Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 134 of 153
Found at i:42104845 original size:43 final size:43
Alignment explanation
Indices: 42104749--42104846 Score: 103
Period size: 43 Copynumber: 2.3 Consensus size: 43
42104739 ACCTTGTCTA
* * * *
42104749 GGACATTGGCATCGTATATGATTTACGTGTAAGATCCTATCTG
1 GGACAGTGGCATCGTATATGATTTACATGTAAGATCCCATCTC
*
42104792 GGACAGTGGCATCGATATTTGA-TTACATGTAAGA-CCACATCTC
1 GGACAGTGGCATCG-TATATGATTTACATGTAAGATCC-CATCTC
42104835 GGAC-GATGGCAT
1 GGACAG-TGGCAT
42104847 TTTACGAGCT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
42 3 0.06
43 38 0.81
44 6 0.13
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (43 bp):
GGACAGTGGCATCGTATATGATTTACATGTAAGATCCCATCTC
Found at i:42106328 original size:23 final size:23
Alignment explanation
Indices: 42106282--42106573 Score: 264
Period size: 23 Copynumber: 12.6 Consensus size: 23
42106272 ATTTGGTGTA
* *
42106282 TATATATGTTGCCCAATTTAGTG
1 TATATATGCTGTCCAATTTAGTG
*
42106305 TATGA-ATGCTGTCCAATTTGGTG
1 TAT-ATATGCTGTCCAATTTAGTG
*
42106328 TATATATGCTGT-CAATTTTTGGTG
1 TATATATGCTGTCCAA--TTTAGTG
* * *
42106352 TATAAATGCTGTCCAAATTAGTA
1 TATATATGCTGTCCAATTTAGTG
* * *
42106375 TATATATGTTGCCCAATTTAGCG
1 TATATATGCTGTCCAATTTAGTG
* *
42106398 TATAAATGCTGTCTAATTTAGTG
1 TATATATGCTGTCCAATTTAGTG
*
42106421 TATATATGCTGTCAAATTTAGTG
1 TATATATGCTGTCCAATTTAGTG
* ** * * *
42106444 TATAAATATTGTCCAAATTGGTA
1 TATATATGCTGTCCAATTTAGTG
*
42106467 TATATATGCTGCCCAATTTAGTG
1 TATATATGCTGTCCAATTTAGTG
* * *
42106490 TATAAATGCTGTCCAAATTGGTG
1 TATATATGCTGTCCAATTTAGTG
* * *
42106513 TATATATGCTGTCAAATTTTGGTC
1 TATATATGCTGTCCAA-TTTAGTG
* *
42106537 TATATAAGCTGTCCAATTTTAGAG
1 TATATATGCTGTCCAA-TTTAGTG
*
42106561 TATAAATGCTGTC
1 TATATATGCTGTC
42106574 TGATTTGATG
Statistics
Matches: 214, Mismatches: 49, Indels: 11
0.78 0.18 0.04
Matches are distributed among these distances:
22 4 0.02
23 153 0.71
24 54 0.25
25 3 0.01
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (23 bp):
TATATATGCTGTCCAATTTAGTG
Found at i:42106419 original size:46 final size:46
Alignment explanation
Indices: 42106279--42106523 Score: 303
Period size: 46 Copynumber: 5.3 Consensus size: 46
42106269 ATAATTTGGT
* * *
42106279 GTATATATATGTTGCCCAATTTAGTGTATGAATGCTGTCCAATTTG
1 GTATATATATGCTGCCCAATTTAGTGTATAAATGCTGTCCAAATTG
* * * *
42106325 GTGTATATATGCTG-TCAATTTTTGGTGTATAAATGCTGTCCAAATTA
1 GTATATATATGCTGCCCAA--TTTAGTGTATAAATGCTGTCCAAATTG
* * * * *
42106372 GTATATATATGTTGCCCAATTTAGCGTATAAATGCTGTCTAATTTA
1 GTATATATATGCTGCCCAATTTAGTGTATAAATGCTGTCCAAATTG
* * * **
42106418 GTGTATATATGCTGTCAAATTTAGTGTATAAATATTGTCCAAATTG
1 GTATATATATGCTGCCCAATTTAGTGTATAAATGCTGTCCAAATTG
42106464 GTATATATATGCTGCCCAATTTAGTGTATAAATGCTGTCCAAATTG
1 GTATATATATGCTGCCCAATTTAGTGTATAAATGCTGTCCAAATTG
*
42106510 GTGTATATATGCTG
1 GTATATATATGCTG
42106524 TCAAATTTTG
Statistics
Matches: 166, Mismatches: 30, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
45 3 0.02
46 125 0.75
47 35 0.21
48 3 0.02
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (46 bp):
GTATATATATGCTGCCCAATTTAGTGTATAAATGCTGTCCAAATTG
Found at i:42106493 original size:92 final size:92
Alignment explanation
Indices: 42106279--42106531 Score: 398
Period size: 92 Copynumber: 2.7 Consensus size: 92
42106269 ATAATTTGGT
*
42106279 GTATATATATGTTGCCCAATTTAGTGTATGAATGCTGTCCAATTTGGTGTATATATGCTGTCAAT
1 GTATATATATGTTGCCCAATTTAGTGTATAAATGCTGTCCAATTTGGTGTATATATGCTGTCAA-
* * *
42106344 TTTTGGTGTATAAATGCTGTCCAAATTA
65 ATTTAGTGTATAAATACTGTCCAAATTA
* * *
42106372 GTATATATATGTTGCCCAATTTAGCGTATAAATGCTGTCTAATTTAGTGTATATATGCTGTCAAA
1 GTATATATATGTTGCCCAATTTAGTGTATAAATGCTGTCCAATTTGGTGTATATATGCTGTCAAA
* *
42106437 TTTAGTGTATAAATATTGTCCAAATTG
66 TTTAGTGTATAAATACTGTCCAAATTA
* *
42106464 GTATATATATGCTGCCCAATTTAGTGTATAAATGCTGTCCAAATTGGTGTATATATGCTGTCAAA
1 GTATATATATGTTGCCCAATTTAGTGTATAAATGCTGTCCAATTTGGTGTATATATGCTGTCAAA
42106529 TTT
66 TTT
42106532 TGGTCTATAT
Statistics
Matches: 146, Mismatches: 14, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
92 86 0.59
93 60 0.41
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (92 bp):
GTATATATATGTTGCCCAATTTAGTGTATAAATGCTGTCCAATTTGGTGTATATATGCTGTCAAA
TTTAGTGTATAAATACTGTCCAAATTA
Found at i:42106920 original size:3 final size:3
Alignment explanation
Indices: 42106912--42106945 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
42106902 ATTAGATCGA
42106912 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
42106946 TATATGGAAT
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):
AAT
Found at i:42109007 original size:11 final size:11
Alignment explanation
Indices: 42108993--42109018 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
42108983 TAATAAATAT
42108993 ATTTATTTTTA
1 ATTTATTTTTA
42109004 ATTTATTTTTA
1 ATTTATTTTTA
42109015 ATTT
1 ATTT
42109019 TAAAATATTT
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:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
ATTTATTTTTA
Found at i:42109019 original size:17 final size:17
Alignment explanation
Indices: 42108987--42109032 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
42108977 CCGATATAAT
* *
42108987 AAATATATTTATTTTTA
1 AAATATTTTTAATTTTA
**
42109004 ATTTATTTTTAATTTTA
1 AAATATTTTTAATTTTA
42109021 AAATATTTTTAA
1 AAATATTTTTAA
42109033 AATACTTTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
AAATATTTTTAATTTTA
Found at i:42109030 original size:11 final size:11
Alignment explanation
Indices: 42109016--42109135 Score: 87
Period size: 11 Copynumber: 11.4 Consensus size: 11
42109006 TTATTTTTAA
42109016 TTTTAAAATAT
1 TTTTAAAATAT
42109027 TTTTAAAATACT
1 TTTTAAAATA-T
** *
42109039 TTTTTTATTAT
1 TTTTAAAATAT
*
42109050 TTTT----TAA
1 TTTTAAAATAT
42109057 TTTTAAAATAT
1 TTTTAAAATAT
42109068 TTTTAAAATACTT
1 TTTTAAAATA--T
* *
42109081 TTTTAAAAAAA
1 TTTTAAAATAT
42109092 TTTT---A-A-
1 TTTTAAAATAT
42109098 TTTTAAAATAT
1 TTTTAAAATAT
42109109 TTTTAAAATAT
1 TTTTAAAATAT
42109120 TTTTAAAATACT
1 TTTTAAAATA-T
42109132 TTTT
1 TTTT
42109136 TTAATTTTTA
Statistics
Matches: 89, Mismatches: 7, Indels: 25
0.74 0.06 0.21
Matches are distributed among these distances:
6 4 0.04
7 7 0.08
8 1 0.01
9 1 0.01
10 1 0.01
11 52 0.58
12 13 0.15
13 10 0.11
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:42109055 original size:41 final size:41
Alignment explanation
Indices: 42109009--42109150 Score: 196
Period size: 41 Copynumber: 3.4 Consensus size: 41
42108999 TTTTAATTTA
* *
42109009 TTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTATTAT
1 TTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAAATAT
* *
42109050 TTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAAAAAA
1 TTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAAATAT
* *
42109091 ATTTTAATTTTAAAATATTTTTAAAATA-TTTTTAAAATACTT
1 TTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAAATA--T
42109133 TTTTTAATTTTTAAAATA
1 TTTTTAA-TTTTAAAATA
42109151 AATTTTTTGT
Statistics
Matches: 89, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
40 9 0.10
41 64 0.72
42 6 0.07
43 10 0.11
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (41 bp):
TTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAAATAT
Found at i:42109083 original size:30 final size:30
Alignment explanation
Indices: 42109027--42109086 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
42109017 TTTAAAATAT
** *
42109027 TTTTAAAATACTTTTTTTATTATTTTTTAA
1 TTTTAAAATACTTTTTAAAATATTTTTTAA
42109057 TTTTAAAATA-TTTTTAAAATACTTTTTTAA
1 TTTTAAAATACTTTTTAAAATA-TTTTTTAA
42109087 AAAAATTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (30 bp):
TTTTAAAATACTTTTTAAAATATTTTTTAA
Found at i:42109142 original size:21 final size:20
Alignment explanation
Indices: 42109092--42109150 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
42109082 TTTAAAAAAA
42109092 TTTTAA-TTTTAAAATATTT
1 TTTTAATTTTTAAAATATTT
**
42109111 TTAAAATATTTTTAAAATACTTT
1 TT-TTA-ATTTTTAAAATA-TTT
42109134 TTTTAATTTTTAAAATA
1 TTTTAATTTTTAAAATA
42109151 AATTTTTTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
19 2 0.06
20 1 0.03
21 13 0.41
22 11 0.34
23 5 0.16
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTAATTTTTAAAATATTT
Found at i:42109156 original size:22 final size:22
Alignment explanation
Indices: 42109117--42109176 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
42109107 ATTTTTAAAA
*
42109117 TATTTTTAAAAT-ACTTTTTT-
1 TATTTTTAAAATAAATTTTTTG
42109137 TAATTTTTAAAATAAATTTTTTG
1 T-ATTTTTAAAATAAATTTTTTG
42109160 TATTTATTAAAA-AAATT
1 TATTT-TTAAAATAAATT
42109177 GGATGGGCCA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
20 1 0.03
21 11 0.31
22 16 0.46
23 7 0.20
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
TATTTTTAAAATAAATTTTTTG
Found at i:42110320 original size:32 final size:31
Alignment explanation
Indices: 42110275--42110370 Score: 165
Period size: 31 Copynumber: 3.1 Consensus size: 31
42110265 CTTAGATAAT
*
42110275 TTTAAAGAGTTTTATTAAGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
42110306 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
42110338 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
42110369 TT
1 TT
42110371 GTAATTTGCC
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
31 33 0.53
32 29 0.47
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:42110950 original size:17 final size:17
Alignment explanation
Indices: 42110930--42110981 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
42110920 TAAAAGCAAA
* *
42110930 AAAAAAGTAAAAACAGC
1 AAAAAAGCAAAAAAAGC
*
42110947 AAAAAAACAAAAAAAGC
1 AAAAAAGCAAAAAAAGC
42110964 AAAAAAGCGCAAAAAAAG
1 AAAAAA--GCAAAAAAAG
42110982 AGAGTAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 20 0.69
19 9 0.31
ACGTcount: A:0.75, C:0.12, G:0.12, T:0.02
Consensus pattern (17 bp):
AAAAAAGCAAAAAAAGC
Found at i:42110957 original size:8 final size:9
Alignment explanation
Indices: 42110929--42111070 Score: 69
Period size: 9 Copynumber: 14.8 Consensus size: 9
42110919 ATAAAAGCAA
*
42110929 AAAAAAAGT
1 AAAAAAAGC
*
42110938 AAAAACAGC
1 AAAAAAAGC
42110947 AAAAAAA-C
1 AAAAAAAGC
42110955 AAAAAAAGC
1 AAAAAAAGC
*
42110964 AAAAAAGCGC
1 AAAAAA-AGC
42110974 AAAAAAAG-
1 AAAAAAAGC
42110982 AGAGTAAAAAGCGC
1 A-A--AAAAA--GC
*
42110996 AAAAAAAAGT
1 -AAAAAAAGC
42111006 AAAAAAAGCGC
1 AAAAAAA--GC
42111017 AAAAAAAG-
1 AAAAAAAGC
*
42111025 AGTAAAAAGCGC
1 A--AAAAA-AGC
42111037 AAAAAAAAGC
1 -AAAAAAAGC
42111047 --AAAAAGC
1 AAAAAAAGC
*
42111054 AAAAAAGCGC
1 AAAAAA-AGC
42111064 AAAAAAA
1 AAAAAAA
42111071 AAGTTGCCTA
Statistics
Matches: 103, Mismatches: 11, Indels: 38
0.68 0.07 0.25
Matches are distributed among these distances:
7 7 0.07
8 10 0.10
9 34 0.33
10 24 0.23
11 19 0.18
12 5 0.05
13 2 0.02
14 1 0.01
15 1 0.01
ACGTcount: A:0.71, C:0.11, G:0.15, T:0.03
Consensus pattern (9 bp):
AAAAAAAGC
Found at i:42110990 original size:22 final size:21
Alignment explanation
Indices: 42110965--42111045 Score: 121
Period size: 21 Copynumber: 3.9 Consensus size: 21
42110955 AAAAAAAGCA
42110965 AAAAAGCGCAAAAAAAGAGAGT
1 AAAAAGCGCAAAAAAA-AGAGT
*
42110987 AAAAAGCGCAAAAAAAAGTA-A
1 AAAAAGCGCAAAAAAAAG-AGT
42111008 AAAAAGCGC-AAAAAAAGAGT
1 AAAAAGCGCAAAAAAAAGAGT
42111028 AAAAAGCGCAAAAAAAAG
1 AAAAAGCGCAAAAAAAAG
42111046 CAAAAAGCAA
Statistics
Matches: 54, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
19 1 0.02
20 17 0.31
21 19 0.35
22 17 0.31
ACGTcount: A:0.68, C:0.10, G:0.19, T:0.04
Consensus pattern (21 bp):
AAAAAGCGCAAAAAAAAGAGT
Found at i:42111003 original size:43 final size:40
Alignment explanation
Indices: 42110955--42111051 Score: 158
Period size: 41 Copynumber: 2.4 Consensus size: 40
42110945 GCAAAAAAAC
42110955 AAAAAAAGCAAAAAAGCGCAAAAAAAGAGAGTAAAAAGCGCA
1 AAAAAAAGCAAAAAAGCGC-AAAAAA-AGAGTAAAAAGCGCA
*
42110997 AAAAAAAGTAAAAAAAGCGCAAAAAAAGAGTAAAAAGCGCA
1 AAAAAAAG-CAAAAAAGCGCAAAAAAAGAGTAAAAAGCGCA
42111038 AAAAAAAGCAAAAA
1 AAAAAAAGCAAAAA
42111052 GCAAAAAAGC
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
40 5 0.10
41 23 0.44
42 14 0.27
43 10 0.19
ACGTcount: A:0.70, C:0.10, G:0.16, T:0.03
Consensus pattern (40 bp):
AAAAAAAGCAAAAAAGCGCAAAAAAAGAGTAAAAAGCGCA
Found at i:42111068 original size:17 final size:17
Alignment explanation
Indices: 42111015--42111059 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 17
42111005 TAAAAAAAGC
*
42111015 GCAAAAAAAGAGTAAAAA
1 GCAAAAAAA-AGCAAAAA
42111033 GCGCAAAAAAAAGCAAAAA
1 --GCAAAAAAAAGCAAAAA
42111052 GCAAAAAA
1 GCAAAAAA
42111060 GCGCAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 8 0.33
19 7 0.29
20 9 0.38
ACGTcount: A:0.71, C:0.11, G:0.16, T:0.02
Consensus pattern (17 bp):
GCAAAAAAAAGCAAAAA
Found at i:42111073 original size:21 final size:19
Alignment explanation
Indices: 42110955--42111053 Score: 117
Period size: 20 Copynumber: 4.8 Consensus size: 19
42110945 GCAAAAAAAC
42110955 AAAAAAAGCAAAAAAGCGCA
1 AAAAAAAG-AAAAAAGCGCA
42110975 AAAAAAGAGAGTAAAAAGCGCA
1 AAAAAA-AGA--AAAAAGCGCA
42110997 AAAAAAAGTAAAAAAAGCGCA
1 AAAAAAAG--AAAAAAGCGCA
*
42111018 AAAAAAGAGTAAAAAGCGCA
1 AAAAAA-AGAAAAAAGCGCA
*
42111038 AAAAAAAGCAAAAAGC
1 AAAAAAAGAAAAAAGC
42111054 AAAAAAGCGC
Statistics
Matches: 71, Mismatches: 2, Indels: 13
0.83 0.02 0.15
Matches are distributed among these distances:
19 9 0.13
20 23 0.32
21 20 0.28
22 18 0.25
23 1 0.01
ACGTcount: A:0.69, C:0.11, G:0.17, T:0.03
Consensus pattern (19 bp):
AAAAAAAGAAAAAAGCGCA
Found at i:42115272 original size:32 final size:32
Alignment explanation
Indices: 42115231--42115339 Score: 202
Period size: 32 Copynumber: 3.4 Consensus size: 32
42115221 CGGGAATGCA
42115231 ATTCAATTACTCTTTAAAGAGTTTTTATTAGG
1 ATTCAATTACTCTTTAAAGAGTTTTTATTAGG
42115263 ATTCAATTACTCTTTAAAGAGTTTTTATTAGG
1 ATTCAATTACTCTTTAAAGAGTTTTTATTAGG
*
42115295 ATTCAATTACTCTTGAAAGAG-TTTTATTAGG
1 ATTCAATTACTCTTTAAAGAGTTTTTATTAGG
42115326 ATTCAATTACTCTT
1 ATTCAATTACTCTT
42115340 GTAATTTGCC
Statistics
Matches: 76, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
31 24 0.32
32 52 0.68
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.46
Consensus pattern (32 bp):
ATTCAATTACTCTTTAAAGAGTTTTTATTAGG
Found at i:42117429 original size:13 final size:13
Alignment explanation
Indices: 42117411--42117467 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 13
42117401 ATAAAACTTT
42117411 TTAAATATATATA
1 TTAAATATATATA
42117424 TTAAATATATAT-
1 TTAAATATATATA
42117436 TT---T-T-TA-A
1 TTAAATATATATA
*
42117443 TCAAATATATATA
1 TTAAATATATATA
42117456 TTAAATATATAT
1 TTAAATATATAT
42117468 TTTTATTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
7 3 0.09
8 1 0.03
9 1 0.03
10 1 0.03
11 1 0.03
12 4 0.11
13 24 0.69
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (13 bp):
TTAAATATATATA
Found at i:42117450 original size:17 final size:18
Alignment explanation
Indices: 42117426--42117512 Score: 88
Period size: 19 Copynumber: 4.8 Consensus size: 18
42117416 TATATATATT
42117426 AAATATATATTTTTTAATC
1 AAATATATA-TTTTTAATC
* *
42117445 AAATATATATATTAAAT-
1 AAATATATATTTTTAATC
* *
42117462 ATATATTTTTATTTTTAATC
1 A-A-ATATATATTTTTAATC
*
42117482 AAATATA-CTTTTTAATC
1 AAATATATATTTTTAATC
42117499 AAATATATATTTTT
1 AAATATATATTTTT
42117513 TTGGTGTTGT
Statistics
Matches: 54, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
17 17 0.31
18 15 0.28
19 21 0.39
20 1 0.02
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.53
Consensus pattern (18 bp):
AAATATATATTTTTAATC
Found at i:42118015 original size:51 final size:51
Alignment explanation
Indices: 42117915--42118015 Score: 118
Period size: 51 Copynumber: 2.0 Consensus size: 51
42117905 AATAATAAAT
* * *
42117915 TTAACCCTCAAATTTTACATATTAAATCAATTTGATCATAATTTTAAAAAA
1 TTAACCCTCAAACTTTACATAATAAATCAATTTGATCATAATTTAAAAAAA
*
42117966 TTAACCCTCAAACTTTACA-AATAATCTCAAATTT-ATC-TAATTCTAAAAAA
1 TTAACCCTCAAACTTTACATAATAA-ATC-AATTTGATCATAATT-TAAAAAA
42118016 TATATCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
50 9 0.21
51 29 0.67
52 5 0.12
ACGTcount: A:0.46, C:0.17, G:0.01, T:0.37
Consensus pattern (51 bp):
TTAACCCTCAAACTTTACATAATAAATCAATTTGATCATAATTTAAAAAAA
Found at i:42120494 original size:23 final size:23
Alignment explanation
Indices: 42120468--42120803 Score: 128
Period size: 23 Copynumber: 14.4 Consensus size: 23
42120458 TGGACAACTA
*
42120468 TTATACAACAATTTGGACAGCAT
1 TTATACAAAAATTTGGACAGCAT
* * * *
42120491 TTATATACCAAA-CTAGACAGCAT
1 TTATACA-AAAATTTGGACAGCAT
*
42120514 TT-TCACACCAAAATTTAGACAGCAT
1 TTAT-ACA--AAAATTTGGACAGCAT
* ** *
42120539 ATATACAGCAATTTGGGCAGCAT
1 TTATACAAAAATTTGGACAGCAT
* *
42120562 ATATACAACAATTT-GAGCAGCATTTTT
1 TTATACAAAAATTTGGA-CAGCA----T
* *
42120589 TTTTCACCAAAA-TTGGACAGCAT
1 TTAT-ACAAAAATTTGGACAGCAT
* *
42120612 ATATAC-AAAA-TTGGACTGCAT
1 TTATACAAAAATTTGGACAGCAT
42120633 TTATACATCAAAATTT-GACAGCA-
1 TTATACA--AAAATTTGGACAGCAT
* *
42120656 -TATACATAAATAATTGGACTGCAT
1 TTATACA-AAA-ATTTGGACAGCAT
42120680 TTATACATCAAAATTT-GACAGCAT
1 TTATACA--AAAATTTGGACAGCAT
* * * *
42120704 ATATA-TATAA-TTGGACTGCAT
1 TTATACAAAAATTTGGACAGCAT
42120725 TTATACATCAAAATTT-GACAGCAT
1 TTATACA--AAAATTTGGACAGCAT
* * * *
42120749 ATATA-TAAAA-TTGAACTGCAT
1 TTATACAAAAATTTGGACAGCAT
42120770 TTATACATCAAAATTT-GACAGCAT
1 TTATACA--AAAATTTGGACAGCAT
* *
42120794 ATGTACAAAA
1 TTATACAAAA
42120804 TTGAACAGCA
Statistics
Matches: 234, Mismatches: 48, Indels: 63
0.68 0.14 0.18
Matches are distributed among these distances:
20 4 0.02
21 50 0.21
22 16 0.07
23 58 0.25
24 56 0.24
25 29 0.12
26 4 0.02
27 10 0.04
28 7 0.03
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.31
Consensus pattern (23 bp):
TTATACAAAAATTTGGACAGCAT
Found at i:42120585 original size:71 final size:70
Alignment explanation
Indices: 42120469--42120639 Score: 172
Period size: 71 Copynumber: 2.4 Consensus size: 70
42120459 GGACAACTAT
*
42120469 TATACAACAATTTGGACAGCATTTATATACCAAACTAGACAGCA-TTTTCACACCAAAATTTAGA
1 TATACAACAATTTGGACAGCA-TTATATACAAAACTAGACAGCATTTTTCACACCAAAA-TTAGA
42120533 CAGCATA
64 CAGCATA
* * * * ** *
42120540 TATACAGCAATTTGGGCAGCA-TATATACAACAATTTGAGCAGCATTTTTTTTTCACCAAAATTG
1 TATACAACAATTTGGACAGCATTATATACAA-AACTAGA-CAGCA--TTTTTCACACCAAAATTA
42120604 GACAGCATA
62 GACAGCATA
*
42120613 TATACAA-AA-TTGGACTGCATT-TATACA
1 TATACAACAATTTGGACAGCATTATATACA
42120640 TCAAAATTTG
Statistics
Matches: 83, Mismatches: 11, Indels: 12
0.78 0.10 0.11
Matches are distributed among these distances:
69 8 0.10
70 5 0.06
71 38 0.46
72 3 0.04
73 17 0.20
74 12 0.14
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (70 bp):
TATACAACAATTTGGACAGCATTATATACAAAACTAGACAGCATTTTTCACACCAAAATTAGACA
GCATA
Found at i:42120648 original size:73 final size:72
Alignment explanation
Indices: 42120519--42120656 Score: 172
Period size: 73 Copynumber: 1.9 Consensus size: 72
42120509 AGCATTTTCA
* * *
42120519 CACCAAAATTTAGACAGCATATATACAGCAATTTGGGCAGCATATATACAACAATTTGAGCAGCA
1 CACCAAAATTTAGACAGCATATATACA-CAAATTGGACAGCATATATACAAAAATTTGA-CAGCA
42120584 TTTTTTTTT
64 TTTTTTTTT
* * *
42120593 CACCAAAA-TTGGACAGCATATATACA-AAATTGGACTGCATTTATACATCAAAATTTGACAGCA
1 CACCAAAATTTAGACAGCATATATACACAAATTGGACAGCATATATACA--AAAATTTGACAGCA
42120656 T
64 T
42120657 ATACATAAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
71 17 0.30
72 6 0.11
73 25 0.45
74 8 0.14
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.30
Consensus pattern (72 bp):
CACCAAAATTTAGACAGCATATATACACAAATTGGACAGCATATATACAAAAATTTGACAGCATT
TTTTTTT
Found at i:42120716 original size:92 final size:90
Alignment explanation
Indices: 42120596--42120806 Score: 350
Period size: 92 Copynumber: 2.3 Consensus size: 90
42120586 TTTTTTTCAC
*
42120596 CAAAATTGGACAGCATATATACAAAATTGGACTGCATTTATACATCAAAATTTGACAGCATATAC
1 CAAAATTTGACAGCATATATACAAAATTGGACTGCATTTATACATCAAAATTTGACAGCATATAC
*
42120661 ATAAATAATTGGACTGCATTTATACAT
66 AT-AA-AATTGAACTGCATTTATACAT
* * *
42120688 CAAAATTTGACAGCATATATATATAATTGGACTGCATTTATACATCAAAATTTGACAGCATATAT
1 CAAAATTTGACAGCATATATACAAAATTGGACTGCATTTATACATCAAAATTTGACAGCATATAC
42120753 ATAAAATTGAACTGCATTTATACAT
66 ATAAAATTGAACTGCATTTATACAT
*
42120778 CAAAATTTGACAGCATATGTACAAAATTG
1 CAAAATTTGACAGCATATATACAAAATTG
42120807 AACAGCACAT
Statistics
Matches: 111, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
90 46 0.41
91 2 0.02
92 63 0.57
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (90 bp):
CAAAATTTGACAGCATATATACAAAATTGGACTGCATTTATACATCAAAATTTGACAGCATATAC
ATAAAATTGAACTGCATTTATACAT
Found at i:42120809 original size:45 final size:45
Alignment explanation
Indices: 42120596--42120806 Score: 334
Period size: 45 Copynumber: 4.6 Consensus size: 45
42120586 TTTTTTTCAC
*
42120596 CAAAATTGGACAGCATATATACAAAATTGGACTGCATTTATACAT
1 CAAAATTTGACAGCATATATACAAAATTGGACTGCATTTATACAT
42120641 CAAAATTTGACAGCATATACATA-AATAATTGGACTGCATTTATACAT
1 CAAAATTTGACAGCATAT--ATACAA-AATTGGACTGCATTTATACAT
* *
42120688 CAAAATTTGACAGCATATATATATAATTGGACTGCATTTATACAT
1 CAAAATTTGACAGCATATATACAAAATTGGACTGCATTTATACAT
* *
42120733 CAAAATTTGACAGCATATATATAAAATTGAACTGCATTTATACAT
1 CAAAATTTGACAGCATATATACAAAATTGGACTGCATTTATACAT
*
42120778 CAAAATTTGACAGCATATGTACAAAATTG
1 CAAAATTTGACAGCATATATACAAAATTG
42120807 AACAGCACAT
Statistics
Matches: 156, Mismatches: 6, Indels: 8
0.92 0.04 0.05
Matches are distributed among these distances:
45 111 0.71
46 3 0.02
47 42 0.27
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (45 bp):
CAAAATTTGACAGCATATATACAAAATTGGACTGCATTTATACAT
Found at i:42121180 original size:14 final size:15
Alignment explanation
Indices: 42121156--42121190 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
42121146 TATATACATT
42121156 ACCATATAAATACTA
1 ACCATATAAATACTA
42121171 ACCATA-AAATACTA
1 ACCATATAAATACTA
42121185 ATCCAT
1 A-CCAT
42121191 GATTAAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (15 bp):
ACCATATAAATACTA
Found at i:42121899 original size:43 final size:43
Alignment explanation
Indices: 42121833--42121948 Score: 166
Period size: 43 Copynumber: 2.7 Consensus size: 43
42121823 AACTCGTACA
* *
42121833 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATA-TCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACA-AGTCG
42121876 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAAACACAAGTCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAACACAAGTCG
42121919 ATGCCAACGTCCCAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG
42121949 ATAACATATA
Statistics
Matches: 66, Mismatches: 2, Indels: 10
0.85 0.03 0.13
Matches are distributed among these distances:
42 4 0.06
43 59 0.89
44 3 0.05
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACAAGTCG
Found at i:42130874 original size:25 final size:25
Alignment explanation
Indices: 42130846--42130894 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
42130836 GAAAGAAAGA
42130846 AAGTTACAAGTATAAGAAGTTATAC
1 AAGTTACAAGTATAAGAAGTTATAC
42130871 AAGTTACAAGTATAAGAAGTTATA
1 AAGTTACAAGTATAAGAAGTTATA
42130895 AGAATAGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.49, C:0.06, G:0.16, T:0.29
Consensus pattern (25 bp):
AAGTTACAAGTATAAGAAGTTATAC
Found at i:42140244 original size:83 final size:83
Alignment explanation
Indices: 42140105--42140272 Score: 309
Period size: 83 Copynumber: 2.0 Consensus size: 83
42140095 GGCATCTATC
*
42140105 TGAAACTATGGAAGATGGGATTCCATGTAGGCGCAATATATCAGAAACATAGCTCTCAGGTAACC
1 TGAAACTATGGAAGATGGGATTCCATGCAGGCGCAATATATCAGAAACATAGCTCTCAGGTAACC
42140170 TTTCCAAAGAATAAGTAG
66 TTTCCAAAGAATAAGTAG
*
42140188 TGAAACTATGGAAGATGGGATTCCATGCAGGCGCAATATATTAGAAACATAGCTCTCAGGTAACC
1 TGAAACTATGGAAGATGGGATTCCATGCAGGCGCAATATATCAGAAACATAGCTCTCAGGTAACC
*
42140253 TTTCCAAGGAATAAGTAG
66 TTTCCAAAGAATAAGTAG
42140271 TG
1 TG
42140273 TACATTGGCA
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 82 1.00
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.24
Consensus pattern (83 bp):
TGAAACTATGGAAGATGGGATTCCATGCAGGCGCAATATATCAGAAACATAGCTCTCAGGTAACC
TTTCCAAAGAATAAGTAG
Found at i:42146099 original size:23 final size:22
Alignment explanation
Indices: 42146069--42146118 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
42146059 AATCTTAGAG
*
42146069 GATTTAT-AATCTTAAAAGATTT
1 GATTTATAAATCCT-AAAGATTT
*
42146091 GATTCTATAAATCCTAGAGATTT
1 GATT-TATAAATCCTAAAGATTT
42146114 GATTT
1 GATTT
42146119 TGTAGATAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
22 5 0.21
23 14 0.58
24 5 0.21
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (22 bp):
GATTTATAAATCCTAAAGATTT
Found at i:42150062 original size:20 final size:18
Alignment explanation
Indices: 42150018--42150086 Score: 61
Period size: 17 Copynumber: 3.8 Consensus size: 18
42150008 AACATAAAAT
*
42150018 TATATTTATAATTTTTTA
1 TATATTTATAATTTTTAA
*
42150036 TAAATTTATATATTTTTAAA
1 TATATTTATA-ATTTTT-AA
*
42150056 TATATTTTTAGA-TTTT-A
1 TATATTTATA-ATTTTTAA
*
42150073 TATATTTTTAATTT
1 TATATTTATAATTT
42150087 CAAAATAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
16 1 0.02
17 13 0.30
18 9 0.21
19 10 0.23
20 10 0.23
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (18 bp):
TATATTTATAATTTTTAA
Found at i:42150077 original size:17 final size:16
Alignment explanation
Indices: 42150040--42150086 Score: 57
Period size: 12 Copynumber: 3.1 Consensus size: 16
42150030 TTTTTATAAA
42150040 TTTATATATTTTTAA-
1 TTTATATATTTTTAAT
42150055 ---ATATATTTTTAGAT
1 TTTATATATTTTTA-AT
42150069 TTTATATATTTTTAAT
1 TTTATATATTTTTAAT
42150085 TT
1 TT
42150087 CAAAATAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
12 11 0.41
13 1 0.04
16 4 0.15
17 11 0.41
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (16 bp):
TTTATATATTTTTAAT
Found at i:42150125 original size:2 final size:2
Alignment explanation
Indices: 42150116--42150146 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
42150106 AGTTATATGT
42150116 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
42150147 AATGCTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:42153879 original size:21 final size:21
Alignment explanation
Indices: 42153855--42153894 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
42153845 CGGCCGTATA
42153855 TCTCAGCCACATGGTCGTGCC
1 TCTCAGCCACATGGTCGTGCC
**
42153876 TCTCATTCACATGGTCGTG
1 TCTCAGCCACATGGTCGTG
42153895 TACCCCTGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.33, G:0.23, T:0.30
Consensus pattern (21 bp):
TCTCAGCCACATGGTCGTGCC
Found at i:42163665 original size:18 final size:16
Alignment explanation
Indices: 42163630--42163669 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
42163620 CAGATCCGAT
*
42163630 TCAAATTCAAAAAAAA
1 TCAAAATCAAAAAAAA
42163646 TCAAAATCAAAATTAAAA
1 TCAAAATCAAAA--AAAA
42163664 TCAAAA
1 TCAAAA
42163670 AAGAAAAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.52
18 10 0.48
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (16 bp):
TCAAAATCAAAAAAAA
Found at i:42165457 original size:43 final size:43
Alignment explanation
Indices: 42165408--42165545 Score: 106
Period size: 42 Copynumber: 3.2 Consensus size: 43
42165398 AGATGGTAGA
42165408 TCTTGCCTTCCTGCATTAACAGTGAAGCAGATCGAAAACAAAG
1 TCTTGCCTTCCTGCATTAACAGTGAAGCAGATCGAAAACAAAG
* * * * * * *
42165451 TCTTGCC-TCCAT-CGGTT-GCAGTGGAGCTGGT-TAAAGATGGTAAA-
1 TCTTGCCTTCC-TGC-ATTAACAGTGAAGCAGATCGAAA-A---CAAAG
*
42165495 TCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAG
1 TCTTGCCTTCCTGCATTAACAGTGAAGCAGATCGAAAACAAAG
*
42165538 CCTTGCCT
1 TCTTGCCT
42165546 CCATCAGTTG
Statistics
Matches: 68, Mismatches: 16, Indels: 22
0.64 0.15 0.21
Matches are distributed among these distances:
41 3 0.04
42 18 0.26
43 17 0.25
44 10 0.15
45 17 0.25
46 3 0.04
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (43 bp):
TCTTGCCTTCCTGCATTAACAGTGAAGCAGATCGAAAACAAAG
Found at i:42165498 original size:87 final size:87
Alignment explanation
Indices: 42165349--42165703 Score: 505
Period size: 87 Copynumber: 4.1 Consensus size: 87
42165339 AGATCAGTGA
* ** * *
42165349 AGATCAAAAACAAAGCCTTGCCTCCATCCATTGCAGTGGAGCTGGTTAAAGATGGTAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
*
42165414 CTTCCTGCATTAACAGTGAAGC
66 CTTCCTGCATTAACAGCGAAGC
* * * *
42165436 AGATCGAAAACAAAGTCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATGGTAAATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
42165501 CTTCCTGCATTAACAGCGAAGC
66 CTTCCTGCATTAACAGCGAAGC
* *
42165523 AGATCGAAAACAAAGCCTTGCCTCCATCAGTTGCAGTGGAGCTGGTTAAAGATAGCAGATATTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* *
42165588 CTTCCTGCGTTAATAGCGAAGC
66 CTTCCTGCATTAACAGCGAAGC
* * * *
42165610 AGATCAAAAACGAAG-CTTGCCTCCATCGTTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* * * *
42165674 CCTCCTGCGTCAACAGTGAAGC
66 CTTCCTGCATTAACAGCGAAGC
42165696 AGATCGAA
1 AGATCGAA
42165704 GATTACAAGT
Statistics
Matches: 243, Mismatches: 25, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
86 70 0.29
87 173 0.71
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (87 bp):
AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
CTTCCTGCATTAACAGCGAAGC
Found at i:42165958 original size:44 final size:44
Alignment explanation
Indices: 42165907--42166008 Score: 125
Period size: 44 Copynumber: 2.3 Consensus size: 44
42165897 AGGTTGCAGC
**
42165907 GGAGCAGACTG-AGAAAGCAGGTCTTATCCCCCTGAAGTCACAGT
1 GGAGCAGACTGAAG-AAGCAAATCTTATCCCCCTGAAGTCACAGT
* * * *
42165951 GGGGCAGACTGAAGAAGTAAATCTTATCTCCCTGAAGTTACAGT
1 GGAGCAGACTGAAGAAGCAAATCTTATCCCCCTGAAGTCACAGT
*
42165995 GGAGCAGATTGAAG
1 GGAGCAGACTGAAG
42166009 CCGATAATCC
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 47 0.96
45 2 0.04
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.21
Consensus pattern (44 bp):
GGAGCAGACTGAAGAAGCAAATCTTATCCCCCTGAAGTCACAGT
Found at i:42166023 original size:44 final size:44
Alignment explanation
Indices: 42165931--42166243 Score: 145
Period size: 44 Copynumber: 7.2 Consensus size: 44
42165921 AAGCAGGTCT
* * * * *
42165931 TATCCCCCTGAAGTCACAGTGGGGCAGACTGAAGAAGTAAATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGAAGTAAATCC
**
42165975 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCG-ATAATCC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGAAGTA-AATCC
* ** * * * * *
42166019 TATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAGAAATAGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGAAGTAAATCC
* * * ** ** * *
42166063 TATCTCTCTGAAATTGCAGCAGAGTGGATTGCATAG-GGT--CT-C
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTG-A-AGAAGTAAATCC
* * * ** * *
42166105 -ATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAAAACAAGTCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGAAGTAAATCC
* * * * ** * *
42166148 TATCCCCCTGAAATCACAGTGGGGCAGACCGAAGAAGCAAATCA
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGAAGTAAATCC
* * * **
42166192 TATCTCCCTGAGGTTGCAGTAGAGCAGATTGAAGTCG-ATAATCC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGAAGTA-AATCC
42166236 TATCTCCC
1 TATCTCCC
42166244 CGACGTTGCG
Statistics
Matches: 195, Mismatches: 64, Indels: 20
0.70 0.23 0.07
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 23 0.12
42 1 0.01
43 3 0.02
44 161 0.83
45 3 0.02
46 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (44 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGAAGTAAATCC
Found at i:42166184 original size:217 final size:217
Alignment explanation
Indices: 42165823--42166243 Score: 707
Period size: 217 Copynumber: 1.9 Consensus size: 217
42165813 ATTTACAGTA
* *
42165823 GAGCGGATTAAAGAAATAGATCTTATCTCTTTGAAGTTGCAGCAGAGTGGATTGCATAGGGTCTC
1 GAGCGGATTAAAGAAATAGATCTTATCTCTCTGAAATTGCAGCAGAGTGGATTGCATAGGGTCTC
* * * * *
42165888 ATCTCCCTGAGGTTGCAGCGGAGCAGACTGAGAAAGCAGGTCTTATCCCCCTGAAGTCACAGTGG
66 ATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAAAAACAAGTCTTATCCCCCTGAAATCACAGTGG
* * * *
42165953 GGCAGACTGAAGAAGTAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCGATAATC
131 GGCAGACCGAAGAAGCAAATCATATCTCCCTGAAGTTACAGTAGAGCAGATTGAAGCCGATAATC
42166018 CTATCTCCCTAAAGTTGTAGTG
196 CTATCTCCCTAAAGTTGTAGTG
42166040 GAGCGGATTAAAGAAATAGATCTTATCTCTCTGAAATTGCAGCAGAGTGGATTGCATAGGGTCTC
1 GAGCGGATTAAAGAAATAGATCTTATCTCTCTGAAATTGCAGCAGAGTGGATTGCATAGGGTCTC
*
42166105 ATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAAAACAAGTCTTATCCCCCTGAAATCACAGTGG
66 ATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAAAAACAAGTCTTATCCCCCTGAAATCACAGTGG
* * *
42166170 GGCAGACCGAAGAAGCAAATCATATCTCCCTGAGGTTGCAGTAGAGCAGATTGAAGTCGATAATC
131 GGCAGACCGAAGAAGCAAATCATATCTCCCTGAAGTTACAGTAGAGCAGATTGAAGCCGATAATC
42166235 CTATCTCCC
196 CTATCTCCC
42166244 CGACGTTGCG
Statistics
Matches: 189, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
217 189 1.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (217 bp):
GAGCGGATTAAAGAAATAGATCTTATCTCTCTGAAATTGCAGCAGAGTGGATTGCATAGGGTCTC
ATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAAAAACAAGTCTTATCCCCCTGAAATCACAGTGG
GGCAGACCGAAGAAGCAAATCATATCTCCCTGAAGTTACAGTAGAGCAGATTGAAGCCGATAATC
CTATCTCCCTAAAGTTGTAGTG
Found at i:42188068 original size:15 final size:14
Alignment explanation
Indices: 42188040--42188080 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
42188030 CATACCAAAG
42188040 GAATAAAAAAACAC
1 GAATAAAAAAACAC
42188054 GAATAAAAGAAACAC
1 GAATAAAA-AAACAC
*
42188069 AAATAGAAAAAA
1 GAATA-AAAAAA
42188081 AAATTAAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 8 0.33
15 13 0.54
16 3 0.12
ACGTcount: A:0.73, C:0.10, G:0.10, T:0.07
Consensus pattern (14 bp):
GAATAAAAAAACAC
Found at i:42192125 original size:18 final size:18
Alignment explanation
Indices: 42192091--42192150 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
42192081 TCCTAGTTTG
*
42192091 TTTTTATTT-ATTAAATTA
1 TTTTTCTTTAATT-AATTA
42192109 TTTTTCTTTAATTAATT-
1 TTTTTCTTTAATTAATTA
*
42192126 TTTATT-TTTAAATTTATTA
1 TTT-TTCTTT-AATTAATTA
42192145 TTTTTC
1 TTTTTC
42192151 ATTATCTCAG
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
17 6 0.17
18 23 0.66
19 6 0.17
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTTCTTTAATTAATTA
Found at i:42197280 original size:17 final size:17
Alignment explanation
Indices: 42197254--42197287 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
42197244 AGAAGTATTT
*
42197254 TTGAATAAAAGTTAAAA
1 TTGAACAAAAGTTAAAA
*
42197271 TTGAACAAAATTTAAAA
1 TTGAACAAAAGTTAAAA
42197288 AATGATTTTT
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:0.59, C:0.03, G:0.09, T:0.29
Consensus pattern (17 bp):
TTGAACAAAAGTTAAAA
Found at i:42200499 original size:3 final size:3
Alignment explanation
Indices: 42200491--42200516 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
42200481 TAGATGTAAA
42200491 AGT AGT AGT AGT AGT AGT AGT AGT AG
1 AGT AGT AGT AGT AGT AGT AGT AGT AG
42200517 GGGTAGTTAT
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:0.35, T:0.31
Consensus pattern (3 bp):
AGT
Found at i:42203281 original size:18 final size:19
Alignment explanation
Indices: 42203233--42203282 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
42203223 ATTCACACCT
*
42203233 CATTTCATCATTTCATGTTC
1 CATTTC-TCATTTCATGATC
*
42203253 CATTTCCCATTTCAT-ATC
1 CATTTCTCATTTCATGATC
*
42203271 CATTTTTCATTT
1 CATTTCTCATTT
42203283 TTTTTCATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 12 0.46
19 8 0.31
20 6 0.23
ACGTcount: A:0.20, C:0.26, G:0.02, T:0.52
Consensus pattern (19 bp):
CATTTCTCATTTCATGATC
Found at i:42241597 original size:13 final size:13
Alignment explanation
Indices: 42241579--42241604 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
42241569 TGCACACTCC
42241579 TAATTAATTTCCT
1 TAATTAATTTCCT
42241592 TAATTAATTTCCT
1 TAATTAATTTCCT
42241605 GACAACCATG
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:0.00, T:0.54
Consensus pattern (13 bp):
TAATTAATTTCCT
Found at i:42252328 original size:40 final size:40
Alignment explanation
Indices: 42252245--42252547 Score: 387
Period size: 40 Copynumber: 7.6 Consensus size: 40
42252235 TTGAATGCTG
* * * * * *
42252245 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
42252285 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
42252325 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
42252365 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
42252405 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
42252445 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
42252485 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
42252524 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
42252548 TGAACGAGGA
Statistics
Matches: 241, Mismatches: 19, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 35 0.15
40 198 0.82
41 8 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:42256545 original size:47 final size:47
Alignment explanation
Indices: 42256489--42256581 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
42256479 AAAAATTTAA
*
42256489 TTTCACAATTTAACTCTAATTACTTAAATTCACTAAAAATTCAAAGT
1 TTTCACAATTTAACTCTAATTACTCAAATTCACTAAAAATTCAAAGT
42256536 TTTCACAATTTAACTCTAATTACTCAAATTCACTAAAAATTCAAAG
1 TTTCACAATTTAACTCTAATTACTCAAATTCACTAAAAATTCAAAG
42256582 ACAAAACATG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.43, C:0.18, G:0.02, T:0.37
Consensus pattern (47 bp):
TTTCACAATTTAACTCTAATTACTCAAATTCACTAAAAATTCAAAGT
Found at i:42263024 original size:41 final size:41
Alignment explanation
Indices: 42262979--42263098 Score: 152
Period size: 41 Copynumber: 2.9 Consensus size: 41
42262969 TTGTATAAAA
* **
42262979 CACCGGCATAAAGCCTGCTAGACATAAAGTCTGAAGTAATT
1 CACCGGCATCAAGCCTGCTAGACATAAAGTCTGAAACAATT
* *
42263020 CACCGGCATCAAGCCTGCTCGACATAAAGTCTGAAACATTT
1 CACCGGCATCAAGCCTGCTAGACATAAAGTCTGAAACAATT
* * *
42263061 CATCGACATCAAGCCT-CTTAGACGTAAAGTCTGAAACA
1 CACCGGCATCAAGCCTGC-TAGACATAAAGTCTGAAACA
42263099 TCTTATTTTC
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
40 1 0.01
41 68 0.99
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (41 bp):
CACCGGCATCAAGCCTGCTAGACATAAAGTCTGAAACAATT
Found at i:42266156 original size:3 final size:3
Alignment explanation
Indices: 42266148--42266189 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
42266138 CAAGAACAAA
42266148 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
42266190 GAAAAGATAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:42266376 original size:18 final size:18
Alignment explanation
Indices: 42266336--42266389 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 18
42266326 AAGCAATAAT
42266336 AATAACAAAGAAAATAGATAAA
1 AATAA-AAA-AAAATA-A-AAA
* *
42266358 AATTATAAAAAATAAAAA
1 AATAAAAAAAAATAAAAA
42266376 AATAAAAAAAAATA
1 AATAAAAAAAAATA
42266390 TATAAATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 15 0.54
19 1 0.04
20 6 0.21
21 2 0.07
22 4 0.14
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.17
Consensus pattern (18 bp):
AATAAAAAAAAATAAAAA
Found at i:42266495 original size:36 final size:36
Alignment explanation
Indices: 42266455--42266530 Score: 84
Period size: 36 Copynumber: 2.1 Consensus size: 36
42266445 TGAAACATAG
*
42266455 AAAATATATAAAAGTATGT-GTATATATATAT-TTATA
1 AAAAT-TA-AAAAATATGTAGTATATATATATATTATA
* *
42266491 AAAATTAAAAAATGTGTACGTATATGTATATATTATA
1 AAAATTAAAAAATATGTA-GTATATATATATATTATA
42266528 AAA
1 AAA
42266531 CGTATGTATG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
34 8 0.24
35 2 0.06
36 16 0.47
37 8 0.24
ACGTcount: A:0.51, C:0.01, G:0.09, T:0.38
Consensus pattern (36 bp):
AAAATTAAAAAATATGTAGTATATATATATATTATA
Found at i:42267949 original size:169 final size:168
Alignment explanation
Indices: 42267669--42268125 Score: 592
Period size: 169 Copynumber: 2.7 Consensus size: 168
42267659 AATTTTAATG
* * ** * * *
42267669 CTAGGGAGATGAGATTCGTTGCATTCAGCTTTAATCTGCTCCGCTACAACACCAAGGAAACCAGA
1 CTAGGGAGATAAGATTCGCTGCCCTCAGCTTT-ATCTGCTCCGCTGCAACACCAGGGAAACAAGA
* * * *
42267734 TTTGCTACCTTTAGCCTTAATCTATTCCTCTATAATGCAAAAGAGATAGGATTCGCTGCCCACAG
65 TTCGCTACCTTTAGCTTTAATCTATTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAG
* *
42267799 CTTTAACCCGCTCCACTTCAGCTATTCCAAGTCTTAACG
130 CTTTAACCCGCTCCACCTCAGCTATTCCAAGTCTTAACA
* *
42267838 TTAGGGAGATAAGATTCGCTGCCCT-ATGCTTTATTCTGCTCCGCTGCAACACTAGGGAAACAAG
1 CTAGGGAGATAAGATTCGCTGCCCTCA-GCTTTA-TCTGCTCCGCTGCAACACCAGGGAAACAAG
*
42267902 ATTCGCTACCTTTAGCTTTAATCTATTCCACTATAATGCCAAAGAGATAGGATCCGCTGCCCACA
64 ATTCGCTACCTTTAGCTTTAATCTATTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACA
* **
42267967 GCTTTAATCCGCTCCACCTCAGCTATTCTGAGTCTTAACA
129 GCTTTAACCCGCTCCACCTCAGCTATTCCAAGTCTTAACA
* * * * * *
42268007 CCAGGGAGATAAAATTCGCTACCCTCAGCTTTCATCTACTCTGCTGCAACACCAGGGAAATAAGA
1 CTAGGGAGATAAGATTCGCTGCCCTCAGCTTT-ATCTGCTCCGCTGCAACACCAGGGAAACAAGA
* * * * * *
42268072 TTCGCTACCTTAAGCTTTAATCTATTCTACTGTAACGCCAAGGAGATAAGATTC
65 TTCGCTACCTTTAGCTTTAATCTATTCCACTATAATGCCAAAGAGATAGGATTC
42268126 ACAGTTGTGA
Statistics
Matches: 250, Mismatches: 34, Indels: 8
0.86 0.12 0.03
Matches are distributed among these distances:
168 2 0.01
169 246 0.98
170 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (168 bp):
CTAGGGAGATAAGATTCGCTGCCCTCAGCTTTATCTGCTCCGCTGCAACACCAGGGAAACAAGAT
TCGCTACCTTTAGCTTTAATCTATTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGC
TTTAACCCGCTCCACCTCAGCTATTCCAAGTCTTAACA
Found at i:42268061 original size:51 final size:51
Alignment explanation
Indices: 42268003--42268125 Score: 156
Period size: 51 Copynumber: 2.4 Consensus size: 51
42267993 TCTGAGTCTT
* * * *
42268003 AACACCAGGGAGATAAAATTCGCTACCCTCAGCTTTCATCTACTCTGCTGC
1 AACACCAGGGAGATAAGATTCGCTACCCTAAGCTTTAATCTACTCTACTGC
* * * *
42268054 AACACCAGGGAAATAAGATTCGCTACCTTAAGCTTTAATCTATTCTACTGT
1 AACACCAGGGAGATAAGATTCGCTACCCTAAGCTTTAATCTACTCTACTGC
* *
42268105 AACGCCAAGGAGATAAGATTC
1 AACACCAGGGAGATAAGATTC
42268126 ACAGTTGTGA
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (51 bp):
AACACCAGGGAGATAAGATTCGCTACCCTAAGCTTTAATCTACTCTACTGC
Found at i:42268194 original size:50 final size:50
Alignment explanation
Indices: 42268140--42268894 Score: 326
Period size: 50 Copynumber: 15.1 Consensus size: 50
42268130 TTGTGACTTT
** *
42268140 AATCTATTTAACTGCAATTTTGGGGAAACCAGATTCGCCGTCGTAGCTTC
1 AATCTATTTAACTGCAATGCTGGGGAAACAAGATTCGCCGTCGTAGCTTC
** * ** *** ** * * *
42268190 AATCTATTCCACTACACCGCCAAGGAAGTAAGACTCGCCGTTGTGGCTTC
1 AATCTATTTAACTGCAATGCTGGGGAAACAAGATTCGCCGTCGTAGCTTC
* *
42268240 AATTTATTTAACTGCAATGCTGGGGAAACAAGATTCACCGTCGTAGCTTC
1 AATCTATTTAACTGCAATGCTGGGGAAACAAGATTCGCCGTCGTAGCTTC
* ** * ** *** *** * * *
42268290 AATCTGTTCCACTACACCGCCAAGGATGTAAGATTCGTCGTTGTGGCTTC
1 AATCTATTTAACTGCAATGCTGGGGAAACAAGATTCGCCGTCGTAGCTTC
* * * *
42268340 AATCTATTTAATTGTAATGCTGGAGAAACAAGATTCACCGTCGTAGCTTC
1 AATCTATTTAACTGCAATGCTGGGGAAACAAGATTCGCCGTCGTAGCTTC
** ** * *** * * ** * * *
42268390 AATCTGCTCCACTACACCACTAGAGAAGTAAGATTTGCCGTTGTGGCTTC
1 AATCTATTTAACTGCAATGCTGGGGAAACAAGATTCGCCGTCGTAGCTTC
** * **** * * * * * *
42268440 AATCTATTCCACTGTAATGCCAAAGAGATAAGATTAGCCCTTGTAGCTTT
1 AATCTATTTAACTGCAATGCTGGGGAAACAAGATTCGCCGTCGTAGCTTC
*
42268490 AATCTATTTAACTGCAATG-TCGGGGAAACCAGATTCGCCGTCGTAGCTTC
1 AATCTATTTAACTGCAATGCT-GGGGAAACAAGATTCGCCGTCGTAGCTTC
** * ** ** * * *
42268540 AATCTATTCCACTACAATGCCAGGGAAGTAAGATTCACCGTTGTGGCTTC
1 AATCTATTTAACTGCAATGCTGGGGAAACAAGATTCGCCGTCGTAGCTTC
** * **** * * * * * *
42268590 AATCTATTCCACTGTAATGCCAAAGAGATAAGATTCGCCCTTGTGGCTTT
1 AATCTATTTAACTGCAATGCTGGGGAAACAAGATTCGCCGTCGTAGCTTC
* *
42268640 AATCTATTTAACTGCAATG-TCGGGGAAACTAGATTTGCCGTCGTAGCTTC
1 AATCTATTTAACTGCAATGCT-GGGGAAACAAGATTCGCCGTCGTAGCTTC
* * * ** ** ** ** * *
42268690 AATCTGTTTCACTACACCGCCAGGGAAGTAAGATTCGTTGTTGTGGCTTC
1 AATCTATTTAACTGCAATGCTGGGGAAACAAGATTCGCCGTCGTAGCTTC
* * * *
42268740 AATCTATTTAACTACAATGTTGGGGAAACAAGATTCACTGTCGTAGCTTC
1 AATCTATTTAACTGCAATGCTGGGGAAACAAGATTCGCCGTCGTAGCTTC
* ** * *** *** ** * * *
42268790 AATCTGTTCCACTACACCACCAAGGAAGTAAGATTCGTCGTTGTGGCTTC
1 AATCTATTTAACTGCAATGCTGGGGAAACAAGATTCGCCGTCGTAGCTTC
** * * *
42268840 AATCTATTTAGTTGCAATGTTGGAGAAACAAGATTCGTCGTCGTAGCTTC
1 AATCTATTTAACTGCAATGCTGGGGAAACAAGATTCGCCGTCGTAGCTTC
42268890 AATCT
1 AATCT
42268895 GTTCCACTAC
Statistics
Matches: 490, Mismatches: 211, Indels: 8
0.69 0.30 0.01
Matches are distributed among these distances:
50 490 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (50 bp):
AATCTATTTAACTGCAATGCTGGGGAAACAAGATTCGCCGTCGTAGCTTC
Found at i:42268222 original size:100 final size:100
Alignment explanation
Indices: 42268107--42268947 Score: 855
Period size: 100 Copynumber: 8.4 Consensus size: 100
42268097 TCTACTGTAA
* * * * ** *
42268107 CGCCAAGG-AGATAAGATTCACAGTTGTGACTTTAATCTATTTAACTGCAATTTTGGGGAAACCA
1 CGCCAAGGAAG-TAAGATTCGCCGTTGTGGCTTCAATCTATTTAACTGCAATGCTGGGGAAACAA
* *
42268171 GATTCGCCGTCGTAGCTTCAATCTATTCCACTACAC
65 GATTCACCGTCGTAGCTTCAATCTGTTCCACTACAC
* *
42268207 CGCCAAGGAAGTAAGACTCGCCGTTGTGGCTTCAATTTATTTAACTGCAATGCTGGGGAAACAAG
1 CGCCAAGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTATTTAACTGCAATGCTGGGGAAACAAG
42268272 ATTCACCGTCGTAGCTTCAATCTGTTCCACTACAC
66 ATTCACCGTCGTAGCTTCAATCTGTTCCACTACAC
* * * * *
42268307 CGCCAAGGATGTAAGATTCGTCGTTGTGGCTTCAATCTATTTAATTGTAATGCTGGAGAAACAAG
1 CGCCAAGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTATTTAACTGCAATGCTGGGGAAACAAG
*
42268372 ATTCACCGTCGTAGCTTCAATCTGCTCCACTACAC
66 ATTCACCGTCGTAGCTTCAATCTGTTCCACTACAC
* * * ** * **** * *
42268407 C-ACTAGAGAAGTAAGATTTGCCGTTGTGGCTTCAATCTATTCCACTGTAATGCCAAAGAGATAA
1 CGCCAAG-GAAGTAAGATTCGCCGTTGTGGCTTCAATCTATTTAACTGCAATGCTGGGGAAACAA
* * * * ** * *
42268471 GATT-AGCCCTTGTAGCTTTAATCTATTTAACTGCAA
65 GATTCA-CCGTCGTAGCTTCAATCTGTTCCACTACAC
* * ** *** * * ** * ** **
42268507 TGTCGGGGAAACCAGATTCGCCGTCGTAGCTTCAATCTATTCCACTACAATGCCAGGGAAGTAAG
1 CGCCAAGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTATTTAACTGCAATGCTGGGGAAACAAG
* * * ** *
42268572 ATTCACCGTTGTGGCTTCAATCTATTCCACTGTAA
66 ATTCACCGTCGTAGCTTCAATCTGTTCCACTACAC
* * * * *
42268607 TGCCAAAG-AGATAAGATTCGCCCTTGTGGCTTTAATCTATTTAACTGCAATG-TCGGGGAAACT
1 CGCCAAGGAAG-TAAGATTCGCCGTTGTGGCTTCAATCTATTTAACTGCAATGCT-GGGGAAACA
** *
42268670 AGATTTGCCGTCGTAGCTTCAATCTGTTTCACTACAC
64 AGATTCACCGTCGTAGCTTCAATCTGTTCCACTACAC
* ** * *
42268707 CGCCAGGGAAGTAAGATTCGTTGTTGTGGCTTCAATCTATTTAACTACAATGTTGGGGAAACAAG
1 CGCCAAGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTATTTAACTGCAATGCTGGGGAAACAAG
*
42268772 ATTCACTGTCGTAGCTTCAATCTGTTCCACTACAC
66 ATTCACCGTCGTAGCTTCAATCTGTTCCACTACAC
* * ** * *
42268807 CACCAAGGAAGTAAGATTCGTCGTTGTGGCTTCAATCTATTTAGTTGCAATGTTGGAGAAACAAG
1 CGCCAAGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTATTTAACTGCAATGCTGGGGAAACAAG
**
42268872 ATTCGTCGTCGTAGCTTCAATCTGTTCCACTACAC
66 ATTCACCGTCGTAGCTTCAATCTGTTCCACTACAC
* *
42268907 CACCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTATT
1 CGCCAAGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTATT
42268948 CCACTGTAAT
Statistics
Matches: 616, Mismatches: 116, Indels: 18
0.82 0.15 0.02
Matches are distributed among these distances:
99 5 0.01
100 603 0.98
101 8 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (100 bp):
CGCCAAGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTATTTAACTGCAATGCTGGGGAAACAAG
ATTCACCGTCGTAGCTTCAATCTGTTCCACTACAC
Found at i:42268775 original size:150 final size:150
Alignment explanation
Indices: 42268269--42268747 Score: 629
Period size: 150 Copynumber: 3.2 Consensus size: 150
42268259 CTGGGGAAAC
* * * * ** ** * * *
42268269 AAGATTCACCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAAGGATG-TAAGATTCGTCGTTG
1 AAGATTCGCCGTTGTGGCTTCAATCTATTCCACTGTAATGCCAAAGA-GATAAGATTCGCCCTTG
* * * * * *
42268333 TGGCTTCAATCTATTTAATTGTAATG-CTGGAGAAACAAGATTCACCGTCGTAGCTTCAATCTGC
65 TGGCTTTAATCTATTTAACTGCAATGTC-GGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGT
* * *
42268397 TCCACTACACCACTAGAGAAGT
129 TCCACTACACCGCCAGGGAAGT
* *
42268419 AAGATTTGCCGTTGTGGCTTCAATCTATTCCACTGTAATGCCAAAGAGATAAGATTAGCCCTTGT
1 AAGATTCGCCGTTGTGGCTTCAATCTATTCCACTGTAATGCCAAAGAGATAAGATTCGCCCTTGT
* * *
42268484 AGCTTTAATCTATTTAACTGCAATGTCGGGGAAACCAGATTCGCCGTCGTAGCTTCAATCTATTC
66 GGCTTTAATCTATTTAACTGCAATGTCGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTC
**
42268549 CACTACAATGCCAGGGAAGT
131 CACTACACCGCCAGGGAAGT
*
42268569 AAGATTCACCGTTGTGGCTTCAATCTATTCCACTGTAATGCCAAAGAGATAAGATTCGCCCTTGT
1 AAGATTCGCCGTTGTGGCTTCAATCTATTCCACTGTAATGCCAAAGAGATAAGATTCGCCCTTGT
* * *
42268634 GGCTTTAATCTATTTAACTGCAATGTCGGGGAAACTAGATTTGCCGTCGTAGCTTCAATCTGTTT
66 GGCTTTAATCTATTTAACTGCAATGTCGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTC
42268699 CACTACACCGCCAGGGAAGT
131 CACTACACCGCCAGGGAAGT
**
42268719 AAGATTCGTTGTTGTGGCTTCAATCTATT
1 AAGATTCGCCGTTGTGGCTTCAATCTATT
42268748 TAACTACAAT
Statistics
Matches: 287, Mismatches: 40, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
149 1 0.00
150 285 0.99
151 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.31
Consensus pattern (150 bp):
AAGATTCGCCGTTGTGGCTTCAATCTATTCCACTGTAATGCCAAAGAGATAAGATTCGCCCTTGT
GGCTTTAATCTATTTAACTGCAATGTCGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTC
CACTACACCGCCAGGGAAGT
Found at i:42269250 original size:44 final size:45
Alignment explanation
Indices: 42269166--42269264 Score: 103
Period size: 44 Copynumber: 2.2 Consensus size: 45
42269156 GCTGCGTATA
* * ** * *
42269166 CAGGAAGATAAGATCTGCTATTTTCAATCTGCTCCGCTGCAGC-T
1 CAGGGAGATAAGATCTGCTATCTTCAATCCACTCCACTGCAACTT
*
42269210 CAGGGAGATAAGA-CTTGCTGTCTTCAATCCACTCCACTGCAACTT
1 CAGGGAGATAAGATC-TGCTATCTTCAATCCACTCCACTGCAACTT
*
42269255 TAGGGAGATA
1 CAGGGAGATA
42269265 GGATTTATGG
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
43 1 0.02
44 34 0.76
45 10 0.22
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (45 bp):
CAGGGAGATAAGATCTGCTATCTTCAATCCACTCCACTGCAACTT
Found at i:42272106 original size:44 final size:45
Alignment explanation
Indices: 42272022--42272120 Score: 103
Period size: 44 Copynumber: 2.2 Consensus size: 45
42272012 GCTGCGTATA
* * ** * *
42272022 CAGGAAGATAAGATCTGCTATTTTCAATCTGCTCCGCTGCAGC-T
1 CAGGGAGATAAGATCTGCTATCTTCAATCCACTCCACTGCAACTT
*
42272066 CAGGGAGATAAGA-CTTGCTGTCTTCAATCCACTCCACTGCAACTT
1 CAGGGAGATAAGATC-TGCTATCTTCAATCCACTCCACTGCAACTT
*
42272111 TAGGGAGATA
1 CAGGGAGATA
42272121 GGATTTATGG
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
43 1 0.02
44 34 0.76
45 10 0.22
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (45 bp):
CAGGGAGATAAGATCTGCTATCTTCAATCCACTCCACTGCAACTT
Found at i:42281844 original size:26 final size:26
Alignment explanation
Indices: 42281815--42281885 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 26
42281805 TTGCGGATAC
* *
42281815 TTCACAGCTCGTGTGAGTAGGCCCAT
1 TTCACAGCTCGTGTGAGCAGACCCAT
* * * **
42281841 TTCACAGTTCATGTGAGCATATTCAT
1 TTCACAGCTCGTGTGAGCAGACCCAT
*
42281867 TTCACAGCTCGTGTTAGCA
1 TTCACAGCTCGTGTGAGCA
42281886 TATATGTACA
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (26 bp):
TTCACAGCTCGTGTGAGCAGACCCAT
Found at i:42281886 original size:26 final size:26
Alignment explanation
Indices: 42281838--42281888 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
42281828 TGAGTAGGCC
*
42281838 CATTTCACAGTTCATGTGAGCATATT
1 CATTTCACAGCTCATGTGAGCATATT
* *
42281864 CATTTCACAGCTCGTGTTAGCATAT
1 CATTTCACAGCTCATGTGAGCATAT
42281889 ATGTACAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (26 bp):
CATTTCACAGCTCATGTGAGCATATT
Found at i:42285840 original size:15 final size:15
Alignment explanation
Indices: 42285820--42285848 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
42285810 TTCCAACAAA
42285820 TGTATGATGAGTCCT
1 TGTATGATGAGTCCT
42285835 TGTATGATGAGTCC
1 TGTATGATGAGTCC
42285849 CTCATCACAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.28, T:0.38
Consensus pattern (15 bp):
TGTATGATGAGTCCT
Found at i:42292493 original size:16 final size:15
Alignment explanation
Indices: 42292466--42292499 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
42292456 ATAACTAGTG
*
42292466 TATAATTATATTTAT
1 TATAATTATATTAAT
42292481 TATAATATATATTAAT
1 TATAAT-TATATTAAT
42292497 TAT
1 TAT
42292500 TATCAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:42295163 original size:40 final size:40
Alignment explanation
Indices: 42295119--42295261 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
42295109 AAAAGGGCCA
*
42295119 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACC
* *
42295159 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACC
* * * * *
42295198 AATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-C
1 AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACC
*
42295238 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
42295262 CATCATTCGA
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.38
40 45 0.52
41 7 0.08
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACC
Found at i:42302766 original size:79 final size:81
Alignment explanation
Indices: 42302657--42302839 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
42302647 TACTCGTTCA
* *
42302657 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
42302720 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
42302737 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
42302800 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
42302816 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
42302840 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:42302839 original size:40 final size:40
Alignment explanation
Indices: 42302636--42302839 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
42302626 CGGAATTTAA
** *
42302636 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
42302676 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
42302716 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
42302755 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
42302795 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
42302835 CCGGA
1 CCGGA
42302840 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:42304035 original size:56 final size:56
Alignment explanation
Indices: 42303968--42304199 Score: 428
Period size: 56 Copynumber: 4.1 Consensus size: 56
42303958 TATTAGTTTA
* *
42303968 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTGATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
42304024 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
*
42304080 TTGTCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
*
42304136 TTGTCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
42304192 TTGCCCAT
1 TTGCCCAT
42304200 CATCCCTTGT
Statistics
Matches: 172, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 172 1.00
ACGTcount: A:0.23, C:0.21, G:0.09, T:0.47
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:42305103 original size:27 final size:27
Alignment explanation
Indices: 42305073--42305618 Score: 479
Period size: 27 Copynumber: 20.3 Consensus size: 27
42305063 GATTTGTGGG
* *
42305073 AAAATGACCAAAATACCCTCGACGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* *
42305100 AAAATGATCGAAATACCC-CTATAGGGT
1 AAAATGACCGAAATACCCTCGA-AGGGT
42305127 AAAATGACCGAAATACCCTC-AGAGGGT
1 AAAATGACCGAAATACCCTCGA-AGGGT
* * *
42305154 AAAATAACCGAAATGCCCTCAAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* * * *
42305181 AAAATGACCAAAATATCTTCGATGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* *
42305208 AAAATGACC-AGAATACCCCCAAAGGGT
1 AAAATGACCGA-AATACCCTCGAAGGGT
*
42305235 AAAATGACCCAAATACCCTCGAAGGG-
1 AAAATGACCGAAATACCCTCGAAGGGT
**
42305261 AAAATGATTGAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* *
42305288 AAAATGACAGAAATGCCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* *
42305315 AAAAAGACC-AATATATCCTC-AATGGGT
1 AAAATGACCGAA-ATACCCTCGAA-GGGT
* * *
42305342 AAAATGACCGAAACACCC-CTATGGGGT
1 AAAATGACCGAAATACCCTCGA-AGGGT
* * *
42305369 AAAATGACTGAAATGCCCTTGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* * *
42305396 AAAATCACCAAAATACCCTCGATGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* * *
42305423 AAAATAACCGAAATATCCC-CAAAGTGT
1 AAAATGACCGAAATA-CCCTCGAAGGGT
* * * *
42305450 GAAATAACTGAAATACCCTCGTAGGG-
1 AAAATGACCGAAATACCCTCGAAGGGT
*
42305476 AGAAATGACCGAAATACCC-CCATAGGGT
1 A-AAATGACCGAAATACCCTCGA-AGGGT
* *
42305504 AAAATGACTGAAATACCCT-AAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* * *
42305530 CAAATAATCGAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* * *
42305557 AAAATGATCGAATTACCCT-AATAGGGT
1 AAAATGACCGAAATACCCTCGA-AGGGT
* *
42305584 AAAATGATCGAAATACCC-CCATAGGGT
1 AAAATGACCGAAATACCCTCGA-AGGGT
42305611 AAAATGAC
1 AAAATGAC
42305619 TATTGTACCC
Statistics
Matches: 421, Mismatches: 77, Indels: 42
0.78 0.14 0.08
Matches are distributed among these distances:
26 56 0.13
27 355 0.84
28 10 0.02
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.18
Consensus pattern (27 bp):
AAAATGACCGAAATACCCTCGAAGGGT
Found at i:42305629 original size:54 final size:51
Alignment explanation
Indices: 42305478--42305622 Score: 175
Period size: 53 Copynumber: 2.7 Consensus size: 51
42305468 TCGTAGGGAG
* * *
42305478 AAATGACCGAAATACCCCCATAGGGTAAAATGACTGAAATACCCTAAAGGGTC
1 AAATGATCGAAATACCCCCATAGGGTAAAATGACT--ATTACCCTAAAGGGTA
* * *
42305531 AAATAATCGAAATACCCTCGA-AGGGTAAAATGATCGAATTACCCTAATAGGGTA
1 AAATGATCGAAATACCC-CCATAGGGTAAAATGA-C-TATTACCCTAA-AGGGTA
42305585 AAATGATCGAAATACCCCCATAGGGTAAAATGACTATT
1 AAATGATCGAAATACCCCCATAGGGTAAAATGACTATT
42305623 GTACCCTTAG
Statistics
Matches: 78, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
52 3 0.04
53 39 0.50
54 36 0.46
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21
Consensus pattern (51 bp):
AAATGATCGAAATACCCCCATAGGGTAAAATGACTATTACCCTAAAGGGTA
Found at i:42305643 original size:54 final size:51
Alignment explanation
Indices: 42305471--42305644 Score: 163
Period size: 54 Copynumber: 3.3 Consensus size: 51
42305461 AATACCCTCG
* * *
42305471 TAGGGAGAAATGACCGAAATACCCCCATAGGGTAAAATGACTGAAATACCCTA
1 TAGGGTGAAATGATCGAAATACCCCCATAGGGTAAAATGACT--ATTACCCTA
* * * * *
42305524 AAGGGTCAAATAATCGAAATACCCTCGA-AGGGTAAAATGATCGAATTACCCTAA
1 TAGGGTGAAATGATCGAAATACCC-CCATAGGGTAAAATGA-C-TATTACCCT-A
*
42305578 TAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACTATTGTACCCT-
1 TAGGGTGAAATGATCGAAATACCCCCATAGGGTAAAATGACTA-T-TACCCTA
42305630 TAGGAGATGAAATGA
1 TAGG-G-TGAAATGA
42305645 CTGTTTTGTT
Statistics
Matches: 98, Mismatches: 14, Indels: 17
0.76 0.11 0.13
Matches are distributed among these distances:
52 5 0.05
53 43 0.44
54 50 0.51
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.21
Consensus pattern (51 bp):
TAGGGTGAAATGATCGAAATACCCCCATAGGGTAAAATGACTATTACCCTA
Found at i:42305809 original size:24 final size:25
Alignment explanation
Indices: 42305746--42305810 Score: 123
Period size: 25 Copynumber: 2.6 Consensus size: 25
42305736 AAGTATACTG
42305746 TTACTGGCAGCTTTGTGTGATTCTA
1 TTACTGGCAGCTTTGTGTGATTCTA
42305771 TTACTGGCAGCTTTGTGTGATTCTA
1 TTACTGGCAGCTTTGTGTGATTCTA
42305796 TTACT-GCAGCTTTGT
1 TTACTGGCAGCTTTGT
42305811 TGCGATATTG
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
24 10 0.25
25 30 0.75
ACGTcount: A:0.15, C:0.17, G:0.23, T:0.45
Consensus pattern (25 bp):
TTACTGGCAGCTTTGTGTGATTCTA
Found at i:42305966 original size:28 final size:28
Alignment explanation
Indices: 42305926--42306042 Score: 157
Period size: 28 Copynumber: 4.2 Consensus size: 28
42305916 ACGGTACTGA
*
42305926 TACTGT-TTAGGGCTAAGTCCCACATTGT
1 TACTGTATT-GGGCTAAGGCCCACATTGT
42305954 TACTGTATTGGGCTAAGGCCCACATTGT
1 TACTGTATTGGGCTAAGGCCCACATTGT
**
42305982 TGTTGTATTGGGCTAAGGCCCACATTGT
1 TACTGTATTGGGCTAAGGCCCACATTGT
** *
42306010 TGTTGTATTGGGCTAAGGCCCACACTG-
1 TACTGTATTGGGCTAAGGCCCACATTGT
42306037 TACTGT
1 TACTGT
42306043 TACTGAATAG
Statistics
Matches: 82, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
27 4 0.05
28 76 0.93
29 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.34
Consensus pattern (28 bp):
TACTGTATTGGGCTAAGGCCCACATTGT
Found at i:42309166 original size:16 final size:16
Alignment explanation
Indices: 42309145--42309185 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
42309135 TTATTTTATA
*
42309145 TAATTTTAATAATAAT
1 TAATTTTAATAACAAT
42309161 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
42309177 TAGTTTTAA
1 TAATTTTAA
42309186 GTTTAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:42318100 original size:21 final size:22
Alignment explanation
Indices: 42318064--42318105 Score: 68
Period size: 21 Copynumber: 1.9 Consensus size: 22
42318054 GTTCTTTGAA
42318064 AAATGCTCAAAAAAAATTGTATC
1 AAATGCTC-AAAAAAATTGTATC
42318087 AAATGCTC-AAAAAATTGTA
1 AAATGCTCAAAAAAATTGTA
42318106 GTACATACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 11 0.58
23 8 0.42
ACGTcount: A:0.52, C:0.12, G:0.10, T:0.26
Consensus pattern (22 bp):
AAATGCTCAAAAAAATTGTATC
Found at i:42333009 original size:67 final size:67
Alignment explanation
Indices: 42332882--42333027 Score: 193
Period size: 67 Copynumber: 2.2 Consensus size: 67
42332872 GAGCCCACCA
* * * *
42332882 GGACATTAAACATAGGGAATAATGTGTAAGACCGTGGCTCGACCATAGAAACATAAAGAGTTTGT
1 GGACATTAAACATAGGGAATAATGTGTAAGACCGTAGCTCAACCATAGAAACATAAAGAGTCTAT
42332947 CG
66 CG
* * * * *
42332949 GGACATTAAACATGGGGAATAATGTGTAAGACCGTAGCTCAATCATGGAAGCATAGAGAGTCTAT
1 GGACATTAAACATAGGGAATAATGTGTAAGACCGTAGCTCAACCATAGAAACATAAAGAGTCTAT
*
42333014 TG
66 CG
*
42333016 AGACATTAAACA
1 GGACATTAAACA
42333028 CAAGAAAGTT
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (67 bp):
GGACATTAAACATAGGGAATAATGTGTAAGACCGTAGCTCAACCATAGAAACATAAAGAGTCTAT
CG
Found at i:42349695 original size:16 final size:16
Alignment explanation
Indices: 42349674--42349709 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
42349664 TTGCAAGGTG
42349674 CTAGGGTCCGGCAGTA
1 CTAGGGTCCGGCAGTA
42349690 CTAGGGTCCGGCAGTA
1 CTAGGGTCCGGCAGTA
42349706 CTAG
1 CTAG
42349710 TGACACTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.19, C:0.25, G:0.36, T:0.19
Consensus pattern (16 bp):
CTAGGGTCCGGCAGTA
Found at i:42351224 original size:67 final size:66
Alignment explanation
Indices: 42351135--42351321 Score: 302
Period size: 67 Copynumber: 2.8 Consensus size: 66
42351125 AATCAAGTTC
42351135 ATGCAAATATATGTAAATAATTGAAGTTGATACAAGAATGAAATTTCAATACAAAATGGGATACA
1 ATGCAAATATATGTAAATAATTGAAGTTGATACAAGAATGAAA-TTCAATACAAAATGGGATACA
42351200 TA
65 TA
* *
42351202 ATGCAAATATATGTAAATAATTGAAGTTTATACAAGAAAGGAAATTCAATACAAAATGGGATACA
1 ATGCAAATATATGTAAATAATTGAAGTTGATACAAG-AATGAAATTCAATACAAAATGGGATACA
42351267 TA
65 TA
* * *
42351269 ATGCAGATATATGTCAATAATTGAAGTTGATACAAAAATAGAAATTCAATACA
1 ATGCAAATATATGTAAATAATTGAAGTTGATACAAGAAT-GAAATTCAATACA
42351322 TAATTTACAT
Statistics
Matches: 111, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
66 2 0.02
67 103 0.93
68 6 0.05
ACGTcount: A:0.50, C:0.08, G:0.14, T:0.28
Consensus pattern (66 bp):
ATGCAAATATATGTAAATAATTGAAGTTGATACAAGAATGAAATTCAATACAAAATGGGATACAT
A
Found at i:42366611 original size:15 final size:15
Alignment explanation
Indices: 42366591--42366621 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
42366581 AAATCAGGTT
42366591 AAGATATATTGTATA
1 AAGATATATTGTATA
*
42366606 AAGATATATTTTATA
1 AAGATATATTGTATA
42366621 A
1 A
42366622 CAAGCATCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (15 bp):
AAGATATATTGTATA
Found at i:42367415 original size:29 final size:29
Alignment explanation
Indices: 42367382--42367437 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
42367372 TAATTATTTG
*
42367382 AATTAATTAATTACATTATAAAAATATTA
1 AATTAATTAATAACATTATAAAAATATTA
42367411 AATTAATTAATAACATTATAAAAATAT
1 AATTAATTAATAACATTATAAAAATAT
42367438 AGAGACCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (29 bp):
AATTAATTAATAACATTATAAAAATATTA
Found at i:42369282 original size:3 final size:3
Alignment explanation
Indices: 42369274--42369314 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
42369264 TCAAATCCTG
42369274 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
42369315 TGTTTGATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:42369552 original size:3 final size:3
Alignment explanation
Indices: 42369530--42369571 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
42369520 GATCAAATCC
*
42369530 ATA AT- ATA A-A ATA GTA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
42369572 TGTTTGATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 4 0.11
3 31 0.89
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:42370028 original size:19 final size:20
Alignment explanation
Indices: 42369992--42370039 Score: 71
Period size: 19 Copynumber: 2.4 Consensus size: 20
42369982 CTTAGATATG
42369992 ATCTTAGATATGATATATGCA
1 ATCTTAGATATGA-ATATGCA
42370013 ATCTTAGATATG-ATATGCA
1 ATCTTAGATATGAATATGCA
*
42370032 ATATTAGA
1 ATCTTAGA
42370040 AGATATGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 14 0.54
21 12 0.46
ACGTcount: A:0.40, C:0.08, G:0.15, T:0.38
Consensus pattern (20 bp):
ATCTTAGATATGAATATGCA
Found at i:42370360 original size:13 final size:12
Alignment explanation
Indices: 42370329--42370363 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
42370319 TGATTTAGTC
42370329 TTTTTTT-TTAT
1 TTTTTTTATTAT
42370340 TTTTTTTATTAT
1 TTTTTTTATTAT
42370352 TTATTTTTATTA
1 TT-TTTTTATTA
42370364 AATATTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 7 0.32
12 6 0.27
13 9 0.41
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTTTTATTAT
Found at i:42370369 original size:29 final size:32
Alignment explanation
Indices: 42370337--42370395 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
42370327 TCTTTTTTTT
* *
42370337 TATTTT-TT-TTATT-ATTTATTTTTATTAAA
1 TATTTTCTTGTTATTAAGTTATTATTATTAAA
42370366 TATTTTCTTGTTATTAAGTTATTATTATTA
1 TATTTTCTTGTTATTAAGTTATTATTATTA
42370396 TTATTATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 6 0.24
30 2 0.08
31 5 0.20
32 12 0.48
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (32 bp):
TATTTTCTTGTTATTAAGTTATTATTATTAAA
Found at i:42370773 original size:30 final size:30
Alignment explanation
Indices: 42370739--42370795 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
42370729 TATTTGTTTT
*
42370739 TATATATATGTA-ATTATCTTTTTTATAATC
1 TATATATATGTATATAAT-TTTTTTATAATC
42370769 TATATATATGTATATAATTTTTTTATA
1 TATATATATGTATATAATTTTTTTATA
42370796 TATGTACATG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (30 bp):
TATATATATGTATATAATTTTTTTATAATC
Found at i:42370968 original size:14 final size:16
Alignment explanation
Indices: 42370949--42370987 Score: 55
Period size: 14 Copynumber: 2.5 Consensus size: 16
42370939 CATGTTATTG
42370949 ATTTATTT-TTT-TTT
1 ATTTATTTATTTGTTT
42370963 ATTTATTTATTTGTTT
1 ATTTATTTATTTGTTT
42370979 ATATTATTT
1 AT-TTATTT
42370988 CTATGCCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.36
15 3 0.14
16 5 0.23
17 6 0.27
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.77
Consensus pattern (16 bp):
ATTTATTTATTTGTTT
Found at i:42370970 original size:18 final size:18
Alignment explanation
Indices: 42370943--42370987 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
42370933 GCTTTGCATG
* *
42370943 TTATTGATTTATTTTTTT
1 TTATTTATTTATTTGTTT
42370961 TTATTTATTTATTTGTTT
1 TTATTTATTTATTTGTTT
*
42370979 ATA-TTATTT
1 TTATTTATTT
42370988 CTATGCCATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (18 bp):
TTATTTATTTATTTGTTT
Found at i:42376001 original size:44 final size:44
Alignment explanation
Indices: 42375937--42376218 Score: 291
Period size: 44 Copynumber: 6.4 Consensus size: 44
42375927 GTAGATCAGT
* * *
42375937 GAAGATAGCAGATCCTGTCTTCTTATATTGGTAGCGAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * *
42375982 GAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * * *
42376026 GAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATC
1 GAAG-ATGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* *
42376070 GAAGATAGCAGGTCTTGTCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * *
42376114 GAAGATACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * * * *
42376158 GAAGAAAGCAGATCTTATCTTCATGTATTGG-CGTGAAGTAGATC
1 GAAG-ATGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
42376202 GAAGATAGCAGATCTTG
1 GAAGAT-GCAGATCTTG
42376219 CTTTCCTGCA
Statistics
Matches: 195, Mismatches: 36, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
43 24 0.12
44 124 0.64
45 47 0.24
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (44 bp):
GAAGATGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
Found at i:42376152 original size:88 final size:90
Alignment explanation
Indices: 42375937--42376218 Score: 331
Period size: 88 Copynumber: 3.2 Consensus size: 90
42375927 GTAGATCAGT
* * *
42375937 GAAGATAGCAGATCCTGTCTTCTTATATTGGTAGCGAAGTGGATCGAAGAT-GCAGATCTTGTCT
1 GAAGATAGCAGATCTTGTCTTCATATATTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTGTCT
* * *
42376001 TCCCATACTGGTGGCGAAGTAGATC
66 TCCTATATTGGTAGCGAAGTAGATC
* * * * *
42376026 GAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGGTCTTGTCT
1 GAAGATAGCAGATCTTGTCTTCATATATTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTGTCT
*
42376090 TCCTATATTGGTAG-GAAGTGGATC
66 TCCTATATTGGTAGCGAAGTAGATC
** * * * *
42376114 GAAGATA-CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCT
1 GAAGATAGCAGATCTTGTCTTCATATATTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTGTCT
* * * *
42376178 TCATGTATTGG-CGTGAAGTAGATC
66 TCCTATATTGGTAGCGAAGTAGATC
42376202 GAAGATAGCAGATCTTG
1 GAAGATAGCAGATCTTG
42376219 CTTTCCTGCA
Statistics
Matches: 163, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
87 20 0.12
88 84 0.52
89 59 0.36
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (90 bp):
GAAGATAGCAGATCTTGTCTTCATATATTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTGTCT
TCCTATATTGGTAGCGAAGTAGATC
Found at i:42376225 original size:132 final size:133
Alignment explanation
Indices: 42375937--42376218 Score: 512
Period size: 132 Copynumber: 2.1 Consensus size: 133
42375927 GTAGATCAGT
* * *
42375937 GAAGATAGCAGATCCTGTCTTCTTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTT
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATACAGATCTTGTCTT
*
42376002 CCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAG
66 CCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAG
42376067 ATC
131 ATC
*
42376070 GAAGATAGCAGGTCTTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGATACAGATCTTGTCTT
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATACAGATCTTGTCTT
42376134 CCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAG
66 CCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAG
42376199 ATC
131 ATC
42376202 GAAGATAGCAGATCTTG
1 GAAGATAGCAGATCTTG
42376219 CTTTCCTGCA
Statistics
Matches: 143, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
132 112 0.78
133 31 0.22
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (133 bp):
GAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATACAGATCTTGTCTT
CCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAG
ATC
Found at i:42376317 original size:88 final size:88
Alignment explanation
Indices: 42376206--42376468 Score: 352
Period size: 88 Copynumber: 3.0 Consensus size: 88
42376196 TAGATCGAAG
* * * * *
42376206 ATAGCAGATCTTGCTTTCCTGCACAGATAGCGAAGCAGATCGAAGACACCAGCCTTTCATCCCTT
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCATCCCTG
*
42376271 GGTTGCAGTGGAGCAGGTTAAAA
66 GGTTGCAGTGGAACAGGTTAAAA
* *
42376294 ATAGCAGATCTTGCCTTCTTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCATCCCTG
42376359 GGTTGCAGTGGAACAGGTTAAAA
66 GGTTGCAGTGGAACAGGTTAAAA
* * * *
42376382 ATAGCAGATCTTACCTTCCTACACCGACAGCGAAGCAGATCGATGACCCCAGCCCTAT-C-TCCC
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAG-CCT-TGCATCCC
* *
42376445 T-GGTCAGCAGTGGAATAGGTTAAA
64 TGGGT-TGCAGTGGAACAGGTTAAA
42376469 GATTGTGAAT
Statistics
Matches: 157, Mismatches: 15, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
87 3 0.02
88 149 0.95
89 4 0.03
90 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (88 bp):
ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCATCCCTG
GGTTGCAGTGGAACAGGTTAAAA
Found at i:42376498 original size:44 final size:44
Alignment explanation
Indices: 42376435--42376644 Score: 316
Period size: 44 Copynumber: 4.8 Consensus size: 44
42376425 TGACCCCAGC
*
42376435 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
*
42376479 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* * * *
42376523 TCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGT-AGGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGA-AT
42376567 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* *
42376611 CCTATCTCCCTAAG-CAGCAGTGGAGTAGGTTGAA
1 CCTATCTCCCT-GGTCAGCAGTGGAATAGGTTGAA
42376645 AATAGCAGAT
Statistics
Matches: 150, Mismatches: 13, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
43 1 0.01
44 147 0.98
45 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
Found at i:42385503 original size:22 final size:21
Alignment explanation
Indices: 42385477--42385517 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
42385467 CAATATAACC
42385477 ACAAAAAATAAAGAAATTCATA
1 ACAAAAAATAAAG-AATTCATA
**
42385499 ACAAAATTTAAAGAATTCA
1 ACAAAAAATAAAGAATTCA
42385518 AAAAGAGATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.63, C:0.10, G:0.05, T:0.22
Consensus pattern (21 bp):
ACAAAAAATAAAGAATTCATA
Found at i:42386625 original size:20 final size:19
Alignment explanation
Indices: 42386596--42386652 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
42386586 TAAAAAAATA
*
42386596 TTTTTATTCTTTTTTTTATG
1 TTTTTATTCTTTTGTTT-TG
*
42386616 TTTTTCTTCTTTTGTTTTG
1 TTTTTATTCTTTTGTTTTG
* *
42386635 TTTTTATTTTTTTATTTT
1 TTTTTATTCTTTTGTTTT
42386653 TTAGAACAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.07, C:0.05, G:0.05, T:0.82
Consensus pattern (19 bp):
TTTTTATTCTTTTGTTTTG
Found at i:42387961 original size:16 final size:16
Alignment explanation
Indices: 42387931--42387973 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
42387921 ATGAAACCAC
42387931 TTTTT-TTTTCAAAAT
1 TTTTTCTTTTCAAAAT
42387946 ATTTTTCTTTTC-AAAT
1 -TTTTTCTTTTCAAAAT
42387962 TTTATTCTTTTC
1 TTT-TTCTTTTC
42387974 TTTTCTTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 3 0.12
16 17 0.68
17 5 0.20
ACGTcount: A:0.21, C:0.12, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTTCTTTTCAAAAT
Found at i:42389650 original size:31 final size:31
Alignment explanation
Indices: 42389615--42389676 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
42389605 TAATCTGAGG
42389615 CTTTAGCTTTTCCCCAATCTAAATCAGTTCT
1 CTTTAGCTTTTCCCCAATCTAAATCAGTTCT
42389646 CTTTAGCTTTTCCCCAATCTAAATCAGTTCT
1 CTTTAGCTTTTCCCCAATCTAAATCAGTTCT
42389677 TGGTCTATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (31 bp):
CTTTAGCTTTTCCCCAATCTAAATCAGTTCT
Found at i:42392881 original size:138 final size:138
Alignment explanation
Indices: 42392633--42392909 Score: 554
Period size: 138 Copynumber: 2.0 Consensus size: 138
42392623 ATAAAGGAGC
42392633 CATCTTCCTTATATTGAAACACCACCGAAATTGAAGAATAAAAAGCCATAGCTAGGGGTTAAAGC
1 CATCTTCCTTATATTGAAACACCACCGAAATTGAAGAATAAAAAGCCATAGCTAGGGGTTAAAGC
42392698 ATTCGGCCAACCTTGGTGTGTGCATGTAAGTGCATTTTTGTCCCGTTTTTAATGGTTTTTATGTT
66 ATTCGGCCAACCTTGGTGTGTGCATGTAAGTGCATTTTTGTCCCGTTTTTAATGGTTTTTATGTT
42392763 TTTAGAGT
131 TTTAGAGT
42392771 CATCTTCCTTATATTGAAACACCACCGAAATTGAAGAATAAAAAGCCATAGCTAGGGGTTAAAGC
1 CATCTTCCTTATATTGAAACACCACCGAAATTGAAGAATAAAAAGCCATAGCTAGGGGTTAAAGC
42392836 ATTCGGCCAACCTTGGTGTGTGCATGTAAGTGCATTTTTGTCCCGTTTTTAATGGTTTTTATGTT
66 ATTCGGCCAACCTTGGTGTGTGCATGTAAGTGCATTTTTGTCCCGTTTTTAATGGTTTTTATGTT
42392901 TTTAGAGT
131 TTTAGAGT
42392909 C
1 C
42392910 GTAGCTTAAT
Statistics
Matches: 139, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
138 139 1.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.35
Consensus pattern (138 bp):
CATCTTCCTTATATTGAAACACCACCGAAATTGAAGAATAAAAAGCCATAGCTAGGGGTTAAAGC
ATTCGGCCAACCTTGGTGTGTGCATGTAAGTGCATTTTTGTCCCGTTTTTAATGGTTTTTATGTT
TTTAGAGT
Found at i:42396877 original size:23 final size:23
Alignment explanation
Indices: 42396814--42396879 Score: 96
Period size: 23 Copynumber: 2.9 Consensus size: 23
42396804 TAAGACAAGG
*
42396814 GTGGACGACACACCCTAATAGAA
1 GTGGACGACACACCCTAGTAGAA
* *
42396837 GTGGATGACACACCCTAGTAGGA
1 GTGGACGACACACCCTAGTAGAA
*
42396860 GTGGACGGCACACCCTAGTA
1 GTGGACGACACACCCTAGTA
42396880 TTCCTACTAG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.32, C:0.26, G:0.27, T:0.15
Consensus pattern (23 bp):
GTGGACGACACACCCTAGTAGAA
Found at i:42397279 original size:12 final size:12
Alignment explanation
Indices: 42397262--42397298 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
42397252 TGCAAATGAA
42397262 TCATTTCCATTT
1 TCATTTCCATTT
42397274 TCATTTCCATTT
1 TCATTTCCATTT
42397286 TCATTTCCATTT
1 TCATTTCCATTT
42397298 T
1 T
42397299 TGGAAGCCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.59
Consensus pattern (12 bp):
TCATTTCCATTT
Found at i:42397290 original size:18 final size:18
Alignment explanation
Indices: 42397263--42397297 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
42397253 GCAAATGAAT
*
42397263 CATTTCCATTTTCATTTC
1 CATTTCCATTTCCATTTC
*
42397281 CATTTTCATTTCCATTT
1 CATTTCCATTTCCATTT
42397298 TTGGAAGCCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.26, G:0.00, T:0.57
Consensus pattern (18 bp):
CATTTCCATTTCCATTTC
Found at i:42402777 original size:40 final size:40
Alignment explanation
Indices: 42402740--42403005 Score: 385
Period size: 40 Copynumber: 6.7 Consensus size: 40
42402730 GCTACTCGTT
* *
42402740 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
42402780 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
42402820 CAAATGCCTTCGGGCCTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
42402860 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
42402900 CAAATGCCTTCGGGCCTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
42402940 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
42402981 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
42403006 CATCATTCAA
Statistics
Matches: 209, Mismatches: 13, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
39 2 0.01
40 194 0.93
41 13 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:42410343 original size:42 final size:42
Alignment explanation
Indices: 42410296--42410380 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
42410286 TCATGAAGTG
42410296 TAAGTGCAATTAAGGATAACTAGTTTGTTATTTCGACATAGT
1 TAAGTGCAATTAAGGATAACTAGTTTGTTATTTCGACATAGT
42410338 TAAGTGCAATTAAGGATAACTAGTTTGTTATTTCGACATAGT
1 TAAGTGCAATTAAGGATAACTAGTTTGTTATTTCGACATAGT
42410380 T
1 T
42410381 GTTGGGTACA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (42 bp):
TAAGTGCAATTAAGGATAACTAGTTTGTTATTTCGACATAGT
Found at i:42412651 original size:45 final size:45
Alignment explanation
Indices: 42412585--42412757 Score: 233
Period size: 45 Copynumber: 3.9 Consensus size: 45
42412575 TGTACTAAGA
*
42412585 ATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGGT
1 ATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGAT
* * * *
42412630 ACCATTGATTATAAAGGTGGTTGCTATGTGCTAACTCCACCGGAA
1 ATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGAT
** *
42412675 ATCATTGAAAATAAAGGTGGTTGCTATGTGCTGATTCCACCGAAT
1 ATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGAT
* * *
42412720 ATAATTGATTATAAGGGTGG-TGCTATGTGTTGA-TCCAC
1 ATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCAC
42412758 AGTGTAACGG
Statistics
Matches: 111, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
43 5 0.05
44 12 0.11
45 94 0.85
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (45 bp):
ATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGAT
Found at i:42412739 original size:90 final size:89
Alignment explanation
Indices: 42412584--42412748 Score: 258
Period size: 90 Copynumber: 1.8 Consensus size: 89
42412574 GTGTACTAAG
** ** *
42412584 AATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGGTACCATTGATTATAAAGGTG
1 AATCATTGAAAATAAAGGTGGTTGCTATGTGCTGATTCCACCGAATACAATTGATTATAAAGGTG
42412649 GTTGCTATGTGCTAACTCCACCGGA
66 G-TGCTATGTGCTAACTCCACCGGA
* *
42412674 AATCATTGAAAATAAAGGTGGTTGCTATGTGCTGATTCCACCGAATATAATTGATTATAAGGGTG
1 AATCATTGAAAATAAAGGTGGTTGCTATGTGCTGATTCCACCGAATACAATTGATTATAAAGGTG
42412739 GTGCTATGTG
66 GTGCTATGTG
42412749 TTGATCCACA
Statistics
Matches: 68, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
89 9 0.13
90 59 0.87
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.33
Consensus pattern (89 bp):
AATCATTGAAAATAAAGGTGGTTGCTATGTGCTGATTCCACCGAATACAATTGATTATAAAGGTG
GTGCTATGTGCTAACTCCACCGGA
Found at i:42417398 original size:26 final size:24
Alignment explanation
Indices: 42417355--42417430 Score: 62
Period size: 26 Copynumber: 3.0 Consensus size: 24
42417345 TCTCATCCCT
* *
42417355 ATTTTACCCCTAGCAAAATTTTGAC
1 ATTTTA-CCCTTGTAAAATTTTGAC
*
42417380 GATTTTACCCTTGATAAAATTATGATAC
1 -ATTTTACCCTTG-TAAAATTTTG--AC
* *
42417408 TTTTTCCCCTTGTAAAATTTTGA
1 ATTTTACCCTTGTAAAATTTTGA
42417431 GAAAATATGT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
24 1 0.02
25 5 0.12
26 23 0.56
27 10 0.24
28 2 0.05
ACGTcount: A:0.30, C:0.18, G:0.09, T:0.42
Consensus pattern (24 bp):
ATTTTACCCTTGTAAAATTTTGAC
Found at i:42419329 original size:218 final size:218
Alignment explanation
Indices: 42418951--42419388 Score: 876
Period size: 218 Copynumber: 2.0 Consensus size: 218
42418941 AATAAAAATT
42418951 ATTTTACGAGCCTAGGGGCAAAATCATAATTTTGTGAAACTTTAGGGGCAAAAACATTATTTTGC
1 ATTTTACGAGCCTAGGGGCAAAATCATAATTTTGTGAAACTTTAGGGGCAAAAACATTATTTTGC
42419016 AAAGTATGATTTTTTGACTGGAATGAATAGTGTGAAGGTTATATAAGTTAAATGTATTGTTATAA
66 AAAGTATGATTTTTTGACTGGAATGAATAGTGTGAAGGTTATATAAGTTAAATGTATTGTTATAA
42419081 ATCAAGAAAGACGAGAAATTGAAACTGATCGATAAAAAGAAAAGTGAGAAAAAGTAAAAAAAAAT
131 ATCAAGAAAGACGAGAAATTGAAACTGATCGATAAAAAGAAAAGTGAGAAAAAGTAAAAAAAAAT
42419146 TCTCGAATGAACCTTTGGAATAA
196 TCTCGAATGAACCTTTGGAATAA
42419169 ATTTTACGAGCCTAGGGGCAAAATCATAATTTTGTGAAACTTTAGGGGCAAAAACATTATTTTGC
1 ATTTTACGAGCCTAGGGGCAAAATCATAATTTTGTGAAACTTTAGGGGCAAAAACATTATTTTGC
42419234 AAAGTATGATTTTTTGACTGGAATGAATAGTGTGAAGGTTATATAAGTTAAATGTATTGTTATAA
66 AAAGTATGATTTTTTGACTGGAATGAATAGTGTGAAGGTTATATAAGTTAAATGTATTGTTATAA
42419299 ATCAAGAAAGACGAGAAATTGAAACTGATCGATAAAAAGAAAAGTGAGAAAAAGTAAAAAAAAAT
131 ATCAAGAAAGACGAGAAATTGAAACTGATCGATAAAAAGAAAAGTGAGAAAAAGTAAAAAAAAAT
42419364 TCTCGAATGAACCTTTGGAATAA
196 TCTCGAATGAACCTTTGGAATAA
42419387 AT
1 AT
42419389 AGGGATACGA
Statistics
Matches: 220, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
218 220 1.00
ACGTcount: A:0.43, C:0.08, G:0.20, T:0.29
Consensus pattern (218 bp):
ATTTTACGAGCCTAGGGGCAAAATCATAATTTTGTGAAACTTTAGGGGCAAAAACATTATTTTGC
AAAGTATGATTTTTTGACTGGAATGAATAGTGTGAAGGTTATATAAGTTAAATGTATTGTTATAA
ATCAAGAAAGACGAGAAATTGAAACTGATCGATAAAAAGAAAAGTGAGAAAAAGTAAAAAAAAAT
TCTCGAATGAACCTTTGGAATAA
Found at i:42419611 original size:45 final size:45
Alignment explanation
Indices: 42419551--42419645 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 45
42419541 TACTATATGA
*
42419551 ACCGAACATCATTGATTAGTAAGATGGTTGCTATGTGCTGATTCT
1 ACCGAACATCATTGATTAATAAGATGGTTGCTATGTGCTGATTCT
* * * * *
42419596 ACCGGACATCGTTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGATGGTTGCTATGTGCTGATTCT
42419641 ACCGA
1 ACCGA
42419646 GTATCTGTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGATGGTTGCTATGTGCTGATTCT
Found at i:42419762 original size:38 final size:37
Alignment explanation
Indices: 42419720--42419792 Score: 96
Period size: 37 Copynumber: 1.9 Consensus size: 37
42419710 ATGTGTGGAA
*
42419720 TTGAATTGAATAT-TGACTTAGAAA-TGGAAAAGTGAATT
1 TTGAATTGAAT-TGTGA-TT-GAAAGTGAAAAAGTGAATT
42419758 TTGAATTGAATTGTGATTGAAAGTGAAAAAGTGAA
1 TTGAATTGAATTGTGATTGAAAGTGAAAAAGTGAA
42419793 ATTATGAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
36 4 0.12
37 14 0.44
38 14 0.44
ACGTcount: A:0.42, C:0.01, G:0.23, T:0.33
Consensus pattern (37 bp):
TTGAATTGAATTGTGATTGAAAGTGAAAAAGTGAATT
Found at i:42423356 original size:11 final size:12
Alignment explanation
Indices: 42423340--42423372 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
42423330 TGGTTCCTTT
42423340 ATTTTATTTT-C
1 ATTTTATTTTCC
42423351 ATTTTATTTTCC
1 ATTTTATTTTCC
*
42423363 TTTTTATTTT
1 ATTTTATTTT
42423373 ATTCTAACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (12 bp):
ATTTTATTTTCC
Found at i:42426053 original size:20 final size:20
Alignment explanation
Indices: 42426025--42426063 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
42426015 TACCCGAAAT
42426025 ATATACCATTATAACCAAAC
1 ATATACCATTATAACCAAAC
*
42426045 ATATGCCATTATAACCAAA
1 ATATACCATTATAACCAAA
42426064 ATGTAACCAA
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:0.49, C:0.23, G:0.03, T:0.26
Consensus pattern (20 bp):
ATATACCATTATAACCAAAC
Found at i:42426639 original size:25 final size:25
Alignment explanation
Indices: 42426607--42426667 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
42426597 AGCTATAATT
* *
42426607 GGTAAGCTCTTTCAAGCTGAATAAC
1 GGTAAGCTCATGCAAGCTGAATAAC
* * *
42426632 GGTAAGCTCATGCGAGCTGAGTATC
1 GGTAAGCTCATGCAAGCTGAATAAC
42426657 GGTAAGCTCAT
1 GGTAAGCTCAT
42426668 ATGAGTTGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (25 bp):
GGTAAGCTCATGCAAGCTGAATAAC
Found at i:42431157 original size:5 final size:5
Alignment explanation
Indices: 42431147--42431190 Score: 61
Period size: 5 Copynumber: 8.2 Consensus size: 5
42431137 ATTTGTTTCC
42431147 TTTAT TTTAT TTTAT TTTATT TTTAT TTTCAT ATTTAT TTTAT T
1 TTTAT TTTAT TTTAT TTTA-T TTTAT TTT-AT -TTTAT TTTAT T
42431191 CTGACATAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
5 24 0.67
6 9 0.25
7 3 0.08
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:42443174 original size:47 final size:47
Alignment explanation
Indices: 42443105--42443281 Score: 282
Period size: 47 Copynumber: 3.8 Consensus size: 47
42443095 NNNNNNNNNN
42443105 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
42443152 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
* * * *
42443199 GATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
* * * *
42443246 AACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAG
42443282 TCCCGAAGTG
Statistics
Matches: 120, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 120 1.00
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.28
Consensus pattern (47 bp):
GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
Found at i:42444716 original size:40 final size:40
Alignment explanation
Indices: 42444672--42444935 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
42444662 GCTCCTCGTT
* *
42444672 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
42444712 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
42444752 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
42444792 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
42444832 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
42444871 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
42444912 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
42444936 CATCATTCAA
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
38 2 0.01
39 49 0.24
40 146 0.71
41 9 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:42448674 original size:25 final size:27
Alignment explanation
Indices: 42448624--42448674 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 27
42448614 GCTTGATGTG
*
42448624 GTAAAACTAGCAACAATCAATAATGCA
1 GTAAAACTAGCAACAATAAATAATGCA
*
42448651 GTAAAACT-GCCA-AATAAATAATGC
1 GTAAAACTAGCAACAATAAATAATGC
42448675 GATATAATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 11 0.50
26 3 0.14
27 8 0.36
ACGTcount: A:0.51, C:0.18, G:0.12, T:0.20
Consensus pattern (27 bp):
GTAAAACTAGCAACAATAAATAATGCA
Found at i:42453960 original size:41 final size:41
Alignment explanation
Indices: 42453913--42454099 Score: 259
Period size: 41 Copynumber: 4.6 Consensus size: 41
42453903 GACTATACAT
42453913 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTACAAGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTACAAGC
* **
42453954 CCAGCAGGCTAAGTTTCGGTGAACTGAATCAGGCTACAAGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTACAAGC
* *
42453995 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTACAAGC
* * * *
42454036 CTAGCAGGCTAAGTGCCGGTGAACGGAATTAGACTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTACAAGC
* *
42454077 CTATCAGG-TGAAGTGCCAGTGAA
1 CTAGCAGGCT-AAGTGCCGGTGAA
42454100 TCTGTTTAAA
Statistics
Matches: 131, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 1 0.01
41 130 0.99
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.19
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTACAAGC
Found at i:42458111 original size:54 final size:53
Alignment explanation
Indices: 42458006--42458112 Score: 124
Period size: 54 Copynumber: 1.9 Consensus size: 53
42457996 CTTTCATATT
* * * *
42458006 TTCTTAATTAGCCATTTCAGTAGCTATCACTAGGCTTTCATAACACCACACATG
1 TTCTTAATTAGCCATTTCAATAGCTACCACTAGCCTATCATAACA-CACACATG
* *
42458060 TTCTTAATTAGCCATTTCAATAGCTAACCATTAGCCATATCATATAAACACAC
1 TTCTTAATTAGCCATTTCAATAGCT-ACCACTAGCC-TATCATA-ACACACAC
42458113 TCAAAATGAC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
54 24 0.55
55 7 0.16
56 11 0.25
57 2 0.05
ACGTcount: A:0.34, C:0.25, G:0.08, T:0.33
Consensus pattern (53 bp):
TTCTTAATTAGCCATTTCAATAGCTACCACTAGCCTATCATAACACACACATG
Done.