Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 28 of 206
Found at i:8296850 original size:26 final size:26
Alignment explanation
Indices: 8296820--8296888 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 26
8296810 ATCCTCTCTT
8296820 AAGCCATATAACAGGAAGCTCACAAA
1 AAGCCATATAACAGGAAGCTCACAAA
* *
8296846 GAGCCAT-TAATCGGGAAGCTCACAAA
1 AAGCCATATAA-CAGGAAGCTCACAAA
8296872 AAGCC-TAT--CAGGAAGCT
1 AAGCCATATAACAGGAAGCT
8296889 TATCCGGGCT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
23 8 0.22
25 4 0.11
26 25 0.68
ACGTcount: A:0.42, C:0.23, G:0.20, T:0.14
Consensus pattern (26 bp):
AAGCCATATAACAGGAAGCTCACAAA
Found at i:8299548 original size:2 final size:2
Alignment explanation
Indices: 8299541--8299579 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
8299531 ACAATATCAC
8299541 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8299580 TATTCCTAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8300182 original size:17 final size:17
Alignment explanation
Indices: 8300162--8300202 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
8300152 TGCCAAAAAT
* *
8300162 AATAAAAGGAATAATAA
1 AATAAAAGAAAAAATAA
*
8300179 AATAACAGAAAAAATAA
1 AATAAAAGAAAAAATAA
8300196 AATAAAA
1 AATAAAA
8300203 TAATAATGAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.15
Consensus pattern (17 bp):
AATAAAAGAAAAAATAA
Found at i:8304302 original size:3 final size:3
Alignment explanation
Indices: 8304287--8304327 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
8304277 TAATGAGACA
*
8304287 TCC TCC TCT TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
8304328 ATCATCATCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.63, G:0.00, T:0.37
Consensus pattern (3 bp):
TCC
Found at i:8308712 original size:13 final size:13
Alignment explanation
Indices: 8308694--8308719 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8308684 AAAGTGCGAG
8308694 CCTGTTGAAGACA
1 CCTGTTGAAGACA
8308707 CCTGTTGAAGACA
1 CCTGTTGAAGACA
8308720 ATATGCAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (13 bp):
CCTGTTGAAGACA
Found at i:8315775 original size:14 final size:14
Alignment explanation
Indices: 8315735--8315776 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
8315725 AATTTCTTTT
* *
8315735 AATTTTAATATTAA
1 AATTTTATTTTTAA
8315749 AA-TTTATTTTTTAA
1 AATTTTA-TTTTTAA
8315763 AATTTTATTTTTAA
1 AATTTTATTTTTAA
8315777 TTTTTTTCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 4 0.17
14 16 0.67
15 4 0.17
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
AATTTTATTTTTAA
Found at i:8315782 original size:14 final size:15
Alignment explanation
Indices: 8315745--8315774 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8315735 AATTTTAATA
8315745 TTAAAA-TTTATTTT
1 TTAAAATTTTATTTT
8315759 TTAAAATTTTATTTT
1 TTAAAATTTTATTTT
8315774 T
1 T
8315775 AATTTTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTAAAATTTTATTTT
Found at i:8317430 original size:41 final size:39
Alignment explanation
Indices: 8317385--8317477 Score: 96
Period size: 40 Copynumber: 2.3 Consensus size: 39
8317375 AACGGCAATT
*
8317385 TTAGCGGCGTTTGGACAAAAAATGCCGGTAAAAATCGAGCA
1 TTAGCGGCGTTT--ACAAAAAATGCCGCTAAAAATCGAGCA
* ** * *
8317426 TTAGCGGCACTTTACGGAAAATGCCGCTAAAGATTGAGCA
1 TTAGCGGC-GTTTACAAAAAATGCCGCTAAAAATCGAGCA
*
8317466 TTAGCAGCGTTT
1 TTAGCGGCGTTT
8317478 TTACGCTGCT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
39 3 0.07
40 29 0.67
41 8 0.19
42 3 0.07
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (39 bp):
TTAGCGGCGTTTACAAAAAATGCCGCTAAAAATCGAGCA
Found at i:8317615 original size:41 final size:41
Alignment explanation
Indices: 8317558--8317672 Score: 203
Period size: 41 Copynumber: 2.8 Consensus size: 41
8317548 TTGACCCTTT
*
8317558 GGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTC
1 GGGGCTTTAGCGGCGTTTTTGGTAAAGCGCCGCTAATGCTC
8317599 GGGGCTTTAGCGGCGTTTTTGGTAAAGCGCCGCTAATGCTC
1 GGGGCTTTAGCGGCGTTTTTGGTAAAGCGCCGCTAATGCTC
* *
8317640 GGGTCTTTAGCGGCGTTTTTGATAAAGCGCCGC
1 GGGGCTTTAGCGGCGTTTTTGGTAAAGCGCCGC
8317673 AAAAAACATT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 71 1.00
ACGTcount: A:0.15, C:0.22, G:0.35, T:0.29
Consensus pattern (41 bp):
GGGGCTTTAGCGGCGTTTTTGGTAAAGCGCCGCTAATGCTC
Found at i:8318130 original size:21 final size:20
Alignment explanation
Indices: 8318079--8318128 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
8318069 AGATTTAATG
*
8318079 TTTAGGGGTTAGGAGTTAGA
1 TTTAGGGGTTAAGAGTTAGA
8318099 TGTTAGGGGTTAAGAGTTAGGGA
1 T-TTAGGGGTTAAGAGTTA--GA
8318122 TTTAGGG
1 TTTAGGG
8318129 TTTAGGGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 1 0.04
21 16 0.62
22 6 0.23
23 3 0.12
ACGTcount: A:0.24, C:0.00, G:0.42, T:0.34
Consensus pattern (20 bp):
TTTAGGGGTTAAGAGTTAGA
Found at i:8318376 original size:21 final size:22
Alignment explanation
Indices: 8318352--8318397 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
8318342 AGGGATTATG
*
8318352 GTTTAAGGGTT-GTGATTTAAA
1 GTTTAAGGGTTAGTGATTAAAA
* *
8318373 GTTTAGGGGTTAGTGGTTAAAA
1 GTTTAAGGGTTAGTGATTAAAA
8318395 GTT
1 GTT
8318398 AGAGATTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.26, C:0.00, G:0.33, T:0.41
Consensus pattern (22 bp):
GTTTAAGGGTTAGTGATTAAAA
Found at i:8324489 original size:18 final size:20
Alignment explanation
Indices: 8324466--8324503 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
8324456 GTTTTTGGTG
8324466 TTTT-GGGGG-TGATTTTTT
1 TTTTGGGGGGATGATTTTTT
8324484 TTTTGGGGGGATGATTTTTT
1 TTTTGGGGGGATGATTTTTT
8324504 GTGTACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 5 0.28
20 9 0.50
ACGTcount: A:0.08, C:0.00, G:0.34, T:0.58
Consensus pattern (20 bp):
TTTTGGGGGGATGATTTTTT
Found at i:8324501 original size:17 final size:18
Alignment explanation
Indices: 8324466--8324503 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
8324456 GTTTTTGGTG
**
8324466 TTTTGGGGGTGATTTTTT
1 TTTTGGGGGTGATGATTT
8324484 TTTTGGGGG-GATGATTT
1 TTTTGGGGGTGATGATTT
8324501 TTT
1 TTT
8324504 GTGTACATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.08, C:0.00, G:0.34, T:0.58
Consensus pattern (18 bp):
TTTTGGGGGTGATGATTT
Found at i:8330758 original size:25 final size:25
Alignment explanation
Indices: 8330730--8330782 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
8330720 AATTTAACTC
8330730 AAATTCTGAAATCCGACAACTTGAA
1 AAATTCTGAAATCCGACAACTTGAA
* *
8330755 AAATTCTGAAATCCTACTACTTGAA
1 AAATTCTGAAATCCGACAACTTGAA
8330780 AAA
1 AAA
8330783 GTAAAACTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.45, C:0.19, G:0.09, T:0.26
Consensus pattern (25 bp):
AAATTCTGAAATCCGACAACTTGAA
Found at i:8340775 original size:124 final size:125
Alignment explanation
Indices: 8340561--8340896 Score: 530
Period size: 125 Copynumber: 2.7 Consensus size: 125
8340551 GTTTCTGGTG
* *
8340561 AAATAGTATAAAATTGCTTCTACCAGGATGTTATTTGAGAAGAAATTGTGAAATCGCGCCCTTGT
1 AAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTTGT
* * * *
8340626 GGATGCGATTTCGCTCCAGTAGGTCATGTAAGAAAT-AATTTTTTTTGACATTTTTGAGC
66 GGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAAATTTTTTTTGACATTTCTGAGC
* * * *
8340685 AAATAGTATAAAATCGATTCTACCAAGATGCTATTTGAGAAGAAATTGTGAAATCGTGCCCTCGT
1 AAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTTGT
* *
8340750 GGACGCGATTTTGCTACAGTTGGTCATGTAAGAAATAAATTTTTTTTGACGTTTCTGAGC
66 GGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAAATTTTTTTTGACATTTCTGAGC
* *
8340810 AAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTATGAAATCGCGCCCTTAT
1 AAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTTGT
*
8340875 GGACGCGATTTTACTACAGTAG
66 GGACGCGATTTTGCTACAGTAG
8340897 CAAGTTTAGG
Statistics
Matches: 191, Mismatches: 20, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
124 91 0.48
125 100 0.52
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.33
Consensus pattern (125 bp):
AAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTTGT
GGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAAATTTTTTTTGACATTTCTGAGC
Found at i:8340862 original size:125 final size:124
Alignment explanation
Indices: 8340546--8340896 Score: 533
Period size: 124 Copynumber: 2.8 Consensus size: 124
8340536 TTATTTCGAG
* * *
8340546 TTGACGTTTCTG-GTGAAATAGTATAAAATTGCTTCTACCAGGATGTTATTTGAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
* * *
8340610 GAAATCGCGCCCTTGTGGATGCGATTTCGCTCCAGTAGGTCATGTAAGAAATAATTTTTT
65 GAAATCGCGCCCTTGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
* * * *
8340670 TTGACATTTTTGAGCAAATAGTATAAAATCGATTCTACCAAGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
* * *
8340735 AAATCGTGCCCTCGTGGACGCGATTTTGCTACAGTTGGTCATGTAAGAAATAAATTTTTT
66 AAATCGCGCCCTTGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAAT-AATTTTTT
*
8340795 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTATG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
* *
8340860 AAATCGCGCCCTTATGGACGCGATTTTACTACAGTAG
66 AAATCGCGCCCTTGTGGACGCGATTTTGCTACAGTAG
8340897 CAAGTTTAGG
Statistics
Matches: 202, Mismatches: 23, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
124 101 0.50
125 101 0.50
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (124 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
AAATCGCGCCCTTGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
Found at i:8344334 original size:10 final size:10
Alignment explanation
Indices: 8344321--8344379 Score: 64
Period size: 10 Copynumber: 5.8 Consensus size: 10
8344311 TGAAAATATA
8344321 AAAAAAATTT
1 AAAAAAATTT
* *
8344331 AAAATTATTTT
1 AAAA-AAATTT
8344342 AAAAAAATTT
1 AAAAAAATTT
8344352 AAAAAAATTT
1 AAAAAAATTT
**
8344362 AAAATTATTT
1 AAAAAAATTT
*
8344372 TAAAAAAT
1 AAAAAAAT
8344380 GAAATTGAGG
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
10 31 0.79
11 8 0.21
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
AAAAAAATTT
Found at i:8344435 original size:51 final size:51
Alignment explanation
Indices: 8344380--8344492 Score: 183
Period size: 51 Copynumber: 2.2 Consensus size: 51
8344370 TTTAAAAAAT
*
8344380 GAAATTGAGGGGAAATTGAAATTAAATAT-GGATTTGAGAGAATTTTGAAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATAGG-TTTGAGAGAATTTTGAAAG
*
8344431 GAAATTGAGAGGAAATTGAAATTAAATATAGGTTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATAGGTTTGAGAGAATTTTGAAAG
*
8344482 AAAATTGAGAG
1 GAAATTGAGAG
8344493 AATTTTGGAA
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
51 56 0.97
52 2 0.03
ACGTcount: A:0.44, C:0.00, G:0.27, T:0.28
Consensus pattern (51 bp):
GAAATTGAGAGGAAATTGAAATTAAATATAGGTTTGAGAGAATTTTGAAAG
Found at i:8344438 original size:22 final size:22
Alignment explanation
Indices: 8344413--8344514 Score: 64
Period size: 22 Copynumber: 4.3 Consensus size: 22
8344403 AAATATGGAT
8344413 TTGAGAGAATTTTGAAAGGAAA
1 TTGAGAGAATTTTGAAAGGAAA
* **
8344435 TTGAGAGGAA-ATTGAAATTAAA
1 TTGAGA-GAATTTTGAAAGGAAA
* *
8344457 TATAGGTTTGAGAGAATTTTGGAAGAAAA
1 T-T--G----AGAGAATTTTGAAAGGAAA
8344486 TTGAGAGAATTTTGGAAA-GAAA
1 TTGAGAGAATTTT-GAAAGGAAA
8344508 TTGAGAG
1 TTGAGAG
8344515 GATTAAAGAG
Statistics
Matches: 61, Mismatches: 9, Indels: 20
0.68 0.10 0.22
Matches are distributed among these distances:
22 36 0.59
23 7 0.11
25 1 0.02
26 1 0.02
28 4 0.07
29 12 0.20
ACGTcount: A:0.44, C:0.00, G:0.27, T:0.28
Consensus pattern (22 bp):
TTGAGAGAATTTTGAAAGGAAA
Found at i:8351165 original size:16 final size:16
Alignment explanation
Indices: 8351144--8351194 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
8351134 GACAACAAGG
8351144 ATATATGTAAATATAT
1 ATATATGTAAATATAT
* *
8351160 ATATATGTATATGTAT
1 ATATATGTAAATATAT
*
8351176 ATAAATTGTAAA-ATAT
1 ATATA-TGTAAATATAT
8351192 ATA
1 ATA
8351195 AATGATGTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
16 24 0.83
17 5 0.17
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (16 bp):
ATATATGTAAATATAT
Found at i:8351210 original size:35 final size:34
Alignment explanation
Indices: 8351152--8351237 Score: 113
Period size: 35 Copynumber: 2.6 Consensus size: 34
8351142 GGATATATGT
* *
8351152 AAATATATATATATGTATATGTATATAAATTGTA
1 AAATATATAAATATGTATATGTATATAAATTATA
*
8351186 AAATATATAAATGATGTATGTGTATATAAATTATA
1 AAATATATAAAT-ATGTATATGTATATAAATTATA
*
8351221 AAATA-A-AAATATATATA
1 AAATATATAAATATGTATA
8351238 ATGGAACAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
32 5 0.11
33 4 0.09
34 12 0.26
35 25 0.54
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (34 bp):
AAATATATAAATATGTATATGTATATAAATTATA
Found at i:8352158 original size:13 final size:13
Alignment explanation
Indices: 8352140--8352164 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8352130 TTATCATTTA
8352140 TTTTTTGTTTGGT
1 TTTTTTGTTTGGT
8352153 TTTTTTGTTTGG
1 TTTTTTGTTTGG
8352165 GCCCGGGCAA
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:0.00, C:0.00, G:0.24, T:0.76
Consensus pattern (13 bp):
TTTTTTGTTTGGT
Found at i:8352976 original size:11 final size:10
Alignment explanation
Indices: 8352920--8353013 Score: 68
Period size: 10 Copynumber: 9.1 Consensus size: 10
8352910 ATGTGTATAT
8352920 ATAAGTTTTTA
1 ATAA-TTTTTA
*
8352931 ATTATTATTT-
1 ATAATT-TTTA
8352941 ATAATTTATT-
1 ATAATTT-TTA
*
8352951 ATAATTCTTA
1 ATAATTTTTA
8352961 ATAATTTTTAA
1 ATAATTTTT-A
*
8352972 ATAATTTTTT
1 ATAATTTTTA
*
8352982 CTAATTTTT-
1 ATAATTTTTA
*
8352991 CTAATTATTTA
1 ATAATT-TTTA
8353002 ATAATTATTTA
1 ATAATT-TTTA
8353013 A
1 A
8353014 GAAACTATTT
Statistics
Matches: 70, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
9 9 0.13
10 34 0.49
11 27 0.39
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (10 bp):
ATAATTTTTA
Found at i:8353085 original size:10 final size:9
Alignment explanation
Indices: 8353070--8353127 Score: 52
Period size: 10 Copynumber: 6.6 Consensus size: 9
8353060 TAAAAACATT
8353070 ATTTTTAATA
1 ATTTTT-ATA
8353080 ATTTTTAGTA
1 ATTTTTA-TA
8353090 A-TTTTAT-
1 ATTTTTATA
8353097 -TTTTTA-A
1 ATTTTTATA
8353104 ATTTTTATA
1 ATTTTTATA
*
8353113 ATTCTTAATA
1 ATT-TTTATA
8353123 ATTTT
1 ATTTT
8353128 AAACAGTTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 13
0.75 0.02 0.24
Matches are distributed among these distances:
7 5 0.12
8 7 0.17
9 12 0.29
10 17 0.41
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (9 bp):
ATTTTTATA
Found at i:8353114 original size:23 final size:25
Alignment explanation
Indices: 8353068--8353115 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
8353058 AATAAAAACA
8353068 TTATTTTTAATAATTTTTAGTAATT
1 TTATTTTTAATAATTTTTAGTAATT
*
8353093 TTATTTTTTA-AATTTTTA-TAATT
1 TTATTTTTAATAATTTTTAGTAATT
8353116 CTTAATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.23
24 8 0.36
25 9 0.41
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (25 bp):
TTATTTTTAATAATTTTTAGTAATT
Found at i:8354357 original size:26 final size:26
Alignment explanation
Indices: 8354328--8354384 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
8354318 AATAAGAAAG
* * *
8354328 AAAACAACAAAA-ATAAAATCTACTCT
1 AAAA-AACAAAAGAGAAAACCTAATCT
*
8354354 AAAAAAGAAAAGAGAAAACCTAATCT
1 AAAAAACAAAAGAGAAAACCTAATCT
8354380 AAAAA
1 AAAAA
8354385 TGAAAAGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 6 0.23
26 20 0.77
ACGTcount: A:0.67, C:0.14, G:0.05, T:0.14
Consensus pattern (26 bp):
AAAAAACAAAAGAGAAAACCTAATCT
Found at i:8354389 original size:26 final size:26
Alignment explanation
Indices: 8354342--8354397 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
8354332 CAACAAAAAT
* * *
8354342 AAAATCTACTCTAAAAAAGAAAAGAG
1 AAAACCTAATCTAAAAAAGAAAAGAA
*
8354368 AAAACCTAATCTAAAAATGAAAAGAA
1 AAAACCTAATCTAAAAAAGAAAAGAA
8354394 AAAA
1 AAAA
8354398 AAGGAAAAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.66, C:0.11, G:0.09, T:0.14
Consensus pattern (26 bp):
AAAACCTAATCTAAAAAAGAAAAGAA
Found at i:8354404 original size:15 final size:15
Alignment explanation
Indices: 8354380--8354410 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8354370 AACCTAATCT
*
8354380 AAAAATGAAAAGAAA
1 AAAAAGGAAAAGAAA
8354395 AAAAAGGAAAAGAAA
1 AAAAAGGAAAAGAAA
8354410 A
1 A
8354411 CGTAACTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (15 bp):
AAAAAGGAAAAGAAA
Found at i:8356665 original size:43 final size:43
Alignment explanation
Indices: 8356583--8356692 Score: 116
Period size: 43 Copynumber: 2.6 Consensus size: 43
8356573 CGTCCTAGAC
* *
8356583 GTGGTCTTATATGTAATCACATATCGATGCCACTATCCCAGAAA
1 GTGGTCTTACACGTAATCACATATCGATGCCACTATCCCAG-AA
* * * *
8356627 G-GGTCTTACACGTAATCAGATATCGATGTCGAC-GTCCCAGAC
1 GTGGTCTTACACGTAATCACATATCGATG-CCACTATCCCAGAA
* *
8356669 GTGGTCTTACACGAAAACACATAT
1 GTGGTCTTACACGTAATCACATAT
8356693 TAGAGTCCTA
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
42 2 0.04
43 49 0.89
44 4 0.07
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (43 bp):
GTGGTCTTACACGTAATCACATATCGATGCCACTATCCCAGAA
Found at i:8357607 original size:28 final size:28
Alignment explanation
Indices: 8357567--8357623 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
8357557 TATGTTTGTT
8357567 TTTATTATAATAA-CTTTATAATATATTA
1 TTTATTATAATAACCTTTATAAT-TATTA
*
8357595 TTTATTATTATAACCTTTATAATTATTA
1 TTTATTATAATAACCTTTATAATTATTA
8357623 T
1 T
8357624 AAAAACTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 18 0.67
29 9 0.33
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (28 bp):
TTTATTATAATAACCTTTATAATTATTA
Found at i:8357834 original size:14 final size:15
Alignment explanation
Indices: 8357815--8357843 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8357805 TCACGAAACT
8357815 TTCACACAT-ATAAA
1 TTCACACATAATAAA
8357829 TTCACACATAATAAA
1 TTCACACATAATAAA
8357844 CACAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:8366660 original size:9 final size:9
Alignment explanation
Indices: 8366646--8366739 Score: 143
Period size: 9 Copynumber: 10.4 Consensus size: 9
8366636 TTTGGTTAAA
*
8366646 AATTAACCG
1 AATTACCCG
*
8366655 AATTAACCG
1 AATTACCCG
8366664 AATTACCCG
1 AATTACCCG
8366673 AATTACCCG
1 AATTACCCG
8366682 AATTACCCG
1 AATTACCCG
8366691 AATTACCCG
1 AATTACCCG
*
8366700 AATTAACCG
1 AATTACCCG
8366709 AATTACCCG
1 AATTACCCG
* *
8366718 AATTAACTG
1 AATTACCCG
8366727 AATTACCCG
1 AATTACCCG
8366736 AATT
1 AATT
8366740 GAATCACTAC
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 78 1.00
ACGTcount: A:0.38, C:0.27, G:0.11, T:0.24
Consensus pattern (9 bp):
AATTACCCG
Found at i:8366886 original size:18 final size:18
Alignment explanation
Indices: 8366846--8366889 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
8366836 TAATTTTATG
**
8366846 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
8366864 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
8366882 CTTGGGTT
1 ATTGGGTT
8366890 TAGATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:8371749 original size:15 final size:16
Alignment explanation
Indices: 8371726--8371781 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
8371716 TTTTTATGTT
8371726 TTATATATATTATTTTA
1 TTATATATA-TATTTTA
*
8371743 TTATATAATATATTGTA
1 TTATAT-ATATATTTTA
* * *
8371760 TTGTAT-TGTATTATA
1 TTATATATATATTTTA
8371775 TTATATA
1 TTATATA
8371782 AGTAAAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
15 12 0.38
17 17 0.53
18 3 0.09
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (16 bp):
TTATATATATATTTTA
Found at i:8371761 original size:22 final size:22
Alignment explanation
Indices: 8371728--8371780 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
8371718 TTTATGTTTT
*
8371728 ATATATATTATTTTATTATATA
1 ATATATATTATTGTATTATATA
* *
8371750 ATATAT-TGTATTGTATTGTATT
1 ATATATAT-TATTGTATTATATA
8371772 ATATTATAT
1 ATA-TATAT
8371781 AAGTAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
21 1 0.04
22 20 0.80
23 3 0.12
24 1 0.04
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (22 bp):
ATATATATTATTGTATTATATA
Found at i:8372622 original size:3 final size:3
Alignment explanation
Indices: 8372614--8372684 Score: 88
Period size: 3 Copynumber: 23.7 Consensus size: 3
8372604 AATAAGAATT
* * * * *
8372614 TTA TTA TTA TTA TTA TTA TTA TTG TTA ATA TAA TTA TTA TTG TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
8372662 TAA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT
8372685 TTTAATGATT
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:8379270 original size:5 final size:5
Alignment explanation
Indices: 8379252--8379325 Score: 57
Period size: 5 Copynumber: 15.0 Consensus size: 5
8379242 TGTTGTCATA
*
8379252 TATAT TAT-T T-TAT TATAT TTTAT ATATAT TAT-T T-TAT TATAT AATATAT
1 TATAT TATAT TATAT TATAT TATAT -TATAT TATAT TATAT TATAT --TATAT
* * *
8379301 TGTAT TGTAT TGTAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT
8379326 AAGTAAAAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 14
0.76 0.05 0.18
Matches are distributed among these distances:
3 2 0.03
4 8 0.14
5 39 0.67
6 4 0.07
7 5 0.09
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (5 bp):
TATAT
Found at i:8379299 original size:24 final size:24
Alignment explanation
Indices: 8379249--8379300 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
8379239 TTATGTTGTC
**
8379249 ATATATATTATTTTATTATATTTT
1 ATATATATTATTTTATTATATAAT
8379273 ATATATATTATTTTATTATATAAT
1 ATATATATTATTTTATTATATAAT
8379297 ATAT
1 ATAT
8379301 TGTATTGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
ATATATATTATTTTATTATATAAT
Found at i:8379306 original size:22 final size:22
Alignment explanation
Indices: 8379249--8379325 Score: 84
Period size: 22 Copynumber: 3.4 Consensus size: 22
8379239 TTATGTTGTC
8379249 ATATATATTATTTTATTATATTTT
1 ATATATATTATTTTATTATA--TT
*
8379273 ATATATATTATTTTATTATATA
1 ATATATATTATTTTATTATATT
* *
8379295 ATATAT-TGTATTGTATTGTATT
1 ATATATAT-TATTTTATTATATT
8379317 ATATTATAT
1 ATA-TATAT
8379326 AAGTAAAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
21 1 0.02
22 21 0.46
23 3 0.07
24 21 0.46
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (22 bp):
ATATATATTATTTTATTATATT
Found at i:8379866 original size:18 final size:18
Alignment explanation
Indices: 8379838--8379879 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
8379828 ATAAGTTTTT
8379838 AAATT-GAGGAAAATTCG
1 AAATTAGAGGAAAATTCG
8379855 AAATTAGAGGAAAATTCG
1 AAATTAGAGGAAAATTCG
8379873 AAATTAG
1 AAATTAG
8379880 TGAAAAATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 5 0.21
18 19 0.79
ACGTcount: A:0.50, C:0.05, G:0.21, T:0.24
Consensus pattern (18 bp):
AAATTAGAGGAAAATTCG
Found at i:8379886 original size:18 final size:18
Alignment explanation
Indices: 8379838--8379887 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
8379828 ATAAGTTTTT
*
8379838 AAATT-GAGGAAAATTCG
1 AAATTAGAGAAAAATTCG
*
8379855 AAATTAGAGGAAAATTCG
1 AAATTAGAGAAAAATTCG
*
8379873 AAATTAGTGAAAAAT
1 AAATTAGAGAAAAAT
8379888 GCTGAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 5 0.17
18 25 0.83
ACGTcount: A:0.52, C:0.04, G:0.20, T:0.24
Consensus pattern (18 bp):
AAATTAGAGAAAAATTCG
Found at i:8380025 original size:3 final size:3
Alignment explanation
Indices: 8380017--8380057 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
8380007 AATAAGAATT
* * *
8380017 TTA TTA TTA TTA TTA TTG TTA ATA TAA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
8380058 TTTAATGATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:8381987 original size:41 final size:41
Alignment explanation
Indices: 8381930--8382214 Score: 365
Period size: 41 Copynumber: 6.9 Consensus size: 41
8381920 CAGATAAAAT
*
8381930 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGTCTGA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGCCTGA
* * *
8381971 GCATTAGCGGCGC-TTTTCAAAAATGCCGCTAAAAGTCTTA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGCCTGA
* **
8382011 GCATTAGTGGCGCTTTTTCAAAAACGCCGCTAAAAGTATGA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGCCTGA
* * *
8382052 ACATTAGCGGCGCTTTCTAAAAAACGCCGCTAAAAGCCTGA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGCCTGA
* *
8382093 GCATTAGTGGCGCTTCTTCAAAAACGCCGCTAAAAGCCTGAGA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGCCT--GA
* * * *
8382136 GCATTAGTGGCACTTCTTCAAAAACGTCGCTAAAAGCCTGA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGCCTGA
* * * *
8382177 ACATTAGCAGCGCTTTCTCAAAAACGCTGCTAAAAGCC
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGCC
8382215 CCGAAAGTCG
Statistics
Matches: 214, Mismatches: 27, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
40 37 0.17
41 138 0.64
43 39 0.18
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.24
Consensus pattern (41 bp):
GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGCCTGA
Found at i:8382190 original size:84 final size:83
Alignment explanation
Indices: 8381930--8382214 Score: 371
Period size: 84 Copynumber: 3.5 Consensus size: 83
8381920 CAGATAAAAT
*
8381930 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGTCT--GAGCATTAGCGGCGCTTTTCAAAA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGAGCATTAGCGGCGCTTTTCAAAA
* * *
8381993 ATGCCGCTAAAAGTCTTA
66 ACGCCGCTAAAAGCCTGA
* ** *
8382011 GCATTAGTGGCGCTTTTTCAAAAACGCCGCTAAAAGTATGA-A-CATTAGCGGCGCTTTCTAAAA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGAGCATTAGCGGCGCTTT-TCAAA
8382074 AACGCCGCTAAAAGCCTGA
65 AACGCCGCTAAAAGCCTGA
* * * *
8382093 GCATTAGTGGCGCTTCTTCAAAAACGCCGCTAAAAGCCTGAGAGCATTAGTGGCACTTCTTCAAA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGAGCATTAGCGGCGCTT-TTCAAA
*
8382158 AACGTCGCTAAAAGCCTGA
65 AACGCCGCTAAAAGCCTGA
* * * *
8382177 ACATTAGCAGCGCTTTCTCAAAAACGCTGCTAAAAGCC
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGCC
8382215 CCGAAAGTCG
Statistics
Matches: 179, Mismatches: 19, Indels: 9
0.86 0.09 0.04
Matches are distributed among these distances:
81 52 0.29
82 59 0.33
83 1 0.01
84 66 0.37
85 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.24
Consensus pattern (83 bp):
GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGAGCATTAGCGGCGCTTTTCAAAA
ACGCCGCTAAAAGCCTGA
Found at i:8382190 original size:125 final size:122
Alignment explanation
Indices: 8381931--8382214 Score: 415
Period size: 125 Copynumber: 2.3 Consensus size: 122
8381921 AGATAAAATG
* * *
8381931 CATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGTCTGAGCATTAGCGGCGCTTTTCAAAAATG
1 CATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTAGCGGCGCTTTTCAAAAACG
* * * * *
8381996 CCGCTAAAAGTCTTAGCATTAGTGGCGCTTTTTCAAAAACGCCGCTAAAAGTATGAA
66 CCGCTAAAAGCCTGAGCATTAGTGGCACTTCTTCAAAAACGCCGCTAAAAGCATGAA
* *
8382053 CATTAGCGGCGCTTTCTAAAAAACGCCGCTAAAAGCCTGAGCATTAGTGGCGCTTCTTCAAAAAC
1 CATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTAGCGGCGCTT-TTCAAAAAC
* *
8382118 GCCGCTAAAAGCCTGAGAGCATTAGTGGCACTTCTTCAAAAACGTCGCTAAAAGCCTGAA
65 GCCGCTAAAAGCCT--GAGCATTAGTGGCACTTCTTCAAAAACGCCGCTAAAAGCATGAA
* *
8382178 CATTAGCAGCGCTTTCTCAAAAACGCTGCTAAAAGCC
1 CATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAAGCC
8382215 CCGAAAGTCG
Statistics
Matches: 144, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
122 51 0.35
123 21 0.15
125 72 0.50
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.24
Consensus pattern (122 bp):
CATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTAGCGGCGCTTTTCAAAAACG
CCGCTAAAAGCCTGAGCATTAGTGGCACTTCTTCAAAAACGCCGCTAAAAGCATGAA
Found at i:8386425 original size:30 final size:31
Alignment explanation
Indices: 8386369--8386427 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
8386359 CACCCTTAAA
** *
8386369 ATATTTACACTATTAGTCCTTCAAATTTTTT
1 ATATTTACACTATTAACCCCTCAAATTTTTT
8386400 ATATTTACACT-TTAACCCCTCAAATTTT
1 ATATTTACACTATTAACCCCTCAAATTTT
8386428 AAGTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.31, C:0.20, G:0.02, T:0.47
Consensus pattern (31 bp):
ATATTTACACTATTAACCCCTCAAATTTTTT
Found at i:8386435 original size:30 final size:31
Alignment explanation
Indices: 8386368--8386437 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
8386358 CCACCCTTAA
** *
8386368 AATATTTACACTATTAGTCCTTCAAATTTTT
1 AATATTTACACTATTAACCCCTCAAATTTTT
*
8386399 TATATTTACACT-TTAACCCCTCAAA-TTTT
1 AATATTTACACTATTAACCCCTCAAATTTTT
8386428 AAGTATTTAC
1 AA-TATTTAC
8386438 TCTTGGGTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 5 0.15
30 17 0.52
31 11 0.33
ACGTcount: A:0.33, C:0.19, G:0.03, T:0.46
Consensus pattern (31 bp):
AATATTTACACTATTAACCCCTCAAATTTTT
Found at i:8390213 original size:21 final size:21
Alignment explanation
Indices: 8390188--8390240 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
8390178 AAATGAGAAT
*
8390188 AGTAATAATA-ATAATAATAGA
1 AGTAATAATATATAA-AATAAA
*
8390209 AGTAAAAATATATAAAATAAA
1 AGTAATAATATATAAAATAAA
8390230 AGTAAGTAATA
1 AGTAA-TAATA
8390241 GTAACAACAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 19 0.70
22 8 0.30
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.26
Consensus pattern (21 bp):
AGTAATAATATATAAAATAAA
Found at i:8395170 original size:21 final size:21
Alignment explanation
Indices: 8395144--8395183 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
8395134 TATCCCCTAA
8395144 ATCCCTTAA-TTAACTCCCCCT
1 ATCCC-TAATTTAACTCCCCCT
*
8395165 ATCCCTAATTTCACTCCCC
1 ATCCCTAATTTAACTCCCC
8395184 AACCGTCCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.23, C:0.45, G:0.00, T:0.33
Consensus pattern (21 bp):
ATCCCTAATTTAACTCCCCCT
Found at i:8399201 original size:11 final size:11
Alignment explanation
Indices: 8399178--8399213 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
8399168 AACTAATCCT
8399178 CTCTCATATTTC
1 CTCTCA-ATTTC
8399190 CTCTCAATTTC
1 CTCTCAATTTC
*
8399201 CTCTAAATTTC
1 CTCTCAATTTC
8399212 CT
1 CT
8399214 TCTAAAATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 17 0.74
12 6 0.26
ACGTcount: A:0.19, C:0.33, G:0.00, T:0.47
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:8399219 original size:12 final size:11
Alignment explanation
Indices: 8399185--8399219 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
8399175 CCTCTCTCAT
*
8399185 ATTTCCTCTCA
1 ATTTCCTCTAA
8399196 ATTTCCTCTAA
1 ATTTCCTCTAA
8399207 ATTTCCTTCTAA
1 ATTTCC-TCTAA
8399219 A
1 A
8399220 ATTCTCTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 16 0.73
12 6 0.27
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.46
Consensus pattern (11 bp):
ATTTCCTCTAA
Found at i:8399248 original size:51 final size:51
Alignment explanation
Indices: 8399193--8399316 Score: 203
Period size: 51 Copynumber: 2.4 Consensus size: 51
8399183 ATATTTCCTC
* *
8399193 TCAATTTCCTCTAAATTTCCTTCTAAAATTCTCTCAAATCCATATTTAATT
1 TCAATTTCCTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATT
*
8399244 TCAATTTCCTCTCAATTTCCTTCCAAAATTCTCTCACATCCATATTTAATT
1 TCAATTTCCTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATT
* *
8399295 TCAATTTGCTTTCAATTTCCTT
1 TCAATTTCCTCTCAATTTCCTT
8399317 TTTTAAAATA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 68 1.00
ACGTcount: A:0.27, C:0.26, G:0.01, T:0.46
Consensus pattern (51 bp):
TCAATTTCCTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATT
Found at i:8401153 original size:18 final size:18
Alignment explanation
Indices: 8401126--8401165 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
8401116 CAGGTGCGTT
*
8401126 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATATGTA
8401144 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
8401162 TCCT
1 TCCT
8401166 TTTTCGAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.30, G:0.07, T:0.40
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:8401625 original size:25 final size:25
Alignment explanation
Indices: 8401595--8401712 Score: 131
Period size: 25 Copynumber: 4.9 Consensus size: 25
8401585 TATTTTGATA
8401595 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
* *
8401620 TCATTTGATGTAATAAAATAGAATT
1 TTATTTGATGTAATAAAATAGAAGT
* ** *
8401645 TTTTTTGA-GT--T-ATTTTG-A-T
1 TTATTTGATGTAATAAAATAGAAGT
8401664 ATTATTTGATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
8401690 TTATTTGATGTAATAAAATAGAA
1 TTATTTGATGTAATAAAATAGAA
8401713 TATTTTGAAT
Statistics
Matches: 75, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
19 1 0.01
20 8 0.11
21 5 0.07
22 1 0.01
23 1 0.01
24 5 0.07
25 53 0.71
26 1 0.01
ACGTcount: A:0.41, C:0.01, G:0.14, T:0.44
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:8401664 original size:70 final size:70
Alignment explanation
Indices: 8401585--8401718 Score: 250
Period size: 70 Copynumber: 1.9 Consensus size: 70
8401575 ATATTTTGAA
*
8401585 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTCATTTGATGTAATAAAATAGAATTTTTTT
1 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTCATTTGATGTAATAAAATAGAATATTTTT
8401650 TGAGT
66 TGAGT
*
8401655 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAATATTTT
1 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTCATTTGATGTAATAAAATAGAATATTTT
8401719 GAATATTTTG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 62 1.00
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (70 bp):
TATTTTGATATTATTTGATGTAATAAAATAGAAGTTCATTTGATGTAATAAAATAGAATATTTTT
TGAGT
Found at i:8401724 original size:9 final size:9
Alignment explanation
Indices: 8401710--8401736 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
8401700 TAATAAAATA
8401710 GAATATTTT
1 GAATATTTT
8401719 GAATATTTT
1 GAATATTTT
8401728 GAATATTTT
1 GAATATTTT
8401737 AATGTTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (9 bp):
GAATATTTT
Found at i:8401825 original size:47 final size:47
Alignment explanation
Indices: 8401771--8402038 Score: 484
Period size: 47 Copynumber: 5.7 Consensus size: 47
8401761 CCATTAATAA
* *
8401771 CCTAATTAAATTGAAAACCCTAACCTAATTAAACTAAAAACCCTAAC
1 CCTAATTAAATTGAAAACCCTAACCTAATTAAATTGAAAACCCTAAC
*
8401818 CCTAATTAAATTGAAAACCCTAACCTAATTAAATTGAAAACCCTAAA
1 CCTAATTAAATTGAAAACCCTAACCTAATTAAATTGAAAACCCTAAC
8401865 CCTAATTAAATTGAAAACCCTAACCCTAATTAAATTGAAAACCCTAA-
1 CCTAATTAAATTGAAAACCCTAA-CCTAATTAAATTGAAAACCCTAAC
8401912 CCTAATTAAATTGAAAACCCTAAACCTAATTAAATTGAAAACCCTAAC
1 CCTAATTAAATTGAAAACCCT-AACCTAATTAAATTGAAAACCCTAAC
8401960 CCTAATTAAATTGAAAACCCTAACCTAATTAAATTGAAAACCCTAAC
1 CCTAATTAAATTGAAAACCCTAACCTAATTAAATTGAAAACCCTAAC
8402007 CCTAATTAAATTGAAAACCCTAACCTAATTAA
1 CCTAATTAAATTGAAAACCCTAACCTAATTAA
8402039 GTTGCCCTAA
Statistics
Matches: 215, Mismatches: 3, Indels: 6
0.96 0.01 0.03
Matches are distributed among these distances:
47 169 0.79
48 46 0.21
ACGTcount: A:0.48, C:0.23, G:0.04, T:0.25
Consensus pattern (47 bp):
CCTAATTAAATTGAAAACCCTAACCTAATTAAATTGAAAACCCTAAC
Found at i:8401826 original size:24 final size:23
Alignment explanation
Indices: 8401768--8402038 Score: 470
Period size: 24 Copynumber: 11.5 Consensus size: 23
8401758 TAACCATTAA
8401768 TAACCTAATTAAATTGAAAACCC
1 TAACCTAATTAAATTGAAAACCC
* *
8401791 TAACCTAATTAAACTAAAAACCC
1 TAACCTAATTAAATTGAAAACCC
8401814 TAACCCTAATTAAATTGAAAACCC
1 TAA-CCTAATTAAATTGAAAACCC
8401838 TAACCTAATTAAATTGAAAACCC
1 TAACCTAATTAAATTGAAAACCC
8401861 TAAACCTAATTAAATTGAAAACCC
1 T-AACCTAATTAAATTGAAAACCC
8401885 TAACCCTAATTAAATTGAAAACCC
1 TAA-CCTAATTAAATTGAAAACCC
8401909 TAACCTAATTAAATTGAAAACCC
1 TAACCTAATTAAATTGAAAACCC
8401932 TAAACCTAATTAAATTGAAAACCC
1 T-AACCTAATTAAATTGAAAACCC
8401956 TAACCCTAATTAAATTGAAAACCC
1 TAA-CCTAATTAAATTGAAAACCC
8401980 TAACCTAATTAAATTGAAAACCC
1 TAACCTAATTAAATTGAAAACCC
8402003 TAACCCTAATTAAATTGAAAACCC
1 TAA-CCTAATTAAATTGAAAACCC
8402027 TAACCTAATTAA
1 TAACCTAATTAA
8402039 GTTGCCCTAA
Statistics
Matches: 238, Mismatches: 4, Indels: 12
0.94 0.02 0.05
Matches are distributed among these distances:
23 102 0.43
24 136 0.57
ACGTcount: A:0.48, C:0.23, G:0.04, T:0.25
Consensus pattern (23 bp):
TAACCTAATTAAATTGAAAACCC
Found at i:8401838 original size:18 final size:18
Alignment explanation
Indices: 8401815--8401863 Score: 53
Period size: 23 Copynumber: 2.4 Consensus size: 18
8401805 TAAAAACCCT
8401815 AACCCTAATTAAATTGAA
1 AACCCTAATTAAATTGAA
8401833 AACCCTAACCTAATTAAATTGAA
1 AA--C---CCTAATTAAATTGAA
8401856 AACCCTAA
1 AACCCTAA
8401864 ACCTAATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
18 7 0.27
20 1 0.04
21 1 0.04
23 17 0.65
ACGTcount: A:0.49, C:0.22, G:0.04, T:0.24
Consensus pattern (18 bp):
AACCCTAATTAAATTGAA
Found at i:8401891 original size:71 final size:71
Alignment explanation
Indices: 8401768--8402038 Score: 501
Period size: 71 Copynumber: 3.8 Consensus size: 71
8401758 TAACCATTAA
* *
8401768 TAACCTAATTAAATTGAAAACCCT-AACCTAATTAAACTAAAAACCCTAACCCTAATTAAATTGA
1 TAACCTAATTAAATTGAAAACCCTAAACCTAATTAAATTGAAAACCCTAACCCTAATTAAATTGA
8401832 AAACCC
66 AAACCC
8401838 TAACCTAATTAAATTGAAAACCCTAAACCTAATTAAATTGAAAACCCTAACCCTAATTAAATTGA
1 TAACCTAATTAAATTGAAAACCCTAAACCTAATTAAATTGAAAACCCTAACCCTAATTAAATTGA
8401903 AAACCC
66 AAACCC
8401909 TAACCTAATTAAATTGAAAACCCTAAACCTAATTAAATTGAAAACCCTAACCCTAATTAAATTGA
1 TAACCTAATTAAATTGAAAACCCTAAACCTAATTAAATTGAAAACCCTAACCCTAATTAAATTGA
8401974 AAACCC
66 AAACCC
*
8401980 TAACCTAATTAAATTGAAAACCCTAACCCTAATTAAATTGAAAACCCTAA-CCTAATTAA
1 TAACCTAATTAAATTGAAAACCCTAAACCTAATTAAATTGAAAACCCTAACCCTAATTAA
8402039 GTTGCCCTAA
Statistics
Matches: 197, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
70 33 0.17
71 164 0.83
ACGTcount: A:0.48, C:0.23, G:0.04, T:0.25
Consensus pattern (71 bp):
TAACCTAATTAAATTGAAAACCCTAAACCTAATTAAATTGAAAACCCTAACCCTAATTAAATTGA
AAACCC
Found at i:8401909 original size:18 final size:18
Alignment explanation
Indices: 8401886--8401934 Score: 53
Period size: 23 Copynumber: 2.4 Consensus size: 18
8401876 TGAAAACCCT
8401886 AACCCTAATTAAATTGAA
1 AACCCTAATTAAATTGAA
8401904 AACCCTAACCTAATTAAATTGAA
1 AA--C---CCTAATTAAATTGAA
8401927 AACCCTAA
1 AACCCTAA
8401935 ACCTAATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
18 7 0.27
20 1 0.04
21 1 0.04
23 17 0.65
ACGTcount: A:0.49, C:0.22, G:0.04, T:0.24
Consensus pattern (18 bp):
AACCCTAATTAAATTGAA
Found at i:8401980 original size:18 final size:18
Alignment explanation
Indices: 8401957--8402005 Score: 53
Period size: 23 Copynumber: 2.4 Consensus size: 18
8401947 TGAAAACCCT
8401957 AACCCTAATTAAATTGAA
1 AACCCTAATTAAATTGAA
8401975 AACCCTAACCTAATTAAATTGAA
1 AA--C---CCTAATTAAATTGAA
8401998 AACCCTAA
1 AACCCTAA
8402006 CCCTAATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
18 7 0.27
20 1 0.04
21 1 0.04
23 17 0.65
ACGTcount: A:0.49, C:0.22, G:0.04, T:0.24
Consensus pattern (18 bp):
AACCCTAATTAAATTGAA
Found at i:8402260 original size:116 final size:117
Alignment explanation
Indices: 8402055--8402270 Score: 380
Period size: 116 Copynumber: 1.9 Consensus size: 117
8402045 CTAACCCTTA
**
8402055 ACATTCACATAATGTTAGATTTGGAAAAATGTTTTTTCCTGGTACTAACAATTAATAATTTCATA
1 ACATTCACATAATGTTAGATTTGGAAAAATGTTTTTGACTGGTACTAACAATTAATAATTTCATA
*
8402120 TAATTTGATAATTTTACTAACCATTAATACAATTTTTTGAGTTATTAATTTT
66 TAATTTAATAATTTTACTAACCATTAATACAATTTTTTGAGTTATTAATTTT
* *
8402172 ACATTCACATAATGTTATATTTGGAAAAATG-TTTTGACTGGTACTAACAATTAATAATTTTATA
1 ACATTCACATAATGTTAGATTTGGAAAAATGTTTTTGACTGGTACTAACAATTAATAATTTCATA
8402236 TAATTTAATAATTTTACTAACCATTAATACAATTT
66 TAATTTAATAATTTTACTAACCATTAATACAATTT
8402271 ATCAATTACT
Statistics
Matches: 94, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
116 64 0.68
117 30 0.32
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (117 bp):
ACATTCACATAATGTTAGATTTGGAAAAATGTTTTTGACTGGTACTAACAATTAATAATTTCATA
TAATTTAATAATTTTACTAACCATTAATACAATTTTTTGAGTTATTAATTTT
Found at i:8405284 original size:11 final size:12
Alignment explanation
Indices: 8405270--8405316 Score: 64
Period size: 11 Copynumber: 4.2 Consensus size: 12
8405260 GAATTTTGGA
8405270 AGGAAAT-TGAG
1 AGGAAATATGAG
*
8405281 AGGAAATCT-AG
1 AGGAAATATGAG
8405292 AGGAAAT-TGAG
1 AGGAAATATGAG
8405303 AGGAAATATGAG
1 AGGAAATATGAG
8405315 AG
1 AG
8405317 AGGATTAGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.03
11 25 0.76
12 7 0.21
ACGTcount: A:0.47, C:0.02, G:0.34, T:0.17
Consensus pattern (12 bp):
AGGAAATATGAG
Found at i:8409861 original size:13 final size:14
Alignment explanation
Indices: 8409837--8409866 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
8409827 TACAAAATAT
8409837 GTACATATATATAA
1 GTACATATATATAA
8409851 GTACA-ATATATAA
1 GTACATATATATAA
8409864 GTA
1 GTA
8409867 AATTTGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (14 bp):
GTACATATATATAA
Found at i:8414180 original size:20 final size:19
Alignment explanation
Indices: 8414123--8414257 Score: 61
Period size: 19 Copynumber: 7.2 Consensus size: 19
8414113 TAAAAACTTT
*
8414123 AAATAT-TAAAAATTAGAAA
1 AAATATATAAAAATT-GTAA
*
8414142 AAAT-TGTAAAAA-TGTTAA
1 AAATATATAAAAATTG-TAA
8414160 AAATATATACAAAATTGTAA
1 AAATATATA-AAAATTGTAA
** * *
8414180 ATTTTTATAAAAATCGTAA
1 AAATATATAAAAATTGTAA
* *
8414199 AAA-AT-TATAAAATATATAG
1 AAATATATA-AAAAT-TGTAA
8414218 AAATATA-ACAAAA-TGTAA
1 AAATATATA-AAAATTGTAA
**
8414236 AGAA-ATATAAATTTTGTAA
1 A-AATATATAAAAATTGTAA
8414255 AAA
1 AAA
8414258 AATTTTATAA
Statistics
Matches: 87, Mismatches: 17, Indels: 25
0.67 0.13 0.19
Matches are distributed among these distances:
17 3 0.03
18 25 0.29
19 37 0.43
20 20 0.23
21 2 0.02
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (19 bp):
AAATATATAAAAATTGTAA
Found at i:8414206 original size:19 final size:18
Alignment explanation
Indices: 8414139--8414210 Score: 63
Period size: 19 Copynumber: 3.8 Consensus size: 18
8414129 TAAAAATTAG
*
8414139 AAAAAATTGTAAAAATGT
1 AAAAAATTATAAAAATGT
*
8414157 TAAAAATATATACAAAATTGT
1 AAAAAAT-TATA-AAAA-TGT
***
8414178 AAATTTTTATAAAAATCGT
1 AAAAAATTATAAAAAT-GT
8414197 AAAAAATTATAAAA
1 AAAAAATTATAAAA
8414211 TATATAGAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
18 7 0.17
19 20 0.49
20 8 0.20
21 6 0.15
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.32
Consensus pattern (18 bp):
AAAAAATTATAAAAATGT
Found at i:8414496 original size:18 final size:18
Alignment explanation
Indices: 8414461--8414507 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
8414451 GATTTTTATA
*
8414461 AAAAAAATTCT-AATTTTT
1 AAAAAAATT-TAAAATTTT
8414479 AAAAAAATTTAAAATTTT
1 AAAAAAATTTAAAATTTT
**
8414497 ATTAAAATTTA
1 AAAAAAATTTA
8414508 TTATTATTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 1 0.04
18 24 0.96
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAAAAATTTAAAATTTT
Found at i:8416247 original size:27 final size:27
Alignment explanation
Indices: 8416217--8416277 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
8416207 CTAACTGATT
* *
8416217 GGCGGCACCGATGGTGCCATTCCCATG
1 GGCGGCACCAATGGTGCCATTCCAATG
*
8416244 GGCGACACCAATGGTGCCATTCCAATG
1 GGCGGCACCAATGGTGCCATTCCAATG
8416271 GGCGGCA
1 GGCGGCA
8416278 TATAATGGTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.20, C:0.31, G:0.33, T:0.16
Consensus pattern (27 bp):
GGCGGCACCAATGGTGCCATTCCAATG
Found at i:8416356 original size:28 final size:28
Alignment explanation
Indices: 8416325--8416483 Score: 107
Period size: 28 Copynumber: 5.6 Consensus size: 28
8416315 AGAAGGAGAG
8416325 GGAAAGAAGAAGAAAGAAAGAAAGAAAA
1 GGAAAGAAGAAGAAAGAAAGAAAGAAAA
* *
8416353 GGAAAGGAGAGGAAAGAAAGAAA-AAGAA
1 GGAAAGAAGAAGAAAGAAAGAAAGAA-AA
*
8416381 GGAAAGAA-AAGGAAAGAGAAGAAA-AGAA
1 GGAAAGAAGAA-GAAAGA-AAGAAAGAAAA
* * *
8416409 GAAAAGAAGGAAGAAACGAAGGATAAGAGAA
1 GGAAAGAA-GAAGAAA-GAAAGA-AAGAAAA
* * * *
8416440 CGAAAGGATAAG--AGAAAAAAAGAAGAA
1 GGAAAGAAGAAGAAAGAAAGAAAGAA-AA
8416467 -G-AAGAAAGAAGAAAGAA
1 GGAAAG-AAGAAGAAAGAA
8416484 GAGGGGTGGA
Statistics
Matches: 103, Mismatches: 16, Indels: 24
0.72 0.11 0.17
Matches are distributed among these distances:
25 3 0.03
26 9 0.09
27 9 0.09
28 50 0.49
29 14 0.14
30 9 0.09
31 9 0.09
ACGTcount: A:0.67, C:0.01, G:0.31, T:0.01
Consensus pattern (28 bp):
GGAAAGAAGAAGAAAGAAAGAAAGAAAA
Found at i:8416379 original size:38 final size:38
Alignment explanation
Indices: 8416317--8416413 Score: 128
Period size: 38 Copynumber: 2.6 Consensus size: 38
8416307 GGGGGAAGAG
8416317 AAGGAGAGGGAAAG-AAGAAGAAAGAAAGAAAGAAAAGGA
1 AAGGAGA-GGAAAGAAAGAA-AAAGAAAGAAAGAAAAGGA
*
8416356 AAGGAGAGGAAAGAAAGAAAAAGAAGGAAAGAAAAGGA
1 AAGGAGAGGAAAGAAAGAAAAAGAAAGAAAGAAAAGGA
*
8416394 AA-GAGAAGAAA-AGAAGAAAA
1 AAGGAGAGGAAAGA-AAGAAAA
8416414 GAAGGAAGAA
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
36 1 0.02
37 15 0.28
38 26 0.48
39 12 0.22
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (38 bp):
AAGGAGAGGAAAGAAAGAAAAAGAAAGAAAGAAAAGGA
Found at i:8416391 original size:23 final size:22
Alignment explanation
Indices: 8416326--8416483 Score: 83
Period size: 23 Copynumber: 6.7 Consensus size: 22
8416316 GAAGGAGAGG
8416326 GAAAGAAGAAGAAAG-AAAGAAA
1 GAAA-AAGAAGAAAGAAAAGAAA
* * *
8416348 GAAAAGGAAAGGAGAGGAAAGAAA
1 GAAAAAG-AA-GAAAGAAAAGAAA
8416372 GAAAAAGAAGGAAAGAAAAGGAAA
1 GAAAAAGAA-GAAAGAAAA-GAAA
*
8416396 GAGAAGAA-AAG-AAGAAAAGAAG
1 GA-AA-AAGAAGAAAGAAAAGAAA
*
8416418 GAAGAAACGAAGGATAAGAGAACGAAA
1 GAA-AAA-GAA-GA-AAGA-AAAGAAA
* *
8416445 GGATAAG-AGAAA-AAAAGAAGAA
1 GAAAAAGAAGAAAGAAAAG-A-AA
8416467 GAAGAAAGAAGAAAGAA
1 GAA-AAAGAAGAAAGAA
8416484 GAGGGGTGGA
Statistics
Matches: 105, Mismatches: 13, Indels: 33
0.70 0.09 0.22
Matches are distributed among these distances:
20 3 0.03
21 7 0.07
22 18 0.17
23 28 0.27
24 27 0.26
25 7 0.07
26 8 0.08
27 7 0.07
ACGTcount: A:0.67, C:0.01, G:0.30, T:0.01
Consensus pattern (22 bp):
GAAAAAGAAGAAAGAAAAGAAA
Found at i:8416446 original size:16 final size:15
Alignment explanation
Indices: 8416419--8416455 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
8416409 GAAAAGAAGG
8416419 AAGA-AACGAAGGAT
1 AAGAGAACGAAGGAT
8416433 AAGAGAACGAAAGGAT
1 AAGAGAACG-AAGGAT
8416449 AAGAGAA
1 AAGAGAA
8416456 AAAAAGAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 4 0.19
15 4 0.19
16 13 0.62
ACGTcount: A:0.59, C:0.05, G:0.30, T:0.05
Consensus pattern (15 bp):
AAGAGAACGAAGGAT
Found at i:8416461 original size:16 final size:16
Alignment explanation
Indices: 8416427--8416461 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
8416417 GGAAGAAACG
**
8416427 AAGGATAAGAGAACGA
1 AAGGATAAGAGAAAAA
8416443 AAGGATAAGAGAAAAA
1 AAGGATAAGAGAAAAA
8416459 AAG
1 AAG
8416462 AAGAAGAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.63, C:0.03, G:0.29, T:0.06
Consensus pattern (16 bp):
AAGGATAAGAGAAAAA
Found at i:8416485 original size:10 final size:10
Alignment explanation
Indices: 8416326--8416479 Score: 77
Period size: 10 Copynumber: 16.0 Consensus size: 10
8416316 GAAGGAGAGG
8416326 GAAAGAAGAA
1 GAAAGAAGAA
8416336 GAAAG-A-AA
1 GAAAGAAGAA
8416344 GAAAGAA-AA
1 GAAAGAAGAA
* *
8416353 GGAAAGGAGAG
1 -GAAAGAAGAA
8416364 GAAAG-A-AA
1 GAAAGAAGAA
8416372 GAAA-AAGAA
1 GAAAGAAGAA
8416381 GGAAAGAA-AA
1 -GAAAGAAGAA
8416391 GGAAAG-AGAA
1 -GAAAGAAGAA
8416401 G-AA-AAGAA
1 GAAAGAAGAA
8416409 GAAAAGAAGGAA
1 G-AAAGAA-GAA
8416421 GAAACGAAG--
1 GAAA-GAAGAA
8416430 GATAAG-AGAA
1 GA-AAGAAGAA
* *
8416440 CGAAAGGATAA
1 -GAAAGAAGAA
*
8416451 GAGAA-AAAAA
1 GA-AAGAAGAA
8416461 G-AAGAAGAA
1 GAAAGAAGAA
8416470 GAAAGAAGAA
1 GAAAGAAGAA
8416480 AGAAGAGGGG
Statistics
Matches: 115, Mismatches: 7, Indels: 44
0.69 0.04 0.27
Matches are distributed among these distances:
8 24 0.21
9 17 0.15
10 51 0.44
11 16 0.14
12 7 0.06
ACGTcount: A:0.67, C:0.01, G:0.31, T:0.01
Consensus pattern (10 bp):
GAAAGAAGAA
Found at i:8419095 original size:16 final size:16
Alignment explanation
Indices: 8419076--8419106 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8419066 TTTGGTGTAT
8419076 TTTTTATATAATTTAG
1 TTTTTATATAATTTAG
*
8419092 TTTTTATATATTTTA
1 TTTTTATATAATTTA
8419107 TTATGGTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (16 bp):
TTTTTATATAATTTAG
Found at i:8426055 original size:19 final size:20
Alignment explanation
Indices: 8426013--8426055 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
8426003 TCATGCTTTC
* *
8426013 TATTCGCATTTTCATATTCA
1 TATTCACATTTTCAAATTCA
8426033 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
8426051 TATTC
1 TATTC
8426056 CACAATCACG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.30, C:0.19, G:0.02, T:0.49
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:8427198 original size:9 final size:9
Alignment explanation
Indices: 8427186--8427225 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
8427176 CTATTTCTCC
8427186 CTTTTCTTT
1 CTTTTCTTT
8427195 CTTTTC-TT
1 CTTTTCTTT
* *
8427203 CTTTCCCTT
1 CTTTTCTTT
8427212 CTTTTCTTT
1 CTTTTCTTT
8427221 CTTTT
1 CTTTT
8427226 TCTCCCTGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
8 7 0.26
9 20 0.74
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (9 bp):
CTTTTCTTT
Found at i:8427204 original size:21 final size:21
Alignment explanation
Indices: 8427180--8427248 Score: 52
Period size: 26 Copynumber: 3.0 Consensus size: 21
8427170 AAAACCCTAT
8427180 TTCTCCCTTTTCTTTCTTTTC
1 TTCTCCCTTTTCTTTCTTTTC
8427201 TTCTTTCCCTTCTTTTCTTTC-TTT-
1 TTC--T-CC--CTTTTCTTTCTTTTC
*
8427225 TTCTCCCTGTTTCATTTCTATTC
1 TTCTCCCT-TTTC-TTTCTTTTC
8427248 T
1 T
8427249 GTTTCTTTCT
Statistics
Matches: 38, Mismatches: 1, Indels: 16
0.69 0.02 0.29
Matches are distributed among these distances:
19 2 0.05
20 4 0.11
21 9 0.24
22 3 0.08
23 2 0.05
24 5 0.13
25 3 0.08
26 10 0.26
ACGTcount: A:0.03, C:0.30, G:0.01, T:0.65
Consensus pattern (21 bp):
TTCTCCCTTTTCTTTCTTTTC
Found at i:8427248 original size:26 final size:24
Alignment explanation
Indices: 8427179--8427254 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 24
8427169 AAAAACCCTA
*
8427179 TTTCTCCCTTTTCTTTCTTTTCTT
1 TTTCTCCCTTTTCTTTCTATTCTT
* *
8427203 CTT-TCCCTTCT-TTTCT-TTCTT
1 TTTCTCCCTTTTCTTTCTATTCTT
*
8427224 TTTCTCCCTGTTTCATTTCTATTCTG
1 TTTCTCCCT-TTTC-TTTCTATTCTT
8427250 TTTCT
1 TTTCT
8427255 TTCTGTTTCT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
21 7 0.17
22 10 0.24
23 9 0.21
24 2 0.05
25 5 0.12
26 9 0.21
ACGTcount: A:0.03, C:0.29, G:0.03, T:0.66
Consensus pattern (24 bp):
TTTCTCCCTTTTCTTTCTATTCTT
Found at i:8427260 original size:26 final size:25
Alignment explanation
Indices: 8427214--8427263 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
8427204 TTTCCCTTCT
*
8427214 TTTCTTTCTTTTTCTCCCTGTTTCA
1 TTTCTTTCTGTTTCTCCCTGTTTCA
**
8427239 TTTCTATTCTGTTTCTTTCTGTTTC
1 TTTCT-TTCTGTTTCTCCCTGTTTC
8427264 TTTTTATGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.04, C:0.24, G:0.06, T:0.66
Consensus pattern (25 bp):
TTTCTTTCTGTTTCTCCCTGTTTCA
Found at i:8429051 original size:23 final size:23
Alignment explanation
Indices: 8428978--8429053 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
8428968 AGTGTTATTG
8428978 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * *
8429001 TTCAATGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
8429024 ATCAGTGGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
8429047 ATCAGTG
1 ATCAGTG
8429054 TGGCACTTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:8433358 original size:21 final size:20
Alignment explanation
Indices: 8433334--8433372 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
8433324 TCATAATATG
*
8433334 ATAATATAATCAATTTAATTT
1 ATAATATAAT-AATATAATTT
8433355 ATAATATAATAATATAAT
1 ATAATATAATAATATAAT
8433373 AACAATAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (20 bp):
ATAATATAATAATATAATTT
Found at i:8433358 original size:29 final size:29
Alignment explanation
Indices: 8433316--8433372 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
8433306 GTCTTTTCTT
*
8433316 AATTTATTTCATAATATGATAATATAATC
1 AATTTATTTCATAATATAATAATATAATC
8433345 AATTTAATTT-ATAATATAATAATATAAT
1 AATTT-ATTTCATAATATAATAATATAAT
8433373 AACAATAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.46
Consensus pattern (29 bp):
AATTTATTTCATAATATAATAATATAATC
Found at i:8439019 original size:11 final size:11
Alignment explanation
Indices: 8438999--8439036 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
8438989 GGCCCAGCCC
8438999 ATATTAAATAT
1 ATATTAAATAT
*
8439010 ATATTTAATAT
1 ATATTAAATAT
*
8439021 ATATAAAATAT
1 ATATTAAATAT
8439032 ATATT
1 ATATT
8439037 TGATTAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
ATATTAAATAT
Found at i:8439084 original size:18 final size:18
Alignment explanation
Indices: 8439025--8439066 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
8439015 TAATATATAT
8439025 AAAATATATATTTGATTA
1 AAAATATATATTTGATTA
8439043 AAAATATATATTTGATTA
1 AAAATATATATTTGATTA
8439061 AAAATA
1 AAAATA
8439067 AAAAATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (18 bp):
AAAATATATATTTGATTA
Found at i:8439371 original size:8 final size:8
Alignment explanation
Indices: 8439345--8439414 Score: 67
Period size: 8 Copynumber: 9.0 Consensus size: 8
8439335 AATTATAAAA
8439345 TATATTAT
1 TATATTAT
*
8439353 TATTGTTAT
1 TA-TATTAT
*
8439362 TATTTTAT
1 TATATTAT
8439370 TATATTAT
1 TATATTAT
8439378 TATATTA-
1 TATATTAT
8439385 TA-A--AT
1 TATATTAT
*
8439390 TAAATTGAT
1 TATATT-AT
8439399 TATATTAT
1 TATATTAT
8439407 TATATTAT
1 TATATTAT
8439415 GAAATAAATT
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
4 1 0.02
5 2 0.04
6 2 0.04
7 2 0.04
8 31 0.60
9 14 0.27
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (8 bp):
TATATTAT
Found at i:8439406 original size:29 final size:29
Alignment explanation
Indices: 8439368--8439424 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
8439358 TTATTATTTT
8439368 ATTATATTATTATATTAT-AAATTAAATTG
1 ATTATATTATTATATTATGAAA-TAAATTG
8439397 ATTATATTATTATATTATGAAATAAATT
1 ATTATATTATTATATTATGAAATAAATT
8439425 AAGTAAAGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 24 0.89
30 3 0.11
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (29 bp):
ATTATATTATTATATTATGAAATAAATTG
Found at i:8439554 original size:31 final size:32
Alignment explanation
Indices: 8439483--8439555 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 32
8439473 AAATGAGTAC
* *
8439483 ATTTGTATTATTTATATATAGTTAGTAAAAAAG
1 ATTTTTATTATTTATATATAATTAGT-AAAAAG
8439516 ATATTTTATTATTTAT-TATTAATTAGT-AAAAG
1 AT-TTTTATTATTTATATA-TAATTAGTAAAAAG
8439548 ATTTTTAT
1 ATTTTTAT
8439556 ATGATAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
31 6 0.17
32 7 0.19
33 4 0.11
34 19 0.53
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (32 bp):
ATTTTTATTATTTATATATAATTAGTAAAAAG
Found at i:8439875 original size:10 final size:10
Alignment explanation
Indices: 8439857--8439905 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
8439847 AAAGTAAAAT
8439857 AAAAG-AACA
1 AAAAGAAACA
8439866 AAAAGAAACA
1 AAAAGAAACA
*
8439876 AAAAGAAATA
1 AAAAGAAACA
*
8439886 GAAAGAAACA
1 AAAAGAAACA
*
8439896 GAATAGAAAC
1 -AAAAGAAAC
8439906 GAAACACGGA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
9 5 0.15
10 21 0.64
11 7 0.21
ACGTcount: A:0.73, C:0.08, G:0.14, T:0.04
Consensus pattern (10 bp):
AAAAGAAACA
Found at i:8439898 original size:16 final size:16
Alignment explanation
Indices: 8439853--8439911 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
8439843 AACTAAAGTA
8439853 AAATA-AAAG-AACA-
1 AAATAGAAAGAAACAG
* *
8439866 AAA-AGAAACAAAAAG
1 AAATAGAAAGAAACAG
8439881 AAATAGAAAGAAACAG
1 AAATAGAAAGAAACAG
8439897 -AATAGAAACGAAACA
1 AAATAGAAA-GAAACA
8439912 CGGAGAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
12 1 0.03
13 6 0.16
14 3 0.08
15 11 0.30
16 16 0.43
ACGTcount: A:0.73, C:0.08, G:0.14, T:0.05
Consensus pattern (16 bp):
AAATAGAAAGAAACAG
Found at i:8442846 original size:19 final size:20
Alignment explanation
Indices: 8442804--8442846 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
8442794 TCATGCTTTC
* *
8442804 TATTCGCATTTTCATATTCA
1 TATTCACATTTTCAAATTCA
8442824 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
8442842 TATTC
1 TATTC
8442847 CACAATCACG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.30, C:0.19, G:0.02, T:0.49
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:8443047 original size:38 final size:39
Alignment explanation
Indices: 8443000--8443108 Score: 105
Period size: 38 Copynumber: 2.8 Consensus size: 39
8442990 CGGATAGTTT
* *
8443000 GAAGCAAAGTTGACACCCAGTGTCTCATCG-GCCTAGCC
1 GAAGTAAAGTTGACACCCAGTGTCTCATCGAACCTAGCC
* * * * *
8443038 GAAGTAAAG-TGATATCCAGTATCTCATCGAATCTATCC
1 GAAGTAAAGTTGACACCCAGTGTCTCATCGAACCTAGCC
* *
8443076 AAAGTAAAATAGTGACACCCAGTGTCTCATCGA
1 GAAGTAAAGT--TGACACCCAGTGTCTCATCGA
8443109 CTCGAGGTCG
Statistics
Matches: 55, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
37 17 0.31
38 20 0.36
41 18 0.33
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (39 bp):
GAAGTAAAGTTGACACCCAGTGTCTCATCGAACCTAGCC
Found at i:8443821 original size:29 final size:29
Alignment explanation
Indices: 8443773--8443830 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
8443763 TTAATCAATT
8443773 CTAATCAATAATTCTATCAA-ATAAACCC
1 CTAATCAATAATTCTATCAACATAAACCC
* *
8443801 CTAATTCAATCATT-TATTCAACATGAACCC
1 CTAA-TCAATAATTCTA-TCAACATAAACCC
8443831 TACTCAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
28 6 0.24
29 12 0.48
30 7 0.28
ACGTcount: A:0.41, C:0.26, G:0.02, T:0.31
Consensus pattern (29 bp):
CTAATCAATAATTCTATCAACATAAACCC
Found at i:8444028 original size:21 final size:20
Alignment explanation
Indices: 8443969--8444034 Score: 51
Period size: 26 Copynumber: 2.9 Consensus size: 20
8443959 TAAAACATTA
*
8443969 TTTCTCCCTTTTCTCTCTTT
1 TTTCTCCCTTTTCTTTCTTT
8443989 TCTTCTTTCCCTTCTTTTCTTTCTTT
1 T-TTC--T-CC--CTTTTCTTTCTTT
8444015 TTTCTCCCTGTTTCGTTTCT
1 TTTCTCCCT-TTTC-TTTCT
8444035 ATTCTGTTTC
Statistics
Matches: 37, Mismatches: 1, Indels: 14
0.71 0.02 0.27
Matches are distributed among these distances:
20 3 0.08
21 7 0.19
22 7 0.19
23 2 0.05
24 2 0.05
25 3 0.08
26 13 0.35
ACGTcount: A:0.00, C:0.32, G:0.03, T:0.65
Consensus pattern (20 bp):
TTTCTCCCTTTTCTTTCTTT
Found at i:8444043 original size:16 final size:17
Alignment explanation
Indices: 8444022--8444065 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
8444012 TTTTTTCTCC
8444022 CTGTTTCGTTTCTA-TT
1 CTGTTTCGTTTCTATTT
8444038 CTGTTTC-TTTCTATTT
1 CTGTTTCGTTTCTATTT
*
8444054 CT-TTTTGTTTCT
1 CTGTTTCGTTTCT
8444066 TTTTATGCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 9 0.36
16 16 0.64
ACGTcount: A:0.05, C:0.18, G:0.09, T:0.68
Consensus pattern (17 bp):
CTGTTTCGTTTCTATTT
Found at i:8444419 original size:192 final size:192
Alignment explanation
Indices: 8444092--8444458 Score: 671
Period size: 192 Copynumber: 1.9 Consensus size: 192
8444082 TACTTTAGTT
* *
8444092 TAATAATTATTATTTATTAAATATTAAGTAAATAAATATGTATTTTACAATTATATGTATATGAT
1 TAATAATAATTATTTATTAAATATTAAGTAAATAAATATGTATTTTACAATTATATGCATATGAT
*
8444157 TTATTACACTTGTACTTTACTATCACCATACATTTGTCAACTTATTAATTTGTTCATTAATCTAA
66 TTATTACACTTGTACTTTACTATCACCATACAATTGTCAACTTATTAATTTGTTCATTAATCTAA
*
8444222 TAATATAATATCAATTAAATAATAATAACAATGATAATTATTATATTATTATATTAACTTAA
131 TAATATAATATCAATTAAATAATAATAACAATAATAATTATTATATTATTATATTAACTTAA
* *
8444284 TAATAATAATTATTTCTTAAATATTAAGTAAATAAATATGTATTTTACAATTGTATGCATATGAT
1 TAATAATAATTATTTATTAAATATTAAGTAAATAAATATGTATTTTACAATTATATGCATATGAT
8444349 TTATTACACTTGTACTTTACTATCACCATACAATTGTCAACTTATTAATTTGTTCATTAATCTAA
66 TTATTACACTTGTACTTTACTATCACCATACAATTGTCAACTTATTAATTTGTTCATTAATCTAA
*
8444414 TAATATAGTATCAATTAAATAATAATAACAATAATAATTATTATA
131 TAATATAATATCAATTAAATAATAATAACAATAATAATTATTATA
8444459 ATAATAATAA
Statistics
Matches: 168, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
192 168 1.00
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (192 bp):
TAATAATAATTATTTATTAAATATTAAGTAAATAAATATGTATTTTACAATTATATGCATATGAT
TTATTACACTTGTACTTTACTATCACCATACAATTGTCAACTTATTAATTTGTTCATTAATCTAA
TAATATAATATCAATTAAATAATAATAACAATAATAATTATTATATTATTATATTAACTTAA
Found at i:8444461 original size:21 final size:22
Alignment explanation
Indices: 8444435--8444486 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
8444425 CAATTAAATA
8444435 ATAATAACAAT-AATAAT-TATT
1 ATAATAACAATAAAT-ATCTATT
*
8444456 ATAATAATAATAAATATCTATT
1 ATAATAACAATAAATATCTATT
8444478 -TAATAACAA
1 ATAATAACAA
8444487 ATATAAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 20 0.74
22 7 0.26
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.37
Consensus pattern (22 bp):
ATAATAACAATAAATATCTATT
Found at i:8444609 original size:31 final size:31
Alignment explanation
Indices: 8444574--8444646 Score: 76
Period size: 34 Copynumber: 2.3 Consensus size: 31
8444564 TATTTATCAT
*
8444574 ATAAAAATCTTTTACTAATTA-ATAATAAATA
1 ATAAAAATCTTTTACTAACTATAT-ATAAATA
*
8444605 ATAAAATATATTTTTTACTAACTATATATAAATA
1 AT-AAA-A-ATCTTTTACTAACTATATATAAATA
*
8444639 ATACAAAT
1 ATAAAAAT
8444647 GTACTCATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
31 4 0.11
32 4 0.11
33 3 0.09
34 22 0.63
35 2 0.06
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (31 bp):
ATAAAAATCTTTTACTAACTATATATAAATA
Found at i:8444735 original size:28 final size:28
Alignment explanation
Indices: 8444704--8444762 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
8444694 TGTCTTTTCT
*
8444704 TAATTT-ATTTCATAATATAATAATTTAA
1 TAATTTAATTT-ATAATATAATAATATAA
8444732 TAATTTAATTTATAATATAATAATATAA
1 TAATTTAATTTATAATATAATAATATAA
8444760 TAA
1 TAA
8444763 CAATAATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 25 0.86
29 4 0.14
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (28 bp):
TAATTTAATTTATAATATAATAATATAA
Found at i:8444746 original size:20 final size:20
Alignment explanation
Indices: 8444723--8444760 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8444713 TCATAATATA
* *
8444723 ATAATTTAATAATTTAATTT
1 ATAATATAATAATATAATTT
8444743 ATAATATAATAATATAAT
1 ATAATATAATAATATAAT
8444761 AACAATAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATAATATAATAATATAATTT
Found at i:8444754 original size:8 final size:8
Alignment explanation
Indices: 8444715--8444775 Score: 58
Period size: 8 Copynumber: 8.0 Consensus size: 8
8444705 AATTTATTTC
8444715 ATAATATA
1 ATAATATA
*
8444723 ATAATTTA
1 ATAATATA
8444731 ATAAT-T-
1 ATAATATA
*
8444737 -TAAT-TT
1 ATAATATA
8444743 ATAATATA
1 ATAATATA
8444751 ATAATATA
1 ATAATATA
*
8444759 ATAACAATA
1 ATAA-TATA
8444768 ATAATATA
1 ATAATATA
8444776 TCTTATAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 5 0.11
7 5 0.11
8 28 0.62
9 7 0.16
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (8 bp):
ATAATATA
Found at i:8448011 original size:10 final size:10
Alignment explanation
Indices: 8447996--8448021 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
8447986 TTTTTCATTT
8447996 AAATTTTTTA
1 AAATTTTTTA
8448006 AAATTTTTTA
1 AAATTTTTTA
8448016 AAATTT
1 AAATTT
8448022 AAATTAGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
AAATTTTTTA
Found at i:8448108 original size:15 final size:17
Alignment explanation
Indices: 8448087--8448126 Score: 66
Period size: 15 Copynumber: 2.5 Consensus size: 17
8448077 TAATTTTTTA
8448087 AAAATTATTAAAAT-AT
1 AAAATTATTAAAATGAT
8448103 -AAATTATTAAAATGAT
1 AAAATTATTAAAATGAT
8448119 AAAATTAT
1 AAAATTAT
8448127 ATTTTACTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 13 0.59
16 2 0.09
17 7 0.32
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
AAAATTATTAAAATGAT
Found at i:8448155 original size:81 final size:82
Alignment explanation
Indices: 8447982--8448158 Score: 198
Period size: 81 Copynumber: 2.2 Consensus size: 82
8447972 TTTTAAAATG
* * * *
8447982 AAAATTTTTCATTTAAATTTTTTAAAATTTTTTAAAATTTAAATTAGTAAAAATAAAATTATACT
1 AAAA-TTTTAATTTAAATTTTTTAAAAATTATTAAAATATAAATTAGTAAAAATAAAATTATACT
* *
8448047 TTAATTTTAAAAAATAAT
65 TTAACTATAAAAAATAAT
*
8448065 AAAATTTTAATTT-AATTTTTTAAAAATTATTAAAATATAAATTATTAAAATGATAAAATTATA-
1 AAAATTTTAATTTAAATTTTTTAAAAATTATTAAAATATAAATTAGTAAAA--ATAAAATTATAC
* * * *
8448128 TTTTACTATCATAAATATT
64 TTTAACTATAAAAAATAAT
*
8448147 ATAA-TTTAATTT
1 AAAATTTTAATTT
8448159 CGATTCTTAA
Statistics
Matches: 80, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
81 41 0.51
82 24 0.30
83 15 0.19
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.47
Consensus pattern (82 bp):
AAAATTTTAATTTAAATTTTTTAAAAATTATTAAAATATAAATTAGTAAAAATAAAATTATACTT
TAACTATAAAAAATAAT
Found at i:8451644 original size:25 final size:24
Alignment explanation
Indices: 8451600--8451647 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
8451590 AACTTTTTTT
*
8451600 AAATTTTATTTTTAATTTGTTAAG
1 AAATTTTATTTTGAATTTGTTAAG
8451624 AAATATTTA-TTTGAATGTTGTTAA
1 AAAT-TTTATTTTGAAT-TTGTTAA
8451648 TATTTTTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.54
Consensus pattern (24 bp):
AAATTTTATTTTGAATTTGTTAAG
Found at i:8463154 original size:358 final size:357
Alignment explanation
Indices: 8462495--8463211 Score: 1362
Period size: 358 Copynumber: 2.0 Consensus size: 357
8462485 AAGAATTGAT
*
8462495 ATAACATACAACTTTTACCTTATGAGGTCGAAACGGCAGTTCATCTCAGTTCACATTCCGCATCA
1 ATAACATACAACTTTTACCTTATGAGGTCGAAACGGCAGTTCATCTCAATTCACATTCCGCATCA
* *
8462560 CATAAGAACAACAATCGGGGACCCATGACCATGGGTGCAGTTTGAAAGACAGTCTAGCAAATCAG
66 CATAAGAACAACAATCAGGGACCCATGACCATGGGTGCAGTTTGAAAGACAGCCTAGCAAATCAG
8462625 GTAACTATGTTACAAATTATATCAACAGCATAACAATTTTCTTGATGACTGATTGATCTATGTCC
131 GTAACTATGTTACAAATTATATCAACAGCATAACAATTTTCTTGATGACTGATTGATCTATGTCC
8462690 CTATCAAGAGAGATTCAAATGACAACATTCAAATATCAACCAACTAGTAATCAAGAAATAACCAA
196 CTATCAAGAGAGATTCAAATGACAACATTCAAATATCAACCAACTAGTAATCAAGAAATAACCAA
8462755 CAATGATTTCGGAACATTATTTCCAGTGGCAAATATGATTGTAATTGTAAGCTCTGAACAGGGAA
261 CAATGATTTCGGAACATTATTTCCAGTGGCAAATATGATTGTAATTGTAAGCTCTGAACAGGGAA
8462820 CTAAAAGCAAATGCCAAACCATGTTTAATTGCA
326 CTAAAAGC-AATGCCAAACCATGTTTAATTGCA
8462853 ATAACATACAACTTTTACCTTATGAGGTCGAAACGGCAGTTCATCTCAATTCACATTCCGCATCA
1 ATAACATACAACTTTTACCTTATGAGGTCGAAACGGCAGTTCATCTCAATTCACATTCCGCATCA
*
8462918 CATAAGAACAACAATCAGGGACCCATGACCGTGGGTGCAGTTTGAAAGACAGCCTAGCAAATCAG
66 CATAAGAACAACAATCAGGGACCCATGACCATGGGTGCAGTTTGAAAGACAGCCTAGCAAATCAG
8462983 GTAACTATGTTACAAATTATATCAACAGCATAACAATTTTCTTGATGACTGATTGATCTATGTCC
131 GTAACTATGTTACAAATTATATCAACAGCATAACAATTTTCTTGATGACTGATTGATCTATGTCC
8463048 CTATCAAGAGAGATTCAAATGACAACATTCAAATATCAACCAACTAGTAATCAAGAAATAACCAA
196 CTATCAAGAGAGATTCAAATGACAACATTCAAATATCAACCAACTAGTAATCAAGAAATAACCAA
* * *
8463113 CAATGGTTTCGGAACATTATTTCCAGTGGCAAATGTGATTGTGATTGTAAGCTCTGAACAGGGAA
261 CAATGATTTCGGAACATTATTTCCAGTGGCAAATATGATTGTAATTGTAAGCTCTGAACAGGGAA
8463178 CTAAAAGCAATGCCAAACCATGTTTAATTGCA
326 CTAAAAGCAATGCCAAACCATGTTTAATTGCA
8463210 AT
1 AT
8463212 GGCAAATGAA
Statistics
Matches: 352, Mismatches: 7, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
357 26 0.07
358 326 0.93
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.26
Consensus pattern (357 bp):
ATAACATACAACTTTTACCTTATGAGGTCGAAACGGCAGTTCATCTCAATTCACATTCCGCATCA
CATAAGAACAACAATCAGGGACCCATGACCATGGGTGCAGTTTGAAAGACAGCCTAGCAAATCAG
GTAACTATGTTACAAATTATATCAACAGCATAACAATTTTCTTGATGACTGATTGATCTATGTCC
CTATCAAGAGAGATTCAAATGACAACATTCAAATATCAACCAACTAGTAATCAAGAAATAACCAA
CAATGATTTCGGAACATTATTTCCAGTGGCAAATATGATTGTAATTGTAAGCTCTGAACAGGGAA
CTAAAAGCAATGCCAAACCATGTTTAATTGCA
Found at i:8463559 original size:5 final size:6
Alignment explanation
Indices: 8463541--8463566 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
8463531 CACTCAAATG
8463541 AACAAA AACAAA AACAAA AACAAA AA
1 AACAAA AACAAA AACAAA AACAAA AA
8463567 GATCACCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (6 bp):
AACAAA
Found at i:8472089 original size:56 final size:56
Alignment explanation
Indices: 8472020--8472142 Score: 174
Period size: 56 Copynumber: 2.2 Consensus size: 56
8472010 GTGTCCATGC
* * * *
8472020 CCGTGTGAATATACTGACTTGGGACACACGACCAAGCCACACGCCCGTGTGCTAAG
1 CCGTGTGAGTATACTGACTTAGGACACACGACCAAACCACACACCCGTGTGCTAAG
* * * *
8472076 CCGTGTGAGTATACTGACTTAGGTCACACGGCCAAACCACATACCCGTGTGCTAGG
1 CCGTGTGAGTATACTGACTTAGGACACACGACCAAACCACACACCCGTGTGCTAAG
8472132 CCGTGTGAGTA
1 CCGTGTGAGTA
8472143 ATTTGAGCAT
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.25, C:0.28, G:0.26, T:0.20
Consensus pattern (56 bp):
CCGTGTGAGTATACTGACTTAGGACACACGACCAAACCACACACCCGTGTGCTAAG
Found at i:8473142 original size:25 final size:25
Alignment explanation
Indices: 8473114--8473186 Score: 110
Period size: 25 Copynumber: 2.9 Consensus size: 25
8473104 AGCTTTTCCA
* *
8473114 AGCTATATAACGGGAAGCTCATGTG
1 AGCTATATAACGAGAAGCTCATGCG
*
8473139 AGCTAAATAACGAGAAGCTCATGCG
1 AGCTATATAACGAGAAGCTCATGCG
*
8473164 AGCTATATATCGAGAAGCTCATG
1 AGCTATATAACGAGAAGCTCATG
8473187 AGAGTTGTGG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.22
Consensus pattern (25 bp):
AGCTATATAACGAGAAGCTCATGCG
Found at i:8478604 original size:14 final size:14
Alignment explanation
Indices: 8478569--8478606 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
8478559 TATAAGAGAA
8478569 TATAATTACTACCT
1 TATAATTACTACCT
8478583 TAATAATTACTA-CT
1 T-ATAATTACTACCT
8478597 CTATAATTAC
1 -TATAATTAC
8478607 ACTTCTATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.42
Consensus pattern (14 bp):
TATAATTACTACCT
Found at i:8480890 original size:18 final size:19
Alignment explanation
Indices: 8480869--8480904 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
8480859 CGAAAATGGT
8480869 ATAAAA-TTAAAAAAAAAC
1 ATAAAAGTTAAAAAAAAAC
8480887 ATAAAAGTTAAAAAAAAA
1 ATAAAAGTTAAAAAAAAA
8480905 AAGCTGGGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.17
Consensus pattern (19 bp):
ATAAAAGTTAAAAAAAAAC
Found at i:8481004 original size:20 final size:20
Alignment explanation
Indices: 8480979--8481065 Score: 147
Period size: 20 Copynumber: 4.3 Consensus size: 20
8480969 TTGGCTGAAT
8480979 GAGAAGAAAGAAAAGGAAAG
1 GAGAAGAAAGAAAAGGAAAG
*
8480999 GAGAAGAAAGAAAAAGAAAG
1 GAGAAGAAAGAAAAGGAAAG
* *
8481019 AAGAAGAAAGGAAAGGAAAG
1 GAGAAGAAAGAAAAGGAAAG
8481039 GAGAAGAAAGAAAAGGAAAG
1 GAGAAGAAAGAAAAGGAAAG
8481059 GAGAAGA
1 GAGAAGA
8481066 GGGAGGGAAG
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (20 bp):
GAGAAGAAAGAAAAGGAAAG
Found at i:8481016 original size:30 final size:30
Alignment explanation
Indices: 8480982--8481065 Score: 118
Period size: 30 Copynumber: 2.8 Consensus size: 30
8480972 GCTGAATGAG
8480982 AAGAAAGAAAAGGAAAGGAGAAGAAAGAAA
1 AAGAAAGAAAAGGAAAGGAGAAGAAAGAAA
* *
8481012 AAGAAAGAAGAA-GAAAGGA-AAGGAAAGGAG
1 AAGAAAGAA-AAGGAAAGGAGAA-GAAAGAAA
8481042 AAGAAAGAAAAGGAAAGGAGAAGA
1 AAGAAAGAAAAGGAAAGGAGAAGA
8481066 GGGAGGGAAG
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
29 4 0.08
30 40 0.83
31 4 0.08
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (30 bp):
AAGAAAGAAAAGGAAAGGAGAAGAAAGAAA
Found at i:8481650 original size:130 final size:132
Alignment explanation
Indices: 8481487--8481756 Score: 420
Period size: 130 Copynumber: 2.1 Consensus size: 132
8481477 TAAAAAATAC
* * *
8481487 ACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATGAAATATGAAAATAA
1 ACTAAATTAATACATTTCAAACATAATATACTAAAATAATGTAAAATAATAAAATACGAAAATAA
* * * *
8481552 TATATATTTTTGAAAGTAATAAAAT-C-TGAAAAAAATACGAACAAATGGCCAAAATAAGGG-TT
66 TATAT-TTTTTGAAAGAAATAAAATCCGGGAAAAAAATAAGAACAAAGGGCCAAAATAAGGGTTT
8481614 TTT
130 TTT
8481617 ACTAAATTAATACATTTCAAACATAATATACTAAAATAATGTAAAATAATAAAATACGAAAATAA
1 ACTAAATTAATACATTTCAAACATAATATACTAAAATAATGTAAAATAATAAAATACGAAAATAA
* * *
8481682 TATATTTTTTGAAAGAAATAAAATCCGGGGAAAAAATAAGAATAAAGGGCCGAAATAAGGGTTTT
66 TATATTTTTTGAAAGAAATAAAATCCGGGAAAAAAATAAGAACAAAGGGCCAAAATAAGGGTTTT
8481747 TT
131 TT
8481749 ACTAAATT
1 ACTAAATT
8481757 TAATTAAAAA
Statistics
Matches: 127, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
129 18 0.14
130 68 0.54
131 28 0.22
132 13 0.10
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.29
Consensus pattern (132 bp):
ACTAAATTAATACATTTCAAACATAATATACTAAAATAATGTAAAATAATAAAATACGAAAATAA
TATATTTTTTGAAAGAAATAAAATCCGGGAAAAAAATAAGAACAAAGGGCCAAAATAAGGGTTTT
TT
Found at i:8481974 original size:156 final size:156
Alignment explanation
Indices: 8481619--8482066 Score: 683
Period size: 156 Copynumber: 2.9 Consensus size: 156
8481609 GGGTTTTTAC
* *
8481619 TAAATTAATACATTTCAAACATAATATACTAAAATAATGTAAAATAATAAAATACGAAAATAATA
1 TAAATTAATACATTTCAAACATAATGTACTAAAATAATATAAAATAATAAAATACGAAAATAATA
* * * *
8481684 TA-TTTTTTGAAAGAAATAAAATCCGGGGAAAAAATAAGAATAAAGGGCCGAAATAAGGGTTTTT
66 TATTTTTTTGAAAGTAATAAAATCCAGGGAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTT
*
8481748 TACTAAATTTAATTAAAAAATTACAG
131 TACTAAATTTAATTAAAAAATCACAG
*
8481774 TAAATTAATACATTTCAAGCATAATGTACTAAAATAATATAAAATAATAAAATACGAAAATAATA
1 TAAATTAATACATTTCAAACATAATGTACTAAAATAATATAAAATAATAAAATACGAAAATAATA
* * *
8481839 GATTTTTATTGAAAGTAATAAAATCCAGGAAAAAAATACGAACAAATGGCCGAAATAAGGGTTTT
66 TATTTTT-TTGAAAGTAATAAAATCCAGGGAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTT
* * *
8481904 TT-TTAAAATTTATTTAAAAAA-CATAG
130 TTACT-AAATTTAATTAAAAAATCACAG
* *
8481930 TAAATTAATACATTTTAAACATAATGTATTAAAATAATATAAAATAATAAAATACGAAAATAATA
1 TAAATTAATACATTTCAAACATAATGTACTAAAATAATATAAAATAATAAAATACGAAAATAATA
*
8481995 TATTTTTTT-AAAGTAATAAAAT-CTGGGAAAAAATACGAACAAAGGGCCGAAATAA-GGTTTTT
66 TATTTTTTTGAAAGTAATAAAATCCAGGGAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTT
8482057 TACTAAATTT
131 TACTAAATTT
8482067 GTTTTGAAGT
Statistics
Matches: 267, Mismatches: 22, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
152 14 0.05
153 31 0.12
154 13 0.05
155 65 0.24
156 76 0.28
157 68 0.25
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (156 bp):
TAAATTAATACATTTCAAACATAATGTACTAAAATAATATAAAATAATAAAATACGAAAATAATA
TATTTTTTTGAAAGTAATAAAATCCAGGGAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTT
TACTAAATTTAATTAAAAAATCACAG
Found at i:8487362 original size:37 final size:37
Alignment explanation
Indices: 8487286--8487446 Score: 114
Period size: 37 Copynumber: 4.2 Consensus size: 37
8487276 CTAACACAAA
**
8487286 AATAATAA-TAGTTTTTTACTCAAAATAATAATAACTAAC
1 AATAATAATTAGGGTTTTACT--AAA-AATAATAACTAAC
8487325 AATAATAATTAGGGTTTTACTAAAAATAATAACTAAC
1 AATAATAATTAGGGTTTTACTAAAAATAATAACTAAC
** *** *
8487362 AATAAT-A-TAATGTAAAAACTAACAATCATACTAACTAA-
1 AATAATAATTAGGGT-TTTACTAA-AA--ATAATAACTAAC
***
8487400 AATAATAATTAGGGTTTTTACTAATCCTAATAACTAAC
1 AATAATAATTAGGG-TTTTACTAAAAATAATAACTAAC
*
8487438 CATAATAAT
1 AATAATAAT
8487447 AATATTAGTT
Statistics
Matches: 95, Mismatches: 18, Indels: 19
0.72 0.14 0.14
Matches are distributed among these distances:
35 4 0.04
36 6 0.06
37 30 0.32
38 17 0.18
39 19 0.20
40 18 0.19
41 1 0.01
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.33
Consensus pattern (37 bp):
AATAATAATTAGGGTTTTACTAAAAATAATAACTAAC
Found at i:8487400 original size:23 final size:23
Alignment explanation
Indices: 8487355--8487401 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
8487345 TAAAAATAAT
*
8487355 AACTAACAATAATATAATGTAAA
1 AACTAACAATAATATAATCTAAA
*
8487378 AACTAACAATCATACTAA-CTAAA
1 AACTAACAATAATA-TAATCTAAA
8487401 A
1 A
8487402 TAATAATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.60, C:0.15, G:0.02, T:0.23
Consensus pattern (23 bp):
AACTAACAATAATATAATCTAAA
Found at i:8487477 original size:41 final size:40
Alignment explanation
Indices: 8487284--8487493 Score: 131
Period size: 40 Copynumber: 5.3 Consensus size: 40
8487274 AACTAACACA
* *
8487284 AAAATAATAA-TA-GTTTTTTACTCAA-AATAATAATAACT
1 AAAATAATAATTAGGGTTTTTACT-AACAATAATACTAACT
*
8487322 AACAATAATAATTAGGG-TTTTACTAAAAATAATAACTAAC-
1 AA-AATAATAATTAGGGTTTTTACTAACAATAAT-ACTAACT
**** *
8487362 AATAAT-ATAA-T---GTAAAAACTAACAATCATACTAACT
1 AA-AATAATAATTAGGGTTTTTACTAACAATAATACTAACT
*
8487398 AAAATAATAATTAGGGTTTTTACTAATC-CTAATAACTAACCAT
1 AAAATAATAATTAGGGTTTTTACTAA-CAATAAT-ACTAA-C-T
* *
8487441 AATAATAAT-ATTA-GTTTTTTACTAACAATAATACTAAGT
1 AA-AATAATAATTAGGGTTTTTACTAACAATAATACTAACT
*
8487480 AACAATAATTATTA
1 AA-AATAATAATTA
8487494 ATAACTAAAC
Statistics
Matches: 134, Mismatches: 19, Indels: 36
0.71 0.10 0.19
Matches are distributed among these distances:
35 10 0.07
36 16 0.12
37 1 0.01
38 3 0.02
39 23 0.17
40 34 0.25
41 18 0.13
42 16 0.12
43 7 0.05
44 6 0.04
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.34
Consensus pattern (40 bp):
AAAATAATAATTAGGGTTTTTACTAACAATAATACTAACT
Found at i:8487755 original size:3 final size:3
Alignment explanation
Indices: 8487736--8487805 Score: 104
Period size: 3 Copynumber: 23.3 Consensus size: 3
8487726 CCGGCACCAC
* * *
8487736 CTT CTC CTT CTT TTT CTT CTT CTT CTT CTT CTT TTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
*
8487784 CTT CTT CTT CTT CTT CTC CTT C
1 CTT CTT CTT CTT CTT CTT CTT C
8487806 AGCTGGACTG
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Done.