Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 11 of 320
Found at i:3046628 original size:39 final size:40
Alignment explanation
Indices: 3046522--3046631 Score: 100
Period size: 38 Copynumber: 2.8 Consensus size: 40
3046512 ACCTCGAGTA
* * **
3046522 GATGAAACACTGGGTGTC-ACTAAATTTCTTCGGATAGATTC
1 GATGAGACACTGGGTGTCAACT--ATTACTTCGGATAGAGCC
** ** *
3046563 GATGAGGTACTGGGTACCAACT-TTACTTCGGCTAG-GCC
1 GATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGCC
3046601 GATGAGACACTGGGTGTCAACTATTACTTCG
1 GATGAGACACTGGGTGTCAACTATTACTTCG
3046632 AACTATCCGA
Statistics
Matches: 54, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
38 19 0.35
39 19 0.35
41 13 0.24
42 3 0.06
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (40 bp):
GATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGCC
Found at i:3055986 original size:18 final size:19
Alignment explanation
Indices: 3055929--3055993 Score: 71
Period size: 18 Copynumber: 3.4 Consensus size: 19
3055919 AAATTTATAT
3055929 TTATAAAAATATTATTAAAAA
1 TTATAAAAATA--ATTAAAAA
* *
3055950 TTATAAAAATTATT-TAAA
1 TTATAAAAATAATTAAAAA
3055968 TTATAAAAA-AATTAAAAA
1 TTATAAAAATAATTAAAAA
*
3055986 TCATAAAA
1 TTATAAAA
3055994 GTGTTCACCT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
17 3 0.08
18 22 0.58
19 3 0.08
21 10 0.26
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
TTATAAAAATAATTAAAAA
Found at i:3055993 original size:9 final size:9
Alignment explanation
Indices: 3055929--3055976 Score: 51
Period size: 9 Copynumber: 5.0 Consensus size: 9
3055919 AAATTTATAT
3055929 TTATAAAAATA
1 TTAT-AAAA-A
3055940 TTATTAAAAA
1 TTA-TAAAAA
3055950 TTATAAAAA
1 TTATAAAAA
**
3055959 TTATTTAAA
1 TTATAAAAA
3055968 TTATAAAAA
1 TTATAAAAA
3055977 AATTAAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 20 0.62
10 4 0.12
11 7 0.22
12 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
TTATAAAAA
Found at i:3060810 original size:23 final size:22
Alignment explanation
Indices: 3060784--3060842 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 22
3060774 TTTTACTATT
*
3060784 TTAATAGTATAATTTTTAAAAAA
1 TTAA-AGTATAATTTTCAAAAAA
* *
3060807 TTAAATTA-AATTTTCATAAAA
1 TTAAAGTATAATTTTCAAAAAA
3060828 TTAAAAGTATAATTT
1 TT-AAAGTATAATTT
3060843 CACTTTTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 13 0.43
22 8 0.27
23 9 0.30
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (22 bp):
TTAAAGTATAATTTTCAAAAAA
Found at i:3060864 original size:66 final size:67
Alignment explanation
Indices: 3060736--3060872 Score: 163
Period size: 66 Copynumber: 2.1 Consensus size: 67
3060726 TAAAAGGATT
* * * *
3060736 AAAATTAAATTATAATTTTTATAATAATAAAAATATAATTTTACTATTTTAATAGTATAATTTTT
1 AAAATTAAATTATAATTTTCATAATAATAAAAATATAATTTCACTATTTTAATAGTAAAATTTTA
3060801 AA
66 AA
* * * *
3060803 AAAATTAAATTA-AATTTTCATAA-AATTAAAAGTATAATTTCACTTTTATTTAT-TTAAAATTT
1 AAAATTAAATTATAATTTTCATAATAA-TAAAAATATAATTTCACTATT-TTAATAGTAAAATTT
3060865 TAAA
64 TAAA
3060869 AAAA
1 AAAA
3060873 ACCTAATTAA
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
65 2 0.03
66 42 0.70
67 16 0.27
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.45
Consensus pattern (67 bp):
AAAATTAAATTATAATTTTCATAATAATAAAAATATAATTTCACTATTTTAATAGTAAAATTTTA
AA
Found at i:3064664 original size:14 final size:15
Alignment explanation
Indices: 3064645--3064685 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
3064635 TTAGCCCAAT
3064645 ATTTTATTTATTAA-
1 ATTTTATTTATTAAC
*
3064659 ATTTTATATTTTTAAC
1 ATTTTAT-TTATTAAC
3064675 A-TTTATTTATT
1 ATTTTATTTATT
3064686 CTGAATTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 11 0.48
15 11 0.48
16 1 0.04
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (15 bp):
ATTTTATTTATTAAC
Found at i:3066026 original size:18 final size:18
Alignment explanation
Indices: 3066000--3066042 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
3065990 AAAAGTTGTT
*
3066000 TTTACATATATTAATAAA
1 TTTATATATATTAATAAA
3066018 TTTATATATATTAATAAA
1 TTTATATATATTAATAAA
3066036 TTTATAT
1 TTTATAT
3066043 TTTAAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:3067039 original size:24 final size:24
Alignment explanation
Indices: 3067005--3067057 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
3066995 GAGTACCTCA
3067005 CACACTCATCTCTAACATTCAACC
1 CACACTCATCTCTAACATTCAACC
*
3067029 CACACTTATCTCTAACATTCAACC
1 CACACTCATCTCTAACATTCAACC
3067053 CACAC
1 CACAC
3067058 CATAAGAAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.34, C:0.42, G:0.00, T:0.25
Consensus pattern (24 bp):
CACACTCATCTCTAACATTCAACC
Found at i:3068767 original size:7 final size:7
Alignment explanation
Indices: 3068755--3068779 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
3068745 AGTCGAAAAA
3068755 AATTTCG
1 AATTTCG
3068762 AATTTCG
1 AATTTCG
3068769 AATTTCG
1 AATTTCG
3068776 AATT
1 AATT
3068780 ATTCGAATCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (7 bp):
AATTTCG
Found at i:3068797 original size:9 final size:9
Alignment explanation
Indices: 3068785--3068817 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
3068775 GAATTATTCG
3068785 AATCGAGTT
1 AATCGAGTT
*
3068794 AATCGAATT
1 AATCGAGTT
3068803 AATCGAGTT
1 AATCGAGTT
3068812 AATCGA
1 AATCGA
3068818 ATCAACTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (9 bp):
AATCGAGTT
Found at i:3068808 original size:18 final size:18
Alignment explanation
Indices: 3068785--3068819 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
3068775 GAATTATTCG
3068785 AATCGAGTTAATCGAATT
1 AATCGAGTTAATCGAATT
3068803 AATCGAGTTAATCGAAT
1 AATCGAGTTAATCGAAT
3068820 CAACTCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.31
Consensus pattern (18 bp):
AATCGAGTTAATCGAATT
Found at i:3069213 original size:12 final size:12
Alignment explanation
Indices: 3069198--3069230 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
3069188 TATTTTTTAG
3069198 TTATTTACTCAC
1 TTATTTACTCAC
*
3069210 TTATTTATTCAC
1 TTATTTACTCAC
3069222 TTATTTACT
1 TTATTTACT
3069231 TCAATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.58
Consensus pattern (12 bp):
TTATTTACTCAC
Found at i:3070058 original size:41 final size:40
Alignment explanation
Indices: 3070002--3070087 Score: 100
Period size: 41 Copynumber: 2.1 Consensus size: 40
3069992 CAAATACATT
* *
3070002 TAAAACAAATATTAAAATAAGAAACAAATAAAAAATGATAC
1 TAAAACAAATATTAAAACAAGAAACAAATAAAAAAT-ATAA
* * * * *
3070043 TAAAACAATTCTTAAAACAATATACAAATTAAAAATATAA
1 TAAAACAAATATTAAAACAAGAAACAAATAAAAAATATAA
3070083 TAAAA
1 TAAAA
3070088 AGTGATTATA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 8 0.21
41 30 0.79
ACGTcount: A:0.66, C:0.08, G:0.02, T:0.23
Consensus pattern (40 bp):
TAAAACAAATATTAAAACAAGAAACAAATAAAAAATATAA
Found at i:3070138 original size:28 final size:27
Alignment explanation
Indices: 3070070--3070138 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 27
3070060 CAATATACAA
* * *
3070070 ATTAAAAATATAATAAAAAGTGATTAT
1 ATTAAAAATAAAATAAAAAGTAAATAT
* *
3070097 ATTAAAATTGAAAATAAAATGTAAATAT
1 ATTAAAAAT-AAAATAAAAAGTAAATAT
3070125 GATTAAAAATAAAA
1 -ATTAAAAATAAAA
3070139 AATATATATT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
27 8 0.24
28 18 0.53
29 8 0.24
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.30
Consensus pattern (27 bp):
ATTAAAAATAAAATAAAAAGTAAATAT
Found at i:3081660 original size:8 final size:8
Alignment explanation
Indices: 3081649--3081728 Score: 85
Period size: 8 Copynumber: 10.4 Consensus size: 8
3081639 GATTAAAATA
3081649 TTAAATTT
1 TTAAATTT
3081657 TT-AATTT
1 TTAAATTT
*
3081664 TTAATTTT
1 TTAAATTT
*
3081672 TTTAA-TT
1 TTAAATTT
*
3081679 TTAATTTT
1 TTAAATTT
*
3081687 TTTAATTT
1 TTAAATTT
3081695 TTAAATTT
1 TTAAATTT
3081703 TT-AATTT
1 TTAAATTT
*
3081710 TTAATTTT
1 TTAAATTT
*
3081718 TTAATTTT
1 TTAAATTT
3081726 TTA
1 TTA
3081729 TTTTTTGAGT
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
7 19 0.32
8 41 0.68
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (8 bp):
TTAAATTT
Found at i:3081672 original size:15 final size:15
Alignment explanation
Indices: 3081649--3081734 Score: 120
Period size: 15 Copynumber: 5.7 Consensus size: 15
3081639 GATTAAAATA
*
3081649 TTAAATTTTTAATTT
1 TTAATTTTTTAATTT
3081664 TTAATTTTTTTAA-TT
1 TTAA-TTTTTTAATTT
3081679 TTAATTTTTTTAATTT
1 TTAA-TTTTTTAATTT
*
3081695 TTAAATTTTTAATTT
1 TTAATTTTTTAATTT
3081710 TTAATTTTTTAATTT
1 TTAATTTTTTAATTT
*
3081725 TTTATTTTTT
1 TTAATTTTTT
3081735 GAGTTTATTT
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
15 52 0.80
16 13 0.20
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTAATTTTTTAATTT
Found at i:3081718 original size:7 final size:7
Alignment explanation
Indices: 3081652--3081733 Score: 94
Period size: 7 Copynumber: 11.0 Consensus size: 7
3081642 TAAAATATTA
3081652 AATTTTT
1 AATTTTT
3081659 AATTTTT
1 AATTTTT
3081666 AATTTTTTT
1 AA--TTTTT
3081675 AA-TTTT
1 AATTTTT
3081681 AATTTTTTT
1 AA--TTTTT
3081690 AATTTTT
1 AATTTTT
3081697 AAATTTTT
1 -AATTTTT
3081705 AATTTTT
1 AATTTTT
3081712 AATTTTTT
1 AA-TTTTT
3081720 AATTTTT
1 AATTTTT
*
3081727 TATTTTT
1 AATTTTT
3081734 TGAGTTTATT
Statistics
Matches: 67, Mismatches: 1, Indels: 14
0.82 0.01 0.17
Matches are distributed among these distances:
6 6 0.09
7 34 0.51
8 14 0.21
9 13 0.19
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
AATTTTT
Found at i:3081726 original size:22 final size:22
Alignment explanation
Indices: 3081652--3081733 Score: 112
Period size: 22 Copynumber: 3.6 Consensus size: 22
3081642 TAAAATATTA
3081652 AATTTTTAATTTTTAATTTTTTT
1 AATTTTTAATTTTTAA-TTTTTT
*
3081675 AA-TTTTAATTTTTTTAATTTTTA
1 AATTTTTAA--TTTTTAATTTTTT
3081698 AATTTTTAATTTTTAATTTTTT
1 AATTTTTAATTTTTAATTTTTT
*
3081720 AATTTTTTATTTTT
1 AATTTTTAATTTTT
3081734 TGAGTTTATT
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
22 31 0.58
23 9 0.17
24 13 0.25
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (22 bp):
AATTTTTAATTTTTAATTTTTT
Found at i:3081734 original size:7 final size:7
Alignment explanation
Indices: 3081653--3081751 Score: 58
Period size: 7 Copynumber: 13.6 Consensus size: 7
3081643 AAAATATTAA
*
3081653 ATTTTTA
1 ATTTTTT
*
3081660 ATTTTTA
1 ATTTTTT
3081667 ATTTTTTT
1 A-TTTTTT
* *
3081675 AATTTTA
1 ATTTTTT
3081682 ATTTTTTT
1 A-TTTTTT
*
3081690 AATTTTTAA
1 -ATTTTT-T
*
3081699 ATTTTTA
1 ATTTTTT
*
3081706 ATTTTTA
1 ATTTTTT
3081713 ATTTTTT
1 ATTTTTT
3081720 AATTTTTT
1 -ATTTTTT
3081728 ATTTTTT
1 ATTTTTT
*
3081735 GA--GTTT
1 -ATTTTTT
3081741 ATTTTTT
1 ATTTTTT
3081748 ATTT
1 ATTT
3081752 CGGTTTAATG
Statistics
Matches: 75, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
5 1 0.01
6 3 0.04
7 41 0.55
8 29 0.39
9 1 0.01
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (7 bp):
ATTTTTT
Found at i:3082280 original size:15 final size:15
Alignment explanation
Indices: 3082257--3082307 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
3082247 ATACCCATGG
*
3082257 CCATTAAACCTTAAA
1 CCATAAAACCTTAAA
*
3082272 CCATAAAACCGTAAA
1 CCATAAAACCTTAAA
* *
3082287 CTAT-AGACCTTAAA
1 CCATAAAACCTTAAA
*
3082301 CCTTAAA
1 CCATAAA
3082308 TATTAAACCG
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
14 10 0.37
15 17 0.63
ACGTcount: A:0.47, C:0.25, G:0.04, T:0.24
Consensus pattern (15 bp):
CCATAAAACCTTAAA
Found at i:3082480 original size:37 final size:37
Alignment explanation
Indices: 3082430--3082502 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
3082420 ATGTGATGTT
3082430 TTTTGGGGTTTAGGGTTTTAAAAGTTATAGTTTAGTA
1 TTTTGGGGTTTAGGGTTTTAAAAGTTATAGTTTAGTA
* * *
3082467 TTTTGGGGTTTAGGTTTTTAGAGGTTATAGTTTAGT
1 TTTTGGGGTTTAGGGTTTTAAAAGTTATAGTTTAGT
3082503 GTTCATGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.51
Consensus pattern (37 bp):
TTTTGGGGTTTAGGGTTTTAAAAGTTATAGTTTAGTA
Found at i:3082674 original size:41 final size:41
Alignment explanation
Indices: 3082544--3082665 Score: 192
Period size: 41 Copynumber: 3.0 Consensus size: 41
3082534 GGAGTAATAT
*
3082544 GACTTTTAGCGGCGTTTTA-CAGAAAGCGCCGCTAATGGTCC
1 GACTTTTAGCGGCGTTTTACCA-AAAGCGCCGCTAATGCTCC
*
3082585 GACTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCC
1 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCC
* *
3082626 GACTTTTAGCGGCATTTTACCAAAAGCGCCGCTATTGCTC
1 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTC
3082666 TATGTTTTAC
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
41 74 0.99
42 1 0.01
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.28
Consensus pattern (41 bp):
GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCC
Found at i:3092024 original size:19 final size:20
Alignment explanation
Indices: 3091991--3092037 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
3091981 CAGTAAAATA
*
3091991 TTTTCTGGAAAATGAATTCC
1 TTTTCTGGAAAATGAATTAC
*
3092011 TTTTCTGG-AAATGACTTAC
1 TTTTCTGGAAAATGAATTAC
3092030 TTTTCTGG
1 TTTTCTGG
3092038 TGTTTGGATG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.23, C:0.15, G:0.17, T:0.45
Consensus pattern (20 bp):
TTTTCTGGAAAATGAATTAC
Found at i:3092139 original size:16 final size:16
Alignment explanation
Indices: 3092118--3092158 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
3092108 TTGTTTTTAC
3092118 ATATATTAATAAATAT
1 ATATATTAATAAATAT
*
3092134 ATATATTAATAAATTT
1 ATATATTAATAAATAT
*
3092150 ATATTTTAA
1 ATATATTAA
3092159 ATTATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATATATTAATAAATAT
Found at i:3093144 original size:24 final size:24
Alignment explanation
Indices: 3093112--3093164 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
3093102 GAGTACCTCA
*
3093112 CACACTCATCTCTAGCATTCAACC
1 CACACTCATCTCTAACATTCAACC
3093136 CACACTCATCTCTAACATTCAACC
1 CACACTCATCTCTAACATTCAACC
3093160 CACAC
1 CACAC
3093165 CATAAGAAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.32, C:0.43, G:0.02, T:0.23
Consensus pattern (24 bp):
CACACTCATCTCTAACATTCAACC
Found at i:3095057 original size:16 final size:16
Alignment explanation
Indices: 3095032--3095092 Score: 56
Period size: 16 Copynumber: 4.0 Consensus size: 16
3095022 ATTATCATCA
3095032 TATA-AATTTTAATTT
1 TATACAATTTTAATTT
*
3095047 TATACAATTTT-A-TA
1 TATACAATTTTAATTT
* *
3095061 CATAAAATTTTAATTT
1 TATACAATTTTAATTT
* *
3095077 GATCCAATTTTAATTT
1 TATACAATTTTAATTT
3095093 AATATCATTT
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
14 10 0.28
15 6 0.17
16 20 0.56
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (16 bp):
TATACAATTTTAATTT
Found at i:3095069 original size:30 final size:31
Alignment explanation
Indices: 3095030--3095088 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
3095020 AAATTATCAT
*
3095030 CATATAAATTTTAATTTTATACAATTTTATA
1 CATATAAATTTTAATTTGATACAATTTTATA
*
3095061 CATA-AAATTTTAATTTGATCCAATTTTA
1 CATATAAATTTTAATTTGATACAATTTTA
3095089 ATTTAATATC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.49
Consensus pattern (31 bp):
CATATAAATTTTAATTTGATACAATTTTATA
Found at i:3103796 original size:90 final size:90
Alignment explanation
Indices: 3103643--3103818 Score: 298
Period size: 90 Copynumber: 2.0 Consensus size: 90
3103633 GAGTTGAGGT
* * * *
3103643 TACAAAATTAATGCGACGAATAACATGTAACTCATAAATGATAAGTTTTGAATGGTCGTTTCCAT
1 TACAAAATTAATGCAACAAATAACATATAACTCATAAATGATAAGTTCTGAATGGTCGTTTCCAT
3103708 CCAACATATGTTGCTTTTGTAGTCC
66 CCAACATATGTTGCTTTTGTAGTCC
* *
3103733 TACAAAATTAATGCAACAAATAACATATAACTCGTAAATGATAAGTTCTGAATGGTCTTTTCCAT
1 TACAAAATTAATGCAACAAATAACATATAACTCATAAATGATAAGTTCTGAATGGTCGTTTCCAT
3103798 CCAACATATGTTGCTTTTGTA
66 CCAACATATGTTGCTTTTGTA
3103819 ATCCGGGTAC
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
90 80 1.00
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (90 bp):
TACAAAATTAATGCAACAAATAACATATAACTCATAAATGATAAGTTCTGAATGGTCGTTTCCAT
CCAACATATGTTGCTTTTGTAGTCC
Found at i:3107748 original size:33 final size:33
Alignment explanation
Indices: 3107711--3107786 Score: 86
Period size: 31 Copynumber: 2.4 Consensus size: 33
3107701 ATGTGATATT
* * *
3107711 ATTTTATATGTGTATAATTACATTA-AAATTAAA
1 ATTTTATATGTATATAATTAAATCACAAA-TAAA
*
3107744 ATTTTATA--TATATACTTAAATCACAAATAAA
1 ATTTTATATGTATATAATTAAATCACAAATAAA
3107775 ATTTTATATGTA
1 ATTTTATATGTA
3107787 AAATTATATC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
31 23 0.64
32 3 0.08
33 10 0.28
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (33 bp):
ATTTTATATGTATATAATTAAATCACAAATAAA
Found at i:3107799 original size:29 final size:30
Alignment explanation
Indices: 3107740--3107805 Score: 71
Period size: 31 Copynumber: 2.2 Consensus size: 30
3107730 ACATTAAAAT
* *
3107740 TAAAATTTTATATATATACTTAAATCACAAA
1 TAAAATTTTATATATAAAATTAAAT-ACAAA
* *
3107771 TAAAATTTTATATGTAAAATTATAT-CAAA
1 TAAAATTTTATATATAAAATTAAATACAAA
*
3107800 TCAAAT
1 TAAAAT
3107806 CAAAATTCGT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 9 0.30
31 21 0.70
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.39
Consensus pattern (30 bp):
TAAAATTTTATATATAAAATTAAATACAAA
Found at i:3114795 original size:37 final size:37
Alignment explanation
Indices: 3114738--3114889 Score: 164
Period size: 37 Copynumber: 3.9 Consensus size: 37
3114728 TATGATCACT
*
3114738 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* * *
3114773 TATCACTTTGTTTCTTGATCAGAAAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
3114810 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCAC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC-----C-A-C-C
*
3114855 TTATCACTTTGTCTCTTGATCAGATAAGTATAGCC
1 -TATCACTTTGTCTCTTGATCAGATAAGTGTAGCC
3114890 GAAGCTATCA
Statistics
Matches: 98, Mismatches: 8, Indels: 16
0.80 0.07 0.13
Matches are distributed among these distances:
35 6 0.06
36 4 0.04
37 52 0.53
41 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 32 0.33
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.36
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
Found at i:3114873 original size:46 final size:46
Alignment explanation
Indices: 3114806--3115074 Score: 315
Period size: 46 Copynumber: 5.6 Consensus size: 46
3114796 AAAGTGTAGC
* *
3114806 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* * *
3114852 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
*
3114898 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
*
3114950 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG-TCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-GAAGCTAT
* * * *
3114996 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAACCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
3115048 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
3115075 AGTACTCAAA
Statistics
Matches: 196, Mismatches: 13, Indels: 28
0.83 0.05 0.12
Matches are distributed among these distances:
46 110 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 81 0.41
53 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
Found at i:3114925 original size:52 final size:52
Alignment explanation
Indices: 3114849--3115068 Score: 281
Period size: 52 Copynumber: 4.3 Consensus size: 52
3114839 TAGCTAAAGC
* *
3114849 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
3114902 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* *
3114954 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGTCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** * *
3115000 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAACCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
3115052 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
3115069 ATCAGAAGTA
Statistics
Matches: 145, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
46 42 0.29
49 1 0.01
52 84 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.36
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:3114971 original size:98 final size:98
Alignment explanation
Indices: 3114806--3115074 Score: 439
Period size: 98 Copynumber: 2.7 Consensus size: 98
3114796 AAAGTGTAGC
* * *
3114806 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
3114871 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
3114905 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
* *
3114970 GATCAGATAAGTATAGTCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* * *
3115003 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAACCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
3115068 GATCAGA
66 GATCAGA
3115075 AGTACTCAAA
Statistics
Matches: 158, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
98 149 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:3118266 original size:49 final size:50
Alignment explanation
Indices: 3118211--3118414 Score: 241
Period size: 49 Copynumber: 4.0 Consensus size: 50
3118201 TTCGTTTTCT
*
3118211 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACA-AATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
* * *
3118260 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACA-TATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
* *
3118309 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACAC-G--T---A-ATCACACA-ATCACATAC
* * *
3118367 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACAT
3118415 GTTCACATGT
Statistics
Matches: 136, Mismatches: 10, Indels: 17
0.83 0.06 0.10
Matches are distributed among these distances:
49 74 0.54
50 7 0.05
51 7 0.05
52 1 0.01
55 1 0.01
56 6 0.04
57 1 0.01
58 39 0.29
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (50 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
Found at i:3118381 original size:58 final size:59
Alignment explanation
Indices: 3118295--3118413 Score: 231
Period size: 58 Copynumber: 2.0 Consensus size: 59
3118285 TACACGAAAT
3118295 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAT-ATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
3118353 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
3118412 CA
1 CA
3118414 TGTTCACATG
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
58 54 0.90
59 6 0.10
ACGTcount: A:0.32, C:0.31, G:0.13, T:0.24
Consensus pattern (59 bp):
CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
Found at i:3118394 original size:28 final size:28
Alignment explanation
Indices: 3118304--3118394 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
3118294 TCACATATCA
3118304 CTTACCGATGCCATAGCCCAGCTATGGT
1 CTTACCGATGCCATAGCCCAGCTATGGT
* * **
3118332 CTTACACGGAAT-CACATATCACA-CATAT-CA
1 CTTAC-C-G-ATGC-CATAGCCCAGC-TATGGT
3118362 CTTACCGATGCCATAGCCCAGCTATGGT
1 CTTACCGATGCCATAGCCCAGCTATGGT
3118390 CTTAC
1 CTTAC
3118395 ACGGAATCAC
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 12 0.26
28 13 0.28
29 2 0.04
30 8 0.17
31 12 0.26
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.25
Consensus pattern (28 bp):
CTTACCGATGCCATAGCCCAGCTATGGT
Found at i:3119727 original size:37 final size:37
Alignment explanation
Indices: 3119683--3119774 Score: 148
Period size: 37 Copynumber: 2.5 Consensus size: 37
3119673 CACTTGTCCC
* *
3119683 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTATCTCT
* *
3119720 TGATCAGAAAAGTGTAGCCACTTATCACTTTATCTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTATCTCT
3119757 TGATCAGATAAGTGTAGC
1 TGATCAGATAAGTGTAGC
3119775 TAAAGCTATC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (37 bp):
TGATCAGATAAGTGTAGCCACCTATCACTTTATCTCT
Found at i:3119805 original size:46 final size:46
Alignment explanation
Indices: 3119738--3120006 Score: 306
Period size: 46 Copynumber: 5.6 Consensus size: 46
3119728 AAAGTGTAGC
* * *
3119738 CACTTATCACTTTATCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* * *
3119784 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
*
3119830 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
*
3119882 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG-TCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-GAAGCTAT
* * * *
3119928 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAACCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
3119980 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
3120007 AGTACTCAAA
Statistics
Matches: 195, Mismatches: 14, Indels: 28
0.82 0.06 0.12
Matches are distributed among these distances:
46 109 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 81 0.42
53 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
Found at i:3119857 original size:52 final size:52
Alignment explanation
Indices: 3119781--3120000 Score: 281
Period size: 52 Copynumber: 4.3 Consensus size: 52
3119771 TAGCTAAAGC
* *
3119781 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
3119834 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* *
3119886 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGTCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** * *
3119932 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAACCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
3119984 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
3120001 ATCAGAAGTA
Statistics
Matches: 145, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
46 42 0.29
49 1 0.01
52 84 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.36
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:3119903 original size:98 final size:98
Alignment explanation
Indices: 3119755--3120006 Score: 432
Period size: 98 Copynumber: 2.6 Consensus size: 98
3119745 CACTTTATCT
*
3119755 CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAG
1 CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAG
*
3119820 CCGAAGCTATCACTTATCACTTTTCACTTGTCA
66 CCGAAGCTATCACTTATCACTTTCCACTTGTCA
**
3119853 CTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAG
* *
3119918 TCGAAGCTATTACTTATCACTTTCCACTTGTCA
66 CCGAAGCTATCACTTATCACTTTCCACTTGTCA
* *
3119951 CTTGATCAGATAAGTGTAGCTAAACCTACCACTTATCACTTTGTCACTTGATCAGA
1 CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGA
3120007 AGTACTCAAA
Statistics
Matches: 144, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 144 1.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.35
Consensus pattern (98 bp):
CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAG
CCGAAGCTATCACTTATCACTTTCCACTTGTCA
Found at i:3124113 original size:31 final size:30
Alignment explanation
Indices: 3124062--3124120 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
3124052 TGTGAAATGT
*
3124062 AAGACCATAATGGATCTATGGCATAGTGTGA
1 AAGACCATAATGGA-CTATGGCACAGTGTGA
3124093 AAGACCATAACTGAGA-TATGGCACAGTG
1 AAGACCATAA-TG-GACTATGGCACAGTG
3124121 AAAGTGAACG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
31 21 0.84
32 2 0.08
33 2 0.08
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.22
Consensus pattern (30 bp):
AAGACCATAATGGACTATGGCACAGTGTGA
Found at i:3128731 original size:30 final size:31
Alignment explanation
Indices: 3128696--3128761 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
3128686 CTACTTGGTA
* *
3128696 TTTTAGTTTGGGT-AATATTAGTCATTTTAT
1 TTTTAGATTCGGTCAATATTAGTCATTTTAT
* *
3128726 TTTTAGATTCGGTCAATTTTAGTCTTTTTAT
1 TTTTAGATTCGGTCAATATTAGTCATTTTAT
3128757 TTTTA
1 TTTTA
3128762 AAATTTTGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 11 0.35
31 20 0.65
ACGTcount: A:0.21, C:0.06, G:0.14, T:0.59
Consensus pattern (31 bp):
TTTTAGATTCGGTCAATATTAGTCATTTTAT
Found at i:3131218 original size:99 final size:101
Alignment explanation
Indices: 3131103--3131303 Score: 379
Period size: 99 Copynumber: 2.0 Consensus size: 101
3131093 ATAATACATT
3131103 AAATGCACTAAAAGCATTAAAATAAATGCTTTCCAACAAATTGAAAATACA-T-AAAAAATATTT
1 AAATGCACTAAAAGCATTAAAATAAATGCTTTCCAACAAATTGAAAATACATTAAAAAAATATTT
3131166 ATACTTAAATAACACTAAAATATGTGCAATTTAACA
66 ATACTTAAATAACACTAAAATATGTGCAATTTAACA
3131202 AAATGCACTAAAAGCATTAAAATAAATGCTTTCCAACAAATTGAAAATACATTAAAAAAATATTT
1 AAATGCACTAAAAGCATTAAAATAAATGCTTTCCAACAAATTGAAAATACATTAAAAAAATATTT
*
3131267 ATACTTAAATAACACTAAGATATGTGCAATTTAACA
66 ATACTTAAATAACACTAAAATATGTGCAATTTAACA
3131303 A
1 A
3131304 TCAAATGTTT
Statistics
Matches: 99, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
99 51 0.52
100 1 0.01
101 47 0.47
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.28
Consensus pattern (101 bp):
AAATGCACTAAAAGCATTAAAATAAATGCTTTCCAACAAATTGAAAATACATTAAAAAAATATTT
ATACTTAAATAACACTAAAATATGTGCAATTTAACA
Found at i:3132032 original size:23 final size:23
Alignment explanation
Indices: 3131997--3132041 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
3131987 AAAAATAATT
*
3131997 TTTTTACTGTTTTCTTATTGTTG
1 TTTTTACTATTTTCTTATTGTTG
* *
3132020 TTTTTGCTATTTTCTTGTTGTT
1 TTTTTACTATTTTCTTATTGTT
3132042 TTCACTATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.07, C:0.09, G:0.13, T:0.71
Consensus pattern (23 bp):
TTTTTACTATTTTCTTATTGTTG
Found at i:3132222 original size:25 final size:21
Alignment explanation
Indices: 3132183--3132234 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 21
3132173 AAGTATACAT
3132183 ATTTTTAAAAAATTTATTTTCA
1 ATTTTTAAAAAATTTATTTT-A
3132205 ATTTGTTAAGAAACATTTATTTTA
1 ATTT-TTAA-AAA-ATTTATTTTA
3132229 ATTTTT
1 ATTTTT
3132235 TTAATCTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 4 0.15
23 6 0.22
24 8 0.30
25 9 0.33
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.56
Consensus pattern (21 bp):
ATTTTTAAAAAATTTATTTTA
Found at i:3132238 original size:25 final size:23
Alignment explanation
Indices: 3132184--3132235 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 23
3132174 AGTATACATA
3132184 TTTTTAAAAAATTTATTTTCAAT
1 TTTTTAAAAAATTTATTTTCAAT
*
3132207 TTGTTAAGAAACATTTATTTT-AAT
1 TTTTTAA-AAA-ATTTATTTTCAAT
3132231 TTTTT
1 TTTTT
3132236 TAATCTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 10 0.40
25 9 0.36
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (23 bp):
TTTTTAAAAAATTTATTTTCAAT
Found at i:3138813 original size:5 final size:5
Alignment explanation
Indices: 3138795--3138831 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
3138785 ATTCCTCCAT
*
3138795 CCCAT CCCATC CCCAC CCCAC CCCAC CCCAC CCCAC C
1 CCCAC CCCA-C CCCAC CCCAC CCCAC CCCAC CCCAC C
3138832 TTTCCTTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.19, C:0.76, G:0.00, T:0.05
Consensus pattern (5 bp):
CCCAC
Found at i:3143757 original size:43 final size:42
Alignment explanation
Indices: 3143696--3143811 Score: 153
Period size: 43 Copynumber: 2.7 Consensus size: 42
3143686 ATAATTTCGT
*
3143696 TGAACTTGAGTGATTCAGATTGTGATTAATATATATTTTCAGA
1 TGAACTTAAGTGATTCAGATTGTGATTAATATATATTTT-AGA
* * *
3143739 TGAACTTAAGTGATTCAGATTGTGATCAAATATGTATTTTTGA
1 TGAACTTAAGTGATTCAGATTGTGAT-TAATATATATTTTAGA
*
3143782 TGAACTTTAAGTGATTCA-TTTGTGATTAAT
1 TGAAC-TTAAGTGATTCAGATTGTGATTAAT
3143812 TTTGGGGTTG
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
42 3 0.05
43 39 0.60
44 23 0.35
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (42 bp):
TGAACTTAAGTGATTCAGATTGTGATTAATATATATTTTAGA
Found at i:3151368 original size:15 final size:15
Alignment explanation
Indices: 3151348--3151387 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
3151338 ACTTGAACAC
* *
3151348 CTGCAGCAGGAGGAG
1 CTGCAGCAGCAGCAG
3151363 CTGCAGCAGCAGCAG
1 CTGCAGCAGCAGCAG
*
3151378 CAGCAGCAGC
1 CTGCAGCAGC
3151388 TTTTCTTGGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.28, C:0.30, G:0.38, T:0.05
Consensus pattern (15 bp):
CTGCAGCAGCAGCAG
Found at i:3161691 original size:29 final size:30
Alignment explanation
Indices: 3161644--3161711 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
3161634 TGGCCCAAGA
* *
3161644 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
3161674 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
3161704 GCAAATAT
1 GTAAATAT
3161712 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:3164195 original size:46 final size:46
Alignment explanation
Indices: 3164128--3164215 Score: 167
Period size: 46 Copynumber: 1.9 Consensus size: 46
3164118 AGTGTGCTCT
*
3164128 CTGATATGAAATGTGTAAGACCATGGTTGAAAGAGACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAAAGACCATGGCAGC
3164174 CTGATATGAAATGTGTAAGACCATGGTTGAAAAAGACCATGG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAAAGACCATGG
3164216 TTGAAAGATA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAAAGACCATGGCAGC
Found at i:3164231 original size:16 final size:16
Alignment explanation
Indices: 3164190--3164221 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
3164180 TGAAATGTGT
3164190 AAGACCATGGTTGAAA
1 AAGACCATGGTTGAAA
3164206 AAGACCATGGTTGAAA
1 AAGACCATGGTTGAAA
3164222 GATACTATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.25, T:0.19
Consensus pattern (16 bp):
AAGACCATGGTTGAAA
Found at i:3164241 original size:62 final size:62
Alignment explanation
Indices: 3164144--3164277 Score: 223
Period size: 62 Copynumber: 2.2 Consensus size: 62
3164134 TGAAATGTGT
*
3164144 AAGACCATGGTTGAAAGAGACCATGGCAGCCTGATATGAAATGTGTAAGACCATGGTTGAAA
1 AAGACCATGGTTGAAAGAGACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAA
* *
3164206 AAGACCATGGTTGAAAGATACTATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAA
1 AAGACCATGGTTGAAAGAGACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAA
* *
3164268 GATACCATGG
1 AAGACCATGG
3164278 CAACCTGATA
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 67 1.00
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.22
Consensus pattern (62 bp):
AAGACCATGGTTGAAAGAGACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAA
Found at i:3164256 original size:46 final size:46
Alignment explanation
Indices: 3164206--3164371 Score: 244
Period size: 46 Copynumber: 3.6 Consensus size: 46
3164196 ATGGTTGAAA
*
3164206 AAGACCATGGTTGAAAGATACTATGGCAACCTGATATGAAATGTGT
1 AAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGT
3164252 AAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGT
1 AAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGT
* * *
3164298 AAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGT
1 AAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAATGTGT
* * * *
3164344 AAGGCCATAGTTGAAAGACACTATGGCA
1 AAGACCATGGTTGAAAGATACCATGGCA
3164372 TCATGTTAAA
Statistics
Matches: 111, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
45 1 0.01
46 110 0.99
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
AAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGT
Found at i:3164321 original size:108 final size:108
Alignment explanation
Indices: 3164128--3164323 Score: 356
Period size: 108 Copynumber: 1.8 Consensus size: 108
3164118 AGTGTGCTCT
*
3164128 CTGATATGAAATGTGTAAGACCATGGTTGAAAGAGACCATGGCAGCCTGATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGAGACCATGGCAACCTGATATGAAATGTGTAAG
3164193 ACCATGGTTGAAAAAGACCATGGTTGAAAGATACTATGGCAAC
66 ACCATGGTTGAAAAAGACCATGGTTGAAAGATACTATGGCAAC
*
3164236 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGAGACCATGGCAACCTGATATGAAATGTGTAAG
* *
3164301 ACCATGGTTGAAAGATACCATGG
66 ACCATGGTTGAAAAAGACCATGG
3164324 CAACATGACA
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
108 84 1.00
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.24
Consensus pattern (108 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGAGACCATGGCAACCTGATATGAAATGTGTAAG
ACCATGGTTGAAAAAGACCATGGTTGAAAGATACTATGGCAAC
Found at i:3166967 original size:10 final size:11
Alignment explanation
Indices: 3166952--3166980 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
3166942 TTATGTGTTC
3166952 TTTATTTTA-T
1 TTTATTTTATT
3166962 TTTATTTTATT
1 TTTATTTTATT
3166973 TTTATTTT
1 TTTATTTT
3166981 TTACAATTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.50
11 9 0.50
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:3169720 original size:43 final size:43
Alignment explanation
Indices: 3169656--3169741 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
3169646 TATATGATTG
* *
3169656 ATATTGAAATGGTAAAGATGAGAAATGAATACGAGATGAGAAA
1 ATATTGAAATGGCAAAAATGAGAAATGAATACGAGATGAGAAA
*
3169699 ATATTGAAATGGCAAAAATGAGAAATGAATATGAGATGAGAAA
1 ATATTGAAATGGCAAAAATGAGAAATGAATACGAGATGAGAAA
3169742 TGTAATATGA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.52, C:0.02, G:0.24, T:0.21
Consensus pattern (43 bp):
ATATTGAAATGGCAAAAATGAGAAATGAATACGAGATGAGAAA
Found at i:3169761 original size:8 final size:8
Alignment explanation
Indices: 3169748--3169772 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
3169738 GAAATGTAAT
3169748 ATGAAATG
1 ATGAAATG
3169756 ATGAAATG
1 ATGAAATG
3169764 ATGAAATG
1 ATGAAATG
3169772 A
1 A
3169773 GATGTGAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (8 bp):
ATGAAATG
Found at i:3170302 original size:24 final size:24
Alignment explanation
Indices: 3170256--3170302 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
3170246 GGTTTAAGCT
*
3170256 ATGTTTTGGTATGTAGTTTAGTTA
1 ATGTTTTGGTATGTAGTTAAGTTA
*
3170280 ATGTTTTTGTATGT-GTATAAGTT
1 ATGTTTTGGTATGTAGT-TAAGTT
3170303 TTAAAGGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.21, C:0.00, G:0.23, T:0.55
Consensus pattern (24 bp):
ATGTTTTGGTATGTAGTTAAGTTA
Found at i:3173315 original size:44 final size:44
Alignment explanation
Indices: 3173235--3173325 Score: 137
Period size: 44 Copynumber: 2.1 Consensus size: 44
3173225 AACTCTGTTT
* * *
3173235 TTAGTTTTCCACTTAAACTCTAATTAGTGTAAGTTATTTTAATA
1 TTAGTTTCCCACTTAAACCCTAATTAATGTAAGTTATTTTAATA
* *
3173279 TTAGTTTCCCACTTAAACCCTGATTAATGTAGGTTATTTTAATA
1 TTAGTTTCCCACTTAAACCCTAATTAATGTAAGTTATTTTAATA
3173323 TTA
1 TTA
3173326 TTTGACCTAC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.46
Consensus pattern (44 bp):
TTAGTTTCCCACTTAAACCCTAATTAATGTAAGTTATTTTAATA
Found at i:3174493 original size:97 final size:98
Alignment explanation
Indices: 3174326--3174607 Score: 424
Period size: 98 Copynumber: 2.9 Consensus size: 98
3174316 TTAAAAAGAG
*
3174326 GCAAATGAGTTACCACAAAGGCATCTAAGTAAAAAAAAACATAATTAATGCAGCTCAAATGTTCA
1 GCAAATGAGTTACCACAAAGGCATCTAAGTAAAAAAAAACATAATTAATGCAGTTCAAATGTTCA
*
3174391 ATACAAGCATCTAAGCATAATAGAATAATTGAT
66 ATACAAGCATCTAAGCATAATAGAATAATCGAT
* * *
3174424 GCAAATGAGTTACCACAAAGGCATCTATGT-AAAGAAAACATAATTGATGCAGTTCAAATGTTCA
1 GCAAATGAGTTACCACAAAGGCATCTAAGTAAAAAAAAACATAATTAATGCAGTTCAAATGTTCA
* **
3174488 ATACAAGCATTTAAGCATAATATCATAATCGAT
66 ATACAAGCATCTAAGCATAATAGAATAATCGAT
* * * * *
3174521 GCAAAATGAGTTAGCATAAAGG-ATTTAAGTAAAAAAAAACATAATTAATGCAATTCAAATGTTT
1 GC-AAATGAGTTACCACAAAGGCATCTAAGTAAAAAAAAACATAATTAATGCAGTTCAAATGTTC
3174585 AATACAAGCATCTAAGCATAATA
65 AATACAAGCATCTAAGCATAATA
3174608 CCATGATTGA
Statistics
Matches: 165, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
97 68 0.41
98 97 0.59
ACGTcount: A:0.47, C:0.14, G:0.13, T:0.26
Consensus pattern (98 bp):
GCAAATGAGTTACCACAAAGGCATCTAAGTAAAAAAAAACATAATTAATGCAGTTCAAATGTTCA
ATACAAGCATCTAAGCATAATAGAATAATCGAT
Found at i:3175709 original size:15 final size:16
Alignment explanation
Indices: 3175679--3175711 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
3175669 ATATTAATGT
*
3175679 TATTTAATCTTTAAAA
1 TATTTAATCATTAAAA
3175695 TATTTAAT-ATTAAAA
1 TATTTAATCATTAAAA
3175710 TA
1 TA
3175712 ATACAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
TATTTAATCATTAAAA
Found at i:3177819 original size:62 final size:61
Alignment explanation
Indices: 3177655--3177835 Score: 254
Period size: 61 Copynumber: 3.0 Consensus size: 61
3177645 CTGCCCTACC
* * * * * *
3177655 GCTATTATTTTTTTTGGGTAACTGTTTTGCTGTCTCTTCACGTCTCTTTGCAACCCTTGCT
1 GCTATTATTTTTTTTCGGCAACTGCTTTGCTGCCTCTTCACGTCTCTCTGCAACCCCTGCT
** *
3177716 GCTATTATTTTTTTTTTGCAACTGCTTTGCTGCCTCTTCACGTATCTCTGCAACCCCTGCT
1 GCTATTATTTTTTTTCGGCAACTGCTTTGCTGCCTCTTCACGTCTCTCTGCAACCCCTGCT
* *
3177777 GCTATTATATTTTTTTCGGCAACTACTTTGCTGCCTCTTCACGTCTTTCTGCAACCCCT
1 GCTATTAT-TTTTTTTCGGCAACTGCTTTGCTGCCTCTTCACGTCTCTCTGCAACCCCT
3177836 ACTGATTTGC
Statistics
Matches: 106, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
61 61 0.58
62 45 0.42
ACGTcount: A:0.13, C:0.28, G:0.14, T:0.45
Consensus pattern (61 bp):
GCTATTATTTTTTTTCGGCAACTGCTTTGCTGCCTCTTCACGTCTCTCTGCAACCCCTGCT
Found at i:3180816 original size:44 final size:45
Alignment explanation
Indices: 3180763--3180864 Score: 125
Period size: 44 Copynumber: 2.3 Consensus size: 45
3180753 TGTCTTTGAC
* * *
3180763 ATGGACTTACATAAATTATTCCTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATAAATCAATCCTGTCTCCAAAGCCATATTATAAT
*** *
3180807 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATAAATCAATCCTGTCTCCAAAGCCATA-TTATAAT
3180853 ATGGACTTACAT
1 ATGGACTTACAT
3180865 GGCTCATTTC
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
44 32 0.65
46 17 0.35
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (45 bp):
ATGGACTTACATAAATCAATCCTGTCTCCAAAGCCATATTATAAT
Found at i:3180867 original size:46 final size:44
Alignment explanation
Indices: 3180782--3180870 Score: 142
Period size: 46 Copynumber: 2.0 Consensus size: 44
3180772 CATAAATTAT
*
3180782 TCCTGTCTCCAATGCCATATATAATATGGACTTACATGGCTCAA
1 TCCTGTCTCCAAAGCCATATATAATATGGACTTACATGGCTCAA
*
3180826 TCCTGTCTCCAAAGCCATATTTCTAATATGGACTTACATGGCTCA
1 TCCTGTCTCCAAAGCCATA--TATAATATGGACTTACATGGCTCA
3180871 TTTCTGTTCT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 18 0.44
46 23 0.56
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (44 bp):
TCCTGTCTCCAAAGCCATATATAATATGGACTTACATGGCTCAA
Found at i:3187054 original size:80 final size:79
Alignment explanation
Indices: 3186913--3187091 Score: 177
Period size: 80 Copynumber: 2.2 Consensus size: 79
3186903 TATTAATATT
* * * *
3186913 AGTAATAATAATGATAATAGTAATAGAAAATAAAAATAATATAATAATATAATAATATAATAATA
1 AGTAATAGTAATAATAATAGTAATAGAAAATAAAAATAATACAATAACATAATAATATAATAAT-
3186978 GTAAATAAA-AGTAAA
65 GT-AATAAATAGTAAA
* **
3186993 AGTAATAGTAATAATAATGGTAATA-ATAAATAGTAATAATAACAATAACA-AA-AATAGTAATA
1 AGTAATAGTAATAATAATAGTAATAGA-AAATAAAAATAAT-ACAATAACATAATAATA-TAATA
* *
3187055 ATGTATTAAATGGTAAA
63 ATGTAATAAATAGTAAA
*
3187072 AGAATAATAGTAACAATAAT
1 AG--TAATAGTAATAATAAT
3187092 TTAAAAAAAT
Statistics
Matches: 83, Mismatches: 10, Indels: 11
0.80 0.10 0.11
Matches are distributed among these distances:
78 5 0.06
79 14 0.17
80 42 0.51
81 22 0.27
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.28
Consensus pattern (79 bp):
AGTAATAGTAATAATAATAGTAATAGAAAATAAAAATAATACAATAACATAATAATATAATAATG
TAATAAATAGTAAA
Found at i:3187289 original size:17 final size:19
Alignment explanation
Indices: 3187242--3187295 Score: 69
Period size: 17 Copynumber: 2.9 Consensus size: 19
3187232 CTAATAAAAA
3187242 TACAAATAATAATATATATG
1 TACAAATAATAATA-ATATG
3187262 TACGAAA-AATAATAATA-G
1 TAC-AAATAATAATAATATG
3187280 TA-AAATAATAATAATA
1 TACAAATAATAATAATA
3187296 ATAATAATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
16 3 0.09
17 10 0.31
18 3 0.09
19 3 0.09
20 10 0.31
21 3 0.09
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.30
Consensus pattern (19 bp):
TACAAATAATAATAATATG
Found at i:3187321 original size:3 final size:3
Alignment explanation
Indices: 3186822--3187304 Score: 210
Period size: 3 Copynumber: 163.3 Consensus size: 3
3186812 TAATGAGAAC
* * *
3186822 AAT AAT AAT AAT ATT AAT AAT AAT AAC AAT AAT AGT AA- AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
3186868 AAT ACT AAT GAT AAT AAT AAT AGT AAT AAT AAG AAT ATT AAT ATT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
3186916 AAT AAT AAT GAT AAT AGT AAT AGAA AAT AAA AAT AAT -AT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT
* *
3186961 -AT AAT AAT -AT AAT AAT AGT AAAT AA- AAGT AA- AAGT AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AA-T AAT AA-T AAT AAT AAT
** * * * * *
3187005 AAT AAT GGT AAT AAT AAAT AGT AAT AAT AAC AAT AAC AAA AAT AGT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * ** * * * *
3187051 AAT AAT -GT ATT AAAT GGT AA- AAG AAT AAT AGT AAC AAT AAT -TT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
3187094 AA- AAA AAT GAT AAT AGT AAT AA- AAT AA- GAT TAT AAT AAT AAT ATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
3187139 AAT AAT AAA AAT GAA- CAT AA- AAA AAT AGT AAT AAT AGT AAT AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * ** **
3187183 AAT AGT AAT AGT AA- AAGG AAT AAT AAT AGT AAT AAT AAG AGC GTT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT
** * * ** *
3187228 AAT TCT AAT AAA AAT ACA- AAT AAT AAT ATAT ATGT ACG AAA AAT AAT
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT A-AT A-AT AAT AAT AAT AAT
*
3187275 AAT AGT AA- AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
3187305 GAAGTAGTAA
Statistics
Matches: 347, Mismatches: 106, Indels: 54
0.68 0.21 0.11
Matches are distributed among these distances:
2 31 0.09
3 292 0.84
4 24 0.07
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:3193621 original size:12 final size:12
Alignment explanation
Indices: 3193604--3193637 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
3193594 CGGCCCGCCC
3193604 ATATTAATTTTT
1 ATATTAATTTTT
*
3193616 ATATTATTTTTT
1 ATATTAATTTTT
3193628 ATA-TAATTTT
1 ATATTAATTTT
3193638 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:3196113 original size:11 final size:11
Alignment explanation
Indices: 3196097--3196133 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
3196087 ATTAAAGTAG
3196097 ATTTTAATGTA
1 ATTTTAATGTA
*
3196108 ATTTTAAAGTA
1 ATTTTAATGTA
3196119 GATTTTAATGTA
1 -ATTTTAATGTA
3196131 ATT
1 ATT
3196134 GTGTTGTCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (11 bp):
ATTTTAATGTA
Found at i:3196115 original size:23 final size:23
Alignment explanation
Indices: 3196088--3196133 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
3196078 AAACCTTATA
3196088 TTAAAGTAGATTTTAATGTAATT
1 TTAAAGTAGATTTTAATGTAATT
3196111 TTAAAGTAGATTTTAATGTAATT
1 TTAAAGTAGATTTTAATGTAATT
3196134 GTGTTGTCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (23 bp):
TTAAAGTAGATTTTAATGTAATT
Found at i:3196125 original size:12 final size:12
Alignment explanation
Indices: 3196088--3196126 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
3196078 AAACCTTATA
3196088 TTAAAGTAGATT
1 TTAAAGTAGATT
*
3196100 TTAATGTA-ATT
1 TTAAAGTAGATT
3196111 TTAAAGTAGATT
1 TTAAAGTAGATT
3196123 TTAA
1 TTAA
3196127 TGTAATTGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 10 0.42
12 14 0.58
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (12 bp):
TTAAAGTAGATT
Found at i:3201163 original size:18 final size:18
Alignment explanation
Indices: 3201123--3201163 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
3201113 CTAATTTTTT
3201123 AAAAATTATTAAAAATAA
1 AAAAATTATTAAAAATAA
*
3201141 TAAAATGTA-TAAAAATAA
1 AAAAAT-TATTAAAAATAA
3201159 AAAAA
1 AAAAA
3201164 ACAATACATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (18 bp):
AAAAATTATTAAAAATAA
Found at i:3201357 original size:27 final size:26
Alignment explanation
Indices: 3201326--3201389 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 26
3201316 TTTATCAAGG
*
3201326 TTATTAGTTTATCGATAAA-TAAATATT
1 TTATTAATTTATCGATAAAGT-AATA-T
3201353 TTATTAATTTATCGATAAAGTAATAT
1 TTATTAATTTATCGATAAAGTAATAT
3201379 TTATTAATTTA
1 TTATTAATTTA
3201390 GAGAATATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
26 12 0.34
27 22 0.63
28 1 0.03
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (26 bp):
TTATTAATTTATCGATAAAGTAATAT
Found at i:3205002 original size:20 final size:20
Alignment explanation
Indices: 3204956--3205005 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
3204946 TTAATTGATT
*
3204956 TATATTTTTTTTAAATTTAA
1 TATATTTTTTTTAAAATTAA
* *
3204976 GAGATTTTTTTTAAAAATT-A
1 TATATTTTTTTT-AAAATTAA
3204996 TATATTTTTT
1 TATATTTTTT
3205006 AATTTGCATA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (20 bp):
TATATTTTTTTTAAAATTAA
Found at i:3205803 original size:29 final size:29
Alignment explanation
Indices: 3205771--3205833 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
3205761 TAGATTCCTC
* *
3205771 AAAAGTTGGGAAAAAAATTTAGGTCCCTT
1 AAAAGTAGGGAAAAAAATTTAGGGCCCTT
* *
3205800 AAAAGTAGGTAAAAAAATTTTGGGCCCTT
1 AAAAGTAGGGAAAAAAATTTAGGGCCCTT
3205829 AAAAG
1 AAAAG
3205834 CTAAATTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.44, C:0.10, G:0.21, T:0.25
Consensus pattern (29 bp):
AAAAGTAGGGAAAAAAATTTAGGGCCCTT
Found at i:3224215 original size:17 final size:17
Alignment explanation
Indices: 3224193--3224236 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
3224183 CCATGTGTGT
3224193 TGCCCGTGTGTGACATA
1 TGCCCGTGTGTGACATA
3224210 TGCCCGTGTGTGACATA
1 TGCCCGTGTGTGACATA
* *
3224227 CGCCCCTGTG
1 TGCCCGTGTG
3224237 GCCAGGCCGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.14, C:0.30, G:0.30, T:0.27
Consensus pattern (17 bp):
TGCCCGTGTGTGACATA
Found at i:3225156 original size:16 final size:16
Alignment explanation
Indices: 3225135--3225199 Score: 52
Period size: 15 Copynumber: 4.4 Consensus size: 16
3225125 ATCTCATAAT
3225135 CATTTCTCATATTTTC
1 CATTTCTCATATTTTC
*
3225151 CATTTC-AATATTTTC
1 CATTTCTCATATTTTC
3225166 TCA--TCTCATA--TT-
1 -CATTTCTCATATTTTC
* *
3225178 CATTTATCATCTTTTC
1 CATTTCTCATATTTTC
3225194 CATTTC
1 CATTTC
3225200 AAAATCAATC
Statistics
Matches: 37, Mismatches: 5, Indels: 14
0.66 0.09 0.25
Matches are distributed among these distances:
11 2 0.05
13 7 0.19
14 2 0.05
15 13 0.35
16 13 0.35
ACGTcount: A:0.22, C:0.25, G:0.00, T:0.54
Consensus pattern (16 bp):
CATTTCTCATATTTTC
Found at i:3225171 original size:43 final size:43
Alignment explanation
Indices: 3225120--3225201 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
3225110 CATATTTCAA
*
3225120 TTCTCATCTCATAATCATTTCTCATATTTTCCATTTCAATATT
1 TTCTCATCTCATAATCATTTATCATATTTTCCATTTCAATATT
* *
3225163 TTCTCATCTCATATTCATTTATCATCTTTTCCATTTCAA
1 TTCTCATCTCATAATCATTTATCATATTTTCCATTTCAA
3225202 AATCAATCAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.51
Consensus pattern (43 bp):
TTCTCATCTCATAATCATTTATCATATTTTCCATTTCAATATT
Found at i:3253627 original size:26 final size:26
Alignment explanation
Indices: 3253598--3253658 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
3253588 TAAACCAAAA
* * *
3253598 TTTTTAAAAATATTTTTTAAAATCAC
1 TTTTCAAAAACATTTTTTAAAAGCAC
* *
3253624 TTTTCCACAACATTTTTTAAAAGCAC
1 TTTTCAAAAACATTTTTTAAAAGCAC
*
3253650 TTCTCAAAA
1 TTTTCAAAA
3253659 GTAATGCTAA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.39, C:0.16, G:0.02, T:0.43
Consensus pattern (26 bp):
TTTTCAAAAACATTTTTTAAAAGCAC
Found at i:3254917 original size:16 final size:16
Alignment explanation
Indices: 3254886--3254915 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
3254876 TGTATCTTTC
3254886 TTTTTTTAAATATTTA
1 TTTTTTTAAATATTTA
3254902 TTTTTTT-AATATTT
1 TTTTTTTAAATATTT
3254916 TACTACACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTTTTAAATATTTA
Found at i:3258625 original size:19 final size:19
Alignment explanation
Indices: 3258580--3258625 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
3258570 AAAATTGTCC
*
3258580 AAAGCTGAAGAATAAGGGA
1 AAAGCTGCAGAATAAGGGA
3258599 AAAGCTGCAGAATAAGGGA
1 AAAGCTGCAGAATAAGGGA
3258618 AAAGCTGC
1 AAAGCTGC
3258626 TGTAGATGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.48, C:0.11, G:0.30, T:0.11
Consensus pattern (19 bp):
AAAGCTGCAGAATAAGGGA
Found at i:3260025 original size:21 final size:21
Alignment explanation
Indices: 3259999--3260039 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
3259989 AGACGAGCAA
* *
3259999 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
3260020 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
3260040 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:3274583 original size:26 final size:25
Alignment explanation
Indices: 3274553--3274613 Score: 61
Period size: 26 Copynumber: 2.4 Consensus size: 25
3274543 AATCATATAA
3274553 CATTTCAATAACCAT-ATAAACATATC
1 CATTTCAAT-ACC-TCATAAACATATC
* *
3274579 CATTTTCCATGCCTCATAAACATATC
1 CA-TTTCAATACCTCATAAACATATC
*
3274605 CTTTTCAAT
1 CATTTCAAT
3274614 TTATCTCATG
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
25 7 0.24
26 16 0.55
27 6 0.21
ACGTcount: A:0.36, C:0.26, G:0.02, T:0.36
Consensus pattern (25 bp):
CATTTCAATACCTCATAAACATATC
Found at i:3280411 original size:18 final size:18
Alignment explanation
Indices: 3280384--3280476 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
3280374 CCCAACTACT
*
3280384 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
* *
3280402 GTATATGTGAATAGTACT
1 GTATACGTGAATAGTACC
3280420 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
* * *
3280438 GTATACGTAAATAGTTCT
1 GTATACGTGAATAGTACC
3280456 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
3280474 GTA
1 GTA
3280477 AACGGTCGTA
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 64 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:3280427 original size:36 final size:36
Alignment explanation
Indices: 3280380--3280476 Score: 158
Period size: 36 Copynumber: 2.7 Consensus size: 36
3280370 CAATCCCAAC
* * *
3280380 TACTGTATACGTGAACAGTACCGTATATGTGAATAG
1 TACTGTATACGTGAATAGTACCGTATACGTAAATAG
3280416 TACTGTATACGTGAATAGTACCGTATACGTAAATAG
1 TACTGTATACGTGAATAGTACCGTATACGTAAATAG
*
3280452 TTCTGTATACGTGAATAGTACCGTA
1 TACTGTATACGTGAATAGTACCGTA
3280477 AACGGTCGTA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 57 1.00
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (36 bp):
TACTGTATACGTGAATAGTACCGTATACGTAAATAG
Found at i:3292031 original size:21 final size:20
Alignment explanation
Indices: 3291992--3292031 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
3291982 ATTTTAGTCA
* *
3291992 CACAATTTTTTTAATTTAAT
1 CACAAATTTTTCAATTTAAT
3292012 CACAAATTTTTCAATATTAA
1 CACAAATTTTTCAAT-TTAA
3292032 ATATTTTAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.47
Consensus pattern (20 bp):
CACAAATTTTTCAATTTAAT
Found at i:3294413 original size:20 final size:20
Alignment explanation
Indices: 3294377--3294420 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
3294367 TTTGGTCTAT
3294377 AAACATTTAAAAGTCATTTA
1 AAACATTTAAAAGTCATTTA
* *
3294397 AAACACTTTAGAA-TCATTTT
1 AAACA-TTTAAAAGTCATTTA
3294417 AAAC
1 AAAC
3294421 TAAGTTCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.34
Consensus pattern (20 bp):
AAACATTTAAAAGTCATTTA
Found at i:3298051 original size:22 final size:23
Alignment explanation
Indices: 3298026--3298084 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
3298016 CAACCAAATC
3298026 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
3298048 AATTCATGCATATTTATAAGAT-
1 AATTCATACATATTTATAAGATA
3298070 AATGTCATCACATAT
1 AAT-TCAT-ACATAT
3298085 CTGAAACCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
22 9 0.29
23 16 0.52
24 6 0.19
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:3303906 original size:30 final size:28
Alignment explanation
Indices: 3303851--3303912 Score: 97
Period size: 28 Copynumber: 2.1 Consensus size: 28
3303841 ATTATTTAAT
3303851 TAATAAATATCTTTTACTTAATAATAAA
1 TAATAAATATCTTTTACTTAATAATAAA
*
3303879 TAATAAATATCTATTTACTTAAATAATAAG
1 TAATAAATATCT-TTTACTT-AATAATAAA
3303909 TAAT
1 TAAT
3303913 TTAAATCCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 12 0.39
29 7 0.23
30 12 0.39
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (28 bp):
TAATAAATATCTTTTACTTAATAATAAA
Found at i:3309611 original size:14 final size:14
Alignment explanation
Indices: 3309592--3309623 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
3309582 CCCACCCACT
3309592 ATGCATATTTTCTA
1 ATGCATATTTTCTA
3309606 ATGCATATTTTCTA
1 ATGCATATTTTCTA
3309620 ATGC
1 ATGC
3309624 CTTCTGCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.28, C:0.16, G:0.09, T:0.47
Consensus pattern (14 bp):
ATGCATATTTTCTA
Found at i:3311278 original size:127 final size:126
Alignment explanation
Indices: 3311116--3311639 Score: 717
Period size: 126 Copynumber: 4.1 Consensus size: 126
3311106 GGCCAAACAT
* *
3311116 GAACTACTATAGAAAAAGAGCATCCACGTGGGAGCTTTTTTTAGT-AATTTTGCTGACAGTGCAT
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTTA-TCAATTTTGCTGACAGTGCAT
* *
3311180 CTTGCTTGAAGCGTTTTTTGACACTATTTGTTCAGAAACGTCTTTTCAAAATTATTTTTTCAG
65 CCTGCTTGAAGCG-TTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
* * *
3311243 AAACTACTGTAGAAAAAGAGCGTACACGTGGGAGCTTTTTTTTATCAATTTTGCTGACAGTGTAT
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGC-TTTTTTTATCAATTTTGCTGACAGTGCAT
* *
3311308 CCTGCTTGAAGCGTGTTTGACACTATTTGTTTAGAAACGTCTTCTCAAAATTATTTTTTCAG
65 CCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
* * * *
3311370 GAACTATTGTAGAAAAAGAGCGTCCATGTGGGAGCTTTTTTAATCAATTTTGCTGACAGTACATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTTATCAATTTTGCTGACAGTGCATC
* * * * * *
3311435 CTGTTTGAAGCGTTTTTGATACTATTTGTTCAGAACCGCCTTCTCAAAATCATTTTTTTAG
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
* * * * *
3311496 GAACTACTGTAGAAAAATAGCGTCCACATGGAAGCTTTTTTCATCAATTTGGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTTATCAATTTTGCTGACAGTGCATC
* * * * * * * *
3311561 TTGCTTAAAGCTTTTTTGACACTATTTATTCTGAACCGTCTTCTCAAATTTTTTTTTTCAG
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
3311622 GAACTACTGTAGGAAAAA
1 GAACTACTGTA-GAAAAA
3311640 AACCAAAATC
Statistics
Matches: 350, Mismatches: 44, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
126 197 0.56
127 115 0.33
128 38 0.11
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.38
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTTATCAATTTTGCTGACAGTGCATC
CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
Found at i:3311764 original size:34 final size:32
Alignment explanation
Indices: 3311725--3311787 Score: 99
Period size: 34 Copynumber: 1.9 Consensus size: 32
3311715 TTAAAAAAAA
3311725 CTAAACCCAAATTTAATTAATTAATTTAAAACCC
1 CTAAACCCAAATTTAATTAATT--TTTAAAACCC
*
3311759 CTAAACCCTAATTTAATTAATTTTTAAAA
1 CTAAACCCAAATTTAATTAATTTTTAAAA
3311788 AAGAACACTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 7 0.25
34 21 0.75
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (32 bp):
CTAAACCCAAATTTAATTAATTTTTAAAACCC
Found at i:3311884 original size:41 final size:41
Alignment explanation
Indices: 3311834--3311915 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
3311824 TAAAACCGAA
* * *
3311834 AACCTTAAATTATTTTAACAAAACCTTAACCCTACAAACCT
1 AACCCTAAATTATTTTAACAAAACCCTAACCCTAAAAACCT
3311875 AACCCTAAATTATTTTAACAAAACCCTAACCCTAAAAACCT
1 AACCCTAAATTATTTTAACAAAACCCTAACCCTAAAAACCT
3311916 TAAACTAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.45, C:0.28, G:0.00, T:0.27
Consensus pattern (41 bp):
AACCCTAAATTATTTTAACAAAACCCTAACCCTAAAAACCT
Found at i:3311924 original size:41 final size:41
Alignment explanation
Indices: 3311839--3311924 Score: 129
Period size: 41 Copynumber: 2.1 Consensus size: 41
3311829 CCGAAAACCT
* * *
3311839 TAAATTATTTTAACAAAACCTTAACCCTACAAACCTAACCC
1 TAAATTATTTTAACAAAACCCTAACCCTAAAAACCTAACAC
3311880 TAAATTATTTTAACAAAACCCTAACCCTAAAAACCTTAA-AC
1 TAAATTATTTTAACAAAACCCTAACCCTAAAAACC-TAACAC
3311921 TAAA
1 TAAA
3311925 AAACCTTAGG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
41 38 0.93
42 3 0.07
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.27
Consensus pattern (41 bp):
TAAATTATTTTAACAAAACCCTAACCCTAAAAACCTAACAC
Found at i:3312233 original size:30 final size:31
Alignment explanation
Indices: 3312199--3312260 Score: 74
Period size: 30 Copynumber: 2.0 Consensus size: 31
3312189 AGTATATATC
*
3312199 TTTATAACTTTTAAAAG-ATTAAAT-TAATTT
1 TTTATAA-TTTTAAAAGTATAAAATATAATTT
* *
3312229 TTTATTATTTTAAGAGTATAAAATATAATTT
1 TTTATAATTTTAAAAGTATAAAATATAATTT
3312260 T
1 T
3312261 AGCATTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 8 0.30
30 12 0.44
31 7 0.26
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.52
Consensus pattern (31 bp):
TTTATAATTTTAAAAGTATAAAATATAATTT
Found at i:3312463 original size:16 final size:18
Alignment explanation
Indices: 3312432--3312477 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 18
3312422 TAATATATTA
3312432 TATTTATTT-TGTATTT-
1 TATTTATTTATGTATTTG
3312448 TATTTATTTATG-ATTTG
1 TATTTATTTATGTATTTG
*
3312465 TGTTATATTTATG
1 TATT-TATTTATG
3312478 GTACTGTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 13 0.50
17 5 0.19
18 8 0.31
ACGTcount: A:0.22, C:0.00, G:0.11, T:0.67
Consensus pattern (18 bp):
TATTTATTTATGTATTTG
Found at i:3312464 original size:22 final size:20
Alignment explanation
Indices: 3312425--3312476 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 20
3312415 ATATAATTAA
3312425 TATATTATATTTATTTTGTAT
1 TATATT-TATTTATTTTGTAT
* *
3312446 TTTATTTATTTATGATTTGTGT
1 TATATTTATTTAT--TTTGTAT
3312468 TATATTTAT
1 TATATTTAT
3312477 GGTACTGTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 7 0.27
21 5 0.19
22 14 0.54
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (20 bp):
TATATTTATTTATTTTGTAT
Found at i:3317131 original size:21 final size:21
Alignment explanation
Indices: 3317094--3317134 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3317084 TTGCTGCTGC
*
3317094 TGCTGCTGTGGTGGTTGTTGT
1 TGCTGCTGTGCTGGTTGTTGT
3317115 TGCTGCTGCTGCT-GTTGTTG
1 TGCTGCTG-TGCTGGTTGTTG
3317135 AGGTTGTGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.00, C:0.15, G:0.39, T:0.46
Consensus pattern (21 bp):
TGCTGCTGTGCTGGTTGTTGT
Found at i:3317140 original size:30 final size:30
Alignment explanation
Indices: 3317083--3317141 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
3317073 CGTGCCTGGG
*
3317083 GTTGCTGCTGCTGCTGCTGTGGTGGTTGTT
1 GTTGCTGCTGCTGCTGCTGTGGAGGTTGTT
* *
3317113 GTTGCTGCTGCTGCTGTTGTTGAGGTTGT
1 GTTGCTGCTGCTGCTGCTGTGGAGGTTGT
3317142 GAGGATTTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.02, C:0.15, G:0.39, T:0.44
Consensus pattern (30 bp):
GTTGCTGCTGCTGCTGCTGTGGAGGTTGTT
Found at i:3318789 original size:6 final size:6
Alignment explanation
Indices: 3318774--3318803 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
3318764 TAAGTAAACC
3318774 AAAAAT -AAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT A
3318804 GGGTGAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:3319386 original size:26 final size:28
Alignment explanation
Indices: 3319329--3319386 Score: 84
Period size: 26 Copynumber: 2.1 Consensus size: 28
3319319 TATTAATTTT
* *
3319329 TATATTAGTTTTATATAATTTTAAAATA
1 TATATTAGTATTATATAATTTTAAAAAA
3319357 TATATTA-TATTATA-AATTTTAAAAAA
1 TATATTAGTATTATATAATTTTAAAAAA
3319383 TATA
1 TATA
3319387 AATACTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 15 0.54
27 6 0.21
28 7 0.25
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (28 bp):
TATATTAGTATTATATAATTTTAAAAAA
Found at i:3319460 original size:30 final size:30
Alignment explanation
Indices: 3319426--3319487 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
3319416 ACTTAACAAG
*
3319426 CAAATACCTCTAAAATAATAATAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
** *
3319456 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
3319486 CA
1 CA
3319488 GTAAAATAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.58, C:0.13, G:0.02, T:0.27
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:3325999 original size:46 final size:46
Alignment explanation
Indices: 3325948--3326224 Score: 351
Period size: 46 Copynumber: 6.0 Consensus size: 46
3325938 GTGTGCTCTC
** *
3325948 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
** * *
3325994 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
3326040 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
*** ***
3326086 TGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGTG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* *
3326132 TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGTAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * *
3326178 TGA-A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCACCA
1 TGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
3326223 TG
1 TG
3326225 TCAAAGATAA
Statistics
Matches: 206, Mismatches: 24, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
44 1 0.00
45 36 0.17
46 169 0.82
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:3326526 original size:16 final size:17
Alignment explanation
Indices: 3326505--3326537 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3326495 ATGATGGTGC
3326505 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
3326521 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
3326538 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:3342819 original size:23 final size:23
Alignment explanation
Indices: 3342793--3342846 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
3342783 TCATTCTTGC
*
3342793 TTAGTTTTA-TTTCTATTTGTAAT
1 TTAGTTTTATTTTC-AGTTGTAAT
*
3342816 TTAGGTTTATTTTCAGTTGTAAT
1 TTAGTTTTATTTTCAGTTGTAAT
3342839 TGTAGTTT
1 T-TAGTTT
3342847 AGTTTTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 17 0.65
24 9 0.35
ACGTcount: A:0.20, C:0.04, G:0.15, T:0.61
Consensus pattern (23 bp):
TTAGTTTTATTTTCAGTTGTAAT
Found at i:3344148 original size:12 final size:11
Alignment explanation
Indices: 3344119--3344151 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
3344109 CTCCTATTTT
3344119 TCGTTTTTCAC
1 TCGTTTTTCAC
3344130 TCGTTTTTCAC
1 TCGTTTTTCAC
*
3344141 TTGTTTTTCAC
1 TCGTTTTTCAC
3344152 CCCTTTTGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.09, C:0.24, G:0.09, T:0.58
Consensus pattern (11 bp):
TCGTTTTTCAC
Found at i:3344740 original size:46 final size:46
Alignment explanation
Indices: 3344688--3344781 Score: 152
Period size: 46 Copynumber: 2.0 Consensus size: 46
3344678 GGATTAGGAT
* * *
3344688 TAGTTTAGTCTTGCCTCCCTTGGGTATGATCATCGGAGTACTTCCA
1 TAGTTTAGTCTCGCCTCCCCTGGGTACGATCATCGGAGTACTTCCA
*
3344734 TAGTTTAGTCTCGCCTCCCCTGGGTACGATCTTCGGAGTACTTCCA
1 TAGTTTAGTCTCGCCTCCCCTGGGTACGATCATCGGAGTACTTCCA
3344780 TA
1 TA
3344782 CTTCATTGTA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (46 bp):
TAGTTTAGTCTCGCCTCCCCTGGGTACGATCATCGGAGTACTTCCA
Found at i:3346495 original size:50 final size:50
Alignment explanation
Indices: 3346420--3346519 Score: 166
Period size: 50 Copynumber: 2.0 Consensus size: 50
3346410 GCGATCTGCC
* *
3346420 ATCTATTAGTCCATGACATCATCCACCATGTATGTTTAAAGTATGTAAAT
1 ATCTATTAGTCCAAGACATCATCCACCACGTATGTTTAAAGTATGTAAAT
3346470 ATCTATTAGTCCACAG-CATCATCCACCACGTATGTTTAAAGTATGTAAAT
1 ATCTATTAGTCCA-AGACATCATCCACCACGTATGTTTAAAGTATGTAAAT
3346520 GTTTTAAGTT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
50 46 0.98
51 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (50 bp):
ATCTATTAGTCCAAGACATCATCCACCACGTATGTTTAAAGTATGTAAAT
Found at i:3349146 original size:20 final size:20
Alignment explanation
Indices: 3349121--3349166 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
3349111 TCTTTATTTA
* *
3349121 GCACTTCGATGTCTCTGATT
1 GCACTTCAATGCCTCTGATT
*
3349141 GCACTTCAATGCCTCTGTTT
1 GCACTTCAATGCCTCTGATT
3349161 GCACTT
1 GCACTT
3349167 AGGCGCCTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.15, C:0.28, G:0.17, T:0.39
Consensus pattern (20 bp):
GCACTTCAATGCCTCTGATT
Found at i:3352059 original size:19 final size:20
Alignment explanation
Indices: 3352019--3352066 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
3352009 TCTAACTAAT
*
3352019 ATTAATTTGT-ATATTTTAA
1 ATTAATTTTTAATATTTTAA
3352038 ATTAATTTTTAATATTTT-A
1 ATTAATTTTTAATATTTTAA
3352057 ATT-ATTTTTA
1 ATTAATTTTTA
3352067 TTTTTATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 7 0.26
19 13 0.48
20 7 0.26
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (20 bp):
ATTAATTTTTAATATTTTAA
Found at i:3361025 original size:21 final size:21
Alignment explanation
Indices: 3360999--3361039 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
3360989 AGACGAGCAA
* *
3360999 TACTCCATAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
3361020 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
3361040 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:3368298 original size:24 final size:24
Alignment explanation
Indices: 3368262--3368310 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
3368252 GAATCTAGAA
3368262 TGATAAAAAGAAAAATGAAAAACT
1 TGATAAAAAGAAAAATGAAAAACT
*
3368286 TGATAAAAGGAAAAATGAAAAACT
1 TGATAAAAAGAAAAATGAAAAACT
3368310 T
1 T
3368311 CTAAGAAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.63, C:0.04, G:0.14, T:0.18
Consensus pattern (24 bp):
TGATAAAAAGAAAAATGAAAAACT
Found at i:3372488 original size:36 final size:36
Alignment explanation
Indices: 3372447--3372518 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
3372437 AAAGATATGA
3372447 CAACTTAGGCTATTTTGGTAACTAATTTTAAAAGAT
1 CAACTTAGGCTATTTTGGTAACTAATTTTAAAAGAT
3372483 CAACTTAGGCTATTTTGGTAACTAATTTTAAAAGAT
1 CAACTTAGGCTATTTTGGTAACTAATTTTAAAAGAT
3372519 TGAGGGAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (36 bp):
CAACTTAGGCTATTTTGGTAACTAATTTTAAAAGAT
Found at i:3372852 original size:11 final size:11
Alignment explanation
Indices: 3372838--3372863 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
3372828 TAGAGGAGTT
3372838 CTTAAGGAATC
1 CTTAAGGAATC
3372849 CTTAAGGAATC
1 CTTAAGGAATC
3372860 CTTA
1 CTTA
3372864 CTTGAGTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (11 bp):
CTTAAGGAATC
Found at i:3373896 original size:22 final size:23
Alignment explanation
Indices: 3373871--3373916 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
3373861 CAACCAAATC
3373871 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
3373893 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
3373916 A
1 A
3373917 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:3373922 original size:23 final size:23
Alignment explanation
Indices: 3373878--3373922 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
3373868 ATCAATTCAA
*
3373878 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
3373901 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
3373923 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:3374758 original size:17 final size:17
Alignment explanation
Indices: 3374736--3374769 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
3374726 CCGGGCTAGA
3374736 TCCTTTTTACCGTCAAT
1 TCCTTTTTACCGTCAAT
3374753 TCCTTTTTACCGTCAAT
1 TCCTTTTTACCGTCAAT
3374770 CGAATTTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.29, G:0.06, T:0.47
Consensus pattern (17 bp):
TCCTTTTTACCGTCAAT
Found at i:3378635 original size:23 final size:25
Alignment explanation
Indices: 3378609--3378656 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
3378599 CTAAGGAAAA
* *
3378609 CAAATCAACAATC-GAA-ATTAACT
1 CAAATAAACAAACAGAAGATTAACT
3378632 CAAATAAACAAACAGAAGATTAACT
1 CAAATAAACAAACAGAAGATTAACT
3378657 GACGTTAGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 11 0.52
24 3 0.14
25 7 0.33
ACGTcount: A:0.56, C:0.19, G:0.06, T:0.19
Consensus pattern (25 bp):
CAAATAAACAAACAGAAGATTAACT
Done.