Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 7 of 226
Found at i:2468676 original size:14 final size:14
Alignment explanation
Indices: 2468630--2468678 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
2468620 TAAATTTATG
*
2468630 TTTTAATTAATTAT
1 TTTTAATTAAATAT
* * *
2468644 TTATTATTTTAATAA
1 TT-TTAATTAAATAT
2468659 TTTTAATTAAATAT
1 TTTTAATTAAATAT
2468673 TTTTAA
1 TTTTAA
2468679 ATAGTTTAAT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
14 17 0.63
15 10 0.37
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TTTTAATTAAATAT
Found at i:2499182 original size:36 final size:36
Alignment explanation
Indices: 2499115--2499184 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
2499105 GTTGTCTTGC
* **
2499115 TATTATTTCGCTATTATATTGCTACTATTTTGTTGT
1 TATTATTTCGATATTATATAACTACTATTTTGTTGT
* * *
2499151 TATTATTTGGATATTATATAACTATTGTTTTGTT
1 TATTATTTCGATATTATATAACTACTATTTTGTT
2499185 ATTAATTTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.23, C:0.07, G:0.11, T:0.59
Consensus pattern (36 bp):
TATTATTTCGATATTATATAACTACTATTTTGTTGT
Found at i:2506251 original size:21 final size:21
Alignment explanation
Indices: 2506225--2506265 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2506215 ATCTGCTCAA
* *
2506225 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
2506246 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
2506266 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:2509453 original size:4 final size:4
Alignment explanation
Indices: 2509444--2509471 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
2509434 CATAAACACC
2509444 TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA
2509472 AACCCAACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:2522855 original size:27 final size:27
Alignment explanation
Indices: 2522823--2522879 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
2522813 ATAAAAAAAA
*
2522823 TTTATA-ATTTATATATATTTCTTTATT
1 TTTATATATTTATATACATTT-TTTATT
* *
2522850 TTTATATATTTATTTCCATTTTTTATT
1 TTTATATATTTATATACATTTTTTATT
2522877 TTT
1 TTT
2522880 TTAACATGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 15 0.58
28 11 0.42
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (27 bp):
TTTATATATTTATATACATTTTTTATT
Found at i:2522872 original size:20 final size:18
Alignment explanation
Indices: 2522829--2522864 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2522819 AAAATTTATA
* *
2522829 ATTTATATATATTTCTTT
1 ATTTTTATATATTTATTT
2522847 ATTTTTATATATTTATTT
1 ATTTTTATATATTTATTT
2522865 CCATTTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTTTATATATTTATTT
Found at i:2529957 original size:101 final size:95
Alignment explanation
Indices: 2529744--2530031 Score: 371
Period size: 101 Copynumber: 3.0 Consensus size: 95
2529734 AAAGGTTTAG
* * * *
2529744 GGTTTAGGGTT-TCTTAATTAAATTAATTATAAATTTTAAAAAATTAGATTAGAGTTTAGAGTTT
1 GGTTTAGGGTTAT-TTGAGTAAATTAATTATAAATTTTAAAAAATTAGATTAGGGTTTAGTGTTT
* * * * *
2529808 ATGATTTTTAATGAAAAATTAAATAAATTAG
65 AGGGTTTTTAAGGAAAAATCAAATAAATTAA
* *
2529839 GGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAAAAAATAGATTAGGGTTTAGTG
1 GGTTTAGGGTTATTTGAGTAAATTAATTATAAATTTT----AAAAAATTAGATTAGGGTTTAGTG
2529904 TTTAGGGTTTTTAAGGGAAAAAATCAAATAAATTAA
62 TTTAGGGTTTTTAA-GG-AAAAATCAAATAAATTAA
* *
2529940 GGTTTAGGGTTATTTGAGTAAATTAATTATAAAATTTTAAAAAATTAGATTGGGGTTTAGTATTT
1 GGTTTAGGGTTATTTGAGTAAATTAATTAT-AAATTTTAAAAAATTAGATTAGGGTTTAGTGTTT
*
2530005 AGAGTTTTTAAGGAAAAATCAAATAAA
65 AGGGTTTTTAAGGAAAAATCAAATAAA
2530032 ACTAGTTGTT
Statistics
Matches: 169, Mismatches: 16, Indels: 15
0.85 0.08 0.08
Matches are distributed among these distances:
95 33 0.20
96 14 0.08
97 2 0.01
98 34 0.20
99 33 0.20
100 1 0.01
101 45 0.27
102 7 0.04
ACGTcount: A:0.42, C:0.01, G:0.17, T:0.39
Consensus pattern (95 bp):
GGTTTAGGGTTATTTGAGTAAATTAATTATAAATTTTAAAAAATTAGATTAGGGTTTAGTGTTTA
GGGTTTTTAAGGAAAAATCAAATAAATTAA
Found at i:2530668 original size:11 final size:11
Alignment explanation
Indices: 2530652--2530700 Score: 54
Period size: 11 Copynumber: 4.9 Consensus size: 11
2530642 TTAGACTTAA
2530652 TAAATAATTTT
1 TAAATAATTTT
2530663 TAAATAATTTT
1 TAAATAATTTT
2530674 T-AAT--TTTT
1 TAAATAATTTT
2530682 T-AA-AATTTT
1 TAAATAATTTT
*
2530691 TAATTAATTT
1 TAAATAATTT
2530701 AATTAAGAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
8 7 0.21
9 5 0.15
10 4 0.12
11 17 0.52
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TAAATAATTTT
Found at i:2530688 original size:17 final size:18
Alignment explanation
Indices: 2530656--2530695 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
2530646 ACTTAATAAA
2530656 TAATTTTTAAATAATTTT
1 TAATTTTTAAATAATTTT
*
2530674 TAATTTTTTAA-AATTTT
1 TAATTTTTAAATAATTTT
2530691 TAATT
1 TAATT
2530696 AATTTAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TAATTTTTAAATAATTTT
Found at i:2530892 original size:40 final size:40
Alignment explanation
Indices: 2530843--2530934 Score: 130
Period size: 41 Copynumber: 2.3 Consensus size: 40
2530833 GCTTCTCAAG
*
2530843 GAAGCGTTTTCTGCCCACGTGGACAAAGCGCTTCCTTGAA
1 GAAGCGTTTTCTACCCACGTGGACAAAGCGCTTCCTTGAA
* * * *
2530883 GAAGAGTTTTTTTATCCACGTGGACAAAGCGCTTCCTTGAG
1 GAAGCG-TTTTCTACCCACGTGGACAAAGCGCTTCCTTGAA
2530924 GAAGCGTTTTC
1 GAAGCGTTTTC
2530935 CTGCTTTATC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 9 0.20
41 35 0.80
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (40 bp):
GAAGCGTTTTCTACCCACGTGGACAAAGCGCTTCCTTGAA
Found at i:2539151 original size:22 final size:23
Alignment explanation
Indices: 2539125--2539171 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
2539115 ATAACATAGC
*
2539125 TTTAATAAAT-ATAGAAAAATCT
1 TTTAATAAATAAAAGAAAAATCT
2539147 TTTAATAAATGAAAAGAAAAATCT
1 TTTAATAAAT-AAAAGAAAAATCT
2539171 T
1 T
2539172 AAACTGTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 10 0.45
24 12 0.55
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.34
Consensus pattern (23 bp):
TTTAATAAATAAAAGAAAAATCT
Found at i:2540145 original size:42 final size:41
Alignment explanation
Indices: 2540105--2540243 Score: 174
Period size: 42 Copynumber: 3.3 Consensus size: 41
2540095 GTTTATACAG
* * *
2540105 AAAAGGAAGCAACTTGGGAAAGCAACATCTATGTCTATACAA
1 AAAAGGAAGCAACTTGGGAAAACAACATC-AAGTCTAGACAA
*
2540147 AAAAGAAAGCAACTTGGGAAAACAACATGCAAG-CTCAGACAA
1 AAAAGGAAGCAACTTGGGAAAACAACAT-CAAGTCT-AGACAA
*
2540189 AAAAGGAAGCAACTTGGGAAAACAACATCCAGGTGC-AGACAA
1 AAAAGGAAGCAACTTGGGAAAACAACAT-CAAGT-CTAGACAA
2540231 AAAAGGAAGCAAC
1 AAAAGGAAGCAAC
2540244 GTAGAAATAA
Statistics
Matches: 86, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
41 2 0.02
42 82 0.95
43 1 0.01
44 1 0.01
ACGTcount: A:0.50, C:0.18, G:0.21, T:0.12
Consensus pattern (41 bp):
AAAAGGAAGCAACTTGGGAAAACAACATCAAGTCTAGACAA
Found at i:2546105 original size:21 final size:21
Alignment explanation
Indices: 2546079--2546119 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2546069 ATCTGCTCAA
* *
2546079 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
2546100 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
2546120 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:2556525 original size:19 final size:20
Alignment explanation
Indices: 2556486--2556530 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
2556476 GAAATAATTA
*
2556486 TTTTAATATATTTAGTGTTT
1 TTTTAATATATTTAGTATTT
*
2556506 TTTTAATATTTTTA-TATTT
1 TTTTAATATATTTAGTATTT
2556525 TTTTAA
1 TTTTAA
2556531 ATTAAAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (20 bp):
TTTTAATATATTTAGTATTT
Found at i:2557580 original size:3 final size:3
Alignment explanation
Indices: 2557572--2557619 Score: 53
Period size: 3 Copynumber: 16.0 Consensus size: 3
2557562 TCCACAAAGA
* * *
2557572 ATT ATT ATT ATT ATT ACT ATT ACT ATT ACT ATT ACTT -TT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT
2557617 ATT
1 ATT
2557620 TTGGTCCTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
2 2 0.05
3 33 0.89
4 2 0.05
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:2567333 original size:7 final size:7
Alignment explanation
Indices: 2567317--2567351 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
2567307 TGCATAAATC
2567317 TTTC-TT
1 TTTCTTT
2567323 TTTCTTT
1 TTTCTTT
2567330 TTTCTTT
1 TTTCTTT
2567337 TTTCTTT
1 TTTCTTT
*
2567344 TTCCTTT
1 TTTCTTT
2567351 T
1 T
2567352 CCTCTTTTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
6 4 0.15
7 23 0.85
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTCTTT
Found at i:2567342 original size:20 final size:20
Alignment explanation
Indices: 2567317--2567361 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
2567307 TGCATAAATC
* * *
2567317 TTTCTTTTTCTTTTTTCTTT
1 TTTCTTTTTCCTTTTCCTCT
2567337 TTTCTTTTTCCTTTTCCTCT
1 TTTCTTTTTCCTTTTCCTCT
2567357 TTTCT
1 TTTCT
2567362 CCTTGTGCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTCTTTTTCCTTTTCCTCT
Found at i:2570889 original size:39 final size:37
Alignment explanation
Indices: 2570822--2570914 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
2570812 ACCAGAATGG
* *
2570822 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
2570861 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
2570898 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
2570915 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:2571109 original size:24 final size:26
Alignment explanation
Indices: 2571058--2571118 Score: 76
Period size: 24 Copynumber: 2.4 Consensus size: 26
2571048 ACATATATTC
2571058 TCAATTCAATCACACTTTTTCACACTT
1 TCAATTCAAT-ACACTTTTTCACACTT
2571085 TCAATTCAAT-CA-TTTTTC-CACCTT
1 TCAATTCAATACACTTTTTCACA-CTT
2571109 TCAA-TCAATA
1 TCAATTCAATA
2571119 ATTAATCCGC
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
23 7 0.22
24 13 0.41
25 2 0.06
27 10 0.31
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.41
Consensus pattern (26 bp):
TCAATTCAATACACTTTTTCACACTT
Found at i:2571312 original size:12 final size:12
Alignment explanation
Indices: 2571270--2571310 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
2571260 TTCCCACTCA
*
2571270 TAATAATAATAC
1 TAATAATAATAT
2571282 TAATAATAATAT
1 TAATAATAATAT
*
2571294 TAATACTAATAT
1 TAATAATAATAT
2571306 TAATA
1 TAATA
2571311 CTTACCTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (12 bp):
TAATAATAATAT
Found at i:2573862 original size:12 final size:12
Alignment explanation
Indices: 2573847--2573886 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
2573837 GATATCCCAG
2573847 AGAAAATCCAAA
1 AGAAAATCCAAA
* * *
2573859 AGAATATCCCAG
1 AGAAAATCCAAA
2573871 AGAAAATCCAAA
1 AGAAAATCCAAA
2573883 AGAA
1 AGAA
2573887 GAATATCACT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.60, C:0.17, G:0.12, T:0.10
Consensus pattern (12 bp):
AGAAAATCCAAA
Found at i:2573870 original size:24 final size:24
Alignment explanation
Indices: 2573838--2573886 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
2573828 GAGATCGATG
2573838 ATATCCCAGAGAAAATCCAAAAGA
1 ATATCCCAGAGAAAATCCAAAAGA
2573862 ATATCCCAGAGAAAATCCAAAAGA
1 ATATCCCAGAGAAAATCCAAAAGA
2573886 A
1 A
2573887 GAATATCACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.55, C:0.20, G:0.12, T:0.12
Consensus pattern (24 bp):
ATATCCCAGAGAAAATCCAAAAGA
Found at i:2574197 original size:13 final size:13
Alignment explanation
Indices: 2574179--2574206 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2574169 GATAAAAGAG
2574179 CATATAGAATACC
1 CATATAGAATACC
2574192 CATATAGAATACC
1 CATATAGAATACC
2574205 CA
1 CA
2574207 GAAGAGATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.25, G:0.07, T:0.21
Consensus pattern (13 bp):
CATATAGAATACC
Found at i:2576686 original size:39 final size:37
Alignment explanation
Indices: 2576619--2576711 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
2576609 ACCAGAATGG
* *
2576619 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
2576658 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
2576695 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
2576712 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:2576906 original size:24 final size:26
Alignment explanation
Indices: 2576855--2576915 Score: 76
Period size: 24 Copynumber: 2.4 Consensus size: 26
2576845 ACATATATTC
2576855 TCAATTCAATCACACTTTTTCACACTT
1 TCAATTCAAT-ACACTTTTTCACACTT
2576882 TCAATTCAAT-CA-TTTTTC-CACCTT
1 TCAATTCAATACACTTTTTCACA-CTT
2576906 TCAA-TCAATA
1 TCAATTCAATA
2576916 ATTAATCCGC
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
23 7 0.22
24 13 0.41
25 2 0.06
27 10 0.31
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.41
Consensus pattern (26 bp):
TCAATTCAATACACTTTTTCACACTT
Found at i:2577109 original size:12 final size:12
Alignment explanation
Indices: 2577067--2577107 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
2577057 TTCCCACTCA
*
2577067 TAATAATAATAC
1 TAATAATAATAT
2577079 TAATAATAATAT
1 TAATAATAATAT
*
2577091 TAATACTAATAT
1 TAATAATAATAT
2577103 TAATA
1 TAATA
2577108 CTTACCTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (12 bp):
TAATAATAATAT
Found at i:2579414 original size:20 final size:21
Alignment explanation
Indices: 2579386--2579429 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
2579376 CGAATGTGTT
*
2579386 AAAAGTATTAATTAAA-AATA
1 AAAAATATTAATTAAATAATA
**
2579406 AAAAATATTTTTTAAATAATA
1 AAAAATATTAATTAAATAATA
2579427 AAA
1 AAA
2579430 TTGTGTCAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (21 bp):
AAAAATATTAATTAAATAATA
Found at i:2579745 original size:13 final size:13
Alignment explanation
Indices: 2579727--2579774 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
2579717 CTCAAAATTT
2579727 TCAAAAGCACTTC
1 TCAAAAGCACTTC
*
2579740 TCAAAAGTACTTC
1 TCAAAAGCACTTC
* *
2579753 TCCACAA-CACTTT
1 T-CAAAAGCACTTC
2579766 TCAAAAGCA
1 TCAAAAGCA
2579775 TTGCCAAACT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
12 4 0.14
13 20 0.71
14 4 0.14
ACGTcount: A:0.40, C:0.29, G:0.06, T:0.25
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:2594020 original size:17 final size:20
Alignment explanation
Indices: 2593984--2594022 Score: 57
Period size: 17 Copynumber: 2.1 Consensus size: 20
2593974 ATTTTAAAAA
2593984 AATATATTTTTATCATTTTT
1 AATATATTTTTATCATTTTT
2594004 AATA-ATTTTT-T-ATTTTT
1 AATATATTTTTATCATTTTT
2594021 AA
1 AA
2594023 AAAATAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
18 1 0.05
19 6 0.32
20 4 0.21
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (20 bp):
AATATATTTTTATCATTTTT
Found at i:2594181 original size:18 final size:18
Alignment explanation
Indices: 2594150--2594189 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
2594140 TGTAAGTTCC
2594150 AAAAAGTAAAAG-AAACT
1 AAAAAGTAAAAGAAAACT
*
2594167 AAAAATTAAATAGAAAACT
1 AAAAAGTAAA-AGAAAACT
2594186 AAAA
1 AAAA
2594190 TATTTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 9 0.45
18 2 0.10
19 9 0.45
ACGTcount: A:0.72, C:0.05, G:0.07, T:0.15
Consensus pattern (18 bp):
AAAAAGTAAAAGAAAACT
Found at i:2605599 original size:21 final size:21
Alignment explanation
Indices: 2605575--2605616 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
2605565 CAGATACGAG
2605575 TATGAGAATATGATTTTCTGA
1 TATGAGAATATGATTTTCTGA
2605596 TATGAGAATATGATTTTCTGA
1 TATGAGAATATGATTTTCTGA
2605617 ATTCAGCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (21 bp):
TATGAGAATATGATTTTCTGA
Found at i:2605627 original size:21 final size:22
Alignment explanation
Indices: 2605579--2605639 Score: 74
Period size: 21 Copynumber: 2.9 Consensus size: 22
2605569 TACGAGTATG
*
2605579 AGAATATGATTTTCTG-ATATG
1 AGAATATGATTTTCTGAATATC
2605600 AGAATATGATTTTCTGAAT-TC
1 AGAATATGATTTTCTGAATATC
* *
2605621 AGCATAT-ATTTACTGAATA
1 AGAATATGATTTTCTGAATA
2605640 CGTATTCGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 10 0.29
21 23 0.66
22 2 0.06
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (22 bp):
AGAATATGATTTTCTGAATATC
Found at i:2607640 original size:27 final size:27
Alignment explanation
Indices: 2607602--2607657 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
2607592 AGTATAATAT
2607602 CGTACCTAAGTTAAACCAGATCCAATC
1 CGTACCTAAGTTAAACCAGATCCAATC
**
2607629 CGTACCTAAGTTAAACTTGATCCAATC
1 CGTACCTAAGTTAAACCAGATCCAATC
2607656 CG
1 CG
2607658 GTTAACAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.34, C:0.29, G:0.12, T:0.25
Consensus pattern (27 bp):
CGTACCTAAGTTAAACCAGATCCAATC
Found at i:2619699 original size:16 final size:15
Alignment explanation
Indices: 2619663--2619698 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
2619653 CAAAATTAAG
2619663 ATTTTTACAATATCC
1 ATTTTTACAATATCC
2619678 ATTTTTACAATAGT-C
1 ATTTTTACAATA-TCC
2619693 ATTTTT
1 ATTTTT
2619699 TTAAAACTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 19 0.95
16 1 0.05
ACGTcount: A:0.31, C:0.14, G:0.03, T:0.53
Consensus pattern (15 bp):
ATTTTTACAATATCC
Found at i:2623840 original size:15 final size:16
Alignment explanation
Indices: 2623820--2623863 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
2623810 AAAATCCAAC
2623820 CCTAAAATCTTATA-T
1 CCTAAAATCTTATAGT
*
2623835 CCTAAAATCATATAGT
1 CCTAAAATCTTATAGT
*
2623851 CGCAAAAATCTTA
1 C-CTAAAATCTTA
2623864 AATATAACTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 13 0.54
16 2 0.08
17 9 0.38
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.32
Consensus pattern (16 bp):
CCTAAAATCTTATAGT
Found at i:2624137 original size:39 final size:39
Alignment explanation
Indices: 2624083--2624160 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
2624073 TTACAATAAA
*
2624083 TTATTTTAATTTCCTTTTAAAAAATGGACCCATTTTAGG
1 TTATTTTAATTTCCTTTCAAAAAATGGACCCATTTTAGG
*
2624122 TTATTTTAATTTCCTTTCAAGAAATGGACCCATTTTAGG
1 TTATTTTAATTTCCTTTCAAAAAATGGACCCATTTTAGG
2624161 ATCGATTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (39 bp):
TTATTTTAATTTCCTTTCAAAAAATGGACCCATTTTAGG
Found at i:2627180 original size:24 final size:23
Alignment explanation
Indices: 2627148--2627192 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
2627138 TATTTTTTAC
*
2627148 ATATTTTAATATTTTATACCATTA
1 ATATTTTAATAATTTA-ACCATTA
2627172 ATATTTTAATAATTTAACCAT
1 ATATTTTAATAATTTAACCAT
2627193 CACATTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (23 bp):
ATATTTTAATAATTTAACCATTA
Found at i:2627760 original size:26 final size:25
Alignment explanation
Indices: 2627704--2627761 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
2627694 CCACTTCGTA
*
2627704 TATTTAAAATTTAGTCCCCTACTTT
1 TATTTAAAAATTAGTCCCCTACTTT
*
2627729 TATTTAAGAAATTAGTCTCTCTACTTT
1 TATTTAA-AAATTAGTC-CCCTACTTT
2627756 T-TTTAA
1 TATTTAA
2627762 TTTAAAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 7 0.24
26 13 0.45
27 9 0.31
ACGTcount: A:0.29, C:0.16, G:0.05, T:0.50
Consensus pattern (25 bp):
TATTTAAAAATTAGTCCCCTACTTT
Found at i:2627886 original size:22 final size:21
Alignment explanation
Indices: 2627859--2627912 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 21
2627849 ATAATATTAA
*
2627859 ATCAAATTATAAAAGTAAAAGT
1 ATCAAATTA-AAAAATAAAAGT
*
2627881 ATCAAA-TAAAAAATTAAAGT
1 ATCAAATTAAAAAATAAAAGT
2627901 ATACAAATTAAA
1 AT-CAAATTAAA
2627913 TCTAAAGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 12 0.43
21 6 0.21
22 10 0.36
ACGTcount: A:0.63, C:0.06, G:0.06, T:0.26
Consensus pattern (21 bp):
ATCAAATTAAAAAATAAAAGT
Found at i:2627898 original size:21 final size:20
Alignment explanation
Indices: 2627859--2627908 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
2627849 ATAATATTAA
*
2627859 ATCAAATTATAAAAGTAAAAGT
1 ATCAAA-TAAAAAAGT-AAAGT
*
2627881 ATCAAATAAAAAATTAAAGT
1 ATCAAATAAAAAAGTAAAGT
2627901 ATACAAAT
1 AT-CAAAT
2627909 TAAATCTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 7 0.28
21 12 0.48
22 6 0.24
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.26
Consensus pattern (20 bp):
ATCAAATAAAAAAGTAAAGT
Found at i:2629646 original size:18 final size:18
Alignment explanation
Indices: 2629625--2629669 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
2629615 TATCATCTCT
* *
2629625 TTCATCTTCATCTTCGCC
1 TTCACCTTCATCTTCACC
*
2629643 TTCAGCTTCATCTTCACC
1 TTCACCTTCATCTTCACC
2629661 TTCACCTTC
1 TTCACCTTC
2629670 GTGGTCATCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.40, G:0.04, T:0.42
Consensus pattern (18 bp):
TTCACCTTCATCTTCACC
Found at i:2636393 original size:22 final size:20
Alignment explanation
Indices: 2636368--2636417 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 20
2636358 ATTTATGATA
2636368 AATATATATAATATTTTTTAT
1 AATATATATAATA-TTTTTAT
*
2636389 GAATA-AGTATATTATTTTTAT
1 -AATATA-TATAATATTTTTAT
2636410 AATATATA
1 AATATATA
2636418 ATATGGACAC
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
20 6 0.24
21 9 0.36
22 10 0.40
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (20 bp):
AATATATATAATATTTTTAT
Found at i:2636496 original size:25 final size:25
Alignment explanation
Indices: 2636461--2636561 Score: 94
Period size: 25 Copynumber: 3.8 Consensus size: 25
2636451 GGCCATAATT
2636461 TTTTATAAATAAATATATTATAATAA
1 TTTTAT-AATAAATATATTATAATAA
*
2636487 TTTTATAATAGGTATATTATCTTATAATAA
1 TTTTATAATA---A-A-TATATTATAATAA
* **
2636517 TTTTTTGTTAAATATATTATAATAA
1 TTTTATAATAAATATATTATAATAA
**
2636542 TTTTATAATATGTATATTAT
1 TTTTATAATAAATATATTAT
2636562 TTTATAATAA
Statistics
Matches: 60, Mismatches: 10, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
25 31 0.52
26 7 0.12
27 1 0.02
28 1 0.02
29 1 0.02
30 19 0.32
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (25 bp):
TTTTATAATAAATATATTATAATAA
Found at i:2636504 original size:55 final size:54
Alignment explanation
Indices: 2636454--2636585 Score: 149
Period size: 55 Copynumber: 2.4 Consensus size: 54
2636444 CATATTTGGC
2636454 CATAAT-TTTTTATAAATAAATATATTATAATAATTTTATAATAGGTATATTATCT
1 CATAATATTTTT-T-AATAAATATATTATAATAATTTTATAATAGGTATATTATCT
* ** * *
2636509 TATAATAATTTTTTGTTAAATATATTATAATAATTTTATAATATGTATATTATTT
1 CATAAT-ATTTTTTAATAAATATATTATAATAATTTTATAATAGGTATATTATCT
* *
2636564 TATAATAATTTTTGTTATAAAT
1 CATAAT-ATTTTT-TAATAAAT
2636586 TCCAAAAAAT
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
55 55 0.82
56 7 0.10
57 5 0.07
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (54 bp):
CATAATATTTTTTAATAAATATATTATAATAATTTTATAATAGGTATATTATCT
Found at i:2636514 original size:30 final size:30
Alignment explanation
Indices: 2636474--2636575 Score: 124
Period size: 30 Copynumber: 3.6 Consensus size: 30
2636464 TATAAATAAA
2636474 TATATTATAATAATTTTATAATAGGTATAT
1 TATATTATAATAATTTTATAATAGGTATAT
* * *
2636504 TATCTTATAATAATTTT-T--T-GTTA-AA
1 TATATTATAATAATTTTATAATAGGTATAT
*
2636529 TATATTATAATAATTTTATAATATGTATAT
1 TATATTATAATAATTTTATAATAGGTATAT
*
2636559 TATTTTATAATAATTTT
1 TATATTATAATAATTTT
2636576 TGTTATAAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
25 17 0.29
26 4 0.07
27 1 0.02
28 1 0.02
29 3 0.05
30 33 0.56
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (30 bp):
TATATTATAATAATTTTATAATAGGTATAT
Found at i:2641630 original size:87 final size:84
Alignment explanation
Indices: 2641528--2641856 Score: 263
Period size: 87 Copynumber: 3.8 Consensus size: 84
2641518 GGCAGTGAAT
* * ** * * * *
2641528 AGCTCAGCCGAGAAGATGAAGAACGAGATGGCCATGACAGTAAATAGCTCCA-CTGAGGAGATGA
1 AGCTCAGCCGAGAAGATGAACAAAGAGACAGCCATGAAAATAAATAACT-CAGCTGAGAAGATG-
* *
2641592 AAAGAGAGACAACTTCAATAAAG
64 -AAGAAAGA-AACATCAATAAAG
* *
2641615 AGCTCAGCGGAGAAGATGAACAAAGAGACAGCCTTGAAAATAAATAACTCAGCTGAGAAGATGAA
1 AGCTCAGCCGAGAAGATGAACAAAGAGACAGCCATGAAAATAAATAACTCAGCTGAGAAGATGAA
* *
2641680 GAAAGAAACATCATTAAAT
66 GAAAGAAACATCAATAAAG
* * * *** *
2641699 AGCTCAGCTGAGAAGATGAGAC-AAGAGACAG-C-TGCAGA-AAATGGTTCAGCTGAAAAGATGA
1 AGCTCAGCCGAGAAGATGA-ACAAAGAGACAGCCATGAAAATAAATAACTCAGCTGAGAAGATGA
* * *
2641760 AGAAAGAGACAGCCTTGACAGTAAAT
65 AGAAAGA-A-A--CAT--CAATAAAG
* * * *
2641786 ATCTCAGCTGAGAAGATGAACAAAGAGACAGCCTTGACAATAAATAACTCAGCTGAGAAGATGAA
1 AGCTCAGCCGAGAAGATGAACAAAGAGACAGCCATGAAAATAAATAACTCAGCTGAGAAGATGAA
*
2641851 CAAAGA
66 GAAAGA
2641857 GATGGCCAGG
Statistics
Matches: 198, Mismatches: 32, Indels: 21
0.79 0.13 0.08
Matches are distributed among these distances:
81 26 0.13
82 5 0.03
83 2 0.01
84 37 0.19
85 11 0.06
86 4 0.02
87 84 0.42
88 1 0.01
89 3 0.02
90 25 0.13
ACGTcount: A:0.45, C:0.16, G:0.24, T:0.15
Consensus pattern (84 bp):
AGCTCAGCCGAGAAGATGAACAAAGAGACAGCCATGAAAATAAATAACTCAGCTGAGAAGATGAA
GAAAGAAACATCAATAAAG
Found at i:2641913 original size:132 final size:132
Alignment explanation
Indices: 2641520--2641961 Score: 374
Period size: 132 Copynumber: 3.4 Consensus size: 132
2641510 ATGGCCTCGG
* * * * ** * * *
2641520 CAGTGAATAGCTCAGCCGAGAAGATGAAGAACGAGATGGCCATGACAGTAAATAGCTCCA-CTGA
1 CAGTAAATAACTCAGCTGAGAAGATGAAGAAAGAGACAGCCTTGACAATAAATAACT-CAGCTGA
* * * ** * *
2641584 GGAGATGA-AAAGAGAGACAACTTCA-ATAAAGAGCTCAGCGGAGAAGATGA-ACAAAGAGACAG
65 GAAGATGAGACA-AGAGACAGCGGCAGA-AAATAGCTCAGCTGAGAAGATGAGAC-AAGAGACAG
2641646 CCTTGA
127 CCTTGA
* * * * *
2641652 AAATAAATAACTCAGCTGAGAAGATGAAGAAAGA-A-A--CAT--CATTAAATAGCTCAGCTGAG
1 CAGTAAATAACTCAGCTGAGAAGATGAAGAAAGAGACAGCCTTGACAATAAATAACTCAGCTGAG
* * * *
2641711 AAGATGAGACAAGAGACAGCTGCAGAAAATGGTTCAGCTGAAAAGATGAAGA-AAGAGACAGCCT
66 AAGATGAGACAAGAGACAGCGGCAGAAAATAGCTCAGCTGAGAAGATG-AGACAAGAGACAGCCT
2641775 TGA
130 TGA
* *
2641778 CAGTAAATATCTCAGCTGAGAAGATGAACAAAGAGACAGCCTTGACAATAAATAACTCAGCTGAG
1 CAGTAAATAACTCAGCTGAGAAGATGAAGAAAGAGACAGCCTTGACAATAAATAACTCAGCTGAG
** **
2641843 AAGATGA-ACAAAGAGATGGCCAGGACAGTGAATAGCTCAGCTGAGAAGATGAGACAAGAGACAG
66 AAGATGAGAC-AAGAGACAG-C-GG-CAGAAAATAGCTCAGCTGAGAAGATGAGACAAGAGACAG
2641907 -C-T-A
127 CCTTGA
** * * *
2641910 CAGTAAATGGCTCGGCTGAGAAGATGAAGAAAGAGACGGCCTTGACAGTAAA
1 CAGTAAATAACTCAGCTGAGAAGATGAAGAAAGAGACAGCCTTGACAATAAA
2641962 GAGCTCGAAC
Statistics
Matches: 256, Mismatches: 38, Indels: 32
0.79 0.12 0.10
Matches are distributed among these distances:
125 2 0.01
126 95 0.37
127 5 0.02
128 5 0.02
130 2 0.01
131 3 0.01
132 107 0.42
133 2 0.01
134 5 0.02
135 30 0.12
ACGTcount: A:0.43, C:0.16, G:0.26, T:0.15
Consensus pattern (132 bp):
CAGTAAATAACTCAGCTGAGAAGATGAAGAAAGAGACAGCCTTGACAATAAATAACTCAGCTGAG
AAGATGAGACAAGAGACAGCGGCAGAAAATAGCTCAGCTGAGAAGATGAGACAAGAGACAGCCTT
GA
Found at i:2641954 original size:177 final size:173
Alignment explanation
Indices: 2641501--2642081 Score: 613
Period size: 177 Copynumber: 3.3 Consensus size: 173
2641491 TGAGAAGGCA
** * * **
2641501 AACAAAGAGATGGCCTCGGCAGTGAATAGCTCAGCCGAGAAGATGAAGA-ACGAGATGGCCATGA
1 AACAAAGAGATGG-C-CAACAGTGAATAGCTCAGCTGAGAAGATG-AGACAAGAGACAG-C-T-A
* * ** *
2641565 CAGTAAATAGCTCCA-CTGAGGAGATGAA-AAGAGAGACAACTT--CAATAAAGAGCTCAGCGGA
60 CAGTAAATGGCT-CAGCTGAGAAGATGAAGAA-AGAGACGCCTTGACAGTAAAGAGCTCAGC-GA
*
2641626 GAAGATGAACAAAGAGACAGCCTTGAAAATAAATAACTCAGCTGAGAAGATG
122 GAAGATGAACAAAGAGACAGCCTTGACAATAAATAACTCAGCTGAGAAGATG
* * * * * * *
2641678 AAGAAAGA-A---ACATCATTAAATAGCTCAGCTGAGAAGATGAGACAAGAGACAGCTGCAGAAA
1 AACAAAGAGATGGCCAACAGTGAATAGCTCAGCTGAGAAGATGAGACAAGAGACAGCTACAGTAA
* * * *
2641739 ATGGTTCAGCTGAAAAGATGAAGAAAGAGACAGCCTTGACAGTAAATATCTCAGCTGAGAAGATG
66 ATGGCTCAGCTGAGAAGATGAAGAAAGAGAC-GCCTTGACAGTAAAGAGCTCAGC-GAGAAGATG
2641804 AACAAAGAGACAGCCTTGACAATAAATAACTCAGCTGAGAAGATG
129 AACAAAGAGACAGCCTTGACAATAAATAACTCAGCTGAGAAGATG
2641849 AACAAAGAGATGGCCAGGACAGTGAATAGCTCAGCTGAGAAGATGAGACAAGAGACAGCTACAGT
1 AACAAAGAGATGGCCA--ACAGTGAATAGCTCAGCTGAGAAGATGAGACAAGAGACAGCTACAGT
* * *
2641914 AAATGGCTCGGCTGAGAAGATGAAGAAAGAGACGGCCTTGACAGTAAAGAGCTCGAACGAGAAGG
64 AAATGGCTCAGCTGAGAAGATGAAGAAAGAGAC-GCCTTGACAGTAAAGAGCTC-AGCGAGAAGA
* * * * * *
2641979 TGAAGAAAGAAACAGCCTTGACAGTAAATAACTCGGCTGAGAAGGTT
127 TGAACAAAGAGACAGCCTTGACAATAAATAACTCAGCTGAGAAGATG
* * * * *
2642026 AAGAAAGAGATCGCTTCAACAGTGAATGGCTCAGCTGAGAAGATGAAAAAAGAGAC
1 AACAAAGAGATGGC--CAACAGTGAATAGCTCAGCTGAGAAGATGAGACAAGAGAC
2642082 CACTGTGGCA
Statistics
Matches: 340, Mismatches: 49, Indels: 30
0.81 0.12 0.07
Matches are distributed among these distances:
167 2 0.01
168 26 0.08
169 6 0.02
170 4 0.01
171 103 0.30
172 1 0.00
175 2 0.01
176 1 0.00
177 191 0.56
178 2 0.01
179 2 0.01
ACGTcount: A:0.43, C:0.16, G:0.27, T:0.15
Consensus pattern (173 bp):
AACAAAGAGATGGCCAACAGTGAATAGCTCAGCTGAGAAGATGAGACAAGAGACAGCTACAGTAA
ATGGCTCAGCTGAGAAGATGAAGAAAGAGACGCCTTGACAGTAAAGAGCTCAGCGAGAAGATGAA
CAAAGAGACAGCCTTGACAATAAATAACTCAGCTGAGAAGATG
Found at i:2642078 original size:45 final size:45
Alignment explanation
Indices: 2641520--2642081 Score: 493
Period size: 45 Copynumber: 12.8 Consensus size: 45
2641510 ATGGCCTCGG
* * * ** *
2641520 CAGTGAATAGCTCAGCCGAGAAGATGAAGAACGAGATGGCCATGA
1 CAGTAAATAGCTCAGCTGAGAAGATGAAGAAAGAGACAGCCTTGA
* *
2641565 CAGTAAATAGCTCCA-CTGAGGAGATGAA-AAGAGAGACA-ACTT--
1 CAGTAAATAGCT-CAGCTGAGAAGATGAAGAA-AGAGACAGCCTTGA
* * * *
2641607 CAATAAAGAGCTCAGCGGAGAAGATGAACAAAGAGACAGCCTTGA
1 CAGTAAATAGCTCAGCTGAGAAGATGAAGAAAGAGACAGCCTTGA
* * * *
2641652 AAATAAATAACTCAGCTGAGAAGATGAAGAAAGA-A-A--CAT--
1 CAGTAAATAGCTCAGCTGAGAAGATGAAGAAAGAGACAGCCTTGA
*
2641691 CATTAAATAGCTCAGCTGAGAAGATG-AGACAAGAGACAG-C-TG-
1 CAGTAAATAGCTCAGCTGAGAAGATGAAGA-AAGAGACAGCCTTGA
* * * *
2641733 CAGAAAATGGTTCAGCTGAAAAGATGAAGAAAGAGACAGCCTTGA
1 CAGTAAATAGCTCAGCTGAGAAGATGAAGAAAGAGACAGCCTTGA
* *
2641778 CAGTAAATATCTCAGCTGAGAAGATGAACAAAGAGACAGCCTTGA
1 CAGTAAATAGCTCAGCTGAGAAGATGAAGAAAGAGACAGCCTTGA
* * * ** **
2641823 CAATAAATAACTCAGCTGAGAAGATGAACAAAGAGATGGCCAGGA
1 CAGTAAATAGCTCAGCTGAGAAGATGAAGAAAGAGACAGCCTTGA
*
2641868 CAGTGAATAGCTCAGCTGAGAAGATG-AGACAAGAGACAG-C-T-A
1 CAGTAAATAGCTCAGCTGAGAAGATGAAGA-AAGAGACAGCCTTGA
* * *
2641910 CAGTAAATGGCTCGGCTGAGAAGATGAAGAAAGAGACGGCCTTGA
1 CAGTAAATAGCTCAGCTGAGAAGATGAAGAAAGAGACAGCCTTGA
* * * *
2641955 CAGTAAAGAGCTCGAAC-GAGAAGGTGAAGAAAGAAACAGCCTTGA
1 CAGTAAATAGCTC-AGCTGAGAAGATGAAGAAAGAGACAGCCTTGA
* * * * *
2642000 CAGTAAATAACTCGGCTGAGAAGGTTAAGAAAGAGATC-G-CTTCAA
1 CAGTAAATAGCTCAGCTGAGAAGATGAAGAAAGAGA-CAGCCTT-GA
* * *
2642045 CAGTGAATGGCTCAGCTGAGAAGATGAAAAAAGAGAC
1 CAGTAAATAGCTCAGCTGAGAAGATGAAGAAAGAGAC
2642082 CACTGTGGCA
Statistics
Matches: 421, Mismatches: 71, Indels: 51
0.78 0.13 0.09
Matches are distributed among these distances:
38 3 0.01
39 27 0.06
40 1 0.00
41 6 0.01
42 91 0.22
43 14 0.03
44 16 0.04
45 259 0.62
46 4 0.01
ACGTcount: A:0.43, C:0.16, G:0.27, T:0.15
Consensus pattern (45 bp):
CAGTAAATAGCTCAGCTGAGAAGATGAAGAAAGAGACAGCCTTGA
Found at i:2643343 original size:15 final size:14
Alignment explanation
Indices: 2643312--2643350 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
2643302 ACAAAATGTT
*
2643312 ATAAATTAAATAAAA
1 ATAAATTACA-AAAA
2643327 ATATAATTACAAAAA
1 ATA-AATTACAAAAA
2643342 ATAAATTAC
1 ATAAATTAC
2643351 TTACTATACC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 6 0.27
15 10 0.45
16 6 0.27
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (14 bp):
ATAAATTACAAAAA
Found at i:2650027 original size:15 final size:17
Alignment explanation
Indices: 2650003--2650042 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
2649993 CTTACATTTT
2650003 TTTTTAATTTA-TAAA-A
1 TTTTT-ATTTATTAAATA
2650019 TTTTTATTTATTAAATA
1 TTTTTATTTATTAAATA
2650036 TTTTTAT
1 TTTTTAT
2650043 AATTTTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.23
16 9 0.41
17 8 0.36
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTTATTTATTAAATA
Found at i:2652189 original size:21 final size:21
Alignment explanation
Indices: 2652143--2652190 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
2652133 TTTACAAATA
2652143 ATTTTAAAAATTATTATGTAT
1 ATTTTAAAAATTATTATGTAT
* *
2652164 TTTTTAAAAATATTTTAT-TAT
1 ATTTTAAAAAT-TATTATGTAT
2652185 ATTTTA
1 ATTTTA
2652191 TAAGATGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
ATTTTAAAAATTATTATGTAT
Found at i:2654841 original size:13 final size:13
Alignment explanation
Indices: 2654806--2654848 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
2654796 TGTTTGATTT
*
2654806 TATGAATAAAAGACA
1 TATGAATTAAA-A-A
*
2654821 TATTAATTAAAAA
1 TATGAATTAAAAA
2654834 TATGAATTAAAAA
1 TATGAATTAAAAA
2654847 TA
1 TA
2654849 AAAAAATTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 15 0.60
14 1 0.04
15 9 0.36
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.30
Consensus pattern (13 bp):
TATGAATTAAAAA
Found at i:2657801 original size:17 final size:16
Alignment explanation
Indices: 2657770--2657804 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
2657760 TTCCACATGT
2657770 TATTAAAAACCAATTA
1 TATTAAAAACCAATTA
*
2657786 TATTATAAAACGAATTA
1 TATTA-AAAACCAATTA
2657803 TA
1 TA
2657805 ATAGCTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.54, C:0.09, G:0.03, T:0.34
Consensus pattern (16 bp):
TATTAAAAACCAATTA
Found at i:2662498 original size:13 final size:13
Alignment explanation
Indices: 2662482--2662511 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2662472 TAGACCAAGC
2662482 TTTTCAAAAGCAT
1 TTTTCAAAAGCAT
*
2662495 TTTTCATAAGCAT
1 TTTTCAAAAGCAT
2662508 TTTT
1 TTTT
2662512 TTGCAGCACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.13, G:0.07, T:0.50
Consensus pattern (13 bp):
TTTTCAAAAGCAT
Found at i:2664701 original size:16 final size:15
Alignment explanation
Indices: 2664651--2664703 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 15
2664641 TCCATTTTTG
2664651 TAAATTAGATTAATA
1 TAAATTAGATTAATA
*
2664666 TATAATTAAATTAAATA
1 TA-AATTAGATT-AATA
2664683 TAAATTAGAGTTAATA
1 TAAATTAGA-TTAATA
2664699 TAAAT
1 TAAAT
2664704 GTTATTGTGC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
15 2 0.06
16 23 0.70
17 8 0.24
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.40
Consensus pattern (15 bp):
TAAATTAGATTAATA
Found at i:2670814 original size:21 final size:21
Alignment explanation
Indices: 2670785--2670827 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
2670775 ATTTCTTTTA
2670785 ATATACAAG-AATCATAAATAT
1 ATATACAAGCAATCA-AAATAT
* *
2670806 ATATTCAAGCAATTAAAATAT
1 ATATACAAGCAATCAAAATAT
2670827 A
1 A
2670828 AATTTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.56, C:0.09, G:0.05, T:0.30
Consensus pattern (21 bp):
ATATACAAGCAATCAAAATAT
Found at i:2671383 original size:8 final size:8
Alignment explanation
Indices: 2671370--2671395 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
2671360 TTGATTAGTG
2671370 AATTTTAA
1 AATTTTAA
2671378 AATTTTAA
1 AATTTTAA
2671386 AATTTTAA
1 AATTTTAA
2671394 AA
1 AA
2671396 ATAATATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (8 bp):
AATTTTAA
Found at i:2673339 original size:29 final size:29
Alignment explanation
Indices: 2673306--2673369 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
2673296 TAATCCACCA
2673306 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
2673335 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
2673365 CCCAA
1 CCCAA
2673370 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:2673343 original size:30 final size:30
Alignment explanation
Indices: 2673313--2673369 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
2673303 CCACCCAACT
2673313 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
2673342 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
2673370 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:2684018 original size:104 final size:101
Alignment explanation
Indices: 2683904--2684099 Score: 284
Period size: 104 Copynumber: 1.9 Consensus size: 101
2683894 AAATAATTTT
* * **
2683904 AAATATATTTTAAATTTAAATTTTTATTATTTATTTTGGATTTGTTAAATTATATGCATAATAGC
1 AAATATATTTTAAAATTAAATTTTTATCATTTATTTTGGATTTGTTAAACAATATGC---ATAGC
2683969 ATGAGATAATATTATTATTTAATTTATGAAGTAACTTTA
63 ATGAGATAATATTATTATTTAATTTATGAAGTAACTTTA
* *
2684008 AAATATATTTTAAAATTAAATTTTTATCATTTATTTTGGATTTGTTGAACAATATGCATAGTATG
1 AAATATATTTTAAAATTAAATTTTTATCATTTATTTTGGATTTGTTAAACAATATGCATAGCATG
* * *
2684073 GGATGATATTGTTATTTAATTTATGAA
66 AGATAATATTATTATTTAATTTATGAA
2684100 ATATTTTTAT
Statistics
Matches: 83, Mismatches: 9, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
101 31 0.37
104 52 0.63
ACGTcount: A:0.37, C:0.03, G:0.11, T:0.49
Consensus pattern (101 bp):
AAATATATTTTAAAATTAAATTTTTATCATTTATTTTGGATTTGTTAAACAATATGCATAGCATG
AGATAATATTATTATTTAATTTATGAAGTAACTTTA
Found at i:2687233 original size:72 final size:71
Alignment explanation
Indices: 2687104--2687245 Score: 230
Period size: 72 Copynumber: 2.0 Consensus size: 71
2687094 CTCGGATTTG
*
2687104 AAAAAGGAATCATGCCCAGTAAGTTAGGACATGATCTTTTCTTAATTCCTGAGATCGTTTAAAAC
1 AAAAAGGAATCATGCCCAGTAAGTTAGGACATGATCTCTTCTTAATTCCTGAGATCGTTTAAAAC
2687169 TTGAGA
66 TTGAGA
* * * *
2687175 AAAAAGGGGATCATGCCCAGTAAGTTAGGACATGATCTCTTCTTGATTCCTGATATCGTTTAATA
1 AAAAA-GGAATCATGCCCAGTAAGTTAGGACATGATCTCTTCTTAATTCCTGAGATCGTTTAAAA
2687240 CTTGAG
65 CTTGAG
2687246 TTTTAAAAGA
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
71 5 0.08
72 60 0.92
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (71 bp):
AAAAAGGAATCATGCCCAGTAAGTTAGGACATGATCTCTTCTTAATTCCTGAGATCGTTTAAAAC
TTGAGA
Found at i:2688175 original size:72 final size:72
Alignment explanation
Indices: 2688058--2688191 Score: 198
Period size: 72 Copynumber: 1.9 Consensus size: 72
2688048 TCTTTTCAAA
*
2688058 CTCAAGTATTAAACGATATCGACAATCAAGAAGAGATCATGTCCTAACTTACTGGGCATGATCCC
1 CTCAAGTATTAAACGATATCGACAATCAAGAAAAGATCATGTCCTAACTTACTGGGCATGATCCC
2688123 CTTTTTT
66 CTTTTTT
* * * * *
2688130 CTCAAGTTTTAAACGATCTC-AGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGAT
1 CTCAAGTATTAAACGATATCGA-CAATCAAGAAAAGATCATGTCCTAACTTACTGGGCATGAT
2688192 TCATTTTTCA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
71 1 0.02
72 54 0.98
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (72 bp):
CTCAAGTATTAAACGATATCGACAATCAAGAAAAGATCATGTCCTAACTTACTGGGCATGATCCC
CTTTTTT
Found at i:2696924 original size:19 final size:21
Alignment explanation
Indices: 2696902--2696941 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
2696892 TTATCGAAAA
2696902 CAAATTT-TATTTC-ATTTAT
1 CAAATTTGTATTTCAATTTAT
*
2696921 CAAATTTGTTTTTCAATTTAT
1 CAAATTTGTATTTCAATTTAT
2696942 AAAAAATAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 5 0.28
21 6 0.33
ACGTcount: A:0.30, C:0.10, G:0.03, T:0.57
Consensus pattern (21 bp):
CAAATTTGTATTTCAATTTAT
Found at i:2722833 original size:17 final size:17
Alignment explanation
Indices: 2722796--2722834 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
2722786 TTATTTATTC
*
2722796 TATTGTTGGAATTGAAT
1 TATTGTTGGAATTGAAA
2722813 TATTGTTGGAATT-ATAA
1 TATTGTTGGAATTGA-AA
2722830 TATTG
1 TATTG
2722835 AATTGGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 1 0.05
17 19 0.95
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.49
Consensus pattern (17 bp):
TATTGTTGGAATTGAAA
Found at i:2725757 original size:4 final size:4
Alignment explanation
Indices: 2725748--2725779 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
2725738 GCCACAAATA
2725748 TATG TATG TATG TATG TATG TATG TATTG TAT
1 TATG TATG TATG TATG TATG TATG TA-TG TAT
2725780 ATGCAGTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.25, C:0.00, G:0.22, T:0.53
Consensus pattern (4 bp):
TATG
Found at i:2727691 original size:15 final size:15
Alignment explanation
Indices: 2727671--2727722 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
2727661 ACTAGAAAAC
2727671 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
2727686 ATTTATAATTCTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
2727705 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
2727720 ATT
1 ATT
2727723 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:2728399 original size:31 final size:32
Alignment explanation
Indices: 2728360--2728437 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 32
2728350 AATTATATAT
*
2728360 ATAATAAAA-A-ATTCAAATAATAGTTAAAAA-
1 ATAATAAAATATATT-AAATAATAATTAAAAAG
*
2728390 ATTAATAAAATATATTAAATTATAATTAAAAAG
1 A-TAATAAAATATATTAAATAATAATTAAAAAG
*
2728423 ATAATAATAT-TATTA
1 ATAATAAAATATATTA
2728438 CATTAAGAGA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
30 1 0.02
31 13 0.32
32 23 0.56
33 4 0.10
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.35
Consensus pattern (32 bp):
ATAATAAAATATATTAAATAATAATTAAAAAG
Found at i:2728401 original size:20 final size:20
Alignment explanation
Indices: 2728364--2728401 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2728354 ATATATATAA
*
2728364 TAAAAAATTCAAATAATAGT
1 TAAAAAATTCAAAAAATAGT
2728384 TAAAAAATT-AATAAAATA
1 TAAAAAATTCAA-AAAATA
2728402 TATTAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.12
20 14 0.88
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (20 bp):
TAAAAAATTCAAAAAATAGT
Found at i:2737682 original size:19 final size:20
Alignment explanation
Indices: 2737644--2737683 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
2737634 AACCTTTTTT
*
2737644 TTAATATTCAAATTACAATTA
1 TTAATATT-AAATTAAAATTA
2737665 TTAATATT-AATTAAAATTA
1 TTAATATTAAATTAAAATTA
2737684 AATATGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
21 8 0.44
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
TTAATATTAAATTAAAATTA
Found at i:2738054 original size:23 final size:24
Alignment explanation
Indices: 2738011--2738061 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
2738001 AAGTTCGTTC
2738011 CTATTTTTAATGATTAAAATT-AA
1 CTATTTTTAATGATTAAAATTCAA
**
2738034 CTATTTTTAA-GATTTTTAATTCAA
1 CTATTTTTAATGA-TTAAAATTCAA
2738058 CTAT
1 CTAT
2738062 GAAATAGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 2 0.08
23 16 0.67
24 6 0.25
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.51
Consensus pattern (24 bp):
CTATTTTTAATGATTAAAATTCAA
Found at i:2743008 original size:18 final size:17
Alignment explanation
Indices: 2742987--2743020 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2742977 TAAAATTGCG
2742987 ATAATTAAGAATTTAAAA
1 ATAATT-AGAATTTAAAA
*
2743005 ATAATTATAATTTAAA
1 ATAATTAGAATTTAAA
2743021 TTACAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
ATAATTAGAATTTAAAA
Found at i:2743029 original size:152 final size:154
Alignment explanation
Indices: 2742752--2743053 Score: 425
Period size: 152 Copynumber: 2.0 Consensus size: 154
2742742 TTAGAAAAAG
* **
2742752 TTTTGAACTAACAAAAATAATATTTATTTTTATCATATTATTAACTTTACATTTAAAATAATTAT
1 TTTTGAACTAACAAAAATAACATTTATTTTTATCATATTATTAAAATTACATTTAAAATAATTAT
* * * * *
2742817 AATTTAATAAAAATTATGGTAATTACAAATTTAAAAATAATTGAAACTTAAATTGCAATTATTAA
66 AAATTAATAAAAATTACGATAATTACAAATTTAAAAATAATTGAAACTTAAATTACAATTATCAA
2742882 TT-AAAAATTGTGCTAATTTAAAC
131 TTAAAAAATTGTGCTAATTTAAAC
*
2742905 TTTTGAACT-ATAAAAATAACATTTATTTTTCATCATATTATTAAAATTACATTTAAAATAATTA
1 TTTTGAACTAACAAAAATAACATTTATTTTT-ATCATATTATTAAAATTACATTTAAAATAATTA
* *
2742969 TAAATTAAT-AAAATTGCGATAATTA-AGAATTTAAAAATAATT-ATAATTTAAATTACAATTAT
65 TAAATTAATAAAAATTACGATAATTACA-AATTTAAAAATAATTGA-AACTTAAATTACAATTAT
* *
2743031 CGATTAAAAAATTGTGTTAATTT
128 CAATTAAAAAATTGTGCTAATTT
2743054 TAAAATAGAG
Statistics
Matches: 132, Mismatches: 13, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
151 2 0.02
152 66 0.50
153 64 0.48
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.42
Consensus pattern (154 bp):
TTTTGAACTAACAAAAATAACATTTATTTTTATCATATTATTAAAATTACATTTAAAATAATTAT
AAATTAATAAAAATTACGATAATTACAAATTTAAAAATAATTGAAACTTAAATTACAATTATCAA
TTAAAAAATTGTGCTAATTTAAAC
Found at i:2744363 original size:15 final size:16
Alignment explanation
Indices: 2744323--2744364 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
2744313 ATACTATGTC
2744323 TTATTATTT-TATTAT
1 TTATTATTTATATTAT
*
2744338 TTATGTTTTTAT-TTAT
1 TTAT-TATTTATATTAT
2744354 TTATTATTTAT
1 TTATTATTTAT
2744365 GTTGTGTACA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 10 0.43
16 12 0.52
17 1 0.04
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (16 bp):
TTATTATTTATATTAT
Found at i:2744387 original size:30 final size:30
Alignment explanation
Indices: 2744261--2744391 Score: 122
Period size: 30 Copynumber: 4.3 Consensus size: 30
2744251 CATAATTTAA
2744261 TTTTAATT-TTTATGTTATGTACATTCTATG
1 TTTT-ATTATTTATGTTATGTACATTCTATG
* *
2744291 TTTTATTATTTATGTTACGTACATACTATG
1 TTTTATTATTTATGTTATGTACATTCTATG
* * * ** * *
2744321 TCTTATTATTT-TATTATTTATGTTTTTATT
1 TTTTATTATTTATGTTATGTA-CATTCTATG
* *
2744351 TATTTATTATTTATGTTGTGTACATTCTACG
1 T-TTTATTATTTATGTTATGTACATTCTATG
2744382 TTTTATTATT
1 TTTTATTATT
2744392 GTATTTAATT
Statistics
Matches: 77, Mismatches: 20, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
29 9 0.12
30 48 0.62
31 14 0.18
32 6 0.08
ACGTcount: A:0.23, C:0.07, G:0.08, T:0.62
Consensus pattern (30 bp):
TTTTATTATTTATGTTATGTACATTCTATG
Found at i:2744548 original size:17 final size:17
Alignment explanation
Indices: 2744528--2744562 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
2744518 GTTTATGAAA
*
2744528 AAATAAAATACGAAAAT
1 AAATAAAAAACGAAAAT
2744545 AAATAAAAAACGAAAAT
1 AAATAAAAAACGAAAAT
2744562 A
1 A
2744563 GTATATTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.74, C:0.06, G:0.06, T:0.14
Consensus pattern (17 bp):
AAATAAAAAACGAAAAT
Found at i:2744835 original size:159 final size:160
Alignment explanation
Indices: 2744540--2745017 Score: 662
Period size: 149 Copynumber: 3.1 Consensus size: 160
2744530 ATAAAATACG
* ** * * *
2744540 AAAATAAATAAAAAACGAAAATAGTATATTTACTAAAAGTAATAAAATCCGAAAA-AATAAAAAT
1 AAAAT-AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATTCGAAAATAAGAAAAAT
* *
2744604 ACGAATAAAGGGCCAAAATAAG-GGTTTTTTACTAAATTTATATAAAAAAACACACTAAAATAAT
65 ACGAACAAAGGGCCAAAATAAGAGTTTTTTTACTAAATTTATATAAAAAAACACACTAAAATAAT
2744668 ACATTTCAAACATTATGTACTAAAATAATAT
130 ACATTTCAAACATTATGTACTAAAATAATAT
* *
2744699 AAAATAATAAAATATGAAAATAGTATCTTTTTTGAAAGTAATAAAATTCGAAAATAAGAAAAATA
1 AAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATTCGAAAATAAGAAAAATA
2744764 CGAACAAA-GGCCAAAATAATGAGTTTTTTTACTAAATTTATATAAAAAAA-ACACTAAAATAAT
66 CGAACAAAGGGCCAAAATAA-GAGTTTTTTTACTAAATTTATATAAAAAAACACACTAAAATAAT
2744827 ACATTTCAAACATTATGTAC--------TA-
130 ACATTTCAAACATTATGTACTAAAATAATAT
2744849 AAAAT-ATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAA-TCTGAAAATAAGAAAAAT
1 AAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATTC-GAAAATAAGAAAAAT
*** * * *
2744912 ACGAACAAATAACCAAAATAACAGTTTTTTTTACTAAATTTATATAAAAAAACACACCAAATTAA
65 ACGAACAAAGGGCCAAAATAAGAG-TTTTTTTACTAAATTTATATAAAAAAACACACTAAAATAA
2744977 TACATTTCAAACATTATGTACTAAAATAATAT
129 TACATTTCAAACATTATGTACTAAAATAATAT
*
2745009 AAATTAATA
1 AAAATAATA
2745018 CATTTCCAGC
Statistics
Matches: 284, Mismatches: 18, Indels: 32
0.85 0.05 0.10
Matches are distributed among these distances:
148 2 0.01
149 64 0.23
150 41 0.14
151 33 0.12
158 53 0.19
159 57 0.20
160 31 0.11
161 3 0.01
ACGTcount: A:0.55, C:0.09, G:0.07, T:0.29
Consensus pattern (160 bp):
AAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATTCGAAAATAAGAAAAATA
CGAACAAAGGGCCAAAATAAGAGTTTTTTTACTAAATTTATATAAAAAAACACACTAAAATAATA
CATTTCAAACATTATGTACTAAAATAATAT
Found at i:2745846 original size:76 final size:76
Alignment explanation
Indices: 2745756--2745896 Score: 203
Period size: 76 Copynumber: 1.9 Consensus size: 76
2745746 TAGTTTTGTA
2745756 CTAAAAATAATACTAACTAACAATAAGAATTAGGG-TTTTACTAAAAATAATAACTAACAATAAT
1 CTAAAAATAATACTAACTAA-AATAAGAATTAGGGTTTTTACTAAAAATAATAACTAACAATAAT
2745820 ATAGTGTAAACG
65 ATAGTGTAAACG
* * * *** *
2745832 CTAACAATCATACTAACTAAAATAATAATTAGGGTTTTTACTAATCCTAATAACTAACCATAATA
1 CTAAAAATAATACTAACTAAAATAAGAATTAGGGTTTTTACTAAAAATAATAACTAACAATAATA
2745897 ATAATATTAG
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
75 13 0.23
76 44 0.77
ACGTcount: A:0.50, C:0.13, G:0.07, T:0.30
Consensus pattern (76 bp):
CTAAAAATAATACTAACTAAAATAAGAATTAGGGTTTTTACTAAAAATAATAACTAACAATAATA
TAGTGTAAACG
Found at i:2746536 original size:16 final size:16
Alignment explanation
Indices: 2746498--2746537 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
2746488 AATATGTGAA
2746498 TAATATTATTTAAAAT
1 TAATATTATTTAAAAT
*
2746514 TATTATT-TTTAAAACT
1 TAATATTATTTAAAA-T
2746530 TAATATTA
1 TAATATTA
2746538 AAATAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
TAATATTATTTAAAAT
Found at i:2746550 original size:18 final size:19
Alignment explanation
Indices: 2746523--2746558 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2746513 TTATTATTTT
2746523 TAAAACTT-AATATTAAAA
1 TAAAACTTAAATATTAAAA
*
2746541 TAAAATTTAAATATTAAA
1 TAAAACTTAAATATTAAA
2746559 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (19 bp):
TAAAACTTAAATATTAAAA
Found at i:2747584 original size:23 final size:22
Alignment explanation
Indices: 2747557--2747608 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
2747547 CCATGAAAAA
*
2747557 AATTTCTAACTTAAAACAGTTTT
1 AATTT-TAACTTAAAAAAGTTTT
* *
2747580 AATTTTTATTTAAAAAAGTTTT
1 AATTTTAACTTAAAAAAGTTTT
2747602 AATTTTA
1 AATTTTA
2747609 TTAAATAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 20 0.80
23 5 0.20
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.50
Consensus pattern (22 bp):
AATTTTAACTTAAAAAAGTTTT
Found at i:2749317 original size:22 final size:22
Alignment explanation
Indices: 2749287--2749340 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
2749277 CAAATTCTGA
*
2749287 ATTAAAATTTAA-ACTATAAAAT
1 ATTAAAATTAAATACT-TAAAAT
* *
2749309 ATTATAATTAAATACTTAAAGT
1 ATTAAAATTAAATACTTAAAAT
*
2749331 ATTAATATTA
1 ATTAAAATTA
2749341 TTTTGACCAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 23 0.88
23 3 0.12
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.41
Consensus pattern (22 bp):
ATTAAAATTAAATACTTAAAAT
Found at i:2753602 original size:16 final size:18
Alignment explanation
Indices: 2753581--2753615 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
2753571 TAGCGAGTGC
2753581 ATGCAT-TATTAT-TTTT
1 ATGCATATATTATATTTT
2753597 ATGCATATATTATATTTT
1 ATGCATATATTATATTTT
2753615 A
1 A
2753616 ATAAGTTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 6 0.35
18 5 0.29
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (18 bp):
ATGCATATATTATATTTT
Found at i:2754147 original size:16 final size:15
Alignment explanation
Indices: 2754092--2754145 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
2754082 TGTGTTTAGT
2754092 ATTATTTTT-AATAA
1 ATTATTTTTAAATAA
2754106 A-TATTTTTGAAATAAA
1 ATTATTTTT-AAAT-AA
*
2754122 AGTATTTTTAAATAA
1 ATTATTTTTAAATAA
2754137 ATTATTTTT
1 ATTATTTTT
2754146 TAGAAAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
13 7 0.20
14 1 0.03
15 13 0.37
16 7 0.20
17 7 0.20
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (15 bp):
ATTATTTTTAAATAA
Found at i:2759813 original size:11 final size:10
Alignment explanation
Indices: 2759798--2759826 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
2759788 AAATATATTT
2759798 ATTTTTTAAA
1 ATTTTTTAAA
2759808 ATTTTTTAAA
1 ATTTTTTAAA
2759818 ATTTTTTAA
1 ATTTTTTAA
2759827 TTTTAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
ATTTTTTAAA
Found at i:2759832 original size:16 final size:16
Alignment explanation
Indices: 2759811--2759842 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2759801 TTTTAAAATT
*
2759811 TTTTAAAATTTTTTAA
1 TTTTAAAATATTTTAA
2759827 TTTTAAAATATTTTAA
1 TTTTAAAATATTTTAA
2759843 AAAATACTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTTAAAATATTTTAA
Found at i:2773963 original size:2 final size:2
Alignment explanation
Indices: 2773956--2773982 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2773946 GAAGTACTTT
2773956 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
2773983 GAATATTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2775239 original size:11 final size:13
Alignment explanation
Indices: 2775215--2775246 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
2775205 TAGTTTACTA
2775215 ATATTTTAATATG
1 ATATTTTAATATG
2775228 AT-TTTTAA-ATG
1 ATATTTTAATATG
2775239 ATATTTTA
1 ATATTTTA
2775247 TTAATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (13 bp):
ATATTTTAATATG
Found at i:2776733 original size:21 final size:21
Alignment explanation
Indices: 2776702--2776748 Score: 71
Period size: 19 Copynumber: 2.3 Consensus size: 21
2776692 TGTTAATTTC
2776702 ATGAAATATATA-ATGTA-TG
1 ATGAAATATATATATGTATTG
*
2776721 ATGAAATATATATATTTATTG
1 ATGAAATATATATATGTATTG
2776742 ATGAAAT
1 ATGAAAT
2776749 GAGAATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 12 0.48
20 4 0.16
21 9 0.36
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (21 bp):
ATGAAATATATATATGTATTG
Found at i:2777061 original size:46 final size:46
Alignment explanation
Indices: 2776994--2777506 Score: 588
Period size: 46 Copynumber: 11.6 Consensus size: 46
2776984 TTTGAGTACT
*
2776994 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTA
*
2777040 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTA
*
2777086 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTA
*
2777132 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGC--TA--TA-A---A
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTA
* ** * * * * * * *
2777170 -GTGAGAAAGTGA-TAAGTGGTAGCATTAGCTA-CACTTATCT-GA-TCA
1 TCTGATCAAGTGACAAAGTGATA--AGT-GGTAGCA-TTAGCTACACTTA
** *
2777215 AGTGATAAAGTG----A----TAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTA
*
2777253 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTA
* *
2777299 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTA
**
2777345 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTA
**
2777391 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTA
*
2777437 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTA
*
2777482 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
2777507 ATCATAAGTA
Statistics
Matches: 419, Mismatches: 25, Indels: 49
0.85 0.05 0.10
Matches are distributed among these distances:
36 15 0.04
37 14 0.03
38 15 0.04
39 5 0.01
41 3 0.01
42 3 0.01
43 15 0.04
44 7 0.02
45 20 0.05
46 322 0.77
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.29
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTA
Found at i:2777216 original size:75 final size:75
Alignment explanation
Indices: 2777093--2777238 Score: 283
Period size: 75 Copynumber: 1.9 Consensus size: 75
2777083 TTATCTGATC
2777093 AAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAGAAAGTGATAAGT
1 AAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAGAAAGTGATAAGT
2777158 GGTAGCTATA
66 GGTAGCTATA
*
2777168 AAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGATAAAGTGATAAGT
1 AAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAGAAAGTGATAAGT
2777233 GGTAGC
66 GGTAGC
2777239 ATTAGCTACA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 70 1.00
ACGTcount: A:0.37, C:0.10, G:0.27, T:0.27
Consensus pattern (75 bp):
AAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAGAAAGTGATAAGT
GGTAGCTATA
Found at i:2782119 original size:27 final size:27
Alignment explanation
Indices: 2782080--2782133 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
2782070 ATTGAATATA
*
2782080 AAGGGGATTGCTATGTGCTAATTTCCCC
1 AAGGGGATTGCTAAGTGCTAA-TTCCCC
*
2782108 AAGGGG-TTGCTAAGTGCTGATTCCCC
1 AAGGGGATTGCTAAGTGCTAATTCCCC
2782134 GAATTATTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 6 0.25
27 12 0.50
28 6 0.25
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (27 bp):
AAGGGGATTGCTAAGTGCTAATTCCCC
Found at i:2782154 original size:33 final size:33
Alignment explanation
Indices: 2782109--2782347 Score: 136
Period size: 33 Copynumber: 6.8 Consensus size: 33
2782099 AATTTCCCCA
*
2782109 AGGGGTTGCTAAGTGCTGATTCCCCGAATTATT
1 AGGGGTTGCTAAGTGCTGATTCCCCGAATCATT
* * *
2782142 AGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGT
1 AGGGGTTGCTAAGTGCTGATTCC-CCG-A--AT-CAT-T
2782181 GAAGGGGGTTGCTAAGTGCTGATTCCCC----CA--
1 --A-GGGGTTGCTAAGTGCTGATTCCCCGAATCATT
2782211 AGGGGTTGCTAAGTGCTGATTCCCCGAATCATT
1 AGGGGTTGCTAAGTGCTGATTCCCCGAATCATT
*
2782244 -GGTGGTTGCTAAGTGCTAATTCCACC-ATATCTTTGAATGT
1 AGG-GGTTGCTAAGTGCTGATTCC-CCGA-ATC-----AT-T
* *
2782284 GAAAGGGGTTGCTAAGTGTTGATTCCCCGAATCACT
1 ---AGGGGTTGCTAAGTGCTGATTCCCCGAATCATT
*
2782320 -GGTGGTTGCTAAGTGCTGAATCCACCGA
1 AGG-GGTTGCTAAGTGCTGATTCC-CCGA
2782348 TAACGGTTGA
Statistics
Matches: 164, Mismatches: 11, Indels: 61
0.69 0.05 0.26
Matches are distributed among these distances:
27 24 0.15
28 1 0.01
31 2 0.01
32 4 0.02
33 61 0.37
34 12 0.07
35 1 0.01
36 1 0.01
37 2 0.01
38 2 0.01
39 3 0.02
40 1 0.01
41 3 0.02
42 26 0.16
43 19 0.12
44 2 0.01
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.31
Consensus pattern (33 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGAATCATT
Found at i:2782256 original size:102 final size:103
Alignment explanation
Indices: 2782080--2782311 Score: 358
Period size: 102 Copynumber: 2.3 Consensus size: 103
2782070 ATTGAATATA
* * * * *
2782080 AAGGGGATTGCTATGTGCTAATTTCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATTATTAGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTAGT
* *
2782145 GGTTGCTAAGTGCTGATTCCACCGTAT-TTTAAATGTG
66 GGTTGCTAAGTGCTAATTCCACCATATCTTTAAATGTG
*
2782182 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTAGT
*
2782247 GGTTGCTAAGTGCTAATTCCACCATATCTTTGAATGTG
66 GGTTGCTAAGTGCTAATTCCACCATATCTTTAAATGTG
* *
2782285 AAAGGGGTTGCTAAGTGTTGATTCCCC
1 AAGGGGGTTGCTAAGTGCTGATTCCCC
2782312 GAATCACTGG
Statistics
Matches: 118, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
102 84 0.71
103 34 0.29
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (103 bp):
AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTAGT
GGTTGCTAAGTGCTAATTCCACCATATCTTTAAATGTG
Found at i:2787543 original size:18 final size:17
Alignment explanation
Indices: 2787489--2787557 Score: 59
Period size: 18 Copynumber: 3.8 Consensus size: 17
2787479 ATAATTATTT
2787489 TAAATTATAT-TTTATAG
1 TAAATTATATATTT-TAG
*
2787506 TATTATATATTATGATTTTAG
1 TA-AAT-TA-TAT-ATTTTAG
*
2787527 TAAATTCATATATTTTAT
1 TAAATT-ATATATTTTAG
2787545 TAAATTATATATT
1 TAAATTATATATT
2787558 ATTTTTATTA
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
17 9 0.21
18 14 0.33
19 6 0.14
20 6 0.14
21 5 0.12
22 3 0.07
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.55
Consensus pattern (17 bp):
TAAATTATATATTTTAG
Found at i:2787556 original size:17 final size:18
Alignment explanation
Indices: 2787520--2787557 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
2787510 ATATATTATG
2787520 ATTTTAGTAAATTCATAT
1 ATTTTAGTAAATTCATAT
*
2787538 ATTTTATTAAATT-ATAT
1 ATTTTAGTAAATTCATAT
2787555 ATT
1 ATT
2787558 ATTTTTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (18 bp):
ATTTTAGTAAATTCATAT
Found at i:2787565 original size:21 final size:21
Alignment explanation
Indices: 2787507--2787572 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
2787497 ATTTTATAGT
*
2787507 ATTATATATTATGATTTTAGTAA
1 ATTATATATTAT--TTTTATTAA
*
2787530 ATT-CATA-TA-TTTTATTAA
1 ATTATATATTATTTTTATTAA
2787548 ATTATATATTATTTTTATTAA
1 ATTATATATTATTTTTATTAA
2787569 ATTA
1 ATTA
2787573 AGCTTATTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
18 11 0.30
19 3 0.08
20 2 0.05
21 15 0.41
22 3 0.08
23 3 0.08
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (21 bp):
ATTATATATTATTTTTATTAA
Found at i:2787570 original size:39 final size:40
Alignment explanation
Indices: 2787494--2787571 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 40
2787484 TATTTTAAAT
*
2787494 TATATTTTATAGTATTATATATTATGATTTTAGTAAATTCA
1 TATATTTTATAGAATTATATATTAT-ATTTTAGTAAATTCA
*
2787535 TATATTTTATTA-AATTATATATTAT-TTTTATTAAATT
1 TATATTTTA-TAGAATTATATATTATATTTTAGTAAATT
2787572 AAGCTTATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 11 0.32
41 21 0.62
42 2 0.06
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.58
Consensus pattern (40 bp):
TATATTTTATAGAATTATATATTATATTTTAGTAAATTCA
Found at i:2787579 original size:20 final size:21
Alignment explanation
Indices: 2787539--2787580 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2787529 AATTCATATA
*
2787539 TTTTATTAAATTATATATTAT
1 TTTTATTAAATTATAGATTAT
*
2787560 TTTTATTAAATTA-AGCTTAT
1 TTTTATTAAATTATAGATTAT
2787580 T
1 T
2787581 AAAATTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (21 bp):
TTTTATTAAATTATAGATTAT
Found at i:2787711 original size:39 final size:40
Alignment explanation
Indices: 2787666--2787770 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
2787656 TTTCCTTATG
* *
2787666 CTATTACACCTCTATTCCATTCAACCAAACACAAGAAAAC
1 CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAAAAC
* **
2787706 C-ATTACGTCTCTATTCCATTACATTCAACCAAACAAAAGATTAC
1 CTATTACGCCTCTATT-C----CATTCAACCAAACAAAAGAAAAC
2787750 CTATTACGCCTCTATTCCATT
1 CTATTACGCCTCTATTCCATT
2787771 ACGCATCTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
39 12 0.23
40 6 0.11
44 22 0.42
45 13 0.25
ACGTcount: A:0.36, C:0.30, G:0.04, T:0.30
Consensus pattern (40 bp):
CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAAAAC
Found at i:2787766 original size:45 final size:44
Alignment explanation
Indices: 2787683--2787772 Score: 135
Period size: 44 Copynumber: 2.0 Consensus size: 44
2787673 ACCTCTATTC
* *
2787683 CATTCAACCAAACACAAGAAAACCATTACGTCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAAAACCATTACGCCTCTATTCCATTA
**
2787727 CATTCAACCAAACAAAAGATTACCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAAAACC-ATTACGCCTCTATTCCATTA
2787772 C
1 C
2787773 GCATCTATTC
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 21 0.51
45 20 0.49
ACGTcount: A:0.39, C:0.30, G:0.04, T:0.27
Consensus pattern (44 bp):
CATTCAACCAAACAAAAGAAAACCATTACGCCTCTATTCCATTA
Found at i:2787773 original size:16 final size:16
Alignment explanation
Indices: 2787752--2787804 Score: 88
Period size: 16 Copynumber: 3.3 Consensus size: 16
2787742 AAGATTACCT
2787752 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
2787768 ATTACGCATCTATTCC
1 ATTACGCCTCTATTCC
*
2787784 ATTACGTCTCTATTCC
1 ATTACGCCTCTATTCC
2787800 ATTAC
1 ATTAC
2787805 AGCCAACCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.40
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:2789920 original size:19 final size:21
Alignment explanation
Indices: 2789885--2789934 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 21
2789875 CGATCTTGGT
2789885 TTAATAAT-TAAATTT-AAGA
1 TTAATAATATAAATTTAAAGA
*
2789904 TTAATAATATATA-TTAAAGA
1 TTAATAATATAAATTTAAAGA
*
2789924 -CAATAATATAA
1 TTAATAATATAA
2789935 TTTCGTAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (21 bp):
TTAATAATATAAATTTAAAGA
Found at i:2791267 original size:111 final size:110
Alignment explanation
Indices: 2791004--2791323 Score: 507
Period size: 111 Copynumber: 2.9 Consensus size: 110
2790994 AATTCAAGAG
* * * *
2791004 GATATTTGGCTATTTGGTTAAATGATAAAAATCGACACCCAGCACATTAGGGCATGTTTTCTCGA
1 GATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACATTAGGGCATGTTTTCTCGA
* * * *
2791069 ATTTCCAAA-AGCAAAACATTGCATTATTTTAAAATTTTTAAAAG
66 ATTTCCAAACGGCAAAACATTGCCTTATTTTGAAATTTTTAAAAA
* * *
2791113 GATATTAAGCCATTTGGTTGAACGAGAAAAATAGACACCCAGCACATTAGGGCATGTTTTCTCGA
1 GATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACATTAGGGCATGTTTTCTCGA
2791178 ATTTCCAAACGGCAAAACATTGCCTTATTTTGAAATTTTTAAAAAA
66 ATTTCCAAACGGCAAAACATTGCCTTATTTTGAAATTTTT-AAAAA
*
2791224 GATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGA
1 GATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACATTAGGGCATGTTTTCTCGA
*
2791289 ATTTCCAAACGGCAAAACATTACCTTATTTTGAAA
66 ATTTCCAAACGGCAAAACATTGCCTTATTTTGAAA
2791324 AATTTTCCTT
Statistics
Matches: 193, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
109 67 0.35
110 27 0.14
111 99 0.51
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (110 bp):
GATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACATTAGGGCATGTTTTCTCGA
ATTTCCAAACGGCAAAACATTGCCTTATTTTGAAATTTTTAAAAA
Found at i:2800486 original size:6 final size:6
Alignment explanation
Indices: 2800477--2800509 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
2800467 TTCTTTCCCT
*
2800477 ACCAAG ACCATG ACCATG ACCATG ACCATG ACC
1 ACCATG ACCATG ACCATG ACCATG ACCATG ACC
2800510 GATCCTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.36, C:0.36, G:0.15, T:0.12
Consensus pattern (6 bp):
ACCATG
Found at i:2802228 original size:63 final size:62
Alignment explanation
Indices: 2802121--2802420 Score: 272
Period size: 63 Copynumber: 4.9 Consensus size: 62
2802111 TGAACTGCTG
* *
2802121 GCTCCTGTTGAGTAGTCGCGGAAGGTCCCGGTGCTGTTATACTGTAATGTATGGTAAGAGGTT
1 GCTCCTGTTGAGGAGTCGCGGAAGGTCCC-GTGCTGCTATACTGTAATGTATGGTAAGAGGTT
* * * * * ***
2802184 GGTCCTGTTGAGGAGTCACGGAAGGTCCTGATGCTGCTACACTGTAATGCATGGCCTGAGGTT
1 GCTCCTGTTGAGGAGTCGCGGAAGGTCCCG-TGCTGCTATACTGTAATGTATGGTAAGAGGTT
* * * * *
2802247 GTTCCTGTTGAGGAATTGCCGAAGGTCCCGGTGCTGCTATACTGTAATGTATGGTCAGAGGTT
1 GCTCCTGTTGAGGAGTCGCGGAAGGTCCC-GTGCTGCTATACTGTAATGTATGGTAAGAGGTT
* * * ** * *
2802310 GCT-CTGGTTGAGGAGCCGTGGAAGGTCCCG-G-AGCTACGCTGTAGTGTATGG-ACTGAGGTT
1 GCTCCT-GTTGAGGAGTCGCGGAAGGTCCCGTGCTGCTATACTGTAATGTATGGTA-AGAGGTT
* * *
2802370 GCTCTTGTTG-GTGAGTCACTGAAGGTCCC--GCTGCTATACTGTAATGTATGG
1 GCTCCTGTTGAG-GAGTCGCGGAAGGTCCCGTGCTGCTATACTGTAATGTATGG
2802421 ACCGAGGTCG
Statistics
Matches: 189, Mismatches: 41, Indels: 17
0.77 0.17 0.07
Matches are distributed among these distances:
59 2 0.01
60 58 0.31
61 2 0.01
62 4 0.02
63 122 0.65
64 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.34, T:0.30
Consensus pattern (62 bp):
GCTCCTGTTGAGGAGTCGCGGAAGGTCCCGTGCTGCTATACTGTAATGTATGGTAAGAGGTT
Found at i:2802394 original size:60 final size:60
Alignment explanation
Indices: 2802282--2802428 Score: 156
Period size: 60 Copynumber: 2.5 Consensus size: 60
2802272 TCCCGGTGCT
* * *
2802282 GCTATACTGTAATGTATGGTCAGAGGTTGCTCTGGTTGAGGAGCCGTGGAAGGTCCCGGA
1 GCTACACTGTAATGTATGGACAGAGGTTGCTCTGGTTGAGGAGCCGTGGAAGGTCCCGCA
* * * * *
2802342 GCTACGCTGTAGTGTATGGACTGAGGTTGCTCTTGTTG-GTGAGTCAC-T-GAAGGTCCCGCT
1 GCTACACTGTAATGTATGGACAGAGGTTGCTCTGGTTGAG-GAG-C-CGTGGAAGGTCCCGCA
* *
2802402 GCTATACTGTAATGTATGGACCGAGGT
1 GCTACACTGTAATGTATGGACAGAGGT
2802429 CGTGTTGCCT
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
59 1 0.01
60 68 0.94
61 2 0.03
62 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.34, T:0.29
Consensus pattern (60 bp):
GCTACACTGTAATGTATGGACAGAGGTTGCTCTGGTTGAGGAGCCGTGGAAGGTCCCGCA
Found at i:2805297 original size:21 final size:21
Alignment explanation
Indices: 2805268--2805307 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2805258 CCCCCTGAAT
* *
2805268 TTTTTAAAATCTTCATTAGAC
1 TTTTAAAAATCTTAATTAGAC
*
2805289 TTTTAAAAATTTTAATTAG
1 TTTTAAAAATCTTAATTAG
2805308 GTCCCTCAAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (21 bp):
TTTTAAAAATCTTAATTAGAC
Found at i:2810486 original size:63 final size:62
Alignment explanation
Indices: 2810403--2810596 Score: 232
Period size: 63 Copynumber: 3.1 Consensus size: 62
2810393 GTGATGCCTT
* ** * *
2810403 CTGTTGAGGAGTTGTGGAAGGTCCCGGTGCTGCTATACTGTAATGTATGGTAAGAGGCTGCTC
1 CTGTTGAGGAGTAGCAGAAGGT-CCGGTGCTGCTATACTGTAATGTATGGTATGAGGTTGCTC
* * * **
2810466 CTGTTGAGGAGTCGCAGAAGGTCC--TGGTGCTAAACTGTAATGTATGGCCTGAGGTTGCTC
1 CTGTTGAGGAGTAGCAGAAGGTCCGGTGCTGCTATACTGTAATGTATGGTATGAGGTTGCTC
* *
2810526 CTGTTGAGGAGTAGCCGAAGGTGCTGGTGCTGCTATACTGTAATGTATGGTATGAGGTTGCT-
1 CTGTTGAGGAGTAGCAGAAGGT-CCGGTGCTGCTATACTGTAATGTATGGTATGAGGTTGCTC
2810588 CTGGTTGAG
1 CT-GTTGAG
2810597 TCATGGAAAG
Statistics
Matches: 111, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
60 50 0.45
61 1 0.01
62 4 0.04
63 56 0.50
ACGTcount: A:0.19, C:0.15, G:0.35, T:0.30
Consensus pattern (62 bp):
CTGTTGAGGAGTAGCAGAAGGTCCGGTGCTGCTATACTGTAATGTATGGTATGAGGTTGCTC
Found at i:2810526 original size:60 final size:58
Alignment explanation
Indices: 2810403--2810689 Score: 229
Period size: 60 Copynumber: 4.7 Consensus size: 58
2810393 GTGATGCCTT
* * * *
2810403 CTGTTGAGGAGTTGTGGAAGGTCCCGGTGCTGCTATACTGTAATGTATGGTAAGAGGCTGCTC
1 CTGTTGAGGAG-TG-CGAAGGTCCC-G-G-TGCTATACTGTAATGTATGGCATGAGGTTGCTC
* * *
2810466 CTGTTGAGGAGTCGCAGAAGGTCCTGGTGCTAAACTGTAATGTATGGCCTGAGGTTGCTC
1 CTGTTGAGGAGT-GC-GAAGGTCCCGGTGCTATACTGTAATGTATGGCATGAGGTTGCTC
** *
2810526 CTGTTGAGGAGTAGCCGAAGGTGCTGGTGCTGCTATACTGTAATGTATGGTATGAGGTTGCT-
1 CTGTTGAGGAGT-G-CGAAGGT-CCCG-G-TGCTATACTGTAATGTATGGCATGAGGTTGCTC
* * * * * * **
2810588 CTGGTTGAGTCA-TG-GAAAGTCCCGATGCTACACTGTAATGTATAGCCTGAGGTCCCTC
1 CT-GTTGAG-GAGTGCGAAGGTCCCGGTGCTATACTGTAATGTATGGCATGAGGTTGCTC
* *
2810646 CTGTTGAAGAGTTGCTGAAGGTCCCGCTGCTATACTGTAATGTA
1 CTGTTGAGGAG-TGC-GAAGGTCCCGGTGCTATACTGTAATGTA
2810690 CAGCCCGAGG
Statistics
Matches: 182, Mismatches: 29, Indels: 29
0.76 0.12 0.12
Matches are distributed among these distances:
56 1 0.01
57 31 0.17
58 4 0.02
59 2 0.01
60 77 0.42
61 4 0.02
62 6 0.03
63 56 0.31
64 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.30
Consensus pattern (58 bp):
CTGTTGAGGAGTGCGAAGGTCCCGGTGCTATACTGTAATGTATGGCATGAGGTTGCTC
Found at i:2810666 original size:120 final size:120
Alignment explanation
Indices: 2810403--2810689 Score: 325
Period size: 123 Copynumber: 2.4 Consensus size: 120
2810393 GTGATGCCTT
2810403 CTGTTGAGGAGTTG-TGGAAGGTCCCGGTGCTGCTATACTGTAATGTATGGTAAGAGGCTGCTCC
1 CTGTTGAGGAGTTGCT-GAAGGT--CGGTGCTGCTATACTGTAATGTATGGTAAGAGGCTGCTCC
* * * * * **
2810467 TGTTGAGGAGTCGCAGAAGGTCCTGGTGCTAAACTGTAATGTATGGCCTGAGGTTGCTC
63 TGTTGAGCAGTCG-AGAAAGTCCCGATGCTAAACTGTAATGTATAGCCTGAGGTCCCTC
* * * *
2810526 CTGTTGAGGAGTAGCCGAAGGTGCTGGTGCTGCTATACTGTAATGTATGGTATGAGGTTGCT-CT
1 CTGTTGAGGAGTTGCTGAAGGT-C-GGTGCTGCTATACTGTAATGTATGGTAAGAGGCTGCTCCT
*
2810590 GGTTGAGTCA-T-G-GAAAGTCCCGATGCTACACTGTAATGTATAGCCTGAGGTCCCTC
64 -GTTGAG-CAGTCGAGAAAGTCCCGATGCTAAACTGTAATGTATAGCCTGAGGTCCCTC
* **
2810646 CTGTTGAAGAGTTGCTGAAGGTC-CCGCTGCTATACTGTAATGTA
1 CTGTTGAGGAGTTGCTGAAGGTCGGTGCTGCTATACTGTAATGTA
2810690 CAGCCCGAGG
Statistics
Matches: 142, Mismatches: 18, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
117 19 0.13
119 1 0.01
120 56 0.39
122 4 0.03
123 61 0.43
124 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.30
Consensus pattern (120 bp):
CTGTTGAGGAGTTGCTGAAGGTCGGTGCTGCTATACTGTAATGTATGGTAAGAGGCTGCTCCTGT
TGAGCAGTCGAGAAAGTCCCGATGCTAAACTGTAATGTATAGCCTGAGGTCCCTC
Found at i:2820178 original size:23 final size:23
Alignment explanation
Indices: 2820152--2820195 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
2820142 TTTATACTCA
2820152 TTTTAATGATTTTTATTTTTTCT
1 TTTTAATGATTTTTATTTTTTCT
2820175 TTTTAATGATTTTTATTTTTT
1 TTTTAATGATTTTTATTTTTT
2820196 TAAATAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.75
Consensus pattern (23 bp):
TTTTAATGATTTTTATTTTTTCT
Found at i:2821023 original size:32 final size:33
Alignment explanation
Indices: 2820958--2821026 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 33
2820948 AAAATAATAA
** *
2820958 TTAAGTTTTTTTTTGAAAAATTGATGGTTAATT
1 TTAAGTTTTTTTTTGAAAAATTGACAGTAAATT
* *
2820991 TTAA-TTTTTTTTTTAAATATTGACAGTAAATT
1 TTAAGTTTTTTTTTGAAAAATTGACAGTAAATT
2821023 TTAA
1 TTAA
2821027 CTAAAAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
32 27 0.87
33 4 0.13
ACGTcount: A:0.33, C:0.01, G:0.10, T:0.55
Consensus pattern (33 bp):
TTAAGTTTTTTTTTGAAAAATTGACAGTAAATT
Found at i:2824461 original size:41 final size:41
Alignment explanation
Indices: 2824404--2824559 Score: 278
Period size: 41 Copynumber: 3.8 Consensus size: 41
2824394 GAATGTAATA
* *
2824404 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
2824445 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
2824486 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
2824527 CAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG
1 CAGACTATATGTCTAGCAGGCTTAA-TGCCGGTG
2824560 TACTGAATCA
Statistics
Matches: 112, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
40 3 0.03
41 109 0.97
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (41 bp):
CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
Found at i:2824584 original size:82 final size:82
Alignment explanation
Indices: 2824404--2824601 Score: 285
Period size: 82 Copynumber: 2.4 Consensus size: 82
2824394 GAATGTAATA
2824404 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTTA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTTA
*
2824469 ATGCCGGTGATACATTT
66 ATGCCGGTGATACATAT
* *
2824486 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGC-TA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTTA
2824550 AGTGCCGGTG-TAC-TGAAT
66 A-TGCCGGTGATACAT--AT
* * **
2824568 CAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
2824602 ATCTGTTTAA
Statistics
Matches: 104, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
80 1 0.01
81 6 0.06
82 97 0.93
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (82 bp):
CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTTA
ATGCCGGTGATACATAT
Found at i:2830195 original size:176 final size:176
Alignment explanation
Indices: 2829901--2830222 Score: 482
Period size: 176 Copynumber: 1.8 Consensus size: 176
2829891 GCTTTCCCAA
* * *
2829901 AGCGCCACAAAGGTTTTTACCGAACGACGCCATTTTCTTGTTGAGTTTTAGACACAATAGTGGCG
1 AGCGCCACAAAAGATTTTACCGAACGACACCATTTTCTTGTTGAGTTTTAGACACAATAGTGGCG
**** * **
2829966 CTTTCTTTAAAGCGCCGCTGAAGTCAATCATTAGCGGCGCTGTAGAGGAAGCGCCGAAAAAAGTT
66 CTTTAAAGAAAGCGCCGCTGAAGTCAACCATTAGCGGCAATGTAGAGGAAGCGCCGAAAAAAGTT
*
2830031 TTAAGCGTACGCCGTCTTAGGGACAATAGTGGCGGTGCTTCCCTGG
131 TTAAGCATACGCCGTCTTAGGGACAATAGTGGCGGTGCTTCCCTGG
* * *
2830077 AGCGCCACAAAAGATTTTACCGAACGACATCGTTTTCTTGTTGAGTTTTAGACACCATAGTGGCG
1 AGCGCCACAAAAGATTTTACCGAACGACACCATTTTCTTGTTGAGTTTTAGACACAATAGTGGCG
* * * *
2830142 CTTTAAAGAAATCGCCGCTGAAGTCAACCATTAGCGGCAATTTGGAGGAAGCGCCGCAAAAAGTT
66 CTTTAAAGAAAGCGCCGCTGAAGTCAACCATTAGCGGCAATGTAGAGGAAGCGCCGAAAAAAGTT
2830207 TTAAGCATACGCCGTC
131 TTAAGCATACGCCGTC
2830223 GTTTTCTGTT
Statistics
Matches: 128, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
176 128 1.00
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.25
Consensus pattern (176 bp):
AGCGCCACAAAAGATTTTACCGAACGACACCATTTTCTTGTTGAGTTTTAGACACAATAGTGGCG
CTTTAAAGAAAGCGCCGCTGAAGTCAACCATTAGCGGCAATGTAGAGGAAGCGCCGAAAAAAGTT
TTAAGCATACGCCGTCTTAGGGACAATAGTGGCGGTGCTTCCCTGG
Found at i:2831090 original size:14 final size:14
Alignment explanation
Indices: 2831071--2831116 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
2831061 TCTAGGCCAA
*
2831071 TTTAGGGTTAAGGG
1 TTTAGGGTTAAAGG
2831085 TTTAGGGTTAAAGG
1 TTTAGGGTTAAAGG
* * *
2831099 TTAATGGTTTAAGG
1 TTTAGGGTTAAAGG
2831113 TTTA
1 TTTA
2831117 AGGTCTAAGG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.33, T:0.41
Consensus pattern (14 bp):
TTTAGGGTTAAAGG
Found at i:2831102 original size:21 final size:21
Alignment explanation
Indices: 2831076--2831126 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
2831066 GCCAATTTAG
*
2831076 GGTTAAGGGTTTAGGGTTAAA
1 GGTTAAGGGTTTAAGGTTAAA
* *
2831097 GGTTAATGGTTTAAGGTTTAA
1 GGTTAAGGGTTTAAGGTTAAA
2831118 GGTCTAAGG
1 GGT-TAAGG
2831127 AATAAAGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.27, C:0.02, G:0.35, T:0.35
Consensus pattern (21 bp):
GGTTAAGGGTTTAAGGTTAAA
Found at i:2835931 original size:9 final size:9
Alignment explanation
Indices: 2835917--2836244 Score: 266
Period size: 9 Copynumber: 36.4 Consensus size: 9
2835907 TTCAAATTAA
2835917 ATAACTTAC
1 ATAACTTAC
2835926 ATAACTTAC
1 ATAACTTAC
*
2835935 ATATAACCTAC
1 --ATAACTTAC
2835946 ATAACTTAC
1 ATAACTTAC
*
2835955 ATTACTTAC
1 ATAACTTAC
* *
2835964 ATAAATTAA
1 ATAACTTAC
2835973 ATAACTTAC
1 ATAACTTAC
*
2835982 ATAACTTAA
1 ATAACTTAC
2835991 ATAACTTAC
1 ATAACTTAC
2836000 ATAACTTAC
1 ATAACTTAC
2836009 ATAA--TAC
1 ATAACTTAC
2836016 ATAACCTT-C
1 ATAA-CTTAC
*
2836025 CTAACTTAC
1 ATAACTTAC
* *
2836034 ATTATTTAC
1 ATAACTTAC
2836043 ATAA--TAC
1 ATAACTTAC
2836050 ATAACTTAGTAC
1 ATAAC-T--TAC
2836062 ATAACTTAC
1 ATAACTTAC
* *
2836071 ATAATTTTTTCTAA
1 ATAA----CT-TAC
2836085 ATAACTTAC
1 ATAACTTAC
2836094 ATAACTTAC
1 ATAACTTAC
* *
2836103 ATAAATTAA
1 ATAACTTAC
2836112 ATAACTTAC
1 ATAACTTAC
* *
2836121 ATAAATTAA
1 ATAACTTAC
*
2836130 ATAACTTAA
1 ATAACTTAC
2836139 ATAACTTAC
1 ATAACTTAC
2836148 ATAA--TAC
1 ATAACTTAC
*
2836155 ATACCTCT-C
1 ATAACT-TAC
*
2836164 CTAACTTAC
1 ATAACTTAC
* *
2836173 ATTATTTAC
1 ATAACTTAC
2836182 ATAA--TAC
1 ATAACTTAC
*
2836189 ATAGCTTAC
1 ATAACTTAC
2836198 ATAACTTAC
1 ATAACTTAC
*
2836207 ATAACTCAC
1 ATAACTTAC
2836216 ATAA--TAC
1 ATAACTTAC
*
2836223 ACAACTTAC
1 ATAACTTAC
2836232 ATAACTTAC
1 ATAACTTAC
2836241 ATAA
1 ATAA
2836245 TACATAAAAA
Statistics
Matches: 255, Mismatches: 40, Indels: 48
0.74 0.12 0.14
Matches are distributed among these distances:
7 31 0.12
8 4 0.02
9 193 0.76
10 3 0.01
11 9 0.04
12 8 0.03
13 1 0.00
14 6 0.02
ACGTcount: A:0.45, C:0.20, G:0.01, T:0.34
Consensus pattern (9 bp):
ATAACTTAC
Found at i:2836101 original size:139 final size:136
Alignment explanation
Indices: 2835917--2836210 Score: 452
Period size: 139 Copynumber: 2.2 Consensus size: 136
2835907 TTCAAATTAA
*** * *
2835917 ATAACTTACATAACTTACAT-A--TAACCTACATAACTTACATTACTTACATAAATTAAATAACT
1 ATAACTTACATAACTTACATAATTTTTTCTAAATAACTTACATAACTTACATAAATTAAATAACT
* *
2835979 TACATAACTTAAATAACTTACATAACTTACATAATACATAACCT-TCCTAACTTACATTATTTAC
66 TACATAAATTAAATAACTTAAATAACTTACATAATACAT-ACCTCTCCTAACTTACATTATTTAC
2836043 ATAATAC
130 ATAATAC
2836050 ATAACTTAGTACATAACTTACATAATTTTTTCTAAATAACTTACATAACTTACATAAATTAAATA
1 ATAAC-T--TACATAACTTACATAATTTTTTCTAAATAACTTACATAACTTACATAAATTAAATA
2836115 ACTTACATAAATTAAATAACTTAAATAACTTACATAATACATACCTCTCCTAACTTACATTATTT
63 ACTTACATAAATTAAATAACTTAAATAACTTACATAATACATACCTCTCCTAACTTACATTATTT
2836180 ACATAATAC
128 ACATAATAC
*
2836189 ATAGCTTACATAACTTACATAA
1 ATAACTTACATAACTTACATAA
2836211 CTCACATAAT
Statistics
Matches: 146, Mismatches: 8, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
133 5 0.03
134 1 0.01
136 30 0.21
137 1 0.01
138 5 0.03
139 104 0.71
ACGTcount: A:0.45, C:0.19, G:0.01, T:0.35
Consensus pattern (136 bp):
ATAACTTACATAACTTACATAATTTTTTCTAAATAACTTACATAACTTACATAAATTAAATAACT
TACATAAATTAAATAACTTAAATAACTTACATAATACATACCTCTCCTAACTTACATTATTTACA
TAATAC
Done.