Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 236 of 318
Found at i:75058006 original size:47 final size:47
Alignment explanation
Indices: 75057601--75057995 Score: 628
Period size: 47 Copynumber: 8.3 Consensus size: 47
75057591 CCCTTCGGGA
* * * * * *
75057601 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
75057648 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
75057695 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
75057742 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
75057789 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
75057838 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
75057885 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
75057934 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
75057981 CTTATCACATATATA
1 CTTATCACATATATA
75057996 TACACTCACA
Statistics
Matches: 322, Mismatches: 22, Indels: 8
0.91 0.06 0.02
Matches are distributed among these distances:
47 232 0.72
49 90 0.28
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:75061486 original size:57 final size:58
Alignment explanation
Indices: 75061414--75061522 Score: 166
Period size: 57 Copynumber: 1.9 Consensus size: 58
75061404 GCCCACTGAT
* *
75061414 CGATCTCGCACACATAGTGCTTGGTT-GAAGAACTCGCACACACAGTGCCTCAATTAC
1 CGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTCAATTAC
* * *
75061471 CGATTTCGCACACATAGTGCTCGGTTAAAAGAATTTGCACACACAGTGCCTC
1 CGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTC
75061523 TAATCATTCG
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
57 24 0.52
58 22 0.48
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.24
Consensus pattern (58 bp):
CGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTCAATTAC
Found at i:75061766 original size:40 final size:40
Alignment explanation
Indices: 75061721--75062081 Score: 519
Period size: 40 Copynumber: 9.1 Consensus size: 40
75061711 CGAATACACG
* * * *
75061721 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * * * *
75061761 ACACCAGCACGAATGCTCTTCGAGG-TTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCG-GGACTTAGCCCGGATACA
* * * *
75061801 TTACTAGCACGAATGCTCTTCGGAACTTAGCCCGAATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
75061841 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
75061881 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
75061921 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGGTACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
75061961 TCACTAGCACGAATGCTCTTTGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
75062001 TCACTAGCATGAATGCTCTTCGAGACTTAGCCCGGGTACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
75062041 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT-CA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
75062080 TC
1 TC
75062082 GTCGAGACCT
Statistics
Matches: 291, Mismatches: 28, Indels: 5
0.90 0.09 0.02
Matches are distributed among these distances:
39 5 0.02
40 284 0.98
41 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:75064546 original size:96 final size:96
Alignment explanation
Indices: 75064308--75064708 Score: 693
Period size: 96 Copynumber: 4.2 Consensus size: 96
75064298 CCCTTCGGGA
* * * * *
75064308 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
75064371 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
75064402 CTCATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
75064465 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
75064496 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
75064561 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
75064592 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
75064657 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
75064688 CTTATCACATATATATACACT
1 CTTATCACATATATATACACT
75064709 CACATCACAA
Statistics
Matches: 290, Mismatches: 13, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
93 1 0.00
94 89 0.31
96 200 0.69
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:75064564 original size:143 final size:141
Alignment explanation
Indices: 75064308--75064702 Score: 646
Period size: 143 Copynumber: 2.8 Consensus size: 141
75064298 CCCTTCGGGA
* * * * * *
75064308 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
*
75064373 TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
75064438 GGCTATTAGGC
131 GGCCATTAGGC
* *
75064449 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATATAC
* *
75064514 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
75064579 TCGGCCATTAGGC
129 TCGGCCATTAGGC
75064592 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
75064657 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
75064703 TACACTCACA
Statistics
Matches: 234, Mismatches: 16, Indels: 6
0.91 0.06 0.02
Matches are distributed among these distances:
141 47 0.20
143 142 0.61
145 45 0.19
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:75064713 original size:47 final size:47
Alignment explanation
Indices: 75064308--75064702 Score: 628
Period size: 47 Copynumber: 8.3 Consensus size: 47
75064298 CCCTTCGGGA
* * * * * *
75064308 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
75064355 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
75064402 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
75064449 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
75064496 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
75064545 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
75064592 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
75064641 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
75064688 CTTATCACATATATA
1 CTTATCACATATATA
75064703 TACACTCACA
Statistics
Matches: 322, Mismatches: 22, Indels: 8
0.91 0.06 0.02
Matches are distributed among these distances:
47 232 0.72
49 90 0.28
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:75077807 original size:18 final size:18
Alignment explanation
Indices: 75077770--75077808 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
75077760 AATACTTAAA
**
75077770 AAAAATACTTTTAACTCT
1 AAAAATACTTTTAAAGCT
*
75077788 AAAAGTACTTTTAAAGCT
1 AAAAATACTTTTAAAGCT
75077806 AAA
1 AAA
75077809 TAAATTGTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.13, G:0.05, T:0.33
Consensus pattern (18 bp):
AAAAATACTTTTAAAGCT
Found at i:75078919 original size:5 final size:5
Alignment explanation
Indices: 75078909--75078936 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
75078899 AGGTGTGTAT
75078909 GGGTC GGGTC GGGTC GGGTC GGGTC GGG
1 GGGTC GGGTC GGGTC GGGTC GGGTC GGG
75078937 CCCATAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.18, G:0.64, T:0.18
Consensus pattern (5 bp):
GGGTC
Found at i:75079145 original size:25 final size:25
Alignment explanation
Indices: 75079092--75079150 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
75079082 CTTTTTTTAT
* * *
75079092 TAAATAAA-AAATTTTAAAATATAA
1 TAAATAAATACATTTAAAAACATAA
75079116 TAAATCAAATACATTTAAAAACATAA
1 TAAAT-AAATACATTTAAAAACATAA
75079142 -AAATAAATA
1 TAAATAAATA
75079151 TTAAAACAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 10 0.33
25 7 0.23
26 13 0.43
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAATACATTTAAAAACATAA
Found at i:75080929 original size:52 final size:52
Alignment explanation
Indices: 75080867--75080968 Score: 168
Period size: 52 Copynumber: 2.0 Consensus size: 52
75080857 TACTTGTCCG
* *
75080867 CTTTTTAACAGGTAATTTTGGCAATTCCATAGATATTGTTGAATATCCTTCA
1 CTTTTTAACAGGTAATTTTGGCAATTCCATAGATACTGTTGAATACCCTTCA
* *
75080919 CTTTTTAACAGGTAATTTTGGTAATTCCCTAGATACTGTTGAATACCCTT
1 CTTTTTAACAGGTAATTTTGGCAATTCCATAGATACTGTTGAATACCCTT
75080969 TTGTTCTTTG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (52 bp):
CTTTTTAACAGGTAATTTTGGCAATTCCATAGATACTGTTGAATACCCTTCA
Found at i:75081697 original size:21 final size:20
Alignment explanation
Indices: 75081673--75081711 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
75081663 GAAACTGAGT
*
75081673 CATTAGAGTTGAAATTGAAAC
1 CATTAGA-TTGAAAATGAAAC
*
75081694 CATTATATTGAAAATGAA
1 CATTAGATTGAAAATGAA
75081712 TCTACAATCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (20 bp):
CATTAGATTGAAAATGAAAC
Found at i:75082844 original size:24 final size:23
Alignment explanation
Indices: 75082785--75082833 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
75082775 GTGAAGGGGA
75082785 ATTAAAATAAAAAACTTCAAAAT
1 ATTAAAATAAAAAACTTCAAAAT
75082808 ATTAAAATAAAAAACTTCAAAAT
1 ATTAAAATAAAAAACTTCAAAAT
75082831 ATT
1 ATT
75082834 TCTTAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (23 bp):
ATTAAAATAAAAAACTTCAAAAT
Found at i:75085450 original size:22 final size:22
Alignment explanation
Indices: 75085422--75085466 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
75085412 GAACTCATAA
75085422 TACGTTTAGAGAATTTTGTGTT
1 TACGTTTAGAGAATTTTGTGTT
* * *
75085444 TACGTTTTGAGGATTTTTTGTT
1 TACGTTTAGAGAATTTTGTGTT
75085466 T
1 T
75085467 TTGGGTTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.18, C:0.04, G:0.22, T:0.56
Consensus pattern (22 bp):
TACGTTTAGAGAATTTTGTGTT
Found at i:75088055 original size:16 final size:16
Alignment explanation
Indices: 75088034--75088076 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
75088024 TTGTTGGATT
** *
75088034 TTGAATTTATTATGTC
1 TTGAATTTATTACATA
*
75088050 TTGAATTTGTTACATA
1 TTGAATTTATTACATA
75088066 TTGAATTTATT
1 TTGAATTTATT
75088077 GTGTTTTAAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.28, C:0.05, G:0.12, T:0.56
Consensus pattern (16 bp):
TTGAATTTATTACATA
Found at i:75088060 original size:32 final size:32
Alignment explanation
Indices: 75088023--75088102 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 32
75088013 GAAAATTTAC
*
75088023 TTTGTTGGATTTTGAATTTATTATGTCTTGAA-
1 TTTGTTGGATATTGAATTTATTATGT-TTGAAG
** * *
75088055 TTTGTTACATATTGAATTTATTGTGTTTTAAG
1 TTTGTTGGATATTGAATTTATTATGTTTGAAG
*
75088087 CTTGTTGGATATTGAA
1 TTTGTTGGATATTGAA
75088103 ATGATTGACA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 4 0.10
32 35 0.90
ACGTcount: A:0.24, C:0.04, G:0.19, T:0.54
Consensus pattern (32 bp):
TTTGTTGGATATTGAATTTATTATGTTTGAAG
Found at i:75089450 original size:19 final size:20
Alignment explanation
Indices: 75089426--75089467 Score: 77
Period size: 19 Copynumber: 2.1 Consensus size: 20
75089416 CAAACACCAA
75089426 AAAAGTAAATCATTTTC-AG
1 AAAAGTAAATCATTTTCTAG
75089445 AAAAGTAAATCATTTTCTAG
1 AAAAGTAAATCATTTTCTAG
75089465 AAA
1 AAA
75089468 TCATTTTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.31
Consensus pattern (20 bp):
AAAAGTAAATCATTTTCTAG
Found at i:75089470 original size:14 final size:14
Alignment explanation
Indices: 75089451--75089477 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
75089441 TCAGAAAAGT
75089451 AAATCATTTTCTAG
1 AAATCATTTTCTAG
75089465 AAATCATTTTCTA
1 AAATCATTTTCTA
75089478 ATCATTTTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.04, T:0.44
Consensus pattern (14 bp):
AAATCATTTTCTAG
Found at i:75089497 original size:25 final size:25
Alignment explanation
Indices: 75089452--75089499 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
75089442 CAGAAAAGTA
* *
75089452 AATCATTTTCTAGAAATCATTTTCT
1 AATCATTTTCGAGAAAACATTTTCT
75089477 AATCATTTTCCGA-AAAACATTTT
1 AATCATTTT-CGAGAAAACATTTT
75089500 ACTTGCAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.35, C:0.17, G:0.04, T:0.44
Consensus pattern (25 bp):
AATCATTTTCGAGAAAACATTTTCT
Found at i:75092008 original size:21 final size:21
Alignment explanation
Indices: 75091974--75092040 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
75091964 AAATGTTGTC
75091974 TTTTTTACTA-TTTCTTGCTA
1 TTTTTTACTATTTTCTTGCTA
* *
75091994 TTTTTTATTATTTTCTTGTTA
1 TTTTTTACTATTTTCTTGCTA
* *
75092015 TTTTTTCACTATTTTGTTACTA
1 TTTTTT-ACTATTTTCTTGCTA
75092037 TTTT
1 TTTT
75092041 ACAATTATGT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 9 0.23
21 15 0.38
22 15 0.38
ACGTcount: A:0.15, C:0.10, G:0.04, T:0.70
Consensus pattern (21 bp):
TTTTTTACTATTTTCTTGCTA
Found at i:75093396 original size:14 final size:11
Alignment explanation
Indices: 75093363--75093388 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
75093353 CCGAATTAAC
75093363 TTTTTATATTA
1 TTTTTATATTA
75093374 TTTTTATATTA
1 TTTTTATATTA
75093385 TTTT
1 TTTT
75093389 AAATATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTATATTA
Found at i:75093556 original size:31 final size:29
Alignment explanation
Indices: 75093511--75093573 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 29
75093501 ACTTAACAAG
75093511 CAAATGCTTCTAAAATAATAATAAAAATTAA
1 CAAATGCTTCTAAAATAAT-A-AAAAATTAA
75093542 CAAATGCCTT-TAAAATAATAAAAAATTAA
1 CAAATG-CTTCTAAAATAATAAAAAATTAA
75093571 CAA
1 CAA
75093574 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
29 12 0.39
30 1 0.03
31 15 0.48
32 3 0.10
ACGTcount: A:0.59, C:0.11, G:0.03, T:0.27
Consensus pattern (29 bp):
CAAATGCTTCTAAAATAATAAAAAATTAA
Found at i:75094091 original size:17 final size:17
Alignment explanation
Indices: 75094069--75094118 Score: 66
Period size: 18 Copynumber: 2.9 Consensus size: 17
75094059 TTTTTTAAAT
*
75094069 AATCTTTTTTAACTTTC
1 AATCTTTTTTAAATTTC
*
75094086 AATCTTTCTTTAAATTTT
1 AATCTTT-TTTAAATTTC
75094104 AAT-TTTTTTAAATTT
1 AATCTTTTTTAAATTT
75094119 TTTCCATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
16 9 0.30
17 10 0.33
18 11 0.37
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (17 bp):
AATCTTTTTTAAATTTC
Found at i:75094196 original size:20 final size:19
Alignment explanation
Indices: 75094180--75094287 Score: 55
Period size: 20 Copynumber: 5.6 Consensus size: 19
75094170 CGTTAAATCT
*
75094180 ATTTATTAATTAATAAATAG
1 ATTTATAAATT-ATAAATAG
75094200 ATTTATAAATTATAAAATTA-
1 ATTTATAAATTAT-AAA-TAG
* * *
75094220 ATTAATAAATATATTCAATAT
1 ATTTATAAAT-TA-TAAATAG
* *
75094241 ATATTA-AAATTTTAAAT-T
1 AT-TTATAAATTATAAATAG
*
75094259 ATTT-TAAATATGTAAATA-
1 ATTTATAAAT-TATAAATAG
75094277 ATTTATAAATT
1 ATTTATAAATT
75094288 TTTTTTTAAC
Statistics
Matches: 71, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
17 6 0.08
18 14 0.20
19 11 0.15
20 25 0.35
21 12 0.17
22 3 0.04
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (19 bp):
ATTTATAAATTATAAATAG
Found at i:75095750 original size:24 final size:23
Alignment explanation
Indices: 75095718--75095771 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
75095708 ATCGAAAAGT
* *
75095718 TCACAAAGAACCATATTAGGAAGC
1 TCACAAAGAACC-TATCAAGAAGC
* *
75095742 TCACGAAGAGCCTATCAAGAAGC
1 TCACAAAGAACCTATCAAGAAGC
75095765 TCACAAA
1 TCACAAA
75095772 AAGCCATGTA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 15 0.60
24 10 0.40
ACGTcount: A:0.44, C:0.24, G:0.17, T:0.15
Consensus pattern (23 bp):
TCACAAAGAACCTATCAAGAAGC
Found at i:75097732 original size:50 final size:51
Alignment explanation
Indices: 75097616--75097748 Score: 160
Period size: 50 Copynumber: 2.6 Consensus size: 51
75097606 AACCATCTAT
* * * * * * *
75097616 TACACATGGTGGCCTGCACTTAGTACCACATATGTGATCGAAGCTATCGGG
1 TACACATAGTAGCCTGCACTTAGTACTACACATGCGACCGAAGCCATCGGG
* * *
75097667 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAA-CCATCTGG
1 TACACATAGTAGCCTGCACTTAGTACTACACATGCGACCGAAGCCATCGGG
*
75097717 TACACGTAGTAGCCTGCACTTAGTACTACACA
1 TACACATAGTAGCCTGCACTTAGTACTACACA
75097749 CGTGGCCTAA
Statistics
Matches: 70, Mismatches: 12, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
50 36 0.51
51 34 0.49
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (51 bp):
TACACATAGTAGCCTGCACTTAGTACTACACATGCGACCGAAGCCATCGGG
Found at i:75106064 original size:21 final size:21
Alignment explanation
Indices: 75106040--75106081 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
75106030 TAATAATAAA
*
75106040 TTTTAATAGATATTTTTAATT
1 TTTTAATAGATAATTTTAATT
**
75106061 TTTTAATTTATAATTTTAATT
1 TTTTAATAGATAATTTTAATT
75106082 GAAAGTAAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTTAATAGATAATTTTAATT
Found at i:75112689 original size:9 final size:9
Alignment explanation
Indices: 75112675--75112708 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
75112665 TAAATAAACA
75112675 GATGGATGT
1 GATGGATGT
75112684 GATGGATGT
1 GATGGATGT
*
75112693 GATAGATGT
1 GATGGATGT
75112702 GATGGAT
1 GATGGAT
75112709 AGATGGATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.41, T:0.32
Consensus pattern (9 bp):
GATGGATGT
Found at i:75115239 original size:57 final size:57
Alignment explanation
Indices: 75115123--75115294 Score: 169
Period size: 51 Copynumber: 3.1 Consensus size: 57
75115113 ATTTTCAAGT
* * * * * *
75115123 CATTTTCATTTACATTTTGAAGCAAACCACATTCATTTCCAAATTATTTCA-TT-T-
1 CATTTTCATTTTCATTTTGAAGAAAACCATAATCATTTCCAAATGATTTTATTTCTC
*
75115177 C---TTCATTTTCATTTTGAAGAAAACCATAATCATTTCGAAATGATTTTATTTCTC
1 CATTTTCATTTTCATTTTGAAGAAAACCATAATCATTTCCAAATGATTTTATTTCTC
* * * **
75115231 CATTTTCATTTTTATCTTGGAGAAAACTGTAATCATTTCCAAATG-TTTCTCATTTCTC
1 CATTTTCATTTTCATTTTGAAGAAAACCATAATCATTTCCAAATGATTT-T-ATTTCTC
75115289 CATTTT
1 CATTTT
75115295 TCATCATTTC
Statistics
Matches: 97, Mismatches: 13, Indels: 12
0.80 0.11 0.10
Matches are distributed among these distances:
51 40 0.41
52 2 0.02
53 1 0.01
54 2 0.02
56 3 0.03
57 36 0.37
58 13 0.13
ACGTcount: A:0.29, C:0.19, G:0.06, T:0.46
Consensus pattern (57 bp):
CATTTTCATTTTCATTTTGAAGAAAACCATAATCATTTCCAAATGATTTTATTTCTC
Found at i:75116239 original size:13 final size:13
Alignment explanation
Indices: 75116221--75116246 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
75116211 CGAATTCATA
75116221 ATTATAATAATTT
1 ATTATAATAATTT
75116234 ATTATAATAATTT
1 ATTATAATAATTT
75116247 TGGTAAACTA
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTATAATAATTT
Found at i:75120950 original size:17 final size:16
Alignment explanation
Indices: 75120928--75120961 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
75120918 CAATATATTC
*
75120928 ATTAATTATAAACATTA
1 ATTAATTAAAAAC-TTA
75120945 ATTAATTAAAAACTTA
1 ATTAATTAAAAACTTA
75120961 A
1 A
75120962 AAAGGTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
ATTAATTAAAAACTTA
Found at i:75121831 original size:20 final size:21
Alignment explanation
Indices: 75121791--75121832 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
75121781 ATATTCAAAT
*
75121791 ATTATTCAAATATAAATATAA
1 ATTATTCAAAAATAAATATAA
*
75121812 ATTATT-AAAAATATATATAA
1 ATTATTCAAAAATAAATATAA
75121832 A
1 A
75121833 AAGTAAATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
ATTATTCAAAAATAAATATAA
Found at i:75123650 original size:47 final size:47
Alignment explanation
Indices: 75123594--75123699 Score: 121
Period size: 47 Copynumber: 2.3 Consensus size: 47
75123584 TTAATTAATT
*
75123594 AATTA-TTTATTATTAT-TAACTTTAAAAAATTTGAAATATATATTTGA
1 AATTATTTTATTAATATAT-ACTTTAAAAAATTTGAAATATAT-TTTGA
* ** *
75123641 AA-TATTTTATTAATATATATTTTTTAAAATTTTAAATATATTTTGA
1 AATTATTTTATTAATATATACTTTAAAAAATTTGAAATATATTTTGA
75123687 AATTATTTT-TTAA
1 AATTATTTTATTAA
75123700 AATTTTAAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
46 13 0.25
47 37 0.73
48 1 0.02
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (47 bp):
AATTATTTTATTAATATATACTTTAAAAAATTTGAAATATATTTTGA
Found at i:75123684 original size:19 final size:19
Alignment explanation
Indices: 75123657--75123765 Score: 97
Period size: 19 Copynumber: 6.1 Consensus size: 19
75123647 TTATTAATAT
75123657 ATATTTTTTAAAATTTTAA
1 ATATTTTTTAAAATTTTAA
* *
75123676 ATATATTTTGAAA---T--
1 ATATTTTTTAAAATTTTAA
75123690 -TATTTTTTAAAATTTTAA
1 ATATTTTTTAAAATTTTAA
*
75123708 ATATTTTTTAAAATATTAA
1 ATATTTTTTAAAATTTTAA
* *
75123727 ATATTTTTTAATATTATAA
1 ATATTTTTTAAAATTTTAA
* *
75123746 A-AATATTTAAATATTTTAA
1 ATATTTTTTAAA-ATTTTAA
75123765 A
1 A
75123766 CTTTCAAATT
Statistics
Matches: 71, Mismatches: 12, Indels: 14
0.73 0.12 0.14
Matches are distributed among these distances:
13 10 0.14
16 2 0.03
18 7 0.10
19 52 0.73
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (19 bp):
ATATTTTTTAAAATTTTAA
Found at i:75123693 original size:11 final size:11
Alignment explanation
Indices: 75123631--75123737 Score: 59
Period size: 11 Copynumber: 10.0 Consensus size: 11
75123621 AATTTGAAAT
*
75123631 ATATATTTGAA
1 ATATATTTTAA
*
75123642 ATATTTTATTAA
1 ATATATT-TTAA
*
75123654 TATATATTTTTTA
1 -ATATA-TTTTAA
75123667 A-A-ATTTTAA
1 ATATATTTTAA
75123676 ATATATTTTGAA
1 ATATATTTT-AA
*
75123688 AT-TATTTTTTA
1 ATATA-TTTTAA
75123699 A-A-ATTTTAA
1 ATATATTTTAA
*
75123708 ATATTTTTTAA
1 ATATATTTTAA
75123719 A-ATA--TTAA
1 ATATATTTTAA
*
75123727 ATATTTTTTAA
1 ATATATTTTAA
75123738 TATTATAAAA
Statistics
Matches: 73, Mismatches: 10, Indels: 26
0.67 0.09 0.24
Matches are distributed among these distances:
8 5 0.07
9 14 0.19
10 6 0.08
11 27 0.37
12 12 0.16
13 7 0.10
14 2 0.03
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (11 bp):
ATATATTTTAA
Found at i:75123696 original size:32 final size:32
Alignment explanation
Indices: 75123635--75123721 Score: 111
Period size: 32 Copynumber: 2.7 Consensus size: 32
75123625 TGAAATATAT
* * *
75123635 ATTTGAAATATTTTATTAATATATATTTTTTAAA
1 ATTTTAAATATATT-TTAAAAT-TATTTTTTAAA
*
75123669 ATTTTAAATATATTTTGAAATTATTTTTTAAA
1 ATTTTAAATATATTTTAAAATTATTTTTTAAA
*
75123701 ATTTTAAATATTTTTTAAAAT
1 ATTTTAAATATATTTTAAAAT
75123722 ATTAAATATT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
32 30 0.64
33 5 0.11
34 12 0.26
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (32 bp):
ATTTTAAATATATTTTAAAATTATTTTTTAAA
Found at i:75123956 original size:15 final size:16
Alignment explanation
Indices: 75123938--75123977 Score: 53
Period size: 19 Copynumber: 2.3 Consensus size: 16
75123928 AATAAAAATT
75123938 AAAAAATATTTGTTAA
1 AAAAAATATTTGTTAA
75123954 AAAAAGATTTATTTGTTAA
1 AAAAA-A--TATTTGTTAA
75123973 AAAAA
1 AAAAA
75123978 TGGATTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.24
17 1 0.05
19 15 0.71
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (16 bp):
AAAAAATATTTGTTAA
Found at i:75124021 original size:13 final size:13
Alignment explanation
Indices: 75124003--75124043 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
75123993 ATATATATAT
*
75124003 TAAAAAATAAAAA
1 TAAAAATTAAAAA
* *
75124016 TAAAAATTTAAAT
1 TAAAAATTAAAAA
75124029 TAAAAATTAAAAA
1 TAAAAATTAAAAA
75124042 TA
1 TA
75124044 TATATTATAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (13 bp):
TAAAAATTAAAAA
Found at i:75124035 original size:7 final size:7
Alignment explanation
Indices: 75124001--75124042 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
75123991 ATATATATAT
75124001 ATTAAAA
1 ATTAAAA
*
75124008 AATAAAA
1 ATTAAAA
75124015 A-TAAAA
1 ATTAAAA
*
75124021 ATT-TAA
1 ATTAAAA
75124027 ATTAAAA
1 ATTAAAA
75124034 ATTAAAA
1 ATTAAAA
75124041 AT
1 AT
75124043 ATATATTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
6 11 0.37
7 19 0.63
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
ATTAAAA
Found at i:75124050 original size:20 final size:19
Alignment explanation
Indices: 75124010--75124050 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
75124000 TATTAAAAAA
*
75124010 TAAAAATAAAAATTTAAAT
1 TAAAAATAAAAATATAAAT
*
75124029 TAAAAATTAAAAATATATAT
1 TAAAAA-TAAAAATATAAAT
75124049 TA
1 TA
75124051 TAACTGGTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
TAAAAATAAAAATATAAAT
Found at i:75124155 original size:21 final size:20
Alignment explanation
Indices: 75124131--75124186 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 20
75124121 TTCAAATTTC
75124131 ACTTTTTTTACTTTTT-TATTA
1 ACTTTTTTT-CTTTTTCT-TTA
*
75124152 AC-TTTTATCTTTTTCTTTA
1 ACTTTTTTTCTTTTTCTTTA
*
75124171 AATTTTTTTCCTTTTT
1 ACTTTTTTT-CTTTTT
75124187 AAATTTTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 10 0.34
20 11 0.38
21 8 0.28
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.71
Consensus pattern (20 bp):
ACTTTTTTTCTTTTTCTTTA
Found at i:75124224 original size:13 final size:13
Alignment explanation
Indices: 75124208--75124251 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
75124198 TTTTTCTTAT
*
75124208 TTTATTTTGTTTA
1 TTTATTTTATTTA
75124221 TTTATTTTATTTA
1 TTTATTTTATTTA
* *
75124234 TTTTTTGTTATTAA
1 TTTATT-TTATTTA
75124248 TTTA
1 TTTA
75124252 AAAAATTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
13 17 0.65
14 9 0.35
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:75124245 original size:10 final size:9
Alignment explanation
Indices: 75124204--75124237 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
75124194 AAATTTTTTC
75124204 TTATTTTAT
1 TTATTTTAT
75124213 TT-TGTTTAT
1 TTAT-TTTAT
75124222 TTATTTTAT
1 TTATTTTAT
75124231 TTATTTT
1 TTATTTT
75124238 TTGTTATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 1 0.04
9 21 0.91
10 1 0.04
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (9 bp):
TTATTTTAT
Found at i:75124393 original size:13 final size:13
Alignment explanation
Indices: 75124377--75124446 Score: 79
Period size: 13 Copynumber: 5.2 Consensus size: 13
75124367 TAAATTTTAA
75124377 AAATATATTTTTT
1 AAATATATTTTTT
75124390 AAATATATTTTTAT
1 AAATATATTTTT-T
* **
75124404 AAATTTTAAATTTT
1 AAA-TATATTTTTT
75124418 AAATATATTTTTTT
1 AAATATA-TTTTTT
75124432 AAA-ATATTTTTT
1 AAATATATTTTTT
75124444 AAA
1 AAA
75124447 CAAAATAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
12 9 0.19
13 18 0.38
14 15 0.31
15 6 0.12
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
AAATATATTTTTT
Found at i:75124414 original size:43 final size:40
Alignment explanation
Indices: 75124367--75124446 Score: 124
Period size: 43 Copynumber: 1.9 Consensus size: 40
75124357 TTATGTCTTA
75124367 TAAATTTTAAAAATATATTTTTTAAATATATTTTTATAAATTT
1 TAAATTTTAAAAATAT-TTTTTTAAA-ATATTTTT-TAAATTT
*
75124410 TAAATTTTAAATATATTTTTTTAAAATATTTTTTAAA
1 TAAATTTTAAAAATATTTTTTTAAAATATTTTTTAAA
75124447 CAAAATAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
40 4 0.11
41 8 0.22
42 9 0.25
43 15 0.42
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (40 bp):
TAAATTTTAAAAATATTTTTTTAAAATATTTTTTAAATTT
Found at i:75124489 original size:20 final size:22
Alignment explanation
Indices: 75124458--75124503 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 22
75124448 AAAATAAAAT
75124458 AATTTCAAATATATATATTT-A
1 AATTTCAAATATATATATTTGA
*
75124479 AATTT-AAATATATATTTTTGA
1 AATTTCAAATATATATATTTGA
75124500 AATT
1 AATT
75124504 ATTTTTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
AATTTCAAATATATATATTTGA
Found at i:75124559 original size:19 final size:19
Alignment explanation
Indices: 75124525--75124583 Score: 66
Period size: 18 Copynumber: 3.0 Consensus size: 19
75124515 ATTTTAAAAA
75124525 TAAATTTTTGAAATTATTTTT
1 TAAA-TTTT-AAATTATTTTT
*
75124546 TTAATTTTAAATTA-TTTT
1 TAAATTTTAAATTATTTTT
*
75124564 TAAATATTAAATATATTTTT
1 TAAATTTTAAAT-TATTTTT
75124584 AATAATATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
18 14 0.42
19 8 0.24
20 8 0.24
21 3 0.09
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (19 bp):
TAAATTTTAAATTATTTTT
Found at i:75124581 original size:29 final size:29
Alignment explanation
Indices: 75124549--75124620 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 29
75124539 TATTTTTTTA
* * *
75124549 ATTTTAAATTATTTTTAAATA-TTAAATAT
1 ATTTTAAATAATATTTAAACATTTAAA-AT
*
75124578 ATTTTTAATAATATTTAAACATTTAAAAT
1 ATTTTAAATAATATTTAAACATTTAAAAT
75124607 -TTTTAAATAA-ATTT
1 ATTTTAAATAATATTT
75124621 TTTATAAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 4 0.11
28 9 0.24
29 19 0.51
30 5 0.14
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (29 bp):
ATTTTAAATAATATTTAAACATTTAAAAT
Found at i:75124584 original size:19 final size:18
Alignment explanation
Indices: 75124535--75124585 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 18
75124525 TAAATTTTTG
* *
75124535 AAATTATTTTTTTAATTTT
1 AAATTA-TTTTTAAATATT
75124554 AAATTATTTTTAAATATT
1 AAATTATTTTTAAATATT
75124572 AAATATATTTTTAA
1 AAAT-TATTTTTAA
75124586 TAATATTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 14 0.48
19 15 0.52
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
AAATTATTTTTAAATATT
Found at i:75124930 original size:15 final size:15
Alignment explanation
Indices: 75124893--75124941 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
75124883 ATCTTTAAAA
* *
75124893 ATAATTTAAAAT-TC
1 ATAAATTAAAATATT
*
75124907 ATAATTTAAAATATT
1 ATAAATTAAAATATT
*
75124922 ATAAATTAAATTATT
1 ATAAATTAAAATATT
75124937 ATAAA
1 ATAAA
75124942 ACTAATAACA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
14 12 0.39
15 19 0.61
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (15 bp):
ATAAATTAAAATATT
Found at i:75125017 original size:21 final size:21
Alignment explanation
Indices: 75124984--75125045 Score: 88
Period size: 22 Copynumber: 2.9 Consensus size: 21
75124974 AAATATTTTA
*
75124984 TAATATTAAAAAAATTAATATT
1 TAATATTTAAAAAA-TAATATT
75125006 TAATATTTAAAAAATAATATT
1 TAATATTTAAAAAATAATATT
*
75125027 TAAAATTTAAAAAAATAAT
1 TAATATTT-AAAAAATAAT
75125046 TTCAAAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.38
22 23 0.62
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
TAATATTTAAAAAATAATATT
Found at i:75125052 original size:21 final size:22
Alignment explanation
Indices: 75124975--75125053 Score: 90
Period size: 21 Copynumber: 3.5 Consensus size: 22
75124965 AAAATATTTA
*
75124975 AATATTTTATAATATTAAAAAAATT
1 AATA-TTTAAAAT-TTAAAAAAA-T
*
75125000 AATATTTAATATTT-AAAAAAT
1 AATATTTAAAATTTAAAAAAAT
75125021 AATATTTAAAATTTAAAAAAAT
1 AATATTTAAAATTTAAAAAAAT
*
75125043 AAT-TTCAAAAT
1 AATATTTAAAAT
75125054 ATATATTTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
21 21 0.43
22 16 0.33
23 2 0.04
24 6 0.12
25 4 0.08
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (22 bp):
AATATTTAAAATTTAAAAAAAT
Found at i:75125077 original size:22 final size:21
Alignment explanation
Indices: 75125043--75125115 Score: 74
Period size: 24 Copynumber: 3.2 Consensus size: 21
75125033 TTAAAAAAAT
*
75125043 AATTTCAAAATATATATTTAA
1 AATTTAAAAATATATATTTAA
75125064 AATTTAAAAAATATATATTAATAA
1 AATTT-AAAAATATATATT--TAA
**
75125088 AATATTTCAAATATATATTTCAA
1 AAT-TTAAAAATATATATTT-AA
75125111 AATTT
1 AATTT
75125116 TTAAAATTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
21 5 0.11
22 15 0.34
23 5 0.11
24 17 0.39
25 2 0.05
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (21 bp):
AATTTAAAAATATATATTTAA
Found at i:75125099 original size:24 final size:24
Alignment explanation
Indices: 75125033--75125106 Score: 73
Period size: 24 Copynumber: 3.1 Consensus size: 24
75125023 TATTTAAAAT
*
75125033 TTAAAAAAATAATTTCAAAATATATA
1 TTAATAAAAT-ATTTC-AAATATATA
**
75125059 TT--TAAAAT-TTAAAAAATATATA
1 TTAATAAAATATT-TCAAATATATA
75125081 TTAATAAAATATTTCAAATATATA
1 TTAATAAAATATTTCAAATATATA
75125105 TT
1 TT
75125107 TCAAAATTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
22 13 0.33
24 22 0.56
25 2 0.05
26 2 0.05
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (24 bp):
TTAATAAAATATTTCAAATATATA
Found at i:75125135 original size:48 final size:48
Alignment explanation
Indices: 75125034--75125142 Score: 125
Period size: 52 Copynumber: 2.2 Consensus size: 48
75125024 ATTTAAAATT
75125034 TAAA-AAAATAATTTCAAAATATATATTTAAAATTTAAAAAATATATA
1 TAAATAAAATAATTTCAAAATATATATTTAAAATTTAAAAAATATATA
* *
75125081 TTAATAAAAT-ATTTC-AAATATATATTTCAAAATTTTTAAAATTAATAATAAA
1 TAAATAAAATAATTTCAAAATATATATTT-AAAA--TTTAAAA--AAT-ATATA
75125133 TAAATAAAAT
1 TAAATAAAAT
75125143 TAAATAAATA
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
46 12 0.23
47 12 0.23
48 5 0.10
49 7 0.13
51 3 0.06
52 13 0.25
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.39
Consensus pattern (48 bp):
TAAATAAAATAATTTCAAAATATATATTTAAAATTTAAAAAATATATA
Found at i:75125138 original size:47 final size:46
Alignment explanation
Indices: 75125034--75125138 Score: 115
Period size: 47 Copynumber: 2.2 Consensus size: 46
75125024 ATTTAAAATT
*
75125034 TAAAAAAATAATTTCAAAATATATATTTAAAATTTAAAAAATATATA
1 TAAATAAAT-ATTTCAAAATATATATTTAAAATTTAAAAAATATATA
* **
75125081 TTAATAAAATATTTC-AAATATATATTTCAAAATTTTTAAAAT-TAATAA
1 TAAAT-AAATATTTCAAAATATATATTT-AAAATTTAAAAAATAT-AT-A
75125129 TAAATAAATA
1 TAAATAAATA
75125139 AAATTAAATA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
46 13 0.27
47 27 0.55
48 9 0.18
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (46 bp):
TAAATAAATATTTCAAAATATATATTTAAAATTTAAAAAATATATA
Found at i:75125148 original size:14 final size:14
Alignment explanation
Indices: 75125129--75125156 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
75125119 AAATTAATAA
75125129 TAAATAAATAAAAT
1 TAAATAAATAAAAT
75125143 TAAATAAATAAAAT
1 TAAATAAATAAAAT
75125157 AAAGAAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
TAAATAAATAAAAT
Found at i:75125148 original size:48 final size:46
Alignment explanation
Indices: 75125050--75125148 Score: 103
Period size: 47 Copynumber: 2.1 Consensus size: 46
75125040 AATAATTTCA
* * *
75125050 AAATATATATTTAAAATTTAAAAAATATATATTAATAAAATATTTC
1 AAATATATATTTAAAATTTAAAAAATATATATAAATAAAAAAATTC
**
75125096 AAATATATATTTCAAAATTTTTAAAAT-TAATAATAAATAAATAAAATT-
1 AAATATATATTT-AAAATTTAAAAAATAT-AT-ATAAATAAA-AAAATTC
75125144 AAATA
1 AAATA
75125149 AATAAAATAA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
46 13 0.30
47 14 0.32
48 13 0.30
49 4 0.09
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (46 bp):
AAATATATATTTAAAATTTAAAAAATATATATAAATAAAAAAATTC
Found at i:75125204 original size:8 final size:8
Alignment explanation
Indices: 75125127--75125215 Score: 52
Period size: 8 Copynumber: 10.2 Consensus size: 8
75125117 TAAAATTAAT
*
75125127 AATAAATA
1 AATAAAAA
75125135 AATAAAATTA
1 AATAAAA--A
75125145 AATAAATAA
1 AATAAA-AA
*
75125154 AATAAAGA
1 AATAAAAA
*
75125162 AAGAAAGAA
1 AATAAA-AA
75125171 AAGTACAAAA
1 AA-TA-AAAA
* *
75125181 AGTACAAA
1 AATAAAAA
*
75125189 AGTCAAAAA
1 AAT-AAAAA
75125198 AATAAAAA
1 AATAAAAA
*
75125206 AGTAAAAA
1 AATAAAAA
75125214 AA
1 AA
75125216 AAACTGACAT
Statistics
Matches: 63, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
8 31 0.49
9 18 0.29
10 11 0.17
11 3 0.05
ACGTcount: A:0.74, C:0.03, G:0.08, T:0.15
Consensus pattern (8 bp):
AATAAAAA
Found at i:75125216 original size:17 final size:17
Alignment explanation
Indices: 75125169--75125216 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
75125159 AGAAAGAAAG
* * *
75125169 AAAAGTACAAAAAGTAC
1 AAAAGTAAAAAAAATAA
*
75125186 AAAAGTCAAAAAAATAA
1 AAAAGTAAAAAAAATAA
75125203 AAAAGTAAAAAAAA
1 AAAAGTAAAAAAAA
75125217 AACTGACATG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.75, C:0.06, G:0.08, T:0.10
Consensus pattern (17 bp):
AAAAGTAAAAAAAATAA
Found at i:75129779 original size:15 final size:15
Alignment explanation
Indices: 75129751--75129789 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
75129741 AGCTAATCTT
*
75129751 AACTTTTTTTAAAAA
1 AACTATTTTTAAAAA
*
75129766 TA-TATTTTTAAAAA
1 AACTATTTTTAAAAA
75129780 AACTATTTTT
1 AACTATTTTT
75129790 TAATTATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (15 bp):
AACTATTTTTAAAAA
Found at i:75131459 original size:26 final size:26
Alignment explanation
Indices: 75131391--75131459 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 26
75131381 CTCCGAAAGC
*
75131391 AAGAAGTAGCAAGGAGAAGAAGAGAAA
1 AAGAAGGAG-AAGGAGAAGAAGAGAAA
* * * *
75131418 AAGAAAGAAAATGAGAAG-AGAAGAAG
1 AAGAAGGAGAAGGAGAAGAAG-AGAAA
75131444 AAGAAGGAGAAGGAGA
1 AAGAAGGAGAAGGAGA
75131460 GGGCACGACA
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
25 2 0.06
26 25 0.76
27 6 0.18
ACGTcount: A:0.61, C:0.01, G:0.35, T:0.03
Consensus pattern (26 bp):
AAGAAGGAGAAGGAGAAGAAGAGAAA
Found at i:75131521 original size:14 final size:13
Alignment explanation
Indices: 75131486--75131531 Score: 51
Period size: 12 Copynumber: 3.6 Consensus size: 13
75131476 AGGGAAAAAA
*
75131486 AAAGA-AAAAGAG
1 AAAGAGAAAGGAG
*
75131498 AAGGAG-AAGGAG
1 AAAGAGAAAGGAG
75131510 AATAGAGAAAGGAG
1 AA-AGAGAAAGGAG
75131524 AAAGAGAA
1 AAAGAGAA
75131532 GGAAAAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 11 0.39
13 9 0.32
14 8 0.29
ACGTcount: A:0.63, C:0.00, G:0.35, T:0.02
Consensus pattern (13 bp):
AAAGAGAAAGGAG
Found at i:75131521 original size:20 final size:19
Alignment explanation
Indices: 75131494--75131531 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
75131484 AAAAAGAAAA
*
75131494 AGAGAAGGAGAAGGAGAAT
1 AGAGAAGGAGAAAGAGAAT
75131513 AGAGAAAGGAGAAAGAGAA
1 AGAG-AAGGAGAAAGAGAA
75131532 GGAAAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.58, C:0.00, G:0.39, T:0.03
Consensus pattern (19 bp):
AGAGAAGGAGAAAGAGAAT
Found at i:75131627 original size:13 final size:12
Alignment explanation
Indices: 75131605--75131666 Score: 65
Period size: 13 Copynumber: 5.1 Consensus size: 12
75131595 GTGTTTTTTC
75131605 TGTTATTATTAT
1 TGTTATTATTAT
75131617 TGTTGATTATTAT
1 TGTT-ATTATTAT
*
75131630 TGTT-TT-TTGT
1 TGTTATTATTAT
*
75131640 TGCTAGTTATTAT
1 TGTTA-TTATTAT
75131653 TGTTAGTTATTAT
1 TGTTA-TTATTAT
75131666 T
1 T
75131667 ATTGTTAGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
10 6 0.14
11 2 0.05
12 6 0.14
13 28 0.67
ACGTcount: A:0.19, C:0.02, G:0.15, T:0.65
Consensus pattern (12 bp):
TGTTATTATTAT
Found at i:75131641 original size:20 final size:22
Alignment explanation
Indices: 75131616--75131656 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
75131606 GTTATTATTA
75131616 TTGTTG-A-TTATTATTGTTTT
1 TTGTTGCAGTTATTATTGTTTT
75131636 TTGTTGCTAGTTATTATTGTT
1 TTGTTGC-AGTTATTATTGTT
75131657 AGTTATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
22 1 0.06
23 11 0.61
ACGTcount: A:0.15, C:0.02, G:0.17, T:0.66
Consensus pattern (22 bp):
TTGTTGCAGTTATTATTGTTTT
Found at i:75131665 original size:39 final size:35
Alignment explanation
Indices: 75131585--75131672 Score: 104
Period size: 39 Copynumber: 2.4 Consensus size: 35
75131575 TGAATTTTTA
* *
75131585 TATTGTTATTGTGTTTTTTCTGTTATTATTATTGT
1 TATTATTATTGTTTTTTTTCTGTTATTATTATTGT
*
75131620 TGATTATTATTGTTTTTTGTTGCTAGTTATTATTGTTAGT
1 T-ATTATTATTGTTTTTT-TT-CT-GTTATTATTATT-GT
75131660 TATTATTATTGTT
1 TATTATTATTGTT
75131673 AGTAAAAAAC
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
35 1 0.02
36 14 0.31
37 2 0.04
38 2 0.04
39 23 0.51
40 3 0.07
ACGTcount: A:0.17, C:0.02, G:0.15, T:0.66
Consensus pattern (35 bp):
TATTATTATTGTTTTTTTTCTGTTATTATTATTGT
Found at i:75131673 original size:16 final size:16
Alignment explanation
Indices: 75131606--75131675 Score: 61
Period size: 16 Copynumber: 4.1 Consensus size: 16
75131596 TGTTTTTTCT
75131606 GTTATTATTATTGTT-
1 GTTATTATTATTGTTA
* * *
75131621 GATTATTATTGTTTTTT
1 G-TTATTATTATTGTTA
75131638 GTTGCTAGTTATTATTGTTA
1 G-T--TA-TTATTATTGTTA
75131658 GTTATTATTATTGTTA
1 GTTATTATTATTGTTA
75131674 GT
1 GT
75131676 AAAAAACCTT
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
15 1 0.02
16 26 0.59
17 4 0.09
19 3 0.07
20 10 0.23
ACGTcount: A:0.20, C:0.01, G:0.16, T:0.63
Consensus pattern (16 bp):
GTTATTATTATTGTTA
Found at i:75131687 original size:19 final size:19
Alignment explanation
Indices: 75131665--75131727 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
75131655 TTAGTTATTA
75131665 TTATTGTTAGTAAAAAACC
1 TTATTGTTAGTAAAAAACC
* **
75131684 TTATTGTTATTGTTAATTA--
1 TTATTGTTA--GTAAAAAACC
75131703 TTATTGTTAGTAAAAAACCC
1 TTATTGTTAGTAAAAAA-CC
75131723 TTATT
1 TTATT
75131728 ATTATTGTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 9
0.69 0.12 0.19
Matches are distributed among these distances:
17 5 0.15
19 18 0.55
20 5 0.15
21 5 0.15
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.48
Consensus pattern (19 bp):
TTATTGTTAGTAAAAAACC
Found at i:75131744 original size:13 final size:13
Alignment explanation
Indices: 75131726--75131768 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 13
75131716 AAAACCCTTA
75131726 TTATTATTGTTAG
1 TTATTATTGTTAG
*
75131739 TTATTATTATTGTTGG
1 ---TTATTATTGTTAG
75131755 TTATTATTGTTAG
1 TTATTATTGTTAG
75131768 T
1 T
75131769 AAAAAACCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 13 0.52
16 12 0.48
ACGTcount: A:0.21, C:0.00, G:0.16, T:0.63
Consensus pattern (13 bp):
TTATTATTGTTAG
Found at i:75131744 original size:16 final size:16
Alignment explanation
Indices: 75131723--75131762 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
75131713 TAAAAAACCC
75131723 TTATTATTATTGTTAG
1 TTATTATTATTGTTAG
*
75131739 TTATTATTATTGTTGG
1 TTATTATTATTGTTAG
75131755 TTATTATT
1 TTATTATT
75131763 GTTAGTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.23, C:0.00, G:0.12, T:0.65
Consensus pattern (16 bp):
TTATTATTATTGTTAG
Found at i:75131785 original size:52 final size:54
Alignment explanation
Indices: 75131684--75131801 Score: 186
Period size: 55 Copynumber: 2.2 Consensus size: 54
75131674 GTAAAAAACC
*
75131684 TTATTGTTATTGTTAATTATTATTGTTAGTAAAAAACCCTTATTATTATTGTTAG
1 TTATTATTATTGTTAATTATTATTGTTAGTAAAAAACCCTTA-TATTATTGTTAG
**
75131739 TTATTATTATTGTTGGTTATTATTGTTAGTAAAAAACCC-TA-ATTATTGTTAG
1 TTATTATTATTGTTAATTATTATTGTTAGTAAAAAACCCTTATATTATTGTTAG
75131791 TTATTATTATT
1 TTATTATTATT
75131802 TTTTATTTAT
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
52 22 0.37
54 2 0.03
55 36 0.60
ACGTcount: A:0.31, C:0.05, G:0.11, T:0.53
Consensus pattern (54 bp):
TTATTATTATTGTTAATTATTATTGTTAGTAAAAAACCCTTATATTATTGTTAG
Found at i:75136023 original size:24 final size:24
Alignment explanation
Indices: 75135996--75136047 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
75135986 GTATGCGATT
* * *
75135996 GCTCAAGCTCTGGTTGTGGCTCAG
1 GCTCAAGCTCAGGATCTGGCTCAG
* *
75136020 GCTCCAGCTCAGGATCTGGCTCTG
1 GCTCAAGCTCAGGATCTGGCTCAG
75136044 GCTC
1 GCTC
75136048 TGGCTCGACC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.12, C:0.31, G:0.31, T:0.27
Consensus pattern (24 bp):
GCTCAAGCTCAGGATCTGGCTCAG
Found at i:75139123 original size:52 final size:49
Alignment explanation
Indices: 75139038--75139392 Score: 428
Period size: 46 Copynumber: 7.3 Consensus size: 49
75139028 TGATTAAGTG
* * **
75139038 ATAAAGTGATAAGTGGTAACTTTAGCTACACTTATCTGATCAAGTGACA
1 ATAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA
* *
75139087 AGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTG---
1 A-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA
*
75139136 ATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC-
1 ATAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA
*
75139184 --AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACA
1 ATAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA
75139231 AGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA
1 A-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA
* *
75139283 AGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC-
1 A-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA
** *
75139334 --AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC-
1 ATAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA
75139380 --AAAGTGATAAGTG
1 ATAAAGTGATAAGTG
75139393 GCTACACTTA
Statistics
Matches: 279, Mismatches: 16, Indels: 25
0.87 0.05 0.08
Matches are distributed among these distances:
46 143 0.51
48 1 0.00
49 2 0.01
50 1 0.00
52 132 0.47
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (49 bp):
ATAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA
Found at i:75139147 original size:98 final size:97
Alignment explanation
Indices: 75139026--75139392 Score: 483
Period size: 98 Copynumber: 3.7 Consensus size: 97
75139016 TTTGAGTACT
* * * *
75139026 TCTGATTAAGTGATAAAGTGATAAGTGGTAACTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-
*
75139091 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
65 GAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
75139124 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
75139184 AAAGTGATAAGTGATAGCTTCAGCTACACTTA
66 AAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
75139216 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 TCTGATCAAGTG---A-T--AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
75139281 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
60 CAAGTG-AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* * * *
75139320 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGT
75139385 GATAAGTG
65 GA-AAGTG
75139393 GCTACACTTA
Statistics
Matches: 238, Mismatches: 17, Indels: 27
0.84 0.06 0.10
Matches are distributed among these distances:
92 41 0.17
95 1 0.00
96 1 0.00
98 143 0.60
99 10 0.04
101 1 0.00
104 41 0.17
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (97 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:75139374 original size:196 final size:196
Alignment explanation
Indices: 75139040--75139392 Score: 598
Period size: 196 Copynumber: 1.8 Consensus size: 196
75139030 ATTAAGTGAT
* * *
75139040 AAAGTGATAAGTGGTAACTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAACTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
* * * *
75139105 ATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
75139170 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
75139235 G
196 G
* * *
75139236 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTGATAACTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
*
75139301 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
75139366 TCTGATCAAGAGACAAAGTGATAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTG
75139393 GCTACACTTA
Statistics
Matches: 145, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
196 145 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (196 bp):
AAAGTGATAAGTGATAACTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
G
Found at i:75139400 original size:37 final size:37
Alignment explanation
Indices: 75139356--75139501 Score: 244
Period size: 37 Copynumber: 4.0 Consensus size: 37
75139346 GATAGCTTTA
75139356 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
75139393 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
75139430 GCTACACTTATCTGATCAAG-GAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAG-ACAAAGTGATAAGTG
*
75139467 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
75139502 ATCATACGTA
Statistics
Matches: 105, Mismatches: 2, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
35 11 0.10
36 5 0.05
37 89 0.85
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:75139429 original size:150 final size:149
Alignment explanation
Indices: 75139026--75139381 Score: 458
Period size: 150 Copynumber: 2.4 Consensus size: 149
75139016 TTTGAGTACT
* * * * * * *
75139026 TCTGATTAAGTGATAAAGTGATAAGTGGTAACTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* * * *
75139091 GAAAGTGATAAGTAATAGCTTC-G---GCTATACTTATC---TGATCAAGTGATAAAGTGATAAG
66 GAAAGTGATAACT-ATAGCTTCAGCACACTAAACTGATCAAGTGA-CAAGTGATAAAGTGATAAG
75139149 TGATAGCTTCGGCTATACTTA
129 TGATAGCTTCGGCTATACTTA
* *
75139170 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* * * *
75139235 GAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA-AAAGTGATAAG
66 GAAAGTGATAACT-ATAGCTTCAGC-ACACTAAACTGATCAAGTGACAAGTGATAAAGTGATAAG
75139299 TGATAGCTTCGGCTATACTTA
129 TGATAGCTTCGGCTATACTTA
*
75139320 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAA
75139382 AGTGATAAGT
Statistics
Matches: 190, Mismatches: 14, Indels: 10
0.89 0.07 0.05
Matches are distributed among these distances:
144 81 0.43
145 1 0.01
149 7 0.04
150 91 0.48
151 7 0.04
152 3 0.02
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (149 bp):
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
GAAAGTGATAACTATAGCTTCAGCACACTAAACTGATCAAGTGACAAGTGATAAAGTGATAAGTG
ATAGCTTCGGCTATACTTA
Found at i:75140941 original size:33 final size:33
Alignment explanation
Indices: 75140837--75140945 Score: 152
Period size: 33 Copynumber: 3.4 Consensus size: 33
75140827 TTTCCCTAAA
75140837 ATAAAT-TATTATTTTGATATTTTA-TTTTTTT
1 ATAAATATATTATTTTGATATTTTATTTTTTTT
* * * *
75140868 ATAAAGATACTATTTTGGTATTTTATTTTTTTC
1 ATAAATATATTATTTTGATATTTTATTTTTTTT
75140901 ATAAATATATTATTTTGATATTTTATTATTTTTT
1 ATAAATATATTATTTTGATATTTTATT-TTTTTT
75140935 AT-AATATATTA
1 ATAAATATATTA
75140946 GTAAAAAACC
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
31 5 0.07
32 16 0.24
33 39 0.58
34 7 0.10
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (33 bp):
ATAAATATATTATTTTGATATTTTATTTTTTTT
Found at i:75140944 original size:17 final size:17
Alignment explanation
Indices: 75140894--75140945 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
75140884 GGTATTTTAT
75140894 TTTTTTCATAAATATATTA
1 TTTTTT-AT-AATATATTA
* * *
75140913 -TTTTGATATTTTATTA
1 TTTTTTATAATATATTA
75140929 TTTTTTATAATATATTA
1 TTTTTTATAATATATTA
75140946 GTAAAAAACC
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
16 7 0.27
17 15 0.58
18 4 0.15
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (17 bp):
TTTTTTATAATATATTA
Found at i:75141269 original size:35 final size:35
Alignment explanation
Indices: 75141194--75141271 Score: 88
Period size: 35 Copynumber: 2.3 Consensus size: 35
75141184 AAATTATTCC
* * *
75141194 TAAA-AATTAATAATTTAATTATTTTATAAATATG
1 TAAATAATTAATAAATTAATAATTTAATAAATATG
*
75141228 TAAATAATTAATAAAATTAATAATTTAAT-AATTTG
1 TAAATAATTAAT-AAATTAATAATTTAATAAATATG
*
75141263 TTAATAATT
1 TAAATAATT
75141272 TGTATACAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
34 4 0.11
35 20 0.54
36 13 0.35
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (35 bp):
TAAATAATTAATAAATTAATAATTTAATAAATATG
Found at i:75141541 original size:22 final size:18
Alignment explanation
Indices: 75141488--75141561 Score: 51
Period size: 18 Copynumber: 3.8 Consensus size: 18
75141478 ATTTTCTCTA
75141488 TTCT-CTTCTCTTTCTCC
1 TTCTCCTTCTCTTTCTCC
75141505 TTCTCCTTCCTTCTTTCTCTC
1 TTCTCCTT-C-TCTTTCTC-C
* *
75141526 TAACTCTCCTTCTCTTTTTCT
1 T---TCTCCTTCTCTTTCTCC
* *
75141547 TTCTTCTTCTTTTTC
1 TTCTCCTTCTCTTTC
75141562 CCTCACCAGT
Statistics
Matches: 45, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
17 4 0.09
18 14 0.31
19 1 0.02
20 8 0.18
21 3 0.07
22 7 0.16
23 1 0.02
24 7 0.16
ACGTcount: A:0.03, C:0.36, G:0.00, T:0.61
Consensus pattern (18 bp):
TTCTCCTTCTCTTTCTCC
Found at i:75141816 original size:18 final size:18
Alignment explanation
Indices: 75141793--75141828 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
75141783 CTCGATCTAC
75141793 TAGC-TTTTGTTTCTTTTT
1 TAGCTTTTTG-TTCTTTTT
75141811 TAGCTTTTTGTTCTTTTT
1 TAGCTTTTTGTTCTTTTT
75141829 AACTAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.06, C:0.11, G:0.11, T:0.72
Consensus pattern (18 bp):
TAGCTTTTTGTTCTTTTT
Found at i:75143870 original size:9 final size:9
Alignment explanation
Indices: 75143851--75143891 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
75143841 TTTATACAAA
*
75143851 TAATTTGGT
1 TAATTCGGT
*
75143860 TAATTCAGT
1 TAATTCGGT
*
75143869 TAATTCGGG
1 TAATTCGGT
75143878 TAATTCGGT
1 TAATTCGGT
75143887 TAATT
1 TAATT
75143892 TAATACTTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.46
Consensus pattern (9 bp):
TAATTCGGT
Found at i:75144622 original size:31 final size:31
Alignment explanation
Indices: 75144584--75144642 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
75144574 TTCATCTAGG
*
75144584 TAAGCCTTGTTTTTCTTCCATTCTTCAACTT
1 TAAGCCTTCTTTTTCTTCCATTCTTCAACTT
75144615 TAAGCCTTCTTTTTCTTCCATTCTTCAA
1 TAAGCCTTCTTTTTCTTCCATTCTTCAA
75144643 TTTTTTCCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.17, C:0.27, G:0.05, T:0.51
Consensus pattern (31 bp):
TAAGCCTTCTTTTTCTTCCATTCTTCAACTT
Found at i:75148699 original size:18 final size:18
Alignment explanation
Indices: 75148676--75148736 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
75148666 CACTTTTAAA
75148676 ATGTAAATTTATTAATAT
1 ATGTAAATTTATTAATAT
* *
75148694 ATGTAAAAATAATTGAA-A-
1 ATGT-AAATTTATT-AATAT
*
75148712 ATATAAATTTATTAATAT
1 ATGTAAATTTATTAATAT
*
75148730 ATTTAAA
1 ATGTAAA
75148737 AACAACTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
16 2 0.06
17 8 0.24
18 13 0.39
19 8 0.24
20 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (18 bp):
ATGTAAATTTATTAATAT
Found at i:75150430 original size:41 final size:41
Alignment explanation
Indices: 75150291--75150443 Score: 218
Period size: 41 Copynumber: 3.7 Consensus size: 41
75150281 TTGAGTTTAC
75150291 GTGTAAGACCATATCTGGGATATGGCATCGATATGAACTTT
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAACTTT
* * * **
75150332 GTGTAAGACCATAGCTAGGCTATTGGCATCGATATGAGAGC-CC
1 GTGTAAGACCATATCTGGGATA-TGGCATCGATATGA-A-CTTT
*
75150375 ATGTAAGACCATATCTGGGATATGGCATCGATATGAACTTT
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAACTTT
75150416 GTGTAAGACCATATCTGGGATATGGCAT
1 GTGTAAGACCATATCTGGGATATGGCAT
75150444 TGGTATGGTA
Statistics
Matches: 96, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
40 1 0.01
41 47 0.49
42 28 0.29
43 19 0.20
44 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (41 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATATGAACTTT
Found at i:75155860 original size:179 final size:178
Alignment explanation
Indices: 75155540--75155895 Score: 436
Period size: 179 Copynumber: 2.0 Consensus size: 178
75155530 AGGCTATAAT
* * * * **
75155540 GCGAAATGATTTCAGCTGCCTATTTGTAGTGATTTCATACAAGATGGATTATTGCCTCTTTTTCC
1 GCGAAATGATTTCAGCTACCTATTTGCACTAATTTCATACAAGATGGATTATTAACTCTTTTTCC
*
75155605 AATAGAACAGATATGAATTACCTTAACAATTATTTTCATTACGAATTAACATATGACATATTGAT
66 AATAGAACAGATATGAATTACCTTAACAATTATTTTCATTACGAATTAACATATGACAGATTGAT
*
75155670 TCTAGAAAACTCACGCATAAAGATTCACACTTGGAGAATTTTTT-TACAA
131 TCTAAAAAACTCACGCATAAAGATT--CACTTGGAGAATTTTTTGTACAA
*
75155719 GCGAAATGATTTC-GTTTACCTATTTGCACTAATTTCATACAAGATGGATTATTAACTCTTTTTC
1 GCGAAATGATTTCAG-CTACCTATTTGCACTAATTTCATACAAGATGGATTATTAACTCTTTTTC
** * * * **
75155783 CAATAGAACAG-T-TGCAAATTACCTTAGTAATTGTTTTCATTGCGGATTAATGTAATGA-AGAT
65 CAATAGAACAGATATG--AATTACCTTAACAATTATTTTCATTACGAATTAACAT-ATGACAGAT
* * *
75155845 TGGTT-TCAAAAAACTCATGCATAGAGATTCACTTGGAGAATTTTTTGTACA
127 TGATTCT-AAAAAACTCACGCATAAAGATTCACTTGGAGAATTTTTTGTACA
75155896 TTTAGATTTA
Statistics
Matches: 152, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
177 19 0.12
178 7 0.05
179 122 0.80
180 4 0.03
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (178 bp):
GCGAAATGATTTCAGCTACCTATTTGCACTAATTTCATACAAGATGGATTATTAACTCTTTTTCC
AATAGAACAGATATGAATTACCTTAACAATTATTTTCATTACGAATTAACATATGACAGATTGAT
TCTAAAAAACTCACGCATAAAGATTCACTTGGAGAATTTTTTGTACAA
Found at i:75156073 original size:29 final size:29
Alignment explanation
Indices: 75156041--75156108 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
75156031 ATTCTTAAAT
*
75156041 GATAGTCACTACCAAACTCTTGTTTGGCA-
1 GATAGTCACTACCAAACTCTTGTTTAG-AG
* * *
75156070 GATAGTTACTATCAGACTCTTGTTTAGAG
1 GATAGTCACTACCAAACTCTTGTTTAGAG
75156099 GATAGTCACT
1 GATAGTCACT
75156109 GCGAACTCTC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 1 0.03
29 32 0.97
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (29 bp):
GATAGTCACTACCAAACTCTTGTTTAGAG
Found at i:75157437 original size:48 final size:48
Alignment explanation
Indices: 75157366--75157461 Score: 165
Period size: 48 Copynumber: 2.0 Consensus size: 48
75157356 TATGCACAGA
75157366 GTTAAACTCCTTGAATTTCGAGGGGGAAACCTACGAACTCAGTTGGTG
1 GTTAAACTCCTTGAATTTCGAGGGGGAAACCTACGAACTCAGTTGGTG
* * *
75157414 GTTAATCTCTTTGAATTTCGAGGGGGAAATCTACGAACTCAGTTGGTG
1 GTTAAACTCCTTGAATTTCGAGGGGGAAACCTACGAACTCAGTTGGTG
75157462 TAGCCAATGC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (48 bp):
GTTAAACTCCTTGAATTTCGAGGGGGAAACCTACGAACTCAGTTGGTG
Found at i:75158572 original size:135 final size:132
Alignment explanation
Indices: 75158378--75158717 Score: 346
Period size: 135 Copynumber: 2.5 Consensus size: 132
75158368 TACATGTAAC
* * * * * *
75158378 CCCATGTTTAATGTCCTAGCAA-ACTCTATTGGTTTTTATAGTTGGGTTATGGTCTTACACCATG
1 CCCATGTTTAATGTCCTA--AAGACTCTATTAGTTGTCATAG-TGAGCTATGGTCTTACACCTTG
* * * *
75158442 TAACCCCATATTTAATGTCTTGGTGGACTCTT-TTGGTGT-TATAGTCGTGCTATCATCTTACA-
63 TAACCCCATATTTAATGTCCTGGCGGACT-TTATTGGT-TACATAGTCGGGCTATCATCTTACAT
75158504 CTGTATAA
126 CT-TATAA
75158512 GCCCATGTTTAATGTCCTAAAGGACTCTATTAGTTGTCATAGCTGAGCTATGGTCTTACACCTTG
1 -CCCATGTTTAATGTCCTAAA-GACTCTATTAGTTGTCATAG-TGAGCTATGGTCTTACACCTTG
* ** * **
75158577 CAACCTTATGTTTAATGTCCTGGCGGACTTTATTGGTTACCATAGTCGGGCTATGGTCTTACATC
63 TAACCCCATATTTAATGTCCTGGCGGACTTTATTGGTTA-CATAGTCGGGCTATCATCTTACATC
*
75158642 TTGTAA
127 TTATAA
* * * * *
75158648 CCCATGTTTAATATCCTAACAGAATCTATTATTTGTCAAAGTCGAGCTATGGTATTACACCTTGT
1 CCCATGTTTAATGTCCTAA-AGACTCTATTAGTTGTCATAGT-GAGCTATGGTCTTACACCTTGT
75158713 AACCC
64 AACCC
75158718 TTTTTGAGGC
Statistics
Matches: 172, Mismatches: 25, Indels: 16
0.81 0.12 0.08
Matches are distributed among these distances:
133 2 0.01
134 4 0.02
135 140 0.81
136 24 0.14
137 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (132 bp):
CCCATGTTTAATGTCCTAAAGACTCTATTAGTTGTCATAGTGAGCTATGGTCTTACACCTTGTAA
CCCCATATTTAATGTCCTGGCGGACTTTATTGGTTACATAGTCGGGCTATCATCTTACATCTTAT
AA
Found at i:75158691 original size:67 final size:67
Alignment explanation
Indices: 75158344--75158717 Score: 272
Period size: 67 Copynumber: 5.6 Consensus size: 67
75158334 CTCCATATGC
* * * * * *
75158344 TGTCATAGTCAAGCTATAGTCTTATA-CATGTAACCCCATGTTTAATGTCCTAGCAAACTCTATT
1 TGTCATAGTCGAGCTATGGTCTTACACCTTGTAA-CCCATGTTTAATGTCCTAACAGACTCTATT
*
75158408 GGT
65 AGT
* * * * * * * * ****
75158411 TTTTATAGTTGGGTTATGGTCTTACACCATGTAACCCCATATTTAATGTCTTGGTGGACTCT-TT
1 TGTCATAGTCGAGCTATGGTCTTACACCTTGTAA-CCCATGTTTAATGTCCTAACAGACTCTATT
* *
75158475 TGG
65 AGT
* * ** *
75158478 TGTTATAGTCGTGCTATCATCTTACA-CTGTATAAGCCCATGTTTAATGTCCTAA-AGGACTCTA
1 TGTCATAGTCGAGCTATGGTCTTACACCT-TGTAA-CCCATGTTTAATGTCCTAACA-GACTCTA
75158541 TTAGT
63 TTAGT
* * ** * *
75158546 TGTCATAG-CTGAGCTATGGTCTTACACCTTGCAACCTTATGTTTAATGTCCTGGCGGACTTTAT
1 TGTCATAGTC-GAGCTATGGTCTTACACCTTGTAACC-CATGTTTAATGTCCTAACAGACTCTAT
*
75158610 TGGT
64 TAGT
** * * * *
75158614 TACCATAGTCGGGCTATGGTCTTACATCTTGTAACCCATGTTTAATATCCTAACAGAATCTATTA
1 TGTCATAGTCGAGCTATGGTCTTACACCTTGTAACCCATGTTTAATGTCCTAACAGACTCTATTA
*
75158679 TT
66 GT
* *
75158681 TGTCAAAGTCGAGCTATGGTATTACACCTTGTAACCC
1 TGTCATAGTCGAGCTATGGTCTTACACCTTGTAACCC
75158718 TTTTTGAGGC
Statistics
Matches: 234, Mismatches: 64, Indels: 18
0.74 0.20 0.06
Matches are distributed among these distances:
66 1 0.00
67 122 0.52
68 108 0.46
69 3 0.01
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.38
Consensus pattern (67 bp):
TGTCATAGTCGAGCTATGGTCTTACACCTTGTAACCCATGTTTAATGTCCTAACAGACTCTATTA
GT
Found at i:75162550 original size:19 final size:20
Alignment explanation
Indices: 75162512--75162552 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
75162502 AGTGACAAGT
* *
75162512 ATGTGGTAATAGTGAAATAC
1 ATGTGGTAATAATAAAATAC
75162532 ATGTGGTAA-AATAAAATAC
1 ATGTGGTAATAATAAAATAC
75162551 AT
1 AT
75162553 ATATTTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.46, C:0.05, G:0.20, T:0.29
Consensus pattern (20 bp):
ATGTGGTAATAATAAAATAC
Found at i:75162562 original size:19 final size:19
Alignment explanation
Indices: 75162540--75162578 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
75162530 ACATGTGGTA
75162540 AAATAA-AATACATATATTT
1 AAATAATAATA-ATATATTT
*
75162559 AAATAATAATAATCTATTT
1 AAATAATAATAATATATTT
75162578 A
1 A
75162579 CTTATTATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATAATAATAATATATTT
Found at i:75162608 original size:5 final size:5
Alignment explanation
Indices: 75162598--75162643 Score: 64
Period size: 5 Copynumber: 10.0 Consensus size: 5
75162588 TAAGTAAATG
75162598 TTATA TTATA -T-TA TTATA TTATA TTATA TTA-A -TATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
75162644 ATAAAAGAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
3 4 0.11
4 4 0.11
5 29 0.78
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:75162616 original size:13 final size:13
Alignment explanation
Indices: 75162598--75162643 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 13
75162588 TAAGTAAATG
75162598 TTATATTATATTA
1 TTATATTATATTA
75162611 TTATATTATATTA
1 TTATATTATATTA
*
75162624 -TAT-TAATA-TA
1 TTATATTATATTA
75162634 TTATATTATA
1 TTATATTATA
75162644 ATAAAAGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
10 2 0.07
11 7 0.24
12 7 0.24
13 13 0.45
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TTATATTATATTA
Found at i:75162619 original size:18 final size:18
Alignment explanation
Indices: 75162598--75162643 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
75162588 TAAGTAAATG
*
75162598 TTATATTATATTATTATA
1 TTATATTATATTAATATA
75162616 TTATATTATATTAATATA
1 TTATATTATATTAATATA
75162634 TTATATTATA
1 TTATATTATA
75162644 ATAAAAGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTATATTATATTAATATA
Found at i:75162654 original size:23 final size:23
Alignment explanation
Indices: 75162609--75162654 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
75162599 TATATTATAT
* * **
75162609 TATTATATTATATTATATTAATA
1 TATTATATTATAATAAAAGAATA
75162632 TATTATATTATAATAAAAGAATA
1 TATTATATTATAATAAAAGAATA
75162655 AAACAAATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
TATTATATTATAATAAAAGAATA
Found at i:75162691 original size:19 final size:18
Alignment explanation
Indices: 75162654--75162692 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
75162644 ATAAAAGAAT
* *
75162654 AAAACAAATAAATGAAAC
1 AAAACAAAAAAAAGAAAC
75162672 AAAACAAAAAGAAAGAAAC
1 AAAACAAAAA-AAAGAAAC
75162691 AA
1 AA
75162693 GAAAAGAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.77, C:0.10, G:0.08, T:0.05
Consensus pattern (18 bp):
AAAACAAAAAAAAGAAAC
Found at i:75173082 original size:27 final size:28
Alignment explanation
Indices: 75172998--75173095 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
75172988 CATGAGATTG
* * * *
75172998 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
75173027 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
75173055 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
75173082 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
75173096 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:75173106 original size:27 final size:27
Alignment explanation
Indices: 75173026--75173108 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
75173016 TAAATTGTAC
* *
75173026 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
75173054 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
75173081 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
75173108 A
1 A
75173109 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:75173109 original size:29 final size:27
Alignment explanation
Indices: 75172998--75173109 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
75172988 CATGAGATTG
** * *
75172998 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
75173027 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
75173055 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
75173082 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
75173110 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:75174799 original size:22 final size:21
Alignment explanation
Indices: 75174772--75174820 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
75174762 TGTGAAAATA
*
75174772 TATTTAATTTC-TACATTCAAT
1 TATTTAATTTCGAAC-TTCAAT
75174793 TAATTTAATTTCGAACTTCAAT
1 T-ATTTAATTTCGAACTTCAAT
75174815 TATTTA
1 TATTTA
75174821 TTTAAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 6 0.24
22 17 0.68
23 2 0.08
ACGTcount: A:0.35, C:0.12, G:0.02, T:0.51
Consensus pattern (21 bp):
TATTTAATTTCGAACTTCAAT
Found at i:75179247 original size:15 final size:15
Alignment explanation
Indices: 75179227--75179256 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
75179217 GATCATTTCC
75179227 CCGTGCCAACATGTT
1 CCGTGCCAACATGTT
75179242 CCGTGCCAACATGTT
1 CCGTGCCAACATGTT
75179257 TGCTCATGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.33, G:0.20, T:0.27
Consensus pattern (15 bp):
CCGTGCCAACATGTT
Found at i:75185805 original size:18 final size:18
Alignment explanation
Indices: 75185782--75185864 Score: 105
Period size: 18 Copynumber: 4.6 Consensus size: 18
75185772 GCAGAGAACC
*
75185782 ATTTTGACTAGCATGACA
1 ATTTTGACCAGCATGACA
75185800 ATTTTGACCAGCATGACA
1 ATTTTGACCAGCATGACA
* * *
75185818 ATTTTGATCAGCATTATA
1 ATTTTGACCAGCATGACA
*
75185836 ATTTTGACCAGCATTG-TA
1 ATTTTGACCAGCA-TGACA
75185854 ATTTTGACCAG
1 ATTTTGACCAG
75185865 TAGTGTAATT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
18 57 0.98
19 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (18 bp):
ATTTTGACCAGCATGACA
Found at i:75185871 original size:18 final size:18
Alignment explanation
Indices: 75185799--75185879 Score: 92
Period size: 18 Copynumber: 4.5 Consensus size: 18
75185789 CTAGCATGAC
*
75185799 AATTTTGACCAGCA-TGAC
1 AATTTTGACCAGCAGTG-T
* * *
75185817 AATTTTGATCAGCATTAT
1 AATTTTGACCAGCAGTGT
*
75185835 AATTTTGACCAGCATTGT
1 AATTTTGACCAGCAGTGT
*
75185853 AATTTTGACCAGTAGTGT
1 AATTTTGACCAGCAGTGT
75185871 AATTTTGAC
1 AATTTTGAC
75185880 TAGAATTATA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
18 54 0.98
19 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (18 bp):
AATTTTGACCAGCAGTGT
Found at i:75185874 original size:36 final size:36
Alignment explanation
Indices: 75185782--75185879 Score: 101
Period size: 36 Copynumber: 2.7 Consensus size: 36
75185772 GCAGAGAACC
* *
75185782 ATTTTGACTAGCA-TGACAATTTTGACCAGCATGACA
1 ATTTTGACCAGCAGT-ATAATTTTGACCAGCATGACA
* * *
75185818 ATTTTGATCAGCATTATAATTTTGACCAGCATTG-TA
1 ATTTTGACCAGCAGTATAATTTTGACCAGCA-TGACA
* *
75185854 ATTTTGACCAGTAGTGTAATTTTGAC
1 ATTTTGACCAGCAGTATAATTTTGAC
75185880 TAGAATTATA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
36 49 0.94
37 3 0.06
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (36 bp):
ATTTTGACCAGCAGTATAATTTTGACCAGCATGACA
Found at i:75185888 original size:54 final size:54
Alignment explanation
Indices: 75185782--75185890 Score: 125
Period size: 54 Copynumber: 2.0 Consensus size: 54
75185772 GCAGAGAACC
* *
75185782 ATTTTGACTAGCATGACAATTTTGACCAGCATGACAATTTTGATCAGCATTATA
1 ATTTTGACCAGCATGACAATTTTGACCAGCATGACAATTTTGATCAGAATTATA
* * *
75185836 ATTTTGACCAGCATTG-TAATTTTGACCAGTAGTG-TAATTTTGA-CTAGAATTATA
1 ATTTTGACCAGCA-TGACAATTTTGACCAGCA-TGACAATTTTGATC-AGAATTATA
75185890 A
1 A
75185891 CTTCCACCAT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
53 1 0.02
54 42 0.89
55 4 0.09
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.38
Consensus pattern (54 bp):
ATTTTGACCAGCATGACAATTTTGACCAGCATGACAATTTTGATCAGAATTATA
Found at i:75186886 original size:21 final size:21
Alignment explanation
Indices: 75186847--75186886 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
75186837 GACTGATACC
*
75186847 ATGCTAGAAGAATAGAAGAAT
1 ATGCTAGAAGAACAGAAGAAT
75186868 ATGCTAGAAGGAACA-AAGA
1 ATGCTAGAA-GAACAGAAGA
75186887 GAACTTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.53, C:0.07, G:0.25, T:0.15
Consensus pattern (21 bp):
ATGCTAGAAGAACAGAAGAAT
Found at i:75188553 original size:78 final size:78
Alignment explanation
Indices: 75188458--75188605 Score: 226
Period size: 78 Copynumber: 1.9 Consensus size: 78
75188448 AAATGAAAGA
* * ** *
75188458 TTTGTTGTTCCCCTCGACTTACCTT-GGCCTTTTAAATTGACCTTCACTCAAAGGTAATTTCATT
1 TTTGTGGTTCCCCTCGACCTACCTTAACCCTTTT-AATTGACCTTCACTCAAAGCTAATTTCATT
*
75188522 AGGACAGAGAGTCC
65 AAGACAGAGAGTCC
75188536 TTTGTGGTTCCCCTCGACCTACCTTAACCCTTTTAATTGACCTTCACTCAAAGCTAATTTCATTA
1 TTTGTGGTTCCCCTCGACCTACCTTAACCCTTTTAATTGACCTTCACTCAAAGCTAATTTCATTA
75188601 AGACA
66 AGACA
75188606 AAGAATCATT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
78 57 0.90
79 6 0.10
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.36
Consensus pattern (78 bp):
TTTGTGGTTCCCCTCGACCTACCTTAACCCTTTTAATTGACCTTCACTCAAAGCTAATTTCATTA
AGACAGAGAGTCC
Found at i:75188799 original size:31 final size:32
Alignment explanation
Indices: 75188761--75188820 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
75188751 TTATCCACGG
75188761 CAAAGAAAACCCTA-TT-ATCTCTATCATAACT
1 CAAAGAAAACCCTACTTCA-CTCTATCATAACT
*
75188792 CAAAGAAAGCCCTACTTCACTCTATCATA
1 CAAAGAAAACCCTACTTCACTCTATCATA
75188821 TGATTTGCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 13 0.50
32 12 0.46
33 1 0.04
ACGTcount: A:0.40, C:0.28, G:0.05, T:0.27
Consensus pattern (32 bp):
CAAAGAAAACCCTACTTCACTCTATCATAACT
Found at i:75191808 original size:11 final size:10
Alignment explanation
Indices: 75191775--75191828 Score: 53
Period size: 11 Copynumber: 5.6 Consensus size: 10
75191765 CCTGGGCAGT
75191775 AGAAGAAAA-
1 AGAAGAAAAG
75191784 A-AAGAAAA-
1 AGAAGAAAAG
*
75191792 AAAAGAATAAG
1 AGAAGAA-AAG
75191803 AGAAGAAACAG
1 AGAAGAAA-AG
75191814 AGAAGAAAA-
1 AGAAGAAAAG
75191823 AGAAGA
1 AGAAGA
75191829 GGAGGAGAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
8 8 0.20
9 12 0.30
10 4 0.10
11 16 0.40
ACGTcount: A:0.74, C:0.02, G:0.22, T:0.02
Consensus pattern (10 bp):
AGAAGAAAAG
Found at i:75192187 original size:18 final size:20
Alignment explanation
Indices: 75192164--75192203 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
75192154 CTATTTATTT
75192164 TTCATTTT-TCTCC-ACTTC
1 TTCATTTTCTCTCCTACTTC
*
75192182 TTCATTTTCTTTCCTACTTC
1 TTCATTTTCTCTCCTACTTC
75192202 TT
1 TT
75192204 TTTCTTCACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 4 0.21
20 7 0.37
ACGTcount: A:0.10, C:0.30, G:0.00, T:0.60
Consensus pattern (20 bp):
TTCATTTTCTCTCCTACTTC
Found at i:75192888 original size:21 final size:21
Alignment explanation
Indices: 75192863--75192909 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
75192853 TTTCTTAAGT
75192863 CTTCTT-CTTTGTCACCTTTTG
1 CTTCTTCCTTTGT-ACCTTTTG
* *
75192884 CTTCTTCCTTTGTAGCTTTTT
1 CTTCTTCCTTTGTACCTTTTG
75192905 CTTCT
1 CTTCT
75192910 GCTGCTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.04, C:0.28, G:0.09, T:0.60
Consensus pattern (21 bp):
CTTCTTCCTTTGTACCTTTTG
Found at i:75196369 original size:24 final size:24
Alignment explanation
Indices: 75196334--75196381 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
75196324 AACAAGTTGC
*
75196334 ACGTTGTGGTCAAGCCATTAAATA
1 ACGTTGTAGTCAAGCCATTAAATA
*
75196358 ACGTTGTAGTCAAGCCATTGAATA
1 ACGTTGTAGTCAAGCCATTAAATA
75196382 TTGCAGTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (24 bp):
ACGTTGTAGTCAAGCCATTAAATA
Found at i:75197067 original size:30 final size:30
Alignment explanation
Indices: 75197032--75197091 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
75197022 AGTTTAAAGG
75197032 TAGTTCATTTTTTATTTATCATTTAAATTC
1 TAGTTCATTTTTTATTTATCATTTAAATTC
*
75197062 TAGTTCATTTTTTATTTATCTTTTAAATTC
1 TAGTTCATTTTTTATTTATCATTTAAATTC
75197092 CAAAAATATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.10, G:0.03, T:0.62
Consensus pattern (30 bp):
TAGTTCATTTTTTATTTATCATTTAAATTC
Found at i:75198120 original size:17 final size:18
Alignment explanation
Indices: 75198089--75198122 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
75198079 ATGAATTACT
75198089 GTTGTTATTACTATTATA
1 GTTGTTATTACTATTATA
*
75198107 GTTG-TATTATTATTAT
1 GTTGTTATTACTATTAT
75198123 TTACTCGCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.26, C:0.03, G:0.12, T:0.59
Consensus pattern (18 bp):
GTTGTTATTACTATTATA
Found at i:75200310 original size:46 final size:45
Alignment explanation
Indices: 75200243--75200506 Score: 213
Period size: 46 Copynumber: 5.7 Consensus size: 45
75200233 TGTAACACGC
* * *
75200243 CCATAAGC-GAACTCAGACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAA-CTGAACTCGGACTCAACTCAACGAGTTC-GGCGTTCACAT
* *
75200289 CCATAACTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ATAT
1 CCATAACTGAACTCGGACTCAACTCAACGAGTTC-G--G-C--GTTCACAT
*
75200339 -C-TCAC-GAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
1 CCATAACTGAACTCGGACTCAACTCAACGAGTTCGG-CGTTCACAT
* *
75200382 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGATACCTAGTT-ACAT
1 CCATAACTGAACTCGGACTCAACTCAACGAGTTC-G---GC--GTTCACAT
* * *
75200432 -C-TCAC-GAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
1 CCATAACTGAACTCGGACTCAACTCAACGAGTTC-GGCGTTCACAT
*
75200475 CCATAAGTGAACTCGGACTCAACTCAACGAGT
1 CCATAACTGAACTCGGACTCAACTCAACGAGT
75200507 CTGGATGCCC
Statistics
Matches: 179, Mismatches: 19, Indels: 40
0.75 0.08 0.17
Matches are distributed among these distances:
42 5 0.03
43 6 0.03
44 5 0.03
45 5 0.03
46 83 0.46
47 53 0.30
48 6 0.03
49 4 0.02
50 6 0.03
51 6 0.03
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (45 bp):
CCATAACTGAACTCGGACTCAACTCAACGAGTTCGGCGTTCACAT
Found at i:75200362 original size:47 final size:46
Alignment explanation
Indices: 75200297--75200464 Score: 209
Period size: 47 Copynumber: 3.6 Consensus size: 46
75200287 ATCCATAACT
* *
75200297 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTATATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGAT-CCTAGTTACATCTCAC
* *
75200344 GAACTCGGACTCAACTCAACGAGTTCGGA--C--GTTCACATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATCCTAGTT-ACAT-C-TCA-C
*
75200390 GAACTCGGACTCAACTCAACGAGTTCAGATACCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGAT-CCTAGTTACATCTCAC
75200437 GAACTCGGACTCAACTCAACGAGTTCGG
1 GAACTCGGACTCAACTCAACGAGTTCGG
75200465 GCATTCGCAT
Statistics
Matches: 104, Mismatches: 8, Indels: 18
0.80 0.06 0.14
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 2 0.02
45 2 0.02
46 28 0.27
47 55 0.53
48 2 0.02
49 2 0.02
50 4 0.04
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATCCTAGTTACATCTCAC
Found at i:75200366 original size:93 final size:91
Alignment explanation
Indices: 75200250--75200515 Score: 406
Period size: 93 Copynumber: 2.9 Consensus size: 91
75200240 CGCCCATAAG
* * *
75200250 CGAACTCAGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAACTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTC-GGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
75200315 ACGAGCTCGGATGCCTAGTTATATCTCA
65 ACGAG-TCGGATGCCTAGTTACATCTCA
*
75200343 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
75200408 ACGAGTTCAGATACCTAGTTACATCTCA
65 ACGAG-TCGGATGCCTAGTTACATCTCA
*
75200436 CGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTC-GGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
75200501 ACGAGTCTGGATGCC
65 ACGAGTC-GGATGCC
75200516 CAAATATCCT
Statistics
Matches: 158, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
92 4 0.03
93 152 0.96
94 2 0.01
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.21
Consensus pattern (91 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTCGGATGCCTAGTTACATCTCA
Found at i:75206628 original size:19 final size:19
Alignment explanation
Indices: 75206570--75206628 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 19
75206560 CAATTTTTTT
75206570 ACAATTTAATCCTTGTTATACA
1 ACAATTTAATCCTT-TT-T-CA
* * *
75206592 A-AATTTACTACTTGTTCA
1 ACAATTTAATCCTTTTTCA
75206610 ACAATTTAATCCTTTTTCA
1 ACAATTTAATCCTTTTTCA
75206629 TTTCCAGCAT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
18 3 0.10
19 15 0.50
20 1 0.03
21 10 0.33
22 1 0.03
ACGTcount: A:0.34, C:0.19, G:0.03, T:0.44
Consensus pattern (19 bp):
ACAATTTAATCCTTTTTCA
Done.