Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 45 of 125
Found at i:9105129 original size:24 final size:25
Alignment explanation
Indices: 9105077--9105130 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
9105067 GATTAGTTTT
* **
9105077 ACCTGCATACCAGCTTTTTGTTTTT
1 ACCTGCATACCAGCTTTTTGATTAA
9105102 ACCTGCATACCAGCTTTTT-ATTAA
1 ACCTGCATACCAGCTTTTTGATTAA
9105126 ACCTG
1 ACCTG
9105131 GGCATATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 7 0.27
25 19 0.73
ACGTcount: A:0.22, C:0.26, G:0.11, T:0.41
Consensus pattern (25 bp):
ACCTGCATACCAGCTTTTTGATTAA
Found at i:9106736 original size:23 final size:22
Alignment explanation
Indices: 9106697--9106741 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
9106687 TTTAAATTAA
9106697 ATATTATATTTTAATTTTGTTAT
1 ATATTATATTTTAATTTT-TTAT
*
9106720 ATATTA-ATTTATGATTTTTTAT
1 ATATTATATTT-TAATTTTTTAT
9106742 TTGAAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.64
Consensus pattern (22 bp):
ATATTATATTTTAATTTTTTAT
Found at i:9109135 original size:14 final size:15
Alignment explanation
Indices: 9109102--9109134 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
9109092 ATCATTATTT
9109102 AAAATATTAATTTAA
1 AAAATATTAATTTAA
*
9109117 AAAATATTACTTTAA
1 AAAATATTAATTTAA
9109132 AAA
1 AAA
9109135 TTTATTGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (15 bp):
AAAATATTAATTTAA
Found at i:9110455 original size:3 final size:3
Alignment explanation
Indices: 9110447--9110486 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
9110437 TTTAAGTCTA
* *
9110447 GAT GAT GAT GAT GAT GAT GAG GAT GAT GAT GAT GGT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
9110487 GTGTGAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.30, C:0.00, G:0.40, T:0.30
Consensus pattern (3 bp):
GAT
Found at i:9110856 original size:18 final size:18
Alignment explanation
Indices: 9110832--9110890 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 18
9110822 TATGGTTATT
9110832 ATCCACCTTAAATGTATC
1 ATCCACCTTAAATGTATC
*
9110850 CTCCACCTACTCAAATGTATC
1 ATCCACCT--T-AAATGTATC
* *
9110871 ATTCACCTCAAATGTATC
1 ATCCACCTTAAATGTATC
9110889 AT
1 AT
9110891 TTACTACAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 18 0.53
20 1 0.03
21 15 0.44
ACGTcount: A:0.32, C:0.31, G:0.05, T:0.32
Consensus pattern (18 bp):
ATCCACCTTAAATGTATC
Found at i:9110877 original size:21 final size:20
Alignment explanation
Indices: 9110841--9110908 Score: 72
Period size: 18 Copynumber: 3.5 Consensus size: 20
9110831 TATCCACCTT
* *
9110841 AAATGTATCCTCCACCTACTC
1 AAATGTATCATTCA-CTACTC
9110862 AAATGTATCATTCAC--CTC
1 AAATGTATCATTCACTACTC
*
9110880 AAATGTATCATTTACTA--C
1 AAATGTATCATTCACTACTC
9110898 AAATGTATCAT
1 AAATGTATCAT
9110909 CTTCAAATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
18 29 0.69
20 1 0.02
21 12 0.29
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.34
Consensus pattern (20 bp):
AAATGTATCATTCACTACTC
Found at i:9110891 original size:18 final size:18
Alignment explanation
Indices: 9110859--9110938 Score: 87
Period size: 18 Copynumber: 4.6 Consensus size: 18
9110849 CCTCCACCTA
*
9110859 CTCAAATGTATCATTCAC
1 CTCAAATGTATCATTTAC
9110877 CTCAAATGTATCATTTA-
1 CTCAAATGTATCATTTAC
9110894 CTACAAATGTATCA--T-C
1 CT-CAAATGTATCATTTAC
* * *
9110910 TTCAAATATATCTTTTAC
1 CTCAAATGTATCATTTAC
9110928 CTCAAATGTAT
1 CTCAAATGTAT
9110939 TAAGAACAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
15 9 0.18
16 2 0.04
17 3 0.06
18 37 0.73
ACGTcount: A:0.35, C:0.21, G:0.05, T:0.39
Consensus pattern (18 bp):
CTCAAATGTATCATTTAC
Found at i:9114021 original size:101 final size:102
Alignment explanation
Indices: 9113820--9114021 Score: 248
Period size: 101 Copynumber: 2.0 Consensus size: 102
9113810 TAATTACATG
9113820 AACTATCATTATAGTATATTACAATGAGATCACATTTATGAAATATGAAAACTATTACATATTCT
1 AACTATCATTATAGTATATTACAATGAGATCACATTTATGAAATATGAAAACTATTACATATTCT
* *
9113885 ACATTATGATTTTGATTGTGTATTGTGATTATTGATT
66 ACATTATGATTCTGATTGTATATTGTGATTATTGATT
* * * * * ***
9113922 AACTATCTTTTTAGTATATTATAATGAGATCACA-TTAT-AAA-ATGTATAAATTGTTGTGTATT
1 AACTATCATTATAGTATATTACAATGAGATCACATTTATGAAATATG-A-AAACTATTACATATT
* * *
9113984 TTGCATTATGATTCTGATTGTATATTGTGATTGTTGAT
64 CTACATTATGATTCTGATTGTATATTGTGATTATTGAT
9114022 AAAATAAATA
Statistics
Matches: 85, Mismatches: 13, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
99 3 0.04
100 4 0.05
101 47 0.55
102 31 0.36
ACGTcount: A:0.34, C:0.07, G:0.13, T:0.46
Consensus pattern (102 bp):
AACTATCATTATAGTATATTACAATGAGATCACATTTATGAAATATGAAAACTATTACATATTCT
ACATTATGATTCTGATTGTATATTGTGATTATTGATT
Found at i:9124324 original size:3 final size:3
Alignment explanation
Indices: 9124305--9124439 Score: 68
Period size: 3 Copynumber: 44.7 Consensus size: 3
9124295 AATGGGTTTT
* * * *
9124305 TTA TTT TTA TT- TTA TTA TTA TTA TTA TTA TTA TTT TTC GT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
9124351 TTTA TTT TTA TGA TTCA CTA TTA TTTA TTA GTTA -TA TTA TTA TT- TATA
1 -TTA TTA TTA TTA TT-A TTA TTA -TTA TTA -TTA TTA TTA TTA TTA T-TA
**
9124399 TTA CAA TTA TT- TTAA TTA TT- TTA TTA TT- TATA TTA TGTA TT
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA T-TA TTA T-TA TT
9124440 TTACATTATG
Statistics
Matches: 101, Mismatches: 16, Indels: 30
0.69 0.11 0.20
Matches are distributed among these distances:
2 11 0.11
3 72 0.71
4 18 0.18
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:9124332 original size:23 final size:23
Alignment explanation
Indices: 9124304--9124379 Score: 66
Period size: 23 Copynumber: 3.3 Consensus size: 23
9124294 AAATGGGTTT
9124304 TTTATTTTTATTTTAT-TATTATTA
1 TTTATTTTTATTTT-TCT-TTATTA
*
9124328 -TTATTATTATTTTTCGTTTATTA
1 TTTATTTTTATTTTTC-TTTATTA
** **
9124351 TTTATTTTTATGATTCACTATTA
1 TTTATTTTTATTTTTCTTTATTA
9124374 TTTATT
1 TTTATT
9124380 AGTTATATTA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
22 1 0.02
23 29 0.67
24 13 0.30
ACGTcount: A:0.24, C:0.04, G:0.03, T:0.70
Consensus pattern (23 bp):
TTTATTTTTATTTTTCTTTATTA
Found at i:9124424 original size:35 final size:35
Alignment explanation
Indices: 9124348--9124427 Score: 87
Period size: 35 Copynumber: 2.3 Consensus size: 35
9124338 TTTTCGTTTA
*
9124348 TTAT-TTATTTTTATGATTCACTATTATTTATTAG
1 TTATATTATTTTTATGATTCACAATTATTTATTAG
9124382 TTATATTATTATTTAT-ATT-ACAATTATTTTAATTA-
1 TTATATTATT-TTTATGATTCACAATTA-TTT-ATTAG
*
9124417 TTTTATTATTT
1 TTATATTATTT
9124428 ATATTATGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
34 11 0.28
35 20 0.50
36 9 0.22
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.64
Consensus pattern (35 bp):
TTATATTATTTTTATGATTCACAATTATTTATTAG
Found at i:9126426 original size:22 final size:23
Alignment explanation
Indices: 9126401--9126456 Score: 55
Period size: 22 Copynumber: 2.5 Consensus size: 23
9126391 ACAAAGCAAA
**
9126401 AGAAAGAGAGAGGGGCAAG-GAG
1 AGAAAGAGAGAGGGAAAAGAGAG
*
9126423 AGAATA-TGAGA-GGAAAAGAGAG
1 AGAA-AGAGAGAGGGAAAAGAGAG
9126445 AGAAAGAGAGAG
1 AGAAAGAGAGAG
9126457 AAAAAATATG
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
21 6 0.23
22 19 0.73
23 1 0.04
ACGTcount: A:0.52, C:0.02, G:0.43, T:0.04
Consensus pattern (23 bp):
AGAAAGAGAGAGGGAAAAGAGAG
Found at i:9126454 original size:12 final size:11
Alignment explanation
Indices: 9126420--9126460 Score: 50
Period size: 10 Copynumber: 3.8 Consensus size: 11
9126410 GAGGGGCAAG
*
9126420 GAGAGAATATGA
1 GAGAGAA-AAGA
9126432 GAG-GAAAAGA
1 GAGAGAAAAGA
9126442 GAGAG-AAAGA
1 GAGAGAAAAGA
9126452 GAGAGAAAA
1 GAGAGAAAA
9126461 AATATGAGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
10 16 0.62
11 7 0.27
12 3 0.12
ACGTcount: A:0.59, C:0.00, G:0.37, T:0.05
Consensus pattern (11 bp):
GAGAGAAAAGA
Found at i:9129000 original size:2 final size:2
Alignment explanation
Indices: 9128988--9129017 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
9128978 CTCAAACATA
*
9128988 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9129018 TCTTTTCATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:9129682 original size:28 final size:27
Alignment explanation
Indices: 9129643--9129725 Score: 71
Period size: 28 Copynumber: 3.0 Consensus size: 27
9129633 TCTTTTACTT
*
9129643 TAAATATTTTACATAATTTATATTATA
1 TAAATAATTTACATAATTTATATTATA
* * **
9129670 TAAATTAGTTTACTTAATAAATACTTATA
1 TAAA-TAATTTACATAATTTATA-TTATA
*
9129699 GTTAATAATTTA-ATAATTTA-ATTATA
1 -TAAATAATTTACATAATTTATATTATA
9129725 T
1 T
9129726 TTATTATAAG
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
25 1 0.02
26 5 0.11
27 5 0.11
28 19 0.43
29 11 0.25
30 3 0.07
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (27 bp):
TAAATAATTTACATAATTTATATTATA
Found at i:9131829 original size:12 final size:12
Alignment explanation
Indices: 9131812--9131871 Score: 50
Period size: 12 Copynumber: 4.9 Consensus size: 12
9131802 GTTCAGAAAC
9131812 ATCATTCAGCAA
1 ATCATTCAGCAA
*
9131824 ATCATTCA-AAA
1 ATCATTCAGCAA
*
9131835 ATACCATTCAACAA
1 AT--CATTCAGCAA
* *
9131849 ACCAATCAGCAA
1 ATCATTCAGCAA
*
9131861 ACCATTCAGCA
1 ATCATTCAGCA
9131872 TACGATTCAG
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
11 4 0.10
12 26 0.67
13 6 0.15
14 3 0.08
ACGTcount: A:0.47, C:0.28, G:0.05, T:0.20
Consensus pattern (12 bp):
ATCATTCAGCAA
Found at i:9131831 original size:25 final size:24
Alignment explanation
Indices: 9131803--9131881 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 24
9131793 CAGCAATATG
*
9131803 TTCAGAAACATCATTCAGCAAATCA
1 TTCAGAAACA-CATTCAGCAAACCA
* * *
9131828 TTCAAAAATACCATTCAACAAACCA
1 TTCAGAAACA-CATTCAGCAAACCA
* * *
9131853 ATCAGCAAAC-CATTCAGCATACGA
1 TTCAG-AAACACATTCAGCAAACCA
9131877 TTCAG
1 TTCAG
9131882 CATACCAATA
Statistics
Matches: 41, Mismatches: 12, Indels: 3
0.73 0.21 0.05
Matches are distributed among these distances:
24 15 0.37
25 23 0.56
26 3 0.07
ACGTcount: A:0.44, C:0.27, G:0.08, T:0.22
Consensus pattern (24 bp):
TTCAGAAACACATTCAGCAAACCA
Found at i:9131879 original size:12 final size:12
Alignment explanation
Indices: 9131835--9131888 Score: 63
Period size: 12 Copynumber: 4.5 Consensus size: 12
9131825 TCATTCAAAA
*
9131835 ATACCATTCAAC
1 ATACCATTCAGC
* *
9131847 AAACCAATCAGC
1 ATACCATTCAGC
*
9131859 AAACCATTCAGC
1 ATACCATTCAGC
*
9131871 ATACGATTCAGC
1 ATACCATTCAGC
9131883 ATACCA
1 ATACCA
9131889 ATATCATACA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.43, C:0.31, G:0.07, T:0.19
Consensus pattern (12 bp):
ATACCATTCAGC
Found at i:9133167 original size:175 final size:175
Alignment explanation
Indices: 9132847--9133170 Score: 406
Period size: 175 Copynumber: 1.9 Consensus size: 175
9132837 AATTGGAGTG
* * * ** *
9132847 AATTATTGAAGTCGTATTATGCAAAAAATGCTTTCAATAAATTCCTTCAAAATATTATAACAAAT
1 AATTATTGAAGGCATATAATGCAAAAAAACCTTTCAATAAATTCCTTCAAAATATTAGAACAAAT
** * * *
9132912 TAGTGAAAGAGGTTTTCTGGAATAAACACCTTTAATAACCAACTTAAAAATTTAGTAGTATAATA
66 TAGTGAAAGAGACTTTCTGAAATAAACACCTTTAATAACCAACTTAAAAATTTAGTAATAGAATA
*
9132977 TTGAAGGCATTTTCTACTAAGAGACACATTTAAAAAAGTTCACAA
131 TTAAAGGCATTTTCTACTAAGAGACACATTTAAAAAAGTTCACAA
*
9133022 AATTATTGAAGGCATATAATGCAAAAAACACCTTT-AATAAATTCCTTCAAAA-ATTAGAACGAA
1 AATTATTGAAGGCATATAATGCAAAAAA-ACCTTTCAATAAATTCCTTCAAAATATTAGAACAAA
* * * *
9133085 TTAGT-AAAG-GCACTTTCTTGAAATAAACGCCTTTAATAACC-CCTTTTAAAATTATTGTAATA
65 TTAGTGAAAGAG-ACTTTC-TGAAATAAACACCTTTAATAACCAAC-TTAAAAATT-TAGTAATA
*
9133147 GAATATTAAAGGCGTTTTCTACTA
126 GAATATTAAAGGCATTTTCTACTA
9133171 GAATATGCCT
Statistics
Matches: 126, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
172 1 0.01
173 9 0.07
174 43 0.34
175 69 0.55
176 4 0.03
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.33
Consensus pattern (175 bp):
AATTATTGAAGGCATATAATGCAAAAAAACCTTTCAATAAATTCCTTCAAAATATTAGAACAAAT
TAGTGAAAGAGACTTTCTGAAATAAACACCTTTAATAACCAACTTAAAAATTTAGTAATAGAATA
TTAAAGGCATTTTCTACTAAGAGACACATTTAAAAAAGTTCACAA
Found at i:9133469 original size:239 final size:237
Alignment explanation
Indices: 9133020--9133751 Score: 885
Period size: 239 Copynumber: 3.1 Consensus size: 237
9133010 AAAAGTTCAC
* *
9133020 AAAATTATTGAAGGCATATAATGCAAAAAACACCTTTAATAAATTCCTTCAAAAATTAGAACGAA
1 AAAATTATTGAAGGCGTATAATG-TAAAAACACCTTTAATAAATTCCTTCAAAAATTAGAACGAA
* * *
9133085 TTAGTAAAGGCA-CTTTCTTGAAATAAACGCCTTTAATAACCCCTT-TTAAAATTATT-GTAATA
65 TTAGTAAAGGCATTTTTC-TGAAATAAATGCCTTTAATAA--CCTTCTTAAAATT-TTAGTAGTA
* * * *
9133147 GAATATTAAAGGCGTTTTCTACTAGAATATGC-CTTTAATAATCTCAAACAATTTATAAAA-GAA
126 GAATATTAAA-GCATTTTCTACTAG-A-ATGCGCTTTAATAATCCCAAAAAATTTTTAAAATG-A
* *
9133210 AATTATTGAAT-GTA-TTTTTCTTAAAAAACGCCTTCAATAATTCTGTACA
187 AATTATTGAATGGTATTTTTTCTCAAAAAACGCCTTCAATAATTCTCTACA
* * * * *
9133259 AAAATTATTGAAGGCGTATAATGTAAAAACTGCCTTCAAGAAATTCCTTCAAGAATTAGAACAAA
1 AAAATTATTGAAGGCGTATAATGTAAAAAC-ACCTTTAATAAATTCCTTCAAAAATTAGAACGAA
* * * * *
9133324 TCAATAAAGGCATTTTTCTAAAATAAATGCCTTCAATAA-CTGTCTAAAAATTTTAGTAGTAGAA
65 TTAGTAAAGGCATTTTTCTGAAATAAATGCCTTTAATAACCT-TCTTAAAATTTTAGTAGTAGAA
*
9133388 TATTGAAAGCATTTTCTACTAGAATGCGCATTTAATAATCCCAAATAATTTTTAAAATGAAATTA
129 TATT-AAAGCATTTTCTACTAGAATGCGC-TTTAATAATCCCAAAAAATTTTTAAAATGAAATTA
* *
9133453 TT-AATGGCATTTTTTCTCAAAAAACGCTTTCAATAATTCTCTACA
192 TTGAATGGTATTTTTTCTCAAAAAACGCCTTCAATAATTCTCTACA
*
9133498 AAAATTATTAAAGGCGTATAATGTAGAAAACACCTTTAATAAATTCCTTCAAAAATTAGAACGAA
1 AAAATTATTGAAGGCGTATAATGTA-AAAACACCTTTAATAAATTCCTTCAAAAATTAGAACGAA
** * * * *
9133563 TTAGTAAAGGTGTTTCTCTGGAATAAATGCCTTTAATAATCTCCTTAAAATTTTAGTAGT-GAAG
65 TTAGTAAAGGCATTTTTCTGAAATAAATGCCTTTAATAACCTTCTTAAAATTTTAGTAGTAGAA-
* *
9133627 TATTCAAAGCATTTTTTACTAGAAGATGC-CTTTAATAATCCCAAAAAATTTTTAAAATAAAATT
129 TATT-AAAGCATTTTCTACTAG-A-ATGCGCTTTAATAATCCCAAAAAATTTTTAAAATGAAATT
* * **
9133691 ATTGAA-GGTATTTTTTATCAAGAAATACCTTCAATAATTCTCTACA
191 ATTGAATGGTATTTTTTCTCAAAAAACGCCTTCAATAATTCTCTACA
9133737 AAAATTATTGAAGGC
1 AAAATTATTGAAGGC
9133752 ATTATTGAAT
Statistics
Matches: 426, Mismatches: 50, Indels: 34
0.84 0.10 0.07
Matches are distributed among these distances:
236 6 0.01
237 8 0.02
238 75 0.18
239 318 0.75
240 15 0.04
241 4 0.01
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.34
Consensus pattern (237 bp):
AAAATTATTGAAGGCGTATAATGTAAAAACACCTTTAATAAATTCCTTCAAAAATTAGAACGAAT
TAGTAAAGGCATTTTTCTGAAATAAATGCCTTTAATAACCTTCTTAAAATTTTAGTAGTAGAATA
TTAAAGCATTTTCTACTAGAATGCGCTTTAATAATCCCAAAAAATTTTTAAAATGAAATTATTGA
ATGGTATTTTTTCTCAAAAAACGCCTTCAATAATTCTCTACA
Found at i:9140031 original size:140 final size:140
Alignment explanation
Indices: 9139795--9140057 Score: 345
Period size: 140 Copynumber: 1.9 Consensus size: 140
9139785 CAAATTAATA
* *
9139795 GTTATTGTTCTATTTTAATAGTTTTGATAGATTCAATACATCATATTAAACTTATCAAAAGTATT
1 GTTATTGTTCTATTTTAACAGTTTGGATAGATTCAATACATCATATTAAACTTATCAAAAGTATT
*
9139860 GAACTTAGTTGACATGGTTGATATGTATGAAATAA-TTATTG-TTTATGTCTATTTAGGTAAAAA
66 GAACTTAGTTGACA-GGTTGATATGTATGAAA-AAGTTATCGTTTTATGTCTATTTAGGTAAAAA
9139923 TACAAATTTGTT
129 TACAAATTTGTT
* * * * * *
9139935 GTTATTGTTCTATTTTAACAGTTTGGATAGCTTCAATACTTGATATTAAACTTGTTCGATAG-AT
1 GTTATTGTTCTATTTTAACAGTTTGGATAGATTCAATACATCATATTAAACTT-ATCAAAAGTAT
* * *
9139999 TGAACTTGGTTTCTACA-GTTGATATGTGTGAAAAAGTTATCGTTTTATGTCTATTTAGG
65 TGAACTTAG-TT-GACAGGTTGATATGTATGAAAAAGTTATCGTTTTATGTCTATTTAGG
9140058 ACTATTTTTG
Statistics
Matches: 106, Mismatches: 12, Indels: 9
0.83 0.09 0.07
Matches are distributed among these distances:
139 2 0.02
140 78 0.74
141 23 0.22
142 3 0.03
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.44
Consensus pattern (140 bp):
GTTATTGTTCTATTTTAACAGTTTGGATAGATTCAATACATCATATTAAACTTATCAAAAGTATT
GAACTTAGTTGACAGGTTGATATGTATGAAAAAGTTATCGTTTTATGTCTATTTAGGTAAAAATA
CAAATTTGTT
Found at i:9146236 original size:4 final size:4
Alignment explanation
Indices: 9146229--9146255 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
9146219 ATATTATATA
9146229 TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TAT
9146256 AACTTGCATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:9146435 original size:20 final size:19
Alignment explanation
Indices: 9146410--9146448 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
9146400 ATTAATATAA
* *
9146410 TAAATATATACATATAAAAT
1 TAAATAAATA-ATAAAAAAT
9146430 TAAATAAATAATAAAAAAT
1 TAAATAAATAATAAAAAAT
9146449 ATATTCTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAATAAATAATAAAAAAT
Found at i:9146697 original size:17 final size:16
Alignment explanation
Indices: 9146672--9146714 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
9146662 AAACTTATTT
*
9146672 AATATAAAATAATAAAA
1 AATAAAAAATAA-AAAA
*
9146689 AATAAAAAATAAAAGA
1 AATAAAAAATAAAAAA
9146705 AATGAAAAAA
1 AAT-AAAAAA
9146715 AGCCAAATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 6 0.26
17 17 0.74
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (16 bp):
AATAAAAAATAAAAAA
Found at i:9146809 original size:17 final size:17
Alignment explanation
Indices: 9146759--9146812 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
9146749 AAGATATTAA
* * *
9146759 ATAATAATTTTATTAAT
1 ATAATAAATATATAAAT
*
9146776 AAAATAAATATATAAAT
1 ATAATAAATATATAAAT
9146793 ATAATAAATAGTA-AAAT
1 ATAATAAATA-TATAAAT
9146810 ATA
1 ATA
9146813 TTTTTATATA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
17 29 0.94
18 2 0.06
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (17 bp):
ATAATAAATATATAAAT
Found at i:9147057 original size:8 final size:8
Alignment explanation
Indices: 9147007--9147062 Score: 53
Period size: 8 Copynumber: 7.1 Consensus size: 8
9146997 AAAATTTATC
9147007 AAATAAAA
1 AAATAAAA
*
9147015 AAATTAAA
1 AAATAAAA
*
9147023 ATATAAAA
1 AAATAAAA
9147031 AAA-AAGAA
1 AAATAA-AA
**
9147039 AAA-AATT
1 AAATAAAA
9147046 AAATAAAA
1 AAATAAAA
9147054 AAATAAAA
1 AAATAAAA
9147062 A
1 A
9147063 CTTAAATTTC
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
7 5 0.13
8 33 0.87
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (8 bp):
AAATAAAA
Found at i:9147061 original size:20 final size:20
Alignment explanation
Indices: 9147007--9147069 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
9146997 AAAATTTATC
*
9147007 AAATAAAAAAAT-TAAAATAT
1 AAATAAAAAAATAAAAAAT-T
9147027 AAA-AAAAAAGA-AAAAAATT
1 AAATAAAAAA-ATAAAAAATT
*
9147046 AAATAAAAAAATAAAAACTT
1 AAATAAAAAAATAAAAAATT
9147066 AAAT
1 AAAT
9147070 TTCTCTAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
19 11 0.30
20 26 0.70
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.19
Consensus pattern (20 bp):
AAATAAAAAAATAAAAAATT
Found at i:9147061 original size:26 final size:26
Alignment explanation
Indices: 9147011--9147061 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
9147001 TTTATCAAAT
*
9147011 AAAAAAATTAAAATATAAAAAAAAAG
1 AAAAAAATTAAAATAAAAAAAAAAAG
9147037 AAAAAAATT-AAATAAAAAAATAAAA
1 AAAAAAATTAAAATAAAAAAA-AAAA
9147062 ACTTAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (26 bp):
AAAAAAATTAAAATAAAAAAAAAAAG
Found at i:9153441 original size:63 final size:63
Alignment explanation
Indices: 9153374--9153704 Score: 414
Period size: 63 Copynumber: 5.2 Consensus size: 63
9153364 GGAGCCAGAA
* * * *
9153374 CTGGCACTGGAGATGATGCTTTGGGAGGATTTACAACAGGGCCATGATGCCTGGGAGAGTTTG
1 CTGGCCCTGGAGATGATGCTTTGGGAGGATTTGCAACAGGGCCATGATGCTTGGGAGAGTGTG
* * *
9153437 CTGGCCCTGGAGATGAGGCTTTGGGAGGATTTGCAACAGGACCATGATGCTTGGGAGACTGTG
1 CTGGCCCTGGAGATGATGCTTTGGGAGGATTTGCAACAGGGCCATGATGCTTGGGAGAGTGTG
* * *
9153500 CTGGCCCTGGAGATGACGCTTTGGGAGGATTTGCAACAGGGCCGTGATGCTTGGGAGAGTGAG
1 CTGGCCCTGGAGATGATGCTTTGGGAGGATTTGCAACAGGGCCATGATGCTTGGGAGAGTGTG
* * * * *
9153563 CTGGCCCTGGAGAAGATGCCTTGGGCGG-TTCTGCAACGGGGCCGTGATGCTTGGGAGAGTATGC
1 CTGGCCCTGGAGATGATGCTTTGGGAGGATT-TGCAACAGGGCCATGATGCTTGGGAGAG--TG-
9153627 TGG
62 T-G
* * *
9153630 CCCTGGCCCTGGAGACGATGCTTTGGGTGG-TTCTGCAACGGGGCCATGATGCTTGGGAGAGTGT
1 --CTGGCCCTGGAGATGATGCTTTGGGAGGATT-TGCAACAGGGCCATGATGCTTGGGAGAGTGT
9153694 G
63 G
9153695 CTGGCCCTGG
1 CTGGCCCTGG
9153705 CCCTGGAGAC
Statistics
Matches: 239, Mismatches: 22, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
62 2 0.01
63 175 0.73
65 3 0.01
66 1 0.00
67 3 0.01
69 55 0.23
ACGTcount: A:0.18, C:0.19, G:0.40, T:0.24
Consensus pattern (63 bp):
CTGGCCCTGGAGATGATGCTTTGGGAGGATTTGCAACAGGGCCATGATGCTTGGGAGAGTGTG
Found at i:9153462 original size:33 final size:33
Alignment explanation
Indices: 9153425--9153526 Score: 79
Period size: 33 Copynumber: 3.2 Consensus size: 33
9153415 CCATGATGCC
*
9153425 TGGGAGAGTTTGCTGGCCCTGGAGATGAGGCTT
1 TGGGAGAGTTTGCTGGCCCTGGAGATGACGCTT
** * * *
9153458 TGGGAG-GATTTGC---AACAGGACCATGATGC-T
1 TGGGAGAG-TTTGCTGGCCCTGGA-GATGACGCTT
* *
9153488 TGGGAGACTGTGCTGGCCCTGGAGATGACGCTT
1 TGGGAGAGTTTGCTGGCCCTGGAGATGACGCTT
9153521 TGGGAG
1 TGGGAG
9153527 GATTTGCAAC
Statistics
Matches: 50, Mismatches: 12, Indels: 14
0.66 0.16 0.18
Matches are distributed among these distances:
30 15 0.30
31 6 0.12
32 7 0.14
33 22 0.44
ACGTcount: A:0.19, C:0.17, G:0.40, T:0.25
Consensus pattern (33 bp):
TGGGAGAGTTTGCTGGCCCTGGAGATGACGCTT
Found at i:9153537 original size:126 final size:130
Alignment explanation
Indices: 9153374--9153848 Score: 423
Period size: 126 Copynumber: 3.6 Consensus size: 130
9153364 GGAGCCAGAA
* * * *
9153374 CTGGCACTGGAGATGATGCTTTGGGAGGATTTACAACAGGGCCATGATGCCTGGGAGAGTTTGCT
1 CTGGCCCTGGAGATGATGCTTTGGGAGGATTTGCAACAGGGCCATGATGCTTGGGAGAGTGTGCT
* * *
9153439 GGCCCTGGAGATGAGGCTTTGGGAGGATT-TGCAACAGGACCATGATGCTTGGGAGA-CTG-T-G
66 GGCCCTGGAGAAGAGGCCTTGGGAGG-TTCTGCAACAGGACCATGATGCTTGGGAGAGATGCTGG
9153500 -
130 C
* * *
9153500 CTGGCCCTGGAGATGACGCTTTGGGAGGATTTGCAACAGGGCCGTGATGCTTGGGAGAGTGAGCT
1 CTGGCCCTGGAGATGATGCTTTGGGAGGATTTGCAACAGGGCCATGATGCTTGGGAGAGTGTGCT
* * * * *
9153565 GGCCCTGGAGAAGATGCCTTGGGCGGTTCTGCAACGGGGCCGTGATGCTTGGGAGAGTATGCTGG
66 GGCCCTGGAGAAGAGGCCTTGGGAGGTTCTGCAACAGGACCATGATGCTTGGGAGAG-ATGCTGG
9153630 CC
130 -C
* * *
9153632 CTGGCCCTGGAGACGATGCTTTGGGTGG-TTCTGCAACGGGGCCATGATGCTTGGGAGAGTGTGC
1 CTGGCCCTGGAGATGATGCTTTGGGAGGATT-TGCAACAGGGCCATGATGCTTGGGAGA--GTG-
* * *
9153696 TGGCCCTGGCCCTGGAGACGATGGAGACGATACTTTGGGTGGTTCTGCAACAGGGCCATGATGCT
62 T-G--CTGGCCCTGGAGA--A--GAG--G---CCTTGGGAGGTTCTGCAACAGGACCATGATGCT
* *
9153761 TGTGTGAG-TG-T-G-
115 TGGGAGAGATGCTGGC
* * * * **
9153773 CTGGCCCTGGAGACGATACTTTGGGTGG-TTCAGCAACAGGGCCATGATATTTGGGAGAGTGTGC
1 CTGGCCCTGGAGATGATGCTTTGGGAGGATT-TGCAACAGGGCCATGATGCTTGGGAGAGTGTGC
*
9153837 TGGCCTTGGAGA
65 TGGCCCTGGAGA
9153849 TGGAAATGGT
Statistics
Matches: 292, Mismatches: 34, Indels: 37
0.80 0.09 0.10
Matches are distributed among these distances:
125 2 0.01
126 104 0.36
128 2 0.01
129 1 0.00
130 1 0.00
131 2 0.01
132 50 0.17
134 3 0.01
135 12 0.04
136 1 0.00
137 1 0.00
138 14 0.05
139 3 0.01
140 1 0.00
141 53 0.18
142 2 0.01
143 1 0.00
144 2 0.01
145 2 0.01
147 35 0.12
ACGTcount: A:0.18, C:0.19, G:0.39, T:0.24
Consensus pattern (130 bp):
CTGGCCCTGGAGATGATGCTTTGGGAGGATTTGCAACAGGGCCATGATGCTTGGGAGAGTGTGCT
GGCCCTGGAGAAGAGGCCTTGGGAGGTTCTGCAACAGGACCATGATGCTTGGGAGAGATGCTGGC
Found at i:9153752 original size:78 final size:78
Alignment explanation
Indices: 9153639--9153782 Score: 252
Period size: 78 Copynumber: 1.8 Consensus size: 78
9153629 GCCCTGGCCC
* *
9153639 TGGAGACGATGCTTTGGGTGGTTCTGCAACGGGGCCATGATGCTTGGGAGAGTGTGCTGGCCCTG
1 TGGAGACGATACTTTGGGTGGTTCTGCAACAGGGCCATGATGCTTGGGAGAGTGTGCTGGCCCTG
9153704 GCCCTGGAGACGA
66 GCCCTGGAGACGA
* *
9153717 TGGAGACGATACTTTGGGTGGTTCTGCAACAGGGCCATGATGCTTGTGTGAGTGTGCTGGCCCTG
1 TGGAGACGATACTTTGGGTGGTTCTGCAACAGGGCCATGATGCTTGGGAGAGTGTGCTGGCCCTG
9153782 G
66 G
9153783 AGACGATACT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
78 62 1.00
ACGTcount: A:0.15, C:0.19, G:0.40, T:0.26
Consensus pattern (78 bp):
TGGAGACGATACTTTGGGTGGTTCTGCAACAGGGCCATGATGCTTGGGAGAGTGTGCTGGCCCTG
GCCCTGGAGACGA
Found at i:9153816 original size:63 final size:63
Alignment explanation
Indices: 9153717--9153848 Score: 210
Period size: 63 Copynumber: 2.1 Consensus size: 63
9153707 CTGGAGACGA
* * * *
9153717 TGGAGACGATACTTTGGGTGGTTCTGCAACAGGGCCATGATGCTTGTGTGAGTGTGCTGGCCC
1 TGGAGACGATACTTTGGGTGGTTCAGCAACAGGGCCATGATACTTGGGAGAGTGTGCTGGCCC
* *
9153780 TGGAGACGATACTTTGGGTGGTTCAGCAACAGGGCCATGATATTTGGGAGAGTGTGCTGGCCT
1 TGGAGACGATACTTTGGGTGGTTCAGCAACAGGGCCATGATACTTGGGAGAGTGTGCTGGCCC
9153843 TGGAGA
1 TGGAGA
9153849 TGGAAATGGT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.19, C:0.17, G:0.37, T:0.27
Consensus pattern (63 bp):
TGGAGACGATACTTTGGGTGGTTCAGCAACAGGGCCATGATACTTGGGAGAGTGTGCTGGCCC
Found at i:9155302 original size:14 final size:13
Alignment explanation
Indices: 9155276--9155317 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
9155266 TAAATTAAAA
9155276 TTATTAATTTTAT
1 TTATTAATTTTAT
9155289 TTATTAATTTTTAT
1 TTATTAA-TTTTAT
*
9155303 TT-TATAATTTAAT
1 TTAT-TAATTTTAT
9155316 TT
1 TT
9155318 CATATAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTATTAATTTTAT
Found at i:9155988 original size:2 final size:2
Alignment explanation
Indices: 9155983--9156012 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
9155973 TCTCTCTCTC
9155983 TA TA TA TA TA TA TA TA TA TA TA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
9156013 GTCTTATGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9161655 original size:21 final size:21
Alignment explanation
Indices: 9161623--9161672 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
9161613 TTCTCTCTCT
* *
9161623 TTCTATAT-AAATATATATGG
1 TTCTATTTAAAATATATATGA
*
9161643 TTTTATTTAAAATATATATGA
1 TTCTATTTAAAATATATATGA
9161664 TTCTATTTA
1 TTCTATTTA
9161673 TTTTAAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.52
Consensus pattern (21 bp):
TTCTATTTAAAATATATATGA
Found at i:9171999 original size:2 final size:2
Alignment explanation
Indices: 9171994--9172031 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
9171984 ACACACACTC
9171994 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9172032 CCAATTATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9180669 original size:17 final size:19
Alignment explanation
Indices: 9180647--9180689 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
9180637 TTTTTTTTTT
9180647 TATA-ATTATA-TATAATG
1 TATATATTATATTATAATG
9180664 TATAATATTATATTATAATG
1 TAT-ATATTATATTATAATG
9180684 TATATA
1 TATATA
9180690 AACACTTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.13
18 1 0.04
19 9 0.39
20 10 0.43
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (19 bp):
TATATATTATATTATAATG
Found at i:9181330 original size:20 final size:19
Alignment explanation
Indices: 9181285--9181343 Score: 50
Period size: 20 Copynumber: 3.0 Consensus size: 19
9181275 CCAATAAATG
9181285 CATTTTATTTATTTAAAAA
1 CATTTTATTTATTTAAAAA
*
9181304 TATTTTTATTT-TTTATAAGAA
1 CA-TTTTATTTATTTA-AA-AA
*
9181325 CATTTT-TGTTACTTAAAAA
1 CATTTTAT-TTATTTAAAAA
9181344 ATAATTAGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
19 8 0.25
20 18 0.56
21 6 0.19
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.54
Consensus pattern (19 bp):
CATTTTATTTATTTAAAAA
Found at i:9181331 original size:21 final size:20
Alignment explanation
Indices: 9181287--9181331 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
9181277 AATAAATGCA
*
9181287 TTTTATTTATTTAAAAATAT
1 TTTTATTTATTTAAAAACAT
9181307 TTTTATTT-TTTATAAGAACAT
1 TTTTATTTATTTA-AA-AACAT
9181328 TTTT
1 TTTT
9181332 GTTACTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 4 0.18
20 10 0.45
21 8 0.36
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTTATTTATTTAAAAACAT
Found at i:9181815 original size:16 final size:17
Alignment explanation
Indices: 9181796--9181827 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
9181786 GACTTTTCTT
9181796 TAATTTTGT-TTTATTG
1 TAATTTTGTCTTTATTG
9181812 TAATTTTGTCTTTATT
1 TAATTTTGTCTTTATT
9181828 ATCTTATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.19, C:0.03, G:0.09, T:0.69
Consensus pattern (17 bp):
TAATTTTGTCTTTATTG
Found at i:9183380 original size:20 final size:19
Alignment explanation
Indices: 9183335--9183393 Score: 50
Period size: 20 Copynumber: 3.0 Consensus size: 19
9183325 CCAATAAATG
9183335 CATTTTATTTATTTAAAAA
1 CATTTTATTTATTTAAAAA
*
9183354 TATTTTTATTT-TTTATAAGAA
1 CA-TTTTATTTATTTA-AA-AA
*
9183375 CATTTT-TGTTACTTAAAAA
1 CATTTTAT-TTATTTAAAAA
9183394 ATAATTAGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
19 8 0.25
20 18 0.56
21 6 0.19
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.54
Consensus pattern (19 bp):
CATTTTATTTATTTAAAAA
Found at i:9183381 original size:21 final size:20
Alignment explanation
Indices: 9183337--9183381 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
9183327 AATAAATGCA
*
9183337 TTTTATTTATTTAAAAATAT
1 TTTTATTTATTTAAAAACAT
9183357 TTTTATTT-TTTATAAGAACAT
1 TTTTATTTATTTA-AA-AACAT
9183378 TTTT
1 TTTT
9183382 GTTACTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 4 0.18
20 10 0.45
21 8 0.36
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTTATTTATTTAAAAACAT
Found at i:9184748 original size:2 final size:2
Alignment explanation
Indices: 9184736--9184764 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
9184726 CTCCTTTAGA
9184736 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9184765 TAATACAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9185980 original size:21 final size:20
Alignment explanation
Indices: 9185956--9185998 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
9185946 AAAATATAAA
**
9185956 TTTTATCTAAATAATTTTATT
1 TTTTA-CTAAATAACCTTATT
*
9185977 TTTTACTAGATAACCTTATT
1 TTTTACTAAATAACCTTATT
9185997 TT
1 TT
9185999 GTAAATTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.58
Consensus pattern (20 bp):
TTTTACTAAATAACCTTATT
Found at i:9192526 original size:62 final size:60
Alignment explanation
Indices: 9192377--9192595 Score: 260
Period size: 62 Copynumber: 3.6 Consensus size: 60
9192367 TGCTTTTGTA
* * * *
9192377 CAAGAAAAATTAATACTTTCAACTTTTTCTTAAAATGTTTTTCTTG-ATAATTTTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAATGTTTTT-TTGTATAAATTTTAATTT
* * * *
9192437 TAAGAAAAATTGATACTTCCAACTTTTCCTCAAAATGTTTTTTTGTCTGAAATTTTAATTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAATGTTTTTTTGTAT-AAATTTTAATTT
* * * * * *
9192498 CAAGGAAAATTGATACTTTCAATTTTTTCTCAAAATGTGTTTTTTTTTTTAAGTTTCAATTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAA--TGTTTTTTTGTATAAATTTTAATTT
*
9192560 CAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAT
9192596 ACTTTTCTTG
Statistics
Matches: 137, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
59 3 0.02
60 39 0.28
61 40 0.29
62 44 0.32
63 11 0.08
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (60 bp):
CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAATGTTTTTTTGTATAAATTTTAATTT
Found at i:9192980 original size:3 final size:3
Alignment explanation
Indices: 9192963--9193011 Score: 71
Period size: 3 Copynumber: 16.3 Consensus size: 3
9192953 TAATTTAGAG
* * *
9192963 ATA ATA ACA ACA ATA ATA ATA ATA ATA GTA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9193011 A
1 A
9193012 ATAAATAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:9193801 original size:23 final size:24
Alignment explanation
Indices: 9193773--9193852 Score: 60
Period size: 23 Copynumber: 3.2 Consensus size: 24
9193763 ATAAAATCAA
9193773 AAATAA-AAA-AATAATAGTAATAT
1 AAATAATAAACAATAATA-TAATAT
*
9193796 AAATAATAATATAACTAATAAATAATAGT
1 AAATAATAA-ACAA-TAAT--ATAATA-T
*
9193825 AAATAATAAACAA-AA-ATAATAA
1 AAATAATAAACAATAATATAATAT
9193847 AAATAA
1 AAATAA
9193853 ACAAAATAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
22 6 0.12
23 12 0.25
24 2 0.04
25 1 0.02
26 4 0.08
27 4 0.08
28 8 0.17
29 11 0.23
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.25
Consensus pattern (24 bp):
AAATAATAAACAATAATATAATAT
Found at i:9193805 original size:12 final size:12
Alignment explanation
Indices: 9193785--9193852 Score: 50
Period size: 12 Copynumber: 5.4 Consensus size: 12
9193775 ATAAAAAAAT
*
9193785 AATAGTAATATA
1 AATAATAATATA
9193797 AATAATAATATAA
1 AATAATAATAT-A
9193810 CTAATAAATAATAGTA
1 --AAT-AATAATA-TA
*
9193826 AATAATAA-ACA
1 AATAATAATATA
*
9193837 AA-AATAATAAA
1 AATAATAATATA
9193848 AATAA
1 AATAA
9193853 ACAAAATAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
10 5 0.11
11 7 0.15
12 13 0.28
13 6 0.13
14 3 0.07
15 3 0.07
16 8 0.17
17 1 0.02
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (12 bp):
AATAATAATATA
Found at i:9193853 original size:19 final size:19
Alignment explanation
Indices: 9193819--9193869 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
9193809 ACTAATAAAT
*
9193819 AATAGTAAATAATAAACAAA
1 AATAATAAA-AATAAACAAA
9193839 AATAATAAAAATAAACAAA
1 AATAATAAAAATAAACAAA
*
9193858 ATAAAATAAAAA
1 A-ATAATAAAAA
9193870 AATGGGCCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 11 0.39
20 17 0.61
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (19 bp):
AATAATAAAAATAAACAAA
Found at i:9194097 original size:44 final size:44
Alignment explanation
Indices: 9194047--9194260 Score: 220
Period size: 44 Copynumber: 4.9 Consensus size: 44
9194037 AAATCTTGAT
* * * *
9194047 CAAAGCTCCTCTGATCAGAGGTTTAACAACTTTT-AGAAAGTAAA
1 CAAAGCTCCTCTAATCAGAGGCTCAACAACTTTTGA-AAAATAAA
*
9194091 CAAAGCTCCTCTAAAT-AGAGGCTCAATAACTTTTGAAAAATAAA
1 CAAAGCTCCTCT-AATCAGAGGCTCAACAACTTTTGAAAAATAAA
* * * * *
9194135 CAAAGCTCCTCTAAGCATAGGTTCATCGA-TTTTGGAAAAATAAA
1 CAAAGCTCCTCTAATCAGAGGCTCAACAACTTTT-GAAAAATAAA
* *
9194179 CAAAGCTCCTCTAATCAGAGGCTTAACGA-TTTTGGAAAAATAAA
1 CAAAGCTCCTCTAATCAGAGGCTCAACAACTTTT-GAAAAATAAA
* * * *
9194223 CAAAGCTCTTCTAAACAGAGGCACCACAACTTTTGAAA
1 CAAAGCTCCTCTAATCAGAGGCTCAACAACTTTTGAAA
9194261 GTAAATTGCT
Statistics
Matches: 143, Mismatches: 22, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
43 6 0.04
44 130 0.91
45 7 0.05
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.25
Consensus pattern (44 bp):
CAAAGCTCCTCTAATCAGAGGCTCAACAACTTTTGAAAAATAAA
Found at i:9194280 original size:41 final size:42
Alignment explanation
Indices: 9194227--9194488 Score: 242
Period size: 44 Copynumber: 6.1 Consensus size: 42
9194217 AATAAACAAA
* *
9194227 GCTCTTCTAAACAGAGGCACCACAACTTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACAACTTTTGAAAAATAAATT
* * * * *
9194268 GCTCCTCTAAACAAAAGCATCGCAAC-TTTGGAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACAACTTTTGAAAAATAAATT
* * ** *
9194309 GCTCCTCTAAACAAAGGTATTACCACTTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACAACTTTTGAAAAATAAATT
* * *
9194351 GCTTCTCTAAACAGAGGCACTACCACTTTTGAAAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACAACTTTTG--AAAAATAAATT
* * **
9194395 GCTCATCT-AACTAGAGGTAACCATGACTTTTGGAAAAATAAATT
1 GCTCCTCTAAAC-AGAGG-CACCACAACTTTT-GAAAAATAAATT
* *
9194439 GTTTCTCTAAACAGAGGCAACCACAACTTTTGAAAAAATAAATT
1 GCTCCTCTAAACAGAGGC-ACCACAACTTTTG-AAAAATAAATT
*
9194483 GTTCCT
1 GCTCCT
9194489 TGTCAATCAT
Statistics
Matches: 182, Mismatches: 29, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
40 4 0.02
41 51 0.28
42 41 0.23
43 4 0.02
44 69 0.38
45 12 0.07
46 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (42 bp):
GCTCCTCTAAACAGAGGCACCACAACTTTTGAAAAATAAATT
Found at i:9194940 original size:20 final size:20
Alignment explanation
Indices: 9194911--9194949 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9194901 CACATCCAAA
*
9194911 AGTTCAAAGATTCTCATTCT
1 AGTTCAAAGATTCACATTCT
*
9194931 AGTTCGAAGATTCACATTC
1 AGTTCAAAGATTCACATTC
9194950 AATGAACTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (20 bp):
AGTTCAAAGATTCACATTCT
Found at i:9196208 original size:9 final size:9
Alignment explanation
Indices: 9196188--9196287 Score: 123
Period size: 9 Copynumber: 10.9 Consensus size: 9
9196178 CATTTTTCTC
9196188 TTTTCATCTT
1 TTTTCAT-TT
9196198 TTTTCATTT
1 TTTTCATTT
9196207 TTTTCATTT
1 TTTTCATTT
9196216 TTTTCATTT
1 TTTTCATTT
* *
9196225 TTCTCTTTTT
1 TTTTC-ATTT
9196235 TCTTTCATTT
1 T-TTTCATTT
9196245 TTTTCATTT
1 TTTTCATTT
9196254 GTTTTC-TTT
1 -TTTTCATTT
9196263 TTTTCA-TT
1 TTTTCATTT
9196271 TTTTCATTT
1 TTTTCATTT
*
9196280 TCTTCATT
1 TTTTCATT
9196288 CGTTCACCTA
Statistics
Matches: 80, Mismatches: 5, Indels: 11
0.83 0.05 0.11
Matches are distributed among these distances:
8 13 0.16
9 44 0.55
10 20 0.25
11 3 0.04
ACGTcount: A:0.09, C:0.15, G:0.01, T:0.75
Consensus pattern (9 bp):
TTTTCATTT
Found at i:9200391 original size:60 final size:60
Alignment explanation
Indices: 9200326--9200561 Score: 278
Period size: 58 Copynumber: 3.9 Consensus size: 60
9200316 TGCTTTTGTA
* * *
9200326 CAAGGAAAATTGATACTTTCAACTTTTCCTTAAAATGTTTTTCTTGATAATTTTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTCTTGATAATTTTTAATTT
* * * * ** *
9200386 TAAGGAAAATTGGTACTTCCAACTTTTCCTCAAAATATTTTTTTTTTCTAAAATTTTAATTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAATA-TTTTTCTTGAT-AATTTTTAATTT
* * * *
9200448 CAAGAAAAATTGATACTTTTAACTTTTCCTCAAAATATTTTT-TT-TTAAGTTTTAATTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTCTTGATAATTTTTAATTT
* * * *
9200506 CAAGGAAAATTGATAATTTCAATTTTTTCTCAAAATACTTTTCTTGATAATTTTTA
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTCTTGATAATTTTTA
9200562 TTTTAAAAAT
Statistics
Matches: 147, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
58 47 0.32
59 3 0.02
60 42 0.29
61 13 0.09
62 42 0.29
ACGTcount: A:0.33, C:0.11, G:0.07, T:0.49
Consensus pattern (60 bp):
CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTCTTGATAATTTTTAATTT
Found at i:9200576 original size:14 final size:15
Alignment explanation
Indices: 9200557--9200585 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9200547 TCTTGATAAT
9200557 TTTTA-TTTTAAAAA
1 TTTTATTTTTAAAAA
9200571 TTTTATTTTTAAAAA
1 TTTTATTTTTAAAAA
9200586 AAATTGATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTTATTTTTAAAAA
Found at i:9207840 original size:25 final size:24
Alignment explanation
Indices: 9207798--9207845 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
9207788 AATTTAATTA
* *
9207798 TAAATATAATTTTCAAAAATTTATG
1 TAAAAATAATTATC-AAAATTTATG
*
9207823 TAAAAATAATTATGAAAATTTAT
1 TAAAAATAATTATCAAAATTTAT
9207846 CAATTATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (24 bp):
TAAAAATAATTATCAAAATTTATG
Found at i:9210270 original size:101 final size:102
Alignment explanation
Indices: 9210148--9210349 Score: 248
Period size: 101 Copynumber: 2.0 Consensus size: 102
9210138 TATTTATTTT
* *
9210148 ATCAACAATCACAATATACAATCAGAATCATAATGCAAAATACACAACAATTTATACAT-TTT-A
1 ATCAACAATCACAATACACAATCAAAATCATAATGCAAAATACACAACAATTT-T-CATATTTCA
9210211 T-AATGTGATCTCATTATAATATACTAAAAAGATAGTTA
64 TAAATGTGATCTCATTATAATATACTAAAAAGATAGTTA
* * * *** * *
9210249 ATCAATAATCACAATACACAATCAAAATCATAATGTAGAATATGTAATAGTTTTCATATTTCATA
1 ATCAACAATCACAATACACAATCAAAATCATAATGCAAAATACACAACAATTTTCATATTTCATA
* * *
9210314 AATGTGATCTCATTGTAATATACTATAATGATAGTT
66 AATGTGATCTCATTATAATATACTAAAAAGATAGTT
9210350 CATGTAATTA
Statistics
Matches: 85, Mismatches: 13, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
99 3 0.04
100 4 0.05
101 45 0.53
102 33 0.39
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.34
Consensus pattern (102 bp):
ATCAACAATCACAATACACAATCAAAATCATAATGCAAAATACACAACAATTTTCATATTTCATA
AATGTGATCTCATTATAATATACTAAAAAGATAGTTA
Found at i:9214285 original size:272 final size:272
Alignment explanation
Indices: 9213935--9214471 Score: 1011
Period size: 272 Copynumber: 2.0 Consensus size: 272
9213925 ATAGGATTAA
9213935 AACTATTATTTATCTCATCAATGCTCATTCTTTTCTGATGTCTCATCCTCAGTTTCATGTTGTAA
1 AACTATTATTTATCTCATCAATGCTCATTCTTTTCTGATGTCTCATCCTCAGTTTCATGTTGTAA
*
9214000 TAGGTATATACAAGTTTCTGAAGTCTTTCAAACTTCAATCTATTTCTTACTTTGGTGTGAATATA
66 TAGGAATATACAAGTTTCTGAAGTCTTTCAAACTTCAATCTATTTCTTACTTTGGTGTGAATATA
9214065 GCTAAATGTGCTCCAATTACATTCACAATTTGATGCAAATGTTATTTGACTAAGCACTTTGATTG
131 GCTAAATGTGCTCCAATTACATTCACAATTTGATGCAAATGTTATTTGACTAAGCACTTTGATTG
* * *
9214130 CTAATTTTTGTAATTCAGAAACATAAATGCCATATATCATCCACTACTCAGCTGTATAGAATTAT
196 CTAATTTTTGTAATTCAGAAACACAAATGCCATATATCATCCACCACTCAGCTGTATAAAATTAT
9214195 TAAATGCTCATC
261 TAAATGCTCATC
9214207 AACTATTATTTATCTCATCAATGCTCATTCTTTTCTGATGTCTCATCCTCAGTTTCATGTTGTAA
1 AACTATTATTTATCTCATCAATGCTCATTCTTTTCTGATGTCTCATCCTCAGTTTCATGTTGTAA
*
9214272 TAGGAATATACAAGTTTCTGAAGTCTTTCAAACTTCAATCTATTTCTTGCTTTGGTGTGAATATA
66 TAGGAATATACAAGTTTCTGAAGTCTTTCAAACTTCAATCTATTTCTTACTTTGGTGTGAATATA
9214337 GCTAAATGTGCTCCAATTACATTCACAATTTGATGCAAATGTTATTTGACTAAGCACTTTGATTG
131 GCTAAATGTGCTCCAATTACATTCACAATTTGATGCAAATGTTATTTGACTAAGCACTTTGATTG
**
9214402 CTAATTTTTGTAATTCAGAAACACATGTGCCATATATCATCCACCACTCAGCTGTATAAAATTAT
196 CTAATTTTTGTAATTCAGAAACACAAATGCCATATATCATCCACCACTCAGCTGTATAAAATTAT
9214467 TAAAT
261 TAAAT
9214472 TAAATTTGAA
Statistics
Matches: 258, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
272 258 1.00
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (272 bp):
AACTATTATTTATCTCATCAATGCTCATTCTTTTCTGATGTCTCATCCTCAGTTTCATGTTGTAA
TAGGAATATACAAGTTTCTGAAGTCTTTCAAACTTCAATCTATTTCTTACTTTGGTGTGAATATA
GCTAAATGTGCTCCAATTACATTCACAATTTGATGCAAATGTTATTTGACTAAGCACTTTGATTG
CTAATTTTTGTAATTCAGAAACACAAATGCCATATATCATCCACCACTCAGCTGTATAAAATTAT
TAAATGCTCATC
Found at i:9217464 original size:26 final size:23
Alignment explanation
Indices: 9217414--9217463 Score: 73
Period size: 25 Copynumber: 2.1 Consensus size: 23
9217404 ATTTTAAAAA
*
9217414 TTAAAAAATTTCAAACTTATATT
1 TTAAAAAATTTCAAACCTATATT
9217437 TTAATAAAATTTTCAAACCTATATT
1 TTAA-AAAA-TTTCAAACCTATATT
9217462 TT
1 TT
9217464 TTATTTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 4 0.17
24 4 0.17
25 16 0.67
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (23 bp):
TTAAAAAATTTCAAACCTATATT
Found at i:9219311 original size:25 final size:25
Alignment explanation
Indices: 9219278--9219325 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
9219268 CAGGTTTAAT
*
9219278 AAAAAGCTGGTACGCAGGTAAAAAC
1 AAAAAGCTGGTACGCAAGTAAAAAC
*
9219303 AAAAAGCTGGTATGCAAGTAAAA
1 AAAAAGCTGGTACGCAAGTAAAA
9219326 CTAATCACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.50, C:0.12, G:0.23, T:0.15
Consensus pattern (25 bp):
AAAAAGCTGGTACGCAAGTAAAAAC
Found at i:9221007 original size:3 final size:3
Alignment explanation
Indices: 9220999--9221036 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
9220989 CTAGAATTGT
9220999 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
9221037 TCGGGCCACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:9221585 original size:17 final size:16
Alignment explanation
Indices: 9221546--9221594 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 16
9221536 CTAAAAATTA
9221546 ATATAGTTAAATAATAT
1 ATATA-TTAAATAATAT
9221563 A-A-ATTAAATATATAT
1 ATATATTAAATA-ATAT
9221578 ATATATTAAATACATAT
1 ATATATTAAATA-ATAT
9221595 TAAATGAGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
14 7 0.25
15 6 0.21
16 2 0.07
17 13 0.46
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (16 bp):
ATATATTAAATAATAT
Found at i:9221924 original size:23 final size:23
Alignment explanation
Indices: 9221872--9221926 Score: 67
Period size: 26 Copynumber: 2.3 Consensus size: 23
9221862 ATAAAATTTA
*
9221872 ATTATATTTTATAATTTGTATCAT
1 ATTATATTTTATAATTCGTAT-AT
9221896 ATTTATATTTTAATAATTCGTAT-T
1 A-TTATATTTT-ATAATTCGTATAT
9221920 ATTATAT
1 ATTATAT
9221927 ATATTAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 6 0.21
24 3 0.11
25 9 0.32
26 10 0.36
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (23 bp):
ATTATATTTTATAATTCGTATAT
Found at i:9221927 original size:25 final size:25
Alignment explanation
Indices: 9221873--9221933 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
9221863 TAAAATTTAA
*
9221873 TTATATTTT-ATAATTTGTATCATAT
1 TTATATTTTAATAATTCGTAT-ATAT
9221898 TTATATTTTAATAATTCGTAT-TAT
1 TTATATTTTAATAATTCGTATATAT
*
9221922 TATATATATTAA
1 T-TATATTTTAA
9221934 ATATGATACG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 4 0.12
25 18 0.56
26 10 0.31
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.57
Consensus pattern (25 bp):
TTATATTTTAATAATTCGTATATAT
Found at i:9222095 original size:5 final size:5
Alignment explanation
Indices: 9222087--9222131 Score: 90
Period size: 5 Copynumber: 9.0 Consensus size: 5
9222077 TTTTGTTTCG
9222087 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
9222132 ACTCTATATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:9223127 original size:29 final size:29
Alignment explanation
Indices: 9223088--9223160 Score: 103
Period size: 29 Copynumber: 2.5 Consensus size: 29
9223078 AAATAAATTT
9223088 TTATATTTTTATTGTACTCAAATAAGTAC
1 TTATATTTTTATTGTACTCAAATAAGTAC
* * *
9223117 TTA-ATTCTTTATTTTACTCAAATAATTGC
1 TTATATT-TTTATTGTACTCAAATAAGTAC
9223146 TTATATTTTTATTGT
1 TTATATTTTTATTGT
9223161 GCTGACTTCC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 3 0.08
29 32 0.84
30 3 0.08
ACGTcount: A:0.30, C:0.10, G:0.05, T:0.55
Consensus pattern (29 bp):
TTATATTTTTATTGTACTCAAATAAGTAC
Found at i:9224247 original size:20 final size:22
Alignment explanation
Indices: 9224202--9224248 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
9224192 TTCGTTTAGT
*
9224202 TATTTATTGATGTTTATATGTA
1 TATTTAATGATGTTTATATGTA
*
9224224 TATTTAATGCTGTTTA-AT-TA
1 TATTTAATGATGTTTATATGTA
9224244 TATTT
1 TATTT
9224249 CTTATATGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 7 0.30
21 2 0.09
22 14 0.61
ACGTcount: A:0.28, C:0.02, G:0.11, T:0.60
Consensus pattern (22 bp):
TATTTAATGATGTTTATATGTA
Found at i:9226674 original size:228 final size:228
Alignment explanation
Indices: 9226245--9226682 Score: 664
Period size: 228 Copynumber: 1.9 Consensus size: 228
9226235 AACTAATGGC
* *
9226245 TTAAAACGTATAAATAAGTTGTATTCTTTGTCTATGGCAATGTAATACCCTTTGCTATTCCTTTT
1 TTAAAACGTATAAATAAGTTGTATCCTTTGTCTATGGCAATGCAATACCCTTTGCTATTCCTTTT
* * *
9226310 TGACGAAGATGAATTTTCATTAGGTATTCTATATCAACTGCGTGAATCAAGATATCATATTGCCA
66 TGACGAAGATGAATTTTCATTAGGTATTCCATATCAACTACATGAATCAAGATATCATATTGCCA
* * *
9226375 ATGAAAAAGAGAGGAAAACTATAACTATGATAGAATACTAAGCATATTTGACTTAACAACTTATA
131 ATGAAAAAGAGAGGAAAACTATAACTATGATAGAATACTAAGCATACTTGACTCAACAACGTATA
9226440 GATACTGGGTGTACATTGGTGGGGGGTGGAAGA
196 GATACTGGGTGTACATTGGTGGGGGGTGGAAGA
* * * *
9226473 TTAAAATGTATAAATGAGTTGTATCCTTTGTTTATGGCAATGCAATACCTTTTGCTATTCTCTTT
1 TTAAAACGTATAAATAAGTTGTATCCTTTGTCTATGGCAATGCAATACCCTTTGCTATTC-CTTT
* ** *
9226538 TTG-TGAAGATGGGTTTTCATTAGGTATTCCATATCAATTACATGAATCAAGATATCACTA-TGC
65 TTGACGAAGATGAATTTTCATTAGGTATTCCATATCAACTACATGAATCAAGATATCA-TATTGC
* * *
9226601 TAATGAAAAAGAGAGGAAAACTATAACTATGATGGAATATTAAGCATACTTGACTCAACAACGTA
129 CAATGAAAAAGAGAGGAAAACTATAACTATGATAGAATACTAAGCATACTTGACTCAACAACGTA
*
9226666 TGGATACTGGGTGTACA
194 TAGATACTGGGTGTACA
9226683 CTTGATTCAT
Statistics
Matches: 188, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
228 179 0.95
229 9 0.05
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.34
Consensus pattern (228 bp):
TTAAAACGTATAAATAAGTTGTATCCTTTGTCTATGGCAATGCAATACCCTTTGCTATTCCTTTT
TGACGAAGATGAATTTTCATTAGGTATTCCATATCAACTACATGAATCAAGATATCATATTGCCA
ATGAAAAAGAGAGGAAAACTATAACTATGATAGAATACTAAGCATACTTGACTCAACAACGTATA
GATACTGGGTGTACATTGGTGGGGGGTGGAAGA
Found at i:9227556 original size:6 final size:6
Alignment explanation
Indices: 9227539--9227615 Score: 59
Period size: 6 Copynumber: 12.5 Consensus size: 6
9227529 TAGGTAAGTC
* * *
9227539 TATTTT TTTTTT TATTTT ATATTTT TATTTTTT TATTAT TATTAT TATTTT
1 TATTTT TATTTT TATTTT -TATTTT TA--TTTT TATTTT TATTTT TATTTT
* *
9227590 ATATATT T-TTTT T-CTTT TATTTT TAT
1 -TATTTT TATTTT TATTTT TATTTT TAT
9227616 CTTATGTATT
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
5 8 0.14
6 33 0.57
7 11 0.19
8 6 0.10
ACGTcount: A:0.19, C:0.01, G:0.00, T:0.79
Consensus pattern (6 bp):
TATTTT
Found at i:9227578 original size:17 final size:18
Alignment explanation
Indices: 9227539--9227610 Score: 73
Period size: 17 Copynumber: 4.2 Consensus size: 18
9227529 TAGGTAAGTC
*
9227539 TATT-TTTTTTTTTATTT
1 TATTATTTTTATTTATTT
9227556 TA-TATTTTTATTT-TTT
1 TATTATTTTTATTTATTT
*
9227572 TATTATTATTA-TTATTT
1 TATTATTTTTATTTATTT
*
9227589 TATATATTTTT-TTTCTTT
1 TAT-TATTTTTATTTATTT
9227607 TATT
1 TATT
9227611 TTTATCTTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
16 8 0.17
17 24 0.52
18 14 0.30
ACGTcount: A:0.19, C:0.01, G:0.00, T:0.79
Consensus pattern (18 bp):
TATTATTTTTATTTATTT
Found at i:9227589 original size:33 final size:35
Alignment explanation
Indices: 9227550--9227615 Score: 100
Period size: 33 Copynumber: 1.9 Consensus size: 35
9227540 ATTTTTTTTT
9227550 TTATTTTATAT-TTTTATTT-TTTTATTATTATTA
1 TTATTTTATATATTTTATTTCTTTTATTATTATTA
* *
9227583 TTATTTTATATATTTTTTTTCTTTTATTTTTAT
1 TTATTTTATATATTTTATTTCTTTTATTATTAT
9227616 CTTATGTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 11 0.38
34 7 0.24
35 11 0.38
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (35 bp):
TTATTTTATATATTTTATTTCTTTTATTATTATTA
Found at i:9227609 original size:29 final size:26
Alignment explanation
Indices: 9227541--9227626 Score: 84
Period size: 29 Copynumber: 3.1 Consensus size: 26
9227531 GGTAAGTCTA
9227541 TTTTTTTTTTTATTTTATATTT-TTAT
1 TTTTTTTTTTTATTTTAT-TTTATTAT
*
9227567 TTTTTTATTATTATTATTATTTTATATAT
1 TTTTTT-TTTTTATT-TTATTTTAT-TAT
*
9227596 TTTTTTTCTTTTATTTTTATCTTATGTAT
1 TTTTTTT-TTTTA-TTTTATTTTAT-TAT
9227625 TT
1 TT
9227627 ATTAATATAT
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
26 6 0.12
27 10 0.20
28 6 0.12
29 26 0.52
30 2 0.04
ACGTcount: A:0.19, C:0.02, G:0.01, T:0.78
Consensus pattern (26 bp):
TTTTTTTTTTTATTTTATTTTATTAT
Found at i:9227736 original size:12 final size:12
Alignment explanation
Indices: 9227698--9227737 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
9227688 TTATATGTTA
9227698 TAATTTATCTGT
1 TAATTTATCTGT
9227710 T-ATTTAAT-T-T
1 TAATTT-ATCTGT
9227720 TAATTTATCTGT
1 TAATTTATCTGT
9227732 TAATTT
1 TAATTT
9227738 TTTGATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
10 4 0.17
11 10 0.42
12 10 0.42
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (12 bp):
TAATTTATCTGT
Found at i:9227745 original size:20 final size:21
Alignment explanation
Indices: 9227698--9227750 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
9227688 TTATATGTTA
*
9227698 TAATTTATCTGTTATTTAATTT
1 TAATTTATCTGTTAATT-ATTT
9227720 TAATTTATCTGTTAATT-TTT
1 TAATTTATCTGTTAATTATTT
*
9227740 TGATTTATCTG
1 TAATTTATCTG
9227751 ATTTATTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 13 0.45
22 16 0.55
ACGTcount: A:0.25, C:0.06, G:0.08, T:0.62
Consensus pattern (21 bp):
TAATTTATCTGTTAATTATTT
Found at i:9227759 original size:20 final size:20
Alignment explanation
Indices: 9227698--9227759 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
9227688 TTATATGTTA
*
9227698 TAATTTATCTGTTATTTAATTT
1 TAATTTATCTG--ATTTATTTT
*
9227720 TAATTTATCTG-TTAATTTTT
1 TAATTTATCTGATTTA-TTTT
*
9227740 TGATTTATCTGATTTATTTT
1 TAATTTATCTGATTTATTTT
9227760 CATTAATATT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
19 3 0.09
20 17 0.50
21 3 0.09
22 11 0.32
ACGTcount: A:0.24, C:0.05, G:0.06, T:0.65
Consensus pattern (20 bp):
TAATTTATCTGATTTATTTT
Found at i:9227785 original size:32 final size:32
Alignment explanation
Indices: 9227731--9227792 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
9227721 AATTTATCTG
9227731 TTAATTTTTTGATTTATCTGA-TTTATTTTCA
1 TTAATTTTTTGATTTATCTGATTTTATTTTCA
*
9227762 TTAATATTTTT-ATTTGATTTGATTTTATTTT
1 TTAAT-TTTTTGATTT-ATCTGATTTTATTTT
9227793 TTTATTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 9 0.33
32 10 0.37
33 8 0.30
ACGTcount: A:0.23, C:0.03, G:0.06, T:0.68
Consensus pattern (32 bp):
TTAATTTTTTGATTTATCTGATTTTATTTTCA
Found at i:9227800 original size:27 final size:27
Alignment explanation
Indices: 9227734--9227802 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
9227724 TTATCTGTTA
* *
9227734 ATTTTTTGATTTATCTGATTTATTTTC
1 ATTTTTTTATTTATTTGATTTATTTTC
* *
9227761 ATTAATATT-TTTATTTGATTTGATTTT-
1 ATT-TTTTTATTTATTTGATTT-ATTTTC
9227788 ATTTTTTTATTTATT
1 ATTTTTTTATTTATT
9227803 CGACTGAAGA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
26 3 0.09
27 23 0.70
28 7 0.21
ACGTcount: A:0.22, C:0.03, G:0.06, T:0.70
Consensus pattern (27 bp):
ATTTTTTTATTTATTTGATTTATTTTC
Found at i:9228629 original size:20 final size:20
Alignment explanation
Indices: 9228600--9228729 Score: 65
Period size: 20 Copynumber: 6.5 Consensus size: 20
9228590 CCGCTTCAGG
9228600 TTTT-TTTTTTTCATTTTCT-
1 TTTTATTTTTTTCATTTT-TA
*
9228619 TTTTATTTTTTTTATTTTTA
1 TTTTATTTTTTTCATTTTTA
*
9228639 TTTTA-TTTATT-ATTTTTA
1 TTTTATTTTTTTCATTTTTA
* * * * *
9228657 TATTAGGGTTGTTTAATTTTTTT
1 TTTTA--TTTTTTTCA-TTTTTA
* *
9228680 TTCTATATTTTTATTTATTTTCA
1 TT-T-TATTTTT-TTCATTTTTA
*
9228703 TTTTATTTATTT-ATTTTTA
1 TTTTATTTTTTTCATTTTTA
9228722 -TTTATTTT
1 TTTTATTTT
9228730 ATCTATTTCA
Statistics
Matches: 86, Mismatches: 15, Indels: 21
0.70 0.12 0.17
Matches are distributed among these distances:
18 18 0.21
19 16 0.19
20 19 0.22
21 10 0.12
22 2 0.02
23 15 0.17
24 4 0.05
25 2 0.02
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.77
Consensus pattern (20 bp):
TTTTATTTTTTTCATTTTTA
Found at i:9228631 original size:15 final size:15
Alignment explanation
Indices: 9228613--9228748 Score: 71
Period size: 15 Copynumber: 8.3 Consensus size: 15
9228603 TTTTTTTTCA
*
9228613 TTTTCTTTTTATTTT
1 TTTTATTTTTATTTT
9228628 TTTTATTTTTATTTTAT
1 TTTTATTTTTA-TTT-T
9228645 TTATTATTTTTATATTAGGGT
1 TT-TTATTTTTAT-TT----T
9228666 TGTTTAATTTTT-TTTT
1 T-TTT-ATTTTTATTTT
* *
9228682 CTATATTTTTATTTAT
1 TTTTATTTTTATTT-T
*
9228698 TTTCA-TTTTA-TTT
1 TTTTATTTTTATTTT
* *
9228711 ATTTATTTTTATTTA
1 TTTTATTTTTATTTT
9228726 TTTTATCTATTTCATTTT
1 TTTTAT-T-TTT-ATTTT
9228744 TTTTA
1 TTTTA
9228749 AATAAAACAA
Statistics
Matches: 93, Mismatches: 12, Indels: 29
0.69 0.09 0.22
Matches are distributed among these distances:
13 4 0.04
14 13 0.14
15 27 0.29
16 8 0.09
17 7 0.08
18 20 0.22
20 2 0.02
21 5 0.05
22 7 0.08
ACGTcount: A:0.18, C:0.04, G:0.03, T:0.75
Consensus pattern (15 bp):
TTTTATTTTTATTTT
Found at i:9228711 original size:19 final size:19
Alignment explanation
Indices: 9228689--9228748 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
9228679 TTTCTATATT
9228689 TTTATTTATTTTCATTTTA
1 TTTATTTATTTTCATTTTA
*
9228708 TTTATTTATTTTTA-TTTA
1 TTTATTTATTTTCATTTTA
* *
9228726 TTTTATCTA-TTTCATTTTT
1 -TTTATTTATTTTCATTTTA
9228745 TTTA
1 TTTA
9228749 AATAAAACAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
18 12 0.34
19 23 0.66
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTATTTATTTTCATTTTA
Found at i:9228736 original size:23 final size:22
Alignment explanation
Indices: 9228603--9228748 Score: 84
Period size: 23 Copynumber: 6.4 Consensus size: 22
9228593 CTTCAGGTTT
*
9228603 TTTTTTTTCA-TTT-TCTTTTTA
1 TTTTTTTT-ATTTTATCTATTTA
*
9228624 TTTTTTTTATTTTTATTTTATTTA
1 TTTTTTTTA-TTTTA-TCTATTTA
* * *
9228648 TTATTTTTATATTAGGGT-TGTTTA
1 TTTTTTTTATTTTA---TCTATTTA
* * * *
9228672 ATTTTTTT-TTCTATATTTTTA
1 TTTTTTTTATTTTATCTATTTA
* *
9228693 TTTATTTTCATTTTATTTATTTA
1 TTT-TTTTTATTTTATCTATTTA
9228716 TTTTTATTTATTTTATCTATTTCA
1 TTTTT-TTTATTTTATCTATTT-A
9228740 TTTTTTTTA
1 TTTTTTTTA
9228749 AATAAAACAA
Statistics
Matches: 96, Mismatches: 18, Indels: 20
0.72 0.13 0.15
Matches are distributed among these distances:
20 2 0.02
21 15 0.16
22 9 0.09
23 38 0.40
24 31 0.32
25 1 0.01
ACGTcount: A:0.18, C:0.04, G:0.03, T:0.75
Consensus pattern (22 bp):
TTTTTTTTATTTTATCTATTTA
Found at i:9228744 original size:64 final size:64
Alignment explanation
Indices: 9228608--9228746 Score: 153
Period size: 64 Copynumber: 2.2 Consensus size: 64
9228598 GGTTTTTTTT
* * * *
9228608 TTTCATTTTCTTTTTATTTTTTTTATTTTTATTTTATTTATTATTTTTATATTAGGGTTGTTTAA
1 TTTCATTTT-TTTATATTTTTTTTATTTTCATTTTATTTATTATTTTTATATTAGGGTTATCTAA
**
9228673 TTT--TTTTTTCTATATTTTTATTTATTTTCATTTTATTTATTTATTTTTAT-TTA-TTTTATCT
1 TTTCATTTTTT-TATATTTTT-TTTATTTTCATTTTATTTA-TTATTTTTATATTAGGGTTATCT
9228734 -A
63 AA
9228735 TTTCATTTTTTT
1 TTTCATTTTTTT
9228747 TAAATAAAAC
Statistics
Matches: 63, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
62 6 0.10
63 17 0.27
64 27 0.43
65 13 0.21
ACGTcount: A:0.18, C:0.04, G:0.03, T:0.75
Consensus pattern (64 bp):
TTTCATTTTTTTATATTTTTTTTATTTTCATTTTATTTATTATTTTTATATTAGGGTTATCTAA
Found at i:9228817 original size:58 final size:58
Alignment explanation
Indices: 9228755--9229037 Score: 222
Period size: 58 Copynumber: 4.7 Consensus size: 58
9228745 TTTAAATAAA
*
9228755 ACAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAA-TTTCTCTTAAGAATAAA-TCT
1 ACAAAAAAATTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTC-CTTAA-AATAAATTCT
** * *
9228813 ACAAAAAGGTTTTTTTGA-AGAAAAGTTGAAAGTATCAATTTTCCTTCAGAATAAATTTTT
1 ACAAAAAAATTTTTTTGAGA-AAAAGTTGAAAGTATCAATTTTCCTT-AAAATAAA-TTCT
*
9228873 A-AAAAAAATTTTTTTTTTTA-AGAAAAGTTGAAAGTATCAATTTTCCTTAAAGATAAAATTTCA
1 ACAAAAAAA---TTTTTTTGAGA-AAAAGTTGAAAGTATCAATTTTCCTTAAA-AT-AAA-TTC-
*
9228936 AA
58 -T
* * * *
9228938 AAAAAAAAGATTTTTTTTAGGAAAAGTTGAAAGCATCAATTTT-CTTAAAATTAAAGTT-T
1 ACAAAAAA-ATTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAA-TAAA-TTCT
* * * *
9228997 ACAAAAAAATATTTTAG-GAAAAAGTTAAAAGTATTAATTTT
1 ACAAAAAAATTTTTTTGAGAAAAAGTTGAAAGTATCAATTTT
9229038 TTCTTGTACA
Statistics
Matches: 186, Mismatches: 23, Indels: 33
0.77 0.10 0.14
Matches are distributed among these distances:
57 21 0.11
58 48 0.26
59 17 0.09
60 3 0.02
61 2 0.01
62 44 0.24
63 13 0.07
64 30 0.16
65 1 0.01
66 6 0.03
67 1 0.01
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (58 bp):
ACAAAAAAATTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAATTCT
Found at i:9228911 original size:62 final size:60
Alignment explanation
Indices: 9228766--9229005 Score: 220
Period size: 62 Copynumber: 3.9 Consensus size: 60
9228756 CAAAAAAATA
* * * *
9228766 TTTTTGAGAAAAAGTTGAAAGTATCAA-TTTCTCTTAAGAATAAA--TCT-ACAAAAAGGTTT
1 TTTTTAAG-AAAAGTTGAAAGTATCAATTTTC-CTT-AGAATAAATTTATAAAAAAAAGATTT
* * **
9228825 TTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTCAGAATAAATTTTTAAAAAAAATTTTTT
1 TTTTTAAGAAAAGTTGAAAGTATCAATTTTCCTT-AGAATAAATTTATAAAAAAAA-GATTT
* *
9228887 TTTTTAAGAAAAGTTGAAAGTATCAATTTTCCTTAAAGATAAAATTTCAAAAAAAAAAAGATTT
1 TTTTTAAGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AT-AAATTT--ATAAAAAAAAGATTT
* * * *
9228951 TTTTTAGGAAAAGTTGAAAGCATCAATTTT-CTTAAAATTAAAGTTTACAAAAAAA
1 TTTTTAAGAAAAGTTGAAAGTATCAATTTTCCTTAGAA-TAAA-TTTATAAAAAAA
9229006 TATTTTAGGA
Statistics
Matches: 154, Mismatches: 16, Indels: 20
0.81 0.08 0.11
Matches are distributed among these distances:
58 29 0.19
59 10 0.06
60 2 0.01
61 16 0.10
62 42 0.27
63 16 0.10
64 31 0.20
65 8 0.05
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (60 bp):
TTTTTAAGAAAAGTTGAAAGTATCAATTTTCCTTAGAATAAATTTATAAAAAAAAGATTT
Found at i:9228954 original size:64 final size:64
Alignment explanation
Indices: 9228815--9229005 Score: 221
Period size: 64 Copynumber: 3.0 Consensus size: 64
9228805 ATAAATCTAC
* * * **
9228815 AAAAAGGTTTTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTT-CAGA-ATAAATTT-TTAAAA
1 AAAAAGATTTTTTTTAAGAAAAGTTGAAAGTATCAATTTTCCTTAAAGATA-AAATTTCAAAAAA
***
9228877 AAAATTTTTTTTTTTAAGAAAAGTTGAAAGTATCAATTTTCCTTAAAGATAAAATTTCAAAAAA
1 AAAAAGATTTTTTTTAAGAAAAGTTGAAAGTATCAATTTTCCTTAAAGATAAAATTTCAAAAAA
* * *
9228941 AAAAAGATTTTTTTTAGGAAAAGTTGAAAGCATCAATTTT-CTTAAA-ATTAAAGTTTACAAAAA
1 AAAAAGATTTTTTTTAAGAAAAGTTGAAAGTATCAATTTTCCTTAAAGA-TAAAATTT-CAAAAA
9229004 A
64 A
9229005 A
1 A
9229006 TATTTTAGGA
Statistics
Matches: 111, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
62 41 0.37
63 22 0.20
64 48 0.43
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.37
Consensus pattern (64 bp):
AAAAAGATTTTTTTTAAGAAAAGTTGAAAGTATCAATTTTCCTTAAAGATAAAATTTCAAAAAA
Found at i:9232539 original size:20 final size:21
Alignment explanation
Indices: 9232508--9232549 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
9232498 TTTGGAAAAA
9232508 TTAACTAGAATAAATAAAATT
1 TTAACTAGAATAAATAAAATT
*
9232529 TTAACTA-AATAAATTAAATT
1 TTAACTAGAATAAATAAAATT
9232549 T
1 T
9232550 AAAAGGTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (21 bp):
TTAACTAGAATAAATAAAATT
Found at i:9232798 original size:2 final size:2
Alignment explanation
Indices: 9232793--9232841 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
9232783 TTTCAGACAC
9232793 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
9232835 CT CT CT C
1 CT CT CT C
9232842 CTTTTTATTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:9234354 original size:17 final size:18
Alignment explanation
Indices: 9234322--9234358 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
9234312 CATACATTGG
*
9234322 ATTATTGTATTTTTTTGT
1 ATTATTGTATTATTTTGT
9234340 ATTATT-TATTATTTTGT
1 ATTATTGTATTATTTTGT
9234357 AT
1 AT
9234359 GCATTATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.70
Consensus pattern (18 bp):
ATTATTGTATTATTTTGT
Found at i:9236362 original size:41 final size:41
Alignment explanation
Indices: 9236305--9236387 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
9236295 CCGTTGGCAG
9236305 ATTTTATTATTTGAATACAAAACACAAAGAACAAAGTCCTA
1 ATTTTATTATTTGAATACAAAACACAAAGAACAAAGTCCTA
* * *
9236346 ATTTTATTATTTGAATACAAAACATAGAGTACAAAGTCCTA
1 ATTTTATTATTTGAATACAAAACACAAAGAACAAAGTCCTA
9236387 A
1 A
9236388 ACTCGTAAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.47, C:0.13, G:0.08, T:0.31
Consensus pattern (41 bp):
ATTTTATTATTTGAATACAAAACACAAAGAACAAAGTCCTA
Found at i:9238347 original size:1 final size:1
Alignment explanation
Indices: 9238298--9238333 Score: 72
Period size: 1 Copynumber: 36.0 Consensus size: 1
9238288 AATGAAAATG
9238298 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9238334 CATCTTAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:9238974 original size:139 final size:139
Alignment explanation
Indices: 9238718--9238995 Score: 457
Period size: 139 Copynumber: 2.0 Consensus size: 139
9238708 AGTATCATCA
* * *
9238718 TGCAGGTTCTTAACTTTTATTTTTTCTATTATCATGATAATATTGGTAATGTGATTAGATACAAA
1 TGCAGGTTCTTAAATTTTATTTTTTCTATTATCATGATAATATTGATAATATGATTAGATACAAA
* *
9238783 CTTATTTGCTATGATAAGATACAATACTTTCAAAGTAATCATTTATCGTGACTACGTATAAACTT
66 CATATTTGCTATGATAAGATACAATACTTTCAAAGTAATCATTTATCATGACTACGTATAAACTT
9238848 CTTCATTGT
131 CTTCATTGT
**
9238857 TGCAGGTTCTTAAATTTTATTTTTTCTATTATCATGATAATATTGATAATATGATTAGATAGGAA
1 TGCAGGTTCTTAAATTTTATTTTTTCTATTATCATGATAATATTGATAATATGATTAGATACAAA
* * * *
9238922 CATATTTGCTATGATCATATACAATACTTTCAAAGTAATCATTTGTCATGACTATGTATAAACTT
66 CATATTTGCTATGATAAGATACAATACTTTCAAAGTAATCATTTATCATGACTACGTATAAACTT
9238987 CTTCATTGT
131 CTTCATTGT
9238996 CGTGCTGTAA
Statistics
Matches: 128, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
139 128 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (139 bp):
TGCAGGTTCTTAAATTTTATTTTTTCTATTATCATGATAATATTGATAATATGATTAGATACAAA
CATATTTGCTATGATAAGATACAATACTTTCAAAGTAATCATTTATCATGACTACGTATAAACTT
CTTCATTGT
Found at i:9240386 original size:1 final size:1
Alignment explanation
Indices: 9240380--9240404 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
9240370 TATAATCCTG
9240380 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
9240405 GAACAAGGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:9241878 original size:142 final size:143
Alignment explanation
Indices: 9241716--9242018 Score: 382
Period size: 145 Copynumber: 2.1 Consensus size: 143
9241706 ATCCAAATTA
* *
9241716 ATCTTATATAAATATATAAAAGCCAAAAC-TTTAACAAAAAAGGAAAAAAATCTAATATGGATGA
1 ATCTTATATAAATATATAAAAGCCAAAACTTTTAAC-AAAAA-GAAAAAAATCAAATATAGATGA
* * *
9241780 TCTATTCTTTTGACATATGGTTGAAC-G-AT-TGCCTTATGTCCTACATTAATTATTTTGATTTA
64 TCTATTCTTTTGACATATGGATGAACTGCATAT-CATCATGTCCTACATTAATTATTTTGATTTA
* *
9241842 TTTTCATATAAATTTT
128 TTTTCAAACAAATTTT
* * * *
9241858 ATCTTATATAAATATGTAAAAGCTAAAACTTTTAACAAAAAGAAAAAAATCAAATGTAGATGATT
1 ATCTTATATAAATATATAAAAGCCAAAACTTTTAACAAAAAGAAAAAAATCAAATATAGATGATC
* * *
9241923 TATTCTTTTGACATGTGGATGATCTTGCATAATCATCATGTCCTACATTAATTATTTTGATTTGT
66 TATTCTTTTGACATATGGATGAAC-TGCAT-ATCATCATGTCCTACATTAATTATTTTGATTTAT
9241988 TTTCAAACAAATTTT
129 TTTCAAACAAATTTT
* *
9242003 AT-TAATTTAAATATAT
1 ATCTTATATAAATATAT
9242019 TTATTTTGCC
Statistics
Matches: 138, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
141 41 0.30
142 32 0.23
143 7 0.05
144 13 0.09
145 44 0.32
146 1 0.01
ACGTcount: A:0.40, C:0.11, G:0.10, T:0.40
Consensus pattern (143 bp):
ATCTTATATAAATATATAAAAGCCAAAACTTTTAACAAAAAGAAAAAAATCAAATATAGATGATC
TATTCTTTTGACATATGGATGAACTGCATATCATCATGTCCTACATTAATTATTTTGATTTATTT
TCAAACAAATTTT
Found at i:9244340 original size:2 final size:2
Alignment explanation
Indices: 9244333--9244365 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
9244323 TTGCAATTCA
9244333 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9244366 CTGTAACAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9251442 original size:20 final size:20
Alignment explanation
Indices: 9251419--9251481 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
9251409 ACAAAAAACC
9251419 AAATAAATAAATAATAACAA
1 AAATAAATAAATAATAACAA
* *
9251439 AAATTAAA-AAATAATAATAT
1 AAA-TAAATAAATAATAACAA
*
9251459 AAATAAAATAAA-AACAACAA
1 AAAT-AAATAAATAATAACAA
9251479 AAA
1 AAA
9251482 GCTTGGTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
19 1 0.03
20 27 0.77
21 7 0.20
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.19
Consensus pattern (20 bp):
AAATAAATAAATAATAACAA
Found at i:9259103 original size:30 final size:30
Alignment explanation
Indices: 9259069--9259140 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 30
9259059 AAATAATTAT
* *
9259069 AAAATTCTAATAAATTTTAAAAAAT-CTCAA
1 AAAATTATAA-AAATTTTAAAAAATACTAAA
* **
9259099 AAAATAATAAAAATTTTTTAAAATACTAAA
1 AAAATTATAAAAATTTTAAAAAATACTAAA
*
9259129 AAAATTTTAAAA
1 AAAATTATAAAA
9259141 TACACTAAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
29 12 0.35
30 22 0.65
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (30 bp):
AAAATTATAAAAATTTTAAAAAATACTAAA
Found at i:9259121 original size:21 final size:21
Alignment explanation
Indices: 9259097--9259136 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
9259087 AAAAAATCTC
9259097 AAAA-AATAATAAAAATTTTTT
1 AAAATAATAA-AAAAATTTTTT
*
9259118 AAAATACTAAAAAAATTTT
1 AAAATAATAAAAAAATTTT
9259137 AAAATACACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAATAATAAAAAAATTTTTT
Found at i:9259143 original size:19 final size:19
Alignment explanation
Indices: 9259099--9259143 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
9259089 AAAATCTCAA
* **
9259099 AAAATAATAAAAATTTTTT
1 AAAATACTAAAAAAATTTT
9259118 AAAATACTAAAAAAATTTT
1 AAAATACTAAAAAAATTTT
9259137 AAAATAC
1 AAAATAC
9259144 ACTAAATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAATACTAAAAAAATTTT
Found at i:9259464 original size:31 final size:30
Alignment explanation
Indices: 9259415--9259473 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
9259405 AAAATTATGA
* * *
9259415 TAATTTTAAAATTTCAAAAAAATTTAAAATT
1 TAATTTAAAAAATCCAAAAAAA-TTAAAATT
9259446 TAATTTAAAAAATCCAAAAAAATTAAAA
1 TAATTTAAAAAATCCAAAAAAATTAAAA
9259474 GAAAGTAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 6 0.24
31 19 0.76
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (30 bp):
TAATTTAAAAAATCCAAAAAAATTAAAATT
Found at i:9259672 original size:20 final size:20
Alignment explanation
Indices: 9259635--9259672 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9259625 AATATCAAGA
*
9259635 TTTTGAAACATTCTAAAATT
1 TTTTGAAACAATCTAAAATT
9259655 TTTTGAAA-AATCTGAAAA
1 TTTTGAAACAATCT-AAAA
9259673 AAAAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (20 bp):
TTTTGAAACAATCTAAAATT
Found at i:9259959 original size:20 final size:22
Alignment explanation
Indices: 9259926--9259973 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 22
9259916 TTTATTTTTT
9259926 AATTTTGAGAAATTTTTTAGAA
1 AATTTTGAGAAATTTTTTAGAA
**
9259948 AATTTTG-G-AATTTTTTTTAA
1 AATTTTGAGAAATTTTTTAGAA
9259968 AATTTT
1 AATTTT
9259974 CAGATTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 16 0.67
21 1 0.04
22 7 0.29
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.54
Consensus pattern (22 bp):
AATTTTGAGAAATTTTTTAGAA
Found at i:9260161 original size:10 final size:10
Alignment explanation
Indices: 9260075--9260189 Score: 74
Period size: 10 Copynumber: 11.5 Consensus size: 10
9260065 TGAATTTTTG
9260075 AATTTTTTAA
1 AATTTTTTAA
9260085 AATATTTTT-A
1 AAT-TTTTTAA
* *
9260095 TATTTTTTAG
1 AATTTTTTAA
* *
9260105 AATTTCTAAA
1 AATTTTTTAA
*
9260115 AACTTTTTT-G
1 AA-TTTTTTAA
* *
9260125 AATTTTTCAT
1 AATTTTTTAA
9260135 AA-TTTTTAA
1 AATTTTTTAA
**
9260144 AAACTTTTAA
1 AATTTTTTAA
*
9260154 AATTTTTTAG
1 AATTTTTTAA
*
9260164 ATTTTTTTAA
1 AATTTTTTAA
*
9260174 ATTTTTTTGAA
1 AATTTTTT-AA
9260185 AATTT
1 AATTT
9260190 CTTTTAACAA
Statistics
Matches: 79, Mismatches: 20, Indels: 11
0.72 0.18 0.10
Matches are distributed among these distances:
9 17 0.22
10 47 0.59
11 15 0.19
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.58
Consensus pattern (10 bp):
AATTTTTTAA
Found at i:9260174 original size:30 final size:29
Alignment explanation
Indices: 9260069--9260170 Score: 100
Period size: 29 Copynumber: 3.5 Consensus size: 29
9260059 AAGTTTTGAA
*
9260069 TTTTT-GAATTTTTTAAAATA-TTTTTATAT
1 TTTTTAGAA-TTTTTAAAA-ACTTTTTAAAT
* *
9260098 TTTTTAGAATTTCTAAAAACTTTTTTGAAT
1 TTTTTAGAATTTTTAAAAAC-TTTTTAAAT
* * *
9260128 TTTTCATAATTTTTAAAAACTTTTAAAAT
1 TTTTTAGAATTTTTAAAAACTTTTTAAAT
*
9260157 TTTTTAGATTTTTT
1 TTTTTAGAATTTTT
9260171 TAAATTTTTT
Statistics
Matches: 59, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
28 1 0.02
29 31 0.53
30 27 0.46
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (29 bp):
TTTTTAGAATTTTTAAAAACTTTTTAAAT
Found at i:9260180 original size:9 final size:9
Alignment explanation
Indices: 9259960--9260180 Score: 81
Period size: 9 Copynumber: 23.7 Consensus size: 9
9259950 TTTTGGAATT
9259960 TTTTTTAAA
1 TTTTTTAAA
* * *
9259969 ATTTTCAGAT
1 TTTTTTA-AA
9259979 TTTTTTGAAA
1 TTTTTT-AAA
*
9259989 TTTTTTAAG
1 TTTTTTAAA
*
9259998 TTTCATT-AA
1 TTT-TTTAAA
*
9260007 TTTTTGAAA
1 TTTTTTAAA
9260016 TTTTTTAAA
1 TTTTTTAAA
* *
9260025 ATTTTTAGAC
1 TTTTTTA-AA
*
9260035 TTTTTAAAA
1 TTTTTTAAA
* * *
9260044 ATATTT-AT
1 TTTTTTAAA
*
9260052 TTTTTTGAA
1 TTTTTTAAA
* *
9260061 -GTTTTGAA
1 TTTTTTAAA
*
9260069 -TTTTTGAA
1 TTTTTTAAA
9260077 TTTTTTAAAA
1 TTTTTT-AAA
*
9260087 TATTTTTATA
1 T-TTTTTAAA
9260097 TTTTTTAGAA
1 TTTTTTA-AA
**
9260107 TTTCTAAAAA
1 TTT-TTTAAA
*
9260117 CTTTTTTGAA
1 -TTTTTTAAA
*
9260127 TTTTTCATAA
1 TTTTTTA-AA
*
9260137 TTTTTAAAAA
1 TTTTT-TAAA
* *
9260147 CTTTTAAAA
1 TTTTTTAAA
*
9260156 TTTTTTAGAT
1 TTTTTTA-AA
9260166 TTTTTTAAA
1 TTTTTTAAA
9260175 TTTTTT
1 TTTTTT
9260181 TGAAAATTTC
Statistics
Matches: 155, Mismatches: 42, Indels: 30
0.68 0.19 0.13
Matches are distributed among these distances:
8 20 0.13
9 67 0.43
10 56 0.36
11 12 0.08
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:9260180 original size:19 final size:19
Alignment explanation
Indices: 9259959--9260180 Score: 75
Period size: 19 Copynumber: 11.8 Consensus size: 19
9259949 ATTTTGGAAT
* *
9259959 TTTTTTTAAAATTTTCAGA
1 TTTTTTTAAATTTTTTAGA
9259978 TTTTTTTGAAATTTTTTA-A
1 TTTTTTT-AAATTTTTTAGA
** *
9259997 GTTTCATT-AATTTTTGA-A
1 -TTTTTTTAAATTTTTTAGA
* *
9260015 ATTTTTTAAAATTTTTAGA
1 TTTTTTTAAATTTTTTAGA
* * * *
9260034 CTTTTTAAAAATATTT--A
1 TTTTTTTAAATTTTTTAGA
* *
9260051 TTTTTTTGAA-GTTTT-GA
1 TTTTTTTAAATTTTTTAGA
* * *
9260068 -ATTTTTGAATTTTTTAAAA
1 TTTTTTTAAATTTTTT-AGA
* *
9260087 TATTTTTATATTTTTTAGAA
1 TTTTTTTAAATTTTTTAG-A
* **
9260107 TTTCTAAAAACTTTTTT-GA
1 TTTTTTTAAA-TTTTTTAGA
* * * *
9260126 ATTTTTCATAATTTTTAAAA
1 TTTTTTTA-AATTTTTTAGA
** *
9260146 ACTTTTAAAATTTTTTAGA
1 TTTTTTTAAATTTTTTAGA
9260165 TTTTTTTAAATTTTTT
1 TTTTTTTAAATTTTTT
9260181 TGAAAATTTC
Statistics
Matches: 148, Mismatches: 42, Indels: 26
0.69 0.19 0.12
Matches are distributed among these distances:
16 11 0.07
17 17 0.11
18 16 0.11
19 56 0.38
20 42 0.28
21 6 0.04
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (19 bp):
TTTTTTTAAATTTTTTAGA
Found at i:9260187 original size:12 final size:10
Alignment explanation
Indices: 9260148--9260196 Score: 53
Period size: 10 Copynumber: 4.6 Consensus size: 10
9260138 TTTTAAAAAC
*
9260148 TTTTAAAATT
1 TTTTAAATTT
*
9260158 TTTTAGATTT
1 TTTTAAATTT
9260168 TTTTAAATTT
1 TTTTAAATTT
9260178 TTTTGAAAATTT
1 TTTT--AAATTT
9260190 CTTTTAA
1 -TTTTAA
9260197 CAATGGCGTG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
10 21 0.64
11 2 0.06
12 6 0.18
13 4 0.12
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (10 bp):
TTTTAAATTT
Found at i:9260627 original size:30 final size:28
Alignment explanation
Indices: 9260539--9260638 Score: 87
Period size: 30 Copynumber: 3.4 Consensus size: 28
9260529 TTTTTATTAA
*
9260539 ATCCAAATAAAATTTTATCTTTAATTTTAC
1 ATCCAAAT-AAATTTTATCTTTAA-TTTAT
* *
9260569 ACCCAAATAAGTTTTTAAAT-TTTAATTTAT
1 ATCCAAATAA-ATTTT--ATCTTTAATTTAT
9260599 ATCCAAATAAATTCTTATTCTTTAATTTAT
1 ATCCAAATAAATT-TTA-TCTTTAATTTAT
9260629 A-CCTAAATAA
1 ATCC-AAATAA
9260639 GCCCTAAACA
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
28 1 0.02
29 7 0.12
30 43 0.74
31 5 0.09
32 2 0.03
ACGTcount: A:0.41, C:0.13, G:0.01, T:0.45
Consensus pattern (28 bp):
ATCCAAATAAATTTTATCTTTAATTTAT
Found at i:9260702 original size:30 final size:29
Alignment explanation
Indices: 9260680--9260763 Score: 118
Period size: 29 Copynumber: 2.9 Consensus size: 29
9260670 AATAAGGATA
*
9260680 TATTTAAATACAAATCAAAAAATAATAATT
1 TATTTAAATACAAAT-AAAAAATAAAAATT
9260710 TATTTAAATAC-AATAAAAATATAAAAATT
1 TATTTAAATACAAATAAAAA-ATAAAAATT
9260739 TATTTAAATA-AAATAATAAAATAAA
1 TATTTAAATACAAATAA-AAAATAAA
9260764 TTTTTTAGTA
Statistics
Matches: 50, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
28 5 0.10
29 31 0.62
30 14 0.28
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (29 bp):
TATTTAAATACAAATAAAAAATAAAAATT
Found at i:9261223 original size:16 final size:17
Alignment explanation
Indices: 9261197--9261229 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
9261187 TTATGTCAAT
*
9261197 ATTTATTATAATATATA
1 ATTTATTATAAAATATA
9261214 ATTT-TTATAAAATATA
1 ATTTATTATAAAATATA
9261230 TTATAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTTATTATAAAATATA
Found at i:9262607 original size:39 final size:39
Alignment explanation
Indices: 9262557--9262660 Score: 104
Period size: 40 Copynumber: 2.6 Consensus size: 39
9262547 ACAAATTAAT
*
9262557 AAAAATGAAAATCTTAGCTAGGCAAT-TTAAAAAAAAAA
1 AAAAAAGAAAATCTTAGCTAGGCAATATTAAAAAAAAAA
** *
9262595 AAAAAAGGAAAATCTTAGGC-AGGCAAATATTTTAGAAAAAA
1 AAAAAA-GAAAATCTTA-GCTAGGC-AATATTAAAAAAAAAA
** *
9262636 AAGCAAGAAAATCTTAGGTAGGCAA
1 AAAAAAGAAAATCTTAGCTAGGCAA
9262661 ATGTTTTGGT
Statistics
Matches: 54, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
38 5 0.09
39 17 0.31
40 19 0.35
41 13 0.24
ACGTcount: A:0.56, C:0.09, G:0.16, T:0.19
Consensus pattern (39 bp):
AAAAAAGAAAATCTTAGCTAGGCAATATTAAAAAAAAAA
Found at i:9263029 original size:22 final size:22
Alignment explanation
Indices: 9263004--9263086 Score: 60
Period size: 23 Copynumber: 3.5 Consensus size: 22
9262994 TTTTATTTAA
9263004 AATTTTATAAAATAAATTTATT
1 AATTTTATAAAATAAATTTATT
*
9263026 AATTTATTATAATAAATAAGTTTTATT
1 AA-TT-TTAT-A-AAATAA-ATTTATT
* * *
9263053 TATTATATAATAA-ATATTTAATT
1 AATTTTATAA-AATAAATTT-ATT
9263076 AATTTTATAAA
1 AATTTTATAAA
9263087 TATTAAATAA
Statistics
Matches: 47, Mismatches: 7, Indels: 14
0.69 0.10 0.21
Matches are distributed among these distances:
22 6 0.13
23 15 0.32
24 7 0.15
25 4 0.09
26 8 0.17
27 7 0.15
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (22 bp):
AATTTTATAAAATAAATTTATT
Found at i:9263050 original size:27 final size:24
Alignment explanation
Indices: 9263020--9263085 Score: 73
Period size: 23 Copynumber: 2.7 Consensus size: 24
9263010 ATAAAATAAA
9263020 TTTATTAATTTATTATAATAAATAAGT
1 TTTATTAATTTA-TATAATAAAT-A-T
*
9263047 TTTATTTA-TTATATAATAAATAT
1 TTTATTAATTTATATAATAAATAT
*
9263070 TTAATTAATTT-TATAA
1 TTTATTAATTTATATAA
9263086 ATATTAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
23 12 0.34
24 3 0.09
25 10 0.29
26 3 0.09
27 7 0.20
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
TTTATTAATTTATATAATAAATAT
Found at i:9263092 original size:19 final size:20
Alignment explanation
Indices: 9263062--9263099 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
9263052 TTATTATATA
*
9263062 ATAAATATTTAATTAATTTT
1 ATAAATATTTAAATAATTTT
9263082 ATAAATA-TTAAATAATTT
1 ATAAATATTTAAATAATTT
9263100 AATTTTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATAAATATTTAAATAATTTT
Found at i:9263118 original size:16 final size:17
Alignment explanation
Indices: 9263094--9263133 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
9263084 AAATATTAAA
*
9263094 TAATTTAATTTTT-TGT
1 TAATATAATTTTTATGT
*
9263110 TAATATAATTTTTATTT
1 TAATATAATTTTTATGT
9263127 TAATATA
1 TAATATA
9263134 TTTAATGGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
TAATATAATTTTTATGT
Found at i:9263236 original size:21 final size:21
Alignment explanation
Indices: 9263206--9263257 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
9263196 ATTTTATCAT
* * *
9263206 TAAT-TTTAATTTCATCATTA
1 TAATATTTAATATCACCACTA
9263226 TAATATTTAATATCACCACTA
1 TAATATTTAATATCACCACTA
*
9263247 TAATAATTAAT
1 TAATATTTAAT
9263258 CTTATCGTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 4 0.15
21 23 0.85
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (21 bp):
TAATATTTAATATCACCACTA
Found at i:9263481 original size:48 final size:48
Alignment explanation
Indices: 9263405--9263526 Score: 165
Period size: 48 Copynumber: 2.5 Consensus size: 48
9263395 AAAATAACTT
*
9263405 TTAAAAGAATGAGTTTCAAATTTTAAATCAG-TATGATGATATTTCATA
1 TTAAAAGAATGAATTTCAAATTTTAAATCAGTTAT-ATGATATTTCATA
* * * * *
9263453 TTAAGAGAATGAATTTTAAATTTTAAATCTGTTATATGTTATTTCATT
1 TTAAAAGAATGAATTTCAAATTTTAAATCAGTTATATGATATTTCATA
*
9263501 TTAAAAGAATTAATTTCAAATTTTAA
1 TTAAAAGAATGAATTTCAAATTTTAA
9263527 CAAATGAATT
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
48 61 0.95
49 3 0.05
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (48 bp):
TTAAAAGAATGAATTTCAAATTTTAAATCAGTTATATGATATTTCATA
Found at i:9263538 original size:21 final size:23
Alignment explanation
Indices: 9263498--9263549 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
9263488 ATGTTATTTC
*
9263498 ATTTTAAAAGAATTAATTTC-AA
1 ATTTTAAAAGAATGAATTTCAAA
*
9263520 ATTTTAACA-AATGAATTTCAAA
1 ATTTTAAAAGAATGAATTTCAAA
9263542 ATTTTAAA
1 ATTTTAAA
9263550 TCAATTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 9 0.35
22 17 0.65
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (23 bp):
ATTTTAAAAGAATGAATTTCAAA
Found at i:9263868 original size:59 final size:60
Alignment explanation
Indices: 9263781--9263896 Score: 182
Period size: 60 Copynumber: 1.9 Consensus size: 60
9263771 TAAGATCCTA
*
9263781 AAAAACTCATGATTACTCAAGAAAAAAATT-CCAACAATTGAAAAGATCATATAAGTTAG
1 AAAAACTCATGATTACTCAAGAAAAAAATTACCAACAATTGAAAAGATCACATAAGTTAG
* *
9263840 AAAAATTCATGATTTATTCAA-AAAAAAATTACCAACAATTGAAAAGATCACATAAGT
1 AAAAACTCATGA-TTACTCAAGAAAAAAATTACCAACAATTGAAAAGATCACATAAGT
9263897 CTTGGACTAA
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
59 20 0.38
60 32 0.62
ACGTcount: A:0.53, C:0.13, G:0.09, T:0.25
Consensus pattern (60 bp):
AAAAACTCATGATTACTCAAGAAAAAAATTACCAACAATTGAAAAGATCACATAAGTTAG
Found at i:9264318 original size:58 final size:58
Alignment explanation
Indices: 9264209--9264321 Score: 138
Period size: 58 Copynumber: 1.9 Consensus size: 58
9264199 ACTTCATTTG
* * * * *
9264209 GGCCAGCAACCTTACATCTCTAGTGCACTTTTTGGGGTAGGCCATATCACTCAACTTT
1 GGCCAGCAACCTTACATCTCTAGTACACTTTTTGGGGCAAGCCAAAGCACTCAACTTT
* * *
9264267 GGCCAGGCAATCTTACATCTCT-GTACGCTTTTTGGGGCAAGTCAAAGCACTCAAC
1 GGCCA-GCAACCTTACATCTCTAGTACACTTTTTGGGGCAAGCCAAAGCACTCAAC
9264322 CTTGTCACCC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
58 31 0.67
59 15 0.33
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.28
Consensus pattern (58 bp):
GGCCAGCAACCTTACATCTCTAGTACACTTTTTGGGGCAAGCCAAAGCACTCAACTTT
Done.