Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold626.1
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: 870320
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 22299 characters in sequence are not A, C, G, or T
File 1 of 4
Found at i:19358 original size:17 final size:17
Alignment explanation
Indices: 19336--19425 Score: 83
Period size: 19 Copynumber: 5.0 Consensus size: 17
19326 ACACAATAAT
19336 AATTTTTGAAAACACGA
1 AATTTTTGAAAACACGA
19353 AATTTTTTTGAAAACACGGA
1 AA--TTTTTGAAAACAC-GA
*
19373 ATTTTTTGAAAACACGA
1 AATTTTTGAAAACACGA
* *
19390 AA-ATTTGTCAAACACGGGA
1 AATTTTTG-AAAACAC--GA
*
19409 ATTTTTTGAAAACACGA
1 AATTTTTGAAAACACGA
19426 TTACATCAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
16 4 0.07
17 13 0.22
18 13 0.22
19 22 0.37
20 7 0.12
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.31
Consensus pattern (17 bp):
AATTTTTGAAAACACGA
Found at i:19376 original size:36 final size:36
Alignment explanation
Indices: 19338--19425 Score: 124
Period size: 36 Copynumber: 2.4 Consensus size: 36
19328 ACAATAATAA
* *
19338 TTTTTGAAAACACGAAATTTTTTTGAAAACAC-GGAAT
1 TTTTTGAAAACACGAAA-ATTTGT-AAAACACGGGAAT
*
19375 TTTTTGAAAACACGAAAATTTGTCAAACACGGGAAT
1 TTTTTGAAAACACGAAAATTTGTAAAACACGGGAAT
19411 TTTTTGAAAACACGA
1 TTTTTGAAAACACGA
19426 TTACATCAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
35 6 0.13
36 24 0.51
37 17 0.36
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (36 bp):
TTTTTGAAAACACGAAAATTTGTAAAACACGGGAAT
Found at i:19377 original size:18 final size:18
Alignment explanation
Indices: 19338--19425 Score: 106
Period size: 18 Copynumber: 4.8 Consensus size: 18
19328 ACAATAATAA
19338 TTTTTGAAAACACGAAATT
1 TTTTTGAAAACACGAAA-T
*
19357 TTTTTGAAAACACGGAAT
1 TTTTTGAAAACACGAAAT
*
19375 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAT
* * *
19393 TTTGT-CAAACACGGGAAT
1 TTTTTGAAAACAC-GAAAT
19411 TTTTTGAAAACACGA
1 TTTTTGAAAACACGA
19426 TTACATCAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
17 6 0.11
18 29 0.51
19 22 0.39
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAT
Found at i:19484 original size:17 final size:17
Alignment explanation
Indices: 19456--19514 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
19446 ACGAGAATTT
19456 TTTTTTGAAAACACGAAA
1 TTTTTT-AAAACACGAAA
* *
19474 TTTTTTCAAACACGGGAA
1 TTTTTTAAAACAC-GAAA
*
19492 -TTTTGAAAACACGAAAA
1 TTTTTTAAAACACG-AAA
19509 TTTTTT
1 TTTTTT
19515 TATTCACGAC
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
16 1 0.03
17 18 0.56
18 13 0.41
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (17 bp):
TTTTTTAAAACACGAAA
Found at i:19647 original size:18 final size:17
Alignment explanation
Indices: 19606--19654 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 17
19596 TATTATTATT
19606 ATTTTGAAACACGAGAA
1 ATTTTGAAACACGAGAA
*
19623 ATTTTGAAGACATGA-AA
1 ATTTTGAA-ACACGAGAA
19640 ATTTTTGAAACACGA
1 A-TTTTGAAACACGA
19655 TTTTTTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 16 0.57
18 12 0.43
ACGTcount: A:0.45, C:0.10, G:0.16, T:0.29
Consensus pattern (17 bp):
ATTTTGAAACACGAGAA
Found at i:20205 original size:43 final size:42
Alignment explanation
Indices: 20158--20240 Score: 105
Period size: 43 Copynumber: 2.0 Consensus size: 42
20148 TGCCAGGAAG
* * *
20158 TGGGCCGAATCTGCTGGCCTGCTGGGCACT-GGTCTGCTGCTAT
1 TGGGCCGAAGCTGCTGGACTGCT--GCACTGGGCCTGCTGCTAT
*
20201 TGGGCTGAAGCTGCTGGACTGCTGCACTGGGCCTGCTGCT
1 TGGGCCGAAGCTGCTGGACTGCTGCACTGGGCCTGCTGCT
20241 GGACTGCTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 5 0.14
42 10 0.29
43 20 0.57
ACGTcount: A:0.10, C:0.28, G:0.36, T:0.27
Consensus pattern (42 bp):
TGGGCCGAAGCTGCTGGACTGCTGCACTGGGCCTGCTGCTAT
Found at i:20274 original size:23 final size:24
Alignment explanation
Indices: 20244--20310 Score: 86
Period size: 23 Copynumber: 2.8 Consensus size: 24
20234 TGCTGCTGGA
20244 CTGCTTCTTTCTTCTTCTTTTT-T-
1 CTGCTTCTTTCTTCTT-TTTTTCTG
20267 CTGCTTCTTTCTTTCTTTTTTTCTG
1 CTGCTTCTTTC-TTCTTTTTTTCTG
*
20292 CTGCTTCTTT-TTCTATTTT
1 CTGCTTCTTTCTTCTTTTTT
20311 GTTTTTTTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
23 24 0.60
24 6 0.15
25 10 0.25
ACGTcount: A:0.01, C:0.24, G:0.06, T:0.69
Consensus pattern (24 bp):
CTGCTTCTTTCTTCTTTTTTTCTG
Found at i:20310 original size:22 final size:22
Alignment explanation
Indices: 20244--20310 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
20234 TGCTGCTGGA
* *
20244 CTGCTTCTTTCTTCTTCTTTTTT
1 CTGCTGCTTTCTTTTTC-TTTTT
*
20267 CTGCTTCTTTCTTTCTT-TTTTT
1 CTGCTGCTTTCTTT-TTCTTTTT
20289 CTGCTGC-TTCTTTTTCTATTTT
1 CTGCTGCTTTCTTTTTCT-TTTT
20311 GTTTTTTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
20 2 0.05
21 7 0.18
22 15 0.38
23 13 0.33
24 2 0.05
ACGTcount: A:0.01, C:0.24, G:0.06, T:0.69
Consensus pattern (22 bp):
CTGCTGCTTTCTTTTTCTTTTT
Found at i:20439 original size:22 final size:21
Alignment explanation
Indices: 20396--20471 Score: 72
Period size: 20 Copynumber: 3.8 Consensus size: 21
20386 CGATATATTA
* *
20396 TTTTTTATT-TTTCTTTCCGT
1 TTTTTTCTTCTTTCTTTCTGT
20416 TTTTTTCTTCTTTCTTCTCTG-
1 TTTTTTCTTCTTTCTT-TCTGT
*
20437 TTTCTTCTTTCTTTC-TTCT-T
1 TTTTTTC-TTCTTTCTTTCTGT
20457 TTTTTT-TTCTTTCTT
1 TTTTTTCTTCTTTCTT
20472 CTCCGTTCAG
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
18 7 0.15
19 1 0.02
20 16 0.34
21 13 0.28
22 10 0.21
ACGTcount: A:0.01, C:0.20, G:0.03, T:0.76
Consensus pattern (21 bp):
TTTTTTCTTCTTTCTTTCTGT
Found at i:20465 original size:18 final size:19
Alignment explanation
Indices: 20397--20473 Score: 72
Period size: 18 Copynumber: 4.1 Consensus size: 19
20387 GATATATTAT
20397 TTTTTATTTTTCTTTC--C
1 TTTTTATTTTTCTTTCTTC
*
20414 GTTTTT-TTCTTCTTTCTTC
1 -TTTTTATTTTTCTTTCTTC
*
20433 TCTGTTTCTTCTTTCTTTCTTC
1 T-T-TTTATT-TTTCTTTCTTC
20455 TTTTT-TTTTTCTTTCTTC
1 TTTTTATTTTTCTTTCTTC
20473 T
1 T
20474 CCGTTCAGCC
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
17 9 0.18
18 18 0.35
19 4 0.08
20 6 0.12
21 3 0.06
22 11 0.22
ACGTcount: A:0.01, C:0.21, G:0.03, T:0.75
Consensus pattern (19 bp):
TTTTTATTTTTCTTTCTTC
Found at i:20589 original size:19 final size:20
Alignment explanation
Indices: 20558--20622 Score: 80
Period size: 20 Copynumber: 3.1 Consensus size: 20
20548 CTCTTCTCTC
20558 TTTCTTCTTTGCTTGTTTTT
1 TTTCTTCTTTGCTTGTTTTT
20578 TTTCTT-TTTGCTTGTTGTTT
1 TTTCTTCTTTGCTTGTT-TTT
20598 TTT-TTCTTTGACTTTGCTTTTT
1 TTTCTTCTTTG-C-TTG-TTTTT
20620 TTT
1 TTT
20623 TATTGGCTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
19 12 0.30
20 16 0.40
21 1 0.03
22 9 0.22
23 2 0.05
ACGTcount: A:0.02, C:0.12, G:0.11, T:0.75
Consensus pattern (20 bp):
TTTCTTCTTTGCTTGTTTTT
Found at i:20620 original size:22 final size:23
Alignment explanation
Indices: 20564--20623 Score: 74
Period size: 22 Copynumber: 2.7 Consensus size: 23
20554 TCTCTTTCTT
20564 CTTTGCTTGTTTTTTTTCTTTTTG
1 CTTTGCTTGTTTTTTTTC-TTTTG
20588 C-TTG-TTGTTTTTTTTC-TTTG
1 CTTTGCTTGTTTTTTTTCTTTTG
20608 ACTTTGCTT-TTTTTTT
1 -CTTTGCTTGTTTTTTT
20624 ATTGGCTTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
20 4 0.12
21 1 0.03
22 22 0.67
23 5 0.15
24 1 0.03
ACGTcount: A:0.02, C:0.12, G:0.12, T:0.75
Consensus pattern (23 bp):
CTTTGCTTGTTTTTTTTCTTTTG
Found at i:20632 original size:20 final size:19
Alignment explanation
Indices: 20595--20636 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
20585 TTGCTTGTTG
20595 TTTTTTTTCTTTGACTTTGC
1 TTTTTTTTCTTTGACTTT-C
*
20615 TTTTTTTT-TATTGGCTTTC
1 TTTTTTTTCT-TTGACTTTC
20634 TTT
1 TTT
20637 GTCTTTGGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.05, C:0.12, G:0.10, T:0.74
Consensus pattern (19 bp):
TTTTTTTTCTTTGACTTTC
Found at i:20742 original size:10 final size:11
Alignment explanation
Indices: 20716--20741 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
20706 TTGCTGCTGT
20716 TTTTTGCTTGA
1 TTTTTGCTTGA
20727 TTTTTGCTTGA
1 TTTTTGCTTGA
20738 TTTT
1 TTTT
20742 GTTGTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.15, T:0.69
Consensus pattern (11 bp):
TTTTTGCTTGA
Found at i:21046 original size:30 final size:29
Alignment explanation
Indices: 21012--21084 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 29
21002 GTAATTTCTT
*
21012 GAAAGTTTAGGGGTTGAAGTAAAATTTTGA
1 GAAAGTTTAGGGGTTGAAATAAAATTTT-A
** **
21042 GAAAGTTTAAAGGTTGAAATGTAATTTTA
1 GAAAGTTTAGGGGTTGAAATAAAATTTTA
21071 GAAAAGTTT-GGGGT
1 G-AAAGTTTAGGGGT
21085 CAAAAATGTA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
29 5 0.14
30 30 0.86
ACGTcount: A:0.37, C:0.00, G:0.29, T:0.34
Consensus pattern (29 bp):
GAAAGTTTAGGGGTTGAAATAAAATTTTA
Found at i:21115 original size:31 final size:30
Alignment explanation
Indices: 21058--21155 Score: 128
Period size: 30 Copynumber: 3.3 Consensus size: 30
21048 TTAAAGGTTG
* *
21058 AAATGT-AATTTTAGAAAAGT-TTGGGGTCAA
1 AAATGTAAATTTCA-AAAAGTATAGGGGTC-A
21088 AAATGTAAATTTCAAAAAGTATAGGGGTCA
1 AAATGTAAATTTCAAAAAGTATAGGGGTCA
* *
21118 AAATGTAAATTTCAAAAAGTATATGGGTGA
1 AAATGTAAATTTCAAAAAGTATAGGGGTCA
21148 AAATGTAA
1 AAATGTAA
21156 TTTTTTTAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
30 49 0.79
31 13 0.21
ACGTcount: A:0.46, C:0.04, G:0.20, T:0.30
Consensus pattern (30 bp):
AAATGTAAATTTCAAAAAGTATAGGGGTCA
Found at i:21583 original size:151 final size:147
Alignment explanation
Indices: 21309--22158 Score: 935
Period size: 151 Copynumber: 5.6 Consensus size: 147
21299 TTTTTACTTG
* * * * *
21309 AAAAACAGAAATTGAAAATACCTCGGCGGGTGGCCCGAGGCTCAACTCACCTCTAGCAATATGAG
1 AAAAACATAAATTAAAAATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCT-GTAATATGAG
* **
21374 TTGATTTTTGAAAAACAGAAATTTAAAAGAAATACATCGGCATGGTCCGAGGCTCAACTCACCTC
63 TTGATTTTTGAAAAACAGAAA-TTAAAA-AAATACATCAGCATGACCCGAGGCTCAACTCACCTC
21439 TGTATTATGAGTTGATTTAAAA
126 TGTATTATGAGTTGATTTAAAA
*
21461 AAAAGACATAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGT
1 AAAA-ACATAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCT-GTAATATGAGT
* **
21526 TGATTTTTGAAAAACAGAAATTTAAAAGAAATACATCGGCATGGTCCGAGGCTCAACTCACCTCT
64 TGATTTTTGAAAAACAGAAA-TTAAAA-AAATACATCAGCATGACCCGAGGCTCAACTCACCTCT
21591 GTATTATGAGTTGATTTAAAA
127 GTATTATGAGTTGATTTAAAA
*
21612 AAAAGACATAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTT
1 AAAA-ACATAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTAATATGAGTT
** * * * *
21677 GATTTTAAAAAAAAAGAGAAATT--AAAAATACCTCAGCGTGACCCGAGGCTCAACTTACCTCTG
65 GATTTT--TGAAAAACAGAAATTAAAAAAATACATCAGCATGACCCGAGGCTCAACTCACCTCTG
*
21740 TATTGTGAGTTGATTTTTTTTAAAA
128 TATTATGAGTTGA-----TTTAAAA
* * * *
21765 AAAGACATAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTTACCTCTGTATTGTGAGTTG
1 AAAAACATAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTAATATGAGTTG
* * * * * *
21830 ATTTTTTTTAAAAAAAGACATAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCT
66 A--TTTTTGAAAAACAGAAATTAA--AAAAATACATCAGCATGACCCGAGGCTCAACTCACCTCT
***
21895 CGTATTATGAGTTGATTTTTGA
127 -GTATTATGAGTTGATTTAAAA
* * *
21917 AAAAACAGAAATTAAAAAATACCTCAGCGTGACCCGAGGTTCAACTCACCTCTCGTACTATGAGT
1 AAAAACATAAATT-AAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCT-GTAATATGAGT
* *
21982 TGATTTTTGTAAAACAACAGAAATT--AAAAATAC--C-TCA-GACCCGAGGCTCAACTTACCTC
64 TGATTTTTG--AAA-AACAGAAATTAAAAAAATACATCAGCATGACCCGAGGCTCAACTCACCTC
* **
22041 TCATATTATGAGTTGAGTTT-TGA
126 T-GTATTATGAGTTGA-TTTAAAA
* * *
22064 AAAAACAAAAATTAAAAAATACCTCAGCGTGACCCGAGGCGCAACTCACCTCTCGTACTATGAGT
1 AAAAACATAAATT-AAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCT-GTAATATGAGT
22129 TGATTTTTGAAAAACAACAGAAATTAAAAA
64 TGATTTTTG--AAA-AACAGAAATTAAAAA
22159 TACCTCAGTG
Statistics
Matches: 628, Mismatches: 47, Indels: 49
0.87 0.06 0.07
Matches are distributed among these distances:
147 125 0.20
148 48 0.08
149 6 0.01
150 16 0.03
151 185 0.29
152 104 0.17
153 67 0.11
154 19 0.03
155 7 0.01
156 38 0.06
157 13 0.02
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.27
Consensus pattern (147 bp):
AAAAACATAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTAATATGAGTTG
ATTTTTGAAAAACAGAAATTAAAAAAATACATCAGCATGACCCGAGGCTCAACTCACCTCTGTAT
TATGAGTTGATTTAAAA
Found at i:21805 original size:78 final size:76
Alignment explanation
Indices: 21309--22180 Score: 944
Period size: 74 Copynumber: 11.5 Consensus size: 76
21299 TTTTTACTTG
* * * * * * *
21309 AAAA-ACAGAAATTGAAAATACCTCGGCGGGTGGCCCGAGGCTCAACTCACCTCTAGCAATATGA
1 AAAAGACATAAATTAAAAATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGTATTATGA
21373 GTTGATTTTTGAAA
64 GTTGATTTTT-AAA
* * * * * * **
21387 AACAGAAATTTAAA--AGAAATACATCGGCATGGTCCGAGGCTCAACTCACCTCT-GTATTATGA
1 AAAAGACA--TAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGA
*
21449 GTTGA-TTTAAAA
64 GTTGATTTTTAAA
* * *
21461 AAAAGACATAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGT
1 AAAAGACATAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGT
21526 TGATTTTTGAAA
66 TGATTTTT-AAA
* * * * * * **
21538 AACAGAAATTTAAA--AGAAATACATCGGCATGGTCCGAGGCTCAACTCACCTCT-GTATTATGA
1 AAAAGACA--TAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGA
*
21600 GTTGA-TTTAAAA
64 GTTGATTTTTAAA
21612 AAAAGACATAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCT-GTATTATGAGT
1 AAAAGACATAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGT
21676 TGA-TTTTAAA
66 TGATTTTTAAA
* * * * *
21686 AAAAAAGAGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTTACCTCT-GTATTGTGAGT
1 AAAAGACATAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGT
21750 TGATTTTTTTTAAA
66 TGA---TTTTTAAA
* *
21764 AAAAGACATAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTTACCTCT-GTATTGTGAGT
1 AAAAGACATAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGT
21828 TGATTTTTTTTAAA
66 TGA---TTTTTAAA
21842 AAAAGACATAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGT
1 AAAAGACATAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGT
*
21907 TGATTTTT-GA
66 TGATTTTTAAA
* * *
21917 AAAA-ACAGAAATTAAAAAATACCTCAGCGTGACCCGAGGTTCAACTCACCTCTCGTACTATGAG
1 AAAAGACATAAATT-AAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAG
*
21981 TTGATTTTTGTAA
65 TTGATTTTT-AAA
* * * *
21994 AACA-ACAGAAATTAAAAATACCTCA----GACCCGAGGCTCAACTTACCTCTCATATTATGAGT
1 AAAAGACATAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGT
* *
22054 TGAGTTTT-GA
66 TGATTTTTAAA
* * *
22064 AAAA-ACAAAAATTAAAAAATACCTCAGCGTGACCCGAGGCGCAACTCACCTCTCGTACTATGAG
1 AAAAGACATAAATT-AAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAG
22128 TTGATTTTTGAAA
65 TTGATTTTT-AAA
* * * *
22141 AACA-ACAGAAATTAAAAATACCTCAGTGTGTCCCGAGGCT
1 AAAAGACATAAATTAAAAATACCTCAGCGTGACCCGAGGCT
22181 AGAGGTGTGC
Statistics
Matches: 690, Mismatches: 77, Indels: 56
0.84 0.09 0.07
Matches are distributed among these distances:
70 12 0.02
71 12 0.02
72 46 0.07
74 174 0.25
75 118 0.17
76 68 0.10
77 90 0.13
78 137 0.20
79 30 0.04
81 3 0.00
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.27
Consensus pattern (76 bp):
AAAAGACATAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGT
TGATTTTTAAA
Found at i:24480 original size:16 final size:16
Alignment explanation
Indices: 24459--24495 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
24449 GAACTCTTTA
*
24459 ATTAACTTGCTGTTAT
1 ATTAACTTACTGTTAT
24475 ATTAACTTACTGTTAT
1 ATTAACTTACTGTTAT
24491 ATTAA
1 ATTAA
24496 TTTGTTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.49
Consensus pattern (16 bp):
ATTAACTTACTGTTAT
Found at i:24503 original size:13 final size:15
Alignment explanation
Indices: 24459--24504 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
24449 GAACTCTTTA
*
24459 ATTAACTTGCTGTTAT
1 ATTAACTT-ATGTTAT
24475 ATTAACTTACTGTTAT
1 ATTAACTTA-TGTTAT
24491 ATTAA-TT-TGTTAT
1 ATTAACTTATGTTAT
24504 A
1 A
24505 AATATATAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 7 0.25
15 2 0.07
16 19 0.68
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.52
Consensus pattern (15 bp):
ATTAACTTATGTTAT
Found at i:27012 original size:82 final size:79
Alignment explanation
Indices: 26749--27131 Score: 608
Period size: 82 Copynumber: 4.8 Consensus size: 79
26739 GCCCATGAAC
*
26749 ACCTCTAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA-TTTTTAAAAAAAAAAT
1 ACCTC-AGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTAAAAAAAAAAG
*
26813 ACATGAATTAAAAAT
65 ACATAAATTAAAAAT
*
26828 ACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA-TTTTTAAAAAAAAAATA
1 ACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTAAAAAAAAAAGA
*
26892 CATGAATTAAAAAT
66 CATAAATTAAAAAT
*
26906 ACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATCTTTTTTTTAAAAAAAA
1 ACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA---TTTTTTAAAAAAAAA
26971 AGACATAAATTAAAAAT
63 AGACATAAATTAAAAAT
*
26988 ACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATCTTTTTTTTAAAAAAAA
1 ACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA---TTTTTTAAAAAAAAA
27053 AGACATAAATTAAAAAT
63 AGACATAAATTAAAAAT
* *
27070 ACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATATTTGAAAAAAAA
1 ACCTCAGCGTGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTTAAAAAAAA
27132 CAAAAAGTGA
Statistics
Matches: 293, Mismatches: 6, Indels: 9
0.95 0.02 0.03
Matches are distributed among these distances:
78 120 0.41
79 5 0.02
80 11 0.04
82 143 0.49
83 14 0.05
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (79 bp):
ACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTAAAAAAAAAAGA
CATAAATTAAAAAT
Found at i:27016 original size:160 final size:158
Alignment explanation
Indices: 26749--27131 Score: 608
Period size: 160 Copynumber: 2.4 Consensus size: 158
26739 GCCCATGAAC
*
26749 ACCTCTAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA-TTTTTAAAAAAAAAAT
1 ACCTC-AGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTAAAAAAAAAAG
*
26813 ACATGAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA-TT
65 ACATAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTT
* *
26877 TTTAAAAAAAAAATACATGAATTAAAAAT
130 TTTAAAAAAAAAAGACATAAATTAAAAAT
*
26906 ACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATCTTTTTTTTAAAAAAAA
1 ACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA---TTTTTTAAAAAAAAA
26971 AGACATAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGAT
63 AGACATAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA-
*
27036 CTTTTTTTTAAAAAAAAAGACATAAATTAAAAAT
127 --TTTTTTAAAAAAAAAAGACATAAATTAAAAAT
* *
27070 ACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATATTTGAAAAAAAA
1 ACCTCAGCGTGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTTAAAAAAAA
27132 CAAAAAGTGA
Statistics
Matches: 208, Mismatches: 9, Indels: 13
0.90 0.04 0.06
Matches are distributed among these distances:
156 42 0.20
157 5 0.02
160 75 0.36
162 11 0.05
164 61 0.29
165 14 0.07
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (158 bp):
ACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTAAAAAAAAAAGA
CATAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTT
TTAAAAAAAAAAGACATAAATTAAAAAT
Found at i:28021 original size:17 final size:16
Alignment explanation
Indices: 28001--28068 Score: 52
Period size: 17 Copynumber: 4.3 Consensus size: 16
27991 TCATCTTGAT
28001 TTTTTCTTCTTCTTTTA
1 TTTTTCTT-TTCTTTTA
* *
28018 TTTTTCTGTTTTTTTTC
1 TTTTTCT-TTTCTTTTA
*
28035 TTTTTCTTAT-TTTT-
1 TTTTTCTTTTCTTTTA
* *
28049 TTGTTGTTTT-TTTTA
1 TTTTTCTTTTCTTTTA
28064 TTTTT
1 TTTTT
28069 TTAGGCATAA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
14 11 0.26
15 8 0.19
16 2 0.05
17 20 0.48
18 1 0.02
ACGTcount: A:0.04, C:0.09, G:0.04, T:0.82
Consensus pattern (16 bp):
TTTTTCTTTTCTTTTA
Found at i:28041 original size:28 final size:29
Alignment explanation
Indices: 28000--28068 Score: 88
Period size: 28 Copynumber: 2.4 Consensus size: 29
27990 TTCATCTTGA
*
28000 TTTTTTCTTCTTCTT-TTATTTTT-CTGTT
1 TTTTTTCTTTTTCTTATT-TTTTTGCTGTT
*
28028 TTTTTTCTTTTTCTTATTTTTTTGTTGTT
1 TTTTTTCTTTTTCTTATTTTTTTGCTGTT
*
28057 TTTTTTATTTTT
1 TTTTTTCTTTTT
28069 TTAGGCATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 19 0.53
29 17 0.47
ACGTcount: A:0.04, C:0.09, G:0.04, T:0.83
Consensus pattern (29 bp):
TTTTTTCTTTTTCTTATTTTTTTGCTGTT
Found at i:28058 original size:20 final size:19
Alignment explanation
Indices: 28026--28070 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
28016 TATTTTTCTG
28026 TTTTTTTTCTTTTTCTTAT
1 TTTTTTTTCTTTTTCTTAT
* *
28045 TTTTTTGTTGTTTTTTTTAT
1 TTTTTT-TTCTTTTTCTTAT
28065 TTTTTT
1 TTTTTT
28071 AGGCATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.04, C:0.04, G:0.04, T:0.87
Consensus pattern (19 bp):
TTTTTTTTCTTTTTCTTAT
Found at i:33661 original size:18 final size:18
Alignment explanation
Indices: 33609--33743 Score: 125
Period size: 18 Copynumber: 7.4 Consensus size: 18
33599 TTTTGTTTTT
*
33609 AAACACGAGAA-TTTTGA
1 AAACACGAAAATTTTTGA
**
33626 AACACAATAATAATTTTTGA
1 AA-ACACGAA-AATTTTTGA
*
33646 AAACACGAAGATTTTTG-
1 AAACACGAAAATTTTTGA
33663 AAACACGAAAATTTTTTGA
1 AAACACGAAAA-TTTTTGA
*
33682 AAACAC-AGAATTTTTTGA
1 AAACACGA-AAATTTTTGA
* *
33700 AAACACGAAAATTTGT-C
1 AAACACGAAAATTTTTGA
*
33717 AAACACGAGAATTTTTTGA
1 AAACACGA-AAATTTTTGA
33736 AAACACGA
1 AAACACGA
33744 TAACATAAAA
Statistics
Matches: 95, Mismatches: 14, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
17 20 0.21
18 43 0.45
19 24 0.25
20 8 0.08
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.28
Consensus pattern (18 bp):
AAACACGAAAATTTTTGA
Found at i:33676 original size:54 final size:51
Alignment explanation
Indices: 33604--33741 Score: 152
Period size: 54 Copynumber: 2.5 Consensus size: 51
33594 TTTTTTTTTG
* *
33604 TTTTTAAACACGAGAATTTTG-AAACACAATAATAATTTTTGAAAACACGAAGA
1 TTTTTAAACACGAGAATTTTGAAAACAC-AGAAT--TTTTTGAAAACACGAAAA
*
33657 TTTTTGAAACACGAAAATTTTTTGAAAACACAGAATTTTTTGAAAACACGAAAA
1 TTTTT-AAACACGAGAA--TTTTGAAAACACAGAATTTTTTGAAAACACGAAAA
*
33711 TTTGTCAAACACGAGAATTTTTTGAAAACAC
1 TTT-TTAAACACGAGAA--TTTTGAAAACAC
33742 GATAACATAA
Statistics
Matches: 75, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
53 5 0.07
54 54 0.72
55 1 0.01
56 9 0.12
57 6 0.08
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (51 bp):
TTTTTAAACACGAGAATTTTGAAAACACAGAATTTTTTGAAAACACGAAAA
Found at i:33811 original size:17 final size:17
Alignment explanation
Indices: 33788--33878 Score: 78
Period size: 17 Copynumber: 5.2 Consensus size: 17
33778 TTAAAACACG
33788 AAAACACGAAATTTTTT
1 AAAACACGAAATTTTTT
* *
33805 CAAACACGAGAA-TTTTG
1 AAAACACGA-AATTTTTT
33822 AAAACACGAAATTTTTTT
1 AAAACACGAAA-TTTTTT
* **
33840 TATTCACGAGAA-TTTTT
1 AAAACACGA-AATTTTTT
*
33857 GAAACACGGAAATTTTTT
1 AAAACAC-GAAATTTTTT
33875 AAAA
1 AAAA
33879 AAAAAGAAAT
Statistics
Matches: 57, Mismatches: 11, Indels: 11
0.72 0.14 0.14
Matches are distributed among these distances:
16 2 0.04
17 31 0.54
18 22 0.39
19 2 0.04
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (17 bp):
AAAACACGAAATTTTTT
Found at i:33848 original size:35 final size:36
Alignment explanation
Indices: 33787--33874 Score: 119
Period size: 35 Copynumber: 2.5 Consensus size: 36
33777 TTTAAAACAC
33787 GAAAACACGAAA-TTTTTTCAAACACGAGAA-TTTT
1 GAAAACACGAAATTTTTTTCAAACACGAGAATTTTT
* **
33821 GAAAACACGAAATTTTTTTTATTCACGAGAATTTTT
1 GAAAACACGAAATTTTTTTCAAACACGAGAATTTTT
33857 G-AAACACGGAAATTTTTT
1 GAAAACAC-GAAATTTTTT
33875 AAAAAAAAAG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
34 12 0.25
35 21 0.44
36 15 0.31
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (36 bp):
GAAAACACGAAATTTTTTTCAAACACGAGAATTTTT
Found at i:33953 original size:17 final size:17
Alignment explanation
Indices: 33931--33979 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
33921 TATTATTATT
*
33931 ATTTTGAAACACGAGAA
1 ATTTTGAAACACGAAAA
*
33948 ATTTTGAAGACA-TAAAA
1 ATTTTGAA-ACACGAAAA
33965 ATTTTTGAAACACGA
1 A-TTTTGAAACACGA
33980 TTTTTTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.47, C:0.10, G:0.14, T:0.29
Consensus pattern (17 bp):
ATTTTGAAACACGAAAA
Found at i:34370 original size:14 final size:13
Alignment explanation
Indices: 34351--34384 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
34341 TACAATATTT
34351 AAATAAATGGACTA
1 AAATAAATGGA-TA
34365 AAATAAATGGATA
1 AAATAAATGGATA
34378 AAA-AAAT
1 AAATAAAT
34385 TACCCAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 4 0.20
13 5 0.25
14 11 0.55
ACGTcount: A:0.65, C:0.03, G:0.12, T:0.21
Consensus pattern (13 bp):
AAATAAATGGATA
Found at i:34593 original size:23 final size:24
Alignment explanation
Indices: 34563--34629 Score: 77
Period size: 23 Copynumber: 2.8 Consensus size: 24
34553 TGTTGCTGGA
34563 CTGCTTCTTTCTTCTTCTTTTT-T-
1 CTGCTTCTTTCTTCTT-TTTTTCTG
*
34586 CTGCTTCTTCCTTTCTTTTTTTCTG
1 CTGCTTCTTTC-TTCTTTTTTTCTG
*
34611 CTGCTTCTTT-TTCTATTTT
1 CTGCTTCTTTCTTCTTTTTT
34630 GTTTTTTTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
23 23 0.61
24 6 0.16
25 9 0.24
ACGTcount: A:0.01, C:0.25, G:0.06, T:0.67
Consensus pattern (24 bp):
CTGCTTCTTTCTTCTTTTTTTCTG
Found at i:34629 original size:22 final size:21
Alignment explanation
Indices: 34571--34629 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 21
34561 GACTGCTTCT
* *
34571 TTCTTCTTCTTTTTTCTGCTTC
1 TTCTTTTTC-TTTTTCTGCTGC
34593 TTCCTTTCTT-TTTTTCTGCTGC
1 TT-CTTT-TTCTTTTTCTGCTGC
34615 TTCTTTTTCTATTTT
1 TTCTTTTTCT-TTTT
34630 GTTTTTTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
20 2 0.06
21 5 0.16
22 19 0.61
23 3 0.10
24 2 0.06
ACGTcount: A:0.02, C:0.24, G:0.05, T:0.69
Consensus pattern (21 bp):
TTCTTTTTCTTTTTCTGCTGC
Found at i:34759 original size:11 final size:11
Alignment explanation
Indices: 34743--34785 Score: 68
Period size: 11 Copynumber: 3.9 Consensus size: 11
34733 CTTTTTCTTC
34743 TTTCTTCTTTG
1 TTTCTTCTTTG
34754 TTTCTTCTTTG
1 TTTCTTCTTTG
*
34765 TTTCTTCTTTT
1 TTTCTTCTTTG
*
34776 TTTTTTCTTT
1 TTTCTTCTTT
34786 CTTCTCCGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.79
Consensus pattern (11 bp):
TTTCTTCTTTG
Found at i:34788 original size:18 final size:19
Alignment explanation
Indices: 34734--34790 Score: 62
Period size: 18 Copynumber: 2.9 Consensus size: 19
34724 TCTTTCCCCC
*
34734 TTTTTCTTCTTTCTTCTTTG
1 TTTTTTTTCTTTCTTC-TTG
*
34754 TTTCTTCTTTGTTTCTTCTT-
1 TTT-TT-TTTCTTTCTTCTTG
34774 TTTTTTTTCTTTCTTCT
1 TTTTTTTTCTTTCTTCT
34791 CCGTTCAACC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
18 11 0.34
19 2 0.06
20 6 0.19
21 4 0.12
22 9 0.28
ACGTcount: A:0.00, C:0.19, G:0.04, T:0.77
Consensus pattern (19 bp):
TTTTTTTTCTTTCTTCTTG
Found at i:34906 original size:20 final size:21
Alignment explanation
Indices: 34874--34922 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
34864 CTCTTCTCTC
*
34874 TTTCTTCTTTGCTTG-TTTTTT
1 TTTCTT-TTTGCTTGCTATTTT
34895 TTTCTTTTTGCTTGCTATTTT
1 TTTCTTTTTGCTTGCTATTTT
34916 TTTCTTT
1 TTTCTTT
34923 GACTTTGCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.02, C:0.14, G:0.08, T:0.76
Consensus pattern (21 bp):
TTTCTTTTTGCTTGCTATTTT
Found at i:34935 original size:20 final size:18
Alignment explanation
Indices: 34878--34936 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 18
34868 TCTCTCTTTC
*
34878 TTCTTTGCTTGTTTTTTT
1 TTCTTTGCTTGCTTTTTT
34896 TTCTTTTTGCTTGCTATTTTT
1 TTC--TTTGCTTGCT-TTTTT
34917 TTCTTTGACTTTGCTTTTTT
1 TTCTTTG-C-TTGCTTTTTT
34937 ATTTATTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
18 3 0.09
19 4 0.11
20 15 0.43
21 13 0.37
ACGTcount: A:0.03, C:0.14, G:0.10, T:0.73
Consensus pattern (18 bp):
TTCTTTGCTTGCTTTTTT
Found at i:35063 original size:10 final size:11
Alignment explanation
Indices: 35037--35062 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
35027 TTGCTGCTGT
35037 TTTTTGCTTGA
1 TTTTTGCTTGA
35048 TTTTTGCTTGA
1 TTTTTGCTTGA
35059 TTTT
1 TTTT
35063 GTTGTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.15, T:0.69
Consensus pattern (11 bp):
TTTTTGCTTGA
Found at i:38282 original size:18 final size:18
Alignment explanation
Indices: 38230--38364 Score: 125
Period size: 18 Copynumber: 7.4 Consensus size: 18
38220 TTTTGTTTTT
*
38230 AAACACGAGAA-TTTTGA
1 AAACACGAAAATTTTTGA
**
38247 AACACAATAATAATTTTTGA
1 AA-ACACGAA-AATTTTTGA
*
38267 AAACACGAAGATTTTTG-
1 AAACACGAAAATTTTTGA
38284 AAACACGAAAATTTTTTGA
1 AAACACGAAAA-TTTTTGA
*
38303 AAACAC-AGAATTTTTTGA
1 AAACACGA-AAATTTTTGA
* *
38321 AAACACGAAAATTTGT-C
1 AAACACGAAAATTTTTGA
*
38338 AAACACGAGAATTTTTTGA
1 AAACACGA-AAATTTTTGA
38357 AAACACGA
1 AAACACGA
38365 TAACATAAAA
Statistics
Matches: 95, Mismatches: 14, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
17 20 0.21
18 43 0.45
19 24 0.25
20 8 0.08
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.28
Consensus pattern (18 bp):
AAACACGAAAATTTTTGA
Found at i:38297 original size:54 final size:51
Alignment explanation
Indices: 38225--38362 Score: 152
Period size: 54 Copynumber: 2.5 Consensus size: 51
38215 TTTTTTTTTG
* *
38225 TTTTTAAACACGAGAATTTTG-AAACACAATAATAATTTTTGAAAACACGAAGA
1 TTTTTAAACACGAGAATTTTGAAAACAC-AGAAT--TTTTTGAAAACACGAAAA
*
38278 TTTTTGAAACACGAAAATTTTTTGAAAACACAGAATTTTTTGAAAACACGAAAA
1 TTTTT-AAACACGAGAA--TTTTGAAAACACAGAATTTTTTGAAAACACGAAAA
*
38332 TTTGTCAAACACGAGAATTTTTTGAAAACAC
1 TTT-TTAAACACGAGAA--TTTTGAAAACAC
38363 GATAACATAA
Statistics
Matches: 75, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
53 5 0.07
54 54 0.72
55 1 0.01
56 9 0.12
57 6 0.08
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (51 bp):
TTTTTAAACACGAGAATTTTGAAAACACAGAATTTTTTGAAAACACGAAAA
Found at i:38432 original size:17 final size:17
Alignment explanation
Indices: 38409--38499 Score: 78
Period size: 17 Copynumber: 5.2 Consensus size: 17
38399 TTAAAACACG
38409 AAAACACGAAATTTTTT
1 AAAACACGAAATTTTTT
* *
38426 CAAACACGAGAA-TTTTG
1 AAAACACGA-AATTTTTT
38443 AAAACACGAAATTTTTTT
1 AAAACACGAAA-TTTTTT
* **
38461 TATTCACGAGAA-TTTTT
1 AAAACACGA-AATTTTTT
*
38478 GAAACACGGAAATTTTTT
1 AAAACAC-GAAATTTTTT
38496 AAAA
1 AAAA
38500 AAAAAGAAAT
Statistics
Matches: 57, Mismatches: 11, Indels: 11
0.72 0.14 0.14
Matches are distributed among these distances:
16 2 0.04
17 31 0.54
18 22 0.39
19 2 0.04
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (17 bp):
AAAACACGAAATTTTTT
Found at i:38469 original size:35 final size:36
Alignment explanation
Indices: 38408--38495 Score: 119
Period size: 35 Copynumber: 2.5 Consensus size: 36
38398 TTTAAAACAC
38408 GAAAACACGAAA-TTTTTTCAAACACGAGAA-TTTT
1 GAAAACACGAAATTTTTTTCAAACACGAGAATTTTT
* **
38442 GAAAACACGAAATTTTTTTTATTCACGAGAATTTTT
1 GAAAACACGAAATTTTTTTCAAACACGAGAATTTTT
38478 G-AAACACGGAAATTTTTT
1 GAAAACAC-GAAATTTTTT
38496 AAAAAAAAAG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
34 12 0.25
35 21 0.44
36 15 0.31
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (36 bp):
GAAAACACGAAATTTTTTTCAAACACGAGAATTTTT
Found at i:38574 original size:17 final size:17
Alignment explanation
Indices: 38552--38600 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
38542 TATTATTATT
*
38552 ATTTTGAAACACGAGAA
1 ATTTTGAAACACGAAAA
*
38569 ATTTTGAAGACA-TAAAA
1 ATTTTGAA-ACACGAAAA
38586 ATTTTTGAAACACGA
1 A-TTTTGAAACACGA
38601 TTTTTTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.47, C:0.10, G:0.14, T:0.29
Consensus pattern (17 bp):
ATTTTGAAACACGAAAA
Found at i:38991 original size:14 final size:13
Alignment explanation
Indices: 38972--39005 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
38962 TACAATATTT
38972 AAATAAATGGACTA
1 AAATAAATGGA-TA
38986 AAATAAATGGATA
1 AAATAAATGGATA
38999 AAA-AAAT
1 AAATAAAT
39006 TACCCAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 4 0.20
13 5 0.25
14 11 0.55
ACGTcount: A:0.65, C:0.03, G:0.12, T:0.21
Consensus pattern (13 bp):
AAATAAATGGATA
Found at i:39214 original size:23 final size:24
Alignment explanation
Indices: 39184--39250 Score: 77
Period size: 23 Copynumber: 2.8 Consensus size: 24
39174 TGTTGCTGGA
39184 CTGCTTCTTTCTTCTTCTTTTT-T-
1 CTGCTTCTTTCTTCTT-TTTTTCTG
*
39207 CTGCTTCTTCCTTTCTTTTTTTCTG
1 CTGCTTCTTTC-TTCTTTTTTTCTG
*
39232 CTGCTTCTTT-TTCTATTTT
1 CTGCTTCTTTCTTCTTTTTT
39251 GTTTTTTTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
23 23 0.61
24 6 0.16
25 9 0.24
ACGTcount: A:0.01, C:0.25, G:0.06, T:0.67
Consensus pattern (24 bp):
CTGCTTCTTTCTTCTTTTTTTCTG
Found at i:39250 original size:22 final size:21
Alignment explanation
Indices: 39192--39250 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 21
39182 GACTGCTTCT
* *
39192 TTCTTCTTCTTTTTTCTGCTTC
1 TTCTTTTTC-TTTTTCTGCTGC
39214 TTCCTTTCTT-TTTTTCTGCTGC
1 TT-CTTT-TTCTTTTTCTGCTGC
39236 TTCTTTTTCTATTTT
1 TTCTTTTTCT-TTTT
39251 GTTTTTTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
20 2 0.06
21 5 0.16
22 19 0.61
23 3 0.10
24 2 0.06
ACGTcount: A:0.02, C:0.24, G:0.05, T:0.69
Consensus pattern (21 bp):
TTCTTTTTCTTTTTCTGCTGC
Found at i:39380 original size:11 final size:11
Alignment explanation
Indices: 39364--39406 Score: 68
Period size: 11 Copynumber: 3.9 Consensus size: 11
39354 CTTTTTCTTC
39364 TTTCTTCTTTG
1 TTTCTTCTTTG
39375 TTTCTTCTTTG
1 TTTCTTCTTTG
*
39386 TTTCTTCTTTT
1 TTTCTTCTTTG
*
39397 TTTTTTCTTT
1 TTTCTTCTTT
39407 CTTCTCCGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.79
Consensus pattern (11 bp):
TTTCTTCTTTG
Found at i:39409 original size:18 final size:19
Alignment explanation
Indices: 39355--39411 Score: 62
Period size: 18 Copynumber: 2.9 Consensus size: 19
39345 TCTTTCCCCC
*
39355 TTTTTCTTCTTTCTTCTTTG
1 TTTTTTTTCTTTCTTC-TTG
*
39375 TTTCTTCTTTGTTTCTTCTT-
1 TTT-TT-TTTCTTTCTTCTTG
39395 TTTTTTTTCTTTCTTCT
1 TTTTTTTTCTTTCTTCT
39412 CCGTTCAACC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
18 11 0.34
19 2 0.06
20 6 0.19
21 4 0.12
22 9 0.28
ACGTcount: A:0.00, C:0.19, G:0.04, T:0.77
Consensus pattern (19 bp):
TTTTTTTTCTTTCTTCTTG
Found at i:39527 original size:20 final size:21
Alignment explanation
Indices: 39495--39543 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
39485 CTCTTCTCTC
*
39495 TTTCTTCTTTGCTTG-TTTTTT
1 TTTCTT-TTTGCTTGCTATTTT
39516 TTTCTTTTTGCTTGCTATTTT
1 TTTCTTTTTGCTTGCTATTTT
39537 TTTCTTT
1 TTTCTTT
39544 GACTTTGCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.02, C:0.14, G:0.08, T:0.76
Consensus pattern (21 bp):
TTTCTTTTTGCTTGCTATTTT
Found at i:39556 original size:20 final size:18
Alignment explanation
Indices: 39499--39557 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 18
39489 TCTCTCTTTC
*
39499 TTCTTTGCTTGTTTTTTT
1 TTCTTTGCTTGCTTTTTT
39517 TTCTTTTTGCTTGCTATTTTT
1 TTC--TTTGCTTGCT-TTTTT
39538 TTCTTTGACTTTGCTTTTTT
1 TTCTTTG-C-TTGCTTTTTT
39558 ATTTATTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
18 3 0.09
19 4 0.11
20 15 0.43
21 13 0.37
ACGTcount: A:0.03, C:0.14, G:0.10, T:0.73
Consensus pattern (18 bp):
TTCTTTGCTTGCTTTTTT
Found at i:39684 original size:10 final size:11
Alignment explanation
Indices: 39658--39683 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
39648 TTGCTGCTGT
39658 TTTTTGCTTGA
1 TTTTTGCTTGA
39669 TTTTTGCTTGA
1 TTTTTGCTTGA
39680 TTTT
1 TTTT
39684 GTTGTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.15, T:0.69
Consensus pattern (11 bp):
TTTTTGCTTGA
Found at i:40038 original size:29 final size:29
Alignment explanation
Indices: 40006--40100 Score: 111
Period size: 30 Copynumber: 3.2 Consensus size: 29
39996 ATTGAAATAT
*
40006 AATTTTAGAAAA-TTTTGGGTCAAAATGTA
1 AATTTT-GAAAAGTTTAGGGTCAAAATGTA
* *
40035 AATTTCGAAAAGTATAGGGGTCAAAATGTA
1 AATTTTGAAAAGTTTA-GGGTCAAAATGTA
*
40065 AATTTTGAAAAGTATAGGAGTCAAAATGTA
1 AATTTTGAAAAGTTTAGG-GTCAAAATGTA
*
40095 ATTTTT
1 AATTTT
40101 TTAATTTTTT
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
28 5 0.09
29 9 0.16
30 44 0.76
ACGTcount: A:0.42, C:0.04, G:0.19, T:0.35
Consensus pattern (29 bp):
AATTTTGAAAAGTTTAGGGTCAAAATGTA
Found at i:40058 original size:30 final size:30
Alignment explanation
Indices: 40022--40095 Score: 130
Period size: 30 Copynumber: 2.5 Consensus size: 30
40012 AGAAAATTTT
40022 GGGTCAAAATGTAAATTTCGAAAAGTATAG
1 GGGTCAAAATGTAAATTTCGAAAAGTATAG
*
40052 GGGTCAAAATGTAAATTTTGAAAAGTATAG
1 GGGTCAAAATGTAAATTTCGAAAAGTATAG
*
40082 GAGTCAAAATGTAA
1 GGGTCAAAATGTAA
40096 TTTTTTTAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.45, C:0.05, G:0.23, T:0.27
Consensus pattern (30 bp):
GGGTCAAAATGTAAATTTCGAAAAGTATAG
Found at i:41112 original size:14 final size:14
Alignment explanation
Indices: 41093--41120 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
41083 CAACTTTTAG
41093 TTAGTATTTAGCAA
1 TTAGTATTTAGCAA
41107 TTAGTATTTAGCAA
1 TTAGTATTTAGCAA
41121 ATGTATGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (14 bp):
TTAGTATTTAGCAA
Found at i:42264 original size:23 final size:24
Alignment explanation
Indices: 42229--42295 Score: 77
Period size: 23 Copynumber: 2.9 Consensus size: 24
42219 TACCTTGTTT
*
42229 GGACAGC-TCTTATACATC-AATTA
1 GGACAGCAT-TTATACACCAAATTA
*
42252 GGACAGCATTTATATACCAAATTA
1 GGACAGCATTTATACACCAAATTA
*
42276 -AACAGCATTTATACACCAAA
1 GGACAGCATTTATACACCAAA
42296 ATTTAACAGC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
23 32 0.84
24 6 0.16
ACGTcount: A:0.42, C:0.21, G:0.10, T:0.27
Consensus pattern (24 bp):
GGACAGCATTTATACACCAAATTA
Found at i:42297 original size:24 final size:23
Alignment explanation
Indices: 42254--42572 Score: 109
Period size: 23 Copynumber: 13.9 Consensus size: 23
42244 ATCAATTAGG
*
42254 ACAGCATTTATATACCAAATTAA
1 ACAGCATTTATACACCAAATTAA
*
42277 ACAGCATTTATACACCAAAATTTA
1 ACAGCATTTATACACC-AAATTAA
* ** *
42301 ACAGCATATATACAGTAAA-TAG
1 ACAGCATTTATACACCAAATTAA
* * * * * * *
42323 GCAGCATATACATACCCATTTTA
1 ACAGCATTTATACACCAAATTAA
42346 ACAGCACTTT-TACACCAAAAATT-A
1 ACAGCA-TTTATACACC--AAATTAA
* * * *
42370 ACAGCATATATATAGCAAA-TAG
1 ACAGCATTTATACACCAAATTAA
* *
42392 GCAGCATATTCAT--ACCAAATTTA
1 ACAGCAT-TT-ATACACCAAATTAA
*
42415 ACAGCACTTT-TACACCAAAATTTA
1 ACAGCA-TTTATACACC-AAATTAA
* * **
42439 ACAGCATATATACAACAAA-TGG
1 ACAGCATTTATACACCAAATTAA
* * * * *
42461 GCAGCATATACATACCAAATTGA
1 ACAGCATTTATACACCAAATTAA
* * * *
42484 GCAGCATTTTTACACAAAATTTA
1 ACAGCATTTATACACCAAATTAA
* * *
42507 ACAGCATATATACAACAAA-TAG
1 ACAGCATTTATACACCAAATTAA
* * * * *
42529 GCAGCATATACATACCAAATTGA
1 ACAGCATTTATACACCAAATTAA
*
42552 GCAGCAATTT-TACACCAAATT
1 ACAGC-ATTTATACACCAAATT
42573 TGAACAGTAT
Statistics
Matches: 215, Mismatches: 63, Indels: 36
0.68 0.20 0.11
Matches are distributed among these distances:
21 2 0.01
22 59 0.27
23 95 0.44
24 56 0.26
25 3 0.01
ACGTcount: A:0.45, C:0.20, G:0.09, T:0.26
Consensus pattern (23 bp):
ACAGCATTTATACACCAAATTAA
Found at i:42338 original size:69 final size:68
Alignment explanation
Indices: 42239--42611 Score: 480
Period size: 69 Copynumber: 5.4 Consensus size: 68
42229 GGACAGCTCT
* * * * *
42239 TATACATCAATTAGGACAGCATTTATATACCAAATTAAACAGCATTTATACACCAAAATTTAACA
1 TATACAACAAATAGG-CAGCATATACATACCAAATTGAACAGCATTT-TACACCAAAATTTAACA
42304 GCATA
64 GCATA
** * * * *
42309 TATACAGTAAATAGGCAGCATATACATACCCATTTTAACAGCACTTTTACACCAAAAATTAACAG
1 TATACAACAAATAGGCAGCATATACATACCAAATTGAACAGCA-TTTTACACCAAAATTTAACAG
42374 CATA
65 CATA
* * * *
42378 TATATAGCAAATAGGCAGCATATTCATACCAAATTTAACAGCACTTTTACACCAAAATTTAACAG
1 TATACAACAAATAGGCAGCATATACATACCAAATTGAACAGCA-TTTTACACCAAAATTTAACAG
42443 CATA
65 CATA
* *
42447 TATACAACAAATGGGCAGCATATACATACCAAATTGAGCAGCATTTTTACA-CAAAATTTAACAG
1 TATACAACAAATAGGCAGCATATACATACCAAATTGAACAGCA-TTTTACACCAAAATTTAACAG
42511 CATA
65 CATA
*
42515 TATACAACAAATAGGCAGCATATACATACCAAATTGAGCAGCAATTTTACACC-AAATTTGAACA
1 TATACAACAAATAGGCAGCATATACATACCAAATTGAACAGC-ATTTTACACCAAAATTT-AACA
*
42579 GTATA
64 GCATA
* *
42584 TATAAAACAAATGGGCAGCATATACATA
1 TATACAACAAATAGGCAGCATATACATA
42612 ATACATCATA
Statistics
Matches: 273, Mismatches: 26, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
68 71 0.26
69 187 0.68
70 15 0.05
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.26
Consensus pattern (68 bp):
TATACAACAAATAGGCAGCATATACATACCAAATTGAACAGCATTTTACACCAAAATTTAACAGC
ATA
Found at i:42564 original size:137 final size:138
Alignment explanation
Indices: 42239--42611 Score: 500
Period size: 137 Copynumber: 2.7 Consensus size: 138
42229 GGACAGCTCT
* * * *
42239 TATACATCAATTAGGACAGCATTTATATACCAAATTAAACAGC-ATTTATACACCAAAATTTAAC
1 TATACAACAAATAGG-CAGCATATACATACCAAATTAAACAGCAATTT-TACACCAAAATTTAAC
** * * * *
42303 AGCATATATACAGTAAATAGGCAGCATATACATACCCATTTTAACAGCACTTTTACACCAAAAAT
64 AGCATATATACAACAAATGGGCAGCATATACATACCAAATTGAACAGCACTTTTACACCAAAAAT
42368 TAACAGCATA
129 TAACAGCATA
* * * * *
42378 TATATAGCAAATAGGCAGCATATTCATACCAAATTTAACAGCACTTTTACACCAAAATTTAACAG
1 TATACAACAAATAGGCAGCATATACATACCAAATTAAACAGCAATTTTACACCAAAATTTAACAG
* * *
42443 CATATATACAACAAATGGGCAGCATATACATACCAAATTGAGCAGCATTTTTACA-CAAAATTTA
66 CATATATACAACAAATGGGCAGCATATACATACCAAATTGAACAGCACTTTTACACCAAAAATTA
42507 ACAGCATA
131 ACAGCATA
* *
42515 TATACAACAAATAGGCAGCATATACATACCAAATTGAGCAGCAATTTTACACC-AAATTTGAACA
1 TATACAACAAATAGGCAGCATATACATACCAAATTAAACAGCAATTTTACACCAAAATTT-AACA
* *
42579 GTATATATAAAACAAATGGGCAGCATATACATA
65 GCATATATACAACAAATGGGCAGCATATACATA
42612 ATACATCATA
Statistics
Matches: 207, Mismatches: 25, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
136 6 0.03
137 98 0.47
138 88 0.43
139 15 0.07
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.26
Consensus pattern (138 bp):
TATACAACAAATAGGCAGCATATACATACCAAATTAAACAGCAATTTTACACCAAAATTTAACAG
CATATATACAACAAATGGGCAGCATATACATACCAAATTGAACAGCACTTTTACACCAAAAATTA
ACAGCATA
Found at i:43506 original size:41 final size:41
Alignment explanation
Indices: 43427--43577 Score: 151
Period size: 41 Copynumber: 3.7 Consensus size: 41
43417 TAAAACACCG
* * * * * *
43427 GCATAAAGCCTGCTAGGCACAAAGCCCGATACATTTCACTG
1 GCATAAAGCCTGCTAGACATAAAGCCTGATATAATTCACTA
*
43468 GCATAAAGCCTGCTAGACATAAAGTCTGATATAATTCACTA
1 GCATAAAGCCTGCTAGACATAAAGCCTGATATAATTCACTA
* * * * * * *
43509 GCACAGAGCCTTCT-GATATCAAGCTTGATATAATTCACCA
1 GCATAAAGCCTGCTAGACATAAAGCCTGATATAATTCACTA
* *
43549 GCATAAAGCCTACTAGGCATAAAGCCTGA
1 GCATAAAGCCTGCTAGACATAAAGCCTGA
43578 ACTTACAAAA
Statistics
Matches: 87, Mismatches: 22, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
40 32 0.37
41 55 0.63
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (41 bp):
GCATAAAGCCTGCTAGACATAAAGCCTGATATAATTCACTA
Found at i:44189 original size:16 final size:16
Alignment explanation
Indices: 44168--44204 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
44158 TTCACCTACT
44168 AGCATCATAAAACTCA
1 AGCATCATAAAACTCA
44184 AGCATCATAAAACTCA
1 AGCATCATAAAACTCA
44200 AGCAT
1 AGCAT
44205 TCATCAATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.49, C:0.24, G:0.08, T:0.19
Consensus pattern (16 bp):
AGCATCATAAAACTCA
Found at i:56271 original size:15 final size:15
Alignment explanation
Indices: 56251--56280 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
56241 TATAATTTTA
56251 ATATTTTAATAATTT
1 ATATTTTAATAATTT
*
56266 ATATTTTTATAATTT
1 ATATTTTAATAATTT
56281 TTAAATGATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
ATATTTTAATAATTT
Found at i:56359 original size:16 final size:18
Alignment explanation
Indices: 56335--56371 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
56325 ACATTTATCA
*
56335 TTATTAATT-TAAAA-TT
1 TTATAAATTATAAAAGTT
56351 TTATAAATTATAAAAGTT
1 TTATAAATTATAAAAGTT
56369 TTA
1 TTA
56372 AATAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 5 0.28
18 5 0.28
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
TTATAAATTATAAAAGTT
Found at i:65484 original size:52 final size:52
Alignment explanation
Indices: 65427--65552 Score: 252
Period size: 52 Copynumber: 2.4 Consensus size: 52
65417 AAACCTTTAC
65427 TTCCTTGGAGTCCAAGTTTCTTCAATCTTTGGAGTTTTCCTTGTTCTTCTTG
1 TTCCTTGGAGTCCAAGTTTCTTCAATCTTTGGAGTTTTCCTTGTTCTTCTTG
65479 TTCCTTGGAGTCCAAGTTTCTTCAATCTTTGGAGTTTTCCTTGTTCTTCTTG
1 TTCCTTGGAGTCCAAGTTTCTTCAATCTTTGGAGTTTTCCTTGTTCTTCTTG
65531 TTCCTTGGAGTCCAAGTTTCTT
1 TTCCTTGGAGTCCAAGTTTCTT
65553 GGTTGCTGCC
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.12, C:0.21, G:0.17, T:0.49
Consensus pattern (52 bp):
TTCCTTGGAGTCCAAGTTTCTTCAATCTTTGGAGTTTTCCTTGTTCTTCTTG
Found at i:65499 original size:26 final size:26
Alignment explanation
Indices: 65470--65552 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
65460 GTTTTCCTTG
65470 TTCTTCTTGTTCCTTGGAGTCCAAGT
1 TTCTTCTTGTTCCTTGGAGTCCAAGT
** * **
65496 TTCTTC--AATCTTTGGAGTTTTCCTTG-
1 TTCTTCTTGTTCCTTGGAG---TCCAAGT
65522 TTCTTCTTGTTCCTTGGAGTCCAAGT
1 TTCTTCTTGTTCCTTGGAGTCCAAGT
65548 TTCTT
1 TTCTT
65553 GGTTGCTGCC
Statistics
Matches: 41, Mismatches: 10, Indels: 12
0.65 0.16 0.19
Matches are distributed among these distances:
24 8 0.20
25 4 0.10
26 17 0.41
27 4 0.10
28 8 0.20
ACGTcount: A:0.11, C:0.22, G:0.17, T:0.51
Consensus pattern (26 bp):
TTCTTCTTGTTCCTTGGAGTCCAAGT
Found at i:65512 original size:24 final size:24
Alignment explanation
Indices: 65431--65513 Score: 69
Period size: 24 Copynumber: 3.3 Consensus size: 24
65421 CTTTACTTCC
65431 TTGGAGTCCAAGTTTCTTCAATCT
1 TTGGAGTCCAAGTTTCTTCAATCT
** ** *
65455 TTGGAGTTTTCCTTG-TTCTTCTTGTTCC
1 TTGGAG---TCCAAGTTTCTTC--AATCT
65483 TTGGAGTCCAAGTTTCTTCAATCT
1 TTGGAGTCCAAGTTTCTTCAATCT
65507 TTGGAGT
1 TTGGAGT
65514 TTTCCTTGTT
Statistics
Matches: 43, Mismatches: 10, Indels: 12
0.66 0.15 0.18
Matches are distributed among these distances:
24 15 0.35
25 4 0.09
26 12 0.28
27 4 0.09
28 8 0.19
ACGTcount: A:0.14, C:0.19, G:0.19, T:0.47
Consensus pattern (24 bp):
TTGGAGTCCAAGTTTCTTCAATCT
Found at i:68092 original size:19 final size:19
Alignment explanation
Indices: 68056--68093 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
68046 TTGGATTAGA
*
68056 TTTATATTATTATAAATTT
1 TTTATATTATTAAAAATTT
68075 TTTATATT-TTAAATAATTT
1 TTTATATTATTAAA-AATTT
68094 AAAAGTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTATATTATTAAAAATTT
Found at i:80062 original size:15 final size:15
Alignment explanation
Indices: 80039--80070 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
80029 GTCGAATCAT
*
80039 ATAATCCTTAACTGA
1 ATAACCCTTAACTGA
80054 ATAACCCTTAACTGA
1 ATAACCCTTAACTGA
80069 AT
1 AT
80071 TGAAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.22, G:0.06, T:0.31
Consensus pattern (15 bp):
ATAACCCTTAACTGA
Found at i:82817 original size:13 final size:13
Alignment explanation
Indices: 82799--82823 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
82789 AAGCAGGTGG
82799 AATATATATATAA
1 AATATATATATAA
82812 AATATATATATA
1 AATATATATATA
82824 GACATAATGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AATATATATATAA
Found at i:86244 original size:19 final size:20
Alignment explanation
Indices: 86220--86265 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
86210 TACAAAATAA
*
86220 TCAAAATAATTT-TTAAAA-T
1 TCAAAAT-ATTTATAAAAATT
86239 TCAAAATATTTATAAAAATT
1 TCAAAATATTTATAAAAATT
86259 TCAAAAT
1 TCAAAAT
86266 TTATATTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 4 0.17
19 12 0.50
20 8 0.33
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (20 bp):
TCAAAATATTTATAAAAATT
Found at i:89797 original size:26 final size:26
Alignment explanation
Indices: 89758--89810 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
89748 TTTAGCTCGA
89758 TTTGAAATACGTACATAAAATTTTGT
1 TTTGAAATACGTACATAAAATTTTGT
*
89784 TTTGAAATATGTACATAAAATTTTGT
1 TTTGAAATACGTACATAAAATTTTGT
89810 T
1 T
89811 CAAGCCTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.06, G:0.11, T:0.45
Consensus pattern (26 bp):
TTTGAAATACGTACATAAAATTTTGT
Found at i:109068 original size:22 final size:23
Alignment explanation
Indices: 109015--109069 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
109005 ATTTGTCATT
*
109015 ATAA-AAATAAAACAAATTTAGA
1 ATAATAAATATAACAAATTTAGA
* *
109037 TTAATGAATATAACAAATTT-GA
1 ATAATAAATATAACAAATTTAGA
109059 ATAATAAATAT
1 ATAATAAATAT
109070 CTAAAATTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 14 0.52
23 13 0.48
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.31
Consensus pattern (23 bp):
ATAATAAATATAACAAATTTAGA
Found at i:111131 original size:125 final size:124
Alignment explanation
Indices: 110936--111191 Score: 325
Period size: 125 Copynumber: 2.1 Consensus size: 124
110926 AAATAGTGGG
** * * * *
110936 AAATCGCTTCTACTAGGATGCTATTTGAGAAGAAATTGTGAAATCGTGGCCTCGTGGACGCGATT
1 AAATCGCTAATACAAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGACT
* **
111001 TCGCTACAG-TGGTCATGTAAGAAATAATTTTTTTTGATGTTTTCTGAGCAAATAGTATA
66 TCGCTACAGTTAGTCATGTAAGAAATAATTTTTTTTGA-CATTTCTGAGCAAATAGTATA
* * * *
111060 AAATCGCTAATACAAGGATGCTATATTGGGCAGAAATTGTTAAATCGCGCCCTCGTGGATGCGAC
1 AAATCGCTAATACAAGGATGCTAT-TTGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGAC
** * * *
111125 TTCGCTACAGTTAGTCATGTTGGAAATAATTTTTTTTTACATTTCTGAGCAAATAGTGTC
65 TTCGCTACAGTTAGTCATGTAAGAAATAATTTTTTTTGACATTTCTGAGCAAATAGTATA
111185 AAATCGC
1 AAATCGC
111192 GCCCTCGTGG
Statistics
Matches: 112, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
124 21 0.19
125 67 0.60
126 24 0.21
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (124 bp):
AAATCGCTAATACAAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGACT
TCGCTACAGTTAGTCATGTAAGAAATAATTTTTTTTGACATTTCTGAGCAAATAGTATA
Found at i:111303 original size:84 final size:84
Alignment explanation
Indices: 111101--111286 Score: 372
Period size: 84 Copynumber: 2.2 Consensus size: 84
111091 AGAAATTGTT
111101 AAATCGCGCCCTCGTGGATGCGACTTCGCTACAGTTAGTCATGTTGGAAATAATTTTTTTTTACA
1 AAATCGCGCCCTCGTGGATGCGACTTCGCTACAGTTAGTCATGTTGGAAATAATTTTTTTTTACA
111166 TTTCTGAGCAAATAGTGTC
66 TTTCTGAGCAAATAGTGTC
111185 AAATCGCGCCCTCGTGGATGCGACTTCGCTACAGTTAGTCATGTTGGAAATAATTTTTTTTTACA
1 AAATCGCGCCCTCGTGGATGCGACTTCGCTACAGTTAGTCATGTTGGAAATAATTTTTTTTTACA
111250 TTTCTGAGCAAATAGTGTC
66 TTTCTGAGCAAATAGTGTC
111269 AAATCGCGCCCTCGTGGA
1 AAATCGCGCCCTCGTGGA
111287 CGCAATTTTG
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 102 1.00
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (84 bp):
AAATCGCGCCCTCGTGGATGCGACTTCGCTACAGTTAGTCATGTTGGAAATAATTTTTTTTTACA
TTTCTGAGCAAATAGTGTC
Found at i:114487 original size:7 final size:7
Alignment explanation
Indices: 114477--114510 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
114467 TTGTATGTTA
114477 GGTTTAG
1 GGTTTAG
114484 GGTTTAG
1 GGTTTAG
*
114491 GGTTAAG
1 GGTTTAG
114498 GGTTTAG
1 GGTTTAG
114505 GGTTTA
1 GGTTTA
114511 TAATTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.18, C:0.00, G:0.41, T:0.41
Consensus pattern (7 bp):
GGTTTAG
Found at i:114517 original size:21 final size:21
Alignment explanation
Indices: 114477--114517 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
114467 TTGTATGTTA
**
114477 GGTTTAGGGTTTAGGGTTAAG
1 GGTTTAGGGTTTAGAATTAAG
*
114498 GGTTTAGGGTTTATAATTAA
1 GGTTTAGGGTTTAGAATTAA
114518 ATTAAGTTAG
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:0.24, C:0.00, G:0.34, T:0.41
Consensus pattern (21 bp):
GGTTTAGGGTTTAGAATTAAG
Found at i:114539 original size:29 final size:29
Alignment explanation
Indices: 114496--115340 Score: 1040
Period size: 30 Copynumber: 29.2 Consensus size: 29
114486 TTTAGGGTTA
114496 AGGGTTTAGGGTTTATAATTAAATTAAGTT
1 AGGG-TTAGGGTTTATAATTAAATTAAGTT
* *
114526 AGGGTTAAGGTTTATAATTAAATTAGGTT
1 AGGGTTAGGGTTTATAATTAAATTAAGTT
* *
114555 AGGGTTTAGTGTTTTTAATTAAATTAAGTT
1 AGGG-TTAGGGTTTATAATTAAATTAAGTT
* *
114585 AGGGTTAGGGTTTATAATTAAATCAGGTT
1 AGGGTTAGGGTTTATAATTAAATTAAGTT
* *
114614 AGGGTTTAGAGTTTTTAATTAAATTAAGTT
1 AGGG-TTAGGGTTTATAATTAAATTAAGTT
* *
114644 AGGGTTAGGGTTTATAATTAAATCAGGTT
1 AGGGTTAGGGTTTATAATTAAATTAAGTT
114673 AGGGTTTAGGGTTTATAATTAAATTAAGTT
1 AGGG-TTAGGGTTTATAATTAAATTAAGTT
*
114703 AGGGTTTAGGGTTTATAATTAAATTAGGTT
1 AGGG-TTAGGGTTTATAATTAAATTAAGTT
*
114733 AGGGTTTAGGGTTTGTAATTAAATTAAGTT
1 AGGG-TTAGGGTTTATAATTAAATTAAGTT
* *
114763 AGGGTTAGGGTTTGTAATTAAATTAGGTT
1 AGGGTTAGGGTTTATAATTAAATTAAGTT
* *
114792 AGGGTTTGGGGTTTGTAATTAAATTAAGTT
1 AGGG-TTAGGGTTTATAATTAAATTAAGTT
*
114822 AGGGTTTAGGGTTTTTAATTAAATTAAGTT
1 AGGG-TTAGGGTTTATAATTAAATTAAGTT
*
114852 AGGGTTTAGAGTTTATAATTAAATTAAGTT
1 AGGG-TTAGGGTTTATAATTAAATTAAGTT
* *
114882 AGGGTTTAAGGTTTTTAATTAAATTAAGTT
1 AGGG-TTAGGGTTTATAATTAAATTAAGTT
*
114912 AGGGTTTAGGGTTTTTAATTAAATTAAGTT
1 AGGG-TTAGGGTTTATAATTAAATTAAGTT
*
114942 AGGGTTAGGGTTTATAATTAAATTAGGTT
1 AGGGTTAGGGTTTATAATTAAATTAAGTT
*
114971 AGGGTTAGGGTTTTTAATTAAATTAAGTT
1 AGGGTTAGGGTTTATAATTAAATTAAGTT
*
115000 AGGGTTAGGGTTTATAATTAAATTAGGTT
1 AGGGTTAGGGTTTATAATTAAATTAAGTT
* * *
115029 AGAGTTAGGGTTTTTAATTAAATTTA--T
1 AGGGTTAGGGTTTATAATTAAATTAAGTT
* *
115056 -GGTTTAGAGTTTATAATTAAATTAAGTT
1 AGGGTTAGGGTTTATAATTAAATTAAGTT
* *
115084 AGGGTTATGGTTTATAATTAAATTAGGTT
1 AGGGTTAGGGTTTATAATTAAATTAAGTT
*
115113 AGGGTTAGGGTTTTTAATTAAATTAAGTT
1 AGGGTTAGGGTTTATAATTAAATTAAGTT
* *
115142 A-GGTTAGGGGTTT-TAATTCAATTAGGTT
1 AGGGTTA-GGGTTTATAATTAAATTAAGTT
* *
115170 AGGTTTTAGGGTTTATAATTACATTAAGTT
1 AGG-GTTAGGGTTTATAATTAAATTAAGTT
* * *
115200 A-GGTTAGGGTTTTTAATTCAATTAGGTT
1 AGGGTTAGGGTTTATAATTAAATTAAGTT
*
115228 A-GGTTAGGGTTT-TCAATTCAATTAAGTT
1 AGGGTTAGGGTTTAT-AATTAAATTAAGTT
115256 AGGG-T----TTT-TAATTAAATTAAGTT
1 AGGGTTAGGGTTTATAATTAAATTAAGTT
* *
115279 A-GGTTAGGGGTTT-TAATTCAATTAGGTT
1 AGGGTTA-GGGTTTATAATTAAATTAAGTT
* *
115307 A-GGTTAGGGTTTTTAATTCAATTAAGTT
1 AGGGTTAGGGTTTATAATTAAATTAAGTT
115335 AGGGTT
1 AGGGTT
115341 TTTAATTAAA
Statistics
Matches: 722, Mismatches: 72, Indels: 43
0.86 0.09 0.05
Matches are distributed among these distances:
22 2 0.00
23 15 0.02
24 4 0.01
26 20 0.03
27 8 0.01
28 105 0.15
29 275 0.38
30 293 0.41
ACGTcount: A:0.31, C:0.01, G:0.24, T:0.44
Consensus pattern (29 bp):
AGGGTTAGGGTTTATAATTAAATTAAGTT
Found at i:114551 original size:24 final size:23
Alignment explanation
Indices: 114517--114562 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
114507 TTTATAATTA
*
114517 AATTAAGTTAGGGTTAAGGTTTAT
1 AATTAAATTA-GGTTAAGGTTTAT
*
114541 AATTAAATTAGGTTAGGGTTTA
1 AATTAAATTAGGTTAAGGTTTA
114563 GTGTTTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.35, C:0.00, G:0.24, T:0.41
Consensus pattern (23 bp):
AATTAAATTAGGTTAAGGTTTAT
Found at i:114574 original size:59 final size:59
Alignment explanation
Indices: 114491--115340 Score: 1125
Period size: 59 Copynumber: 14.7 Consensus size: 59
114481 TAGGGTTTAG
* *
114491 GGTTAAGGGTTTAGGGTTTATAATTAAATTAAGTTAGGGTTAAGGTTTATAATTAAATTA
1 GGTT-AGGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGGTTTATAATTAAATTA
* *
114551 GGTTAGGGTTTAGTGTTTTTAATTAAATTAAGTTAGGGTTAGGGTTTATAATTAAATCA
1 GGTTAGGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGGTTTATAATTAAATTA
* *
114610 GGTTAGGGTTTAGAGTTTTTAATTAAATTAAGTTAGGGTTAGGGTTTATAATTAAATCA
1 GGTTAGGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGGTTTATAATTAAATTA
*
114669 GGTTAGGGTTTAGGGTTTATAATTAAATTAAGTTAGGGTTTAGGGTTTATAATTAAATTA
1 GGTTAGGGTTTAGGGTTTTTAATTAAATTAAGTTAGGG-TTAGGGTTTATAATTAAATTA
* *
114729 GGTTAGGGTTTAGGGTTTGTAATTAAATTAAGTTAGGGTTAGGGTTTGTAATTAAATTA
1 GGTTAGGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGGTTTATAATTAAATTA
* * *
114788 GGTTAGGGTTTGGGGTTTGTAATTAAATTAAGTTAGGGTTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTAGGGTTTTTAATTAAATTAAGTTAGGG-TTAGGGTTTATAATTAAATTA
* * * * *
114848 AGTTAGGGTTTAGAGTTTATAATTAAATTAAGTTAGGGTTTAAGGTTTTTAATTAAATTA
1 GGTTAGGGTTTAGGGTTTTTAATTAAATTAAGTTAGGG-TTAGGGTTTATAATTAAATTA
*
114908 AGTTAGGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGGTTTATAATTAAATTA
1 GGTTAGGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGGTTTATAATTAAATTA
114967 GGTTAGGG-TTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGGTTTATAATTAAATTA
1 GGTTAGGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGGTTTATAATTAAATTA
* * * *
115025 GGTTAGAG-TTAGGGTTTTTAATTAAATTTA--T-GGTTTAGAGTTTATAATTAAATTA
1 GGTTAGGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGGTTTATAATTAAATTA
* * * * *
115080 AGTTAGGG-TTATGGTTTATAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGGTTTATAATTAAATTA
* * * * * *
115138 AGTTA-GG-TTAGGGGTTTTAATTCAATTAGGTTAGGTTTTAGGGTTTATAATTACATTA
1 GGTTAGGGTTTAGGGTTTTTAATTAAATTAAGTTAGG-GTTAGGGTTTATAATTAAATTA
* * * *
115196 AGTTA-GG-TTAGGGTTTTTAATTCAATTAGGTTA-GGTTAGGGTTT-TCAATTCAATTA
1 GGTTAGGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGGTTTAT-AATTAAATTA
*
115252 ----A--G-TTAGGGTTTTTAATTAAATTAAGTTA-GGTTAGGGGTTT-TAATTCAATTA
1 GGTTAGGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTA-GGGTTTATAATTAAATTA
*
115303 GGTTA-GG-TTAGGGTTTTTAATTCAATTAAGTTAGGGTT
1 GGTTAGGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTT
115341 TTTAATTAAA
Statistics
Matches: 727, Mismatches: 49, Indels: 31
0.90 0.06 0.04
Matches are distributed among these distances:
51 40 0.06
52 8 0.01
55 48 0.07
56 44 0.06
57 32 0.04
58 155 0.21
59 228 0.31
60 172 0.24
ACGTcount: A:0.31, C:0.01, G:0.24, T:0.44
Consensus pattern (59 bp):
GGTTAGGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGGTTTATAATTAAATTA
Found at i:115224 original size:23 final size:24
Alignment explanation
Indices: 115133--115356 Score: 148
Period size: 28 Copynumber: 8.5 Consensus size: 24
115123 TTTTTAATTA
*
115133 AATT-AAGTTAGGTTAGGGGTTTT
1 AATTCAAGTTAGGTTAGGGTTTTT
*
115156 AATTCAATTAGGTTAGGTTTTAGGGTTTAT
1 AATTC-A--A-GTTAGG--TTAGGGTTTTT
115186 AATTACATTAAGTTAGGTTAGGGTTTTT
1 AATT-C---AAGTTAGGTTAGGGTTTTT
*
115214 AATTCAATTAGGTTAGGTTAGGGTTTTC
1 AATTC-A--A-GTTAGGTTAGGGTTTTT
*
115242 AATTCAA-TTAAGTTAGGGTTTTT
1 AATTCAAGTTAGGTTAGGGTTTTT
* *
115265 AATTAAATTAAGTTAGGTTAGGGGTTTT
1 AA-T---TCAAGTTAGGTTAGGGTTTTT
115293 AATTCAATTAGGTTAGGTTAGGGTTTTT
1 AATTC-A--A-GTTAGGTTAGGGTTTTT
*
115321 AATTCAA-TTAAGTTAGGGTTTTT
1 AATTCAAGTTAGGTTAGGGTTTTT
* *
115344 AATTAAATTTAGG
1 AATTCAAGTTAGG
115357 GGTTTTAATC
Statistics
Matches: 162, Mismatches: 16, Indels: 45
0.73 0.07 0.20
Matches are distributed among these distances:
23 41 0.25
24 6 0.04
25 5 0.03
27 10 0.06
28 78 0.48
30 19 0.12
31 2 0.01
33 1 0.01
ACGTcount: A:0.29, C:0.03, G:0.23, T:0.45
Consensus pattern (24 bp):
AATTCAAGTTAGGTTAGGGTTTTT
Found at i:115357 original size:19 final size:19
Alignment explanation
Indices: 115310--115370 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 19
115300 TTAGGTTAGG
*
115310 TTAGGGTTTTTAATTCAATTAAG
1 TTAGGGTTTTTAATT--A--AAT
115333 TTAGGGTTTTTAATTAAAT
1 TTAGGGTTTTTAATTAAAT
* *
115352 TTAGGGGTTTTAATCAAAT
1 TTAGGGTTTTTAATTAAAT
115371 AATGTCAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 19 0.54
21 1 0.03
23 15 0.43
ACGTcount: A:0.31, C:0.03, G:0.18, T:0.48
Consensus pattern (19 bp):
TTAGGGTTTTTAATTAAAT
Found at i:117213 original size:14 final size:15
Alignment explanation
Indices: 117196--117229 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
117186 AATAAATATC
117196 TAAAAATA-CATAAA
1 TAAAAATAGCATAAA
*
117210 TAAAAATAGCTTAAA
1 TAAAAATAGCATAAA
117225 TAAAA
1 TAAAA
117230 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.03, T:0.24
Consensus pattern (15 bp):
TAAAAATAGCATAAA
Found at i:117362 original size:29 final size:29
Alignment explanation
Indices: 117328--117384 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
117318 TGAAAATTTT
*
117328 AAAAATTTTAAAATTATT-TTAAAAAAATA
1 AAAAATTGTAAAATT-TTCTTAAAAAAATA
*
117357 AAAAATTGTATAATTTTCTTAAAAAAAT
1 AAAAATTGTAAAATTTTCTTAAAAAAAT
117385 GAAATTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (29 bp):
AAAAATTGTAAAATTTTCTTAAAAAAATA
Found at i:117456 original size:22 final size:22
Alignment explanation
Indices: 117426--117467 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
117416 ATTTGGAGAT
*
117426 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
117448 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
117468 TTTGAGATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:117494 original size:22 final size:21
Alignment explanation
Indices: 117469--117545 Score: 93
Period size: 22 Copynumber: 3.6 Consensus size: 21
117459 ATTTGAGAGT
*
117469 TTGAGATAATTTTGGAAGGAAA
1 TTGAGAGAATTTT-GAAGGAAA
*
117491 TTGAGAGAACTTTTGAAGGGAA
1 TTGAGAGAA-TTTTGAAGGAAA
117513 TTGAGAGAATTTTTGAA-GAAA
1 TTGAGAGAA-TTTTGAAGGAAA
*
117534 TTAAGAGAATTT
1 TTGAGAGAATTT
117546 GTTTGTGAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
20 3 0.06
21 11 0.22
22 31 0.63
23 4 0.08
ACGTcount: A:0.40, C:0.01, G:0.26, T:0.32
Consensus pattern (21 bp):
TTGAGAGAATTTTGAAGGAAA
Found at i:120901 original size:112 final size:111
Alignment explanation
Indices: 120680--120907 Score: 332
Period size: 112 Copynumber: 2.0 Consensus size: 111
120670 GTCTGTTCAA
120680 TTCAATTAAAAAATATTAAAAATTTAGTTCACCCAATCTATATTGCTTCCCAAGTCAATTGTTTC
1 TTCAATTAAAAAATATTAAAAATTTAGTTCACCCAATCTATATTGCTTCCCAAGTCAATTGTTTC
* * * * * *
120745 AATGCCCTTTTCTGGAATAGTACCTCTGCTCAAGTGGTCGGTCCAG
66 AATGCCCTTGTCTGGAACAGTACATCTGATCAAGCGGTCAGTCCAG
* *
120791 TTCAATTAAAAAAATATTAAAAATTTAGTTCACCCAATCTATATTGTTTTCCAAGTCAATTGTTT
1 TTCAATT-AAAAAATATTAAAAATTTAGTTCACCCAATCTATATTGCTTCCCAAGTCAATTGTTT
* * *
120856 CAATGTCCTTGTCTGGAACGGTACAT-TGGATCGAGCGGTCAGTCCAG
65 CAATGCCCTTGTCTGGAACAGTACATCT-GATCAAGCGGTCAGTCCAG
120903 TTCAA
1 TTCAA
120908 ACAACCTTGA
Statistics
Matches: 104, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
111 8 0.08
112 96 0.92
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (111 bp):
TTCAATTAAAAAATATTAAAAATTTAGTTCACCCAATCTATATTGCTTCCCAAGTCAATTGTTTC
AATGCCCTTGTCTGGAACAGTACATCTGATCAAGCGGTCAGTCCAG
Found at i:128131 original size:24 final size:22
Alignment explanation
Indices: 128074--128137 Score: 69
Period size: 24 Copynumber: 2.9 Consensus size: 22
128064 CAAAATATTA
*
128074 ATAAAATTA-TTTTATATTAAT
1 ATAAAAATATTTTTATATTAAT
*
128095 ATATAAATATTTTTATAATTAAAT
1 ATAAAAATATTTTTAT-ATT-AAT
*
128119 TTAAAAATATTTTT-TATTA
1 ATAAAAATATTTTTATATTA
128138 TTTAAATCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 8 0.22
22 9 0.25
23 4 0.11
24 15 0.42
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
ATAAAAATATTTTTATATTAAT
Found at i:128529 original size:17 final size:17
Alignment explanation
Indices: 128507--128607 Score: 80
Period size: 17 Copynumber: 5.6 Consensus size: 17
128497 TAAAATACTT
* *
128507 TTTTAAATTTTTTTTAA
1 TTTTAAAATATTTTTAA
128524 TTTTAAAATATTTTTAAAATA
1 TTTTAAAATATTTTT---A-A
128545 CTTTTTAAAATATTTTTAA
1 --TTTTAAAATATTTTTAA
128564 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
**
128581 -AAT-AAATATTTTTTAA
1 TTTTAAAATA-TTTTTAA
128597 TTTTTAAAATA
1 -TTTTAAAATA
128608 AATTTTGATA
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
15 5 0.07
16 8 0.12
17 30 0.44
18 1 0.01
19 6 0.09
20 2 0.03
21 1 0.01
23 15 0.22
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:128550 original size:40 final size:41
Alignment explanation
Indices: 128473--128584 Score: 190
Period size: 40 Copynumber: 2.8 Consensus size: 41
128463 AAATATTTTT
*
128473 ATTTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTAAA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAAA
*
128514 TTTTTTTTAATTTTAAAATATTTTTAAAATAC-TTTTTAAA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAAA
*
128554 ATATTTTTAATTTTAAAATATTTTTAAAATA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATA
128585 AATATTTTTT
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
40 37 0.55
41 30 0.45
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (41 bp):
ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAAA
Found at i:128578 original size:11 final size:11
Alignment explanation
Indices: 128483--128584 Score: 87
Period size: 11 Copynumber: 9.9 Consensus size: 11
128473 ATTTTTTTAA
*
128483 TTTTAAAATAC
1 TTTTAAAATAT
128494 TTTTAAAATACT
1 TTTTAAAATA-T
*
128506 TTTTTAAAT-T
1 TTTTAAAATAT
* *
128516 TTTT---TTAA
1 TTTTAAAATAT
128524 TTTTAAAATAT
1 TTTTAAAATAT
128535 TTTTAAAATACT
1 TTTTAAAATA-T
128547 TTTTAAAATAT
1 TTTTAAAATAT
128558 TTTT---A-A-
1 TTTTAAAATAT
128564 TTTTAAAATAT
1 TTTTAAAATAT
128575 TTTTAAAATA
1 TTTTAAAATA
128585 AATATTTTTT
Statistics
Matches: 74, Mismatches: 6, Indels: 22
0.73 0.06 0.22
Matches are distributed among these distances:
6 4 0.05
7 2 0.03
8 5 0.07
9 1 0.01
10 6 0.08
11 37 0.50
12 19 0.26
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:128600 original size:40 final size:39
Alignment explanation
Indices: 128468--128603 Score: 150
Period size: 41 Copynumber: 3.4 Consensus size: 39
128458 ATAATAAATA
* * *
128468 TTTTT-ATTTTTTTAATTTTAAAATACTTTTAAAATACT
1 TTTTTAATATTTTTAATTTTAAAATATTTTTAAAATAAT
* *
128506 TTTTTAAATTTTTTTTAATTTTAAAATATTTTTAAAATACT
1 TTTTT-AA-TATTTTTAATTTTAAAATATTTTTAAAATAAT
*
128547 TTTTAAAATATTTTTAATTTTAAAATATTTTTAAAATAAAT
1 TTTT-TAATATTTTTAATTTTAAAATATTTTTAAAAT-AAT
*
128588 ATTTTTTA-ATTTTTAA
1 -TTTTTAATATTTTTAA
128604 AATAAATTTT
Statistics
Matches: 86, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
38 5 0.06
40 37 0.43
41 40 0.47
42 4 0.05
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (39 bp):
TTTTTAATATTTTTAATTTTAAAATATTTTTAAAATAAT
Found at i:128625 original size:23 final size:23
Alignment explanation
Indices: 128573--128628 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
128563 ATTTTAAAAT
**
128573 ATTTTTAAAATAAATATTTTTTA
1 ATTTTTAAAATAAATATTTGATA
128596 ATTTTTAAAATAAAT-TTTGATA
1 ATTTTTAAAATAAATATTTGATA
*
128618 TTTATTTAAAA
1 ATT-TTTAAAA
128629 AAAAGGCCCG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 7 0.24
23 22 0.76
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (23 bp):
ATTTTTAAAATAAATATTTGATA
Found at i:132568 original size:21 final size:20
Alignment explanation
Indices: 132542--132588 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
132532 TGAATGCTGA
* *
132542 TTTTTGGTTAAGATTTTTCAT
1 TTTTTGGATAAGAATTTT-AT
132563 TTTTTGGATAAGAATTTTAT
1 TTTTTGGATAAGAATTTTAT
*
132583 TGTTTG
1 TTTTTG
132589 ATTTGTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.21, C:0.02, G:0.17, T:0.60
Consensus pattern (20 bp):
TTTTTGGATAAGAATTTTAT
Found at i:136832 original size:6 final size:7
Alignment explanation
Indices: 136812--136836 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
136802 TAAAATCATT
136812 AATAAAA
1 AATAAAA
136819 AATAAAA
1 AATAAAA
136826 AATAAAA
1 AATAAAA
136833 AATA
1 AATA
136837 TTTTTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
AATAAAA
Found at i:137158 original size:13 final size:13
Alignment explanation
Indices: 137142--137194 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
137132 TTTAAGCTAA
137142 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* **
137155 ACTTCTCAAAATA
1 ACTTTTCAAAAGC
*
137168 ACTTTTTCACAA-C
1 AC-TTTTCAAAAGC
137181 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
137194 A
1 A
137195 ACGAAAAATT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
12 8 0.26
13 16 0.52
14 7 0.23
ACGTcount: A:0.40, C:0.25, G:0.04, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:137483 original size:20 final size:19
Alignment explanation
Indices: 137453--137503 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
137443 AGTAAAGTAT
137453 AAATA-ATTAAATGAAAAC
1 AAATACATTAAATGAAAAC
*
137471 GAAATACATTAAACG-AAAC
1 -AAATACATTAAATGAAAAC
137490 AAA-AC-TTAAATGAA
1 AAATACATTAAATGAA
137504 TTAAATTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
16 6 0.21
17 3 0.11
18 3 0.11
19 9 0.32
20 7 0.25
ACGTcount: A:0.63, C:0.10, G:0.08, T:0.20
Consensus pattern (19 bp):
AAATACATTAAATGAAAAC
Found at i:141585 original size:26 final size:28
Alignment explanation
Indices: 141549--141606 Score: 75
Period size: 26 Copynumber: 2.1 Consensus size: 28
141539 CTCAAATAAA
*
141549 AAATAATAATATT-TTATAATTAAAT-T
1 AAATAAGAATATTATTATAATTAAATAT
* *
141575 AAATAAGAATATTATTGTTATTAAATAT
1 AAATAAGAATATTATTATAATTAAATAT
141603 AAAT
1 AAAT
141607 TCCAAGGCAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 12 0.44
27 10 0.37
28 5 0.19
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (28 bp):
AAATAAGAATATTATTATAATTAAATAT
Found at i:144300 original size:132 final size:132
Alignment explanation
Indices: 144049--144443 Score: 664
Period size: 132 Copynumber: 3.0 Consensus size: 132
144039 CACGAGCATA
144049 TCTCCTTGATTAGAGGGATGAAGCTGAGAACATTCTTCAAAATTTTCTCCCATGCCAGGATTAAT
1 TCTCCTTGATTAGAGGGATGAAGCTGAGAACATTCTTCAAAATTTTCTCCCATGCCAGGATTAAT
* * * * * *
144114 TTCATCAACTTGTGGGGTTTCTACGGTTGATAAAGTAGCCGCAAGGGAAACTTCCTCCGACCTAG
66 TTCAACAACTTGAGGGTTTTCTACGGTTGATAAAGTAGCCACGAGGGTAACTTCCTCCGACCTAG
144179 CC
131 CC
* *
144181 TCTCCTTGATTGGAGGGATGAAGCTGAGAACATTCTTCAAAATTTTCTCCCACGCCAGGATTAAT
1 TCTCCTTGATTAGAGGGATGAAGCTGAGAACATTCTTCAAAATTTTCTCCCATGCCAGGATTAAT
*
144246 TTCAACAACTTGAGGGTTTTCTACGGTTGATAAAGTAGCCACGAGGGTACCTTCCTCCGACCTAG
66 TTCAACAACTTGAGGGTTTTCTACGGTTGATAAAGTAGCCACGAGGGTAACTTCCTCCGACCTAG
144311 CC
131 CC
*
144313 TCTCCTTGATTAGAGGGATGAAGCTGAGAACATTCTTCAAAATTTACTCCCATGCCAGGATTAAT
1 TCTCCTTGATTAGAGGGATGAAGCTGAGAACATTCTTCAAAATTTTCTCCCATGCCAGGATTAAT
* * * *
144378 TTCAACAACTTCAGGGTTTTCTATGGTTGATAAAGTAGCCACGAAGGTAACTGCCTCCGACCTAG
66 TTCAACAACTTGAGGGTTTTCTACGGTTGATAAAGTAGCCACGAGGGTAACTTCCTCCGACCTAG
144443 C
131 C
144444 TTGTTCTTCT
Statistics
Matches: 246, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 246 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (132 bp):
TCTCCTTGATTAGAGGGATGAAGCTGAGAACATTCTTCAAAATTTTCTCCCATGCCAGGATTAAT
TTCAACAACTTGAGGGTTTTCTACGGTTGATAAAGTAGCCACGAGGGTAACTTCCTCCGACCTAG
CC
Found at i:148562 original size:30 final size:30
Alignment explanation
Indices: 148526--148587 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
148516 TCCCAATAGG
148526 CATAAACTATAACTATTGTCGAACTCGGAA
1 CATAAACTATAACTATTGTCGAACTCGGAA
148556 CATAAACTATAACTATTGTCGAACTCGGAA
1 CATAAACTATAACTATTGTCGAACTCGGAA
148586 CA
1 CA
148588 CCTTCATCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.26
Consensus pattern (30 bp):
CATAAACTATAACTATTGTCGAACTCGGAA
Found at i:152946 original size:48 final size:49
Alignment explanation
Indices: 152867--152980 Score: 124
Period size: 48 Copynumber: 2.3 Consensus size: 49
152857 GTGGTATGAA
*
152867 ACTTGAACTCGTGACTGCATAATAATCATCAACT-GGAGCCCGAGTTAT
1 ACTTGAACTCGTGACTGCATAACAATCATCAACTGGGAGCCCGAGTTAT
* * * * **
152915 ACTTGAACTTGTGACTGCATAGCCA-CTATCAATTGGGAGCCTTAGTTAT
1 ACTTGAACTCGTGACTGCATAACAATC-ATCAACTGGGAGCCCGAGTTAT
* *
152964 ATTTCAACTCGTGACTG
1 ACTTGAACTCGTGACTG
152981 TATCCACCAT
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
47 1 0.02
48 27 0.50
49 26 0.48
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (49 bp):
ACTTGAACTCGTGACTGCATAACAATCATCAACTGGGAGCCCGAGTTAT
Found at i:154155 original size:30 final size:30
Alignment explanation
Indices: 154116--154203 Score: 90
Period size: 30 Copynumber: 2.9 Consensus size: 30
154106 AAATTTTAAA
* **
154116 TTAATAATGATAAAATTATATTTTAAATTT
1 TTAAAAATGATAAAATTATATTTTAAACCT
*
154146 TTAAAAATGATAAAAATT-TAATTTAAACCT
1 TTAAAAATGAT-AAAATTATATTTTAAACCT
*
154176 TTAAAAATAAT-AAATATATATTATTAAA
1 TTAAAAATGATAAAAT-TATATT-TTAAA
154204 ATGATAAAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
28 4 0.08
29 1 0.02
30 32 0.67
31 11 0.23
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (30 bp):
TTAAAAATGATAAAATTATATTTTAAACCT
Found at i:155197 original size:19 final size:19
Alignment explanation
Indices: 155173--155211 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
155163 GCTTTATCAA
155173 TAAGGTAATCTTTTCTACT
1 TAAGGTAATCTTTTCTACT
155192 TAAGGTAATCTTTTCTACT
1 TAAGGTAATCTTTTCTACT
155211 T
1 T
155212 TTTTTTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.15, G:0.10, T:0.49
Consensus pattern (19 bp):
TAAGGTAATCTTTTCTACT
Found at i:155271 original size:33 final size:33
Alignment explanation
Indices: 155229--155333 Score: 112
Period size: 33 Copynumber: 3.3 Consensus size: 33
155219 TTACTTTACA
155229 TTCATGTTTATTGTAGGTATTTAAACTGTGGGT
1 TTCATGTTTATTGTAGGTATTTAAACTGTGGGT
* ** ****
155262 TTCATGTTTA-T-AATTTATTT--ACT-TTACA
1 TTCATGTTTATTGTAGGTATTTAAACTGTGGGT
155290 TTCATGTTTATTGTAGGTATTTAAACTGTGGGT
1 TTCATGTTTATTGTAGGTATTTAAACTGTGGGT
155323 TTCATGTTTAT
1 TTCATGTTTAT
155334 AATTTAAGAA
Statistics
Matches: 53, Mismatches: 14, Indels: 10
0.69 0.18 0.13
Matches are distributed among these distances:
28 11 0.21
29 4 0.08
30 6 0.11
31 6 0.11
32 4 0.08
33 22 0.42
ACGTcount: A:0.23, C:0.08, G:0.17, T:0.52
Consensus pattern (33 bp):
TTCATGTTTATTGTAGGTATTTAAACTGTGGGT
Found at i:155313 original size:61 final size:61
Alignment explanation
Indices: 155218--155339 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
155208 ACTTTTTTTT
155218 TTTACTTTACATTCATGTTTATTGTAGGTATTTAAACTGTGGGTTTCATGTTTATAATTTA
1 TTTACTTTACATTCATGTTTATTGTAGGTATTTAAACTGTGGGTTTCATGTTTATAATTTA
155279 TTTACTTTACATTCATGTTTATTGTAGGTATTTAAACTGTGGGTTTCATGTTTATAATTTA
1 TTTACTTTACATTCATGTTTATTGTAGGTATTTAAACTGTGGGTTTCATGTTTATAATTTA
155340 AGAAAATGGA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.25, C:0.08, G:0.15, T:0.52
Consensus pattern (61 bp):
TTTACTTTACATTCATGTTTATTGTAGGTATTTAAACTGTGGGTTTCATGTTTATAATTTA
Found at i:172995 original size:21 final size:20
Alignment explanation
Indices: 172959--172997 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
172949 TTATTGATAT
*
172959 TTAAAAAATTATATATAAGA
1 TTAAAAAATTAAATATAAGA
172979 TTAAAAAATTTAAATATAA
1 TTAAAAAA-TTAAATATAA
172998 AATATCTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (20 bp):
TTAAAAAATTAAATATAAGA
Found at i:177021 original size:23 final size:24
Alignment explanation
Indices: 176963--177027 Score: 89
Period size: 23 Copynumber: 2.7 Consensus size: 24
176953 ATAATTTCAT
*
176963 ATTTATATTAATTATATTAATATA
1 ATTTATATTAATTATATCAATATA
176987 ATTATATATTAATTATATCAA-A-A
1 ATT-TATATTAATTATATCAATATA
177010 ATATTATATTAATTATAT
1 AT-TTATATTAATTATAT
177028 ATGTTAAATA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
23 17 0.45
24 5 0.13
25 16 0.42
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (24 bp):
ATTTATATTAATTATATCAATATA
Found at i:177024 original size:9 final size:9
Alignment explanation
Indices: 176965--177004 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
176955 AATTTCATAT
176965 TTATATTAA
1 TTATATTAA
176974 TTATATTAA
1 TTATATTAA
176983 -TATAATT-A
1 TTAT-ATTAA
176991 -TATATTAA
1 TTATATTAA
176999 TTATAT
1 TTATAT
177005 CAAAAATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
7 3 0.11
8 8 0.29
9 17 0.61
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
TTATATTAA
Found at i:177086 original size:85 final size:84
Alignment explanation
Indices: 176917--177073 Score: 241
Period size: 85 Copynumber: 1.9 Consensus size: 84
176907 TATATTATGT
176917 TATCAAAAATATTATATTAATTATATATGTTAAATAATAATTTCATATTTATATTAATTATATTA
1 TATCAAAAATATTATATTAATTATATATGTTAAATAATAATTTCATATTTATATT-ATTATATTA
* *
176982 ATATAATTATATATTAATTA
65 ATATAATAATATAATAATTA
177002 TATCAAAAATATTATATTAATTATATATGTTAAATAATAATTAT-ATATTTATA-T-TTATATTA
1 TATCAAAAATATTATATTAATTATATATGTTAAATAATAATT-TCATATTTATATTATTATATTA
177064 A-ATAACTAAT
65 ATATAA-TAAT
177074 CCAGTAATAA
Statistics
Matches: 69, Mismatches: 1, Indels: 7
0.90 0.01 0.09
Matches are distributed among these distances:
81 4 0.06
82 12 0.17
84 1 0.01
85 51 0.74
86 1 0.01
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (84 bp):
TATCAAAAATATTATATTAATTATATATGTTAAATAATAATTTCATATTTATATTATTATATTAA
TATAATAATATAATAATTA
Found at i:180295 original size:27 final size:27
Alignment explanation
Indices: 180257--180310 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
180247 TGCTTAATTG
180257 GTTTAAATAGTGTCAATTTTTTTGTTA
1 GTTTAAATAGTGTCAATTTTTTTGTTA
180284 GTTTAAATAGTGTCAATTTTTTTGTTA
1 GTTTAAATAGTGTCAATTTTTTTGTTA
180311 ATCTTTTCAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.04, G:0.15, T:0.56
Consensus pattern (27 bp):
GTTTAAATAGTGTCAATTTTTTTGTTA
Found at i:184874 original size:44 final size:42
Alignment explanation
Indices: 184823--184933 Score: 123
Period size: 44 Copynumber: 2.5 Consensus size: 42
184813 GATCTGCTCT
*
184823 CTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCA
1 CTGCAACTTCAG-GAGATAAGATCC-AGGCTTTAATCCACTCCA
* * * **
184867 CTGCAACTTTAGGAAGATAGGATTCCTGGCTTTAATCTGCTCCA
1 CTGCAACTTCAGG-AGATAAGA-TCCAGGCTTTAATCCACTCCA
184911 CTGCAACTTCAGGGAGATAAGAT
1 CTGCAACTTCA-GGAGATAAGAT
184934 TTGCCATCTT
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
43 2 0.04
44 49 0.88
45 5 0.09
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.27
Consensus pattern (42 bp):
CTGCAACTTCAGGAGATAAGATCCAGGCTTTAATCCACTCCA
Found at i:185004 original size:89 final size:89
Alignment explanation
Indices: 184902--185453 Score: 298
Period size: 89 Copynumber: 6.3 Consensus size: 89
184892 CTGGCTTTAA
184902 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTG-CTCACTGCAACTTCA
184967 GGAG-GATAAGACTTGCTTACTTAG
65 GGAGAGATAAGACTTGCTTACTTAG
* * * * * **
184991 TCCGCTCCACTGCAACTTCAGGGAGATAAGACTAG--A--TGC-GATATGCTTTCTGCAACTTCA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAG-TCTGCTCACTGCAACTTCA
* ** * *
185051 -GAGATATAAGATCCAAGGTT--TTAT
65 GGAGAGATAAGA--CTTGCTTACTTAG
* * * * * *
185075 TTTGC-CCACTGTAACTTCAGCGG-GATAGGA-TTACCGA-CTTTAATCTGCTCTACTGCAACTT
1 TCTGCTCCACTGCAACTTCAG-GGAGATAAGATTTGCC-ATCTTCAGTCTGCTC-ACTGCAACTT
* *
185136 CAGG-GAGATAAGATTTGC-CATCTTCAG
63 CAGGAGAGATAAGACTTGCTTA-CTT-AG
* * * * *
185163 TCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTT-ACTTACCT-AGTCCGCTCCACTGCAACT
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGATTTGCCAT-CTTCAGTCTGCT-CACTGCAACT
* *
185224 TCAGG-GAGATAAGACTAG---A-TGAG
62 TCAGGAGAGATAAGACTTGCTTACTTAG
* * * * **** * * * *
185247 ATCTGCT-CTCTGCAATTTCAGAGAGATAAGATCTAAGGT-TTTAATCCGCCCACTGCAACTTCA
1 -TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCTCACTGCAACTTCA
* * * *** *
185310 -GCGAGATAGGA-TTACCGGCTTTAA
65 GGAGAGATAAGACTTGCTTAC-TTAG
* *
185334 TCTGTTCCACTGTAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTG-CTCACTGCAACTTCA
*
185399 GAAG-GATAAGACTTGCTTACTTAG
65 GGAGAGATAAGACTTGCTTACTTAG
* *
185423 TCCGCTCCACTGTAACTTCAGGGAGATAAGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA
185454 CTAGATGCGA
Statistics
Matches: 342, Mismatches: 82, Indels: 78
0.68 0.16 0.16
Matches are distributed among these distances:
82 3 0.01
83 45 0.13
84 55 0.16
85 17 0.05
86 15 0.04
87 50 0.15
88 13 0.04
89 134 0.39
90 10 0.03
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.28
Consensus pattern (89 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCTCACTGCAACTTCAG
GAGAGATAAGACTTGCTTACTTAG
Found at i:185161 original size:216 final size:216
Alignment explanation
Indices: 184786--185615 Score: 1340
Period size: 216 Copynumber: 3.8 Consensus size: 216
184776 CACCCTGGCT
* * *
184786 CAACTTCAGGGAGATAACACTAAATACGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAG
1 CAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAG
* *
184851 GTTTTAATCCACTCCACTGCAACTTTAG-GAAGATAGGATT-CCTGGCTTTAATCTGCTCCACTG
66 GTTTTAATCCGC-CCACTGCAACTTCAGCG-AGATAGGATTACC-GGCTTTAATCTGCTCCACTG
184914 CAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGAC
128 CAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGAC
184979 TTGCTTACTTAGTCCGCTCCACTG
193 TTGCTTACTTAGTCCGCTCCACTG
* * *
185003 CAACTTCAGGGAGATAAGACTAGATGCGATATGCTTTCTGCAACTTCAGAGATATAAGATCCAAG
1 CAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAG
* ** * * * *
185068 GTTTTATTTTGCCCACTGTAACTTCAGCGGGATAGGATTACCGACTTTAATCTGCTCTACTGCAA
66 GTTTTAATCCGCCCACTGCAACTTCAGCGAGATAGGATTACCGGCTTTAATCTGCTCCACTGCAA
*
185133 CTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTA
131 CTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTG
*
185198 CTTACCTAGTCCGCTCCACTG
196 CTTACTTAGTCCGCTCCACTG
* * *
185219 CAACTTCAGGGAGATAAGACTAGATGAGATCTGCTCTCTGCAATTTCAGAGAGATAAGATCTAAG
1 CAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAG
* *
185284 GTTTTAATCCGCCCACTGCAACTTCAGCGAGATAGGATTACCGGCTTTAATCTGTTCCACTGTAA
66 GTTTTAATCCGCCCACTGCAACTTCAGCGAGATAGGATTACCGGCTTTAATCTGCTCCACTGCAA
*
185349 CTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGAAGGATAAGACTTG
131 CTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTG
185414 CTTACTTAGTCCGCTCCACTG
196 CTTACTTAGTCCGCTCCACTG
* * * *
185435 TAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTACAATTTCAGAGAGATAAGATCTAAG
1 CAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAG
* *
185500 GTTTTAATCCGCCCACTGCAACTTCAGCGAGATAGGATTACCGGCTTTAATCTGTTCCACTGTAA
66 GTTTTAATCCGCCCACTGCAACTTCAGCGAGATAGGATTACCGGCTTTAATCTGCTCCACTGCAA
* *
185565 CTTCAGGGAGATAAGATTTGTCATCTTCAGTTTGCCTCACTGCAACTTCAG
131 CTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAG
185616 AAGAATAATA
Statistics
Matches: 571, Mismatches: 40, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
216 501 0.88
217 70 0.12
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (216 bp):
CAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAG
GTTTTAATCCGCCCACTGCAACTTCAGCGAGATAGGATTACCGGCTTTAATCTGCTCCACTGCAA
CTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTG
CTTACTTAGTCCGCTCCACTG
Found at i:185707 original size:173 final size:172
Alignment explanation
Indices: 185430--185800 Score: 510
Period size: 173 Copynumber: 2.2 Consensus size: 172
185420 TAGTCCGCTC
* * * * * *
185430 CACTGTAACTTCAG-GGAGATAAGACTAGATGCGATCTGCTCTCTACAATTTCAGAGAGATAAGA
1 CACTGCAACTTCAGAAGA-ATAATACTAAATGCGATATGCTCTCTACAACTTCAGAGAGATAAGA
* * *
185494 TCTAAGGTTTTAATCCGCCCACTGCAACTTCAGCGAGATAGGATTACCGGCTTTAATCTGTTCCA
65 TCCAAGGTTATAATCCGCCCACTGCAACTTCAGCGAGATAGGATTACCGGCTTTAATCTGCTCCA
* * *
185559 CTGTAACTTCAGGGAGATAAGATTTGTCATCTTCAGTTTGCCT
130 CTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCT
* * * * *
185602 CACTGCAACTTCAGAAGAATAATACTAAATGGGATATGCTCTTTGCAACTTCAGTGAGATAATAT
1 CACTGCAACTTCAGAAGAATAATACTAAATGCGATATGCTCTCTACAACTTCAGAGAGATAAGAT
* * *
185667 CCAAGGTTATAATTCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCA
66 CCAAGGTTATAATCCGC-CCACTGCAACTTCAGCGAGATAGGATTACCGGCTTTAATCTGCTCCA
*
185732 CTGCAACTTTAGGGAGATAAGATTTGCCATCTTCAGTCTGCCT
130 CTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCT
* *
185775 CACTGCAACTTCAGAAGGACAATACT
1 CACTGCAACTTCAGAAGAATAATACT
185801 TGCTTATTTA
Statistics
Matches: 174, Mismatches: 23, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
172 65 0.37
173 109 0.63
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (172 bp):
CACTGCAACTTCAGAAGAATAATACTAAATGCGATATGCTCTCTACAACTTCAGAGAGATAAGAT
CCAAGGTTATAATCCGCCCACTGCAACTTCAGCGAGATAGGATTACCGGCTTTAATCTGCTCCAC
TGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCT
Found at i:185724 original size:432 final size:431
Alignment explanation
Indices: 184786--185755 Score: 1283
Period size: 432 Copynumber: 2.2 Consensus size: 431
184776 CACCCTGGCT
* * * *
184786 CAACTTCAGGGAGATAACACTAA-AT-ACGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCA
1 CAACTTCAGGGAGATAAGAC-AAGATGA-AATCTGCTCACTGCAACTTCAGAGAGATAAGATCTA
* *
184849 AGGTTTTAATCCACTCCACTGCAACTTTAGGAAGATAGGATTCCTGGCTTTAATCTGCTCCACTG
64 AGGCTTTAATCCGCTCCACTGCAACTTTAGG-AGATAGGATTCCTGGCTTTAATCTGCTCCACTG
*
184914 CAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGAC
128 CAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGAAGGATAAGAC
* *
184979 TTGCTTACTTAGTCCGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATATGCTTTCTGC
193 TTGCTTACTTAGTCCGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATATGCTCTCTAC
* * ** * *
185044 AACTTCAGAGATATAAGATCCAAGGTTTTATTTTGCCCACTGTAACTTCAGCGGGATAGGATTAC
258 AACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCCCACTGCAACTTCAGCGAGATAGGATTAC
*
185109 CGACTTTAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACT
323 CGACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACT
* * * * * *
185174 GCAACTTCAGGAGGATAAGACTTACTTACCTAGTCCGCTCCACTG
388 GCAACTTCAGAAGAATAAGACTAAATGACATAGT-CGCTCCACTG
* * * *
185219 CAACTTCAGGGAGATAAGACTAGATGAGATCTGCTCTCTGCAATTTCAGAGAGATAAGATCTAAG
1 CAACTTCAGGGAGATAAGACAAGATGAAATCTGCTCACTGCAACTTCAGAGAGATAAGATCTAAG
* * * *
185284 GTTTTAATCCGC-CCACTGCAACTTCAGCGAGATAGGATTACC-GGCTTTAATCTGTTCCACTGT
66 GCTTTAATCCGCTCCACTGCAACTTTAG-GAGATAGGATT-CCTGGCTTTAATCTGCTCCACTGC
185347 AACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGAAGGATAAGACT
129 AACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGAAGGATAAGACT
* *
185412 TGCTTACTTAGTCCGCTCCACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTACA
194 TGCTTACTTAGTCCGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATATGCTCTCTACA
* *
185477 ATTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCCCACTGCAACTTCAGCGAGATAGGATTACC
259 ACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCCCACTGCAACTTCAGCGAGATAGGATTACC
* * * * *
185542 GGCTTTAATCTGTTCCACTGTAACTTCAGGGAGATAAGATTTGTCATCTTCAGTTTGCCTCACTG
324 GACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTG
* ** **
185607 CAACTTCAGAAGAATAATACTAAATGGGATA-T-GCT-CTTTG
389 CAACTTCAGAAGAATAAGACTAAATGACATAGTCGCTCCACTG
* * * * * *
185647 CAACTTCAGTGAGATAATATCCAAGGTTATAAT-TCGCTCCACTGCAACTTCAGGGAGATAGGAT
1 CAACTTCAGGGAGATAAGA--CAAGATGA-AATCT-GCT-CACTGCAACTTCAGAGAGATAAGAT
* * *
185711 -TATCGGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATT
61 CTA-AGGCTTTAATCCGCTCCACTGCAACTTTA-GGAGATAGGATT
185756 TGCCATCTTC
Statistics
Matches: 472, Mismatches: 53, Indels: 24
0.86 0.10 0.04
Matches are distributed among these distances:
428 20 0.04
429 3 0.01
430 6 0.01
431 8 0.02
432 339 0.72
433 94 0.20
434 2 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (431 bp):
CAACTTCAGGGAGATAAGACAAGATGAAATCTGCTCACTGCAACTTCAGAGAGATAAGATCTAAG
GCTTTAATCCGCTCCACTGCAACTTTAGGAGATAGGATTCCTGGCTTTAATCTGCTCCACTGCAA
CTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGAAGGATAAGACTTG
CTTACTTAGTCCGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATATGCTCTCTACAAC
TTCAGAGAGATAAGATCCAAGGTTTTAATCCGCCCACTGCAACTTCAGCGAGATAGGATTACCGA
CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCA
ACTTCAGAAGAATAAGACTAAATGACATAGTCGCTCCACTG
Found at i:190312 original size:29 final size:30
Alignment explanation
Indices: 190253--190310 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
190243 TCCGAGCCTT
*
190253 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
190283 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
190311 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:190540 original size:13 final size:13
Alignment explanation
Indices: 190522--190553 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
190512 TTTCCAGCAA
190522 TTATGAATTTATT
1 TTATGAATTTATT
190535 TTATGAATTTATT
1 TTATGAATTTATT
*
190548 TGATGA
1 TTATGA
190554 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:190761 original size:50 final size:50
Alignment explanation
Indices: 190648--190889 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
190638 ATTTGGGTAA
* * *
190648 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
190704 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
190754 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
190804 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
190854 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
190890 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:190837 original size:100 final size:103
Alignment explanation
Indices: 190648--190897 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
190638 ATTTGGGTAA
190648 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
190713 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
190754 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
190816 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
190854 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
190898 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:197906 original size:29 final size:30
Alignment explanation
Indices: 197847--197904 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
197837 TCCGAGCCTT
*
197847 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
197877 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
197905 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:198134 original size:13 final size:13
Alignment explanation
Indices: 198116--198147 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
198106 TTTCCAGCAA
198116 TTATGAATTTATT
1 TTATGAATTTATT
198129 TTATGAATTTATT
1 TTATGAATTTATT
*
198142 TGATGA
1 TTATGA
198148 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:198355 original size:50 final size:50
Alignment explanation
Indices: 198242--198483 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
198232 ATTTGGGTAA
* * *
198242 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
198298 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
198348 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
198398 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
198448 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
198484 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Done.