Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 185 of 210
Found at i:61525337 original size:27 final size:27
Alignment explanation
Indices: 61525303--61525364 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
61525293 AAAAAATAAC
**
61525303 CAAAATATTATAACTTTTTTTATTTAT
1 CAAAATATTATAAAATTTTTTATTTAT
61525330 CAAAATATTATAAAATTTTTTATTTAT
1 CAAAATATTATAAAATTTTTTATTTAT
61525357 CAAAATAT
1 CAAAATAT
61525365 ACAAAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (27 bp):
CAAAATATTATAAAATTTTTTATTTAT
Found at i:61525499 original size:19 final size:18
Alignment explanation
Indices: 61525475--61525570 Score: 79
Period size: 19 Copynumber: 5.2 Consensus size: 18
61525465 AGAATAGTTT
61525475 ATTTAATAACTTTATTTTA
1 ATTTAATAAC-TTATTTTA
* * *
61525494 ATTTAATAAAC-AATTCTC
1 ATTTAAT-AACTTATTTTA
61525512 ATTTAATAACTCTATTTTA
1 ATTTAATAACT-TATTTTA
* *
61525531 ATTTAATAAAC-TATTCTC
1 ATTTAAT-AACTTATTTTA
*
61525549 ATTTAATAACTCTATCTTA
1 ATTTAATAACT-TATTTTA
61525568 ATT
1 ATT
61525571 ATCACTTAAC
Statistics
Matches: 60, Mismatches: 11, Indels: 12
0.72 0.13 0.14
Matches are distributed among these distances:
17 6 0.10
18 23 0.38
19 25 0.42
20 6 0.10
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTTAATAACTTATTTTA
Found at i:61525516 original size:37 final size:37
Alignment explanation
Indices: 61525475--61525570 Score: 165
Period size: 37 Copynumber: 2.6 Consensus size: 37
61525465 AGAATAGTTT
*
61525475 ATTTAATAACTTTATTTTAATTTAATAAACAATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAACAATTCTC
*
61525512 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAACAATTCTC
*
61525549 ATTTAATAACTCTATCTTAATT
1 ATTTAATAACTCTATTTTAATT
61525571 ATCACTTAAC
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAACAATTCTC
Found at i:61525552 original size:18 final size:18
Alignment explanation
Indices: 61525494--61525557 Score: 83
Period size: 18 Copynumber: 3.5 Consensus size: 18
61525484 CTTTATTTTA
*
61525494 ATTTAATAAACAATTCTC
1 ATTTAATAAACTATTCTC
* * *
61525512 ATTTAATAACTCTATTTTA
1 ATTTAATAA-ACTATTCTC
61525531 ATTTAATAAACTATTCTC
1 ATTTAATAAACTATTCTC
61525549 ATTTAATAA
1 ATTTAATAA
61525558 CTCTATCTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
18 24 0.63
19 14 0.37
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTTAATAAACTATTCTC
Found at i:61526146 original size:27 final size:27
Alignment explanation
Indices: 61526108--61526186 Score: 131
Period size: 27 Copynumber: 2.9 Consensus size: 27
61526098 CATTTTAGTC
*
61526108 CTTTGGCACCATTGGTGCCGCCAATCT
1 CTTTGGCACCATTGGTGCCTCCAATCT
61526135 CTTTGGCACCATTGGTGCCTCCAATCT
1 CTTTGGCACCATTGGTGCCTCCAATCT
* *
61526162 CATTGGCACCTTTGGTGCCTCCAAT
1 CTTTGGCACCATTGGTGCCTCCAAT
61526187 GTGATTGGCC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.15, C:0.33, G:0.20, T:0.32
Consensus pattern (27 bp):
CTTTGGCACCATTGGTGCCTCCAATCT
Found at i:61526193 original size:27 final size:27
Alignment explanation
Indices: 61526110--61526195 Score: 127
Period size: 27 Copynumber: 3.2 Consensus size: 27
61526100 TTTTAGTCCT
* *
61526110 TTGGCACCATTGGTGCCGCCAATCTCT
1 TTGGCACCATTGGTGCCTCCAATCTCA
61526137 TTGGCACCATTGGTGCCTCCAATCTCA
1 TTGGCACCATTGGTGCCTCCAATCTCA
* * *
61526164 TTGGCACCTTTGGTGCCTCCAATGTGA
1 TTGGCACCATTGGTGCCTCCAATCTCA
61526191 TTGGC
1 TTGGC
61526196 CTGATCAGGC
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.15, C:0.30, G:0.23, T:0.31
Consensus pattern (27 bp):
TTGGCACCATTGGTGCCTCCAATCTCA
Found at i:61527478 original size:16 final size:16
Alignment explanation
Indices: 61527457--61527508 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
61527447 TTTGGTTCGC
*
61527457 TGTATTGGATTAGATG
1 TGTATTGGATTAGAGG
61527473 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
61527489 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
61527505 TGTA
1 TGTA
61527509 ATAACAAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.25, C:0.00, G:0.35, T:0.40
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:61533409 original size:51 final size:52
Alignment explanation
Indices: 61533354--61533452 Score: 155
Period size: 51 Copynumber: 1.9 Consensus size: 52
61533344 TAATAAAAAG
61533354 TTTCAATACTTACAATTTTATTTCT-AAACTAAAAACAATTAATTTGTACCT
1 TTTCAATACTTACAATTTTATTTCTAAAACTAAAAACAATTAATTTGTACCT
* **
61533405 TTTCAATATTTACAATTTTATTTCTAAAAACTAAAAGTAATTAATTTG
1 TTTCAATACTTACAATTTTATTTCT-AAAACTAAAAACAATTAATTTG
61533453 AACTTTTATC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 24 0.56
53 19 0.44
ACGTcount: A:0.40, C:0.12, G:0.03, T:0.44
Consensus pattern (52 bp):
TTTCAATACTTACAATTTTATTTCTAAAACTAAAAACAATTAATTTGTACCT
Found at i:61538118 original size:18 final size:17
Alignment explanation
Indices: 61538095--61538139 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 17
61538085 CGAGCGCTAA
61538095 TGACTTTTTCAATTTTGC
1 TGACTTTTTCAA-TTTGC
*
61538113 TGACTTTGTC---TTGC
1 TGACTTTTTCAATTTGC
61538127 TGACTTTTTCAAT
1 TGACTTTTTCAAT
61538140 CTTCCCGTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 7
0.71 0.06 0.23
Matches are distributed among these distances:
14 13 0.59
18 9 0.41
ACGTcount: A:0.16, C:0.18, G:0.13, T:0.53
Consensus pattern (17 bp):
TGACTTTTTCAATTTGC
Found at i:61542531 original size:18 final size:18
Alignment explanation
Indices: 61542508--61542549 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
61542498 ATCTTAATTC
* *
61542508 TTAAAAAATATAAAAACT
1 TTAAAAAATAAAAAAAAT
61542526 TTAAAAAATAAAAAAAAT
1 TTAAAAAATAAAAAAAAT
61542544 TTAAAA
1 TTAAAA
61542550 GTTCATTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (18 bp):
TTAAAAAATAAAAAAAAT
Found at i:61547410 original size:24 final size:23
Alignment explanation
Indices: 61547378--61547428 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
61547368 TAAAATGGTA
*
61547378 CAAATAAAATGA-AAAAAAAAATT
1 CAAATAAAAAGACAAAAAAAAA-T
*
61547401 CAAATAAAAAAGACAAAAATAAAT
1 CAAAT-AAAAAGACAAAAAAAAAT
61547425 CAAA
1 CAAA
61547429 ACAAAATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 5 0.21
24 11 0.46
25 8 0.33
ACGTcount: A:0.75, C:0.08, G:0.04, T:0.14
Consensus pattern (23 bp):
CAAATAAAAAGACAAAAAAAAAT
Found at i:61547434 original size:23 final size:25
Alignment explanation
Indices: 61547378--61547451 Score: 66
Period size: 23 Copynumber: 3.1 Consensus size: 25
61547368 TAAAATGGTA
* *
61547378 CAAAT-AAAATGA-AAAAAAAAATT
1 CAAATAAAAAAGACAAAAATAAATT
61547401 CAAATAAAAAAGACAAAAATAAA-T
1 CAAATAAAAAAGACAAAAATAAATT
* * *
61547425 CAAA-ACAAAATATAAAAATAAACTT
1 CAAATAAAAAAGACAAAAATAAA-TT
61547450 CA
1 CA
61547452 GTATTGTTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
23 20 0.48
24 11 0.26
25 11 0.26
ACGTcount: A:0.72, C:0.09, G:0.03, T:0.16
Consensus pattern (25 bp):
CAAATAAAAAAGACAAAAATAAATT
Found at i:61552131 original size:18 final size:18
Alignment explanation
Indices: 61552108--61552145 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
61552098 TATGTTAAGG
61552108 ATAAATCTA-AAATCAAAA
1 ATAAATCTAGAAAT-AAAA
*
61552126 ATAAATTTAGAAATAAAA
1 ATAAATCTAGAAATAAAA
61552144 AT
1 AT
61552146 CAAACACGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.26
Consensus pattern (18 bp):
ATAAATCTAGAAATAAAA
Found at i:61558471 original size:16 final size:16
Alignment explanation
Indices: 61558428--61558471 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
61558418 AATTTTAAAA
*
61558428 TATTTTTAAATACTTTT
1 TATTTTTAAA-ATTTTT
61558445 T-TTTTTAAAATTTTT
1 TATTTTTAAAATTTTT
61558460 TATTTTTAAAAT
1 TATTTTTAAAAT
61558472 AAATTTTTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 6 0.24
16 18 0.72
17 1 0.04
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (16 bp):
TATTTTTAAAATTTTT
Found at i:61561099 original size:16 final size:14
Alignment explanation
Indices: 61561070--61561102 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
61561060 TTAATATTTA
61561070 ATTAATTTTTAAAT
1 ATTAATTTTTAAAT
61561084 ATTATATTTTTAAA-
1 ATTA-ATTTTTAAAT
61561098 ATTAA
1 ATTAA
61561103 ATTATAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.06
14 8 0.44
15 9 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTAATTTTTAAAT
Found at i:61564478 original size:16 final size:16
Alignment explanation
Indices: 61564457--61564494 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
61564447 TGTATTCGAC
*
61564457 TTATTTTAAGTTTGAA
1 TTATTTCAAGTTTGAA
61564473 TTATTTCAAGTTTGAA
1 TTATTTCAAGTTTGAA
*
61564489 TCATTT
1 TTATTT
61564495 GAGTTTAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.29, C:0.05, G:0.11, T:0.55
Consensus pattern (16 bp):
TTATTTCAAGTTTGAA
Found at i:61565724 original size:34 final size:33
Alignment explanation
Indices: 61565648--61565758 Score: 116
Period size: 33 Copynumber: 3.3 Consensus size: 33
61565638 AAAGACAAAA
* * *
61565648 TTATTTAAAAAAACTAAACCATAATTTAGTTAAT
1 TTATTTAAAAACACTAAACCCTAATTTAATT-AT
* *
61565682 TT-TTTAAAAACTCTAATCCCTAATTTAATTCAT
1 TTATTTAAAAACACTAAACCCTAATTTAATT-AT
* * *
61565715 TTATTTAAAACCCCTAAAACCTAATTTAATTAT
1 TTATTTAAAAACACTAAACCCTAATTTAATTAT
*
61565748 TTTTTTAAAAA
1 TTATTTAAAAA
61565759 AACTCTAAAC
Statistics
Matches: 64, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
33 38 0.59
34 26 0.41
ACGTcount: A:0.43, C:0.14, G:0.01, T:0.42
Consensus pattern (33 bp):
TTATTTAAAAACACTAAACCCTAATTTAATTAT
Found at i:61565769 original size:34 final size:32
Alignment explanation
Indices: 61565651--61565770 Score: 114
Period size: 34 Copynumber: 3.6 Consensus size: 32
61565641 GACAAAATTA
** * *
61565651 TTTAAAAAAACTAAACCATAATTTAGTTAATTT
1 TTTAAAAACTCTAAACC-TAATTTAATTATTTT
* *
61565684 TTTAAAAACTCTAATCCCTAATTTAATTCATTTA
1 TTTAAAAACTCTAA-ACCTAATTTAATT-ATTTT
* *
61565718 TTTAAAACCCCTAAAACCTAATTTAATTATTTT
1 TTTAAAAACTCT-AAACCTAATTTAATTATTTT
61565751 TTTAAAAAAACTCTAAACCT
1 TTT--AAAAACTCTAAACCT
61565771 TGATTTATTC
Statistics
Matches: 70, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
33 28 0.40
34 33 0.47
35 9 0.13
ACGTcount: A:0.43, C:0.16, G:0.01, T:0.40
Consensus pattern (32 bp):
TTTAAAAACTCTAAACCTAATTTAATTATTTT
Found at i:61567969 original size:20 final size:19
Alignment explanation
Indices: 61567922--61567969 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
61567912 ATAAAAACAA
61567922 AAAAAAAAAGAGAAAATTC
1 AAAAAAAAAGAGAAAATTC
* *
61567941 AAAGGAAAAAGTGAAAATTC
1 AAA-AAAAAAGAGAAAATTC
*
61567961 AGAAAAAAA
1 AAAAAAAAA
61567970 TGTAGACAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.71, C:0.04, G:0.15, T:0.10
Consensus pattern (19 bp):
AAAAAAAAAGAGAAAATTC
Found at i:61571060 original size:28 final size:31
Alignment explanation
Indices: 61571005--61571062 Score: 95
Period size: 28 Copynumber: 2.0 Consensus size: 31
61570995 AGGGGAGAAG
61571005 TTAAAGGACCTTCTACTACAGAAATTGACTA
1 TTAAAGGACCTTCTACTACAGAAATTGACTA
61571036 TTAAAGGACC-T-T-CTACAGAAATTGACT
1 TTAAAGGACCTTCTACTACAGAAATTGACT
61571063 CTTAGGGTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 15 0.56
29 1 0.04
30 1 0.04
31 10 0.37
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (31 bp):
TTAAAGGACCTTCTACTACAGAAATTGACTA
Found at i:61571718 original size:18 final size:17
Alignment explanation
Indices: 61571675--61571719 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
61571665 GGTTTGAATC
61571675 ATTTTAA-TTTTAAATT
1 ATTTTAAGTTTTAAATT
*
61571691 ATTTTGAGTTTTAAATT
1 ATTTTAAGTTTTAAATT
61571708 ATTTTTAAGTTT
1 A-TTTTAAGTTT
61571720 GGATTTAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 6 0.24
17 10 0.40
18 9 0.36
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (17 bp):
ATTTTAAGTTTTAAATT
Found at i:61575222 original size:21 final size:21
Alignment explanation
Indices: 61575196--61575250 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
61575186 TCATATCTTT
61575196 TAAGATTGTATATATCATATC
1 TAAGATTGTATATATCATATC
*
61575217 TAAGATTGCATATATCATATC
1 TAAGATTGTATATATCATATC
61575238 TAAGATTGTATAT
1 TAAGATTGTATAT
61575251 CCTCGAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (21 bp):
TAAGATTGTATATATCATATC
Found at i:61575229 original size:19 final size:20
Alignment explanation
Indices: 61575171--61575245 Score: 78
Period size: 21 Copynumber: 3.5 Consensus size: 20
61575161 AAATTGAATC
* *
61575171 TCTAAGATTACAAAATCATA
1 TCTAAGATTGCAATATCATA
*
61575191 TCTTTTAAGATTGTATATATCATA
1 TC---TAAGATTGCA-ATATCATA
61575215 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCA-ATATCATA
61575236 TCTAAGATTG
1 TCTAAGATTG
61575246 TATATCCTCG
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
20 2 0.04
21 28 0.60
23 8 0.17
24 9 0.19
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.40
Consensus pattern (20 bp):
TCTAAGATTGCAATATCATA
Found at i:61579542 original size:34 final size:34
Alignment explanation
Indices: 61579417--61579542 Score: 109
Period size: 34 Copynumber: 3.7 Consensus size: 34
61579407 ACAAAATTAT
* * *
61579417 TTTAAAAA-ACTAAACCATAATTTAGTTAATTT-
1 TTTAAAAACTCTAAACCTTAATTTAATTAATTTA
* *
61579449 TCTTAAAAACTCTAAGCCCTAATTTAATTAATTTA
1 T-TTAAAAACTCTAAACCTTAATTTAATTAATTTA
* *
61579484 TTTAAAACCTCTAAA-ATCTAATTTAA-TAATTT-
1 TTTAAAAACTCTAAACCT-TAATTTAATTAATTTA
*
61579516 TTTAAAAAAACTCTAAACCTTGATTTA
1 TTT--AAAAACTCTAAACCTTAATTTA
61579543 TTCCCTAAAC
Statistics
Matches: 76, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
32 4 0.05
33 13 0.17
34 57 0.75
35 2 0.03
ACGTcount: A:0.44, C:0.13, G:0.02, T:0.40
Consensus pattern (34 bp):
TTTAAAAACTCTAAACCTTAATTTAATTAATTTA
Found at i:61579635 original size:15 final size:15
Alignment explanation
Indices: 61579586--61579648 Score: 57
Period size: 15 Copynumber: 4.6 Consensus size: 15
61579576 TTATTTTAAC
61579586 AAAACCCT-AACCCT
1 AAAACCCTAAACCCT
61579600 --AACCCT-AACCCT
1 AAAACCCTAAACCCT
*
61579612 --AACCTTAAACCCT
1 AAAACCCTAAACCCT
**
61579625 AAAACCCTAAACCAA
1 AAAACCCTAAACCCT
61579640 AAAACCCTA
1 AAAACCCTA
61579649 GTGACTAAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
12 17 0.40
13 6 0.14
15 19 0.45
ACGTcount: A:0.46, C:0.40, G:0.00, T:0.14
Consensus pattern (15 bp):
AAAACCCTAAACCCT
Found at i:61579637 original size:7 final size:6
Alignment explanation
Indices: 61579588--61579626 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
61579578 ATTTTAACAA
*
61579588 AACCCT AACCCT AACCCT AACCCT AACCTT AAACCCT AA
1 AACCCT AACCCT AACCCT AACCCT AACCCT -AACCCT AA
61579627 AACCCTAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 25 0.83
7 5 0.17
ACGTcount: A:0.38, C:0.44, G:0.00, T:0.18
Consensus pattern (6 bp):
AACCCT
Found at i:61581951 original size:16 final size:17
Alignment explanation
Indices: 61581930--61581967 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
61581920 TTTTTTTTAC
61581930 TTATATATATA-ACATA
1 TTATATATATATACATA
*
61581946 TTATATATGTATACATA
1 TTATATATATATACATA
61581963 -TATAT
1 TTATAT
61581968 TGTACCTAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (17 bp):
TTATATATATATACATA
Found at i:61585097 original size:21 final size:21
Alignment explanation
Indices: 61585073--61585115 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
61585063 ATTTAATGGT
61585073 TATATTTAA-ATATTTAAAATA
1 TATATTTAATATA-TTAAAATA
*
61585094 TATATTTCATATATTAAAATA
1 TATATTTAATATATTAAAATA
61585115 T
1 T
61585116 TAGCAACAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
TATATTTAATATATTAAAATA
Found at i:61585305 original size:13 final size:13
Alignment explanation
Indices: 61585289--61585341 Score: 72
Period size: 13 Copynumber: 4.1 Consensus size: 13
61585279 TTTAAACCAA
61585289 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
61585302 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
*
61585315 ACTTTTTC-ACAGC
1 AC-TTTTCAAAAGC
61585328 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
61585341 A
1 A
61585342 TTGCCAAACT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
12 5 0.15
13 25 0.74
14 4 0.12
ACGTcount: A:0.36, C:0.26, G:0.08, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:61586728 original size:12 final size:12
Alignment explanation
Indices: 61586708--61586774 Score: 55
Period size: 13 Copynumber: 5.3 Consensus size: 12
61586698 TCAACTCTTT
61586708 TTTTATTTATTA
1 TTTTATTTATTA
*
61586720 TTTTGTTTATTTA
1 TTTTATTTA-TTA
* **
61586733 ATTTACCTATTCA
1 TTTTATTTATT-A
61586746 CTTTTATTTATTA
1 -TTTTATTTATTA
61586759 -TTTATTTATTA
1 TTTTATTTATTA
61586770 CTTTT
1 -TTTT
61586775 TCAACCTTTG
Statistics
Matches: 42, Mismatches: 8, Indels: 9
0.71 0.14 0.15
Matches are distributed among these distances:
11 11 0.26
12 10 0.24
13 13 0.31
14 8 0.19
ACGTcount: A:0.22, C:0.07, G:0.01, T:0.69
Consensus pattern (12 bp):
TTTTATTTATTA
Found at i:61586838 original size:3 final size:3
Alignment explanation
Indices: 61586832--61586859 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
61586822 TTATTGTCTC
61586832 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
61586860 CTTGTTTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:61593092 original size:21 final size:21
Alignment explanation
Indices: 61593068--61593109 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
61593058 CTTTTTGTTC
61593068 AATTAATT-ATCGAAACTTTAA
1 AATTAATTAAT-GAAACTTTAA
**
61593089 AATTTCTTAATGAAACTTTAA
1 AATTAATTAATGAAACTTTAA
61593110 TACTAACTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (21 bp):
AATTAATTAATGAAACTTTAA
Found at i:61594992 original size:17 final size:17
Alignment explanation
Indices: 61594972--61595032 Score: 68
Period size: 19 Copynumber: 3.4 Consensus size: 17
61594962 CAATTATTTT
61594972 TTTTGAAAACACGAAAA
1 TTTTGAAAACACGAAAA
* *
61594989 TTTTTAAAACACAGAAATT
1 TTTTGAAAACAC-GAAA-A
*
61595008 TTTTGAAAACATGAAAAA
1 TTTTGAAAACACG-AAAA
61595026 TTTTGAA
1 TTTTGAA
61595033 TAACGGATTC
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
17 11 0.31
18 12 0.33
19 13 0.36
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (17 bp):
TTTTGAAAACACGAAAA
Found at i:61594992 original size:18 final size:18
Alignment explanation
Indices: 61594971--61595032 Score: 81
Period size: 18 Copynumber: 3.4 Consensus size: 18
61594961 ACAATTATTT
61594971 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
61594989 TTTTT-AAAACACAGAAAT
1 TTTTTGAAAACAC-GAAAA
*
61595007 TTTTTGAAAACATGAAAA
1 TTTTTGAAAACACGAAAA
*
61595025 ATTTTGAA
1 TTTTTGAA
61595033 TAACGGATTC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
17 7 0.18
18 25 0.66
19 6 0.16
ACGTcount: A:0.48, C:0.08, G:0.10, T:0.34
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:61594992 original size:36 final size:36
Alignment explanation
Indices: 61594931--61595032 Score: 100
Period size: 36 Copynumber: 2.8 Consensus size: 36
61594921 CAAAATACGA
* * *
61594931 ATTTTTTTTTAAAACAC-AGAGATTTTTGAAACA-ATT
1 ATTTTTTTTGAAAACACGA-AAATTTTTGAAACACA-G
*
61594967 ATTTTTTTTGAAAACACGAAAATTTTTAAAACACAG
1 ATTTTTTTTGAAAACACGAAAATTTTTGAAACACAG
** * *
61595003 AAATTTTTTGAAAACATGAAAAATTTTGAA
1 ATTTTTTTTGAAAACACGAAAATTTTTGAA
61595033 TAACGGATTC
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
36 53 0.96
37 2 0.04
ACGTcount: A:0.44, C:0.08, G:0.09, T:0.39
Consensus pattern (36 bp):
ATTTTTTTTGAAAACACGAAAATTTTTGAAACACAG
Found at i:61595251 original size:20 final size:19
Alignment explanation
Indices: 61595210--61595303 Score: 72
Period size: 20 Copynumber: 4.9 Consensus size: 19
61595200 TCATTGCCTT
*
61595210 ATTTTTGAAAACACGAATA
1 ATTTTTGAAAACACGAAAA
61595229 ATTTTT-AAAACACGAGAAAA
1 ATTTTTGAAAACAC--GAAAA
61595249 ATTTTTGAAGAA-AC-AAAA
1 ATTTTTGAA-AACACGAAAA
* *
61595267 A-TTTCG-AAACACGAGAATT
1 ATTTTTGAAAACACGA-AA-A
*
61595286 TTTTTTGAAAACACGAAA
1 ATTTTTGAAAACACGAAA
61595304 TTTTTTTTTA
Statistics
Matches: 60, Mismatches: 5, Indels: 19
0.71 0.06 0.23
Matches are distributed among these distances:
15 2 0.03
16 3 0.05
17 5 0.08
18 14 0.23
19 6 0.10
20 16 0.27
21 12 0.20
22 2 0.03
ACGTcount: A:0.49, C:0.11, G:0.12, T:0.29
Consensus pattern (19 bp):
ATTTTTGAAAACACGAAAA
Found at i:61595309 original size:18 final size:18
Alignment explanation
Indices: 61595210--61595308 Score: 64
Period size: 17 Copynumber: 5.3 Consensus size: 18
61595200 TCATTGCCTT
61595210 ATTTTTGAAAACACGAATA
1 ATTTTTGAAAACACGAA-A
61595229 ATTTTT-AAAACACGAGAAAA
1 ATTTTTGAAAACAC--G-AAA
61595249 ATTTTTGAAGAA-AC-AAA
1 ATTTTTGAA-AACACGAAA
* *
61595266 AATTTCG-AAACACGAGAA
1 ATTTTTGAAAACACGA-AA
*
61595284 TTTTTTTTGAAAACACG-AA
1 --ATTTTTGAAAACACGAAA
61595303 ATTTTT
1 ATTTTT
61595309 TTTTAATATT
Statistics
Matches: 63, Mismatches: 6, Indels: 24
0.68 0.06 0.26
Matches are distributed among these distances:
15 2 0.03
16 3 0.05
17 14 0.22
18 9 0.14
19 8 0.13
20 12 0.19
21 13 0.21
22 2 0.03
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.32
Consensus pattern (18 bp):
ATTTTTGAAAACACGAAA
Found at i:61595312 original size:21 final size:21
Alignment explanation
Indices: 61595273--61595311 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
61595263 AAAAATTTCG
61595273 AAACACGAGAATTTTTTTTGA
1 AAACACGAGAATTTTTTTTGA
61595294 AAACACGA-AATTTTTTTT
1 AAACACGAGAATTTTTTTT
61595312 TAATATTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (21 bp):
AAACACGAGAATTTTTTTTGA
Found at i:61595651 original size:16 final size:17
Alignment explanation
Indices: 61595630--61595662 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
61595620 AAATTGAACC
61595630 CTTTTTTTCTCT-TTTT
1 CTTTTTTTCTCTCTTTT
61595646 CTTTTTTTCTCTCTTTT
1 CTTTTTTTCTCTCTTTT
61595663 TTTCTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (17 bp):
CTTTTTTTCTCTCTTTT
Found at i:61595787 original size:13 final size:13
Alignment explanation
Indices: 61595771--61595804 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
61595761 GCTACTTCTT
61595771 TTTTTTTGCTTTG
1 TTTTTTTGCTTTG
*
61595784 TTTTTTTTCTTTG
1 TTTTTTTGCTTTG
61595797 TTTTTTTG
1 TTTTTTTG
61595805 GGCTGGTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.00, C:0.06, G:0.12, T:0.82
Consensus pattern (13 bp):
TTTTTTTGCTTTG
Found at i:61596527 original size:29 final size:30
Alignment explanation
Indices: 61596482--61596589 Score: 121
Period size: 29 Copynumber: 3.7 Consensus size: 30
61596472 AAACGCAGTA
* * *
61596482 AAATTTTTGGGGCCAAAATGTAAATTCAAG
1 AAATTTTAGGGGTCAAAATGTAATTTCAAG
*
61596512 AAATTTTA-GGGTCAAAATGTAATTTTAAG
1 AAATTTTAGGGGTCAAAATGTAATTTCAAG
* **
61596541 AAAGTTTAGGGGTTGAAATGTAATTTCAA-
1 AAATTTTAGGGGTCAAAATGTAATTTCAAG
**
61596570 AAAAGTTAGGGGTCAAAATG
1 AAATTTTAGGGGTCAAAATG
61596590 CAGTTTTTTT
Statistics
Matches: 65, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
29 41 0.63
30 24 0.37
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.31
Consensus pattern (30 bp):
AAATTTTAGGGGTCAAAATGTAATTTCAAG
Found at i:61596907 original size:49 final size:50
Alignment explanation
Indices: 61596834--61596977 Score: 161
Period size: 49 Copynumber: 3.0 Consensus size: 50
61596824 TTCGTTTTCT
* * * * *
61596834 CGATGTCATAGTCCAACTACGGTCTTACAC-GTAATCACATAACACATAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACAGTAATCACATATCACATAC
* * *
61596883 TGATGCCATAGCCCAGCTATGGTCTTACACAGT-AGCACATATTAC--AC
1 CGATGCCATAGCCCAGCTATGGTCTTACACAGTAATCACATATCACATAC
* * *
61596930 CGATGCCATAGCCCAGCTATGGTCTTATACGGAAATCACATATCACAT
1 CGATGCCATAGCCCAGCTATGGTCTTACACAGTAATCACATATCACAT
61596978 GTTGCCATGG
Statistics
Matches: 77, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
47 31 0.40
48 10 0.13
49 34 0.44
50 2 0.03
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (50 bp):
CGATGCCATAGCCCAGCTATGGTCTTACACAGTAATCACATATCACATAC
Found at i:61597763 original size:21 final size:20
Alignment explanation
Indices: 61597724--61597879 Score: 61
Period size: 23 Copynumber: 7.4 Consensus size: 20
61597714 CCTGATCAGT
*
61597724 ATACGACACATAAGTGCCTG
1 ATACGACACAGAAGTGCCTG
*
61597744 ATACGACACACGAGGTGCCT-
1 ATACGACACA-GAAGTGCCTG
* * * *
61597764 A-A-AATAC-GAGGTACCTG
1 ATACGACACAGAAGTGCCTG
*
61597781 AAATACGACACATAAAGTGCCTGG
1 --ATACGACACA-GAAGTGCCT-G
*
61597805 TATACGACACATAAAGTGCCTG
1 -ATACGACACA-GAAGTGCCTG
* *
61597827 AAATACGACACATAAAGTGCCTAAA
1 --ATACGACACA-GAAGTGCCT--G
*
61597852 ATACGACACATAAAGTGCCTG
1 ATACGACACA-GAAGTGCCTG
61597873 AT-CGACA
1 ATACGACA
61597880 TAGCCGATAA
Statistics
Matches: 110, Mismatches: 14, Indels: 24
0.74 0.09 0.16
Matches are distributed among these distances:
16 8 0.07
18 3 0.03
19 2 0.02
20 17 0.15
21 12 0.11
22 1 0.01
23 66 0.60
24 1 0.01
ACGTcount: A:0.40, C:0.23, G:0.19, T:0.18
Consensus pattern (20 bp):
ATACGACACAGAAGTGCCTG
Found at i:61597774 original size:16 final size:16
Alignment explanation
Indices: 61597753--61597788 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
61597743 GATACGACAC
*
61597753 ACGAGGTGCCTAAAAT
1 ACGAGGTACCTAAAAT
*
61597769 ACGAGGTACCTGAAAT
1 ACGAGGTACCTAAAAT
61597785 ACGA
1 ACGA
61597789 CACATAAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.39, C:0.19, G:0.25, T:0.17
Consensus pattern (16 bp):
ACGAGGTACCTAAAAT
Found at i:61597809 original size:23 final size:23
Alignment explanation
Indices: 61597777--61597873 Score: 167
Period size: 23 Copynumber: 4.2 Consensus size: 23
61597767 ATACGAGGTA
61597777 CCTGAAATACGACACATAAAGTG
1 CCTGAAATACGACACATAAAGTG
**
61597800 CCTGGTATACGACACATAAAGTG
1 CCTGAAATACGACACATAAAGTG
61597823 CCTGAAATACGACACATAAAGTG
1 CCTGAAATACGACACATAAAGTG
*
61597846 CCTAAAATACGACACATAAAGTG
1 CCTGAAATACGACACATAAAGTG
61597869 CCTGA
1 CCTGA
61597874 TCGACATAGC
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 68 1.00
ACGTcount: A:0.41, C:0.23, G:0.18, T:0.19
Consensus pattern (23 bp):
CCTGAAATACGACACATAAAGTG
Found at i:61601052 original size:13 final size:13
Alignment explanation
Indices: 61601029--61601091 Score: 72
Period size: 13 Copynumber: 4.8 Consensus size: 13
61601019 TTTAAACCAA
*
61601029 ACTTTTTAAAAGC
1 ACTTTTCAAAAGC
* *
61601042 ACTCTTCAAAAGT
1 ACTTTTCAAAAGC
* * *
61601055 ACTTTTCCACAGA
1 ACTTTTCAAAAGC
61601068 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
61601081 ACTTTTCAAAA
1 ACTTTTCAAAA
61601092 ACAATGAAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.33
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:61602625 original size:17 final size:16
Alignment explanation
Indices: 61602599--61602630 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
61602589 CGCTTCACTT
61602599 AAAAAAAAGAAAAAAG
1 AAAAAAAAGAAAAAAG
61602615 AAAAGAAAAGAAAAAA
1 AAAA-AAAAGAAAAAA
61602631 AAAGGAGAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGAAAAAAG
Found at i:61603766 original size:143 final size:143
Alignment explanation
Indices: 61603498--61603921 Score: 596
Period size: 143 Copynumber: 3.0 Consensus size: 143
61603488 GATTGAAGTC
* * *
61603498 ATTATGGCAGATCTTATCTTCCTGAAGTTACAGTGGAGCAGACTGAAGCCACCAGCCTTATCTCC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* * * * * ** * *
61603563 CTGAAGTTGCAGTGGAACAAACTGAAGACAGCGAATCTTATTTCCTTAGTGTTACGGTGGAACAG
66 CTGAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTAGCATTGCAGTGGAACAG
61603628 ATTAAAGCTACAA
131 ATTAAAGCTACAA
*
61603641 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATTTCC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* * * *
61603706 CTGAAGTTGCAGCGGAGTAGACTAAAGACAGTGAATTTTATTTCCCTAGCATTGCAGTGGAATAG
66 CTGAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTAGCATTGCAGTGGAACAG
61603771 ATTAAAGCTACAA
131 ATTAAAGCTACAA
* * * * * *
61603784 ATTATGGCGGATCTTATCTTCTTGAATTTGTAGTGGGGCATATTCAAGCCACCAGCCTTATCTCC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* * * *
61603849 CTAAAGTTGCAGCGGAGCAGACTAAAGACAGCAAATCTTATTTCCCTGGCATTGCAGTGGATCAG
66 CTGAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTAGCATTGCAGTGGAACAG
*
61603914 ATTGAAGC
131 ATTAAAGC
61603922 CAGGAGCCTT
Statistics
Matches: 248, Mismatches: 33, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
143 248 1.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (143 bp):
ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
CTGAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTAGCATTGCAGTGGAACAG
ATTAAAGCTACAA
Found at i:61603904 original size:45 final size:46
Alignment explanation
Indices: 61603852--61603986 Score: 141
Period size: 44 Copynumber: 3.0 Consensus size: 46
61603842 TATCTCCCTA
* *
61603852 AAGTTGCAGCGGAGCAGACTAAAGACAGCAAATCTTATTTCCCTGG
1 AAGTTGCAGTGGAGCAGACTGAAGACAGCAAATCTTATTTCCCTGG
* * * * * ** *
61603898 CA-TTGCAGTGGATCAGATTGAAGCCAG-GAGCCTTATCTCCCT-G
1 AAGTTGCAGTGGAGCAGACTGAAGACAGCAAATCTTATTTCCCTGG
* *
61603941 AAGTTGCAGTAGAGCAGACTGAAGACAACAAATCTTATTTCCCTGG
1 AAGTTGCAGTGGAGCAGACTGAAGACAGCAAATCTTATTTCCCTGG
61603987 TGTTACAATG
Statistics
Matches: 66, Mismatches: 20, Indels: 6
0.72 0.22 0.07
Matches are distributed among these distances:
43 2 0.03
44 31 0.47
45 31 0.47
46 2 0.03
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (46 bp):
AAGTTGCAGTGGAGCAGACTGAAGACAGCAAATCTTATTTCCCTGG
Found at i:61603943 original size:232 final size:232
Alignment explanation
Indices: 61603668--61604153 Score: 659
Period size: 232 Copynumber: 2.1 Consensus size: 232
61603658 CTTCCTGAAG
* * * *
61603668 TTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATTTCCCTGAAGTTGCAGCGGAGTAGACTAAAG
1 TTGCAGTGGAACAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCAGAGCAGACTAAAG
*** * * * *
61603733 ACAGTGAATTTTATTTCCCTAGCATTGCAGTGGAATAGATTAAAGCTACAAATTATGGCGGATCT
66 ACAACAAATCTTATTTCCCTAGCATTACAATGGAACAGATTAAAGCTACAAATTATGGCGGATCT
* * * *
61603798 TATC-TTCTTGAATTTGTAGTGGGGCATATTCAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGC
131 TATCTTTC-TGAAGTTGCAGTGGAGCAGATTCAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGC
* * *
61603862 GGAGCAGACTAAAGACAGCAAATCTTATTTCCCTGGCA
195 AGAACAGACTAAAGACAACAAATCTTATTTCCCTGGCA
* ** * *
61603900 TTGCAGTGGATCAGATTGAAGCCAGGAGCCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAG
1 TTGCAGTGGAACAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCAGAGCAGACTAAAG
* **
61603965 ACAACAAATCTTATTTCCCTGGTGTTACAATGGAACAGATTAAAGCTACAAATTATGGCGGATCT
66 ACAACAAATCTTATTTCCCTAGCATTACAATGGAACAGATTAAAGCTACAAATTATGGCGGATCT
* * *
61604030 TATCTTTCTGAAGTTGCAGTGGAGTAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCA
131 TATCTTTCTGAAGTTGCAGTGGAGCAGATTCAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCA
* *
61604095 GAACAGACTGAAGACAACAAATCTTATTTCCCTGGCG
196 GAACAGACTAAAGACAACAAATCTTATTTCCCTGGCA
* *
61604132 TTACAGTGGAACAGATTAAAGC
1 TTGCAGTGGAACAGATTGAAGC
61604154 TACAAATTAT
Statistics
Matches: 220, Mismatches: 33, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
232 217 0.99
233 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (232 bp):
TTGCAGTGGAACAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCAGAGCAGACTAAAG
ACAACAAATCTTATTTCCCTAGCATTACAATGGAACAGATTAAAGCTACAAATTATGGCGGATCT
TATCTTTCTGAAGTTGCAGTGGAGCAGATTCAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCA
GAACAGACTAAAGACAACAAATCTTATTTCCCTGGCA
Found at i:61604004 original size:89 final size:89
Alignment explanation
Indices: 61603837--61604010 Score: 249
Period size: 89 Copynumber: 2.0 Consensus size: 89
61603827 TCAAGCCACC
* *
61603837 AGCCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTAAAGACAGCAAATCTTATTTCCCTGGCATT
1 AGCCTTATCTCCCTAAAGTTGCAGCAGAGCAGACTAAAGACAACAAATCTTATTTCCCTGGCATT
* * * *
61603902 GCAGTGGATCAGATTGAAGCCAGG
66 ACAATGGAACAGATTAAAGCCAGG
* * * **
61603926 AGCCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGACAACAAATCTTATTTCCCTGGTGTT
1 AGCCTTATCTCCCTAAAGTTGCAGCAGAGCAGACTAAAGACAACAAATCTTATTTCCCTGGCATT
61603991 ACAATGGAACAGATTAAAGC
66 ACAATGGAACAGATTAAAGC
61604011 TACAAATTAT
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
89 74 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (89 bp):
AGCCTTATCTCCCTAAAGTTGCAGCAGAGCAGACTAAAGACAACAAATCTTATTTCCCTGGCATT
ACAATGGAACAGATTAAAGCCAGG
Found at i:61604210 original size:375 final size:375
Alignment explanation
Indices: 61603528--61604284 Score: 1136
Period size: 375 Copynumber: 2.0 Consensus size: 375
61603518 CCTGAAGTTA
*
61603528 CAGTGGAGCAGACTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGTGGAACAAACTGAAGACA
1 CAGTGGAGCAGACTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGTAGAACAAACTGAAGACA
* * * **
61603593 GCGAATCTTATTTCCTTAGTGTTACGGTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTAT
66 ACAAATCTTATTTCCCTAGTGTTACAATGGAACAGATTAAAGCTACAAATTATGGCGGATCTTAT
* * *
61603658 CTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATTTCCCTGAAGTTGCAGCGGAG
131 CTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCAGAA
* *** * * *
61603723 TAGACTAAAGACAGTGAATTTTATTTCCCTAGCATTGCAGTGGAATAGATTAAAGCTACAAATTA
196 CAGACTAAAGACAACAAATCTTATTTCCCTAGCATTACAGTGGAACAGATTAAAGCTACAAATTA
* * * * * *
61603788 TGGCGGATCTTATCTTCTTGAATTTGTAGTGGGGCATATTCAAGCCACCAGCCTTATCTCCCTAA
261 TGACGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTCAAGCCACCAGCCTTATCTCCCTAA
* * *
61603853 AGTTGCAGCGGAGCAGACTAAAGACAGCAAATCTTATTTCCCTGGCATTG
326 AGTTGCAGCAGAGCAAACTAAAGACACCAAATCTTATTTCCCTGGCATTG
* * ** * *
61603903 CAGTGGATCAGATTGAAGCCAGGAGCCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGACA
1 CAGTGGAGCAGACTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGTAGAACAAACTGAAGACA
*
61603968 ACAAATCTTATTTCCCTGGTGTTACAATGGAACAGATTAAAGCTACAAATTATGGCGGATCTTAT
66 ACAAATCTTATTTCCCTAGTGTTACAATGGAACAGATTAAAGCTACAAATTATGGCGGATCTTAT
* *
61604033 CTTTCTGAAGTTGCAGTGGAGTAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCAGAA
131 CTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCAGAA
* * *
61604098 CAGACTGAAGACAACAAATCTTATTTCCCTGGCGTTACAGTGGAACAGATTAAAGCTACAAATTA
196 CAGACTAAAGACAACAAATCTTATTTCCCTAGCATTACAGTGGAACAGATTAAAGCTACAAATTA
* * *
61604163 TGATGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCTCTAA
261 TGACGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTCAAGCCACCAGCCTTATCTCCCTAA
* *
61604228 AGTTGCAGCAGAGCAAACTGAAGACACCAAATCTTATTTCCCTGGCGTTG
326 AGTTGCAGCAGAGCAAACTAAAGACACCAAATCTTATTTCCCTGGCATTG
61604278 CAGTGGA
1 CAGTGGA
61604285 ACAGGTTAAA
Statistics
Matches: 340, Mismatches: 42, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
375 340 1.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (375 bp):
CAGTGGAGCAGACTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGTAGAACAAACTGAAGACA
ACAAATCTTATTTCCCTAGTGTTACAATGGAACAGATTAAAGCTACAAATTATGGCGGATCTTAT
CTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCAGAA
CAGACTAAAGACAACAAATCTTATTTCCCTAGCATTACAGTGGAACAGATTAAAGCTACAAATTA
TGACGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTCAAGCCACCAGCCTTATCTCCCTAA
AGTTGCAGCAGAGCAAACTAAAGACACCAAATCTTATTTCCCTGGCATTG
Found at i:61604407 original size:375 final size:369
Alignment explanation
Indices: 61603528--61604434 Score: 892
Period size: 375 Copynumber: 2.4 Consensus size: 369
61603518 CCTGAAGTTA
* * * ** * * *
61603528 CAGTGGAGCAGACTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGTGGAACAAACTGAAGACA
1 CAGTGGAACAGATTAAAGCCAGGAGCCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGACA
* * * * * * *** * *
61603593 GCGAATCTTAT-TTCCTTAGTGTTACGGTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTA
66 ACAAACCTTATCTCCCTGA-AGTTACAACGGAACAGACTAAAGC-AC--A--AT-GCGAATCTTA
* *
61603657 TCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATTTCCCTGAAGTTGCAGCGGA
124 TCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCAGA
** *** * * *
61603722 GTAGACTAAAGACAGTGAATTTTATTTCCCTAGCATTGCAGTGGAATAGATTAAAGCTACAAATT
189 ACAGACTAAAGACAACAAATCTTATTTCCCTAGCATTACAGTGGAACAGATTAAAGCTACAAATT
* * * * * *
61603787 ATGGCGGATCTTATCTTCTTGAATTTGTAGTGGGGCATATTCAAGCCACCAGCCTTATCTCCCTA
254 ATGACGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTCAAGCCACCAGCCTTATCTCCCTA
* * *
61603852 AAGTTGCAGCGGAGCAGACTAAAGACAGCAAATCTTATTTCCCTGGCATTG
319 AAGTTGCAGCAGAGCAAACTAAAGACACCAAATCTTATTTCCCTGGCATTG
* *
61603903 CAGTGGATCAGATTGAAGCCAGGAGCCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGACA
1 CAGTGGAACAGATTAAAGCCAGGAGCCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGACA
* * ** * * *
61603968 ACAAATCTTATTTCCCTGGTGTTACAATGGAACAGATTAAAGCTACAAATTATGGCGGATCTTAT
66 ACAAACCTTATCTCCCTGAAGTTACAACGGAACAGACTAAAGC-AC--A--AT-GCGAATCTTAT
* *
61604033 CTTTCTGAAGTTGCAGTGGAGTAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCAGAA
125 CTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCAGAA
* * *
61604098 CAGACTGAAGACAACAAATCTTATTTCCCTGGCGTTACAGTGGAACAGATTAAAGCTACAAATTA
190 CAGACTAAAGACAACAAATCTTATTTCCCTAGCATTACAGTGGAACAGATTAAAGCTACAAATTA
* * *
61604163 TGATGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCTCTAA
255 TGACGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTCAAGCCACCAGCCTTATCTCCCTAA
* *
61604228 AGTTGCAGCAGAGCAAACTGAAGACACCAAATCTTATTTCCCTGGCGTTG
320 AGTTGCAGCAGAGCAAACTAAAGACACCAAATCTTATTTCCCTGGCATTG
* * * *
61604278 CAGTGGAACAGGTTAAAGCTACAAATTATGGCAGATCC-TATCTTCCTGAAGTTGCAGTGGAGTA
1 CAGTGGAACAGATTAAAGC--C-----A-GG-AG--CCTTATCTCCCTGAAGTTGCAGTAGAGCA
* * * * * * *
61604342 GATTGAAG-CCACCAGCCTTATCTCCCTGAAGTTACAGCGGAGCAGACTGAAG-AC-AT-CGAAT
55 GACTGAAGACAACAAACCTTATCTCCCTGAAGTTACAACGGAACAGACTAAAGCACAATGCGAAT
** * *
61604403 CTTAT-TTCCCTGGCGTTGTAGTGGAACAGATT
120 CTTATCTT-CCTGAAGTTGCAGTGGAGCAGATT
61604435 AAAGATACAA
Statistics
Matches: 450, Mismatches: 69, Indels: 26
0.83 0.13 0.05
Matches are distributed among these distances:
374 2 0.00
375 370 0.82
376 4 0.01
377 3 0.01
382 3 0.01
383 2 0.00
384 34 0.08
385 30 0.07
386 2 0.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (369 bp):
CAGTGGAACAGATTAAAGCCAGGAGCCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGACA
ACAAACCTTATCTCCCTGAAGTTACAACGGAACAGACTAAAGCACAATGCGAATCTTATCTTCCT
GAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCAGAACAGACT
AAAGACAACAAATCTTATTTCCCTAGCATTACAGTGGAACAGATTAAAGCTACAAATTATGACGG
ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTCAAGCCACCAGCCTTATCTCCCTAAAGTTGC
AGCAGAGCAAACTAAAGACACCAAATCTTATTTCCCTGGCATTG
Found at i:61604530 original size:143 final size:143
Alignment explanation
Indices: 61603900--61604518 Score: 916
Period size: 143 Copynumber: 4.3 Consensus size: 143
61603890 TTCCCTGGCA
* ** *
61603900 TTGCAGTGGATCAGATTGAAGCCAGGAGCCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAG
1 TTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAG
* * *
61603965 ACAACAAATCTTATTTCCCTGGTGTTACAATGGAACAGATTAAAGCTACAAATTATGGCGGATCT
66 ACAACAAATCTTATTTCCCTGGCGTTACAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCT
*
61604030 TATCTTTCTGAAG
131 TATCTTCCTGAAG
* *
61604043 TTGCAGTGGAGTAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCAGAACAGACTGAAG
1 TTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAG
***
61604108 ACAACAAATCTTATTTCCCTGGCGTTACAGTGGAACAGATTAAAGCTACAAATTATGATGGATCT
66 ACAACAAATCTTATTTCCCTGGCGTTACAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCT
61604173 TATCTTCCTGAAG
131 TATCTTCCTGAAG
* * *
61604186 TTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCTCTAAAGTTGCAGCAGAGCAAACTGAAG
1 TTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAG
* * * *
61604251 ACACCAAATCTTATTTCCCTGGCGTTGCAGTGGAACAGGTTAAAGCTACAAATTATGGCAGATCC
66 ACAACAAATCTTATTTCCCTGGCGTTACAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCT
61604316 TATCTTCCTGAAG
131 TATCTTCCTGAAG
* * *
61604329 TTGCAGTGGAGTAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTACAGCGGAGCAGACTGAAG
1 TTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAG
* * ** *
61604394 ACATCGAATCTTATTTCCCTGGCGTTGTAGTGGAACAGATTAAAGATACAAATTATGGCAGATCT
66 ACAACAAATCTTATTTCCCTGGCGTTACAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCT
** *
61604459 TATCTTTTTAAAG
131 TATCTTCCTGAAG
** *
61604472 TTGCAGTCAAGCAGATTGAAGCCACCGATCC-TATCTCCCTGAAGTTG
1 TTGCAGTGGAGCAGATTGAAGCCACC-AGCCTTATCTCCCTGAAGTTG
61604519 TAGTGGAGCA
Statistics
Matches: 432, Mismatches: 43, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
143 429 0.99
144 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (143 bp):
TTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAG
ACAACAAATCTTATTTCCCTGGCGTTACAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCT
TATCTTCCTGAAG
Found at i:61605157 original size:20 final size:19
Alignment explanation
Indices: 61605117--61605171 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 19
61605107 TGCAACACGC
61605117 AAGCAAAAG-AAGACAACAG
1 AAGCAAAAGAAAGA-AACAG
*
61605136 AAGCGAAAAGAAAGAAATAG
1 AAGC-AAAAGAAAGAAACAG
61605156 AAGCAAACA-AAAGAAA
1 AAGCAAA-AGAAAGAAA
61605172 ACAAAACAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 14 0.44
20 14 0.44
21 4 0.12
ACGTcount: A:0.67, C:0.11, G:0.20, T:0.02
Consensus pattern (19 bp):
AAGCAAAAGAAAGAAACAG
Found at i:61606161 original size:12 final size:12
Alignment explanation
Indices: 61606141--61606207 Score: 55
Period size: 13 Copynumber: 5.3 Consensus size: 12
61606131 TGTCGACTTT
61606141 TTTTATTTATTA
1 TTTTATTTATTA
*
61606153 TTTTGTTTATTTA
1 TTTTATTTA-TTA
* **
61606166 CTTTACCTATTCA
1 TTTTATTTATT-A
61606179 CTTTTATTTATTA
1 -TTTTATTTATTA
61606192 -TTTATTTATTA
1 TTTTATTTATTA
61606203 CTTTT
1 -TTTT
61606208 CCAACATTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 9
0.71 0.14 0.15
Matches are distributed among these distances:
11 11 0.26
12 10 0.24
13 13 0.31
14 8 0.19
ACGTcount: A:0.21, C:0.09, G:0.01, T:0.69
Consensus pattern (12 bp):
TTTTATTTATTA
Found at i:61606273 original size:3 final size:3
Alignment explanation
Indices: 61606265--61606289 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
61606255 GTATTGTCTC
61606265 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
61606290 TTGCTTGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:61606396 original size:5 final size:5
Alignment explanation
Indices: 61606378--61606407 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
61606368 TATGTGGTTC
61606378 TTATT TTCATT TTATT TTATT TTATT TTAT
1 TTATT TT-ATT TTATT TTATT TTATT TTAT
61606408 GTTGCTTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:61607465 original size:16 final size:17
Alignment explanation
Indices: 61607444--61607482 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
61607434 TGGGTTTGCA
61607444 TATTTT-AATTTTAAAT
1 TATTTTGAATTTTAAAT
**
61607460 TATTTTGGGTTTTAAAT
1 TATTTTGAATTTTAAAT
61607477 TATTTT
1 TATTTT
61607483 CAAGTTTGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (17 bp):
TATTTTGAATTTTAAAT
Found at i:61609902 original size:18 final size:18
Alignment explanation
Indices: 61609834--61609903 Score: 52
Period size: 19 Copynumber: 3.6 Consensus size: 18
61609824 TCTCCCTCAA
61609834 CAAAAATTATAAATAGAATTC
1 CAAAAATTAT-AA-A-AATTC
* * *
61609855 AAAATAATTTTTAAAATT-
1 CAAA-AATTATAAAAATTC
61609873 CAAAATATTTATAAAAATTC
1 CAAAA-A-TTATAAAAATTC
61609893 CAAAAATTATA
1 CAAAAATTATA
61609904 TATTTTTTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 11
0.70 0.11 0.20
Matches are distributed among these distances:
17 1 0.03
18 9 0.23
19 14 0.36
20 6 0.15
21 4 0.10
22 5 0.13
ACGTcount: A:0.57, C:0.07, G:0.01, T:0.34
Consensus pattern (18 bp):
CAAAAATTATAAAAATTC
Found at i:61609905 original size:20 final size:19
Alignment explanation
Indices: 61609850--61609897 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
61609840 TTATAAATAG
*
61609850 AATTCAAAATAATTT-TTAA
1 AATTCAAAAT-ATTTATAAA
61609869 AATTCAAAATATTTATAAA
1 AATTCAAAATATTTATAAA
61609888 AATTCCAAAA
1 AATT-CAAAA
61609898 ATTATATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 4 0.15
19 17 0.65
20 5 0.19
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.35
Consensus pattern (19 bp):
AATTCAAAATATTTATAAA
Found at i:61609927 original size:11 final size:11
Alignment explanation
Indices: 61609911--61609948 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
61609901 ATATATTTTT
61609911 TAAAAAAATTA
1 TAAAAAAATTA
*
61609922 T-AAAAAATTT
1 TAAAAAAATTA
*
61609932 TAAAAAAAATA
1 TAAAAAAATTA
61609943 TAAAAA
1 TAAAAA
61609949 GAGTTAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
TAAAAAAATTA
Found at i:61609944 original size:21 final size:21
Alignment explanation
Indices: 61609908--61609948 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
61609898 ATTATATATT
*
61609908 TTTTAAAAAAATTATAAAAAA
1 TTTTAAAAAAAATATAAAAAA
61609929 TTTTAAAAAAAATATAAAAA
1 TTTTAAAAAAAATATAAAAA
61609949 GAGTTAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
TTTTAAAAAAAATATAAAAAA
Found at i:61610051 original size:83 final size:83
Alignment explanation
Indices: 61609952--61610110 Score: 309
Period size: 83 Copynumber: 1.9 Consensus size: 83
61609942 ATAAAAAGAG
61609952 TTAATATTTTAAAAATATTCTAAAACAATAATCTTGGAGACTTAAGTAATGATTCAAATTTATCA
1 TTAATATTTTAAAAATATTCTAAAACAATAATCTTGGAGACTTAAGTAATGATTCAAATTTATCA
*
61610017 TACTGAAGTATCTTTCTT
66 TACTCAAGTATCTTTCTT
61610035 TTAATATTTTAAAAATATTCTAAAACAATAATCTTGGAGACTTAAGTAATGATTCAAATTTATCA
1 TTAATATTTTAAAAATATTCTAAAACAATAATCTTGGAGACTTAAGTAATGATTCAAATTTATCA
61610100 TACTCAAGTAT
66 TACTCAAGTAT
61610111 ATGTATATAT
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 75 1.00
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.40
Consensus pattern (83 bp):
TTAATATTTTAAAAATATTCTAAAACAATAATCTTGGAGACTTAAGTAATGATTCAAATTTATCA
TACTCAAGTATCTTTCTT
Found at i:61611575 original size:14 final size:14
Alignment explanation
Indices: 61611556--61611594 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
61611546 TTGTTTTACT
61611556 GAAAATGACTTCCG
1 GAAAATGACTTCCG
* *
61611570 GAAAATGATTTCTG
1 GAAAATGACTTCCG
61611584 GAAAATGACTT
1 GAAAATGACTT
61611595 ACTTTTCTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (14 bp):
GAAAATGACTTCCG
Found at i:61613609 original size:18 final size:19
Alignment explanation
Indices: 61613568--61613610 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
61613558 AAAATTACAA
61613568 ATAAAATTCAAAATAATTT
1 ATAAAATTCAAAATAATTT
*
61613587 TTAAAATTCAAAAT-ATTT
1 ATAAAATTCAAAATAATTT
61613605 ATAAAA
1 ATAAAA
61613611 ACTTCAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
ATAAAATTCAAAATAATTT
Found at i:61613627 original size:20 final size:19
Alignment explanation
Indices: 61613570--61613619 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
61613560 AATTACAAAT
*
61613570 AAAATTCAAAATAATTT-TT
1 AAAATTCAAAAT-ATTTATA
61613589 AAAATTCAAAATATTTATA
1 AAAATTCAAAATATTTATA
61613608 AAAACTTCAAAA
1 AAAA-TTCAAAA
61613620 ATTATATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 4 0.14
19 17 0.61
20 7 0.25
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAATTCAAAATATTTATA
Found at i:61613633 original size:28 final size:26
Alignment explanation
Indices: 61613599--61613653 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
61613589 AAAATTCAAA
* *
61613599 ATATTTATAAAAACTTC-AAAAATTAT
1 ATATTTTTAAAAAATTCTAAAAA-TAT
61613625 ATATTTTTAAAAAATTCTAAAAATAT
1 ATATTTTTAAAAAATTCTAAAAATAT
61613651 ATA
1 ATA
61613654 AAAAGAGTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 21 0.81
27 5 0.19
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (26 bp):
ATATTTTTAAAAAATTCTAAAAATAT
Found at i:61614230 original size:15 final size:15
Alignment explanation
Indices: 61614210--61614239 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
61614200 ATGCCTCTAA
61614210 AATAATAAAAAAAGT
1 AATAATAAAAAAAGT
*
61614225 AATAATAAAACAAGT
1 AATAATAAAAAAAGT
61614240 GTTATACAAT
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:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (15 bp):
AATAATAAAAAAAGT
Found at i:61615672 original size:23 final size:24
Alignment explanation
Indices: 61615626--61615675 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
61615616 AGAATGGAAC
**
61615626 AAATAAAATGACAAATTATGATCA
1 AAATAAAATGACAAAACATGATCA
*
61615650 AAATAAAATGATAAAACAT-ATCA
1 AAATAAAATGACAAAACATGATCA
61615673 AAA
1 AAA
61615676 CATAATATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.64, C:0.08, G:0.06, T:0.22
Consensus pattern (24 bp):
AAATAAAATGACAAAACATGATCA
Found at i:61615913 original size:31 final size:31
Alignment explanation
Indices: 61615875--61615936 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
61615865 CTCACTGTTA
61615875 AGCATTGAAACAATAGTAGACATATAGTAGG
1 AGCATTGAAACAATAGTAGACATATAGTAGG
61615906 AGCATTGAAACAATAGTAGACATATAGTAGG
1 AGCATTGAAACAATAGTAGACATATAGTAGG
61615937 CCTATCTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.45, C:0.10, G:0.23, T:0.23
Consensus pattern (31 bp):
AGCATTGAAACAATAGTAGACATATAGTAGG
Found at i:61616111 original size:52 final size:52
Alignment explanation
Indices: 61616033--61616137 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 52
61616023 ACTTTGAAAT
61616033 TGTAACAGCCCGATTTTGGGTCTAGTCCGAACAGTAGTTTTGGAACCACAAA
1 TGTAACAGCCCGATTTTGGGTCTAGTCCGAACAGTAGTTTTGGAACCACAAA
* * *
61616085 TGTAACAGCCCGATTTTGGGTCTAGTCGGAACAGTGGTTTTGGGACCACAAA
1 TGTAACAGCCCGATTTTGGGTCTAGTCCGAACAGTAGTTTTGGAACCACAAA
61616137 T
1 T
61616138 CCGACGAGAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.28
Consensus pattern (52 bp):
TGTAACAGCCCGATTTTGGGTCTAGTCCGAACAGTAGTTTTGGAACCACAAA
Found at i:61623085 original size:20 final size:19
Alignment explanation
Indices: 61623037--61623086 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
61623027 ATAGATAATA
61623037 AAAAAAAGAAGAGAAAATTC
1 AAAAAAA-AAGAGAAAATTC
* *
61623057 AAAGGAAAAAGTGAAAATTC
1 AAA-AAAAAAGAGAAAATTC
61623077 AGAAAAAAAA
1 A-AAAAAAAA
61623087 AATGTAGACA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.70, C:0.04, G:0.16, T:0.10
Consensus pattern (19 bp):
AAAAAAAAAGAGAAAATTC
Found at i:61623289 original size:16 final size:17
Alignment explanation
Indices: 61623268--61623301 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
61623258 TTTCTTTTAC
61623268 TTATATATATA-ACATA
1 TTATATATATATACATA
*
61623284 TTATATATGTATACATA
1 TTATATATATATACATA
61623301 T
1 T
61623302 ATACAATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (17 bp):
TTATATATATATACATA
Found at i:61630040 original size:22 final size:20
Alignment explanation
Indices: 61630015--61630054 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
61630005 GAATTAAGAA
*
61630015 TAAATAATAAATAATTTAAAGT
1 TAAAT-ATAAA-AATATAAAGT
61630037 TAAATATAAAAATATAAA
1 TAAATATAAAAATATAAA
61630055 TATTTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 5 0.29
22 5 0.29
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (20 bp):
TAAATATAAAAATATAAAGT
Found at i:61633960 original size:30 final size:30
Alignment explanation
Indices: 61633925--61633981 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
61633915 GGTGTCATAA
* * *
61633925 TTTTTCCTTT-TTCTTCTTTTTTTTTTTAT
1 TTTTTTCTTTCTTCTTCCTTTTCTTTTTAT
61633954 TTTTTTCTTTCTTCTTCCTTTTCTTTTT
1 TTTTTTCTTTCTTCTTCCTTTTCTTTTT
61633982 GCATGCCCTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.81
Consensus pattern (30 bp):
TTTTTTCTTTCTTCTTCCTTTTCTTTTTAT
Found at i:61645188 original size:17 final size:17
Alignment explanation
Indices: 61645157--61645198 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
61645147 TTTGGGTTTG
61645157 AATTA-TTTTAATTTTA
1 AATTATTTTTAATTTTA
*
61645173 AATTATTTTTAGTTTTA
1 AATTATTTTTAATTTTA
61645190 AATTATTTT
1 AATTATTTT
61645199 CAAGTTTGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 5 0.21
17 19 0.79
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (17 bp):
AATTATTTTTAATTTTA
Found at i:61646401 original size:9 final size:9
Alignment explanation
Indices: 61646387--61646423 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
61646377 TATAGTTTGA
61646387 TATTCGAAT
1 TATTCGAAT
61646396 TATTCGAAT
1 TATTCGAAT
*
61646405 TATTCGAGT
1 TATTCGAAT
61646414 TATTCGAAT
1 TATTCGAAT
61646423 T
1 T
61646424 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:61646494 original size:9 final size:9
Alignment explanation
Indices: 61646477--61646507 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
61646467 TCGAGTTGAT
61646477 TCGAATAAC
1 TCGAATAAC
*
61646486 TCGATTAAC
1 TCGAATAAC
61646495 TCGAATAAC
1 TCGAATAAC
61646504 TCGA
1 TCGA
61646508 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:61647329 original size:15 final size:16
Alignment explanation
Indices: 61647293--61647331 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
61647283 ACAAAATCCT
*
61647293 AACCTTAAACCATAAA
1 AACCCTAAACCATAAA
*
61647309 ATCCCTAAACCA-AAA
1 AACCCTAAACCATAAA
61647324 AACCCTAA
1 AACCCTAA
61647332 TGACTAAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.54, C:0.31, G:0.00, T:0.15
Consensus pattern (16 bp):
AACCCTAAACCATAAA
Found at i:61649460 original size:20 final size:19
Alignment explanation
Indices: 61649412--61649461 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
61649402 ATAGATAATA
61649412 AAAAAAAGAAGAGAAAATTC
1 AAAAAAA-AAGAGAAAATTC
* *
61649432 AAAGGAAAAAGTGAAAATTC
1 AAA-AAAAAAGAGAAAATTC
61649452 AGAAAAAAAA
1 A-AAAAAAAA
61649462 AATGTAGACA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.70, C:0.04, G:0.16, T:0.10
Consensus pattern (19 bp):
AAAAAAAAAGAGAAAATTC
Found at i:61649664 original size:16 final size:17
Alignment explanation
Indices: 61649643--61649676 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
61649633 TTTCTTTTAC
61649643 TTATATATATA-ACATA
1 TTATATATATATACATA
*
61649659 TTATATATGTATACATA
1 TTATATATATATACATA
61649676 T
1 T
61649677 ATACAATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (17 bp):
TTATATATATATACATA
Found at i:61649710 original size:83 final size:84
Alignment explanation
Indices: 61649603--61649771 Score: 331
Period size: 83 Copynumber: 2.0 Consensus size: 84
61649593 AAAAATAAGT
61649603 TAGAAAAATAGTTTATGGTGATGCAAACATTTTCTTTTACTTATATATATAACATATTATATATG
1 TAGAAAAATAGTTTATGGTGATGCAAACATTTTCTTTTACTTATATATATAACATATTATATATG
61649668 TATACATATATACAATTCA
66 TATACATATATACAATTCA
61649687 TAGAAAAATAG-TTATGGTGATGCAAACATTTTCTTTTACTTATATATATAACATATTATATATG
1 TAGAAAAATAGTTTATGGTGATGCAAACATTTTCTTTTACTTATATATATAACATATTATATATG
61649751 TATACATATATACAATTCA
66 TATACATATATACAATTCA
61649770 TA
1 TA
61649772 TATTGTAAGA
Statistics
Matches: 85, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
83 74 0.87
84 11 0.13
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.41
Consensus pattern (84 bp):
TAGAAAAATAGTTTATGGTGATGCAAACATTTTCTTTTACTTATATATATAACATATTATATATG
TATACATATATACAATTCA
Found at i:61649747 original size:16 final size:17
Alignment explanation
Indices: 61649726--61649759 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
61649716 TTTCTTTTAC
61649726 TTATATATATA-ACATA
1 TTATATATATATACATA
*
61649742 TTATATATGTATACATA
1 TTATATATATATACATA
61649759 T
1 T
61649760 ATACAATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (17 bp):
TTATATATATATACATA
Found at i:61653547 original size:18 final size:19
Alignment explanation
Indices: 61653510--61653548 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
61653500 TTATAAATAG
*
61653510 AATTCAAAATAATTTTTAA
1 AATTCAAAATAATTTATAA
61653529 AATTCAAAAT-ATTTATAA
1 AATTCAAAATAATTTATAA
61653547 AA
1 AA
61653549 ATTTCCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
AATTCAAAATAATTTATAA
Found at i:61656814 original size:17 final size:17
Alignment explanation
Indices: 61656792--61656825 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
61656782 ATTATTTTTG
61656792 CCCGTGGTTTTTTATCC
1 CCCGTGGTTTTTTATCC
61656809 CCCGTGGTTTTTTATCC
1 CCCGTGGTTTTTTATCC
61656826 TCTTTGGAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.06, C:0.29, G:0.18, T:0.47
Consensus pattern (17 bp):
CCCGTGGTTTTTTATCC
Found at i:61658673 original size:38 final size:40
Alignment explanation
Indices: 61658630--61658708 Score: 101
Period size: 38 Copynumber: 2.0 Consensus size: 40
61658620 TCAGATATTT
* *
61658630 AGTATTTATATAAT-TTATTTTTTTA-TTTTTT-ATTTTAA
1 AGTATTTATAAAATACT-TTTTTTTATTTTTTTAATTTTAA
*
61658668 AGTATTTTTAAAATACTTTTTTTTATTTTTTTAATTTTAA
1 AGTATTTATAAAATACTTTTTTTTATTTTTTTAATTTTAA
61658708 A
1 A
61658709 ATACATTTCC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
38 20 0.57
39 7 0.20
40 8 0.23
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (40 bp):
AGTATTTATAAAATACTTTTTTTTATTTTTTTAATTTTAA
Found at i:61660334 original size:17 final size:17
Alignment explanation
Indices: 61660312--61660346 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
61660302 TTGAGTCCAC
*
61660312 AAATTGAATAAAATTAA
1 AAATTGAACAAAATTAA
61660329 AAATTGAACAAAATTAA
1 AAATTGAACAAAATTAA
61660346 A
1 A
61660347 TTTTATACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.66, C:0.03, G:0.06, T:0.26
Consensus pattern (17 bp):
AAATTGAACAAAATTAA
Found at i:61663785 original size:15 final size:15
Alignment explanation
Indices: 61663762--61663792 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
61663752 AAAACAACAT
*
61663762 AACTTTTGACCTTTC
1 AACTCTTGACCTTTC
61663777 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
61663792 A
1 A
61663793 CTTACATAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:61666672 original size:15 final size:15
Alignment explanation
Indices: 61666654--61666683 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
61666644 TCCCTTCTTG
*
61666654 ACCACGACCTTTTCC
1 ACCACGACCATTTCC
61666669 ACCACGACCATTTCC
1 ACCACGACCATTTCC
61666684 TCGATCTCCA
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:0.23, C:0.47, G:0.07, T:0.23
Consensus pattern (15 bp):
ACCACGACCATTTCC
Found at i:61667642 original size:15 final size:15
Alignment explanation
Indices: 61667622--61667652 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
61667612 AAAACAACAT
61667622 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
61667637 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
61667652 A
1 A
61667653 CTTACATAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:61672772 original size:13 final size:14
Alignment explanation
Indices: 61672735--61672776 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
61672725 AACTGTTATT
*
61672735 ACAGTTAGTAGTTA
1 ACAGTTAGCAGTTA
61672749 ACAGTTAGCAGTTA
1 ACAGTTAGCAGTTA
61672763 ACAG-TAGCAGTTA
1 ACAGTTAGCAGTTA
61672776 A
1 A
61672777 GGTGGTTGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
13 10 0.37
14 17 0.63
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (14 bp):
ACAGTTAGCAGTTA
Found at i:61675959 original size:7 final size:7
Alignment explanation
Indices: 61675947--61675972 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
61675937 CGGATTATTT
61675947 GGTTTAG
1 GGTTTAG
61675954 GGTTTAG
1 GGTTTAG
61675961 GGTTTAG
1 GGTTTAG
61675968 GGTTT
1 GGTTT
61675973 TATCATGGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.42, T:0.46
Consensus pattern (7 bp):
GGTTTAG
Found at i:61677474 original size:30 final size:30
Alignment explanation
Indices: 61677418--61677542 Score: 148
Period size: 29 Copynumber: 4.2 Consensus size: 30
61677408 TGTGTTTAAA
* *
61677418 AAAATTACATTTTGACCCAT-AAATTTTTT
1 AAAATTACATTTTGACCCCTAAAATTTTTC
61677447 AAAATTACATTTTGACCCCTAAAATTTTTC
1 AAAATTACATTTTGACCCCTAAAATTTTTC
**
61677477 AAAATTACATTTCAACCCCTAAACA-TTTT-
1 AAAATTACATTTTGACCCCTAAA-ATTTTTC
* * * *
61677506 GAAATTACATTTTGATCCCTAAACTTTCTC
1 AAAATTACATTTTGACCCCTAAAATTTTTC
61677536 AAAATTA
1 AAAATTA
61677543 TGTTTCAACC
Statistics
Matches: 81, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
29 41 0.51
30 39 0.48
31 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.03, T:0.39
Consensus pattern (30 bp):
AAAATTACATTTTGACCCCTAAAATTTTTC
Found at i:61677511 original size:59 final size:59
Alignment explanation
Indices: 61677418--61677554 Score: 175
Period size: 59 Copynumber: 2.3 Consensus size: 59
61677408 TGTGTTTAAA
** * ** *
61677418 AAAATTACATTTTGACCCATAAATTTTTTAAAATTACATTTTGACCCCTAAAATTTTTC
1 AAAATTACATTTCAACCCCTAAACATTTTAAAATTACATTTTGACCCCTAAAATTTCTC
* * *
61677477 AAAATTACATTTCAACCCCTAAACATTTTGAAATTACATTTTGATCCCTAAACTTTCTC
1 AAAATTACATTTCAACCCCTAAACATTTTAAAATTACATTTTGACCCCTAAAATTTCTC
**
61677536 AAAATTATGTTTCAACCCC
1 AAAATTACATTTCAACCCC
61677555 AAAAGTTTTG
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
59 67 1.00
ACGTcount: A:0.36, C:0.21, G:0.04, T:0.39
Consensus pattern (59 bp):
AAAATTACATTTCAACCCCTAAACATTTTAAAATTACATTTTGACCCCTAAAATTTCTC
Found at i:61678063 original size:13 final size:13
Alignment explanation
Indices: 61678039--61678085 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
61678029 GAGGAAGAAG
*
61678039 GAAGAAGAAGAGA
1 GAAGAAAAAGAGA
61678052 GAAGAAAAAGAGA
1 GAAGAAAAAGAGA
* *
61678065 AAAGAAAAAAAGA
1 GAAGAAAAAGAGA
61678078 GAA-AAAAA
1 GAAGAAAAA
61678086 TCAAAAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
12 5 0.17
13 25 0.83
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (13 bp):
GAAGAAAAAGAGA
Found at i:61678076 original size:15 final size:16
Alignment explanation
Indices: 61678051--61678082 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
61678041 AGAAGAAGAG
61678051 AGAAGAAAAAGAGAAA
1 AGAAGAAAAAGAGAAA
61678067 AGAA-AAAAAGAGAAA
1 AGAAGAAAAAGAGAAA
61678082 A
1 A
61678083 AAATCAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (16 bp):
AGAAGAAAAAGAGAAA
Found at i:61678359 original size:9 final size:9
Alignment explanation
Indices: 61678334--61678377 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
61678324 CCGACCCAAC
*
61678334 AAAAAAAAG
1 AAAAAAAGG
61678343 AAAGAAAAGG
1 AAA-AAAAGG
61678353 AAAAAAAGG
1 AAAAAAAGG
*
61678362 -AAAAAAGA
1 AAAAAAAGG
61678370 AAAAAAAG
1 AAAAAAAG
61678378 TTTCAATTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
8 7 0.23
9 16 0.52
10 8 0.26
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (9 bp):
AAAAAAAGG
Found at i:61678544 original size:5 final size:5
Alignment explanation
Indices: 61678534--61678582 Score: 71
Period size: 5 Copynumber: 9.6 Consensus size: 5
61678524 ATTTATATTT
* *
61678534 TTTAA TTTAA TTTAA TTTAA TTTAA TTTTAA TTCAA TTTAA TTTTA TTT
1 TTTAA TTTAA TTTAA TTTAA TTTAA -TTTAA TTTAA TTTAA TTTAA TTT
61678583 TTAATATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
5 35 0.88
6 5 0.12
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (5 bp):
TTTAA
Found at i:61678565 original size:16 final size:16
Alignment explanation
Indices: 61678534--61678579 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
61678524 ATTTATATTT
61678534 TTTAATTTAA-TTTAA
1 TTTAATTTAATTTTAA
61678549 TTTAATTTAATTTTAA
1 TTTAATTTAATTTTAA
*
61678565 TTCAATTTAATTTTA
1 TTTAATTTAATTTTA
61678580 TTTTTAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
15 10 0.34
16 19 0.66
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAATTTAATTTTAA
Found at i:61678565 original size:21 final size:21
Alignment explanation
Indices: 61678534--61678583 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
61678524 ATTTATATTT
*
61678534 TTTAA-TTTAATTTAATTTAA
1 TTTAATTTTAATTCAATTTAA
61678554 TTTAATTTTAATTCAATTTAA
1 TTTAATTTTAATTCAATTTAA
*
61678575 TTTTATTTT
1 TTTAATTTT
61678584 TAATATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 5 0.19
21 22 0.81
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTAATTTTAATTCAATTTAA
Found at i:61678571 original size:26 final size:26
Alignment explanation
Indices: 61678533--61678582 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
61678523 TATTTATATT
*
61678533 TTTTAATTTAATTTAATTTAATTTAA
1 TTTTAATTCAATTTAATTTAATTTAA
*
61678559 TTTTAATTCAATTTAATTTTATTT
1 TTTTAATTCAATTTAATTTAATTT
61678583 TTAATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (26 bp):
TTTTAATTCAATTTAATTTAATTTAA
Found at i:61678772 original size:19 final size:18
Alignment explanation
Indices: 61678750--61678811 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 18
61678740 CTCGCGCTTC
61678750 AAAATTTTCGTGTCTTCAAAA
1 AAAATTTTCGTGT-TTC--AA
*
61678771 AAAATTCTCGTGTTTCAA
1 AAAATTTTCGTGTTTCAA
* *
61678789 AAAATATTCGCGTTTTCAA
1 AAAATTTTCGTG-TTTCAA
61678808 AAAA
1 AAAA
61678812 AGAATAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
18 11 0.31
19 10 0.28
20 3 0.08
21 12 0.33
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (18 bp):
AAAATTTTCGTGTTTCAA
Found at i:61678787 original size:20 final size:20
Alignment explanation
Indices: 61678750--61678812 Score: 83
Period size: 20 Copynumber: 3.1 Consensus size: 20
61678740 CTCGCGCTTC
*
61678750 AAAATTTTCGTGTCTTCAAAA
1 AAAATTCTCGTGT-TTCAAAA
61678771 AAAATTCTCGTGTTTCAAAA
1 AAAATTCTCGTGTTTCAAAA
* *
61678791 AATATTCGCGT-TTTCAAAA
1 AAAATTCTCGTGTTTCAAAA
61678810 AAA
1 AAA
61678813 GAATAATAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.26
20 16 0.42
21 12 0.32
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.35
Consensus pattern (20 bp):
AAAATTCTCGTGTTTCAAAA
Found at i:61678951 original size:17 final size:17
Alignment explanation
Indices: 61678922--61679030 Score: 71
Period size: 17 Copynumber: 6.2 Consensus size: 17
61678912 TAAAAAATCG
*
61678922 AAAAATTTGTGTTT-AA
1 AAAAATTCGTGTTTCAA
61678938 AAAAATTCGATGTTTCAA
1 AAAAATTCG-TGTTTCAA
**
61678956 AAATTTTCACGT-TTTC-A
1 AAAAATT--CGTGTTTCAA
61678973 AAAAATTCCCGTGTTTTCAA
1 AAAAATT--CGTG-TTTCAA
**
61678993 AAATTTTCGTGTTTCAA
1 AAAAATTCGTGTTTCAA
**
61679010 AAATTTTCGTGTTTTCAA
1 AAAAATTCGTG-TTTCAA
61679028 AAA
1 AAA
61679031 TTCTGATGAT
Statistics
Matches: 77, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
16 8 0.10
17 32 0.42
18 24 0.31
19 5 0.06
20 8 0.10
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (17 bp):
AAAAATTCGTGTTTCAA
Found at i:61678979 original size:35 final size:34
Alignment explanation
Indices: 61678922--61679222 Score: 179
Period size: 35 Copynumber: 8.5 Consensus size: 34
61678912 TAAAAAATCG
*
61678922 AAAAA-TTT-GTGTTTAAAAAAATTCGATG-TTTC
1 AAAAATTTTCGTGTTTCAAAAAATTCG-TGTTTTC
61678954 AAAAATTTTCACGT-TTTCAAAAAATTCCCGTGTTTTC
1 AAAAATTTT--CGTGTTTCAAAAAATT--CGTGTTTTC
*
61678991 AAAAATTTTCGTGTTTCAAAAATTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTCAAAAA-ATTCGTGTTTTC
* * * * *
61679026 AAAAATTCT-GATG-ATCAAAAATTTTTTTTCATGTTTCC
1 AAAAATTTTCG-TGTTTCAAAAA-----ATTCGTGTTTTC
** *
61679064 TAAAAAAGTTCGTGTTTCAAAAATTTTCGTGTTTTC
1 -AAAAATTTTCGTGTTTCAAAAA-ATTCGTGTTTTC
* *
61679100 AAAAATTTGT-GTGTTTTCAACAATTCTCGTG-TTTC
1 AAAAATTT-TCGTG-TTTCAAAAAAT-TCGTGTTTTC
* * * *
61679135 ACAAATTTTCGCGTTTCAAAAAAAATCGGGTTTTC
1 AAAAATTTTCGTGTTTC-AAAAAATTCGTGTTTTC
* *
61679170 AAAAAAAATTTGCGTGTTTC-AAAATTGTCGTGTTTTC
1 ---AAAAATTTTCGTGTTTCAAAAAAT-TCGTGTTTTC
61679207 AAAAATTTTCGTGTTT
1 AAAAATTTTCGTGTTT
61679223 TTAAGAATTT
Statistics
Matches: 214, Mismatches: 28, Indels: 52
0.73 0.10 0.18
Matches are distributed among these distances:
32 5 0.02
33 3 0.01
34 32 0.15
35 65 0.30
36 42 0.20
37 26 0.12
38 25 0.12
39 8 0.04
40 8 0.04
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (34 bp):
AAAAATTTTCGTGTTTCAAAAAATTCGTGTTTTC
Found at i:61679099 original size:18 final size:18
Alignment explanation
Indices: 61678950--61679276 Score: 210
Period size: 18 Copynumber: 18.2 Consensus size: 18
61678940 AAATTCGATG
**
61678950 TTTCAAAAATTTTCACGT
1 TTTCAAAAATTTTCGTGT
**
61678968 TTTCAAAAAATTCCCGTGT
1 TTTC-AAAAATTTTCGTGT
61678987 TTTCAAAAATTTTCGTG-
1 TTTCAAAAATTTTCGTGT
61679004 TTTCAAAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
61679022 TTTCAAAAA--TTC-TGAT
1 TTTCAAAAATTTTCGTG-T
** *
61679038 GATCAAAAATTTTTTTTCATGT
1 TTTCAAAAA----TTTTCGTGT
* **
61679060 TTCCTAAAAAAGTTCGTG-
1 TTTC-AAAAATTTTCGTGT
61679078 TTTCAAAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
61679096 TTTCAAAAATTTGT-GTGT
1 TTTCAAAAATTT-TCGTGT
* *
61679114 TTTCAACAATTCTCGTG-
1 TTTCAAAAATTTTCGTGT
* *
61679131 TTTCACAAATTTTCGCG-
1 TTTCAAAAATTTTCGTGT
*** *
61679148 TTTCAAAAAAAATCGGGT
1 TTTCAAAAATTTTCGTGT
*
61679166 TTTCAAAAAAAATTTGCGTG-
1 TTTC---AAAAATTTTCGTGT
*
61679186 TTTC-AAAATTGTCGTGT
1 TTTCAAAAATTTTCGTGT
61679203 TTTCAAAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
* * *
61679221 TTTTAAGAATTTTTGTG-
1 TTTCAAAAATTTTCGTGT
* * * *
61679238 TCTCTAAAGTTCTCGTGT
1 TTTCAAAAATTTTCGTGT
*
61679256 TTT-AAAATTTTTTCGTGT
1 TTTCAAAA-ATTTTCGTGT
61679274 TTT
1 TTT
61679277 TCCAAGAAAA
Statistics
Matches: 237, Mismatches: 50, Indels: 44
0.72 0.15 0.13
Matches are distributed among these distances:
15 2 0.01
16 21 0.09
17 71 0.30
18 99 0.42
19 20 0.08
20 4 0.02
21 8 0.03
22 5 0.02
23 7 0.03
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.46
Consensus pattern (18 bp):
TTTCAAAAATTTTCGTGT
Found at i:61679324 original size:37 final size:38
Alignment explanation
Indices: 61679253--61679324 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 38
61679243 AAAGTTCTCG
* * *
61679253 TGTTTTAAAATTTTTTCGTGTTTTTCCAAGAAAATAAT
1 TGTTTTAAAATATCTTCGTGTTTTTCCAAAAAAATAAT
**
61679291 TGTTTTAAAA-ATCTTCGTGTTTTTTTAAAAAAAT
1 TGTTTTAAAATATCTTCGTGTTTTTCCAAAAAAAT
61679325 TCGTATTTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
37 19 0.66
38 10 0.34
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (38 bp):
TGTTTTAAAATATCTTCGTGTTTTTCCAAAAAAATAAT
Found at i:61679327 original size:20 final size:20
Alignment explanation
Indices: 61679293--61679333 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
61679283 AAAATAATTG
** *
61679293 TTTTAAAAATCTTCGTGTTT
1 TTTTAAAAAAATTCGTATTT
61679313 TTTTAAAAAAATTCGTATTT
1 TTTTAAAAAAATTCGTATTT
61679333 T
1 T
61679334 GATTGGATCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.07, G:0.07, T:0.54
Consensus pattern (20 bp):
TTTTAAAAAAATTCGTATTT
Found at i:61680940 original size:24 final size:23
Alignment explanation
Indices: 61680902--61680947 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
61680892 TTCAATCACA
61680902 ATTTCTCACATTTTCAATTCAATC
1 ATTTCTCACATTTTCAA-TCAATC
61680926 ATTTCTC-CATCTTTCAATCAAT
1 ATTTCTCACAT-TTTCAATCAAT
61680948 AATTAATCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.28, C:0.26, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTCTCACATTTTCAATCAATC
Found at i:61680957 original size:23 final size:24
Alignment explanation
Indices: 61680913--61680957 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
61680903 TTTCTCACAT
* **
61680913 TTTCAATTCAATCATTTCTCCATC
1 TTTCAATTCAATAATTAATCCATC
61680937 TTTCAA-TCAATAATTAATCCA
1 TTTCAATTCAATAATTAATCCA
61680958 CAAATTCACA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 12 0.67
24 6 0.33
ACGTcount: A:0.33, C:0.24, G:0.00, T:0.42
Consensus pattern (24 bp):
TTTCAATTCAATAATTAATCCATC
Found at i:61681112 original size:3 final size:3
Alignment explanation
Indices: 61681104--61681321 Score: 436
Period size: 3 Copynumber: 72.7 Consensus size: 3
61681094 CCACTCATCT
61681104 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
61681152 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
61681200 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
61681248 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
61681296 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
61681322 NNNNNNNNNN
Statistics
Matches: 215, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 215 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:61689235 original size:75 final size:75
Alignment explanation
Indices: 61689021--61689530 Score: 542
Period size: 75 Copynumber: 6.5 Consensus size: 75
61689011 GTTTTTTCAA
* * *
61689021 AAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGTCACATGCGGAGGTATTTCTTG
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG--ACACGCCGAGGTATTT-TT-
*
61689086 TAAATTTATGTTTT
62 TAAATTTTTGTTTT
** *
61689100 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGCACACGCCGAGGTATTTTTT-A
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG-GGACACGCCGAGGTATTTTTTAA
61689164 ATTTTTGTTTT
65 ATTTTTGTTTT
* * * *
61689175 AAAAAGAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA-TTTTTCA
1 AAAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCCGAGGTATTTTTTAA
* *
61689239 ATTTCTATTTT
65 ATTTTTGTTTT
** *
61689250 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACATGCCGAGGTATTTCTTTT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-ACACGCCGAGGTA-TT-TTTT
61689315 AAATTTTTGCTTTTCAAAAAAT
63 AAATTTTTG--TTT-------T
61689337 AAAAATAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACACGCCGAGGTA-TTT
1 ---AA-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-ACACGCCGAGGTATTTT
*
61689401 TTCAATTTTTGTTTT
61 TTAAATTTTTGTTTT
* * *
61689416 TAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCGGGCACACGCCGAGGTATTCTTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-ACACGCCGAGGTATT-TTTTA
*
61689481 AATTTCTGTTTTT
64 AATTTTTG-TTTT
* *
61689494 CAAAAAATCAACTCATAATT-CAAGAGGTGAGTTGAGC
1 AAAAAAATCAACTCAT-ATTGCGAGAGGTGAGTTGAGC
61689531 TTTGACTCAC
Statistics
Matches: 374, Mismatches: 33, Indels: 49
0.82 0.07 0.11
Matches are distributed among these distances:
74 42 0.11
75 103 0.28
76 38 0.10
77 15 0.04
78 59 0.16
79 42 0.11
80 4 0.01
86 3 0.01
87 1 0.00
88 12 0.03
89 1 0.00
91 54 0.14
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.33
Consensus pattern (75 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCCGAGGTATTTTTTAAA
TTTTTGTTTT
Found at i:61689479 original size:165 final size:165
Alignment explanation
Indices: 61689181--61689501 Score: 527
Period size: 166 Copynumber: 1.9 Consensus size: 165
61689171 TTTTAAAAAG
* * *
61689181 AATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTCAATTTCTA
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCCGAGGTATTTTTCAATTTCTA
* * *
61689246 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACATGCCGAGGTATTTC
66 TTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCGGGCACACGCCGAGGTATTTC
*
61689311 TTTTAAATTTTTGCTTTTCAAAAAATAAAAATAAA
131 TTTTAAATTTCTGCTTTTCAAAAAATAAAAATAAA
*
61689346 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACACGCCGAGGTATTTTTCAATTTTT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-ACACGCCGAGGTATTTTTCAATTTCT
*
61689411 GTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCGGGCACACGCCGAGGTA-TT
65 ATTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCGGGCACACGCCGAGGTATTT
* *
61689475 CTTTTCAATTTCTGTTTTTCAAAAAAT
130 CTTTTAAATTTCTGCTTTTCAAAAAAT
61689502 CAACTCATAA
Statistics
Matches: 144, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
165 63 0.44
166 81 0.56
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (165 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCCGAGGTATTTTTCAATTTCTA
TTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCGGGCACACGCCGAGGTATTTC
TTTTAAATTTCTGCTTTTCAAAAAATAAAAATAAA
Found at i:61689569 original size:241 final size:239
Alignment explanation
Indices: 61689102--61689573 Score: 673
Period size: 241 Copynumber: 2.0 Consensus size: 239
61689092 TATGTTTTTC
*
61689102 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGCACACGCCGAGGTATTTTTTAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGCACACGCCGAGGTATTTTTCAATT
* * * *
61689167 TTTGTTTTAAAAAGAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA
66 TTTGTTTTAAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCGGGACACGCCGAGGTA
* *
61689232 TTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACA
131 TTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGCGCACA
* * **
61689297 TGCCGAGGTATTTCTTTTAAATTTTTGCTTTTCAAAAAATAAAAAT
196 CGCCGAGCTATTTC--TTAAATTGCTGCTTTTCAAAAAATAAAAAT
*
61689343 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACACGCCGAGGTATTTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGCACACGCCGAGGTATTTTTCAATT
*
61689408 TTTGTTTTTAAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCATCGGGCACACGCCGAGGT
66 TTTGTTTTAAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCGGG-ACACGCCGAGGT
* * *
61689472 ATTCTTTTCAATTTCTGTTTTTCAAAAAATCAACTCATAATT-CAAGAGGTGAGTTGAGCTTTGA
130 A-T-TTTTCAATTTCTATTTTTC-AAAAATCAACTCAT-ATTGCAAGAGGTGAGTTGAGCCTCG-
* **
61689536 CTCACACGCCGAGCTA-TTC-TCGATTGCTGCTTTTCAAA
190 CGCACACGCCGAGCTATTTCTTAAATTGCTGCTTTTCAAA
61689574 TAAAAAGAAA
Statistics
Matches: 206, Mismatches: 19, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
240 36 0.17
241 101 0.49
242 1 0.00
243 18 0.09
244 35 0.17
245 15 0.07
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.33
Consensus pattern (239 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGCACACGCCGAGGTATTTTTCAATT
TTTGTTTTAAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCGGGACACGCCGAGGTA
TTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGCGCACA
CGCCGAGCTATTTCTTAAATTGCTGCTTTTCAAAAAATAAAAAT
Found at i:61689802 original size:96 final size:96
Alignment explanation
Indices: 61689638--61689833 Score: 365
Period size: 96 Copynumber: 2.0 Consensus size: 96
61689628 TCTATCCCTG
*
61689638 TTTCACAGCGATGAGCAAAGAGGGGCAGTTGTAATCACTGAATTTTGTCCTGGAATAATTTTGTG
1 TTTCACAGCGATGAGCAAAGAGGGGCAGCTGTAATCACTGAATTTTGTCCTGGAATAATTTTGTG
61689703 TTTAAAAAAATTACATTTTGACCCCTAAACT
66 TTTAAAAAAATTACATTTTGACCCCTAAACT
*
61689734 TTTCACAGCGATGAGCAAAGAGGGGCAGCTGTAATCACTGAATTTTGTCTTGGAATAATTTTGTG
1 TTTCACAGCGATGAGCAAAGAGGGGCAGCTGTAATCACTGAATTTTGTCCTGGAATAATTTTGTG
*
61689799 TTTAAAAAATTTACATTTTGACCCCTAAACT
66 TTTAAAAAAATTACATTTTGACCCCTAAACT
61689830 TTTC
1 TTTC
61689834 TAAAATTACA
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 97 1.00
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (96 bp):
TTTCACAGCGATGAGCAAAGAGGGGCAGCTGTAATCACTGAATTTTGTCCTGGAATAATTTTGTG
TTTAAAAAAATTACATTTTGACCCCTAAACT
Found at i:61689844 original size:30 final size:30
Alignment explanation
Indices: 61689804--61689951 Score: 156
Period size: 30 Copynumber: 4.9 Consensus size: 30
61689794 TTGTGTTTAA
61689804 AAAATTTACATTTTGACCCCTAAAC-TTTTC
1 AAAA-TTACATTTTGACCCCTAAACTTTTTC
61689834 TAAAATTACATTTTGACCCCTAAACTTTTTC
1 -AAAATTACATTTTGACCCCTAAACTTTTTC
** **
61689865 AAAATTACATTTCAACCCCTAAAGATTTT-
1 AAAATTACATTTTGACCCCTAAACTTTTTC
* * * *
61689894 GAAATTACATCTTGACCCTTAAACTTTCTC
1 AAAATTACATTTTGACCCCTAAACTTTTTC
** * *
61689924 AAAATTATGTTTTGACCCCAAAAGTTTT
1 AAAATTACATTTTGACCCCTAAACTTTT
61689952 GCTGCCATTA
Statistics
Matches: 95, Mismatches: 20, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
29 21 0.22
30 65 0.68
31 9 0.09
ACGTcount: A:0.34, C:0.22, G:0.05, T:0.39
Consensus pattern (30 bp):
AAAATTACATTTTGACCCCTAAACTTTTTC
Found at i:61689942 original size:59 final size:58
Alignment explanation
Indices: 61689804--61689952 Score: 172
Period size: 59 Copynumber: 2.5 Consensus size: 58
61689794 TTGTGTTTAA
* * * *
61689804 AAAATTTACATTTTGACCCCTAAACTTTTCTAAAATTACATTTTGACCCCTAAACTTTTTC
1 AAAA-TTACATTTTGACCCCTAAA-GTTT-TGAAATTACATCTTGACCCCTAAACTTTCTC
** *
61689865 AAAATTACATTTCAACCCCTAAAGATTTTGAAATTACATCTTGACCCTTAAACTTTCTC
1 AAAATTACATTTTGACCCCTAAAG-TTTTGAAATTACATCTTGACCCCTAAACTTTCTC
** *
61689924 AAAATTATGTTTTGACCCCAAAAGTTTTG
1 AAAATTACATTTTGACCCCTAAAGTTTTG
61689953 CTGCCATTAC
Statistics
Matches: 75, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
58 5 0.07
59 46 0.61
60 20 0.27
61 4 0.05
ACGTcount: A:0.34, C:0.21, G:0.06, T:0.38
Consensus pattern (58 bp):
AAAATTACATTTTGACCCCTAAAGTTTTGAAATTACATCTTGACCCCTAAACTTTCTC
Found at i:61690469 original size:15 final size:15
Alignment explanation
Indices: 61690445--61690489 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
61690435 AAGGGAGGGC
*
61690445 AAGAAGAAGAGAAAA
1 AAGAAAAAGAGAAAA
*
61690460 AAGAAAAAGAG-AAG
1 AAGAAAAAGAGAAAA
61690474 AA-AAAAAGAGAAAA
1 AAGAAAAAGAGAAAA
61690488 AA
1 AA
61690490 ATCAAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
13 8 0.31
14 8 0.31
15 10 0.38
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (15 bp):
AAGAAAAAGAGAAAA
Found at i:61690474 original size:20 final size:20
Alignment explanation
Indices: 61690449--61690487 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
61690439 GAGGGCAAGA
61690449 AGAAGAGAAAAAAGA-AAAAG
1 AGAAGA-AAAAAAGAGAAAAG
61690469 AGAAGAAAAAAAGAGAAAA
1 AGAAGAAAAAAAGAGAAAA
61690488 AAATCAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (20 bp):
AGAAGAAAAAAAGAGAAAAG
Done.