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 36 of 325
Found at i:13511544 original size:5 final size:5
Alignment explanation
Indices: 13511534--13511564 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
13511524 AATAATTAAG
13511534 TATAT TATAT TATAT TATAT TATTAT TATAT
1 TATAT TATAT TATAT TATAT TA-TAT TATAT
13511565 ATAAAAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:13515801 original size:18 final size:17
Alignment explanation
Indices: 13515762--13515800 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
13515752 CCTAAAGGTG
*
13515762 ATTTTATCTTCTTTATT
1 ATTTTATCTTATTTATT
13515779 ATTTTACTCTTATTT-TT
1 ATTTTA-TCTTATTTATT
13515796 ATTTT
1 ATTTT
13515801 TTTCCCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTATCTTATTTATT
Found at i:13516551 original size:11 final size:11
Alignment explanation
Indices: 13516527--13516571 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
13516517 TTCTAATACG
*
13516527 TATATATATTA
1 TATATATTTTA
*
13516538 TATGTATTTTA
1 TATATATTTTA
13516549 TATATATTATGTA
1 TATATATT-T-TA
13516562 TATATATTTT
1 TATATATTTT
13516572 TAATGCCATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 17 0.59
12 2 0.07
13 10 0.34
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (11 bp):
TATATATTTTA
Found at i:13519247 original size:47 final size:46
Alignment explanation
Indices: 13519095--13519271 Score: 209
Period size: 47 Copynumber: 3.8 Consensus size: 46
13519085 TGTAACCCGC
* * *
13519095 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
13519141 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACAT
* * * *
13519191 --GTCA-CGAACTCGGACTCAACTCAACGAGTTCCGACATTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACA-TTCACAT
13519235 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
13519272 TGTTCAACCA
Statistics
Matches: 110, Mismatches: 12, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
43 3 0.03
44 5 0.05
46 37 0.34
47 56 0.51
48 2 0.02
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
Found at i:13519263 original size:94 final size:93
Alignment explanation
Indices: 13519103--13519273 Score: 297
Period size: 94 Copynumber: 1.8 Consensus size: 93
13519093 GCCCATAAGT
* * *
13519103 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCCGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
13519168 CGAGTTCGGATGCCTAGTTACATGTCAC
66 CGAGTTCGGATGCCTAGTTACATGTCAC
*
13519196 GAACTCGGACTCAACTCAACGAGTTCCGACATTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCCGACA-TTCACATCCATAAGTGAACTCGGACTCAACTCA
13519261 ACGAGTTCGGATG
65 ACGAGTTCGGATG
13519274 TTCAACCATC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
93 28 0.38
94 45 0.62
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCCGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATGTCAC
Found at i:13524009 original size:21 final size:20
Alignment explanation
Indices: 13523975--13524014 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
13523965 CCAATGAAAT
*
13523975 CGAAAGAGAAATTACATTAAC
1 CGAAAGACAAATTA-ATTAAC
*
13523996 CGAAAGACACATTAATTAA
1 CGAAAGACAAATTAATTAA
13524015 AATTCAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.53, C:0.15, G:0.12, T:0.20
Consensus pattern (20 bp):
CGAAAGACAAATTAATTAAC
Found at i:13529632 original size:46 final size:46
Alignment explanation
Indices: 13529572--13529891 Score: 410
Period size: 46 Copynumber: 7.0 Consensus size: 46
13529562 TTTGACATGA
* * * * * * *
13529572 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGC
** * *
13529618 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*** ** * *
13529664 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTTC-CGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGC
*
13529710 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
13529756 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
13529802 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
13529848 TGCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
13529892 AGAGCACACT
Statistics
Matches: 250, Mismatches: 21, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
45 8 0.03
46 238 0.95
47 4 0.02
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:13535989 original size:38 final size:39
Alignment explanation
Indices: 13535905--13536039 Score: 116
Period size: 39 Copynumber: 3.4 Consensus size: 39
13535895 ACCAATATGG
*
13535905 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
* * *
13535944 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAATAGTTGA
* * * *
13535982 TACCCAGTACCTCATCGAATCTA-TCCGAAGAAATA-TAGTGA
1 CACCCAGTGCCTCATCGGA--TAGTCCGAAGTAATAGT--TGA
*
13536023 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
13536040 ACTCGAGGTC
Statistics
Matches: 75, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
38 19 0.25
39 36 0.48
40 4 0.05
41 16 0.21
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
Found at i:13537612 original size:5 final size:5
Alignment explanation
Indices: 13537594--13537624 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
13537584 TTTCTTTTAT
13537594 ATATA ATAATA ATATA ATATA ATATA ATATA
1 ATATA AT-ATA ATATA ATATA ATATA ATATA
13537625 CTTAATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:13539125 original size:20 final size:19
Alignment explanation
Indices: 13539086--13539136 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
13539076 TTATACTAAA
13539086 TAATTAATAATAA-AATATC
1 TAATTAA-AATAATAATATC
*
13539105 TCATTAAAATAATATATATC
1 TAATTAAAATAATA-ATATC
13539125 TAATT-AAATAAT
1 TAATTAAAATAAT
13539137 CATAAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 5 0.18
19 14 0.50
20 9 0.32
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (19 bp):
TAATTAAAATAATAATATC
Found at i:13549461 original size:23 final size:23
Alignment explanation
Indices: 13549434--13549485 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
13549424 TGATTTAAAC
13549434 AAATACTT-ATATTTATATAAT-TA
1 AAATA-TTCATATTT-TATAATATA
*
13549457 AAATATTCATATTTTATATTATA
1 AAATATTCATATTTTATAATATA
13549480 AAATAT
1 AAATAT
13549486 GATTATTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 7 0.27
23 19 0.73
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (23 bp):
AAATATTCATATTTTATAATATA
Found at i:13549509 original size:28 final size:28
Alignment explanation
Indices: 13549472--13549542 Score: 69
Period size: 28 Copynumber: 2.6 Consensus size: 28
13549462 TTCATATTTT
**
13549472 ATATTATAAA-ATATGATTATTAATATTA
1 ATATTATAAATATAT-ATTAAGAATATTA
*
13549500 ATATTTTAAATATATATTAAGAATATT-
1 ATATTATAAATATATATTAAGAATATTA
*
13549527 AT-TTATAATTAT-TATT
1 ATATTATAAATATATATT
13549543 TTTAAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
25 4 0.11
26 8 0.22
27 2 0.05
28 19 0.51
29 4 0.11
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
ATATTATAAATATATATTAAGAATATTA
Found at i:13549542 original size:25 final size:24
Alignment explanation
Indices: 13549487--13549542 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
13549477 ATAAAATATG
* *
13549487 ATTATTAATATTAATATTTTAAAT
1 ATTATTAAGAATAATATTTTAAAT
* *
13549511 ATATATTAAGAATATTATTTATAATT
1 AT-TATTAAGAATAATATTT-TAAAT
13549537 ATTATT
1 ATTATT
13549543 TTTAAATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 2 0.08
25 18 0.69
26 6 0.23
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
ATTATTAAGAATAATATTTTAAAT
Found at i:13550528 original size:24 final size:24
Alignment explanation
Indices: 13550501--13550552 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
13550491 TTAGTAAGTC
13550501 AAATAAACTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
* *
13550525 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
13550549 AAAT
1 AAAT
13550553 CTTCTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:13552499 original size:24 final size:24
Alignment explanation
Indices: 13552472--13552523 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
13552462 TTAGTAAGTC
*
13552472 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
13552496 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
13552520 AAAT
1 AAAT
13552524 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:13562708 original size:33 final size:33
Alignment explanation
Indices: 13562648--13562721 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 33
13562638 AACTTGAGTT
* * * *
13562648 GGGAGGAGTGGAGTACTGCGATTGATACGGGTC
1 GGGAGGAGTAGAGTACGGCGATGGATACGGGCC
* *
13562681 GGGAGGAGTAGAGTACGGTGGTGGATACGGGCC
1 GGGAGGAGTAGAGTACGGCGATGGATACGGGCC
*
13562714 GGAAGGAG
1 GGGAGGAG
13562722 CGGAGCACTG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.23, C:0.11, G:0.50, T:0.16
Consensus pattern (33 bp):
GGGAGGAGTAGAGTACGGCGATGGATACGGGCC
Found at i:13565829 original size:4 final size:4
Alignment explanation
Indices: 13565816--13565887 Score: 50
Period size: 4 Copynumber: 19.2 Consensus size: 4
13565806 AATACATTAC
*
13565816 CTTT -TTT CTTT CTTT CTTT C-TT C-TT C-TT C-TT CTTT TTTT CTTAT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTT-T
* *
13565860 CCTTT CTCT CTTT -TTT -TTT CTCT CTTT C
1 -CTTT CTTT CTTT CTTT CTTT CTTT CTTT C
13565888 GGTGTGGATG
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
3 21 0.37
4 31 0.54
5 2 0.04
6 3 0.05
ACGTcount: A:0.01, C:0.26, G:0.00, T:0.72
Consensus pattern (4 bp):
CTTT
Found at i:13565866 original size:24 final size:25
Alignment explanation
Indices: 13565821--13565880 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 25
13565811 ATTACCTTTT
* *
13565821 TTCTTTCTTTCTTTCTTCTTCT-TC
1 TTCTTTTTTTCTTTCCTCTTCTCTC
13565845 TTCTTTTTTTCTTATCCT-TTCTCTC
1 TTCTTTTTTTCTT-TCCTCTTCTCTC
13565870 TT-TTTTTTTCT
1 TTCTTTTTTTCT
13565881 CTCTTTCGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 25 0.78
25 7 0.22
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.73
Consensus pattern (25 bp):
TTCTTTTTTTCTTTCCTCTTCTCTC
Found at i:13566035 original size:21 final size:21
Alignment explanation
Indices: 13566009--13566054 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
13565999 GCTTGGGGAG
13566009 GGGCAGCTGGGTTTACTGTTC
1 GGGCAGCTGGGTTTACTGTTC
13566030 GGGCAGCTGGGTTTACTGTTC
1 GGGCAGCTGGGTTTACTGTTC
13566051 GGGC
1 GGGC
13566055 TGCCCATTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.09, C:0.20, G:0.41, T:0.30
Consensus pattern (21 bp):
GGGCAGCTGGGTTTACTGTTC
Found at i:13566208 original size:16 final size:17
Alignment explanation
Indices: 13566184--13566233 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 17
13566174 TTTTAATAAA
*
13566184 AATAAAAAATAATATTT
1 AATATAAAATAATATTT
*
13566201 TAT-TAAAA-AA-ATTT
1 AATATAAAATAATATTT
13566215 AATATAAAATAATCATTT
1 AATATAAAATAAT-ATTT
13566233 A
1 A
13566234 CGCCTGTCAG
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
14 6 0.23
15 7 0.27
16 6 0.23
17 2 0.08
18 5 0.19
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (17 bp):
AATATAAAATAATATTT
Found at i:13579440 original size:52 final size:52
Alignment explanation
Indices: 13579357--13579572 Score: 327
Period size: 52 Copynumber: 4.3 Consensus size: 52
13579347 TCTGATCAAG
*
13579357 TGATAAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATC
1 TGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATC
13579409 TGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATC
1 TGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATC
* *
13579461 TGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATC
1 TGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATC
* **
13579513 TGATCAAGAGAC------AAAGTGATAAGTGATAGCTTTAGCTACACTTATC
1 TGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATC
*
13579559 TGATCAAGAGACAA
1 TGATCAAGTGACAA
13579573 AGTGATAAGT
Statistics
Matches: 155, Mismatches: 7, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
46 43 0.28
52 112 0.72
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (52 bp):
TGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATC
Found at i:13579556 original size:46 final size:46
Alignment explanation
Indices: 13579479--13579583 Score: 183
Period size: 46 Copynumber: 2.3 Consensus size: 46
13579469 TGACAAGTGA
* *
13579479 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC
*
13579525 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC
13579571 AAAGTGATAAGTG
1 AAAGTGATAAGTG
13579584 GCTACACTTA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 56 1.00
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC
Found at i:13579591 original size:37 final size:37
Alignment explanation
Indices: 13579547--13579655 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
13579537 GATAGCTTTA
13579547 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
13579584 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
13579621 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
13579656 ATCATACGTA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 52 0.78
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:13581277 original size:25 final size:25
Alignment explanation
Indices: 13581229--13581354 Score: 85
Period size: 25 Copynumber: 5.1 Consensus size: 25
13581219 TTCATGTATA
* * *
13581229 CTCATACGAGCTGTA-AACGAGAAG
1 CTCATCCGAGCTGAATAACGGGAAG
* *
13581253 CTCCTCCTAGCTGAATAACGGGAAG
1 CTCATCCGAGCTGAATAACGGGAAG
* * *
13581278 CTCATGCGAGCTGAGTAATGGGAAG
1 CTCATCCGAGCTGAATAACGGGAAG
* * ***
13581303 CTCATGCGAGCT-AAGTATCAATAAG
1 CTCATCCGAGCTGAA-TAACGGGAAG
* * *
13581328 CTCATGCGAGCTAAATATCGGGAAG
1 CTCATCCGAGCTGAATAACGGGAAG
13581353 CT
1 CT
13581355 TATGTGAGCT
Statistics
Matches: 80, Mismatches: 19, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
24 12 0.15
25 66 0.82
26 2 0.03
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (25 bp):
CTCATCCGAGCTGAATAACGGGAAG
Found at i:13581363 original size:25 final size:25
Alignment explanation
Indices: 13581261--13581365 Score: 104
Period size: 25 Copynumber: 4.2 Consensus size: 25
13581251 AGCTCCTCCT
* *
13581261 AGCTGAATAACGGGAAGCTCATGCG
1 AGCTAAATATCGGGAAGCTCATGCG
* *
13581286 AGCTGAGTAAT-GGGAAGCTCATGCG
1 AGCTAAAT-ATCGGGAAGCTCATGCG
* ***
13581311 AGCTAAGTATCAATAAGCTCATGCG
1 AGCTAAATATCGGGAAGCTCATGCG
* *
13581336 AGCTAAATATCGGGAAGCTTATGTG
1 AGCTAAATATCGGGAAGCTCATGCG
13581361 AGCTA
1 AGCTA
13581366 TGGCATGTAC
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
24 2 0.03
25 63 0.95
26 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (25 bp):
AGCTAAATATCGGGAAGCTCATGCG
Found at i:13582826 original size:47 final size:46
Alignment explanation
Indices: 13582718--13582827 Score: 143
Period size: 46 Copynumber: 2.4 Consensus size: 46
13582708 CCGGGATAAG
*
13582718 CACATAGTGCTTCATCGGAACAAATCCGGAACTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTAACAGTATAGTA
* * *
13582764 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAAC-TTAACAGTA-TAGTA
13582811 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
13582828 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
46 31 0.56
47 22 0.40
48 2 0.04
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (46 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTAACAGTATAGTA
Found at i:13583599 original size:4 final size:4
Alignment explanation
Indices: 13583590--13583618 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
13583580 CCCTTTTCTA
13583590 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
13583619 CACGTTTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:13591799 original size:21 final size:22
Alignment explanation
Indices: 13591760--13591800 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
13591750 TTACTAAATA
13591760 ATTTAAATATATGAAATATGCC
1 ATTTAAATATATGAAATATGCC
*
13591782 ATTTAAGTATAT-AAATATG
1 ATTTAAATATATGAAATATG
13591801 GGAGAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.39
Consensus pattern (22 bp):
ATTTAAATATATGAAATATGCC
Found at i:13604634 original size:25 final size:25
Alignment explanation
Indices: 13604602--13604655 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
13604592 TATAAATTAC
*
13604602 ATTAAAAAAACTAAATATATATCAAA
1 ATTAAAATAACTAAA-ATATATCAAA
* *
13604628 ATTAAAATAATTAAAATATATTAAA
1 ATTAAAATAACTAAAATATATCAAA
13604653 ATT
1 ATT
13604656 TATAAAATAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 12 0.48
26 13 0.52
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (25 bp):
ATTAAAATAACTAAAATATATCAAA
Found at i:13604661 original size:9 final size:10
Alignment explanation
Indices: 13604628--13604664 Score: 51
Period size: 9 Copynumber: 3.9 Consensus size: 10
13604618 ATATATCAAA
13604628 ATTAAAATA-
1 ATTAAAATAT
13604637 ATTAAAATAT
1 ATTAAAATAT
*
13604647 ATTAAAATTT
1 ATTAAAATAT
13604657 A-TAAAATA
1 ATTAAAATA
13604665 CAAATGATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 15 0.60
10 10 0.40
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:13611211 original size:22 final size:23
Alignment explanation
Indices: 13611171--13611213 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
13611161 TTCTAATCTA
13611171 TAATTTTTATTTATGAAAATTAT
1 TAATTTTTATTTATGAAAATTAT
13611194 TAATTTTT-TTTCAT-AAAATT
1 TAATTTTTATTT-ATGAAAATT
13611214 GTTATTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (23 bp):
TAATTTTTATTTATGAAAATTAT
Found at i:13617922 original size:21 final size:19
Alignment explanation
Indices: 13617897--13617944 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
13617887 ACTATAATTG
*
13617897 AAATAAAATATTTCAAAATA
1 AAATAAAAGATTT-AAAATA
*
13617917 CAAATAATAAGATTTAAATTA
1 -AAATAA-AAGATTTAAAATA
13617938 AAATAAA
1 AAATAAA
13617945 TCTATAGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 1 0.04
20 6 0.25
21 11 0.46
22 6 0.25
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (19 bp):
AAATAAAAGATTTAAAATA
Found at i:13618606 original size:21 final size:21
Alignment explanation
Indices: 13618581--13618623 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
13618571 AATATATTTT
*
13618581 TATTTAAA-TTTAATTATAAAA
1 TATTTAAACATTAA-TATAAAA
13618602 TATTTAAACATTAATATAAAA
1 TATTTAAACATTAATATAAAA
13618623 T
1 T
13618624 TATATATCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
TATTTAAACATTAATATAAAA
Found at i:13618716 original size:27 final size:28
Alignment explanation
Indices: 13618680--13618738 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 28
13618670 AATAGAATTT
13618680 TATATATATTT-AAAATTAATAATATTAA
1 TATATATATTTGAAAA-TAATAATATTAA
* *
13618708 TATAT-TATTTGTAAATATTAATATTAA
1 TATATATATTTGAAAATAATAATATTAA
13618735 TATA
1 TATA
13618739 AAATTGAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 20 0.71
28 8 0.29
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (28 bp):
TATATATATTTGAAAATAATAATATTAA
Found at i:13619034 original size:20 final size:20
Alignment explanation
Indices: 13619007--13619275 Score: 178
Period size: 20 Copynumber: 13.4 Consensus size: 20
13618997 TTTTTAACGG
*
13619007 TTACCAATAATTCTAAGGAT
1 TTACCAATAATTCTAACGAT
*
13619027 TTATCAATATATT-TAACGAT
1 TTACCAATA-ATTCTAACGAT
* * *
13619047 TTATCAATATTTCTAAGGAT
1 TTACCAATAATTCTAACGAT
* * *
13619067 ATATCAAT-ATATCTAACAAT
1 TTACCAATAAT-TCTAACGAT
* * *
13619087 TTGCAAAAAAATT-TAACGAT
1 TTAC-CAATAATTCTAACGAT
* * *
13619107 TTATCAATAATTGTAACAAT
1 TTACCAATAATTCTAACGAT
13619127 TTACCAA-AATATCTAACGAT
1 TTACCAATAAT-TCTAACGAT
* * *
13619147 TGACCAATAATTTTAAAGAT
1 TTACCAATAATTCTAACGAT
13619167 TTACCAA-AATATCTAACGAT
1 TTACCAATAAT-TCTAACGAT
*
13619187 TTACCAA-AATTTCTAAAGAT
1 TTACCAATAA-TTCTAACGAT
*
13619207 TTACCAATATATTGT-ACGAT
1 TTACCAATA-ATTCTAACGAT
* **
13619227 TTTCCAA-AATTTCTAATAAT
1 TTACCAATAA-TTCTAACGAT
* *
13619247 TTATCAA-AATATCTAATGAT
1 TTACCAATAAT-TCTAACGAT
13619267 TTACCAATA
1 TTACCAATA
13619276 TTTATGAGAC
Statistics
Matches: 194, Mismatches: 39, Indels: 31
0.73 0.15 0.12
Matches are distributed among these distances:
18 1 0.01
19 20 0.10
20 155 0.80
21 15 0.08
22 3 0.02
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (20 bp):
TTACCAATAATTCTAACGAT
Found at i:13619213 original size:60 final size:60
Alignment explanation
Indices: 13619007--13619276 Score: 219
Period size: 60 Copynumber: 4.5 Consensus size: 60
13618997 TTTTTAACGG
* * * * **
13619007 TTACCAATAAT-TCTAAGGATTTATCAATATA-TTTAACGATTTATCAATATTTCTAAGGAT
1 TTACCAA-AATATCTAAAGATTTACCAATATATTTTAACGATTTACCAA-AATTCTAACAAT
* * * * * * * * *
13619067 ATATCAATATATCTAACA-ATTT-GCAAAAAAATTTAACGATTTATCAATAATTGTAACAAT
1 TTACCAAAATATCTAA-AGATTTACCAATATATTTTAACGATTTACCAA-AATTCTAACAAT
* * * *
13619127 TTACCAAAATATCTAACGATTGACCAATA-ATTTTAAAGATTTACCAAAATATCTAACGAT
1 TTACCAAAATATCTAAAGATTTACCAATATATTTTAACGATTTACCAAAAT-TCTAACAAT
* * * *
13619187 TTACCAAAATTTCTAAAGATTTACCAATATATTGT-ACGATTTTCCAAAATTTCTAATAAT
1 TTACCAAAATATCTAAAGATTTACCAATATATTTTAACGATTTACCAAAA-TTCTAACAAT
* *
13619247 TTATCAAAATATCTAATGATTTACCAATAT
1 TTACCAAAATATCTAAAGATTTACCAATAT
13619277 TTATGAGACT
Statistics
Matches: 168, Mismatches: 34, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
59 10 0.06
60 149 0.89
61 9 0.05
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (60 bp):
TTACCAAAATATCTAAAGATTTACCAATATATTTTAACGATTTACCAAAATTCTAACAAT
Found at i:13619291 original size:40 final size:40
Alignment explanation
Indices: 13619007--13619278 Score: 207
Period size: 40 Copynumber: 6.8 Consensus size: 40
13618997 TTTTTAACGG
* * *
13619007 TTACCAATAAT-TCTAAGGATTTATCAATATATT-TAACGAT
1 TTACCAA-AATATCTAACGATTTACCAATAT-TTCTAAAGAT
* * * * * * *
13619047 TTATCAATATTTCTAAGGATATATCAATATATCTAACA-AT
1 TTACCAAAATATCTAACGATTTACCAATATTTCTAA-AGAT
* * * * * * *
13619087 TTGCAAAAAAATTTAACGATTTATCAATAATTGTAACA-AT
1 TTACCAAAATATCTAACGATTTACCAATATTTCTAA-AGAT
*
13619127 TTACCAAAATATCTAACGATTGACCAATAATTT-TAAAGAT
1 TTACCAAAATATCTAACGATTTACCAAT-ATTTCTAAAGAT
*
13619167 TTACCAAAATATCTAACGATTTACCAAAATTTCTAAAGAT
1 TTACCAAAATATCTAACGATTTACCAATATTTCTAAAGAT
* * * *
13619207 TTACCAATATAT-TGTACGATTTTCCAAAATTTCTAATA-AT
1 TTACCAAAATATCT-AACGATTTACCAATATTTCTAA-AGAT
* *
13619247 TTATCAAAATATCTAATGATTTACCAATATTT
1 TTACCAAAATATCTAACGATTTACCAATATTT
13619279 ATGAGACTTT
Statistics
Matches: 188, Mismatches: 35, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
39 9 0.05
40 174 0.93
41 5 0.03
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.38
Consensus pattern (40 bp):
TTACCAAAATATCTAACGATTTACCAATATTTCTAAAGAT
Found at i:13619319 original size:20 final size:20
Alignment explanation
Indices: 13618968--13619319 Score: 123
Period size: 20 Copynumber: 17.6 Consensus size: 20
13618958 ATCTTAGTAA
*
13618968 TTATCAAAATTTCT-ATGACT
1 TTATCAATATTTCTAATGA-T
* * * *
13618988 TTATCAAAATTTTTAACG-G
1 TTATCAATATTTCTAATGAT
* * *
13619007 TTACCAATAATTCTAAGGAT
1 TTATCAATATTTCTAATGAT
*
13619027 TTATCAATATATT-TAACGAT
1 TTATCAATAT-TTCTAATGAT
*
13619047 TTATCAATATTTCTAAGGAT
1 TTATCAATATTTCTAATGAT
* * **
13619067 ATATCAATATATCTAACAAT
1 TTATCAATATTTCTAATGAT
* * * *
13619087 TTGCA-AAAAAATT-TAACGAT
1 TT--ATCAATATTTCTAATGAT
* * **
13619107 TTATCAATAATTGTAACAAT
1 TTATCAATATTTCTAATGAT
* * * *
13619127 TTACCAAAATATCTAACGAT
1 TTATCAATATTTCTAATGAT
* * *
13619147 TGACCAATAATTT-TAAAGAT
1 TTATCAAT-ATTTCTAATGAT
* * * *
13619167 TTACCAAAATATCTAACGAT
1 TTATCAATATTTCTAATGAT
* * *
13619187 TTACCAAAATTTCTAAAGAT
1 TTATCAATATTTCTAATGAT
* * *
13619207 TTACCAATATATTGT-ACGAT
1 TTATCAATAT-TTCTAATGAT
* *
13619227 TT-TCCAAAATTTCTAATAAT
1 TTAT-CAATATTTCTAATGAT
* *
13619247 TTATCAAAATATCTAATGAT
1 TTATCAATATTTCTAATGAT
* * *
13619267 TTACCAATATTTATGA-GACT
1 TTATCAATATTTCTAATGA-T
13619287 TTATCCAAT-TTTCT-ATGATT
1 TTAT-CAATATTTCTAATGA-T
13619307 TTATCAATATTTC
1 TTATCAATATTTC
13619320 CAAAATTTCT
Statistics
Matches: 254, Mismatches: 60, Indels: 36
0.73 0.17 0.10
Matches are distributed among these distances:
18 1 0.00
19 34 0.13
20 199 0.78
21 19 0.07
22 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.06, T:0.40
Consensus pattern (20 bp):
TTATCAATATTTCTAATGAT
Found at i:13619404 original size:20 final size:20
Alignment explanation
Indices: 13619378--13619441 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 20
13619368 TGAATTTGTT
13619378 AAAATATCTAATGATTTACC
1 AAAATATCTAATGATTTACC
* **
13619398 AATATATCTAACAATTTACC
1 AAAATATCTAATGATTTACC
* * *
13619418 AAAATTTCTATTGATTTATC
1 AAAATATCTAATGATTTACC
13619438 AAAA
1 AAAA
13619442 CTTTTGAGAT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.45, C:0.14, G:0.03, T:0.38
Consensus pattern (20 bp):
AAAATATCTAATGATTTACC
Found at i:13619583 original size:40 final size:40
Alignment explanation
Indices: 13619539--13619614 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
13619529 CACTTCACCT
* *
13619539 ATATTTCTAATGATTTACCAAAATTTTTAAGATTTTGTCA
1 ATATTTCTAATGATTCACCAAAATTTATAAGATTTTGTCA
13619579 ATATTTCTAATGATTCACCAAAATTTATAAGATTTT
1 ATATTTCTAATGATTCACCAAAATTTATAAGATTTT
13619615 ACCGATATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.46
Consensus pattern (40 bp):
ATATTTCTAATGATTCACCAAAATTTATAAGATTTTGTCA
Found at i:13619623 original size:40 final size:40
Alignment explanation
Indices: 13619539--13619624 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 40
13619529 CACTTCACCT
* * **
13619539 ATATTTCTAATGATTTACCAAAATTTTTAAGATTTTGTCA
1 ATATTTCTAATGATTCACCAAAATTTATAAGATTTTACCA
*
13619579 ATATTTCTAATGATTCACCAAAATTTATAAGATTTTACCG
1 ATATTTCTAATGATTCACCAAAATTTATAAGATTTTACCA
13619619 ATATTT
1 ATATTT
13619625 GCAAAATTTC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (40 bp):
ATATTTCTAATGATTCACCAAAATTTATAAGATTTTACCA
Found at i:13619766 original size:16 final size:16
Alignment explanation
Indices: 13619745--13619775 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13619735 GTTCACTGGA
*
13619745 ATAGAATAATGTTGTC
1 ATAGAATAAAGTTGTC
13619761 ATAGAATAAAGTTGT
1 ATAGAATAAAGTTGT
13619776 GATCAATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.03, G:0.19, T:0.35
Consensus pattern (16 bp):
ATAGAATAAAGTTGTC
Found at i:13623304 original size:11 final size:11
Alignment explanation
Indices: 13623269--13623304 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
13623259 TTTATAAGAA
*
13623269 TTTACCAAAAC
1 TTTACCAAAAT
13623280 TTTACCAAATAT
1 TTTACCAAA-AT
13623292 TTTACCAAAAT
1 TTTACCAAAAT
13623303 TT
1 TT
13623305 CAAACCATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.39
Consensus pattern (11 bp):
TTTACCAAAAT
Found at i:13623358 original size:25 final size:26
Alignment explanation
Indices: 13623311--13623360 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
13623301 ATTTCAAACC
*
13623311 ATTTACCAATATTTATATTGATTTACA
1 ATTTACC-ATATTTATATGGATTTACA
*
13623338 ATTTACC-TATTTTTATGGATTTA
1 ATTTACCATATTTATATGGATTTA
13623361 TCAACACTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 14 0.67
27 7 0.33
ACGTcount: A:0.32, C:0.10, G:0.06, T:0.52
Consensus pattern (26 bp):
ATTTACCATATTTATATGGATTTACA
Found at i:13623441 original size:20 final size:20
Alignment explanation
Indices: 13623398--13623441 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
13623388 ATCTAAGATT
* * *
13623398 TTACCAATATTTTTATTAAT
1 TTACCAATATTTATATGAAC
*
13623418 TTACCAGTATTTATATGAAC
1 TTACCAATATTTATATGAAC
13623438 TTAC
1 TTAC
13623442 TAAAATATCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.14, G:0.05, T:0.48
Consensus pattern (20 bp):
TTACCAATATTTATATGAAC
Found at i:13623480 original size:21 final size:20
Alignment explanation
Indices: 13623438--13623479 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
13623428 TTATATGAAC
*
13623438 TTACTAAAATATCTAACATT
1 TTACTAAAAGATCTAACATT
13623458 TTACTAAAAAGAT-TAACATT
1 TTACT-AAAAGATCTAACATT
13623478 TT
1 TT
13623480 TGGACTTATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.40
Consensus pattern (20 bp):
TTACTAAAAGATCTAACATT
Found at i:13623582 original size:107 final size:107
Alignment explanation
Indices: 13623382--13623587 Score: 240
Period size: 107 Copynumber: 1.9 Consensus size: 107
13623372 TTAGATTTGC
* * *
13623382 CAAAATATCTAAGATTTTACCAATATTTTTATTAATTTACCAGTATTTATATGAACTTACTAAAA
1 CAAAATATCTAAGACTTTACCAATATTTTTATTAATTTACCAATATCTATATGAACTTACTAAAA
* *
13623447 TATCTAACATTTTACTAAAAAGATTAACATTTTTGGACTTAT
66 TATCTAAAAATTTACTAAAAAGATTAACATTTTTGGACTTAT
* * * *
13623489 CAAAATATTTAAGACTTTATCAATATTTTTATTGATTTACCAATATCTA-AT-AATTTAC-AGAA
1 CAAAATATCTAAGACTTTACCAATATTTTTATTAATTTACCAATATCTATATGAACTTACTA-AA
* * *
13623551 ATATTTATATAAATTTA-TCAAAATATCTAACATTTTT
65 ATATCTA-A-AAATTTACTAAAAAGAT-TAACATTTTT
13623588 ATCAATATAT
Statistics
Matches: 83, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
104 1 0.01
105 14 0.17
106 10 0.12
107 58 0.70
ACGTcount: A:0.41, C:0.11, G:0.04, T:0.43
Consensus pattern (107 bp):
CAAAATATCTAAGACTTTACCAATATTTTTATTAATTTACCAATATCTATATGAACTTACTAAAA
TATCTAAAAATTTACTAAAAAGATTAACATTTTTGGACTTAT
Found at i:13623590 original size:21 final size:21
Alignment explanation
Indices: 13623564--13623603 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13623554 TTTATATAAA
*
13623564 TTTATCAAAATATCTAACATT
1 TTTATCAAAATATATAACATT
*
13623585 TTTATCAATATATATAACA
1 TTTATCAAAATATATAACA
13623604 ATTTACCGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (21 bp):
TTTATCAAAATATATAACATT
Found at i:13631537 original size:8 final size:8
Alignment explanation
Indices: 13631526--13631551 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
13631516 TAATTTTTTG
13631526 AATTTTAA
1 AATTTTAA
13631534 AATTTTAA
1 AATTTTAA
13631542 AATTTTAA
1 AATTTTAA
13631550 AA
1 AA
13631552 AATTAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (8 bp):
AATTTTAA
Found at i:13632418 original size:14 final size:15
Alignment explanation
Indices: 13632385--13632420 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
13632375 AGTTTTAAAC
13632385 AAAAATGAATATTGT
1 AAAAATGAATATTGT
*
13632400 AAAAATGTATATTGT
1 AAAAATGAATATTGT
13632415 AAAAAT
1 AAAAAT
13632421 ATTAATTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (15 bp):
AAAAATGAATATTGT
Found at i:13648867 original size:22 final size:22
Alignment explanation
Indices: 13648842--13648896 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
13648832 TCTTTATAGT
** *
13648842 TTATAAAATTTTAAATTAGTAA
1 TTATAAAATTACAAATCAGTAA
*
13648864 TTATAAAATTACATATCAGTAA
1 TTATAAAATTACAAATCAGTAA
13648886 TTATAAAATTA
1 TTATAAAATTA
13648897 TACTTTAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.42
Consensus pattern (22 bp):
TTATAAAATTACAAATCAGTAA
Found at i:13650090 original size:31 final size:30
Alignment explanation
Indices: 13650044--13650103 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
13650034 ATAATAATTA
* *
13650044 AATTTATACGTGAATTTTGGTTTAATGTAT
1 AATTTATACATGAATTTTGATTTAATGTAT
*
13650074 AATTTGATACATGAATTTTGATTTTATGTA
1 AATTT-ATACATGAATTTTGATTTAATGTA
13650104 ATTATAGACA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 5 0.19
31 21 0.81
ACGTcount: A:0.32, C:0.03, G:0.15, T:0.50
Consensus pattern (30 bp):
AATTTATACATGAATTTTGATTTAATGTAT
Found at i:13650629 original size:7 final size:7
Alignment explanation
Indices: 13650617--13650642 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
13650607 AAAAATTTTA
13650617 TTTTTCT
1 TTTTTCT
13650624 TTTTTCT
1 TTTTTCT
13650631 TTTTTCT
1 TTTTTCT
13650638 TTTTT
1 TTTTT
13650643 GAATGATAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTCT
Found at i:13664466 original size:11 final size:12
Alignment explanation
Indices: 13664439--13664472 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
13664429 GGCCCGCCCG
13664439 TATTAATTTTTTA
1 TATT-ATTTTTTA
13664452 TATTATTTTTT-
1 TATTATTTTTTA
13664463 TATTATTTTT
1 TATTATTTTT
13664473 AAATATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.48
12 7 0.33
13 4 0.19
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TATTATTTTTTA
Found at i:13669218 original size:5 final size:5
Alignment explanation
Indices: 13669208--13669233 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
13669198 GAGTGTTGGT
13669208 ATAGA ATAGA ATAGA ATAGA ATAGA A
1 ATAGA ATAGA ATAGA ATAGA ATAGA A
13669234 GTGAGTTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.19, T:0.19
Consensus pattern (5 bp):
ATAGA
Found at i:13684391 original size:29 final size:30
Alignment explanation
Indices: 13684359--13684424 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
13684349 AAATATACTT
* *
13684359 TTTTTAATAATTTATATTTATT-TTAAAAA
1 TTTTTAATAATTTAGAATTATTGTTAAAAA
** *
13684388 TTTTTAATTTTTTAGAATTATTGTTAATAA
1 TTTTTAATAATTTAGAATTATTGTTAAAAA
13684418 TTTTTAA
1 TTTTTAA
13684425 AAAAATCAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 18 0.58
30 13 0.42
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (30 bp):
TTTTTAATAATTTAGAATTATTGTTAAAAA
Found at i:13686318 original size:17 final size:17
Alignment explanation
Indices: 13686296--13686339 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
13686286 CCATGTTAGT
13686296 CTTTTTTTTTTTTTTTA
1 CTTTTTTTTTTTTTTTA
***
13686313 CTTTTTAACTTTTTTTA
1 CTTTTTTTTTTTTTTTA
13686330 CTTTTCTTTT
1 CTTTT-TTTT
13686340 GTCTGTTTCT
Statistics
Matches: 20, Mismatches: 6, Indels: 1
0.74 0.22 0.04
Matches are distributed among these distances:
17 19 0.95
18 1 0.05
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (17 bp):
CTTTTTTTTTTTTTTTA
Found at i:13686360 original size:4 final size:4
Alignment explanation
Indices: 13686351--13686380 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
13686341 TCTGTTTCTC
13686351 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
13686381 ATTATTAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:13686454 original size:25 final size:24
Alignment explanation
Indices: 13686404--13686454 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
13686394 AAAATTTTGA
*
13686404 AATATATATTTGAAATATTTTATT
1 AATATATATTTGAAATACTTTATT
13686428 AATATATATTTTGAAATTACTTT-TT
1 AATATATA-TTTGAAA-TACTTTATT
13686453 AA
1 AA
13686455 AATTTTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 8 0.33
25 11 0.46
26 5 0.21
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (24 bp):
AATATATATTTGAAATACTTTATT
Found at i:13686473 original size:22 final size:21
Alignment explanation
Indices: 13686435--13686489 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
13686425 ATTAATATAT
*
13686435 ATTTTGAA-ATTACTTTTTAAA
1 ATTTTAAATATTACTTTTT-AA
* *
13686456 ATTTTAAATATTATTTTTTTA
1 ATTTTAAATATTACTTTTTAA
13686477 ATATTTAAATATT
1 AT-TTTAAATATT
13686490 TTAAACTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 10 0.34
22 19 0.66
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
ATTTTAAATATTACTTTTTAA
Found at i:13686494 original size:31 final size:31
Alignment explanation
Indices: 13686449--13686570 Score: 92
Period size: 31 Copynumber: 3.8 Consensus size: 31
13686439 TGAAATTACT
13686449 TTTTAAA-ATTTTAAATATTATTT-TTTTAA
1 TTTTAAATATTTTAAATATTATTTATTTTAA
*
13686478 TATTTAAATATTTTAAACT-TTCAAATTTGTTATTAA
1 T-TTTAAATATTTTAAA-TATT---ATTTATT-TTAA
* * *
13686514 TTTTATAATAATTTAAATATTATTTAATTT-G
1 TTTTA-AATATTTTAAATATTATTTATTTTAA
13686545 TTTTATAATATTTTAAATTATT-TTTA
1 TTTTA-AATATTTTAAA-TATTATTTA
13686571 AAGATATTTA
Statistics
Matches: 77, Mismatches: 5, Indels: 20
0.75 0.05 0.20
Matches are distributed among these distances:
29 1 0.01
30 6 0.08
31 30 0.39
32 7 0.09
33 5 0.06
34 4 0.05
35 7 0.09
36 17 0.22
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (31 bp):
TTTTAAATATTTTAAATATTATTTATTTTAA
Found at i:13686549 original size:21 final size:21
Alignment explanation
Indices: 13686525--13686604 Score: 60
Period size: 21 Copynumber: 3.8 Consensus size: 21
13686515 TTTATAATAA
13686525 TTTAAATATTATTTAATT-TGT
1 TTTAAATATTATTTAATTAT-T
*
13686546 TTTATAATATT-TTAAATTATT
1 TTTA-AATATTATTTAATTATT
* *
13686567 TTTAAAGA-TATTTAAACTATTT
1 TTTAAATATTATTT-AATTA-TT
13686589 TTTAAAT-TCTATTTAA
1 TTTAAATAT-TATTTAA
13686605 AATTTAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
19 1 0.02
20 5 0.11
21 19 0.40
22 17 0.36
23 5 0.11
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (21 bp):
TTTAAATATTATTTAATTATT
Found at i:13686777 original size:26 final size:28
Alignment explanation
Indices: 13686748--13686800 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 28
13686738 TTTGTTAAGT
13686748 TTTATATT-TTTTCTTGTT-TT-ATTTTG
1 TTTAT-TTATTTTCTTGTTATTAATTTTG
*
13686774 TTTATTTATTTTTTTGTTATTAATTTT
1 TTTATTTATTTTCTTGTTATTAATTTT
13686801 AAAAAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 2 0.09
26 14 0.61
27 2 0.09
28 5 0.22
ACGTcount: A:0.15, C:0.02, G:0.06, T:0.77
Consensus pattern (28 bp):
TTTATTTATTTTCTTGTTATTAATTTTG
Found at i:13686880 original size:22 final size:21
Alignment explanation
Indices: 13686846--13686903 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
13686836 ATATATATAT
13686846 TTTTTTAAA--ATTTTAAATA
1 TTTTTTAAATTATTTTAAATA
13686865 TTATTTTAAATTATTTTTAAA-A
1 TT-TTTTAAATTA-TTTTAAATA
*
13686887 TTTTGTTATATTATTTT
1 TTTT-TTAAATTATTTT
13686904 TTTAGACATT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
19 2 0.06
20 7 0.21
21 6 0.18
22 11 0.33
23 7 0.21
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTTTTAAATTATTTTAAATA
Found at i:13686904 original size:22 final size:23
Alignment explanation
Indices: 13686856--13686904 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
13686846 TTTTTTAAAA
13686856 TTTTAAATATTATTTTAAATTAT
1 TTTTAAATATTATTTTAAATTAT
*
13686879 TTTTAAA-ATT-TTGTTATATTAT
1 TTTTAAATATTATT-TTAAATTAT
13686901 TTTT
1 TTTT
13686905 TTAGACATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 2 0.08
22 15 0.62
23 7 0.29
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTTAAATATTATTTTAAATTAT
Found at i:13687011 original size:19 final size:21
Alignment explanation
Indices: 13686987--13687035 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
13686977 TTATTAGTTT
13686987 TTTAA-TATTTT-TAATATTA
1 TTTAATTATTTTATAATATTA
13687006 TTTAATTTATTTTATAATATT-
1 TTTAA-TTATTTTATAATATTA
*
13687027 TTAAATTAT
1 TTTAATTAT
13687036 AATTTTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 4 0.15
21 10 0.38
22 7 0.27
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTAATTATTTTATAATATTA
Found at i:13687029 original size:10 final size:9
Alignment explanation
Indices: 13686985--13687028 Score: 52
Period size: 9 Copynumber: 4.4 Consensus size: 9
13686975 TATTATTAGT
13686985 TTTTTAATA
1 TTTTTAATA
13686994 TTTTTAATA
1 TTTTTAATA
13687003 TTATTTAATTTA
1 TT-TTTAA--TA
13687015 TTTTATAATA
1 TTTT-TAATA
13687025 TTTT
1 TTTT
13687029 AAATTATAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
9 11 0.35
10 11 0.35
11 2 0.06
12 7 0.23
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTTTAATA
Found at i:13687029 original size:20 final size:21
Alignment explanation
Indices: 13686992--13687035 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
13686982 AGTTTTTTAA
*
13686992 TATTTTTAATATTATTTAATT
1 TATTTTTAATATTATTTAAAT
13687013 TATTTTATAATA-T-TTTAAAT
1 TATTTT-TAATATTATTTAAAT
13687033 TAT
1 TAT
13687036 AATTTTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 7 0.33
22 5 0.24
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TATTTTTAATATTATTTAAAT
Found at i:13687042 original size:14 final size:15
Alignment explanation
Indices: 13687017--13687049 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
13687007 TTAATTTATT
13687017 TTATAATATTTTAAA
1 TTATAATATTTTAAA
13687032 TTATAAT-TTTTAAA
1 TTATAATATTTTAAA
13687046 TTAT
1 TTAT
13687050 TTTTAGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATAATATTTTAAA
Found at i:13687297 original size:22 final size:23
Alignment explanation
Indices: 13687259--13687314 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 23
13687249 AAAAGTTTAA
13687259 AATATTT-AAATAGTAAAAAAAT
1 AATATTTAAAATAGTAAAAAAAT
* *
13687281 AATATTTAAAAT-TTAAAAAAGT
1 AATATTTAAAATAGTAAAAAAAT
*
13687303 AAT-TTCAAAATA
1 AATATTTAAAATA
13687315 TATATTAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 7 0.24
22 18 0.62
23 4 0.14
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.34
Consensus pattern (23 bp):
AATATTTAAAATAGTAAAAAAAT
Found at i:13687386 original size:10 final size:9
Alignment explanation
Indices: 13687368--13687400 Score: 50
Period size: 10 Copynumber: 3.7 Consensus size: 9
13687358 AGTTAATGAT
13687368 AATAAATAA
1 AATAAATAA
13687377 AATGAAATAA
1 AAT-AAATAA
13687387 AATAAAT-A
1 AATAAATAA
13687395 AATAAA
1 AATAAA
13687401 GAGAAAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 7 0.30
9 7 0.30
10 9 0.39
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (9 bp):
AATAAATAA
Found at i:13688812 original size:7 final size:7
Alignment explanation
Indices: 13688800--13688829 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
13688790 TTTAATCTTA
13688800 CATTCAC
1 CATTCAC
13688807 CATTCAC
1 CATTCAC
13688814 CATTCAC
1 CATTCAC
13688821 CATTCAC
1 CATTCAC
13688828 CA
1 CA
13688830 ATACCATTAA
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:0.43, G:0.00, T:0.27
Consensus pattern (7 bp):
CATTCAC
Found at i:13694259 original size:21 final size:23
Alignment explanation
Indices: 13694235--13694278 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
13694225 ATGAAATTAT
13694235 ATTTAAT-AATAAT-TATTTTAA
1 ATTTAATAAATAATATATTTTAA
* *
13694256 ATTTATTAAATCATATATTTTAA
1 ATTTAATAAATAATATATTTTAA
13694279 TTAAAATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 6 0.32
22 5 0.26
23 8 0.42
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
ATTTAATAAATAATATATTTTAA
Found at i:13694505 original size:137 final size:138
Alignment explanation
Indices: 13694353--13694618 Score: 410
Period size: 137 Copynumber: 1.9 Consensus size: 138
13694343 TAAGAATATG
* *
13694353 AATTATTAAGAATTTTATTAAATTATATACCAAAATTATAATGTATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATGCATTTAATAATAATTATGTTTA
* * * *
13694418 AATATGATTAA-ATTATTTATTATTTATATTATTAATCTTATTAAAATTTAAATAACAATAACAA
66 AATATGATTAAGA-TATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
13694482 ATTTCTGCT
130 ATTTCTGCT
****
13694491 AATTA-TAAGAATTTTATTAAATTATATATTTTAATTAAAATGCATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATGCATTTAATAATAATTATGTTTA
*
13694555 AATATGATTAAGATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAA
66 AATATGATTAAGATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
13694619 TAATCATTTA
Statistics
Matches: 116, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
137 110 0.95
138 6 0.05
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (138 bp):
AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATGCATTTAATAATAATTATGTTTA
AATATGATTAAGATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAA
TTTCTGCT
Found at i:13694567 original size:67 final size:68
Alignment explanation
Indices: 13694357--13694576 Score: 161
Period size: 67 Copynumber: 3.2 Consensus size: 68
13694347 AATATGAATT
**** *
13694357 ATTAAGAAT-TTTATTAAATTATATACCAAAATTATAATGTATTTAATAATAATTATGTTTAAAT
1 ATTAAGAATATTTATTAAATTATATATTTTAATTAAAATGTATTTAATAATAATTATGTTTAAAT
13694421 ATG
66 ATG
* * * * ** * **
13694424 ATTAA-ATTATTTATT-ATTTATATTATTAATCTTATTAAAATTTAAATAACAATAACAAAT-TT
1 ATTAAGAATATTTATTAAATTATA-TATT--T-TAATTAAAATGTATTTAATAATAA-TTATGTT
*
13694486 CTGCTAAT-T-
61 -T--AAATATG
*
13694495 A-TAAGAAT-TTTATTAAATTATATATTTTAATTAAAATGCATTTAATAATAATTATGTTTAAAT
1 ATTAAGAATATTTATTAAATTATATATTTTAATTAAAATGTATTTAATAATAATTATGTTTAAAT
13694558 ATG
66 ATG
13694561 ATTAAG-ATATTTATTA
1 ATTAAGAATATTTATTA
13694577 CTGATAATAA
Statistics
Matches: 111, Mismatches: 26, Indels: 32
0.66 0.15 0.19
Matches are distributed among these distances:
64 3 0.03
65 1 0.01
66 14 0.13
67 44 0.40
68 1 0.01
70 32 0.29
71 12 0.11
72 1 0.01
73 3 0.03
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.47
Consensus pattern (68 bp):
ATTAAGAATATTTATTAAATTATATATTTTAATTAAAATGTATTTAATAATAATTATGTTTAAAT
ATG
Found at i:13694651 original size:137 final size:136
Alignment explanation
Indices: 13694363--13694799 Score: 380
Period size: 137 Copynumber: 3.1 Consensus size: 136
13694353 AATTATTAAG
**** * *
13694363 AATTTTATTAAATTATATACCAAAATTATAATGTATTTAATAATAATTATGTTTAAATATGATTA
1 AATTTTATTAAATTATATATTTTAATTAAAATGCATTTAATAATAATTATGTTTAAATATGATTA
* * * * *
13694428 AATTATTTATTATTTATATTATTAATCTTATTAAAATTTAAATAACAATAACAAATTTCTGCTAA
66 AATTATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAATATCT-CTAA
** * *
13694493 TTATAAG
130 CCAAAAC
13694500 AATTTTATTAAATTATATATTTTAATTAAAATGCATTTAATAATAATTATGTTTAAATATGATTA
1 AATTTTATTAAATTATATATTTTAATTAAAATGCATTTAATAATAATTATGTTTAAATATGATTA
*
13694565 AGA-TATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAAC-AATAATCAT-T
66 A-ATTATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAAT-ATC-TCT
*
13694627 TACCAAAAC
128 AACCAAAAC
* * ** *
13694636 AATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATTATA
1 AA--TT-T--T-A-T-T-A-AA--TTA-TATATT-T-TA-ATT-A---AAATGCATTTAATAATA
*
13694701 ATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAA
46 ATTATGTTTAAATATGATTAAATTATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAA
* *
13694766 CAATAA-TAATAATCAT-TTACCAAAAC
111 CAATAACAAAT-ATC-TCTAACCAAAAC
13694792 AATTTTAT
1 AATTTTAT
13694800 GCTAAGGGTA
Statistics
Matches: 252, Mismatches: 23, Indels: 38
0.81 0.07 0.12
Matches are distributed among these distances:
136 10 0.04
137 106 0.42
138 4 0.02
139 1 0.00
141 1 0.00
142 1 0.00
143 1 0.00
144 1 0.00
145 1 0.00
146 2 0.01
148 3 0.01
149 6 0.02
150 2 0.01
151 3 0.01
152 2 0.01
153 2 0.01
154 2 0.01
155 1 0.00
156 103 0.41
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (136 bp):
AATTTTATTAAATTATATATTTTAATTAAAATGCATTTAATAATAATTATGTTTAAATATGATTA
AATTATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAATATCTCTAAC
CAAAAC
Found at i:13694655 original size:156 final size:156
Alignment explanation
Indices: 13694477--13694804 Score: 584
Period size: 156 Copynumber: 2.1 Consensus size: 156
13694467 AAATAACAAT
* *
13694477 AACAAATTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATGCATTTAATA
1 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATACATTTAATA
*
13694542 ATAATTATGTTTAAATATGATTAAGATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
66 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
*
13694607 TAACATTAACAATAATCATTTACCAA
131 TAACAATAACAATAATCATTTACCAA
* *
13694633 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATT
1 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATACATTTAATA
13694698 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
66 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
*
13694763 TAACAATAATAATAATCATTTACCAA
131 TAACAATAACAATAATCATTTACCAA
*
13694789 AACAATTTTATGCTAA
1 AACAATTTTCTGCTAA
13694805 GGGTATTTTA
Statistics
Matches: 164, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
156 164 1.00
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.43
Consensus pattern (156 bp):
AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATACATTTAATA
ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
TAACAATAACAATAATCATTTACCAA
Found at i:13694685 original size:18 final size:18
Alignment explanation
Indices: 13694657--13694705 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 18
13694647 AATTATAAGA
13694657 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
13694674 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
13694690 A-TTTAATTATAATTAT
1 ATTTTAATTA-AATTAT
13694706 GTTTAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 8 0.29
16 7 0.25
17 5 0.18
18 8 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:13694691 original size:16 final size:16
Alignment explanation
Indices: 13694657--13694711 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
13694647 AATTATAAGA
13694657 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
13694674 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
13694690 A-TTTAATTATAAT-T
1 ATTTTAATTAAAATAT
13694704 ATGTTTAA
1 AT-TTTAA
13694712 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:13694951 original size:17 final size:16
Alignment explanation
Indices: 13694917--13694969 Score: 88
Period size: 16 Copynumber: 3.2 Consensus size: 16
13694907 GATTAGCTAT
13694917 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
13694933 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
*
13694950 TACACCTCTAATTCAA
1 TACACCTCTAATCCAA
13694966 TACA
1 TACA
13694970 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
16 19 0.54
17 16 0.46
ACGTcount: A:0.38, C:0.36, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:13695279 original size:16 final size:16
Alignment explanation
Indices: 13695257--13695325 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
13695247 TTTGGTTCGC
13695257 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
13695273 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
13695289 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
13695306 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
13695322 TGTA
1 TGTA
13695326 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:13695303 original size:33 final size:32
Alignment explanation
Indices: 13695257--13695325 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
13695247 TTTGGTTCGC
13695257 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
*
13695289 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGCGTATTGGATTAGAGG
13695322 TGTA
1 TGTA
13695326 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTGGATTAGAGG
Found at i:13695390 original size:44 final size:45
Alignment explanation
Indices: 13695306--13695396 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
13695296 GGATTAGAGG
* * *
13695306 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
13695351 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
13695395 TG
1 TG
13695397 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:13695757 original size:120 final size:120
Alignment explanation
Indices: 13695544--13696011 Score: 884
Period size: 120 Copynumber: 3.9 Consensus size: 120
13695534 ATCATATTTA
*
13695544 AACATAATTATTATTAAATATATTTTAATTACAA-TATATAATTTAATAAAATTCTTAATAATTA
1 AACATAATTATTATTAAATATATTTTAATTA-AACTATATAATTTAAAAAAATTCTTAATAATTA
*
13695608 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
65 ATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
13695664 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
13695729 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
13695784 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
13695849 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
13695904 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
**
13695969 TGCTCTTATATTAATTTACTCAAATCATAATATATGATACTGT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGT
13696012 TGATGCTAGT
Statistics
Matches: 343, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
119 2 0.01
120 341 0.99
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:13706923 original size:22 final size:21
Alignment explanation
Indices: 13706885--13706925 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
13706875 TTTTTTTGCA
* *
13706885 TTTAGGGATAGGGTTTAGGGT
1 TTTAAGGATAGGATTTAGGGT
13706906 TTTAAGGATTAGGATTTAGG
1 TTTAAGGA-TAGGATTTAGG
13706926 ATTTAGGGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.24, C:0.00, G:0.37, T:0.39
Consensus pattern (21 bp):
TTTAAGGATAGGATTTAGGGT
Found at i:13706930 original size:21 final size:21
Alignment explanation
Indices: 13706884--13706930 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
13706874 ATTTTTTTGC
* *
13706884 ATTTAGGGATAGGGTTTAGGG
1 ATTTAAGGATAGGATTTAGGG
*
13706905 TTTTAAGGATTAGGATTTA-GG
1 ATTTAAGGA-TAGGATTTAGGG
13706926 ATTTA
1 ATTTA
13706931 GGGTTTTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.28, C:0.00, G:0.32, T:0.40
Consensus pattern (21 bp):
ATTTAAGGATAGGATTTAGGG
Found at i:13707193 original size:28 final size:28
Alignment explanation
Indices: 13707131--13707201 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 28
13707121 TTCTGCAGTA
13707131 GTTTCTGAAAAAATAAATTAGAAAAGAC
1 GTTTCTGAAAAAATAAATTAGAAAAGAC
* * * *
13707159 GTATCTGAAAAAATAATTTTGAGAAA-AT
1 GTTTCTGAAAAAATAAATTAGA-AAAGAC
*
13707187 GTTTCTGAACAAATA
1 GTTTCTGAAAAAATA
13707202 GTGTCAAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
28 33 0.92
29 3 0.08
ACGTcount: A:0.49, C:0.07, G:0.14, T:0.30
Consensus pattern (28 bp):
GTTTCTGAAAAAATAAATTAGAAAAGAC
Found at i:13707459 original size:126 final size:125
Alignment explanation
Indices: 13707166--13707537 Score: 541
Period size: 126 Copynumber: 3.0 Consensus size: 125
13707156 GACGTATCTG
* * *
13707166 AAAAAATAATTTTGAGAAAATGTTTCTGAACAAATAGTGTCAAAAACGTTTTAAGCATGATGCAC
1 AAAAAATAATTTTGAGAAAATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
* * * *
13707231 TGTCAGCAAAAGTACTGAAAAAAGCTACCAC-TAGGA-CTTTTTTTCTACAGTAGTTTTTG
66 TGTCAGCAAAAGTACTGAAAAAAGCTCCCACGT-GGAGCTCTTTTTCTACAGTAGTTTCTA
* ** * *
13707290 AAAAAATAATTTTGAGAATATGTTTCTGAACAAATAGTGTCAAAAATACTTCGACCAGGATGCAC
1 AAAAAATAATTTTGAGAAAATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
* *
13707355 TGTCAGCAAAAGTACTGCAAAAAGCTCCCACGTGGATGCTCTTTTTCTATAGTAGTTTCTA
66 TGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGA-GCTCTTTTTCTACAGTAGTTTCTA
*
13707416 AAAAAATAATTTTGAGAAAATGTTTTTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
1 AAAAAATAATTTTGAGAAAATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
* * *
13707481 TGTCAGCAAAAGTACTGAAAAAAACTCCCACGTGTACGTTCTTTTTCTACAGTAGTT
66 TGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGA-GCTCTTTTTCTACAGTAGTT
13707538 CATATTTGGC
Statistics
Matches: 219, Mismatches: 26, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
124 89 0.41
125 1 0.00
126 129 0.59
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (125 bp):
AAAAAATAATTTTGAGAAAATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
TGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGAGCTCTTTTTCTACAGTAGTTTCTA
Found at i:13708366 original size:12 final size:12
Alignment explanation
Indices: 13708351--13708375 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13708341 AAAATCGAGC
13708351 TATAAATATTTT
1 TATAAATATTTT
13708363 TATAAATATTTT
1 TATAAATATTTT
13708375 T
1 T
13708376 GGAGTGTCAT
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:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TATAAATATTTT
Found at i:13709556 original size:35 final size:35
Alignment explanation
Indices: 13709507--13709671 Score: 190
Period size: 35 Copynumber: 4.6 Consensus size: 35
13709497 CATGGCAAAG
13709507 TGTG-AATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
*
13709541 TGTGAAATGTAGGTATGGTATTATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
13709576 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGT
** * * *
13709616 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGT
**
13709651 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
13709672 TTCAATGAGG
Statistics
Matches: 114, Mismatches: 10, Indels: 13
0.83 0.07 0.09
Matches are distributed among these distances:
34 5 0.04
35 75 0.66
37 2 0.02
38 3 0.03
40 29 0.25
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.34
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
Found at i:13709613 original size:75 final size:75
Alignment explanation
Indices: 13709507--13709676 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
13709497 CATGGCAAAG
** *
13709507 TGTG-AATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
13709565 CCATACTGAGT
65 CCATACCGAGT
13709576 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
13709641 CATACCGAGT
66 CATACCGAGT
**
13709651 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
13709677 TGAGGAAAAG
Statistics
Matches: 88, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
69 4 0.05
70 13 0.15
73 4 0.05
74 5 0.06
75 62 0.70
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.34
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGT
Found at i:13712229 original size:46 final size:44
Alignment explanation
Indices: 13712170--13712284 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
13712160 ACAGGACAGA
* *
13712170 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
13712216 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
13712260 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
13712285 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:13712265 original size:44 final size:45
Alignment explanation
Indices: 13712170--13712303 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
13712160 ACAGGACAGA
* *
13712170 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
13712216 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
13712260 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
13712304 CAGGGTATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:13719603 original size:46 final size:44
Alignment explanation
Indices: 13719544--13719658 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
13719534 ACAGGACAGA
* *
13719544 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
13719590 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
13719634 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
13719659 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:13719639 original size:44 final size:45
Alignment explanation
Indices: 13719544--13719677 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
13719534 ACAGGACAGA
* *
13719544 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
13719590 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
13719634 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
13719678 CAGGGTATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:13726945 original size:35 final size:34
Alignment explanation
Indices: 13726906--13727071 Score: 161
Period size: 35 Copynumber: 4.6 Consensus size: 34
13726896 CATGGCAAAG
13726906 TGTGAAATGTAGGTATGGTATGATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTAT-ATCCATACTGAGT
*
13726941 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTA-TATCCATACTGAGT
* *
13726976 TGTGAAATGTAAGTATGGTATTATCAAATCCATACTGAAT
1 TGTGAAATGTAGGTATGG---TAT---ATCCATACTGAGT
** * * *
13727016 TAAGAAATGTAGGTATGGCATTTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATAT-CCATACTGAGT
**
13727051 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
13727072 TTCAATGAGG
Statistics
Matches: 109, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
34 1 0.01
35 76 0.70
36 1 0.01
37 3 0.03
38 2 0.02
40 26 0.24
ACGTcount: A:0.33, C:0.10, G:0.24, T:0.33
Consensus pattern (34 bp):
TGTGAAATGTAGGTATGGTATATCCATACTGAGT
Found at i:13727027 original size:75 final size:74
Alignment explanation
Indices: 13726928--13727076 Score: 192
Period size: 75 Copynumber: 2.0 Consensus size: 74
13726918 GTATGGTATG
* ** * * **
13726928 ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-CCATACTGAGCTGTGAAATGTAAGTAT
1 ATCCATACTGAATTAAGAAATGTAGGTATGGCATT-TCCCATACCGAGCTGAAAAATGTAAGTAT
13726992 GGTATTATCAA
65 GGTATT-TCAA
* *
13727003 ATCCATACTGAATTAAGAAATGTAGGTATGGCATTTCCCATACCGAGTTGAAAAATGTAGGTATG
1 ATCCATACTGAATTAAGAAATGTAGGTATGGCATTTCCCATACCGAGCTGAAAAATGTAAGTATG
13727068 GTATTTCAA
66 GTATTTCAA
13727077 TGAGGAAAAC
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
74 5 0.08
75 59 0.92
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (74 bp):
ATCCATACTGAATTAAGAAATGTAGGTATGGCATTTCCCATACCGAGCTGAAAAATGTAAGTATG
GTATTTCAA
Found at i:13729926 original size:21 final size:21
Alignment explanation
Indices: 13729902--13729975 Score: 76
Period size: 21 Copynumber: 3.3 Consensus size: 21
13729892 GACACATAAA
13729902 GTGCCTAAAACGACACACGAG
1 GTGCCTAAAACGACACACGAG
* *
13729923 GTGCCTGATACGACACACGAG
1 GTGCCTAAAACGACACACGAG
*
13729944 GTGCTTGAAATACGATCACACACGAG
1 GTGCCT-AAA-ACG---ACACACGAG
13729970 GTGCCT
1 GTGCCT
13729976 GATCGATAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
21 24 0.57
22 1 0.02
23 3 0.07
26 14 0.33
ACGTcount: A:0.31, C:0.27, G:0.26, T:0.16
Consensus pattern (21 bp):
GTGCCTAAAACGACACACGAG
Found at i:13730381 original size:15 final size:15
Alignment explanation
Indices: 13730355--13730411 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
13730345 TATATATATT
13730355 ATATAA-TTCAATCA
1 ATATAATTTCAATCA
13730369 ATATAATTTCAATCA
1 ATATAATTTCAATCA
*
13730384 AAATAATTTCAATCA
1 ATATAATTTCAATCA
*
13730399 ATATAAATTCAAT
1 ATATAATTTCAAT
13730412 AAATTCATCG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
14 6 0.15
15 33 0.85
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (15 bp):
ATATAATTTCAATCA
Found at i:13734403 original size:18 final size:18
Alignment explanation
Indices: 13734363--13734406 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
13734353 GGATTGGAAA
* * *
13734363 AAGGAAACATATAAGGGT
1 AAGGATACATAAAAGGGC
*
13734381 TAGGATACATAAAAGGGC
1 AAGGATACATAAAAGGGC
13734399 AAGGATAC
1 AAGGATAC
13734407 GCACCTGGCA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.48, C:0.09, G:0.27, T:0.16
Consensus pattern (18 bp):
AAGGATACATAAAAGGGC
Found at i:13734494 original size:30 final size:30
Alignment explanation
Indices: 13734460--13734527 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 30
13734450 GTTGAAGTGT
* **
13734460 TGGGCCCGGTGACTGTATGGGCGCTATTGA
1 TGGGCCCGGTGACTGTATAGGAACTATTGA
* * *
13734490 TGGGCCTGGTGATTGTATAGGAACTGTTGA
1 TGGGCCCGGTGACTGTATAGGAACTATTGA
13734520 TGGGCCCG
1 TGGGCCCG
13734528 ATGATTGTGT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.15, C:0.18, G:0.40, T:0.28
Consensus pattern (30 bp):
TGGGCCCGGTGACTGTATAGGAACTATTGA
Found at i:13736252 original size:11 final size:11
Alignment explanation
Indices: 13736236--13736278 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
13736226 GAAAAGGAGC
13736236 TTTGAGAGGAA
1 TTTGAGAGGAA
*
13736247 TTTGAGAGAAA
1 TTTGAGAGGAA
13736258 TTTGAGA-GAA
1 TTTGAGAGGAA
*
13736268 TATTGAAAGGA
1 T-TTGAGAGGA
13736279 TTGGAGTGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 3 0.11
11 22 0.81
12 2 0.07
ACGTcount: A:0.42, C:0.00, G:0.30, T:0.28
Consensus pattern (11 bp):
TTTGAGAGGAA
Found at i:13739814 original size:20 final size:20
Alignment explanation
Indices: 13739780--13739824 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
13739770 GGCGCGACCC
13739780 ATTTTTTTAATAATATAATTT
1 ATTTTTTTAATAATATAA-TT
* *
13739801 ATTTTTTTTA-AATATTATT
1 ATTTTTTTAATAATATAATT
13739820 ATTTT
1 ATTTT
13739825 ATTATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 7 0.32
20 6 0.27
21 9 0.41
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
ATTTTTTTAATAATATAATT
Found at i:13739909 original size:27 final size:27
Alignment explanation
Indices: 13739879--13739942 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
13739869 GCCAGACCCG
*
13739879 GAGGTGCGACCAGTCGCTCCTGCTGCA
1 GAGGCGCGACCAGTCGCTCCTGCTGCA
*
13739906 GAGGCGTGACCAGTCGCTCCTGCTGCA
1 GAGGCGCGACCAGTCGCTCCTGCTGCA
13739933 GAGGCGCGAC
1 GAGGCGCGAC
13739943 TCCCCTACAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.16, C:0.33, G:0.36, T:0.16
Consensus pattern (27 bp):
GAGGCGCGACCAGTCGCTCCTGCTGCA
Found at i:13741401 original size:11 final size:11
Alignment explanation
Indices: 13741387--13741414 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
13741377 ACATTATATC
13741387 AAAATTACATT
1 AAAATTACATT
13741398 AAAATTACATT
1 AAAATTACATT
13741409 AAAATT
1 AAAATT
13741415 TCTTACTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (11 bp):
AAAATTACATT
Found at i:13742475 original size:3 final size:3
Alignment explanation
Indices: 13742469--13742525 Score: 53
Period size: 3 Copynumber: 18.7 Consensus size: 3
13742459 ACTAACATTT
* * * *
13742469 TTC TTC TTTC TCC TCC TTC TCC TTC TTT TTC TTC TTC TTC TTC TTC
1 TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
13742515 TT- TTC TCTC TT
1 TTC TTC T-TC TT
13742526 TGCTGCTGCA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
2 2 0.04
3 37 0.82
4 6 0.13
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:13742784 original size:19 final size:18
Alignment explanation
Indices: 13742762--13742801 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
13742752 AAAATATAAT
13742762 AAAATAATAATATTTAAAA
1 AAAATAATAATA-TTAAAA
* *
13742781 AAAATTATATTATTAAAA
1 AAAATAATAATATTAAAA
13742799 AAA
1 AAA
13742802 TGAGTCGCGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAATAATAATATTAAAA
Found at i:13743227 original size:22 final size:22
Alignment explanation
Indices: 13743175--13743236 Score: 54
Period size: 22 Copynumber: 2.7 Consensus size: 22
13743165 AATTATATTC
13743175 AATAACTTAATTAA-ACTAATTAA
1 AATAA-TTAATTAATA-TAATTAA
* *
13743198 AATTATTAATTAATATAATTGA
1 AATAATTAATTAATATAATTAA
* *
13743220 CATAATTACATTTATAT
1 AATAATTA-ATTAATAT
13743237 TCAATTACTT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
22 20 0.62
23 12 0.38
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (22 bp):
AATAATTAATTAATATAATTAA
Found at i:13759991 original size:13 final size:14
Alignment explanation
Indices: 13759975--13760010 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
13759965 CAATCTCATA
13759975 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
13759988 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
13760001 TCTC-ATTTCA
1 TCTCAATTTCA
13760011 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:13760000 original size:18 final size:19
Alignment explanation
Indices: 13759962--13760002 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
13759952 TGGTTCATGT
13759962 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
13759981 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
13759999 TTTC
1 TTTC
13760003 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:13760192 original size:39 final size:38
Alignment explanation
Indices: 13760125--13760259 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
13760115 ACCAATATGG
* * *
13760125 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
13760164 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
13760202 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
13760243 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
13760260 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:13760525 original size:18 final size:19
Alignment explanation
Indices: 13760499--13760537 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
13760489 TTTCAATTCA
13760499 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
13760518 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
13760536 AT
1 AT
13760538 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:13761864 original size:5 final size:5
Alignment explanation
Indices: 13761854--13761910 Score: 62
Period size: 5 Copynumber: 11.0 Consensus size: 5
13761844 TTACTTATTT
* *
13761854 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
13761902 ATAT- ATATA
1 ATATA ATATA
13761911 TTTTAACACA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 7 0.16
7 4 0.09
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:13761870 original size:12 final size:12
Alignment explanation
Indices: 13761853--13761908 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
13761843 TTTACTTATT
13761853 TATATAATATAA
1 TATATAATATAA
13761865 TATATAATATAATA
1 TATATAATAT-A-A
13761879 TACTATAATATAA
1 TA-TATAATATAA
*
13761892 TA-ATAATTTAA
1 TATATAATATAA
13761903 TATATA
1 TATATA
13761909 TATTTTAACA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 10 0.26
12 13 0.33
13 4 0.10
14 4 0.10
15 8 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:13761923 original size:26 final size:26
Alignment explanation
Indices: 13761855--13761910 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
13761845 TACTTATTTA
*
13761855 TATAATATAATATATAATATAATATAC
1 TATAATATAACA-ATAATATAATATAC
* *
13761882 TATAATATAATAATAATTTAATATA-
1 TATAATATAACAATAATATAATATAC
13761907 TATA
1 TATA
13761911 TTTTAACACA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 4 0.14
26 12 0.43
27 12 0.43
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
TATAATATAACAATAATATAATATAC
Found at i:13764972 original size:10 final size:10
Alignment explanation
Indices: 13764957--13764986 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
13764947 CATGTCCATG
13764957 AAAAACAAAA
1 AAAAACAAAA
13764967 AAAAACAAAA
1 AAAAACAAAA
*
13764977 AAACACAAAA
1 AAAAACAAAA
13764987 GAGAAACATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAACAAAA
Found at i:13772421 original size:4 final size:4
Alignment explanation
Indices: 13772412--13772437 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
13772402 AATCTGATCG
13772412 AACA AACA AACA AACA AACA AACA AA
1 AACA AACA AACA AACA AACA AACA AA
13772438 AATGAAACCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.23, G:0.00, T:0.00
Consensus pattern (4 bp):
AACA
Found at i:13779281 original size:23 final size:23
Alignment explanation
Indices: 13779254--13779320 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
13779244 CATATTTATT
13779254 ATATTATTTATATAAATAAAAAA
1 ATATTATTTATATAAATAAAAAA
* *
13779277 ATATTAATTA-AAAAAT-AAAAA
1 ATATTATTTATATAAATAAAAAA
*
13779298 ATAATATATTTAT-TAATTAAAAA
1 AT-AT-TATTTATATAAATAAAAA
13779321 TAAAAAAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
21 7 0.20
22 7 0.20
23 17 0.49
24 4 0.11
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
ATATTATTTATATAAATAAAAAA
Found at i:13780926 original size:18 final size:18
Alignment explanation
Indices: 13780890--13780940 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
13780880 TATAGGTATA
* * *
13780890 AAAACATATAATTATTTT
1 AAAATATATAATAAATTT
*
13780908 AATATATATAATAAATTT
1 AAAATATATAATAAATTT
13780926 AAAAT-TATATATAAA
1 AAAATATATA-ATAAA
13780941 AATAAGAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 4 0.15
18 23 0.85
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAATATATAATAAATTT
Found at i:13781047 original size:41 final size:44
Alignment explanation
Indices: 13781001--13781089 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
13780991 TAATATAAAA
*
13781001 TTTAAA-TTTAT-TATTATATTTT-TCAAGAAT-ATTTATGTATT
1 TTTAAATTTTATATATTATATTTTGTCAACAATCATTT-TGTATT
* *
13781042 TTTAAATTTTATATATTATTTTTTGTCAACAATCATTTTTTATT
1 TTTAAATTTTATATATTATATTTTGTCAACAATCATTTTGTATT
13781086 TTTA
1 TTTA
13781090 TATATTTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
41 6 0.15
42 5 0.12
43 10 0.24
44 16 0.39
45 4 0.10
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.61
Consensus pattern (44 bp):
TTTAAATTTTATATATTATATTTTGTCAACAATCATTTTGTATT
Done.