Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, whole genome shotgun sequence
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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 45 of 129
Found at i:8900623 original size:25 final size:25
Alignment explanation
Indices: 8900602--8900661 Score: 86
Period size: 24 Copynumber: 2.4 Consensus size: 25
8900592 AAAAATTACT
8900602 AAAATACCTTTTAACCATAATTATG
1 AAAATACCTTTTAACCATAATTATG
* * *
8900627 AAAATA-TTTTTTATCATAATTATG
1 AAAATACCTTTTAACCATAATTATG
8900651 AAAATACCTTT
1 AAAATACCTTT
8900662 CGTATTATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 21 0.70
25 9 0.30
ACGTcount: A:0.43, C:0.12, G:0.03, T:0.42
Consensus pattern (25 bp):
AAAATACCTTTTAACCATAATTATG
Found at i:8901183 original size:16 final size:16
Alignment explanation
Indices: 8901162--8901194 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
8901152 ACCATCTAAC
8901162 CATAGTTATGAAAATG
1 CATAGTTATGAAAATG
8901178 CATAGTTATGAAAATG
1 CATAGTTATGAAAATG
8901194 C
1 C
8901195 CCTCTTACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.30
Consensus pattern (16 bp):
CATAGTTATGAAAATG
Found at i:8901235 original size:26 final size:25
Alignment explanation
Indices: 8901178--8901227 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
8901168 TATGAAAATG
* *
8901178 CATAGTTATGAAAATGCCCTCTTAC
1 CATAATTATGAAAATGCCCTCATAC
8901203 CATAATTATGAAAATGCCCCTCATA
1 CATAATTATGAAAATG-CCCTCATA
8901228 TTATAATTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.36, C:0.24, G:0.10, T:0.30
Consensus pattern (25 bp):
CATAATTATGAAAATGCCCTCATAC
Found at i:8901262 original size:102 final size:101
Alignment explanation
Indices: 8901082--8901267 Score: 255
Period size: 102 Copynumber: 1.8 Consensus size: 101
8901072 ACAATTATAA
*
8901082 TTATAAAAATGCCCTCCTACCATAATCAAAAAATATCCATCATATTATAATTTGTTAAAAACACT
1 TTATAAAAATGCCCTCCTACCATAATCAAAAAATACCCATCATATTATAATTTGTTAAAAACACT
8901147 ATAATACCATCTAACCATAGTTATGAAAATGCATAG
66 ATAATACCATCTAACCATAGTTATGAAAATGCATAG
* * * * * * **
8901183 TTATGAAAATGCCCTCTTACCATAATTATGAAAATGCCCCTCATATTATAATTTGTTAAAATTAC
1 TTATAAAAATGCCCTCCTACCATAATCA-AAAAATACCCATCATATTATAATTTGTTAAAAACAC
* **
8901248 TATGATACTTTCTAACCATA
65 TATAATACCATCTAACCATA
8901268 ATTACAAAAA
Statistics
Matches: 72, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
101 25 0.35
102 47 0.65
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.34
Consensus pattern (101 bp):
TTATAAAAATGCCCTCCTACCATAATCAAAAAATACCCATCATATTATAATTTGTTAAAAACACT
ATAATACCATCTAACCATAGTTATGAAAATGCATAG
Found at i:8902578 original size:33 final size:33
Alignment explanation
Indices: 8902540--8902609 Score: 79
Period size: 33 Copynumber: 2.1 Consensus size: 33
8902530 TTGATTAAAA
* *
8902540 ATTTTTGTTTCTTTTTTTGTT-TTTAATTTTAAC
1 ATTTTT-TTTCTATTTTTATTATTTAATTTTAAC
* * *
8902573 ATTTTTTTTGTATTTTTATTATTTATTTTTAAT
1 ATTTTTTTTCTATTTTTATTATTTAATTTTAAC
8902606 ATTT
1 ATTT
8902610 CTTAATTATG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
32 11 0.35
33 20 0.65
ACGTcount: A:0.19, C:0.03, G:0.04, T:0.74
Consensus pattern (33 bp):
ATTTTTTTTCTATTTTTATTATTTAATTTTAAC
Found at i:8903022 original size:2 final size:2
Alignment explanation
Indices: 8903015--8903046 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8903005 TTGATTCAAT
8903015 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8903047 GAGAGAGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8903051 original size:2 final size:2
Alignment explanation
Indices: 8903046--8903093 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
8903036 ATATATATAT
8903046 AG AG AG AG AG AG AG A- AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
8903087 AG AG AG A
1 AG AG AG A
8903094 TATGGTTGGG
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8903712 original size:19 final size:21
Alignment explanation
Indices: 8903688--8903728 Score: 68
Period size: 19 Copynumber: 2.0 Consensus size: 21
8903678 CTAGCACCCC
8903688 TATTTTG-CTTTTTT-TTTTT
1 TATTTTGTCTTTTTTATTTTT
8903707 TATTTTGTCTTTTTTATTTTT
1 TATTTTGTCTTTTTTATTTTT
8903728 T
1 T
8903729 TAATTAGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 7 0.35
20 7 0.35
21 6 0.30
ACGTcount: A:0.07, C:0.05, G:0.05, T:0.83
Consensus pattern (21 bp):
TATTTTGTCTTTTTTATTTTT
Found at i:8909789 original size:30 final size:30
Alignment explanation
Indices: 8909754--8909820 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
8909744 TTTAATAAAA
8909754 ATAAAAATTAATAA-AT-TAAAAAAATTTGAT
1 ATAAAAATTAATAACATAT-AAAAAATTT-AT
8909784 ATAAAAATTAATAACATATAAAAAATTTAT
1 ATAAAAATTAATAACATATAAAAAATTTAT
8909814 -TAAAAAT
1 ATAAAAAT
8909821 ATTATTTATA
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
29 7 0.20
30 16 0.46
31 11 0.31
32 1 0.03
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (30 bp):
ATAAAAATTAATAACATATAAAAAATTTAT
Found at i:8909804 original size:17 final size:16
Alignment explanation
Indices: 8909745--8909807 Score: 60
Period size: 15 Copynumber: 4.0 Consensus size: 16
8909735 AATGAAAATT
*
8909745 TTAATAAAAATAAAAA
1 TTAATAAATATAAAAA
8909761 TTAATAAAT-TAAAAA
1 TTAATAAATATAAAAA
**
8909776 --AATTTGATATAAAAA
1 TTAA-TAAATATAAAAA
8909791 TTAATAACATATAAAAA
1 TTAATAA-ATATAAAAA
8909808 ATTTATTAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
13 2 0.05
14 3 0.08
15 12 0.32
16 9 0.24
17 11 0.30
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (16 bp):
TTAATAAATATAAAAA
Found at i:8909886 original size:29 final size:29
Alignment explanation
Indices: 8909801--8909891 Score: 85
Period size: 29 Copynumber: 3.1 Consensus size: 29
8909791 TTAATAACAT
* * * *
8909801 ATAAAAAATTTATTAAAAATATTATTTATA
1 ATAAAAATTTTATT-AATATTTTATTAATA
** *
8909831 ATTCAAATTTTATCAATA-TTTATTTAATA
1 ATAAAAATTTTATTAATATTTTA-TTAATA
*
8909860 ATAAAAATTTTATTAATATTTTATTAAAA
1 ATAAAAATTTTATTAATATTTTATTAATA
8909889 ATA
1 ATA
8909892 TCTATTTAAA
Statistics
Matches: 48, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
28 3 0.06
29 31 0.65
30 14 0.29
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (29 bp):
ATAAAAATTTTATTAATATTTTATTAATA
Found at i:8909913 original size:13 final size:12
Alignment explanation
Indices: 8909861--8909925 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 12
8909851 TATTTAATAA
*
8909861 TAAAAATTTTAT
1 TAAAAATATTAT
* *
8909873 T-AATATTTTAT
1 TAAAAATATTAT
8909884 TAAAAATATCTATT
1 TAAAAATAT-TA-T
8909898 TAAAAATAATTAT
1 TAAAAAT-ATTAT
8909911 T-AAAAT-TTAT
1 TAAAAATATTAT
8909921 TAAAA
1 TAAAA
8909926 TTTTACATAC
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
10 5 0.11
11 13 0.29
12 11 0.24
13 4 0.09
14 10 0.22
15 2 0.04
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (12 bp):
TAAAAATATTAT
Found at i:8909984 original size:7 final size:7
Alignment explanation
Indices: 8909954--8909991 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
8909944 GTAACAAAAT
8909954 ATTT-TA
1 ATTTATA
8909960 ATTTATCA
1 ATTTAT-A
8909968 ATTT-TA
1 ATTTATA
8909974 ATTTATA
1 ATTTATA
8909981 ATTTATA
1 ATTTATA
8909988 ATTT
1 ATTT
8909992 TTATTTAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
6 9 0.31
7 15 0.52
8 5 0.17
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (7 bp):
ATTTATA
Found at i:8910005 original size:21 final size:20
Alignment explanation
Indices: 8909954--8909998 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
8909944 GTAACAAAAT
8909954 ATTT-TAATTTATCAATTTTA
1 ATTTATAATTTAT-AATTTTA
*
8909974 ATTTATAATTTATAATTTTT
1 ATTTATAATTTATAATTTTA
8909994 ATTTA
1 ATTTA
8909999 ATTATTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTATAATTTATAATTTTA
Found at i:8912287 original size:23 final size:23
Alignment explanation
Indices: 8912261--8912306 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
8912251 TAATGGAGTA
*
8912261 TTTAGTTTTATTT-AAATTAATTT
1 TTTA-TTTAATTTGAAATTAATTT
*
8912284 TTTATTTAATTTGAATTTAATTT
1 TTTATTTAATTTGAAATTAATTT
8912307 AGATATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.65
Consensus pattern (23 bp):
TTTATTTAATTTGAAATTAATTT
Found at i:8912531 original size:29 final size:30
Alignment explanation
Indices: 8912498--8912561 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
8912488 AAAAATTTAA
8912498 AATTTAAAATAAATAAATTTAA-TC-GATAT
1 AATTTAAAATAAATAAATTTAAGTCGGAT-T
* * *
8912527 AATTTAATATAATTTAATTTAAGTCGGATT
1 AATTTAAAATAAATAAATTTAAGTCGGATT
8912557 AATTT
1 AATTT
8912562 TTAAAAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 19 0.63
30 8 0.27
31 3 0.10
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (30 bp):
AATTTAAAATAAATAAATTTAAGTCGGATT
Found at i:8913481 original size:19 final size:20
Alignment explanation
Indices: 8913441--8913485 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 20
8913431 TATGAAATTA
8913441 ATAAAATATTATTTTTAAAAT
1 ATAAAATATTATTTTT-AAAT
8913462 ATAAAATATTATTTTT-AAT
1 ATAAAATATTATTTTTAAAT
8913481 ATAAA
1 ATAAA
8913486 TAAAAAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 8 0.33
21 16 0.67
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATAAAATATTATTTTTAAAT
Found at i:8913485 original size:26 final size:27
Alignment explanation
Indices: 8913456--8913519 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 27
8913446 ATATTATTTT
* **
8913456 TAAAATATAAAATATTATTTTTA-ATA
1 TAAAATATAAAATATTATATAAATATA
8913482 T-AAATA-AAAA-ATTATATAAATATA
1 TAAAATATAAAATATTATATAAATATA
8913506 TATAAATATAAAAT
1 TA-AAATATAAAAT
8913520 TAAATAATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
23 7 0.23
24 8 0.27
25 5 0.17
26 6 0.20
27 4 0.13
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (27 bp):
TAAAATATAAAATATTATATAAATATA
Found at i:8914616 original size:17 final size:17
Alignment explanation
Indices: 8914596--8914630 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
8914586 CCAAAAACTT
8914596 AACTAAAAGAAA-TAAAG
1 AACT-AAAGAAACTAAAG
8914613 AACTAAAGAAACTAAAG
1 AACTAAAGAAACTAAAG
8914630 A
1 A
8914631 GAGAAGAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.69, C:0.09, G:0.11, T:0.11
Consensus pattern (17 bp):
AACTAAAGAAACTAAAG
Found at i:8924210 original size:18 final size:19
Alignment explanation
Indices: 8924187--8924225 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
8924177 AAGTCCAAAG
*
8924187 TTCAATTT-TAGGCCCAAT
1 TTCAATTTGGAGGCCCAAT
8924205 TTCAATTTGGAGGCCCAAT
1 TTCAATTTGGAGGCCCAAT
8924224 TT
1 TT
8924226 AGTAATAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (19 bp):
TTCAATTTGGAGGCCCAAT
Found at i:8924412 original size:21 final size:22
Alignment explanation
Indices: 8924374--8924416 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
8924364 CTTTCTTCAC
8924374 TTTTCTTTCTCCCCAAATTGCT
1 TTTTCTTTCTCCCCAAATTGCT
8924396 TTTTC-TTC-CCCCTAAATTGCT
1 TTTTCTTTCTCCCC-AAATTGCT
8924417 AACTCCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 11 0.55
22 5 0.25
ACGTcount: A:0.14, C:0.33, G:0.05, T:0.49
Consensus pattern (22 bp):
TTTTCTTTCTCCCCAAATTGCT
Found at i:8925436 original size:15 final size:15
Alignment explanation
Indices: 8925416--8925444 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
8925406 GAAATAAAAG
8925416 AAAAAAAAAAGAACT
1 AAAAAAAAAAGAACT
8925431 AAAAAAAAAAGAAC
1 AAAAAAAAAAGAAC
8925445 CAAGATCAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.07, G:0.07, T:0.03
Consensus pattern (15 bp):
AAAAAAAAAAGAACT
Found at i:8930946 original size:12 final size:11
Alignment explanation
Indices: 8930916--8930954 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
8930906 TAAGCCTAAA
8930916 AAAAAAAAAAG
1 AAAAAAAAAAG
** *
8930927 AACGAAAAAGG
1 AAAAAAAAAAG
8930938 AAAAAAAAAAG
1 AAAAAAAAAAG
8930949 AAAAAA
1 AAAAAA
8930955 CTTAGATTGA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.85, C:0.03, G:0.13, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:8932188 original size:50 final size:49
Alignment explanation
Indices: 8932122--8932321 Score: 188
Period size: 49 Copynumber: 4.1 Consensus size: 49
8932112 AGGTGAGATT
* *
8932122 TTTATTTAATGGAGCTTTTCCCATATGAAAATTTTTAAAGTTGTTAAGCA
1 TTTATTTAAAGAAGCTTTTCCCATATG-AAATTTTTAAAGTTGTTAAGCA
* * *
8932172 TTTATGTAAAGAAGC-TTTCCCAATATGAGATTTTTAAAGTTGTTAAGCT
1 TTTATTTAAAGAAGCTTTTCCC-ATATGAAATTTTTAAAGTTGTTAAGCA
* * * **** * * *
8932221 TTTGTTTAAATAAGTTTTTCTTGGATGAGATTTTTGAAGTTGTTAAGCC
1 TTTATTTAAAGAAGCTTTTCCCATATGAAATTTTTAAAGTTGTTAAGCA
* * * *
8932270 TTTATTTAAAAGAA-ATTTTCCCATATAAAATTTTAAAAGTTGTTGAGCA
1 TTTATTT-AAAGAAGCTTTTCCCATATGAAATTTTTAAAGTTGTTAAGCA
8932319 TTT
1 TTT
8932322 GCTTAAAAAA
Statistics
Matches: 119, Mismatches: 28, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
49 93 0.78
50 26 0.22
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.45
Consensus pattern (49 bp):
TTTATTTAAAGAAGCTTTTCCCATATGAAATTTTTAAAGTTGTTAAGCA
Found at i:8932261 original size:98 final size:98
Alignment explanation
Indices: 8932152--8932328 Score: 239
Period size: 98 Copynumber: 1.8 Consensus size: 98
8932142 CCATATGAAA
* * * *
8932152 ATTTTTAAAGTTGTTAAGCATTTATGT-AAAGAAGCTTTCCCAATATGAGATTTTTAAAGTTGTT
1 ATTTTTAAAGTTGTTAAGCATTTATGTAAAAGAAACTTTCCC-ATATAAAATTTTAAAAGTTGTT
* *
8932216 AAGCTTTTGTTTAAATAAGTTTTTCTTGGATGAG
65 AAGCATTTGCTTAAATAAGTTTTTCTTGGATGAG
* * * * *
8932250 ATTTTTGAAGTTGTTAAGCCTTTATTTAAAAGAAATTTTCCCATATAAAATTTTAAAAGTTGTTG
1 ATTTTTAAAGTTGTTAAGCATTTATGTAAAAGAAACTTTCCCATATAAAATTTTAAAAGTTGTTA
8932315 AGCATTTGCTTAAA
66 AGCATTTGCTTAAA
8932329 AAAACATTCA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
98 55 0.82
99 12 0.18
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44
Consensus pattern (98 bp):
ATTTTTAAAGTTGTTAAGCATTTATGTAAAAGAAACTTTCCCATATAAAATTTTAAAAGTTGTTA
AGCATTTGCTTAAATAAGTTTTTCTTGGATGAG
Found at i:8932362 original size:46 final size:46
Alignment explanation
Indices: 8932300--8932486 Score: 157
Period size: 46 Copynumber: 4.1 Consensus size: 46
8932290 CCATATAAAA
**
8932300 TTTTAAAAGTTGTTGAG-CATTTGCTTAAAAAAACATTCAAATTTAT
1 TTTTAAAAGTCATTGAGTCA-TTGCTTAAAAAAACATTCAAATTTAT
* *
8932346 TTTTAAAAGTCATTGAGTCATTGCTTAAAGAAACCTTCAAATTTAT
1 TTTTAAAAGTCATTGAGTCATTGCTTAAAAAAACATTCAAATTTAT
** * ** ** *
8932392 TTTTAAAAGTTGTTGAGTCTTTTTTTAAAGGAGC-TTCCAAATTTA-
1 TTTTAAAAGTCATTGAGTCATTGCTTAAAAAAACATT-CAAATTTAT
* * * * *
8932437 TTTTAAAAGGTCGTCGAGTCTTTGCTTAAAAGAAC-TCTTAAATTTAT
1 TTTTAAAA-GTCATTGAGTCATTGCTTAAAAAAACAT-TCAAATTTAT
8932484 TTT
1 TTT
8932487 CAAAGATTTT
Statistics
Matches: 118, Mismatches: 18, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
45 10 0.08
46 102 0.86
47 6 0.05
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.43
Consensus pattern (46 bp):
TTTTAAAAGTCATTGAGTCATTGCTTAAAAAAACATTCAAATTTAT
Found at i:8932405 original size:92 final size:92
Alignment explanation
Indices: 8932300--8932486 Score: 222
Period size: 92 Copynumber: 2.0 Consensus size: 92
8932290 CCATATAAAA
*
8932300 TTTTAAAAGTTGTTGAG-CATTTGCTTAAAAAAACATT-CAAATTTATTTTTAAAA-GTCATTGA
1 TTTTAAAAGTTGTTGAGTC-TTTGCTTAAAAAAAC-TTCCAAATTTA-TTTTAAAAGGTCATCGA
8932362 GTCATTGCTT-AAAGAAAC-CTTCAAATTTAT
63 GTCATTGCTTAAAAG-AACTCTT-AAATTTAT
** ** * *
8932392 TTTTAAAAGTTGTTGAGTCTTTTTTTAAAGGAGCTTCCAAATTTATTTTAAAAGGTCGTCGAGTC
1 TTTTAAAAGTTGTTGAGTCTTTGCTTAAAAAAACTTCCAAATTTATTTTAAAAGGTCATCGAGTC
*
8932457 TTTGCTTAAAAGAACTCTTAAATTTAT
66 ATTGCTTAAAAGAACTCTTAAATTTAT
8932484 TTT
1 TTT
8932487 CAAAGATTTT
Statistics
Matches: 82, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
91 10 0.12
92 64 0.78
93 8 0.10
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.43
Consensus pattern (92 bp):
TTTTAAAAGTTGTTGAGTCTTTGCTTAAAAAAACTTCCAAATTTATTTTAAAAGGTCATCGAGTC
ATTGCTTAAAAGAACTCTTAAATTTAT
Found at i:8932500 original size:92 final size:91
Alignment explanation
Indices: 8932337--8932505 Score: 220
Period size: 92 Copynumber: 1.8 Consensus size: 91
8932327 AAAAAACATT
* *
8932337 CAAATTTATTTTTAAAAGTCATTGAGTCATTGCTTAAAGAAACCTTCAAATTTATTTTTAAAAGT
1 CAAATTTATTTTTAAAAGTCATCGAGTCATTGCTTAAAGAAACCTTCAAATTTATTTTCAAAAGT
8932402 TGTTGAGTCTTTTTTTAAAGGAGCTTC
66 TGTTGAG-CTTTTTTTAAAGGAGCTTC
* *
8932429 CAAATTTA-TTTTAAAAGGTCGTCGAGTCTTTGCTTAAA-AGAACTCTT-AAATTTATTTTC-AA
1 CAAATTTATTTTTAAAA-GTCATCGAGTCATTGCTTAAAGA-AAC-CTTCAAATTTATTTTCAAA
*
8932490 AGATTTTTGAGCTTTT
63 AG-TTGTTGAGCTTTT
8932506 AAAATTCATC
Statistics
Matches: 68, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
91 18 0.26
92 47 0.69
93 3 0.04
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.44
Consensus pattern (91 bp):
CAAATTTATTTTTAAAAGTCATCGAGTCATTGCTTAAAGAAACCTTCAAATTTATTTTCAAAAGT
TGTTGAGCTTTTTTTAAAGGAGCTTC
Found at i:8932618 original size:26 final size:26
Alignment explanation
Indices: 8932577--8932665 Score: 89
Period size: 26 Copynumber: 3.5 Consensus size: 26
8932567 AAAAAAGTTC
*
8932577 AAAACAAAAGAAAAAAA-T-CCAAAA
1 AAAACAAAAAAAAAAAATTACCAAAA
8932601 TAAAACAAAAAACAAAAAATTACCAAAA
1 -AAAACAAAAAA-AAAAAATTACCAAAA
* *
8932629 AAAAGAAAAAAAAAAGATTA--AAAA
1 AAAACAAAAAAAAAAAATTACCAAAA
*
8932653 AATA-AAAAAAAAA
1 AAAACAAAAAAAAA
8932666 CAACTAAAAC
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
23 9 0.16
24 7 0.12
25 10 0.18
26 14 0.25
27 11 0.19
28 6 0.11
ACGTcount: A:0.81, C:0.08, G:0.03, T:0.08
Consensus pattern (26 bp):
AAAACAAAAAAAAAAAATTACCAAAA
Found at i:8932639 original size:11 final size:11
Alignment explanation
Indices: 8932625--8932665 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
8932615 AAAAATTACC
8932625 AAAAAAAAGAA
1 AAAAAAAAGAA
*
8932636 AAAAAAAAGAT
1 AAAAAAAAGAA
* *
8932647 TAAAAAAATAA
1 AAAAAAAAGAA
8932658 AAAAAAAA
1 AAAAAAAA
8932666 CAACTAAAAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.88, C:0.00, G:0.05, T:0.07
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:8932673 original size:23 final size:22
Alignment explanation
Indices: 8932577--8932684 Score: 72
Period size: 25 Copynumber: 4.5 Consensus size: 22
8932567 AAAAAAGTTC
* *
8932577 AAAACAAAAGAAAAAAATCCAAAA
1 AAAACAAAA-AAAAAAA-ACTAAA
*
8932601 TAAAACAAAAAACAAAAAATTACCAA
1 -AAAACAAAAAA-AAAAAACTA--AA
* *
8932627 AAAAAAGAAAAAAAAAAGATTAAA
1 AAAACA-AAAAAAAAAA-ACTAAA
*
8932651 AAAATAAAAAAAAAACAACTAAA
1 AAAACAAAAAAAAAA-AACTAAA
8932674 ACAAACAAAAA
1 A-AAACAAAAA
8932685 GGCTTTTGAA
Statistics
Matches: 69, Mismatches: 7, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
23 15 0.22
24 19 0.28
25 24 0.35
26 11 0.16
ACGTcount: A:0.80, C:0.10, G:0.03, T:0.07
Consensus pattern (22 bp):
AAAACAAAAAAAAAAAACTAAA
Found at i:8932674 original size:22 final size:22
Alignment explanation
Indices: 8932626--8932684 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
8932616 AAAATTACCA
* *
8932626 AAAAAAAGAAAAAAAAAAGATT
1 AAAAAAAGAAAAAAAAAAAACT
*
8932648 AAAAAAATAAAAAAAAAACAACT
1 AAAAAAAGAAAAAAAAAA-AACT
*
8932671 AAAACAAACAAAAA
1 AAAA-AAAGAAAAA
8932685 GGCTTTTGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 17 0.55
23 6 0.19
24 8 0.26
ACGTcount: A:0.83, C:0.07, G:0.03, T:0.07
Consensus pattern (22 bp):
AAAAAAAGAAAAAAAAAAAACT
Found at i:8935035 original size:53 final size:53
Alignment explanation
Indices: 8934933--8935041 Score: 148
Period size: 53 Copynumber: 2.1 Consensus size: 53
8934923 AAAATCATGG
* * *
8934933 AAAACCTTGAAATCCTAAAATCCTAAACTTTAAACCCTAACCCCAAAACCCTA
1 AAAACCTTGAAATCCTAAAATCCTAAAATTTAAACCCGAAACCCAAAACCCTA
* **
8934986 AAAATCTTGAAATCCT-AAATCCTAAAATTTAAACCCCGAAACCTTAAACCCTA
1 AAAACCTTGAAATCCTAAAATCCTAAAATTTAAA-CCCGAAACCCAAAACCCTA
8935039 AAA
1 AAA
8935042 CCCTAAAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
52 16 0.33
53 33 0.67
ACGTcount: A:0.47, C:0.28, G:0.03, T:0.22
Consensus pattern (53 bp):
AAAACCTTGAAATCCTAAAATCCTAAAATTTAAACCCGAAACCCAAAACCCTA
Found at i:8935468 original size:10 final size:10
Alignment explanation
Indices: 8935441--8935471 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
8935431 TCATCATGTA
*
8935441 TTGCATCCAT
1 TTGCATCTAT
8935451 TTGCATCTAT
1 TTGCATCTAT
8935461 TTGCATCTAT
1 TTGCATCTAT
8935471 T
1 T
8935472 CATTTTTGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.19, C:0.23, G:0.10, T:0.48
Consensus pattern (10 bp):
TTGCATCTAT
Found at i:8938413 original size:199 final size:198
Alignment explanation
Indices: 8937926--8938525 Score: 613
Period size: 207 Copynumber: 3.0 Consensus size: 198
8937916 TTTTATGAAA
* * *
8937926 TTATCTTATAATCATATGTGACGTTAATTGTGTCACCAATACTATGATGATTTATCTTTTC-TCA
1 TTATCTTACAATCATACGTGACGTTAA---T-TCACCAATACTATGACGATTTA-CTTTTCGTCA
* * * * * *
8937990 CTCATATAAAATATTTTATCGTTTATTTTGTGACAATTATAGCATTTAATGA-TATTTTTTTCAT
61 CTAATATATAAGATTTTATCATTTATTTTTTGACGATTATAGCATTTAATGACT-TTTTTTTCAT
* *
8938054 ATATAGCTGACGAATCCTAACATCATACAAAAAAAAAAAAAGCATAAGGTGACATTTGATTTTAT
125 ATATAGCTGACGAAACCTAACATC--AC--AAAAAATAAAA-CATAAGGTGACATTTGATTTTAT
**
8938119 TGTCATGTTTGACT
185 TGTCACATTTGACT
* * * *
8938133 TTATCTTATAATCATAGGTGACGTTAATTTTGTCACCAATACTATAACGATTTA-TCTTTCGTTA
1 TTATCTTACAATCATACGTGACGTTAA---T-TCACCAATACTATGACGATTTACT-TTTCGTCA
* *
8938197 CTAATATATTAGATTTTATCATTTATTTTTTGATGATTATAGCATTTAATGACTTTTCTTTTTCA
61 CTAATATATAAGATTTTATCATTTATTTTTTGACGATTATAGCATTTAATGAC-TTT-TTTTTCA
* *
8938262 TATATAGCTAACGAAACCTAACATCACAAAGAAATAAAACATAAGGTGACATTTGA-TTTATTAT
124 TATATAGCTGACGAAACCTAACATCACAAA-AAATAAAACATAAGGTGACATTTGATTTTATTGT
8938326 CACATTTGA-T
188 CACATTTGACT
* * * * * *
8938336 GTTATCTTACACTTATACGTGATGTTAA-TCACCAACACTGTGACGATTTACTTTTCGCCACTAA
1 -TTATCTTACAATCATACGTGACGTTAATTCACCAATACTATGACGATTTACTTTTCGTCACTAA
* * *
8938400 TATATAAGATTTTATCATTTATTTTGTT-ACGGTTACAGTATTTAATGAC-TTTTTTTCATATAT
65 TATATAAGATTTTATCATTTATTTT-TTGACGATTATAGCATTTAATGACTTTTTTTTCATATAT
** * * ** *
8938463 AGCTGATAAAACCTAACGTCATTAAAAAATAAAATGTAAGGTGACATATGATTTTATTGTCAC
129 AGCTGACGAAACCTAACATCA-CAAAAAATAAAACATAAGGTGACATTTGATTTTATTGTCAC
8938526 CTTAGATTCA
Statistics
Matches: 339, Mismatches: 43, Indels: 32
0.82 0.10 0.08
Matches are distributed among these distances:
196 51 0.15
197 15 0.04
199 70 0.21
200 3 0.01
203 1 0.00
204 36 0.11
205 21 0.06
206 11 0.03
207 98 0.29
208 2 0.01
209 31 0.09
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (198 bp):
TTATCTTACAATCATACGTGACGTTAATTCACCAATACTATGACGATTTACTTTTCGTCACTAAT
ATATAAGATTTTATCATTTATTTTTTGACGATTATAGCATTTAATGACTTTTTTTTCATATATAG
CTGACGAAACCTAACATCACAAAAAATAAAACATAAGGTGACATTTGATTTTATTGTCACATTTG
ACT
Found at i:8941337 original size:18 final size:18
Alignment explanation
Indices: 8941311--8941352 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
8941301 CATTGAAATT
* *
8941311 TATTTTTTAATTTTATTTC
1 TATTTTTAAATTTT-TTAC
8941330 TATTTTTAAATTTTTTAC
1 TATTTTTAAATTTTTTAC
8941348 TATTT
1 TATTT
8941353 GGGTCTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (18 bp):
TATTTTTAAATTTTTTAC
Found at i:8941582 original size:12 final size:12
Alignment explanation
Indices: 8941567--8941593 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
8941557 TCACACCAAT
8941567 TTTTAATTTATA
1 TTTTAATTTATA
8941579 TTTTAATTTATA
1 TTTTAATTTATA
8941591 TTT
1 TTT
8941594 GAGAAAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTTAATTTATA
Found at i:8942050 original size:24 final size:24
Alignment explanation
Indices: 8942023--8942080 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 24
8942013 GAATATAAAT
*
8942023 AAATAAAATAATAACAT-GAACCAA
1 AAATAAAATAATAA-ATAAAACCAA
8942047 AAAT-AAATAAATAAATAAAACCAA
1 AAATAAAAT-AATAAATAAAACCAA
8942071 AAATAAAATA
1 AAATAAAATA
8942081 CCAAAATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
23 6 0.20
24 20 0.67
25 4 0.13
ACGTcount: A:0.72, C:0.09, G:0.02, T:0.17
Consensus pattern (24 bp):
AAATAAAATAATAAATAAAACCAA
Found at i:8942843 original size:15 final size:15
Alignment explanation
Indices: 8942820--8942869 Score: 64
Period size: 15 Copynumber: 3.2 Consensus size: 15
8942810 TAATCACCAT
*
8942820 TTCAAAATTCAAAGG
1 TTCACAATTCAAAGG
*
8942835 TTCACAATTCAAAGA
1 TTCACAATTCAAAGG
8942850 TTCACAAAGTTCAAAGG
1 TTCAC-AA-TTCAAAGG
8942867 TTC
1 TTC
8942870 GCAAGGCTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
15 18 0.60
16 2 0.07
17 10 0.33
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.28
Consensus pattern (15 bp):
TTCACAATTCAAAGG
Found at i:8942922 original size:18 final size:17
Alignment explanation
Indices: 8942889--8942934 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
8942879 TCAGATTCAT
*
8942889 AAGAATTTTAAGTTCGC
1 AAGAATTTTTAGTTCGC
* *
8942906 ATGAATTTTTAGATTCGG
1 AAGAATTTTTAG-TTCGC
8942924 AAGAATTTTTA
1 AAGAATTTTTA
8942935 TTCTTAAGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.41
Consensus pattern (17 bp):
AAGAATTTTTAGTTCGC
Found at i:8943224 original size:74 final size:74
Alignment explanation
Indices: 8943089--8943228 Score: 199
Period size: 74 Copynumber: 1.9 Consensus size: 74
8943079 AAGATTTACG
* * * * ***
8943089 AGATTTTCAATTTCACATTTGAGAGATTCACATCCAAAGTTTGATTCAGAGATTTGTAAGAACTC
1 AGATTTTCAATTTCACATTTGAGAAATTCACATCCAAAGCTTAATTAAGAGATTCACAAGAACTC
8943154 AAATTTGTA
66 AAATTTGTA
* *
8943163 AGATTTTTAATTTCACATTTGAGAAATTCACATCTAAAGCTTAATTAAGAGATTCACAAGAACTC
1 AGATTTTCAATTTCACATTTGAGAAATTCACATCCAAAGCTTAATTAAGAGATTCACAAGAACTC
8943228 A
66 A
8943229 GATTCGCATC
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
74 57 1.00
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (74 bp):
AGATTTTCAATTTCACATTTGAGAAATTCACATCCAAAGCTTAATTAAGAGATTCACAAGAACTC
AAATTTGTA
Found at i:8943381 original size:45 final size:45
Alignment explanation
Indices: 8943326--8943437 Score: 120
Period size: 45 Copynumber: 2.5 Consensus size: 45
8943316 TTTTTATTTG
* *
8943326 AAAAACTTTAGGGATTCAC-TTCCAAGATTTCACAGATTCTGATTC
1 AAAAACTTTAGGGATTCACATT-CAAGATTTCAAAGATTCTCATTC
* * * * *
8943371 AAAAATTTTAGTGTTTCACATTCAATATTTCAAAGATTCTCATTT
1 AAAAACTTTAGGGATTCACATTCAAGATTTCAAAGATTCTCATTC
* *
8943416 AAAAAC-TTAGTGTTTCACATTC
1 AAAAACTTTAGGGATTCACATTC
8943438 GATATTCTTT
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
44 16 0.28
45 40 0.69
46 2 0.03
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (45 bp):
AAAAACTTTAGGGATTCACATTCAAGATTTCAAAGATTCTCATTC
Found at i:8943443 original size:44 final size:45
Alignment explanation
Indices: 8943352--8943443 Score: 132
Period size: 44 Copynumber: 2.1 Consensus size: 45
8943342 CACTTCCAAG
* * *
8943352 ATTTCACAGATTCTGATTCAAAAATTTTAGTGTTTCACATTCAAT
1 ATTTCAAAGATTCTCATTCAAAAATCTTAGTGTTTCACATTCAAT
* *
8943397 ATTTCAAAGATTCTCATTTAAAAA-CTTAGTGTTTCACATTCGAT
1 ATTTCAAAGATTCTCATTCAAAAATCTTAGTGTTTCACATTCAAT
8943441 ATT
1 ATT
8943444 CTTTATTTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 21 0.50
45 21 0.50
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.42
Consensus pattern (45 bp):
ATTTCAAAGATTCTCATTCAAAAATCTTAGTGTTTCACATTCAAT
Found at i:8943666 original size:21 final size:21
Alignment explanation
Indices: 8943625--8943672 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
8943615 GAAAGTCACA
*
8943625 TTAAAACTTCAATATTCTCAT
1 TTAAAACTTCAAGATTCTCAT
*
8943646 TTAAAAC-TCAAAGATTTTCAT
1 TTAAAACTTC-AAGATTCTCAT
*
8943667 TCAAAA
1 TTAAAA
8943673 TTTCTTAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.44, C:0.17, G:0.02, T:0.38
Consensus pattern (21 bp):
TTAAAACTTCAAGATTCTCAT
Found at i:8944931 original size:9 final size:9
Alignment explanation
Indices: 8944919--8944970 Score: 56
Period size: 8 Copynumber: 6.0 Consensus size: 9
8944909 ACTTTTCATA
8944919 TTTTCACTTT
1 TTTTCAC-TT
*
8944929 TTTTCATTT
1 TTTTCACTT
8944938 TTTTCAC-T
1 TTTTCACTT
8944946 TTTTCACTT
1 TTTTCACTT
*
8944955 TTTTTA-TT
1 TTTTCACTT
8944963 TTTT-ACTT
1 TTTTCACTT
8944971 CATCCATTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
7 1 0.03
8 16 0.43
9 14 0.38
10 6 0.16
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (9 bp):
TTTTCACTT
Found at i:8944941 original size:27 final size:26
Alignment explanation
Indices: 8944911--8944966 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 26
8944901 TTTTTTCCAC
8944911 TTTTCA-TATTTTCACTTTTTTTCATTT
1 TTTTCACT-TTTTCACTTTTTTT-ATTT
8944938 TTTTCACTTTTTCACTTTTTTTATTT
1 TTTTCACTTTTTCACTTTTTTTATTT
8944964 TTT
1 TTT
8944967 ACTTCATCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 7 0.25
27 20 0.71
28 1 0.04
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.73
Consensus pattern (26 bp):
TTTTCACTTTTTCACTTTTTTTATTT
Found at i:8944957 original size:19 final size:19
Alignment explanation
Indices: 8944919--8944959 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
8944909 ACTTTTCATA
**
8944919 TTTTCACTTTTTTTCATTT
1 TTTTCACTTTTTCACATTT
8944938 TTTTCACTTTTTCAC-TTT
1 TTTTCACTTTTTCACATTT
8944956 TTTT
1 TTTT
8944960 ATTTTTTACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTCACTTTTTCACATTT
Found at i:8945827 original size:17 final size:17
Alignment explanation
Indices: 8945797--8945830 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
8945787 TGAAAATGGG
8945797 AATAAAAAGACATGGAA
1 AATAAAAAGACATGGAA
8945814 AATAATAAAG-CATGGAA
1 AATAA-AAAGACATGGAA
8945831 TAATGGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.62, C:0.06, G:0.18, T:0.15
Consensus pattern (17 bp):
AATAAAAAGACATGGAA
Found at i:8947809 original size:852 final size:852
Alignment explanation
Indices: 8946166--8947871 Score: 3216
Period size: 852 Copynumber: 2.0 Consensus size: 852
8946156 ATGTGGCATT
*
8946166 AGCATCATACCATTTGAGATAAAGTGATTTCAATAGTTCTAAAATAACTAGAGATACTGAATCAT
1 AGCATCATACCATTTAAGATAAAGTGATTTCAATAGTTCTAAAATAACTAGAGATACTGAATCAT
**
8946231 TTTTTACCAGTTCTAGGAATATTTTAATGTAAGTTATGGGAATAAGATCAATGTGAACCTTTTCT
66 TTTTTACCAGTTCTAAAAATATTTTAATGTAAGTTATGGGAATAAGATCAATGTGAACCTTTTCT
8946296 TAGTTATTTTGTGATCTTCTAAAATCACTCATTTGATTGTTAGGCTTAAACCCATATGCAGGTAT
131 TAGTTATTTTGTGATCTTCTAAAATCACTCATTTGATTGTTAGGCTTAAACCCATATGCAGGTAT
*
8946361 TTAAAAGACTGGTTAATAGGTTGATGGGTAAGCTGGTTGTGGAACAAGTTGGTAAGGGGCTTGCA
196 TTAAAAGACTGGTTAATAGGTTGATGGGTAAGCTGGTTGTGGAACAAGTTGGTAAAGGGCTTGCA
8946426 TAATACCATTAACTATGGGATAATAAGCAGGATGAATAGGTGGTGGATATAAAGCATAGCTTCTG
261 TAATACCATTAACTATGGGATAATAAGCAGGATGAATAGGTGGTGGATATAAAGCATAGCTTCTG
8946491 AATTGTTGTTTATCAAAACTTATAGCTTGAGCTTCAATTTCTTTTTTTTTAGGCAACTTTCATTT
326 AATTGTTGTTTATCAAAACTTATAGCTTGAGCTTCAATTTCTTTTTTTTTAGGCAACTTTCATTT
8946556 CTTAATGGTTTCTCATTTTTAAAGCTTGCCACTCTTAATGGCATTTTCAATAATTTCTTCCAGGA
391 CTTAATGGTTTCTCATTTTTAAAGCTTGCCACTCTTAATGGCATTTTCAATAATTTCTTCCAGGA
8946621 TCACCATATTAGTAAAGTTCTTCATTGCATTTTTTATCATCTTTTCGTATTAAGAAAGTTTTAAA
456 TCACCATATTAGTAAAGTTCTTCATTGCATTTTTTATCATCTTTTCGTATTAAGAAAGTTTTAAA
8946686 ATACTTACAAACAGTTCCATAGTCTCTTTTTCAGTCAAAAGTGATTGAACTTGAGTAGGTATATC
521 ATACTTACAAACAGTTCCATAGTCTCTTTTTCAGTCAAAAGTGATTGAACTTGAGTAGGTATATC
8946751 CTTCCACCTTTGGGGCATACTCCTTAAATGATTCAATTGCCATCTTTTTCATATTTTACAAGAAA
586 CTTCCACCTTTGGGGCATACTCCTTAAATGATTCAATTGCCATCTTTTTCATATTTTACAAGAAA
8946816 AAGTAATCATAAGTTAGATCTATTATATGATAGTACTAACTGATAAAGTTACAAGCCATTTCACT
651 AAGTAATCATAAGTTAGATCTATTATATGATAGTACTAACTGATAAAGTTACAAGCCATTTCACT
*
8946881 TCAAGAGTGAATGCGGGTCTTGTCTGGTTGACATATTATCTAACAATAAAGCCCATAAGGCTATC
716 CCAAGAGTGAATGCGGGTCTTGTCTGGTTGACATATTATCTAACAATAAAGCCCATAAGGCTATC
*
8946946 TTAAAATATATGCATTAACAACTTTTCATTATTAGCATAAGTAGCTATTTTTTAATAGTATATGG
781 TTAAAATATATGCATTAACAACTTTTCATTATTAGCATAAGTAGCCATTTTTTAATAGTATATGG
8947011 TAATGTA
846 TAATGTA
* *
8947018 AGCATCATACCATTTAAGATAAAGTGATTTCAATAGTTCTAAAATAACTGGAGATATTGAATCAT
1 AGCATCATACCATTTAAGATAAAGTGATTTCAATAGTTCTAAAATAACTAGAGATACTGAATCAT
* *
8947083 TTTTTACCAGTTCTAAAAATATTTTAATGTAAGTTATGGGAATAAGATCAATGTGGACCTTTTTT
66 TTTTTACCAGTTCTAAAAATATTTTAATGTAAGTTATGGGAATAAGATCAATGTGAACCTTTTCT
8947148 TAGTTATTTTGTGATCTTCTAAAATCACTCATTTGATTGTTAGGCTTAAACCCATATGCAGGTAT
131 TAGTTATTTTGTGATCTTCTAAAATCACTCATTTGATTGTTAGGCTTAAACCCATATGCAGGTAT
* * *
8947213 TTAAAAGATTGGTTAATAGGTTGGTGGGTAAGCTGGTTGTGGAACAGGTTGGTAAAGGG-TTGCA
196 TTAAAAGACTGGTTAATAGGTTGATGGGTAAGCTGGTTGTGGAACAAGTTGGTAAAGGGCTTGCA
* *
8947277 TAATACCATTAACTGTGGGATAATAAGCAGGTTGAATAGGTGGTGGATATAAAGCATAGCTTCTG
261 TAATACCATTAACTATGGGATAATAAGCAGGATGAATAGGTGGTGGATATAAAGCATAGCTTCTG
8947342 AATTGTTGTTTATCAAAACTTATAGCTTGAGCTTCAATTTCTTTTTTTTTAGGCAACTTTCATTT
326 AATTGTTGTTTATCAAAACTTATAGCTTGAGCTTCAATTTCTTTTTTTTTAGGCAACTTTCATTT
8947407 CTTAATGGTTTCTCATTTTTAAAGCTTGCCACTCTTAATGGCATTTTCAATAATTTCTTCCAGGA
391 CTTAATGGTTTCTCATTTTTAAAGCTTGCCACTCTTAATGGCATTTTCAATAATTTCTTCCAGGA
8947472 TCACCATATTAGTAAAGTTCTTCATTGCATTTTTTATCATCTTTTCGTATTAAGAAAGTTTTAAA
456 TCACCATATTAGTAAAGTTCTTCATTGCATTTTTTATCATCTTTTCGTATTAAGAAAGTTTTAAA
8947537 ATACTTACAAACAGTTACCATAGTCTCTTTTTCAGTCAAAAGTGATTGAACTTGAGTAGGTATAT
521 ATACTTACAAACAGTT-CCATAGTCTCTTTTTCAGTCAAAAGTGATTGAACTTGAGTAGGTATAT
8947602 CCTTCCACCTTTGGGGCATACTCCTTAAATGATTCAATTGCCATCTTTTTCATATTTTACAAGAA
585 CCTTCCACCTTTGGGGCATACTCCTTAAATGATTCAATTGCCATCTTTTTCATATTTTACAAGAA
8947667 AAAGTAATCATAAGTTAGATCTATTATATGATAGTACTAACTGATAAAGTTACAAGCCATTTCAC
650 AAAGTAATCATAAGTTAGATCTATTATATGATAGTACTAACTGATAAAGTTACAAGCCATTTCAC
* * *
8947732 TCCAAGAGTGAATGCGGGTCTTGTCTGGTTGACATATTATCTAACAGTAAAGCTCGTAAGGCTAT
715 TCCAAGAGTGAATGCGGGTCTTGTCTGGTTGACATATTATCTAACAATAAAGCCCATAAGGCTAT
* *
8947797 CTTAAAATATATGCATTAATAACTTTTCATTATTAGCATAGGTAGCCATTTTTTAATAGTATATG
780 CTTAAAATATATGCATTAACAACTTTTCATTATTAGCATAAGTAGCCATTTTTTAATAGTATATG
8947862 GTAATGTA
845 GTAATGTA
8947870 AG
1 AG
8947872 TCATTAGACA
Statistics
Matches: 833, Mismatches: 20, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
851 279 0.33
852 554 0.67
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (852 bp):
AGCATCATACCATTTAAGATAAAGTGATTTCAATAGTTCTAAAATAACTAGAGATACTGAATCAT
TTTTTACCAGTTCTAAAAATATTTTAATGTAAGTTATGGGAATAAGATCAATGTGAACCTTTTCT
TAGTTATTTTGTGATCTTCTAAAATCACTCATTTGATTGTTAGGCTTAAACCCATATGCAGGTAT
TTAAAAGACTGGTTAATAGGTTGATGGGTAAGCTGGTTGTGGAACAAGTTGGTAAAGGGCTTGCA
TAATACCATTAACTATGGGATAATAAGCAGGATGAATAGGTGGTGGATATAAAGCATAGCTTCTG
AATTGTTGTTTATCAAAACTTATAGCTTGAGCTTCAATTTCTTTTTTTTTAGGCAACTTTCATTT
CTTAATGGTTTCTCATTTTTAAAGCTTGCCACTCTTAATGGCATTTTCAATAATTTCTTCCAGGA
TCACCATATTAGTAAAGTTCTTCATTGCATTTTTTATCATCTTTTCGTATTAAGAAAGTTTTAAA
ATACTTACAAACAGTTCCATAGTCTCTTTTTCAGTCAAAAGTGATTGAACTTGAGTAGGTATATC
CTTCCACCTTTGGGGCATACTCCTTAAATGATTCAATTGCCATCTTTTTCATATTTTACAAGAAA
AAGTAATCATAAGTTAGATCTATTATATGATAGTACTAACTGATAAAGTTACAAGCCATTTCACT
CCAAGAGTGAATGCGGGTCTTGTCTGGTTGACATATTATCTAACAATAAAGCCCATAAGGCTATC
TTAAAATATATGCATTAACAACTTTTCATTATTAGCATAAGTAGCCATTTTTTAATAGTATATGG
TAATGTA
Found at i:8950588 original size:20 final size:20
Alignment explanation
Indices: 8950563--8950613 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
8950553 TGTAGAATAT
8950563 AAATAAAATAATAACAAC-AA
1 AAATAAAATAATAA-AACTAA
*
8950583 AAATAAAAAAATAAAACTAA
1 AAATAAAATAATAAAACTAA
8950603 AAATAAAATAA
1 AAATAAAATAA
8950614 AATAAAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 3 0.11
20 25 0.89
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.16
Consensus pattern (20 bp):
AAATAAAATAATAAAACTAA
Found at i:8950592 original size:8 final size:8
Alignment explanation
Indices: 8950581--8950652 Score: 56
Period size: 8 Copynumber: 8.6 Consensus size: 8
8950571 TAATAACAAC
8950581 AAAAATAA
1 AAAAATAA
8950589 AAAAATAA
1 AAAAATAA
8950597 AACTAAA-AA
1 AA--AAATAA
*
8950606 TAAAATAAA
1 AAAAAT-AA
*
8950615 ATAAAATAC
1 A-AAAATAA
* *
8950624 CAAAATAG
1 AAAAATAA
*
8950632 CAAAATAA
1 AAAAATAA
8950640 AAAAATAA
1 AAAAATAA
8950648 AAAAA
1 AAAAA
8950653 AGCTCATATG
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
7 3 0.06
8 35 0.67
9 6 0.12
10 8 0.15
ACGTcount: A:0.79, C:0.06, G:0.01, T:0.14
Consensus pattern (8 bp):
AAAAATAA
Found at i:8950641 original size:5 final size:5
Alignment explanation
Indices: 8950558--8950622 Score: 55
Period size: 5 Copynumber: 12.8 Consensus size: 5
8950548 AATCATGTAG
* *
8950558 AATATA AATAA AATAA TAACAA CA-AA AAT-A AA-AA AATAA AACTAAA
1 AATA-A AATAA AATAA -AATAA AATAA AATAA AATAA AATAA AA-T-AA
8950604 AATAA AATAA AATAA AATA
1 AATAA AATAA AATAA AATA
8950623 CCAAAATAGC
Statistics
Matches: 50, Mismatches: 3, Indels: 13
0.76 0.05 0.20
Matches are distributed among these distances:
4 9 0.18
5 27 0.54
6 10 0.20
7 4 0.08
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (5 bp):
AATAA
Found at i:8961735 original size:2 final size:2
Alignment explanation
Indices: 8961728--8961760 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
8961718 AACTTATAAG
8961728 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8961761 GGGTTAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8975805 original size:27 final size:27
Alignment explanation
Indices: 8975778--8975838 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
8975768 GTATTAAATA
* * *
8975778 AAAATT-TTAAATTATTTAACATTTAT
1 AAAATTATTAAATAATTGAAAATTTAT
8975804 AAAATTATTAAATAATTGAAAATTTAT
1 AAAATTATTAAATAATTGAAAATTTAT
*
8975831 TAAATTAT
1 AAAATTAT
8975839 CTCACCACCT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 6 0.20
27 24 0.80
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (27 bp):
AAAATTATTAAATAATTGAAAATTTAT
Found at i:8977717 original size:25 final size:24
Alignment explanation
Indices: 8977666--8977718 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
8977656 TGAATTTAAT
* *
8977666 ATTTTTTAAAATTATTGTTTGTTA
1 ATTTTTTAAAATTATTGTTAGTAA
8977690 ATTTTTATAAAATTTATT-TTAGTAA
1 ATTTTT-TAAAA-TTATTGTTAGTAA
8977715 ATTT
1 ATTT
8977719 GTTTTCATCG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.24
25 14 0.56
26 5 0.20
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (24 bp):
ATTTTTTAAAATTATTGTTAGTAA
Found at i:8981954 original size:42 final size:44
Alignment explanation
Indices: 8981908--8982002 Score: 104
Period size: 42 Copynumber: 2.2 Consensus size: 44
8981898 CCATATCTAG
* * * * *
8981908 AAGATCTGGCAAGCCACCTCAGCCTCTTC-AA-ACTACAACTAA
1 AAGATCTGGAAAGCCACATCAACCACTTCAAACACAACAACTAA
* *
8981950 AAGATTTAGAAAGCCACATCAACCACTTCAAACCACAACAACTAA
1 AAGATCTGGAAAGCCACATCAACCACTTCAAA-CACAACAACTAA
8981995 AAGATCTG
1 AAGATCTG
8982003 AAGAGCATGT
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
42 23 0.56
43 2 0.05
45 16 0.39
ACGTcount: A:0.42, C:0.29, G:0.11, T:0.18
Consensus pattern (44 bp):
AAGATCTGGAAAGCCACATCAACCACTTCAAACACAACAACTAA
Found at i:8984121 original size:20 final size:21
Alignment explanation
Indices: 8984096--8984161 Score: 55
Period size: 22 Copynumber: 3.1 Consensus size: 21
8984086 AATTTAAATA
*
8984096 TAATCAGTG-TAAGTTAGTAG
1 TAATCAGTGATAACTTAGTAG
* *
8984116 TAATCATTGATAACTTAGTAAA
1 TAATCAGTGATAACTTAGT-AG
* *
8984138 AAATTC-GTGATAACTTAATAG
1 TAA-TCAGTGATAACTTAGTAG
8984159 TAA
1 TAA
8984162 ATTAATAATA
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
20 8 0.23
21 11 0.31
22 14 0.40
23 2 0.06
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.35
Consensus pattern (21 bp):
TAATCAGTGATAACTTAGTAG
Found at i:8984135 original size:21 final size:20
Alignment explanation
Indices: 8984062--8984135 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 20
8984052 TAGATAATTA
8984062 ATAACTTAGTAATTAATCATTG
1 ATAACTTAGT-A-TAATCATTG
* * * *
8984084 AAAATTTAAATATAATCAGTG
1 ATAACTT-AGTATAATCATTG
*
8984105 -TAAGTTAGTAGTAATCATTG
1 ATAACTTAGTA-TAATCATTG
8984125 ATAACTTAGTA
1 ATAACTTAGTA
8984136 AAAAATTCGT
Statistics
Matches: 40, Mismatches: 9, Indels: 7
0.71 0.16 0.12
Matches are distributed among these distances:
19 3 0.08
20 12 0.30
21 17 0.43
22 6 0.15
23 2 0.05
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.38
Consensus pattern (20 bp):
ATAACTTAGTATAATCATTG
Found at i:8984370 original size:22 final size:22
Alignment explanation
Indices: 8984345--8984409 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 22
8984335 TTAATTATTA
* **
8984345 ATAACTTAGTAATAAATCGTTG
1 ATAACTTAATAATAAATCAATG
* *
8984367 ATAACTTAATAGTAAATTAATG
1 ATAACTTAATAATAAATCAATG
*
8984389 ATAATTTAATAATAAATCAAT
1 ATAACTTAATAATAAATCAAT
8984410 TTTAGTTTAA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.37
Consensus pattern (22 bp):
ATAACTTAATAATAAATCAATG
Found at i:8984437 original size:22 final size:23
Alignment explanation
Indices: 8984372--8984437 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 23
8984362 CGTTGATAAC
*
8984372 TTAATAGTAAATTAA-TGATAAT
1 TTAATAGTAAATTAATTGATAGT
* * *
8984394 TTAATAATAAATCAATT-TTAGT
1 TTAATAGTAAATTAATTGATAGT
*
8984416 TTAATAGT-AATTAATTGGTAGT
1 TTAATAGTAAATTAATTGATAGT
8984438 AGTAAATCAT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
21 7 0.20
22 27 0.77
23 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.44
Consensus pattern (23 bp):
TTAATAGTAAATTAATTGATAGT
Found at i:8984502 original size:22 final size:22
Alignment explanation
Indices: 8984452--8984553 Score: 84
Period size: 22 Copynumber: 4.7 Consensus size: 22
8984442 AATCATAACT
*
8984452 AACTTAATAGTAAATCAATT-ATA
1 AACTTAGTAGTAAAT-AATTGA-A
*
8984475 AA-TTAGTGGTAAATAATTGAA
1 AACTTAGTAGTAAATAATTGAA
* * *
8984496 AACTTAGTTGTTAATTATTGAA
1 AACTTAGTAGTAAATAATTGAA
** * *
8984518 AACTTAAAAGTAAATCATT-AT
1 AACTTAGTAGTAAATAATTGAA
8984539 AACTTAGTAGTAAAT
1 AACTTAGTAGTAAAT
8984554 TATTAATAAC
Statistics
Matches: 64, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
21 21 0.33
22 41 0.64
23 2 0.03
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (22 bp):
AACTTAGTAGTAAATAATTGAA
Found at i:8984544 original size:21 final size:22
Alignment explanation
Indices: 8984518--8984563 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
8984508 AATTATTGAA
8984518 AACTTAAAAGTAAATCATT-AT
1 AACTTAAAAGTAAATCATTAAT
** *
8984539 AACTTAGTAGTAAATTATTAAT
1 AACTTAAAAGTAAATCATTAAT
8984561 AAC
1 AAC
8984564 ATAATTATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.50, C:0.09, G:0.07, T:0.35
Consensus pattern (22 bp):
AACTTAAAAGTAAATCATTAAT
Found at i:8984552 original size:65 final size:66
Alignment explanation
Indices: 8984452--8984596 Score: 186
Period size: 65 Copynumber: 2.2 Consensus size: 66
8984442 AATCATAACT
* * * * *
8984452 AACTTAATAGTAAATCAATTATAAATTAGTGGTAAATAATTGAA-AACTTAGTTGTTAATTATTG
1 AACTTAATAGTAAATCAATTATAAATTAGTAGTAAATAATT-AATAACATAATTATTAATTAATG
8984516 AA
65 AA
* * *
8984518 AACTTAAAAGTAAATC-ATTATAACTTAGTAGTAAATTATTAATAACATAATTATTAATTAATGA
1 AACTTAATAGTAAATCAATTATAAATTAGTAGTAAATAATTAATAACATAATTATTAATTAATGA
*
8984582 T
66 A
8984583 AACTTAATAGTAAA
1 AACTTAATAGTAAA
8984597 CTATGCATAA
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
64 2 0.03
65 51 0.75
66 15 0.22
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.37
Consensus pattern (66 bp):
AACTTAATAGTAAATCAATTATAAATTAGTAGTAAATAATTAATAACATAATTATTAATTAATGA
A
Found at i:8984618 original size:65 final size:65
Alignment explanation
Indices: 8984506--8984627 Score: 149
Period size: 65 Copynumber: 1.9 Consensus size: 65
8984496 AACTTAGTTG
* * * *
8984506 TTAATTATTGAAAACTTAAAAGTAAATCATTATAACTTAGTAGTAAATTATTAATAACATAATTA
1 TTAATTAATGAAAACTTAAAAGTAAATCATCATAACTTAATAGTAAATTAATAATAACATAATTA
* * *
8984571 TTAATTAATGATAACTTAATAGTAAA-CTATGCATAATTTAATA-TAAATTAATAATAA
1 TTAATTAATGAAAACTTAAAAGTAAATC-AT-CATAACTTAATAGTAAATTAATAATAA
8984628 TTTAGTAGTG
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
64 1 0.02
65 38 0.79
66 9 0.19
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.39
Consensus pattern (65 bp):
TTAATTAATGAAAACTTAAAAGTAAATCATCATAACTTAATAGTAAATTAATAATAACATAATTA
Found at i:8984864 original size:11 final size:11
Alignment explanation
Indices: 8984690--8984878 Score: 100
Period size: 11 Copynumber: 16.9 Consensus size: 11
8984680 AACTAATTAA
*
8984690 AAATTAAAAAGT
1 AAATTAATAA-T
* *
8984702 AAATCAATGATT
1 AAATTAAT-AAT
8984714 AAA-TAATAAT
1 AAATTAATAAT
8984724 AAA-TATATAA-
1 AAATTA-ATAAT
8984734 AAATATAATAAT
1 AAAT-TAATAAT
* *
8984746 AAATTACTGAT
1 AAATTAATAAT
* *
8984757 AATTTAGTAAT
1 AAATTAATAAT
*
8984768 AAATTATTAAT
1 AAATTAATAAT
* *
8984779 CAATTGATAAT
1 AAATTAATAAT
*
8984790 TAATT-ATAAAT
1 AAATTAAT-AAT
** *
8984801 ATAACACAATAGT
1 A-AA-TTAATAAT
*
8984814 AAATTACTAAT
1 AAATTAATAAT
* *
8984825 AATTTAATTAT
1 AAATTAATAAT
8984836 AAATTAATAAT
1 AAATTAATAAT
*
8984847 AATTTAATAAT
1 AAATTAATAAT
8984858 AAATTAATTAAT
1 AAATTAA-TAAT
*
8984870 -TATTAATAA
1 AAATTAATAA
8984879 CTATAGATAT
Statistics
Matches: 135, Mismatches: 32, Indels: 22
0.71 0.17 0.12
Matches are distributed among these distances:
10 15 0.11
11 90 0.67
12 24 0.18
13 4 0.03
14 2 0.01
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (11 bp):
AAATTAATAAT
Found at i:8985012 original size:13 final size:14
Alignment explanation
Indices: 8984994--8985030 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
8984984 TTAAAATAAT
8984994 TTTATTTATT-TAA
1 TTTATTTATTGTAA
*
8985007 TTTATTT-TTGTTA
1 TTTATTTATTGTAA
8985020 TTTATTTATTG
1 TTTATTTATTG
8985031 GTCAAGGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
12 2 0.10
13 16 0.76
14 3 0.14
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (14 bp):
TTTATTTATTGTAA
Found at i:8986253 original size:20 final size:20
Alignment explanation
Indices: 8986230--8986307 Score: 66
Period size: 20 Copynumber: 3.7 Consensus size: 20
8986220 TTATGGTCTA
8986230 TTTGCATAATTTATGATATT
1 TTTGCATAATTTATGATATT
*
8986250 TTTGCATGATTTTATTTTGATATT
1 TTTGCAT-AATTTA---TGATATT
* * *
8986274 TTTGCATGATTAATTATATT
1 TTTGCATAATTTATGATATT
* *
8986294 ATTGCATGATTTAT
1 TTTGCATAATTTAT
8986308 AATGATATTT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
20 25 0.53
21 5 0.11
23 3 0.06
24 14 0.30
ACGTcount: A:0.27, C:0.05, G:0.12, T:0.56
Consensus pattern (20 bp):
TTTGCATAATTTATGATATT
Found at i:8986271 original size:24 final size:24
Alignment explanation
Indices: 8986238--8986350 Score: 103
Period size: 24 Copynumber: 4.9 Consensus size: 24
8986228 TATTTGCATA
8986238 ATTTATGATATTTTTGCATGATTTT
1 ATTT-TGATATTTTTGCATGATTTT
8986263 ATTTTGATATTTTTGCATGA--TT
1 ATTTTGATATTTTTGCATGATTTT
* *
8986285 A-ATT-ATATTATTGCATGA-TTT
1 ATTTTGATATTTTTGCATGATTTT
** *
8986306 ATAATGATATTTTT-CATTATTTTT
1 ATTTTGATATTTTTGCATGA-TTTT
* *
8986330 ATTGTGATATTTTTGCTTGAT
1 ATTTTGATATTTTTGCATGAT
8986351 AGTTTGATAA
Statistics
Matches: 73, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
20 13 0.18
21 5 0.07
22 9 0.12
23 7 0.10
24 32 0.44
25 7 0.10
ACGTcount: A:0.26, C:0.04, G:0.12, T:0.58
Consensus pattern (24 bp):
ATTTTGATATTTTTGCATGATTTT
Found at i:8986279 original size:44 final size:43
Alignment explanation
Indices: 8986211--8986327 Score: 119
Period size: 44 Copynumber: 2.7 Consensus size: 43
8986201 AGTAATTATA
* * * * *
8986211 CATGATTTATTATGGTCTATTTGCATAATTTATGATATTTTTG
1 CATGATTTATAATGATATTTTTGCATAATTTATGATATTATTG
** * * *
8986254 CATGATTTTATTTTGATATTTTTGCATGATTAATTATATTATTG
1 CATGA-TTTATAATGATATTTTTGCATAATTTATGATATTATTG
*
8986298 CATGATTTATAATGATATTTTT-CATTATTT
1 CATGATTTATAATGATATTTTTGCATAATTT
8986328 TTATTGTGAT
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
42 6 0.10
43 20 0.33
44 35 0.57
ACGTcount: A:0.27, C:0.06, G:0.11, T:0.56
Consensus pattern (43 bp):
CATGATTTATAATGATATTTTTGCATAATTTATGATATTATTG
Found at i:8986290 original size:67 final size:66
Alignment explanation
Indices: 8986178--8986350 Score: 165
Period size: 67 Copynumber: 2.6 Consensus size: 66
8986168 GGATTGTTTT
* * * * * *
8986178 TATTTTTGCATATTTTATTTTACAGTAATTATACATGATTTATTATGGTCTATTTGCAT-AATT-
1 TATTTTTGCATATTTTATTTT-GA-TATTTTTGCATGATTAATTAT-AT-TA-TTGCATGAATTA
8986241 T-ATGA
61 TAATGA
*
8986246 TATTTTTGCATGATTTTATTTTGATATTTTTGCATGATTAATTATATTATTGCATGATTTATAAT
1 TATTTTTGCAT-ATTTTATTTTGATATTTTTGCATGATTAATTATATTATTGCATGAATTATAAT
8986311 GA
65 GA
* *
8986313 TATTTTT-CATTATTTTTATTGTGATATTTTTGCTTGAT
1 TATTTTTGCA-TA-TTTTATTTTGATATTTTTGCATGAT
8986351 AGTTTGATAA
Statistics
Matches: 90, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
64 6 0.07
65 5 0.06
66 5 0.06
67 52 0.58
68 12 0.13
69 10 0.11
ACGTcount: A:0.27, C:0.06, G:0.11, T:0.57
Consensus pattern (66 bp):
TATTTTTGCATATTTTATTTTGATATTTTTGCATGATTAATTATATTATTGCATGAATTATAATG
A
Found at i:8992309 original size:65 final size:66
Alignment explanation
Indices: 8992219--8992433 Score: 210
Period size: 65 Copynumber: 3.3 Consensus size: 66
8992209 AAAACCTCTG
8992219 GGTATCATTTTTAAAAC-TTCTAAGTATCTTTTTGAAAATCTTTAAGTATCATCTTTAAAACATT
1 GGTATCATTTTTAAAACTTTC-AAGTATCTTTTTGAAAATCTTTAAGTATCATCTTTAAAACATT
8992283 T-
65 TC
** * * *
8992284 GGTAT-ATTCTTTAAAACTTTCAAGTATCTTTTTGAAAAT-TTTTGGTACCAACTTTAAAACCTT
1 GGTATCATT-TTTAAAACTTTCAAGTATCTTTTTGAAAATCTTTAAGTATCATCTTTAAAACATT
8992347 TC
65 TC
* * * * * *
8992349 GGTATCATATTTAAAA-TTCTCCAAGTATCATCTTTAAAAACCTTTGAGTATTATCTTTAAAAC-
1 GGTATCATTTTTAAAACTT-T-CAAGTATC-TTTTTGAAAATCTTTAAGTATCATCTTTAAAACA
8992412 TTTC
63 TTTC
*
8992416 AAGTATC-TTTTTGAAAAC
1 -GGTATCATTTTT-AAAAC
8992434 CTTTGGGTAT
Statistics
Matches: 123, Mismatches: 16, Indels: 18
0.78 0.10 0.11
Matches are distributed among these distances:
64 25 0.20
65 44 0.36
66 13 0.11
67 16 0.13
68 25 0.20
ACGTcount: A:0.33, C:0.14, G:0.08, T:0.44
Consensus pattern (66 bp):
GGTATCATTTTTAAAACTTTCAAGTATCTTTTTGAAAATCTTTAAGTATCATCTTTAAAACATTT
C
Found at i:8992398 original size:23 final size:22
Alignment explanation
Indices: 8992153--8992455 Score: 126
Period size: 22 Copynumber: 13.7 Consensus size: 22
8992143 AAAACCTCCA
* *
8992153 AGTATCAT-TTTAAAAACTTCG
1 AGTATCATCTTTAAAACCTTTG
* * **
8992174 ATTATCATCTTTAAAATC-TCC
1 AGTATCATCTTTAAAACCTTTG
* *
8992195 ATGTATCATATTTTAAAACCTCTG
1 A-GTATCAT-CTTTAAAACCTTTG
* * *
8992219 GGTATCATTTTTAAAA-CTTCTA
1 AGTATCATCTTTAAAACCTT-TG
* * *
8992241 AGTATC-TTTTTGAAAATCTTTA
1 AGTATCATCTTT-AAAACCTTTG
*
8992263 AGTATCATCTTTAAAACATTTG
1 AGTATCATCTTTAAAACCTTTG
*
8992285 -GTAT-ATTCTTTAAAA-CTTTCA
1 AGTATCA-TCTTTAAAACCTTT-G
* **
8992306 AGTATC-TTTTTGAAAATTTTTG
1 AGTATCATCTTT-AAAACCTTTG
* *
8992328 -GTACCAACTTTAAAACCTTTCG
1 AGTATCATCTTTAAAACCTTT-G
* * ***
8992350 -GTATCATATTTAAAATTCTCCA
1 AGTATCATCTTTAAAA-CCTTTG
8992372 AGTATCATCTTTAAAAACCTTTG
1 AGTATCATCTTT-AAAACCTTTG
* *
8992395 AGTATTATCTTTAAAA-CTTTCA
1 AGTATCATCTTTAAAACCTTT-G
*
8992417 AGTATC-TTTTTGAAAACCTTTG
1 AGTATCATCTTT-AAAACCTTTG
* *
8992439 GGTATCATACTTAAAAA
1 AGTATCAT-CTTTAAAA
8992456 TCTTCAAATA
Statistics
Matches: 211, Mismatches: 47, Indels: 46
0.69 0.15 0.15
Matches are distributed among these distances:
20 4 0.02
21 53 0.25
22 89 0.42
23 59 0.28
24 6 0.03
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.43
Consensus pattern (22 bp):
AGTATCATCTTTAAAACCTTTG
Found at i:8992487 original size:22 final size:23
Alignment explanation
Indices: 8992452--8992500 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
8992442 ATCATACTTA
8992452 AAAATCTTCAAATATC-ATTTTT
1 AAAATCTTCAAATATCTATTTTT
* * *
8992474 AAAATTTTCTAATATCTCTTTTT
1 AAAATCTTCAAATATCTATTTTT
8992497 AAAA
1 AAAA
8992501 GCCTTCGCGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (23 bp):
AAAATCTTCAAATATCTATTTTT
Found at i:8994482 original size:23 final size:23
Alignment explanation
Indices: 8994456--8994560 Score: 71
Period size: 20 Copynumber: 4.7 Consensus size: 23
8994446 AGTATTTGTA
*
8994456 CATGATTTATTATGGTACATTTG
1 CATGATTTATTATGATACATTTG
*
8994479 CATGA--T-TTATGATACTTTTG
1 CATGATTTATTATGATACATTTG
* *
8994499 CATGATTTATGAT-AT-TA-TTG
1 CATGATTTATTATGATACATTTG
* * *
8994519 CTTGATTTTATTATGATA-TTTTT
1 CATGA-TTTATTATGATACATTTG
8994542 CATGATTTTTATTATGATA
1 CATGA--TTTATTATGATA
8994561 TTTTTGCTTG
Statistics
Matches: 64, Mismatches: 10, Indels: 15
0.72 0.11 0.17
Matches are distributed among these distances:
20 24 0.38
21 8 0.12
22 5 0.08
23 14 0.22
24 13 0.20
ACGTcount: A:0.27, C:0.07, G:0.13, T:0.53
Consensus pattern (23 bp):
CATGATTTATTATGATACATTTG
Found at i:8994498 original size:20 final size:20
Alignment explanation
Indices: 8994465--8994526 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
8994455 ACATGATTTA
* *
8994465 TTATGGTACATTTGCATGAT
1 TTATGATACTTTTGCATGAT
8994485 TTATGATACTTTTGCATGAT
1 TTATGATACTTTTGCATGAT
*
8994505 TTATGATA-TTATTGCTTGAT
1 TTATGATACTT-TTGCATGAT
8994525 TT
1 TT
8994527 TATTATGATA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
19 2 0.05
20 36 0.95
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.52
Consensus pattern (20 bp):
TTATGATACTTTTGCATGAT
Found at i:8994533 original size:24 final size:23
Alignment explanation
Indices: 8994505--8994572 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 23
8994495 TTTGCATGAT
8994505 TTATGATATTATTGCTTGATTTTA
1 TTATGATATT-TTGCTTGATTTTA
* *
8994529 TTATGATATTTTTCATGATTTTTA
1 TTATGATATTTTGCTTGA-TTTTA
8994553 TTATGATATTTTTGCTTGAT
1 TTATGATA-TTTTGCTTGAT
8994573 ATTTTGATAG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.16
24 24 0.63
25 8 0.21
ACGTcount: A:0.24, C:0.04, G:0.12, T:0.60
Consensus pattern (23 bp):
TTATGATATTTTGCTTGATTTTA
Found at i:8994558 original size:12 final size:13
Alignment explanation
Indices: 8994523--8994564 Score: 61
Period size: 12 Copynumber: 3.4 Consensus size: 13
8994513 TTATTGCTTG
8994523 ATTTTATTATGAT
1 ATTTTATTATGAT
*
8994536 ATTTT-TCATGAT
1 ATTTTATTATGAT
8994548 -TTTTATTATGAT
1 ATTTTATTATGAT
8994560 ATTTT
1 ATTTT
8994565 TGCTTGATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 4 0.16
12 12 0.48
13 9 0.36
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.64
Consensus pattern (13 bp):
ATTTTATTATGAT
Found at i:8995189 original size:66 final size:66
Alignment explanation
Indices: 8995104--8995278 Score: 167
Period size: 66 Copynumber: 2.7 Consensus size: 66
8995094 GGTAAATTAG
* * * * **
8995104 TAGTAAATTAGTTAAAACTTTATAATAAATTATCAATAACTTAGTGGTAAATCACCAACAATTTA
1 TAGTAAATCATTTATAACTTAATAATAAATTATCAATAACTTAGTAATAAATCACCAACAATTTA
8995169 A
66 A
* *** *
8995170 T-GATAAATCATTTATAACTTAATGAA-AAATTATTC-ATAAATTAGTAATAAATCATTGATAAT
1 TAG-TAAATCATTTATAACTTAAT-AATAAATTA-TCAATAACTTAGTAATAAATCACCAACAAT
8995232 TTAA
63 TTAA
* * * *
8995236 TAGTAAATCATTTATACCTTAATAGTAAATAATTAATAACTTA
1 TAGTAAATCATTTATAACTTAATAATAAATTATCAATAACTTA
8995279 ATTATCAATC
Statistics
Matches: 87, Mismatches: 16, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
65 3 0.03
66 79 0.91
67 5 0.06
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (66 bp):
TAGTAAATCATTTATAACTTAATAATAAATTATCAATAACTTAGTAATAAATCACCAACAATTTA
A
Found at i:8995191 original size:22 final size:21
Alignment explanation
Indices: 8995166--8995296 Score: 100
Period size: 22 Copynumber: 6.0 Consensus size: 21
8995156 CACCAACAAT
*
8995166 TTAATGATAAATCATTTATAAC
1 TTAAT-ATAAATCATTGATAAC
* * * *
8995188 TTAATGAAAAATTATTCATAAA
1 TTAAT-ATAAATCATTGATAAC
* *
8995210 TTAGTAATAAATCATTGATAAT
1 TTAAT-ATAAATCATTGATAAC
* *
8995232 TTAATAGTAAATCATTTATACC
1 TTAATA-TAAATCATTGATAAC
* *
8995254 TTAATAGTAAATAATTAATAAC
1 TTAATA-TAAATCATTGATAAC
*
8995276 TTAATTATCAATCATTGATAA
1 TTAA-TATAAATCATTGATAA
8995297 TTTTTTTATA
Statistics
Matches: 87, Mismatches: 20, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
21 1 0.01
22 84 0.97
23 2 0.02
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.40
Consensus pattern (21 bp):
TTAATATAAATCATTGATAAC
Found at i:8995289 original size:66 final size:66
Alignment explanation
Indices: 8995163--8995299 Score: 170
Period size: 66 Copynumber: 2.1 Consensus size: 66
8995153 AATCACCAAC
* * *
8995163 AATTTAATGATAAATCATTTATAACTTAATGAAAAATTATTCATAAATTAGTAATAAATCATTGA
1 AATTTAATGATAAATCATTTATAACTTAATGAAAAATAATTAATAAATTAATAATAAATCATTGA
8995228 T
66 T
* * * * *
8995229 AATTTAAT-AGTAAATCATTTATACCTTAAT-AGTAAATAATTAATAACTTAATTATCAATCATT
1 AATTTAATGA-TAAATCATTTATAACTTAATGA-AAAATAATTAATAAATTAATAATAAATCATT
8995292 GAT
64 GAT
8995295 AATTT
1 AATTT
8995300 TTTTATACTT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
65 2 0.03
66 59 0.97
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.41
Consensus pattern (66 bp):
AATTTAATGATAAATCATTTATAACTTAATGAAAAATAATTAATAAATTAATAATAAATCATTGA
T
Found at i:8995613 original size:11 final size:11
Alignment explanation
Indices: 8995594--8995658 Score: 58
Period size: 11 Copynumber: 5.9 Consensus size: 11
8995584 TTAATAATTG
*
8995594 ATAATTTAATA
1 ATAAATTAATA
8995605 ATAAATTAATA
1 ATAAATTAATA
* *
8995616 ATAACTTAGTA
1 ATAAATTAATA
* * *
8995627 GTAAATTAGTG
1 ATAAATTAATA
*
8995638 ATAACTTAATA
1 ATAAATTAATA
*
8995649 GTAAATTAAT
1 ATAAATTAAT
8995659 TTTAGTTTAA
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 42 1.00
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (11 bp):
ATAAATTAATA
Found at i:8995620 original size:44 final size:44
Alignment explanation
Indices: 8995572--8995658 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 44
8995562 AAAATAAGTG
* * * *
8995572 ATAACTTAGTTGTTAATAATTGATAATTTAATAATAAATTAATA
1 ATAACTTAGTAGTAAATAAGTGATAACTTAATAATAAATTAATA
* *
8995616 ATAACTTAGTAGTAAATTAGTGATAACTTAATAGTAAATTAAT
1 ATAACTTAGTAGTAAATAAGTGATAACTTAATAATAAATTAAT
8995659 TTTAGTTTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.47, C:0.03, G:0.09, T:0.40
Consensus pattern (44 bp):
ATAACTTAGTAGTAAATAAGTGATAACTTAATAATAAATTAATA
Found at i:8995631 original size:22 final size:22
Alignment explanation
Indices: 8995606--8995739 Score: 119
Period size: 22 Copynumber: 6.0 Consensus size: 22
8995596 AATTTAATAA
8995606 TAAATTAATAATAACTTAGTAG
1 TAAATTAATAATAACTTAGTAG
* * *
8995628 TAAATTAGTGATAACTTAATAG
1 TAAATTAATAATAACTTAGTAG
** ** *
8995650 TAAATTAATTTTAGTTTAATA-
1 TAAATTAATAATAACTTAGTAG
*
8995671 TTAATTAATTAATAAACTTAGTAG
1 TAAATTAA-TAAT-AACTTAGTAG
*
8995695 TAAA-TCATAAATAACTTAGTAG
1 TAAATTAAT-AATAACTTAGTAG
* *
8995717 TAAATTAATGATAATTTAGTAG
1 TAAATTAATAATAACTTAGTAG
8995739 T
1 T
8995740 TAATCATTTA
Statistics
Matches: 88, Mismatches: 19, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
21 7 0.08
22 64 0.73
23 14 0.16
24 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.40
Consensus pattern (22 bp):
TAAATTAATAATAACTTAGTAG
Found at i:8995833 original size:21 final size:22
Alignment explanation
Indices: 8995692--8996052 Score: 78
Period size: 22 Copynumber: 16.4 Consensus size: 22
8995682 ATAAACTTAG
* * *
8995692 TAGTAAATCATAAATAACTTAG
1 TAGTAAATCATAGATAATTTAA
* *
8995714 TAGTAAATTA-ATGATAATTTAG
1 TAGTAAATCATA-GATAATTTAA
* ** *
8995736 TAGTTAATCATTTAAAATTTAA
1 TAGTAAATCATAGATAATTTAA
* * *
8995758 AAGTAAATCA-ACATAACTTAGTAG
1 TAGTAAATCATAGATAA-TT--TAA
* * * * * *
8995782 TAGTTAGTCAAATATGACTTAA
1 TAGTAAATCATAGATAATTTAA
8995804 TAGTAAATCATAGATAATTTAA
1 TAGTAAATCATAGATAATTTAA
* *
8995826 TA-TAAATCATTGATAAATTGAA
1 TAGTAAATCATAGAT-AATTTAA
* * * *
8995848 -AATGAATCAT-GGTAAATTTAG
1 TAGTAAATCATAGAT-AATTTAA
* * **
8995869 TAATAAATCTATA-ATGATTTTG
1 TAGTAAATC-ATAGATAATTTAA
* * **
8995891 TAGTAAATAATTGA-AAGCTAA
1 TAGTAAATCATAGATAATTTAA
* * * **
8995912 GTAATAAATTATTGATAACATAA
1 -TAGTAAATCATAGATAATTTAA
* * **
8995935 TAATAAATGTATA-ATAACATAA
1 TAGTAAAT-CATAGATAATTTAA
* *
8995957 TAGTAAATCTTTGATAATTTAAA
1 TAGTAAATCATAGATAATTT-AA
* * * *
8995980 TA-TAAATTATTGATAACTTAG
1 TAGTAAATCATAGATAATTTAA
* *
8996001 TAGTAAATCAATA-AAAATCTAA
1 TAGTAAATC-ATAGATAATTTAA
* *
8996023 TTGTAAATCAATA-ATAATTTAG
1 TAGTAAATC-ATAGATAATTTAA
8996045 TAGTAAAT
1 TAGTAAAT
8996053 TGATTAATCA
Statistics
Matches: 248, Mismatches: 72, Indels: 38
0.69 0.20 0.11
Matches are distributed among these distances:
21 32 0.13
22 185 0.75
23 17 0.07
24 10 0.04
25 4 0.02
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (22 bp):
TAGTAAATCATAGATAATTTAA
Found at i:8996040 original size:66 final size:66
Alignment explanation
Indices: 8995915--8996043 Score: 152
Period size: 66 Copynumber: 2.0 Consensus size: 66
8995905 AAGCTAAGTA
** * ** *
8995915 ATAAATTATTGATAACATAATAATAAATGTATAATAACATAATAGTAAATCTTTGATAATTTAAA
1 ATAAATTATTGATAACATAATAATAAATCAATAAAAACATAATAGTAAATCAATAATAATTTAAA
8995980 T
66 T
* * * *
8995981 ATAAATTATTGATAACTTAGTAGTAAATCAATAAAAATC-TAATTGTAAATCAATAATAATTTA
1 ATAAATTATTGATAACATAATAATAAATCAATAAAAA-CATAATAGTAAATCAATAATAATTTA
8996044 GTAGTAAATT
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
66 51 0.98
67 1 0.02
ACGTcount: A:0.51, C:0.05, G:0.06, T:0.37
Consensus pattern (66 bp):
ATAAATTATTGATAACATAATAATAAATCAATAAAAACATAATAGTAAATCAATAATAATTTAAA
T
Found at i:8996052 original size:66 final size:66
Alignment explanation
Indices: 8995909--8996053 Score: 150
Period size: 66 Copynumber: 2.2 Consensus size: 66
8995899 AATTGAAAGC
** * ** *
8995909 TAAGTAATAAATTATTGATAACATAATAATAAATGTATAATAACATAATAGTAAATCTTTGATAA
1 TAAGT-ATAAATTATTGATAACATAATAATAAATCAATAAAAACATAATAGTAAATCAATAATAA
8995974 TT
65 TT
* * * * *
8995976 TAAATATAAATTATTGATAACTTAGTAGTAAATCAATAAAAATC-TAATTGTAAATCAATAATAA
1 TAAGTATAAATTATTGATAACATAATAATAAATCAATAAAAA-CATAATAGTAAATCAATAATAA
8996040 TT
65 TT
8996042 T-AGTAGTAAATT
1 TAAGTA-TAAATT
8996054 GATTAATCAT
Statistics
Matches: 64, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
65 3 0.05
66 56 0.88
67 5 0.08
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (66 bp):
TAAGTATAAATTATTGATAACATAATAATAAATCAATAAAAACATAATAGTAAATCAATAATAAT
T
Found at i:8996095 original size:12 final size:12
Alignment explanation
Indices: 8996078--8996114 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
8996068 AACTTTGTAG
8996078 TAAATTAATTGA
1 TAAATTAATTGA
*
8996090 TAAATTAATAG-
1 TAAATTAATTGA
8996101 TAAATTAATT-A
1 TAAATTAATTGA
8996112 TAA
1 TAA
8996115 CTTTATAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (12 bp):
TAAATTAATTGA
Found at i:8996149 original size:22 final size:22
Alignment explanation
Indices: 8996094--8996197 Score: 104
Period size: 22 Copynumber: 4.7 Consensus size: 22
8996084 AATTGATAAA
*
8996094 TTAATAGTAAATTAATTA-TAAC
1 TTAATAGTAAA-TCATTAGTAAC
* **
8996116 TTTATAACAAATCATTAGTAAC
1 TTAATAGTAAATCATTAGTAAC
* * *
8996138 TTAATAGTAAATCATCAATAAT
1 TTAATAGTAAATCATTAGTAAC
*
8996160 TTAATAGTAAATAAGTTAG-AAC
1 TTAATAGTAAATCA-TTAGTAAC
8996182 TTAATAGTAAATCATT
1 TTAATAGTAAATCATT
8996198 TATAAATTAG
Statistics
Matches: 65, Mismatches: 15, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
21 7 0.11
22 56 0.86
23 2 0.03
ACGTcount: A:0.48, C:0.08, G:0.07, T:0.38
Consensus pattern (22 bp):
TTAATAGTAAATCATTAGTAAC
Found at i:8996215 original size:44 final size:43
Alignment explanation
Indices: 8996058--8996215 Score: 140
Period size: 44 Copynumber: 3.6 Consensus size: 43
8996048 TAAATTGATT
* * *
8996058 AATCATTTATAACTTT-GTAGTAAATTAATTGATAAATTAATAGTA
1 AATCATTTATAA-TTTAGTAATAAA-TAATT-AGAACTTAATAGTA
* * * *
8996103 AATTAATTATAACTTTA-TAACAAATCATTAGTAACTTAATAGTA
1 AATCATTTATAA-TTTAGTAATAAATAATTAG-AACTTAATAGTA
** * *
8996147 AATCATCAATAATTTAATAGTAAATAAGTTAGAACTTAATAGTA
1 AATCATTTATAATTTAGTAATAAATAA-TTAGAACTTAATAGTA
*
8996191 AATCATTTATAAATTAGTAATAAAT
1 AATCATTTATAATTTAGTAATAAAT
8996216 CAATACCAAT
Statistics
Matches: 90, Mismatches: 19, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
43 5 0.06
44 62 0.69
45 23 0.26
ACGTcount: A:0.48, C:0.06, G:0.07, T:0.39
Consensus pattern (43 bp):
AATCATTTATAATTTAGTAATAAATAATTAGAACTTAATAGTA
Found at i:8996215 original size:66 final size:66
Alignment explanation
Indices: 8996089--8996217 Score: 154
Period size: 66 Copynumber: 2.0 Consensus size: 66
8996079 AAATTAATTG
* * * *
8996089 ATAAATTAATAGTAAATTAATTATAACTTTATAACAAATCATTAGTAACTTAATAGTAAATCATC
1 ATAAATTAATAGTAAATTAATTAGAACTTAATAACAAATCATTAGTAAATTAATAATAAATCATC
8996154 A
66 A
* ** *
8996155 ATAATTTAATAGTAAA-TAAGTTAGAACTTAATAGTAAATCATTTA-TAAATTAGTAATAAATCA
1 ATAAATTAATAGTAAATTAA-TTAGAACTTAATAACAAATCA-TTAGTAAATTAATAATAAATCA
8996218 ATACCAATTT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
65 3 0.06
66 47 0.89
67 3 0.06
ACGTcount: A:0.50, C:0.07, G:0.06, T:0.36
Consensus pattern (66 bp):
ATAAATTAATAGTAAATTAATTAGAACTTAATAACAAATCATTAGTAAATTAATAATAAATCATC
A
Found at i:8996247 original size:21 final size:21
Alignment explanation
Indices: 8996108--8996250 Score: 74
Period size: 22 Copynumber: 6.6 Consensus size: 21
8996098 TAGTAAATTA
*
8996108 ATTATAACTTTA-TAACAAATC
1 ATTATAA-TTTAGTAATAAATC
* * *
8996129 ATTAGTAACTTAATAGTAAATC
1 ATTA-TAATTTAGTAATAAATC
* * * *
8996151 ATCAATAATTTAATAGTAAATA
1 AT-TATAATTTAGTAATAAATC
* * * *
8996173 AGTTAGAACTTAATAGTAAATC
1 A-TTATAATTTAGTAATAAATC
*
8996195 ATTTATAAATTAGTAATAAATC
1 A-TTATAATTTAGTAATAAATC
* *
8996217 AATACCAATTTAGTAAT-AATC
1 ATTA-TAATTTAGTAATAAATC
8996238 ATTGATAATTTAG
1 ATT-ATAATTTAG
8996251 CAAATTTTAT
Statistics
Matches: 96, Mismatches: 20, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
21 22 0.23
22 72 0.75
23 2 0.02
ACGTcount: A:0.48, C:0.08, G:0.07, T:0.37
Consensus pattern (21 bp):
ATTATAATTTAGTAATAAATC
Found at i:8996642 original size:22 final size:21
Alignment explanation
Indices: 8996617--8996691 Score: 87
Period size: 22 Copynumber: 3.5 Consensus size: 21
8996607 AAATATTATT
*
8996617 AAAATTATATTAAGAGATTACC
1 AAAATTATA-TAAAAGATTACC
* *
8996639 AAAATTTTATAAAAAAATTACC
1 AAAATTATAT-AAAAGATTACC
* *
8996661 AAAATTATATCAACGATTACC
1 AAAATTATATAAAAGATTACC
8996682 AAAATTATAT
1 AAAATTATAT
8996692 CATAAATTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
21 19 0.42
22 26 0.58
ACGTcount: A:0.53, C:0.11, G:0.04, T:0.32
Consensus pattern (21 bp):
AAAATTATATAAAAGATTACC
Found at i:8996681 original size:21 final size:21
Alignment explanation
Indices: 8996617--8996706 Score: 92
Period size: 21 Copynumber: 4.2 Consensus size: 21
8996607 AAATATTATT
*
8996617 AAAATTATATTAAGAGATTACC
1 AAAATTATATCAA-AGATTACC
* * *
8996639 AAAATTTTATAAAAAAATTACC
1 AAAATTATAT-CAAAGATTACC
*
8996661 AAAATTATATCAACGATTACC
1 AAAATTATATCAAAGATTACC
*
8996682 AAAATTATATCATAA-ATTATC
1 AAAATTATATCA-AAGATTACC
8996703 AAAA
1 AAAA
8996707 GGTTACCAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
21 29 0.51
22 26 0.46
23 2 0.04
ACGTcount: A:0.54, C:0.11, G:0.03, T:0.31
Consensus pattern (21 bp):
AAAATTATATCAAAGATTACC
Found at i:8998269 original size:30 final size:31
Alignment explanation
Indices: 8998217--8998305 Score: 74
Period size: 33 Copynumber: 2.8 Consensus size: 31
8998207 TAACAGTTTT
* * *
8998217 AAAAATTTTAACAT-ACATAAATATTA-ATA
1 AAAAAATTTAAAATAACAAAAATATTATATA
* *
8998246 ATAAAATTTAAAATAACAAAAATAATATATCTA
1 AAAAAATTTAAAATAACAAAAAT-AT-TATATA
* *
8998279 AAAAAATTTAAAAAGAAAAAAAATATT
1 AAAAAATTT-AAAATAACAAAAATATT
8998306 TTTTTACTTG
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
29 11 0.23
30 7 0.15
31 2 0.04
32 3 0.06
33 12 0.26
34 12 0.26
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.29
Consensus pattern (31 bp):
AAAAAATTTAAAATAACAAAAATATTATATA
Found at i:9000094 original size:56 final size:56
Alignment explanation
Indices: 9000043--9000156 Score: 160
Period size: 56 Copynumber: 2.1 Consensus size: 56
9000033 TTAACTACTT
* *
9000043 AAAAAAAAA-TCTCATCTTGAAAAAGGCTCATT-TAGATAGAGGCTCAATAACTTTA
1 AAAAAAAAATTCTCATATTGAAAAAGGCTC-TTCTAGATAGAGGCACAATAACTTTA
* * *
9000098 AAAAAAAAATTCTTATATTGAAAAAGGCTCTTCTAGGTAGAGGCACAACAACTTTA
1 AAAAAAAAATTCTCATATTGAAAAAGGCTCTTCTAGATAGAGGCACAATAACTTTA
9000154 AAA
1 AAA
9000157 GTTCTTTATC
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
55 11 0.21
56 41 0.79
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.26
Consensus pattern (56 bp):
AAAAAAAAATTCTCATATTGAAAAAGGCTCTTCTAGATAGAGGCACAATAACTTTA
Found at i:9011478 original size:11 final size:11
Alignment explanation
Indices: 9011464--9011503 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
9011454 CTTGAAATCT
9011464 TTTTTTATTTG
1 TTTTTTATTTG
*
9011475 TTTTTTATTTA
1 TTTTTTATTTG
*
9011486 TTTTTTGATTGG
1 TTTTTT-ATTTG
9011498 TTTTTT
1 TTTTTT
9011504 TATTGAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
11 16 0.64
12 9 0.36
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.80
Consensus pattern (11 bp):
TTTTTTATTTG
Found at i:9011480 original size:12 final size:12
Alignment explanation
Indices: 9011463--9011507 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
9011453 ACTTGAAATC
9011463 TTTTTTTATTTG
1 TTTTTTTATTTG
*
9011475 -TTTTTTATTTA
1 TTTTTTTATTTG
* *
9011486 TTTTTTGATTGG
1 TTTTTTTATTTG
9011498 TTTTTTTATT
1 TTTTTTTATT
9011508 GAAAAAAAGA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 10 0.37
12 17 0.63
ACGTcount: A:0.11, C:0.00, G:0.09, T:0.80
Consensus pattern (12 bp):
TTTTTTTATTTG
Found at i:9013714 original size:2 final size:2
Alignment explanation
Indices: 9013707--9013737 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9013697 TGTAGGATTT
9013707 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
9013738 GTTTTAAGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:9018766 original size:30 final size:31
Alignment explanation
Indices: 9018732--9018805 Score: 73
Period size: 30 Copynumber: 2.4 Consensus size: 31
9018722 ATTCAATATA
9018732 TATTTATATATATTTAATAAATAA-A-ATTTT
1 TATTTATATATATTTAA-AAATAATATATTTT
* * *
9018762 TATTT-TAAATTAATTAAAATTAATATATTTT
1 TATTTATATA-TATTTAAAAATAATATATTTT
*
9018793 TATTTAAATATAT
1 TATTTATATATAT
9018806 ATATTACTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
29 8 0.24
30 12 0.35
31 12 0.35
32 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (31 bp):
TATTTATATATATTTAAAAATAATATATTTT
Found at i:9018983 original size:6 final size:6
Alignment explanation
Indices: 9018974--9019006 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
9018964 AAATACTCTT
9018974 TAAATA TAAATA TAAATA TAAATA T-AATA TAAA
1 TAAATA TAAATA TAAATA TAAATA TAAATA TAAA
9019007 ATTTTAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
TAAATA
Found at i:9019323 original size:7 final size:7
Alignment explanation
Indices: 9019311--9019337 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
9019301 CATTTCGGAC
9019311 TGAAGTT
1 TGAAGTT
9019318 TGAAGTT
1 TGAAGTT
9019325 TGAAGTT
1 TGAAGTT
9019332 TGAAGT
1 TGAAGT
9019338 CAAATAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.41
Consensus pattern (7 bp):
TGAAGTT
Found at i:9024194 original size:13 final size:13
Alignment explanation
Indices: 9024173--9024214 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
9024163 ATTAGGAAGT
*
9024173 AAATAAAAATTAA
1 AAATTAAAATTAA
9024186 AAATTAAAATT-A
1 AAATTAAAATTAA
9024198 AAATTGATAAATTAA
1 AAATT-A-AAATTAA
9024213 AA
1 AA
9024215 GATCTTCTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 6 0.24
13 11 0.44
14 5 0.20
15 3 0.12
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (13 bp):
AAATTAAAATTAA
Found at i:9027921 original size:25 final size:24
Alignment explanation
Indices: 9027868--9027922 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
9027858 TATTTTTTAC
* *
9027868 AAAAATATAAAAAAAATTAAAATA
1 AAAAATATAAAAAAAATGAAAAAA
*
9027892 CAAAATACTAAAAAAAA-GAACAAAA
1 AAAAATA-TAAAAAAAATGAA-AAAA
9027917 AAAAAT
1 AAAAAT
9027923 CGGGGATGGC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.78, C:0.05, G:0.02, T:0.15
Consensus pattern (24 bp):
AAAAATATAAAAAAAATGAAAAAA
Found at i:9028214 original size:15 final size:15
Alignment explanation
Indices: 9028194--9028222 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9028184 AATGAGAGAT
9028194 GCTGCAAAAAAAAAG
1 GCTGCAAAAAAAAAG
9028209 GCTGCAAAAAAAAA
1 GCTGCAAAAAAAAA
9028223 AAGAGCAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.14, G:0.17, T:0.07
Consensus pattern (15 bp):
GCTGCAAAAAAAAAG
Found at i:9029663 original size:14 final size:14
Alignment explanation
Indices: 9029644--9029685 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
9029634 CATTTTTAAT
*
9029644 AAAAAAGTTAAAAA
1 AAAAAAGTCAAAAA
* *
9029658 AAAAAAATCGAAAA
1 AAAAAAGTCAAAAA
9029672 AAAAAAG-CAAAAA
1 AAAAAAGTCAAAAA
9029685 A
1 A
9029686 TTCACACACA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
13 6 0.26
14 17 0.74
ACGTcount: A:0.81, C:0.05, G:0.07, T:0.07
Consensus pattern (14 bp):
AAAAAAGTCAAAAA
Found at i:9041024 original size:48 final size:48
Alignment explanation
Indices: 9040625--9041422 Score: 1002
Period size: 47 Copynumber: 16.9 Consensus size: 48
9040615 TTTCGAGAAC
* *
9040625 AGATGAAATTTTAAAGTTGTTGAGCCTCTACTGAAAGGAGC-TTTTCA
1 AGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * *
9040672 A-ATGACATTTTAAAGTTGTTGAGCCTCTGCTGATAAGAGC-TTTTCA
1 AGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
*
9040718 A-ATGAGATTTTAAAGTTGTTGAGCCTCTG-TGAGAGGAGCTTTTTCA
1 AGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * * *
9040764 AGATGAAATTTTAAAGTTGTTGAGCCTCAGCTGAAAAGAGC-TTTTCC
1 AGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* *
9040811 AGATGAGATTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGCTTTTTCA
1 AGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* *
9040859 AGA-G-AATTTTAAAGTTGTTGAGCCTCTGCTAAGAGAAGC-TTTTCA
1 AGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * * *
9040904 A-ATGAGATTTTAAAGTTGTTGAGCCTCTACTGAGACGAGC-TTTTCC
1 AGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * ** *
9040950 AGATGAGATTTTAAAGTTGTTGAGCCTTTGCTGAGACAAGCTTTTCCA
1 AGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * * *
9040998 AGATGAAATTTTAAGGTTGTTAAGCCTCTGCTGAAAGGAACTTTTTCA
1 AGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * *
9041046 AGATG-GATTTTAAAGTTGTTAAGCCTCTGTTGAGAGGAG-TTTTTCA
1 AGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * *
9041092 AGA-AAAGATTTTTAAAGTTGTTGATCCTCTGCTGAGAGGAGCTTTTCCA
1 AGATGAA-A-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* *
9041141 AGATGAAATTTTAAAGTTGTTGAGCCTCTACTGAAAGGAGCTTTTTC-
1 AGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * *
9041188 AGATGAGATTTTAAAGTTGTTTAGCCTCTACTGAGAGGAGC-TTTTCTA
1 AGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC-A
* *
9041236 AGATAAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCTTTTTC-
1 AGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * * * * *
9041283 ATATGAGATTTTAAAATTGTTTAGCCTCTGCTGTGAGGAGCTTTTCCA
1 AGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
*
9041331 AGATGAAATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTCA
1 AGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* *
9041379 AGA-GGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTT
1 AGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTT
9041423 GAACCTTCAC
Statistics
Matches: 650, Mismatches: 84, Indels: 34
0.85 0.11 0.04
Matches are distributed among these distances:
44 1 0.00
45 16 0.02
46 158 0.24
47 250 0.38
48 208 0.32
49 15 0.02
50 2 0.00
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (48 bp):
AGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
Found at i:9041055 original size:95 final size:96
Alignment explanation
Indices: 9040625--9041422 Score: 1008
Period size: 95 Copynumber: 8.5 Consensus size: 96
9040615 TTTCGAGAAC
* * * *
9040625 AGATGAAATTTTAAAGTTGTTGAGCCTCTACTGAAAGGAGC-TTTTCAA-ATGACATTTTAAAGT
1 AGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAAATTTTAAAGT
*
9040688 TGTTGAGCCTCTGCTGATA-AGAGC-TTTTCA
66 TGTTGAGCCTCTGCTGAGAGA-AGCTTTTTCA
9040718 A-ATGAGATTTTAAAGTTGTTGAGCCTCTG-TGAGAGGAGCTTTTTCAAGATGAAATTTTAAAGT
1 AGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAAATTTTAAAGT
* * *
9040781 TGTTGAGCCTCAGCTGA-AAAGAGC-TTTTCC
66 TGTTGAGCCTCTGCTGAGAGA-AGCTTTTTCA
*
9040811 AGATGAGATTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGA-G-AATTTTAAAGT
1 AGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAAATTTTAAAGT
*
9040874 TGTTGAGCCTCTGCTAAGAGAAGC-TTTTCA
66 TGTTGAGCCTCTGCTGAGAGAAGCTTTTTCA
* * * *
9040904 A-ATGAGATTTTAAAGTTGTTGAGCCTCTACTGAGACGAGC-TTTTCCAGATGAGATTTTAAAGT
1 AGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAAATTTTAAAGT
* * *
9040967 TGTTGAGCCTTTGCTGAGACAAGCTTTTCCA
66 TGTTGAGCCTCTGCTGAGAGAAGCTTTTTCA
* * * * * *
9040998 AGATGAAATTTTAAGGTTGTTAAGCCTCTGCTGAAAGGAACTTTTTCAAGATG-GATTTTAAAGT
1 AGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAAATTTTAAAGT
* * *
9041062 TGTTAAGCCTCTGTTGAGAGGAG-TTTTTCA
66 TGTTGAGCCTCTGCTGAGAGAAGCTTTTTCA
** * *
9041092 AGAAAAGATTTTTAAAGTTGTTGATCCTCTGCTGAGAGGAGCTTTTCCAAGATGAAATTTTAAAG
1 AGATGAGA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAAATTTTAAAG
* * *
9041157 TTGTTGAGCCTCTACTGAAAGGAGCTTTTTC-
65 TTGTTGAGCCTCTGCTGAGAGAAGCTTTTTCA
* * *
9041188 AGATGAGATTTTAAAGTTGTTTAGCCTCTACTGAGAGGAGC-TTTTCTAAGATAAAATTTTAAAG
1 AGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC-AAGATGAAATTTTAAAG
9041252 TTGTTGAGCCTCTGCTGAGA-AGAGCTTTTTC-
65 TTGTTGAGCCTCTGCTGAGAGA-AGCTTTTTCA
* * * * *
9041283 ATATGAGATTTTAAAATTGTTTAGCCTCTGCTGTGAGGAGCTTTTCCAAGATGAAATTTTAAAGT
1 AGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAAATTTTAAAGT
* *
9041348 TGTTGAGCCTCTACTGAGAGGAGCTTTTTCA
66 TGTTGAGCCTCTGCTGAGAGAAGCTTTTTCA
9041379 AGA-G-GATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTT
1 AGATGAGA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTT
9041423 GAACCTTCAC
Statistics
Matches: 615, Mismatches: 70, Indels: 38
0.85 0.10 0.05
Matches are distributed among these distances:
91 17 0.03
92 71 0.12
93 108 0.18
94 53 0.09
95 309 0.50
96 51 0.08
97 6 0.01
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (96 bp):
AGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAAATTTTAAAGT
TGTTGAGCCTCTGCTGAGAGAAGCTTTTTCA
Found at i:9041785 original size:25 final size:25
Alignment explanation
Indices: 9041751--9041801 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
9041741 TTATGACTTT
9041751 TTTTGAATTGTTCCC-CATGGTGGTA
1 TTTTGAATTG-TCCCTCATGGTGGTA
*
9041776 TTTTGAATTGTCCCTCATTGTGGTA
1 TTTTGAATTGTCCCTCATGGTGGTA
9041801 T
1 T
9041802 CGTGCTTGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.16, C:0.16, G:0.22, T:0.47
Consensus pattern (25 bp):
TTTTGAATTGTCCCTCATGGTGGTA
Found at i:9046913 original size:14 final size:14
Alignment explanation
Indices: 9046882--9046910 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
9046872 CTATTGACAC
9046882 TTATATTATATATT
1 TTATATTATATATT
9046896 TTAT-TTATATATT
1 TTATATTATATATT
9046909 TT
1 TT
9046911 TATCTTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTATATTATATATT
Found at i:9049454 original size:15 final size:15
Alignment explanation
Indices: 9049434--9049464 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9049424 TGCCACCGAA
9049434 TTAATATACTTCTTT
1 TTAATATACTTCTTT
*
9049449 TTAATATATTTCTTT
1 TTAATATACTTCTTT
9049464 T
1 T
9049465 GTACCAAATT
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:0.26, C:0.10, G:0.00, T:0.65
Consensus pattern (15 bp):
TTAATATACTTCTTT
Found at i:9049565 original size:11 final size:12
Alignment explanation
Indices: 9049541--9049565 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9049531 ATTTAATATT
9049541 AAAATTTATAAA
1 AAAATTTATAAA
9049553 AAAATTTATAAA
1 AAAATTTATAAA
9049565 A
1 A
9049566 TTAAAATTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATTTATAAA
Found at i:9049904 original size:2 final size:2
Alignment explanation
Indices: 9049897--9049958 Score: 79
Period size: 2 Copynumber: 31.0 Consensus size: 2
9049887 ACATACATAC
* * *
9049897 AT AT AT AT AT AT AT AC AT AT AT AT AT AC AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
9049939 TT AT AT AT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
9049959 GTATGTGTGA
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9060286 original size:161 final size:160
Alignment explanation
Indices: 9059633--9060520 Score: 839
Period size: 161 Copynumber: 5.6 Consensus size: 160
9059623 TCAAAATGCA
* * * * * * *
9059633 AATTGGATAGTTTCAATACATAATATTAAAGC-TATCTGAATGATTGAACTTAGTTTTTACGATT
1 AATTTGATAGCTTAAATACATAATACTAAA-CTTGTCTGAATGATTGAACTTGGTTTTCACGATT
* * * * * *
9059697 GATATATGAGAAAAAGTTACCGTTTACGTCTGTTT-GTGGCTTTTTGTA-CAGTTAAAAGATAAA
65 CATATGTGTGAAAAAGTTACCGTTTACGTCTGTTTAGT-ACTTTTTATATC-GTTAAAAGACAAA
9059760 AATGTAAATTT-TTAGTTATTG--CTATTTTAACC
128 AATGTAAATTTGTT-GTTATTGTTCTATTTTAA-C
* * ** **** *
9059792 AATTATG-TAGCTTAAATACATTATATTAAACTTGTCCAAATGATTGATGAAGGTTTTCACAATT
1 AATT-TGATAGCTTAAATACATAATACTAAACTTGTCTGAATGATTGAACTTGGTTTTCACGATT
* ** * * * ** * * *
9059856 GATATGCAT-AAAAACATTACCGTTTACGTTTGTTAAAAACTTTGTGT-T-GTTAAAAGGCAAAA
65 CATATGTGTGAAAAA-GTTACCGTTTACGTCTGTTTAGTACTTTTTATATCGTTAAAAGACAAAA
*
9059918 ATGTAAATTTGTTGTTATTATTCTATTTTAAC
129 ATGTAAATTTGTTGTTATTGTTCTATTTTAAC
* * * * * *
9059950 AGTTTCGATAGCTTAAATACATGATAGTAAACTTATCTGAATGATTGAACTTGGTTTCCACAATT
1 AATTT-GATAGCTTAAATACATAATACTAAACTTGTCTGAATGATTGAACTTGGTTTTCACGATT
* * * * * ** *
9060015 CATATGTGTGAAAAA-TTATCGTTTACATCTATTTAGTACTTTCTATGTTATTAAAAGGCAAAAA
65 CATATGTGTGAAAAAGTTACCGTTTACGTCTGTTTAGTACTTTTTATATCGTTAAAAGACAAAAA
*
9060079 TGTAAATTTGCTGTTATTGTTCTATTTTAAC
130 TGTAAATTTGTTGTTATTGTTCTATTTTAAC
* * *
9060110 AATTTTGATAGCTTAAATATATAATACTAAACTTAT-TCGAATGATTGAACTTGGTTTTCATGAT
1 AA-TTTGATAGCTTAAATACATAATACTAAACTTGTCT-GAATGATTGAACTTGGTTTTCACGAT
* * * *
9060174 TCATATTTGTGAAAGAGTTACCATTTACGTCTGTTTAGTACTTTTTATATCGTTAAAAGATAAAA
64 TCATATGTGTGAAAAAGTTACCGTTTACGTCTGTTTAGTACTTTTTATATCGTTAAAAGACAAAA
* *
9060239 ATATAAATTTATTGTTATTGTTCTATTTTAAC
129 ATGTAAATTTGTTGTTATTGTTCTATTTTAAC
* * * * *
9060271 AGTTTCGATAGCTTAAATACATGATACTAAACTTGTCTGAATGATTGAACTTGATTTCCATGATT
1 AATTT-GATAGCTTAAATACATAATACTAAACTTGTCTGAATGATTGAACTTGGTTTTCACGATT
* * * * * * *
9060336 CATATGTGTGAAAAAGTTATCGTTTACATCTATTTAGTGCTTTTTATGTCATTAAAAGACAAAAT
65 CATATGTGTGAAAAAGTTACCGTTTACGTCTGTTTAGTACTTTTTATATCGTTAAAAGACAAAAA
* * * *
9060401 TGCAAAATTGCTATTATTGTTCTATTTTAAC
130 TGTAAATTTGTTGTTATTGTTCTATTTTAAC
* * * * * *
9060432 AATTTGATAGCTTAAATATATAATATTAAACTTGTCTGAATAATTGAATTTAGTTTTCA-TAGTT
1 AATTTGATAGCTTAAATACATAATACTAAACTTGTCTGAATGATTGAACTTGGTTTTCACGA-TT
* *
9060496 CATATGTGTGAAAAAATTATCGTTT
65 CATATGTGTGAAAAAGTTACCGTTT
9060521 TACATTTATT
Statistics
Matches: 600, Mismatches: 110, Indels: 37
0.80 0.15 0.05
Matches are distributed among these distances:
157 29 0.05
158 35 0.06
159 140 0.23
160 189 0.31
161 206 0.34
162 1 0.00
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (160 bp):
AATTTGATAGCTTAAATACATAATACTAAACTTGTCTGAATGATTGAACTTGGTTTTCACGATTC
ATATGTGTGAAAAAGTTACCGTTTACGTCTGTTTAGTACTTTTTATATCGTTAAAAGACAAAAAT
GTAAATTTGTTGTTATTGTTCTATTTTAAC
Found at i:9060287 original size:321 final size:320
Alignment explanation
Indices: 9059904--9061032 Score: 1142
Period size: 321 Copynumber: 3.4 Consensus size: 320
9059894 ACTTTGTGTT
* * *
9059904 GTTAAAAGGCAAAAATGTAAATTTGTTGTTATTATTCTATTTTAACAGTTTCGATAGCTTAAATA
1 GTTAAAAGACAAAAATGTAAATTTATTGTTATTGTTCTATTTTAACAGTTTCGATAGCTTAAATA
* *
9059969 CATGATAGTAAACTTATCTGAATGATTGAACTTGGTTTCCACAATTCATATGTGTGAAAAATTAT
66 CATGATACTAAACTTATCTGAATGATTGAACTTGGTTTCCATAATTCATATGTGTGAAAAATTAT
* * * * *
9060034 CGTTTACATCTATTTAGTACTTTCTATGTTATTAAAAGGCAAAAATGTAAATTTGCTGTTATTGT
131 CGTTTACATCTATTTAGTGCTTTTTATGTCATTAAAAGGCAAAAATGCAAATTTGCTATTATTGT
* *
9060099 TCTATTTTAACAATTTTGATAGCTTAAATATATAATACTAAACTTATTCGAATGATTGAACTTGG
196 TCTATTTTAACAATTTTGATAGCTTAAATATATAATATTAAACTT-TTCGAATAATTGAACTTGG
* * * * **
9060164 TTTTCAT-GATTCATATTTGTGAAAGAGTTACCATTTACGTCTGTTTAGTACTTTTTATATC
260 TTTTCATAG-TTCATATGTGTGAAAAAGTTACCATTTACATCTGTTTAGTGCTTTTTATGCC
* *
9060225 GTTAAAAGATAAAAATATAAATTTATTGTTATTGTTCTATTTTAACAGTTTCGATAGCTTAAATA
1 GTTAAAAGACAAAAATGTAAATTTATTGTTATTGTTCTATTTTAACAGTTTCGATAGCTTAAATA
* * *
9060290 CATGATACTAAACTTGTCTGAATGATTGAACTTGATTTCCATGATTCATATGTGTGAAAAAGTTA
66 CATGATACTAAACTTATCTGAATGATTGAACTTGGTTTCCATAATTCATATGTGTGAAAAA-TTA
* * *
9060355 TCGTTTACATCTATTTAGTGCTTTTTATGTCATTAAAAGACAAAATTGCAAAATTGCTATTATTG
130 TCGTTTACATCTATTTAGTGCTTTTTATGTCATTAAAAGGCAAAAATGCAAATTTGCTATTATTG
* * *
9060420 TTCTATTTTAACAA-TTTGATAGCTTAAATATATAATATTAAACTTGTCTGAATAATTGAATTTA
195 TTCTATTTTAACAATTTTGATAGCTTAAATATATAATATTAAACTTTTC-GAATAATTGAACTTG
* ** * * * *
9060484 GTTTTCATAGTTCATATGTGTGAAAAAATTATCGTTTTACATTTATTTAATGCATTTTATGCC
259 GTTTTCATAGTTCATATGTGTGAAAAAGTTA-CCATTTACATCTGTTTAGTGCTTTTTATGCC
*
9060547 GTTAAAA-AGTAAAAATGTAAATTTGCTATTTTTGTT-TTGTTTGCTGTTATTATTATGTTTTAA
1 GTTAAAAGA-CAAAAATGTAAA-TT--TA---TTGTTATTG-TT-C---------TA--TTTTAA
* ** * *
9060610 CAATTTTAATAGCTTAAATACTTGATACTAAACTCGT-TC-GAATGATTGAACTTGGTTTTCATA
46 CAGTTTCGATAGCTTAAATACATGATACTAAACT--TATCTGAATGATTGAACTTGGTTTCCATA
* * * *
9060673 GTTTATATGTGTGAAAAAAATTATCGTTTACATCTATTTAGTGCTTTTTACGTCATTAAAAGGTA
109 ATTCATATGTGTG--AAAAATTATCGTTTACATCTATTTAGTGCTTTTTATGTCATTAAAAGGCA
* *
9060738 AAAATACAAATTTGCTATTATTGTT-TAATTTTAACAGTTTTGATAGCTTACAGTTTTAATAGCT
172 AAAATGCAAATTTGCTATTATTGTTCT-ATTTTAACAATTTTGATAGCTT--A-----AATA---
* * *
9060802 TAAATACATGATATTAAACTTGTTCGAATTATTGAACTTGGTTTTTATAGTTTATATGTGTGAAA
226 T--AT--A--ATATTAAACTT-TTCGAATAATTGAACTTGGTTTTCATAGTTCATATGTGTGAAA
* * *
9060867 AAGTTACCGTTTATATCTGTTTAGTGCTTTTTGTGCC
284 AAGTTACCATTTACATCTGTTTAGTGCTTTTTATGCC
* * ** * * * * *
9060904 ATTAAAAGGCAAAAATGTAAATTTGCTATTATTGTTTTGTTTTAACAGTTTTGATAACTTAAATA
1 GTTAAAAGACAAAAATGTAAATTTATTGTTATTGTTCTATTTTAACAGTTTCGATAGCTTAAATA
* * * * **
9060969 CATGATACTAACCTTAT-TCGAATGATTAAACTTAGTTTTCATGGTTCATATGTGTG-AAAATTA
66 CATGATACTAAACTTATCT-GAATGATTGAACTTGGTTTCCATAATTCATATGTGTGAAAAATTA
9061032 T
130 T
9061033 GCTGTTTAAA
Statistics
Matches: 671, Mismatches: 85, Indels: 89
0.79 0.10 0.11
Matches are distributed among these distances:
320 2 0.00
321 185 0.28
322 114 0.17
323 2 0.00
325 2 0.00
327 3 0.00
328 7 0.01
329 1 0.00
336 8 0.01
337 1 0.00
338 3 0.00
339 68 0.10
340 69 0.10
341 76 0.11
342 17 0.03
344 1 0.00
349 4 0.01
351 5 0.01
352 4 0.01
354 3 0.00
356 3 0.00
357 40 0.06
358 51 0.08
359 2 0.00
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (320 bp):
GTTAAAAGACAAAAATGTAAATTTATTGTTATTGTTCTATTTTAACAGTTTCGATAGCTTAAATA
CATGATACTAAACTTATCTGAATGATTGAACTTGGTTTCCATAATTCATATGTGTGAAAAATTAT
CGTTTACATCTATTTAGTGCTTTTTATGTCATTAAAAGGCAAAAATGCAAATTTGCTATTATTGT
TCTATTTTAACAATTTTGATAGCTTAAATATATAATATTAAACTTTTCGAATAATTGAACTTGGT
TTTCATAGTTCATATGTGTGAAAAAGTTACCATTTACATCTGTTTAGTGCTTTTTATGCC
Found at i:9060525 original size:161 final size:160
Alignment explanation
Indices: 9059905--9061028 Score: 957
Period size: 161 Copynumber: 6.8 Consensus size: 160
9059895 CTTTGTGTTG
* * * * *
9059905 TTAAAAGGCAAAAATGTAAATTTGTTGTTATTATTCTATTTTAACAGTTTCGATAGCTTAAATAC
1 TTAAAAGGCAAAAATGTAAATTTGCTATTATTGTTCTATTTTAACAATTT-GATAGCTTAAATAT
* * * * *
9059970 ATGATAGTAAACTT-ATCTGAATGATTGAACTTGGTTTCCACAATTCATATGTGTG-AAAAATTA
65 ATGATACTAAACTTGTTC-GAATGATTGAACTTGGTTTTCATAGTTCATATGTGTGAAAAAATTA
* * *
9060033 TCGTTTACATCTATTTAGTACTTTCTATGTTA
129 TCGTTTACATCTATTTAGTGCTTTTTATGTCA
*
9060065 TTAAAAGGCAAAAATGTAAATTTGCTGTTATTGTTCTATTTTAACAATTTTGATAGCTTAAATAT
1 TTAAAAGGCAAAAATGTAAATTTGCTATTATTGTTCTATTTTAACAA-TTTGATAGCTTAAATAT
* * * * *
9060130 ATAATACTAAACTTATTCGAATGATTGAACTTGGTTTTCAT-GATTCATATTTGTGAAAGAGTTA
65 ATGATACTAAACTTGTTCGAATGATTGAACTTGGTTTTCATAG-TTCATATGTGTGAAAAAATTA
* * * * * * *
9060194 CCATTTACGTCTGTTTAGTACTTTTTATATCG
129 TCGTTTACATCTATTTAGTGCTTTTTATGTCA
** * ** * * *
9060226 TTAAAAGATAAAAATATAAATTTATTGTTATTGTTCTATTTTAACAGTTTCGATAGCTTAAATAC
1 TTAAAAGGCAAAAATGTAAATTTGCTATTATTGTTCTATTTTAACAATTT-GATAGCTTAAATAT
* * *
9060291 ATGATACTAAACTTG-TCTGAATGATTGAACTTGATTTCCAT-GATTCATATGTGTGAAAAAGTT
65 ATGATACTAAACTTGTTC-GAATGATTGAACTTGGTTTTCATAG-TTCATATGTGTGAAAAAATT
9060354 ATCGTTTACATCTATTTAGTGCTTTTTATGTCA
128 ATCGTTTACATCTATTTAGTGCTTTTTATGTCA
* * * *
9060387 TTAAAAGACAAAATTGCAAAATTGCTATTATTGTTCTATTTTAACAATTTGATAGCTTAAATATA
1 TTAAAAGGCAAAAATGTAAATTTGCTATTATTGTTCTATTTTAACAATTTGATAGCTTAAATATA
* * * * *
9060452 TAATATTAAACTTG-TCTGAATAATTGAATTTAGTTTTCATAGTTCATATGTGTGAAAAAATTAT
66 TGATACTAAACTTGTTC-GAATGATTGAACTTGGTTTTCATAGTTCATATGTGTGAAAAAATTAT
* * * * *
9060516 CGTTTTACATTTATTTAATGCATTTTATGCCG
130 CG-TTTACATCTATTTAGTGCTTTTTATGTCA
* * * * * * ** * *
9060548 TTAAAAAGTAAAAATGTAAATTTGCTATTTTTGTTTTGTTTGCTGTTATTATTATGTTTTAACAA
1 TTAAAAGGCAAAAATGTAAATTTGCTATTATTGTTCT-ATT--T-TAACAATT-TG--ATAGC--
** * *
9060613 TTTTAATAGCTTAAATACTTGATACTAAACTCGTTCGAATGATTGAACTTGGTTTTCATAGTTTA
57 --TTAA-A---T--ATA-TGA-TACTAAACTTGTTCGAATGATTGAACTTGGTTTTCATAGTTCA
*
9060678 TATGTGTGAAAAAAATTATCGTTTACATCTATTTAGTGCTTTTTACGTCA
112 TATGTGTG-AAAAAATTATCGTTTACATCTATTTAGTGCTTTTTATGTCA
* **
9060728 TTAAAAGGTAAAAATACAAATTTGCTATTATTGTT-TAATTTTAACAGTTTTGATAGCTTACAGT
1 TTAAAAGGCAAAAATGTAAATTTGCTATTATTGTTCT-ATTTTAACA------AT---TT---G-
* * * * *
9060792 TTTAATAGCTTAAATACATGATATTAAACTTGTTCGAATTATTGAACTTGGTTTTTATAGTTTAT
52 ----ATAGCTTAAATATATGATACTAAACTTGTTCGAATGATTGAACTTGGTTTTCATAGTTCAT
* * * * * *
9060857 ATGTGTGAAAAAGTTACCGTTTATATCTGTTTAGTGCTTTTTGTGCCA
113 ATGTGTGAAAAAATTATCGTTTACATCTATTTAGTGCTTTTTATGTCA
* * * * *
9060905 TTAAAAGGCAAAAATGTAAATTTGCTATTATTGTTTTGTTTTAACAGTTTTGATAACTTAAATAC
1 TTAAAAGGCAAAAATGTAAATTTGCTATTATTGTTCTATTTTAACA-ATTTGATAGCTTAAATAT
* * * * *
9060970 ATGATACTAACCTTATTCGAATGATTAAACTTAGTTTTCATGGTTCATATGTGTGAAAA
65 ATGATACTAAACTTGTTCGAATGATTGAACTTGGTTTTCATAGTTCATATGTGTGAAAA
9061029 TTATGCTGTT
Statistics
Matches: 786, Mismatches: 133, Indels: 89
0.78 0.13 0.09
Matches are distributed among these distances:
160 176 0.22
161 326 0.41
162 2 0.00
164 1 0.00
165 5 0.01
166 3 0.00
168 3 0.00
169 2 0.00
172 6 0.01
173 1 0.00
176 3 0.00
177 75 0.10
178 51 0.06
179 5 0.01
180 98 0.12
181 14 0.02
182 3 0.00
184 1 0.00
185 2 0.00
186 4 0.01
187 1 0.00
190 4 0.01
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (160 bp):
TTAAAAGGCAAAAATGTAAATTTGCTATTATTGTTCTATTTTAACAATTTGATAGCTTAAATATA
TGATACTAAACTTGTTCGAATGATTGAACTTGGTTTTCATAGTTCATATGTGTGAAAAAATTATC
GTTTACATCTATTTAGTGCTTTTTATGTCA
Found at i:9060741 original size:180 final size:178
Alignment explanation
Indices: 9060425--9060959 Score: 645
Period size: 180 Copynumber: 3.0 Consensus size: 178
9060415 TATTGTTCTA
* * * *
9060425 TTTTAACAA-TTTGATAGCTTAAATA-TATAATATTAAACTTG-TCTGAATAATTGAATTTAGTT
1 TTTTAACAATTTTAATAGCTTAAATACT-TGATATTAAACTTGTTC-GAATAATTGAACTTGGTT
* * * * *
9060487 TTCATAGTTCATATGTGTGAAAAAATTATCGTTTTACATTTATTTAATGCATTTTATGCCGTTAA
64 TTCATAGTTTATATGTGTGAAAAAATTATCG-TTTACATCTATTTAGTGCTTTTTATGCCATTAA
* * * *
9060552 AAAGTAAAAATGTAAATTTGCTATTTTTGTTTTGTTT-GCTGTTATT-ATTATG
128 AAGGTAAAAATGTAAATTTGCTATTATTGTTTTGTTTAACAGTT-TTGA-TA-G
* * *
9060604 TTTTAACAATTTTAATAGCTTAAATACTTGATACTAAACTCGTTCGAATGATTGAACTTGGTTTT
1 TTTTAACAATTTTAATAGCTTAAATACTTGATATTAAACTTGTTCGAATAATTGAACTTGGTTTT
* *
9060669 CATAGTTTATATGTGTGAAAAAAATTATCGTTTACATCTATTTAGTGCTTTTTACGTCATTAAAA
66 CATAGTTTATATGTGTG-AAAAAATTATCGTTTACATCTATTTAGTGCTTTTTATGCCATTAAAA
**
9060734 GGTAAAAATACAAATTTGCTATTATTGTTTAAT-TTTAACAGTTTTGATAG
130 GGTAAAAATGTAAATTTGCTATTATTGTTT--TGTTTAACAGTTTTGATAG
* * * *
9060784 -CTT-ACAGTTTTAATAGCTTAAATACATGATATTAAACTTGTTCGAATTATTGAACTTGGTTTT
1 TTTTAACAATTTTAATAGCTTAAATACTTGATATTAAACTTGTTCGAATAATTGAACTTGGTTTT
* * * * * *
9060847 TATAGTTTATATGTGTGAAAAAGTTACCGTTTATATCTGTTTAGTGCTTTTTGTGCCATTAAAAG
66 CATAGTTTATATGTGTGAAAAAATTATCGTTTACATCTATTTAGTGCTTTTTATGCCATTAAAAG
*
9060912 GCAAAAATGTAAATTTGCTATTATTGTTTTGTTTTAACAGTTTTGATA
131 GTAAAAATGTAAATTTGCTATTATTGTTTTG-TTTAACAGTTTTGATA
9060960 ACTTAAATAC
Statistics
Matches: 309, Mismatches: 37, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
175 1 0.00
177 83 0.27
178 71 0.23
179 11 0.04
180 115 0.37
181 22 0.07
182 6 0.02
ACGTcount: A:0.32, C:0.09, G:0.13, T:0.45
Consensus pattern (178 bp):
TTTTAACAATTTTAATAGCTTAAATACTTGATATTAAACTTGTTCGAATAATTGAACTTGGTTTT
CATAGTTTATATGTGTGAAAAAATTATCGTTTACATCTATTTAGTGCTTTTTATGCCATTAAAAG
GTAAAAATGTAAATTTGCTATTATTGTTTTGTTTAACAGTTTTGATAG
Found at i:9060792 original size:16 final size:16
Alignment explanation
Indices: 9060771--9060803 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
9060761 TTTAATTTTA
*
9060771 ACAGTTTTGATAGCTT
1 ACAGTTTTAATAGCTT
9060787 ACAGTTTTAATAGCTT
1 ACAGTTTTAATAGCTT
9060803 A
1 A
9060804 AATACATGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.42
Consensus pattern (16 bp):
ACAGTTTTAATAGCTT
Found at i:9065169 original size:20 final size:19
Alignment explanation
Indices: 9065133--9065171 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
9065123 TTATTTTTTA
*
9065133 TTTATTTTACATCAAAATT
1 TTTATTTTACATAAAAATT
*
9065152 TTTATTTTTATATAAAAATT
1 TTTA-TTTTACATAAAAATT
9065172 ATTAGTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTATTTTACATAAAAATT
Found at i:9066374 original size:2 final size:2
Alignment explanation
Indices: 9066367--9066415 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
9066357 TGATCATCCT
9066367 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
9066409 TC TC TC T
1 TC TC TC T
9066416 TCACTTTTGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:9068037 original size:2 final size:2
Alignment explanation
Indices: 9068030--9068058 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9068020 GGCCGGTTTT
9068030 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
9068059 GCATAAGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Done.