Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167938.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_20, 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: 19866354
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 74000 characters in sequence are not A, C, G, or T
File 46 of 100
Found at i:11533609 original size:35 final size:36
Alignment explanation
Indices: 11533570--11533638 Score: 86
Period size: 35 Copynumber: 1.9 Consensus size: 36
11533560 TTTTTTAAAA
* * *
11533570 AAATTTTTTATTGTATATTTATTGAG-TTTATTGTT
1 AAATTTATTATTATAGATTTATTGAGATTTATTGTT
* *
11533605 AAATTTATTGTTATAGATTTGTTGAGATTTATTG
1 AAATTTATTATTATAGATTTATTGAGATTTATTG
11533639 GATTTTTTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
35 21 0.75
36 7 0.25
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.58
Consensus pattern (36 bp):
AAATTTATTATTATAGATTTATTGAGATTTATTGTT
Found at i:11533703 original size:10 final size:10
Alignment explanation
Indices: 11533690--11533736 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
11533680 CTTTTAGTTA
11533690 ATTTTTGTTG
1 ATTTTTGTTG
11533700 ATTTTTTGTTG
1 A-TTTTTGTTG
* * *
11533711 AGTATTGTTA
1 ATTTTTGTTG
11533721 ATTTTTGTTG
1 ATTTTTGTTG
11533731 ATTTTT
1 ATTTTT
11533737 TTTTAGTATT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
10 20 0.67
11 10 0.33
ACGTcount: A:0.15, C:0.00, G:0.17, T:0.68
Consensus pattern (10 bp):
ATTTTTGTTG
Found at i:11533705 original size:11 final size:11
Alignment explanation
Indices: 11533691--11533737 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
11533681 TTTTAGTTAA
11533691 TTTTTGTTGAT
1 TTTTTGTTGAT
11533702 TTTTTGTTGA-
1 TTTTTGTTGAT
* * *
11533712 GTATTGTT-AA
1 TTTTTGTTGAT
11533722 TTTTTGTTGAT
1 TTTTTGTTGAT
11533733 TTTTT
1 TTTTT
11533738 TTTAGTATTG
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
9 1 0.03
10 12 0.41
11 16 0.55
ACGTcount: A:0.13, C:0.00, G:0.17, T:0.70
Consensus pattern (11 bp):
TTTTTGTTGAT
Found at i:11533745 original size:30 final size:31
Alignment explanation
Indices: 11533686--11533800 Score: 124
Period size: 31 Copynumber: 3.7 Consensus size: 31
11533676 TAAACTTTTA
11533686 GTTAATTTTTGTTGATTTTTTGTTGAGTATT
1 GTTAATTTTTGTTGATTTTTTGTTGAGTATT
*
11533717 GTTAATTTTTGTTGATTTTTT-TTTAGTATT
1 GTTAATTTTTGTTGATTTTTTGTTGAGTATT
* * **
11533747 GTTGAGTTTTTTTTTTTTTATTTGTTGAGTATT
1 GTT-AATTTTTGTTGATTT-TTTGTTGAGTATT
* ** *
11533780 GTTGAGATTTGTTGGTTTTTT
1 GTTAATTTTTGTTGATTTTTT
11533801 TATAGATTTA
Statistics
Matches: 68, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
30 11 0.16
31 35 0.51
32 11 0.16
33 11 0.16
ACGTcount: A:0.14, C:0.00, G:0.19, T:0.67
Consensus pattern (31 bp):
GTTAATTTTTGTTGATTTTTTGTTGAGTATT
Found at i:11533762 original size:23 final size:23
Alignment explanation
Indices: 11533724--11533776 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
11533714 ATTGTTAATT
*
11533724 TTTGTTGA--TTTTTTTTTAGTA
1 TTTGTTGAGTTTTTTTTTTTGTA
*
11533745 -TTGTTGAGTTTTTTTTTTTTTA
1 TTTGTTGAGTTTTTTTTTTTGTA
11533767 TTTGTTGAGT
1 TTTGTTGAGT
11533777 ATTGTTGAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 7 0.26
22 11 0.41
23 9 0.33
ACGTcount: A:0.11, C:0.00, G:0.17, T:0.72
Consensus pattern (23 bp):
TTTGTTGAGTTTTTTTTTTTGTA
Found at i:11534005 original size:23 final size:23
Alignment explanation
Indices: 11533970--11534030 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 23
11533960 ATTTGATGTT
* * * *
11533970 AAATTTGTGTTTGATGTGGAATA
1 AAATTTATATTTGATGTGAAAAA
* * *
11533993 AGATTTATATTTGTTTTGAAAAA
1 AAATTTATATTTGATGTGAAAAA
11534016 AAATTTATATTTGAT
1 AAATTTATATTTGAT
11534031 TTTTAAAATT
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (23 bp):
AAATTTATATTTGATGTGAAAAA
Found at i:11534063 original size:24 final size:24
Alignment explanation
Indices: 11533995--11534068 Score: 96
Period size: 24 Copynumber: 3.1 Consensus size: 24
11533985 GTGGAATAAG
* ***
11533995 ATTTATATTT-GTTTTGAAAAAAA
1 ATTTATATTTGGTTTTTAAAATTT
*
11534018 ATTTATATTTGATTTTTAAAATTT
1 ATTTATATTTGGTTTTTAAAATTT
11534042 ATTTATATTTGGTTTTTAAAATTT
1 ATTTATATTTGGTTTTTAAAATTT
11534066 ATT
1 ATT
11534069 AATAATTATT
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
23 10 0.23
24 34 0.77
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (24 bp):
ATTTATATTTGGTTTTTAAAATTT
Found at i:11536762 original size:19 final size:19
Alignment explanation
Indices: 11536722--11536765 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
11536712 AAAGTTACCG
* *
11536722 AAAAATTCAATCGACATCA
1 AAAAATTCAATCGAAAACA
*
11536741 AAAAATTCAA-CGAAAACT
1 AAAAATTCAATCGAAAACA
11536759 AAAAATT
1 AAAAATT
11536766 TTTTAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.59, C:0.16, G:0.05, T:0.20
Consensus pattern (19 bp):
AAAAATTCAATCGAAAACA
Found at i:11537226 original size:6 final size:6
Alignment explanation
Indices: 11537185--11537260 Score: 70
Period size: 6 Copynumber: 13.0 Consensus size: 6
11537175 TCCTATTATC
* * * *
11537185 TAAAAA TAAAACA -AATAA TAATAAA -AAAAT TCAAAA TAAAAA TCAAAA
1 TAAAAA TAAAA-A TAAAAA TAA-AAA TAAAAA TAAAAA TAAAAA TAAAAA
11537233 TAAAAA T-AAAA T-AAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
11537261 AAACAGTTGG
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
5 13 0.23
6 41 0.72
7 3 0.05
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (6 bp):
TAAAAA
Found at i:11537568 original size:12 final size:12
Alignment explanation
Indices: 11537553--11537626 Score: 51
Period size: 13 Copynumber: 5.8 Consensus size: 12
11537543 TAATTATTTT
11537553 AAAAATAAATTA
1 AAAAATAAATTA
* *
11537565 AAAACTAAAATA
1 AAAAATAAATTA
11537577 AAATAATAAAAATT-
1 AAA-AAT--AAATTA
*
11537591 ATAAATAAATATA
1 AAAAATAAAT-TA
**
11537604 TTAAATATAATTA
1 AAAAATA-AATTA
11537617 AAAAATAAAT
1 AAAAATAAAT
11537627 ATTACTGATA
Statistics
Matches: 48, Mismatches: 8, Indels: 12
0.71 0.12 0.18
Matches are distributed among these distances:
11 4 0.08
12 17 0.35
13 18 0.38
14 5 0.10
15 4 0.08
ACGTcount: A:0.70, C:0.01, G:0.00, T:0.28
Consensus pattern (12 bp):
AAAAATAAATTA
Found at i:11537581 original size:22 final size:23
Alignment explanation
Indices: 11537554--11537608 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 23
11537544 AATTATTTTA
11537554 AAAATAAATTAAAAACTA-AAAT
1 AAAATAAATTAAAAACTATAAAT
*
11537576 AAAAT-AA-TAAAAATTATAAAT
1 AAAATAAATTAAAAACTATAAAT
*
11537597 -AAATATATTAAA
1 AAAATAAATTAAA
11537609 TATAATTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
20 12 0.43
21 7 0.25
22 9 0.32
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (23 bp):
AAAATAAATTAAAAACTATAAAT
Found at i:11539400 original size:16 final size:19
Alignment explanation
Indices: 11539379--11539425 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
11539369 TACAAGTATC
11539379 AATTTAAAAA-AT-T-TTT
1 AATTTAAAAATATATATTT
11539395 AATTTAAATAATATATATTT
1 AATTTAAA-AATATATATTT
11539415 AATTTAAAAAT
1 AATTTAAAAAT
11539426 CATTTATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 8 0.30
17 2 0.07
18 2 0.07
19 4 0.15
20 11 0.41
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AATTTAAAAATATATATTT
Found at i:11544423 original size:3 final size:3
Alignment explanation
Indices: 11544415--11544442 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
11544405 CAGTGCTATG
11544415 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
11544443 GTGTCATTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:11545326 original size:25 final size:24
Alignment explanation
Indices: 11545298--11545362 Score: 78
Period size: 25 Copynumber: 2.7 Consensus size: 24
11545288 TAGTTTACTT
*
11545298 AATAAATAAATATATTTATTAATTA
1 AATAAATAAATATATTTATT-ATAA
* *
11545323 AATAATTTAATTATATTTATTATAA
1 AATAA-ATAAATATATTTATTATAA
11545348 AATAAATAAA-ATATT
1 AATAAATAAATATATT
11545363 ACTATATTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
23 5 0.15
24 3 0.09
25 13 0.38
26 13 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
AATAAATAAATATATTTATTATAA
Found at i:11546082 original size:9 final size:9
Alignment explanation
Indices: 11546068--11546098 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
11546058 TATAATTGAT
11546068 AAAAAATTA
1 AAAAAATTA
11546077 AAAAAATTA
1 AAAAAATTA
11546086 AAAAAGATTA
1 AAAAA-ATTA
11546096 AAA
1 AAA
11546099 GAAGTATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 14 0.67
10 7 0.33
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (9 bp):
AAAAAATTA
Found at i:11554708 original size:24 final size:25
Alignment explanation
Indices: 11554676--11554731 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 25
11554666 CATGAGAAAT
* *
11554676 TAAAATATTTAAAATATATA-ATAA
1 TAAAATATTAAAAATATAAAGATAA
*
11554700 TAAATTATTAAAAATATAAAGATAA
1 TAAAATATTAAAAATATAAAGATAA
11554725 TAAAATA
1 TAAAATA
11554732 ATTTTTATTC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 17 0.63
25 10 0.37
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (25 bp):
TAAAATATTAAAAATATAAAGATAA
Found at i:11554825 original size:21 final size:21
Alignment explanation
Indices: 11554784--11554828 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
11554774 AAGTTTTTTA
** *
11554784 TTTAAATTAAAATTTTTAATT
1 TTTAAATTAAAAAGTTAAATT
11554805 TTTAAATTAAAAAGTTAAATT
1 TTTAAATTAAAAAGTTAAATT
11554826 TTT
1 TTT
11554829 GGAAATAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
TTTAAATTAAAAAGTTAAATT
Found at i:11554964 original size:11 final size:11
Alignment explanation
Indices: 11554932--11554982 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
11554922 TAATAGATCG
*
11554932 AATTTGAATT-
1 AATTTAAATTA
*
11554942 AATATAATATTA
1 AATTTAA-ATTA
11554954 AATTTAAATTA
1 AATTTAAATTA
* *
11554965 AATTTGATTTA
1 AATTTAAATTA
11554976 AATTTAA
1 AATTTAA
11554983 TCAAAATTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
10 5 0.15
11 22 0.67
12 6 0.18
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (11 bp):
AATTTAAATTA
Found at i:11554989 original size:22 final size:21
Alignment explanation
Indices: 11554951--11554995 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
11554941 TAATATAATA
*
11554951 TTAAATTTAAATTAAATTTGAT
1 TTAAATTTAAATAAAATTT-AT
11554973 TTAAATTT-AATCAAAATTTAT
1 TTAAATTTAAAT-AAAATTTAT
11554994 TT
1 TT
11554996 TTTTAATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
TTAAATTTAAATAAAATTTAT
Found at i:11555483 original size:31 final size:33
Alignment explanation
Indices: 11555446--11555517 Score: 85
Period size: 35 Copynumber: 2.2 Consensus size: 33
11555436 GTTGGTAAAT
11555446 ATCATTT-A-TCGAGGTTATAGTCAGTAAATAC
1 ATCATTTAACTCGAGGTTATAGTCAGTAAATAC
* *
11555477 ATCATTTACACCTCTAGGTTATAGTCGGTAAATAC
1 ATCATTTA-A-CTCGAGGTTATAGTCAGTAAATAC
*
11555512 TTCATT
1 ATCATT
11555518 AGATTTTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 7 0.21
33 1 0.03
35 26 0.76
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.38
Consensus pattern (33 bp):
ATCATTTAACTCGAGGTTATAGTCAGTAAATAC
Found at i:11555983 original size:16 final size:16
Alignment explanation
Indices: 11555962--11555995 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11555952 TTTTTATATC
11555962 AATTTTATGTATTGAA
1 AATTTTATGTATTGAA
* *
11555978 AATTTTATTTTTTGAA
1 AATTTTATGTATTGAA
11555994 AA
1 AA
11555996 AAATTTCTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (16 bp):
AATTTTATGTATTGAA
Found at i:11556575 original size:16 final size:16
Alignment explanation
Indices: 11556554--11556584 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11556544 CAAATTTAAT
11556554 GAATTTAACTATTTAC
1 GAATTTAACTATTTAC
*
11556570 GAATTTAATTATTTA
1 GAATTTAACTATTTA
11556585 TAAATTTATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (16 bp):
GAATTTAACTATTTAC
Found at i:11558070 original size:27 final size:27
Alignment explanation
Indices: 11558037--11558098 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
11558027 TTACGCGAGT
* *
11558037 TTAATTATTTAATTAA-ATTATAATTTA
1 TTAATTATTTAATTAATAATATAA-TAA
*
11558064 TTAATTATTTATTTAATAATATAATAA
1 TTAATTATTTAATTAATAATATAATAA
11558091 TTAATTAT
1 TTAATTAT
11558099 ATACATATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 25 0.81
28 6 0.19
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (27 bp):
TTAATTATTTAATTAATAATATAATAA
Found at i:11562622 original size:56 final size:56
Alignment explanation
Indices: 11562536--11562645 Score: 148
Period size: 56 Copynumber: 2.0 Consensus size: 56
11562526 GGTACAATTT
* * * *
11562536 ATGCTATTTAATTCAATCGATCTAGTATTCCTTCAACCGGATTTAAAAAAGTAATA
1 ATGCTACTTAATTCAATCGATCTAGTATTCCGTCAACAGCATTTAAAAAAGTAATA
* * * *
11562592 ATGCTACTTAATTCGATCGGTGTAGTATTCCGTCAACAGCATTTCAAAAAGTAA
1 ATGCTACTTAATTCAATCGATCTAGTATTCCGTCAACAGCATTTAAAAAAGTAA
11562646 GACATTCTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
56 46 1.00
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (56 bp):
ATGCTACTTAATTCAATCGATCTAGTATTCCGTCAACAGCATTTAAAAAAGTAATA
Found at i:11571695 original size:27 final size:27
Alignment explanation
Indices: 11571676--11571733 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
11571666 TATGTATCTG
*
11571676 GAAATCAGAATGGCAATTATAATGGGT
1 GAAATCAGAATGGCAATTATAATCGGT
*
11571703 GAAATCAGAATGGCAATTATAATGGGT
1 GAAATCAGAATGGCAATTATAATCGGT
11571730 GAAA
1 GAAA
11571734 GTATTTAAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.43, C:0.07, G:0.26, T:0.24
Consensus pattern (27 bp):
GAAATCAGAATGGCAATTATAATCGGT
Found at i:11571945 original size:22 final size:22
Alignment explanation
Indices: 11571919--11571961 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
11571909 TTTATATTTA
11571919 TATTTGTAT-CTCTAGAATTAAG
1 TATTTGTATCCT-TAGAATTAAG
*
11571941 TATTTTTATCCTTAGAATTAA
1 TATTTGTATCCTTAGAATTAA
11571962 AGACAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.49
Consensus pattern (22 bp):
TATTTGTATCCTTAGAATTAAG
Found at i:11573230 original size:57 final size:57
Alignment explanation
Indices: 11573142--11573258 Score: 225
Period size: 57 Copynumber: 2.1 Consensus size: 57
11573132 AAGCATGGAC
*
11573142 GTGTGTTTTTTCCAATTAGCAATAAAAAAAGTTCTACTCCTTTTTACTTGATTCATA
1 GTGTGTCTTTTCCAATTAGCAATAAAAAAAGTTCTACTCCTTTTTACTTGATTCATA
11573199 GTGTGTCTTTTCCAATTAGCAATAAAAAAAGTTCTACTCCTTTTTACTTGATTCATA
1 GTGTGTCTTTTCCAATTAGCAATAAAAAAAGTTCTACTCCTTTTTACTTGATTCATA
11573256 GTG
1 GTG
11573259 ATATATGGGG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (57 bp):
GTGTGTCTTTTCCAATTAGCAATAAAAAAAGTTCTACTCCTTTTTACTTGATTCATA
Found at i:11576072 original size:22 final size:22
Alignment explanation
Indices: 11576031--11576074 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
11576021 CTGTATATTT
**
11576031 ATATTTGTATCTTTAAAATTAA
1 ATATTTGTATCCCTAAAATTAA
*
11576053 ATATTTGTATCCCTAGAATTAA
1 ATATTTGTATCCCTAAAATTAA
11576075 GGACAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (22 bp):
ATATTTGTATCCCTAAAATTAA
Found at i:11584298 original size:11 final size:11
Alignment explanation
Indices: 11584284--11584317 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
11584274 AAATTTTAAA
11584284 TTATATTATTT
1 TTATATTATTT
11584295 TTATATT-TTT
1 TTATATTATTT
*
11584305 TAATATTATTT
1 TTATATTATTT
11584316 TT
1 TT
11584318 GCATAATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
TTATATTATTT
Found at i:11589312 original size:27 final size:29
Alignment explanation
Indices: 11589247--11589318 Score: 94
Period size: 27 Copynumber: 2.5 Consensus size: 29
11589237 TTTACTGAAG
11589247 TACTAAAATATAATCTGGCCAAAAAAAAAAA
1 TACTAAAATATAATCTGGCC--AAAAAAAAA
* *
11589278 AACCAAAATATAATCTGG-C-AAAAAAAA
1 TACTAAAATATAATCTGGCCAAAAAAAAA
11589305 TACTAAAATATAAT
1 TACTAAAATATAAT
11589319 TGAACTAGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
27 20 0.54
30 1 0.03
31 16 0.43
ACGTcount: A:0.61, C:0.12, G:0.06, T:0.21
Consensus pattern (29 bp):
TACTAAAATATAATCTGGCCAAAAAAAAA
Found at i:11601795 original size:12 final size:14
Alignment explanation
Indices: 11601761--11601799 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
11601751 AATACATTTT
*
11601761 TAGAAAACAAAAAC
1 TAGAAAATAAAAAC
11601775 TAGAAAATAAAAA-
1 TAGAAAATAAAAAC
11601788 TA-AAAATAAAAA
1 TAGAAAATAAAAA
11601800 ACATTTTCTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 10 0.42
13 2 0.08
14 12 0.50
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.13
Consensus pattern (14 bp):
TAGAAAATAAAAAC
Found at i:11601848 original size:9 final size:8
Alignment explanation
Indices: 11601827--11601856 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
11601817 ACACGACCTT
11601827 ATTTTGTA
1 ATTTTGTA
11601835 ATTTTGTGA
1 ATTTTGT-A
11601844 ATTTTGTA
1 ATTTTGTA
11601852 ATTTT
1 ATTTT
11601857 ATTTTATTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.23, C:0.00, G:0.13, T:0.63
Consensus pattern (8 bp):
ATTTTGTA
Found at i:11602014 original size:20 final size:20
Alignment explanation
Indices: 11601975--11602014 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
11601965 GGCCTAATAA
* * *
11601975 GAAAATTGAACTTTATACTC
1 GAAAATTAAACTCTAAACTC
11601995 GAAAATTAAACTCTAAACTC
1 GAAAATTAAACTCTAAACTC
11602015 CATTAACTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.17, G:0.07, T:0.30
Consensus pattern (20 bp):
GAAAATTAAACTCTAAACTC
Found at i:11603828 original size:2 final size:2
Alignment explanation
Indices: 11603821--11603845 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11603811 TTACTATTAT
11603821 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 T
11603846 ATATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:11603850 original size:2 final size:2
Alignment explanation
Indices: 11603845--11603871 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11603835 TCTCTCTCTC
11603845 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
11603872 CATAGGACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11607330 original size:38 final size:40
Alignment explanation
Indices: 11607243--11607337 Score: 97
Period size: 38 Copynumber: 2.4 Consensus size: 40
11607233 TCAAGAATGT
* *
11607243 AATGTAAATATATTAATTATCATGCAATAATAATAATAGT
1 AATGCAAATATATTAATTATCATGCAATAATAATAATAGC
* * *
11607283 AATGTAAATATA-TAA-TATCGTGCAATAAT-ATAAATTGC
1 AATGCAAATATATTAATTATCATGCAATAATAAT-AATAGC
* *
11607321 CATGCAAATATCTTAAT
1 AATGCAAATATATTAAT
11607338 AACCATTCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
37 2 0.04
38 26 0.57
39 6 0.13
40 12 0.26
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.36
Consensus pattern (40 bp):
AATGCAAATATATTAATTATCATGCAATAATAATAATAGC
Found at i:11607483 original size:24 final size:24
Alignment explanation
Indices: 11607455--11607513 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
11607445 TTTCATTCAG
*
11607455 ATATAATATTA-ATCATGCAATAA
1 ATATAATATCACATCATGCAATAA
11607478 CATATAATATCACATCATGCAATAA
1 -ATATAATATCACATCATGCAATAA
*
11607503 ATATAAAATCA
1 ATATAATATCA
11607514 TTCAATAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 20 0.62
25 12 0.38
ACGTcount: A:0.53, C:0.14, G:0.03, T:0.31
Consensus pattern (24 bp):
ATATAATATCACATCATGCAATAA
Found at i:11607691 original size:33 final size:33
Alignment explanation
Indices: 11607632--11607705 Score: 114
Period size: 33 Copynumber: 2.3 Consensus size: 33
11607622 ATTAACAATG
* *
11607632 TAAATCATGCAAATAAGCATATAATTAAATATA
1 TAAATCATGCAAATAAACATACAATTAAATATA
*
11607665 TAAATCATGCAAATAAATATACAATTAAATATA
1 TAAATCATGCAAATAAACATACAATTAAATATA
11607698 T-AATCATG
1 TAAATCATG
11607706 TAATTAACAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
32 7 0.18
33 31 0.82
ACGTcount: A:0.54, C:0.09, G:0.05, T:0.31
Consensus pattern (33 bp):
TAAATCATGCAAATAAACATACAATTAAATATA
Found at i:11607710 original size:53 final size:53
Alignment explanation
Indices: 11607644--11607771 Score: 159
Period size: 53 Copynumber: 2.4 Consensus size: 53
11607634 AATCATGCAA
* * *
11607644 ATAAGCATATAATTAAATATATAAATCATGCAAATAAATATACAATTAAATAT
1 ATAATCATGTAATTAAATATATAAATCATGCAAATAAACATACAATTAAATAT
* * *
11607697 ATAATCATGTAATTAACA-ATGTAAATCATGCAAATAAGCATATAATTAAATAT
1 ATAATCATGTAATTAA-ATATATAAATCATGCAAATAAACATACAATTAAATAT
* *
11607750 ATAAATCATGCAAATAAATATA
1 AT-AATCATGTAATTAAATATA
11607772 CAATTAAATA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
53 48 0.76
54 15 0.24
ACGTcount: A:0.55, C:0.09, G:0.05, T:0.31
Consensus pattern (53 bp):
ATAATCATGTAATTAAATATATAAATCATGCAAATAAACATACAATTAAATAT
Found at i:11607743 original size:33 final size:33
Alignment explanation
Indices: 11607718--11607794 Score: 120
Period size: 33 Copynumber: 2.4 Consensus size: 33
11607708 ATTAACAATG
11607718 TAAATCATGCAAATAAGCATATAATTAAATATA
1 TAAATCATGCAAATAAGCATATAATTAAATATA
** *
11607751 TAAATCATGCAAATAAATATACAATTAAATATA
1 TAAATCATGCAAATAAGCATATAATTAAATATA
11607784 T-AATCATGCAA
1 TAAATCATGCAA
11607795 TCACACAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
32 10 0.24
33 31 0.76
ACGTcount: A:0.55, C:0.10, G:0.05, T:0.30
Consensus pattern (33 bp):
TAAATCATGCAAATAAGCATATAATTAAATATA
Found at i:11607794 original size:32 final size:32
Alignment explanation
Indices: 11607720--11607918 Score: 157
Period size: 32 Copynumber: 6.4 Consensus size: 32
11607710 TAACAATGTA
* *
11607720 AATCATGCAAATAAGCATATAATTAAATATAT
1 AATCATGCAAATAAACATACAATTAAATATAT
*
11607752 AAATCATGCAAATAAATATACAATTAAATATAT
1 -AATCATGCAAATAAACATACAATTAAATATAT
* * * *
11607785 AATCATGC-AATCACACAAATAAATAAAT-TAAT
1 AATCATGCAAAT-AAACATACAATTAAATAT-AT
* * *
11607817 AATCATGCAATTAGACATGCAATTAAATATAT
1 AATCATGCAAATAAACATACAATTAAATATAT
* * *
11607849 CATCATACAAAT--A-AT--AA-T-ATTA-AT
1 AATCATGCAAATAAACATACAATTAAATATAT
** *
11607873 AATCATGCAAATAAATGTGCAATTAAATATAT
1 AATCATGCAAATAAACATACAATTAAATATAT
11607905 AATCATGCAAATAA
1 AATCATGCAAATAA
11607919 TAATATATAA
Statistics
Matches: 132, Mismatches: 22, Indels: 25
0.74 0.12 0.14
Matches are distributed among these distances:
24 12 0.09
25 3 0.02
26 2 0.02
27 3 0.02
29 4 0.03
30 2 0.02
31 7 0.05
32 67 0.51
33 32 0.24
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.30
Consensus pattern (32 bp):
AATCATGCAAATAAACATACAATTAAATATAT
Found at i:11607808 original size:86 final size:86
Alignment explanation
Indices: 11607600--11607791 Score: 375
Period size: 86 Copynumber: 2.2 Consensus size: 86
11607590 AGTAATCATG
*
11607600 CAATTAAATATACAATCATGTAATTAACAATGTAAATCATGCAAATAAGCATATAATTAAATATA
1 CAATTAAATATATAATCATGTAATTAACAATGTAAATCATGCAAATAAGCATATAATTAAATATA
11607665 TAAATCATGCAAATAAATATA
66 TAAATCATGCAAATAAATATA
11607686 CAATTAAATATATAATCATGTAATTAACAATGTAAATCATGCAAATAAGCATATAATTAAATATA
1 CAATTAAATATATAATCATGTAATTAACAATGTAAATCATGCAAATAAGCATATAATTAAATATA
11607751 TAAATCATGCAAATAAATATA
66 TAAATCATGCAAATAAATATA
11607772 CAATTAAATATATAATCATG
1 CAATTAAATATATAATCATG
11607792 CAATCACACA
Statistics
Matches: 105, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 105 1.00
ACGTcount: A:0.53, C:0.10, G:0.06, T:0.31
Consensus pattern (86 bp):
CAATTAAATATATAATCATGTAATTAACAATGTAAATCATGCAAATAAGCATATAATTAAATATA
TAAATCATGCAAATAAATATA
Found at i:11607871 original size:56 final size:56
Alignment explanation
Indices: 11607793--11607938 Score: 190
Period size: 56 Copynumber: 2.6 Consensus size: 56
11607783 ATAATCATGC
* *
11607793 AATCACACAAATAAATAA-ATTAATAATCATGCAATTAGACATGCAATTAAATATAT
1 AATCATACAAAT-AATAATATTAATAATCATGCAATTAAACATGCAATTAAATATAT
* * **
11607849 CATCATACAAATAATAATATTAATAATCATGCAAATAAATGTGCAATTAAATATAT
1 AATCATACAAATAATAATATTAATAATCATGCAATTAAACATGCAATTAAATATAT
*
11607905 AATCATGCAAATAATAATA-T-ATAAATCATGCAAT
1 AATCATACAAATAATAATATTAAT-AATCATGCAAT
11607939 CATGTAAATA
Statistics
Matches: 79, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
54 2 0.03
55 16 0.20
56 61 0.77
ACGTcount: A:0.53, C:0.12, G:0.05, T:0.30
Consensus pattern (56 bp):
AATCATACAAATAATAATATTAATAATCATGCAATTAAACATGCAATTAAATATAT
Found at i:11607913 original size:20 final size:22
Alignment explanation
Indices: 11607890--11607938 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
11607880 CAAATAAATG
*
11607890 TGCAATTA-AATATAT-AATCA
1 TGCAATAATAATATATAAATCA
11607910 TGCAAATAATAATATATAAATCA
1 TGC-AATAATAATATATAAATCA
11607933 TGCAAT
1 TGCAAT
11607939 CATGTAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 3 0.12
21 4 0.16
22 10 0.40
23 8 0.32
ACGTcount: A:0.51, C:0.10, G:0.06, T:0.33
Consensus pattern (22 bp):
TGCAATAATAATATATAAATCA
Found at i:11608019 original size:32 final size:31
Alignment explanation
Indices: 11607974--11608033 Score: 93
Period size: 32 Copynumber: 1.9 Consensus size: 31
11607964 TTCAAAATAT
11607974 GCAATAAATATATAATCACACAAATAAACAA
1 GCAATAAATATATAATCACACAAATAAACAA
**
11608005 GCAATTAAATATATAATCATGCAAATAAA
1 GCAA-TAAATATATAATCACACAAATAAA
11608034 TATATTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 4 0.15
32 22 0.85
ACGTcount: A:0.58, C:0.13, G:0.05, T:0.23
Consensus pattern (31 bp):
GCAATAAATATATAATCACACAAATAAACAA
Found at i:11608020 original size:20 final size:20
Alignment explanation
Indices: 11607997--11608038 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
11607987 AATCACACAA
*
11607997 ATAAACAAGCAATTAAATAT
1 ATAAACAAGCAAATAAATAT
* *
11608017 ATAATCATGCAAATAAATAT
1 ATAAACAAGCAAATAAATAT
11608037 AT
1 AT
11608039 TAATAATTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.57, C:0.10, G:0.05, T:0.29
Consensus pattern (20 bp):
ATAAACAAGCAAATAAATAT
Found at i:11608044 original size:24 final size:24
Alignment explanation
Indices: 11608017--11608159 Score: 118
Period size: 24 Copynumber: 6.0 Consensus size: 24
11608007 AATTAAATAT
11608017 ATAATCATGCAAATAAATATATTA
1 ATAATCATGCAAATAAATATATTA
* * * *
11608041 ATAATTAAGTAATTAAATATATTA
1 ATAATCATGCAAATAAATATATTA
11608065 ATAATCATGCAATCGAATTAAATATATTA
1 ATAATCATGC-A---AA-TAAATATATTA
* *
11608094 ATAATCATGCAAATACAT-TAAT-
1 ATAATCATGCAAATAAATATATTA
**
11608116 A-AATCACACAAATAAATATA-T-
1 ATAATCATGCAAATAAATATATTA
*
11608137 -TAATCATGCAAACAAATATATTA
1 ATAATCATGCAAATAAATATATTA
11608160 GGCAAATAAA
Statistics
Matches: 94, Mismatches: 16, Indels: 19
0.73 0.12 0.15
Matches are distributed among these distances:
21 30 0.32
22 4 0.04
23 3 0.03
24 31 0.33
25 3 0.03
28 2 0.02
29 21 0.22
ACGTcount: A:0.53, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
ATAATCATGCAAATAAATATATTA
Found at i:11608113 original size:29 final size:29
Alignment explanation
Indices: 11608030--11608114 Score: 94
Period size: 29 Copynumber: 3.1 Consensus size: 29
11608020 ATCATGCAAA
*
11608030 TAAATATATTAATAAT--T--AAGTA-AT
1 TAAATATATTAATAATCATGCAAATACAT
11608054 TAAATATATTAATAATCATGC-AAT-CGAAT
1 TAAATATATTAATAATCATGCAAATAC--AT
11608083 TAAATATATTAATAATCATGCAAATACAT
1 TAAATATATTAATAATCATGCAAATACAT
11608112 TAA
1 TAA
11608115 TAAATCACAC
Statistics
Matches: 51, Mismatches: 1, Indels: 13
0.78 0.02 0.20
Matches are distributed among these distances:
24 16 0.31
26 1 0.02
27 2 0.04
29 28 0.55
30 3 0.06
31 1 0.02
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.36
Consensus pattern (29 bp):
TAAATATATTAATAATCATGCAAATACAT
Found at i:11608127 original size:21 final size:20
Alignment explanation
Indices: 11608084--11608129 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
11608074 CAATCGAATT
* **
11608084 AAATATATTAATAATCATGC
1 AAATACATTAATAATCACAC
11608104 AAATACATTAATAAATCACAC
1 AAATACATTAAT-AATCACAC
11608125 AAATA
1 AAATA
11608130 AATATATTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.28
Consensus pattern (20 bp):
AAATACATTAATAATCACAC
Found at i:11608141 original size:21 final size:21
Alignment explanation
Indices: 11608117--11608159 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
11608107 TACATTAATA
*
11608117 AATCACACAAATAAATATATT
1 AATCACACAAACAAATATATT
**
11608138 AATCATGCAAACAAATATATT
1 AATCACACAAACAAATATATT
11608159 A
1 A
11608160 GGCAAATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.56, C:0.14, G:0.02, T:0.28
Consensus pattern (21 bp):
AATCACACAAACAAATATATT
Found at i:11608180 original size:16 final size:17
Alignment explanation
Indices: 11608142--11608188 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
11608132 TATATTAATC
* *
11608142 ATGCAAACAAATATATT
1 ATGCAAATAAATACATT
*
11608159 AGGCAAATAAAT-CATT
1 ATGCAAATAAATACATT
11608175 ATGCAAATATAATA
1 ATGCAAATA-AATA
11608189 TTAGTCATGA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 11 0.46
17 13 0.54
ACGTcount: A:0.53, C:0.11, G:0.09, T:0.28
Consensus pattern (17 bp):
ATGCAAATAAATACATT
Found at i:11608191 original size:16 final size:15
Alignment explanation
Indices: 11608154--11608192 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
11608144 GCAAACAAAT
11608154 ATATTAGGCAAATAA
1 ATATTAGGCAAATAA
*
11608169 ATCATTATGCAAATATA
1 AT-ATTAGGCAAATA-A
11608186 ATATTAG
1 ATATTAG
11608193 TCATGAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
15 2 0.10
16 15 0.75
17 3 0.15
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (15 bp):
ATATTAGGCAAATAA
Found at i:11608845 original size:12 final size:12
Alignment explanation
Indices: 11608818--11608851 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
11608808 ACTAAAAAAA
*
11608818 TAAAAACTAAAC
1 TAAAAATTAAAC
11608830 -AAAAATTAAAC
1 TAAAAATTAAAC
11608841 TAAAAATTAAA
1 TAAAAATTAAA
11608852 ATACAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.71, C:0.09, G:0.00, T:0.21
Consensus pattern (12 bp):
TAAAAATTAAAC
Found at i:11608852 original size:30 final size:30
Alignment explanation
Indices: 11608812--11608869 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
11608802 TTTTTGACTA
11608812 AAAAAATAAAA-ACTAAACAAAAATTAAACT
1 AAAAAATAAAATAC-AAACAAAAATTAAACT
* * *
11608842 AAAAATTAAAATACAAATAAAATTTAAA
1 AAAAAATAAAATACAAACAAAAATTAAA
11608870 GTTTAATCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.21
Consensus pattern (30 bp):
AAAAAATAAAATACAAACAAAAATTAAACT
Found at i:11608859 original size:12 final size:12
Alignment explanation
Indices: 11608814--11608864 Score: 52
Period size: 12 Copynumber: 4.4 Consensus size: 12
11608804 TTTGACTAAA
*
11608814 AAAATAAAAACT
1 AAAATAAAAATT
*
11608826 -AAACAAAAATT
1 AAAATAAAAATT
*
11608837 AAACTAAAAATT
1 AAAATAAAAATT
*
11608849 AAAATACAAA-T
1 AAAATAAAAATT
11608860 AAAAT
1 AAAAT
11608865 TTAAAGTTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
11 15 0.47
12 17 0.53
ACGTcount: A:0.73, C:0.08, G:0.00, T:0.20
Consensus pattern (12 bp):
AAAATAAAAATT
Found at i:11609218 original size:42 final size:41
Alignment explanation
Indices: 11609139--11609374 Score: 199
Period size: 42 Copynumber: 5.6 Consensus size: 41
11609129 CATAACTTAT
**
11609139 GCTTTGAAACATTTTAAAAATAAAATGT-TCCTCCACAACTGAG
1 GCTTTGAAAC-TTTTAAAAATAAAAACTCT-C-CCACAACTGAG
* * * *
11609182 GCTTTGAAACTTTTTAAAATGAAACACTTTCCCACAACTGAA
1 GCTTTGAAACTTTTAAAAAT-AAAAACTCTCCCACAACTGAG
*
11609224 GCTTT-AGAACTTTTGAAAAATAAAATGA-TCACCCACAACTGAG
1 GCTTTGA-AACTTTT-AAAAATAAAA--ACTCTCCCACAACTGAG
* * **
11609267 ACTTTGGAACTTTTGCAAATAAAATACTCTCCCACAACTGAG
1 GCTTTGAAACTTTTAAAAATAAAA-ACTCTCCCACAACTGAG
** * ****
11609309 GCTTTGAAACTTTTAAAAATAAAATTTTTTGTGCAACTGAG
1 GCTTTGAAACTTTTAAAAATAAAAACTCTCCCACAACTGAG
11609350 GCTTTGAAACTTTTAAAAAATAAAA
1 GCTTTGAAACTTTT-AAAAATAAAA
11609375 TGAGATCGTT
Statistics
Matches: 157, Mismatches: 27, Indels: 19
0.77 0.13 0.09
Matches are distributed among these distances:
41 26 0.17
42 86 0.55
43 43 0.27
44 2 0.01
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (41 bp):
GCTTTGAAACTTTTAAAAATAAAAACTCTCCCACAACTGAG
Found at i:11609228 original size:85 final size:84
Alignment explanation
Indices: 11609139--11609374 Score: 271
Period size: 85 Copynumber: 2.8 Consensus size: 84
11609129 CATAACTTAT
* *
11609139 GCTTTGAAACATTTTAAAAATAAAATGTTCCTCCACAACTGAGGCTTTGAAACTTTTTAAAATGA
1 GCTTTGAAAC-TTTTAAAAATAAAATGTTCCTCCACAACTGAGGCTTTGAAACTTTTAAAAATAA
*
11609204 AACACTTTCCCACAACTGAA
65 AACACTCTCCCACAACTGAA
* * * **
11609224 GCTTT-AGAACTTTTGAAAAATAAAATGATCAC-CCACAACTGAGACTTTGGAACTTTTGCAAAT
1 GCTTTGA-AACTTTT-AAAAATAAAATGTTC-CTCCACAACTGAGGCTTTGAAACTTTTAAAAAT
* *
11609287 AAAATACTCTCCCACAACTGAG
63 AAAACACTCTCCCACAACTGAA
** ***
11609309 GCTTTGAAACTTTTAAAAATAAAAT-TTTTTGTGCAACTGAGGCTTTGAAACTTTTAAAAAATAA
1 GCTTTGAAACTTTTAAAAATAAAATGTTCCTCCACAACTGAGGCTTTGAAACTTTT-AAAAATAA
11609373 AA
65 AA
11609375 TGAGATCGTT
Statistics
Matches: 126, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
83 21 0.17
84 24 0.19
85 79 0.63
86 2 0.02
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (84 bp):
GCTTTGAAACTTTTAAAAATAAAATGTTCCTCCACAACTGAGGCTTTGAAACTTTTAAAAATAAA
ACACTCTCCCACAACTGAA
Found at i:11612021 original size:27 final size:27
Alignment explanation
Indices: 11611991--11612082 Score: 71
Period size: 27 Copynumber: 3.3 Consensus size: 27
11611981 TTTGTGCAGG
11611991 AAAAATTGATACTTTCAACTTTTTCCC
1 AAAAATTGATACTTTCAACTTTTTCCC
* * * *
11612018 AAAAA-T-ATTATTTTGAAACTTTAATTTCA
1 AAAAATTGA-TACTTT-CAACTTT--TTCCC
*
11612047 AGGAAAATTGATACTTTCAACTTTTTCTC
1 A--AAAATTGATACTTTCAACTTTTTCCC
11612076 AAAAATT
1 AAAAATT
11612083 TATTTTTTTG
Statistics
Matches: 48, Mismatches: 9, Indels: 16
0.66 0.12 0.22
Matches are distributed among these distances:
25 1 0.02
26 6 0.12
27 17 0.35
29 7 0.15
31 10 0.21
32 6 0.12
33 1 0.02
ACGTcount: A:0.39, C:0.14, G:0.05, T:0.41
Consensus pattern (27 bp):
AAAAATTGATACTTTCAACTTTTTCCC
Found at i:11612052 original size:59 final size:59
Alignment explanation
Indices: 11611992--11612397 Score: 502
Period size: 59 Copynumber: 6.9 Consensus size: 59
11611982 TTGTGCAGGA
* *
11611992 AAAATTGATACTTTCAACTTTTTCCCAAAAA-TATTATTTTGAAACTTTAATTTCAAGG
1 AAAATTGATACTTTCAACTTTTTCCCAAAAATTATTTTTTTGAAACTTTATTTTCAAGG
* * *
11612050 AAAATTGATACTTTCAACTTTTTCTCAAAAATTTATTTTTTTGAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTTCCCAAAAA-TTATTTTTTTGAAACTTTATTTTCAAGG
* * *
11612110 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATTTATTTTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTTCC-CAAAAA-TTA-TTTTTTTGAAACTTTATTTTCAAGG
*** * * *
11612171 AAAATTGATACTTTCAAC-TTTTCCTCAAAAACCCTTTTTTTGAAATTTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTTCC-CAAAAATTATTTTTTTGAAACTTTATTTTCAAGG
* *
11612230 AAAATTGATACTTTCAACTTTTTCCCAAAAATGT-TTTTTTTGAAATTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTTCCCAAAAAT-TATTTTTTTGAAACTTTATTTTCAAGG
*
11612289 AAAATTGATACTTTCAACTTTTTCCCAAAAA-TATTTTTTGGAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTTCCCAAAAATTATTTTTTTGAAACTTT-ATTTTCAAGG
*** *
11612348 AAAATT-ATACTTTCAAC-TTTTCCTCAAAAACCCTTTTTTTGAAATTTTAT
1 AAAATTGATACTTTCAACTTTTTCC-CAAAAATTATTTTTTTGAAACTTTAT
11612398 ATATTTTTTG
Statistics
Matches: 315, Mismatches: 23, Indels: 20
0.88 0.06 0.06
Matches are distributed among these distances:
57 7 0.02
58 62 0.20
59 136 0.43
60 59 0.19
61 51 0.16
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.46
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTTCCCAAAAATTATTTTTTTGAAACTTTATTTTCAAGG
Found at i:11612069 original size:31 final size:30
Alignment explanation
Indices: 11612034--11612130 Score: 85
Period size: 31 Copynumber: 3.2 Consensus size: 30
11612024 ATTATTTTGA
11612034 AACTTTAATTTCAAGGAAAATTGATACTTTC
1 AACTTTAATTTC-AGGAAAATTGATACTTTC
* ** *
11612065 AACTTT--TTCTCA--AAAATTTATTTTTTTGA
1 AACTTTAATT-TCAGGAAAATTGA-TACTTT-C
11612094 AACTTTAATTTCGAGGAAAATTGATACTTTC
1 AACTTTAATTTC-AGGAAAATTGATACTTTC
11612125 AACTTT
1 AACTTT
11612131 TCCTCAAAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 16
0.68 0.11 0.22
Matches are distributed among these distances:
27 7 0.14
28 4 0.08
29 9 0.18
30 4 0.08
31 15 0.30
32 4 0.08
33 7 0.14
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.44
Consensus pattern (30 bp):
AACTTTAATTTCAGGAAAATTGATACTTTC
Found at i:11612174 original size:17 final size:18
Alignment explanation
Indices: 11612136--11612176 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
11612126 ACTTTTCCTC
**
11612136 AAAAATTTATTTTTTTTG
1 AAAAATTTATTTTTTAAG
11612154 -AAAATTTA-TTTTTAAG
1 AAAAATTTATTTTTTAAG
11612170 AAAAATT
1 AAAAATT
11612177 GATACTTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (18 bp):
AAAAATTTATTTTTTAAG
Found at i:11612529 original size:4 final size:4
Alignment explanation
Indices: 11612520--11612560 Score: 55
Period size: 4 Copynumber: 10.0 Consensus size: 4
11612510 ATCTTAATTT
* *
11612520 AATA AATAA AATA AAAA AACA AATA AATA AATA AATA AATA
1 AATA AAT-A AATA AATA AATA AATA AATA AATA AATA AATA
11612561 TTTTAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
4 29 0.88
5 4 0.12
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (4 bp):
AATA
Found at i:11613453 original size:27 final size:25
Alignment explanation
Indices: 11613402--11613464 Score: 81
Period size: 27 Copynumber: 2.4 Consensus size: 25
11613392 AAAAAAGACA
*
11613402 AAAAAAGAAATCTGATAAACGAAAAG
1 AAAAAA-AAATCAGATAAACGAAAAG
*
11613428 AAAAAAAAATCAGATAAATGAAAAAAG
1 AAAAAAAAATCAGATAAACG--AAAAG
11613455 AAAAAAAAAT
1 AAAAAAAAAT
11613465 ATAACAGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
25 12 0.36
26 6 0.18
27 15 0.45
ACGTcount: A:0.73, C:0.05, G:0.11, T:0.11
Consensus pattern (25 bp):
AAAAAAAAATCAGATAAACGAAAAG
Found at i:11613481 original size:23 final size:22
Alignment explanation
Indices: 11613456--11613573 Score: 80
Period size: 22 Copynumber: 5.2 Consensus size: 22
11613446 TGAAAAAAGA
*
11613456 AAAAAAAATATAACAGATAATT
1 AAAAAAAATATAACAGATAAAT
*
11613478 AAAAATAATA-ATA-AGATAAAT
1 AAAAAAAATATA-ACAGATAAAT
* *
11613499 CAAAAAAATATTACAAGATAAAT
1 AAAAAAAATATAAC-AGATAAAT
* *
11613522 -AAAAAAATAATAAATAAATTATAAT
1 AAAAAAAAT-AT-AACAGA-TA-AAT
* *
11613547 AATAAATATATAACTAGATAAAT
1 AAAAAAAATATAAC-AGATAAAT
11613570 AAAA
1 AAAA
11613574 TACATATATA
Statistics
Matches: 73, Mismatches: 13, Indels: 19
0.70 0.12 0.18
Matches are distributed among these distances:
21 17 0.23
22 18 0.25
23 18 0.25
24 7 0.10
25 7 0.10
26 6 0.08
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (22 bp):
AAAAAAAATATAACAGATAAAT
Found at i:11613505 original size:44 final size:42
Alignment explanation
Indices: 11613457--11613540 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 42
11613447 GAAAAAAGAA
*
11613457 AAAAAAATATAAC-AGATAATTAAAAATAATAATAAGATAAATC
1 AAAAAAATATAACAAGATAAATAAAAA-AATAATAA-ATAAATC
*
11613500 AAAAAAATATTACAAGATAAATAAAAAAATAATAAATAAAT
1 AAAAAAATATAACAAGATAAATAAAAAAATAATAAATAAAT
11613541 TATAATAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 6 0.16
43 20 0.53
44 12 0.32
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.23
Consensus pattern (42 bp):
AAAAAAATATAACAAGATAAATAAAAAAATAATAAATAAATC
Found at i:11613547 original size:14 final size:15
Alignment explanation
Indices: 11613516--11613570 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 15
11613506 ATATTACAAG
* *
11613516 ATAAATAAAAAAATA
1 ATAAATAAATATATA
11613531 ATAAATAAAT-TATA
1 ATAAATAAATATATA
11613545 AT-AATAAATATATA
1 ATAAATAAATATATA
*
11613559 ACTAGATAAATA
1 A-TAAATAAATA
11613571 AAATACATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
13 7 0.21
14 10 0.29
15 10 0.29
16 7 0.21
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (15 bp):
ATAAATAAATATATA
Found at i:11613575 original size:21 final size:20
Alignment explanation
Indices: 11613458--11613573 Score: 63
Period size: 23 Copynumber: 5.2 Consensus size: 20
11613448 AAAAAAGAAA
11613458 AAAAAATATAACAGAT-AAT
1 AAAAAATATAACAGATAAAT
* *
11613477 TAAAAATAATAATAAGATAAAT
1 AAAAAAT-ATAA-CAGATAAAT
*
11613499 CAAAAAAATATTACAAGATAAAT
1 --AAAAAATATAAC-AGATAAAT
* *
11613522 AAAAAAATAATAAATAAATTATAAT
1 -AAAAAAT-AT-AACAGA-TA-AAT
11613547 AATAAATATATAACTAGATAAAT
1 AA-AAA-ATATAAC-AGATAAAT
11613570 AAAA
1 AAAA
11613574 TACATATATA
Statistics
Matches: 74, Mismatches: 10, Indels: 23
0.69 0.09 0.21
Matches are distributed among these distances:
19 6 0.08
20 4 0.05
21 4 0.05
22 13 0.18
23 20 0.27
24 15 0.20
25 10 0.14
26 2 0.03
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.25
Consensus pattern (20 bp):
AAAAAATATAACAGATAAAT
Found at i:11613575 original size:25 final size:24
Alignment explanation
Indices: 11613455--11613583 Score: 87
Period size: 24 Copynumber: 5.5 Consensus size: 24
11613445 ATGAAAAAAG
*
11613455 AAAAAAAAATATAAC-AGAT-AAT
1 AAAAAAATATATAACTAGATAAAT
*
11613477 -TAAAAATA-ATAA-TAAGATAAAT
1 AAAAAAATATATAACT-AGATAAAT
*
11613499 CAAAAAAATAT-T-ACAAGATAAAT
1 -AAAAAAATATATAACTAGATAAAT
* *
11613522 AAAAAAATA-ATAAATAAATTATAAT
1 AAAAAAATATATAACTAGA-TA-AAT
*
11613547 -AATAAATATATAACTAGATAAAT
1 AAAAAAATATATAACTAGATAAAT
*
11613570 AAAATACATATATA
1 AAAA-AAATATATA
11613584 GATATTAACA
Statistics
Matches: 81, Mismatches: 12, Indels: 25
0.69 0.10 0.21
Matches are distributed among these distances:
20 4 0.05
21 10 0.12
22 13 0.16
23 15 0.19
24 21 0.26
25 18 0.22
ACGTcount: A:0.67, C:0.04, G:0.03, T:0.26
Consensus pattern (24 bp):
AAAAAAATATATAACTAGATAAAT
Found at i:11613703 original size:12 final size:12
Alignment explanation
Indices: 11613656--11613697 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
11613646 TAATAAATAC
11613656 ATAAAATACAAA
1 ATAAAATACAAA
* *
11613668 AGAAAGA-AAAAA
1 ATAAA-ATACAAA
11613680 ATAAAATACAAA
1 ATAAAATACAAA
11613692 ATAAAA
1 ATAAAA
11613698 ACCAAATTGG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 1 0.04
12 22 0.92
13 1 0.04
ACGTcount: A:0.79, C:0.05, G:0.05, T:0.12
Consensus pattern (12 bp):
ATAAAATACAAA
Found at i:11613862 original size:7 final size:7
Alignment explanation
Indices: 11613844--11613877 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
11613834 TCAACTCGAC
11613844 TTTTTTA
1 TTTTTTA
11613851 CTTTTTTA
1 -TTTTTTA
11613859 TTTTTTA
1 TTTTTTA
11613866 -TTTTTA
1 TTTTTTA
11613872 TTTTTT
1 TTTTTT
11613878 GATCAAAGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.24
7 12 0.48
8 7 0.28
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTTA
Found at i:11613869 original size:13 final size:13
Alignment explanation
Indices: 11613853--11613877 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11613843 CTTTTTTACT
11613853 TTTTTATTTTTTA
1 TTTTTATTTTTTA
11613866 TTTTTATTTTTT
1 TTTTTATTTTTT
11613878 GATCAAAGCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:11614013 original size:41 final size:41
Alignment explanation
Indices: 11613908--11614390 Score: 653
Period size: 41 Copynumber: 11.5 Consensus size: 41
11613898 AAGGCTCAAT
* * * * * *
11613908 GACTTTGAGAAACATAAATGGCTCATCTAATCAGAGGCTCAAC
1 GACTTTGA-AAA-GTAAATTGCTCCTCTAAACAGAGGCACCAC
* * * *
11613951 AACTTTAGAAAAATAACTTGCTCCTCTAAACAAAGGCACCAC
1 GACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
* *
11613993 GACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTATCAC
1 GACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
*
11614034 GACTTTTGGAAAA-TAAATTGCTCCTCTAAACAGAGGCACCAT
1 GAC-TTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
* * *
11614076 GACTTTGAAAAAAGTAAATTGCTCTTTTAAACAGAGGCACCAT
1 GACTTTG--AAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
11614119 GACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
*
11614160 GACTTTGGAAAAAGTAAATTGCTCATCTAAACAGAGGCACCAC
1 GACTTT-G-AAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
11614203 GACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
* * *
11614244 GACTTTGAAAAAAATAAATTGCTCATCTAAATAGAGGCACCAC
1 GACTTTG--AAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
*
11614287 GACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
*
11614328 GACTTTGAAAAGTAAATTGCTTCTCTAAACAGAGGCACCAC
1 GACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
*
11614369 GACTTTGGAAAGTAAATTGCTC
1 GACTTTGAAAAGTAAATTGCTC
11614391 ATTGACAATC
Statistics
Matches: 395, Mismatches: 35, Indels: 22
0.87 0.08 0.05
Matches are distributed among these distances:
40 1 0.00
41 202 0.51
42 66 0.17
43 124 0.31
44 2 0.01
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (41 bp):
GACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
Found at i:11614164 original size:84 final size:83
Alignment explanation
Indices: 11613908--11614390 Score: 679
Period size: 84 Copynumber: 5.8 Consensus size: 83
11613898 AAGGCTCAAT
* * * * * * *
11613908 GACTTTGAGAAACA-TAAATGGCTCATCTAATCAGAGGCTCAACAACTTTAGAAAAATAACTTGC
1 GACTTTGA-AAA-AGTAAATTGCTCATCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGC
*
11613972 TCCTCTAAACAAAGGCACCAC
63 TCCTCTAAACAGAGGCACCAC
* * *
11613993 GACTTTG-AAAAGTAAATTGCTCCTCTAAACAGAGGTATCACGACTTTTGGAAAA-TAAATTGCT
1 GACTTTGAAAAAGTAAATTGCTCATCTAAACAGAGGCACCACGAC-TTT-GAAAAGTAAATTGCT
*
11614056 CCTCTAAACAGAGGCACCAT
64 CCTCTAAACAGAGGCACCAC
* * *
11614076 GACTTTGAAAAAAGTAAATTGCTCTTTTAAACAGAGGCACCATGACTTTGAAAAGTAAATTGCTC
1 GACTTTG-AAAAAGTAAATTGCTCATCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTC
11614141 CTCTAAACAGAGGCACCAC
65 CTCTAAACAGAGGCACCAC
11614160 GACTTTGGAAAAAGTAAATTGCTCATCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTC
1 GACTTT-GAAAAAGTAAATTGCTCATCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTC
11614225 CTCTAAACAGAGGCACCAC
65 CTCTAAACAGAGGCACCAC
* * *
11614244 GACTTTGAAAAAAATAAATTGCTCATCTAAATAGAGGCACCACGACTTTGGAAAGTAAATTGCTC
1 GACTTTG-AAAAAGTAAATTGCTCATCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTC
11614309 CTCTAAACAGAGGCACCAC
65 CTCTAAACAGAGGCACCAC
*
11614328 GACTTTG-AAAAGTAAATTGCTTC-TCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTC
1 GACTTTGAAAAAGTAAATTGC-TCATCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTC
11614391 ATTGACAATC
Statistics
Matches: 364, Mismatches: 26, Indels: 19
0.89 0.06 0.05
Matches are distributed among these distances:
82 52 0.14
83 68 0.19
84 204 0.56
85 40 0.11
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (83 bp):
GACTTTGAAAAAGTAAATTGCTCATCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCC
TCTAAACAGAGGCACCAC
Found at i:11614248 original size:125 final size:123
Alignment explanation
Indices: 11613908--11614390 Score: 678
Period size: 125 Copynumber: 3.8 Consensus size: 123
11613898 AAGGCTCAAT
* * * * * * *
11613908 GACTTTGAGAAACATAAATGGCTCATCTAATCAGAGGCTCAACAACTTTAGAAAAATAACTTGCT
1 GACTTTG-GAAA-ATAAATTGCTCATCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCT
* * *
11613973 CCTCTAAACAAAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTATCAC
63 CCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
* *
11614034 GACTTTTGGAAAATAAATTGCTCCTCTAAACAGAGGCACCATGACTTTGAAAAAAGTAAATTGCT
1 GAC-TTTGGAAAATAAATTGCTCATCTAAACAGAGGCACCACGACTTTG--AAAAGTAAATTGCT
* * *
11614099 CTTTTAAACAGAGGCACCATGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
63 CCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
11614160 GACTTTGGAAAAAGTAAATTGCTCATCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTC
1 GACTTTGG-AAAA-TAAATTGCTCATCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTC
* * *
11614225 CTCTAAACAGAGGCACCACGACTTTGAAAAAAATAAATTGCTCATCTAAATAGAGGCACCAC
64 CTCTAAACAGAGGCACCACGACTTTG--AAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
* * *
11614287 GACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTTCT
1 GACTTTGGAAAATAAATTGCTCATCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCT
*
11614352 CTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTC
66 CTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTC
11614391 ATTGACAATC
Statistics
Matches: 322, Mismatches: 28, Indels: 17
0.88 0.08 0.05
Matches are distributed among these distances:
123 13 0.04
124 1 0.00
125 147 0.46
126 84 0.26
127 77 0.24
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (123 bp):
GACTTTGGAAAATAAATTGCTCATCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCT
CTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
Found at i:11615667 original size:7 final size:7
Alignment explanation
Indices: 11615642--11615710 Score: 54
Period size: 7 Copynumber: 10.1 Consensus size: 7
11615632 TTGAATCTCT
11615642 TTTTTCA
1 TTTTTCA
11615649 TTTTCTCA
1 TTTT-TCA
*
11615657 TTTTTCC
1 TTTTTCA
*
11615664 TTTTT-T
1 TTTTTCA
*
11615670 TTTTTTA
1 TTTTTCA
11615677 -TTTTC-
1 TTTTTCA
*
11615682 TTTATCA
1 TTTTTCA
* *
11615689 TCTTTCT
1 TTTTTCA
11615696 TTTTTCA
1 TTTTTCA
11615703 TTTTTCA
1 TTTTTCA
11615710 T
1 T
11615711 CCATTATTGA
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
6 13 0.27
7 28 0.58
8 7 0.15
ACGTcount: A:0.10, C:0.16, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTTCA
Found at i:11619647 original size:59 final size:58
Alignment explanation
Indices: 11619581--11619969 Score: 482
Period size: 59 Copynumber: 6.6 Consensus size: 58
11619571 GTTTTTTATG
* *
11619581 CAAGAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGAAAACTTTTAATTT
1 CAAGAAAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTGAAAACTTTGATTTT
* * *
11619640 CGAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTT-AAAAATTT-ATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCC-CAAAAAT-ATTTTTTGAAAACTTTGATTTT
* * * *
11619698 TAAGAAAAATTGATACTTTCAACTTTTTTCCAAAAATGTTTTTTGGAAACTTTGATTTT
1 CAAGAAAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTGAAAACTTTGATTTT
* *
11619757 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCT-TTTTTTG-AAA-TTTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCC-CAAAAA---TATTTTTTGAAAACTTTGATTTT
* *
11619816 TAAGAAAAATTGATACTTTCAACTTTTTTCCAAAAATATTTTTTGAAAACTTTGATTTT
1 CAAGAAAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTGAAAACTTTGATTTT
* * * *
11619875 CAAGGAAAATTGATACTTTTAACTTTTCCCAAAAAATGTTTTTTGGAAACTTTGATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCC-AAAAATATTTTTTGAAAACTTTGATTTT
*
11619934 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAA
1 CAAGAAAAATTGATACTTTCAACTTTTCC-CAAAAA
11619970 CCCTTTTTTT
Statistics
Matches: 290, Mismatches: 25, Indels: 30
0.84 0.07 0.09
Matches are distributed among these distances:
56 1 0.00
57 13 0.04
58 58 0.20
59 195 0.67
60 15 0.05
61 7 0.02
62 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.43
Consensus pattern (58 bp):
CAAGAAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTGAAAACTTTGATTTT
Found at i:11619832 original size:118 final size:118
Alignment explanation
Indices: 11619582--11619960 Score: 573
Period size: 118 Copynumber: 3.2 Consensus size: 118
11619572 TTTTTTATGC
* * * * *
11619582 AAGAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGAAAACTTTTAATTTCGAGAAA
1 AAGAAAAATTGATACTTTCAACTTTTTTCCAAAAATATTTTTTGAAAACTTTGATTTTCAAGGAA
* * *
11619647 AATTGATACTTTCAACTTTTCCTCAAAAATCC-TTTTTTAAAAATTTATTTTT
66 AATTGATACTTTCAACTTTTCCTCAAAAAACCTTTTTTTGAAATTTTATTTTT
* *
11619699 AAGAAAAATTGATACTTTCAACTTTTTTCCAAAAATGTTTTTTGGAAACTTTGATTTTCAAGGAA
1 AAGAAAAATTGATACTTTCAACTTTTTTCCAAAAATATTTTTTGAAAACTTTGATTTTCAAGGAA
*
11619764 AATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAATTTTATTTTT
66 AATTGATACTTTCAACTTTTCCTCAAAAAACCTTTTTTTGAAATTTTATTTTT
11619817 AAGAAAAATTGATACTTTCAACTTTTTTCCAAAAATATTTTTTGAAAACTTTGATTTTCAAGGAA
1 AAGAAAAATTGATACTTTCAACTTTTTTCCAAAAATATTTTTTGAAAACTTTGATTTTCAAGGAA
* ** * * *
11619882 AATTGATACTTTTAACTTTTCC-CAAAAAATGTTTTTTGGAAACTTTGATTTTC
66 AATTGATACTTTCAACTTTTCCTCAAAAAACCTTTTTTTGAAA-TTTTATTTTT
*
11619935 AAGGAAAATTGATACTTTCAACTTTT
1 AAGAAAAATTGATACTTTCAACTTTT
11619961 CCTCAAAAAC
Statistics
Matches: 240, Mismatches: 20, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
117 105 0.44
118 135 0.56
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.44
Consensus pattern (118 bp):
AAGAAAAATTGATACTTTCAACTTTTTTCCAAAAATATTTTTTGAAAACTTTGATTTTCAAGGAA
AATTGATACTTTCAACTTTTCCTCAAAAAACCTTTTTTTGAAATTTTATTTTT
Found at i:11619945 original size:177 final size:176
Alignment explanation
Indices: 11619581--11619989 Score: 598
Period size: 177 Copynumber: 2.3 Consensus size: 176
11619571 GTTTTTTATG
* * *
11619581 CAAGAAAAATTGATACTTTCAACTTTTTCC-CAAAAA---TATTTTTTGAAAACTTTTAATTTCG
1 CAAGGAAAATTGATACTTTCAAC-TTTTCCTCAAAAACCCT-TTTTTTG-AAA-TTTTATTTTCA
* *
11619642 AGAAAAATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTAAAAATTTATTTTTAAGAAAAA
62 AGAAAAATTGATACTTTCAACTTTTCCTCAAAAATCATTTTTTAAAAATTTATTTTCAAGAAAAA
*
11619707 TTGATACTTTCAACTTTTTTCCAAAAATGTTTTTTGGAAACTTTGATTTT
127 TTGATACTTTCAACTTTTTCCCAAAAATGTTTTTTGGAAACTTTGATTTT
*
11619757 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAATTTTATTTTTAAGAA
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAATTTTATTTTCAAGAA
* * *
11619822 AAATTGATACTTTCAACTTTT-TTCCAAAAAT-ATTTTTTGAAAACTTTGATTTTCAAGGAAAAT
66 AAATTGATACTTTCAACTTTTCCT-CAAAAATCATTTTTT-AAAAATTT-ATTTTCAAGAAAAAT
*
11619885 TGATACTTTTAAC-TTTTCCCAAAAAATGTTTTTTGGAAACTTTGATTTT
128 TGATACTTTCAACTTTTTCCC-AAAAATGTTTTTTGGAAACTTTGATTTT
11619934 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAATTTTAT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAATTTTAT
11619990 ATATATTTTT
Statistics
Matches: 214, Mismatches: 11, Indels: 15
0.89 0.05 0.06
Matches are distributed among these distances:
175 13 0.06
176 81 0.38
177 112 0.52
178 7 0.03
179 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.44
Consensus pattern (176 bp):
CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAATTTTATTTTCAAGAA
AAATTGATACTTTCAACTTTTCCTCAAAAATCATTTTTTAAAAATTTATTTTCAAGAAAAATTGA
TACTTTCAACTTTTTCCCAAAAATGTTTTTTGGAAACTTTGATTTT
Found at i:11620018 original size:5 final size:5
Alignment explanation
Indices: 11620010--11620101 Score: 59
Period size: 5 Copynumber: 18.2 Consensus size: 5
11620000 TATTTTATTT
* *
11620010 AAATA AAAT- -AATA AAACA AAATA AAAGTGA AAATA AAA-A AAA-A AGAGTA
1 AAATA AAATA AAATA AAATA AAATA AAA-T-A AAATA AAATA AAATA A-AATA
* *
11620059 AAACAA AAATAA AAATA AAATA AAGATA AAA-A AAATT AAATA A
1 AAA-TA AAAT-A AAATA AAATA AA-ATA AAATA AAATA AAATA A
11620102 TCCTAATTTA
Statistics
Matches: 69, Mismatches: 8, Indels: 20
0.71 0.08 0.21
Matches are distributed among these distances:
3 3 0.04
4 10 0.14
5 34 0.49
6 18 0.26
7 4 0.06
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.15
Consensus pattern (5 bp):
AAATA
Found at i:11620067 original size:6 final size:6
Alignment explanation
Indices: 11620010--11620090 Score: 53
Period size: 6 Copynumber: 13.5 Consensus size: 6
11620000 TATTTTATTT
* * *
11620010 AAAT-A AAATAA TAAA-ACA AAATAA AAGTGA AAATAA AAA-AA AAAGAGTA
1 AAATAA AAATAA -AAATA-A AAATAA AAATAA AAATAA AAATAA AAATA--A
* *
11620059 AAACAA AAATAA AAAT-A AAATAA AGATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAA
11620091 AAATTAAATA
Statistics
Matches: 60, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
5 14 0.23
6 36 0.60
7 5 0.08
8 5 0.08
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.14
Consensus pattern (6 bp):
AAATAA
Found at i:11620079 original size:36 final size:38
Alignment explanation
Indices: 11620021--11620091 Score: 103
Period size: 36 Copynumber: 1.9 Consensus size: 38
11620011 AATAAAATAA
*
11620021 TAAAACAAAATAAAAGTGAAAATAAA-A-AAAAAAGAG
1 TAAAACAAAATAAAAATGAAAATAAAGATAAAAAAGAG
11620057 TAAAACAAAAATAAAAAT-AAAATAAAGATAAAAAA
1 TAAAAC-AAAATAAAAATGAAAATAAAGATAAAAAA
11620092 AATTAAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
36 14 0.45
37 11 0.35
38 6 0.19
ACGTcount: A:0.77, C:0.03, G:0.07, T:0.13
Consensus pattern (38 bp):
TAAAACAAAATAAAAATGAAAATAAAGATAAAAAAGAG
Found at i:11620090 original size:17 final size:17
Alignment explanation
Indices: 11620019--11620090 Score: 65
Period size: 17 Copynumber: 4.1 Consensus size: 17
11620009 TAAATAAAAT
11620019 AATAAAAC-AAAATAAA
1 AATAAAACAAAAATAAA
* * *
11620035 AGTGAAAATAAAAAAAAA
1 AAT-AAAACAAAAATAAA
11620053 AGAGTAAAACAAAAATAAA
1 A-A-TAAAACAAAAATAAA
* *
11620072 AATAAAATAAAGATAAA
1 AATAAAACAAAAATAAA
11620089 AA
1 AA
11620091 AAATTAAATA
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
16 2 0.05
17 19 0.43
18 9 0.20
19 13 0.30
20 1 0.02
ACGTcount: A:0.78, C:0.03, G:0.07, T:0.12
Consensus pattern (17 bp):
AATAAAACAAAAATAAA
Found at i:11621037 original size:25 final size:24
Alignment explanation
Indices: 11621007--11621070 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 24
11620997 AAAAAAAGAC
*
11621007 AAAAAAAGAAATATGATAAACGAA
1 AAAAAAAAAAATATGATAAACGAA
*
11621031 AAGAAAAAAAAACCA-GATAAACGAA
1 AA-AAAAAAAAA-TATGATAAACGAA
11621056 AAAAGAAAAAAATAT
1 AAAA-AAAAAAATAT
11621071 AACAGATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
24 5 0.15
25 27 0.82
26 1 0.03
ACGTcount: A:0.73, C:0.06, G:0.11, T:0.09
Consensus pattern (24 bp):
AAAAAAAAAAATATGATAAACGAA
Found at i:11621076 original size:29 final size:25
Alignment explanation
Indices: 11621007--11621079 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 25
11620997 AAAAAAAGAC
*
11621007 AAAAAAAGAAATATGATAAACGAAAAG
1 AAAAAAA-AAACA-GATAAACGAAAAG
*
11621034 AAAAAAAAACCAGATAAACGAAAAAAG
1 AAAAAAAAAACAGATAAACG--AAAAG
11621061 AAAAAAATATAACAGATAA
1 AAAAAAA-A-AACAGATAA
11621080 TTAAAAATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
25 8 0.21
26 3 0.08
27 19 0.49
28 1 0.03
29 8 0.21
ACGTcount: A:0.73, C:0.07, G:0.11, T:0.10
Consensus pattern (25 bp):
AAAAAAAAAACAGATAAACGAAAAG
Found at i:11621108 original size:23 final size:24
Alignment explanation
Indices: 11621082--11621188 Score: 73
Period size: 23 Copynumber: 4.5 Consensus size: 24
11621072 ACAGATAATT
11621082 AAAAATA-ATAATAAGATAAATAA
1 AAAAATATATAATAAGATAAATAA
* *
11621105 AAAAA-ATATTACAAGATAAATAA
1 AAAAATATATAATAAGATAAATAA
*
11621128 AAATAA-AAATAAATAA-ATTATAAT-A
1 AAA-AATATAT-AATAAGA-TA-AATAA
*
11621153 ATAAATATATAACT-AGATAAATAA
1 AAAAATATATAA-TAAGATAAATAA
*
11621177 AATACATATATA
1 AA-AAATATATA
11621189 GATATTAACA
Statistics
Matches: 65, Mismatches: 9, Indels: 18
0.71 0.10 0.20
Matches are distributed among these distances:
22 1 0.02
23 25 0.38
24 15 0.23
25 21 0.32
26 3 0.05
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (24 bp):
AAAAATATATAATAAGATAAATAA
Found at i:11621155 original size:17 final size:16
Alignment explanation
Indices: 11621081--11621159 Score: 54
Period size: 17 Copynumber: 4.8 Consensus size: 16
11621071 AACAGATAAT
*
11621081 TAAAAAT-AATAATAA
1 TAAAAATAAATAAAAA
* *
11621096 GATAAATAAA-AAAAA
1 TAAAAATAAATAAAAA
11621111 TATTACAAGATAAATAAAAA
1 TA--A-AA-ATAAATAAAAA
*
11621131 TAAAAATAAATAAATTA
1 TAAAAATAAATAAA-AA
*
11621148 TAATAATAAATA
1 TAAAAATAAATA
11621160 TATAACTAGA
Statistics
Matches: 50, Mismatches: 7, Indels: 12
0.72 0.10 0.17
Matches are distributed among these distances:
15 10 0.20
16 11 0.22
17 14 0.28
18 3 0.06
19 5 0.10
20 7 0.14
ACGTcount: A:0.71, C:0.01, G:0.03, T:0.25
Consensus pattern (16 bp):
TAAAAATAAATAAAAA
Found at i:11621175 original size:49 final size:45
Alignment explanation
Indices: 11621061--11621178 Score: 136
Period size: 44 Copynumber: 2.6 Consensus size: 45
11621051 ACGAAAAAAG
* *
11621061 AAAAAA-ATATAACAGATAATTAAAAATAATAATAAGATAAATAA
1 AAAAAATATATAACAGATAAATAAAAATAAAAATAAGATAAATAA
11621105 AAAAAATAT-T-ACAAGATAAATAAAAATAAAAATAA-ATAAATTATA
1 AAAAAATATATAAC-AGATAAATAAAAATAAAAATAAGATAAA-TA-A
11621150 ATAATAAATATATAACTAGATAAATAAAA
1 A-AA-AAATATATAAC-AGATAAATAAAA
11621179 TACATATATA
Statistics
Matches: 63, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
43 7 0.11
44 29 0.46
45 4 0.06
46 2 0.03
47 6 0.10
48 1 0.02
49 14 0.22
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (45 bp):
AAAAAATATATAACAGATAAATAAAAATAAAAATAAGATAAATAA
Found at i:11621295 original size:24 final size:24
Alignment explanation
Indices: 11621268--11621321 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
11621258 TAATAAATAC
11621268 ATAAAATACAAAAGAAAGAA-A-AAA
1 ATAAAATA-AAAAGAAA-AATACAAA
*
11621292 ATAAAATAAAAATAAAAATACAAA
1 ATAAAATAAAAAGAAAAATACAAA
11621316 ATAAAA
1 ATAAAA
11621322 ACTAAATTGG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 2 0.07
23 8 0.30
24 17 0.63
ACGTcount: A:0.80, C:0.04, G:0.04, T:0.13
Consensus pattern (24 bp):
ATAAAATAAAAAGAAAAATACAAA
Found at i:11621302 original size:11 final size:11
Alignment explanation
Indices: 11621245--11621321 Score: 55
Period size: 12 Copynumber: 6.2 Consensus size: 11
11621235 AATACGTAGT
11621245 AATAATAAATAAA
1 AATAA-AAAT-AA
11621258 TAATAAATACATAA
1 -AATAAA-A-ATAA
*
11621272 AATACAAAAGAA
1 AATA-AAAATAA
*
11621284 AGAAAAAAATAA
1 A-ATAAAAATAA
11621296 AATAAAAATAAA
1 AATAAAAAT-AA
11621308 AATACAAAATAA
1 AATA-AAAATAA
11621320 AA
1 AA
11621322 ACTAAATTGG
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
11 7 0.13
12 21 0.40
13 13 0.25
14 10 0.19
15 2 0.04
ACGTcount: A:0.77, C:0.04, G:0.03, T:0.17
Consensus pattern (11 bp):
AATAAAAATAA
Found at i:11621317 original size:19 final size:19
Alignment explanation
Indices: 11621270--11621327 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
11621260 ATAAATACAT
*
11621270 AAAATACAAAAGAAAGAA-A
1 AAAATACAAAATAAA-AATA
11621289 AAAAT--AAAATAAAAATA
1 AAAATACAAAATAAAAATA
11621306 AAAATACAAAATAAAAACTA
1 AAAATACAAAATAAAAA-TA
11621326 AA
1 AA
11621328 TTGGGCTTAC
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
16 2 0.06
17 13 0.38
19 15 0.44
20 4 0.12
ACGTcount: A:0.79, C:0.05, G:0.03, T:0.12
Consensus pattern (19 bp):
AAAATACAAAATAAAAATA
Found at i:11621578 original size:19 final size:19
Alignment explanation
Indices: 11621556--11621608 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
11621546 ATAATATCAT
11621556 ATCATGCAATAAATATAAA
1 ATCATGCAATAAATATAAA
*
11621575 ATCATGCAAT--ATA-ATA
1 ATCATGCAATAAATATAAA
11621591 ATCATGCAAATAAATATA
1 ATCATGC-AATAAATATA
11621609 TTAATAATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 9 0.31
17 6 0.21
19 13 0.45
20 1 0.03
ACGTcount: A:0.55, C:0.11, G:0.06, T:0.28
Consensus pattern (19 bp):
ATCATGCAATAAATATAAA
Found at i:11621606 original size:16 final size:16
Alignment explanation
Indices: 11621567--11621603 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
11621557 TCATGCAATA
11621567 AATATAA-AATCATGC
1 AATATAATAATCATGC
11621582 AATATAATAATCATGC
1 AATATAATAATCATGC
11621598 AA-ATAA
1 AATATAA
11621604 ATATATTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.57, C:0.11, G:0.05, T:0.27
Consensus pattern (16 bp):
AATATAATAATCATGC
Found at i:11621708 original size:41 final size:41
Alignment explanation
Indices: 11621657--11621882 Score: 326
Period size: 41 Copynumber: 5.5 Consensus size: 41
11621647 ATGTAATTAG
*
11621657 ACATGCAATTAAATATATAATCATGCAATTAATAATGTAAA
1 ACATGCAATTAAATATATAATCATGCAATTAACAATGTAAA
* * **
11621698 ACATGTAATTAAACACCTAATCATGCAATTAACAATGTAAA
1 ACATGCAATTAAATATATAATCATGCAATTAACAATGTAAA
* * *
11621739 ACATGCAAATAAATATATAATCATACGATTAACAATGTAAA
1 ACATGCAATTAAATATATAATCATGCAATTAACAATGTAAA
* *
11621780 ACATGCAATTAAATATATAATCATGCAATTAACAATATGAA
1 ACATGCAATTAAATATATAATCATGCAATTAACAATGTAAA
* * * *
11621821 TCATGCAATAAAATATATTATCATGCAATTAACAATATAAA
1 ACATGCAATTAAATATATAATCATGCAATTAACAATGTAAA
11621862 ACATGCAATTAAATATATAAT
1 ACATGCAATTAAATATATAAT
11621883 ACTACAAATA
Statistics
Matches: 161, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 161 1.00
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.30
Consensus pattern (41 bp):
ACATGCAATTAAATATATAATCATGCAATTAACAATGTAAA
Found at i:11622008 original size:20 final size:20
Alignment explanation
Indices: 11621985--11622032 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
11621975 AATCAAATAA
**
11621985 ATTAATAATCATGTAAACAT
1 ATTAATAATCATACAAACAT
* *
11622005 ATTAATAGTCATACAAATAT
1 ATTAATAATCATACAAACAT
11622025 ATTAATAA
1 ATTAATAA
11622033 ATAAATACCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.35
Consensus pattern (20 bp):
ATTAATAATCATACAAACAT
Found at i:11622647 original size:12 final size:12
Alignment explanation
Indices: 11622626--11622664 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
11622616 TTAACTTAAA
11622626 AAAC-AAAAATT
1 AAACTAAAAATT
11622637 AAACTAAAAATT
1 AAACTAAAAATT
11622649 AAACTAACAAATT
1 AAACTAA-AAATT
11622662 AAA
1 AAA
11622665 ATACAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 4 0.15
12 14 0.54
13 8 0.31
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (12 bp):
AAACTAAAAATT
Found at i:11623750 original size:40 final size:40
Alignment explanation
Indices: 11623684--11623777 Score: 125
Period size: 40 Copynumber: 2.4 Consensus size: 40
11623674 TGTTGCATTT
* ** * *
11623684 CATGAACAAAATTGTATTTGTTTTCATTGTCATTTGTACA
1 CATGAACATAATTGTATTTGCATTCATTGTCAATTGCACA
* *
11623724 CATGAACATAATTGTGTTTGCATTCATTTTCAATTGCACA
1 CATGAACATAATTGTATTTGCATTCATTGTCAATTGCACA
11623764 CATGAACATAATTG
1 CATGAACATAATTG
11623778 CGTCTCACCT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (40 bp):
CATGAACATAATTGTATTTGCATTCATTGTCAATTGCACA
Found at i:11624252 original size:20 final size:20
Alignment explanation
Indices: 11624227--11624296 Score: 63
Period size: 19 Copynumber: 3.6 Consensus size: 20
11624217 TCTTTAAAAG
11624227 AAAATTTTAAAAAAATTCTA
1 AAAATTTTAAAAAAATTCTA
* *
11624247 AAAA-TTTCAAAACATTCTA
1 AAAATTTTAAAAAAATTCTA
* * ** *
11624266 AAATTTTTTACCAAATTC-C
1 AAAATTTTAAAAAAATTCTA
11624285 AAAATTTTAAAA
1 AAAATTTTAAAA
11624297 TTTTGTTAAA
Statistics
Matches: 37, Mismatches: 12, Indels: 3
0.71 0.23 0.06
Matches are distributed among these distances:
19 24 0.65
20 13 0.35
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAATTTTAAAAAAATTCTA
Found at i:11624382 original size:19 final size:19
Alignment explanation
Indices: 11624360--11624425 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 19
11624350 ACTAATTTTT
* *
11624360 TTTTAAAAGTTCTAACAAA
1 TTTTAAAACTTCTAAAAAA
*
11624379 TTTTAAAATTTTCTAAAAAA
1 TTTTAAAA-CTTCTAAAAAA
* * *
11624399 ATTAAAAACTTCAAAAAAA
1 TTTTAAAACTTCTAAAAAA
11624418 TTTTAAAA
1 TTTTAAAA
11624426 AGCTAAAAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
19 23 0.61
20 15 0.39
ACGTcount: A:0.55, C:0.08, G:0.02, T:0.36
Consensus pattern (19 bp):
TTTTAAAACTTCTAAAAAA
Found at i:11624426 original size:20 final size:21
Alignment explanation
Indices: 11624359--11624426 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 21
11624349 TACTAATTTT
* * *
11624359 TTTTTAAAAGTTCT-AACAAA
1 TTTTAAAAACTTCTAAAAAAA
**
11624379 TTTTAAAATTTTCTAAAAAAA
1 TTTTAAAAACTTCTAAAAAAA
11624400 --TTAAAAACTTC-AAAAAAA
1 TTTTAAAAACTTCTAAAAAAA
11624418 TTTTAAAAA
1 TTTTAAAAA
11624427 GCTAAAAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 7 0.18
19 9 0.23
20 18 0.46
21 5 0.13
ACGTcount: A:0.54, C:0.07, G:0.01, T:0.37
Consensus pattern (21 bp):
TTTTAAAAACTTCTAAAAAAA
Found at i:11624696 original size:20 final size:19
Alignment explanation
Indices: 11624660--11624707 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
11624650 AAATTATCAT
*
11624660 AATTTGAAAA-GTTTTAAA
1 AATTTGAAAACTTTTTAAA
11624678 AATTGTGAAAACTTTTTAAA
1 AATT-TGAAAACTTTTTAAA
*
11624698 TATTTGAAAA
1 AATTTGAAAA
11624708 AAAATAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 4 0.15
19 12 0.46
20 10 0.38
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (19 bp):
AATTTGAAAACTTTTTAAA
Found at i:11624708 original size:20 final size:20
Alignment explanation
Indices: 11624671--11624707 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11624661 ATTTGAAAAG
11624671 TTTTAAAAATTGTGAAAACT
1 TTTTAAAAATTGTGAAAACT
*
11624691 TTTTAAATATT-TGAAAA
1 TTTTAAAAATTGTGAAAA
11624708 AAAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (20 bp):
TTTTAAAAATTGTGAAAACT
Found at i:11624937 original size:18 final size:18
Alignment explanation
Indices: 11624897--11624929 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11624887 TAGAAATCCA
11624897 AAAAATTTAAAACAATTT
1 AAAAATTTAAAACAATTT
11624915 AAAAA-TTAAAA-AATT
1 AAAAATTTAAAACAATT
11624930 ATATAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 6 0.40
18 5 0.33
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (18 bp):
AAAAATTTAAAACAATTT
Found at i:11625291 original size:21 final size:20
Alignment explanation
Indices: 11625265--11625309 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
11625255 GTTTTTTAAA
*
11625265 AAAATTAGTTTAGAATTTTTG
1 AAAATTAG-TTAGAATTTTTC
* *
11625286 AAAATTTGTTATAATTTTTC
1 AAAATTAGTTAGAATTTTTC
11625306 AAAA
1 AAAA
11625310 ATTTTTGGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.47
Consensus pattern (20 bp):
AAAATTAGTTAGAATTTTTC
Found at i:11625310 original size:21 final size:21
Alignment explanation
Indices: 11625264--11625313 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
11625254 AGTTTTTTAA
*
11625264 AAAAATTAGTTTAGAATTTTT
1 AAAAATTTGTTTAGAATTTTT
* *
11625285 GAAAATTTG-TTATAATTTTT
1 AAAAATTTGTTTAGAATTTTT
11625305 CAAAAATTT
1 -AAAAATTT
11625314 TTGGAAAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (21 bp):
AAAAATTTGTTTAGAATTTTT
Found at i:11625457 original size:10 final size:9
Alignment explanation
Indices: 11625376--11625472 Score: 54
Period size: 9 Copynumber: 10.4 Consensus size: 9
11625366 ATTTCAAGAA
11625376 AATTTTTTT
1 AATTTTTTT
11625385 AAGTTCTTTTT
1 AA-TT-TTTTT
**
11625396 AGAATTTTTAG
1 --AATTTTTTT
* *
11625407 AATTTCTTA
1 AATTTTTTT
*
11625416 AAATTTTTT
1 AATTTTTTT
*
11625425 AAATTTTTT
1 AATTTTTTT
*
11625434 --TTTTTTG
1 AATTTTTTT
*
11625441 AAGTTTTTT
1 AATTTTTTT
11625450 ATATTTTTTT
1 A-ATTTTTTT
*
11625460 AATTTTTAT
1 AATTTTTTT
11625469 AATT
1 AATT
11625473 CTTACAAATT
Statistics
Matches: 67, Mismatches: 14, Indels: 14
0.71 0.15 0.15
Matches are distributed among these distances:
7 5 0.07
9 40 0.60
10 10 0.15
11 8 0.12
12 2 0.03
13 2 0.03
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (9 bp):
AATTTTTTT
Found at i:11625507 original size:11 final size:11
Alignment explanation
Indices: 11625491--11625515 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11625481 TTCTAAAGAA
11625491 TTTTTAGAATT
1 TTTTTAGAATT
11625502 TTTTTAGAATT
1 TTTTTAGAATT
11625513 TTT
1 TTT
11625516 CTTTTAAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (11 bp):
TTTTTAGAATT
Found at i:11625862 original size:23 final size:24
Alignment explanation
Indices: 11625836--11625890 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
11625826 ATTTATTTAA
11625836 TTATA-TATATGT-ATTTTATATTT
1 TTATATTA-ATGTAATTTTATATTT
*
11625859 TTATATTAATTTAATTTTATATTT
1 TTATATTAATGTAATTTTATATTT
*
11625883 ATAT-TTAA
1 TTATATTAA
11625891 AAAAATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 12 0.43
24 16 0.57
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (24 bp):
TTATATTAATGTAATTTTATATTT
Found at i:11625863 original size:19 final size:16
Alignment explanation
Indices: 11625807--11625881 Score: 55
Period size: 16 Copynumber: 4.4 Consensus size: 16
11625797 CGACCCAGTA
11625807 TATATATAATTT--TTT
1 TATAT-TAATTTAATTT
*
11625822 TATTATTTATTTAATTAT
1 TA-TATTAATTTAATT-T
*
11625840 ATATATGTATTTTATATTTT
1 -TATAT-TAATTTA-A-TTT
11625860 TATATTAATTTAATTT
1 TATATTAATTTAATTT
11625876 TATATT
1 TATATT
11625882 TATATTTAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
15 7 0.15
16 12 0.25
17 3 0.06
18 10 0.21
19 12 0.25
20 2 0.04
21 2 0.04
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.65
Consensus pattern (16 bp):
TATATTAATTTAATTT
Found at i:11625888 original size:18 final size:18
Alignment explanation
Indices: 11625829--11625890 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 18
11625819 TTTTATTATT
*
11625829 TATTTAATTATATATATGTA
1 TATTTAATT-T-TATATTTA
11625849 T-TTTATATTTT-TATATTA
1 TATTTA-ATTTTATAT-TTA
11625867 -ATTTAATTTTATATTTA
1 TATTTAATTTTATATTTA
11625884 TATTTAA
1 TATTTAA
11625891 AAAAATATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 12
0.73 0.02 0.24
Matches are distributed among these distances:
17 11 0.31
18 16 0.44
19 5 0.14
20 4 0.11
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
TATTTAATTTTATATTTA
Found at i:11625923 original size:19 final size:19
Alignment explanation
Indices: 11625877--11625923 Score: 71
Period size: 18 Copynumber: 2.6 Consensus size: 19
11625867 ATTTAATTTT
11625877 ATATTTATAT-TTAAAAAA
1 ATATTTATATATTAAAAAA
*
11625895 ATATTT-TATATTAAAAAG
1 ATATTTATATATTAAAAAA
11625913 ATATTTATATA
1 ATATTTATATA
11625924 AAAATTAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 3 0.12
18 19 0.73
19 4 0.15
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (19 bp):
ATATTTATATATTAAAAAA
Found at i:11629389 original size:2 final size:2
Alignment explanation
Indices: 11629382--11629419 Score: 51
Period size: 2 Copynumber: 19.0 Consensus size: 2
11629372 CCTAATTTCA
*
11629382 AT AT AT AT AT TT GA- AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT
11629420 TTGAAACAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11629398 original size:14 final size:14
Alignment explanation
Indices: 11629376--11629424 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
11629366 TAGTATCCTA
*
11629376 ATTTCAATATATAT
1 ATTTGAATATATAT
11629390 ATTTGAATATATAT
1 ATTTGAATATATAT
*
11629404 ATAT-ATATATATAT
1 ATTTGA-ATATATAT
11629418 ATTTGAA
1 ATTTGAA
11629425 ACAGAAACCT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 1 0.03
14 28 0.93
15 1 0.03
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (14 bp):
ATTTGAATATATAT
Found at i:11633758 original size:3 final size:3
Alignment explanation
Indices: 11633750--11633784 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
11633740 CTCTTAAAAC
11633750 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
11633785 CAATTACAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:11634718 original size:122 final size:120
Alignment explanation
Indices: 11634501--11634728 Score: 377
Period size: 122 Copynumber: 1.9 Consensus size: 120
11634491 ATCATTCAGT
* *
11634501 ACTAATCCACTGTTACCGAGACAAGTATTGCAAGCAATTAAATTCATTGTACTAATAATTTATCA
1 ACTAATCCACTGTTACCAAGACAAGTATTGCAAGCAATTAAATTCATAGTACTAATAATTTATCA
**
11634566 TATATCATTTAGCCGTTATTTTCTTAAGTTTTAATCTTTATATATATATATATACAC
66 TATATCATTTAGCAATTATTTTCTTAAGTTTT-A-CTTTATATATATATATATACAC
*
11634623 ACTAATCCACTGTTACCAAGACTAAGTA-TGCAAGTAATTAAATTCATAGTACTAATAATTTATC
1 ACTAATCCACTGTTACCAAGAC-AAGTATTGCAAGCAATTAAATTCATAGTACTAATAATTTATC
11634687 ATATATCATTTAGCAATTATTTTCTTAAGTTTTACTTTATAT
65 ATATATCATTTAGCAATTATTTTCTTAAGTTTTACTTTATAT
11634729 CATTATTTCA
Statistics
Matches: 100, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
120 8 0.08
121 1 0.01
122 86 0.86
123 5 0.05
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.41
Consensus pattern (120 bp):
ACTAATCCACTGTTACCAAGACAAGTATTGCAAGCAATTAAATTCATAGTACTAATAATTTATCA
TATATCATTTAGCAATTATTTTCTTAAGTTTTACTTTATATATATATATATACAC
Found at i:11635649 original size:18 final size:18
Alignment explanation
Indices: 11635626--11635661 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11635616 CTCCCTCTTC
* *
11635626 CTTTTTTTCTTTTCTTTT
1 CTTTTTTCCCTTTCTTTT
11635644 CTTTTTTCCCTTTCTTTT
1 CTTTTTTCCCTTTCTTTT
11635662 AGAAGTGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (18 bp):
CTTTTTTCCCTTTCTTTT
Found at i:11636442 original size:2 final size:2
Alignment explanation
Indices: 11636430--11636460 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
11636420 AGCTAAAAGC
*
11636430 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11636461 TTTAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:11637504 original size:17 final size:17
Alignment explanation
Indices: 11637482--11637516 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
11637472 AATTAAATTA
*
11637482 TAATATTTTATTAATAT
1 TAATATATTATTAATAT
*
11637499 TAATATATTATTTATAT
1 TAATATATTATTAATAT
11637516 T
1 T
11637517 TCTAAAGGTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TAATATATTATTAATAT
Found at i:11638892 original size:7 final size:7
Alignment explanation
Indices: 11638880--11638908 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
11638870 TATATTTATT
11638880 AAATTTA
1 AAATTTA
11638887 AAATTTA
1 AAATTTA
11638894 AAATTTA
1 AAATTTA
11638901 AAATTTA
1 AAATTTA
11638908 A
1 A
11638909 TACTTATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
AAATTTA
Found at i:11638919 original size:21 final size:21
Alignment explanation
Indices: 11638880--11638920 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
11638870 TATATTTATT
*
11638880 AAATTTAAAATTTAAAATTTA
1 AAATTTAAAACTTAAAATTTA
* *
11638901 AAATTTAATACTTATAATTT
1 AAATTTAAAACTTAAAATTT
11638921 TTTTATTCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
AAATTTAAAACTTAAAATTTA
Found at i:11639754 original size:93 final size:94
Alignment explanation
Indices: 11639589--11639767 Score: 240
Period size: 93 Copynumber: 1.9 Consensus size: 94
11639579 ACACTAGACA
* *
11639589 AGATTAAAAGAATCCCTTAAGGATTCTTCGTTGACACTTGTCCAATATTACCAAATTATAAACAT
1 AGATTAAAAGAATCACTTAAGGATTCTTCGTCGACACTTGTCCAATATTACCAAATTATAAACAT
*
11639654 ACACTTATTCCTCATT-ATATACTACACT
66 ACACTTATTCATCATTCATATACTACACT
* * **
11639682 AGATTAAAAGACT-ACTTAAGGATTC-TCTGTGCGACACTTGTCCAATATTACCAAATTATTATT
1 AGATTAAAAGAATCACTTAAGGATTCTTC-GT-CGACACTTGTCCAATATTACCAAATTATAAAC
11639745 ATA-ACCTTATTCATCATTCATAT
64 ATACA-CTTATTCATCATTCATAT
11639768 TCCAATGACT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
91 2 0.03
92 14 0.19
93 55 0.73
94 4 0.05
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (94 bp):
AGATTAAAAGAATCACTTAAGGATTCTTCGTCGACACTTGTCCAATATTACCAAATTATAAACAT
ACACTTATTCATCATTCATATACTACACT
Done.