Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 35 of 126
Found at i:7290040 original size:25 final size:24
Alignment explanation
Indices: 7289995--7290041 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
7289985 ACATAACATA
* *
7289995 ATAAATACAAGGCACAGTATAATC
1 ATAAATACAAGGAACAATATAATC
*
7290019 ATAATATATAAGGAACAATATAA
1 ATAA-ATACAAGGAACAATATAA
7290042 AGGGTTAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 4 0.21
25 15 0.79
ACGTcount: A:0.55, C:0.11, G:0.11, T:0.23
Consensus pattern (24 bp):
ATAAATACAAGGAACAATATAATC
Found at i:7291090 original size:20 final size:19
Alignment explanation
Indices: 7291064--7291175 Score: 58
Period size: 20 Copynumber: 5.9 Consensus size: 19
7291054 TTCATACAAA
7291064 ATATCATGCAAATATATTAT
1 ATATCATGC-AATATATTAT
* *
7291084 TTATCATGCAATA-ATCAT
1 ATATCATGCAATATATTAT
*
7291102 GTA--AT--AATATA-TA-
1 ATATCATGCAATATATTAT
7291115 ATATCATGCAAAAATATATTAT
1 ATATCATGC---AATATATTAT
* * *
7291137 TTATCATGCAATAATATAAA
1 ATATCATGCAAT-ATATTAT
*
7291157 ATACCATGCAAATATATTA
1 ATATCATGC-AATATATTA
7291176 ATAACCATTC
Statistics
Matches: 69, Mismatches: 11, Indels: 24
0.66 0.11 0.23
Matches are distributed among these distances:
13 2 0.03
14 5 0.07
15 3 0.04
16 2 0.03
18 6 0.09
19 7 0.10
20 31 0.45
21 5 0.07
22 8 0.12
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.37
Consensus pattern (19 bp):
ATATCATGCAATATATTAT
Found at i:7291133 original size:22 final size:22
Alignment explanation
Indices: 7291108--7291173 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 22
7291098 TCATGTAATA
7291108 ATATATAATATCATGCAAAAAT
1 ATATATAATATCATGCAAAAAT
* *
7291130 ATAT-TATTTATCATGCAATAAT
1 ATATATA-ATATCATGCAAAAAT
* *
7291152 ATA-A-AATACCATGCAAATAT
1 ATATATAATATCATGCAAAAAT
7291172 AT
1 AT
7291174 TAATAACCAT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
20 13 0.36
21 3 0.08
22 20 0.56
ACGTcount: A:0.50, C:0.11, G:0.05, T:0.35
Consensus pattern (22 bp):
ATATATAATATCATGCAAAAAT
Found at i:7291171 original size:53 final size:50
Alignment explanation
Indices: 7291057--7291159 Score: 136
Period size: 53 Copynumber: 2.0 Consensus size: 50
7291047 AAAAATATTC
**
7291057 ATACAAAATATCATGCAAATATATTATTTATCATGCAATAATCATGTAATA
1 ATAC-AAATATCATGCAAATATATTATTTATCATGCAATAATCATAAAATA
*
7291108 ATATATAATATCATGCAAAAATATATTATTTATCATGCAATAAT-ATAAAATA
1 ATACA-AATATCATGC--AAATATATTATTTATCATGCAATAATCATAAAATA
7291160 CCATGCAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
50 1 0.02
51 13 0.28
52 6 0.13
53 26 0.57
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.36
Consensus pattern (50 bp):
ATACAAATATCATGCAAATATATTATTTATCATGCAATAATCATAAAATA
Found at i:7291318 original size:16 final size:16
Alignment explanation
Indices: 7291277--7291318 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
7291267 TGCACCCAAT
* *
7291277 AAATATAAAAACATGC
1 AAATATAATATCATGC
*
7291293 AATTAT-ATATCATGC
1 AAATATAATATCATGC
7291308 AAATATAATAT
1 AAATATAATAT
7291319 TAATCACGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.55, C:0.10, G:0.05, T:0.31
Consensus pattern (16 bp):
AAATATAATATCATGC
Found at i:7291549 original size:24 final size:24
Alignment explanation
Indices: 7291516--7291612 Score: 77
Period size: 24 Copynumber: 3.7 Consensus size: 24
7291506 AAAAATAAAA
*
7291516 AATAACCATGCAAATAAATATATT
1 AATAATCATGCAAATAAATATATT
*
7291540 AATAATCATGCAATCACACAAATAAATATTTT
1 AATAATCATG--------CAAATAAATATATT
* *
7291572 AACAATTATGCAAATAAATATATT
1 AATAATCATGCAAATAAATATATT
*
7291596 AATAATAATGCAAATAA
1 AATAATCATGCAAATAA
7291613 TCATGCAAAC
Statistics
Matches: 58, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
24 37 0.64
32 21 0.36
ACGTcount: A:0.55, C:0.11, G:0.04, T:0.30
Consensus pattern (24 bp):
AATAATCATGCAAATAAATATATT
Found at i:7291562 original size:32 final size:32
Alignment explanation
Indices: 7291526--7291644 Score: 92
Period size: 36 Copynumber: 3.8 Consensus size: 32
7291516 AATAACCATG
*
7291526 CAAATAAATATATTAATAATCATGCAATCACA
1 CAAATAAATATATTAATAATCATGCAATAACA
* **
7291558 CAAATAAATAT-TT--T-A--A--CAATTATG
1 CAAATAAATATATTAATAATCATGCAATAACA
*
7291582 CAAATAAATATATTAATAATAATGCAAATAATCA
1 CAAATAAATATATTAATAATCATGC-AATAA-CA
*
7291616 TGCAAACAAATATATTAATAATCATGCAA
1 --CAAATAAATATATTAATAATCATGCAA
7291645 ATAAATATAT
Statistics
Matches: 67, Mismatches: 8, Indels: 21
0.70 0.08 0.22
Matches are distributed among these distances:
24 16 0.24
25 2 0.03
26 1 0.01
27 1 0.01
28 2 0.03
29 1 0.01
30 1 0.01
31 2 0.03
32 12 0.18
33 4 0.06
35 2 0.03
36 23 0.34
ACGTcount: A:0.54, C:0.12, G:0.04, T:0.30
Consensus pattern (32 bp):
CAAATAAATATATTAATAATCATGCAATAACA
Found at i:7291635 original size:24 final size:24
Alignment explanation
Indices: 7291608--7291669 Score: 106
Period size: 24 Copynumber: 2.6 Consensus size: 24
7291598 TAATAATGCA
7291608 AATAATCATGCAAACAAATATATT
1 AATAATCATGCAAACAAATATATT
*
7291632 AATAATCATGCAAATAAATATATT
1 AATAATCATGCAAACAAATATATT
*
7291656 AATAATCAAGCAAA
1 AATAATCATGCAAA
7291670 AACATGCAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.56, C:0.11, G:0.05, T:0.27
Consensus pattern (24 bp):
AATAATCATGCAAACAAATATATT
Found at i:7291643 original size:60 final size:59
Alignment explanation
Indices: 7291516--7291678 Score: 210
Period size: 60 Copynumber: 2.8 Consensus size: 59
7291506 AAAAATAAAA
* * * * *
7291516 AATAACCATGCAAATAAATATATTAATAATCATGC-AATCACA--CAAATAAATATTTT
1 AATAATCATGCAAATAAATATATTAATAATAATGCAAATAACATGCAAACAAATATATT
* *
7291572 AACAATTATGCAAATAAATATATTAATAATAATGCAAATAATCATGCAAACAAATATATT
1 AATAATCATGCAAATAAATATATTAATAATAATGCAAATAA-CATGCAAACAAATATATT
7291632 AATAATCATGCAAATAAATATATTAATAATCAA-GCAAA-AACATGCAA
1 AATAATCATGCAAATAAATATATTAATAAT-AATGCAAATAACATGCAA
7291679 TTATGTAAAA
Statistics
Matches: 93, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
56 31 0.33
57 4 0.04
58 9 0.10
59 2 0.02
60 45 0.48
61 2 0.02
ACGTcount: A:0.55, C:0.12, G:0.05, T:0.28
Consensus pattern (59 bp):
AATAATCATGCAAATAAATATATTAATAATAATGCAAATAACATGCAAACAAATATATT
Found at i:7291646 original size:36 final size:36
Alignment explanation
Indices: 7291579--7291648 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
7291569 TTTAACAATT
*
7291579 ATGCAAATAAATATATTAATAATAATGCAAATAATC
1 ATGCAAACAAATATATTAATAATAATGCAAATAATC
*
7291615 ATGCAAACAAATATATTAATAATCATGCAAATAA
1 ATGCAAACAAATATATTAATAATAATGCAAATAA
7291649 ATATATTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.56, C:0.10, G:0.06, T:0.29
Consensus pattern (36 bp):
ATGCAAACAAATATATTAATAATAATGCAAATAATC
Found at i:7291788 original size:21 final size:21
Alignment explanation
Indices: 7291764--7291806 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
7291754 ATAATTAATT
7291764 AATTAAAAAAACAAAATAAAA
1 AATTAAAAAAACAAAATAAAA
* * *
7291785 AATTAGAAAACCAAAATCAAA
1 AATTAAAAAAACAAAATAAAA
7291806 A
1 A
7291807 TAAAAATTAA
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:0.74, C:0.09, G:0.02, T:0.14
Consensus pattern (21 bp):
AATTAAAAAAACAAAATAAAA
Found at i:7292354 original size:25 final size:25
Alignment explanation
Indices: 7292304--7292354 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
7292294 GATACGTAAA
* *
7292304 CAAACTTAGAATCAACTTTAATAAC
1 CAAACTTAAAATCAACTTTAACAAC
*
7292329 CAAACTTAAAATCAACTTTAGCAAC
1 CAAACTTAAAATCAACTTTAACAAC
7292354 C
1 C
7292355 TAGAACTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.47, C:0.24, G:0.04, T:0.25
Consensus pattern (25 bp):
CAAACTTAAAATCAACTTTAACAAC
Found at i:7293033 original size:13 final size:13
Alignment explanation
Indices: 7293015--7293054 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
7293005 GCCATTTAAA
7293015 AAAATTAAAAATC
1 AAAATTAAAAATC
**
7293028 CTAATTAAAAATC
1 AAAATTAAAAATC
7293041 AAAATT-AAAATC
1 AAAATTAAAAATC
7293053 AA
1 AA
7293055 GGTTCAAGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
12 8 0.35
13 15 0.65
ACGTcount: A:0.65, C:0.10, G:0.00, T:0.25
Consensus pattern (13 bp):
AAAATTAAAAATC
Found at i:7293035 original size:22 final size:21
Alignment explanation
Indices: 7292993--7293038 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
7292983 AATCAAAATT
*
7292993 AAAAACTAAAAAGCCATTTAA
1 AAAAACTAAAAAGCCAATTAA
* *
7293014 AAAAATTAAAAATCCTAATTAA
1 AAAAACTAAAAAGCC-AATTAA
7293036 AAA
1 AAA
7293039 TCAAAATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.65, C:0.11, G:0.02, T:0.22
Consensus pattern (21 bp):
AAAAACTAAAAAGCCAATTAA
Found at i:7295309 original size:41 final size:41
Alignment explanation
Indices: 7295252--7295330 Score: 142
Period size: 41 Copynumber: 1.9 Consensus size: 41
7295242 CTTAGGTTAA
7295252 AGAATATCCTACAATGGAATCCAATGAACAG-TGTTGTTGTT
1 AGAATATCCTACAATGGAATCCAATGAAC-GTTGTTGTTGTT
7295293 AGAATATCCTACAATGGAATCCAATGAACGTTGTTGTT
1 AGAATATCCTACAATGGAATCCAATGAACGTTGTTGTT
7295331 ATCAAACAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
40 1 0.03
41 36 0.97
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (41 bp):
AGAATATCCTACAATGGAATCCAATGAACGTTGTTGTTGTT
Found at i:7310495 original size:24 final size:25
Alignment explanation
Indices: 7310457--7310509 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
7310447 TTTTTTACAT
* * *
7310457 TAAAAATCTTGAAATTTTAATTTTA
1 TAAAAATCTTAAAATGTTAATATTA
7310482 TAAAAAT-TTAAAATGTTAATATTA
1 TAAAAATCTTAAAATGTTAATATTA
7310506 -AAAA
1 TAAAA
7310510 CATTCAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 4 0.16
24 14 0.56
25 7 0.28
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (25 bp):
TAAAAATCTTAAAATGTTAATATTA
Found at i:7316207 original size:3 final size:3
Alignment explanation
Indices: 7316199--7316229 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
7316189 CACACTTTAC
7316199 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
7316230 ATAAATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:7320665 original size:16 final size:16
Alignment explanation
Indices: 7320635--7320664 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7320625 TTGTTCAAAT
7320635 TTTGTGAGTTATTTTC
1 TTTGTGAGTTATTTTC
7320651 TTTGTGAGTT-TTTT
1 TTTGTGAGTTATTTT
7320665 TATTTATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.10, C:0.03, G:0.20, T:0.67
Consensus pattern (16 bp):
TTTGTGAGTTATTTTC
Found at i:7327465 original size:23 final size:23
Alignment explanation
Indices: 7327430--7327474 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
7327420 TGTCAAAAGA
7327430 AAAATCATCAAAGTAAA-ATAAAC
1 AAAATCATCAAAG-AAATATAAAC
7327453 AAAATCA-CAAAAGAAATATAAA
1 AAAATCATC-AAAGAAATATAAA
7327475 TCTTAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.69, C:0.11, G:0.04, T:0.16
Consensus pattern (23 bp):
AAAATCATCAAAGAAATATAAAC
Found at i:7327884 original size:23 final size:23
Alignment explanation
Indices: 7327847--7327900 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
7327837 TTTCTTTTCA
*
7327847 TTTTTTATTTTATAGATGA-TTT
1 TTTTTTATTTAATAGATGAGTTT
*
7327869 TTTTTTAGTTTAATAGATTAGTTT
1 TTTTTTA-TTTAATAGATGAGTTT
7327893 TATTTTTA
1 T-TTTTTA
7327901 ATTTCAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 7 0.26
23 10 0.37
24 4 0.15
25 6 0.22
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.67
Consensus pattern (23 bp):
TTTTTTATTTAATAGATGAGTTT
Found at i:7329691 original size:12 final size:13
Alignment explanation
Indices: 7329642--7329708 Score: 57
Period size: 12 Copynumber: 4.8 Consensus size: 13
7329632 ATAATTTTGC
7329642 TTATAAATAAATTA
1 TTATAAAT-AATTA
7329656 TACTAATAAATAATATA
1 T--T-ATAAATAAT-TA
7329673 TTAATAAAT-ATTA
1 TT-ATAAATAATTA
*
7329686 TTATAAATAAATA
1 TTATAAATAATTA
7329699 TTAT-AATAAT
1 TTATAAATAAT
7329709 AAATTATATA
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
12 11 0.24
13 11 0.24
14 3 0.07
15 8 0.17
16 4 0.09
17 9 0.20
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (13 bp):
TTATAAATAATTA
Found at i:7329698 original size:31 final size:31
Alignment explanation
Indices: 7329660--7329863 Score: 114
Period size: 31 Copynumber: 6.1 Consensus size: 31
7329650 AAATTATACT
7329660 AATAAATAATATATTAATAAATATTATTATA
1 AATAAATAATATATTAATAAATATTATTATA
* *
7329691 AATAAATATTATAATAATAAATTATATATTATTA
1 AATAAATAATATATTAATAAA-TAT-TATTA-TA
* *
7329725 AATAATATAACAAATATT-ATTAAT-TTATTAATA
1 AATAA-AT-A-ATATATTAATAAATATTATT-ATA
* *
7329758 ATATTATAATAATATATTAATAAATAATATATTGTT
1 A-A-TA-AATAATATATTAATAAAT-AT-TATTATA
* *
7329794 AATAAATAATACACTGTTAATATAATA-TACTAATA
1 AATAAATAAT--A-TATTAATA-AATATTA-TTATA
7329829 AAT-AAT-ATACTATTAATATAATA-TATTAATA
1 AATAAATAATA-TATTAATA-AATATTATT-ATA
7329860 AATA
1 AATA
7329864 TTATTAAAAA
Statistics
Matches: 136, Mismatches: 16, Indels: 41
0.70 0.08 0.21
Matches are distributed among these distances:
30 1 0.01
31 41 0.30
32 3 0.02
33 26 0.19
34 23 0.17
35 14 0.10
36 17 0.12
37 11 0.08
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (31 bp):
AATAAATAATATATTAATAAATATTATTATA
Found at i:7329759 original size:11 final size:11
Alignment explanation
Indices: 7329739--7329780 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
7329729 ATATAACAAA
*
7329739 TATTATTAATT
1 TATTAATAATT
7329750 TATTAATAATAT
1 TATTAATAAT-T
*
7329762 TA-TAATAATA
1 TATTAATAATT
7329772 TATTAATAA
1 TATTAATAA
7329781 ATAATATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 2 0.07
11 22 0.81
12 3 0.11
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
TATTAATAATT
Found at i:7329846 original size:26 final size:26
Alignment explanation
Indices: 7329816--7329904 Score: 69
Period size: 26 Copynumber: 3.5 Consensus size: 26
7329806 ACTGTTAATA
*
7329816 TAATATACTA-ATAAATAATATACTAT
1 TAATATAATATATAAATAA-ATACTAT
* *
7329842 TAATATAATATATTAATAAATATTAT
1 TAATATAATATATAAATAAATACTAT
* * *
7329868 TAA-AAAATA-ATATATTAATA-TAT
1 TAATATAATATATAAATAAATACTAT
7329891 TAATAAGTAATATA
1 TAAT-A-TAATATA
7329905 AAGAATAATA
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
23 6 0.12
24 8 0.16
25 6 0.12
26 22 0.44
27 8 0.16
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.40
Consensus pattern (26 bp):
TAATATAATATATAAATAAATACTAT
Found at i:7329887 original size:36 final size:35
Alignment explanation
Indices: 7329847--7329914 Score: 100
Period size: 36 Copynumber: 1.9 Consensus size: 35
7329837 ACTATTAATA
*
7329847 TAATATATTAATAAATATTATTAAAAAATAATATAT
1 TAATATATTAATAAATAATA-TAAAAAATAATATAT
* *
7329883 TAATATATTAATAAGTAATATAAAGAATAATA
1 TAATATATTAATAAATAATATAAAAAATAATA
7329915 AATAATTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 11 0.38
36 18 0.62
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (35 bp):
TAATATATTAATAAATAATATAAAAAATAATATAT
Found at i:7329904 original size:15 final size:15
Alignment explanation
Indices: 7329644--7329887 Score: 173
Period size: 15 Copynumber: 16.2 Consensus size: 15
7329634 AATTTTGCTT
*
7329644 ATAAATAAATTATACTA
1 ATAAAT-AA-TATATTA
7329661 ATAAATAATATATTA
1 ATAAATAATATATTA
* *
7329676 ATAAATATTATTATAA
1 ATAAATAATA-TATTA
* *
7329692 ATAAATATTATAATA
1 ATAAATAATATATTA
*
7329707 ATAAATTATATATTA
1 ATAAATAATATATTA
*
7329722 TTAAAT-A-ATA-TA
1 ATAAATAATATATTA
*
7329734 ACAAAT-AT-TATTA
1 ATAAATAATATATTA
* *
7329747 ATTTATTAATAATATT-
1 A-TAAATAAT-ATATTA
7329763 AT-AATAATATATTA
1 ATAAATAATATATTA
7329777 ATAAATAATATATTGTTA
1 ATAAATAATATA---TTA
* * *
7329795 ATAAATAATACACTG
1 ATAAATAATATATTA
* *
7329810 TTAATATAATATACTA
1 ATAA-ATAATATATTA
*
7329826 ATAAATAATATACTA
1 ATAAATAATATATTA
*
7329841 TTAATATAATATATTA
1 ATAA-ATAATATATTA
7329857 ATAAAT-AT-TATTA
1 ATAAATAATATATTA
*
7329870 AAAAATAATATATTA
1 ATAAATAATATATTA
7329885 ATA
1 ATA
7329888 TATTAATAAG
Statistics
Matches: 184, Mismatches: 27, Indels: 34
0.75 0.11 0.14
Matches are distributed among these distances:
12 9 0.05
13 21 0.11
14 14 0.08
15 74 0.40
16 42 0.23
17 10 0.05
18 14 0.08
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.41
Consensus pattern (15 bp):
ATAAATAATATATTA
Found at i:7330005 original size:15 final size:15
Alignment explanation
Indices: 7329912--7330027 Score: 56
Period size: 15 Copynumber: 7.2 Consensus size: 15
7329902 ATAAAGAATA
*
7329912 ATAAATAATTTTATT
1 ATAAATAATTTTAAT
* * *
7329927 TTAAGT-ATTTTTAT
1 ATAAATAATTTTAAT
7329941 ATTAACATAACATTTTAAT
1 A-TAA-AT-A-ATTTTAAT
*
7329960 ATTAAATATTATTATTAAA
1 A-TAAATA--ATT-TTAAT
*
7329979 ATATAAT-TTTTTAAT
1 ATA-AATAATTTTAAT
*
7329994 ATTAATAATTTTAAT
1 ATAAATAATTTTAAT
*
7330009 AATAAATAATTTCAAT
1 -ATAAATAATTTTAAT
7330025 ATA
1 ATA
7330028 TTTTAATAAT
Statistics
Matches: 76, Mismatches: 15, Indels: 20
0.68 0.14 0.18
Matches are distributed among these distances:
14 9 0.12
15 23 0.30
16 16 0.21
17 1 0.01
18 7 0.09
19 20 0.26
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.50
Consensus pattern (15 bp):
ATAAATAATTTTAAT
Found at i:7330030 original size:26 final size:26
Alignment explanation
Indices: 7329997--7330060 Score: 96
Period size: 26 Copynumber: 2.5 Consensus size: 26
7329987 TTTTAATATT
7329997 AATA-ATTTTAATAATAAATAATTTC
1 AATATATTTTAATAATAAATAATTTC
*
7330022 AATATATTTTAATAATAAATAATTTT
1 AATATATTTTAATAATAAATAATTTC
*
7330048 TA-ATATTTTAATA
1 AATATATTTTAATA
7330061 GTTATATTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 15 0.42
26 21 0.58
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (26 bp):
AATATATTTTAATAATAAATAATTTC
Found at i:7330052 original size:10 final size:9
Alignment explanation
Indices: 7329981--7330060 Score: 55
Period size: 9 Copynumber: 9.3 Consensus size: 9
7329971 TTATTAAAAT
7329981 ATAATTTT-
1 ATAATTTTA
* *
7329989 TTAATATTA
1 ATAATTTTA
7329998 ATAATTTTA
1 ATAATTTTA
*
7330007 ATAA--TAA
1 ATAATTTTA
*
7330014 ATAATTTCA
1 ATAATTTTA
7330023 ATATATTTTA
1 ATA-ATTTTA
*
7330033 ATAA--TAA
1 ATAATTTTA
7330040 ATAATTTTTA
1 ATAA-TTTTA
7330050 AT-ATTTTA
1 ATAATTTTA
7330058 ATA
1 ATA
7330061 GTTATATTAA
Statistics
Matches: 55, Mismatches: 9, Indels: 15
0.70 0.11 0.19
Matches are distributed among these distances:
7 12 0.22
8 13 0.24
9 18 0.33
10 12 0.22
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (9 bp):
ATAATTTTA
Found at i:7332326 original size:57 final size:54
Alignment explanation
Indices: 7332259--7332372 Score: 131
Period size: 54 Copynumber: 2.1 Consensus size: 54
7332249 ACCAAAATAT
* * *
7332259 TATGCAAATATTTAATAAATCATGCTAATAAATAATAGTAATCAA-GCAAATAATAAA
1 TATGCAAATATTAAAT-AATCATAC-AA-AAATAATAATAAT-AAGGCAAATAATAAA
* * *
7332316 TATGGAAATATTAAATAATCATACAAATATATTAATAATAAGGCAAATAATAAA
1 TATGCAAATATTAAATAATCATACAAAAATAATAATAATAAGGCAAATAATAAA
7332370 TAT
1 TAT
7332373 ATTAATAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
53 2 0.04
54 25 0.50
55 2 0.04
56 7 0.14
57 14 0.28
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.31
Consensus pattern (54 bp):
TATGCAAATATTAAATAATCATACAAAAATAATAATAATAAGGCAAATAATAAA
Found at i:7332409 original size:27 final size:27
Alignment explanation
Indices: 7332340--7332415 Score: 125
Period size: 27 Copynumber: 2.8 Consensus size: 27
7332330 ATAATCATAC
* *
7332340 AAATATATTAATAATAAGGCAAATAAT
1 AAATATATTAATAATCATGCAAATAAT
*
7332367 AAATATATTAATAATCATGCAAATATT
1 AAATATATTAATAATCATGCAAATAAT
7332394 AAATATATTAATAATCATGCAA
1 AAATATATTAATAATCATGCAA
7332416 TTAAATACAT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (27 bp):
AAATATATTAATAATCATGCAAATAAT
Found at i:7334565 original size:2 final size:2
Alignment explanation
Indices: 7334552--7334598 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
7334542 CTCTTGGATC
* *
7334552 TA TA TA TC TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7334594 TA TA T
1 TA TA T
7334599 TAAATGAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:7334894 original size:20 final size:21
Alignment explanation
Indices: 7334833--7334891 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 21
7334823 TTAAAATTTC
* *
7334833 ATAATTTT-TAATATCAAAAA
1 ATAATTTTAAAATATAAAAAA
*
7334853 ATAA---TAAATTATAAAAAA
1 ATAATTTTAAAATATAAAAAA
7334871 ATAATTTTAAAATATAAAAAA
1 ATAATTTTAAAATATAAAAAA
7334892 TAAAAATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
17 1 0.03
18 13 0.42
20 4 0.13
21 13 0.42
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (21 bp):
ATAATTTTAAAATATAAAAAA
Found at i:7334899 original size:23 final size:21
Alignment explanation
Indices: 7334848--7334903 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
7334838 TTTTAATATC
** *
7334848 AAAAAATAATAAATTATAAAA
1 AAAAAATTTTAAAATATAAAA
*
7334869 AAATAATTTTAAAATATAAAAA
1 AAAAAATTTTAAAATAT-AAAA
7334891 ATAAAAATTTTAA
1 A-AAAAATTTTAA
7334904 TTATTCAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
21 13 0.46
22 5 0.18
23 10 0.36
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAAAATTTTAAAATATAAAA
Found at i:7336084 original size:22 final size:21
Alignment explanation
Indices: 7336048--7336089 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7336038 TATAATAAAA
*
7336048 TTTTTTAAATAAAATAATTAT
1 TTTTTTAAAAAAAATAATTAT
*
7336069 TTTTTTAAAAATAAATTATTA
1 TTTTTTAAAAA-AAATAATTA
7336090 AAATAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTTTTAAAAAAAATAATTAT
Found at i:7336790 original size:15 final size:15
Alignment explanation
Indices: 7336772--7336801 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7336762 TTAATTAATT
7336772 TAAATTTATTGGTTC
1 TAAATTTATTGGTTC
*
7336787 TAAATTTATTTGTTC
1 TAAATTTATTGGTTC
7336802 AACTCTTCGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.07, G:0.10, T:0.57
Consensus pattern (15 bp):
TAAATTTATTGGTTC
Found at i:7344901 original size:16 final size:16
Alignment explanation
Indices: 7344875--7344938 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
7344865 TCACCGTATA
*
7344875 TATTTTTAAAATTTTT
1 TATTTTAAAAATTTTT
* *
7344891 TATTTTAAAAAATATAT
1 TATTTT-AAAAATTTTT
**
7344908 TATTTTATTAATTTTT
1 TATTTTAAAAATTTTT
* *
7344924 AAATTTAAAAATTTT
1 TATTTTAAAAATTTT
7344939 ATGTTAATAA
Statistics
Matches: 36, Mismatches: 11, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
16 23 0.64
17 13 0.36
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTTTAAAAATTTTT
Found at i:7346630 original size:15 final size:17
Alignment explanation
Indices: 7346606--7346638 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
7346596 CTCGAAATAA
7346606 AAAAATAAAT-AAATTT
1 AAAAATAAATCAAATTT
7346622 AAAAA-AAATCAAATTT
1 AAAAATAAATCAAATTT
7346638 A
1 A
7346639 TATGTGATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAAATAAATCAAATTT
Found at i:7347805 original size:26 final size:24
Alignment explanation
Indices: 7347769--7347816 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 24
7347759 TAATTTTCTT
7347769 AAAAAATAAAA-GAAATGACAAAAA
1 AAAAAATAAAACGAAA-GACAAAAA
7347793 AAAAAAGTAAAAACGAAAGACAAA
1 AAAAAA-T-AAAACGAAAGACAAA
7347817 TGGGGATGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 6 0.29
25 1 0.05
26 10 0.48
27 4 0.19
ACGTcount: A:0.77, C:0.06, G:0.10, T:0.06
Consensus pattern (24 bp):
AAAAAATAAAACGAAAGACAAAAA
Found at i:7352389 original size:17 final size:17
Alignment explanation
Indices: 7352367--7352399 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7352357 AAGACTTAAA
*
7352367 AAATAAAGTAAAAAATC
1 AAATAAAATAAAAAATC
7352384 AAATAAAATAAAAAAT
1 AAATAAAATAAAAAAT
7352400 TTAAAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (17 bp):
AAATAAAATAAAAAATC
Found at i:7353633 original size:25 final size:22
Alignment explanation
Indices: 7353577--7353634 Score: 55
Period size: 25 Copynumber: 2.5 Consensus size: 22
7353567 TTTAAAGAAA
7353577 AAAGAATTA-AAAATCTTTATT
1 AAAGAATTATAAAATCTTTATT
*
7353598 TAAGAATATTATAAACATCTTTAGGTT
1 AAAG-A-ATTATAAA-ATCTTTA--TT
7353625 AAAGAATTAT
1 AAAGAATTAT
7353635 CTTATAATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
21 3 0.10
22 1 0.03
23 4 0.14
24 3 0.10
25 12 0.41
26 1 0.03
27 5 0.17
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.38
Consensus pattern (22 bp):
AAAGAATTATAAAATCTTTATT
Found at i:7357428 original size:22 final size:22
Alignment explanation
Indices: 7357403--7357460 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
7357393 TAAGGTAATC
7357403 GCTAATCTAGG-TTTACATGTAA
1 GCTAATCTAGGCTTT-CATGTAA
* * *
7357425 GCTAATATAGGCTTTCGTGTTA
1 GCTAATCTAGGCTTTCATGTAA
7357447 GCTAATCTAGGCTT
1 GCTAATCTAGGCTT
7357461 ATGTGCTAGC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 28 0.90
23 3 0.10
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.38
Consensus pattern (22 bp):
GCTAATCTAGGCTTTCATGTAA
Found at i:7357470 original size:22 final size:22
Alignment explanation
Indices: 7357424--7357471 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
7357414 TTTACATGTA
*
7357424 AGCTAATATAGGCTTTCGTGTT
1 AGCTAATATAGGCTTTCGTGCT
*
7357446 AGCTAATCTAGGCTTAT-GTGCT
1 AGCTAATATAGGCTT-TCGTGCT
7357468 AGCT
1 AGCT
7357472 GAATTGGGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.38
Consensus pattern (22 bp):
AGCTAATATAGGCTTTCGTGCT
Found at i:7357938 original size:22 final size:22
Alignment explanation
Indices: 7357927--7357994 Score: 82
Period size: 22 Copynumber: 3.1 Consensus size: 22
7357917 AATGAATCTG
7357927 GGCTTACATGCCAACTAAACTA
1 GGCTTACATGCCAACTAAACTA
* *
7357949 GGCTTATATGCCAACTAATCTA
1 GGCTTACATGCCAACTAAACTA
* * * *
7357971 GACTTACGTGCCAGCTAATCTA
1 GGCTTACATGCCAACTAAACTA
7357993 GG
1 GG
7357995 TTTATGTGTT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (22 bp):
GGCTTACATGCCAACTAAACTA
Found at i:7357969 original size:44 final size:44
Alignment explanation
Indices: 7357906--7357999 Score: 109
Period size: 44 Copynumber: 2.1 Consensus size: 44
7357896 GTTAATTGGA
* * *
7357906 GCTTATGTGCCAATGAATCTGGGCTTACATGCCAACTAAACTAG
1 GCTTATATGCCAATGAATCTAGACTTACATGCCAACTAAACTAG
* * *
7357950 GCTTATATGCCAACT-AATCTAGACTTACGTGCCAGCTAATCTAG
1 GCTTATATGCCAA-TGAATCTAGACTTACATGCCAACTAAACTAG
*
7357994 GTTTAT
1 GCTTAT
7358000 GTGTTAGTTA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
44 41 0.98
45 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (44 bp):
GCTTATATGCCAATGAATCTAGACTTACATGCCAACTAAACTAG
Found at i:7358255 original size:95 final size:95
Alignment explanation
Indices: 7358156--7358334 Score: 216
Period size: 95 Copynumber: 1.9 Consensus size: 95
7358146 TGAGAGCCAG
* * * *
7358156 CTAAACTAGTCTAAAAACCTAGATG-TCAGCTAAAATGGGCTTAAATTCTTTCTTGAGTGCCAAA
1 CTAAACTAGGCTAAAAACCTAGATGCT-AGCTAAAATAGGCTTAAATTCTTTCTAGAGTACCAAA
**
7358220 AAAATTGGATTTAAATTTTTACGGGTGCTAA
65 AAAATTGGACCTAAATTTTTACGGGTGCTAA
* ** ** * * *
7358251 CTAAATTAGGCTTTAAAGTTGGATGCTAGCTAAACTAGGCTTAAATTCTTTCTAGGGTACCAAAA
1 CTAAACTAGGCTAAAAACCTAGATGCTAGCTAAAATAGGCTTAAATTCTTTCTAGAGTACCAAAA
7358316 AAATTGGACCTAAATTTTT
66 AAATTGGACCTAAATTTTT
7358335 CTTGAAAATT
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
95 68 0.99
96 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.34
Consensus pattern (95 bp):
CTAAACTAGGCTAAAAACCTAGATGCTAGCTAAAATAGGCTTAAATTCTTTCTAGAGTACCAAAA
AAATTGGACCTAAATTTTTACGGGTGCTAA
Found at i:7370837 original size:17 final size:18
Alignment explanation
Indices: 7370796--7370841 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
7370786 GAAAAAAAGC
*
7370796 AAAAAAAAAAAATAAATG
1 AAAAATAAAAAATAAATG
7370814 AAAAATAAAAAAT-AAT-
1 AAAAATAAAAAATAAATG
7370830 AAATAATAAAAA
1 AAA-AATAAAAA
7370842 CTCAAGTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 3 0.12
17 11 0.42
18 12 0.46
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.15
Consensus pattern (18 bp):
AAAAATAAAAAATAAATG
Found at i:7371808 original size:21 final size:21
Alignment explanation
Indices: 7371784--7371854 Score: 83
Period size: 21 Copynumber: 3.4 Consensus size: 21
7371774 AAAGAAATTG
7371784 TGAACTTTTG-ATGAGAATCTT
1 TGAA-TTTTGAATGAGAATCTT
7371805 TGAATTTTGAATGAGAATCTT
1 TGAATTTTGAATGAGAATCTT
* * *
7371826 TGAA-TTTCAAAGAAAAATCTT
1 TGAATTTTGAATG-AGAATCTT
7371847 TGAATTTT
1 TGAATTTT
7371855 AAGTTTCAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
20 11 0.25
21 30 0.68
22 3 0.07
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.42
Consensus pattern (21 bp):
TGAATTTTGAATGAGAATCTT
Found at i:7372259 original size:42 final size:42
Alignment explanation
Indices: 7372197--7372451 Score: 361
Period size: 42 Copynumber: 6.1 Consensus size: 42
7372187 GATTGTCAAT
* *
7372197 GAGCAATTTA-TTTTTCAAAGTTGTGTTGCTTCTATTTAGAA
1 GAGCAATTTATTTTTTCAAAGTTGTGTTGCCTCTATTTAGAG
* *
7372238 GAGTAATTTATTTTTTCAAAGTTATGTTGCCTCTATTTAGAG
1 GAGCAATTTATTTTTTCAAAGTTGTGTTGCCTCTATTTAGAG
* *
7372280 GAGTAATTTGTTTTTTCAAAGTTGTGTTGCCTCTATTTAGAG
1 GAGCAATTTATTTTTTCAAAGTTGTGTTGCCTCTATTTAGAG
* * *
7372322 GAGCAATTTATTTTTTCAAAGTTCTGTTACCTCTGTTTAGAG
1 GAGCAATTTATTTTTTCAAAGTTGTGTTGCCTCTATTTAGAG
* * *
7372364 GAGCAATTTATTTTTTTAAAGTTGTGTTGCTTCTGTTTAGAG
1 GAGCAATTTATTTTTTCAAAGTTGTGTTGCCTCTATTTAGAG
* *
7372406 GAGCAATTTATTTTTTCAAAGTTGT-TTCACCTCTGTTTAGAG
1 GAGCAATTTATTTTTTCAAAGTTGTGTT-GCCTCTATTTAGAG
7372448 GAGC
1 GAGC
7372452 TTTGTTTACT
Statistics
Matches: 194, Mismatches: 18, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
41 11 0.06
42 183 0.94
ACGTcount: A:0.24, C:0.11, G:0.19, T:0.46
Consensus pattern (42 bp):
GAGCAATTTATTTTTTCAAAGTTGTGTTGCCTCTATTTAGAG
Found at i:7382635 original size:16 final size:16
Alignment explanation
Indices: 7382585--7382635 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
7382575 TCAAAAAAAT
7382585 TTCAAAATAATTTAAA
1 TTCAAAATAATTTAAA
* *
7382601 TATGAAAAGT-ATCTAAA
1 T-TCAAAA-TAATTTAAA
*
7382618 TTCAAAATAATTTTAA
1 TTCAAAATAATTTAAA
7382634 TT
1 TT
7382636 TATTATTTTG
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
15 1 0.04
16 13 0.48
17 12 0.44
18 1 0.04
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.39
Consensus pattern (16 bp):
TTCAAAATAATTTAAA
Found at i:7386525 original size:2 final size:2
Alignment explanation
Indices: 7386518--7386554 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
7386508 TAGACAAGAA
7386518 TC TC TC 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 TC TC TC T
7386555 TTTATGTTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:7395255 original size:14 final size:14
Alignment explanation
Indices: 7395232--7395291 Score: 75
Period size: 14 Copynumber: 4.3 Consensus size: 14
7395222 GCATTGGAAA
* *
7395232 ATATACATATGTAT
1 ATATATATATATAT
7395246 ATATATATATATAT
1 ATATATATATATAT
7395260 ATATATATATATAT
1 ATATATATATATAT
* * *
7395274 TTATATTTATATGT
1 ATATATATATATAT
7395288 ATAT
1 ATAT
7395292 GAAAAAGTGA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 40 1.00
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (14 bp):
ATATATATATATAT
Found at i:7395292 original size:6 final size:6
Alignment explanation
Indices: 7395232--7395291 Score: 75
Period size: 6 Copynumber: 10.0 Consensus size: 6
7395222 GCATTGGAAA
* * *
7395232 ATATAC ATATGT ATATAT ATATAT ATATAT ATATAT ATATAT TTATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* *
7395280 TTATAT GTATAT
1 ATATAT ATATAT
7395292 GAAAAAGTGA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (6 bp):
ATATAT
Found at i:7396252 original size:15 final size:15
Alignment explanation
Indices: 7396228--7396258 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7396218 ATGGAATAGT
*
7396228 TATTCTTGAAACAAC
1 TATTCATGAAACAAC
7396243 TATTCATGAAACAAC
1 TATTCATGAAACAAC
7396258 T
1 T
7396259 TTTTACCCAA
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:0.42, C:0.19, G:0.06, T:0.32
Consensus pattern (15 bp):
TATTCATGAAACAAC
Found at i:7396302 original size:31 final size:31
Alignment explanation
Indices: 7396240--7396310 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
7396230 TTCTTGAAAC
* **
7396240 AACTATTCATGAAACAACTTTTTACCCAAAT
1 AACTATTTATGAAACAACTTTTTACAAAAAT
*
7396271 AAGTATTTATGAAACAACTCTTTTA-AAAAAT
1 AACTATTTATGAAACAACT-TTTTACAAAAAT
7396302 AACTATTTA
1 AACTATTTA
7396311 CAAAACAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 29 0.85
32 5 0.15
ACGTcount: A:0.45, C:0.15, G:0.04, T:0.35
Consensus pattern (31 bp):
AACTATTTATGAAACAACTTTTTACAAAAAT
Found at i:7406539 original size:15 final size:15
Alignment explanation
Indices: 7406519--7406554 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
7406509 GCTGGACCTA
7406519 GCTTGGGTTGACTTG
1 GCTTGGGTTGACTTG
*
7406534 GCTTGGGTTGGCTTG
1 GCTTGGGTTGACTTG
7406549 GCTTGG
1 GCTTGG
7406555 CTTGTTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.03, C:0.14, G:0.44, T:0.39
Consensus pattern (15 bp):
GCTTGGGTTGACTTG
Found at i:7406544 original size:5 final size:5
Alignment explanation
Indices: 7406519--7406558 Score: 53
Period size: 5 Copynumber: 8.0 Consensus size: 5
7406509 GCTGGACCTA
* * *
7406519 GCTTG GGTTG ACTTG GCTTG GGTTG GCTTG GCTTG GCTTG
1 GCTTG GCTTG GCTTG GCTTG GCTTG GCTTG GCTTG GCTTG
7406559 TTTAATCATT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.03, C:0.15, G:0.42, T:0.40
Consensus pattern (5 bp):
GCTTG
Found at i:7406758 original size:53 final size:52
Alignment explanation
Indices: 7406678--7406778 Score: 184
Period size: 53 Copynumber: 1.9 Consensus size: 52
7406668 CGGAGCTGGT
7406678 CCACAGCTCATCTTATCTTTAATTTCCCCAACAAATGCAGCATTGGTACCAAG
1 CCACAGCTCATCTTATCTTTAATTTCCCCAACAAATGCAGC-TTGGTACCAAG
*
7406731 CCACAGCTCATCTTATCTTTACTTTCCCCAACAAATGCAGCTTGGTAC
1 CCACAGCTCATCTTATCTTTAATTTCCCCAACAAATGCAGCTTGGTAC
7406779 TAAGATTTTC
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
52 7 0.15
53 40 0.85
ACGTcount: A:0.28, C:0.32, G:0.11, T:0.30
Consensus pattern (52 bp):
CCACAGCTCATCTTATCTTTAATTTCCCCAACAAATGCAGCTTGGTACCAAG
Found at i:7413245 original size:15 final size:16
Alignment explanation
Indices: 7413217--7413248 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
7413207 CTCTAATAAG
7413217 AAATAAAAATCTAAAA
1 AAATAAAAATCTAAAA
7413233 AAATAAAAA-CTAAAA
1 AAATAAAAATCTAAAA
7413248 A
1 A
7413249 CCCACTCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.16
Consensus pattern (16 bp):
AAATAAAAATCTAAAA
Found at i:7413675 original size:23 final size:23
Alignment explanation
Indices: 7413645--7413691 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
7413635 TGTGCTCCAG
7413645 TTCCACATGTAATCAATAATGGA
1 TTCCACATGTAATCAATAATGGA
7413668 TTCCACATGTAATCAATAATGGA
1 TTCCACATGTAATCAATAATGGA
7413691 T
1 T
7413692 GTTTCTCAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (23 bp):
TTCCACATGTAATCAATAATGGA
Found at i:7414215 original size:3 final size:3
Alignment explanation
Indices: 7414207--7414234 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
7414197 ATTGAAATTG
7414207 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
7414235 TATATTATTA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:7416302 original size:39 final size:40
Alignment explanation
Indices: 7416229--7416322 Score: 102
Period size: 39 Copynumber: 2.4 Consensus size: 40
7416219 TCGTAAACTT
* * ** *
7416229 ATTAAAATCCTAAAATAAAACCATAATCTGAAA-CCTTAA
1 ATTAAAACCCTAAAATAAAACCACAAGATGAAACCCTAAA
* *
7416268 ATTAAAACCCTAAAATAAAACCCCAAGATTAAACCCTAAA
1 ATTAAAACCCTAAAATAAAACCACAAGATGAAACCCTAAA
7416308 ATGT-AAACCCTAAAA
1 AT-TAAAACCCTAAAA
7416323 CAAACCCTTA
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
39 27 0.59
40 18 0.39
41 1 0.02
ACGTcount: A:0.54, C:0.21, G:0.03, T:0.21
Consensus pattern (40 bp):
ATTAAAACCCTAAAATAAAACCACAAGATGAAACCCTAAA
Found at i:7416314 original size:14 final size:13
Alignment explanation
Indices: 7416266--7416322 Score: 69
Period size: 13 Copynumber: 4.2 Consensus size: 13
7416256 CTGAAACCTT
7416266 AAATTAAAACCCTA
1 AAATT-AAACCCTA
* *
7416280 AAATAAAACCCCA
1 AAATTAAACCCTA
*
7416293 AGATTAAACCCTA
1 AAATTAAACCCTA
7416306 AAATGTAAACCCTA
1 AAAT-TAAACCCTA
7416320 AAA
1 AAA
7416323 CAAACCCTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
13 20 0.56
14 16 0.44
ACGTcount: A:0.56, C:0.23, G:0.04, T:0.18
Consensus pattern (13 bp):
AAATTAAACCCTA
Found at i:7416327 original size:26 final size:26
Alignment explanation
Indices: 7416272--7416330 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
7416262 CCTTAAATTA
**
7416272 AAACCCTAAAATAAAACCCCAAGATT
1 AAACCCTAAAATAAAACCCCAAGAAC
* *
7416298 AAACCCTAAAATGTAAACCCTAA-AAC
1 AAACCCTAAAAT-AAAACCCCAAGAAC
7416324 AAACCCT
1 AAACCCT
7416331 TAGGTAAAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 20 0.71
27 8 0.29
ACGTcount: A:0.53, C:0.29, G:0.03, T:0.15
Consensus pattern (26 bp):
AAACCCTAAAATAAAACCCCAAGAAC
Found at i:7420022 original size:33 final size:33
Alignment explanation
Indices: 7419985--7420055 Score: 97
Period size: 33 Copynumber: 2.2 Consensus size: 33
7419975 TCAATGAAGT
* *
7419985 TTTAAACCCAATTTAGTCGGCACCTAGTGAAAA
1 TTTAAACCCAACTTAGTCGGCACCAAGTGAAAA
* * *
7420018 TTTAAGCCCAGCTTAGTTGGCACCAAGTGAAAA
1 TTTAAACCCAACTTAGTCGGCACCAAGTGAAAA
7420051 TTTAA
1 TTTAA
7420056 GCCATTGTAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (33 bp):
TTTAAACCCAACTTAGTCGGCACCAAGTGAAAA
Found at i:7420056 original size:33 final size:33
Alignment explanation
Indices: 7419996--7420166 Score: 154
Period size: 33 Copynumber: 5.2 Consensus size: 33
7419986 TTAAACCCAA
* * *
7419996 TTTAGTCGGCACCTAGTGAAAATTTAAGCCCAG
1 TTTAGTTGGCACCAAGTGAAAATTTAAGCCTAG
*
7420029 CTTAGTTGGCACCAAGTGAAAATTTAAGCC-A-
1 TTTAGTTGGCACCAAGTGAAAATTTAAGCCTAG
* * * *
7420060 TTGTAGCTAGCACTCAA-TGAAGATTTAAGTCTAG
1 TT-TAGTTGGCAC-CAAGTGAAAATTTAAGCCTAG
* * *
7420094 CTTAGTTGGTACCTAA-TG-AAATTTAAGCCTAA
1 TTTAGTTGGCACC-AAGTGAAAATTTAAGCCTAG
** *
7420126 TTTAACTGGCACCAAGTGAAAATTTAGGCCTAG
1 TTTAGTTGGCACCAAGTGAAAATTTAAGCCTAG
7420159 TTTAGTTG
1 TTTAGTTG
7420167 ACGCCCAACA
Statistics
Matches: 108, Mismatches: 23, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
31 3 0.03
32 44 0.41
33 60 0.56
34 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (33 bp):
TTTAGTTGGCACCAAGTGAAAATTTAAGCCTAG
Found at i:7420151 original size:65 final size:65
Alignment explanation
Indices: 7420003--7420166 Score: 183
Period size: 65 Copynumber: 2.5 Consensus size: 65
7419993 CAATTTAGTC
* * *
7420003 GGCACCTAGTGAAAATTTAAGCCCAGCTTAGTTGGCACCAAGTGAAAATTTAAGCCATTGTAGCT
1 GGCACCAAGTGAAAATTTAAGCCTAGCTTAGTTGGCACCAAGTGAAAATTTAAGCCATTGTAACT
* * * *
7420068 AGCACTCAA-TGAAGATTTAAGTCTAGCTTAGTTGGTACCTAA-TG-AAATTTAAGCCTAATT-T
1 GGCAC-CAAGTGAAAATTTAAGCCTAGCTTAGTTGGCACC-AAGTGAAAATTTAAGCC--ATTGT
7420129 AACT
62 AACT
* *
7420133 GGCACCAAGTGAAAATTTAGGCCTAGTTTAGTTG
1 GGCACCAAGTGAAAATTTAAGCCTAGCTTAGTTG
7420167 ACGCCCAACA
Statistics
Matches: 82, Mismatches: 12, Indels: 10
0.79 0.12 0.10
Matches are distributed among these distances:
64 14 0.17
65 61 0.74
66 7 0.09
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (65 bp):
GGCACCAAGTGAAAATTTAAGCCTAGCTTAGTTGGCACCAAGTGAAAATTTAAGCCATTGTAACT
Found at i:7420664 original size:18 final size:18
Alignment explanation
Indices: 7420641--7420676 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
7420631 AGCCGTCTTA
7420641 GAAAAA-CAAAAACAAAAT
1 GAAAAACCAAAAA-AAAAT
7420659 GAAAAACCAAAAAAAAAT
1 GAAAAACCAAAAAAAAAT
7420677 TTTTGGTAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.78, C:0.11, G:0.06, T:0.06
Consensus pattern (18 bp):
GAAAAACCAAAAAAAAAT
Found at i:7420990 original size:3 final size:3
Alignment explanation
Indices: 7420982--7421030 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
7420972 CAAAAGATAT
7420982 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
7421030 A
1 A
7421031 ATATATTAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:7422903 original size:3 final size:3
Alignment explanation
Indices: 7422897--7422952 Score: 69
Period size: 3 Copynumber: 18.7 Consensus size: 3
7422887 TTAAGTATCA
* * *
7422897 AAT AAT AAA AAT AA- AAG ATT AAAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT
7422942 AAT AAT AAT AA
1 AAT AAT AAT AA
7422953 ATATTCCAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
2 2 0.04
3 42 0.91
4 2 0.04
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:7423205 original size:20 final size:21
Alignment explanation
Indices: 7423176--7423226 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
7423166 GAGAACTTAC
7423176 ACCCTAAAACCCT-TAG-GTAA
1 ACCCTAAAACCCTAT-GTGTAA
*
7423196 ACCTTAAAACCCTATGTGTAA
1 ACCCTAAAACCCTATGTGTAA
7423217 ACCCTAAAAC
1 ACCCTAAAAC
7423227 AAAACCCTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 13 0.48
21 14 0.52
ACGTcount: A:0.41, C:0.29, G:0.08, T:0.22
Consensus pattern (21 bp):
ACCCTAAAACCCTATGTGTAA
Found at i:7423894 original size:17 final size:17
Alignment explanation
Indices: 7423858--7423892 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
7423848 TGTTGAAGAG
*
7423858 TTACTAAGAATTATTAT
1 TTACAAAGAATTATTAT
7423875 TTACAAAGAA-TATTAT
1 TTACAAAGAATTATTAT
7423891 TT
1 TT
7423893 TATTATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.46
Consensus pattern (17 bp):
TTACAAAGAATTATTAT
Found at i:7427467 original size:57 final size:57
Alignment explanation
Indices: 7427330--7427657 Score: 480
Period size: 57 Copynumber: 5.7 Consensus size: 57
7427320 TTGTGTGGGA
* * *
7427330 AAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTCGAAAATTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAA-TTT-ATTTTTAAGG
7427389 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTTTAAGG
* * * **
7427446 AAAATTGATATTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAACTTTGATTTCCAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGAAAATTT-ATTTTTAAGG
* * *
7427506 AAAATTGATACTTTTAACTTTTCCCCAAAAATATTTTTTTG-AAATTCATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGAAAATTTATTTTTAAGG
*
7427563 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTG-AAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTTTAAGG
7427619 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
7427658 TGATTTTTTT
Statistics
Matches: 245, Mismatches: 21, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
56 59 0.24
57 78 0.32
58 7 0.03
59 63 0.26
60 38 0.16
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.45
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTTTAAGG
Found at i:7427533 original size:117 final size:113
Alignment explanation
Indices: 7427328--7427657 Score: 495
Period size: 117 Copynumber: 2.9 Consensus size: 113
7427318 TCTTGTGTGG
*
7427328 GAAAAATTGATACTTTCAACTTTT-CTCCAAAAATATTTTTCGAAAATTTTGATTTTCAAGGAAA
1 GAAAAATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTTG-AAA-TTTGATTTTCAAGGAAA
*
7427392 ATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTTTAA
63 ATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTG-AAATTCATTTTTAA
* * *
7427444 GGAAAATTGATATTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAACTTTGATTTCCAAGGAAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATA--TTTTTTGAAA-TTTGATTTTCAAGGAAA
*
7427509 ATTGATACTTTTAACTTTTCCCCAAAAATATTTTTTTGAAATTCATTTTTAA
63 ATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGAAATTCATTTTTAA
*
7427561 GAAAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTGAAATTT-ATTTTTAAGGAAAAT
1 GAAAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTGAAATTTGATTTTCAAGGAAAAT
7427624 TGATACTTTCAACTTTTCCCCAAAAATATTTTTT
65 TGATACTTTCAACTTTTCCCCAAAAATATTTTTT
7427658 TGATTTTTTT
Statistics
Matches: 197, Mismatches: 12, Indels: 14
0.88 0.05 0.06
Matches are distributed among these distances:
112 6 0.03
113 40 0.20
114 3 0.02
115 10 0.05
116 31 0.16
117 94 0.48
118 13 0.07
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (113 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAATTTGATTTTCAAGGAAAATT
GATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAATTCATTTTTAA
Found at i:7428698 original size:19 final size:19
Alignment explanation
Indices: 7428655--7428700 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
7428645 AAAAAAAATC
*
7428655 ATAATAATCAGATAATCGA
1 ATAAAAATCAGATAATCGA
*
7428674 AAAAAAATCAGATAAAT-GA
1 ATAAAAATCAGAT-AATCGA
7428693 ATAAAAAT
1 ATAAAAAT
7428701 AAAATTAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 20 0.87
20 3 0.13
ACGTcount: A:0.63, C:0.07, G:0.09, T:0.22
Consensus pattern (19 bp):
ATAAAAATCAGATAATCGA
Found at i:7428838 original size:31 final size:30
Alignment explanation
Indices: 7428743--7428838 Score: 77
Period size: 31 Copynumber: 3.1 Consensus size: 30
7428733 ATAAATCCAA
* *
7428743 AAATATT-ACAAAATAATAATAATATAATAAT
1 AAATATTAACAAAA-AA-AATAAAATAAAAAT
* * * ***
7428774 AAATATATAACTATATAAATAAAATACCTAT
1 AAATAT-TAACAAAAAAAATAAAATAAAAAT
7428805 AAATATTAACAAAAAAAATGAAAATAAAAAT
1 AAATATTAACAAAAAAAAT-AAAATAAAAAT
7428836 AAA
1 AAA
7428839 ATAAATAAAT
Statistics
Matches: 49, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
30 10 0.20
31 33 0.67
32 2 0.04
33 4 0.08
ACGTcount: A:0.67, C:0.05, G:0.01, T:0.27
Consensus pattern (30 bp):
AAATATTAACAAAAAAAATAAAATAAAAAT
Found at i:7428919 original size:17 final size:17
Alignment explanation
Indices: 7428826--7428916 Score: 59
Period size: 16 Copynumber: 5.4 Consensus size: 17
7428816 AAAAAAATGA
7428826 AAATAAA-AATAA-AAT
1 AAATAAATAATAATAAT
7428841 AAATAAAT-A-AATAGAT
1 AAATAAATAATAATA-AT
*
7428857 AAATAAGGAT-ATACACATAT
1 AAATAA--ATAATA-ATA-AT
* *
7428877 TAATACATAATAATAAT
1 AAATAAATAATAATAAT
7428894 AAATAAATAATAA-AAT
1 AAATAAATAATAATAAT
*
7428910 ACATAAA
1 AAATAAA
7428917 ATACAAAAGA
Statistics
Matches: 60, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
14 2 0.03
15 9 0.15
16 17 0.28
17 13 0.22
18 7 0.12
19 4 0.07
20 8 0.13
ACGTcount: A:0.67, C:0.04, G:0.03, T:0.25
Consensus pattern (17 bp):
AAATAAATAATAATAAT
Found at i:7428931 original size:23 final size:25
Alignment explanation
Indices: 7428905--7428956 Score: 58
Period size: 23 Copynumber: 2.2 Consensus size: 25
7428895 AATAAATAAT
7428905 AAAATACA-TAAAAT-ACAAAAGA-A
1 AAAATA-ATTAAAATAACAAAAGATA
*
7428928 AAAA-AATTAAAATAACACAAGATA
1 AAAATAATTAAAATAACAAAAGATA
7428952 AAAAT
1 AAAAT
7428957 TGAATTGGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
21 1 0.04
22 7 0.29
23 11 0.46
24 5 0.21
ACGTcount: A:0.73, C:0.08, G:0.04, T:0.15
Consensus pattern (25 bp):
AAAATAATTAAAATAACAAAAGATA
Found at i:7428938 original size:22 final size:23
Alignment explanation
Indices: 7428913--7428955 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
7428903 ATAAAATACA
7428913 TAAAAT-ACAAAAGAAAAAAAAT
1 TAAAATAACAAAAGAAAAAAAAT
* *
7428935 TAAAATAACACAAGATAAAAA
1 TAAAATAACAAAAGAAAAAAA
7428956 TTGAATTGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.74, C:0.07, G:0.05, T:0.14
Consensus pattern (23 bp):
TAAAATAACAAAAGAAAAAAAAT
Found at i:7429147 original size:94 final size:94
Alignment explanation
Indices: 7429010--7429197 Score: 358
Period size: 94 Copynumber: 2.0 Consensus size: 94
7429000 CCTAGACCCA
*
7429010 ATTGGGTGTCTACAGCTGCCCCTCTTTGCACATTTTATGTGAAACAGAAATTACGCAAAGATGTA
1 ATTGGGTGTCTACAGCTGCCCCTCTTTGCACATTTTATATGAAACAGAAATTACGCAAAGATGTA
7429075 GACACCCAATCAAGACTCAACTCAACATT
66 GACACCCAATCAAGACTCAACTCAACATT
*
7429104 ATTGGGTGTCTACAGCTGCCCCTCTTTGCACATTTTCTATGAAACAGAAATTACGCAAAGATGTA
1 ATTGGGTGTCTACAGCTGCCCCTCTTTGCACATTTTATATGAAACAGAAATTACGCAAAGATGTA
7429169 GACACCCAATCAAGACTCAACTCAACATT
66 GACACCCAATCAAGACTCAACTCAACATT
7429198 GTCATTTTTT
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 92 1.00
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (94 bp):
ATTGGGTGTCTACAGCTGCCCCTCTTTGCACATTTTATATGAAACAGAAATTACGCAAAGATGTA
GACACCCAATCAAGACTCAACTCAACATT
Found at i:7429213 original size:1 final size:1
Alignment explanation
Indices: 7429202--7429268 Score: 62
Period size: 1 Copynumber: 67.0 Consensus size: 1
7429192 AACATTGTCA
* * * * * * * *
7429202 TTTTTTATTTTTTATTTTTATTTTTTGTGTTTTTTTTTGTTTTTTTTTTTTGTTTTTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
7429267 TT
1 TT
7429269 ACCAAAGCTC
Statistics
Matches: 50, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.04, C:0.01, G:0.06, T:0.88
Consensus pattern (1 bp):
T
Found at i:7429244 original size:25 final size:23
Alignment explanation
Indices: 7429209--7429269 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 23
7429199 TCATTTTTTA
*
7429209 TTTTTTATTTTTATTTTTTGTGTT
1 TTTTTTTTTTTTATTTTTT-TGTT
7429233 TTTTTTTGTTTTT-TTTTTTTGTT
1 TTTTTTT-TTTTTATTTTTTTGTT
7429256 TTTTCTTTTTTTTA
1 TTTT-TTTTTTTTA
7429270 CCAAAGCTCC
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
23 13 0.39
24 15 0.45
25 5 0.15
ACGTcount: A:0.05, C:0.02, G:0.07, T:0.87
Consensus pattern (23 bp):
TTTTTTTTTTTTATTTTTTTGTT
Found at i:7429259 original size:13 final size:13
Alignment explanation
Indices: 7429202--7429266 Score: 78
Period size: 13 Copynumber: 4.9 Consensus size: 13
7429192 AACATTGTCA
*
7429202 TTTTTTATTTTTTA
1 TTTTTT-TTTTTTG
*
7429216 TTTTTATTTTTTG
1 TTTTTTTTTTTTG
*
7429229 -TGTTTTTTTTTG
1 TTTTTTTTTTTTG
7429241 TTTTTTTTTTTTG
1 TTTTTTTTTTTTG
7429254 TTTTTTCTTTTTT
1 TTTTTT-TTTTTT
7429267 TTACCAAAGC
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
12 10 0.23
13 23 0.52
14 11 0.25
ACGTcount: A:0.05, C:0.02, G:0.06, T:0.88
Consensus pattern (13 bp):
TTTTTTTTTTTTG
Found at i:7429369 original size:41 final size:43
Alignment explanation
Indices: 7429275--7429386 Score: 165
Period size: 43 Copynumber: 2.6 Consensus size: 43
7429265 TTTTACCAAA
* * *
7429275 GCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAATT
1 GCTCCTCTAAATAGAGGCACCACGACTTTGAGAAACATAAATT
*
7429318 GCTCCTCTAAATAGAGGCACCACGACTTTGA-AAA-GTAAATT
1 GCTCCTCTAAATAGAGGCACCACGACTTTGAGAAACATAAATT
7429359 GCTCCTCTAAATAGAGGCACCCACGACT
1 GCTCCTCTAAATAGAGGCA-CCACGACT
7429387 CCTTCTAACA
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
41 25 0.39
42 11 0.17
43 28 0.44
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (43 bp):
GCTCCTCTAAATAGAGGCACCACGACTTTGAGAAACATAAATT
Found at i:7429473 original size:32 final size:32
Alignment explanation
Indices: 7429437--7429500 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
7429427 TCTAAACAGA
7429437 GGCACCACGACTTTGAAAAAATAAATGGCTCC
1 GGCACCACGACTTTGAAAAAATAAATGGCTCC
* * *
7429469 GGCACCACGACTTTGGAAAAGTAAATTGCTCC
1 GGCACCACGACTTTGAAAAAATAAATGGCTCC
7429501 TCTAAATAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.20
Consensus pattern (32 bp):
GGCACCACGACTTTGAAAAAATAAATGGCTCC
Found at i:7429533 original size:18 final size:18
Alignment explanation
Indices: 7429510--7429546 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
7429500 CTCTAAATAG
7429510 AGGCACCACGACTTTGGA
1 AGGCACCACGACTTTGGA
7429528 AGGCACCACGACTTTGGA
1 AGGCACCACGACTTTGGA
7429546 A
1 A
7429547 AAATAAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.27, G:0.27, T:0.16
Consensus pattern (18 bp):
AGGCACCACGACTTTGGA
Found at i:7429562 original size:60 final size:60
Alignment explanation
Indices: 7429469--7429586 Score: 200
Period size: 60 Copynumber: 2.0 Consensus size: 60
7429459 AAATGGCTCC
* * *
7429469 GGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAATAGAGGCACCACGACTTTGGAA
1 GGCACCACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGGAA
*
7429529 GGCACCACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGTACCACAACTTTGG
1 GGCACCACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGG
7429587 GAAAGTAAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (60 bp):
GGCACCACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGGAA
Found at i:7429602 original size:134 final size:134
Alignment explanation
Indices: 7429333--7429585 Score: 363
Period size: 134 Copynumber: 1.9 Consensus size: 134
7429323 TCTAAATAGA
7429333 GGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAATAGAGGCACCCACGACTCCTTCTAACAG
1 GGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAATAGAGGCACCCACGA--CCTTCTAACAG
* *
7429398 AGGCACCACACTTTGGAAGTAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAATAAAT
64 AGGCACCACACTTTGGAAATAATTGCTCCTCTAAACAGAGGCACCACAACTTTGAAAAAATAAAT
7429463 GGCTCC
129 GGCTCC
**
7429469 GGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAATAGAGGCA-CCACGA-CTT-T-GGA-A
1 GGCACCACGACTTT-GAAAAGTAAATTGCTCCTCTAAATAGAGGCACCCACGACCTTCTAACAGA
*
7429529 GGCACCACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGTACCACAACTTTG
65 GGCACCAC-ACTTTGG--AAAT-AATTGCTCCTCTAAACAGAGGCACCACAACTTTG
7429586 GGAAAGTAAA
Statistics
Matches: 107, Mismatches: 5, Indels: 12
0.86 0.04 0.10
Matches are distributed among these distances:
130 9 0.08
131 8 0.07
132 1 0.01
133 6 0.06
134 32 0.30
136 20 0.19
137 31 0.29
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.22
Consensus pattern (134 bp):
GGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAATAGAGGCACCCACGACCTTCTAACAGAG
GCACCACACTTTGGAAATAATTGCTCCTCTAAACAGAGGCACCACAACTTTGAAAAAATAAATGG
CTCC
Found at i:7430883 original size:24 final size:24
Alignment explanation
Indices: 7430856--7430901 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
7430846 CTTTCTTCTT
*
7430856 TCTTTCTTTTTTT-TTTTTTCATCA
1 TCTTT-TTTTTTTCATTTTTCATCA
7430880 TCTTTTTTTTTTCATTTTTCAT
1 TCTTTTTTTTTTCATTTTTCAT
7430902 TCATTATTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (24 bp):
TCTTTTTTTTTTCATTTTTCATCA
Found at i:7438177 original size:22 final size:21
Alignment explanation
Indices: 7438137--7438177 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
7438127 ATCAATAATT
* *
7438137 TAATTTTTTTAAAATTTAACA
1 TAATTTTATTAAAAATTAACA
7438158 TAATTTTAATTAAAAATTAA
1 TAATTTT-ATTAAAAATTAA
7438178 TTACTTGGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
TAATTTTATTAAAAATTAACA
Found at i:7438674 original size:3 final size:3
Alignment explanation
Indices: 7438666--7438699 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
7438656 CACAATTTAC
7438666 ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
7438700 TAAATAAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:7438705 original size:11 final size:12
Alignment explanation
Indices: 7438666--7438706 Score: 59
Period size: 11 Copynumber: 3.6 Consensus size: 12
7438656 CACAATTTAC
*
7438666 ATAATAATAATA
1 ATAATAATAATT
7438678 ATAATAATAA-T
1 ATAATAATAATT
7438689 ATAATAATAATT
1 ATAATAATAATT
7438701 A-AATAA
1 ATAATAA
7438707 ATGAAGTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 15 0.56
12 12 0.44
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
ATAATAATAATT
Found at i:7439341 original size:31 final size:27
Alignment explanation
Indices: 7439304--7439374 Score: 74
Period size: 30 Copynumber: 2.5 Consensus size: 27
7439294 AATTTTGCTT
7439304 ATAAATAAATTATACTAATAAATATATATTA
1 ATAAATAAATTATA--AATAAATAT-TA-TA
*
7439335 ATAAATATTATTATAAATAAATATTATA
1 ATAAATA-AATTATAAATAAATATTATA
7439363 AT-AAT-AATTATA
1 ATAAATAAATTATA
7439375 TATTATTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
25 6 0.16
27 3 0.08
28 4 0.11
29 2 0.05
30 9 0.24
31 7 0.19
32 6 0.16
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (27 bp):
ATAAATAAATTATAAATAAATATTATA
Found at i:7439355 original size:16 final size:16
Alignment explanation
Indices: 7439320--7439387 Score: 70
Period size: 16 Copynumber: 4.3 Consensus size: 16
7439310 AAATTATACT
*
7439320 AATAAATA-TA-TATT
1 AATAAATATTATTATA
7439334 AATAAATATTATTATA
1 AATAAATATTATTATA
*
7439350 AATAAATATTATAAT-
1 AATAAATATTATTATA
*
7439365 AATAATTATATATTATTA
1 AATAAATAT-TATTA-TA
7439383 AATAA
1 AATAA
7439388 TATAACAATA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
14 8 0.18
15 10 0.22
16 21 0.47
17 1 0.02
18 5 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATAAATATTATTATA
Found at i:7439359 original size:13 final size:13
Alignment explanation
Indices: 7439302--7439363 Score: 54
Period size: 13 Copynumber: 4.5 Consensus size: 13
7439292 ATAATTTTGC
7439302 TTATAAATAAATTA
1 TTATAAATAAA-TA
*
7439316 TACTAATAAATATATA
1 T--T-ATAAATAAATA
*
7439332 TTAATAAAT-ATTA
1 TT-ATAAATAAATA
7439345 TTATAAATAAATA
1 TTATAAATAAATA
7439358 TTATAA
1 TTATAA
7439364 TAATAATTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
12 6 0.15
13 13 0.32
14 9 0.22
16 4 0.10
17 8 0.20
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (13 bp):
TTATAAATAAATA
Found at i:7439398 original size:21 final size:21
Alignment explanation
Indices: 7439374--7439431 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
7439364 TAATAATTAT
7439374 ATATTATTAAATAATATAACA
1 ATATTATTAAATAATATAACA
* *
7439395 ATATTATTAATTTAAT-TAATA
1 ATATTATTAA-ATAATATAACA
7439416 ATATTA-T-AATAATATA
1 ATATTATTAAATAATATA
7439432 TTAATAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
18 4 0.12
19 3 0.09
20 1 0.03
21 20 0.62
22 4 0.12
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
ATATTATTAAATAATATAACA
Found at i:7439435 original size:26 final size:26
Alignment explanation
Indices: 7439327--7439445 Score: 76
Period size: 26 Copynumber: 4.7 Consensus size: 26
7439317 ACTAATAAAT
* *
7439327 ATATATTAATAAATATTATTATAAATA
1 ATATATTAATTAATAATATTAT-AATA
7439354 A-ATATT-A-TAATAATA--AT--T-
1 ATATATTAATTAATAATATTATAATA
* *
7439372 ATATATT-ATTAAATAATATAACAATA
1 ATATATTAATT-AATAATATTATAATA
*
7439398 TTATTAATTTAATTAATAATATTATAATA
1 ATA-T-A-TTAATTAATAATATTATAATA
*
7439427 ATATATTAATAAATAATAT
1 ATATATTAATTAATAATAT
7439446 ATTGTTAATA
Statistics
Matches: 72, Mismatches: 8, Indels: 25
0.69 0.08 0.24
Matches are distributed among these distances:
18 1 0.01
19 7 0.10
20 1 0.01
21 7 0.10
22 2 0.03
23 1 0.01
24 6 0.08
25 2 0.03
26 20 0.28
27 3 0.04
28 2 0.03
29 17 0.24
30 3 0.04
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.45
Consensus pattern (26 bp):
ATATATTAATTAATAATATTATAATA
Found at i:7439442 original size:18 final size:18
Alignment explanation
Indices: 7439421--7439543 Score: 75
Period size: 18 Copynumber: 6.9 Consensus size: 18
7439411 TAATAATATT
7439421 ATAATAATATATTAATAA
1 ATAATAATATATTAATAA
*
7439439 ATAAT-ATATTGTTAATAA
1 ATAATAATA-TATTAATAA
* *
7439457 ATAATACA-CT-GT--T-A
1 ATAATA-ATATATTAATAA
*
7439471 AT-ATAATATACTAATAA
1 ATAATAATATATTAATAA
7439488 ATAAT-ATACTATTAATATA
1 ATAATAATA-TATTAATA-A
*
7439507 ATATATTAATAATATTATTAA
1 ATA-A-TAAT-ATATTAATAA
7439528 A-AATAATATATTAATA
1 ATAATAATATATTAATA
7439544 TATTAATAAG
Statistics
Matches: 82, Mismatches: 8, Indels: 31
0.68 0.07 0.26
Matches are distributed among these distances:
12 1 0.01
13 4 0.05
14 4 0.05
15 1 0.01
16 1 0.01
17 18 0.22
18 32 0.39
19 5 0.06
20 3 0.04
21 3 0.04
22 9 0.11
23 1 0.01
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (18 bp):
ATAATAATATATTAATAA
Found at i:7439478 original size:16 final size:16
Alignment explanation
Indices: 7439424--7439521 Score: 83
Period size: 16 Copynumber: 6.1 Consensus size: 16
7439414 TAATATTATA
* *
7439424 ATAATATATTAATAA-
1 ATAATATACTATTAAT
* *
7439439 ATAATATATTGTTAAT
1 ATAATATACTATTAAT
* *
7439455 AAATAATACACTGTTAAT
1 --ATAATATACTATTAAT
*
7439473 ATAATATACTAATAA-
1 ATAATATACTATTAAT
7439488 ATAATATACTATTAAT
1 ATAATATACTATTAAT
* *
7439504 ATAATATATTAATAAT
1 ATAATATACTATTAAT
7439520 AT
1 AT
7439522 TATTAAAAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
15 27 0.39
16 28 0.41
18 14 0.20
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (16 bp):
ATAATATACTATTAAT
Found at i:7439489 original size:31 final size:31
Alignment explanation
Indices: 7439451--7439518 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
7439441 AATATATTGT
*
7439451 TAATAAATAATACACTGTTAATATAATATAC
1 TAATAAATAATACACTATTAATATAATATAC
* *
7439482 TAATAAATAATATACTATTAATATAATATAT
1 TAATAAATAATACACTATTAATATAATATAC
7439513 TAATAA
1 TAATAA
7439519 TATTATTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.54, C:0.06, G:0.01, T:0.38
Consensus pattern (31 bp):
TAATAAATAATACACTATTAATATAATATAC
Found at i:7439535 original size:31 final size:31
Alignment explanation
Indices: 7439469--7439574 Score: 83
Period size: 31 Copynumber: 3.3 Consensus size: 31
7439459 AATACACTGT
* * ** *
7439469 TAATATAATATACTAATAA-ATAATATACTAT
1 TAATATAATATATTAATAATATTAT-TAAAAA
7439500 TAATATAATATATTAATAATATTATTAAAAA
1 TAATATAATATATTAATAATATTATTAAAAA
*
7439531 TAATATATTAATATATTAATAAGTAATA-TAAAGAA
1 T-A-ATA-TAATATATTAATAA-TATTATTAAA-AA
7439566 TAATA-AATA
1 TAATATAATA
7439575 ATTTTATTTT
Statistics
Matches: 63, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
31 26 0.41
32 5 0.08
33 6 0.10
34 19 0.30
35 7 0.11
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (31 bp):
TAATATAATATATTAATAATATTATTAAAAA
Found at i:7439542 original size:23 final size:23
Alignment explanation
Indices: 7439314--7439560 Score: 103
Period size: 23 Copynumber: 10.8 Consensus size: 23
7439304 ATAAATAAAT
*
7439314 TATACTAATAAAT-ATATATTAA
1 TATATTAATAAATAATATATTAA
7439336 TAAATATTATTATAAATAA-ATATT-A
1 T--ATATTA--ATAAATAATATATTAA
* *
7439361 TA-A-TAAT-AATTATATATTAT
1 TATATTAATAAATAATATATTAA
* *
7439381 TA-AATAATATAACAATATTATTAA
1 TATATTAATA-AATAATA-TATTAA
* * *
7439405 TTTAATTAAT-AATATTATAATAA
1 TAT-ATTAATAAATAATATATTAA
**
7439428 TATATTAATAAATAATATATTGT
1 TATATTAATAAATAATATATTAA
* * *
7439451 TA-ATAAAT-AATACA-CTGTTAA
1 TATATTAATAAATA-ATATATTAA
* *
7439472 TATAAT-ATACTAATAA-ATAAT-A
1 TATATTAATA--AATAATATATTAA
7439494 TACTATTAAT--ATAATATATTAA
1 TA-TATTAATAAATAATATATTAA
*
7439516 TAATATTATTAAAAATAATATATTAA
1 T-ATATTA--ATAAATAATATATTAA
*
7439542 TATATTAATAAGTAATATA
1 TATATTAATAAATAATATA
7439561 AAGAATAATA
Statistics
Matches: 166, Mismatches: 31, Indels: 55
0.66 0.12 0.22
Matches are distributed among these distances:
18 4 0.02
19 7 0.04
20 7 0.04
21 21 0.13
22 25 0.15
23 41 0.25
24 23 0.14
25 8 0.05
26 29 0.17
27 1 0.01
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (23 bp):
TATATTAATAAATAATATATTAA
Found at i:7439543 original size:34 final size:35
Alignment explanation
Indices: 7439505--7439570 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
7439495 ACTATTAATA
*
7439505 TAATATATTAATAA-TATTATTAAA-AATAATATAT
1 TAATATATTAATAAGTAATA-TAAAGAATAATATAT
7439539 TAATATATTAATAAGTAATATAAAGAATAATA
1 TAATATATTAATAAGTAATATAAAGAATAATA
7439571 AATAATTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
34 18 0.62
35 11 0.38
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (35 bp):
TAATATATTAATAAGTAATATAAAGAATAATATAT
Found at i:7439558 original size:26 final size:26
Alignment explanation
Indices: 7439504--7439552 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
7439494 TACTATTAAT
*
7439504 ATAATATATTAATAATATTATTAAAA
1 ATAATATATTAATAATATTAATAAAA
7439530 ATAATATATTAAT-ATATTAATAA
1 ATAATATATTAATAATATTAATAA
7439553 GTAATATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (26 bp):
ATAATATATTAATAATATTAATAAAA
Found at i:7439658 original size:16 final size:17
Alignment explanation
Indices: 7439609--7439675 Score: 61
Period size: 16 Copynumber: 4.1 Consensus size: 17
7439599 TAACATAACA
*
7439609 TTTTAATATTAAAT-AT
1 TTTTAATAATAAATAAT
* *
7439625 TATTATTAA-AATATAAT
1 TTTTAATAATAA-ATAAT
*
7439642 TTTTAAT-ATTAATAA-
1 TTTTAATAATAAATAAT
7439657 TTTTAATAATAAATAAT
1 TTTTAATAATAAATAAT
7439674 TT
1 TT
7439676 CAATATATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
15 9 0.23
16 20 0.51
17 10 0.26
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTTAATAATAAATAAT
Found at i:7439673 original size:25 final size:24
Alignment explanation
Indices: 7439645--7439715 Score: 90
Period size: 25 Copynumber: 2.8 Consensus size: 24
7439635 ATATAATTTT
7439645 TAATATTAATAATTTTAATAATAAA
1 TAAT-TTAATAATTTTAATAATAAA
7439670 TAATTTCAATATATTTTAATAATAAA
1 TAATTT-AATA-ATTTTAATAATAAA
7439696 TAATTTTTAAT-ATTTTAATA
1 TAA--TTTAATAATTTTAATA
7439716 GTTATATTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
24 2 0.05
25 17 0.40
26 17 0.40
27 3 0.07
28 3 0.07
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (24 bp):
TAATTTAATAATTTTAATAATAAA
Found at i:7439691 original size:26 final size:26
Alignment explanation
Indices: 7439652--7439715 Score: 96
Period size: 26 Copynumber: 2.5 Consensus size: 26
7439642 TTTTAATATT
7439652 AATA-ATTTTAATAATAAATAATTTC
1 AATATATTTTAATAATAAATAATTTC
*
7439677 AATATATTTTAATAATAAATAATTTT
1 AATATATTTTAATAATAAATAATTTC
*
7439703 TA-ATATTTTAATA
1 AATATATTTTAATA
7439716 GTTATATTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 15 0.42
26 21 0.58
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (26 bp):
AATATATTTTAATAATAAATAATTTC
Found at i:7439701 original size:16 final size:16
Alignment explanation
Indices: 7439564--7439707 Score: 67
Period size: 15 Copynumber: 9.2 Consensus size: 16
7439554 TAATATAAAG
7439564 AATAATAAATAATTTT
1 AATAATAAATAATTTT
** *
7439580 -ATTTTAAGT-ATTTT
1 AATAATAAATAATTTT
* *
7439594 TATATTAACATAACATTTT
1 AATAATAA-AT-A-ATTTT
*
7439613 AATATTAAAT-ATTATT
1 AATAATAAATAATT-TT
*
7439629 ATTAA-AATATAATTTTT
1 AATAATAA-ATAA-TTTT
*
7439646 AAT-ATTAATAATTTT
1 AATAATAAATAATTTT
7439661 AATAATAAATAA-TTT
1 AATAATAAATAATTTT
*
7439676 --CAAT--AT-ATTTT
1 AATAATAAATAATTTT
7439687 AATAATAAATAATTTTT
1 AATAATAAATAA-TTTT
7439704 AATA
1 AATA
7439708 TTTTAATAGT
Statistics
Matches: 97, Mismatches: 13, Indels: 35
0.67 0.09 0.24
Matches are distributed among these distances:
10 1 0.01
11 5 0.05
13 6 0.06
14 5 0.05
15 29 0.30
16 21 0.22
17 14 0.14
18 4 0.04
19 12 0.12
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (16 bp):
AATAATAAATAATTTT
Found at i:7439707 original size:10 final size:9
Alignment explanation
Indices: 7439637--7439715 Score: 55
Period size: 7 Copynumber: 9.3 Consensus size: 9
7439627 TTATTAAAAT
7439637 ATAATTTT-
1 ATAATTTTA
*
7439645 -TAATATTA
1 ATAATTTTA
7439653 ATAATTTTA
1 ATAATTTTA
*
7439662 ATAA--TAA
1 ATAATTTTA
*
7439669 ATAATTTCA
1 ATAATTTTA
7439678 ATATATTTTA
1 ATA-ATTTTA
*
7439688 ATAA--TAA
1 ATAATTTTA
7439695 ATAATTTTTA
1 ATAA-TTTTA
7439705 AT-ATTTTA
1 ATAATTTTA
7439713 ATA
1 ATA
7439716 GTTATATTAA
Statistics
Matches: 55, Mismatches: 7, Indels: 17
0.70 0.09 0.22
Matches are distributed among these distances:
7 18 0.33
8 7 0.13
9 18 0.33
10 12 0.22
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (9 bp):
ATAATTTTA
Found at i:7441891 original size:2 final size:2
Alignment explanation
Indices: 7441884--7441910 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7441874 TATCATACAA
7441884 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
7441911 AACATCATGC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7442002 original size:57 final size:54
Alignment explanation
Indices: 7441940--7442053 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 54
7441930 ACCAAAATAT
* *
7441940 TATGCAAATATTTAATAAATCATGCTAATAAATAATAGTAATCAAGCAAATAATAAA
1 TATGCAAATATTAAAT-AATCATG-TAA-AAATAATAATAATCAAGCAAATAATAAA
* * *
7441997 TATGCAAATATTAAATAATCATGTAAATATATTAATAATCAGGCAAATAATAAA
1 TATGCAAATATTAAATAATCATGTAAAAATAATAATAATCAAGCAAATAATAAA
7442051 TAT
1 TAT
7442054 ATTAATAATC
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
54 27 0.52
55 3 0.06
56 7 0.13
57 15 0.29
ACGTcount: A:0.54, C:0.08, G:0.07, T:0.32
Consensus pattern (54 bp):
TATGCAAATATTAAATAATCATGTAAAAATAATAATAATCAAGCAAATAATAAA
Found at i:7442044 original size:20 final size:19
Alignment explanation
Indices: 7442000--7442052 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
7441990 TAATAAATAT
*
7442000 GCAAATATTAAATAATCAT
1 GCAAATATTAAATAATCAG
* *
7442019 GTAAATATATTAATAATCAG
1 GCAAATAT-TAAATAATCAG
*
7442039 GCAAATAATAAATA
1 GCAAATATTAAATA
7442053 TATTAATAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.55, C:0.08, G:0.08, T:0.30
Consensus pattern (19 bp):
GCAAATATTAAATAATCAG
Found at i:7442050 original size:27 final size:27
Alignment explanation
Indices: 7442020--7442089 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
7442010 AATAATCATG
7442020 TAAATATATTAATAATCAGGCAAATAA
1 TAAATATATTAATAATCAGGCAAATAA
* *
7442047 TAAATATATTAATAATCATGCAAATAT
1 TAAATATATTAATAATCAGGCAAATAA
7442074 TAAATATATTAATAAT
1 TAAATATATTAATAAT
7442090 TATACAATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (27 bp):
TAAATATATTAATAATCAGGCAAATAA
Found at i:7444535 original size:20 final size:20
Alignment explanation
Indices: 7444480--7444536 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
7444470 TTAAATTTTC
* *
7444480 ATAATTTTTAATATCAAAAA
1 ATAATTTTAAATATAAAAAA
7444500 ATAA---TAAAT-TATAAAAA
1 ATAATTTTAAATATA-AAAAA
7444517 ATAATTTTAAATATAAAAAA
1 ATAATTTTAAATATAAAAAA
7444537 TAGGAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
16 1 0.03
17 13 0.43
20 14 0.47
21 2 0.07
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
ATAATTTTAAATATAAAAAA
Found at i:7444548 original size:22 final size:20
Alignment explanation
Indices: 7444480--7444538 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 20
7444470 TTAAATTTTC
*
7444480 ATAATTTTTAA-TATCAAAAA
1 ATAATTTTAAATTAT-AAAAA
7444500 ATAA---TAAATTATAAAAA
1 ATAATTTTAAATTATAAAAA
7444517 ATAATTTTAAA-TATAAAAA
1 ATAATTTTAAATTATAAAAA
7444536 ATA
1 ATA
7444539 GGAATTTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
17 12 0.35
18 3 0.09
19 11 0.32
20 8 0.24
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
ATAATTTTAAATTATAAAAA
Found at i:7445722 original size:22 final size:21
Alignment explanation
Indices: 7445686--7445727 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7445676 TATAATAAAA
*
7445686 TTTTTTAAATAAAATAATTAT
1 TTTTTTAAAAAAAATAATTAT
*
7445707 TTTTTTAAAAATAAATTATTA
1 TTTTTTAAAAA-AAATAATTA
7445728 AAATAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTTTTAAAAAAAATAATTAT
Found at i:7456284 original size:16 final size:16
Alignment explanation
Indices: 7456255--7456287 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7456245 TCGAAATAAA
7456255 AAAATAAAATAAATTT
1 AAAATAAAATAAATTT
7456271 AAAA-AAAATCAAATTT
1 AAAATAAAAT-AAATTT
7456287 A
1 A
7456288 TATGTGATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (16 bp):
AAAATAAAATAAATTT
Found at i:7457446 original size:26 final size:24
Alignment explanation
Indices: 7457410--7457457 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 24
7457400 TAATTTTCTT
7457410 AAAAAATAAAA-GAAATGACAAAAA
1 AAAAAATAAAACGAAA-GACAAAAA
7457434 AAAAAAGTAAAAACGAAAGACAAA
1 AAAAAA-T-AAAACGAAAGACAAA
7457458 TGGGGATGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 6 0.29
25 1 0.05
26 10 0.48
27 4 0.19
ACGTcount: A:0.77, C:0.06, G:0.10, T:0.06
Consensus pattern (24 bp):
AAAAAATAAAACGAAAGACAAAAA
Found at i:7461513 original size:10 final size:10
Alignment explanation
Indices: 7461496--7461537 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
7461486 AAGAAAATAC
7461496 AAAA-AAAGT
1 AAAACAAAGT
7461505 AAAACAAAGT
1 AAAACAAAGT
7461515 AAAACAAA-T
1 AAAACAAAGT
*
7461524 AAAAACAAATT
1 -AAAACAAAGT
7461535 AAA
1 AAA
7461538 TAAACAAATC
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
9 5 0.17
10 24 0.80
11 1 0.03
ACGTcount: A:0.76, C:0.07, G:0.05, T:0.12
Consensus pattern (10 bp):
AAAACAAAGT
Found at i:7462014 original size:17 final size:17
Alignment explanation
Indices: 7461992--7462024 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7461982 AAGACTTAAA
*
7461992 AAATAAAGTAAAAAATC
1 AAATAAAATAAAAAATC
7462009 AAATAAAATAAAAAAT
1 AAATAAAATAAAAAAT
7462025 TTAAAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (17 bp):
AAATAAAATAAAAAATC
Done.