Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 17 of 310
Found at i:4400291 original size:39 final size:39
Alignment explanation
Indices: 4400210--4400294 Score: 102
Period size: 39 Copynumber: 2.2 Consensus size: 39
4400200 AAATTCTTAC
* **
4400210 AAACTTATAAAAATTATTCAAAAATATTAAAATTGATAT
1 AAACATATAAAAATTATAAAAAAATATTAAAATTGATAT
*
4400249 AAACATAT-AAAATTATAAAAAAATCATTAAAAATT-ATCT
1 AAACATATAAAAATTATAAAAAAAT-ATT-AAAATTGATAT
4400288 AAACATA
1 AAACATA
4400295 GTCAGATTGG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
38 14 0.35
39 20 0.50
40 6 0.15
ACGTcount: A:0.60, C:0.07, G:0.01, T:0.32
Consensus pattern (39 bp):
AAACATATAAAAATTATAAAAAAATATTAAAATTGATAT
Found at i:4400871 original size:9 final size:9
Alignment explanation
Indices: 4400857--4400951 Score: 88
Period size: 9 Copynumber: 10.4 Consensus size: 9
4400847 TTTAAATCAC
4400857 TTTTTATAA
1 TTTTTATAA
4400866 TTTTTAT--
1 TTTTTATAA
4400873 TGTTTTATAA
1 T-TTTTATAA
*
4400883 TTTATTAGAA
1 TTT-TTATAA
4400893 TTTTTATAA
1 TTTTTATAA
*
4400902 TATTTATAA
1 TTTTTATAA
4400911 GTTTTTATAA
1 -TTTTTATAA
4400921 TTTTTA-AA
1 TTTTTATAA
* *
4400929 TTTGTGTCAA
1 TTTTTAT-AA
*
4400939 TTTTAATAA
1 TTTTTATAA
4400948 TTTT
1 TTTT
4400952 AAATATTTAA
Statistics
Matches: 70, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
7 1 0.01
8 12 0.17
9 34 0.49
10 23 0.33
ACGTcount: A:0.32, C:0.01, G:0.05, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:4400898 original size:36 final size:36
Alignment explanation
Indices: 4400857--4400931 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
4400847 TTTAAATCAC
* *
4400857 TTTTTATAATTTTTAT-TG-TTTTATAATTTATTAGAA
1 TTTTTATAATATTTATAAGTTTTTATAATTT-TTA-AA
4400893 TTTTTATAATATTTATAAGTTTTTATAATTTTTAAA
1 TTTTTATAATATTTATAAGTTTTTATAATTTTTAAA
4400929 TTT
1 TTT
4400932 GTGTCAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 20 0.57
37 4 0.11
38 11 0.31
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (36 bp):
TTTTTATAATATTTATAAGTTTTTATAATTTTTAAA
Found at i:4400899 original size:19 final size:17
Alignment explanation
Indices: 4400857--4400931 Score: 80
Period size: 19 Copynumber: 4.2 Consensus size: 17
4400847 TTTAAATCAC
*
4400857 TTTTTATAATTTTT-AT
1 TTTTTATAATTTTTAAA
4400873 TGTTTTATAATTTATTAGAA
1 T-TTTTATAATTT-TTA-AA
*
4400893 TTTTTATAATATTTATAAG
1 TTTTTATAAT-TTT-TAAA
4400912 TTTTTATAATTTTTAAA
1 TTTTTATAATTTTTAAA
4400929 TTT
1 TTT
4400932 GTGTCAATTT
Statistics
Matches: 50, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
16 1 0.02
17 17 0.34
18 5 0.10
19 21 0.42
20 6 0.12
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (17 bp):
TTTTTATAATTTTTAAA
Found at i:4403803 original size:17 final size:18
Alignment explanation
Indices: 4403781--4403830 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
4403771 ATATAAACTT
4403781 TAAAAATT-T-TAAAAATA
1 TAAAAATTATATAAAAA-A
4403798 TAAAAATTATATAAAAAA
1 TAAAAATTATATAAAAAA
4403816 TAAAGAATATATATA
1 TAAA-AAT-TATATA
4403831 TATACATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
17 8 0.28
18 6 0.21
19 9 0.31
20 6 0.21
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (18 bp):
TAAAAATTATATAAAAAA
Found at i:4403813 original size:18 final size:18
Alignment explanation
Indices: 4403771--4403830 Score: 59
Period size: 17 Copynumber: 3.3 Consensus size: 18
4403761 TTTGTTTCAA
* *
4403771 ATATAAACTTTAAAAATT
1 ATATAAAATATAAAAATT
*
4403789 TTA-AAAATATAAAAATT
1 ATATAAAATATAAAAATT
*
4403806 ATATAAAAAATAAAGAATAT
1 ATATAAAATATAAA-AAT-T
4403826 ATATA
1 ATATA
4403831 TATACATAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
17 14 0.41
18 11 0.32
19 3 0.09
20 6 0.18
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (18 bp):
ATATAAAATATAAAAATT
Found at i:4403816 original size:20 final size:20
Alignment explanation
Indices: 4403791--4403830 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4403781 TAAAAATTTT
4403791 AAAAATATAAAAAT-TATATA
1 AAAAATA-AAAAATATATATA
*
4403811 AAAAATAAAGAATATATATA
1 AAAAATAAAAAATATATATA
4403831 TATACATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (20 bp):
AAAAATAAAAAATATATATA
Found at i:4404113 original size:20 final size:20
Alignment explanation
Indices: 4404088--4404125 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
4404078 AATGACAAAA
4404088 CAGTCACTCAACTTTCAATT
1 CAGTCACTCAACTTTCAATT
4404108 CAGTCACTCAACTTTCAA
1 CAGTCACTCAACTTTCAA
4404126 AAAATAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.32, G:0.05, T:0.32
Consensus pattern (20 bp):
CAGTCACTCAACTTTCAATT
Found at i:4405232 original size:38 final size:38
Alignment explanation
Indices: 4405187--4405260 Score: 121
Period size: 38 Copynumber: 1.9 Consensus size: 38
4405177 ATAACAGAAA
*
4405187 ATGTTAATGAGTGACTGATTTGTAACTTTTTGATAACG
1 ATGTTAATGAGTGACTGATTTGTAACTTTTCGATAACG
* *
4405225 ATGTTAATGGGTGACTGATTTGTCACTTTTCGATAA
1 ATGTTAATGAGTGACTGATTTGTAACTTTTCGATAA
4405261 TGTTAGTGAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.27, C:0.09, G:0.22, T:0.42
Consensus pattern (38 bp):
ATGTTAATGAGTGACTGATTTGTAACTTTTCGATAACG
Found at i:4408145 original size:16 final size:16
Alignment explanation
Indices: 4408120--4408153 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4408110 AGGAATATAT
* *
4408120 ATGTGTAAATGTGATA
1 ATGTGCAAATATGATA
4408136 ATGTGCAAATATGATA
1 ATGTGCAAATATGATA
4408152 AT
1 AT
4408154 AGGATATTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (16 bp):
ATGTGCAAATATGATA
Found at i:4408740 original size:21 final size:21
Alignment explanation
Indices: 4408716--4408756 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
4408706 ATATGAGAAA
* * *
4408716 TTACGTATGTTATGGTTAAAC
1 TTACCTATATTATGGATAAAC
4408737 TTACCTATATTATGGATAAA
1 TTACCTATATTATGGATAAA
4408757 TATATTAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (21 bp):
TTACCTATATTATGGATAAAC
Found at i:4409784 original size:10 final size:10
Alignment explanation
Indices: 4409765--4409806 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
4409755 TTCTCAATTT
4409765 ATCA-ACCAA
1 ATCATACCAA
4409774 ATCATACCAA
1 ATCATACCAA
*
4409784 ATCTAAACCAAA
1 ATC-ATACC-AA
4409796 ATCATACCAA
1 ATCATACCAA
4409806 A
1 A
4409807 GTATATGATC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
9 4 0.14
10 11 0.39
11 8 0.29
12 5 0.18
ACGTcount: A:0.55, C:0.29, G:0.00, T:0.17
Consensus pattern (10 bp):
ATCATACCAA
Found at i:4410281 original size:17 final size:17
Alignment explanation
Indices: 4410259--4410293 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4410249 ACTACTCAAC
4410259 CTCATTT-ATTACCATTT
1 CTCATTTCA-TACCATTT
4410276 CTCATTTCATACCATTT
1 CTCATTTCATACCATTT
4410293 C
1 C
4410294 CTTAGTTCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.94
18 1 0.06
ACGTcount: A:0.23, C:0.29, G:0.00, T:0.49
Consensus pattern (17 bp):
CTCATTTCATACCATTT
Found at i:4410634 original size:40 final size:39
Alignment explanation
Indices: 4410575--4410665 Score: 119
Period size: 40 Copynumber: 2.3 Consensus size: 39
4410565 TCAGTATCGT
* ** *
4410575 ACACTTAGTGCCACATATAGCCGAAGCTATTCCAATTCAC
1 ACACTTAGTGCTATTTATAGCCGAAGCTATTCCAA-CCAC
* *
4410615 ACATTTAGTGCTATTTATAGCCGAAGCTATTTCAACCAC
1 ACACTTAGTGCTATTTATAGCCGAAGCTATTCCAACCAC
4410654 ACACTTAGTGCT
1 ACACTTAGTGCT
4410666 GAACATATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 14 0.32
40 30 0.68
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (39 bp):
ACACTTAGTGCTATTTATAGCCGAAGCTATTCCAACCAC
Found at i:4415564 original size:18 final size:18
Alignment explanation
Indices: 4415508--4415564 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 18
4415498 TCCTTTTATA
* *
4415508 TTTCTTATTTCTTT-GATT
1 TTTCTTATTT-TTTCCATC
* *
4415526 TTTCTTTTTTTTTCCTTTC
1 TTTCTTATTTTTTCC-ATC
4415545 TTTCTTATTTTTTCCATC
1 TTTCTTATTTTTTCCATC
4415563 TT
1 TT
4415565 CTCCTTTCTA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
17 3 0.10
18 13 0.42
19 15 0.48
ACGTcount: A:0.07, C:0.18, G:0.02, T:0.74
Consensus pattern (18 bp):
TTTCTTATTTTTTCCATC
Found at i:4416841 original size:17 final size:18
Alignment explanation
Indices: 4416815--4416849 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
4416805 AAAACATATT
*
4416815 TAATTAAAATTTAAAATA
1 TAATTAAAATTGAAAATA
4416833 TAATT-AAATTGAAAATA
1 TAATTAAAATTGAAAATA
4416850 AACATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (18 bp):
TAATTAAAATTGAAAATA
Found at i:4419715 original size:20 final size:20
Alignment explanation
Indices: 4419673--4419735 Score: 56
Period size: 23 Copynumber: 3.0 Consensus size: 20
4419663 AACATTCAGG
* *
4419673 AAAATTTCTAAAAATA-TACA
1 AAAATTT-TAAAAAAATTATA
4419693 AAAATTTTAAAAAAATTATAA
1 AAAATTTTAAAAAAATTAT-A
*
4419714 AATACATTTAAAAAAAATTATA
1 AA-A-ATTTTAAAAAAATTATA
4419736 TTGTTATTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 7 0.19
20 9 0.25
21 3 0.08
22 2 0.06
23 15 0.42
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAATTTTAAAAAAATTATA
Found at i:4419769 original size:16 final size:17
Alignment explanation
Indices: 4419748--4419781 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
4419738 GTTATTTTTG
*
4419748 AAATTA-TAAAAATATA
1 AAATTACTAAAAAAATA
4419764 AAATTACTAAAAAAATA
1 AAATTACTAAAAAAATA
4419781 A
1 A
4419782 GAATAAAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
AAATTACTAAAAAAATA
Found at i:4422944 original size:96 final size:96
Alignment explanation
Indices: 4422780--4422973 Score: 271
Period size: 96 Copynumber: 2.0 Consensus size: 96
4422770 GTGTCCGAGG
* * * * *
4422780 AAGTCTTTCATCAACGAGAATGATGGAGTAGACAAGGAGCCCAAGAAGCTTGGTTCAAGCAAGGG
1 AAGTCTGTCATCAAAGAGAATGATGGAGCAAACAAGGAGCCCAAAAAGCTTGGTTCAAGCAAGGG
*
4422845 AAAAGTCAAAGCCAAAAGGGCAAAGAGGAGC
66 AAAAGCCAAAGCCAAAAGGGCAAAGAGGAGC
* * * **
4422876 AAGTCTGTCATCAAAGGGAATGATGGAGCAAACAATGAGCCCAAAAAGCTTGGTTTAAGTGAGGG
1 AAGTCTGTCATCAAAGAGAATGATGGAGCAAACAAGGAGCCCAAAAAGCTTGGTTCAAGCAAGGG
* *
4422941 AAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
66 AAAAGCCAAAGCCAAAAGGGCAAAGAGGAGC
4422972 AA
1 AA
4422974 AAAGAAGTGA
Statistics
Matches: 85, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
96 85 1.00
ACGTcount: A:0.41, C:0.16, G:0.30, T:0.13
Consensus pattern (96 bp):
AAGTCTGTCATCAAAGAGAATGATGGAGCAAACAAGGAGCCCAAAAAGCTTGGTTCAAGCAAGGG
AAAAGCCAAAGCCAAAAGGGCAAAGAGGAGC
Found at i:4424652 original size:22 final size:24
Alignment explanation
Indices: 4424606--4424655 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 24
4424596 CAACTATTAC
* *
4424606 ATTTTCTTTAAAATTGATTTTATA
1 ATTTTCTTTAAAACTGACTTTATA
4424630 ATTTT-TTTAAAACTG-CTTTATA
1 ATTTTCTTTAAAACTGACTTTATA
4424652 ATTT
1 ATTT
4424656 AACTTATGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 10 0.42
23 9 0.38
24 5 0.21
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (24 bp):
ATTTTCTTTAAAACTGACTTTATA
Found at i:4425492 original size:12 final size:13
Alignment explanation
Indices: 4425459--4425505 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
4425449 AAATAGAAGA
4425459 TATTATTT-TGTTT
1 TATTATTTAT-TTT
4425472 TATTATTTATTTT
1 TATTATTTATTTT
4425485 TATT-TTTA-TTT
1 TATTATTTATTTT
4425496 TATTAATTTA
1 TATT-ATTTA
4425506 GGATAGGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
11 7 0.23
12 4 0.13
13 19 0.61
14 1 0.03
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (13 bp):
TATTATTTATTTT
Found at i:4426804 original size:47 final size:47
Alignment explanation
Indices: 4426719--4426831 Score: 131
Period size: 47 Copynumber: 2.4 Consensus size: 47
4426709 GGAGTCAAGG
* * *
4426719 TCCAATTAAATAAATAAAACAGAAATCTACACACATGGGTG-CAGAGT
1 TCCATTTAAATAAATAAAGCAGAAATATACACACATGGGTGTC-GAGT
* *
4426766 TCCATTTAAATAAATAAAGCAGAACTATATACTA-ATGGGTGTCGAGT
1 TCCATTTAAATAAATAAAGCAGAAATATACAC-ACATGGGTGTCGAGT
* *
4426813 TTCATTTAAATAAAGAAAG
1 TCCATTTAAATAAATAAAG
4426832 AAAGATTCTA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
47 55 0.96
48 2 0.04
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (47 bp):
TCCATTTAAATAAATAAAGCAGAAATATACACACATGGGTGTCGAGT
Found at i:4430111 original size:3 final size:3
Alignment explanation
Indices: 4430103--4430128 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4430093 TTAGGTTGCT
4430103 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
4430129 TATTTTTTAA
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:4438176 original size:40 final size:40
Alignment explanation
Indices: 4438126--4438525 Score: 376
Period size: 41 Copynumber: 10.1 Consensus size: 40
4438116 GCAAAAATTT
* * * *
4438126 TAAAATACAGAGCAATAGCGGCGTTTTAAGAAAAACGCCGC
1 TAAAA-ACAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGC
* * * *
4438167 TAAAAACAGAGCAATAGCGGCGTTTTTTA-CTAAAACGCCTC
1 TAAAAACAGAGCATTAGCGGCG--CTTTAGGTAAAACGCCGC
* * * *
4438208 TAAAAACTGATCATTAGCGGTGCTTTAGGTAAAACGCCAC
1 TAAAAACAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGC
* **
4438248 TAAAAACCAGATCATTAGCGGCGCTTCGGGTAAAACGCCGC
1 TAAAAA-CAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGC
* **
4438289 TAAAAACCAGAGCACTAGCGGCGCTTCGGGTAAAACGCCGC
1 TAAAAA-CAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGC
*
4438330 TAAAAAACAGAGCATTAGCGGCGC-TT-GCT---A------
1 T-AAAAACAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGC
* * * * *
4438360 -AAAAACAGATCATTAACAGCGCTTTGGGTAAAACGCCAC
1 TAAAAACAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGC
*
4438399 TAAAAACAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGC
1 TAAAAACAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGC
* * *
4438439 TAAAAACCAGAGCATTAGCGGCGCTTTCGATAAAATGCCGC
1 TAAAAA-CAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGC
*
4438480 TAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGC
1 TAAAAA-CAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGC
4438521 TAAAA
1 TAAAA
4438526 GTCATAGAAC
Statistics
Matches: 308, Mismatches: 33, Indels: 36
0.82 0.09 0.10
Matches are distributed among these distances:
28 19 0.06
29 2 0.01
30 2 0.01
33 1 0.00
36 1 0.00
39 6 0.02
40 74 0.24
41 193 0.63
42 10 0.03
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.19
Consensus pattern (40 bp):
TAAAAACAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGC
Found at i:4438368 original size:28 final size:28
Alignment explanation
Indices: 4438328--4438383 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
4438318 GTAAAACGCC
* *
4438328 GCTAAAAAACAGAGCATTAGCGGCGCTT
1 GCTAAAAAACAGAGCATTAACAGCGCTT
*
4438356 GCTAAAAAACAGATCATTAACAGCGCTT
1 GCTAAAAAACAGAGCATTAACAGCGCTT
4438384 TGGGTAAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.20
Consensus pattern (28 bp):
GCTAAAAAACAGAGCATTAACAGCGCTT
Found at i:4438456 original size:109 final size:110
Alignment explanation
Indices: 4438247--4438464 Score: 350
Period size: 109 Copynumber: 2.0 Consensus size: 110
4438237 TAAAACGCCA
* * * *
4438247 CTAAAAACCAGATCATTAGCGGCGCTTCGGGTAAAACGCCGCTAAAAACCAGAGCACTAGCGGCG
1 CTAAAAAACAGATCATTAACAGCGCTTCGGGTAAAACGCCACTAAAAACCAGAGCACTAGCGGCG
4438312 CTTCGGGTAAAACGCCGCTAAAAAACAGAGCATTAGCGGCGCTTG
66 CTTCGGGTAAAACGCCGCTAAAAAACAGAGCATTAGCGGCGCTTG
* *
4438357 CTAAAAAACAGATCATTAACAGCGCTTTGGGTAAAACGCCACTAAAAA-CAGAGCATTAGCGGCG
1 CTAAAAAACAGATCATTAACAGCGCTTCGGGTAAAACGCCACTAAAAACCAGAGCACTAGCGGCG
*
4438421 CTTTC-GGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTT
66 C-TTCGGGTAAAACGCCGCTAAAAAACAGAGCATTAGCGGCGCTT
4438465 TCGATAAAAT
Statistics
Matches: 100, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
109 54 0.54
110 46 0.46
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.17
Consensus pattern (110 bp):
CTAAAAAACAGATCATTAACAGCGCTTCGGGTAAAACGCCACTAAAAACCAGAGCACTAGCGGCG
CTTCGGGTAAAACGCCGCTAAAAAACAGAGCATTAGCGGCGCTTG
Found at i:4438458 original size:150 final size:151
Alignment explanation
Indices: 4438209--4438505 Score: 465
Period size: 150 Copynumber: 2.0 Consensus size: 151
4438199 AAACGCCTCT
* * * * *
4438209 AAAAACTGATCATTAGCGGTGCTTTAGGTAAAACGCCACTAAAAACCAGATCATTAGCGGCGCTT
1 AAAAACAGATCATTAACAGCGCTTTAGGTAAAACGCCACTAAAAACCAGAGCATTAGCGGCGCTT
*
4438274 CGGGTAAAACGCCGCTAAAAACCAGAGCACTAGCGGCGC-TTCGGGTAAAACGCCGCTAAAAAAC
66 CGGGTAAAACGCCGCTAAAAACCAGAGCACTAGCGGCGCTTTC-GATAAAACGCCGCTAAAAAAC
4438338 AGAGCATTAGCGGCGCTTGCTA
130 AGAGCATTAGCGGCGCTTGCTA
*
4438360 AAAAACAGATCATTAACAGCGCTTTGGGTAAAACGCCACTAAAAA-CAGAGCATTAGCGGCGCTT
1 AAAAACAGATCATTAACAGCGCTTTAGGTAAAACGCCACTAAAAACCAGAGCATTAGCGGCGC-T
* * *
4438424 TC-GGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGATAAAATGCCGCTAAAAACC
65 TCGGGTAAAACGCCGCTAAAAACCAGAGCACTAGCGGCGCTTTCGATAAAACGCCGCTAAAAAAC
4438488 AGAGCATTAGCGGCGCTT
130 AGAGCATTAGCGGCGCTT
4438506 TCGGTAAAAC
Statistics
Matches: 134, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
150 88 0.66
151 46 0.34
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.18
Consensus pattern (151 bp):
AAAAACAGATCATTAACAGCGCTTTAGGTAAAACGCCACTAAAAACCAGAGCATTAGCGGCGCTT
CGGGTAAAACGCCGCTAAAAACCAGAGCACTAGCGGCGCTTTCGATAAAACGCCGCTAAAAAACA
GAGCATTAGCGGCGCTTGCTA
Found at i:4442703 original size:21 final size:20
Alignment explanation
Indices: 4442665--4442704 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
4442655 AATTGTTATA
*
4442665 TTTTGGTTATTTAGATGTTC
1 TTTTGGTTATTTACATGTTC
*
4442685 TTTTGGTCTATTTTCATGTT
1 TTTTGGT-TATTTACATGTT
4442705 TCTATCCAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.12, C:0.07, G:0.17, T:0.62
Consensus pattern (20 bp):
TTTTGGTTATTTACATGTTC
Found at i:4442769 original size:133 final size:133
Alignment explanation
Indices: 4442531--4442782 Score: 468
Period size: 133 Copynumber: 1.9 Consensus size: 133
4442521 TGGTGATTCC
* *
4442531 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
1 ATTTTGGTTATTTAGATGTTCTTTTGGTCTATTTTCATGTTTCTATCCAACTTATGTGTTCAGTG
*
4442596 TGGACTTAGATTGATTTAAGAGTTTATTGTTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
66 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
4442661 TAT
131 TAT
*
4442664 ATTTTGGTTATTTAGATGTTCTTTTGGTCTATTTTCATGTTTCTATCCAATTTATGTGTTCAGTG
1 ATTTTGGTTATTTAGATGTTCTTTTGGTCTATTTTCATGTTTCTATCCAACTTATGTGTTCAGTG
4442729 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATAT
66 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATAT
4442783 TGTTGAATTC
Statistics
Matches: 115, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
133 115 1.00
ACGTcount: A:0.20, C:0.10, G:0.18, T:0.52
Consensus pattern (133 bp):
ATTTTGGTTATTTAGATGTTCTTTTGGTCTATTTTCATGTTTCTATCCAACTTATGTGTTCAGTG
TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
TAT
Found at i:4444461 original size:160 final size:160
Alignment explanation
Indices: 4444197--4445042 Score: 1683
Period size: 160 Copynumber: 5.3 Consensus size: 160
4444187 TTAAGGTACG
4444197 TTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACTTGACCTTATAGTATTAATTATTT
1 TTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACTTGACCTTATAGTATTAATTATTT
4444262 GAAGTATGAATAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGTCCATTATAGTTA
66 GAAGTATGAATAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGTCCATTATAGTTA
4444327 CAACAATAGCTGACCTTCTCTCTAACCTTA
131 CAACAATAGCTGACCTTCTCTCTAACCTTA
4444357 TTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACTTGACCTTATAGTATTAATTATTT
1 TTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACTTGACCTTATAGTATTAATTATTT
4444422 GAAGTATGAATAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGTCCATTATAGTTA
66 GAAGTATGAATAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGTCCATTATAGTTA
4444487 CAACAATAGCTGACCTTCTCTCTAACCTTA
131 CAACAATAGCTGACCTTCTCTCTAACCTTA
4444517 TTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACTTGACCTTATAGTATTAATTATTT
1 TTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACTTGACCTTATAGTATTAATTATTT
4444582 GAAGTATGAATAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGTCCATTATAGTTA
66 GAAGTATGAATAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGTCCATTATAGTTA
4444647 CAACAATAGCTGACCTTCTCTCTAACCTTA
131 CAACAATAGCTGACCTTCTCTCTAACCTTA
4444677 TTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACTTGACCTTATAGTATTAATTATTT
1 TTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACTTGACCTTATAGTATTAATTATTT
4444742 GAAGTATGAATAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGTCCATTATAGTTA
66 GAAGTATGAATAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGTCCATTATAGTTA
4444807 CAACAATAGCTGACCTTCTCTCTAACCTTA
131 CAACAATAGCTGACCTTCTCTCTAACCTTA
4444837 TTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACTTGACCTTATAGTATTAATTATTT
1 TTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACTTGACCTTATAGTATTAATTATTT
4444902 GAAGTATGAATAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGTCCATTATAGTTA
66 GAAGTATGAATAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGTCCATTATAGTTA
4444967 CAACAATAGCTGACCTTCTCTCTAACCTTA
131 CAACAATAGCTGACCTTCTCTCTAACCTTA
*
4444997 TTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGAC
1 TTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACTTGAC
4445043 GGGTTGCCTT
Statistics
Matches: 685, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
160 685 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (160 bp):
TTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACTTGACCTTATAGTATTAATTATTT
GAAGTATGAATAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGTCCATTATAGTTA
CAACAATAGCTGACCTTCTCTCTAACCTTA
Found at i:4445400 original size:21 final size:21
Alignment explanation
Indices: 4445371--4445410 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
4445361 GTTTTTATAT
*
4445371 TTTGGTTCAACTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
4445392 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
4445411 GAATTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:4445852 original size:460 final size:460
Alignment explanation
Indices: 4444992--4446226 Score: 2434
Period size: 460 Copynumber: 2.7 Consensus size: 460
4444982 TTCTCTCTAA
4444992 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
1 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
4445057 CGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
66 CGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
4445122 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCA
131 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCA
*
4445187 CTTTACTTATAAAAACTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGT
196 CTTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGT
4445252 TATATTAAACATGTTTGATTTTAATTTTTATTATTTTTAAATGTCTTTAAAATTTATAACTAATT
261 TATATTAAACATGTTTGATTTTAATTTTTATTATTTTTAAATGTCTTTAAAATTTATAACTAATT
4445317 TTTATCAAAATAGTATTATTAATTATTATTTGAAGTATGAATAAGTTTTTATATTTTGGTTCAAC
326 TTTATCAAAATAGTATTATTAATTATTATTTGAAGTATGAATAAGTTTTTATATTTTGGTTCAAC
4445382 TTAAGTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGT
391 TTAAGTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGT
4445447 CCATT
456 CCATT
4445452 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
1 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
4445517 CGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
66 CGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
4445582 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCA
131 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCA
4445647 CTTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGT
196 CTTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGT
4445712 TATATTAAACATGTTTGATTTTAATTTTTATTATTTTTAAATGTCTTTAAAATTTATAACTAATT
261 TATATTAAACATGTTTGATTTTAATTTTTATTATTTTTAAATGTCTTTAAAATTTATAACTAATT
4445777 TTTATCAAAATAGTATTATTAATTATTATTTGAAGTATGAATAAGTTTTTATATTTTGGTTCAAC
326 TTTATCAAAATAGTATTATTAATTATTATTTGAAGTATGAATAAGTTTTTATATTTTGGTTCAAC
4445842 TTAAGTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGT
391 TTAAGTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGT
4445907 CCATT
456 CCATT
*
4445912 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGAGTTGCCTTATAT
1 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
*
4445977 CGAGTTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
66 CGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
4446042 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCA
131 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCA
4446107 CTTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGT
196 CTTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGT
*
4446172 TATATTAAACATGTTTGATTTTAATATTTATTATTTTTAAATGTCTTTAAAATTT
261 TATATTAAACATGTTTGATTTTAATTTTTATTATTTTTAAATGTCTTTAAAATTT
4446227 TGTTATATTA
Statistics
Matches: 771, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
460 771 1.00
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (460 bp):
CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
CGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCA
CTTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGT
TATATTAAACATGTTTGATTTTAATTTTTATTATTTTTAAATGTCTTTAAAATTTATAACTAATT
TTTATCAAAATAGTATTATTAATTATTATTTGAAGTATGAATAAGTTTTTATATTTTGGTTCAAC
TTAAGTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGT
CCATT
Found at i:4445860 original size:21 final size:21
Alignment explanation
Indices: 4445831--4445870 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
4445821 GTTTTTATAT
*
4445831 TTTGGTTCAACTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
4445852 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
4445871 GAATTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:4452431 original size:44 final size:44
Alignment explanation
Indices: 4452361--4452602 Score: 169
Period size: 44 Copynumber: 5.6 Consensus size: 44
4452351 CTGGGCAAAT
*
4452361 TAGCGGCGTTTTTTTTTAAAAAAGCGCCGCTAATGTTCTTGGTCTA
1 TAGCGGCG--TTTTTTTAAAAAAGCGCCGCTAAAGTTCTTGGTCTA
**
4452407 TAGCGGCGTTTTTTTACTAAAGCGCCGCTAAAGTTCTTGGTCTA
1 TAGCGGCGTTTTTTTAAAAAAGCGCCGCTAAAGTTCTTGGTCTA
* * * * * * * *
4452451 TAGCTGCGCTTTTGTAAAAAA-CGCCGCCAAAG-ACCTGGACCTT
1 TAGCGGCGTTTTTTTAAAAAAGCGCCGCTAAAGTTCTTGG-TCTA
* * * *
4452494 TAGCGGCGCTTTTATAAAAAA-CGCCGCTAAAAG-TCCTGGTCTT
1 TAGCGGCGTTTTTTTAAAAAAGCGCCGCT-AAAGTTCTTGGTCTA
* * * * * * *
4452537 TGGCAGCG-TCTTTT--AAGAGCGCCGCTAAAGGTCCTGGTCTT
1 TAGCGGCGTTTTTTTAAAAAAGCGCCGCTAAAGTTCTTGGTCTA
* *
4452578 TAGCGGCG--CTTTTAAAAAAACGCCG
1 TAGCGGCGTTTTTTTAAAAAAGCGCCG
4452603 TCAACTTTTG
Statistics
Matches: 163, Mismatches: 27, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
40 12 0.07
41 23 0.14
42 16 0.10
43 46 0.28
44 58 0.36
46 8 0.05
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (44 bp):
TAGCGGCGTTTTTTTAAAAAAGCGCCGCTAAAGTTCTTGGTCTA
Found at i:4452571 original size:41 final size:40
Alignment explanation
Indices: 4452515--4452592 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 40
4452505 TTATAAAAAA
*
4452515 CGCCGCTAAAAGTCCTGGTCTTTGGCAGCGTCTTTTAAGAG
1 CGCCGCTAAAAGTCCTGGTCTTTAGCAGCG-CTTTTAAGAG
* *
4452556 CGCCGCTAAAGGTCCTGGTCTTTAGCGGCGCTTTTAA
1 CGCCGCTAAAAGTCCTGGTCTTTAGCAGCGCTTTTAA
4452593 AAAAACGCCG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
40 7 0.21
41 27 0.79
ACGTcount: A:0.18, C:0.26, G:0.27, T:0.29
Consensus pattern (40 bp):
CGCCGCTAAAAGTCCTGGTCTTTAGCAGCGCTTTTAAGAG
Found at i:4454441 original size:5 final size:5
Alignment explanation
Indices: 4454407--4454438 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
4454397 TTTAACTCTT
*
4454407 AATTA AATTA AATTA AATTA AATTA AACTA AA
1 AATTA AATTA AATTA AATTA AATTA AATTA AA
4454439 CTACCAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (5 bp):
AATTA
Found at i:4457675 original size:43 final size:43
Alignment explanation
Indices: 4457580--4457679 Score: 123
Period size: 43 Copynumber: 2.3 Consensus size: 43
4457570 CGCTTGTGGG
* **
4457580 AAAAGCGCCGCTAAAAGTCACGTCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAAGTCACGTCTTTTAACGGCGTTTGTGCC
* *
4457623 AAAAGCGCCGCTAAAAGTCACGTCTTTTAATGGCGCTTT-TTCC
1 AAAAGCGCCGCTAAAAGTCACGTCTTTTAACGGCG-TTTGTGCC
4457666 ACAAA-CGCCGCTAA
1 A-AAAGCGCCGCTAA
4457680 TTTTAGCAGA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
43 44 0.88
44 6 0.12
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAAGTCACGTCTTTTAACGGCGTTTGTGCC
Found at i:4462087 original size:17 final size:16
Alignment explanation
Indices: 4462063--4462135 Score: 74
Period size: 17 Copynumber: 4.3 Consensus size: 16
4462053 NNTGTTCTCA
4462063 AAAATTTTCGTGTTTT
1 AAAATTTTCGTGTTTT
*
4462079 AAGAATTTTCGTGTCTCT
1 AA-AATTTTCGTGT-TTT
*
4462097 AAAATTCTCGTGTTTT
1 AAAATTTTCGTGTTTT
* *
4462113 AAAAAATTTTCTTGTTTA
1 --AAAATTTTCGTGTTTT
4462131 AAAAT
1 AAAAT
4462136 AAAAATAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
16 9 0.19
17 21 0.45
18 17 0.36
ACGTcount: A:0.32, C:0.10, G:0.11, T:0.48
Consensus pattern (16 bp):
AAAATTTTCGTGTTTT
Found at i:4462108 original size:34 final size:35
Alignment explanation
Indices: 4462058--4462123 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 35
4462048 NNNNNNNTGT
* *
4462058 TCTCAAAAATTTTCGTGTTTT-AAGAATTTTCGTG
1 TCTCAAAAATTCTCGTGTTTTAAAAAATTTTCGTG
*
4462092 TCTCTAAAATTCTCGTGTTTTAAAAAATTTTC
1 TCTCAAAAATTCTCGTGTTTTAAAAAATTTTC
4462124 TTGTTTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 19 0.68
35 9 0.32
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.47
Consensus pattern (35 bp):
TCTCAAAAATTCTCGTGTTTTAAAAAATTTTCGTG
Found at i:4462135 original size:34 final size:35
Alignment explanation
Indices: 4462058--4462135 Score: 92
Period size: 34 Copynumber: 2.3 Consensus size: 35
4462048 NNNNNNNTGT
* *
4462058 TCTC-AAAAATTTTCGTGTTTTAAGAATTTTCGTG
1 TCTCTAAAAATTCTCGTGTTTTAAAAATTTTCGTG
*
4462092 TCTCT-AAAATTCTCGTGTTTTAAAAAATTTTCTTG
1 TCTCTAAAAATTCTCGTGTTTT-AAAAATTTTCGTG
4462127 T-T-TAAAAAT
1 TCTCTAAAAAT
4462136 AAAAATAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
33 1 0.03
34 25 0.66
35 12 0.32
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.47
Consensus pattern (35 bp):
TCTCTAAAAATTCTCGTGTTTTAAAAATTTTCGTG
Found at i:4462228 original size:17 final size:16
Alignment explanation
Indices: 4462163--4462260 Score: 54
Period size: 17 Copynumber: 5.8 Consensus size: 16
4462153 CAAAAAATGT
* *
4462163 TCGTGTTTTAAATTTT
1 TCGTGTTTTAAAATTC
*
4462179 TTGTGTTTTGAATAAATTTC
1 TCGTGTTTT--A-AAA-TTC
* * *
4462199 TCGTGCTTCAAAAGTTG
1 TCGTGTTTTAAAA-TTC
*
4462216 TCGTGTTTTAAAAATTT
1 TCGTGTTTT-AAAATTC
*
4462233 TCATGTTTCTAAAATTC
1 TCGTGTTT-TAAAATTC
4462250 TCGT-TTTTAAA
1 TCGTGTTTTAAA
4462261 GAAATTGTGT
Statistics
Matches: 62, Mismatches: 14, Indels: 13
0.70 0.16 0.15
Matches are distributed among these distances:
15 4 0.06
16 11 0.18
17 30 0.48
18 7 0.11
19 2 0.03
20 8 0.13
ACGTcount: A:0.26, C:0.10, G:0.13, T:0.51
Consensus pattern (16 bp):
TCGTGTTTTAAAATTC
Found at i:4474325 original size:195 final size:192
Alignment explanation
Indices: 4473988--4474813 Score: 1305
Period size: 195 Copynumber: 4.2 Consensus size: 192
4473978 CTTTCCAAGG
*
4473988 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAA-TTT
* *
4474053 TTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
65 TTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
4474118 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
130 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
4474181 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAA--TT
* *
4474246 TTTAAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCGGGGCACGCCGAGGTATTTT
64 TTT-AAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTT
4474311 TAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
128 TAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
*
4474376 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAA-TTA
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
* *
4474440 AAAAAAAAATCAACTCATATTGCGAGAAACGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 TAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
*
4474505 TTTATGTTTTAAATTGACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGATGT-ATT
131 TTTATGTTTTAAATTGACTCATATTGCGAG--A-G-G-TGAG--TTAAG-C-C-TT--T-TAATT
* *
4474569 TTTAAATTTTTAAAA
183 TTT--GTTTTT---C
*
4474584 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGATGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
4474649 TAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 TAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
4474714 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
* *
4474776 AAAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTC
1 -AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
4474814 GGCTCACATG
Statistics
Matches: 590, Mismatches: 20, Indels: 46
0.90 0.03 0.07
Matches are distributed among these distances:
191 91 0.15
192 2 0.00
193 96 0.16
194 7 0.01
195 191 0.32
196 5 0.01
197 7 0.01
198 4 0.01
199 3 0.01
200 2 0.00
201 3 0.01
202 4 0.01
203 7 0.01
204 5 0.01
205 6 0.01
206 1 0.00
207 1 0.00
208 60 0.10
209 95 0.16
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (192 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
TAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:4474712 original size:70 final size:70
Alignment explanation
Indices: 4474376--4474690 Score: 445
Period size: 70 Copynumber: 4.5 Consensus size: 70
4474366 TTTGTTTTTC
4474376 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAA-TTA
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTA
*
4474440 AAAAA
66 TAAAA
* ** * ** *
4474445 AAAATCAACTCATATTGCGAGAAACGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTT-AGTTTA
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTA
****
4474509 TGTTT
66 TAAAA
* ** * *
4474514 TAAATTGACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGATGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTA
4474579 TAAAA
66 TAAAA
* *
4474584 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGATGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTA
4474649 TAAAA
66 TAAAA
4474654 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
4474691 GGGGCACGCC
Statistics
Matches: 213, Mismatches: 31, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
68 1 0.00
69 103 0.48
70 109 0.51
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTA
TAAAA
Found at i:4474735 original size:209 final size:208
Alignment explanation
Indices: 4474376--4474758 Score: 694
Period size: 209 Copynumber: 1.8 Consensus size: 208
4474366 TTTGTTTTTC
4474376 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTAA
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTAA
4474441 AAAAAAAATCAACTCATATTGCGAGAAACGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGT
66 AAAAAAAATCAACTCATATTGCGAGAAACGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGT
*
4474506 TTATGTTTTAAATTGACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGATGTATTTT
131 TTATGTTTTAAATTGACTCATATTGCGAGAAATGAGTTAAGCCTCAAGACACGTTGATGTATTTT
4474571 TAAATTTTTAAAA
196 TAAATTTTTAAAA
* *
4474584 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGATGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAA-TTA
* *
4474649 TAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
65 AAAAAAAAATCAACTCATATTGCGAGAAACGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
**
4474714 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
130 TTTATGTTTTAAATTGACTCATATTGCGAGAAATGAGTTAAGCCT
4474759 TTTAATTTTT
Statistics
Matches: 167, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
208 60 0.36
209 107 0.64
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (208 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTAA
AAAAAAAATCAACTCATATTGCGAGAAACGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGT
TTATGTTTTAAATTGACTCATATTGCGAGAAATGAGTTAAGCCTCAAGACACGTTGATGTATTTT
TAAATTTTTAAAA
Found at i:4475029 original size:85 final size:88
Alignment explanation
Indices: 4474777--4475029 Score: 270
Period size: 85 Copynumber: 2.9 Consensus size: 88
4474767 TTGTTTTTCA
* * *
4474777 AAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTC-GGCTCACATGCTGAGTTATTTTCAATT
1 AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGC-CACACGCTGAGGTATTTTCAATT
*
4474841 TATGTTTTTTTCAA-TCTATGCTTCTC
65 TCTG-TTTTTT-AATTCTA-GCTTCTC
* *
4474867 AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGG---CACGCTGAGGTATTTTCAAT
1 -AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-AGGCCACACGCTGAGGTATTTTCAAT
** *
4474929 TTCTGCTTTACTAATTCTA-CTTTTC
64 TTCTG-TTTTTTAATTCTAGCTTCTC
* * * *
4474954 -AAATCAACTCATATTGCAAGAGGTGAATTGAGTCTCAGGCCACACGCTGAGGTCTTTTCAAATT
1 AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTCAATTT
4475018 CTG-TTTTTAATT
66 CTGTTTTTTAATT
4475030 TCTGTTTTTT
Statistics
Matches: 138, Mismatches: 18, Indels: 18
0.79 0.10 0.10
Matches are distributed among these distances:
84 3 0.02
85 39 0.28
87 28 0.20
88 2 0.01
89 30 0.22
91 34 0.25
93 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (88 bp):
AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTCAATTT
CTGTTTTTTAATTCTAGCTTCTC
Found at i:4475221 original size:54 final size:55
Alignment explanation
Indices: 4475137--4475354 Score: 324
Period size: 54 Copynumber: 4.1 Consensus size: 55
4475127 TCAATTTCTA
*
4475137 CTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
4475192 CTTTT-AATTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
4475246 C--TT---TTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * *
4475297 CTTTTGCAAATTCT-GTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
1 CTTTT-CAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
4475352 CTT
1 CTT
4475355 GGGTCACGTG
Statistics
Matches: 150, Mismatches: 6, Indels: 14
0.88 0.04 0.08
Matches are distributed among these distances:
50 12 0.08
51 35 0.23
52 2 0.01
53 2 0.01
54 48 0.32
55 42 0.28
56 5 0.03
57 4 0.03
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (55 bp):
CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
Found at i:4475665 original size:30 final size:30
Alignment explanation
Indices: 4475625--4475726 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
4475615 TAAAAAATAA
* * *
4475625 AAATTGCATTTTGACCCCTATACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAAC-TTTCATT
* *
4475655 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTCATT
* *
4475685 AAATTTCACTTAGACCCCTAAACTTTCATT
1 AAATTTCATTTTGACCCCTAAACTTTCATT
4475715 AAATTTCATTTT
1 AAATTTCATTTT
4475727 AATCCTAAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 4 0.07
30 57 0.93
ACGTcount: A:0.28, C:0.23, G:0.04, T:0.45
Consensus pattern (30 bp):
AAATTTCATTTTGACCCCTAAACTTTCATT
Found at i:4476101 original size:3 final size:3
Alignment explanation
Indices: 4476093--4476151 Score: 73
Period size: 3 Copynumber: 18.0 Consensus size: 3
4476083 GCTCGGTTTT
4476093 GAA GAA GAA GAA GAA GGAA GAA GAA GAA GAA GAAA GAAA GAGA GAA GAA
1 GAA GAA GAA GAA GAA -GAA GAA GAA GAA GAA G-AA G-AA GA-A GAA GAA
4476142 GAAA GAA GAA
1 G-AA GAA GAA
4476152 AAAAAAAGAA
Statistics
Matches: 52, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
3 36 0.69
4 16 0.31
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:4476114 original size:13 final size:13
Alignment explanation
Indices: 4476093--4476161 Score: 79
Period size: 13 Copynumber: 5.2 Consensus size: 13
4476083 GCTCGGTTTT
4476093 GAAGAAGAAG-AA
1 GAAGAAGAAGAAA
4476105 GAAGGAAGAAG-AA
1 GAA-GAAGAAGAAA
4476118 GAAGAAGAAAGAAA
1 GAAGAAG-AAGAAA
4476132 GAGAGAAGAAGAAA
1 GA-AGAAGAAGAAA
* *
4476146 GAAGAAAAAAAAA
1 GAAGAAGAAGAAA
4476159 GAA
1 GAA
4476162 AAAAATTTTA
Statistics
Matches: 51, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
12 7 0.14
13 27 0.53
14 12 0.24
15 5 0.10
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (13 bp):
GAAGAAGAAGAAA
Found at i:4476150 original size:10 final size:10
Alignment explanation
Indices: 4476093--4476161 Score: 74
Period size: 10 Copynumber: 7.3 Consensus size: 10
4476083 GCTCGGTTTT
4476093 GAAG-AAGAA
1 GAAGAAAGAA
*
4476102 GAAGAAGGAA
1 GAAGAAAGAA
4476112 GAAG-AAGAA
1 GAAGAAAGAA
4476121 GAAGAAAG-A
1 GAAGAAAGAA
*
4476130 -AAGAGAGAA
1 GAAGAAAGAA
4476139 GAAGAAAGAA
1 GAAGAAAGAA
* *
4476149 GAAAAAAAAA
1 GAAGAAAGAA
4476159 GAA
1 GAA
4476162 AAAAATTTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
8 6 0.12
9 14 0.28
10 30 0.60
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
GAAGAAAGAA
Found at i:4476241 original size:18 final size:18
Alignment explanation
Indices: 4476204--4476246 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
4476194 AACCGGGTAT
* * *
4476204 AACCCGACCCGATCCGGC
1 AACCCAACCCGACCCAGC
4476222 AACCCAACCCGACCCAGC
1 AACCCAACCCGACCCAGC
4476240 AAGCCCA
1 AA-CCCA
4476247 TTAGCCAAGC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.30, C:0.51, G:0.16, T:0.02
Consensus pattern (18 bp):
AACCCAACCCGACCCAGC
Found at i:4476797 original size:17 final size:17
Alignment explanation
Indices: 4476771--4477057 Score: 145
Period size: 18 Copynumber: 16.4 Consensus size: 17
4476761 NNNNNNAAAA
*
4476771 AAAAACTTTCGTGTTTC
1 AAAAATTTTCGTGTTTC
4476788 AAAAATTTTCACGT-TTTC
1 AAAAATTTT--CGTGTTTC
** * *
4476806 AAAAATTCCCATG-ATC
1 AAAAATTTTCGTGTTTC
*
4476822 AAAAAAAAATTT-GTGTTTTC
1 ---AAAAATTTTCGTG-TTTC
*
4476842 AAAAAATTTTCATGTTTC
1 -AAAAATTTTCGTGTTTC
4476860 AAAAATTTTCGTGTTTTC
1 AAAAATTTTCGTG-TTTC
4476878 AAAAATTTTCGTGTTTTC
1 AAAAATTTTCGTG-TTTC
* * *
4476896 AACAATTCTCATGTTTC
1 AAAAATTTTCGTGTTTC
** * *
4476913 ACGAATTTTCGCGCTTC
1 AAAAATTTTCGTGTTTC
***
4476930 AAAAAAAATCAG-GTTTTC
1 AAAAATTTTC-GTG-TTTC
** *
4476948 AAAAAAATTCGCGTATTTC
1 --AAAAATTTTCGTGTTTC
*
4476967 -AAAATTGTCGTGTTCTC
1 AAAAATTTTCGTGTT-TC
*
4476984 AAAAATTTTCGTGTTTT
1 AAAAATTTTCGTGTTTC
* *
4477001 AAGAATTTTCGTGTCTC
1 AAAAATTTTCGTGTTTC
* * *
4477018 TAAAATTCTCGTGTTTT
1 AAAAATTTTCGTGTTTC
*
4477035 AAAAATTTTTCTTGTTT-
1 AAAAA-TTTTCGTGTTTC
4477052 AAAAAT
1 AAAAAT
4477058 AAAAATAAAA
Statistics
Matches: 203, Mismatches: 49, Indels: 37
0.70 0.17 0.13
Matches are distributed among these distances:
16 16 0.08
17 79 0.39
18 84 0.41
19 16 0.08
20 8 0.04
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.42
Consensus pattern (17 bp):
AAAAATTTTCGTGTTTC
Found at i:4476896 original size:36 final size:36
Alignment explanation
Indices: 4476771--4477043 Score: 161
Period size: 35 Copynumber: 7.8 Consensus size: 36
4476761 NNNNNNAAAA
* **
4476771 AAAAACTTTCGTG-TTTCAAAAATTTTCACGTTTTC
1 AAAAATTTTCGTGTTTTCAAAAATTTTCGTGTTTTC
** * **** *
4476806 AAAAATTCCCATGATCAAAAAAAAATTT-GTGTTTTC
1 AAAAATTTTCGTG-TTTTCAAAAATTTTCGTGTTTTC
*
4476842 AAAAAATTTTCATG-TTTCAAAAATTTTCGTGTTTTC
1 -AAAAATTTTCGTGTTTTCAAAAATTTTCGTGTTTTC
* * *
4476878 AAAAATTTTCGTGTTTTCAACAATTCTCATG-TTTC
1 AAAAATTTTCGTGTTTTCAAAAATTTTCGTGTTTTC
** * * ***
4476913 ACGAATTTTCGCG-CTTCAAAAAAAATCAG-GTTTTC
1 AAAAATTTTCGTGTTTTCAAAAATTTTC-GTGTTTTC
** * * *
4476948 AAAAAAATTCGCGTATTTC-AAAATTGTCGTGTTCTC
1 AAAAATTTTCGTGT-TTTCAAAAATTTTCGTGTTTTC
* *
4476984 AAAAATTTTCGTGTTTT-AAGAATTTTCGTG-TCTC
1 AAAAATTTTCGTGTTTTCAAAAATTTTCGTGTTTTC
* *
4477018 TAAAATTCTCGTGTTTT-AAAAATTTT
1 AAAAATTTTCGTGTTTTCAAAAATTTT
4477044 TCTTGTTTAA
Statistics
Matches: 179, Mismatches: 48, Indels: 23
0.72 0.19 0.09
Matches are distributed among these distances:
34 37 0.21
35 70 0.39
36 50 0.28
37 22 0.12
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (36 bp):
AAAAATTTTCGTGTTTTCAAAAATTTTCGTGTTTTC
Found at i:4477057 original size:34 final size:35
Alignment explanation
Indices: 4476950--4477043 Score: 104
Period size: 34 Copynumber: 2.7 Consensus size: 35
4476940 AGGTTTTCAA
* * * *
4476950 AAAAATTCGCGT-ATTTCAAAATTGTCGTGT-TCT
1 AAAAATTCTCGTGTTTTAAAAATTTTCGTGTCTCT
* *
4476983 CAAAAATTTTCGTGTTTTAAGAATTTTCGTGTCTCT
1 -AAAAATTCTCGTGTTTTAAAAATTTTCGTGTCTCT
4477019 -AAAATTCTCGTGTTTTAAAAATTTT
1 AAAAATTCTCGTGTTTTAAAAATTTT
4477044 TCTTGTTTAA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
34 33 0.66
35 14 0.28
36 3 0.06
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.45
Consensus pattern (35 bp):
AAAAATTCTCGTGTTTTAAAAATTTTCGTGTCTCT
Found at i:4477150 original size:17 final size:16
Alignment explanation
Indices: 4477085--4477182 Score: 54
Period size: 17 Copynumber: 5.8 Consensus size: 16
4477075 CAAAAAATGT
* *
4477085 TCGTGTTTTAAATTTT
1 TCGTGTTTTAAAATTC
*
4477101 TTGTGTTTTGAATAAATTTC
1 TCGTGTTTT--A-AAA-TTC
* * *
4477121 TCGTGCTTCAAAAGTTG
1 TCGTGTTTTAAAA-TTC
*
4477138 TCGTGTTTTAAAAATTT
1 TCGTGTTTT-AAAATTC
*
4477155 TCATGTTTCTAAAATTC
1 TCGTGTTT-TAAAATTC
4477172 TCGT-TTTTAAA
1 TCGTGTTTTAAA
4477183 GAAATTGTGT
Statistics
Matches: 62, Mismatches: 14, Indels: 13
0.70 0.16 0.15
Matches are distributed among these distances:
15 4 0.06
16 11 0.18
17 30 0.48
18 7 0.11
19 2 0.03
20 8 0.13
ACGTcount: A:0.26, C:0.10, G:0.13, T:0.51
Consensus pattern (16 bp):
TCGTGTTTTAAAATTC
Found at i:4483763 original size:28 final size:26
Alignment explanation
Indices: 4483725--4483782 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
4483715 GATTTTTAAA
*
4483725 AAAAAGTTAGAATTTTTCA-AAAATTAT
1 AAAAAGTTAGAA-GTTT-AGAAAATTAT
4483752 AAAAAGTTTAGAAGTTTAGAAAATTAT
1 AAAAAG-TTAGAAGTTTAGAAAATTAT
4483779 AAAA
1 AAAA
4483783 CCATAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 1 0.04
27 21 0.75
28 6 0.21
ACGTcount: A:0.55, C:0.02, G:0.10, T:0.33
Consensus pattern (26 bp):
AAAAAGTTAGAAGTTTAGAAAATTAT
Found at i:4483808 original size:9 final size:9
Alignment explanation
Indices: 4483743--4483941 Score: 56
Period size: 10 Copynumber: 21.6 Consensus size: 9
4483733 AGAATTTTTC
4483743 AAAAATTAT
1 AAAAATTAT
4483752 AAAAAGTT-T
1 AAAAA-TTAT
* *
4483761 AGAAGTT-T
1 AAAAATTAT
4483769 AGAAAATTAT
1 A-AAAATTAT
**
4483779 -AAAACCAT
1 AAAAATTAT
**
4483787 AAAAATTGC
1 AAAAATTAT
4483796 AAAAATTAT
1 AAAAATTAT
4483805 AAAACATTATT
1 AAAA-ATTA-T
* *
4483816 AAAATTTGTT
1 AAAAATT-AT
* *
4483826 AAACATAAT
1 AAAAATTAT
4483835 ATAAAATTATT
1 A-AAAATTA-T
4483846 AAAAA-T-T
1 AAAAATTAT
4483853 AAAAA--AT
1 AAAAATTAT
* *
4483860 -AGAATTTT
1 AAAAATTAT
4483868 GAAAAA-TAT
1 -AAAAATTAT
*
4483877 AAAAATTTAC
1 AAAAA-TTAT
4483887 AAAGAATTATT
1 AAA-AATTA-T
*
4483898 AAAAATAAT
1 AAAAATTAT
* *
4483907 GTAAAGTTAT
1 -AAAAATTAT
*
4483917 TAAAATTAT
1 AAAAATTAT
4483926 ATAAAATTAT
1 A-AAAATTAT
4483936 GAAAAA
1 -AAAAA
4483942 GAATTTGTAT
Statistics
Matches: 137, Mismatches: 32, Indels: 41
0.65 0.15 0.20
Matches are distributed among these distances:
6 3 0.02
7 7 0.05
8 16 0.12
9 42 0.31
10 56 0.41
11 13 0.09
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:4483930 original size:19 final size:19
Alignment explanation
Indices: 4483891--4483940 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
4483881 ATTTACAAAG
*
4483891 AATTATTAAAAATAATGTAA
1 AATTATT-AAAATAATATAA
* *
4483911 AGTTATTAAAATTATATAA
1 AATTATTAAAATAATATAA
*
4483930 AATTATGAAAA
1 AATTATTAAAA
4483941 AGAATTTGTA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (19 bp):
AATTATTAAAATAATATAA
Found at i:4491283 original size:28 final size:27
Alignment explanation
Indices: 4491228--4491283 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
4491218 TTTAAATTTT
* *
4491228 AAATTAGACATGAATTTTTTTAAGAAA
1 AAATTAGACATGAAATTTATTAAGAAA
*
4491255 AAATTAGACATGAAATTTATTAAGCAA
1 AAATTAGACATGAAATTTATTAAGAAA
4491282 AA
1 AA
4491284 GATGTATCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.52, C:0.05, G:0.11, T:0.32
Consensus pattern (27 bp):
AAATTAGACATGAAATTTATTAAGAAA
Found at i:4501681 original size:17 final size:17
Alignment explanation
Indices: 4501647--4501680 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
4501637 AATGTATAAA
4501647 TAAATATTATTTTATTT
1 TAAATATTATTTTATTT
4501664 TAAATATT-TTTTATTT
1 TAAATATTATTTTATTT
4501680 T
1 T
4501681 TGTTTCGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TAAATATTATTTTATTT
Found at i:4503166 original size:93 final size:93
Alignment explanation
Indices: 4503058--4503230 Score: 247
Period size: 93 Copynumber: 1.9 Consensus size: 93
4503048 CGCCCATAAG
* * ** *
4503058 CGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGTATCCATAAGTGAAATCGGGCTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAAATCGGACTCAACTCA
*
4503123 ACGAGCTTGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* * * **
4503151 CGAACTCGGACTCAACTCAATGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTTGACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAAATCGGACTCAACTCA
4503216 ACGAGCTCGGATGCC
66 ACGAGCTCGGATGCC
4503231 CAAATATCCT
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAAATCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:4503941 original size:172 final size:172
Alignment explanation
Indices: 4503638--4503980 Score: 623
Period size: 172 Copynumber: 2.0 Consensus size: 172
4503628 GCTTTGGCAA
* * *
4503638 AATTACCATTTTGCCCCTAAACTTTCACATATTTACACTTTTGCCCCAAGGCTCGTAAATTAAGC
1 AATTACAATTTTACCCCTAAACTTTCACATATTTACACTTTTGCCCCAAGGCTCGTAAATTAAAC
* *
4503703 CTCATCCTATTTTCTTATGTTTTATGACATGCTGATCATTTTTCCCTTCTATAGCAACATCAAAT
66 CTCATCCTATTTTCTTATGTTTTATGACATGCTAATCATTTTTCCCTTCTATAGCAACACCAAAT
* *
4503768 TCACACTCTAACATGTGCTTATGAATATTAGGTATTTTTACT
131 TCACACTCTAACATGTACTTATGAATATTAGGGATTTTTACT
4503810 AATTACAATTTTACCCCTAAACTTTCACATATTTACACTTTTGCCCCAAGGCTCGTAAATTAAAC
1 AATTACAATTTTACCCCTAAACTTTCACATATTTACACTTTTGCCCCAAGGCTCGTAAATTAAAC
4503875 CTCATCCTATTTTCTTATGTTTTATGACATGCTAATCATTTTTCCCTTCTATAGCAACACCAAAT
66 CTCATCCTATTTTCTTATGTTTTATGACATGCTAATCATTTTTCCCTTCTATAGCAACACCAAAT
4503940 TCACACTCTAACATGTACTTATGAATATTAGGGATTTTTAC
131 TCACACTCTAACATGTACTTATGAATATTAGGGATTTTTAC
4503981 CGATTATGTC
Statistics
Matches: 164, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
172 164 1.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.39
Consensus pattern (172 bp):
AATTACAATTTTACCCCTAAACTTTCACATATTTACACTTTTGCCCCAAGGCTCGTAAATTAAAC
CTCATCCTATTTTCTTATGTTTTATGACATGCTAATCATTTTTCCCTTCTATAGCAACACCAAAT
TCACACTCTAACATGTACTTATGAATATTAGGGATTTTTACT
Found at i:4508376 original size:5 final size:5
Alignment explanation
Indices: 4508366--4508413 Score: 96
Period size: 5 Copynumber: 9.6 Consensus size: 5
4508356 TACAAAAAAA
4508366 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATT
4508414 GTGAAAAGAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 43 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:4514634 original size:19 final size:19
Alignment explanation
Indices: 4514610--4514657 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
4514600 AACTAATATA
*
4514610 AACAAAATTTGAACTTTAC
1 AACAAAATTCGAACTTTAC
*
4514629 AACAAAAATCGAACTTTAC
1 AACAAAATTCGAACTTTAC
4514648 AACAAAATTC
1 AACAAAATTC
4514658 AATATATTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.52, C:0.19, G:0.04, T:0.25
Consensus pattern (19 bp):
AACAAAATTCGAACTTTAC
Found at i:4518886 original size:19 final size:18
Alignment explanation
Indices: 4518856--4518891 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
4518846 TTATGAATTA
4518856 TTATTTTTATTTATTTAC
1 TTATTTTTATTTATTTAC
*
4518874 TTATTTATTATTTCTTTA
1 TTATTT-TTATTTATTTA
4518892 TCCTTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (18 bp):
TTATTTTTATTTATTTAC
Found at i:4520955 original size:11 final size:11
Alignment explanation
Indices: 4520941--4520969 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
4520931 GTTTTGACTC
4520941 TCCAATCATCT
1 TCCAATCATCT
4520952 TCCAATCATCT
1 TCCAATCATCT
4520963 TCCAATC
1 TCCAATC
4520970 CTTTCGAGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.28, C:0.38, G:0.00, T:0.34
Consensus pattern (11 bp):
TCCAATCATCT
Found at i:4522180 original size:92 final size:92
Alignment explanation
Indices: 4522023--4522372 Score: 502
Period size: 92 Copynumber: 3.8 Consensus size: 92
4522013 TTTGACATGA
* * * * *
4522023 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
4522088 CATGGTCTTTTTCATTTCATGTCACGC
66 CATGGTCTTTTTCATTTCATGTCACGC
* *
4522115 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
4522180 CATGGTCTTTTTCATTTCATGTCACGC
66 CATGGTCTTTTTCATTTCATGTCACGC
* *
4522207 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
*** * * *
4522272 CATGGTCTTACACGTTTCATATCAGGC
66 CATGGTCTTTTTCATTTCATGTCACGC
* * *** * *
4522299 TGCCATGGTATCTTTCAACCATGGCCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
4522364 CATGGTCTT
66 CATGGTCTT
4522373 ACACATTTCA
Statistics
Matches: 236, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
92 236 1.00
ACGTcount: A:0.19, C:0.25, G:0.16, T:0.40
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTTTTCATTTCATGTCACGC
Found at i:4522381 original size:46 final size:46
Alignment explanation
Indices: 4522023--4522388 Score: 437
Period size: 46 Copynumber: 8.0 Consensus size: 46
4522013 TTTGACATGA
* * * * *
4522023 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGTCAGGC
** *
4522069 TGCCATGGTATCTTTCAACCATGGTCTTTTTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGC
* * ** * *
4522115 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGC
** *
4522161 TGCCATGGTATCTTTCAACCATGGTCTTTTTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGC
* * ** * *
4522207 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGC
* * *
4522253 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGC
* * *
4522299 TGCCATGGTATCTTTCAACCATGGCCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGC
* *
4522345 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAG
4522389 AGAGCACACT
Statistics
Matches: 282, Mismatches: 37, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
45 4 0.01
46 278 0.99
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGC
Found at i:4531507 original size:55 final size:55
Alignment explanation
Indices: 4531440--4531560 Score: 136
Period size: 55 Copynumber: 2.2 Consensus size: 55
4531430 TGCCCTTCAG
* *
4531440 CCGTGGGCAACACTGACTTATCAACACGGCCATGGCACACACCTGTGCT-GCCTAC
1 CCGTGGACAACACTGACTTATCAACACGGCCATGGCACACACCCGTG-TGGCCTAC
* * * * ** *
4531495 CCGTGGACAACACTGTCTTTTTAACACGGCTATGGTGCACGCCCGTGTGGCCTAC
1 CCGTGGACAACACTGACTTATCAACACGGCCATGGCACACACCCGTGTGGCCTAC
*
4531550 CCGTGTACAAC
1 CCGTGGACAAC
4531561 TTTGAGTTAA
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 1 0.02
55 54 0.98
ACGTcount: A:0.21, C:0.34, G:0.23, T:0.21
Consensus pattern (55 bp):
CCGTGGACAACACTGACTTATCAACACGGCCATGGCACACACCCGTGTGGCCTAC
Found at i:4550287 original size:18 final size:18
Alignment explanation
Indices: 4550264--4550298 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4550254 ACGTGAACTT
4550264 CCCAAAAAAATAAAAATC
1 CCCAAAAAAATAAAAATC
*
4550282 CCCAAAATAATAAAAAT
1 CCCAAAAAAATAAAAAT
4550299 AAAACTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.66, C:0.20, G:0.00, T:0.14
Consensus pattern (18 bp):
CCCAAAAAAATAAAAATC
Found at i:4555019 original size:22 final size:22
Alignment explanation
Indices: 4554993--4555037 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
4554983 AATATTCAAG
4554993 TAAAAGGATTTTTGCATATTAC
1 TAAAAGGATTTTTGCATATTAC
4555015 TAAAAGGATTTTTGCATATTAC
1 TAAAAGGATTTTTGCATATTAC
4555037 T
1 T
4555038 CTAAAAGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.42
Consensus pattern (22 bp):
TAAAAGGATTTTTGCATATTAC
Found at i:4555546 original size:44 final size:44
Alignment explanation
Indices: 4555480--4555970 Score: 422
Period size: 44 Copynumber: 11.0 Consensus size: 44
4555470 TACCATAAAG
* *
4555480 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * *
4555524 AATCTTATCTCCTTAAAATTGCAGTGGAGCAAATTAAAGCTACA
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGCAGATTGAAGCTACA
* ** *
4555568 AATCTTATCT-CTCTAAAGTTGCAGTGAAATAGATTGAAGCTAAA
1 AATCTTATCTCCT-TAAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * * * *
4555612 AATCTTATAC-CCCTAAAGATGTAGTGG-GTCGGATTGAATCTACCATAA
1 AATCTTAT-CTCCTTAAAGTTGCAGTGGAG-CAGATTGAAGCTA-C---A
* *
4555660 CGAATCTTATCTCCCTAAAGTTGTAGTGGAGCAAGA-TGAAGCTACA
1 --AATCTTATCTCCTTAAAGTTGCAGTGGAGC-AGATTGAAGCTACA
* * *
4555706 AATCTTATCT-CTCTAAAATTGTAGTGGAGCAGATTGAAGTTACA
1 AATCTTATCTCCT-TAAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * * * *
4555750 AATCTCATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAACTACA
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGCAGATTGAAGCTACA
** * *
4555794 AATCTTATCTTCC-TAAAGTTGTGGTGAAGCAGATTGAAGCTACG
1 AATCTTATC-TCCTTAAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * * * *
4555838 AATCGTATCGCCTTGAAGTTGCAGTGAAGCAGATTGAAGCTACC
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGCAGATTGAAGCTACA
* ** * *
4555882 AATCTTATCTTCTCGAAGTTGCAGTGGAGCAAGA-TAAAACTACA
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGC-AGATTGAAGCTACA
* * * *
4555926 AATCTTATCTTCTTGAAGTTGCAATGGAGCAAGA-TAAAGCTACA
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGC-AGATTGAAGCTACA
4555970 A
1 A
4555971 TCCTATACCC
Statistics
Matches: 368, Mismatches: 60, Indels: 38
0.79 0.13 0.08
Matches are distributed among these distances:
43 8 0.02
44 312 0.85
45 9 0.02
46 1 0.00
48 1 0.00
49 2 0.01
50 32 0.09
51 3 0.01
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCTTAAAGTTGCAGTGGAGCAGATTGAAGCTACA
Found at i:4555869 original size:132 final size:132
Alignment explanation
Indices: 4555480--4555970 Score: 494
Period size: 132 Copynumber: 3.7 Consensus size: 132
4555470 TACCATAAAG
* *
4555480 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATC-TCCTTAAAATT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACTACAAATCTTATCTTCC-TAAAGTT
* * * **
4555544 GCAGTGGAGCAAATTAAAGCTACAAATCTTATCTCTCTAAAGTTGCAGTGAAATAGATTGAAGCT
65 GTAGTGGAGCAGATTGAAGCTACAAATCTTATCTCTCTAAAGTTGCAGTGAAGCAGATTGAAGCT
*
4555609 AAA
130 ACA
* * * * * *
4555612 AATCTTATAC-CCCTAAAGATGTAGTGG-GTCGGATTGAATCTACCATAACGAATCTTATCTCCC
1 AATCTTAT-CTCCCTGAAGTTGCAGTGGAG-CAGATTGAA---A-C-T-ACAAATCTTATCTTCC
* * *
4555675 TAAAGTTGTAGTGGAGCAAGA-TGAAGCTACAAATCTTATCTCTCTAAAATTGTAGTGGAGCAGA
58 TAAAGTTGTAGTGGAGC-AGATTGAAGCTACAAATCTTATCTCTCTAAAGTTGCAGTGAAGCAGA
*
4555739 TTGAAGTTACA
122 TTGAAGCTACA
* *
4555750 AATCTCATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAACTACAAATCTTATCTTCCTAAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACTACAAATCTTATCTTCCTAAAGTTG
* * * * * *
4555815 TGGTGAAGCAGATTGAAGCTACGAATCGTATCGC-CTTGAAGTTGCAGTGAAGCAGATTGAAGCT
66 TAGTGGAGCAGATTGAAGCTACAAATCTTATCTCTC-TAAAGTTGCAGTGAAGCAGATTGAAGCT
*
4555879 ACC
130 ACA
* * * *
4555882 AATCTTATCT-TCTCGAAGTTGCAGTGGAGCAAGA-TAAAACTACAAATCTTATCTTCTTGAAGT
1 AATCTTATCTCCCT-GAAGTTGCAGTGGAGC-AGATTGAAACTACAAATCTTATCTTCCTAAAGT
* * *
4555945 TGCAATGGAGCAAGA-TAAAGCTACAA
64 TGTAGTGGAGC-AGATTGAAGCTACAA
4555971 TCCTATACCC
Statistics
Matches: 293, Mismatches: 49, Indels: 34
0.78 0.13 0.09
Matches are distributed among these distances:
131 7 0.02
132 168 0.57
133 8 0.03
134 1 0.00
135 1 0.00
136 1 0.00
137 2 0.01
138 100 0.34
139 5 0.02
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (132 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACTACAAATCTTATCTTCCTAAAGTTG
TAGTGGAGCAGATTGAAGCTACAAATCTTATCTCTCTAAAGTTGCAGTGAAGCAGATTGAAGCTA
CA
Found at i:4556081 original size:44 final size:44
Alignment explanation
Indices: 4555480--4556089 Score: 397
Period size: 44 Copynumber: 13.6 Consensus size: 44
4555470 TACCATAAAG
* *
4555480 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * *
4555524 AATCTTATCTCCTTAAAATTGCAGTGGAGCAAATTAAAGCTACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * ** * *
4555568 AATCTTATCT-CTCTAAAGTTGCAGTGAAATAGATTGAAGCTAAA
1 AATCTTATCTCCT-TGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * * * * *
4555612 AATCTTATAC-CCCTAAAGATGTAGTGG-GTCGGATTGAATCTACCATAACG
1 AATCTTAT-CTCCTTGAAGTTGCAGTGGAG-CAGATT-AA---AGC-T-ACA
* * * *
4555662 AATCTTATCTCCCTAAAGTTGTAGTGGAGCAAGA-TGAAGCTACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGC-AGATTAAAGCTACA
* * * * *
4555706 AATCTTATCT-CTCTAAAATTGTAGTGGAGCAGATTGAAGTTACA
1 AATCTTATCTCCT-TGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * *
4555750 AATCTCATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAA-CTACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATT-AAAGCTACA
* ** * * *
4555794 AATCTTATCTTCC-TAAAGTTGTGGTGAAGCAGATTGAAGCTACG
1 AATCTTATC-TCCTTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * * *
4555838 AATCGTATCGCCTTGAAGTTGCAGTGAAGCAGATTGAAGCTACC
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * *
4555882 AATCTTATCTTCTCGAAGTTGCAGTGGAGCAAGA-TAAAACTACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGC-AGATTAAAGCTACA
* *
4555926 AATCTTATCTTCTTGAAGTTGCAATGGAGCAAGA-TAAAGCTAC-
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGC-AGATTAAAGCTACA
* * * **
4555969 AATCCTATAC-CCCTGAAGTTACAGTGG-GTTGGATTGAACTTA-CTATAGCA
1 AATCTTAT-CTCCTTGAAGTTGCAGTGGAG-CAGATT-AA---AGC--TA-CA
4556019 AATCTTATCT-CTCTGAAGTTGCAGTGGAGCAAGA-TAAAGCTACA
1 AATCTTATCTCCT-TGAAGTTGCAGTGGAGC-AGATTAAAGCTACA
*
4556063 AATCCTATAC-CCTTGAAGTTGCAGTGG
1 AATCTTAT-CTCCTTGAAGTTGCAGTGG
4556090 GTTAGAATGA
Statistics
Matches: 450, Mismatches: 77, Indels: 78
0.74 0.13 0.13
Matches are distributed among these distances:
42 3 0.01
43 31 0.07
44 326 0.72
45 18 0.04
46 4 0.01
47 2 0.00
48 4 0.01
49 8 0.02
50 48 0.11
51 6 0.01
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
Found at i:4556265 original size:15 final size:13
Alignment explanation
Indices: 4556243--4556291 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 13
4556233 TCGTCCAATC
4556243 AAAAACAATAAATA
1 AAAAACAA-AAATA
4556257 AATAAACAAAATATA
1 AA-AAACAAAA-ATA
4556272 AAAAACCAAAAAATA
1 AAAAA-C-AAAAATA
4556287 AAAAA
1 AAAAA
4556292 TCCAAGTCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
14 7 0.23
15 20 0.65
16 4 0.13
ACGTcount: A:0.80, C:0.08, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAACAAAAATA
Found at i:4557558 original size:19 final size:18
Alignment explanation
Indices: 4557528--4557563 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
4557518 TTATGAATTA
4557528 TTATTTTTATTTATTTAC
1 TTATTTTTATTTATTTAC
*
4557546 TTATTTATTATTTCTTTA
1 TTATTT-TTATTTATTTA
4557564 TCCTTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (18 bp):
TTATTTTTATTTATTTAC
Found at i:4559627 original size:11 final size:11
Alignment explanation
Indices: 4559613--4559641 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
4559603 GTTTTGACTC
4559613 TCCAATCATCT
1 TCCAATCATCT
4559624 TCCAATCATCT
1 TCCAATCATCT
4559635 TCCAATC
1 TCCAATC
4559642 CTTTCGAGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.28, C:0.38, G:0.00, T:0.34
Consensus pattern (11 bp):
TCCAATCATCT
Found at i:4560755 original size:46 final size:46
Alignment explanation
Indices: 4560695--4561014 Score: 417
Period size: 46 Copynumber: 7.0 Consensus size: 46
4560685 TTTGACATGA
* * * * * * *
4560695 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGC
*** * *
4560741 TGCCATGGTATCTTTCAACCATGGTCTTTTTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*** *** * *
4560787 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
4560833 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
4560879 TGCCATGGTATCTTTCAACCATGGCCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
4560925 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
4560971 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
4561015 AGAGCACACT
Statistics
Matches: 247, Mismatches: 26, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.02
46 243 0.98
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:4570133 original size:55 final size:55
Alignment explanation
Indices: 4570066--4570186 Score: 136
Period size: 55 Copynumber: 2.2 Consensus size: 55
4570056 TGCCCTTCAG
* *
4570066 CCGTGGGCAACACTGACTTATCAACACGGCCATGGCACACACCTGTGCT-GCCTAC
1 CCGTGGACAACACTGACTTATCAACACGGCCATGGCACACACCCGTG-TGGCCTAC
* * * * ** *
4570121 CCGTGGACAACACTGTCTTTTTAACACGGCTATGGTGCACGCCCGTGTGGCCTAC
1 CCGTGGACAACACTGACTTATCAACACGGCCATGGCACACACCCGTGTGGCCTAC
*
4570176 CCGTGTACAAC
1 CCGTGGACAAC
4570187 TTTGAGTTAA
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 1 0.02
55 54 0.98
ACGTcount: A:0.21, C:0.34, G:0.23, T:0.21
Consensus pattern (55 bp):
CCGTGGACAACACTGACTTATCAACACGGCCATGGCACACACCCGTGTGGCCTAC
Found at i:4590291 original size:18 final size:18
Alignment explanation
Indices: 4590268--4590302 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4590258 ACGTGAACTT
4590268 CCCAAAAAAATAAAAATC
1 CCCAAAAAAATAAAAATC
*
4590286 CCCAAAATAATAAAAAT
1 CCCAAAAAAATAAAAAT
4590303 AAAACTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.66, C:0.20, G:0.00, T:0.14
Consensus pattern (18 bp):
CCCAAAAAAATAAAAATC
Found at i:4595023 original size:22 final size:22
Alignment explanation
Indices: 4594997--4595041 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
4594987 AATATTCAAG
4594997 TAAAAGGATTTTTGCATATTAC
1 TAAAAGGATTTTTGCATATTAC
4595019 TAAAAGGATTTTTGCATATTAC
1 TAAAAGGATTTTTGCATATTAC
4595041 T
1 T
4595042 CTAAAAGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.42
Consensus pattern (22 bp):
TAAAAGGATTTTTGCATATTAC
Found at i:4595550 original size:44 final size:44
Alignment explanation
Indices: 4595484--4595974 Score: 422
Period size: 44 Copynumber: 11.0 Consensus size: 44
4595474 TACCATAAAG
* *
4595484 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * *
4595528 AATCTTATCTCCTTAAAATTGCAGTGGAGCAAATTAAAGCTACA
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGCAGATTGAAGCTACA
* ** *
4595572 AATCTTATCT-CTCTAAAGTTGCAGTGAAATAGATTGAAGCTAAA
1 AATCTTATCTCCT-TAAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * * * *
4595616 AATCTTATAC-CCCTAAAGATGTAGTGG-GTCGGATTGAATCTACCATAA
1 AATCTTAT-CTCCTTAAAGTTGCAGTGGAG-CAGATTGAAGCTA-C---A
* *
4595664 CGAATCTTATCTCCCTAAAGTTGTAGTGGAGCAAGA-TGAAGCTACA
1 --AATCTTATCTCCTTAAAGTTGCAGTGGAGC-AGATTGAAGCTACA
* * *
4595710 AATCTTATCT-CTCTAAAATTGTAGTGGAGCAGATTGAAGTTACA
1 AATCTTATCTCCT-TAAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * * * *
4595754 AATCTCATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAACTACA
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGCAGATTGAAGCTACA
** * *
4595798 AATCTTATCTTCC-TAAAGTTGTGGTGAAGCAGATTGAAGCTACG
1 AATCTTATC-TCCTTAAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * * * *
4595842 AATCGTATCGCCTTGAAGTTGCAGTGAAGCAGATTGAAGCTACC
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGCAGATTGAAGCTACA
* ** * *
4595886 AATCTTATCTTCTCGAAGTTGCAGTGGAGCAAGA-TAAAACTACA
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGC-AGATTGAAGCTACA
* * * *
4595930 AATCTTATCTTCTTGAAGTTGCAATGGAGCAAGA-TAAAGCTACA
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGC-AGATTGAAGCTACA
4595974 A
1 A
4595975 TCCTATACCC
Statistics
Matches: 368, Mismatches: 60, Indels: 38
0.79 0.13 0.08
Matches are distributed among these distances:
43 8 0.02
44 312 0.85
45 9 0.02
46 1 0.00
48 1 0.00
49 2 0.01
50 32 0.09
51 3 0.01
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCTTAAAGTTGCAGTGGAGCAGATTGAAGCTACA
Found at i:4595873 original size:132 final size:132
Alignment explanation
Indices: 4595484--4595974 Score: 494
Period size: 132 Copynumber: 3.7 Consensus size: 132
4595474 TACCATAAAG
* *
4595484 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATC-TCCTTAAAATT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACTACAAATCTTATCTTCC-TAAAGTT
* * * **
4595548 GCAGTGGAGCAAATTAAAGCTACAAATCTTATCTCTCTAAAGTTGCAGTGAAATAGATTGAAGCT
65 GTAGTGGAGCAGATTGAAGCTACAAATCTTATCTCTCTAAAGTTGCAGTGAAGCAGATTGAAGCT
*
4595613 AAA
130 ACA
* * * * * *
4595616 AATCTTATAC-CCCTAAAGATGTAGTGG-GTCGGATTGAATCTACCATAACGAATCTTATCTCCC
1 AATCTTAT-CTCCCTGAAGTTGCAGTGGAG-CAGATTGAA---A-C-T-ACAAATCTTATCTTCC
* * *
4595679 TAAAGTTGTAGTGGAGCAAGA-TGAAGCTACAAATCTTATCTCTCTAAAATTGTAGTGGAGCAGA
58 TAAAGTTGTAGTGGAGC-AGATTGAAGCTACAAATCTTATCTCTCTAAAGTTGCAGTGAAGCAGA
*
4595743 TTGAAGTTACA
122 TTGAAGCTACA
* *
4595754 AATCTCATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAACTACAAATCTTATCTTCCTAAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACTACAAATCTTATCTTCCTAAAGTTG
* * * * * *
4595819 TGGTGAAGCAGATTGAAGCTACGAATCGTATCGC-CTTGAAGTTGCAGTGAAGCAGATTGAAGCT
66 TAGTGGAGCAGATTGAAGCTACAAATCTTATCTCTC-TAAAGTTGCAGTGAAGCAGATTGAAGCT
*
4595883 ACC
130 ACA
* * * *
4595886 AATCTTATCT-TCTCGAAGTTGCAGTGGAGCAAGA-TAAAACTACAAATCTTATCTTCTTGAAGT
1 AATCTTATCTCCCT-GAAGTTGCAGTGGAGC-AGATTGAAACTACAAATCTTATCTTCCTAAAGT
* * *
4595949 TGCAATGGAGCAAGA-TAAAGCTACAA
64 TGTAGTGGAGC-AGATTGAAGCTACAA
4595975 TCCTATACCC
Statistics
Matches: 293, Mismatches: 49, Indels: 34
0.78 0.13 0.09
Matches are distributed among these distances:
131 7 0.02
132 168 0.57
133 8 0.03
134 1 0.00
135 1 0.00
136 1 0.00
137 2 0.01
138 100 0.34
139 5 0.02
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (132 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACTACAAATCTTATCTTCCTAAAGTTG
TAGTGGAGCAGATTGAAGCTACAAATCTTATCTCTCTAAAGTTGCAGTGAAGCAGATTGAAGCTA
CA
Found at i:4596085 original size:44 final size:44
Alignment explanation
Indices: 4595484--4596093 Score: 397
Period size: 44 Copynumber: 13.6 Consensus size: 44
4595474 TACCATAAAG
* *
4595484 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * *
4595528 AATCTTATCTCCTTAAAATTGCAGTGGAGCAAATTAAAGCTACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * ** * *
4595572 AATCTTATCT-CTCTAAAGTTGCAGTGAAATAGATTGAAGCTAAA
1 AATCTTATCTCCT-TGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * * * * *
4595616 AATCTTATAC-CCCTAAAGATGTAGTGG-GTCGGATTGAATCTACCATAACG
1 AATCTTAT-CTCCTTGAAGTTGCAGTGGAG-CAGATT-AA---AGC-T-ACA
* * * *
4595666 AATCTTATCTCCCTAAAGTTGTAGTGGAGCAAGA-TGAAGCTACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGC-AGATTAAAGCTACA
* * * * *
4595710 AATCTTATCT-CTCTAAAATTGTAGTGGAGCAGATTGAAGTTACA
1 AATCTTATCTCCT-TGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * *
4595754 AATCTCATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAA-CTACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATT-AAAGCTACA
* ** * * *
4595798 AATCTTATCTTCC-TAAAGTTGTGGTGAAGCAGATTGAAGCTACG
1 AATCTTATC-TCCTTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * * *
4595842 AATCGTATCGCCTTGAAGTTGCAGTGAAGCAGATTGAAGCTACC
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * *
4595886 AATCTTATCTTCTCGAAGTTGCAGTGGAGCAAGA-TAAAACTACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGC-AGATTAAAGCTACA
* *
4595930 AATCTTATCTTCTTGAAGTTGCAATGGAGCAAGA-TAAAGCTAC-
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGC-AGATTAAAGCTACA
* * * **
4595973 AATCCTATAC-CCCTGAAGTTACAGTGG-GTTGGATTGAACTTA-CTATAGCA
1 AATCTTAT-CTCCTTGAAGTTGCAGTGGAG-CAGATT-AA---AGC--TA-CA
4596023 AATCTTATCT-CTCTGAAGTTGCAGTGGAGCAAGA-TAAAGCTACA
1 AATCTTATCTCCT-TGAAGTTGCAGTGGAGC-AGATTAAAGCTACA
*
4596067 AATCCTATAC-CCTTGAAGTTGCAGTGG
1 AATCTTAT-CTCCTTGAAGTTGCAGTGG
4596094 GTTAGAATGA
Statistics
Matches: 450, Mismatches: 77, Indels: 78
0.74 0.13 0.13
Matches are distributed among these distances:
42 3 0.01
43 31 0.07
44 326 0.72
45 18 0.04
46 4 0.01
47 2 0.00
48 4 0.01
49 8 0.02
50 48 0.11
51 6 0.01
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
Found at i:4596269 original size:15 final size:13
Alignment explanation
Indices: 4596247--4596295 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 13
4596237 TCGTCCAATC
4596247 AAAAACAATAAATA
1 AAAAACAA-AAATA
4596261 AATAAACAAAATATA
1 AA-AAACAAAA-ATA
4596276 AAAAACCAAAAAATA
1 AAAAA-C-AAAAATA
4596291 AAAAA
1 AAAAA
4596296 TCCAAGTCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
14 7 0.23
15 20 0.65
16 4 0.13
ACGTcount: A:0.80, C:0.08, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAACAAAAATA
Found at i:4597562 original size:19 final size:18
Alignment explanation
Indices: 4597532--4597577 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
4597522 TTATGAATTA
4597532 TTATTTTTATTTATTTAC
1 TTATTTTTATTTATTTAC
*
4597550 TTATTTATTATTTCTTTA-
1 TTATTT-TTATTTATTTAC
*
4597568 TTCTTTTTAT
1 TTATTTTTAT
4597578 ATTTAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 4 0.16
18 11 0.44
19 10 0.40
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.74
Consensus pattern (18 bp):
TTATTTTTATTTATTTAC
Found at i:4611233 original size:3 final size:3
Alignment explanation
Indices: 4611219--4611376 Score: 307
Period size: 3 Copynumber: 52.7 Consensus size: 3
4611209 ATATTAGGCG
*
4611219 TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4611267 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4611315 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4611363 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
4611377 TATAATGTAA
Statistics
Matches: 153, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
3 153 1.00
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:4612326 original size:17 final size:16
Alignment explanation
Indices: 4612304--4612350 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
4612294 TTGTAATTTA
4612304 AATTAATTATAAAGGTT
1 AATTAATTATAAAGG-T
*
4612321 AATTAAGTA-AATAGGT
1 AATTAATTATAA-AGGT
4612337 AATTAATTGATAAA
1 AATTAATT-ATAAA
4612351 TTAATAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 10 0.40
17 13 0.52
18 2 0.08
ACGTcount: A:0.51, C:0.00, G:0.13, T:0.36
Consensus pattern (16 bp):
AATTAATTATAAAGGT
Found at i:4618843 original size:17 final size:16
Alignment explanation
Indices: 4618821--4618867 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
4618811 TTGTAATTTA
4618821 AATTAATTATAAAGGTT
1 AATTAATTATAAAGG-T
*
4618838 AATTAATTA-AATATGT
1 AATTAATTATAA-AGGT
4618854 AATTAATTGATAAA
1 AATTAATT-ATAAA
4618868 TTAATAAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 11 0.42
17 13 0.50
18 2 0.08
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (16 bp):
AATTAATTATAAAGGT
Found at i:4618872 original size:16 final size:15
Alignment explanation
Indices: 4618821--4618872 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 15
4618811 TTGTAATTTA
4618821 AATTAATTATAAAGGTT
1 AATTAATTATAAA--TT
4618838 AATTAATTA-AATATGT
1 AATTAATTATAA-AT-T
4618854 AATTAATTGATAAATT
1 AATTAATT-ATAAATT
4618870 AAT
1 AAT
4618873 AAAACAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
15 1 0.03
16 15 0.48
17 13 0.42
18 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (15 bp):
AATTAATTATAAATT
Found at i:4621778 original size:25 final size:27
Alignment explanation
Indices: 4621736--4621817 Score: 82
Period size: 25 Copynumber: 3.0 Consensus size: 27
4621726 TTATAATATA
*
4621736 TATATTTATTAGTAATAAATGATATTAAAT
1 TATATTTA-TA-TGATAAAT-ATATTAAAT
4621766 TA-ATTTAT-T-ATAAATATATTATAA-
1 TATATTTATATGATAAATATATTA-AAT
*
4621790 TATATTTATATGATAAATAAATTAAAT
1 TATATTTATATGATAAATATATTAAAT
4621817 T
1 T
4621818 GTGACAAGTG
Statistics
Matches: 46, Mismatches: 1, Indels: 13
0.77 0.02 0.22
Matches are distributed among these distances:
24 8 0.17
25 14 0.30
26 4 0.09
27 12 0.26
28 1 0.02
29 5 0.11
30 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.48
Consensus pattern (27 bp):
TATATTTATATGATAAATATATTAAAT
Found at i:4623305 original size:36 final size:36
Alignment explanation
Indices: 4623254--4623335 Score: 128
Period size: 36 Copynumber: 2.3 Consensus size: 36
4623244 TAAATAAAGG
*
4623254 TACTGAATAATTGACTGCTATTAAATAACTGACTGT
1 TACTGAATAACTGACTGCTATTAAATAACTGACTGT
* * *
4623290 TACTGGATAACTGACTGCTATTGAATAATTGACTGT
1 TACTGAATAACTGACTGCTATTAAATAACTGACTGT
4623326 TACTGAATAA
1 TACTGAATAA
4623336 TTTATCGTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (36 bp):
TACTGAATAACTGACTGCTATTAAATAACTGACTGT
Found at i:4623321 original size:54 final size:54
Alignment explanation
Indices: 4623257--4623359 Score: 136
Period size: 54 Copynumber: 1.9 Consensus size: 54
4623247 ATAAAGGTAC
* *
4623257 TGAATAATTGACTGCTATTAAATAACTGA-CTGTTACTGGATAACTGACTGCTAT
1 TGAATAATTGACTGCTACTAAATAACTGATC-GTTACTGAATAACTGACTGCTAT
* * * *
4623311 TGAATAATTGACTGTTACTGAATAATTTATCGTTACTGAATAACTGACT
1 TGAATAATTGACTGCTACTAAATAACTGATCGTTACTGAATAACTGACT
4623360 ATTAAAGAGT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 41 0.98
55 1 0.02
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.37
Consensus pattern (54 bp):
TGAATAATTGACTGCTACTAAATAACTGATCGTTACTGAATAACTGACTGCTAT
Found at i:4623336 original size:18 final size:18
Alignment explanation
Indices: 4623254--4623359 Score: 106
Period size: 18 Copynumber: 5.9 Consensus size: 18
4623244 TAAATAAAGG
* *
4623254 TACTGAATAATTGACTGC
1 TACTGAATAACTGACTGT
* *
4623272 TATTAAATAACTGACTGT
1 TACTGAATAACTGACTGT
* *
4623290 TACTGGATAACTGACTGC
1 TACTGAATAACTGACTGT
* *
4623308 TATTGAATAATTGACTGT
1 TACTGAATAACTGACTGT
* *
4623326 TACTGAATAATTTA-TCGT
1 TACTGAATAACTGACT-GT
4623344 TACTGAATAACTGACT
1 TACTGAATAACTGACT
4623360 ATTAAAGAGT
Statistics
Matches: 70, Mismatches: 16, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
17 1 0.01
18 68 0.97
19 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (18 bp):
TACTGAATAACTGACTGT
Found at i:4629031 original size:36 final size:36
Alignment explanation
Indices: 4628980--4629061 Score: 128
Period size: 36 Copynumber: 2.3 Consensus size: 36
4628970 TAAATAAAGG
*
4628980 TACTGAATAATTGACTGCTATTAAATAACTGACTGT
1 TACTGAATAACTGACTGCTATTAAATAACTGACTGT
* * *
4629016 TACTGGATAACTGACTGCTATTGAATAATTGACTGT
1 TACTGAATAACTGACTGCTATTAAATAACTGACTGT
4629052 TACTGAATAA
1 TACTGAATAA
4629062 TTTATCGTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (36 bp):
TACTGAATAACTGACTGCTATTAAATAACTGACTGT
Found at i:4629047 original size:54 final size:54
Alignment explanation
Indices: 4628983--4629085 Score: 136
Period size: 54 Copynumber: 1.9 Consensus size: 54
4628973 ATAAAGGTAC
* *
4628983 TGAATAATTGACTGCTATTAAATAACTGA-CTGTTACTGGATAACTGACTGCTAT
1 TGAATAATTGACTGCTACTAAATAACTGATC-GTTACTGAATAACTGACTGCTAT
* * * *
4629037 TGAATAATTGACTGTTACTGAATAATTTATCGTTACTGAATAACTGACT
1 TGAATAATTGACTGCTACTAAATAACTGATCGTTACTGAATAACTGACT
4629086 ATTAAAGAGT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 41 0.98
55 1 0.02
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.37
Consensus pattern (54 bp):
TGAATAATTGACTGCTACTAAATAACTGATCGTTACTGAATAACTGACTGCTAT
Found at i:4629062 original size:18 final size:18
Alignment explanation
Indices: 4628980--4629085 Score: 106
Period size: 18 Copynumber: 5.9 Consensus size: 18
4628970 TAAATAAAGG
* *
4628980 TACTGAATAATTGACTGC
1 TACTGAATAACTGACTGT
* *
4628998 TATTAAATAACTGACTGT
1 TACTGAATAACTGACTGT
* *
4629016 TACTGGATAACTGACTGC
1 TACTGAATAACTGACTGT
* *
4629034 TATTGAATAATTGACTGT
1 TACTGAATAACTGACTGT
* *
4629052 TACTGAATAATTTA-TCGT
1 TACTGAATAACTGACT-GT
4629070 TACTGAATAACTGACT
1 TACTGAATAACTGACT
4629086 ATTAAAGAGT
Statistics
Matches: 70, Mismatches: 16, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
17 1 0.01
18 68 0.97
19 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (18 bp):
TACTGAATAACTGACTGT
Found at i:4634292 original size:30 final size:31
Alignment explanation
Indices: 4634254--4634318 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
4634244 AACTTATTTT
4634254 ATTT-TTAATTTTTTT-ATTATTTTAAAGGC
1 ATTTGTTAATTTTTTTAATTATTTTAAAGGC
* *
4634283 ATTTGTTAATTTTTTTAATTATTTTAGAGGT
1 ATTTGTTAATTTTTTTAATTATTTTAAAGGC
4634314 ATTTG
1 ATTTG
4634319 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 4 0.12
30 11 0.34
31 17 0.53
ACGTcount: A:0.26, C:0.02, G:0.11, T:0.62
Consensus pattern (31 bp):
ATTTGTTAATTTTTTTAATTATTTTAAAGGC
Found at i:4644685 original size:21 final size:21
Alignment explanation
Indices: 4644644--4644685 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
4644634 TTTAACAATC
* *
4644644 TAATGATTTAAATAATTTTTT
1 TAATAATTTAAATAATATTTT
4644665 TAATAATTT-AATAACTATTTT
1 TAATAATTTAAATAA-TATTTT
4644686 ATAACTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (21 bp):
TAATAATTTAAATAATATTTT
Found at i:4648029 original size:15 final size:15
Alignment explanation
Indices: 4648009--4648048 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
4647999 GGACTTTATA
4648009 CTCCTTTGCCGATTC
1 CTCCTTTGCCGATTC
4648024 CTCCTTTGCCGATTC
1 CTCCTTTGCCGATTC
*
4648039 CTTCTTTGCC
1 CTCCTTTGCC
4648049 ATGGGTAGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.05, C:0.40, G:0.12, T:0.42
Consensus pattern (15 bp):
CTCCTTTGCCGATTC
Found at i:4649545 original size:26 final size:26
Alignment explanation
Indices: 4649510--4649568 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
4649500 TCTTCTCGAT
*
4649510 TTTCTTCAAGGAGTCATGGGAATTCA
1 TTTCTTCAAGGAGCCATGGGAATTCA
*
4649536 TTTCTTCAAGGAGCCGTGGGAATTCA
1 TTTCTTCAAGGAGCCATGGGAATTCA
4649562 -TTCTTCA
1 TTTCTTCA
4649569 CCCTTCAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 7 0.23
26 24 0.77
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.36
Consensus pattern (26 bp):
TTTCTTCAAGGAGCCATGGGAATTCA
Found at i:4649758 original size:20 final size:20
Alignment explanation
Indices: 4649717--4649760 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
4649707 TCCACTTTAC
* *
4649717 TTTAATCTATATTTTCACTA
1 TTTAATCTATATTTTAAATA
4649737 TTTAAT-TATTATTTTAAATA
1 TTTAATCTA-TATTTTAAATA
4649757 TTTA
1 TTTA
4649761 TCATTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTAATCTATATTTTAAATA
Found at i:4653325 original size:45 final size:45
Alignment explanation
Indices: 4653261--4653354 Score: 170
Period size: 45 Copynumber: 2.1 Consensus size: 45
4653251 CTATATATGT
*
4653261 ATTTACAGAAAACACTTAAGTGATTACTTCATTTGCAGTGGAAAA
1 ATTTACAGAAAACACTTAAGTGATTACTTAATTTGCAGTGGAAAA
*
4653306 ATTTACAGAAAACACTTAAGTGATTACTTAATTTGTAGTGGAAAA
1 ATTTACAGAAAACACTTAAGTGATTACTTAATTTGCAGTGGAAAA
4653351 ATTT
1 ATTT
4653355 TGGAGTTTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (45 bp):
ATTTACAGAAAACACTTAAGTGATTACTTAATTTGCAGTGGAAAA
Found at i:4659417 original size:90 final size:91
Alignment explanation
Indices: 4659158--4659463 Score: 440
Period size: 91 Copynumber: 3.4 Consensus size: 91
4659148 TCAAAATAAT
* * * *
4659158 TGTATT-ATTTCTTTAGAATGTTTGTATTTTTTTTATATCTGTAAATTTAATGTAGTTGCTTAGG
1 TGTATTAATTTC-TTAGAATATTTGTATTTTTTTTATATCTATAAATTTAATATAGTTGTTTAGG
4659222 ATTTAAGGTATT-ATTTTTATATTTTCG
65 ATTTAAGGT-TTCATTTTTATATTTTCG
* *
4659249 TGTATTAATTTCTTAGAATGTTTGTATTTTTTTTATATCTATAAATTTAATATAGTTGTTTACGA
1 TGTATTAATTTCTTAGAATATTTGTATTTTTTTTATATCTATAAATTTAATATAGTTGTTTAGGA
* *
4659314 TGTAAGGTATCATTTTTTATATTTTCG
66 TTTAAGGTTTCA-TTTTTATATTTTCG
* * * *
4659341 TGTATTAATTTCTTAGAATATTT-TA-TTTTATTATACCTATAAATTTAATACAATTGTTTAGGA
1 TGTATTAATTTCTTAGAATATTTGTATTTTTTTTATATCTATAAATTTAATATAGTTGTTTAGGA
4659404 TTTAAGGTTTCATTTTTATATTTTCG
66 TTTAAGGTTTCATTTTTATATTTTCG
*
4659430 TGTATTAATTTATTAGAATATTTGTATTTTTTTT
1 TGTATTAATTTCTTAGAATATTTGTATTTTTTTT
4659464 GTATATGTGA
Statistics
Matches: 194, Mismatches: 16, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
89 36 0.19
90 46 0.24
91 71 0.37
92 41 0.21
ACGTcount: A:0.27, C:0.05, G:0.11, T:0.57
Consensus pattern (91 bp):
TGTATTAATTTCTTAGAATATTTGTATTTTTTTTATATCTATAAATTTAATATAGTTGTTTAGGA
TTTAAGGTTTCATTTTTATATTTTCG
Found at i:4660001 original size:25 final size:25
Alignment explanation
Indices: 4659967--4660017 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
4659957 GAGTTAATGG
4659967 GTATTGCATGATCAAAGGTGCCGAT
1 GTATTGCATGATCAAAGGTGCCGAT
4659992 GTATTGCATGATCAAAGGTGCCGAT
1 GTATTGCATGATCAAAGGTGCCGAT
4660017 G
1 G
4660018 GAAAAATATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.27
Consensus pattern (25 bp):
GTATTGCATGATCAAAGGTGCCGAT
Found at i:4663944 original size:31 final size:30
Alignment explanation
Indices: 4663909--4663966 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
4663899 CTAACTCAAA
4663909 CTTTGGAAAAATTACAATTTTACCCTTAAAC
1 CTTT-GAAAAATTACAATTTTACCCTTAAAC
* * * *
4663940 CTTTGTAGAATTACGATTTTTCCCTTA
1 CTTTGAAAAATTACAATTTTACCCTTA
4663967 GGCTCGGAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 19 0.83
31 4 0.17
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.41
Consensus pattern (30 bp):
CTTTGAAAAATTACAATTTTACCCTTAAAC
Found at i:4665007 original size:11 final size:11
Alignment explanation
Indices: 4664990--4665085 Score: 60
Period size: 11 Copynumber: 9.0 Consensus size: 11
4664980 CTTTTTTTTT
4664990 CATTTCATTTA
1 CATTTCATTTA
* *
4665001 TATTTCATTTG
1 CATTTCATTTA
4665012 CATTTCATTT-
1 CATTTCATTTA
*
4665022 C--TTCCTATT-
1 CATTTCAT-TTA
4665031 CATTTCATTTA
1 CATTTCATTTA
* * *
4665042 TATTT-TTGTTT
1 CATTTCAT-TTA
4665053 CATTTCATTT-
1 CATTTCATTTA
*
4665063 CATTTACATTTC
1 CATTT-CATTTA
4665075 CATTTCATTTA
1 CATTTCATTTA
4665086 AATTATTTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
8 4 0.06
9 3 0.05
10 9 0.14
11 44 0.67
12 6 0.09
ACGTcount: A:0.21, C:0.18, G:0.02, T:0.59
Consensus pattern (11 bp):
CATTTCATTTA
Found at i:4665015 original size:6 final size:5
Alignment explanation
Indices: 4664987--4665084 Score: 74
Period size: 5 Copynumber: 18.6 Consensus size: 5
4664977 TCTCTTTTTT
* *
4664987 TTTCA TTTCA TTTATA TTTCA TTTGCA TTTCA TTTC- -TTCC TATTCA
1 TTTCA TTTCA TTT-CA TTTCA TTT-CA TTTCA TTTCA TTTCA T-TTCA
* **
4665033 TTTCA TTTATA TTTTTG TTTCA TTTCA TTTCA TTTACA TTTCCA TTTCA
1 TTTCA TTT-CA -TTTCA TTTCA TTTCA TTTCA TTT-CA TTT-CA TTTCA
4665082 TTT
1 TTT
4665085 AAATTATTTT
Statistics
Matches: 77, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
3 3 0.04
5 46 0.60
6 25 0.32
7 3 0.04
ACGTcount: A:0.19, C:0.17, G:0.02, T:0.61
Consensus pattern (5 bp):
TTTCA
Found at i:4665018 original size:22 final size:21
Alignment explanation
Indices: 4664987--4665084 Score: 88
Period size: 22 Copynumber: 4.4 Consensus size: 21
4664977 TCTCTTTTTT
4664987 TTTCATTTCATTTATATTTCA
1 TTTCATTTCATTTATATTTCA
* *
4665008 TTTGCATTTCATTTCTTCCTATTCA
1 TTT-CATTTCATTT-AT-AT-TTCA
* * *
4665033 TTTCATTTATATTTTTGTTTCA
1 TTTCATTT-CATTTATATTTCA
*
4665055 TTTCATTTCATTTACATTTCCA
1 TTTCATTTCATTTATATTT-CA
4665077 TTTCATTT
1 TTTCATTT
4665085 AAATTATTTT
Statistics
Matches: 63, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
21 10 0.16
22 32 0.51
23 2 0.03
24 8 0.13
25 11 0.17
ACGTcount: A:0.19, C:0.17, G:0.02, T:0.61
Consensus pattern (21 bp):
TTTCATTTCATTTATATTTCA
Found at i:4665080 original size:17 final size:16
Alignment explanation
Indices: 4664987--4665085 Score: 63
Period size: 16 Copynumber: 6.6 Consensus size: 16
4664977 TCTCTTTTTT
*
4664987 TTTCATTT-CATTTATA
1 TTTCATTTACATTT-CA
*
4665003 TTTCATTTGCATTTCA
1 TTTCATTTACATTTCA
*
4665019 TTTC--TT-CCTATTCA
1 TTTCATTTACAT-TTCA
*
4665033 TTTCATTTATA-TT--
1 TTTCATTTACATTTCA
*
4665046 TTT-GTTT-CATTTCA
1 TTTCATTTACATTTCA
4665060 TTTCATTTACATTTCCA
1 TTTCATTTACATTT-CA
4665077 TTTCATTTA
1 TTTCATTTA
4665086 AATTATTTTT
Statistics
Matches: 65, Mismatches: 7, Indels: 21
0.70 0.08 0.23
Matches are distributed among these distances:
11 1 0.02
12 5 0.08
13 5 0.08
14 13 0.20
15 5 0.08
16 20 0.31
17 16 0.25
ACGTcount: A:0.20, C:0.17, G:0.02, T:0.61
Consensus pattern (16 bp):
TTTCATTTACATTTCA
Found at i:4665080 original size:27 final size:27
Alignment explanation
Indices: 4665029--4665084 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
4665019 TTTCTTCCTA
* ***
4665029 TTCATTTCATTTATATTTTTGTTTCAT
1 TTCATTTCATTTACATTTCCATTTCAT
4665056 TTCATTTCATTTACATTTCCATTTCAT
1 TTCATTTCATTTACATTTCCATTTCAT
4665083 TT
1 TT
4665085 AAATTATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.20, C:0.16, G:0.02, T:0.62
Consensus pattern (27 bp):
TTCATTTCATTTACATTTCCATTTCAT
Found at i:4665221 original size:5 final size:5
Alignment explanation
Indices: 4665211--4665288 Score: 57
Period size: 5 Copynumber: 14.0 Consensus size: 5
4665201 TTCATAATCA
* * *
4665211 TCATT TCATT TTATAT TCATT TAACATT TCATT TGATT TAATT TCATAT
1 TCATT TCATT TCAT-T TCATT T--CATT TCATT TCATT TCATT TCAT-T
4665260 TCATATT TCATT TAACATT TCATT TCATT
1 TC--ATT TCATT T--CATT TCATT TCATT
4665289 ATTTTTTTTC
Statistics
Matches: 60, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
5 38 0.63
6 7 0.12
7 13 0.22
8 2 0.03
ACGTcount: A:0.28, C:0.14, G:0.01, T:0.56
Consensus pattern (5 bp):
TCATT
Found at i:4665239 original size:23 final size:22
Alignment explanation
Indices: 4665212--4665284 Score: 75
Period size: 23 Copynumber: 3.5 Consensus size: 22
4665202 TCATAATCAT
4665212 CATTTCATTTTATATTCATTTAA
1 CATTTCATTTTAT-TTCATTTAA
* *
4665235 CATTTCATTTGATTTAATTT--
1 CATTTCATTTTATTTCATTTAA
4665255 CATATTCA---TATTTCATTTAA
1 CAT-TTCATTTTATTTCATTTAA
4665275 CATTTCATTT
1 CATTTCATTT
4665285 CATTATTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 13
0.70 0.07 0.23
Matches are distributed among these distances:
18 8 0.20
19 4 0.10
20 6 0.15
21 4 0.10
22 6 0.15
23 12 0.30
ACGTcount: A:0.29, C:0.14, G:0.01, T:0.56
Consensus pattern (22 bp):
CATTTCATTTTATTTCATTTAA
Found at i:4665244 original size:28 final size:28
Alignment explanation
Indices: 4665211--4665287 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 28
4665201 TTCATAATCA
*
4665211 TCATTTCATTTTATATTCAT-TTAACATT
1 TCATTTCATTTAAT-TTCATATTAACATT
* * *
4665239 TCATTTGATTTAATTTCATATTCATATT
1 TCATTTCATTTAATTTCATATTAACATT
*
4665267 TCATTTAACATTTCATTTCAT
1 TCATTT--CATTTAATTTCAT
4665288 TATTTTTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
27 5 0.12
28 24 0.60
30 11 0.28
ACGTcount: A:0.29, C:0.14, G:0.01, T:0.56
Consensus pattern (28 bp):
TCATTTCATTTAATTTCATATTAACATT
Found at i:4665269 original size:13 final size:12
Alignment explanation
Indices: 4665208--4665292 Score: 55
Period size: 12 Copynumber: 6.7 Consensus size: 12
4665198 CATTTCATAA
4665208 TCATCATTTCATT
1 TCAT-ATTTCATT
*
4665221 TTATA-TTCATT
1 TCATATTTCATT
* *
4665232 TAACATTTCATT
1 TCATATTTCATT
*
4665244 TGATTTAATTTCATAT
1 TCA--T-ATTTCAT-T
4665260 TCATATTTCATT
1 TCATATTTCATT
* *
4665272 TAACATTTCATT
1 TCATATTTCATT
4665284 TCATTATTT
1 TCA-TATTT
4665293 TTTTTCATTT
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
11 9 0.16
12 22 0.39
13 14 0.25
14 1 0.02
15 7 0.12
16 3 0.05
ACGTcount: A:0.28, C:0.14, G:0.01, T:0.56
Consensus pattern (12 bp):
TCATATTTCATT
Found at i:4665287 original size:30 final size:28
Alignment explanation
Indices: 4665236--4665312 Score: 77
Period size: 30 Copynumber: 2.7 Consensus size: 28
4665226 TTCATTTAAC
*
4665236 ATTTCATTT-GATTTAATTTCA-TATTCAT
1 ATTTCATTTAAATTT-ATTTCATTATT-AT
*
4665264 ATTTCATTTAACATTTCATTTCATTATTTT
1 ATTTCATTTAA-ATTT-ATTTCATTATTAT
*
4665294 TTTTCATTTAAATTTATTT
1 ATTTCATTTAAATTTATTT
4665313 TTTTCCTAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
28 13 0.31
29 4 0.10
30 21 0.50
31 4 0.10
ACGTcount: A:0.27, C:0.10, G:0.01, T:0.61
Consensus pattern (28 bp):
ATTTCATTTAAATTTATTTCATTATTAT
Found at i:4665385 original size:20 final size:19
Alignment explanation
Indices: 4665360--4665416 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
4665350 GTTGTCTCAT
4665360 TTCAATTTATCTTTTTTCAA
1 TTCAATTTAT-TTTTTTCAA
*
4665380 TTCAATTT-TTATTTTCAA
1 TTCAATTTATTTTTTTCAA
4665398 TTC-ATTTCATATTTTTTCA
1 TTCAATTT-AT-TTTTTTCA
4665417 TATTAACTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
17 4 0.12
18 11 0.34
19 2 0.06
20 15 0.47
ACGTcount: A:0.25, C:0.14, G:0.00, T:0.61
Consensus pattern (19 bp):
TTCAATTTATTTTTTTCAA
Found at i:4665410 original size:18 final size:18
Alignment explanation
Indices: 4665373--4665412 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
4665363 AATTTATCTT
*
4665373 TTTTCAATTCAATTTTTA
1 TTTTCAATTCAATTTATA
4665391 TTTTCAATTC-ATTTCATA
1 TTTTCAATTCAATTT-ATA
4665409 TTTT
1 TTTT
4665413 TTCATATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTCAATTCAATTTATA
Found at i:4665844 original size:6 final size:5
Alignment explanation
Indices: 4665798--4665907 Score: 85
Period size: 5 Copynumber: 20.2 Consensus size: 5
4665788 TTCTTCTTTT
* * *
4665798 TTTCA TTTCA TTTCTA TTTCAA TTCCA TTTAA TTTGAA TTTCTA TTTCA
1 TTTCA TTTCA TTTC-A TTTC-A TTTCA TTTCA TTT-CA TTTC-A TTTCA
* * *
4665847 TTTAA TTTGAA TTTCTA TTTCA TTTCA TTTGAA TTTCCA TTTCA TTTCA
1 TTTCA TTT-CA TTTC-A TTTCA TTTCA TTT-CA TTT-CA TTTCA TTTCA
4665896 TTTCCA TTTCA T
1 TTT-CA TTTCA T
4665908 CTAAATTATA
Statistics
Matches: 88, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
5 46 0.52
6 42 0.48
ACGTcount: A:0.24, C:0.16, G:0.03, T:0.57
Consensus pattern (5 bp):
TTTCA
Found at i:4665905 original size:22 final size:22
Alignment explanation
Indices: 4665798--4665898 Score: 139
Period size: 22 Copynumber: 4.6 Consensus size: 22
4665788 TTCTTCTTTT
** *
4665798 TTTCATTTCATTTCTATTTCAA
1 TTTCATTTCATTTGAATTTCTA
* *
4665820 TTCCATTTAATTTGAATTTCTA
1 TTTCATTTCATTTGAATTTCTA
*
4665842 TTTCATTTAATTTGAATTTCTA
1 TTTCATTTCATTTGAATTTCTA
*
4665864 TTTCATTTCATTTGAATTTCCA
1 TTTCATTTCATTTGAATTTCTA
4665886 TTTCATTTCATTT
1 TTTCATTTCATTT
4665899 CCATTTCATC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 71 1.00
ACGTcount: A:0.24, C:0.15, G:0.03, T:0.58
Consensus pattern (22 bp):
TTTCATTTCATTTGAATTTCTA
Done.