Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 276 of 325
Found at i:88609851 original size:8 final size:8
Alignment explanation
Indices: 88609838--88609871 Score: 68
Period size: 8 Copynumber: 4.2 Consensus size: 8
88609828 AAGATATTAA
88609838 AATAAAGT
1 AATAAAGT
88609846 AATAAAGT
1 AATAAAGT
88609854 AATAAAGT
1 AATAAAGT
88609862 AATAAAGT
1 AATAAAGT
88609870 AA
1 AA
88609872 CACCATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.24
Consensus pattern (8 bp):
AATAAAGT
Found at i:88613745 original size:29 final size:29
Alignment explanation
Indices: 88613695--88613751 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
88613685 ATAGGATATG
* * *
88613695 AAAAAATAAATTTGATGTGATGTATTTTA
1 AAAAAATAAATTTGAAGAGATGAATTTTA
* *
88613724 AAAAAATTATTTTGAAGAGATGAATTTT
1 AAAAAATAAATTTGAAGAGATGAATTTT
88613752 TTTTTGGTAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.40
Consensus pattern (29 bp):
AAAAAATAAATTTGAAGAGATGAATTTTA
Found at i:88617530 original size:18 final size:18
Alignment explanation
Indices: 88617504--88617546 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
88617494 AAGTGGAAAA
* *
88617504 AGGAAACATATAAGGGTT
1 AGGATACATATAAGAGTT
88617522 AGGATACATATAAGAGTT
1 AGGATACATATAAGAGTT
88617540 AGGATAC
1 AGGATAC
88617547 GCACCTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.07, G:0.26, T:0.23
Consensus pattern (18 bp):
AGGATACATATAAGAGTT
Found at i:88618139 original size:7 final size:7
Alignment explanation
Indices: 88618129--88618159 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
88618119 TTATATACAT
88618129 AATACTA
1 AATACTA
88618136 AATACTA
1 AATACTA
88618143 AATACTA
1 AATACTA
*
88618150 AATACGA
1 AATACTA
88618157 AAT
1 AAT
88618160 CGACTATGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.58, C:0.13, G:0.03, T:0.26
Consensus pattern (7 bp):
AATACTA
Found at i:88619071 original size:10 final size:11
Alignment explanation
Indices: 88619056--88619128 Score: 55
Period size: 10 Copynumber: 7.0 Consensus size: 11
88619046 CTATCGACTG
88619056 TTATAAAAA-A
1 TTATAAAAATA
88619066 TTATAAAAATA
1 TTATAAAAATA
**
88619077 TTA-ATGAA-A
1 TTATAAAAATA
*
88619086 TTACAAAAATA
1 TTATAAAAATA
**
88619097 AAATAAAAATA
1 TTATAAAAATA
*
88619108 TTA-AATAATA
1 TTATAAAAATA
*
88619118 TTAAAAAAATA
1 TTATAAAAATA
88619129 AAATTAACCC
Statistics
Matches: 48, Mismatches: 11, Indels: 7
0.73 0.17 0.11
Matches are distributed among these distances:
9 4 0.08
10 24 0.50
11 20 0.42
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (11 bp):
TTATAAAAATA
Found at i:88619104 original size:31 final size:32
Alignment explanation
Indices: 88619068--88619132 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
88619058 ATAAAAAATT
*
88619068 ATAAAAATATT-AATGAA-ATTACAAAAATAAA
1 ATAAAAATATTAAAT-AATATTAAAAAAATAAA
88619099 ATAAAAATATTAAATAATATTAAAAAAATAAA
1 ATAAAAATATTAAATAATATTAAAAAAATAAA
88619131 AT
1 AT
88619133 TAACCCTTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
31 13 0.42
32 18 0.58
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (32 bp):
ATAAAAATATTAAATAATATTAAAAAAATAAA
Found at i:88620886 original size:38 final size:38
Alignment explanation
Indices: 88620813--88620888 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 38
88620803 AGCCACTAAC
*
88620813 GTTATTGAAAAGTGACAAATCAGTCACCTATTAACATT
1 GTTATTGAAAAGTGACAAATCAGTCACCTACTAACATT
* *
88620851 GTTATTGAAAAGTTACAAATCAGTTA-CTGACTAACATT
1 GTTATTGAAAAGTGACAAATCAGTCACCT-ACTAACATT
88620889 TTCTGTTACA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 2 0.06
38 32 0.94
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.33
Consensus pattern (38 bp):
GTTATTGAAAAGTGACAAATCAGTCACCTACTAACATT
Found at i:88621184 original size:15 final size:14
Alignment explanation
Indices: 88621159--88621188 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
88621149 AACCACCACC
88621159 CTGTCTTTTTTTTT
1 CTGTCTTTTTTTTT
88621173 CTGTCTTTTTTTTT
1 CTGTCTTTTTTTTT
88621187 CT
1 CT
88621189 TTTTCAACCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.17, G:0.07, T:0.77
Consensus pattern (14 bp):
CTGTCTTTTTTTTT
Found at i:88624361 original size:28 final size:27
Alignment explanation
Indices: 88624309--88624362 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
88624299 AATTTAACCC
*
88624309 TATATATATTTATTTCTATTATTATTA
1 TATATATATTTATTTATATTATTATTA
*
88624336 TATATATAATTT-TTTGATATTGTTATT
1 TATATAT-ATTTATTT-ATATTATTATT
88624363 TGTTCTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (27 bp):
TATATATATTTATTTATATTATTATTA
Found at i:88624422 original size:15 final size:13
Alignment explanation
Indices: 88624383--88624436 Score: 51
Period size: 14 Copynumber: 4.2 Consensus size: 13
88624373 TCAACCCTAT
88624383 TTTTATATTATATA
1 TTTTATATTAT-TA
*
88624397 TTGTATA--ATTA
1 TTTTATATTATTA
88624408 TTTTATGATATATTA
1 TTTTAT-AT-TATTA
88624423 -TTTATATTATTA
1 TTTTATATTATTA
88624435 TT
1 TT
88624437 ACTTATTGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 11
0.72 0.04 0.24
Matches are distributed among these distances:
11 7 0.21
12 8 0.24
13 3 0.09
14 11 0.33
15 4 0.12
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (13 bp):
TTTTATATTATTA
Found at i:88624437 original size:15 final size:16
Alignment explanation
Indices: 88624386--88624454 Score: 51
Period size: 15 Copynumber: 4.6 Consensus size: 16
88624376 ACCCTATTTT
*
88624386 TATATTATATAT-TG-
1 TATATTATTTATATGA
88624400 TATAATTATTT-TATGA
1 TAT-ATTATTTATATGA
*
88624416 TATATTATTTATATTA
1 TATATTATTTATATGA
*
88624432 T-TATTACTTAT-TG-
1 TATATTATTTATATGA
*
88624445 TATAATATTT
1 TATATTATTT
88624455 TTCACAAATT
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
13 1 0.02
14 11 0.25
15 24 0.55
16 8 0.18
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.59
Consensus pattern (16 bp):
TATATTATTTATATGA
Found at i:88624559 original size:16 final size:16
Alignment explanation
Indices: 88624519--88624604 Score: 50
Period size: 16 Copynumber: 5.2 Consensus size: 16
88624509 ACTTGTATTA
88624519 TATATTTATTA-ATTATT
1 TATATTTATTATA-TA-T
88624536 TATATTTATTATATAT
1 TATATTTATTATATAT
* *
88624552 TATTTTTA-CATATAT
1 TATATTTATTATATAT
* * *
88624567 ACACTTTTATATTATAAAT
1 -TA-TATT-TATTATATAT
* *
88624586 TATAATTATTTTATAT
1 TATATTTATTATATAT
88624602 TAT
1 TAT
88624605 GTCATTTTTT
Statistics
Matches: 54, Mismatches: 10, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
15 6 0.11
16 20 0.37
17 19 0.35
18 4 0.07
19 5 0.09
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
TATATTTATTATATAT
Found at i:88624926 original size:17 final size:18
Alignment explanation
Indices: 88624906--88624961 Score: 64
Period size: 17 Copynumber: 3.2 Consensus size: 18
88624896 TTATATTTTA
88624906 TATTTTTATATAAT-TAT
1 TATTTTTATATAATATAT
*
88624923 TATTCTTATA-AATATAT
1 TATTTTTATATAATATAT
*
88624940 T-TTTATTATATATTATAT
1 TATTT-TTATATAATATAT
88624958 TATT
1 TATT
88624962 AAATATCACA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
16 5 0.16
17 18 0.56
18 7 0.22
19 2 0.06
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (18 bp):
TATTTTTATATAATATAT
Found at i:88624960 original size:15 final size:16
Alignment explanation
Indices: 88624895--88624967 Score: 60
Period size: 17 Copynumber: 4.6 Consensus size: 16
88624885 TTTCTAAACC
*
88624895 ATTATATTTTA-TATT
1 ATTATATATTATTATT
*
88624910 TTTATATAATTATTATT
1 ATTATAT-ATTATTATT
* * *
88624927 CTTATAAATATATTTTT
1 ATTATATAT-TATTATT
88624944 ATTATATATTA-TATT
1 ATTATATATTATTATT
*
88624959 ATTAAATAT
1 ATTATATAT
88624968 CACATTTTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
15 17 0.37
16 7 0.15
17 22 0.48
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (16 bp):
ATTATATATTATTATT
Found at i:88624965 original size:30 final size:31
Alignment explanation
Indices: 88624904--88624967 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
88624894 CATTATATTT
*
88624904 TATATTTTTATATAATTATTATTCTTATAAA
1 TATATTTTTATATAATTATTATTCATATAAA
88624935 TATATTTTTATTATATATTA-TATT-AT-TAAA
1 TATATTTTTA-TATA-ATTATTATTCATATAAA
88624965 TAT
1 TAT
88624968 CACATTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 7 0.23
31 11 0.37
32 8 0.27
33 4 0.13
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (31 bp):
TATATTTTTATATAATTATTATTCATATAAA
Found at i:88629163 original size:16 final size:17
Alignment explanation
Indices: 88629130--88629166 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
88629120 TAAAAACTAT
*
88629130 AAAAAATTCAAATGTTC
1 AAAAAATTCAAATATTC
88629147 AAAAAATTCAAA-ATTC
1 AAAAAATTCAAATATTC
88629163 AAAA
1 AAAA
88629167 TCCAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.62, C:0.11, G:0.03, T:0.24
Consensus pattern (17 bp):
AAAAAATTCAAATATTC
Found at i:88629650 original size:13 final size:13
Alignment explanation
Indices: 88629632--88629721 Score: 108
Period size: 13 Copynumber: 6.9 Consensus size: 13
88629622 AGTTTGGTAA
88629632 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
88629645 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
* *
88629658 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
*
88629671 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
* * *
88629684 TGCTGTGGAAAGG
1 TGCTTTTGAAAAG
*
88629697 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
88629710 TGCTTTTGAAAA
1 TGCTTTTGAAAA
88629722 ATTTGGTTTA
Statistics
Matches: 61, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 61 1.00
ACGTcount: A:0.27, C:0.08, G:0.31, T:0.34
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:88629720 original size:26 final size:26
Alignment explanation
Indices: 88629639--88629713 Score: 141
Period size: 26 Copynumber: 2.9 Consensus size: 26
88629629 TAATGCTTTT
88629639 GAAAAGTGCTTTTGAGAAGTGCTGTG
1 GAAAAGTGCTTTTGAGAAGTGCTGTG
88629665 GAAAAGTGCTTTTGAGAAGTGCTGTG
1 GAAAAGTGCTTTTGAGAAGTGCTGTG
*
88629691 GAAAGGTGCTTTTGAGAAGTGCT
1 GAAAAGTGCTTTTGAGAAGTGCT
88629714 TTTGAAAAAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.27, C:0.08, G:0.35, T:0.31
Consensus pattern (26 bp):
GAAAAGTGCTTTTGAGAAGTGCTGTG
Found at i:88632054 original size:44 final size:44
Alignment explanation
Indices: 88631982--88632075 Score: 145
Period size: 44 Copynumber: 2.2 Consensus size: 44
88631972 TTCATAGGTC
* *
88631982 AAAC-AATATTAAAATAACCTACAATAATCAGAGTTTAAATGGG
1 AAACTAATATTAAAATAACCTACAATAATCAAAGTTTAAATGGA
* *
88632025 AAACTAATATTAAAATAACCTACAGTAATCAAAGTTTAAGTGGA
1 AAACTAATATTAAAATAACCTACAATAATCAAAGTTTAAATGGA
88632069 AAACTAA
1 AAACTAA
88632076 AAACAAAGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
43 4 0.09
44 42 0.91
ACGTcount: A:0.52, C:0.12, G:0.11, T:0.26
Consensus pattern (44 bp):
AAACTAATATTAAAATAACCTACAATAATCAAAGTTTAAATGGA
Found at i:88634589 original size:15 final size:15
Alignment explanation
Indices: 88634569--88634602 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
88634559 AGAGTGAAGG
88634569 TAAGGAGTGCTTGTT
1 TAAGGAGTGCTTGTT
*
88634584 TAAGGAGTGCTTTTT
1 TAAGGAGTGCTTGTT
88634599 TAAG
1 TAAG
88634603 ATGTCTATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.06, G:0.29, T:0.41
Consensus pattern (15 bp):
TAAGGAGTGCTTGTT
Found at i:88637710 original size:35 final size:35
Alignment explanation
Indices: 88637627--88638081 Score: 418
Period size: 35 Copynumber: 12.5 Consensus size: 35
88637617 CCGACCTTTA
*
88637627 AAAAAGGTTGGGATAGACCTTGTCTAAGGAAACCTTTTT
1 AAAAAGGTTGGGATAGACC-TGTCTAAGGCAACC---TT
* *
88637666 AAAAAGGTTGGGATAGATCTGTTTAAGGCAACCTT
1 AAAAAGGTTGGGATAGACCTGTCTAAGGCAACCTT
* * *
88637701 AAAAAGGTTGGGAT-GAACCTTCTTATCTAAGACAACATTT
1 AAAAAGGTTGGGATAG-A-C--C-TGTCTAAGGCAAC-CTT
* * * *
88637741 AAAAGAATGTTGGG-TAGACCTTATCTAAGGTAGCCTT
1 -AAA-AAGGTTGGGATAGACC-TGTCTAAGGCAACCTT
*
88637778 AAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTT
1 AAAAAGGTTGGGATAGACCTGTCTAAGGCAACCTT
** *
88637813 AAAAAGGTTTAGATAGACCTTGTCTAAAGCAACCTAT
1 AAAAAGGTTGGGATAGACC-TGTCTAAGGCAACCT-T
* *
88637850 AAAAAAGGTTGGGATAGACCCGTTTAAGGCAACCTT
1 -AAAAAGGTTGGGATAGACCTGTCTAAGGCAACCTT
88637886 AAAAAGGTTGGGAT-GACCTTGTCTAAGGCAACCTTT
1 AAAAAGGTTGGGATAGACC-TGTCTAAGGCAACC-TT
** *
88637922 AAAAAAGGTTGGGATAGACCCATCTAAGGAAACCTTT
1 -AAAAAGGTTGGGATAGACCTGTCTAAGGCAACC-TT
* * *
88637959 AAAAATGGTTGGGATAAACAC-ATCTAAGGCAACCCT
1 AAAAA-GGTTGGGATAGAC-CTGTCTAAGGCAACCTT
* * *
88637995 AAAAAGGTTCAGG-TAGACCCGTCTAAGGCAACCCT
1 AAAAAGGTT-GGGATAGACCTGTCTAAGGCAACCTT
*
88638030 AAAAAGGTTAGGG-TAGACCTGTCTAAGGCAAACTT
1 AAAAAGGTT-GGGATAGACCTGTCTAAGGCAACCTT
88638065 AAAAAGGTTGGGATAGA
1 AAAAAGGTTGGGATAGA
88638082 TCTTGTCTCA
Statistics
Matches: 351, Mismatches: 43, Indels: 48
0.79 0.10 0.11
Matches are distributed among these distances:
34 9 0.03
35 145 0.41
36 38 0.11
37 67 0.19
38 47 0.13
39 28 0.08
40 3 0.01
41 5 0.01
42 9 0.03
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (35 bp):
AAAAAGGTTGGGATAGACCTGTCTAAGGCAACCTT
Found at i:88637919 original size:72 final size:71
Alignment explanation
Indices: 88637627--88638081 Score: 451
Period size: 72 Copynumber: 6.2 Consensus size: 71
88637617 CCGACCTTTA
* * * *
88637627 AAAAAGGTTGGGATAGACCTTGTCTAAGGAAACCTTTTTAAAAAGGTTGGGATAGATC-TGTTTA
1 AAAAAGGTTGGGATAGACC-CGTCTAAGGCAACC---TTAAAAAGGTTGGGATAGACCTTGTCTA
88637691 AGGCAACCTT
62 AGGCAACCTT
* * * * *
88637701 AAAAAGGTTGGGAT-GAACCTTCTTATCTAAGACAACATTTAAAAGAATGTTGGG-TAGACCTTA
1 AAAAAGGTTGGGATAG-ACC--C--GTCTAAGGCAAC-CTT-AAA-AAGGTTGGGATAGACCTTG
* *
88637764 TCTAAGGTAGCCTT
58 TCTAAGGCAACCTT
** *
88637778 AAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTTAAAAAGGTTTAGATAGACCTTGTCTAAAGC
1 AAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGC
88637843 AACCTAT
66 AACCT-T
*
88637850 AAAAAAGGTTGGGATAGACCCGTTTAAGGCAACCTTAAAAAGGTTGGGAT-GACCTTGTCTAAGG
1 -AAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGG
88637914 CAACCTTT
65 CAACC-TT
* * * *
88637922 AAAAAAGGTTGGGATAGACCCATCTAAGGAAACCTTTAAAAATGGTTGGGATAAACAC--ATCTA
1 -AAAAAGGTTGGGATAGACCCGTCTAAGGCAACC-TTAAAAA-GGTTGGGATAGAC-CTTGTCTA
*
88637985 AGGCAACCCT
62 AGGCAACCTT
* *
88637995 AAAAAGGTTCAGG-TAGACCCGTCTAAGGCAACCCTAAAAAGGTTAGGG-TAGACC-TGTCTAAG
1 AAAAAGGTT-GGGATAGACCCGTCTAAGGCAACCTTAAAAAGGTT-GGGATAGACCTTGTCTAAG
*
88638057 GCAAACTT
64 GCAACCTT
88638065 AAAAAGGTTGGGATAGA
1 AAAAAGGTTGGGATAGA
88638082 TCTTGTCTCA
Statistics
Matches: 320, Mismatches: 40, Indels: 46
0.79 0.10 0.11
Matches are distributed among these distances:
69 3 0.01
70 39 0.12
71 30 0.09
72 80 0.25
73 68 0.21
74 38 0.12
75 6 0.02
76 9 0.03
77 46 0.14
78 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (71 bp):
AAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGC
AACCTT
Found at i:88637987 original size:109 final size:108
Alignment explanation
Indices: 88637620--88638081 Score: 444
Period size: 109 Copynumber: 4.2 Consensus size: 108
88637610 GTTAAGGCCG
* * *
88637620 ACCTTTAAAAAAGGTTGGGATAGACCTTGTCTAAGGAAACCTTTTTAAAAAGGTTGGGATAGATC
1 ACCTTTAAAAAAGGTTGGGATAGACC-TATCTAAGGCAACC---TTAAAAAGGTTGGGATAGACC
* *
88637685 TGTTTAAGGCAACCTTAAAAAGGTTGGGAT-GAACCTTCTTATCTAA-GACA
62 CGTCTAAGGCAACCTTAAAAAGGTTGGGATAG-ACC-TC--ATCTAAGGA-A
* * * *
88637735 ACATTTAAAAGAATGTTGGG-TAGACCTTATCTAAGGTAGCCTTAAAAAGGTTGGGATAGACCCG
1 ACCTTTAAAA-AAGGTTGGGATAGACC-TATCTAAGGCAACCTTAAAAAGGTTGGGATAGACCCG
** ** * *
88637799 TCTAAGGCAACCTTAAAAAGGTTTAGATAGACCTTGTCTAAAGCA
64 TCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTCATCTAAGGAA
* ** * *
88637844 ACCTATAAAAAAGGTTGGGATAGACCCGTTTAAGGCAACCTTAAAAAGGTTGGGAT-GACCTTGT
1 ACCTTTAAAAAAGGTTGGGATAGACCTATCTAAGGCAACCTTAAAAAGGTTGGGATAGACC-CGT
88637908 CTAAGGCAACCTTTAAAAAAGGTTGGGATAGACC-CATCTAAGGAA
65 CTAAGGCAACC-TT-AAAAAGGTTGGGATAGACCTCATCTAAGGAA
* * * *
88637953 ACCTTTAAAAATGGTTGGGATAAACAC-ATCTAAGGCAACCCTAAAAAGGTTCAGG-TAGACCCG
1 ACCTTTAAAAAAGGTTGGGATAGAC-CTATCTAAGGCAACCTTAAAAAGGTT-GGGATAGACCCG
* *
88638016 TCTAAGGCAACCCTAAAAAGGTTAGGG-TAGACCT-GTCTAAGGCAA
64 TCTAAGGCAACCTTAAAAAGGTT-GGGATAGACCTCATCTAAGG-AA
88638061 A-C-TT-AAAAAGGTTGGGATAGA
1 ACCTTTAAAAAAGGTTGGGATAGA
88638082 TCTTGTCTCA
Statistics
Matches: 294, Mismatches: 40, Indels: 36
0.79 0.11 0.10
Matches are distributed among these distances:
105 15 0.05
106 2 0.01
107 27 0.09
108 53 0.18
109 86 0.29
110 25 0.09
111 1 0.00
112 49 0.17
113 1 0.00
115 27 0.09
116 8 0.03
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (108 bp):
ACCTTTAAAAAAGGTTGGGATAGACCTATCTAAGGCAACCTTAAAAAGGTTGGGATAGACCCGTC
TAAGGCAACCTTAAAAAGGTTGGGATAGACCTCATCTAAGGAA
Found at i:88642915 original size:21 final size:22
Alignment explanation
Indices: 88642889--88642942 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
88642879 AACAGCGGTG
88642889 GCGGTGAGATTAAG-TACTGTA
1 GCGGTGAGATTAAGATACTGTA
*
88642910 GCGGTGAGATT-GGATACTGTA
1 GCGGTGAGATTAAGATACTGTA
*
88642931 GCAGTGAGATTA
1 GCGGTGAGATTA
88642943 GAAACAGCGG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 1 0.03
21 28 0.97
ACGTcount: A:0.28, C:0.09, G:0.35, T:0.28
Consensus pattern (22 bp):
GCGGTGAGATTAAGATACTGTA
Found at i:88643080 original size:19 final size:18
Alignment explanation
Indices: 88643056--88643102 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
88643046 CGAAGTTTTT
*
88643056 AAAATTATTTAACAATTA
1 AAAATTATTAAACAATTA
* *
88643074 CAAAATTAATAAAGAATTA
1 -AAAATTATTAAACAATTA
88643093 AAAATTATTA
1 AAAATTATTA
88643103 CAATTATATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (18 bp):
AAAATTATTAAACAATTA
Found at i:88643151 original size:30 final size:30
Alignment explanation
Indices: 88643111--88643167 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
88643101 TACAATTATA
* *
88643111 TTTATTTGTATTGCTCTTACAAAAATACCT
1 TTTATGTGTATTGCGCTTACAAAAATACCT
88643141 TTTATGTGTATTGCGCTTACAAAAATA
1 TTTATGTGTATTGCGCTTACAAAAATA
88643168 TTGAATATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.44
Consensus pattern (30 bp):
TTTATGTGTATTGCGCTTACAAAAATACCT
Found at i:88646110 original size:25 final size:23
Alignment explanation
Indices: 88646052--88646110 Score: 75
Period size: 25 Copynumber: 2.5 Consensus size: 23
88646042 AAATATGCTG
88646052 AGAAGAG-AAGATGAAGAACGGA
1 AGAAGAGAAAGATGAAGAACGGA
*
88646074 AGAAGAAAAAAGAATGAAGAACGGA
1 AGAAG-AGAAAG-ATGAAGAACGGA
88646099 AGAAAGAGAAAG
1 AG-AAGAGAAAG
88646111 GGCCTTACCT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 5 0.16
23 1 0.03
24 3 0.10
25 19 0.61
26 3 0.10
ACGTcount: A:0.61, C:0.03, G:0.32, T:0.03
Consensus pattern (23 bp):
AGAAGAGAAAGATGAAGAACGGA
Found at i:88648575 original size:40 final size:40
Alignment explanation
Indices: 88648520--88648600 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
88648510 TCCAAATGAA
*
88648520 CAAGCCACATTGCTCTTGTAAATCAATTCAAGCAACTAAC
1 CAAGCCACATTGCTCTTCTAAATCAATTCAAGCAACTAAC
88648560 CAAGCCACATTGCTCTTCTAAATCAATTCAAGCAACTAAC
1 CAAGCCACATTGCTCTTCTAAATCAATTCAAGCAACTAAC
88648600 C
1 C
88648601 CTTTAAATTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.37, C:0.30, G:0.09, T:0.25
Consensus pattern (40 bp):
CAAGCCACATTGCTCTTCTAAATCAATTCAAGCAACTAAC
Found at i:88650282 original size:145 final size:146
Alignment explanation
Indices: 88650019--88650302 Score: 464
Period size: 145 Copynumber: 2.0 Consensus size: 146
88650009 AGAAAGCATT
* * *
88650019 GATTATGAAAGACATTAGCTAGTCTACTTTTATCAACAATCTTATTAAGTAAATATGTCAGGAAT
1 GATTATGAAAGACACTAGCTAATCTACTTTTATCAACAATCTTATTAACTAAATATGTCAGGAAT
* * *
88650084 CCTATCCTTTTACTATTTAAGAAGCTTGTCATTTATAATCCTTCGCTTCTATG-AATAAGATGAA
66 CCTATCCTTTTACTATTTAAGAAGCTTGTCATTTATAATCCTTCGCTTCTATGAAAAAAAAGGAA
88650148 GTTTGTAAGCCTAATC
131 GTTTGTAAGCCTAATC
* *
88650164 GATTATGAAAGACACTAGCTAATCTACTTTTTTCAGCAATCTTATTAACTAAATATG-CTAGGAA
1 GATTATGAAAGACACTAGCTAATCTACTTTTATCAACAATCTTATTAACTAAATATGTC-AGGAA
*
88650228 TCCTATCCTTTTACTATTTAATAAGCTTGTCATTTATAATCCTTCGCTTCTATGAAAAAAAAGGA
65 TCCTATCCTTTTACTATTTAAGAAGCTTGTCATTTATAATCCTTCGCTTCTATGAAAAAAAAGGA
88650293 AGTTTGTAAG
130 AGTTTGTAAG
88650303 GGTCAAGAAA
Statistics
Matches: 128, Mismatches: 9, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
144 1 0.01
145 110 0.86
146 17 0.13
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.38
Consensus pattern (146 bp):
GATTATGAAAGACACTAGCTAATCTACTTTTATCAACAATCTTATTAACTAAATATGTCAGGAAT
CCTATCCTTTTACTATTTAAGAAGCTTGTCATTTATAATCCTTCGCTTCTATGAAAAAAAAGGAA
GTTTGTAAGCCTAATC
Found at i:88654681 original size:16 final size:16
Alignment explanation
Indices: 88654660--88654692 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
88654650 ATGTGATATC
88654660 ACATTACTCAAATTTG
1 ACATTACTCAAATTTG
*
88654676 ACATTATTCAAATTTG
1 ACATTACTCAAATTTG
88654692 A
1 A
88654693 TTTGAAACGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.39
Consensus pattern (16 bp):
ACATTACTCAAATTTG
Found at i:88659587 original size:37 final size:37
Alignment explanation
Indices: 88659537--88659609 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
88659527 TAGTAGAATA
88659537 TAATGTTAGCTTCACAGAAGTTATTGCATAAAAAAAT
1 TAATGTTAGCTTCACAGAAGTTATTGCATAAAAAAAT
88659574 TAATGTTAGCTTCACAGAAGTTATTGCATAAAAAAA
1 TAATGTTAGCTTCACAGAAGTTATTGCATAAAAAAA
88659610 ATTATCTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.32
Consensus pattern (37 bp):
TAATGTTAGCTTCACAGAAGTTATTGCATAAAAAAAT
Found at i:88661658 original size:32 final size:32
Alignment explanation
Indices: 88661605--88661679 Score: 80
Period size: 33 Copynumber: 2.3 Consensus size: 32
88661595 GAATAACTTT
**
88661605 TAAAAAATGATTTCAAAAAAATTGT-CAAACGA
1 TAAAAAAT-ATTTCAAAAAAATCATCCAAACGA
* * *
88661637 TAAAAAATATTTTACACAAAATCATCCAAACGC
1 TAAAAAATATTTCA-AAAAAATCATCCAAACGA
88661670 TAAAAAATAT
1 TAAAAAATAT
88661680 CAACTTTTCC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
31 5 0.14
32 15 0.42
33 16 0.44
ACGTcount: A:0.56, C:0.13, G:0.05, T:0.25
Consensus pattern (32 bp):
TAAAAAATATTTCAAAAAAATCATCCAAACGA
Found at i:88670601 original size:12 final size:12
Alignment explanation
Indices: 88670586--88670617 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
88670576 TACCGTAAGG
88670586 GTAATAGTAACA
1 GTAATAGTAACA
88670598 GTAATAGTAACA
1 GTAATAGTAACA
88670610 GTAATAGT
1 GTAATAGT
88670618 CAGGTACGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (12 bp):
GTAATAGTAACA
Found at i:88671524 original size:5 final size:5
Alignment explanation
Indices: 88671514--88671648 Score: 270
Period size: 5 Copynumber: 27.0 Consensus size: 5
88671504 ATTAATGTAT
88671514 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
88671564 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
88671614 TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA
88671649 GCAAATACTT
Statistics
Matches: 130, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 130 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:88679097 original size:5 final size:5
Alignment explanation
Indices: 88679087--88679133 Score: 67
Period size: 5 Copynumber: 9.2 Consensus size: 5
88679077 TATTATAACT
* *
88679087 ATATA ATATA ATATA ATATA ATATA ATATA ATTTA CTTATA ATATA A
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA -ATATA ATATA A
88679134 GTAAATACTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
5 34 0.92
6 3 0.08
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (5 bp):
ATATA
Found at i:88682644 original size:19 final size:20
Alignment explanation
Indices: 88682622--88682659 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
88682612 TTTTTAAATT
*
88682622 AAATT-ATTTCTTTTTTAAG
1 AAATTAATTTCTTTCTTAAG
88682641 AAATTAATTTCTTTCTTAA
1 AAATTAATTTCTTTCTTAA
88682660 ATTACTCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.34, C:0.08, G:0.03, T:0.55
Consensus pattern (20 bp):
AAATTAATTTCTTTCTTAAG
Found at i:88682737 original size:24 final size:24
Alignment explanation
Indices: 88682688--88682738 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
88682678 TTATATTTCT
* *
88682688 TTTTCTTTTTCTCTTTATTCTTTC
1 TTTTCTTTTTCTCTTTACTCTCTC
*
88682712 TTTTC-TTTTCTTTTTACTCTCCTC
1 TTTTCTTTTTCTCTTTACTCT-CTC
88682736 TTT
1 TTT
88682739 CTTCCCTACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.04, C:0.24, G:0.00, T:0.73
Consensus pattern (24 bp):
TTTTCTTTTTCTCTTTACTCTCTC
Found at i:88685816 original size:16 final size:17
Alignment explanation
Indices: 88685780--88685837 Score: 66
Period size: 16 Copynumber: 3.5 Consensus size: 17
88685770 GTTTTAAAAA
**
88685780 TATATAAAATATGAATT
1 TATATAAAATATGAAAG
88685797 TATA-AAAATATGAAAG
1 TATATAAAATATGAAAG
* *
88685813 TATATACAAT-TGAAAA
1 TATATAAAATATGAAAG
88685829 TATATAAAA
1 TATATAAAA
88685838 GCCTATAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
16 27 0.77
17 8 0.23
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.33
Consensus pattern (17 bp):
TATATAAAATATGAAAG
Found at i:88685873 original size:29 final size:28
Alignment explanation
Indices: 88685822--88685877 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
88685812 GTATATACAA
*
88685822 TTGAAAATATATAAAAGCCTATAATATT
1 TTGAAAATATATAAAAACCTATAATATT
**
88685850 TTGAAATATATATAAAAATTTATAATAT
1 TTGAAA-ATATATAAAAACCTATAATAT
88685878 AATATGTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 6 0.25
29 18 0.75
ACGTcount: A:0.52, C:0.04, G:0.05, T:0.39
Consensus pattern (28 bp):
TTGAAAATATATAAAAACCTATAATATT
Found at i:88685926 original size:29 final size:29
Alignment explanation
Indices: 88685893--88685953 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
88685883 GTTAATTAAC
88685893 AAAAAAAATATAAATATATAAAAGAACTA
1 AAAAAAAATATAAATATATAAAAGAACTA
** * * *
88685922 AAAAATTATATACATATATATAATAACTA
1 AAAAAAAATATAAATATATAAAAGAACTA
88685951 AAA
1 AAA
88685954 GTGTGTTTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.26
Consensus pattern (29 bp):
AAAAAAAATATAAATATATAAAAGAACTA
Found at i:88690058 original size:216 final size:216
Alignment explanation
Indices: 88689681--88690112 Score: 801
Period size: 216 Copynumber: 2.0 Consensus size: 216
88689671 ATACATTTAT
*
88689681 GCATTTAATATCAAAATCCATTTGTCTCAATCATATTGTCCCTTCTGAGGTCATACGAGGCCTTA
1 GCATTTAATATCAAAATCCATTCGTCTCAATCATATTGTCCCTTCTGAGGTCATACGAGGCCTTA
*
88689746 AAACATGCTTAGAAGTGGTTCGAGACTAAACTGATATCATTTGCAAATTTTGAGAAACTTAGAAA
66 AAACATGCTTAGAAGTGGTTCGAGACTAAACCGATATCATTTGCAAATTTTGAGAAACTTAGAAA
*
88689811 ATTTTAAAACATTTAATGGCCACATGCTCGTGTGAACAGGCCGTGTGAGGACACACCTGTGTCAT
131 ATTTTAAAACATTTAATGGCCACACGCTCGTGTGAACAGGCCGTGTGAGGACACACCTGTGTCAT
88689876 AAGCTGTGTGAAAATAGGACA
196 AAGCTGTGTGAAAATAGGACA
88689897 GCATTTAATATCAAAATCCATTCGTCTCAATCATATTGTCCCTTCTGAGGTCATACGAGGCCTTA
1 GCATTTAATATCAAAATCCATTCGTCTCAATCATATTGTCCCTTCTGAGGTCATACGAGGCCTTA
* * *
88689962 AAACATGTTTAGAAGTGGTTCGAGACTAAACCGATATCATTTGTAAATTTTGATAAACTTAGAAA
66 AAACATGCTTAGAAGTGGTTCGAGACTAAACCGATATCATTTGCAAATTTTGAGAAACTTAGAAA
*
88690027 ATTTTAAAACATTTAATGGTCACACGCTCGTGTGAACAGGCCGTGTGAGGACACACCTGTGTCAT
131 ATTTTAAAACATTTAATGGCCACACGCTCGTGTGAACAGGCCGTGTGAGGACACACCTGTGTCAT
88690092 AAGCTGTGTGAAAATAGGACA
196 AAGCTGTGTGAAAATAGGACA
88690113 TACATACTGA
Statistics
Matches: 209, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
216 209 1.00
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (216 bp):
GCATTTAATATCAAAATCCATTCGTCTCAATCATATTGTCCCTTCTGAGGTCATACGAGGCCTTA
AAACATGCTTAGAAGTGGTTCGAGACTAAACCGATATCATTTGCAAATTTTGAGAAACTTAGAAA
ATTTTAAAACATTTAATGGCCACACGCTCGTGTGAACAGGCCGTGTGAGGACACACCTGTGTCAT
AAGCTGTGTGAAAATAGGACA
Found at i:88696869 original size:20 final size:18
Alignment explanation
Indices: 88696846--88696895 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
88696836 AAAATATTTA
88696846 ATTAATTTAATATTAAAGT
1 ATTAATTTAATATTAAA-T
88696865 GATT-ATCTTAATATTAAAT
1 -ATTAAT-TTAATATTAAAT
88696884 -TTAATTTAATAT
1 ATTAATTTAATAT
88696896 AGATAAACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 9 0.32
18 2 0.07
19 3 0.11
20 14 0.50
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (18 bp):
ATTAATTTAATATTAAAT
Found at i:88696918 original size:42 final size:42
Alignment explanation
Indices: 88696866--88696967 Score: 132
Period size: 42 Copynumber: 2.4 Consensus size: 42
88696856 TATTAAAGTG
** *
88696866 ATTATCTTAATATTAAATTTAATTTAATATAGATAAACATTCT
1 ATTAT-TTAATATTAAATTTAACCTAATATAGATAAACATTAT
* **
88696909 ATTATTTAATATTAAATTTAACCTAATATTGATAAATGTTAT
1 ATTATTTAATATTAAATTTAACCTAATATAGATAAACATTAT
88696951 ATTAATTTAATATTAAA
1 ATT-ATTTAATATTAAA
88696968 GTAATTAAGT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 34 0.65
43 18 0.35
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (42 bp):
ATTATTTAATATTAAATTTAACCTAATATAGATAAACATTAT
Found at i:88702833 original size:43 final size:42
Alignment explanation
Indices: 88702764--88702866 Score: 109
Period size: 42 Copynumber: 2.4 Consensus size: 42
88702754 TGAAAAGGGG
* * * * *
88702764 TGTTTGGCTGCAGGTTTTGGGGATTCTAAGGCTGGAATAGGAT
1 TGTTTGGCTGCAGGATATGGGCATTCT-AGGCTGGAATAGAAC
*
88702807 TGTTTGGCTGCAGAGATAT-GGCATTCTGGGCTGGAATAGAAC
1 TGTTTGGCTGCAG-GATATGGGCATTCTAGGCTGGAATAGAAC
*
88702849 TGTTTGGCAGCATGGATA
1 TGTTTGGCTGCA-GGATA
88702867 GGGTTGTTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
42 27 0.53
43 21 0.41
44 3 0.06
ACGTcount: A:0.21, C:0.12, G:0.35, T:0.32
Consensus pattern (42 bp):
TGTTTGGCTGCAGGATATGGGCATTCTAGGCTGGAATAGAAC
Found at i:88702975 original size:10 final size:10
Alignment explanation
Indices: 88702962--88703018 Score: 62
Period size: 11 Copynumber: 5.5 Consensus size: 10
88702952 AATATTTAAC
88702962 TAAAATAAAA
1 TAAAATAAAA
88702972 TAAAAATAAAA
1 T-AAAATAAAA
*
88702983 GAAAATAATAA
1 TAAAATAA-AA
*
88702994 TAAAAAAAAA
1 TAAAATAAAA
88703004 T-AAATAAAAA
1 TAAAAT-AAAA
88703014 TAAAA
1 TAAAA
88703019 AGAAAGATTG
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
9 3 0.08
10 16 0.41
11 20 0.51
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.18
Consensus pattern (10 bp):
TAAAATAAAA
Found at i:88702979 original size:6 final size:6
Alignment explanation
Indices: 88702963--88703019 Score: 50
Period size: 6 Copynumber: 9.7 Consensus size: 6
88702953 ATATTTAACT
*
88702963 AAAAT- AAAATA AAAATA AAAGA-A AATAATA ATAAA-A AAAA-A TAAATA
1 AAAATA AAAATA AAAATA AAA-ATA AA-AATA A-AAATA AAAATA AAAATA
88703010 AAAATA AAAA
1 AAAATA AAAA
88703020 GAAAGATTGG
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
5 12 0.27
6 25 0.57
7 6 0.14
8 1 0.02
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:88702987 original size:16 final size:16
Alignment explanation
Indices: 88702962--88703007 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
88702952 AATATTTAAC
*
88702962 TAAAATAAAATAAAAA
1 TAAAAAAAAATAAAAA
* *
88702978 TAAAAGAAAATAATAA
1 TAAAAAAAAATAAAAA
88702994 TAAAAAAAAATAAA
1 TAAAAAAAAATAAA
88703008 TAAAAATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.17
Consensus pattern (16 bp):
TAAAAAAAAATAAAAA
Found at i:88703018 original size:16 final size:16
Alignment explanation
Indices: 88702964--88703019 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
88702954 TATTTAACTA
88702964 AAAT-AAAATAAAAAT
1 AAATAAAAATAAAAAT
*
88702979 AAA-AGAAAATAATAAT
1 AAATA-AAAATAAAAAT
*
88702995 AAAAAAAAATAAATAA-
1 AAATAAAAATAAA-AAT
88703011 AAATAAAAA
1 AAATAAAAA
88703020 GAAAGATTGG
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
15 3 0.09
16 28 0.82
17 3 0.09
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (16 bp):
AAATAAAAATAAAAAT
Found at i:88710522 original size:24 final size:24
Alignment explanation
Indices: 88710494--88710541 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
88710484 CTTAAATTCC
* * * *
88710494 TCCATGAATTTCTCCTTTCATCAT
1 TCCATAAATTACTCCCTCCATCAT
88710518 TCCATAAATTACTCCCTCCATCAT
1 TCCATAAATTACTCCCTCCATCAT
88710542 GCTTCGACAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.25, C:0.33, G:0.02, T:0.40
Consensus pattern (24 bp):
TCCATAAATTACTCCCTCCATCAT
Found at i:88712315 original size:149 final size:149
Alignment explanation
Indices: 88712040--88712339 Score: 546
Period size: 149 Copynumber: 2.0 Consensus size: 149
88712030 CTTGATTGCC
*
88712040 ATAACCAACTTATCATTTGGAAGTAAAGATCCACTTTCAATGATCGATTCGAGTTTAGAGTGTAC
1 ATAACCAACTTATCATTTGGAAGTAAAGATCCACTTTCAAGGATCGATTCGAGTTTAGAGTGTAC
88712105 CGAGGCTAAGGCTAAGCATTCACATATTTGATTTACCAATTTAATTTAAATTACTTAATTTTATT
66 CGAGGCTAAGGCTAAGCATTCACATATTTGATTTACCAATTTAATTTAAATTACTTAATTTTATT
88712170 TTGCAACTATCATTCTGTT
131 TTGCAACTATCATTCTGTT
* * * * *
88712189 ATAAGCAACTTATCGTTTGGAAGTAAATATCCACTTTCTAGGATTGATTCGAGTTTAGAGTGTAC
1 ATAACCAACTTATCATTTGGAAGTAAAGATCCACTTTCAAGGATCGATTCGAGTTTAGAGTGTAC
88712254 CGAGGCTAAGGCTAAGCATTCACATATTTGATTTACCAATTTAATTTAAATTACTTAATTTTATT
66 CGAGGCTAAGGCTAAGCATTCACATATTTGATTTACCAATTTAATTTAAATTACTTAATTTTATT
88712319 TTGCAACTATCATTCTGTT
131 TTGCAACTATCATTCTGTT
88712338 AT
1 AT
88712340 TATTTCACTT
Statistics
Matches: 145, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
149 145 1.00
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (149 bp):
ATAACCAACTTATCATTTGGAAGTAAAGATCCACTTTCAAGGATCGATTCGAGTTTAGAGTGTAC
CGAGGCTAAGGCTAAGCATTCACATATTTGATTTACCAATTTAATTTAAATTACTTAATTTTATT
TTGCAACTATCATTCTGTT
Found at i:88712920 original size:3 final size:3
Alignment explanation
Indices: 88712912--88712966 Score: 101
Period size: 3 Copynumber: 18.3 Consensus size: 3
88712902 GTATCATTTA
*
88712912 TCT TCT TCT TCT TTT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
88712960 TCT TCT T
1 TCT TCT T
88712967 AAATCTTAGC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:88716101 original size:67 final size:67
Alignment explanation
Indices: 88715992--88716125 Score: 250
Period size: 67 Copynumber: 2.0 Consensus size: 67
88715982 TTTCTTGAAC
88715992 TTTTCAAACAATTGCATATCAACTTACCTTTTGTTGAAGCTATTTCGCAGATGCCCATATATGTA
1 TTTTCAAACAATTGCATATCAACTTACCTTTTGTTGAAGCTATTTCGCAGATGCCCATATATGTA
88716057 AA
66 AA
* *
88716059 TTTTCAAACAATTGCATATCAACTTACCTTTTGTTGAGGCTATTTCGTAGATGCCCATATATGTA
1 TTTTCAAACAATTGCATATCAACTTACCTTTTGTTGAAGCTATTTCGCAGATGCCCATATATGTA
88716124 AA
66 AA
88716126 AAATTTTAAG
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.38
Consensus pattern (67 bp):
TTTTCAAACAATTGCATATCAACTTACCTTTTGTTGAAGCTATTTCGCAGATGCCCATATATGTA
AA
Found at i:88723980 original size:21 final size:22
Alignment explanation
Indices: 88723954--88724012 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
88723944 GTTTTAATAA
*
88723954 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
88723975 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
88723997 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
88724013 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:88724027 original size:26 final size:24
Alignment explanation
Indices: 88723983--88724032 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
88723973 ATTTGTTTTA
*
88723983 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
88724007 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
88724033 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:88726946 original size:66 final size:65
Alignment explanation
Indices: 88726869--88726997 Score: 197
Period size: 65 Copynumber: 2.0 Consensus size: 65
88726859 TGATTAAACT
* *
88726869 TAATCATTTTAATATTAAATTAATATAATCT-TTATGATAAATATTAAATTAAATTTAATATTAA
1 TAATCAATTTAATATTAAATTAATAT-A-CTATTAAGATAAATATTAAATTAAATTTAATATTAA
88726933 TA
64 TA
* *
88726935 TAATCAATTTAATATTAAATTAATATACTATTAAGATACATATTAAATTTAATTTAATATTAA
1 TAATCAATTTAATATTAAATTAATATACTATTAAGATAAATATTAAATTAAATTTAATATTAA
88726998 ACTATTAAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
64 2 0.03
65 31 0.53
66 25 0.43
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.46
Consensus pattern (65 bp):
TAATCAATTTAATATTAAATTAATATACTATTAAGATAAATATTAAATTAAATTTAATATTAATA
Found at i:88726958 original size:20 final size:20
Alignment explanation
Indices: 88726861--88726958 Score: 72
Period size: 20 Copynumber: 4.5 Consensus size: 20
88726851 TTCAACTATG
*
88726861 ATTAAACTTAATCATTTTAAT
1 ATTAAA-TTAATCAATTTAAT
* *
88726882 ATTAAATTAATATAATCTTTAT
1 ATTAAATTAAT-CAAT-TTAAT
* *
88726904 GATAAATATTAAATTAAATTTAAT
1 -ATTAA-ATT-AA-TCAATTTAAT
88726928 ATT-AATATAATCAATTTAAT
1 ATTAAAT-TAATCAATTTAAT
88726948 ATTAAATTAAT
1 ATTAAATTAAT
88726959 ATACTATTAA
Statistics
Matches: 61, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
20 21 0.34
21 15 0.25
22 6 0.10
23 6 0.10
24 7 0.11
25 5 0.08
26 1 0.02
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (20 bp):
ATTAAATTAATCAATTTAAT
Found at i:88726997 original size:11 final size:11
Alignment explanation
Indices: 88726876--88726960 Score: 52
Period size: 11 Copynumber: 7.7 Consensus size: 11
88726866 ACTTAATCAT
88726876 TTTAATATTAA
1 TTTAATATTAA
*
88726887 ATTAATA-TAA
1 TTTAATATTAA
* *
88726897 TCTTTATGATAAA
1 T-TTAAT-ATTAA
88726910 TATTAA-ATTAAA
1 T-TTAATATT-AA
88726922 TTTAATATTAA
1 TTTAATATTAA
* *
88726933 TAT-A-ATCAA
1 TTTAATATTAA
88726942 TTTAATATTAA
1 TTTAATATTAA
*
88726953 ATTAATAT
1 TTTAATAT
88726961 ACTATTAAGA
Statistics
Matches: 55, Mismatches: 12, Indels: 14
0.68 0.15 0.17
Matches are distributed among these distances:
9 6 0.11
10 5 0.09
11 31 0.56
12 7 0.13
13 6 0.11
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.47
Consensus pattern (11 bp):
TTTAATATTAA
Found at i:88729202 original size:22 final size:22
Alignment explanation
Indices: 88729177--88729221 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
88729167 TCTCCCCATT
*
88729177 AGGCATCGGTGTCGCAACACCC
1 AGGCATCGATGTCGCAACACCC
* *
88729199 AGGCTTCGATGTTGCAACACCC
1 AGGCATCGATGTCGCAACACCC
88729221 A
1 A
88729222 AAATAGTGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.24, C:0.33, G:0.24, T:0.18
Consensus pattern (22 bp):
AGGCATCGATGTCGCAACACCC
Found at i:88730354 original size:7 final size:7
Alignment explanation
Indices: 88730344--88730373 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
88730334 TCATAAATGT
88730344 ATGTTCA
1 ATGTTCA
88730351 ATGTTCA
1 ATGTTCA
88730358 ATGTTCA
1 ATGTTCA
88730365 ATGTTCA
1 ATGTTCA
88730372 AT
1 AT
88730374 ATAACATTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (7 bp):
ATGTTCA
Found at i:88730924 original size:17 final size:18
Alignment explanation
Indices: 88730904--88730944 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
88730894 ACAACTATAT
88730904 TTTAAAAGAAGT-TAAAA
1 TTTAAAAGAAGTGTAAAA
* *
88730921 TTT-AAAGAATTGTAAAT
1 TTTAAAAGAAGTGTAAAA
88730938 TTTAAAA
1 TTTAAAA
88730945 TTTCATTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 7 0.35
17 10 0.50
18 3 0.15
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.37
Consensus pattern (18 bp):
TTTAAAAGAAGTGTAAAA
Found at i:88738722 original size:20 final size:20
Alignment explanation
Indices: 88738696--88738735 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
88738686 GTTGTTTTTT
88738696 TTTTTTTGCAAATTTTTATAA
1 TTTTTTTGC-AATTTTTATAA
*
88738717 TTTTTTTTCAATTTTTATA
1 TTTTTTTGCAATTTTTATA
88738736 TGTTATTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (20 bp):
TTTTTTTGCAATTTTTATAA
Found at i:88743718 original size:22 final size:22
Alignment explanation
Indices: 88743670--88743718 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
88743660 TGTTAATATT
* *
88743670 ATTAACTAATTATAAATTTTTA
1 ATTAACTAATTATAAAATTTAA
* * *
88743692 TTTAATTAATTTTAAAATTTAA
1 ATTAACTAATTATAAAATTTAA
88743714 ATTAA
1 ATTAA
88743719 ACACTAAAAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTAACTAATTATAAAATTTAA
Found at i:88746341 original size:4 final size:4
Alignment explanation
Indices: 88746332--88746369 Score: 67
Period size: 4 Copynumber: 9.2 Consensus size: 4
88746322 AGTACTCCAA
88746332 TATT TATT TATT TATT TATT TATTT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TA-TT TATT TATT TATT T
88746370 TTATAAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 29 0.88
5 4 0.12
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:88746360 original size:13 final size:13
Alignment explanation
Indices: 88746332--88746370 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
88746322 AGTACTCCAA
88746332 TATTTATTTA-TT
1 TATTTATTTATTT
88746344 TATTTATTTATTT
1 TATTTATTTATTT
88746357 TATTTATTTATTT
1 TATTTATTTATTT
88746370 T
1 T
88746371 TATAAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TATTTATTTATTT
Found at i:88747133 original size:18 final size:19
Alignment explanation
Indices: 88747094--88747134 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
88747084 GTACCTAATT
*
88747094 AGTAATCAGTAACGATAGC
1 AGTAATCAGTAACGATAAC
88747113 AGTAA-CAGTAAC-AGTAAC
1 AGTAATCAGTAACGA-TAAC
88747131 AGTA
1 AGTA
88747135 TTCAACACAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 14 0.70
19 5 0.25
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.20
Consensus pattern (19 bp):
AGTAATCAGTAACGATAAC
Found at i:88747164 original size:45 final size:45
Alignment explanation
Indices: 88747114--88747224 Score: 177
Period size: 45 Copynumber: 2.5 Consensus size: 45
88747104 AACGATAGCA
* *
88747114 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCT
1 GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGCTGAATCG
* * *
88747159 GTAACAGTAACGGTAACAATATTCGACACACAAAGTGTTGAATCG
1 GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGCTGAATCG
88747204 GTAACAGTAACGGTAACAGTA
1 GTAACAGTAACGGTAACAGTA
88747225 ACAGTAGTCG
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 60 1.00
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.22
Consensus pattern (45 bp):
GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGCTGAATCG
Found at i:88747219 original size:12 final size:12
Alignment explanation
Indices: 88747202--88747226 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
88747192 AGTGTTGAAT
88747202 CGGTAACAGTAA
1 CGGTAACAGTAA
88747214 CGGTAACAGTAA
1 CGGTAACAGTAA
88747226 C
1 C
88747227 AGTAGTCGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:88748292 original size:5 final size:5
Alignment explanation
Indices: 88748282--88748324 Score: 86
Period size: 5 Copynumber: 8.6 Consensus size: 5
88748272 TGTTTCTTTT
88748282 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATA
88748325 ATATACTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:88748908 original size:13 final size:13
Alignment explanation
Indices: 88748890--88748915 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
88748880 TATTATATAT
88748890 TATAATAAATAAA
1 TATAATAAATAAA
88748903 TATAATAAATAAA
1 TATAATAAATAAA
88748916 AGAAACAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TATAATAAATAAA
Found at i:88748977 original size:26 final size:25
Alignment explanation
Indices: 88748926--88748994 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 25
88748916 AGAAACAGAA
* * *
88748926 AGAAATAGAATAGAAATGAAACAGGG
1 AGAAAAAGAA-AGAAAAGAAAAAGGG
88748952 AGAAAAAGAAAGAAAAGAAAAAAGGG
1 AGAAAAAGAAAGAAAAG-AAAAAGGG
88748978 A-AAGAAAGAAATGAAAA
1 AGAA-AAAGAAA-GAAAA
88748995 ATTAGGGTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
25 8 0.22
26 24 0.65
27 5 0.14
ACGTcount: A:0.68, C:0.01, G:0.25, T:0.06
Consensus pattern (25 bp):
AGAAAAAGAAAGAAAAGAAAAAGGG
Found at i:88749807 original size:18 final size:18
Alignment explanation
Indices: 88749784--88750066 Score: 176
Period size: 18 Copynumber: 15.3 Consensus size: 18
88749774 AAATAATTAT
88749784 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* * *
88749802 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * **
88749820 TTATTCAATAATAACCAG
1 TTATTCAGTAACAGTCAG
*
88749838 TTATTCAGTATCGAGCAATTGATCGG
1 TTATTCAGTA---A-C-A--G-TCAG
* *
88749864 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* *
88749882 TTATTTAGTAA-AATCAG
1 TTATTCAGTAACAGTCAG
* * * *
88749899 ATATTCAGTAGCAATTAAG
1 TTATTCAGTAAC-AGTCAG
*
88749918 TTATTCAGTAACAGTCAT
1 TTATTCAGTAACAGTCAG
* *
88749936 TTATTCAGTGACAATCAG
1 TTATTCAGTAACAGTCAG
* *
88749954 TTATTCAGTAA-TGATCAT
1 TTATTCAGTAACAG-TCAG
* *
88749972 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAG
88749990 TTATTCAGTAACAGTCTA-
1 TTATTCAGTAACAGTC-AG
* *
88750008 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* *
88750026 TTATTCAATAACAGTCAA
1 TTATTCAGTAACAGTCAG
* * *
88750044 TTATTCAGAAATAATCAG
1 TTATTCAGTAACAGTCAG
88750062 TTATT
1 TTATT
88750067 TTATACATTT
Statistics
Matches: 201, Mismatches: 50, Indels: 28
0.72 0.18 0.10
Matches are distributed among these distances:
17 13 0.06
18 156 0.78
19 16 0.08
21 2 0.01
22 1 0.00
23 2 0.01
26 11 0.05
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:88750241 original size:6 final size:6
Alignment explanation
Indices: 88750230--88750254 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
88750220 ACAAATCCGA
88750230 AACAGT AACAGT AACAGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT A
88750255 TTCAACATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:88750291 original size:45 final size:45
Alignment explanation
Indices: 88750235--88750344 Score: 175
Period size: 45 Copynumber: 2.4 Consensus size: 45
88750225 TCCGAAACAG
*
88750235 TAACAGTAACAGTAACAGTATTCAACATACAAAGTGCTGAATCAA
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCAA
* * **
88750280 TAACGGTAACAGTAACAGTATTCGACACACAAAGTGCTGAATCGG
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCAA
88750325 TAACAGTAACAGTAACAGTA
1 TAACAGTAACAGTAACAGTA
88750345 ACAGTAGTCG
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 59 1.00
ACGTcount: A:0.44, C:0.18, G:0.17, T:0.21
Consensus pattern (45 bp):
TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCAA
Found at i:88750335 original size:6 final size:6
Alignment explanation
Indices: 88750324--88750350 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
88750314 TGCTGAATCG
88750324 GTAACA GTAACA GTAACA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTA
88750351 GTCGGCACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:88750340 original size:51 final size:48
Alignment explanation
Indices: 88750230--88750359 Score: 167
Period size: 45 Copynumber: 2.7 Consensus size: 48
88750220 ACAAATCCGA
* *
88750230 AACAGTAACAGTAACAGTAACAGTATTCAACATACAAAGTGCTGAATC
1 AACAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAATC
*
88750278 -A-A-TAACGGTAACAGTAACAGTATTCGACACACAAAGTGCTGAATC
1 AACAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAATC
* *
88750323 GGTAACAGTAACAGTAACAGTAACAGTAGTCGGCACA
1 ---AACAGTAACAGTAACAGTAACAGTATTCGACACA
88750360 TAAGTGCCTG
Statistics
Matches: 70, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
45 40 0.57
46 1 0.01
47 1 0.01
49 1 0.01
50 1 0.01
51 26 0.37
ACGTcount: A:0.43, C:0.19, G:0.18, T:0.19
Consensus pattern (48 bp):
AACAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAATC
Found at i:88758640 original size:26 final size:26
Alignment explanation
Indices: 88758604--88758657 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
88758594 TCAATCTAAC
88758604 ATCTGATTTATAAAAGGCAACGAAAA
1 ATCTGATTTATAAAAGGCAACGAAAA
*
88758630 ATCTGATTTATAAAAGGCAATGAAAA
1 ATCTGATTTATAAAAGGCAACGAAAA
88758656 AT
1 AT
88758658 GGTCCTTCCG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (26 bp):
ATCTGATTTATAAAAGGCAACGAAAA
Found at i:88776572 original size:9 final size:9
Alignment explanation
Indices: 88776511--88776577 Score: 80
Period size: 9 Copynumber: 7.4 Consensus size: 9
88776501 TTTGGTTAAA
*
88776511 AATTAACCG
1 AATTACCCG
*
88776520 AATTAACCG
1 AATTACCCG
88776529 AATTACCCG
1 AATTACCCG
*
88776538 AATTACTCG
1 AATTACCCG
*
88776547 AATTAACCG
1 AATTACCCG
88776556 AATTACCCG
1 AATTACCCG
* *
88776565 AATCACCCA
1 AATTACCCG
88776574 AATT
1 AATT
88776578 TGAATCATTA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 50 1.00
ACGTcount: A:0.40, C:0.27, G:0.09, T:0.24
Consensus pattern (9 bp):
AATTACCCG
Found at i:88776577 original size:27 final size:27
Alignment explanation
Indices: 88776520--88776577 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
88776510 AAATTAACCG
* * *
88776520 AATTAACCGAATTACCCGAATTACTCG
1 AATTAACCGAATTACCCGAATCACCCA
88776547 AATTAACCGAATTACCCGAATCACCCA
1 AATTAACCGAATTACCCGAATCACCCA
88776574 AATT
1 AATT
88776578 TGAATCATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.40, C:0.28, G:0.09, T:0.24
Consensus pattern (27 bp):
AATTAACCGAATTACCCGAATCACCCA
Found at i:88776603 original size:17 final size:17
Alignment explanation
Indices: 88776583--88776646 Score: 65
Period size: 17 Copynumber: 3.6 Consensus size: 17
88776573 AAATTTGAAT
88776583 CATTACATAATTAAAAA
1 CATTACATAATTAAAAA
** *
88776600 CATTACATAAGTCTTTGAAT
1 CATTACATAA---TTAAAAA
*
88776620 CACTACATAATTAAAAA
1 CATTACATAATTAAAAA
88776637 CATTACATAA
1 CATTACATAA
88776647 GTCTTGAAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
17 23 0.64
20 13 0.36
ACGTcount: A:0.50, C:0.16, G:0.03, T:0.31
Consensus pattern (17 bp):
CATTACATAATTAAAAA
Found at i:88776617 original size:37 final size:37
Alignment explanation
Indices: 88776576--88776651 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
88776566 ATCACCCAAA
*
88776576 TTTGAATCATTACATAATTAAAAACATTACATAAGTC
1 TTTGAATCACTACATAATTAAAAACATTACATAAGTC
88776613 TTTGAATCACTACATAATTAAAAACATTACATAAGTC
1 TTTGAATCACTACATAATTAAAAACATTACATAAGTC
88776650 TT
1 TT
88776652 GAAATTAACA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (37 bp):
TTTGAATCACTACATAATTAAAAACATTACATAAGTC
Found at i:88778629 original size:46 final size:46
Alignment explanation
Indices: 88778562--88778653 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
88778552 GTAGTTCATG
*
88778562 AAGGAATATGAAACCTAGGACATGCCACAACCATAAATTTATTAAA
1 AAGGAATATAAAACCTAGGACATGCCACAACCATAAATTTATTAAA
88778608 AAGGAATATAAAACCTAGGACATGCCACAACCATAAATTTATTAAA
1 AAGGAATATAAAACCTAGGACATGCCACAACCATAAATTTATTAAA
88778654 GCCTTTACTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.49, C:0.17, G:0.12, T:0.22
Consensus pattern (46 bp):
AAGGAATATAAAACCTAGGACATGCCACAACCATAAATTTATTAAA
Found at i:88781354 original size:18 final size:18
Alignment explanation
Indices: 88781331--88781366 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
88781321 TTTGCTATTA
*
88781331 TGTTTCTTTGTTTCTTTT
1 TGTTTCTTTATTTCTTTT
88781349 TGTTTCTTTATTTCTTTT
1 TGTTTCTTTATTTCTTTT
88781367 ATTTACCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.03, C:0.11, G:0.08, T:0.78
Consensus pattern (18 bp):
TGTTTCTTTATTTCTTTT
Found at i:88781520 original size:13 final size:14
Alignment explanation
Indices: 88781504--88781532 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
88781494 CATAATTTGA
88781504 TTTATTTA-TTTAT
1 TTTATTTACTTTAT
88781517 TTTATTTACTTTAT
1 TTTATTTACTTTAT
88781531 TT
1 TT
88781533 AATTAATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTATTTACTTTAT
Found at i:88785811 original size:47 final size:46
Alignment explanation
Indices: 88785745--88786010 Score: 238
Period size: 47 Copynumber: 5.7 Consensus size: 46
88785735 ATTGTTGGCT
*
88785745 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCACA-GATGAGAGCC
* * *
88785791 AGTGTAAGACGATGTCTGGGACATGGCATC-GACATTGAGATGAGAGCT
1 AGTGTAAGAC-ATGTCTGGGACATGGCATCGGCCA--CAGATGAGAGCC
*
88785839 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGACAT-A-AGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCAC-AG--ATGAGAGCC
* * ** * **
88785885 AGTGAAAGACATGTCTGGGACATGG-ATCCGTTACGAGATGATAATC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCAC-AGATGAGAGCC
* *** *
88785931 AGTGTAAGATCATGTCTGGGACATGGCATCGACTTGAGATGTGAGCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCCACAGATGAGAGCC
*
88785978 AGTGTAAAACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGC
88786011 ATTTTACCCA
Statistics
Matches: 179, Mismatches: 28, Indels: 25
0.77 0.12 0.11
Matches are distributed among these distances:
44 2 0.01
45 1 0.01
46 60 0.34
47 86 0.48
48 29 0.16
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCCACAGATGAGAGCC
Found at i:88785960 original size:94 final size:92
Alignment explanation
Indices: 88785742--88786007 Score: 285
Period size: 94 Copynumber: 2.8 Consensus size: 92
88785732 GTTATTGTTG
* * *
88785742 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-A-TTATGAGAGCCAGTGTAAGACGATG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATAT-A-AGCCAGTGAAAGAC-ATG
*
88785805 TCTGGGACATGGCATCGACATTGAGATGAGA
63 TCTGGGACATGGCATC-ACATTGAGATGAAA
*
88785836 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACATAAGCCAGTGAAAGACATGTCT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAAGCCAGTGAAAGACATGTCT
*
88785901 GGGACATGG-ATC-CGTTACGAGATGATAA
66 GGGACATGGCATCACATT--GAGATGA-AA
* * * * *
88785929 TC-AGTGTAAGATCATGTCTGGGACATGGCATC-GACTTGAGATGTGAGCCAGTGTAAA-ACCAT
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATATAAGCCAGTG-AAAGA-CAT
88785991 GTCTGGGACATGGCATC
62 GTCTGGGACATGGCATC
88786008 GGCATTTTAC
Statistics
Matches: 150, Mismatches: 12, Indels: 19
0.83 0.07 0.10
Matches are distributed among these distances:
90 3 0.02
92 19 0.13
93 48 0.32
94 73 0.49
95 5 0.03
96 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.23
Consensus pattern (92 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAAGCCAGTGAAAGACATGTCT
GGGACATGGCATCACATTGAGATGAAA
Found at i:88787558 original size:36 final size:36
Alignment explanation
Indices: 88787517--88787629 Score: 95
Period size: 36 Copynumber: 3.2 Consensus size: 36
88787507 CGACAATAAA
* *
88787517 TGTGCCCTGCACTAGTCGGTAGAATCGACAAATATG
1 TGTGCCCTGCACTAGTCAGTAAAATCGACAAATATG
* * * **
88787553 TGTG-CCTAGCACTGGTCAGTATAATTGAC-AATAAA
1 TGTGCCCT-GCACTAGTCAGTAAAATCGACAAATATG
** * * *
88787588 TGCACCCTGCGCTAGTTAGTAAAACCGACAAATATG
1 TGTGCCCTGCACTAGTCAGTAAAATCGACAAATATG
88787624 TGTGCC
1 TGTGCC
88787630 TACACTGGTT
Statistics
Matches: 56, Mismatches: 18, Indels: 6
0.70 0.22 0.08
Matches are distributed among these distances:
35 24 0.43
36 32 0.57
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (36 bp):
TGTGCCCTGCACTAGTCAGTAAAATCGACAAATATG
Found at i:88787603 original size:71 final size:70
Alignment explanation
Indices: 88787504--88787692 Score: 243
Period size: 70 Copynumber: 2.7 Consensus size: 70
88787494 TGGCCGATAA
* * * * *
88787504 AACCGACAATAAATGTGCCCTGCACTAGTCGGTAGAATCGACAAATATGTGTGCCTAGCACTGGT
1 AACCGACAATAAATGCGCCCTGCGCTAGTTGGTAAAACCGACAAATATGTGTGCCTA-CACTGGT
88787569 CAGTAT
65 CAGTAT
** * * *
88787575 AATTGACAATAAATGCACCCTGCGCTAGTTAGTAAAACCGACAAATATGTGTGCCTACACTGGTT
1 AACCGACAATAAATGCGCCCTGCGCTAGTTGGTAAAACCGACAAATATGTGTGCCTACACTGGTC
*
88787640 GGTAT
66 AGTAT
* * *
88787645 AACCGACAATAAATGCGCCTTGAGCTGGTTGGTAAAACCGACAAATAT
1 AACCGACAATAAATGCGCCCTGCGCTAGTTGGTAAAACCGACAAATAT
88787693 ATCTGAAATC
Statistics
Matches: 100, Mismatches: 18, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
70 52 0.52
71 48 0.48
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.24
Consensus pattern (70 bp):
AACCGACAATAAATGCGCCCTGCGCTAGTTGGTAAAACCGACAAATATGTGTGCCTACACTGGTC
AGTAT
Found at i:88787649 original size:35 final size:36
Alignment explanation
Indices: 88787606--88787694 Score: 110
Period size: 35 Copynumber: 2.5 Consensus size: 36
88787596 GCGCTAGTTA
* *
88787606 GTAAAACCGACAAATATGTGTGCCTACA-CTGGTTG
1 GTAAAACCGACAAATATATGCGCCTACAGCTGGTTG
* * **
88787641 GTATAACCGAC-AATAAATGCGCCTTGAGCTGGTTG
1 GTAAAACCGACAAATATATGCGCCTACAGCTGGTTG
88787676 GTAAAACCGACAAATATAT
1 GTAAAACCGACAAATATAT
88787695 CTGAAATCAT
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
34 11 0.25
35 27 0.61
36 6 0.14
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (36 bp):
GTAAAACCGACAAATATATGCGCCTACAGCTGGTTG
Found at i:88794792 original size:32 final size:32
Alignment explanation
Indices: 88794734--88794807 Score: 103
Period size: 32 Copynumber: 2.3 Consensus size: 32
88794724 CCCACCTTGC
* * *
88794734 AATGATTAACTAGGGTTTAGAGACATGGTTAT
1 AATGATTAATTTGGGTTTAGACACATGGTTAT
*
88794766 AATGGTTAATTTGGGTTTAGACACATGGTTAT
1 AATGATTAATTTGGGTTTAGACACATGGTTAT
*
88794798 AGTGATTAAT
1 AATGATTAAT
88794808 GATGGTCTAC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.32, C:0.05, G:0.24, T:0.38
Consensus pattern (32 bp):
AATGATTAATTTGGGTTTAGACACATGGTTAT
Found at i:88795383 original size:12 final size:12
Alignment explanation
Indices: 88795361--88795389 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
88795351 TCAATGAGAA
88795361 ATGGG-GTGGAC
1 ATGGGTGTGGAC
88795372 ATGGGTGTGGAC
1 ATGGGTGTGGAC
88795384 ATGGGT
1 ATGGGT
88795390 TTAGATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.17, C:0.07, G:0.52, T:0.24
Consensus pattern (12 bp):
ATGGGTGTGGAC
Found at i:88797156 original size:20 final size:20
Alignment explanation
Indices: 88797119--88797157 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
88797109 AAGGGAAAGA
*
88797119 AAGGAGAAGAGAAGAAGAAG
1 AAGGAGAAGAGAAAAAGAAG
88797139 AAGGAGAACGA-AAAAAGAA
1 AAGGAGAA-GAGAAAAAGAA
88797158 AGAAAAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.64, C:0.03, G:0.33, T:0.00
Consensus pattern (20 bp):
AAGGAGAAGAGAAAAAGAAG
Found at i:88798444 original size:72 final size:72
Alignment explanation
Indices: 88798320--88798455 Score: 202
Period size: 72 Copynumber: 1.9 Consensus size: 72
88798310 CTGGCGAGCC
* *
88798320 CGGGAAATAGTTATTGCCCGAAAAATTCGGATGATAAGAAGTACCAGCCGAATGTGAATGCGATG
1 CGGGAAATAGTCATTGCCCGAAAAATTCGGATGATAAGAAGTACCAGCCGAATATGAATGCGATG
88798385 ACAAGCT
66 ACAAGCT
** * *
88798392 CGGGAAATAGTCATTGCCCGCCAAA-TCTGGATGATAAGAAGTATCAGTCGAATATGAATGCGAT
1 CGGGAAATAGTCATTGCCCGAAAAATTC-GGATGATAAGAAGTACCAGCCGAATATGAATGCGAT
88798456 CGCTCGGACT
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
71 2 0.04
72 55 0.96
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (72 bp):
CGGGAAATAGTCATTGCCCGAAAAATTCGGATGATAAGAAGTACCAGCCGAATATGAATGCGATG
ACAAGCT
Found at i:88798491 original size:18 final size:18
Alignment explanation
Indices: 88798464--88798503 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
88798454 ATCGCTCGGA
88798464 CTCGGCCTCCGCCTGTGC
1 CTCGGCCTCCGCCTGTGC
* *
88798482 CTCGGGCTCCGGCTGTGC
1 CTCGGCCTCCGCCTGTGC
88798500 CTCG
1 CTCG
88798504 AGCTTCAGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.00, C:0.45, G:0.33, T:0.23
Consensus pattern (18 bp):
CTCGGCCTCCGCCTGTGC
Found at i:88800213 original size:18 final size:17
Alignment explanation
Indices: 88800172--88800213 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
88800162 TAAATTTCGA
88800172 TTATTA-ATTTTAATAT
1 TTATTAGATTTTAATAT
88800188 TTGA-TAGATTTTAAATAT
1 TT-ATTAGATTTT-AATAT
88800206 TTATTAGA
1 TTATTAGA
88800214 ATAACTTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 4 0.18
17 7 0.32
18 11 0.50
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (17 bp):
TTATTAGATTTTAATAT
Found at i:88800400 original size:12 final size:13
Alignment explanation
Indices: 88800370--88800405 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
88800360 ATTTTTAAAA
88800370 TATATTAATTTTG
1 TATATTAATTTTG
88800383 TATATTAATTTT-
1 TATATTAATTTTG
88800395 TATATT-ATTTT
1 TATATTAATTTT
88800406 AGCAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 5 0.22
12 6 0.26
13 12 0.52
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (13 bp):
TATATTAATTTTG
Found at i:88800582 original size:152 final size:150
Alignment explanation
Indices: 88800345--88801599 Score: 1684
Period size: 148 Copynumber: 8.5 Consensus size: 150
88800335 ATAAGTAAAA
* * *
88800345 TATTTTCGTATATTAATTTTTAAAATATATTAATTTT-GTATATTAATT-TTTATATTATTTTAG
1 TATTTTCGTATATTATTTTTTAAAATATATT-ATTTTCGTATTTTATTTCTTTATATTATTTTAG
* * *
88800408 CAAAAAATGTTGCAAATGTATTATTTAAGT-TTTTTTTATATTAATTTCATAAATAACCCTAATT
65 CAAAAAATGTTTCAAATGTATTATTTAAGTATTTTTTTATATTAATTTAATAAATAACCCTGATT
*
88800472 TTGGCACTTTCTTCGTATTTTTTT
130 TTAGCACTTT-TTCGTA--TTTTT
* * *
88800496 TATTTTCGTATCTTATTTTTTAAAATATATTATTTTCATATTTTATTTCTTTATATTATTTTAGT
1 TATTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGC
* * * * **
88800561 ACATAATGTTTCAAATATATTATTTAAGTGTTTTTTTATATTTTTTTAATAAATAACCCTGATTT
66 AAAAAATGTTTCAAATGTATTATTTAAGTATTTTTTTATATTAATTTAATAAATAACCCTGATTT
88800626 TAGCACTTTATTCGTATTTTT
131 TAGCACTTT-TTCGTATTTTT
* *
88800647 TATTTTTGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTTTATATTATTTTAG
1 TATTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTA-TTTCTTTATATTATTTTAG
88800712 CAAAAAATGTTTCAAATGTATTATTTAAGTATTTTTTTATATTAATTTAATAAATAACCCTGATT
65 CAAAAAATGTTTCAAATGTATTATTTAAGTATTTTTTTATATTAATTTAATAAATAACCCTGATT
*
88800777 TTAGCACTTTATCGTATTTTT
130 TTAGCACTTTTTCGTATTTTT
* * *
88800798 TATTTTCGTATATTATTTTTTAAAATATATTGTTTTTGTATTTTATTTCTTTATATTATTTTAGT
1 TATTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGC
* * * * ** *
88800863 ACATAATGTTTCAAATGTATTATTCAAGTGTTTTTTTTATATTTTTTTAATACATAACCCTGATT
66 AAAAAATGTTTCAAATGTATTATTTAAGT-ATTTTTTTATATTAATTTAATAAATAACCCTGATT
88800928 TTAGCA------C------TT
130 TTAGCACTTTTTCGTATTTTT
88800937 TATTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTT-TTTATATTATTTTAGC
1 TATTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGC
*
88801001 AAAAAATGTTTCAAATGTATTATTTAA--ATTTTTTTATATTAATTTAATAAATACCCCTGATTT
66 AAAAAATGTTTCAAATGTATTATTTAAGTATTTTTTTATATTAATTTAATAAATAACCCTGATTT
88801064 TAGCACTTTATTCGTATTTTT
131 TAGCACTTT-TTCGTATTTTT
* *
88801085 TATTTTCGTATATTATTTTTTAAAATATATTATTTTTGTATATTATTT-TTTATATTATTTTAGC
1 TATTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGC
* *
88801149 AAAAAGTGTTTCAAATGTATTATTTAAGTGTTTTTTTATATTAATTTAATAAATAACCCTGATTT
66 AAAAAATGTTTCAAATGTATTATTTAAGTATTTTTTTATATTAATTTAATAAATAACCCTGATTT
* **
88801214 TGGTTCTTTCTTCGTATTTTT
131 TAGCACTTT-TTCGTATTTTT
* * * *
88801235 TATTTTCGTATCTT-TTTTTT-AAATATATTATTTTCATATATTATTTCTTTATATTATTTTAGT
1 TATTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGC
* * * * * * *
88801298 ACATAACGTTTTAAATGCATTATTTAAGTGTTTTTTTATATT-TTTTAATAAATAACCCTGATTT
66 AAAAAATGTTTCAAATGTATTATTTAAGTATTTTTTTATATTAATTTAATAAATAACCCTGATTT
*
88801362 TAGCACTTTATTCCTATTTTT
131 TAGCACTTT-TTCGTATTTTT
* *
88801383 TATTTTCGTATATTATTTTTTAAAATATCTTATTTTCGTATATTA-TT-TTTATATTATTTTAGC
1 TATTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGC
* *
88801446 AAAAAATGTTTCAAATGTATTATTT-A--ATTTTTTTATATTAATTTAATAAATAACCCTAACTT
66 AAAAAATGTTTCAAATGTATTATTTAAGTATTTTTTTATATTAATTTAATAAATAACCCTGATTT
*
88801508 TGGCACTTTGTTCGTATTTTTT
131 TAGCACTTT-TTCGTA-TTTTT
* * * *
88801530 TATTTTCGGATTTTATTTTTTAAAATATAATATTTTCATATTTTATTT-TTTATATTATTTTAGC
1 TATTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGC
88801594 AAAAAA
66 AAAAAA
88801600 CTCGTCAGCA
Statistics
Matches: 980, Mismatches: 98, Indels: 55
0.86 0.09 0.05
Matches are distributed among these distances:
135 36 0.04
138 39 0.04
139 48 0.05
142 1 0.00
145 13 0.01
146 32 0.03
147 45 0.05
148 223 0.23
149 65 0.07
150 134 0.14
151 173 0.18
152 126 0.13
153 45 0.05
ACGTcount: A:0.30, C:0.07, G:0.06, T:0.57
Consensus pattern (150 bp):
TATTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGC
AAAAAATGTTTCAAATGTATTATTTAAGTATTTTTTTATATTAATTTAATAAATAACCCTGATTT
TAGCACTTTTTCGTATTTTT
Found at i:88800706 original size:14 final size:14
Alignment explanation
Indices: 88800649--88800709 Score: 52
Period size: 14 Copynumber: 4.2 Consensus size: 14
88800639 GTATTTTTTA
88800649 TTTTTGTATATTAT
1 TTTTTGTATATTAT
*
88800663 TTTTTAAAATATATTA-
1 TTTTT---GTATATTAT
* *
88800679 TTTTCGTATTTTAT
1 TTTTTGTATATTAT
*
88800693 TTTTTTTATATTAT
1 TTTTTGTATATTAT
88800707 TTT
1 TTT
88800710 AGCAAAAAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
13 6 0.17
14 19 0.53
16 4 0.11
17 7 0.19
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.70
Consensus pattern (14 bp):
TTTTTGTATATTAT
Found at i:88801138 original size:12 final size:13
Alignment explanation
Indices: 88801110--88801145 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
88801100 TTTTTTAAAA
88801110 TATATTATTTTTG
1 TATATTATTTTTG
88801123 TATATTATTTTT-
1 TATATTATTTTTG
88801135 TATATTATTTT
1 TATATTATTTT
88801146 AGCAAAAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (13 bp):
TATATTATTTTTG
Found at i:88801275 original size:13 final size:14
Alignment explanation
Indices: 88801257--88801294 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
88801247 TTTTTTTTAA
88801257 ATATATTATTTTC-
1 ATATATTATTTTCT
88801270 ATATATTA-TTTCT
1 ATATATTATTTTCT
*
88801283 TTATATTATTTT
1 ATATATTATTTT
88801295 AGTACATAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 4 0.18
13 15 0.68
14 3 0.14
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (14 bp):
ATATATTATTTTCT
Found at i:88802181 original size:3 final size:3
Alignment explanation
Indices: 88802175--88802231 Score: 57
Period size: 3 Copynumber: 20.0 Consensus size: 3
88802165 GCTCCTCCTC
* * *
88802175 CTT CTT CTT C-T CTT CTT -TC CTT CTT CTC CTT CTT -TT CTT TTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
*
88802220 CTT CTC CTT CTT
1 CTT CTT CTT CTT
88802232 TGTTCCCGAA
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
2 5 0.12
3 38 0.88
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:88802799 original size:39 final size:36
Alignment explanation
Indices: 88802756--88802843 Score: 95
Period size: 39 Copynumber: 2.3 Consensus size: 36
88802746 TATAATTTTT
88802756 AAATATAAAAATGAAAAATGAAAAATCTTTAAAATAAAA
1 AAATATAAAAAT-AAAAA-GAAAAATCTTTAAAA-AAAA
* ** * *
88802795 AAATAAAAAGAATAAAAAGAAATTTTTTTAAAAATAA
1 AAATATAAA-AATAAAAAGAAAAATCTTTAAAAAAAA
88802832 AAATATAAAAAT
1 AAATATAAAAAT
88802844 TCTTAAAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
36 3 0.07
37 11 0.26
38 12 0.29
39 13 0.31
40 3 0.07
ACGTcount: A:0.69, C:0.01, G:0.05, T:0.25
Consensus pattern (36 bp):
AAATATAAAAATAAAAAGAAAAATCTTTAAAAAAAA
Found at i:88803317 original size:22 final size:21
Alignment explanation
Indices: 88803292--88803334 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
88803282 ATGTACTTTG
88803292 ATTTAAAAAATAAATAATTTTA
1 ATTTAAAAAA-AAATAATTTTA
** *
88803314 ATTTTTAAAAAAATATTTTTA
1 ATTTAAAAAAAAATAATTTTA
88803335 TTTTTAAACA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATTTAAAAAAAAATAATTTTA
Found at i:88803333 original size:21 final size:21
Alignment explanation
Indices: 88803298--88803342 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
88803288 TTTGATTTAA
88803298 AAAATAAATAATTTTAATTTTT
1 AAAATAAATAATTTT-ATTTTT
*
88803320 AAAA-AAATATTTTTATTTTT
1 AAAATAAATAATTTTATTTTT
88803340 AAA
1 AAA
88803343 CAGATTTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.41
21 9 0.41
22 4 0.18
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AAAATAAATAATTTTATTTTT
Found at i:88803426 original size:33 final size:32
Alignment explanation
Indices: 88803362--88803426 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
88803352 GTTTTCATAA
**
88803362 TTTTTTATTTTTTAAAATTAAAATTACAGTTT
1 TTTTTTATTTTTTAAAATTAAAAAAACAGTTT
* * *
88803394 TTTTTTGTTTTTTTAAATATAAAAAAATAGTTT
1 TTTTTTATTTTTTAAAAT-TAAAAAAACAGTTT
88803427 CCCAATGCCT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
32 16 0.59
33 11 0.41
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (32 bp):
TTTTTTATTTTTTAAAATTAAAAAAACAGTTT
Found at i:88807397 original size:162 final size:165
Alignment explanation
Indices: 88807002--88807400 Score: 569
Period size: 168 Copynumber: 2.4 Consensus size: 165
88806992 TTTTTACCCC
* * * * *
88807002 AAACTCTCAAATCTTTTTACTTTTTCCTCAAAATTTTTACTCCT-TCCCACTTTCCCTCCAAAAC
1 AAACACTCAAAACCTTTTA-TTTTCCCCCAAAATTTTTACTCCTCTCCCACTTTCCC-CCAAAAC
*
88807066 TTTTATTCCCCTCCCACCCCAATCCTCCAATCTACCCAAAATTCATTTCCGACCAAAATTTTATT
64 TTTTATTCCCCTCCCACCCCAATCCTCCAATCTACCCAAAATTCATTTCCGACCAAAATTTTACT
*
88807131 CTCCCATTTACTTTTTTTTTCTTCAGAATTTTACTCCTAA
129 CTCCCATTTAC---TTTTTTCTTCAAAATTTTACTCCTAA
* *
88807171 AAACCCTCAAAACCTTTTATTTTCCCCCAAAATTTTTACTCC-CTCCCACTTTCCCTCAAAAACT
1 AAACACTCAAAACCTTTTATTTTCCCCCAAAATTTTTACTCCTCTCCCACTTTCCC-CCAAAACT
* *
88807235 TTTATTCCCCTCCCACCCCAAT-CTCCTAATCTACCCAAAATTCATTTCCTACTAAAATTTTACT
65 TTTATTCCCCTCCCACCCCAATCCTCC-AATCTACCCAAAATTCATTTCCGACCAAAATTTTACT
88807299 CT-CCATTTAC-TTTTTC-TCAAAATTTTACTCCTAA
129 CTCCCATTTACTTTTTTCTTCAAAATTTTACTCCTAA
*
88807333 AATCACTCAAAACCTTTTATTTTCCCCCAAAATTTTTAC-CCTCTCCCACTTTCCCCCTAAAACT
1 AAACACTCAAAACCTTTTATTTTCCCCCAAAATTTTTACTCCTCTCCCACTTTCCCCC-AAAACT
88807397 TTTA
65 TTTA
88807401 CTTGCTTCTC
Statistics
Matches: 213, Mismatches: 13, Indels: 15
0.88 0.05 0.06
Matches are distributed among these distances:
161 3 0.01
162 77 0.36
163 6 0.03
167 12 0.06
168 99 0.46
169 16 0.08
ACGTcount: A:0.27, C:0.34, G:0.01, T:0.39
Consensus pattern (165 bp):
AAACACTCAAAACCTTTTATTTTCCCCCAAAATTTTTACTCCTCTCCCACTTTCCCCCAAAACTT
TTATTCCCCTCCCACCCCAATCCTCCAATCTACCCAAAATTCATTTCCGACCAAAATTTTACTCT
CCCATTTACTTTTTTCTTCAAAATTTTACTCCTAA
Found at i:88807802 original size:18 final size:18
Alignment explanation
Indices: 88807779--88807838 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
88807769 CAAATTCACA
88807779 TTTTATCTTTAAAATAAT
1 TTTTATCTTTAAAATAAT
*
88807797 TTTTAT-TATAAAATTACAT
1 TTTTATCTTTAAAA-TA-AT
* *
88807816 TTTTA-CATTTAATATATT
1 TTTTATC-TTTAAAATAAT
88807834 TTTTA
1 TTTTA
88807839 ATCCCAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
17 6 0.18
18 14 0.41
19 9 0.26
20 5 0.15
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTTATCTTTAAAATAAT
Found at i:88812116 original size:57 final size:57
Alignment explanation
Indices: 88811999--88812114 Score: 157
Period size: 57 Copynumber: 2.0 Consensus size: 57
88811989 TCAGGTCATC
**
88811999 TTCATTTTTATTTTGGAGAAAATCACATTCATTTCCAAATGATTTCATTTCTTTATT
1 TTCATTTTTATTTTGGAGAAAATCACATTCATTTCCAAATGATTTCATTTCTCCATT
88812056 TTCATTTTTATTTTGGAGAAAACTTCA-ATT-ATTTCCAAATG-TTTCTTATTTCTCCATT
1 TTCATTTTTATTTTGGAGAAAA--TCACATTCATTTCCAAATGATTTC--ATTTCTCCATT
88812114 T
1 T
88812115 CACCATTTGT
Statistics
Matches: 53, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
56 4 0.08
57 33 0.62
58 13 0.25
59 3 0.06
ACGTcount: A:0.27, C:0.15, G:0.07, T:0.52
Consensus pattern (57 bp):
TTCATTTTTATTTTGGAGAAAATCACATTCATTTCCAAATGATTTCATTTCTCCATT
Found at i:88820894 original size:19 final size:19
Alignment explanation
Indices: 88820870--88820907 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
88820860 GTTTGCACCC
*
88820870 AACACTCGTCAATATGTTT
1 AACACTCATCAATATGTTT
*
88820889 AACACTCATCAATGTGTTT
1 AACACTCATCAATATGTTT
88820908 GGAACTAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.37
Consensus pattern (19 bp):
AACACTCATCAATATGTTT
Found at i:88820954 original size:36 final size:37
Alignment explanation
Indices: 88820914--88820998 Score: 120
Period size: 36 Copynumber: 2.3 Consensus size: 37
88820904 GTTTGGAACT
*
88820914 AGTGCCTCATCGGTATAACC-GAAGT-ATTTGGCACCC
1 AGTGCCTCATCGGTAT-ACCTGAAGTAATTTGACACCC
* *
88820950 AGTGCCTCATCAGTATACCTGAAGTAATTTGACACCT
1 AGTGCCTCATCGGTATACCTGAAGTAATTTGACACCC
88820987 AGTGCCTCATCG
1 AGTGCCTCATCG
88820999 ACACATAGTC
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
35 3 0.07
36 20 0.47
37 20 0.47
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (37 bp):
AGTGCCTCATCGGTATACCTGAAGTAATTTGACACCC
Found at i:88822640 original size:16 final size:16
Alignment explanation
Indices: 88822619--88822662 Score: 79
Period size: 16 Copynumber: 2.8 Consensus size: 16
88822609 TAATACACCA
88822619 GCACTAAGCCTGCTAG
1 GCACTAAGCCTGCTAG
88822635 GCACTAAGCCTGCTAG
1 GCACTAAGCCTGCTAG
*
88822651 GCACAAAGCCTG
1 GCACTAAGCCTG
88822663 AATAACATCG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.27, C:0.32, G:0.25, T:0.16
Consensus pattern (16 bp):
GCACTAAGCCTGCTAG
Found at i:88822689 original size:38 final size:38
Alignment explanation
Indices: 88822634--88822782 Score: 201
Period size: 38 Copynumber: 3.9 Consensus size: 38
88822624 AAGCCTGCTA
*
88822634 GGCACTAAGCCTGCTAGGCACAAAGCCTGAATAACATC
1 GGCACTAAGCCTGCTAGGCACAAAGCCTGAATAACACC
* *
88822672 GGCACTATGCCTACTAGGCACAAAGCCTGAA-AACACC
1 GGCACTAAGCCTGCTAGGCACAAAGCCTGAATAACACC
* * * *
88822709 AGCATTAAGTCTGCTAGGCACAAAGCCTAAATAACACC
1 GGCACTAAGCCTGCTAGGCACAAAGCCTGAATAACACC
* * *
88822747 GACACTAAGCCTGTTAGGTACAAAGCCTGAATAACA
1 GGCACTAAGCCTGCTAGGCACAAAGCCTGAATAACA
88822783 ATTTAATTCA
Statistics
Matches: 94, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
37 30 0.32
38 64 0.68
ACGTcount: A:0.37, C:0.28, G:0.19, T:0.17
Consensus pattern (38 bp):
GGCACTAAGCCTGCTAGGCACAAAGCCTGAATAACACC
Found at i:88822770 original size:75 final size:76
Alignment explanation
Indices: 88822639--88822782 Score: 209
Period size: 75 Copynumber: 1.9 Consensus size: 76
88822629 TGCTAGGCAC
* * * *
88822639 TAAGCCTGCTAGGCACAAAGCCTGAATAACATCGGCACTATGCCTACTAGGCACAAAGCCTGAA-
1 TAAGCCTGCTAGGCACAAAGCCTAAATAACACCGACACTAAGCCTACTAGGCACAAAGCCTGAAT
88822703 AACACCAGCAT
66 AACACCAGCAT
* ** *
88822714 TAAGTCTGCTAGGCACAAAGCCTAAATAACACCGACACTAAGCCTGTTAGGTACAAAGCCTGAAT
1 TAAGCCTGCTAGGCACAAAGCCTAAATAACACCGACACTAAGCCTACTAGGCACAAAGCCTGAAT
88822779 AACA
66 AACA
88822783 ATTTAATTCA
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
75 56 0.93
76 4 0.07
ACGTcount: A:0.38, C:0.27, G:0.18, T:0.17
Consensus pattern (76 bp):
TAAGCCTGCTAGGCACAAAGCCTAAATAACACCGACACTAAGCCTACTAGGCACAAAGCCTGAAT
AACACCAGCAT
Found at i:88827343 original size:24 final size:24
Alignment explanation
Indices: 88827271--88827346 Score: 98
Period size: 25 Copynumber: 3.1 Consensus size: 24
88827261 GTATGCTCAT
*
88827271 ACGAGTTGTGAATCGGTATGCTCTC
1 ACGAGTTGT-AATCGGTAAGCTCTC
* *
88827296 ACGAGCTGTACATCAGTAAGCTCTC
1 ACGAGTTGTA-ATCGGTAAGCTCTC
*
88827321 ATGAGTTGTAATCGGTAAGCTCTC
1 ACGAGTTGTAATCGGTAAGCTCTC
88827345 AC
1 AC
88827347 AAGCTACAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
24 15 0.35
25 28 0.65
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (24 bp):
ACGAGTTGTAATCGGTAAGCTCTC
Found at i:88827357 original size:24 final size:24
Alignment explanation
Indices: 88827281--88827358 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
88827271 ACGAGTTGTG
*
88827281 AATCGGTATGCTCTCACGAGCTGTAC
1 AATCGGTAAGCTCTCACGAGC--TAC
* * * **
88827307 -ATCAGTAAGCTCTCATGAGTTGT
1 AATCGGTAAGCTCTCACGAGCTAC
*
88827330 AATCGGTAAGCTCTCACAAGCTAC
1 AATCGGTAAGCTCTCACGAGCTAC
88827354 AATCG
1 AATCG
88827359 ATAATCCCTA
Statistics
Matches: 39, Mismatches: 12, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
23 1 0.03
24 22 0.56
25 16 0.41
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (24 bp):
AATCGGTAAGCTCTCACGAGCTAC
Found at i:88828708 original size:9 final size:9
Alignment explanation
Indices: 88828695--88828744 Score: 66
Period size: 9 Copynumber: 5.6 Consensus size: 9
88828685 ATAAGTATAA
*
88828695 AATTAACCA
1 AATTAACCG
88828704 AATTAACCG
1 AATTAACCG
88828713 AATT-ACCTG
1 AATTAACC-G
*
88828722 AATTACCCG
1 AATTAACCG
88828731 AATTAACCG
1 AATTAACCG
88828740 AATTA
1 AATTA
88828745 TTTGTATAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
8 3 0.08
9 31 0.86
10 2 0.06
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:88828779 original size:5 final size:6
Alignment explanation
Indices: 88828764--88828798 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
88828754 AATTGTATGT
88828764 TTTTTA TTTTTA TTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTT--A TTTTTA TTTTTA TTT
88828799 ATTAAATTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 21 0.78
8 6 0.22
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:88828786 original size:14 final size:14
Alignment explanation
Indices: 88828769--88828795 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
88828759 TATGTTTTTT
88828769 ATTTTTATTTTTAG
1 ATTTTTATTTTTAG
88828783 ATTTTTATTTTTA
1 ATTTTTATTTTTA
88828796 TTTATTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (14 bp):
ATTTTTATTTTTAG
Found at i:88829114 original size:18 final size:19
Alignment explanation
Indices: 88829093--88829128 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
88829083 CCGAATTCAA
88829093 TCGG-TTAACCGAATTTTT
1 TCGGTTTAACCGAATTTTT
*
88829111 TCGGTTTTACCGAATTTT
1 TCGGTTTAACCGAATTTT
88829129 GCACTCCCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (19 bp):
TCGGTTTAACCGAATTTTT
Found at i:88833858 original size:12 final size:12
Alignment explanation
Indices: 88833832--88833879 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
88833822 TAAAATAGTT
*
88833832 TAAAAATAAAAA
1 TAAAAATAATAA
*
88833844 TAAAAATAATGA
1 TAAAAATAATAA
* *
88833856 TAATAATATTAA
1 TAAAAATAATAA
*
88833868 TATAAATAATAA
1 TAAAAATAATAA
88833880 ATAATCTATA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (12 bp):
TAAAAATAATAA
Found at i:88835801 original size:132 final size:135
Alignment explanation
Indices: 88835562--88835802 Score: 299
Period size: 132 Copynumber: 1.8 Consensus size: 135
88835552 TTTCAACCTG
* ** * * * * *
88835562 CTCCGCTGTAACTTCAAGGAGATAAGGTTTGTGTATTTTTATCCTGCTCTACTGCAAACTTCAGA
1 CTCCGCTGGAACTTCAAGGAGATAAGAATTGTGTAATTTCAACCTGCTCCACTGCAAACTTCAAA
* ** * * *
88835627 GAGATAAGGATTATGGCTTTGATTTGCTCCAATGTAATTTCAGGGAGAAGAGGTTTGTAGCTTCG
66 GAGATAAGGATGATGGCTTCAATCTGCTCCAATGCAACTTCAGGGAGAAGAGGTTTGTAGCTTCG
88835692 ATCTA
131 ATCTA
*
88835697 CTCCGCTGGAACTTCAAGGAGGTAAGAATTG-GTAATTTCAACCTG-TCCACTGC-AACTTCAAA
1 CTCCGCTGGAACTTCAAGGAGATAAGAATTGTGTAATTTCAACCTGCTCCACTGCAAACTTCAAA
* * *
88835759 GAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGG
66 GAGATAAGGATGATGGCTTCAATCTGCTCCAATGCAACTTCAGG
88835803 AAGATAAGAT
Statistics
Matches: 88, Mismatches: 18, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
132 43 0.49
133 7 0.08
134 11 0.12
135 27 0.31
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.31
Consensus pattern (135 bp):
CTCCGCTGGAACTTCAAGGAGATAAGAATTGTGTAATTTCAACCTGCTCCACTGCAAACTTCAAA
GAGATAAGGATGATGGCTTCAATCTGCTCCAATGCAACTTCAGGGAGAAGAGGTTTGTAGCTTCG
ATCTA
Done.