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
1 AAATCAACTCATAATACGATAGGTGAGTTGAGCCTCGGGTC
2952730 GCATGCCGAG
Statistics
Matches: 401, Mismatches: 15, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
75 294 0.73
76 67 0.17
77 40 0.10
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (75 bp):
AAATCAACTCATAATACGATAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTCTTTTAAATT
TCTGTTTTTT
Found at i:2952955 original size:30 final size:30
Alignment explanation
Indices: 2952924--2953049 Score: 134
Period size: 30 Copynumber: 4.2 Consensus size: 30
2952914 TTTATTTTTG
*
2952924 CATTTTGACCCCTAAACTTTTCTAAAATTG
1 CATTTTGACCCCTAAACTTTTCTAAAATTA
*
2952954 CATTTTGACCCTTAAAC-TTTCTTAAAATTA
1 CATTTTGACCCCTAAACTTTTC-TAAAATTA
2952984 CATTTAT-ACCCCTAAACTTTTCT-AAATTA
1 CATTT-TGACCCCTAAACTTTTCTAAAATTA
* * * * *
2953013 CATCTGGGCCCTTAAAC-TTTCCAAAATTTA
1 CATTTTGACCCCTAAACTTTTCTAAAA-TTA
2953043 CATTTTG
1 CATTTTG
2953050 GCCTCATATT
Statistics
Matches: 80, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
28 4 0.05
29 25 0.31
30 46 0.57
31 5 0.06
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.40
Consensus pattern (30 bp):
CATTTTGACCCCTAAACTTTTCTAAAATTA
Found at i:2953044 original size:59 final size:60
Alignment explanation
Indices: 2952931--2953047 Score: 166
Period size: 59 Copynumber: 2.0 Consensus size: 60
2952921 TTGCATTTTG
* * * *
2952931 ACCCCTAAACTTTTCTAAAATTGCATTTTGACCCTTAAACTTTCTTAAAATTACATTTAT
1 ACCCCTAAACTTTTCTAAAATTACATCTGGACCCTTAAACTTTCTCAAAATTACATTTAT
*
2952991 ACCCCTAAACTTTTCT-AAATTACATCTGGGCCCTTAAACTTTC-CAAAATTTACATTT
1 ACCCCTAAACTTTTCTAAAATTACATCTGGACCCTTAAACTTTCTCAAAA-TTACATTT
2953048 TGGCCTCATA
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
58 4 0.08
59 31 0.61
60 16 0.31
ACGTcount: A:0.32, C:0.24, G:0.04, T:0.39
Consensus pattern (60 bp):
ACCCCTAAACTTTTCTAAAATTACATCTGGACCCTTAAACTTTCTCAAAATTACATTTAT
Found at i:2953445 original size:24 final size:24
Alignment explanation
Indices: 2953411--2953461 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
2953401 AAGCAAGCAT
2953411 AAACAAAAAAAAACAGCAAACAAG
1 AAACAAAAAAAAACAGCAAACAAG
* *
2953435 AAACAACAAAAAACAGCAAAGAAG
1 AAACAAAAAAAAACAGCAAACAAG
2953459 AAA
1 AAA
2953462 AAGGAGAGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.75, C:0.16, G:0.10, T:0.00
Consensus pattern (24 bp):
AAACAAAAAAAAACAGCAAACAAG
Found at i:2953650 original size:30 final size:29
Alignment explanation
Indices: 2953582--2953650 Score: 70
Period size: 30 Copynumber: 2.3 Consensus size: 29
2953572 GGGCCGAACG
2953582 AAGAAG-AAAAGAAAAAATAAAAAAAAGA
1 AAGAAGAAAAAGAAAAAATAAAAAAAAGA
** *
2953610 GGGAAGGAAAAAG-AAAAATGAAAGAAAAGGA
1 AAGAA-GAAAAAGAAAAAAT-AAA-AAAAAGA
2953641 AAGAAGAAAA
1 AAGAAGAAAA
2953651 TTTTTTTAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
28 3 0.09
29 7 0.22
30 13 0.41
31 9 0.28
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.03
Consensus pattern (29 bp):
AAGAAGAAAAAGAAAAAATAAAAAAAAGA
Found at i:2954033 original size:237 final size:237
Alignment explanation
Indices: 2953618--2954089 Score: 926
Period size: 237 Copynumber: 2.0 Consensus size: 237
2953608 GAGGGAAGGA
2953618 AAAAGAAAAATGAAAGAAAAGGAAAGAAGAAAATTTTTTTAAAAAGTCGGGTCGACCCGACCCGA
1 AAAAGAAAAATGAAAGAAAAGGAAAGAAGAAAATTTTTTTAAAAAGTCGGGTCGACCCGACCCGA
2953683 ACTGATCCACACCCGACCACCGACCCGACCCAGCGCCCAGTAGCTGACCCGACCCAGCAGGCCAG
66 ACTGATCCACACCCGACCACCGACCCGACCCAGCGCCCAGTAGCTGACCCGACCCAGCAGGCCAG
2953748 CCAGCCAGCCAGCAGCACCCCCAGTAGGCCAGCACTCAGCCAGCAGGCCCAGCCGCAGGCTTACT
131 CCAGCCAGCCAGCAGCACCCCCAGTAGGCCAGCACTCAGCCAGCAGGCCCAGCCGCAGGCTTACT
2953813 CCAGTCCAGGCCCAGCAGAGCCTAGCAGGCCAGCCCAGCACG
196 CCAGTCCAGGCCCAGCAGAGCCTAGCAGGCCAGCCCAGCACG
2953855 AAAAGAAAAATGAAAGAAAAGGAAAGAAGAAAATTTTTTTAAAAAGTCGGGTCGACCCGACCCGA
1 AAAAGAAAAATGAAAGAAAAGGAAAGAAGAAAATTTTTTTAAAAAGTCGGGTCGACCCGACCCGA
2953920 ACTGATCCACACCCGACCACCGACCCGACCCAGCGCCCAGTAGCTGACCCGACCCAGCAGGCCAG
66 ACTGATCCACACCCGACCACCGACCCGACCCAGCGCCCAGTAGCTGACCCGACCCAGCAGGCCAG
*
2953985 CCAGCCAGCCAGCAGCACCCCCAGTAGGCCAGCATTCAGCCAGCAGGCCCAGCCGCAGGCTTACT
131 CCAGCCAGCCAGCAGCACCCCCAGTAGGCCAGCACTCAGCCAGCAGGCCCAGCCGCAGGCTTACT
*
2954050 CCAGTCCAGGCCCAGCAGCGCCTAGCAGGCCAGCCCAGCA
196 CCAGTCCAGGCCCAGCAGAGCCTAGCAGGCCAGCCCAGCA
2954090 AGCAGTCCAG
Statistics
Matches: 233, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
237 233 1.00
ACGTcount: A:0.31, C:0.36, G:0.24, T:0.09
Consensus pattern (237 bp):
AAAAGAAAAATGAAAGAAAAGGAAAGAAGAAAATTTTTTTAAAAAGTCGGGTCGACCCGACCCGA
ACTGATCCACACCCGACCACCGACCCGACCCAGCGCCCAGTAGCTGACCCGACCCAGCAGGCCAG
CCAGCCAGCCAGCAGCACCCCCAGTAGGCCAGCACTCAGCCAGCAGGCCCAGCCGCAGGCTTACT
CCAGTCCAGGCCCAGCAGAGCCTAGCAGGCCAGCCCAGCACG
Found at i:2954372 original size:17 final size:17
Alignment explanation
Indices: 2954347--2954397 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
2954337 ATCGCATATT
2954347 TTTAAGTTTTT-TTTGTA
1 TTTAAGTTTTTATTT-TA
*
2954364 TTTATGTTTTTATTTTA
1 TTTAAGTTTTTATTTTA
*
2954381 TTTTA--TTTTATTTTA
1 TTTAAGTTTTTATTTTA
2954396 TT
1 TT
2954398 CGTTAAAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 12 0.40
17 15 0.50
18 3 0.10
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (17 bp):
TTTAAGTTTTTATTTTA
Found at i:2954381 original size:5 final size:5
Alignment explanation
Indices: 2954371--2954397 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
2954361 GTATTTATGT
2954371 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
2954398 CGTTAAAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:2954723 original size:18 final size:18
Alignment explanation
Indices: 2954700--2954745 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
2954690 AAACTAATTG
2954700 TGTTTCAAAAATTT-TCA
1 TGTTTCAAAAATTTCTCA
*
2954717 TGTTTTC-AAAATTTCTCG
1 TG-TTTCAAAAATTTCTCA
2954735 TGTTTCAAAAA
1 TGTTTCAAAAA
2954746 AATAATACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.46
Consensus pattern (18 bp):
TGTTTCAAAAATTTCTCA
Found at i:2954814 original size:17 final size:17
Alignment explanation
Indices: 2954794--2955006 Score: 106
Period size: 17 Copynumber: 11.8 Consensus size: 17
2954784 AAAAAAACTT
2954794 CGTGTTTCAAAAATTTC
1 CGTGTTTCAAAAATTTC
* *
2954811 CGTGTTTTAAAAATTTT
1 CGTGTTTCAAAAATTTC
2954828 CGTGTTTTCAAAAAATTTCC
1 CGTG-TTTC-AAAAATTT-C
2954848 CGTGTTTTCAAAAA-TTC
1 CGTG-TTTCAAAAATTTC
* ** *
2954865 TCGTATTTC-GTAATTTT
1 -CGTGTTTCAAAAATTTC
*
2954882 CTTGTTTTCAGAAAAATTTC
1 CGTG-TTTC--AAAAATTTC
* * *
2954902 CATGTTTTATAAATTTC
1 CGTGTTTCAAAAATTTC
*
2954919 CGTGTTTTCAAAAAAATTC
1 CGTG-TTTC-AAAAATTTC
* * * *
2954938 TTGTCTTTTAAAAATTTT
1 -CGTGTTTCAAAAATTTC
* * *
2954956 TGTGTTTTAAAAAAAATTGAC
1 CGTG-TTT--CAAAAATT-TC
*
2954977 CGTGTTTCATAAATTTC
1 CGTGTTTCAAAAATTTC
2954994 CGTGTTTCAAAAA
1 CGTGTTTCAAAAA
2955007 AATCTTCGTG
Statistics
Matches: 146, Mismatches: 34, Indels: 32
0.69 0.16 0.15
Matches are distributed among these distances:
16 4 0.03
17 57 0.39
18 27 0.18
19 26 0.18
20 29 0.20
21 3 0.02
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.46
Consensus pattern (17 bp):
CGTGTTTCAAAAATTTC
Found at i:2954852 original size:54 final size:54
Alignment explanation
Indices: 2954786--2954932 Score: 149
Period size: 54 Copynumber: 2.7 Consensus size: 54
2954776 TCTGTTTAAA
*
2954786 AAAAACTT-CGTGTTTCAAAAATTTCCGTGTTTTAAAAATTTTCGTGTTTTCA-
1 AAAAATTTCCGTGTTTCAAAAATTTCCGTGTTTTAAAAATTTTCGTGTTTTCAG
* *** *
2954838 AAAAATTTCCCGTGTTTTCAAAAA-TTCTCGT-ATTTCGTAATTTTCTTGTTTTCAG
1 AAAAATTT-CCGTG-TTTCAAAAATTTC-CGTGTTTTAAAAATTTTCGTGTTTTCAG
* * *
2954893 AAAAATTTCCATGTTTTATAAATTTCCGTGTTTTCAAAAA
1 AAAAATTTCCGTGTTTCAAAAATTTCCGTGTTTT-AAAAA
2954933 AATTCTTGTC
Statistics
Matches: 74, Mismatches: 13, Indels: 13
0.74 0.13 0.13
Matches are distributed among these distances:
52 7 0.09
53 10 0.14
54 35 0.47
55 22 0.30
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.45
Consensus pattern (54 bp):
AAAAATTTCCGTGTTTCAAAAATTTCCGTGTTTTAAAAATTTTCGTGTTTTCAG
Found at i:2955022 original size:36 final size:37
Alignment explanation
Indices: 2954783--2955024 Score: 180
Period size: 37 Copynumber: 6.6 Consensus size: 37
2954773 TATTCTGTTT
* *
2954783 AAAAAAAACTTCGTGTTTCAAAAATTTCCGTGTTTT-
1 AAAAAAATCTTCGTGTTTCATAAATTTCCGTGTTTTC
* *
2954819 --AAAAATTTTCGTGTTTTCAAAAAATTTCCCGTGTTTTC
1 AAAAAAATCTTCGTG-TTTC-ATAAATTT-CCGTGTTTTC
* * * * *
2954857 -AAAAATTC-TCGTATTTCGT-AATTTTCTTGTTTTC
1 AAAAAAATCTTCGTGTTTCATAAATTTCCGTGTTTTC
* * *
2954891 AGAAAAAT-TTCCATGTTTTATAAATTTCCGTGTTTTC
1 AAAAAAATCTT-CGTGTTTCATAAATTTCCGTGTTTTC
* * * ** *
2954928 AAAAAAATTCTT-GTCTTTTAAAAATTTTTGTGTTTTA
1 AAAAAAA-TCTTCGTGTTTCATAAATTTCCGTGTTTTC
*
2954965 AAAAAAAT-TGACCGTGTTTCATAAATTTCCGTG-TTTC
1 AAAAAAATCT--TCGTGTTTCATAAATTTCCGTGTTTTC
2955002 AAAAAAATCTTCGTGTTTCATAA
1 AAAAAAATCTTCGTGTTTCATAA
2955025 TTTATCAAAA
Statistics
Matches: 159, Mismatches: 32, Indels: 30
0.72 0.14 0.14
Matches are distributed among these distances:
34 19 0.12
35 16 0.10
36 27 0.17
37 69 0.43
38 21 0.13
39 7 0.04
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.44
Consensus pattern (37 bp):
AAAAAAATCTTCGTGTTTCATAAATTTCCGTGTTTTC
Found at i:2955112 original size:18 final size:18
Alignment explanation
Indices: 2955072--2955132 Score: 63
Period size: 19 Copynumber: 3.4 Consensus size: 18
2955062 TATTTTTAAA
*
2955072 AAAAAAAATTCGTGTTTT
1 AAAAAAATTTCGTGTTTT
* *
2955090 --TAAAATTATTGTGTTTT
1 AAAAAAATT-TCGTGTTTT
2955107 AAAAAAATTTCGTGTTTT
1 AAAAAAATTTCGTGTTTT
2955125 CAAAAAAA
1 -AAAAAAA
2955133 AAAAGTTGTG
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
16 5 0.15
17 8 0.24
18 8 0.24
19 13 0.38
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (18 bp):
AAAAAAATTTCGTGTTTT
Found at i:2955129 original size:17 final size:16
Alignment explanation
Indices: 2955074--2955130 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 16
2955064 TTTTTAAAAA
*
2955074 AAAAAATTCGTGTTTT
1 AAAAATTTCGTGTTTT
* *
2955090 TAAAATTATTGTGTTTT
1 AAAAATT-TCGTGTTTT
2955107 AAAAAAATTTCGTGTTTT
1 --AAAAATTTCGTGTTTT
2955125 CAAAAA
1 -AAAAA
2955131 AAAAAAGTTG
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
16 5 0.16
17 13 0.41
18 8 0.25
19 6 0.19
ACGTcount: A:0.40, C:0.05, G:0.11, T:0.44
Consensus pattern (16 bp):
AAAAATTTCGTGTTTT
Found at i:2955146 original size:21 final size:23
Alignment explanation
Indices: 2955107--2955150 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
2955097 ATTGTGTTTT
*
2955107 AAAAAAATTTCGTGTTTTCAAAA
1 AAAAAAAGTTCGTGTTTTCAAAA
2955130 AAAAAAAGTT-GTG-TTTCAAAA
1 AAAAAAAGTTCGTGTTTTCAAAA
2955151 TTATCGTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 8 0.40
22 3 0.15
23 9 0.45
ACGTcount: A:0.50, C:0.07, G:0.11, T:0.32
Consensus pattern (23 bp):
AAAAAAAGTTCGTGTTTTCAAAA
Found at i:2955160 original size:56 final size:57
Alignment explanation
Indices: 2955053--2955164 Score: 156
Period size: 57 Copynumber: 2.0 Consensus size: 57
2955043 TTCTCAAAAT
* * * *
2955053 AAAATTTTGTATTTTTAAAAAAAAAAATTCGTGTTTTTAAAATTATTGTGTTTTAAA
1 AAAATTTCGTATTTTCAAAAAAAAAAATTCGTGTTTTCAAAATTATCGTGTTTTAAA
*
2955110 AAAATTTCGTGTTTTCAAAAAAAAAAAGTT-GTG-TTTCAAAATTATCGTGTTTTAA
1 AAAATTTCGTATTTTCAAAAAAAAAAA-TTCGTGTTTTCAAAATTATCGTGTTTTAA
2955165 CTGGATCAAG
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
56 20 0.41
57 27 0.55
58 2 0.04
ACGTcount: A:0.41, C:0.04, G:0.11, T:0.44
Consensus pattern (57 bp):
AAAATTTCGTATTTTCAAAAAAAAAAATTCGTGTTTTCAAAATTATCGTGTTTTAAA
Found at i:2955753 original size:21 final size:20
Alignment explanation
Indices: 2955724--2955762 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2955714 GCTTTAAAAG
* *
2955724 TAAATAAACATAATAAAAGAA
1 TAAAGAAAC-TAAAAAAAGAA
2955745 TAAAGAAACTAAAAAAAG
1 TAAAGAAACTAAAAAAAG
2955763 TTAAAAGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.72, C:0.05, G:0.08, T:0.15
Consensus pattern (20 bp):
TAAAGAAACTAAAAAAAGAA
Found at i:2956824 original size:28 final size:29
Alignment explanation
Indices: 2956779--2956835 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 29
2956769 ACTACTGTTA
2956779 CTGTTACCGATTCAGCACTTTGTGTGTCG
1 CTGTTACCGATTCAGCACTTTGTGTGTCG
*
2956808 CTGTTA-CGATTCGGCACTTTGTGTGTCG
1 CTGTTACCGATTCAGCACTTTGTGTGTCG
2956836 AATACTGTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 21 0.78
29 6 0.22
ACGTcount: A:0.12, C:0.23, G:0.26, T:0.39
Consensus pattern (29 bp):
CTGTTACCGATTCAGCACTTTGTGTGTCG
Found at i:2957915 original size:12 final size:11
Alignment explanation
Indices: 2957887--2957921 Score: 54
Period size: 10 Copynumber: 3.2 Consensus size: 11
2957877 TTTTGAATAA
2957887 AATATTTTTTT
1 AATATTTTTTT
2957898 -ATATTTTTTT
1 AATATTTTTTT
2957908 AATAATTTTTTT
1 AAT-ATTTTTTT
2957920 AA
1 AA
2957922 AAAAATACGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.45
11 2 0.09
12 10 0.45
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
AATATTTTTTT
Found at i:2958164 original size:30 final size:30
Alignment explanation
Indices: 2958110--2958197 Score: 79
Period size: 30 Copynumber: 2.8 Consensus size: 30
2958100 GAATATTGTA
*
2958110 ATTATTTTATAATTAATTTGTTAGTAATTTAGG
1 ATTATTTTAT-A--AATTTATTAGTAATTTAGG
* **
2958143 ATTATTTTATAAATTTATTAGTAACTTATT
1 ATTATTTTATAAATTTATTAGTAATTTAGG
* *
2958173 AGTAATTTTAT-AATTTATTACTAAT
1 A-TTATTTTATAAATTTATTAGTAAT
2958198 AAATTGAATT
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
30 28 0.60
31 8 0.17
32 1 0.02
33 10 0.21
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (30 bp):
ATTATTTTATAAATTTATTAGTAATTTAGG
Found at i:2958252 original size:19 final size:19
Alignment explanation
Indices: 2958228--2958279 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
2958218 ACAAACACAA
2958228 AAATTTATAACATAATCCT
1 AAATTTATAACATAATCCT
2958247 AAATTTATAACATAATCCT
1 AAATTTATAACATAATCCT
2958266 AAATTT-TAA-ATAAT
1 AAATTTATAACATAAT
2958280 TTGTATGAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.15
18 3 0.09
19 25 0.76
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATTTATAACATAATCCT
Found at i:2958514 original size:19 final size:19
Alignment explanation
Indices: 2958490--2958530 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
2958480 ACAAACACAA
*
2958490 AAATTTATAACATAATCCT
1 AAATTTATAACATAACCCT
2958509 AAATTTATAACATAACCCT
1 AAATTTATAACATAACCCT
2958528 AAA
1 AAA
2958531 CCCGAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (19 bp):
AAATTTATAACATAACCCT
Found at i:2958591 original size:27 final size:27
Alignment explanation
Indices: 2958547--2958622 Score: 125
Period size: 27 Copynumber: 2.8 Consensus size: 27
2958537 AAAATCAAAG
2958547 CATTGGCGCCTCCCAGATAGGCACCAC
1 CATTGGCGCCTCCCAGATAGGCACCAC
* *
2958574 CGTTGGCGCCTCCTAGATAGGCACCAC
1 CATTGGCGCCTCCCAGATAGGCACCAC
*
2958601 CATTGGCGCCTCCCAAATAGGC
1 CATTGGCGCCTCCCAGATAGGC
2958623 GCCAATACTA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.21, C:0.38, G:0.24, T:0.17
Consensus pattern (27 bp):
CATTGGCGCCTCCCAGATAGGCACCAC
Found at i:2964360 original size:41 final size:41
Alignment explanation
Indices: 2964303--2964467 Score: 330
Period size: 41 Copynumber: 4.0 Consensus size: 41
2964293 TAACACAGTG
2964303 ATTAATTTATTCAATGGCTAATCATGATATGATCCATGCAC
1 ATTAATTTATTCAATGGCTAATCATGATATGATCCATGCAC
2964344 ATTAATTTATTCAATGGCTAATCATGATATGATCCATGCAC
1 ATTAATTTATTCAATGGCTAATCATGATATGATCCATGCAC
2964385 ATTAATTTATTCAATGGCTAATCATGATATGATCCATGCAC
1 ATTAATTTATTCAATGGCTAATCATGATATGATCCATGCAC
2964426 ATTAATTTATTCAATGGCTAATCATGATATGATCCATGCAC
1 ATTAATTTATTCAATGGCTAATCATGATATGATCCATGCAC
2964467 A
1 A
2964468 AAGCCACAAT
Statistics
Matches: 124, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 124 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (41 bp):
ATTAATTTATTCAATGGCTAATCATGATATGATCCATGCAC
Found at i:2971423 original size:26 final size:26
Alignment explanation
Indices: 2971387--2971447 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
2971377 ACAGCTCTTA
* * *
2971387 TGAGCGTCCCG-TTATATGGCTTTTTG
1 TGAGCTTCCCGATTA-AAGGCTCTTTG
2971413 TGAGCTTCCCGATTAAAGGCTCTTTG
1 TGAGCTTCCCGATTAAAGGCTCTTTG
2971439 TGAGCTTCC
1 TGAGCTTCC
2971448 TGTTGTGCTC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
26 28 0.90
27 3 0.10
ACGTcount: A:0.15, C:0.23, G:0.25, T:0.38
Consensus pattern (26 bp):
TGAGCTTCCCGATTAAAGGCTCTTTG
Found at i:2971548 original size:25 final size:24
Alignment explanation
Indices: 2971489--2971550 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
2971479 GCTATCCGGT
2971489 GCTACCCGTTA-AGTGCTCTTCGAA
1 GCTACCCGTTATAG-GCTCTTCGAA
*
2971513 GCTACCCGTTATAGGCTCTTTGTAA
1 GCTACCCGTTATAGGCTCTTCG-AA
* *
2971538 GCTTCCTGTTATA
1 GCTACCCGTTATA
2971551 TTGCCTGGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 18 0.55
25 15 0.45
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.35
Consensus pattern (24 bp):
GCTACCCGTTATAGGCTCTTCGAA
Found at i:2971605 original size:24 final size:24
Alignment explanation
Indices: 2971535--2971605 Score: 63
Period size: 24 Copynumber: 2.9 Consensus size: 24
2971525 AGGCTCTTTG
* **
2971535 TAAGCTTCCTGTTATATTGCCTGGA
1 TAAGCTTCCTGTTATAGTG-CTTAA
* *
2971560 TAAGCTTCCCGTTACAAG-GCTTAA
1 TAAGCTTCCTGTTA-TAGTGCTTAA
*
2971584 TGAGCTTCCTGTTATAGTGCTT
1 TAAGCTTCCTGTTATAGTGCTT
2971606 GAGAGAGAGC
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
23 2 0.06
24 19 0.53
25 14 0.39
26 1 0.03
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (24 bp):
TAAGCTTCCTGTTATAGTGCTTAA
Found at i:2972743 original size:20 final size:20
Alignment explanation
Indices: 2972715--2972760 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
2972705 AAAGGGACGA
*
2972715 AATGATTAATTTCTAATATT
1 AATGTTTAATTTCTAATATT
2972735 AATGTTTAATTTCTAATATT
1 AATGTTTAATTTCTAATATT
2972755 AATGTT
1 AATGTT
2972761 AAGTAATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (20 bp):
AATGTTTAATTTCTAATATT
Found at i:2973585 original size:18 final size:19
Alignment explanation
Indices: 2973539--2973590 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
2973529 TCCAAGTCAG
*
2973539 ATAAAAAAAATTAAAATAT
1 ATAAATAAAATTAAAATAT
*
2973558 ATAACTAAAA-TAAAATA-
1 ATAAATAAAATTAAAATAT
2973575 ATAAATCAAAAATTAA
1 ATAAAT--AAAATTAA
2973591 GGAAGCGAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
17 5 0.19
18 7 0.26
19 12 0.44
20 3 0.11
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (19 bp):
ATAAATAAAATTAAAATAT
Found at i:2978936 original size:21 final size:21
Alignment explanation
Indices: 2978912--2978953 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2978902 GTTGAGAAAA
*
2978912 TTATTTAATGAAAAAAATAAT
1 TTATCTAATGAAAAAAATAAT
* *
2978933 TTATCTAATTAAATAAATAAT
1 TTATCTAATGAAAAAAATAAT
2978954 AGAAAACATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
TTATCTAATGAAAAAAATAAT
Found at i:2984235 original size:30 final size:31
Alignment explanation
Indices: 2984201--2984265 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 31
2984191 GCAAAGAGTT
* * *
2984201 AATTTGATCATCAACCTTTTAAAAA-AGTCA
1 AATTTGACCATCAACCTTTCAAAAACAATCA
* *
2984231 AATTTGACCATTAATCTTTCAAAAACAATCA
1 AATTTGACCATCAACCTTTCAAAAACAATCA
2984262 AATT
1 AATT
2984266 GTTGTTTTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 21 0.72
31 8 0.28
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.34
Consensus pattern (31 bp):
AATTTGACCATCAACCTTTCAAAAACAATCA
Found at i:2984499 original size:19 final size:19
Alignment explanation
Indices: 2984475--2984528 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
2984465 CTTGAAAAAG
*
2984475 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAA
2984494 GATATGCAATCTTAGATAA
1 GATATGCAATCTTAGATAA
*
2984513 GATATACAATCTTAGA
1 GATATGCAATCTTAGA
2984529 AGATAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (19 bp):
GATATGCAATCTTAGATAA
Found at i:2985427 original size:24 final size:24
Alignment explanation
Indices: 2985396--2985645 Score: 148
Period size: 24 Copynumber: 10.7 Consensus size: 24
2985386 GTGTATTGTA
*
2985396 TATTATTATTTTAGATTTATCATG
1 TATTATTATTTTAAATTTATCATG
* *
2985420 TTTTATTATTTGT-AATTTATCA-A
1 TATTATTATTT-TAAATTTATCATG
*
2985443 TATTATTATTTTAAATTCAT--TG
1 TATTATTATTTTAAATTTATCATG
**
2985465 TTAACATTATTTTAAATTTATCATG
1 -TATTATTATTTTAAATTTATCATG
*
2985490 TA-TATCTATTTCAAATTTATCAT-
1 TATTAT-TATTTTAAATTTATCATG
* * *
2985513 TAATA-T-TTTTAAATTTATTATA
1 TATTATTATTTTAAATTTATCATG
* ** *
2985535 TACTATTATTTTGGATTTATCACG
1 TATTATTATTTTAAATTTATCATG
* *
2985559 TATGATTATTCTAGAA-TTATCAT-
1 TATTATTATTTTA-AATTTATCATG
* * *
2985582 CA-AAAT-TTTTAAATTTTAT-ATG
1 TATTATTATTTTAAA-TTTATCATG
* * *
2985604 TATTATTATTTCAAATTTATTATA
1 TATTATTATTTTAAATTTATCATG
*
2985628 TATTATTTATTGTAAATT
1 TATTA-TTATTTTAAATT
2985646 ATCCAATTCA
Statistics
Matches: 171, Mismatches: 36, Indels: 37
0.70 0.15 0.15
Matches are distributed among these distances:
20 2 0.01
21 19 0.11
22 13 0.08
23 46 0.27
24 77 0.45
25 14 0.08
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.55
Consensus pattern (24 bp):
TATTATTATTTTAAATTTATCATG
Found at i:2985477 original size:70 final size:69
Alignment explanation
Indices: 2985394--2985561 Score: 180
Period size: 70 Copynumber: 2.4 Consensus size: 69
2985384 AAGTGTATTG
* * ** *
2985394 TATATTATTATTTTAGATTTATCATGTTTTAT-TATTTGTAATTTATCAATATTATTATTTTAAA
1 TATACTATTATTTTAGATTTATCATG-TATATCTATTTCAAATTTATCAATAATA-T-TTTTAAA
*
2985458 TTCATTG
63 TTCATTA
* *
2985465 T-TAAC-ATTATTTTAAATTTATCATGTATATCTATTTCAAATTTATCATTAATATTTTTAAATT
1 TAT-ACTATTATTTTAGATTTATCATGTATATCTATTTCAAATTTATCAATAATATTTTTAAATT
*
2985528 TATTA
65 CATTA
* *
2985533 TATACTATTATTTTGGATTTATCACGTAT
1 TATACTATTATTTTAGATTTATCATGTAT
2985562 GATTATTCTA
Statistics
Matches: 81, Mismatches: 12, Indels: 10
0.79 0.12 0.10
Matches are distributed among these distances:
68 15 0.19
69 26 0.32
70 38 0.47
71 2 0.02
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.56
Consensus pattern (69 bp):
TATACTATTATTTTAGATTTATCATGTATATCTATTTCAAATTTATCAATAATATTTTTAAATTC
ATTA
Found at i:2985579 original size:69 final size:68
Alignment explanation
Indices: 2985369--2985636 Score: 201
Period size: 69 Copynumber: 3.9 Consensus size: 68
2985359 ATTAAATTAG
* * * * * *
2985369 TCATTAATATTATCTAAGTGTATTGTATATTATTATTTTAGATTTATCATGTTTTATTATTT-GT
1 TCATTAATATT-TTTAAATTTATTATATACTATTATTTTAGATTTATCATG-TATATTATTTAG-
2985433 AATTTA
63 AATTTA
* * * * *
2985439 TCAATATTATTATTTTAAATTCATTGT-TAAC-ATTATTTTAAATTTATCATGTATATCTATTTC
1 TCATTAATA-T-TTTTAAATTTATTATAT-ACTATTATTTTAGATTTATCATGTATAT-TATTT-
2985502 A-AATTTA
61 AGAATTTA
* *
2985509 TCATTAATATTTTTAAATTTATTATATACTATTATTTTGGATTTATCACGTATGATTATTCTAGA
1 TCATTAATATTTTTAAATTTATTATATACTATTATTTTAGATTTATCATGTAT-ATTATT-TAGA
2985574 A-TTA
64 ATTTA
* * * * * * *
2985578 TCATCAAAATTTTTAAATTT-TATATGTATTATTATTTCAAATTTAT--TATATATTATTTA
1 TCATTAATATTTTTAAATTTAT-TATATACTATTATTTTAGATTTATCATGTATATTATTTA
2985637 TTGTAAATTA
Statistics
Matches: 161, Mismatches: 25, Indels: 29
0.75 0.12 0.13
Matches are distributed among these distances:
65 2 0.01
66 6 0.04
67 3 0.02
68 16 0.10
69 71 0.44
70 50 0.31
71 12 0.07
72 1 0.01
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.54
Consensus pattern (68 bp):
TCATTAATATTTTTAAATTTATTATATACTATTATTTTAGATTTATCATGTATATTATTTAGAAT
TTA
Found at i:2985721 original size:23 final size:23
Alignment explanation
Indices: 2985694--2985738 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
2985684 AATTGTACAT
*
2985694 TCATATATATTATTTGTTTTAAC
1 TCATATATATTATTTATTTTAAC
*
2985717 TCATATATATTGTTTATTTTAA
1 TCATATATATTATTTATTTTAA
2985739 AATTTTGAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.58
Consensus pattern (23 bp):
TCATATATATTATTTATTTTAAC
Found at i:2990465 original size:73 final size:74
Alignment explanation
Indices: 2990369--2990515 Score: 287
Period size: 73 Copynumber: 2.0 Consensus size: 74
2990359 AACCCAGTTA
2990369 AATATATATTAAAATTGTTATTTATTTGTTTTTATAATTTTTTAAAATTTTTTAAATTTTCCTTT
1 AATATATATTAAAATTGTTATTTATTTGTTTTTATAATTTTTTAAAATTTTTTAAATTTTCCTTT
2990434 TTTATTTAT
66 TTTATTTAT
2990443 AATATATATT-AAATTGTTATTTATTTGTTTTTATAATTTTTTAAAATTTTTTAAATTTTCCTTT
1 AATATATATTAAAATTGTTATTTATTTGTTTTTATAATTTTTTAAAATTTTTTAAATTTTCCTTT
2990507 TTTATTTAT
66 TTTATTTAT
2990516 TTTAATTTTT
Statistics
Matches: 73, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
73 63 0.86
74 10 0.14
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (74 bp):
AATATATATTAAAATTGTTATTTATTTGTTTTTATAATTTTTTAAAATTTTTTAAATTTTCCTTT
TTTATTTAT
Found at i:2990710 original size:1 final size:1
Alignment explanation
Indices: 2990704--2990741 Score: 67
Period size: 1 Copynumber: 38.0 Consensus size: 1
2990694 CAACAACAAC
*
2990704 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2990742 GCACCTTTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.97, C:0.03, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:2996166 original size:31 final size:31
Alignment explanation
Indices: 2996129--2996192 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
2996119 TAAAATGGTT
2996129 ATTGAACTATTCAAAAGTTCTCATTTAAGTC
1 ATTGAACTATTCAAAAGTTCTCATTTAAGTC
* * * *
2996160 ATTGAACTATTCGAATGTTTTTATTTAAGTC
1 ATTGAACTATTCAAAAGTTCTCATTTAAGTC
2996191 AT
1 AT
2996193 CGGATCAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (31 bp):
ATTGAACTATTCAAAAGTTCTCATTTAAGTC
Found at i:2996746 original size:27 final size:28
Alignment explanation
Indices: 2996688--2996747 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 28
2996678 CACTCATCCA
* *
2996688 TATTTAATATATATTTTCTAATCCAATC
1 TATTTAACATATATTCTCTAATCCAATC
* *
2996716 TATTTAACATAT-TTCTCTAATTCAATT
1 TATTTAACATATATTCTCTAATCCAATC
2996743 TATTT
1 TATTT
2996748 TTAGTTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 17 0.61
28 11 0.39
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.53
Consensus pattern (28 bp):
TATTTAACATATATTCTCTAATCCAATC
Found at i:3007696 original size:2 final size:2
Alignment explanation
Indices: 3007689--3007717 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3007679 TGGCTTATGG
3007689 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3007718 CATGTTCACG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3007862 original size:97 final size:98
Alignment explanation
Indices: 3007743--3007937 Score: 383
Period size: 97 Copynumber: 2.0 Consensus size: 98
3007733 CCTTGAAACT
3007743 ATGTTTGCAGACTGATTTAGAAGAAGCAAAAGCTCAGGAGGTTATGAAACTGCAAAACACAATGC
1 ATGTTTGCAGACTGATTTAGAAGAAGCAAAAGCTCAGGAGGTTATGAAACTGCAAAACACAATGC
3007808 AAGAAATGCAGAAAATCATCGAGGAAACCAATG
66 AAGAAATGCAGAAAATCATCGAGGAAACCAATG
3007841 ATGTTTGCAG-CTGATTTAGAAGAAGCAAAAGCTCAGGAGGTTATGAAACTGCAAAACACAATGC
1 ATGTTTGCAGACTGATTTAGAAGAAGCAAAAGCTCAGGAGGTTATGAAACTGCAAAACACAATGC
3007905 AAGAAATGCAGAAAATCATCGAGGAAACCAATG
66 AAGAAATGCAGAAAATCATCGAGGAAACCAATG
3007938 CGTTGCTTGC
Statistics
Matches: 97, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
97 87 0.90
98 10 0.10
ACGTcount: A:0.44, C:0.15, G:0.23, T:0.18
Consensus pattern (98 bp):
ATGTTTGCAGACTGATTTAGAAGAAGCAAAAGCTCAGGAGGTTATGAAACTGCAAAACACAATGC
AAGAAATGCAGAAAATCATCGAGGAAACCAATG
Found at i:3014891 original size:31 final size:31
Alignment explanation
Indices: 3014853--3014918 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
3014843 TAAAATGGTT
** *
3014853 ATTGAACTATTTGAAAGTTTTCATTTAAGTC
1 ATTGAACTATTCAAAAGTTTTCATTCAAGTC
* *
3014884 ATTGAACTATTCAAAAGTTTTTATTCAAGTT
1 ATTGAACTATTCAAAAGTTTTCATTCAAGTC
3014915 ATTG
1 ATTG
3014919 GATTAAGTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.45
Consensus pattern (31 bp):
ATTGAACTATTCAAAAGTTTTCATTCAAGTC
Found at i:3015136 original size:45 final size:46
Alignment explanation
Indices: 3015067--3015159 Score: 179
Period size: 45 Copynumber: 2.0 Consensus size: 46
3015057 GAAATGTAAG
3015067 TTCAAAAATCATGATTACTGAAAATCGAACCGAATTCTATTTTTTA
1 TTCAAAAATCATGATTACTGAAAATCGAACCGAATTCTATTTTTTA
3015113 TTCAAAAATCAT-ATTACTGAAAATCGAACCGAATTCTATTTTTTA
1 TTCAAAAATCATGATTACTGAAAATCGAACCGAATTCTATTTTTTA
3015158 TT
1 TT
3015160 TAATATATAA
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 35 0.74
46 12 0.26
ACGTcount: A:0.39, C:0.15, G:0.08, T:0.39
Consensus pattern (46 bp):
TTCAAAAATCATGATTACTGAAAATCGAACCGAATTCTATTTTTTA
Found at i:3016419 original size:2 final size:2
Alignment explanation
Indices: 3016406--3016452 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
3016396 TTTGAGCCTT
*
3016406 TA TA TG 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
3016448 TA TA T
1 TA TA T
3016453 TCTCTTTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Done.