Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold196
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: 7488280
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 125249 characters in sequence are not A, C, G, or T
File 46 of 47
Found at i:7313475 original size:333 final size:330
Alignment explanation
Indices: 7312852--7313511 Score: 852
Period size: 333 Copynumber: 2.0 Consensus size: 330
7312842 TAAATGTTAA
*
7312852 ACTGCAAGGATTAGACTAATGCATGAATTATATCAGAGAATCAGATTTTTTTTTATAAAAAAAGA
1 ACTGCAAGAATTAGACTAATGCATGAATTATATCAGAGAATCAGATTTTTTTTTAT--AAAAAGA
** *
7312917 AAAGAAAAGTTGATTAAGTATAAATGTCAGACTGCAAGGATTAAACTAATGCATGAATTATATTA
64 AAAGAAAAGTTGATTAAGTATAAATGTCAGACTGCAAAAATTAAACTAATGCATAAATTATATTA
* * *
7312982 GAGAATCATATTCTCTTTTATAGAAAAAAATTGATTAATTGTAAATGTCAGACTGTAAAGATTAG
129 AAGAATCATATTCTCTTTTATAGAAAAAAATTGATTAATTATAAATGTCAGACTGCAAAGATTAG
* *
7313047 ACTAATGCATGAATTATATTTAAGAATCAGATTCTTTTTTATAAAAAAAAGTTAATTGATTGTAA
194 ACTAATGCATGAATTATATTCAAGAATCAGATTCTTTTTTATAAAAAAAAGTTAATTGATTATAA
* *
7313112 ATGTCAACCTGTAAGGATTAGACTAATGCATAAATTATATCTGAGAATCAGATTCTTTTTTATAG
259 ATGTCAACCTGTAAAGATTAGACTAATGCATAAATTATATCTGAGAATCA-AAT-TTTTTTATAG
7313177 AAAAAAAAG
322 AAAAAAAAG
* ** *
7313186 ACTGCAAGAATTAGACTAATGCATGAATTATATCTGA-AATTGGATTTTTTTTTGT-AAAA-AAA
1 ACTGCAAGAATTAGACTAATGCATGAATTATATCAGAGAATCAGATTTTTTTTTATAAAAAGAAA
* * * * *
7313248 TGAAAAGTTGATTGAGTGTAAATG-CTAGACTGTAAAAATTAGACTAATGCATAAATTATATTAA
66 AGAAAAGTTGATTAAGTATAAATGTC-AGACTGCAAAAATTAAACTAATGCATAAATTATATTAA
* * * * *
7313312 AGAATCATATTCTTTTTTATAGAAAAAAAGAAAAGTTGATT-GTGTATAAATGTCGGATTGCAAG
130 AGAATCATATTCTCTTTTATAG----AAA-AAAA-TTGATTAAT-TATAAATGTCAGACTGCAAA
* * *
7313376 GATTAGACTAATGCATGAATTATA-TCAGAGAATCATA-T-TTTTTTATAGAAAAAAGTTGATTG
188 GATTAGACTAATGCATGAATTATATTCA-AGAATCAGATTCTTTTTTATAAAAAAAAGTTAATTG
* * *
7313438 ATTATAAATGTTAGA-CTGTAAAGATTAGACTAATGCATAAATTATATTTGATAATCAAATTTTT
252 ATTATAAATGTCA-ACCTGTAAAGATTAGACTAATGCATAAATTATATCTGAGAATCAAATTTTT
7313502 TTATAGAAAA
316 TTATAGAAAA
7313512 GCAAAAAAGT
Statistics
Matches: 285, Mismatches: 31, Indels: 23
0.84 0.09 0.07
Matches are distributed among these distances:
328 1 0.00
329 77 0.27
330 4 0.01
331 14 0.05
332 2 0.01
333 90 0.32
334 44 0.15
335 53 0.19
ACGTcount: A:0.43, C:0.07, G:0.15, T:0.35
Consensus pattern (330 bp):
ACTGCAAGAATTAGACTAATGCATGAATTATATCAGAGAATCAGATTTTTTTTTATAAAAAGAAA
AGAAAAGTTGATTAAGTATAAATGTCAGACTGCAAAAATTAAACTAATGCATAAATTATATTAAA
GAATCATATTCTCTTTTATAGAAAAAAATTGATTAATTATAAATGTCAGACTGCAAAGATTAGAC
TAATGCATGAATTATATTCAAGAATCAGATTCTTTTTTATAAAAAAAAGTTAATTGATTATAAAT
GTCAACCTGTAAAGATTAGACTAATGCATAAATTATATCTGAGAATCAAATTTTTTTATAGAAAA
AAAAG
Found at i:7316994 original size:17 final size:17
Alignment explanation
Indices: 7316974--7317007 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7316964 TTAGTGTTAA
*
7316974 AAAAACCATTAAGATTT
1 AAAAACCATTAAAATTT
*
7316991 AAAAGCCATTAAAATTT
1 AAAAACCATTAAAATTT
7317008 TTATTTAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.29
Consensus pattern (17 bp):
AAAAACCATTAAAATTT
Found at i:7317439 original size:26 final size:23
Alignment explanation
Indices: 7317366--7317453 Score: 74
Period size: 22 Copynumber: 3.8 Consensus size: 23
7317356 AATGATAAAT
* * *
7317366 TTTTTTTAATTTTTTAAATATTA
1 TTTTTTAAATTTATTAAATGTTA
*
7317389 TTTTTT-AATTTATT-AATGTAAA
1 TTTTTTAAATTTATTAAATGT-TA
7317411 TTTTTTAAAAATTTAATTAAATGTTA
1 TTTTTT--AAATTT-ATTAAATGTTA
*
7317437 TTTTTT-ATTTTATTAAA
1 TTTTTTAAATTTATTAAA
7317454 AATAATAATA
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
21 4 0.07
22 20 0.37
23 10 0.19
25 5 0.09
26 10 0.19
27 5 0.09
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
TTTTTTAAATTTATTAAATGTTA
Found at i:7317473 original size:31 final size:31
Alignment explanation
Indices: 7317438--7317509 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 31
7317428 TAAATGTTAT
*
7317438 TTTTTATTTTATTAAAA-ATAATAATAAATA
1 TTTTTATTTTATAAAAACATAATAATAAATA
*
7317468 CTTTTTATTTTTATAAAAACATAATAATTAATA
1 -TTTTTA-TTTTATAAAAACATAATAATAAATA
*
7317501 TTTTAATTT
1 TTTTTATTT
7317510 GTTAATATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
31 9 0.25
32 15 0.42
33 12 0.33
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (31 bp):
TTTTTATTTTATAAAAACATAATAATAAATA
Found at i:7317633 original size:112 final size:113
Alignment explanation
Indices: 7317391--7317792 Score: 488
Period size: 112 Copynumber: 3.7 Consensus size: 113
7317381 AAATATTATT
* * * *
7317391 TTTTAATTTATTAATGTAAATTTTTTAAAAATTTAATTAAATGTTATTTTTTATTTTATT-----
1 TTTTAATTTGTTAATGTAAATTTTTT-TAAACTTAATTAAATATTA-TTTTTATTTTATTAAAAA
7317451 A-AA-AATAATAATAAATACTTTTTATTTTTATAAAAACATAATAATTAATA
64 ATAATAATAATAATAAATACTTTTTATTTTTAT-AAAA-ATAATAATTAATA
*
7317501 TTTTAATTTGTTAATAT-AATTTTTTTAAACTTAATTAAATATTATTTTTA-TTTATTAAAAAAT
1 TTTTAATTTGTTAATGTAAATTTTTTTAAACTTAATTAAATATTATTTTTATTTTATTAAAAAAT
7317564 AATAATAATAATAAATACTTTTTATTTTTATAAAATATAATAATTAATA
66 AATAATAATAATAAATACTTTTTATTTTTATAAAA-ATAATAATTAATA
7317613 TTTTAATTTGTTAATGT-AATTTTTTTAAACTTAATTAAATATTATTTTTAATTTTATTAAAAAA
1 TTTTAATTTGTTAATGTAAATTTTTTTAAACTTAATTAAATATTATTTTT-ATTTTATTAAAAAA
* *
7317677 TAATAATAA-ACCCTTTAAT--TTTTTA-TTTT-T--AAA-AATAATTAATA
65 TAATAATAATA---ATAAATACTTTTTATTTTTATAAAAATAATAATTAATA
*
7317721 TTTTAATTTTTTAATGTAAATTTTTTTAAACTTAATTAAATATTA---TT-TTTTATTAAAAAAT
1 TTTTAATTTGTTAATGTAAATTTTTTTAAACTTAATTAAATATTATTTTTATTTTATTAAAAAAT
7317782 AATAATTAATA
66 AATAA-TAATA
7317793 TATTATTATT
Statistics
Matches: 267, Mismatches: 10, Indels: 34
0.86 0.03 0.11
Matches are distributed among these distances:
104 19 0.07
105 3 0.01
106 9 0.03
107 6 0.02
108 43 0.16
109 36 0.13
110 17 0.06
111 1 0.00
112 68 0.25
113 34 0.13
114 27 0.10
116 4 0.01
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.52
Consensus pattern (113 bp):
TTTTAATTTGTTAATGTAAATTTTTTTAAACTTAATTAAATATTATTTTTATTTTATTAAAAAAT
AATAATAATAATAAATACTTTTTATTTTTATAAAAATAATAATTAATA
Found at i:7317813 original size:108 final size:104
Alignment explanation
Indices: 7317368--7317828 Score: 416
Period size: 109 Copynumber: 4.2 Consensus size: 104
7317358 TGATAAATTT
* * * * *
7317368 TTTTTAATTTTT-TAAAT-ATT-ATTTTTTAATTTATTAATGTAAATTTTTTAAAAATTTAATTA
1 TTTTTAATTTTTAAAAATAATTAATATTTTAATTTGTTAATGT-AATTTTTT-TAAACTTAATTA
* * * *
7317430 AATGTTATTTTTTATTTTATTAAAAATAATAATAAATACTTTTTA
64 AATATTATTTTTT-TATTA--AAAAATAATAAT-AATAATTATTA
*** *
7317475 TTTTT-A-TAAAAACATAATAATTAATATTTTAATTTGTTAATATAATTTTTTTAAACTTAATTA
1 TTTTTAATTTTTAA-A-AATAATTAATATTTTAATTTGTTAATGTAATTTTTTTAAACTTAATTA
* *
7317538 AATATTATTTTTATTTATTAAAAAATAATAATAATAATAAATA
64 AATATTA-TTTT-TTTATTAAAAAATAATAATAATAATTATTA
*
7317581 CTTTTTATTTTTATAAAATATAATAATTAATATTTTAATTTGTTAATGTAATTTTTTTAAACTTA
1 -TTTTTAATTTT-T--AA-A-AATAATTAATATTTTAATTTGTTAATGTAATTTTTTTAAACTTA
* *
7317646 ATTAAATATTATTTTTAATTTTATTAAAAAATAATAATAA-ACCCTT-TAA
60 ATTAAATATTA--TTT--TTTTATTAAAAAATAATAATAATA--ATTATTA
* *
7317695 TTTTTTATTTTTAAAAATAATTAATATTTTAATTTTTTAATGTAAATTTTTTTAAACTTAATTAA
1 TTTTTAATTTTTAAAAATAATTAATATTTTAATTTGTTAATGT-AATTTTTTTAAACTTAATTAA
7317760 ATATTA-TTTTTTATTAAAAAATAATAATTAATATATTATTA
65 ATATTATTTTTTTATTAAAAAATAATAA-TAATA-ATTATTA
**
7317801 TTTATTAAATTTTTTAAATTTAATTAAT
1 TTT-TT-AA-TTTTTAAAAATAATTAAT
7317829 TTATAAAAAA
Statistics
Matches: 295, Mismatches: 34, Indels: 48
0.78 0.09 0.13
Matches are distributed among these distances:
104 19 0.06
105 6 0.02
106 16 0.05
107 25 0.08
108 47 0.16
109 64 0.22
110 21 0.07
112 59 0.20
113 14 0.05
114 22 0.07
115 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (104 bp):
TTTTTAATTTTTAAAAATAATTAATATTTTAATTTGTTAATGTAATTTTTTTAAACTTAATTAAA
TATTATTTTTTTATTAAAAAATAATAATAATAATTATTA
Found at i:7324389 original size:8 final size:8
Alignment explanation
Indices: 7324376--7324406 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
7324366 ATTTGATTAA
7324376 ATTTTGTG
1 ATTTTGTG
7324384 ATTTTGTG
1 ATTTTGTG
7324392 ATTTTGTG
1 ATTTTGTG
7324400 ATGTTTG
1 AT-TTTG
7324407 ATGTTGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.82
9 4 0.18
ACGTcount: A:0.13, C:0.00, G:0.26, T:0.61
Consensus pattern (8 bp):
ATTTTGTG
Found at i:7325108 original size:20 final size:21
Alignment explanation
Indices: 7325083--7325126 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
7325073 GCAGCACTCA
*
7325083 CCAGGTCGCGACC-GGC-ACCC
1 CCAGGT-GCAACCGGGCAACCC
7325103 CCAGGTGCAACCGGGCAACCC
1 CCAGGTGCAACCGGGCAACCC
7325124 CCA
1 CCA
7325127 CACTCACAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 5 0.24
20 9 0.43
21 7 0.33
ACGTcount: A:0.20, C:0.48, G:0.27, T:0.05
Consensus pattern (21 bp):
CCAGGTGCAACCGGGCAACCC
Found at i:7326545 original size:23 final size:22
Alignment explanation
Indices: 7326499--7326542 Score: 81
Period size: 21 Copynumber: 2.0 Consensus size: 22
7326489 TGATTAAAGA
7326499 AAATTATTTTATTAAGGGGGAG
1 AAATTATTTTATTAAGGGGGAG
7326521 AAATT-TTTTATTAAGGGGGAG
1 AAATTATTTTATTAAGGGGGAG
7326542 A
1 A
7326543 GAAAAGGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.36, C:0.00, G:0.27, T:0.36
Consensus pattern (22 bp):
AAATTATTTTATTAAGGGGGAG
Found at i:7327079 original size:20 final size:19
Alignment explanation
Indices: 7327050--7327088 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
7327040 AGGTCAAAAC
7327050 CCTTAAATGTATCGATACA
1 CCTTAAATGTATCGATACA
7327069 CCTTCAAATGTATCGATACA
1 CCTT-AAATGTATCGATACA
7327089 TAATGCACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (19 bp):
CCTTAAATGTATCGATACA
Found at i:7327548 original size:16 final size:18
Alignment explanation
Indices: 7327516--7327549 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7327506 TCAAAGTTCA
7327516 AAGAGCTTTTATATTTTC
1 AAGAGCTTTTATATTTTC
7327534 AAGAGCTTTTAT-TTTT
1 AAGAGCTTTTATATTTT
7327550 ATTGTTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.26, C:0.09, G:0.12, T:0.53
Consensus pattern (18 bp):
AAGAGCTTTTATATTTTC
Found at i:7328456 original size:34 final size:32
Alignment explanation
Indices: 7328413--7328477 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 32
7328403 TACAAGCCAA
7328413 TGTATCGATACAAT-TTGGTCATGTATCGATACAT
1 TGTATCGATAC-ATCTT-GT-ATGTATCGATACAT
7328447 TGTATCGATACATCTTGTATGTATCGATACA
1 TGTATCGATACATCTTGTATGTATCGATACA
7328478 AACAGTTAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 13 0.43
33 4 0.13
34 13 0.43
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATCTTGTATGTATCGATACAT
Found at i:7328466 original size:15 final size:13
Alignment explanation
Indices: 7328434--7328459 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7328424 AATTTGGTCA
7328434 TGTATCGATACAT
1 TGTATCGATACAT
7328447 TGTATCGATACAT
1 TGTATCGATACAT
7328460 CTTGTATGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:7328566 original size:20 final size:21
Alignment explanation
Indices: 7328519--7328571 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
7328509 GCCAATCACC
*
7328519 TGTATCGATACATTCTTTGTA
1 TGTATCGATACATTCTTGGTA
*
7328540 AGTATCGATACA-T-TTGGTCA
1 TGTATCGATACATTCTTGGT-A
7328560 TGTATCGATACA
1 TGTATCGATACA
7328572 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 4 0.14
20 13 0.46
21 11 0.39
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTTGGTA
Found at i:7328577 original size:13 final size:13
Alignment explanation
Indices: 7328559--7328583 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7328549 ACATTTGGTC
7328559 ATGTATCGATACA
1 ATGTATCGATACA
7328572 ATGTATCGATAC
1 ATGTATCGATAC
7328584 TGTGCATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:7330054 original size:10 final size:10
Alignment explanation
Indices: 7330041--7330142 Score: 62
Period size: 10 Copynumber: 10.1 Consensus size: 10
7330031 TTTAAAATAT
7330041 TATAAATTTA
1 TATAAATTTA
*
7330051 TATAAATTTT
1 TATAAATTTA
* *
7330061 TATATATTAA
1 TATAAATTTA
**
7330071 TAATTTATTTGA
1 T-ATAAATTT-A
7330083 TATAAATTTA
1 TATAAATTTA
*
7330093 GATAAATTTA
1 TATAAATTTA
**
7330103 TATATTTTTA
1 TATAAATTTA
*
7330113 T-TATATTTA
1 TATAAATTTA
* * *
7330122 TGTTATTTTA
1 TATAAATTTA
*
7330132 TATAAAATTA
1 TATAAATTTA
7330142 T
1 T
7330143 TTTTTAATTA
Statistics
Matches: 69, Mismatches: 20, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
9 8 0.12
10 47 0.68
11 12 0.17
12 2 0.03
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (10 bp):
TATAAATTTA
Found at i:7330071 original size:42 final size:42
Alignment explanation
Indices: 7330013--7330107 Score: 104
Period size: 42 Copynumber: 2.3 Consensus size: 42
7330003 TTATATTTAT
* * *
7330013 AATTTTTATTTTTTAAT-ATTTAAAAT-ATTATAAATTTATATA
1 AATTTTTATATATTAATAATTT-AAATGA-TATAAATTTAGATA
**
7330055 AATTTTTATATATTAATAATTTATTTGATATAAATTTAGATA
1 AATTTTTATATATTAATAATTTAAATGATATAAATTTAGATA
*
7330097 AATTTATATAT
1 AATTTTTATAT
7330108 TTTTATTATA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
42 40 0.89
43 5 0.11
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (42 bp):
AATTTTTATATATTAATAATTTAAATGATATAAATTTAGATA
Found at i:7330127 original size:11 final size:11
Alignment explanation
Indices: 7330103--7330200 Score: 50
Period size: 11 Copynumber: 9.5 Consensus size: 11
7330093 GATAAATTTA
*
7330103 TATATTTTTAT
1 TATATTTATAT
*
7330114 TATATTTATGT
1 TATATTTATAT
7330125 TAT-TTTATA-
1 TATATTTATAT
**
7330134 TA-AAAT-TAT
1 TATATTTATAT
7330143 T-T-TTTA-AT
1 TATATTTATAT
* *
7330151 TATTTTTTATGT
1 TA-TATTTATAT
7330163 TATATTTATAT
1 TATATTTATAT
* *
7330174 AATATTTAAAT
1 TATATTTATAT
7330185 TAT-TTTATAT
1 TATATTTATAT
*
7330195 TTTATT
1 TATATT
7330201 AATAATTTAA
Statistics
Matches: 63, Mismatches: 15, Indels: 18
0.66 0.16 0.19
Matches are distributed among these distances:
8 6 0.10
9 4 0.06
10 14 0.22
11 36 0.57
12 3 0.05
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (11 bp):
TATATTTATAT
Found at i:7330194 original size:27 final size:30
Alignment explanation
Indices: 7330157--7330228 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 30
7330147 TAATTATTTT
*
7330157 TTATGTTATATTTATA-TAAT-ATTTAA-A
1 TTATTTTATATTTATATTAATAATTTAATA
*
7330184 TTATTTTATATTT-TATTAATAATTTAATC
1 TTATTTTATATTTATATTAATAATTTAATA
*
7330213 TTAATTTTAAATTTAT
1 TT-ATTTTATATTTAT
7330229 TTATTTAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
26 2 0.05
27 16 0.43
28 6 0.16
29 2 0.05
30 10 0.27
31 1 0.03
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (30 bp):
TTATTTTATATTTATATTAATAATTTAATA
Found at i:7330198 original size:39 final size:37
Alignment explanation
Indices: 7330110--7330199 Score: 94
Period size: 39 Copynumber: 2.4 Consensus size: 37
7330100 TTATATATTT
* *
7330110 TTATTATA-TTTATGTTATTTTATATAAAATTATTTT
1 TTATTATATTTTATGTTATTTTATATAAAATTAATTA
* *
7330146 TTAATTATTTTTTATGTTATATTTATATAATATTTAAATTA
1 TT-ATTATATTTTATGTTAT-TTTATATAA-AATT-AATTA
7330187 TT-TTATATTTTAT
1 TTATTATATTTTAT
7330200 TAATAATTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
36 2 0.05
37 5 0.11
38 10 0.23
39 19 0.43
40 3 0.07
41 5 0.11
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (37 bp):
TTATTATATTTTATGTTATTTTATATAAAATTAATTA
Found at i:7330261 original size:19 final size:19
Alignment explanation
Indices: 7330246--7330284 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
7330236 AAATAAAAAT
7330246 ATAAAAATTATTTAAATAA
1 ATAAAAATTATTTAAATAA
*
7330265 ATAATAATTATTTAATATAA
1 ATAAAAATTATTTAA-ATAA
7330285 TTTAATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
ATAAAAATTATTTAAATAA
Found at i:7330284 original size:35 final size:36
Alignment explanation
Indices: 7330243--7330330 Score: 98
Period size: 34 Copynumber: 2.6 Consensus size: 36
7330233 TTAAAATAAA
7330243 AATATAAAAATTATTTAAATAA-ATAATAATT-ATTT
1 AATAT-AAAATTATTTAAATAATATAATAATTAATTT
* *
7330278 AATAT-AATTTAATTTAAA-AATATAATTATTAATTT
1 AATATAAAATT-ATTTAAATAATATAATAATTAATTT
7330313 AAT-TAAAATT-TTTAAATA
1 AATATAAAATTATTTAAATA
7330331 CTAAAAGTCT
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
33 12 0.27
34 17 0.38
35 16 0.36
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (36 bp):
AATATAAAATTATTTAAATAATATAATAATTAATTT
Found at i:7330299 original size:18 final size:20
Alignment explanation
Indices: 7330278--7330314 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7330268 ATAATTATTT
7330278 AATATAA-T-TTAATTTAAA
1 AATATAATTATTAATTTAAA
7330296 AATATAATTATTAATTTAA
1 AATATAATTATTAATTTAA
7330315 TTAAAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 1 0.06
20 9 0.53
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AATATAATTATTAATTTAAA
Found at i:7330330 original size:31 final size:31
Alignment explanation
Indices: 7330261--7330330 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 31
7330251 AATTATTTAA
*
7330261 ATAAATAATAATTATTTAATATAATTTAATTT
1 ATAAAT-ATAATTATTTAATATAATTAAATTT
* *
7330293 AAAAATATAATTA-TTAATTTAATTAAAATTT
1 ATAAATATAATTATTTAATATAATT-AAATTT
*
7330324 TTAAATA
1 ATAAATA
7330331 CTAAAAGTCT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
30 10 0.31
31 17 0.53
32 5 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (31 bp):
ATAAATATAATTATTTAATATAATTAAATTT
Found at i:7331886 original size:3 final size:3
Alignment explanation
Indices: 7331880--7331913 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
7331870 GGCGATGATG
7331880 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
7331914 AGGTCTAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:7332056 original size:11 final size:12
Alignment explanation
Indices: 7332040--7332079 Score: 57
Period size: 11 Copynumber: 3.5 Consensus size: 12
7332030 AAATTATTAA
7332040 ATTTAAAAT-TG
1 ATTTAAAATATG
*
7332051 ATTTAAAATCT-
1 ATTTAAAATATG
7332062 ATTTAAAATATG
1 ATTTAAAATATG
7332074 ATTTAA
1 ATTTAA
7332080 GTATGGTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 19 0.73
12 7 0.27
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (12 bp):
ATTTAAAATATG
Found at i:7332519 original size:20 final size:20
Alignment explanation
Indices: 7332490--7332549 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
7332480 TGTTATAATT
*
7332490 TTTATTTAAATTATTATATA
1 TTTATATAAATTATTATATA
7332510 TTTATATAAATT-TTAATATA
1 TTTATATAAATTATT-ATATA
* *
7332530 TTAATAATTAA-TATTATATA
1 TTTAT-ATAAATTATTATATA
7332550 AATTAGAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 2 0.06
20 26 0.76
21 6 0.18
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTATATAAATTATTATATA
Found at i:7332522 original size:32 final size:31
Alignment explanation
Indices: 7332486--7332553 Score: 77
Period size: 32 Copynumber: 2.1 Consensus size: 31
7332476 CATGTGTTAT
*
7332486 AATTTT-TAT-TTAAATTATTATATATTTATATA
1 AATTTTATATATT-AATAATTA-ATA-TTATATA
7332518 AATTTTAATATATTAATAATTAATATTATATA
1 AATTTT-ATATATTAATAATTAATATTATATA
7332550 AATT
1 AATT
7332554 AGAATTTATA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
32 17 0.53
33 3 0.09
34 10 0.31
35 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (31 bp):
AATTTTATATATTAATAATTAATATTATATA
Found at i:7333185 original size:2 final size:2
Alignment explanation
Indices: 7333178--7333207 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7333168 TGTTGTGAAT
7333178 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7333208 ATTTTATCGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7333882 original size:18 final size:20
Alignment explanation
Indices: 7333853--7333901 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 20
7333843 TTAATTCAAA
7333853 ATTATTTATTATTT-AA-TAT
1 ATTATTT-TTATTTAAATTAT
7333872 ATTATTTTTATTTAAATTAT
1 ATTATTTTTATTTAAATTAT
7333892 ATT-TTTTTAT
1 ATTATTTTTAT
7333902 GTATCACTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 6 0.21
19 16 0.57
20 6 0.21
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
ATTATTTTTATTTAAATTAT
Found at i:7336216 original size:32 final size:33
Alignment explanation
Indices: 7336164--7336235 Score: 87
Period size: 32 Copynumber: 2.2 Consensus size: 33
7336154 TATTATATTA
*
7336164 TTTTTTTTATAAAAAATAAAATATCATAAA-ACCC
1 TTTTTTTTATAAAAAATAAAATA--ATAAAGAACC
*
7336198 TTTTTTTT-T-AAAAGTAAAATAATAAAGAACC
1 TTTTTTTTATAAAAAATAAAATAATAAAGAACC
7336229 TTTTTTT
1 TTTTTTT
7336236 CATCAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 5 0.14
31 10 0.29
32 11 0.31
33 1 0.03
34 8 0.23
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.44
Consensus pattern (33 bp):
TTTTTTTTATAAAAAATAAAATAATAAAGAACC
Found at i:7336683 original size:25 final size:25
Alignment explanation
Indices: 7336637--7336685 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
7336627 AATCGATTTA
*
7336637 AAAATTTATTTTATTTAATAATATT
1 AAAATTTATTTTATATAATAATATT
*
7336662 AAAATATTATTTT-TATATTAATAT
1 AAAAT-TTATTTTATATAATAATAT
7336686 ATATTTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
AAAATTTATTTTATATAATAATATT
Found at i:7336687 original size:27 final size:25
Alignment explanation
Indices: 7336637--7336690 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 25
7336627 AATCGATTTA
7336637 AAAATTTATTTTATTTAATAATATT
1 AAAATTTATTTTATTTAATAATATT
7336662 AAAATATTATTTTTATATTAATATATATT
1 AAAAT-TTA-TTTTAT-TTAATA-ATATT
7336691 TTATAATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 5 0.20
26 3 0.12
27 6 0.24
28 6 0.24
29 5 0.20
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
AAAATTTATTTTATTTAATAATATT
Found at i:7336692 original size:17 final size:19
Alignment explanation
Indices: 7336657--7336701 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
7336647 TTATTTAATA
*
7336657 ATATTAAAATATTATTTTT
1 ATATTAATATATTATTTTT
7336676 ATATTAATATA-TA-TTTT
1 ATATTAATATATTATTTTT
7336693 ATAATTAAT
1 AT-ATTAAT
7336702 TTAAAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 6 0.25
18 8 0.33
19 10 0.42
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
ATATTAATATATTATTTTT
Found at i:7337020 original size:16 final size:16
Alignment explanation
Indices: 7337001--7337036 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
7336991 CAAACTTGAC
*
7337001 ATGACCTGAACTTAAA
1 ATGACCCGAACTTAAA
*
7337017 ATGACCCGAACTTGAA
1 ATGACCCGAACTTAAA
7337033 ATGA
1 ATGA
7337037 TTCGAACCCG
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:0.42, C:0.19, G:0.17, T:0.22
Consensus pattern (16 bp):
ATGACCCGAACTTAAA
Found at i:7337042 original size:16 final size:16
Alignment explanation
Indices: 7337023--7337068 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
7337013 TAAAATGACC
*
7337023 CGAACTTGAAATGATT
1 CGAACCTGAAATGATT
* *
7337039 CGAACCCGAAGTGATT
1 CGAACCTGAAATGATT
*
7337055 TGAACCTGAAATGA
1 CGAACCTGAAATGA
7337069 CCTGAACAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (16 bp):
CGAACCTGAAATGATT
Found at i:7337074 original size:16 final size:16
Alignment explanation
Indices: 7337001--7337075 Score: 53
Period size: 16 Copynumber: 4.7 Consensus size: 16
7336991 CAAACTTGAC
* *
7337001 ATGACCTGAACTTAAA
1 ATGACCTGAACCTGAA
* *
7337017 ATGACCCGAACTTGAA
1 ATGACCTGAACCTGAA
* *
7337033 ATGA-TTCGAACCCGAA
1 ATGACCT-GAACCTGAA
* **
7337049 GTGATTTGAACCTGAA
1 ATGACCTGAACCTGAA
7337065 ATGACCTGAAC
1 ATGACCTGAAC
7337076 AATTAACTTG
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
16 44 0.96
17 2 0.04
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (16 bp):
ATGACCTGAACCTGAA
Found at i:7337974 original size:16 final size:16
Alignment explanation
Indices: 7337950--7337989 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
7337940 AAATAACCTG
* *
7337950 ACCCGAAATGATTCGA
1 ACCCAAAATGATCCGA
7337966 ACCCAAAATGATCCGA
1 ACCCAAAATGATCCGA
*
7337982 ATCCAAAA
1 ACCCAAAA
7337990 ATGACTCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.45, C:0.28, G:0.12, T:0.15
Consensus pattern (16 bp):
ACCCAAAATGATCCGA
Found at i:7337992 original size:17 final size:16
Alignment explanation
Indices: 7337955--7337993 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
7337945 ACCTGACCCG
* *
7337955 AAATGATTCGAACCCA
1 AAATGATCCGAACCAA
7337971 AAATGATCCGAATCCAA
1 AAATGATCCGAA-CCAA
7337988 AAATGA
1 AAATGA
7337994 CTCAAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.49, C:0.21, G:0.13, T:0.18
Consensus pattern (16 bp):
AAATGATCCGAACCAA
Found at i:7338394 original size:22 final size:22
Alignment explanation
Indices: 7338359--7338401 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
7338349 TATATTTATT
7338359 TAAATTTAATTATAAAAATAAA
1 TAAATTTAATTATAAAAATAAA
7338381 TAAATATTAA-TATAAAAATAA
1 TAAAT-TTAATTATAAAAATAA
7338402 TATTTTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
TAAATTTAATTATAAAAATAAA
Found at i:7339763 original size:20 final size:20
Alignment explanation
Indices: 7339740--7339812 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
7339730 ACAATTCAAA
7339740 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
*****
7339760 GTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCA-AT
7339781 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
7339801 GTATCGATACAT
1 GTATCGATACAT
7339813 AAAAAAGATG
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
20 27 0.64
21 15 0.36
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:7339784 original size:21 final size:21
Alignment explanation
Indices: 7339758--7339833 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
7339748 ACATGTTGCA
7339758 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATAAAAAAG
*****
7339779 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATAAAAAAG
7339799 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATAAAAAAG
7339820 ATGTATCGATACAT
1 ATGTATCGATACAT
7339834 TTCTTGGTAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATAAAAAAG
Found at i:7339791 original size:41 final size:41
Alignment explanation
Indices: 7339740--7339833 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
7339730 ACAATTCAAA
7339740 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
7339781 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
7339822 GTATCGATACAT
1 GTATCGATACAT
7339834 TTCTTGGTAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:7339890 original size:13 final size:13
Alignment explanation
Indices: 7339872--7339897 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7339862 TACAGCAAGT
7339872 ATGTATCGATACA
1 ATGTATCGATACA
7339885 ATGTATCGATACA
1 ATGTATCGATACA
7339898 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:7342145 original size:21 final size:21
Alignment explanation
Indices: 7342112--7342156 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
7342102 TTGCAAGTTG
*
7342112 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
7342134 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
7342154 AAA
1 AAA
7342157 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:7346057 original size:20 final size:20
Alignment explanation
Indices: 7346029--7346067 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
7346019 CATCTGGAAA
7346029 TTCTATGTATCGATACATTT
1 TTCTATGTATCGATACATTT
*
7346049 TTCTTTGTATCGATACATT
1 TTCTATGTATCGATACATT
7346068 GTATCGATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.10, T:0.51
Consensus pattern (20 bp):
TTCTATGTATCGATACATTT
Found at i:7346071 original size:13 final size:13
Alignment explanation
Indices: 7346053--7346078 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7346043 ACATTTTTCT
7346053 TTGTATCGATACA
1 TTGTATCGATACA
7346066 TTGTATCGATACA
1 TTGTATCGATACA
7346079 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:7348544 original size:20 final size:20
Alignment explanation
Indices: 7348521--7348593 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
7348511 ACAATTCAAA
7348521 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
*****
7348541 GTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCA-AT
7348562 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
7348582 GTATCGATACAT
1 GTATCGATACAT
7348594 AAAAAAGATG
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
20 27 0.64
21 15 0.36
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:7348565 original size:21 final size:21
Alignment explanation
Indices: 7348539--7348614 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
7348529 ACATGTTGCA
7348539 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATAAAAAAG
*****
7348560 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATAAAAAAG
7348580 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATAAAAAAG
7348601 ATGTATCGATACAT
1 ATGTATCGATACAT
7348615 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATAAAAAAG
Found at i:7348571 original size:41 final size:41
Alignment explanation
Indices: 7348521--7348614 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
7348511 ACAATTCAAA
7348521 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
7348562 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
7348603 GTATCGATACAT
1 GTATCGATACAT
7348615 TTCTTGGCAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:7348671 original size:13 final size:13
Alignment explanation
Indices: 7348653--7348678 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7348643 TACAGCAAGT
7348653 ATGTATCGATACA
1 ATGTATCGATACA
7348666 ATGTATCGATACA
1 ATGTATCGATACA
7348679 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:7351984 original size:21 final size:21
Alignment explanation
Indices: 7351960--7352000 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
7351950 AAAATTACTT
*
7351960 AATATATAAAAATATAAAATC
1 AATACATAAAAATATAAAATC
* *
7351981 AATACATATAATTATAAAAT
1 AATACATAAAAATATAAAAT
7352001 GGGTTAAATC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (21 bp):
AATACATAAAAATATAAAATC
Found at i:7352577 original size:6 final size:6
Alignment explanation
Indices: 7352556--7352595 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
7352546 CCCTCCAACT
*
7352556 AAAGCC AATG-C AAAGCC AAAGCC AAAGCC AAAGCC AAAGC
1 AAAGCC AAAGCC AAAGCC AAAGCC AAAGCC AAAGCC AAAGC
7352596 TTCGTAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 4 0.13
6 27 0.87
ACGTcount: A:0.50, C:0.30, G:0.17, T:0.03
Consensus pattern (6 bp):
AAAGCC
Found at i:7352924 original size:21 final size:20
Alignment explanation
Indices: 7352898--7352999 Score: 87
Period size: 21 Copynumber: 4.9 Consensus size: 20
7352888 GAAGATAAGG
*
7352898 AAGAGGACGAGAAAGAGAAA
1 AAGAGGAGGAGAAAGAGAAA
* **
7352918 AATGAGGAGGAGAAGGAGTGA
1 AA-GAGGAGGAGAAAGAGAAA
*
7352939 AAGAAGGACGAGAAAGAGAAA
1 AAG-AGGAGGAGAAAGAGAAA
* * **
7352960 TAGGAGGAGGAGAAGGAGCGA
1 -AAGAGGAGGAGAAAGAGAAA
7352981 AAGAAGGAGGAGAAAGAGA
1 AAG-AGGAGGAGAAAGAGA
7353000 TGAAGAAGGA
Statistics
Matches: 62, Mismatches: 16, Indels: 7
0.73 0.19 0.08
Matches are distributed among these distances:
20 5 0.08
21 55 0.89
22 2 0.03
ACGTcount: A:0.52, C:0.03, G:0.42, T:0.03
Consensus pattern (20 bp):
AAGAGGAGGAGAAAGAGAAA
Found at i:7352948 original size:42 final size:42
Alignment explanation
Indices: 7352901--7352999 Score: 162
Period size: 42 Copynumber: 2.4 Consensus size: 42
7352891 GATAAGGAAG
* *
7352901 AGGACGAGAAAGAGAAAAATGAGGAGGAGAAGGAGTGAAAGA
1 AGGACGAGAAAGAGAAAAAGGAGGAGGAGAAGGAGCGAAAGA
*
7352943 AGGACGAGAAAGAGAAATAGGAGGAGGAGAAGGAGCGAAAGA
1 AGGACGAGAAAGAGAAAAAGGAGGAGGAGAAGGAGCGAAAGA
*
7352985 AGGAGGAGAAAGAGA
1 AGGACGAGAAAGAGA
7353000 TGAAGAAGGA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.52, C:0.03, G:0.42, T:0.03
Consensus pattern (42 bp):
AGGACGAGAAAGAGAAAAAGGAGGAGGAGAAGGAGCGAAAGA
Found at i:7353005 original size:21 final size:20
Alignment explanation
Indices: 7352922--7353124 Score: 100
Period size: 21 Copynumber: 10.1 Consensus size: 20
7352912 GAGAAAAATG
* *
7352922 AGGAGGAGAAGGAGTGAAAGA
1 AGGAGGAGAAAGAGAG-AAGA
* * *
7352943 AGGACGAGAAAGAGAAATAGG
1 AGGAGGAGAAAGAGAGA-AGA
* *
7352964 AGGAGGAGAAGGAGCGAAAGA
1 AGGAGGAGAAAGAGAG-AAGA
7352985 AGGAGGAGAAAGAGATGAAGA
1 AGGAGGAGAAAGAGA-GAAGA
* *
7353006 AGGAAGAGAAAAAGAGAGAGA
1 AGGAGGAGAAAGAGAGA-AGA
*
7353027 AGGAGAAGAAGAAGGAAGAGAA-A
1 AGGAG--G-AGAAAG-AGAGAAGA
*
7353050 AAGAGG-GAGAAGA-AGAAGA
1 AGGAGGAGA-AAGAGAGAAGA
* *
7353069 AGAAGAAG-AAGA-AGAAGA
1 AGGAGGAGAAAGAGAGAAGA
* *
7353087 AGAAGAAG-AAGA-AGAAGA
1 AGGAGGAGAAAGAGAGAAGA
* *
7353105 AGAAGAAG-AAGA-AGAAGA
1 AGGAGGAGAAAGAGAGAAGA
7353123 AG
1 AG
7353125 AAAAAAGACT
Statistics
Matches: 149, Mismatches: 22, Indels: 25
0.76 0.11 0.13
Matches are distributed among these distances:
18 52 0.35
19 7 0.05
20 6 0.04
21 66 0.44
22 2 0.01
23 6 0.04
24 5 0.03
25 5 0.03
ACGTcount: A:0.58, C:0.01, G:0.40, T:0.01
Consensus pattern (20 bp):
AGGAGGAGAAAGAGAGAAGA
Found at i:7353006 original size:12 final size:11
Alignment explanation
Indices: 7352991--7353127 Score: 74
Period size: 9 Copynumber: 13.5 Consensus size: 11
7352981 AAGAAGGAGG
7352991 AGAAAGAGATGA
1 AGAAAGAGA-GA
*
7353003 AGAAGGAAGAGA
1 AGAAAG-AGAGA
7353015 A-AAAGAGAG-
1 AGAAAGAGAGA
*
7353024 AGAAGGAGAAGA
1 AGAAAGAG-AGA
*
7353036 AGAAGGAAGAGA
1 AGAAAG-AGAGA
7353048 A-AAAGAGGGAGA
1 AGAAAGA--GAGA
7353060 AG-AAGA-AGA
1 AGAAAGAGAGA
7353069 AG-AAGA-AGA
1 AGAAAGAGAGA
7353078 AG-AAGA-AGA
1 AGAAAGAGAGA
7353087 AG-AAGA-AGA
1 AGAAAGAGAGA
7353096 AG-AAGA-AGA
1 AGAAAGAGAGA
7353105 AG-AAGA-AGA
1 AGAAAGAGAGA
7353114 AG-AAGA-AGA
1 AGAAAGAGAGA
7353123 AGAAA
1 AGAAA
7353128 AAAGACTGCT
Statistics
Matches: 112, Mismatches: 4, Indels: 20
0.82 0.03 0.15
Matches are distributed among these distances:
9 60 0.54
10 12 0.11
11 8 0.07
12 27 0.24
13 5 0.04
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.01
Consensus pattern (11 bp):
AGAAAGAGAGA
Found at i:7353008 original size:33 final size:32
Alignment explanation
Indices: 7352970--7353106 Score: 120
Period size: 33 Copynumber: 4.2 Consensus size: 32
7352960 TAGGAGGAGG
* *
7352970 AGAAGGAGCGAAAGAAG-GAGGAGAAAGAGATGA
1 AGAAGGAGAGAAA-AAGAGA-GAGAAAGAGAAGA
*
7353003 AGAAGGAAGAGAAAAAGAGAGAGAAGGAGAAGA
1 AGAAGG-AGAGAAAAAGAGAGAGAAAGAGAAGA
*
7353036 AGAAGGAAGAGAAAAAGAGGGAG-AAGAAGAAGA
1 AGAAGG-AGAGAAAAAGAGAGAGAAAG-AGAAGA
* *
7353069 AGAAGAAGAAGAAGAAGA-AGA-AGAAGAAGAAGA
1 AGAAGGAG-AGAAAAAGAGAGAGA-AAG-AGAAGA
7353102 AGAAG
1 AGAAG
7353107 AAGAAGAAGA
Statistics
Matches: 90, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
32 6 0.07
33 76 0.84
34 8 0.09
ACGTcount: A:0.60, C:0.01, G:0.39, T:0.01
Consensus pattern (32 bp):
AGAAGGAGAGAAAAAGAGAGAGAAAGAGAAGA
Found at i:7353034 original size:6 final size:6
Alignment explanation
Indices: 7353001--7353126 Score: 159
Period size: 6 Copynumber: 21.0 Consensus size: 6
7352991 AGAAAGAGAT
* *
7353001 GAAGAA GGAAG-A GAAAAA G-AGAGA GAAGGA GAAGAA GAAGGAA G-AGAA
1 GAAGAA -GAAGAA GAAGAA GAAGA-A GAAGAA GAAGAA GAA-GAA GAAGAA
* * *
7353049 AAAGAG GGAGAA GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA
1 GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA
7353097 GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA
1 GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA
7353127 AAAAGACTGC
Statistics
Matches: 104, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
5 8 0.08
6 86 0.83
7 10 0.10
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (6 bp):
GAAGAA
Found at i:7353107 original size:33 final size:33
Alignment explanation
Indices: 7353001--7353126 Score: 159
Period size: 33 Copynumber: 3.8 Consensus size: 33
7352991 AGAAAGAGAT
*
7353001 GAAGAAGGAAGAGAAAAAG-AGAGAGAAGGAGAA
1 GAAGAAGGAAGAGAAAAAGAAGA-AGAAGAAGAA
* *
7353034 GAAGAAGGAAGAGAAAAAGAGGGAGAAGAAGAA
1 GAAGAAGGAAGAGAAAAAGAAGAAGAAGAAGAA
*
7353067 GAAGAA-GAAGAAGAAGAAGAAGAAGAAGAAGAA
1 GAAGAAGGAAG-AGAAAAAGAAGAAGAAGAAGAA
*
7353100 GAAGAA-GAAGAAGAAGAAGAAGAAGAA
1 GAAGAAGGAAG-AGAAAAAGAAGAAGAA
7353127 AAAAGACTGC
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
32 4 0.05
33 80 0.94
34 1 0.01
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (33 bp):
GAAGAAGGAAGAGAAAAAGAAGAAGAAGAAGAA
Found at i:7354798 original size:12 final size:13
Alignment explanation
Indices: 7354771--7354804 Score: 52
Period size: 12 Copynumber: 2.6 Consensus size: 13
7354761 TAACACAAAA
7354771 AAAAAAAGGAGCTG
1 AAAAAAAGGA-CTG
7354785 AAAAAAAGGA-TG
1 AAAAAAAGGACTG
7354797 AAAAAAAG
1 AAAAAAAG
7354805 CATAAGCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 10 0.50
14 10 0.50
ACGTcount: A:0.68, C:0.03, G:0.24, T:0.06
Consensus pattern (13 bp):
AAAAAAAGGACTG
Found at i:7356016 original size:2 final size:2
Alignment explanation
Indices: 7356009--7356045 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
7355999 TTAGAGACAT
7356009 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7356046 TCTGAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7357294 original size:18 final size:18
Alignment explanation
Indices: 7357265--7357308 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
7357255 TTATGCATGT
7357265 ATGAAGCATAG-AAAATGC
1 ATGAA-CATAGAAAAATGC
7357283 ACTGAACATAGAAAAATGC
1 A-TGAACATAGAAAAATGC
7357302 ATGAACA
1 ATGAACA
7357309 AAGGCTATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 12 0.50
19 12 0.50
ACGTcount: A:0.52, C:0.14, G:0.18, T:0.16
Consensus pattern (18 bp):
ATGAACATAGAAAAATGC
Found at i:7358273 original size:22 final size:19
Alignment explanation
Indices: 7358223--7358277 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
7358213 TTAAGAACCC
*
7358223 AGAATGTATCGATATAATG
1 AGAATGTATCGATACAATG
7358242 AGAAATGTATCGATACAATTG
1 AG-AATGTATCGATACAA-TG
7358263 TAAGAATGTATCGAT
1 --AGAATGTATCGAT
7358278 GCATTTACTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
19 2 0.06
20 14 0.45
21 2 0.06
22 11 0.35
23 2 0.06
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.31
Consensus pattern (19 bp):
AGAATGTATCGATACAATG
Found at i:7358293 original size:20 final size:20
Alignment explanation
Indices: 7358268--7358308 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
7358258 AATTGTAAGA
*
7358268 ATGTATCGATGCATTTACTT
1 ATGTATCGATACATTTACTT
* *
7358288 ATGTATTGATACATTTTCTT
1 ATGTATCGATACATTTACTT
7358308 A
1 A
7358309 GCAGTATGCA
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:0.27, C:0.12, G:0.12, T:0.49
Consensus pattern (20 bp):
ATGTATCGATACATTTACTT
Found at i:7360008 original size:19 final size:19
Alignment explanation
Indices: 7359967--7360009 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
7359957 TTTTTTTTAT
**
7359967 TTTTAATTTTTTTTGCTTT
1 TTTTAATTTTTTTTGCTGA
7359986 TTTTAATTTTTTTT-CTAGA
1 TTTTAATTTTTTTTGCT-GA
7360005 TTTTA
1 TTTTA
7360010 GGACGCCTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 2 0.10
19 19 0.90
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.74
Consensus pattern (19 bp):
TTTTAATTTTTTTTGCTGA
Found at i:7370822 original size:52 final size:52
Alignment explanation
Indices: 7370674--7370802 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
7370664 CGAAATATGA
* *
7370674 AAATTTGCTTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
7370726 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
7370778 AAATTTGCCTACATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
7370803 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:7370829 original size:13 final size:13
Alignment explanation
Indices: 7370811--7370835 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7370801 CAAAGATCAG
7370811 TGTATCGATACAA
1 TGTATCGATACAA
7370824 TGTATCGATACA
1 TGTATCGATACA
7370836 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:7370902 original size:19 final size:18
Alignment explanation
Indices: 7370878--7370940 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
7370868 TAGCTTAAAT
7370878 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
7370897 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
7370910 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
*
7370929 TTTATCGATACA
1 TGTATCGATACA
7370941 TTGTATCGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 11 0.30
14 1 0.03
16 2 0.05
18 1 0.03
19 22 0.59
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:7370915 original size:13 final size:13
Alignment explanation
Indices: 7370897--7370953 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
7370887 ACAAAACTTA
7370897 TGTATCGATACAT
1 TGTATCGATACAT
7370910 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
*
7370928 ATTTATCGATACAT
1 -TGTATCGATACAT
7370942 TGTATCGATACA
1 TGTATCGATACA
7370954 ACACTTTATG
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 20 0.56
14 1 0.03
16 6 0.17
18 1 0.03
19 8 0.22
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:7370975 original size:32 final size:32
Alignment explanation
Indices: 7370876--7370965 Score: 153
Period size: 32 Copynumber: 2.8 Consensus size: 32
7370866 AGTAGCTTAA
*
7370876 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
*
7370908 ATTGTATCGATACAACACTTATTTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
7370940 ATTGTATCGATACAACACTTTATGTA
1 ATTGTATCGATACAACAC-TTATGTA
7370966 CAAATCATTG
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 48 0.89
33 6 0.11
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.37
Consensus pattern (32 bp):
ATTGTATCGATACAACACTTATGTATCGATAC
Found at i:7380587 original size:3 final size:3
Alignment explanation
Indices: 7380579--7380618 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
7380569 GCACAACATA
7380579 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
7380619 TTATTATTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7380623 original size:3 final size:3
Alignment explanation
Indices: 7380617--7380642 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
7380607 ATAATAATAA
7380617 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
7380643 GAAAATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:7382121 original size:1 final size:1
Alignment explanation
Indices: 7382115--7382228 Score: 84
Period size: 1 Copynumber: 114.0 Consensus size: 1
7382105 GGCGTCCTCC
* * ** * * * *
7382115 AAAAAAAAAAAAAACAAAAACAAAAAAAATGAAAAAACAAAAAAAAAACAAAAAACAAAAAAACA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
** * * * * * *
7382180 AAAGGAAAAAAAAAACAAAAACAATAAAAAAACAAACAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
7382229 GGGGGTCCGG
Statistics
Matches: 84, Mismatches: 29, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 84 1.00
ACGTcount: A:0.86, C:0.10, G:0.03, T:0.02
Consensus pattern (1 bp):
A
Found at i:7382141 original size:17 final size:17
Alignment explanation
Indices: 7382115--7382227 Score: 121
Period size: 17 Copynumber: 6.9 Consensus size: 17
7382105 GGCGTCCTCC
7382115 AAAA-AAAAAAAAAACA
1 AAAACAAAAAAAAAACA
*
7382131 AAAACAAAAAAAATGA-A
1 AAAACAAAAAAAA-AACA
7382148 AAAACAAAAAAAAAAC-
1 AAAACAAAAAAAAAACA
*
7382164 AAAA-AACAAAAAAACA
1 AAAACAAAAAAAAAACA
**
7382180 AAAGGAAAAAAAAAACA
1 AAAACAAAAAAAAAACA
*
7382197 AAAACAATAAAAAAAC-
1 AAAACAAAAAAAAAACA
7382213 -AAACAAAAACAAAAA
1 AAAACAAAAA-AAAAA
7382228 AGGGGGTCCG
Statistics
Matches: 82, Mismatches: 9, Indels: 12
0.80 0.09 0.12
Matches are distributed among these distances:
15 18 0.22
16 17 0.21
17 46 0.56
18 1 0.01
ACGTcount: A:0.86, C:0.10, G:0.03, T:0.02
Consensus pattern (17 bp):
AAAACAAAAAAAAAACA
Found at i:7382162 original size:34 final size:32
Alignment explanation
Indices: 7382115--7382227 Score: 131
Period size: 32 Copynumber: 3.5 Consensus size: 32
7382105 GGCGTCCTCC
7382115 AAAA-AAAAAAAAAACAAAAACAAAAAAAATGAA
1 AAAACAAAAAAAAAACAAAAACAAAAAAAA--AA
*
7382148 AAAACAAAAAAAAAACAAAAA-ACAAAAAAACA
1 AAAACAAAAAAAAAACAAAAACA-AAAAAAAAA
** *
7382180 AAAGGAAAAAAAAAACAAAAACAATAAAAAAA
1 AAAACAAAAAAAAAACAAAAACAAAAAAAAAA
*
7382212 CAAACAAAAACAAAAA
1 AAAACAAAAA-AAAAA
7382228 AGGGGGTCCG
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
32 34 0.50
33 11 0.16
34 23 0.34
ACGTcount: A:0.86, C:0.10, G:0.03, T:0.02
Consensus pattern (32 bp):
AAAACAAAAAAAAAACAAAAACAAAAAAAAAA
Found at i:7382175 original size:49 final size:49
Alignment explanation
Indices: 7382114--7382228 Score: 151
Period size: 49 Copynumber: 2.3 Consensus size: 49
7382104 CGGCGTCCTC
*
7382114 CAAAAAAAAAAAAAACAAAAACAAAAAAAATGA-AAAAACAAAAAAAAAA
1 CAAAAAAAAAAAAAACAAAAACAAAAAAAA-AACAAAAACAAAAAAAAAA
* ** *
7382163 CAAAAAACAAAAAAACAAAAGGAAAAAAAAAACAAAAACAATAAAAAAA
1 CAAAAAAAAAAAAAACAAAAACAAAAAAAAAACAAAAACAAAAAAAAAA
7382212 CAAACAAAAACAAAAAA
1 CAAA-AAAAA-AAAAAA
7382229 GGGGGTCCGG
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
48 1 0.02
49 46 0.81
50 4 0.07
51 6 0.11
ACGTcount: A:0.85, C:0.10, G:0.03, T:0.02
Consensus pattern (49 bp):
CAAAAAAAAAAAAAACAAAAACAAAAAAAAAACAAAAACAAAAAAAAAA
Found at i:7383725 original size:30 final size:29
Alignment explanation
Indices: 7383670--7384119 Score: 335
Period size: 30 Copynumber: 15.3 Consensus size: 29
7383660 TCACCCTTCA
* *
7383670 AAAGTCCACAAGTCAGTGGCATTTTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* *
7383699 AAAGCCCACAAGTCGGTGGCATTTTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* *
7383728 GAAAGCCCACAAGTCAGTGGCAAC--CTTC
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
7383756 AAAGCCCACAAATCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
* * *
7383786 GAAGCCCACAAGTCGGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
7383815 AAAGTCCACAACTCCGTGGCACTCTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
* * * *
7383845 TTTTGTAAGCTCACAACTCTA-TAGCA-CTCTTTTC
1 -----AAAGCCCACAAGTC-AGTGGCATCT-TTTTC
* * *
7383879 --AGCCCACAAGTTAGTGGCACCCTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
*
7383906 AAAAGCCCACAAGTCAGTGGCATATTTTTC
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
7383936 AAAAGCCCACAAGTCAGTGGCAAC-CTTTA
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * * *
7383965 AAAGCCCACAAGTTAGTGGCACCCTGTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
*
7383994 AAAAGCCCACAAGTCAGTGGCATATTTTTC
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
7384024 AAAAGCCCACAAGTCAGTGGCAAC-CTTTA
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
* *
7384053 AAAGCCCACAAGTCAGTGGCAAC--CTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * * *
7384080 AAAGCTCACAAATCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
7384110 AAAGCCCACA
1 AAAGCCCACA
7384120 CAAGTCGGTG
Statistics
Matches: 340, Mismatches: 59, Indels: 43
0.77 0.13 0.10
Matches are distributed among these distances:
26 1 0.00
27 59 0.17
28 50 0.15
29 59 0.17
30 149 0.44
33 2 0.01
34 5 0.01
35 15 0.04
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCATCTTTTTC
Found at i:7383771 original size:27 final size:27
Alignment explanation
Indices: 7383729--7383781 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
7383719 ATTTTTTTCG
*
7383729 AAAGCCCACAAGTCAGTGGCAACCTTC
1 AAAGCCCACAAATCAGTGGCAACCTTC
*
7383756 AAAGCCCACAAATCAGTGGCACCCTT
1 AAAGCCCACAAATCAGTGGCAACCTT
7383782 TTCCGAAGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.34, C:0.34, G:0.17, T:0.15
Consensus pattern (27 bp):
AAAGCCCACAAATCAGTGGCAACCTTC
Found at i:7383984 original size:88 final size:87
Alignment explanation
Indices: 7383879--7384135 Score: 383
Period size: 88 Copynumber: 2.9 Consensus size: 87
7383869 CACTCTTTTC
7383879 AGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
1 AGCCCACAAGTTAGTGGCACCC-TTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
7383944 ACAAGTCAGTGGCAACCTTTAAA
65 ACAAGTCAGTGGCAACCTTTAAA
7383967 AGCCCACAAGTTAGTGGCACCCTGTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
1 AGCCCACAAGTTAGTGGCACCCT-TTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
7384032 ACAAGTCAGTGGCAACCTTTAAA
65 ACAAGTCAGTGGCAACCTTTAAA
* * * * *** *
7384055 AGCCCACAAGTCAGTGGCAACC-TTC-AAAGCTCACAAATCAGTGGCACCCTTTTCCAAAGCCCA
1 AGCCCACAAGTTAGTGGCACCCTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAG-CC-
*
7384118 CACAAGTCGGTGGCAACC
64 CACAAGTCAGTGGCAACC
7384136 CTTCTAAGCC
Statistics
Matches: 157, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
85 28 0.18
86 5 0.03
87 18 0.11
88 106 0.68
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.20
Consensus pattern (87 bp):
AGCCCACAAGTTAGTGGCACCCTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCA
CAAGTCAGTGGCAACCTTTAAA
Found at i:7383995 original size:58 final size:59
Alignment explanation
Indices: 7383666--7384135 Score: 349
Period size: 58 Copynumber: 8.0 Consensus size: 59
7383656 TTCATCACCC
* *** * ***
7383666 TTCAAAAGTCCACAAGTCAGTGGCATTTTTTTC-AAAGCCCACAAGTCGGTGGCATTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCA-ACCT
* * * *
7383725 TTCGAAAGCCCACAAGTCAGTGGCAACC--TTC-AAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACC-T
** * * * * * *
7383782 TTCCGAAGCCCACAAGTCGGTGGCA-TCTTTTCCAAAGTCCACAACTCCGTGGC-ACTCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAAC-C--T
** * * * * * *
7383842 TTCTTTTGTAAGCTCACAACTCTA-TAGCACTCTTTTC---AGCCCACAAGTTAGTGGCACCCTT
1 TTC----AAAAGCCCACAAGTC-AGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACC-T
***
7383903 TTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAACCT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACCT
* * **
7383962 TT-AAAAGCCCACAAGTTAGTGGCACCCTGTTCAAAAGCCCACAAGTCAGTGGCATATTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCA-ACCT
*
7384021 TTCAAAAGCCCACAAGTCAGTGGCAACC-TTT-AAAAGCCCACAAGTCAGTGGCAACC-
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACCT
* * * *
7384077 TTC-AAAGCTCACAAATCAGTGGCACCCTTTTCCAAAGCCCACACAAGTCGGTGGCAACC
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAG-CC-CACAAGTCAGTGGCAACC
7384136 CTTCTAAGCC
Statistics
Matches: 332, Mismatches: 56, Indels: 46
0.76 0.13 0.11
Matches are distributed among these distances:
55 21 0.06
56 8 0.02
57 70 0.21
58 75 0.23
59 67 0.20
60 48 0.14
61 5 0.02
62 15 0.05
63 1 0.00
64 15 0.05
65 7 0.02
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.24
Consensus pattern (59 bp):
TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACCT
Found at i:7384202 original size:49 final size:49
Alignment explanation
Indices: 7384140--7384391 Score: 281
Period size: 49 Copynumber: 5.0 Consensus size: 49
7384130 GCAACCCTTC
* *
7384140 TAAGCCCAATATAGCTGGCCTTGAATCACCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* *
7384189 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
*
7384238 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CCTTT--ATCTT
* * * *
7384290 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC---TT-T-ATCTT
* * * * *
7384345 TAAGCCCAATATCGTTGGCCGTGAATC-GACATATTGGCATCTTTATC
1 TAAGTCCAATATAGCTGGCCTTGAATCAG-CATATTGGCACCTTTATC
7384392 ACTTTTCTCA
Statistics
Matches: 174, Mismatches: 21, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
49 87 0.50
50 4 0.02
51 2 0.01
52 41 0.24
54 2 0.01
55 37 0.21
56 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
Found at i:7384371 original size:107 final size:99
Alignment explanation
Indices: 7384135--7384388 Score: 305
Period size: 107 Copynumber: 2.5 Consensus size: 99
7384125 CGGTGGCAAC
* *
7384135 CCTTCTAAGCCCAATATAGCTGGCCTTGAATCACCATATTGGCA-CCTTTATCTTTAAGTCCAAT
1 CCTT-TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTATCTTTAAGTCCAAT
* *
7384199 ATAGCTGGCCTTGAATCAGCATATTGGCACCTTCA
65 ATAGCTGGCCTTGAATCAGCACATTGACACCTTCA
* *
7384234 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTCCATCTTTAAGTTCAA
1 CCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTT--ATCTTTAAGTCCAA
*
7384299 TGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCA
64 TATAGCTGGCCTTGAATCAGCACATTGACA-CC----T-TCA
* * * *
7384341 TCTTTAAGCCCAATATCGTTGGCCGTGAATC-GACATATTGGCATCTTT
1 CCTTTAAGCCCAATATAGCTGGCCTTGAATCAG-CATATTGGCATCTTT
7384389 ATCACTTTTC
Statistics
Matches: 133, Mismatches: 12, Indels: 12
0.85 0.08 0.08
Matches are distributed among these distances:
98 37 0.28
99 8 0.06
101 40 0.30
102 2 0.02
106 2 0.02
107 44 0.33
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (99 bp):
CCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTATCTTTAAGTCCAATA
TAGCTGGCCTTGAATCAGCACATTGACACCTTCA
Found at i:7385174 original size:33 final size:33
Alignment explanation
Indices: 7385137--7385203 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
7385127 TTCAACGATT
7385137 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
7385170 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
7385203 T
1 T
7385204 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:7385175 original size:13 final size:13
Alignment explanation
Indices: 7385157--7385181 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7385147 CATAAAATGT
7385157 TGTATCGATACAA
1 TGTATCGATACAA
7385170 TGTATCGATACA
1 TGTATCGATACA
7385182 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:7385262 original size:13 final size:13
Alignment explanation
Indices: 7385244--7385268 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7385234 ATTACTCAAA
7385244 TGTATCGATACAT
1 TGTATCGATACAT
7385257 TGTATCGATACA
1 TGTATCGATACA
7385269 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:7385370 original size:52 final size:52
Alignment explanation
Indices: 7385277--7385400 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
7385267 CACTGATCTT
*
7385277 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
7385328 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
7385380 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
7385401 CTTTTCATAT
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 19 0.28
52 50 0.72
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:7389493 original size:29 final size:30
Alignment explanation
Indices: 7389456--7389528 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 30
7389446 CTCTTAAAAT
* *
7389456 TTTATAAAAAATACACTTATCCCCTTAATG
1 TTTATAAAAAATACACTTATCACCTTAAGG
* *
7389486 TTTA-AAAAATTCCACTTATCACCTTAAGG
1 TTTATAAAAAATACACTTATCACCTTAAGG
*
7389515 TTTGATCAAAAATA
1 TTT-ATAAAAAATA
7389529 TATTTACCCC
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
29 24 0.71
30 5 0.15
31 5 0.15
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (30 bp):
TTTATAAAAAATACACTTATCACCTTAAGG
Found at i:7389702 original size:16 final size:16
Alignment explanation
Indices: 7389681--7389712 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7389671 AACTATCTTT
7389681 AATTATTATTAAATTA
1 AATTATTATTAAATTA
*
7389697 AATTATTATTACATTA
1 AATTATTATTAAATTA
7389713 TATTTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
AATTATTATTAAATTA
Found at i:7390094 original size:29 final size:28
Alignment explanation
Indices: 7390058--7390112 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 28
7390048 TTTAAATAAA
7390058 AATAATATA-ATAGATT-AATATTAAAGTT
1 AATAATATATATA-ATTAAAT-TTAAAGTT
7390086 AATATATATATATAATTAAATTTAAAG
1 AATA-ATATATATAATTAAATTTAAAG
7390113 ATCAGTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
28 4 0.17
29 14 0.58
30 6 0.25
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (28 bp):
AATAATATATATAATTAAATTTAAAGTT
Found at i:7390629 original size:16 final size:18
Alignment explanation
Indices: 7390589--7390632 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
7390579 TTATGTATTC
7390589 TTATTATATTTTTACTTT
1 TTATTATATTTTTACTTT
7390607 TTATTAT-TTTTTA-TTAT
1 TTATTATATTTTTACTT-T
7390624 TT-TTATATT
1 TTATTATATT
7390633 GCATTCGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 6 0.25
17 11 0.46
18 7 0.29
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (18 bp):
TTATTATATTTTTACTTT
Found at i:7391193 original size:19 final size:20
Alignment explanation
Indices: 7391177--7391215 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
7391167 CAGATTTTGA
7391177 CATATTTATA-TATTTTTAT
1 CATATTTATATTATTTTTAT
*
7391196 CGTATTTATATTATTTTTAT
1 CATATTTATATTATTTTTAT
7391216 ATAAGGTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (20 bp):
CATATTTATATTATTTTTAT
Found at i:7392477 original size:15 final size:15
Alignment explanation
Indices: 7392457--7392502 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
7392447 AATAAAATTA
7392457 TTATATATTCTTGAT
1 TTATATATTCTTGAT
***
7392472 TTATATAAAATT-A-
1 TTATATATTCTTGAT
7392485 TTATATATTCTTGAT
1 TTATATATTCTTGAT
7392500 TTA
1 TTA
7392503 ATTTCTCTAA
Statistics
Matches: 23, Mismatches: 6, Indels: 4
0.70 0.18 0.12
Matches are distributed among these distances:
13 9 0.39
14 2 0.09
15 12 0.52
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (15 bp):
TTATATATTCTTGAT
Found at i:7392479 original size:28 final size:28
Alignment explanation
Indices: 7392443--7392503 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
7392433 TCTAATTATG
7392443 TTTAAATAAAATTATTATATATTCTTGA
1 TTTAAATAAAATTATTATATATTCTTGA
*
7392471 TTTATATAAAATTATTATATATTCTTGA
1 TTTAAATAAAATTATTATATATTCTTGA
7392499 TTTAA
1 TTTAA
7392504 TTTCTCTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.52
Consensus pattern (28 bp):
TTTAAATAAAATTATTATATATTCTTGA
Found at i:7394193 original size:3 final size:3
Alignment explanation
Indices: 7394187--7394247 Score: 104
Period size: 3 Copynumber: 20.3 Consensus size: 3
7394177 AAAAATGATG
* *
7394187 ATA ATA ATA ATA ATA ATA ATA ATA ATG ATA ATA ATA ATA ATA ATA ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
7394235 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
7394248 AGGTCTAATT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:7394782 original size:2 final size:2
Alignment explanation
Indices: 7394775--7394843 Score: 117
Period size: 2 Copynumber: 36.0 Consensus size: 2
7394765 CCGATAACTC
7394775 AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7394815 AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7394844 GTAATGTGTG
Statistics
Matches: 64, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
1 3 0.05
2 61 0.95
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7394843 original size:17 final size:17
Alignment explanation
Indices: 7394775--7394842 Score: 104
Period size: 17 Copynumber: 4.0 Consensus size: 17
7394765 CCGATAACTC
7394775 ATATATATATATATATA
1 ATATATATATATATATA
7394792 ATATATATATATATAT-
1 ATATATATATATATATA
7394808 ATA-ATATATATATATA
1 ATATATATATATATATA
7394824 TATATAATATATATATATA
1 -ATAT-ATATATATATATA
7394843 TGTAATGTGT
Statistics
Matches: 47, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
15 12 0.26
16 3 0.06
17 19 0.40
19 13 0.28
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATATATATATATATA
Found at i:7394848 original size:17 final size:19
Alignment explanation
Indices: 7394775--7394843 Score: 138
Period size: 19 Copynumber: 3.6 Consensus size: 19
7394765 CCGATAACTC
7394775 ATATATATATATATATAAT
1 ATATATATATATATATAAT
7394794 ATATATATATATATATAAT
1 ATATATATATATATATAAT
7394813 ATATATATATATATATAAT
1 ATATATATATATATATAAT
7394832 ATATATATATAT
1 ATATATATATAT
7394844 GTAATGTGTG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
ATATATATATATATATAAT
Found at i:7396676 original size:25 final size:26
Alignment explanation
Indices: 7396632--7396689 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
7396622 TGTATAACTT
*
7396632 ATTTTATAATTATATAATATATA-TTA
1 ATTTTATAATTATATAATAT-TAGGTA
7396658 ATTTTAT-ATTAT-TATATATTAGGTA
1 ATTTTATAATTATATA-ATATTAGGTA
7396683 ATTTTAT
1 ATTTTAT
7396690 TATATAAAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 4 0.14
25 18 0.62
26 7 0.24
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (26 bp):
ATTTTATAATTATATAATATTAGGTA
Found at i:7398897 original size:20 final size:19
Alignment explanation
Indices: 7398874--7398912 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
7398864 ATAAATTTAA
7398874 TTAATAATAAATAAAAAAAT
1 TTAAT-ATAAATAAAAAAAT
* *
7398894 TTAATTTAAATATAAAAAT
1 TTAATATAAATAAAAAAAT
7398913 ACAAATAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TTAATATAAATAAAAAAAT
Found at i:7405495 original size:34 final size:34
Alignment explanation
Indices: 7405438--7405656 Score: 271
Period size: 34 Copynumber: 6.5 Consensus size: 34
7405428 AAGTGGGAGA
*
7405438 ATTGTTGATTAAAT-GGTGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* * *
7405471 ATTGTTGATTAAATGGGTGATTTGGTGGTTTGCC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* * *
7405505 ATTGTTGACTAAATGGGAGATTTGGTAGCTTACT
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* **
7405539 ATTGTTGATTAAATGAGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* *
7405573 ATTATTGATTAAATGGGTGATTTGGTGGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* * **
7405607 ATTGTTGACTAAAT-GGTAGATTTGGTAGGTTGTC
1 ATTGTTGATTAAATGGGT-GATTTGGTAGCTTACC
7405641 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
7405657 TGGTTTTTAC
Statistics
Matches: 159, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
33 17 0.11
34 141 0.89
35 1 0.01
ACGTcount: A:0.25, C:0.07, G:0.26, T:0.42
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
Found at i:7405581 original size:102 final size:101
Alignment explanation
Indices: 7405438--7405656 Score: 332
Period size: 102 Copynumber: 2.2 Consensus size: 101
7405428 AAGTGGGAGA
** * * * *
7405438 ATTGTTGATTAAATGGTGATTTGGTAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTG
1 ATTGTTGATTAAATGGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTA
7405503 CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACT-
66 CCATTGTTGACTAAATGGGAGATTTGGTAGCTT-CTC
7405539 ATTGTTGATTAAATGAGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTT
1 ATTGTTGATTAAATG-GAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTT
* * *
7405604 ACCATTGTTGACTAAATGGTAGATTTGGTAGGTTGTC
65 ACCATTGTTGACTAAATGGGAGATTTGGTAGCTTCTC
7405641 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
7405657 TGGTTTTTAC
Statistics
Matches: 107, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
101 17 0.16
102 90 0.84
ACGTcount: A:0.25, C:0.07, G:0.26, T:0.42
Consensus pattern (101 bp):
ATTGTTGATTAAATGGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTA
CCATTGTTGACTAAATGGGAGATTTGGTAGCTTCTC
Found at i:7408351 original size:22 final size:22
Alignment explanation
Indices: 7408326--7408368 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
7408316 CACAAACTCA
*
7408326 ATTTACTTATATTATTTAATTC
1 ATTTACTTATATTATTAAATTC
* *
7408348 ATTTATTTATTTTATTAAATT
1 ATTTACTTATATTATTAAATT
7408369 GATTAGTCCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (22 bp):
ATTTACTTATATTATTAAATTC
Found at i:7410571 original size:17 final size:18
Alignment explanation
Indices: 7410542--7410582 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
7410532 ATAACATTAA
7410542 AATATTATCTTTAT-ATT
1 AATATTATCTTTATAATT
7410559 AATATATAT-TTTATAATT
1 AATAT-TATCTTTATAATT
7410577 AA-ATTA
1 AATATTA
7410583 AAATAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 2 0.09
17 12 0.55
18 8 0.36
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
AATATTATCTTTATAATT
Found at i:7410635 original size:14 final size:15
Alignment explanation
Indices: 7410607--7410636 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7410597 TTATTAAAAT
7410607 AATAATTTAAATTAA
1 AATAATTTAAATTAA
7410622 AATAATTT-AATTAA
1 AATAATTTAAATTAA
7410636 A
1 A
7410637 TTTATAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AATAATTTAAATTAA
Found at i:7410980 original size:19 final size:19
Alignment explanation
Indices: 7410956--7410995 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
7410946 GACGGCTCAG
7410956 ATTCAATCTGATTTAAATT
1 ATTCAATCTGATTTAAATT
7410975 ATTCAATCTGATTTAAATT
1 ATTCAATCTGATTTAAATT
7410994 AT
1 AT
7410996 CACTTAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.47
Consensus pattern (19 bp):
ATTCAATCTGATTTAAATT
Found at i:7411043 original size:15 final size:16
Alignment explanation
Indices: 7410999--7411044 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
7410989 AAATTATCAC
7410999 TTAATTATAAAAATAT
1 TTAATTATAAAAATAT
* **
7411015 TTATTTATTTAAAT-T
1 TTAATTATAAAAATAT
7411030 TTAATTATAAAAATA
1 TTAATTATAAAAATA
7411045 AATAAATATT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTAATTATAAAAATAT
Found at i:7411046 original size:19 final size:19
Alignment explanation
Indices: 7411024--7411076 Score: 54
Period size: 22 Copynumber: 2.6 Consensus size: 19
7411014 TTTATTTATT
7411024 TAAATTTTAATTATAAAAA
1 TAAATTTTAATTATAAAAA
7411043 TAAATAAATATTAA-TATAAAAA
1 TAAAT---T-TTAATTATAAAAA
7411065 TAATATTTTAAT
1 TAA-ATTTTAAT
7411077 AATATAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 11
0.72 0.00 0.28
Matches are distributed among these distances:
19 9 0.32
20 1 0.04
22 12 0.43
23 6 0.21
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TAAATTTTAATTATAAAAA
Found at i:7411063 original size:22 final size:23
Alignment explanation
Indices: 7411024--7411067 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
7411014 TTTATTTATT
*
7411024 TAAATTTTAATTATAAAAATAAA
1 TAAATATTAATTATAAAAATAAA
7411047 TAAATATTAA-TATAAAAATAA
1 TAAATATTAATTATAAAAATAA
7411068 TATTTTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (23 bp):
TAAATATTAATTATAAAAATAAA
Found at i:7412093 original size:5 final size:5
Alignment explanation
Indices: 7412083--7412123 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
7412073 AATTATGTAT
*
7412083 TTATA TTATA TT-TA -TATA TTTTA TTATA TTATAA TTATA TT
1 TTATA TTATA TTATA TTATA TTATA TTATA TTAT-A TTATA TT
7412124 TAAAATATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
3 1 0.03
4 4 0.13
5 21 0.68
6 5 0.16
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTATA
Found at i:7412096 original size:11 final size:11
Alignment explanation
Indices: 7412080--7412144 Score: 52
Period size: 11 Copynumber: 6.3 Consensus size: 11
7412070 ATAAATTATG
7412080 TATTTATATTA
1 TATTTATATTA
7412091 TA-TT-TA-TA
1 TATTTATATTA
7412099 TATTT-TATTA
1 TATTTATATTA
7412109 TA-TTATAATTA
1 TATTTAT-ATTA
* *
7412120 TATTTAAAATA
1 TATTTATATTA
7412131 T-TTTATATTTA
1 TATTTATA-TTA
7412142 TAT
1 TAT
7412145 AAATTTTAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 13
0.72 0.07 0.22
Matches are distributed among these distances:
8 4 0.09
9 8 0.19
10 12 0.28
11 15 0.35
12 4 0.09
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TATTTATATTA
Found at i:7412109 original size:18 final size:19
Alignment explanation
Indices: 7412075--7412144 Score: 67
Period size: 19 Copynumber: 3.7 Consensus size: 19
7412065 GCTTAATAAA
*
7412075 TTATGTATTTATATTATAT
1 TTATATATTTATATTATAT
7412094 TTATATATTT-TATTATAT
1 TTATATATTTATATTATAT
*
7412112 TATAATTATATTTA-A-AATAT
1 T-T-A-TATATTTATATTATAT
7412132 TT-TATATTTATAT
1 TTATATATTTATAT
7412145 AAATTTTAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
16 8 0.19
17 1 0.02
18 9 0.21
19 11 0.26
20 6 0.14
21 8 0.19
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (19 bp):
TTATATATTTATATTATAT
Found at i:7412120 original size:29 final size:29
Alignment explanation
Indices: 7412075--7412143 Score: 90
Period size: 28 Copynumber: 2.4 Consensus size: 29
7412065 GCTTAATAAA
*
7412075 TTATGTATTTAT-ATTATATTT-ATATATT
1 TTAT-TATTTATAATTATATTTAAAATATT
7412103 TTATTATATTATAATTATATTTAAAATATT
1 TTATTAT-TTATAATTATATTTAAAATATT
7412133 TTA-TATTTATA
1 TTATTATTTATA
7412144 TAAATTTTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
27 3 0.08
28 13 0.35
29 12 0.32
30 9 0.24
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (29 bp):
TTATTATTTATAATTATATTTAAAATATT
Found at i:7415743 original size:18 final size:21
Alignment explanation
Indices: 7415720--7415766 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
7415710 TATTTCGAAT
7415720 TAAATAT-TAA-T-AAATAAA
1 TAAATATATAATTAAAATAAA
7415738 TAAATAATATAATTAAAATAAA
1 TAAAT-ATATAATTAAAATAAA
7415760 -AAATATA
1 TAAATATA
7415767 ATTACATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 5 0.20
19 2 0.08
20 6 0.24
21 5 0.20
22 7 0.28
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
TAAATATATAATTAAAATAAA
Found at i:7415767 original size:18 final size:18
Alignment explanation
Indices: 7415735--7415770 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
7415725 ATTAATAAAT
*
7415735 AAATAAATAATATAATTA
1 AAATAAAAAATATAATTA
7415753 AAATAAAAAATATAATTA
1 AAATAAAAAATATAATTA
7415771 CATTTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AAATAAAAAATATAATTA
Found at i:7417510 original size:12 final size:12
Alignment explanation
Indices: 7417493--7417564 Score: 56
Period size: 12 Copynumber: 5.8 Consensus size: 12
7417483 AGCAGTCTTT
7417493 TTTCTTCTTTTC
1 TTTCTTCTTTTC
* *
7417505 TTTCTTCCTCTC
1 TTTCTTCTTTTC
* *
7417517 TTTCTCCTTCTC
1 TTTCTTCTTTTC
7417529 TTTC-TCTTCCTTC
1 TTTCTTCTT--TTC
7417542 TTTCTCTCTTTCTC
1 TTTCT-TCTTT-TC
*
7417556 TTCCTTCTT
1 TTTCTTCTT
7417565 CCGCTCCTTC
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
11 3 0.06
12 24 0.50
13 11 0.23
14 6 0.12
15 4 0.08
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (12 bp):
TTTCTTCTTTTC
Found at i:7417606 original size:33 final size:34
Alignment explanation
Indices: 7417506--7417629 Score: 95
Period size: 33 Copynumber: 3.9 Consensus size: 34
7417496 CTTCTTTTCT
* *
7417506 TTCTTCCTCTCTTTCTCCTT-C-TCTTTCTCTTCC
1 TTCTTCCTCCCTTTCT-CTTCCTTCTTCCTCTTCC
* * *
7417539 TTCTTTCTCTCTTTCTCTTCCTTCTTCCGC-TCC
1 TTCTTCCTCCCTTTCTCTTCCTTCTTCCTCTTCC
*
7417572 TTC-TCCTCCCTTTTTCGTTCCTTC-TCCTCTTCC
1 TTCTTCCTCCCTTTCTC-TTCCTTCTTCCTCTTCC
* *
7417605 TT-TT--TCTCTTTCTCGTCC-TCTTCCT
1 TTCTTCCTCCCTTTCTCTTCCTTCTTCCT
7417630 TATCTTCCTC
Statistics
Matches: 75, Mismatches: 10, Indels: 15
0.75 0.10 0.15
Matches are distributed among these distances:
29 2 0.03
30 7 0.09
31 8 0.11
32 17 0.23
33 35 0.47
34 6 0.08
ACGTcount: A:0.00, C:0.42, G:0.02, T:0.56
Consensus pattern (34 bp):
TTCTTCCTCCCTTTCTCTTCCTTCTTCCTCTTCC
Found at i:7417617 original size:21 final size:22
Alignment explanation
Indices: 7417507--7417618 Score: 83
Period size: 21 Copynumber: 5.0 Consensus size: 22
7417497 TTCTTTTCTT
7417507 TCTTCCTCTCTTTCTCCTTCTCTTTC
1 TCTTCCT-TCTTTCTCCTTCTC---C
7417533 TCTTCCTTCTTTCTCTCTT-T-C
1 TCTTCCTTCTTTCTC-CTTCTCC
*
7417554 TCTTCCTTCTTCCGCTCCTTCTCC
1 TCTTCCTTCTT--TCTCCTTCTCC
7417578 TC--CCTT-TTTCGTTCCTTCTCC
1 TCTTCCTTCTTTC--TCCTTCTCC
*
7417599 TCTTCCTT-TTTCTCTTTCTC
1 TCTTCCTTCTTTCTCCTTCTC
7417619 GTCCTCTTCC
Statistics
Matches: 74, Mismatches: 3, Indels: 23
0.74 0.03 0.23
Matches are distributed among these distances:
19 1 0.01
21 32 0.43
22 7 0.09
23 12 0.16
24 3 0.04
25 9 0.12
26 10 0.14
ACGTcount: A:0.00, C:0.42, G:0.02, T:0.56
Consensus pattern (22 bp):
TCTTCCTTCTTTCTCCTTCTCC
Found at i:7418474 original size:21 final size:21
Alignment explanation
Indices: 7418427--7418466 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7418417 AACTATGTAA
*
7418427 TATATATTAAGTTTATATTTT
1 TATATATTAAGTTAATATTTT
7418448 TATATATTAAG-TAAT-TTTT
1 TATATATTAAGTTAATATTTT
7418467 ATCATATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 3 0.17
21 11 0.61
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (21 bp):
TATATATTAAGTTAATATTTT
Found at i:7418569 original size:35 final size:35
Alignment explanation
Indices: 7418502--7418570 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
7418492 TACAATGTAA
* **
7418502 ATAAAAAAAATACTAAGTTAATTAAATTTTAAAAC
1 ATAAAAAAAATACTAAATTAATTAAAAATTAAAAC
*
7418537 ATAATAAAAAATATTAAATT-ATTAAAAATTAAAA
1 ATAA-AAAAAATACTAAATTAATTAAAAATTAAAA
7418571 TTTAAAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 16 0.55
36 13 0.45
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (35 bp):
ATAAAAAAAATACTAAATTAATTAAAAATTAAAAC
Done.