Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 34 of 172
Found at i:10646816 original size:20 final size:22
Alignment explanation
Indices: 10646788--10646832 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
10646778 TATGTTTTAC
*
10646788 AATACCTGAAC-GA-TTTATCA
1 AATAACTGAACAGATTTTATCA
10646808 AATAACTGAACATGATTTTATCA
1 AATAACTGAACA-GATTTTATCA
10646831 AA
1 AA
10646833 GTATTGTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 10 0.48
22 2 0.10
23 9 0.43
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (22 bp):
AATAACTGAACAGATTTTATCA
Found at i:10651635 original size:42 final size:42
Alignment explanation
Indices: 10651557--10651710 Score: 127
Period size: 42 Copynumber: 3.7 Consensus size: 42
10651547 AATCATTCCA
* * * **
10651557 ATGCCATATCCC-AGATATGGGCTTACATGGGATCTCATATCG
1 ATGCCATA-CCCTAGCTATGGTCTTACACGAAATCTCATATCG
*
10651599 ATGCCAATACCCTAGCTATGGTCTTACACG-ATTCTCATATCG
1 ATGCC-ATACCCTAGCTATGGTCTTACACGAAATCTCATATCG
** * **
10651641 ATGCCATGTCCTAGAC-ATGGTCTTACATGAAATCTCATAAAG
1 ATGCCATACCCTAG-CTATGGTCTTACACGAAATCTCATATCG
**
10651683 ATGCCATATCCC-AAATATGGTCTTACAC
1 ATGCCATA-CCCTAGCTATGGTCTTACAC
10651711 ATAAACTTAT
Statistics
Matches: 90, Mismatches: 16, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
41 19 0.21
42 52 0.58
43 19 0.21
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (42 bp):
ATGCCATACCCTAGCTATGGTCTTACACGAAATCTCATATCG
Found at i:10659302 original size:42 final size:42
Alignment explanation
Indices: 10659152--10659315 Score: 172
Period size: 42 Copynumber: 3.9 Consensus size: 42
10659142 CATATCAATA
**** *
10659152 CCATATCCCAGATATGGTCTTACATGGGATCTCATATCGATG
1 CCATATCCCAGATATGGTCTTACACAAAATCTCATAACGATG
* * * * *
10659194 CCAATAGCCCAGTTATGGTCTTACAC-CATTCTCATATCGATG
1 CC-ATATCCCAGATATGGTCTTACACAAAATCTCATAACGATG
*
10659236 CCATGTCCCA-ATCATGGTCTTACACAAAATCTCATAACGATG
1 CCATATCCCAGAT-ATGGTCTTACACAAAATCTCATAACGATG
*
10659278 CCATATCCTAGATATGGTCTTACACGAAAA-CTCATAAC
1 CCATATCCCAGATATGGTCTTACAC-AAAATCTCATAAC
10659316 CCTAATGTCA
Statistics
Matches: 103, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
40 1 0.01
41 18 0.17
42 58 0.56
43 26 0.25
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (42 bp):
CCATATCCCAGATATGGTCTTACACAAAATCTCATAACGATG
Found at i:10660790 original size:20 final size:20
Alignment explanation
Indices: 10660765--10660812 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
10660755 TGTACCAAAT
10660765 GATTCTGATTTGAGGCAGTC
1 GATTCTGATTTGAGGCAGTC
10660785 GATTCTGATTTGAGGCAGTC
1 GATTCTGATTTGAGGCAGTC
10660805 GATTCTGA
1 GATTCTGA
10660813 GGGAGGCGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.21, C:0.15, G:0.29, T:0.35
Consensus pattern (20 bp):
GATTCTGATTTGAGGCAGTC
Found at i:10662478 original size:46 final size:46
Alignment explanation
Indices: 10662428--10662603 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
10662418 TGGTTGAGCA
10662428 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
10662474 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
10662519 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
10662567 CCCGAGCTCGTTGAGTTGAGTTCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
10662604 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:10662584 original size:93 final size:93
Alignment explanation
Indices: 10662425--10662596 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
10662415 GGATGGTTGA
* *
10662425 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
10662490 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
10662518 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
10662583 TGAGTTCGAGTTCG
66 TGAGTCCGAGTTCG
10662597 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:10667265 original size:25 final size:23
Alignment explanation
Indices: 10667215--10667274 Score: 84
Period size: 25 Copynumber: 2.5 Consensus size: 23
10667205 ATAAGAACAT
*
10667215 AAAAATGAAAATTTTAAATTTAA
1 AAAAATAAAAATTTTAAATTTAA
*
10667238 AAAAATAAAAACTCTTTAAATTTTA
1 AAAAATAAAAA-T-TTTAAATTTAA
10667263 AAAAATAAAAAT
1 AAAAATAAAAAT
10667275 GATTTTATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 10 0.30
24 2 0.06
25 21 0.64
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (23 bp):
AAAAATAAAAATTTTAAATTTAA
Found at i:10667281 original size:26 final size:26
Alignment explanation
Indices: 10667225--10667296 Score: 76
Period size: 25 Copynumber: 2.7 Consensus size: 26
10667215 AAAAATGAAA
10667225 ATTTTAAATTTAAAAAAATAAAAACT
1 ATTTTAAATTTAAAAAAATAAAAACT
* *
10667251 -CTTTAAATTTTAAAAAATAAAAA-T
1 ATTTTAAATTTAAAAAAATAAAAACT
10667275 GATTTTATCAATTTAAACAAAA
1 -ATTTTA--AATTTAAA-AAAA
10667297 ATTCTAAAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
24 1 0.03
25 21 0.57
26 4 0.11
28 7 0.19
29 4 0.11
ACGTcount: A:0.57, C:0.06, G:0.01, T:0.36
Consensus pattern (26 bp):
ATTTTAAATTTAAAAAAATAAAAACT
Found at i:10667529 original size:21 final size:24
Alignment explanation
Indices: 10667503--10667550 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
10667493 GATTCAAAGC
*
10667503 AAATAAA-TTATTAAAAA-AT-TA
1 AAATAAAGATATTAAAAATATATA
10667524 AAATAAAGATATTAAAAATATATA
1 AAATAAAGATATTAAAAATATATA
10667548 AAA
1 AAA
10667551 ATCAATTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 7 0.30
22 9 0.39
23 2 0.09
24 5 0.22
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (24 bp):
AAATAAAGATATTAAAAATATATA
Found at i:10667717 original size:9 final size:9
Alignment explanation
Indices: 10667705--10667755 Score: 52
Period size: 9 Copynumber: 5.6 Consensus size: 9
10667695 GAATTTTGGA
10667705 ATTTTTTAT
1 ATTTTTTAT
10667714 ATTTTTAATAT
1 ATTTTT--TAT
*
10667725 ATTTTTAAT
1 ATTTTTTAT
10667734 ATATTTTTA-
1 AT-TTTTTAT
10667743 ATTTTTTAT
1 ATTTTTTAT
10667752 -TTTT
1 ATTTT
10667756 AAATTATAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
8 10 0.28
9 12 0.33
10 5 0.14
11 9 0.25
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (9 bp):
ATTTTTTAT
Found at i:10667762 original size:11 final size:11
Alignment explanation
Indices: 10667711--10667744 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
10667701 TGGAATTTTT
10667711 TATATTTTTAA
1 TATATTTTTAA
10667722 TATATTTTTAA
1 TATATTTTTAA
10667733 TATATTTTTAA
1 TATATTTTTAA
10667744 T
1 T
10667745 TTTTTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TATATTTTTAA
Found at i:10668389 original size:23 final size:22
Alignment explanation
Indices: 10668356--10668404 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
10668346 ATTTTCACTT
10668356 TTTTAAATTTTAAAAA-TATAA
1 TTTTAAATTTTAAAAATTATAA
*
10668377 TTTTAAATTTTTTAAAAATTATAT
1 TTTTAAA--TTTTAAAAATTATAA
10668401 TTTT
1 TTTT
10668405 TTAATTATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 7 0.29
23 9 0.38
24 8 0.33
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTTAAATTTTAAAAATTATAA
Found at i:10669124 original size:16 final size:16
Alignment explanation
Indices: 10669103--10669157 Score: 69
Period size: 15 Copynumber: 3.6 Consensus size: 16
10669093 TTAATTAATT
10669103 TTTTAAAATTTAAATA
1 TTTTAAAATTTAAATA
10669119 TTTTAAAATTTAAA-A
1 TTTTAAAATTTAAATA
* * *
10669134 TTTTATATTTTTAAT-
1 TTTTAAAATTTAAATA
10669149 TTTTAAAAT
1 TTTTAAAAT
10669158 AATTTTTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
15 19 0.58
16 14 0.42
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTTAAAATTTAAATA
Found at i:10669145 original size:23 final size:24
Alignment explanation
Indices: 10669104--10669157 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
10669094 TAATTAATTT
10669104 TTTAAAA-TTTAAATATTTTAAAA
1 TTTAAAATTTTAAATATTTTAAAA
* **
10669127 TTTAAAATTTTATAT-TTTTAATT
1 TTTAAAATTTTAAATATTTTAAAA
10669150 TTTAAAAT
1 TTTAAAAT
10669158 AATTTTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 21 0.78
24 6 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
TTTAAAATTTTAAATATTTTAAAA
Found at i:10669173 original size:10 final size:10
Alignment explanation
Indices: 10669146--10669185 Score: 55
Period size: 9 Copynumber: 3.9 Consensus size: 10
10669136 TTATATTTTT
10669146 AATTTTTAAAA
1 AATTTTT-AAA
10669157 TAATTTTTAAA
1 -AATTTTTAAA
10669168 AA-TTTTAAA
1 AATTTTTAAA
10669177 AATTTTTAA
1 AATTTTTAA
10669186 TAACTAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 9 0.33
10 8 0.30
11 3 0.11
12 7 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
AATTTTTAAA
Found at i:10679937 original size:35 final size:35
Alignment explanation
Indices: 10679860--10679940 Score: 92
Period size: 35 Copynumber: 2.3 Consensus size: 35
10679850 TGATCTATAT
* *
10679860 ATCTGCATCTGTATTTGAGATGGGTTTAGGCCCAA
1 ATCTGCATCTGTATTTGAGATGGGCTTAGGCACAA
* * **
10679895 ATATGCATCTGTATCTT-TGATGGGCTTAGGCATGA
1 ATCTGCATCTGTAT-TTGAGATGGGCTTAGGCACAA
10679930 ATCTGCATCTG
1 ATCTGCATCTG
10679941 ACTGATTTTG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
35 36 0.95
36 2 0.05
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (35 bp):
ATCTGCATCTGTATTTGAGATGGGCTTAGGCACAA
Found at i:10693285 original size:14 final size:15
Alignment explanation
Indices: 10693255--10693288 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
10693245 TGATTAGATT
10693255 TATAACAAAAATATA
1 TATAACAAAAATATA
*
10693270 TATAATAAAAAT-TA
1 TATAACAAAAATATA
10693284 TATAA
1 TATAA
10693289 AGGTGGGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (15 bp):
TATAACAAAAATATA
Found at i:10696587 original size:15 final size:15
Alignment explanation
Indices: 10696567--10696596 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
10696557 GCTGGACAGC
10696567 AAGGGCATGAAATCA
1 AAGGGCATGAAATCA
10696582 AAGGGCATGAAATCA
1 AAGGGCATGAAATCA
10696597 GCAGGAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.27, T:0.13
Consensus pattern (15 bp):
AAGGGCATGAAATCA
Found at i:10699311 original size:11 final size:11
Alignment explanation
Indices: 10699295--10699322 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
10699285 TATGAGTATA
10699295 TTATAATATTT
1 TTATAATATTT
10699306 TTATAATATTT
1 TTATAATATTT
10699317 TTATAA
1 TTATAA
10699323 CACGCAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
TTATAATATTT
Found at i:10702330 original size:43 final size:41
Alignment explanation
Indices: 10702226--10702373 Score: 149
Period size: 43 Copynumber: 3.5 Consensus size: 41
10702216 AATTAGCGGC
* * *
10702226 GCTTTCTTAAAAAACGCCACTAAAGACCA-GACATTTAG-CG
1 GCTTT-TTAAAAAACGCCGCTAAAGACCAGGACTTTTAGTAG
* * *
10702266 GCATTTTTATAAAAGCGCCGCTAAAGACCAGGATTTTTAGTGG
1 GC-TTTTTA-AAAAACGCCGCTAAAGACCAGGACTTTTAGTAG
*
10702309 TGCTTTTTAAAAAAACGCCGCTAAAGACCAGCACTTTTAGTAG
1 -GCTTTTT-AAAAAACGCCGCTAAAGACCAGGACTTTTAGTAG
*
10702352 CGC-TTTTGAAAAACGCCGCTAA
1 -GCTTTTTAAAAAACGCCGCTAA
10702374 TTTGCCCAGT
Statistics
Matches: 91, Mismatches: 11, Indels: 11
0.81 0.10 0.10
Matches are distributed among these distances:
40 5 0.05
41 35 0.38
42 11 0.12
43 37 0.41
44 3 0.03
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (41 bp):
GCTTTTTAAAAAACGCCGCTAAAGACCAGGACTTTTAGTAG
Found at i:10702691 original size:21 final size:21
Alignment explanation
Indices: 10702667--10702714 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
10702657 TTCTGTTCTG
*
10702667 CTCCGCCTCCCTCACTGCTGC
1 CTCCGCCTCCCGCACTGCTGC
* *
10702688 CTCCGCCTCCCGCGCTGCTGT
1 CTCCGCCTCCCGCACTGCTGC
10702709 CTCCGC
1 CTCCGC
10702715 TCTAAGTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.02, C:0.56, G:0.19, T:0.23
Consensus pattern (21 bp):
CTCCGCCTCCCGCACTGCTGC
Found at i:10706262 original size:17 final size:17
Alignment explanation
Indices: 10706240--10706276 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
10706230 TCAGCCAAGA
10706240 AAGTGTATATATGTGAT
1 AAGTGTATATATGTGAT
*
10706257 AAGTGTATATGTGTGAT
1 AAGTGTATATATGTGAT
10706274 AAG
1 AAG
10706277 GCCTAATGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.27, T:0.38
Consensus pattern (17 bp):
AAGTGTATATATGTGAT
Found at i:10706334 original size:47 final size:47
Alignment explanation
Indices: 10706250--10706366 Score: 144
Period size: 47 Copynumber: 2.5 Consensus size: 47
10706240 AAGTGTATAT
* * * * *
10706250 ATGTGATAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGA-AAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGA
* * *
10706298 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGA
*
10706345 ATGTGAAAGTGTATAAATGTGA
1 ATGTGAAAGTGTATATATGTGA
10706367 TAAGTCCCGA
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
47 54 0.90
48 6 0.10
ACGTcount: A:0.31, C:0.09, G:0.32, T:0.28
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGA
Found at i:10706547 original size:37 final size:37
Alignment explanation
Indices: 10706489--10706568 Score: 115
Period size: 37 Copynumber: 2.2 Consensus size: 37
10706479 CCGAGCTCTA
* * *
10706489 AAGACTCGATGACTACATGTGGGGATTTTGTCCGGGT
1 AAGACTCGATAACTACATGTGGAGATTATGTCCGGGT
* *
10706526 AAGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACTCGATAACTACATGTGGAGATTATGTCCGGGT
10706563 AAGACT
1 AAGACT
10706569 TCGTAATAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.29
Consensus pattern (37 bp):
AAGACTCGATAACTACATGTGGAGATTATGTCCGGGT
Found at i:10708706 original size:16 final size:16
Alignment explanation
Indices: 10708685--10708716 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
10708675 TTCAGCTTCC
10708685 CGTAACTGAAATCCAT
1 CGTAACTGAAATCCAT
10708701 CGTAACTGAAATCCAT
1 CGTAACTGAAATCCAT
10708717 ATCTTTTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (16 bp):
CGTAACTGAAATCCAT
Found at i:10717064 original size:24 final size:24
Alignment explanation
Indices: 10717032--10717101 Score: 79
Period size: 24 Copynumber: 2.9 Consensus size: 24
10717022 CTAACCAAAG
*
10717032 CATATTATAATAAAATTTTCATAA
1 CATATTATAATAAGATTTTCATAA
**
10717056 CATATTATAAATAAGATAGT-ATAA
1 CATATTAT-AATAAGATTTTCATAA
*
10717080 CATTATTATAATACGATTTTCA
1 CA-TATTATAATAAGATTTTCA
10717102 CAGTCACAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
24 22 0.59
25 15 0.41
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (24 bp):
CATATTATAATAAGATTTTCATAA
Found at i:10717850 original size:24 final size:24
Alignment explanation
Indices: 10717818--10717863 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
10717808 TTGTATTTGT
10717818 AAACAGAGACTTAGAAATTAAAAG
1 AAACAGAGACTTAGAAATTAAAAG
10717842 AAACAGAGACTTAGAAATTAAA
1 AAACAGAGACTTAGAAATTAAA
10717864 GTTACCTGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.59, C:0.09, G:0.15, T:0.17
Consensus pattern (24 bp):
AAACAGAGACTTAGAAATTAAAAG
Found at i:10718748 original size:14 final size:14
Alignment explanation
Indices: 10718731--10718764 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
10718721 AATAAACACT
*
10718731 AAACCCTAAATCCC
1 AAACCCCAAATCCC
10718745 AAACCCCAAATCCC
1 AAACCCCAAATCCC
10718759 AAACCC
1 AAACCC
10718765 AAACCATAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.44, C:0.47, G:0.00, T:0.09
Consensus pattern (14 bp):
AAACCCCAAATCCC
Found at i:10719063 original size:7 final size:7
Alignment explanation
Indices: 10719028--10719086 Score: 55
Period size: 7 Copynumber: 8.4 Consensus size: 7
10719018 TAAGACCCTG
*
10719028 ACCCTAT
1 ACCCTAA
*
10719035 ACCATAA
1 ACCCTAA
10719042 ACCCTAA
1 ACCCTAA
**
10719049 ACTATAA
1 ACCCTAA
10719056 ACCCTAA
1 ACCCTAA
*
10719063 ACCCCAA
1 ACCCTAA
*
10719070 ACCCTAG
1 ACCCTAA
*
10719077 CCCCTAA
1 ACCCTAA
10719084 ACC
1 ACC
10719087 TTAATTAACC
Statistics
Matches: 39, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.41, C:0.42, G:0.02, T:0.15
Consensus pattern (7 bp):
ACCCTAA
Found at i:10719224 original size:15 final size:15
Alignment explanation
Indices: 10719187--10719232 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
10719177 AACCATTGAC
10719187 CCTT-AACCCCTAAA
1 CCTTAAACCCCTAAA
*
10719201 -CTCATAACCCCTAAA
1 CCTTA-AACCCCTAAA
*
10719216 CCTTAAACCCTTAAA
1 CCTTAAACCCCTAAA
10719231 CC
1 CC
10719233 ATAATATCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
13 2 0.08
15 21 0.81
16 3 0.12
ACGTcount: A:0.37, C:0.41, G:0.00, T:0.22
Consensus pattern (15 bp):
CCTTAAACCCCTAAA
Found at i:10719296 original size:14 final size:14
Alignment explanation
Indices: 10719261--10719290 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
10719251 AATATCTTAG
10719261 ACCCTAAATAATAA
1 ACCCTAAATAATAA
10719275 ACCCTAAATAATAA
1 ACCCTAAATAATAA
10719289 AC
1 AC
10719291 TTTAAAACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.57, C:0.23, G:0.00, T:0.20
Consensus pattern (14 bp):
ACCCTAAATAATAA
Found at i:10719497 original size:14 final size:13
Alignment explanation
Indices: 10719447--10719493 Score: 58
Period size: 14 Copynumber: 3.5 Consensus size: 13
10719437 ATAAACCTCA
10719447 AACCCTAAATCAT
1 AACCCTAAATCAT
* *
10719460 AAAACATAAATCAT
1 -AACCCTAAATCAT
10719474 CAACCCTAAATCAT
1 -AACCCTAAATCAT
10719488 AACCCT
1 AACCCT
10719494 TAAACCTATA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
13 6 0.21
14 22 0.79
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (13 bp):
AACCCTAAATCAT
Found at i:10720321 original size:41 final size:41
Alignment explanation
Indices: 10720259--10720338 Score: 99
Period size: 41 Copynumber: 1.9 Consensus size: 41
10720249 GCGTTTACAA
*
10720259 AAAAATGCCGCTAATTATGCGACCTATAGTGGCGTTTTTTAC
1 AAAAATGCCGCTAA-TATGCGACCTATAGCGGCGTTTTTTAC
* * *
10720301 AAAAATGCCTCTAA-AGTGCGAGCTATTGCGGCGTTTTT
1 AAAAATGCCGCTAATA-TGCGACCTATAGCGGCGTTTTT
10720339 AGGAAAGCGC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 1 0.03
41 19 0.58
42 13 0.39
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.33
Consensus pattern (41 bp):
AAAAATGCCGCTAATATGCGACCTATAGCGGCGTTTTTTAC
Found at i:10720425 original size:156 final size:155
Alignment explanation
Indices: 10720168--10720535 Score: 368
Period size: 155 Copynumber: 2.4 Consensus size: 155
10720158 AAGATTGATA
* * * * * *
10720168 TATTGCAGCGTTTTAAGTAAAGGGCCGCTAATGCCATTGAAGCTAATTTAAAACGACTTCGTTTG
1 TATTGCGGCGTTTTTAGGAAAGCGCCGCTAATGCCATTGAAGCTCATATAAAACGACTTCGTTTG
* * * * *
10720233 CCTTAACCTATTAGCGGCGTTTACAAAAAAATGCCGCTAATTATGC-GACCTATAGTGGCGTTTT
66 CCTTAACATATTAGCGGCGTTTACAAAAAAATGCCGC-AA-AAGGCAGAACTATAGCGGCGTTTT
* *
10720297 TTAC-AAAAATGCCTCTAAAGTGCGAGC
129 TT-CTAAAAACGCCACTAAAGTGCGAGC
* *
10720324 TATTGCGGCGTTTTTAGGAAAGCGCCGCTAATGTCATTGAAGCTCATATAAAATGA-TGTCGTTT
1 TATTGCGGCGTTTTTAGGAAAGCGCCGCTAATGCCATTGAAGCTCATATAAAACGACT-TCG-TT
* * * * * *
10720388 TG-TTTAACATTTTAGCGGCATTTTTCTAAAAAA-GCCGCAAAAGGCAGAACTCTAGCGGCGTTT
64 TGCCTTAACATATTAGCGGC-GTTTACAAAAAAATGCCGCAAAAGGCAGAACTATAGCGGCGTTT
** *
10720451 TTTCTAAAAACGCCACTAAAGTTTGATC
128 TTTCTAAAAACGCCACTAAAGTGCGAGC
* * * * * * *
10720479 TGTTACGGCGTTTTTGGGAAAACGCCGCTACTGCCAATGAAGCTCATGTAAAACGAC
1 TATTGCGGCGTTTTTAGGAAAGCGCCGCTAATGCCATTGAAGCTCATATAAAACGAC
10720536 GCCGTCTTGC
Statistics
Matches: 173, Mismatches: 33, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
154 4 0.02
155 85 0.49
156 70 0.40
157 14 0.08
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.30
Consensus pattern (155 bp):
TATTGCGGCGTTTTTAGGAAAGCGCCGCTAATGCCATTGAAGCTCATATAAAACGACTTCGTTTG
CCTTAACATATTAGCGGCGTTTACAAAAAAATGCCGCAAAAGGCAGAACTATAGCGGCGTTTTTT
CTAAAAACGCCACTAAAGTGCGAGC
Found at i:10720556 original size:155 final size:155
Alignment explanation
Indices: 10720289--10720567 Score: 346
Period size: 155 Copynumber: 1.8 Consensus size: 155
10720279 GACCTATAGT
* * * *
10720289 GGCGTTTTTTACAAAAATGCCTCTAAAGTGCGAGCTATTGCGGCGTTTTTAGGAAAGCGCCGCTA
1 GGCGTTTTTTACAAAAACGCCACTAAAGTGCGAGCTATTACGGCGTTTTTAGGAAAACGCCGCTA
* * * * * * *
10720354 ATGTCATTGAAGCTCATATAAAATGATGTCGTTTTGTTTAACATTTTAGCGGCATTTTTCTAAAA
66 ATGCCAATGAAGCTCATATAAAACGACGCCGTCTTGTTAAACATTTTAGCGGCATTTTTCTAAAA
10720419 AAGCCGCAAAAGGCAGAACTCTAGC
131 AAGCCGCAAAAGGCAGAACTCTAGC
** * * *
10720444 GGCGTTTTTT-CTAAAAACGCCACTAAAGTTTGATCTGTTACGGCGTTTTTGGGAAAACGCCGCT
1 GGCGTTTTTTAC-AAAAACGCCACTAAAGTGCGAGCTATTACGGCGTTTTTAGGAAAACGCCGCT
* * * *
10720508 ACTGCCAATGAAGCTCATGTAAAACGACGCCGTCTTGCTTAAAC-TTTTAGTGGCGTTTTT
65 AATGCCAATGAAGCTCATATAAAACGACGCCGTCTTG-TTAAACATTTTAGCGGCATTTTT
10720568 GAAAAAGCGC
Statistics
Matches: 102, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
154 1 0.01
155 96 0.94
156 5 0.05
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (155 bp):
GGCGTTTTTTACAAAAACGCCACTAAAGTGCGAGCTATTACGGCGTTTTTAGGAAAACGCCGCTA
ATGCCAATGAAGCTCATATAAAACGACGCCGTCTTGTTAAACATTTTAGCGGCATTTTTCTAAAA
AAGCCGCAAAAGGCAGAACTCTAGC
Found at i:10720623 original size:40 final size:40
Alignment explanation
Indices: 10720563--10720664 Score: 98
Period size: 40 Copynumber: 2.5 Consensus size: 40
10720553 TTTAGTGGCG
* * * * *
10720563 TTTTTGAAAAAGCGCTGCTAATGGTCAACCT-TTAGCGGCAC
1 TTTTTCAAAAA-CGCCGCTAAAGCTCAACCTATT-GAGGCAC
* * *
10720604 TTTTTCAAAAACGCCGCTAAAGCTCGATCTATTGAGGCAT
1 TTTTTCAAAAACGCCGCTAAAGCTCAACCTATTGAGGCAC
*
10720644 TTTTTTAAAAACGCCGCTAAA
1 TTTTTCAAAAACGCCGCTAAA
10720665 ACTCCATCTA
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
40 39 0.76
41 12 0.24
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (40 bp):
TTTTTCAAAAACGCCGCTAAAGCTCAACCTATTGAGGCAC
Found at i:10720674 original size:40 final size:40
Alignment explanation
Indices: 10720599--10720676 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
10720589 AACCTTTAGC
* *
10720599 GGCACTTTTTCAAAAACGCCGCTAAAGCTCGATCTATTGA
1 GGCACTTTTTCAAAAACGCCGCTAAAACTCCATCTATTGA
* *
10720639 GGCATTTTTTTAAAAACGCCGCTAAAACTCCATCTATT
1 GGCACTTTTTCAAAAACGCCGCTAAAACTCCATCTATT
10720677 TGATTTTTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (40 bp):
GGCACTTTTTCAAAAACGCCGCTAAAACTCCATCTATTGA
Found at i:10727792 original size:35 final size:35
Alignment explanation
Indices: 10727717--10727793 Score: 95
Period size: 36 Copynumber: 2.2 Consensus size: 35
10727707 TTGTAAAATC
* * *
10727717 ATTTTTATTTTATTTTTTAATTTTAAAGACTTTTT
1 ATTTTTATTTTATTTTTTAATTTTAAAGAATATAT
10727752 ATTTTTATTTTCATTTTTTAATTTTAGAA-AATATAT
1 ATTTTTATTTT-ATTTTTTAATTTTA-AAGAATATAT
10727788 -TTTTTA
1 ATTTTTA
10727794 AAAATTTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
35 17 0.46
36 18 0.49
37 2 0.05
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (35 bp):
ATTTTTATTTTATTTTTTAATTTTAAAGAATATAT
Found at i:10728918 original size:43 final size:44
Alignment explanation
Indices: 10728851--10728991 Score: 124
Period size: 51 Copynumber: 3.1 Consensus size: 44
10728841 ACGCGATGCA
* *
10728851 TGTAACATCTGAGTTCATCT-AGTGGTCCGAGTTTATTATGGATG
1 TGTAGCATCTGAGCTCAT-TGAGTGGTCCGAGTTTATTATGGATG
* * *
10728895 TG-AGCATCTGAGCTCATTGAGTGGTCCAAGTTCATGATGGATGCGATACA
1 TGTAGCATCTGAGCTCATTGAGTGGTCCGAGTT--T-AT-TATG-GAT--G
* * *
10728945 TGTAGCATCCGAGCTCGTTGAGTGGTCCGAGTTCATTATGGATG
1 TGTAGCATCTGAGCTCATTGAGTGGTCCGAGTTTATTATGGATG
10728989 TGT
1 TGT
10728992 TACATGTTAT
Statistics
Matches: 77, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
42 1 0.01
43 25 0.32
44 5 0.06
45 1 0.01
46 5 0.06
47 6 0.08
48 5 0.06
50 2 0.03
51 27 0.35
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.33
Consensus pattern (44 bp):
TGTAGCATCTGAGCTCATTGAGTGGTCCGAGTTTATTATGGATG
Found at i:10728959 original size:51 final size:52
Alignment explanation
Indices: 10728892--10728998 Score: 153
Period size: 51 Copynumber: 2.1 Consensus size: 52
10728882 TTTATTATGG
*
10728892 ATGTGAGCATCTGAGCTCATTGAGTGGTCCAAGTTCATGATGGATGCGATAC
1 ATGTGAGCATCCGAGCTCATTGAGTGGTCCAAGTTCATGATGGATGCGATAC
* * * * *
10728944 ATGT-AGCATCCGAGCTCGTTGAGTGGTCCGAGTTCATTATGGATGTGTTAC
1 ATGTGAGCATCCGAGCTCATTGAGTGGTCCAAGTTCATGATGGATGCGATAC
10728995 ATGT
1 ATGT
10728999 TATGAGGTAG
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
51 45 0.92
52 4 0.08
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (52 bp):
ATGTGAGCATCCGAGCTCATTGAGTGGTCCAAGTTCATGATGGATGCGATAC
Found at i:10731740 original size:94 final size:92
Alignment explanation
Indices: 10731623--10731792 Score: 227
Period size: 94 Copynumber: 1.8 Consensus size: 92
10731613 TATGTGCGCC
** * * *
10731623 AGTGTAAAACATGTCTCGGACATGCATCGGCCACATTATG-AGAGCTAGTGTAAGACCATGTTTG
1 AGTGTAAAACATGTCTCGGACATGCATCGGCCACAGGACGTA-AGCCAGTGTAAGA-CATGTCTG
10731687 GGACATGGCATCGGCATTGAAACGAGTGCT
64 GGACAT-GCATCGGCATTGAAACGAGTGCT
* *
10731717 AGTGTAAGACATGTCT-GAGACATGCATCGGCCTCAGGACGTAAGCCAGTGTAAGACATGTCTGG
1 AGTGTAAAACATGTCTCG-GACATGCATCGGCCACAGGACGTAAGCCAGTGTAAGACATGTCTGG
10731781 GACATGCATCGG
65 GACATGCATCGG
10731793 TTACAAGATG
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
92 7 0.10
93 14 0.21
94 45 0.67
95 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (92 bp):
AGTGTAAAACATGTCTCGGACATGCATCGGCCACAGGACGTAAGCCAGTGTAAGACATGTCTGGG
ACATGCATCGGCATTGAAACGAGTGCT
Found at i:10731877 original size:138 final size:138
Alignment explanation
Indices: 10731620--10731924 Score: 321
Period size: 138 Copynumber: 2.2 Consensus size: 138
10731610 TGATATGTGC
* * ** *
10731620 GCCAGTGTAAAACATGTCTCGGACATGCATCGGCCACATTATGAGAGCTAGTGTAAGACCATGTT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGAGCTAGTGTAAGACCATGTC
* * * * *
10731685 TGGGACATGGCATCGGCATTGAAACGAGTGCTAGTGTAAGACATGTCTGAGACATGCATCGGCCT
66 CGGGACATGGCATCGACATGGAAACGAGTGCTAGTGTAAGACATGTCTGAGACATACATCAG-C-
10731750 CAGGACGT-AA
129 CA-GACGTAAA
** * *
10731760 GCCAGTGTAAGACATGTCTGGGACATGCATCGGTTACAAGATGTG-TC-AGTGTAAGACCATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGAGCTAGTGTAAGACCATGTC
* * * * * *
10731823 CGGGACATGGCTTCGAC-TCGGATATGTGTGCTAGTGTAAGACATGTTTGGGACATACATCAGCC
66 CGGGACATGGCATCGACAT-GGAAACGAGTGCTAGTGTAAGACATGTCTGAGACATACATCAGCC
*
10731887 AGATGTGAAA
130 AGACGT-AAA
* *
10731897 GCTAGTGTAAGACCATATCTGGGACATG
1 GCCAGTGTAAGA-CATGTCTGGGACATG
10731925 GCATTGCTTG
Statistics
Matches: 138, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
135 4 0.03
136 2 0.01
137 15 0.11
138 78 0.57
139 1 0.01
140 38 0.28
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (138 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGAGCTAGTGTAAGACCATGTC
CGGGACATGGCATCGACATGGAAACGAGTGCTAGTGTAAGACATGTCTGAGACATACATCAGCCA
GACGTAAA
Found at i:10731993 original size:93 final size:92
Alignment explanation
Indices: 10731807--10731972 Score: 214
Period size: 93 Copynumber: 1.8 Consensus size: 92
10731797 AAGATGTGTC
* * *
10731807 AGTGTAAGACCATGTCCGGGACATGGCTTCGACTCGGATATGTGTGCTAGTGTAAGACATGTTTG
1 AGTGTAAGACCATATCCGGGACATGGCTTCGACTCGGATATGTGT-CTAGTGTAAGACATATCTG
*
10731872 GGACATACATCAGCCAGATGTGAAAGCT
65 GGACAGACATCAGCCAGATGTGAAAGCT
* * *
10731900 AGTGTAAGACCATATCTGGGACATGGCATT-G-CT-TGATATGTGT-TAGTGTAAGACCTATCTG
1 AGTGTAAGACCATATCCGGGACATGGC-TTCGACTCGGATATGTGTCTAGTGTAAGACATATCTG
10731961 GGACACGACATC
65 GGACA-GACATC
10731973 GACACAGATG
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
89 20 0.31
90 5 0.08
91 9 0.14
92 2 0.03
93 26 0.41
94 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (92 bp):
AGTGTAAGACCATATCCGGGACATGGCTTCGACTCGGATATGTGTCTAGTGTAAGACATATCTGG
GACAGACATCAGCCAGATGTGAAAGCT
Found at i:10734634 original size:94 final size:92
Alignment explanation
Indices: 10734517--10734686 Score: 227
Period size: 94 Copynumber: 1.8 Consensus size: 92
10734507 TATGTGCGCC
** * * *
10734517 AGTGTAAAACATGTCTCGGACATGCATCGGCCACATTATG-AGAGCTAGTGTAAGACCATGTTTG
1 AGTGTAAAACATGTCTCGGACATGCATCGGCCACAGGACGTA-AGCCAGTGTAAGA-CATGTCTG
10734581 GGACATGGCATCGGCATTGAAACGAGTGCT
64 GGACAT-GCATCGGCATTGAAACGAGTGCT
* *
10734611 AGTGTAAGACATGTCT-GAGACATGCATCGGCCTCAGGACGTAAGCCAGTGTAAGACATGTCTGG
1 AGTGTAAAACATGTCTCG-GACATGCATCGGCCACAGGACGTAAGCCAGTGTAAGACATGTCTGG
10734675 GACATGCATCGG
65 GACATGCATCGG
10734687 TTACAAGATG
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
92 7 0.10
93 14 0.21
94 45 0.67
95 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (92 bp):
AGTGTAAAACATGTCTCGGACATGCATCGGCCACAGGACGTAAGCCAGTGTAAGACATGTCTGGG
ACATGCATCGGCATTGAAACGAGTGCT
Found at i:10734771 original size:138 final size:138
Alignment explanation
Indices: 10734514--10734818 Score: 321
Period size: 138 Copynumber: 2.2 Consensus size: 138
10734504 TGATATGTGC
* * ** *
10734514 GCCAGTGTAAAACATGTCTCGGACATGCATCGGCCACATTATGAGAGCTAGTGTAAGACCATGTT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGAGCTAGTGTAAGACCATGTC
* * * * *
10734579 TGGGACATGGCATCGGCATTGAAACGAGTGCTAGTGTAAGACATGTCTGAGACATGCATCGGCCT
66 CGGGACATGGCATCGACATGGAAACGAGTGCTAGTGTAAGACATGTCTGAGACATACATCAG-C-
10734644 CAGGACGT-AA
129 CA-GACGTAAA
** * *
10734654 GCCAGTGTAAGACATGTCTGGGACATGCATCGGTTACAAGATGTG-TC-AGTGTAAGACCATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGAGCTAGTGTAAGACCATGTC
* * * * * *
10734717 CGGGACATGGCTTCGAC-TCGGATATGTGTGCTAGTGTAAGACATGTTTGGGACATACATCAGCC
66 CGGGACATGGCATCGACAT-GGAAACGAGTGCTAGTGTAAGACATGTCTGAGACATACATCAGCC
*
10734781 AGATGTGAAA
130 AGACGT-AAA
* *
10734791 GCTAGTGTAAGACCATATCTGGGACATG
1 GCCAGTGTAAGA-CATGTCTGGGACATG
10734819 GCATTGCTTG
Statistics
Matches: 138, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
135 4 0.03
136 2 0.01
137 15 0.11
138 78 0.57
139 1 0.01
140 38 0.28
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (138 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGAGCTAGTGTAAGACCATGTC
CGGGACATGGCATCGACATGGAAACGAGTGCTAGTGTAAGACATGTCTGAGACATACATCAGCCA
GACGTAAA
Found at i:10734887 original size:93 final size:92
Alignment explanation
Indices: 10734701--10734866 Score: 214
Period size: 93 Copynumber: 1.8 Consensus size: 92
10734691 AAGATGTGTC
* * *
10734701 AGTGTAAGACCATGTCCGGGACATGGCTTCGACTCGGATATGTGTGCTAGTGTAAGACATGTTTG
1 AGTGTAAGACCATATCCGGGACATGGCTTCGACTCGGATATGTGT-CTAGTGTAAGACATATCTG
*
10734766 GGACATACATCAGCCAGATGTGAAAGCT
65 GGACAGACATCAGCCAGATGTGAAAGCT
* * *
10734794 AGTGTAAGACCATATCTGGGACATGGCATT-G-CT-TGATATGTGT-TAGTGTAAGACCTATCTG
1 AGTGTAAGACCATATCCGGGACATGGC-TTCGACTCGGATATGTGTCTAGTGTAAGACATATCTG
10734855 GGACACGACATC
65 GGACA-GACATC
10734867 GACACAGATG
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
89 20 0.31
90 5 0.08
91 9 0.14
92 2 0.03
93 26 0.41
94 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (92 bp):
AGTGTAAGACCATATCCGGGACATGGCTTCGACTCGGATATGTGTCTAGTGTAAGACATATCTGG
GACAGACATCAGCCAGATGTGAAAGCT
Found at i:10737211 original size:43 final size:43
Alignment explanation
Indices: 10737143--10737283 Score: 151
Period size: 51 Copynumber: 3.1 Consensus size: 43
10737133 GATACGATGC
*
10737143 ATGT-AACATCTGAGCTCGTCT-AGTGGTCCGAGTTCATTATGG
1 ATGTGAACATCCGAGCTCGT-TGAGTGGTCCGAGTTCATTATGG
*
10737185 ATGTGAACATCCGAGCTCGTTGAGTGGTCCGTGTTCATGATGGATGCG
1 ATGTGAACATCCGAGCTCGTTGAGTGGTCCGAGTTCAT--T--ATG-G
* *
10737233 ATGCATGTAGCATCCGAGCTCGTTGAGTGGTCTGAGTTCATTATGG
1 ATG--TG-AACATCCGAGCTCGTTGAGTGGTCCGAGTTCATTATGG
10737279 ATGTG
1 ATGTG
10737284 TTACATGTTA
Statistics
Matches: 84, Mismatches: 5, Indels: 18
0.79 0.05 0.17
Matches are distributed among these distances:
42 5 0.06
43 29 0.35
44 2 0.02
45 1 0.01
46 4 0.05
47 6 0.07
48 4 0.05
49 1 0.01
50 2 0.02
51 30 0.36
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.32
Consensus pattern (43 bp):
ATGTGAACATCCGAGCTCGTTGAGTGGTCCGAGTTCATTATGG
Found at i:10742103 original size:40 final size:40
Alignment explanation
Indices: 10742052--10742127 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
10742042 ACACCATGTG
* *
10742052 GGGATAAAATCGACCCACCCATCCCTGCACACCATATATT
1 GGGATAAAATCGACCCACCCAACCCTACACACCATATATT
* * *
10742092 GGGATATAATCGACCTATCCAACCCTACACACCATA
1 GGGATAAAATCGACCCACCCAACCCTACACACCATA
10742128 AGGTACCGCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.34, C:0.34, G:0.12, T:0.20
Consensus pattern (40 bp):
GGGATAAAATCGACCCACCCAACCCTACACACCATATATT
Found at i:10748873 original size:38 final size:36
Alignment explanation
Indices: 10748781--10748873 Score: 87
Period size: 40 Copynumber: 2.4 Consensus size: 36
10748771 CACACCATCT
* *
10748781 CCGTCCAACCATTACACCATGTGGGGATAAAATCGAC
1 CCGTCCAACC-CTACACCATATGGGGATAAAATCGAC
** * *
10748818 CCACCCATCCCTGTACACCATATATGGGGATATAATCGAC
1 CCGTCCAACCC--TACACC--ATATGGGGATAAAATCGAC
10748858 CCGTCCAACCCTACAC
1 CCGTCCAACCCTACAC
10748874 ACCATAAGGT
Statistics
Matches: 43, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
37 7 0.16
38 11 0.26
40 25 0.58
ACGTcount: A:0.30, C:0.35, G:0.15, T:0.19
Consensus pattern (36 bp):
CCGTCCAACCCTACACCATATGGGGATAAAATCGAC
Found at i:10748876 original size:40 final size:40
Alignment explanation
Indices: 10748802--10748879 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
10748792 TTACACCATG
* **
10748802 TGGGGATAAAATCGACCCACCCATCCCTGTACACCATATA
1 TGGGGATAAAATCGACCCACCCAACCCTACACACCATATA
* **
10748842 TGGGGATATAATCGACCCGTCCAACCCTACACACCATA
1 TGGGGATAAAATCGACCCACCCAACCCTACACACCATA
10748880 AGGTATCGCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.32, C:0.33, G:0.15, T:0.19
Consensus pattern (40 bp):
TGGGGATAAAATCGACCCACCCAACCCTACACACCATATA
Found at i:10762145 original size:47 final size:46
Alignment explanation
Indices: 10761948--10762310 Score: 225
Period size: 47 Copynumber: 7.7 Consensus size: 46
10761938 GATACATTGT
* * *
10761948 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATACGTGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATTTCTA--TGC
* * **
10761998 TGATGCATGTCCCAGACATGTCTTACACTAGCA--CAACTCT-TAGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATTTCTAT-GC
* * * * *
10762042 CGATGCATGTCCTAGACACGTCTTACACTGGCTA-TCTTTGTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC-ACTCATT-TCTATGC
* * *
10762089 CAATGCATGTCCCAGACATGTCTTACTCTGGCACTCATTTCTATGT
1 CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATTTCTATGC
* * * **
10762135 CGATGCCATGTCCCAGACATGGTTTTAAACTGGCTCTCA-TAATATGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATTTCTAT-GC
* * * * * * * **
10762183 TGAAGCATGTCCTAGACATGTCTTACACTAGCCCTCGTCTGGATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATTTCTATGC
* * * * *
10762229 CGATGCCATGTCCCAGACATGGTCTTACAATGGCTCTCATAATGT-GGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCAT-TTCTATGC
** * *
10762277 TAAAGCATGTTCCAGACATGTCTTACACTGGCAC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCAC
10762311 ACAAATCACC
Statistics
Matches: 241, Mismatches: 59, Indels: 30
0.73 0.18 0.09
Matches are distributed among these distances:
43 1 0.00
44 30 0.12
45 1 0.00
46 45 0.19
47 95 0.39
48 49 0.20
49 16 0.07
50 4 0.02
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATTTCTATGC
Found at i:10762200 original size:94 final size:94
Alignment explanation
Indices: 10761948--10762310 Score: 373
Period size: 94 Copynumber: 3.9 Consensus size: 94
10761938 GATACATTGT
* * *
10761948 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATACGTGCTGATGCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTAAACTGGCTCTCATA-ATATG-GCTGAAGCATGTCCCAG
*
10762013 ACATGTCTTACACTAGCA--CAACTCT-TAGC
64 ACATGTCTTACACTAGCACTCATCTCTAT-GC
* * * * * ** *
10762042 CGATG-CATGTCCTAGACA-CGTCTTACACTGGCTATCTTTGTCGA-GGC-CAATGCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTAAACTGGCTCTCATAAT--ATGGCTGAA-GCATGTCCCA
* * * *
10762103 GACATGTCTTACTCTGGCACTCATTTCTATGT
63 GACATGTCTTACACTAGCACTCATCTCTATGC
* *
10762135 CGATGCCATGTCCCAGACATGGTTTTAAACTGGCTCTCATAATATGGCTGAAGCATGTCCTAGAC
1 CGATGCCATGTCCCAGACATGGTCTTAAACTGGCTCTCATAATATGGCTGAAGCATGTCCCAGAC
* * **
10762200 ATGTCTTACACTAGCCCTCGTCTGGATGC
66 ATGTCTTACACTAGCACTCATCTCTATGC
* * *
10762229 CGATGCCATGTCCCAGACATGGTCTTACAA-TGGCTCTCATAATGTGGCTAAAGCATGTTCCAGA
1 CGATGCCATGTCCCAGACATGGTCTTA-AACTGGCTCTCATAATATGGCTGAAGCATGTCCCAGA
*
10762293 CATGTCTTACACTGGCAC
65 CATGTCTTACACTAGCAC
10762311 ACAAATCACC
Statistics
Matches: 220, Mismatches: 38, Indels: 22
0.79 0.14 0.08
Matches are distributed among these distances:
90 1 0.00
91 30 0.14
92 18 0.08
93 25 0.11
94 126 0.57
95 20 0.09
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (94 bp):
CGATGCCATGTCCCAGACATGGTCTTAAACTGGCTCTCATAATATGGCTGAAGCATGTCCCAGAC
ATGTCTTACACTAGCACTCATCTCTATGC
Found at i:10771733 original size:79 final size:81
Alignment explanation
Indices: 10771597--10771781 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
10771587 TTGAATGATG
*
10771597 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
10771661 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
10771676 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
10771738 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
10771756 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
10771782 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:10771795 original size:40 final size:40
Alignment explanation
Indices: 10771598--10771781 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
10771588 TGAATGATGT
* * * *
10771598 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
10771638 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
10771678 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
10771716 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
10771757 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
10771782 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:10771803 original size:79 final size:79
Alignment explanation
Indices: 10771650--10771814 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
10771640 GGACTAAGAT
* **
10771650 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
10771715 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
10771729 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
10771792 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
10771808 CCGAAGG
1 CCGAAGG
10771815 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:10777813 original size:17 final size:17
Alignment explanation
Indices: 10777793--10777825 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
10777783 AGTTTACGAA
10777793 TTATTTTATT-TATTTAT
1 TTATTTT-TTATATTTAT
10777810 TTATTTTTTATATTTA
1 TTATTTTTTATATTTA
10777826 ATATAGCCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTATTTTTTATATTTAT
Found at i:10778124 original size:12 final size:12
Alignment explanation
Indices: 10778093--10778141 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
10778083 TGATGTATAA
*
10778093 ATAGTTATTGAT
1 ATAGTTGTTGAT
10778105 ATAGTTGTTGAT
1 ATAGTTGTTGAT
10778117 AT-G-T-TTG-T
1 ATAGTTGTTGAT
10778125 CATAGTTGTTGAT
1 -ATAGTTGTTGAT
10778138 ATAG
1 ATAG
10778142 CCAAATAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
8 1 0.03
9 5 0.16
10 2 0.06
11 2 0.06
12 20 0.65
13 1 0.03
ACGTcount: A:0.27, C:0.02, G:0.22, T:0.49
Consensus pattern (12 bp):
ATAGTTGTTGAT
Found at i:10785569 original size:27 final size:27
Alignment explanation
Indices: 10785539--10785602 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
10785529 AATCCTCCAT
*
10785539 AACACACCAGTATAAT-ATAGCCTCCCA
1 AACACACCAATAT-ATCATAGCCTCCCA
* *
10785566 AACACACCAATATATCATATCTTCCCA
1 AACACACCAATATATCATAGCCTCCCA
10785593 AACACACCAA
1 AACACACCAA
10785603 CAAGGCATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 2 0.06
27 31 0.94
ACGTcount: A:0.44, C:0.34, G:0.03, T:0.19
Consensus pattern (27 bp):
AACACACCAATATATCATAGCCTCCCA
Found at i:10785585 original size:29 final size:25
Alignment explanation
Indices: 10785525--10785602 Score: 79
Period size: 27 Copynumber: 3.0 Consensus size: 25
10785515 CCTGGAATAT
*
10785525 TATAA-ATCCT-CCATAACACACCAG
1 TATAATATCCTCCCA-AACACACCAA
10785549 TATAATATAGCCTCCCAAACACACCAA
1 TATAATAT--CCTCCCAAACACACCAA
*
10785576 TATATCATATCTTCCCAAACACACCAA
1 TATA--ATATCCTCCCAAACACACCAA
10785603 CAAGGCATTA
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
24 5 0.11
25 2 0.04
27 32 0.70
28 3 0.07
29 4 0.09
ACGTcount: A:0.42, C:0.33, G:0.03, T:0.22
Consensus pattern (25 bp):
TATAATATCCTCCCAAACACACCAA
Found at i:10787427 original size:22 final size:22
Alignment explanation
Indices: 10787387--10787447 Score: 61
Period size: 22 Copynumber: 2.6 Consensus size: 22
10787377 CTTTAGCCAT
*
10787387 TTTTATTTTTATTGCAATT-TAA
1 TTTT-TTTTTATTTCAATTATAA
*
10787409 TTTTGTTTTTATTTTAATTACTAA
1 TTTT-TTTTTATTTCAATTA-TAA
10787433 TTTTTCTTTTATTTC
1 TTTTT-TTTTATTTC
10787448 CTTTTGCCAG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 16 0.50
23 1 0.03
24 15 0.47
ACGTcount: A:0.21, C:0.07, G:0.03, T:0.69
Consensus pattern (22 bp):
TTTTTTTTTATTTCAATTATAA
Found at i:10791657 original size:6 final size:6
Alignment explanation
Indices: 10791646--10791680 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
10791636 TTCCCTTCTG
*
10791646 TTTTTA TTTTTA TTTTTA TTTTTA TTTTCA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
10791681 CATGTTCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:10792768 original size:15 final size:15
Alignment explanation
Indices: 10792748--10792777 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10792738 TTAAGAATTT
10792748 CTCCCTGTTTATTGA
1 CTCCCTGTTTATTGA
*
10792763 CTCCCTTTTTATTGA
1 CTCCCTGTTTATTGA
10792778 GATTTGATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.27, G:0.10, T:0.50
Consensus pattern (15 bp):
CTCCCTGTTTATTGA
Found at i:10798753 original size:28 final size:28
Alignment explanation
Indices: 10798721--10798842 Score: 129
Period size: 28 Copynumber: 4.3 Consensus size: 28
10798711 ATGTGATTTA
10798721 GGCCATATAAATGAGATTGGGCCTAATG
1 GGCCATATAAATGAGATTGGGCCTAATG
* * *
10798749 GGCCATATGAATGTGAATTGGGCCTGATG
1 GGCCATATAAATGAG-ATTGGGCCTAATG
* * * **
10798778 GGCTATAAGAACATGA-ATTGGGTCGGATG
1 GGCCAT-ATAA-ATGAGATTGGGCCTAATG
*
10798807 GGCCATATAAATGAGATTGGGCCTAGTG
1 GGCCATATAAATGAGATTGGGCCTAATG
10798835 GGCCATAT
1 GGCCATAT
10798843 GCATTATGTA
Statistics
Matches: 75, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
27 4 0.05
28 33 0.44
29 33 0.44
30 2 0.03
31 3 0.04
ACGTcount: A:0.29, C:0.14, G:0.32, T:0.25
Consensus pattern (28 bp):
GGCCATATAAATGAGATTGGGCCTAATG
Found at i:10798778 original size:29 final size:28
Alignment explanation
Indices: 10798721--10798843 Score: 124
Period size: 29 Copynumber: 4.3 Consensus size: 28
10798711 ATGTGATTTA
* *
10798721 GGCCATATAAATGAGATTGGGCCTAATG
1 GGCCATATGAATGAGATTGGGCCTGATG
*
10798749 GGCCATATGAATGTGAATTGGGCCTGATG
1 GGCCATATGAATGAG-ATTGGGCCTGATG
* * * *
10798778 GGCTATAAGAACATGA-ATTGGGTCGGATG
1 GGCCATATG-A-ATGAGATTGGGCCTGATG
*
10798807 GGCCATATAAATGAGATTGGGCCT-AGTG
1 GGCCATATGAATGAGATTGGGCCTGA-TG
10798835 GGCCATATG
1 GGCCATATG
10798844 CATTATGTAG
Statistics
Matches: 76, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
27 5 0.07
28 31 0.41
29 36 0.47
30 1 0.01
31 3 0.04
ACGTcount: A:0.28, C:0.14, G:0.33, T:0.25
Consensus pattern (28 bp):
GGCCATATGAATGAGATTGGGCCTGATG
Found at i:10808016 original size:40 final size:40
Alignment explanation
Indices: 10807938--10808113 Score: 266
Period size: 40 Copynumber: 4.4 Consensus size: 40
10807928 ACCCAAGTAT
* *
10807938 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
10807977 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
10808017 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
10808057 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
10808097 CTTCGGGACTTAGCCCG
1 CTTCGGGACTTAGCCCG
10808114 AACATCATCC
Statistics
Matches: 125, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 11 0.09
40 113 0.90
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:10814506 original size:28 final size:28
Alignment explanation
Indices: 10814474--10814597 Score: 135
Period size: 29 Copynumber: 4.4 Consensus size: 28
10814464 TAATGTGATT
10814474 TGGGCCATATAAATGAGATTGGGCCTAA
1 TGGGCCATATAAATGAGATTGGGCCTAA
* * *
10814502 TGGGCCATATGAATGTGAATTGCGCCTAA
1 TGGGCCATATAAATGAG-ATTGGGCCTAA
* * *
10814531 TAGCCCATA-AGAACGTGA-ATTGGGCCGAA
1 TGGGCCATATA-AA--TGAGATTGGGCCTAA
*
10814560 TGGGCCATATAAATGAGATTGGGCCTAG
1 TGGGCCATATAAATGAGATTGGGCCTAA
10814588 TGGGCCATAT
1 TGGGCCATAT
10814598 GCATGTATGT
Statistics
Matches: 77, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
27 3 0.04
28 34 0.44
29 37 0.48
30 1 0.01
31 2 0.03
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (28 bp):
TGGGCCATATAAATGAGATTGGGCCTAA
Found at i:10819659 original size:21 final size:22
Alignment explanation
Indices: 10819633--10819707 Score: 68
Period size: 21 Copynumber: 3.5 Consensus size: 22
10819623 AAATAAGTTT
10819633 AAGAAAATAAATA-AAAAAATA
1 AAGAAAATAAATACAAAAAATA
* *
10819654 AAGAAACTAAA-ACAAATTAA-A
1 AAGAAAATAAATACAAA-AAATA
*
10819675 AAGAAAGATAAATAATAAAAAATA
1 AAGAAA-ATAAAT-ACAAAAAATA
10819699 AA-AAAATAA
1 AAGAAAATAA
10819708 TAAACTCAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
20 1 0.02
21 20 0.47
22 10 0.23
23 5 0.12
24 7 0.16
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.15
Consensus pattern (22 bp):
AAGAAAATAAATACAAAAAATA
Found at i:10819665 original size:26 final size:27
Alignment explanation
Indices: 10819636--10819707 Score: 76
Period size: 26 Copynumber: 2.7 Consensus size: 27
10819626 TAAGTTTAAG
* *
10819636 AAAATAAATAAAAAAATAAAGA-AACT
1 AAAAAAAATAAAAAAATAAAGATAAAT
* * *
10819662 AAAACAAAT-TAAAAAGAAAGATAAAT
1 AAAAAAAATAAAAAAATAAAGATAAAT
10819688 AATAAAAAATAAAAAAATAA
1 AA-AAAAAATAAAAAAATAA
10819708 TAAACTCAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
25 10 0.28
26 13 0.36
27 6 0.17
28 7 0.19
ACGTcount: A:0.78, C:0.03, G:0.04, T:0.15
Consensus pattern (27 bp):
AAAAAAAATAAAAAAATAAAGATAAAT
Found at i:10819821 original size:5 final size:5
Alignment explanation
Indices: 10819806--10819901 Score: 76
Period size: 5 Copynumber: 19.2 Consensus size: 5
10819796 AAATATAAGT
* *
10819806 ATAAGA ATAAA ATAAA ATAAA ATAAA ATAAA AT-AA TTAGAA A-AAC A-AAA
1 ATAA-A ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATA-AA ATAAA ATAAA
* *
10819855 AT-AA ATAAT ATAACAA ATAGTA AT-AA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA AT-A-AA ATA-AA ATAAA ATAAA ATAAA ATAAA ATAAA
10819901 A
1 A
10819902 GGTGTAGCTT
Statistics
Matches: 74, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
4 15 0.20
5 45 0.61
6 11 0.15
7 3 0.04
ACGTcount: A:0.74, C:0.02, G:0.03, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:10828817 original size:21 final size:22
Alignment explanation
Indices: 10828788--10828828 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
10828778 TTACATGTAA
* *
10828788 TTATTTAG-TAAATTATATTAT
1 TTATGTAGTTAAATAATATTAT
10828809 TTATGTAGTTAAATAATATT
1 TTATGTAGTTAAATAATATT
10828829 GTACTTCGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (22 bp):
TTATGTAGTTAAATAATATTAT
Found at i:10829235 original size:28 final size:28
Alignment explanation
Indices: 10829202--10829256 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
10829192 GATCTTGATT
10829202 TCAAATATATGATTATCATGTTATATAC
1 TCAAATATATGATTATCATGTTATATAC
10829230 TCAAATATATGATTATCATGTTATATA
1 TCAAATATATGATTATCATGTTATATA
10829257 TTCTCACTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (28 bp):
TCAAATATATGATTATCATGTTATATAC
Found at i:10831544 original size:28 final size:28
Alignment explanation
Indices: 10831496--10831581 Score: 124
Period size: 27 Copynumber: 3.2 Consensus size: 28
10831486 AGCATGGCTC
*
10831496 CCAGA-ACAGATA-TTGTGACAGAGTCA
1 CCAGATACAGATATTTGTGACAGAGCCA
10831522 CCAGATACAGATATTTGTGACAGAGCCA
1 CCAGATACAGATATTTGTGACAGAGCCA
* *
10831550 CCAGAT-CATATATTTGTGGCAGAGCCA
1 CCAGATACAGATATTTGTGACAGAGCCA
10831577 CCAGA
1 CCAGA
10831582 ATGCTTCCTC
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
26 5 0.09
27 31 0.56
28 19 0.35
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (28 bp):
CCAGATACAGATATTTGTGACAGAGCCA
Found at i:10833994 original size:10 final size:10
Alignment explanation
Indices: 10833975--10834021 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
10833965 TTCTCAATCC
10833975 ATCA-ACCAA
1 ATCATACCAA
10833984 ATCATACCAA
1 ATCATACCAA
*
10833994 ATCTAAACCAAA
1 ATC-ATACC-AA
10834006 ATCATACCAA
1 ATCATACCAA
*
10834016 AACATA
1 ATCATA
10834022 TGTTTCAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 4 0.12
10 15 0.47
11 8 0.25
12 5 0.16
ACGTcount: A:0.55, C:0.28, G:0.00, T:0.17
Consensus pattern (10 bp):
ATCATACCAA
Found at i:10836976 original size:44 final size:43
Alignment explanation
Indices: 10836899--10837059 Score: 161
Period size: 42 Copynumber: 3.7 Consensus size: 43
10836889 GTTGGTATTA
* * *
10836899 ATCTGAA-TTATCGGGTAAGACCGTGTTTGGGACACAGGCATCG
1 ATCTGAATTTA-CGTGTAAGACCATGTCTGGGACACAGGCATCG
*
10836942 ATTTGAAATTTACGTGTAAGACCATGTCTGGGACATC-GGCATCG
1 ATCTG-AATTTACGTGTAAGACCATGTCTGGGACA-CAGGCATCG
* * *
10836986 TATCTG-ATTT-CGTATAAGACCTTGTCTGGGACAGAGGCATCG
1 -ATCTGAATTTACGTGTAAGACCATGTCTGGGACACAGGCATCG
* *
10837028 ATACTGAA-TTACATGTAAGACCAGGTCTGGGA
1 AT-CTGAATTTACGTGTAAGACCATGTCTGGGA
10837060 TGTTGGCATT
Statistics
Matches: 98, Mismatches: 12, Indels: 16
0.78 0.10 0.13
Matches are distributed among these distances:
41 2 0.02
42 33 0.34
43 26 0.27
44 29 0.30
45 8 0.08
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (43 bp):
ATCTGAATTTACGTGTAAGACCATGTCTGGGACACAGGCATCG
Found at i:10844015 original size:8 final size:8
Alignment explanation
Indices: 10844002--10844026 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
10843992 GGAAGTCCGA
10844002 AATAGTCG
1 AATAGTCG
10844010 AATAGTCG
1 AATAGTCG
10844018 AATAGTCG
1 AATAGTCG
10844026 A
1 A
10844027 CTCATTTTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (8 bp):
AATAGTCG
Found at i:10852247 original size:44 final size:44
Alignment explanation
Indices: 10852105--10852252 Score: 160
Period size: 43 Copynumber: 3.4 Consensus size: 44
10852095 GCGATCACTG
* * * *
10852105 TCCCAGACAGGGTCTTACATG-AAATC-TAATACAACGCCAACG
1 TCCCAGACATGGTCTTACATGTAAATCATAATACGATGCCAACA
* * * *
10852147 TCCCACACATGATCTTACACGTAAAT-AAAATACGATGCCAACA
1 TCCCAGACATGGTCTTACATGTAAATCATAATACGATGCCAACA
***
10852190 TCCCAGTGGTGGTCTTACATGTAAATCATAAGT-CGATGCCAACA
1 TCCCAGACATGGTCTTACATGTAAATCATAA-TACGATGCCAACA
10852234 TCCCAGACATGGTCTTACA
1 TCCCAGACATGGTCTTACA
10852253 CAATAACCCA
Statistics
Matches: 84, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
42 17 0.20
43 36 0.43
44 30 0.36
45 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (44 bp):
TCCCAGACATGGTCTTACATGTAAATCATAATACGATGCCAACA
Found at i:10854065 original size:40 final size:40
Alignment explanation
Indices: 10854021--10854252 Score: 437
Period size: 40 Copynumber: 5.8 Consensus size: 40
10854011 TATTACCACA
* *
10854021 AGCACAATTGCCTTCGGGTCTTAGCCCGGATCAAATCACT
1 AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATCACT
10854061 AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATCACT
1 AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATCACT
10854101 AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATCACT
1 AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATCACT
10854141 AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATCACT
1 AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATCACT
10854181 AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATCACT
1 AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATCACT
*
10854221 AGCACAAATGCCTTTGGGACTTAGCCCGGATC
1 AGCACAAATGCCTTCGGGACTTAGCCCGGATC
10854253 TCATTCAAAT
Statistics
Matches: 189, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 189 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATCACT
Found at i:10881919 original size:42 final size:42
Alignment explanation
Indices: 10881863--10882001 Score: 136
Period size: 42 Copynumber: 3.2 Consensus size: 42
10881853 TCTTACATGT
* * *
10881863 AATTCAGTATCGATGCCTCTGTCCCAGACAGGGTCTTATACGA
1 AATTCAG-ATCGATGCCTATGTCCCAGACACGGTCTTAAACGA
* **
10881906 AA-TCAGATACGATGCCGATGTCCCAGACATAGTCTTAAACGTA
1 AATTCAGAT-CGATGCCTATGTCCCAGACACGGTCTTAAACG-A
* * * *
10881949 AATTTCAAATCGATGCCTGTGTCCTAGACACGGTCTTACACGA
1 AA-TTCAGATCGATGCCTATGTCCCAGACACGGTCTTAAACGA
10881992 TAATTCAGAT
1 -AATTCAGAT
10882002 TAATACCAAC
Statistics
Matches: 78, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
41 2 0.03
42 31 0.40
43 12 0.15
44 28 0.36
45 5 0.06
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (42 bp):
AATTCAGATCGATGCCTATGTCCCAGACACGGTCTTAAACGA
Found at i:10892370 original size:42 final size:41
Alignment explanation
Indices: 10892270--10892425 Score: 183
Period size: 43 Copynumber: 3.7 Consensus size: 41
10892260 GGCTTGTACA
*
10892270 ATGCCAACGTCCCCA-ACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGT-CCCAGACGTGGTCTTACAT-AAATCAAATA-CG
*
10892313 ATGCC-ACTGTGCCAGACAG-GGTCTTACATAAAATCAAATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACAT-AAATCAAATACG
*
10892355 ATGCCAACGTCCCAGACGTGGTCTTACAGGTAAATAAAATACG
1 ATGCCAACGTCCCAGACGTGGTCTTACA--TAAATCAAATACG
*
10892398 ATGCCAACGTCCAAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
10892426 CGTAAGTCGA
Statistics
Matches: 100, Mismatches: 6, Indels: 14
0.83 0.05 0.12
Matches are distributed among these distances:
41 1 0.01
42 29 0.29
43 68 0.68
44 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (41 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATAAATCAAATACG
Found at i:10896560 original size:36 final size:36
Alignment explanation
Indices: 10896518--10896593 Score: 134
Period size: 36 Copynumber: 2.1 Consensus size: 36
10896508 GTTTTGCCAT
* *
10896518 GAAAGGATTTGTGTTGTTTGCTGGGTTTTTATGGAA
1 GAAAGGATTTGTGTTGTTTGCTGAGTTTTTATCGAA
10896554 GAAAGGATTTGTGTTGTTTGCTGAGTTTTTATCGAA
1 GAAAGGATTTGTGTTGTTTGCTGAGTTTTTATCGAA
10896590 GAAA
1 GAAA
10896594 ATGAATCTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.24, C:0.04, G:0.30, T:0.42
Consensus pattern (36 bp):
GAAAGGATTTGTGTTGTTTGCTGAGTTTTTATCGAA
Found at i:10896829 original size:30 final size:30
Alignment explanation
Indices: 10896790--10896847 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
10896780 TTTTAGGGCA
* * *
10896790 TAGGGGCAAAATGGTTATTTTGCCAAAGTC
1 TAGGAGCAAAATGGTCATTTTACCAAAGTC
10896820 TAGGAGCAAAATGGTCATTTTACCAAAG
1 TAGGAGCAAAATGGTCATTTTACCAAAG
10896848 ATGTAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (30 bp):
TAGGAGCAAAATGGTCATTTTACCAAAGTC
Found at i:10897453 original size:50 final size:50
Alignment explanation
Indices: 10897184--10897503 Score: 215
Period size: 46 Copynumber: 6.7 Consensus size: 50
10897174 GTTATTGTGG
*
10897184 GCTAGTGTAAGA-CATGTCTGAGACAT-GCATCGGCCACAT--T-ATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CACATGATGATGAGA
* * *
10897230 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACATTGA-GAAGAGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACA-TGATGATGAGA
* * *
10897278 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGC-C-TCG-GGACGTA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAT-GATGATG-AGA
* *
10897324 GCCTA-TGTAAGA-CATGTCTGGGACAT-GCATTGGCTAC--GA-GAT-A-T
1 G-CTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACATGATGATGAGA
* **
10897368 G-TCAATGTAAGACCATGTCTGGGACATGGTGTCGGCACAAAT-ATG-TGAGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC--ATGATGATGAGA
* * * *
10897418 GCTAGTGTAAGACCATGTTTGGGACATGGCATCGGC-CTTGGTGATGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACATGATGATGAGA
* *
10897467 GCTAGTGTAAGACCGTGTCTGGGATATGGCATCGGCA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
10897504 TCTTACCCAT
Statistics
Matches: 219, Mismatches: 25, Indels: 56
0.73 0.08 0.19
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 9 0.04
45 20 0.09
46 57 0.26
47 35 0.16
48 25 0.11
49 40 0.18
50 30 0.14
51 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (50 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACATGATGATGAGA
Found at i:10898647 original size:13 final size:13
Alignment explanation
Indices: 10898629--10898655 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10898619 GCTCGACAGG
10898629 GACACGCCCGTGT
1 GACACGCCCGTGT
10898642 GACACGCCCGTGT
1 GACACGCCCGTGT
10898655 G
1 G
10898656 CAATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:10913846 original size:49 final size:49
Alignment explanation
Indices: 10913728--10913904 Score: 218
Period size: 49 Copynumber: 3.7 Consensus size: 49
10913718 GGGTAGAATA
* * **
10913728 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCAT-ATC-TT-AAG
1 CCGACGCCATGTCCCAGACATGGTCTTACACTGAAT-ATCATCATTGAAG
* * *
10913775 TCGATGTCATGTCCCAGACATGGTCTTACACTGAATATCATCATTGAAG
1 CCGACGCCATGTCCCAGACATGGTCTTACACTGAATATCATCATTGAAG
* *
10913824 CCGACGCCATGTCCCAGACATGGTCTTACACT-AACTATCATCATCGAGG
1 CCGACGCCATGTCCCAGACATGGTCTTACACTGAA-TATCATCATTGAAG
*
10913873 CCGACGCCATATCCCAGACATGGTCTTACACT
1 CCGACGCCATGTCCCAGACATGGTCTTACACT
10913905 AGCTCTTACA
Statistics
Matches: 115, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
46 2 0.02
47 34 0.30
48 4 0.03
49 75 0.65
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.26
Consensus pattern (49 bp):
CCGACGCCATGTCCCAGACATGGTCTTACACTGAATATCATCATTGAAG
Found at i:10914035 original size:46 final size:47
Alignment explanation
Indices: 10913727--10914138 Score: 200
Period size: 49 Copynumber: 8.7 Consensus size: 47
10913717 TGGGTAGAAT
* * *
10913727 ACCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCAT-ATCTTAAG
1 ACCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTC-TCGTCTCAAG
* * ** * * *
10913775 -TCGATGTCATGTCCCAGACATGGTCTTACACTGAATATCATCATTGAAG
1 ACCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCTCGTC--TCAAG
* ** * * *
10913824 -CCGACGCCATGTCCCAGACATGGTCTTACACTAACTATCATCATCGAG
1 ACCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCTCGTC-TCAAG
* * * * * * *
10913872 GCCGACGCCATATCCCAGACATGGTCTTACACTAGCTCTTACATATC-CG
1 ACCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTC-T-CGTCTCAAG
* * * * * * *
10913921 TGCCAATTCCATGTCCCAGACATGGTCTTACA-TTG-ACACATCTCATAG
1 -ACCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCTCGTCTCA-AG
* * * *
10913969 -CTGAT-TCATCTCCCAGACATGTCTTACACTGGCT-TACGTCTCGAG
1 ACCGATGCCATGTCCCAGACATGTCTTACACTGGCTCT-CGTCTCAAG
* * *
10914014 ACCGATG-CATGTCCCAAACATGTCTTACACTAGCTCTCGTCTCAAT
1 ACCGATGCCATGTCCCAGACATGTCTTACACTGGCTCTCGTCTCAAG
* * * **
10914060 ACTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTG
1 ACCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCTCGT-CTCAAG
* *
10914108 GCCGATG-CATATCCCAGACATGTCTTACACT
1 ACCGATGCCATGTCCCAGACATGTCTTACACT
10914139 AGCACACATA
Statistics
Matches: 291, Mismatches: 55, Indels: 38
0.76 0.14 0.10
Matches are distributed among these distances:
44 8 0.03
45 17 0.06
46 66 0.23
47 61 0.21
48 27 0.09
49 79 0.27
50 30 0.10
51 3 0.01
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (47 bp):
ACCGATGCCATGTCCCAGACATGTCTTACACTGGCTCTCGTCTCAAG
Found at i:10914087 original size:94 final size:95
Alignment explanation
Indices: 10913727--10914141 Score: 302
Period size: 94 Copynumber: 4.4 Consensus size: 95
10913717 TGGGTAGAAT
* * * *
10913727 ACCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCAT-ATCTTAAGT-C-GATGTCATGTCC
1 ACCGATG-CATGTCCCAGACATGGTCTTACACTAGCTC-TCATCTCAA-TACTGATGCCATGTCC
** *
10913789 CAGACATGGTCTTACACT-GAATATCATCATTGA-
63 CAGACATGGTCTTACACTGGCTTA-CAT-ATCGAG
* * * * ** * * *
10913822 AGCCGACGCCATGTCCCAGACATGGTCTTACACTAACTATCATCATCGAGGCCGACGCCATATCC
1 A-CCGATG-CATGTCCCAGACATGGTCTTACACTAGCTCTCATC-TCAATACTGATGCCATGTCC
* *
10913887 CAGACATGGTCTTACACTAGCTCTTACATATCCGTG
63 CAGACATGGTCTTACACT-G-GCTTACATAT-CGAG
* * * * * * *
10913923 -CCAATTCCATGTCCCAGACATGGTCTTACA-TTG-ACACATCTC-ATAGCTGAT-TCATCTCCC
1 ACCGA-TGCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAATA-CTGATGCCATGTCCC
* *
10913983 AGACAT-GTCTTACACTGGCTTACGTCTCGAG
64 AGACATGGTCTTACACTGGCTTACATATCGAG
* *
10914014 ACCGATGCATGTCCCAAACAT-GTCTTACACTAGCTCTCGTCTCAATACTGATGCCATGTCCCAG
1 ACCGATGCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAATACTGATGCCATGTCCCAG
*
10914078 ACATGGTCTTACACTGGCTCT-CATAAT-GTG
66 ACATGGTCTTACACTGGCT-TACAT-ATCGAG
* *
10914108 GCCGATGCATATCCCAGACAT-GTCTTACACTAGC
1 ACCGATGCATGTCCCAGACATGGTCTTACACTAGC
10914142 ACACATATGA
Statistics
Matches: 251, Mismatches: 49, Indels: 41
0.74 0.14 0.12
Matches are distributed among these distances:
90 8 0.03
91 19 0.08
92 21 0.08
93 17 0.07
94 59 0.24
95 18 0.07
96 40 0.16
97 7 0.03
98 28 0.11
99 28 0.11
100 4 0.02
101 2 0.01
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (95 bp):
ACCGATGCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAATACTGATGCCATGTCCCAG
ACATGGTCTTACACTGGCTTACATATCGAG
Found at i:10916172 original size:6 final size:6
Alignment explanation
Indices: 10916161--10916187 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
10916151 CCATATTGGC
10916161 ATGTAA ATGTAA ATGTAA ATGTAA ATG
1 ATGTAA ATGTAA ATGTAA ATGTAA ATG
10916188 ATGCTTGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.33
Consensus pattern (6 bp):
ATGTAA
Found at i:10918258 original size:20 final size:20
Alignment explanation
Indices: 10918201--10918246 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
10918191 CAAGGTGCCG
*
10918201 ATACTTTGCACAAAATATCT
1 ATACTTTGCACAAAGTATCT
*
10918221 ATACTTTGCACCAAGTATCT
1 ATACTTTGCACAAAGTATCT
10918241 ATACTT
1 ATACTT
10918247 ATTACAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.35, C:0.22, G:0.07, T:0.37
Consensus pattern (20 bp):
ATACTTTGCACAAAGTATCT
Found at i:10918270 original size:15 final size:16
Alignment explanation
Indices: 10918240--10918273 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
10918230 ACCAAGTATC
*
10918240 TATACTTATTACAAAG
1 TATACTTATCACAAAG
10918256 TATACTT-TCACAAAG
1 TATACTTATCACAAAG
10918271 TAT
1 TAT
10918274 CGATACCTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.41, C:0.15, G:0.06, T:0.38
Consensus pattern (16 bp):
TATACTTATCACAAAG
Found at i:10926172 original size:28 final size:29
Alignment explanation
Indices: 10926114--10926168 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
10926104 TAAATATATT
* *
10926114 TTTTTATTTTTAATCATATTTACATTTTA
1 TTTTTATTTTTAATCATAATCACATTTTA
10926143 TTTTTATTTTTAAT-ATAATCA-ATTTT
1 TTTTTATTTTTAATCATAATCACATTTT
10926169 TATTATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 5 0.21
28 5 0.21
29 14 0.58
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.65
Consensus pattern (29 bp):
TTTTTATTTTTAATCATAATCACATTTTA
Found at i:10938003 original size:42 final size:43
Alignment explanation
Indices: 10937919--10937997 Score: 103
Period size: 40 Copynumber: 1.9 Consensus size: 43
10937909 AATAAAAAAG
* *
10937919 ATATTTTTTCATTCTCTCCTCTCAACACATTTCTTTTTCTTTC
1 ATATTATTTCATTCTCTCCTCTCAACACATCTCTTTTTCTTTC
10937962 ATATTATTTC-TTCTCT-CTCTCTAA-A-ATCTCTTTTTC
1 ATATTATTTCATTCTCTCCTCTC-AACACATCTCTTTTTC
10937998 CCTTTCTTCG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
40 10 0.30
41 6 0.18
42 8 0.24
43 9 0.27
ACGTcount: A:0.18, C:0.27, G:0.00, T:0.56
Consensus pattern (43 bp):
ATATTATTTCATTCTCTCCTCTCAACACATCTCTTTTTCTTTC
Found at i:10945096 original size:30 final size:30
Alignment explanation
Indices: 10945060--10945120 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
10945050 ATTGTAGTAG
10945060 TTGCAGAAGTTCAGGGACTATTCCATAACT
1 TTGCAGAAGTTCAGGGACTATTCCATAACT
* *
10945090 TTGCAGAAGTTTAGGGACTATTCCGTAACT
1 TTGCAGAAGTTCAGGGACTATTCCATAACT
10945120 T
1 T
10945121 CCCCTTTTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (30 bp):
TTGCAGAAGTTCAGGGACTATTCCATAACT
Found at i:10946295 original size:21 final size:20
Alignment explanation
Indices: 10946261--10946308 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
10946251 ATAGAAACCG
*
10946261 ATAGAATTGTTATTTCGGAAA
1 ATAGAATTGTTATTT-AGAAA
10946282 ATAGAATT-TATATTTAGAAA
1 ATAGAATTGT-TATTTAGAAA
10946302 ATA-AATT
1 ATAGAATT
10946309 CTCACTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 4 0.16
20 8 0.32
21 13 0.52
ACGTcount: A:0.46, C:0.02, G:0.12, T:0.40
Consensus pattern (20 bp):
ATAGAATTGTTATTTAGAAA
Found at i:10947890 original size:15 final size:15
Alignment explanation
Indices: 10947872--10947910 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
10947862 AAATTTCACA
10947872 TTTCACTATTT-TACC
1 TTTCA-TATTTCTACC
*
10947887 TTTCATATTTCTATC
1 TTTCATATTTCTACC
10947902 TTTCATATT
1 TTTCATATT
10947911 GTGCATGCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTCATATTTCTACC
Found at i:10949553 original size:5 final size:5
Alignment explanation
Indices: 10949533--10949567 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
10949523 AAGTGATTAT
10949533 TTTAA TCTTAAA TTTAA TTTAA TTTAA TTTAA TTT
1 TTTAA T-TT-AA TTTAA TTTAA TTTAA TTTAA TTT
10949568 TATCTCTTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 21 0.75
6 4 0.14
7 3 0.11
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (5 bp):
TTTAA
Found at i:10949563 original size:15 final size:17
Alignment explanation
Indices: 10949509--10949572 Score: 60
Period size: 20 Copynumber: 3.7 Consensus size: 17
10949499 TAGTATTTTA
*
10949509 TTAATTTAATATTAAAGT
1 TTAATTTAATCTTAAA-T
*
10949527 GATTATTTTAATCTTAAAT
1 --TTAATTTAATCTTAAAT
10949546 TTAATTTAAT-TT-AAT
1 TTAATTTAATCTTAAAT
*
10949561 TTAATTTTATCT
1 TTAATTTAATCT
10949573 CTTAGATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
15 12 0.31
16 3 0.08
17 9 0.23
19 1 0.03
20 14 0.36
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (17 bp):
TTAATTTAATCTTAAAT
Found at i:10949642 original size:59 final size:58
Alignment explanation
Indices: 10949544--10949659 Score: 164
Period size: 59 Copynumber: 2.0 Consensus size: 58
10949534 TTAATCTTAA
* *
10949544 ATTTAATTTAATTTAATTTAATTTTATCTCTTAGATAAATATTCTATTAATTTAATAAG
1 ATTTAATTTAATTTAATCTAATTTTA-CTCTTAGATAAATATTATATTAATTTAATAAG
10949603 ATTTAATATTAAATTTAATCTAATATTTA-TCTT-GATAAATATTATATTAATTTAATA
1 ATTTAAT-TT-AATTTAATCTAAT-TTTACTCTTAGATAAATATTATATTAATTTAATA
10949660 TTAAAGTAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
59 30 0.58
60 6 0.12
61 12 0.23
62 4 0.08
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.52
Consensus pattern (58 bp):
ATTTAATTTAATTTAATCTAATTTTACTCTTAGATAAATATTATATTAATTTAATAAG
Found at i:10954887 original size:16 final size:17
Alignment explanation
Indices: 10954845--10954894 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
10954835 ATTTAATAAG
*
10954845 ATTTAATAATAAAGTTA
1 ATTTAATATTAAAGTTA
*
10954862 ATCTTAAATATTATA-TTA
1 AT-TT-AATATTAAAGTTA
10954880 ATTTAATATTAAAGT
1 ATTTAATATTAAAGT
10954895 GGTTAAGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
16 8 0.30
17 5 0.19
18 7 0.26
19 7 0.26
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (17 bp):
ATTTAATATTAAAGTTA
Found at i:10963385 original size:29 final size:30
Alignment explanation
Indices: 10963340--10963421 Score: 105
Period size: 29 Copynumber: 2.8 Consensus size: 30
10963330 AAAAATATGT
10963340 TATGTTGGAGAGAAAATGAAAGAAGAAAAA
1 TATGTTGGAGAGAAAATGAAAGAAGAAAAA
*
10963370 TATGTTGG-GAGAAAATGAGAGAAGAAAAA
1 TATGTTGGAGAGAAAATGAAAGAAGAAAAA
* * * *
10963399 T-TTTTTGACAGAAAATGAGAGAA
1 TATGTTGGAGAGAAAATGAAAGAA
10963422 TAGTGATTGT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
28 4 0.09
29 35 0.74
30 8 0.17
ACGTcount: A:0.51, C:0.01, G:0.27, T:0.21
Consensus pattern (30 bp):
TATGTTGGAGAGAAAATGAAAGAAGAAAAA
Found at i:10964189 original size:22 final size:20
Alignment explanation
Indices: 10964142--10964191 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
10964132 GCAAAATACT
10964142 AAAAAAAACAACAAAAAGTA
1 AAAAAAAACAACAAAAAGTA
* *
10964162 AGAAAAAAAGCAAGAAAGCAGTA
1 A-AAAAAAA-CAACAAA-AAGTA
10964185 AAAAAAA
1 AAAAAAA
10964192 CTATATTCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 1 0.04
21 7 0.28
22 12 0.48
23 5 0.20
ACGTcount: A:0.76, C:0.08, G:0.12, T:0.04
Consensus pattern (20 bp):
AAAAAAAACAACAAAAAGTA
Found at i:10964300 original size:24 final size:25
Alignment explanation
Indices: 10964267--10964320 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
10964257 TCTAAACAGG
10964267 TTTTATTTTTTTATTCAACCTCATT
1 TTTTATTTTTTTATTCAACCTCATT
* * *
10964292 TTTTATTTTTTTGTTTAACTTCATT
1 TTTTATTTTTTTATTCAACCTCATT
10964317 TTTT
1 TTTT
10964321 GAACCTATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.17, C:0.11, G:0.02, T:0.70
Consensus pattern (25 bp):
TTTTATTTTTTTATTCAACCTCATT
Found at i:10967320 original size:26 final size:26
Alignment explanation
Indices: 10967290--10967341 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
10967280 TCCTTGTTTC
10967290 AGTGCTTCCTAATTGAAGGGTTTCTT
1 AGTGCTTCCTAATTGAAGGGTTTCTT
10967316 AGTGCTTCCTAATTGAAGGGTTTCTT
1 AGTGCTTCCTAATTGAAGGGTTTCTT
10967342 CTTCTTGTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.15, G:0.23, T:0.42
Consensus pattern (26 bp):
AGTGCTTCCTAATTGAAGGGTTTCTT
Found at i:10969401 original size:21 final size:23
Alignment explanation
Indices: 10969376--10969426 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
10969366 TTAAAATAAG
10969376 TTAAAATAA-TA-TAACAAAATT
1 TTAAAATAATTACTAACAAAATT
* *
10969397 TTAAAATAATTACTTACAAATTT
1 TTAAAATAATTACTAACAAAATT
10969420 TTAAAAT
1 TTAAAAT
10969427 TAAAAAACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 9 0.35
22 2 0.08
23 15 0.58
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (23 bp):
TTAAAATAATTACTAACAAAATT
Found at i:10969490 original size:23 final size:23
Alignment explanation
Indices: 10969464--10969509 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
10969454 ACAATCATGT
10969464 GAACTTAACAGCAACCAAATTAA
1 GAACTTAACAGCAACCAAATTAA
10969487 GAACTTAACAGCAACCAAATTAA
1 GAACTTAACAGCAACCAAATTAA
10969510 CTTTTGTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.52, C:0.22, G:0.09, T:0.17
Consensus pattern (23 bp):
GAACTTAACAGCAACCAAATTAA
Found at i:10973308 original size:17 final size:17
Alignment explanation
Indices: 10973286--10973318 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10973276 ACATTATGTG
10973286 AAAAATTAAATAAAATA
1 AAAAATTAAATAAAATA
*
10973303 AAAAATTAAATTAAAT
1 AAAAATTAAATAAAAT
10973319 TAAACTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAAATTAAATAAAATA
Found at i:10973313 original size:22 final size:23
Alignment explanation
Indices: 10973288--10973330 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
10973278 ATTATGTGAA
10973288 AAATTAAA-TAAAATAAAAAATT
1 AAATTAAATTAAAATAAAAAATT
*
10973310 AAATTAAATTAAACTAAAAAA
1 AAATTAAATTAAAATAAAAAA
10973331 CAAATAACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (23 bp):
AAATTAAATTAAAATAAAAAATT
Found at i:10973335 original size:22 final size:22
Alignment explanation
Indices: 10973288--10973335 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
10973278 ATTATGTGAA
*
10973288 AAATTAAATAAAATAAAAAATT
1 AAATTAAATAAAATAAAAAATC
*
10973310 AAATTAAATTAAACTAAAAAA-C
1 AAATTAAA-TAAAATAAAAAATC
10973332 AAAT
1 AAAT
10973336 AACTAAGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (22 bp):
AAATTAAATAAAATAAAAAATC
Found at i:10978887 original size:8 final size:8
Alignment explanation
Indices: 10978874--10978899 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
10978864 AAAAATTCAG
10978874 AATAATAA
1 AATAATAA
10978882 AATAATAA
1 AATAATAA
10978890 AATAATAA
1 AATAATAA
10978898 AA
1 AA
10978900 GATATTTGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AATAATAA
Found at i:10988056 original size:5 final size:5
Alignment explanation
Indices: 10988046--10988075 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
10988036 AGAGAATAGG
10988046 AAATA AAATA AAATA AAATA AAATA CAAAT
1 AAATA AAATA AAATA AAATA AAATA -AAAT
10988076 TTGGATTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:10989216 original size:19 final size:21
Alignment explanation
Indices: 10989192--10989249 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
10989182 GTACATCGTT
10989192 AACAGAAGCTCG-AA-AGCTA
1 AACAGAAGCTCGTAAGAGCTA
* * *
10989211 AACAGAAGTTCGTAAGAGTTG
1 AACAGAAGCTCGTAAGAGCTA
*
10989232 AACAGAAGCTCATAAGAG
1 AACAGAAGCTCGTAAGAG
10989250 TTGATCCACC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 11 0.34
20 2 0.06
21 19 0.59
ACGTcount: A:0.45, C:0.16, G:0.24, T:0.16
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTA
Found at i:10989237 original size:21 final size:21
Alignment explanation
Indices: 10989211--10989253 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
10989201 TCGAAAGCTA
* *
10989211 AACAGAAGTTCGTAAGAGTTG
1 AACAGAAGCTCATAAGAGTTG
10989232 AACAGAAGCTCATAAGAGTTG
1 AACAGAAGCTCATAAGAGTTG
10989253 A
1 A
10989254 TCCACCCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.42, C:0.12, G:0.26, T:0.21
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGTTG
Found at i:10994589 original size:21 final size:22
Alignment explanation
Indices: 10994530--10994591 Score: 58
Period size: 21 Copynumber: 2.9 Consensus size: 22
10994520 CTTACACGAC
*
10994530 CTGATCACACGGCC--GTGCCT
1 CTGACCACACGGCCGTGTGCCT
* **
10994550 CTGCACCACATGGGTGTGTGCCT
1 CTG-ACCACACGGCCGTGTGCCT
10994573 CTG-CCACACGGCCGTGTGC
1 CTGACCACACGGCCGTGTGC
10994592 TACTCCTTAC
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
20 3 0.09
21 20 0.62
23 9 0.28
ACGTcount: A:0.13, C:0.37, G:0.29, T:0.21
Consensus pattern (22 bp):
CTGACCACACGGCCGTGTGCCT
Found at i:11001080 original size:25 final size:25
Alignment explanation
Indices: 11001046--11001101 Score: 112
Period size: 25 Copynumber: 2.2 Consensus size: 25
11001036 TCATAGAGTT
11001046 ACACGACCTAGCACACGGGTATGTG
1 ACACGACCTAGCACACGGGTATGTG
11001071 ACACGACCTAGCACACGGGTATGTG
1 ACACGACCTAGCACACGGGTATGTG
11001096 ACACGA
1 ACACGA
11001102 TCGTGTGACC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.30, C:0.29, G:0.27, T:0.14
Consensus pattern (25 bp):
ACACGACCTAGCACACGGGTATGTG
Found at i:11002886 original size:30 final size:32
Alignment explanation
Indices: 11002850--11002917 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 32
11002840 GGTTTCATTT
* *
11002850 CAGTCACCCAAC-TTTTGAAAAA-TAACAAAA
1 CAGTCACCCAACGTTATAAAAAAGTAACAAAA
* *
11002880 CAGTCA-CTAACGTTATAAAAAAGTGACAAAA
1 CAGTCACCCAACGTTATAAAAAAGTAACAAAA
11002911 CAGTCAC
1 CAGTCAC
11002918 TGACTAATAG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
29 4 0.13
30 14 0.45
31 13 0.42
ACGTcount: A:0.49, C:0.22, G:0.10, T:0.19
Consensus pattern (32 bp):
CAGTCACCCAACGTTATAAAAAAGTAACAAAA
Found at i:11004233 original size:47 final size:45
Alignment explanation
Indices: 11004162--11004516 Score: 277
Period size: 47 Copynumber: 7.6 Consensus size: 45
11004152 TGATTTGTGC
* *
11004162 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-GATGAGA
* *
11004208 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATCCAGACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA--CAGATGAGA
* * * * * *
11004256 GCTAGTGTAAGACATGTCTGGGATATGCATCAGCCATACTATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-GATGAGA
* * * *
11004302 GCCAGTGTAAGACCATGCCTGGGACATGACATCGGCACAGAGATAAGT
1 GCCAGTGTAAGA-CATGTCTGGGACATG-CATCGGC-CACAGATGAGA
* * *
11004350 GCCAGTTTAAGACATGTTTGGGACATGCATCGGCCTCGACAGA-GATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-C-C-ACAGATGAGA
* * * * *
11004397 GCCAGTGTAAGACGTGTCTGGGACACGCATCGGCTA-AGA-GTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGATG-AGA
* * * * *
11004441 GCTAGTGTAAGACATGTCTGGGACATGCGTCAGCACGCGTATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC-CAC--AGATGAGA
*
11004489 GCCAGTGTAAAACCATGTCTGGGACATG
1 GCCAGTGTAAGA-CATGTCTGGGACATG
11004517 GCATTGGCAG
Statistics
Matches: 242, Mismatches: 49, Indels: 33
0.75 0.15 0.10
Matches are distributed among these distances:
43 4 0.02
44 30 0.12
45 1 0.00
46 39 0.16
47 89 0.37
48 58 0.24
49 21 0.09
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGATGAGA
Found at i:11004326 original size:94 final size:93
Alignment explanation
Indices: 11004165--11004525 Score: 362
Period size: 94 Copynumber: 3.9 Consensus size: 93
11004155 TTTGTGCGCC
* * * *
11004165 AGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGACCATGTCTGG
* *
11004230 GACATGGCATCGGCATCCAGACGAGGGCT
66 GACATGGCATCGGCATCAAGA-GAGTGCT
* * *
11004259 AGTGTAAGACATGTCTGGGATATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGCCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGACCATGTCTGG
* * *
11004324 GACATGACATCGGCA-CAGAGATAAGTGCC
66 GACATGGCATCGGCATCA-AGA-GAGTGCT
* * * *
11004353 AGTTTAAGACATGTTTGGGACATGCATCGGCC-TCGAC-A-GAGATAGCCAGTGTAAGA-CGTGT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAT--ACTATGAG--AGCCAGTGTAAGACCATGT
* *
11004414 CTGGGACA-CGCATCGGC-T-AAGAGTTGTGCT
62 CTGGGACATGGCATCGGCATCAAGAG-AGTGCT
* * *
11004444 AGTGTAAGACATGTCTGGGACATGCGTCAGCACGCGTA-TATGAGAGCCAGTGTAAAACCATGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAG--C-CATACTATGAGAGCCAGTGTAAGACCATGTC
*
11004508 TGGGACATGGCATTGGCA
63 TGGGACATGGCATCGGCA
11004526 GTATATCCCA
Statistics
Matches: 218, Mismatches: 33, Indels: 31
0.77 0.12 0.11
Matches are distributed among these distances:
91 33 0.15
92 13 0.06
93 26 0.12
94 130 0.60
95 16 0.07
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGGCATCAAGAGAGTGCT
Found at i:11004415 original size:141 final size:140
Alignment explanation
Indices: 11004162--11004525 Score: 348
Period size: 141 Copynumber: 2.6 Consensus size: 140
11004152 TGATTTGTGC
* * ** *
11004162 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
1 GCCAGTGTAAGACATGCCTGGGACATGCATCGGCCACAAGATAAGAGCCAGTGTAAGACCATGTC
* *
11004227 TGGGACATGGCATCGGCATCCAGACGAGGGCTAGTGTAAGACATGTCTGGGATATGCATCAGCCA
66 TGGGACATGGCATCGGCATCCAGACGAGAGCCAGTGTAAGACATGTCTGGGATATGCATCAGCCA
11004292 TACTATGATA
131 TACTATGATA
* *
11004302 GCCAGTGTAAGACCATGCCTGGGACATGACATCGG-CACAGAGATAAGTGCCAGTTTAAGA-CAT
1 GCCAGTGTAAGA-CATGCCTGGGACATG-CATCGGCCACA-AGATAAGAGCCAGTGTAAGACCAT
* * * * * *
11004365 GTTTGGGACAT-GCATCGGCCTCGACAGA-GATAGCCAGTGTAAGACGTGTCTGGGACACGCATC
63 GTCTGGGACATGGCATCGGCATC--CAGACGAGAGCCAGTGTAAGACATGTCTGGGATATGCATC
* * * *
11004428 GGCTAAGAGT-TG-T-
126 AGC-CATACTATGATA
* * * * ** *
11004441 GCTAGTGTAAGACATGTCTGGGACATGCGTCAG-CACGCGTATATGAGAGCCAGTGTAAAACCAT
1 GCCAGTGTAAGACATGCCTGGGACATGCATCGGCCACAAG-ATA--AGAGCCAGTGTAAGACCAT
*
11004505 GTCTGGGACATGGCATTGGCA
63 GTCTGGGACATGGCATCGGCA
11004526 GTATATCCCA
Statistics
Matches: 182, Mismatches: 31, Indels: 21
0.78 0.13 0.09
Matches are distributed among these distances:
136 1 0.01
137 10 0.05
138 14 0.08
139 23 0.13
140 36 0.20
141 71 0.39
142 27 0.15
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (140 bp):
GCCAGTGTAAGACATGCCTGGGACATGCATCGGCCACAAGATAAGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCGGCATCCAGACGAGAGCCAGTGTAAGACATGTCTGGGATATGCATCAGCCA
TACTATGATA
Found at i:11005611 original size:548 final size:548
Alignment explanation
Indices: 11004575--11005670 Score: 2192
Period size: 548 Copynumber: 2.0 Consensus size: 548
11004565 ATTCCAAACG
11004575 TTTCAATGATGAGAGTTATAGATCAATTTTGATAAAGAAAGAATAATCATGTTGTAAGTGGTACG
1 TTTCAATGATGAGAGTTATAGATCAATTTTGATAAAGAAAGAATAATCATGTTGTAAGTGGTACG
11004640 GTACCTATACGGTAAACATGAGAAATGAGCTTAATTTTAGAGAATGTGACTCGAGTAGATGATAA
66 GTACCTATACGGTAAACATGAGAAATGAGCTTAATTTTAGAGAATGTGACTCGAGTAGATGATAA
11004705 TGAGTAAGTTAAATTATGTTTACCTTTGAGCTATAAGTATGATGACTAATGGTGAGATTATTGTT
131 TGAGTAAGTTAAATTATGTTTACCTTTGAGCTATAAGTATGATGACTAATGGTGAGATTATTGTT
11004770 GTATATTTATTTATATGCAACTTACTAAGCTTTATGCTTACCTTTTTTTTCATTTTCCTCTTCTT
196 GTATATTTATTTATATGCAACTTACTAAGCTTTATGCTTACCTTTTTTTTCATTTTCCTCTTCTT
11004835 TCAGTGTTATCAAGCTAACTTAAGGATCCCTTAAAGTCAGAGATATCGATCACACTATCGACCGT
261 TCAGTGTTATCAAGCTAACTTAAGGATCCCTTAAAGTCAGAGATATCGATCACACTATCGACCGT
11004900 AATACCCAATATAGTTGGATTTATATTTTTGATGGTGGCATGTATAGGGCTAGACTAGGATGTTG
326 AATACCCAATATAGTTGGATTTATATTTTTGATGGTGGCATGTATAGGGCTAGACTAGGATGTTG
11004965 TATTAAGAGAATGGTTCATGTATTTTGGCTTAAGTCAAAGGCCCTTCATTTTGTATTCAAGCCTG
391 TATTAAGAGAATGGTTCATGTATTTTGGCTTAAGTCAAAGGCCCTTCATTTTGTATTCAAGCCTG
11005030 GAACAATGGCTATTATTCATTTTGATGAATGTATATAATGTTCTTTCTATGGATGAATTAGTGCC
456 GAACAATGGCTATTATTCATTTTGATGAATGTATATAATGTTCTTTCTATGGATGAATTAGTGCC
11005095 TATTGTGATGAGATTTATATATTGAAAA
521 TATTGTGATGAGATTTATATATTGAAAA
11005123 TTTCAATGATGAGAGTTATAGATCAATTTTGATAAAGAAAGAATAATCATGTTGTAAGTGGTACG
1 TTTCAATGATGAGAGTTATAGATCAATTTTGATAAAGAAAGAATAATCATGTTGTAAGTGGTACG
11005188 GTACCTATACGGTAAACATGAGAAATGAGCTTAATTTTAGAGAATGTGACTCGAGTAGATGATAA
66 GTACCTATACGGTAAACATGAGAAATGAGCTTAATTTTAGAGAATGTGACTCGAGTAGATGATAA
11005253 TGAGTAAGTTAAATTATGTTTACCTTTGAGCTATAAGTATGATGACTAATGGTGAGATTATTGTT
131 TGAGTAAGTTAAATTATGTTTACCTTTGAGCTATAAGTATGATGACTAATGGTGAGATTATTGTT
11005318 GTATATTTATTTATATGCAACTTACTAAGCTTTATGCTTACCTTTTTTTTCATTTTCCTCTTCTT
196 GTATATTTATTTATATGCAACTTACTAAGCTTTATGCTTACCTTTTTTTTCATTTTCCTCTTCTT
11005383 TCAGTGTTATCAAGCTAACTTAAGGATCCCTTAAAGTCAGAGATATCGATCACACTATCGACCGT
261 TCAGTGTTATCAAGCTAACTTAAGGATCCCTTAAAGTCAGAGATATCGATCACACTATCGACCGT
11005448 AATACCCAATATAGTTGGATTTATATTTTTGATGGTGGCATGTATAGGGCTAGACTAGGATGTTG
326 AATACCCAATATAGTTGGATTTATATTTTTGATGGTGGCATGTATAGGGCTAGACTAGGATGTTG
11005513 TATTAAGAGAATGGTTCATGTATTTTGGCTTAAGTCAAAGGCCCTTCATTTTGTATTCAAGCCTG
391 TATTAAGAGAATGGTTCATGTATTTTGGCTTAAGTCAAAGGCCCTTCATTTTGTATTCAAGCCTG
11005578 GAACAATGGCTATTATTCATTTTGATGAATGTATATAATGTTCTTTCTATGGATGAATTAGTGCC
456 GAACAATGGCTATTATTCATTTTGATGAATGTATATAATGTTCTTTCTATGGATGAATTAGTGCC
11005643 TATTGTGATGAGATTTATATATTGAAAA
521 TATTGTGATGAGATTTATATATTGAAAA
11005671 GATCTTGTGT
Statistics
Matches: 548, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
548 548 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (548 bp):
TTTCAATGATGAGAGTTATAGATCAATTTTGATAAAGAAAGAATAATCATGTTGTAAGTGGTACG
GTACCTATACGGTAAACATGAGAAATGAGCTTAATTTTAGAGAATGTGACTCGAGTAGATGATAA
TGAGTAAGTTAAATTATGTTTACCTTTGAGCTATAAGTATGATGACTAATGGTGAGATTATTGTT
GTATATTTATTTATATGCAACTTACTAAGCTTTATGCTTACCTTTTTTTTCATTTTCCTCTTCTT
TCAGTGTTATCAAGCTAACTTAAGGATCCCTTAAAGTCAGAGATATCGATCACACTATCGACCGT
AATACCCAATATAGTTGGATTTATATTTTTGATGGTGGCATGTATAGGGCTAGACTAGGATGTTG
TATTAAGAGAATGGTTCATGTATTTTGGCTTAAGTCAAAGGCCCTTCATTTTGTATTCAAGCCTG
GAACAATGGCTATTATTCATTTTGATGAATGTATATAATGTTCTTTCTATGGATGAATTAGTGCC
TATTGTGATGAGATTTATATATTGAAAA
Found at i:11006451 original size:3 final size:3
Alignment explanation
Indices: 11006390--11006431 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
11006380 CCTTTAACAG
* *
11006390 AGA AGA AAA AGA AGA AGA AGA AGA AAA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
11006432 GGCAGTAGCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:11011965 original size:212 final size:211
Alignment explanation
Indices: 11011507--11012109 Score: 955
Period size: 212 Copynumber: 2.9 Consensus size: 211
11011497 AAACAAACTA
* * *
11011507 TTAATTTTAATAATGCATACTTTATCTGGATGAAGTATGTATTAGCAAATTCATTAATATGATTA
1 TTAATTTTAATAATGCATACTTTATCTGGATGAAGTATGTATTAGTAGATTCACTAATATGATTA
* *
11011572 TATATATATAGATATTTACTCATGTATCATATTACAAAAACTAAAATTTAAATACTTATACCTAA
66 -ATATATATAG--ATTTACTCATGTATCACATTACAAAAACAAAAATTTAAATACTTATACCTAA
* *
11011637 TAAAACATGTATCTCATTACAATAATAGTTA-TTTCCAAATAACATATTGTTTTATAATTTTATT
128 TAGAACATGTATCTCATTACAATAATAGTTATTTTCTAAATAACATATTGTTTTATAATTTTATT
* *
11011701 TTTTATTTAATATTTTAGT
193 TCTTATTTAATATTTTAAT
*
11011720 TTAATTTTAATAATGCATACTTTATCTGGATGAAGTATGTATTAATAGATTCACTAATATGATTA
1 TTAATTTTAATAATGCATACTTTATCTGGATGAAGTATGTATTAGTAGATTCACTAATATGATTA
* *
11011785 CATATATATAGATTTATTCATGTATCACATTACAAAAACAAAAATTTAAATACTTATACTTAATA
66 -ATATATATAGATTTACTCATGTATCACATTACAAAAACAAAAATTTAAATACTTATACCTAATA
11011850 GAACATGTATCTCATTACAATAATAGTTATTTTCTAAATAACATATTGTTTTATAATTTTATTTC
130 GAACATGTATCTCATTACAATAATAGTTATTTTCTAAATAACATATTGTTTTATAATTTTATTTC
11011915 TTATTTAATATTTTAAT
195 TTATTTAATATTTTAAT
* *
11011932 TTAATTTTAATAATGCATACTTTATCCGGATGAAATATGTATTAGTAGATTCACTAATATGATT-
1 TTAATTTTAATAATGCATACTTTATCTGGATGAAGTATGTATTAGTAGATTCACTAATATGATTA
** *
11011996 ATATATAT--ATACACGCATGTATCACATTACAAAAACAAAAATTTAAATACTTATACCTAATAG
66 ATATATATAGATTTACTCATGTATCACATTACAAAAACAAAAATTTAAATACTTATACCTAATAG
* *
11012059 AACATGTATCTCATTACAATAATAATTATTTT-TCAAATAACATATTATTTT
131 AACATGTATCTCATTACAATAATAGTTATTTTCT-AAATAACATATTGTTTT
11012110 GTGTTATCAC
Statistics
Matches: 365, Mismatches: 23, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
207 1 0.00
208 97 0.27
210 8 0.02
211 78 0.21
212 110 0.30
213 71 0.19
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (211 bp):
TTAATTTTAATAATGCATACTTTATCTGGATGAAGTATGTATTAGTAGATTCACTAATATGATTA
ATATATATAGATTTACTCATGTATCACATTACAAAAACAAAAATTTAAATACTTATACCTAATAG
AACATGTATCTCATTACAATAATAGTTATTTTCTAAATAACATATTGTTTTATAATTTTATTTCT
TATTTAATATTTTAAT
Done.