Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, 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: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 94 of 113
Found at i:19382062 original size:14 final size:14
Alignment explanation
Indices: 19382044--19382076 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
19382034 CCATCCCTCT
*
19382044 TTTTTTTGT-TATA
1 TTTTTTTATATATA
19382057 TTTTTTTATATATA
1 TTTTTTTATATATA
19382071 TTTTTT
1 TTTTTT
19382077 AATTTTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (14 bp):
TTTTTTTATATATA
Found at i:19382416 original size:47 final size:47
Alignment explanation
Indices: 19382357--19382543 Score: 214
Period size: 47 Copynumber: 3.9 Consensus size: 47
19382347 AAAATTTAAA
*
19382357 ATCTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTC
1 ATCTTAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTC
* * * *
19382404 ATTTTAAAAAAGCTCCTCTCAGCAGAGGCTTAACAATTTTTAAAATCTT
1 ATCTTAAAAAAGCTCCTCTCAGCAGAGGCTCAACAA-CTTTAAAAT-TC
* * * *
19382453 ATCTTGAAAAAGCTCATCTCAGTAGAGGC-CTAACAACTTTAAAATCC
1 ATCTTAAAAAAGCTCCTCTCAGCAGAGGCTC-AACAACTTTAAAATTC
* * * * *
19382500 ATCTTGAAAAAGCTCTTTTCAACAGAGGCTCAACAATTTTAAAA
1 ATCTTAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA
19382544 ATTTTATATG
Statistics
Matches: 118, Mismatches: 18, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
47 70 0.59
48 17 0.14
49 31 0.26
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.28
Consensus pattern (47 bp):
ATCTTAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTC
Found at i:19382480 original size:49 final size:48
Alignment explanation
Indices: 19382329--19382547 Score: 212
Period size: 47 Copynumber: 4.5 Consensus size: 48
19382319 CATTTCACTT
*
19382329 GAGGCTCAACAATTTTTCAAAATTTAAAATC-TGAAAAAAGCTCCTCTCAGCA
1 GAGGCTCAACAATTTTT-AAAATTT---ATCTTG-AAAAAGCTCATCTCAGCA
* * * * *
19382381 GAGGCTCAACAA-CTTTAAAATTCATTTTAAAAAAGCTCCTCTCAGCA
1 GAGGCTCAACAATTTTTAAAATTTATCTTGAAAAAGCTCATCTCAGCA
* *
19382428 GAGGCTTAACAATTTTTAAAATCTTATCTTGAAAAAGCTCATCTCAGTA
1 GAGGCTCAACAATTTTTAAAAT-TTATCTTGAAAAAGCTCATCTCAGCA
* ** * * *
19382477 GAGGC-CTAACAA-CTTTAAAATCCATCTTGAAAAAGCTCTTTTCAACA
1 GAGGCTC-AACAATTTTTAAAATTTATCTTGAAAAAGCTCATCTCAGCA
*
19382524 GAGGCTCAACAATTTTAAAAATTT
1 GAGGCTCAACAATTTTTAAAATTT
19382548 TATATGTTTT
Statistics
Matches: 138, Mismatches: 23, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
47 61 0.44
48 25 0.18
49 31 0.22
50 6 0.04
51 3 0.02
52 12 0.09
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (48 bp):
GAGGCTCAACAATTTTTAAAATTTATCTTGAAAAAGCTCATCTCAGCA
Found at i:19382481 original size:96 final size:95
Alignment explanation
Indices: 19382329--19382547 Score: 271
Period size: 96 Copynumber: 2.3 Consensus size: 95
19382319 CATTTCACTT
*
19382329 GAGGCTCAACAATTTTTCAAAATTTAAAATCTGAAAAAAGCTCCTCTCAGCAGAGG-CTCAACAA
1 GAGGCTCAACAATTTTT-AAAATTT---ATCTGAAAAAAGCTCATCTCAGCAGAGGCCT-AACAA
* * *
19382393 CTTTAAAATTCATTTTAAAAAAGCTCCTCTCAGCA
61 CTTTAAAATCCATCTTAAAAAAGCTCCTCTCAACA
* *
19382428 GAGGCTTAACAATTTTTAAAATCTTATCTTG-AAAAAGCTCATCTCAGTAGAGGCCTAACAACTT
1 GAGGCTCAACAATTTTTAAAAT-TTATC-TGAAAAAAGCTCATCTCAGCAGAGGCCTAACAACTT
* * *
19382492 TAAAATCCATCTTGAAAAAGCTCTTTTCAACA
64 TAAAATCCATCTTAAAAAAGCTCCTCTCAACA
*
19382524 GAGGCTCAACAATTTTAAAAATTT
1 GAGGCTCAACAATTTTTAAAATTT
19382548 TATATGTTTT
Statistics
Matches: 106, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
95 2 0.02
96 77 0.73
97 4 0.04
98 5 0.05
99 18 0.17
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (95 bp):
GAGGCTCAACAATTTTTAAAATTTATCTGAAAAAAGCTCATCTCAGCAGAGGCCTAACAACTTTA
AAATCCATCTTAAAAAAGCTCCTCTCAACA
Found at i:19384593 original size:18 final size:18
Alignment explanation
Indices: 19384570--19384612 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
19384560 CATGTTATGG
19384570 GTATTGCTAGCTTTTAAT
1 GTATTGCTAGCTTTTAAT
19384588 GTATTGCTAGCTTTTAAT
1 GTATTGCTAGCTTTTAAT
19384606 GTATTGC
1 GTATTGC
19384613 ATGATGTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.21, C:0.12, G:0.19, T:0.49
Consensus pattern (18 bp):
GTATTGCTAGCTTTTAAT
Found at i:19386898 original size:14 final size:14
Alignment explanation
Indices: 19386875--19386919 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
19386865 ACAAAAATGG
*
19386875 AATGGCAAGAAAAT
1 AATGGAAAGAAAAT
* *
19386889 AATGGAAAGAGAAG
1 AATGGAAAGAAAAT
19386903 AATGGAAAGCAAAAT
1 AATGGAAAG-AAAAT
19386918 AA
1 AA
19386920 AGATGAAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 20 0.80
15 5 0.20
ACGTcount: A:0.60, C:0.04, G:0.24, T:0.11
Consensus pattern (14 bp):
AATGGAAAGAAAAT
Found at i:19395271 original size:20 final size:20
Alignment explanation
Indices: 19395243--19395290 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
19395233 AGGGGTCACG
* *
19395243 GGTCAAGTGCACGGACATCA
1 GGTCGAGTGCACGGACACCA
* *
19395263 GGTCGAGTGCGCGGACCCCA
1 GGTCGAGTGCACGGACACCA
19395283 GGTCGAGT
1 GGTCGAGT
19395291 CATGGTTGAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.21, C:0.27, G:0.38, T:0.15
Consensus pattern (20 bp):
GGTCGAGTGCACGGACACCA
Found at i:19406426 original size:49 final size:47
Alignment explanation
Indices: 19406304--19406437 Score: 187
Period size: 47 Copynumber: 2.8 Consensus size: 47
19406294 CATATGAAAT
* * * *
19406304 TTTTAAAATTGTTGAGCCTCTGCTGAAAAGAGCTTTTTCAAGATGGA
1 TTTTAAAATTGTTAAGCCTCTGCTGAGATGAGCTTTTTCAAGATAGA
* * *
19406351 TTTTAAAGTTGTTAGGCCTCTACTGAGATGAGCTTTTTCAAGATAAGA
1 TTTTAAAATTGTTAAGCCTCTGCTGAGATGAGCTTTTTCAAGAT-AGA
19406399 TTTTAAAAATTGTTAAGCCTCTGCTGAGATGAGCTTTTT
1 TTTT-AAAATTGTTAAGCCTCTGCTGAGATGAGCTTTTT
19406438 TCATATTTTA
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
47 38 0.51
48 6 0.08
49 31 0.41
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.39
Consensus pattern (47 bp):
TTTTAAAATTGTTAAGCCTCTGCTGAGATGAGCTTTTTCAAGATAGA
Found at i:19406471 original size:52 final size:49
Alignment explanation
Indices: 19406302--19406490 Score: 177
Period size: 47 Copynumber: 3.8 Consensus size: 49
19406292 AACATATGAA
* * * * * *
19406302 ATTTTTAAAATTGTTGAGCCTCTGCTGAAAAGAGCTTTTTCAAGAT-GG
1 ATTTTAAAAATTGTTAAGCCTCTACTGAGATGAGCTTTTTCAAGATAAG
* *
19406350 ATTTT-AAAGTTGTTAGGCCTCTACTGAGATGAGCTTTTTCAAGATAAG
1 ATTTTAAAAATTGTTAAGCCTCTACTGAGATGAGCTTTTTCAAGATAAG
* **
19406398 ATTTTAAAAATTGTTAAGCCTCTGCTGAGATGAGCTTTTTTCATATTTTAA-
1 ATTTTAAAAATTGTTAAGCCTCTACTGAGATGAGC-TTTTTCA-A-GATAAG
* * * * *
19406449 ATTTTGAAAAATTGTTGAGCCTCAAGTGAAATGAGCATTTTC
1 ATTTT-AAAAATTGTTAAGCCTCTACTGAGATGAGCTTTTTC
19406491 GATTTGATGA
Statistics
Matches: 117, Mismatches: 18, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
47 34 0.29
48 11 0.09
49 26 0.22
50 7 0.06
51 11 0.09
52 28 0.24
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (49 bp):
ATTTTAAAAATTGTTAAGCCTCTACTGAGATGAGCTTTTTCAAGATAAG
Found at i:19406685 original size:12 final size:12
Alignment explanation
Indices: 19406668--19406714 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
19406658 GTCATAGAAA
19406668 AAAATAATAAAT
1 AAAATAATAAAT
19406680 AAAATAAT-AAT
1 AAAATAATAAAT
* *
19406691 AATATTATTAAAT
1 AA-AATAATAAAT
*
19406704 ACAATAATAAA
1 AAAATAATAAA
19406715 AATTAAACAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
11 5 0.18
12 19 0.68
13 4 0.14
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (12 bp):
AAAATAATAAAT
Found at i:19406758 original size:12 final size:14
Alignment explanation
Indices: 19406729--19406761 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
19406719 AAACAAAAAT
19406729 AAAAAATATATATA
1 AAAAAATATATATA
*
19406743 AAAAAATATA-ACA
1 AAAAAATATATATA
19406756 AAAAAA
1 AAAAAA
19406762 AGAGGGATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (14 bp):
AAAAAATATATATA
Found at i:19408676 original size:32 final size:32
Alignment explanation
Indices: 19408604--19408677 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 32
19408594 AGTTAATAAG
* *
19408604 ACCCTTAAAGCATTCAAGAACAAATTTACCTA
1 ACCCTTGAAGAATTCAAGAACAAATTTACCTA
* * *
19408636 ACCCTTGAAGAATTCAAGAACAAGTTTGCCTG
1 ACCCTTGAAGAATTCAAGAACAAATTTACCTA
*
19408668 ACCTTTGAAG
1 ACCCTTGAAG
19408678 CAGATTTTAC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.26
Consensus pattern (32 bp):
ACCCTTGAAGAATTCAAGAACAAATTTACCTA
Found at i:19408771 original size:105 final size:105
Alignment explanation
Indices: 19408586--19408778 Score: 246
Period size: 105 Copynumber: 1.8 Consensus size: 105
19408576 TTCGTTTGTT
* * * *
19408586 CAAGATCAAGTTAATAAGACCCTTAAAGCATTCAAGAACAAATTTACCTAACCCTTGAAGAATTC
1 CAAGATCAAGTCAACAAGACCCTTAAAGCATTCAAAAACAAATTTACCTAACCCTTAAAGAATTC
* *
19408651 AAGAACAAGTTTGCCTGACCTTTGAAGCAGATTTTACATC
66 AAGAACAAGTCTGCCTAACCTTTGAAGCAGATTTTACATC
** * * *
19408691 CAAGATCAAGTCAACAAGAGTCTTGAAGCATTCAAAAACAAGTTT-CGAC-AACCCTTAAAGCAT
1 CAAGATCAAGTCAACAAGACCCTTAAAGCATTCAAAAACAAATTTAC--CTAACCCTTAAAGAAT
*
19408754 TCAAGAATAAGTCTGCCTAACCTTT
64 TCAAGAACAAGTCTGCCTAACCTTT
19408779 AAAGTGGATT
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
104 1 0.01
105 72 0.97
106 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.13, T:0.25
Consensus pattern (105 bp):
CAAGATCAAGTCAACAAGACCCTTAAAGCATTCAAAAACAAATTTACCTAACCCTTAAAGAATTC
AAGAACAAGTCTGCCTAACCTTTGAAGCAGATTTTACATC
Found at i:19412326 original size:16 final size:16
Alignment explanation
Indices: 19412284--19412336 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 16
19412274 TATTGATGAG
19412284 ATAAAAAA-ATTATAAA
1 ATAAAAAATATTA-AAA
*
19412300 ATATAATAATATTAAAA
1 ATA-AAAAATATTAAAA
*
19412317 ATAAAAAATA-TAAAT
1 ATAAAAAATATTAAAA
19412332 ATAAA
1 ATAAA
19412337 GATGTAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
15 9 0.28
16 9 0.28
17 10 0.31
18 4 0.12
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
ATAAAAAATATTAAAA
Found at i:19415081 original size:15 final size:16
Alignment explanation
Indices: 19415044--19415101 Score: 61
Period size: 15 Copynumber: 3.8 Consensus size: 16
19415034 TATATATATT
19415044 TTTATTT-TTATCTTA
1 TTTATTTATTATCTTA
*
19415059 TGTATTTATTAT-TTA
1 TTTATTTATTATCTTA
19415074 TTTATTTATTA-CTACTA
1 TTTATTTATTATCT--TA
19415091 TTTA-TTATTAT
1 TTTATTTATTAT
19415102 ATATATCCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
15 20 0.56
16 10 0.28
17 6 0.17
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (16 bp):
TTTATTTATTATCTTA
Found at i:19415172 original size:22 final size:23
Alignment explanation
Indices: 19415139--19415196 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
19415129 TTAATATTTA
19415139 TATATATTTATCTGATTATAT-AT
1 TATA-ATTTATCTGATTATATAAT
*
19415162 TATAATTTATCT-ATTATTTAAT
1 TATAATTTATCTGATTATATAAT
*
19415184 TTTAATTTATCTG
1 TATAATTTATCTG
19415197 TTAATTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 6 0.19
22 21 0.68
23 4 0.13
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (23 bp):
TATAATTTATCTGATTATATAAT
Found at i:19416093 original size:17 final size:17
Alignment explanation
Indices: 19416067--19416104 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
19416057 CAAGCCGTAC
*
19416067 TATTTTTTTATATATT-T
1 TATTTATTTAT-TATTAT
19416084 TATTTATTTATTATTAT
1 TATTTATTTATTATTAT
19416101 TATT
1 TATT
19416105 AGATTAGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TATTTATTTATTATTAT
Found at i:19416137 original size:7 final size:7
Alignment explanation
Indices: 19416127--19416183 Score: 53
Period size: 7 Copynumber: 7.4 Consensus size: 7
19416117 TTTAATATTC
19416127 TTTTTAT
1 TTTTTAT
19416134 TTTTATAT
1 TTTT-TAT
19416142 TTATTT-T
1 TT-TTTAT
19416149 TGTTTTACTT
1 T-TTTTA--T
19416159 TTCTTTAT
1 TT-TTTAT
19416167 TTTTTAT
1 TTTTTAT
19416174 TTTTTAT
1 TTTTTAT
19416181 TTT
1 TTT
19416184 CACTTTATTT
Statistics
Matches: 43, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
7 24 0.56
8 10 0.23
9 3 0.07
10 6 0.14
ACGTcount: A:0.14, C:0.04, G:0.02, T:0.81
Consensus pattern (7 bp):
TTTTTAT
Found at i:19416208 original size:18 final size:17
Alignment explanation
Indices: 19416122--19416217 Score: 58
Period size: 17 Copynumber: 5.6 Consensus size: 17
19416112 GTTTATTTAA
*
19416122 TATTCTTTTTA-T-TTT
1 TATTTTTTTTATTATTT
* *
19416137 TATATTTATTT-TTGTTT
1 TAT-TTTTTTTATTATTT
*
19416154 TACTTTTCTTTATT-TTT
1 TA-TTTTTTTTATTATTT
*
19416171 TATTTTTTATT-TTCACTT
1 TATTTTTT-TTATT-ATTT
19416189 TATTTTGTTTTATTATTT
1 TATTTT-TTTTATTATTT
*
19416207 TATTTTCTTTA
1 TATTTTTTTTA
19416218 AATAAAATCC
Statistics
Matches: 64, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
15 3 0.05
16 13 0.20
17 22 0.34
18 22 0.34
19 4 0.06
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.76
Consensus pattern (17 bp):
TATTTTTTTTATTATTT
Found at i:19416288 original size:59 final size:59
Alignment explanation
Indices: 19416225--19416592 Score: 397
Period size: 59 Copynumber: 6.2 Consensus size: 59
19416215 TTAAATAAAA
* * * *
19416225 TCCAAAAAAAATATTTTTGGGGAAAGTTGAAAGTATCATTTTTCCTTGAAAACAAGTTT
1 TCCAAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAATTT
**
19416284 TCCAAAAAAAAATATTTTTAGGTCAAAGTTGAAAGTATCAATTTTCCTT-AAGAATAAATTT
1 TCC-AAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTGAA-AATAAATTT
** * * * * **
19416345 T-CAAAAAAGGTTTTTTTGAGGAAAGGTTGAAAGTATCAA-TTTCCTCGAAATTAAAAAT
1 TCCAAAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAATTT
* *
19416403 T-CTAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTT-AAGAATAAATTT
1 TCCAAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTGAA-AATAAATTT
* * * * * *
19416462 TCAAAAAAAAATTTTTTTTGAGGAAAAGTTGATAGTATCAATTTTCCTCGAAATTAAAGTT
1 TCCAAAAAAAA-TATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAATTT
*
19416523 TCC-AAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
1 TCCAAAAAAAATA-TTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAATTT
*
19416582 TCAAAAAAAAA
1 TCCAAAAAAAA
19416593 AGAGGATTTT
Statistics
Matches: 254, Mismatches: 41, Indels: 27
0.79 0.13 0.08
Matches are distributed among these distances:
58 47 0.19
59 85 0.33
60 46 0.18
61 74 0.29
62 2 0.01
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.36
Consensus pattern (59 bp):
TCCAAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAATTT
Found at i:19416548 original size:120 final size:119
Alignment explanation
Indices: 19416228--19416592 Score: 506
Period size: 120 Copynumber: 3.1 Consensus size: 119
19416218 AATAAAATCC
* * * *
19416228 AAAAAAAATATTTTTG-GGGAAAGTTGAAAGTATCATTTTTCCTTGAAA--ACAAGTTTTCCAAA
1 AAAAAAAATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTA-AAG-TTTCC--A
**
19416290 AAAAAATATTTTTAGGTCAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTC-
62 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTCA
** * ** *
19416347 AAAAAAGGTTTTTTTGAGGAAAGGTTGAAAGTATCAA-TTTCCTCGAAATTAAAAATTCTAAAAA
1 AAAAAAAATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCCAAAAA
*
19416411 AATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAGAATAAATTTTCA
66 AATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTCA
*
19416465 AAAAAAAATTTTTTTTGAGGAAAAGTTGATAGTATCAATTTTCCTCGAAATTAAAGTTTCCAAAA
1 AAAAAAAA-TTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCCAAAA
* *
19416530 AAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCA
65 AAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTCA
19416585 AAAAAAAA
1 AAAAAAAA
19416593 AGAGGATTTT
Statistics
Matches: 217, Mismatches: 23, Indels: 11
0.86 0.09 0.04
Matches are distributed among these distances:
117 55 0.25
118 6 0.03
119 53 0.24
120 102 0.47
121 1 0.00
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.36
Consensus pattern (119 bp):
AAAAAAAATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCCAAAAA
AATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTCA
Found at i:19416554 original size:178 final size:177
Alignment explanation
Indices: 19416229--19416564 Score: 452
Period size: 178 Copynumber: 1.9 Consensus size: 177
19416219 ATAAAATCCA
* *
19416229 AAAAAAATATTTTTGGGGAAAGTTGAAAGTATCATTTTTCCTTGAAAACAAGTTTTCCAAAAAAA
1 AAAAAAATATTTTTGGGAAAAGTTGAAAGTATCATTTTTCCTTGAAAACAAATTTTCCAAAAAAA
* * * *
19416294 AATATTTTTAGGTCAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTCAAAAAAGGTTTT
66 AATATTTTTAGGTAAAAGTTGAAAGTATCAATTTTCCTGAAGAATAAATTTCCAAAAAAGATTTT
*
19416359 TTTGAGGAAAGGTTGAAAGTATCAATTTCCTCGAAATTAAAAATTCT
131 TTTGAGGAAAAGTTGAAAGTATCAATTTCCTCGAAATTAAAAATTCT
*
19416406 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTT-CTT-AAGAATAAATTTT-CAAAA
1 AAAAAAATATTTTT-GGGAAAAGTTGAAAGTATC-ATTTTTCCTTGAA-AACAAATTTTCCAAAA
* * *
19416468 AAAAATTTTTTTTGAGG-AAAAGTTGATAGTATCAATTTTCCTCGAA-ATTAAAGTTTCCAAAAA
63 AAAAA-TATTTTT-AGGTAAAAGTTGAAAGTATCAATTTTCCT-GAAGAATAAA-TTTCCAAAAA
19416531 A-ATATTTTTTG-GGAAAAGTTGAAAGTATCAATTT
124 AGAT-TTTTTTGAGGAAAAGTTGAAAGTATCAATTT
19416565 TCCTTAAAAA
Statistics
Matches: 140, Mismatches: 11, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
177 26 0.19
178 86 0.61
179 28 0.20
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.36
Consensus pattern (177 bp):
AAAAAAATATTTTTGGGAAAAGTTGAAAGTATCATTTTTCCTTGAAAACAAATTTTCCAAAAAAA
AATATTTTTAGGTAAAAGTTGAAAGTATCAATTTTCCTGAAGAATAAATTTCCAAAAAAGATTTT
TTTGAGGAAAAGTTGAAAGTATCAATTTCCTCGAAATTAAAAATTCT
Found at i:19421480 original size:55 final size:54
Alignment explanation
Indices: 19421308--19421727 Score: 531
Period size: 55 Copynumber: 7.8 Consensus size: 54
19421298 GCTTTTGTAC
*
19421308 AAGGAAAAATTGATACTTTCAACTTTTCTC-AAAAT-TTTTTTGAAACTTTAATTT
1 AAGG-AAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTGAAA-TTTAATTT
* * *
19421362 GA-GAAAATTGATACTTTCAACTTTT-TCAAAAACT-TTTTTTGAAA-TTATTTTT
1 AAGGAAAATTGATACTTTCAACTTTTCCCAAAAA-TATTTTTTGAAATTTA-ATTT
19421414 AAGGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTGAAATTTAATTT
1 AAGGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTGAAATTTAATTT
* *
19421468 CGAGGAAAATTGATACTTTCAACTTTTCCTC-AAAA-ATTTTTTGAAAATTTATTTT
1 -AAGGAAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTG-AAATTTAATTT
* * *
19421523 AA-GAAAATTGATACTTTCAACTTTTCCTAAAAATATTTTTTGAATTTTTAATTC
1 AAGGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTGAA-ATTTAATTT
* *
19421577 GAGGAAAATTGATACTTTCAACTTTTCCTCAAAAA-ATTTTTTGAAAATTTATTTT
1 AAGGAAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTG-AAATTTAATTT
* *
19421632 AAGGAAAATTGATACTTTCAACTTTTCCTAAAAATATTTTTTTTGAAAATT--TTT
1 AAGGAAAATTGATACTTTCAACTTTTCCCAAAAATA--TTTTTTGAAATTTAATTT
19421686 AAGGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTT
1 AAGGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTT
19421728 TTGGATTTTA
Statistics
Matches: 326, Mismatches: 21, Indels: 40
0.84 0.05 0.10
Matches are distributed among these distances:
51 5 0.02
52 36 0.11
53 67 0.21
54 87 0.27
55 111 0.34
56 13 0.04
57 7 0.02
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.45
Consensus pattern (54 bp):
AAGGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTGAAATTTAATTT
Found at i:19421508 original size:108 final size:108
Alignment explanation
Indices: 19421308--19421726 Score: 599
Period size: 108 Copynumber: 3.9 Consensus size: 108
19421298 GCTTTTGTAC
*
19421308 AAGGAAAAATTGATACTTTCAACTTTTCTC-AAAAT-TTTTTTGAAACTTTAATTTGA-GAAAAT
1 AAGG-AAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTGAAA-TTTAATTTGAGGAAAAT
19421370 TGATACTTTCAACTTTT--TCAAAAACTTTTTTTG-AAA-TTATTTTT
64 TGATACTTTCAACTTTTCCTCAAAAA--TTTTTTGAAAATTTA-TTTT
19421414 AAGGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTGAAATTTAATTTCGAGGAAAATT
1 AAGGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTGAAATTTAATTT-GAGGAAAATT
19421479 GATACTTTCAACTTTTCCTCAAAAATTTTTTGAAAATTTATTTT
65 GATACTTTCAACTTTTCCTCAAAAATTTTTTGAAAATTTATTTT
* * *
19421523 AA-GAAAATTGATACTTTCAACTTTTCCTAAAAATATTTTTTGAATTTTTAATTCGAGGAAAATT
1 AAGGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTGAA-ATTTAATTTGAGGAAAATT
19421587 GATACTTTCAACTTTTCCTCAAAAAATTTTTTGAAAATTTATTTT
65 GATACTTTCAACTTTTCCTC-AAAAATTTTTTGAAAATTTATTTT
* * *
19421632 AAGGAAAATTGATACTTTCAACTTTTCCTAAAAATATTTTTTTTGAAAATT--TTTAAGGAAAAT
1 AAGGAAAATTGATACTTTCAACTTTTCCCAAAAATA--TTTTTTGAAATTTAATTTGAGGAAAAT
19421695 TGATACTTTCAACTTTTCC-CAAAAATATTTTT
64 TGATACTTTCAACTTTTCCTCAAAAAT-TTTTT
19421727 TTTGGATTTT
Statistics
Matches: 291, Mismatches: 8, Indels: 26
0.90 0.02 0.08
Matches are distributed among these distances:
105 24 0.08
106 17 0.06
107 18 0.06
108 107 0.37
109 71 0.24
110 43 0.15
111 2 0.01
112 9 0.03
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.44
Consensus pattern (108 bp):
AAGGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTGAAATTTAATTTGAGGAAAATTG
ATACTTTCAACTTTTCCTCAAAAATTTTTTGAAAATTTATTTT
Found at i:19421768 original size:18 final size:17
Alignment explanation
Indices: 19421740--19421806 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 17
19421730 GGATTTTATT
*
19421740 TAAAGAAAATAAAATAA
1 TAAAAAAAATAAAATAA
*
19421757 TAAAACAAAATAAAGTGAA
1 TAAAA-AAAATAAAAT-AA
19421776 -AATAAAAAATAAAA-AA
1 TAA-AAAAAATAAAATAA
*
19421792 TAAAGAAAAGTAAAA
1 TAAA-AAAAATAAAA
19421807 CAAAAATAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
16 3 0.07
17 15 0.37
18 19 0.46
19 4 0.10
ACGTcount: A:0.76, C:0.01, G:0.07, T:0.15
Consensus pattern (17 bp):
TAAAAAAAATAAAATAA
Found at i:19421799 original size:23 final size:24
Alignment explanation
Indices: 19421740--19421843 Score: 79
Period size: 23 Copynumber: 4.2 Consensus size: 24
19421730 GGATTTTATT
*
19421740 TAAAGAAAATAAAATAATAAAACAAAA
1 TAAAGAAAATAAAACAAT--AA-AAAA
19421767 TAAAGTGAAAATAAAA-AATAAAAAA
1 TAAA--GAAAATAAAACAATAAAAAA
19421792 TAAAGAAAAGTAAAACAA-AAATAAA
1 TAAAGAAAA-TAAAACAATAAA-AAA
* * **
19421817 TATA-AAAATAAAAGAATATTAAA
1 TAAAGAAAATAAAACAATAAAAAA
19421840 TAAA
1 TAAA
19421844 CCTAATCTAA
Statistics
Matches: 66, Mismatches: 5, Indels: 16
0.76 0.06 0.18
Matches are distributed among these distances:
23 18 0.27
24 13 0.20
25 16 0.24
26 2 0.03
27 4 0.06
28 3 0.05
29 10 0.15
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.17
Consensus pattern (24 bp):
TAAAGAAAATAAAACAATAAAAAA
Found at i:19421800 original size:17 final size:16
Alignment explanation
Indices: 19421740--19421829 Score: 58
Period size: 17 Copynumber: 5.3 Consensus size: 16
19421730 GGATTTTATT
*
19421740 TAAAGAAAATAAAATAA
1 TAAAAAAAATAAAA-AA
19421757 TAAAACAAAATAAAGTGAAA
1 TAAAA-AAAATAAA---AAA
*
19421777 -ATAAAAAATAAAAAA
1 TAAAAAAAATAAAAAA
* *
19421792 TAAAGAAAAGTAAAACA
1 TAAA-AAAAATAAAAAA
*
19421809 -AAAATAAATATAAAAA
1 TAAAAAAAATA-AAAAA
19421825 TAAAA
1 TAAAA
19421830 GAATATTAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
15 8 0.14
16 9 0.16
17 18 0.32
18 16 0.28
19 3 0.05
20 2 0.04
21 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.16
Consensus pattern (16 bp):
TAAAAAAAATAAAAAA
Found at i:19421806 original size:29 final size:27
Alignment explanation
Indices: 19421741--19421830 Score: 76
Period size: 29 Copynumber: 3.1 Consensus size: 27
19421731 GATTTTATTT
* *
19421741 AAAG-AAAATAAAATAATAAAACAAAAT
1 AAAGTAAAATAAAA-AATAAAAAAAAAA
19421768 AAAGTGAAAATAAAAAATAAAAAATAAAGA
1 AAAGT-AAAATAAAAAATAAAAAA-AAA-A
*
19421798 AAAGTAAAA-CAAAAATAAATATAAAAATA
1 AAAGTAAAATAAAAAATAAA-A-AAAAA-A
19421827 AAAG
1 AAAG
19421831 AATATTAAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
27 4 0.08
28 17 0.32
29 25 0.47
30 7 0.13
ACGTcount: A:0.77, C:0.02, G:0.07, T:0.14
Consensus pattern (27 bp):
AAAGTAAAATAAAAAATAAAAAAAAAA
Found at i:19421872 original size:17 final size:17
Alignment explanation
Indices: 19421852--19421889 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
19421842 AACCTAATCT
*
19421852 AATAATAATA-ATAAATA
1 AATAA-AATATATAAAAA
19421869 AATAAAATATATAAAAA
1 AATAAAATATATAAAAA
19421886 AATA
1 AATA
19421890 GTACGGCCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
AATAAAATATATAAAAA
Found at i:19422757 original size:22 final size:22
Alignment explanation
Indices: 19422730--19422782 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
19422720 CAAAAATTAA
19422730 CAGATAAATTAAAATTAAATAAT
1 CAGATAAATTAAAA-TAAATAAT
* *
19422753 -AGATAAATTATAATATATAAT
1 CAGATAAATTAAAATAAATAAT
19422774 CAGATAAAT
1 CAGATAAAT
19422783 ATATATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 7 0.26
22 20 0.74
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.32
Consensus pattern (22 bp):
CAGATAAATTAAAATAAATAAT
Found at i:19422862 original size:15 final size:16
Alignment explanation
Indices: 19422825--19422882 Score: 61
Period size: 15 Copynumber: 3.8 Consensus size: 16
19422815 AAGGATATAT
19422825 ATAAT-AATAAAT-AG
1 ATAATAAATAAATAAG
19422839 TAGTAATAAATAAATAA-
1 -A-TAATAAATAAATAAG
*
19422856 ATAATAAATACATAAG
1 ATAATAAATAAATAAG
19422872 ATAA-AAATAAA
1 ATAATAAATAAA
19422883 AATATATATA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
15 20 0.54
16 9 0.24
17 7 0.19
18 1 0.03
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (16 bp):
ATAATAAATAAATAAG
Found at i:19422863 original size:7 final size:7
Alignment explanation
Indices: 19422827--19422886 Score: 54
Period size: 7 Copynumber: 8.6 Consensus size: 7
19422817 GGATATATAT
19422827 AATAATA
1 AATAATA
*
19422834 AATAGT-
1 AATAATA
*
19422840 AGTAATA
1 AATAATA
19422847 AATAAATA
1 AAT-AATA
19422855 AATAATA
1 AATAATA
19422862 AATACATA
1 AATA-ATA
19422870 AGATAA-A
1 A-ATAATA
19422877 AATAA-A
1 AATAATA
19422883 AATA
1 AATA
19422887 TATATATCTA
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
6 13 0.29
7 17 0.38
8 12 0.27
9 3 0.07
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (7 bp):
AATAATA
Found at i:19431157 original size:13 final size:13
Alignment explanation
Indices: 19431148--19431172 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19431138 TTTTTTTTGT
19431148 TATATTTTTTATA
1 TATATTTTTTATA
19431161 TATATTTTTTAT
1 TATATTTTTTAT
19431173 TTTTGTTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TATATTTTTTATA
Found at i:19431203 original size:20 final size:19
Alignment explanation
Indices: 19431164--19431230 Score: 66
Period size: 20 Copynumber: 3.6 Consensus size: 19
19431154 TTTTATATAT
* *
19431164 ATTTT-TTATTTTTGTTTA
1 ATTTTATTATTATTATTTA
19431182 ATTTTATTATTATGTATTTA
1 ATTTTATTATTAT-TATTTA
** *
19431202 ATAATATTATTATTATTTT
1 ATTTTATTATTATTATTTA
19431221 A-TTTATTATT
1 ATTTTATTATT
19431231 TTTTCTATGA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
18 12 0.30
19 12 0.30
20 16 0.40
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (19 bp):
ATTTTATTATTATTATTTA
Found at i:19431522 original size:49 final size:49
Alignment explanation
Indices: 19431427--19431596 Score: 177
Period size: 49 Copynumber: 3.4 Consensus size: 49
19431417 CATTTCACTT
**
19431427 GAGGCTCAACAATTTTTCAAAAT-TTAAAATATGAAAAAGCTCATCTCAGCA
1 GAGGCTCAACAATTTTT-AAAATCTT-ATCT-TGAAAAAGCTCATCTCAGCA
* *
19431478 GAGGCTTAACAATTTTTAAAATCTTATCTTGAAAAAGCTCATCTCAGTA
1 GAGGCTCAACAATTTTTAAAATCTTATCTTGAAAAAGCTCATCTCAGCA
* * * *
19431527 GAGGC-CTAACAA-CTTTAAAATC-CATCTTGAAAAAGCTCTTTTCAAGCA
1 GAGGCTC-AACAATTTTTAAAATCTTATCTTGAAAAAGCTCATCTC-AGCA
*
19431575 GAGGGCTCAACAATTTTAAAAA
1 GA-GGCTCAACAATTTTTAAAA
19431597 ATTTCATATG
Statistics
Matches: 101, Mismatches: 12, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
47 18 0.18
48 14 0.14
49 37 0.37
50 14 0.14
51 18 0.18
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.29
Consensus pattern (49 bp):
GAGGCTCAACAATTTTTAAAATCTTATCTTGAAAAAGCTCATCTCAGCA
Found at i:19431578 original size:48 final size:48
Alignment explanation
Indices: 19431458--19431595 Score: 179
Period size: 49 Copynumber: 2.8 Consensus size: 48
19431448 ATTTAAAATA
* *
19431458 TGAAAAAGCTCATCTCAGCAGAGGCTTAACAATTTTTAAAATCTTATCT
1 TGAAAAAGCTCATCTCAGCAGAGGCCTAACAA-TTTTAAAATCTCATCT
* *
19431507 TGAAAAAGCTCATCTCAGTAGAGGCCTAACAACTTTAAAATC-CATCT
1 TGAAAAAGCTCATCTCAGCAGAGGCCTAACAATTTTAAAATCTCATCT
* * *
19431554 TGAAAAAGCTCTTTTCAAGCAGAGGGCTCAACAATTTTAAAA
1 TGAAAAAGCTCATCTC-AGCAGAGGCCT-AACAATTTTAAAA
19431596 AATTTCATAT
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
47 18 0.23
48 18 0.23
49 42 0.54
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (48 bp):
TGAAAAAGCTCATCTCAGCAGAGGCCTAACAATTTTAAAATCTCATCT
Found at i:19441169 original size:7 final size:8
Alignment explanation
Indices: 19441141--19441169 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
19441131 GCTTGAAGAA
19441141 AAAAAATG
1 AAAAAATG
19441149 AAAAAATG
1 AAAAAATG
19441157 AAAAAA-G
1 AAAAAATG
19441164 AAAAAA
1 AAAAAA
19441170 AAAGTGAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (8 bp):
AAAAAATG
Found at i:19442387 original size:44 final size:43
Alignment explanation
Indices: 19442324--19442475 Score: 150
Period size: 40 Copynumber: 3.5 Consensus size: 43
19442314 CAAAAAAATT
*
19442324 GCCTCTGTTTA-AAGGAGCTTTGTTTATTTTCAAAAAGTCGTTGA
1 GCCTCTGATTAGAA-GAGCTTTGTTTATTTTC-AAAAGTCGTTGA
* * *
19442368 GCCTTTGATTAGAAGAGCTTTATTTA--TTC-AAAGTCATTGA
1 GCCTCTGATTAGAAGAGCTTTGTTTATTTTCAAAAGTCGTTGA
*
19442408 GCCTCTGATTAGAGGAGCTTTGTTTATGTTTTTCAAAAGTCGTTGA
1 GCCTCTGATTAGAAGAGCTTTGTTTA---TTTTCAAAAGTCGTTGA
* * * *
19442454 GTCTCTGCTTAGAGGAGTTTTG
1 GCCTCTGATTAGAAGAGCTTTG
19442476 ATCAAATGTC
Statistics
Matches: 90, Mismatches: 11, Indels: 12
0.80 0.10 0.11
Matches are distributed among these distances:
40 33 0.37
42 3 0.03
44 20 0.22
45 5 0.06
46 29 0.32
ACGTcount: A:0.24, C:0.13, G:0.22, T:0.41
Consensus pattern (43 bp):
GCCTCTGATTAGAAGAGCTTTGTTTATTTTCAAAAGTCGTTGA
Found at i:19443793 original size:5 final size:5
Alignment explanation
Indices: 19443766--19443848 Score: 55
Period size: 5 Copynumber: 16.6 Consensus size: 5
19443756 TTAGATTAGG
* * * * * *
19443766 TTTAT TTAAT ATTCT TTTAT TTTTT TTTGT TTTACT TTT-C TTTATT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTA-T TTTAT TTTA-T TTTAT
*
19443817 TTTCAC TTTAT TTTAT TTTA- -TTAT TTTAT TTT
1 TTT-AT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
19443849 CTTTAAATAA
Statistics
Matches: 59, Mismatches: 13, Indels: 12
0.70 0.15 0.14
Matches are distributed among these distances:
3 3 0.05
4 3 0.05
5 41 0.69
6 12 0.20
ACGTcount: A:0.17, C:0.06, G:0.01, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:19443798 original size:15 final size:15
Alignment explanation
Indices: 19443780--19443853 Score: 66
Period size: 16 Copynumber: 4.9 Consensus size: 15
19443770 TTTAATATTC
*
19443780 TTTTATTTT-TTTTT
1 TTTTATTTTCTTTAT
19443794 GTTTTACTTTTCTTTAT
1 -TTTTA-TTTTCTTTAT
19443811 TTTTATTTTCACTTTA-
1 TTTTATTTT--CTTTAT
*
19443827 TTTTATTTT-ATTA-
1 TTTTATTTTCTTTAT
19443840 TTTTATTTTCTTTA
1 TTTTATTTTCTTTA
19443854 AATAAAATCC
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
13 12 0.24
14 3 0.06
15 9 0.18
16 18 0.35
17 9 0.18
ACGTcount: A:0.15, C:0.07, G:0.01, T:0.77
Consensus pattern (15 bp):
TTTTATTTTCTTTAT
Found at i:19443824 original size:22 final size:21
Alignment explanation
Indices: 19443779--19443853 Score: 73
Period size: 21 Copynumber: 3.5 Consensus size: 21
19443769 ATTTAATATT
* * *
19443779 CTTTTATTTTTTTTTGTTTTA
1 CTTTTCTTTATTTTTATTTTA
19443800 CTTTTCTTTATTTTTATTTTCA
1 CTTTTCTTTATTTTTATTTT-A
19443822 CTTTAT-TTTATTTTATTATTTTA
1 CTTT-TCTTTA-TTT-TTATTTTA
19443845 -TTTTCTTTA
1 CTTTTCTTTA
19443854 AATAAAATCC
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
21 18 0.39
22 16 0.35
23 5 0.11
24 7 0.15
ACGTcount: A:0.15, C:0.08, G:0.01, T:0.76
Consensus pattern (21 bp):
CTTTTCTTTATTTTTATTTTA
Found at i:19443842 original size:13 final size:13
Alignment explanation
Indices: 19443824--19443848 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19443814 TATTTTCACT
19443824 TTATTTTATTTTA
1 TTATTTTATTTTA
19443837 TTATTTTATTTT
1 TTATTTTATTTT
19443849 CTTTAAATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTATTTTATTTTA
Found at i:19443928 original size:61 final size:60
Alignment explanation
Indices: 19443861--19444115 Score: 255
Period size: 61 Copynumber: 4.2 Consensus size: 60
19443851 TTAAATAAAA
* * *
19443861 TCCAAAAAAAAATATTTTTTGGAAAAAGTTGAAAGTATCTATTTTTCTTGAA-AACAAGCTT
1 TCCAAAAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTTCTT-AAGAACAA-ATT
* * *
19443922 TCCAAAACAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAGAATAAATT
1 TCCAAAAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTTCTTAAGAACAAATT
* * * * *
19443982 TTC-AAAAAAAGTTTTTTTTGAGGAAAAGTTGAAAGTAT-AATTTTCCTTAAGAATAAATT
1 TCCAAAAAAAAATATTTTTTG-GGAAAAGTTGAAAGTATCAATTTTTCTTAAGAACAAATT
* ** * * * *
19444041 TTCAAAAAAAGGTTTTTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATT
1 TCCAAAAAAA----AATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTTCTTAAGAACAAATT
*
19444105 TTCAAAAAAAA
1 TCCAAAAAAAA
19444116 GGGGGGTTTT
Statistics
Matches: 168, Mismatches: 18, Indels: 17
0.83 0.09 0.08
Matches are distributed among these distances:
59 36 0.21
60 29 0.17
61 49 0.29
63 17 0.10
64 37 0.22
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.38
Consensus pattern (60 bp):
TCCAAAAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTTCTTAAGAACAAATT
Found at i:19444064 original size:67 final size:65
Alignment explanation
Indices: 19443936--19444158 Score: 307
Period size: 67 Copynumber: 3.5 Consensus size: 65
19443926 AAACAAAATA
* *
19443936 TTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAGAATAAATTTTC-AAAAAAA---G-TTT
1 TTTTTA-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAAGGGGTTTT
19443996 T
65 T
* * **
19443997 TTTTGAGGAAAAGTTGAAAGTAT-AATTTTCCTTAAGAATAAATTTTC-AAAAAAAGGTTTTTTT
1 TTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAAGGGGTTTTT
*
19444060 TTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAAGGGGGGTTT
1 TTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAA--GGGGTTT
19444125 TT
64 TT
19444127 TTTTTAGGAAAAGTTGAAAGTATCAATTTTCC
1 TTTTTAGGAAAAGTTGAAAGTATCAATTTTCC
19444159 CTTGTACAAA
Statistics
Matches: 145, Mismatches: 9, Indels: 10
0.88 0.05 0.06
Matches are distributed among these distances:
59 30 0.21
60 17 0.12
61 5 0.03
63 26 0.18
64 22 0.15
65 7 0.05
67 38 0.26
ACGTcount: A:0.39, C:0.05, G:0.15, T:0.40
Consensus pattern (65 bp):
TTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAAGGGGTTTTT
Found at i:19445854 original size:8 final size:8
Alignment explanation
Indices: 19445841--19445865 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
19445831 CAAAAATAAT
19445841 TATAAATA
1 TATAAATA
19445849 TATAAATA
1 TATAAATA
19445857 TATAAATA
1 TATAAATA
19445865 T
1 T
19445866 GCAATATAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TATAAATA
Found at i:19446278 original size:16 final size:16
Alignment explanation
Indices: 19446231--19446284 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
19446221 TATTGATGAG
19446231 ATAAAAAAAT-TATAAA
1 ATAAAAAAATATA-AAA
* *
19446247 ATATAATAATATTAAAA
1 ATAAAAAAATA-TAAAA
*
19446264 ATAAAAAAATATAAAT
1 ATAAAAAAATATAAAA
19446280 ATAAA
1 ATAAA
19446285 GATGTAATAG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
16 17 0.55
17 12 0.39
18 2 0.06
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
ATAAAAAAATATAAAA
Found at i:19449960 original size:8 final size:8
Alignment explanation
Indices: 19449947--19449971 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
19449937 CAAAAATAAT
19449947 TATAAATA
1 TATAAATA
19449955 TATAAATA
1 TATAAATA
19449963 TATAAATA
1 TATAAATA
19449971 T
1 T
19449972 GCAATATAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TATAAATA
Found at i:19450362 original size:16 final size:16
Alignment explanation
Indices: 19450320--19450372 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 16
19450310 TATTGATGAG
19450320 ATAAAAAA-ATTATAAA
1 ATAAAAAATATTA-AAA
*
19450336 ATATAATAATATTAAAA
1 ATA-AAAAATATTAAAA
*
19450353 ATAAAAAATA-TAAAT
1 ATAAAAAATATTAAAA
19450368 ATAAA
1 ATAAA
19450373 GATGTAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
15 9 0.28
16 9 0.28
17 10 0.31
18 4 0.12
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
ATAAAAAATATTAAAA
Found at i:19455259 original size:15 final size:15
Alignment explanation
Indices: 19455241--19455279 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
19455231 TCATGCAATA
19455241 AATATAAAATCATGC
1 AATATAAAATCATGC
19455256 AATATTAATAATCATGC
1 AATA-TAA-AATCATGC
19455273 AA-ATAAA
1 AATATAAA
19455280 TATATTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 1 0.05
15 7 0.32
16 4 0.18
17 10 0.45
ACGTcount: A:0.56, C:0.10, G:0.05, T:0.28
Consensus pattern (15 bp):
AATATAAAATCATGC
Found at i:19455270 original size:17 final size:18
Alignment explanation
Indices: 19455220--19455274 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 18
19455210 CAAAATTAAT
* *
19455220 ATAATATCATATCATGCA
1 ATAATATAAAATCATGCA
19455238 ATAAATATAAAATCATGCA
1 AT-AATATAAAATCATGCA
19455257 AT-AT-TAATAATCATGCA
1 ATAATATAA-AATCATGCA
19455274 A
1 A
19455275 ATAAATATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
16 3 0.09
17 12 0.36
18 2 0.06
19 16 0.48
ACGTcount: A:0.51, C:0.13, G:0.05, T:0.31
Consensus pattern (18 bp):
ATAATATAAAATCATGCA
Found at i:19455365 original size:40 final size:40
Alignment explanation
Indices: 19455335--19455427 Score: 127
Period size: 41 Copynumber: 2.3 Consensus size: 40
19455325 ATGCAAATAG
*
19455335 ACATGCAATTAAATATACAATCATGCAATTAACAATGTAAA
1 ACATGCAATTAAATAT-CAATCATGCAATTAACAATATAAA
*
19455376 ACATGCAATTAAATATCTATCATGCAATT-A-AATATATAA
1 ACATGCAATTAAATATCAATCATGCAATTAACAATATA-AA
*
19455415 TCATGCAATTAAA
1 ACATGCAATTAAA
19455428 AATATAAAAC
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
38 5 0.10
39 15 0.31
40 12 0.25
41 16 0.33
ACGTcount: A:0.49, C:0.14, G:0.06, T:0.30
Consensus pattern (40 bp):
ACATGCAATTAAATATCAATCATGCAATTAACAATATAAA
Found at i:19455431 original size:41 final size:41
Alignment explanation
Indices: 19455396--19455654 Score: 377
Period size: 41 Copynumber: 6.5 Consensus size: 41
19455386 AAATATCTAT
*
19455396 CATGCAATTAAATATATAATCATGCAATTAAAAATATAAAA
1 CATGCAATTAAATATATTATCATGCAATTAAAAATATAAAA
* *
19455437 CATGCAA--ATATATATTATCATGCAATTAACAATATAAAA
1 CATGCAATTAAATATATTATCATGCAATTAAAAATATAAAA
* *
19455476 CATGCAATTAAATATATAATCATGCAATT-AACA-A-AAAA
1 CATGCAATTAAATATATTATCATGCAATTAAAAATATAAAA
* *
19455514 -ATGCAATTAAATATATTATCATGCTATTAACAATATAAAA
1 CATGCAATTAAATATATTATCATGCAATTAAAAATATAAAA
* *
19455554 CATGCAAATAAATATATTATCATGCAATTAACAATATAAAA
1 CATGCAATTAAATATATTATCATGCAATTAAAAATATAAAA
*
19455595 CATGCAATTAAATATATTATCATGCAATTAATAATATAAAA
1 CATGCAATTAAATATATTATCATGCAATTAAAAATATAAAA
*
19455636 CATGCAAATAAATATATTA
1 CATGCAATTAAATATATTA
19455655 GTAATTAAGC
Statistics
Matches: 196, Mismatches: 16, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
37 26 0.13
38 6 0.03
39 38 0.19
40 6 0.03
41 120 0.61
ACGTcount: A:0.53, C:0.11, G:0.05, T:0.31
Consensus pattern (41 bp):
CATGCAATTAAATATATTATCATGCAATTAAAAATATAAAA
Found at i:19455500 original size:119 final size:119
Alignment explanation
Indices: 19455336--19455652 Score: 412
Period size: 119 Copynumber: 2.6 Consensus size: 119
19455326 TGCAAATAGA
* * * * *
19455336 CATGCAATT-A-AATATACAATCATGCAATTAACA-ATGTAAAACATGCAATTAAATATCTATCA
1 CATGCAATTAACAATATA-AAACATGCAATTAA-ATATAT-AATCATGCAATTAAATAT-AAACA
19455398 TGCAATTAAATATATAATCATGCAATTAAAAATATAAAACATGCAAAT-ATATATTAT
62 TGCAATTAAATATATAATCATGCAATTAAAAATATAAAACATGCAAATAATATATTAT
*
19455455 CATGCAATTAACAATATAAAACATGCAATTAAATATATAATCATGCAATTAACA-A-AAAAATGC
1 CATGCAATTAACAATATAAAACATGCAATTAAATATATAATCATGCAATTAA-ATATAAACATGC
* * *
19455518 AATTAAATATATTATCATGCTATTAACAATATAAAACATGCAAATAAATATATTAT
65 AATTAAATATATAATCATGCAATTAAAAATATAAAACATGCAAAT-AATATATTAT
*
19455574 CATGCAATTAACAATATAAAACATGCAATTAAATATATTATCATGCAATTAATAATATAAAACAT
1 CATGCAATTAACAATATAAAACATGCAATTAAATATATAATCATGCAATT-A-AATAT-AAACAT
*
19455639 GCAAATAAATATAT
63 GCAATTAAATATAT
19455653 TAGTAATTAA
Statistics
Matches: 175, Mismatches: 12, Indels: 18
0.85 0.06 0.09
Matches are distributed among these distances:
117 47 0.27
119 82 0.47
120 20 0.11
121 8 0.05
123 18 0.10
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.31
Consensus pattern (119 bp):
CATGCAATTAACAATATAAAACATGCAATTAAATATATAATCATGCAATTAAATATAAACATGCA
ATTAAATATATAATCATGCAATTAAAAATATAAAACATGCAAATAATATATTAT
Found at i:19455535 original size:78 final size:81
Alignment explanation
Indices: 19455336--19455652 Score: 400
Period size: 78 Copynumber: 4.0 Consensus size: 81
19455326 TGCAAATAGA
* * * * ** *
19455336 CATGCAATTAA-ATATACAATCATGCAATTAACA-ATGTAAAACATGCAATT-A-AATATCTATC
1 CATGCAATTAACATATA-AAACATGCAATTAA-ATATAT-TATCATGCAATTAACAATATAAAAC
*
19455397 ATGCAATTAAATATATAAT
63 ATGCAAATAAATATATAAT
* *
19455416 CATGCAATTAAAAATATAAAACATGCAA--ATATATATTATCATGCAATTAACAATATAAAACAT
1 CATGCAATT-AACATATAAAACATGCAATTAAATATATTATCATGCAATTAACAATATAAAACAT
*
19455479 GCAATTAAATATATAAT
65 GCAAATAAATATATAAT
*
19455496 CATGCAATTAACA-A-AAAA-ATGCAATTAAATATATTATCATGCTATTAACAATATAAAACATG
1 CATGCAATTAACATATAAAACATGCAATTAAATATATTATCATGCAATTAACAATATAAAACATG
*
19455558 CAAATAAATATATTAT
66 CAAATAAATATATAAT
*
19455574 CATGCAATTAACAATATAAAACATGCAATTAAATATATTATCATGCAATTAATAATATAAAACAT
1 CATGCAATTAAC-ATATAAAACATGCAATTAAATATATTATCATGCAATTAACAATATAAAACAT
19455639 GCAAATAAATATAT
65 GCAAATAAATATAT
19455653 TAGTAATTAA
Statistics
Matches: 211, Mismatches: 15, Indels: 20
0.86 0.06 0.08
Matches are distributed among these distances:
76 6 0.03
77 4 0.02
78 72 0.34
79 9 0.04
80 45 0.21
81 15 0.07
82 60 0.28
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.31
Consensus pattern (81 bp):
CATGCAATTAACATATAAAACATGCAATTAAATATATTATCATGCAATTAACAATATAAAACATG
CAAATAAATATATAAT
Found at i:19455666 original size:24 final size:24
Alignment explanation
Indices: 19455639--19455772 Score: 95
Period size: 24 Copynumber: 5.8 Consensus size: 24
19455629 TATAAAACAT
*
19455639 GCAAATAAATATATTAGTAATTAA
1 GCAAATAAATATATTAATAATTAA
* *
19455663 GCAATTAAATATATTAATAATTAT
1 GCAAATAAATATATTAATAATTAA
*
19455687 GC-AATCAAAT-TA-AATATAATTATA
1 GCAAAT-AAATATATTA-ATAATTA-A
19455711 -CAAATAAATATATTAATAA-T--
1 GCAAATAAATATATTAATAATTAA
** *
19455731 -CATGTAAATATATTAATAAATAA
1 GCAAATAAATATATTAATAATTAA
* *
19455754 CACAAATAAACATATTAAT
1 -GCAAATAAATATATTAAT
19455773 CATGCAAACA
Statistics
Matches: 87, Mismatches: 12, Indels: 21
0.73 0.10 0.17
Matches are distributed among these distances:
20 17 0.20
21 1 0.01
22 1 0.01
23 17 0.20
24 36 0.41
25 15 0.17
ACGTcount: A:0.55, C:0.07, G:0.04, T:0.34
Consensus pattern (24 bp):
GCAAATAAATATATTAATAATTAA
Found at i:19455719 original size:47 final size:45
Alignment explanation
Indices: 19455668--19455772 Score: 122
Period size: 47 Copynumber: 2.3 Consensus size: 45
19455658 ATTAAGCAAT
* * * *
19455668 TAAATATATTAATAATTATG-CAATCAAATTAAATATAATTATACAAA
1 TAAATATATTAATAATCATGTAAAT-AAATT-AATA-AATAACACAAA
*
19455715 TAAATATATTAATAATCATGTAAATATATTAATAAATAACACAAA
1 TAAATATATTAATAATCATGTAAATAAATTAATAAATAACACAAA
*
19455760 TAAACATATTAAT
1 TAAATATATTAAT
19455773 CATGCAAACA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
45 21 0.41
46 4 0.08
47 23 0.45
48 3 0.06
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (45 bp):
TAAATATATTAATAATCATGTAAATAAATTAATAAATAACACAAA
Found at i:19455814 original size:16 final size:17
Alignment explanation
Indices: 19455772--19455821 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
19455762 AACATATTAA
*
19455772 TCATGCAAACAAATATG
1 TCATGCAAATAAATATG
* *
19455789 TTAGGCAAATAAAT-TG
1 TCATGCAAATAAATATG
19455805 TCATGCAAATATAATAT
1 TCATGCAAATA-AATAT
19455822 TAATCATGCA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
16 11 0.42
17 14 0.54
18 1 0.04
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.30
Consensus pattern (17 bp):
TCATGCAAATAAATATG
Found at i:19456898 original size:28 final size:28
Alignment explanation
Indices: 19456860--19457064 Score: 103
Period size: 28 Copynumber: 7.3 Consensus size: 28
19456850 AGGTCCACCT
* *
19456860 TATTTTTTTATTATTATTTTGTATTTTA
1 TATTTTATTATTATTATTTTATATTTTA
*
19456888 TATTTTATTATTTTTATTTTATATTTTA
1 TATTTTATTATTATTATTTTATATTTTA
* *
19456916 TATATT-TT-TT-TT-CTTTATATTTTA
1 TATTTTATTATTATTATTTTATATTTTA
* *
19456940 TGTATTTATTATTCATT-TATTTAT-TATTA
1 TAT-TTTATTATT-ATTAT-TTTATATTTTA
*
19456969 CTA-TTTATTAATA-TATATTTA-A-TTTA
1 -TATTTTATTATTATTAT-TTTATATTTTA
*
19456995 T-TTATTATTTTTATTA-TTTAT-TTGTTGA
1 TATT-TTATTATTATTATTTTATATT-TT-A
* *
19457023 TATATATATGTATTATTATTTATCTATTTCTA
1 TAT-TTTAT-TATTATTATTT-TATATTT-TA
19457055 TATTATTATT
1 TATT-TTATT
19457065 TATCTATTTA
Statistics
Matches: 135, Mismatches: 18, Indels: 45
0.68 0.09 0.23
Matches are distributed among these distances:
24 13 0.10
25 10 0.07
26 16 0.12
27 15 0.11
28 40 0.30
29 10 0.07
30 14 0.10
31 4 0.03
32 10 0.07
33 3 0.02
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (28 bp):
TATTTTATTATTATTATTTTATATTTTA
Found at i:19456932 original size:24 final size:22
Alignment explanation
Indices: 19456870--19456952 Score: 105
Period size: 24 Copynumber: 3.7 Consensus size: 22
19456860 TATTTTTTTA
*
19456870 TTATTATTTTGTATTTTATATT
1 TTATTATTTTTTATTTTATATT
19456892 TTATTA-TTTTTATTTTATATT
1 TTATTATTTTTTATTTTATATT
*
19456913 TTATATATTTTTTTTCTTTATATT
1 TTAT-TATTTTTTAT-TTTATATT
*
19456937 TTATGTATTTATTATT
1 TTAT-TATTTTTTATT
19456953 CATTTATTTA
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
21 18 0.34
22 8 0.15
23 7 0.13
24 20 0.38
ACGTcount: A:0.23, C:0.01, G:0.02, T:0.73
Consensus pattern (22 bp):
TTATTATTTTTTATTTTATATT
Found at i:19456949 original size:13 final size:13
Alignment explanation
Indices: 19456859--19457017 Score: 80
Period size: 13 Copynumber: 12.1 Consensus size: 13
19456849 TAGGTCCACC
*
19456859 TTATTTTTTTATT
1 TTATTTATTTATT
*
19456872 ATTATTT-TGTATT
1 -TTATTTATTTATT
*
19456885 TTATATTTTATTATTT
1 TTAT-TTAT-TTA-TT
*
19456901 TTATTT-TATATT
1 TTATTTATTTATT
* *
19456913 TTATATATTTTTT
1 TTATTTATTTATT
*
19456926 TTCTTTA--TATT
1 TTATTTATTTATT
*
19456937 TTATGTATTTATT
1 TTATTTATTTATT
19456950 ATTCATTTATTTATT
1 -TT-ATTTATTTATT
*
19456965 ATTA-CTATTTATT
1 -TTATTTATTTATT
* * *
19456978 AATATATATTTAAT
1 -TTATTTATTTATT
19456992 TTATTTA-TTATT
1 TTATTTATTTATT
19457004 TT-TATTATTTATT
1 TTAT-TTATTTATT
19457017 T
1 T
19457018 GTTGATATAT
Statistics
Matches: 114, Mismatches: 19, Indels: 25
0.72 0.12 0.16
Matches are distributed among these distances:
11 9 0.08
12 20 0.18
13 44 0.39
14 18 0.16
15 17 0.15
16 6 0.05
ACGTcount: A:0.26, C:0.02, G:0.01, T:0.71
Consensus pattern (13 bp):
TTATTTATTTATT
Found at i:19456952 original size:7 final size:7
Alignment explanation
Indices: 19456859--19457120 Score: 88
Period size: 7 Copynumber: 36.1 Consensus size: 7
19456849 TAGGTCCACC
19456859 TTATT-T
1 TTATTAT
19456865 TT-TTA-
1 TTATTAT
19456870 TTATTAT
1 TTATTAT
19456877 TT-TGTAT
1 TTAT-TAT
19456884 TT-TATATT
1 TTAT-TA-T
19456892 TTATTAT
1 TTATTAT
19456899 TT-TTA-
1 TTATTAT
19456904 TT-TTAT
1 TTATTAT
19456910 ATT-TTAT
1 -TTATTAT
*
19456917 ATATT-T
1 TTATTAT
* *
19456923 TTTTTCT
1 TTATTAT
19456930 TTA-TATT
1 TTATTA-T
19456937 TTATGTAT
1 TTAT-TAT
19456945 TTATTAT
1 TTATTAT
*
19456952 TCATTTAT
1 TTA-TTAT
19456960 TTATTA-
1 TTATTAT
*
19456966 TTACTAT
1 TTATTAT
19456973 TTATTA-
1 TTATTAT
*
19456979 ATATATAT
1 TTAT-TAT
19456987 TTAATTTAT
1 TT-A-TTAT
19456996 TTATTATTT
1 TTATTA--T
19457005 TTATTAT
1 TTATTAT
19457012 TTATT-T
1 TTATTAT
19457018 GTTGATATAT
1 -TT-AT-TAT
*
19457028 ATATGTA-
1 TTAT-TAT
19457035 TTATTAT
1 TTATTAT
19457042 TTATCTAT
1 TTAT-TAT
*
19457050 TT-CTAT
1 TTATTAT
19457056 ATTATTAT
1 -TTATTAT
19457064 TTATCTAT
1 TTAT-TAT
*
19457072 TTACATAT
1 TTA-TTAT
19457080 ATTATTAT
1 -TTATTAT
19457088 TTATCTAT
1 TTAT-TAT
*
19457096 TAATTAAT
1 TTATT-AT
*
19457104 ATATTAT
1 TTATTAT
19457111 CCTTATTAT
1 --TTATTAT
19457120 T
1 T
19457121 ATCTTTTTAT
Statistics
Matches: 197, Mismatches: 23, Indels: 71
0.68 0.08 0.24
Matches are distributed among these distances:
5 9 0.05
6 29 0.15
7 75 0.38
8 55 0.28
9 27 0.14
10 2 0.01
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (7 bp):
TTATTAT
Found at i:19456961 original size:4 final size:4
Alignment explanation
Indices: 19456936--19457096 Score: 59
Period size: 4 Copynumber: 40.5 Consensus size: 4
19456926 TTCTTTATAT
* *
19456936 TTTA TGTA TTTA -TTA TTCA TTTA TTTA -TTA TTACTA TTTA TTAATA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT--TA TTTA TT--TA
* * * * * *
19456982 TATA TTTAA TTTA TTTA -TTA TTTT TATTA TTTA TTTG TTGA TATA TATA
1 TTTA TTT-A TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA
* * * * *
19457031 TGTA -TTA -TTA TTTA TCTA TTTC TATA -TTA -TTA TTTA TCTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
** *
19457075 CATA TATTA -TTA TTTA TCTA TT
1 TTTA T-TTA TTTA TTTA TTTA TT
19457097 AATTAATATA
Statistics
Matches: 115, Mismatches: 29, Indels: 26
0.68 0.17 0.15
Matches are distributed among these distances:
3 22 0.19
4 77 0.67
5 9 0.08
6 7 0.06
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.63
Consensus pattern (4 bp):
TTTA
Found at i:19457057 original size:30 final size:29
Alignment explanation
Indices: 19457006--19457074 Score: 68
Period size: 30 Copynumber: 2.3 Consensus size: 29
19456996 TTATTATTTT
* *
19457006 TATTATTTATTTGTTGATATATATATGTA-T
1 TATTATTTATCTATTGATATAT-TAT-TATT
**
19457036 TATTATTTATCTATTTCTATATTATTATT
1 TATTATTTATCTATTGATATATTATTATT
19457065 TATCTATTTA
1 TAT-TATTTA
19457075 CATATATTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 2 0.06
29 7 0.21
30 24 0.73
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.62
Consensus pattern (29 bp):
TATTATTTATCTATTGATATATTATTATT
Found at i:19457059 original size:22 final size:24
Alignment explanation
Indices: 19457033--19457096 Score: 114
Period size: 24 Copynumber: 2.8 Consensus size: 24
19457023 TATATATATG
19457033 TATTATTATTTATCTATTT-C-TA
1 TATTATTATTTATCTATTTACATA
19457055 TATTATTATTTATCTATTTACATA
1 TATTATTATTTATCTATTTACATA
19457079 TATTATTATTTATCTATT
1 TATTATTATTTATCTATT
19457097 AATTAATATA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
22 19 0.47
23 1 0.03
24 20 0.50
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (24 bp):
TATTATTATTTATCTATTTACATA
Found at i:19457917 original size:16 final size:16
Alignment explanation
Indices: 19457885--19457930 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
19457875 GAGCCATTCC
*
19457885 ATTTTTTTTTCAT-TTT
1 ATTTTTTTAT-ATATTT
19457901 ATTTTTTTATATATTT
1 ATTTTTTTATATATTT
*
19457917 ATTTATTTAT-TATT
1 ATTTTTTTATATATT
19457931 ATTGTTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 6 0.22
16 21 0.78
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (16 bp):
ATTTTTTTATATATTT
Found at i:19458004 original size:7 final size:6
Alignment explanation
Indices: 19457974--19458007 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
19457964 TATTTTTTCC
*
19457974 TTTATT TTTATT TTCATT TTTATT TTATATT TTT
1 TTTATT TTTATT TTTATT TTTATT TT-TATT TTT
19458008 TTCTTTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:19458094 original size:58 final size:59
Alignment explanation
Indices: 19458023--19458295 Score: 290
Period size: 58 Copynumber: 4.7 Consensus size: 59
19458013 TAAATAATTT
* *
19458023 AAAAAAA-AATTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTTGAAATTAAAGTTTAC
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTTGAAATTAAAGTTTTC
* ** * ** *
19458081 -ACAAAATATTTTTGGAAAAAAGTTAAAAGTATCAATTTTTCTTACAGA-TAAA-TTTTC
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAA-TTTTCTTTGAAATTAAAGTTTTC
* * * * *
19458138 AAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTATCCTCGAAATTAAAGTTTTC
1 AAAAAAA-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTTGAAATTAAAGTTTTC
* * *
19458198 AAAAAAATATTTTTGGGGAAAAGTTGAAAATATCAATTTT-TCTTAAAAAT-AAGTTTTC
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCT-TTGAAATTAAAGTTTTC
* *
19458256 AAAAATGA-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
1 AAAAA-AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
19458296 TCCTGCATAA
Statistics
Matches: 176, Mismatches: 31, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
57 9 0.05
58 83 0.47
59 72 0.41
60 12 0.07
ACGTcount: A:0.44, C:0.06, G:0.14, T:0.36
Consensus pattern (59 bp):
AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTTGAAATTAAAGTTTTC
Found at i:19458164 original size:117 final size:117
Alignment explanation
Indices: 19458023--19458295 Score: 381
Period size: 117 Copynumber: 2.3 Consensus size: 117
19458013 TAAATAATTT
* * * * *
19458023 AAAAAA-AAATTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTTGAAATTAAAGTTTAC-ACAAA
1 AAAAAAGAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTACAAAAAA
* *
19458086 ATATTTTTGGAAAAAAGTT-AAAAGTATCAATTTTTCTTACAGATAAATTTTC
66 ATATTTTTGGAAAAAAGTTGAAAA-TATCAATTTTTCTTAAAAATAAATTTTC
* * *
19458138 AAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTATCCTCGAAATTAAAGTTTTCAAAAA
1 -AAAAAAGAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTACAAAAA
** *
19458203 AATATTTTTGGGGAAAAGTTGAAAATATCAATTTTTCTTAAAAATAAGTTTTC
65 AATATTTTTGGAAAAAAGTTGAAAATATCAATTTTTCTTAAAAATAAATTTTC
*
19458256 AAAAATGAATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
1 AAAAAAGAATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
19458296 TCCTGCATAA
Statistics
Matches: 138, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
116 6 0.04
117 82 0.59
118 46 0.33
119 4 0.03
ACGTcount: A:0.44, C:0.06, G:0.14, T:0.36
Consensus pattern (117 bp):
AAAAAAGAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTACAAAAAA
ATATTTTTGGAAAAAAGTTGAAAATATCAATTTTTCTTAAAAATAAATTTTC
Found at i:19458296 original size:58 final size:59
Alignment explanation
Indices: 19458032--19458297 Score: 276
Period size: 59 Copynumber: 4.5 Consensus size: 59
19458022 TAAAAAAAAA
* * * *
19458032 TTTTGGGGAAAAGTTGAAAGTATCAA-TTTTCTTTGAAATTAAAGTTTACACAAAAT--AT
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTC-TTAAAAATAAAGTTTTCA-AAAATGAAT
* * * * * *
19458090 TTTTG-GAAAAAAGTTAAAAGTATCAATTTTTCTTACAGATAAA-TTTTCAAAAAAAGGAT
1 TTTTGAG-GAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAGTTTTC-AAAAATGAAT
* * ** * *
19458149 TTTTGAGGAAAAGTTGAAAGTATCAATTATCCTCGAAATTAAAGTTTTCAAAAA-AATAT
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAGTTTTCAAAAATGA-AT
* *
19458208 TTTTGGGGAAAAGTTGAAAATATCAATTTTTCTTAAAAAT-AAGTTTTCAAAAATGAAT
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAGTTTTCAAAAATGAAT
19458266 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTC
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTC
19458298 CTGCATAAAA
Statistics
Matches: 170, Mismatches: 29, Indels: 18
0.78 0.13 0.08
Matches are distributed among these distances:
57 9 0.05
58 75 0.44
59 80 0.47
60 6 0.04
ACGTcount: A:0.42, C:0.07, G:0.14, T:0.37
Consensus pattern (59 bp):
TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAGTTTTCAAAAATGAAT
Found at i:19462232 original size:18 final size:18
Alignment explanation
Indices: 19462211--19462282 Score: 65
Period size: 18 Copynumber: 3.8 Consensus size: 18
19462201 GATAATGAAA
*
19462211 AAAAATGGAAAAAAATGG
1 AAAAATGAAAAAAAATGG
*
19462229 AAAAAATTTAAAAAAAAAT-G
1 -AAAAA--TGAAAAAAAATGG
* *
19462249 AAAGAAAGAAAAAAAATGA
1 AAA-AATGAAAAAAAATGG
19462268 AAAAATGAAAAAAAA
1 AAAAATGAAAAAAAA
19462283 ATTCAAATTG
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
18 20 0.47
19 11 0.26
20 3 0.07
21 9 0.21
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.11
Consensus pattern (18 bp):
AAAAATGAAAAAAAATGG
Found at i:19462282 original size:10 final size:10
Alignment explanation
Indices: 19462204--19462282 Score: 76
Period size: 10 Copynumber: 8.2 Consensus size: 10
19462194 AAAAGAAGAT
19462204 AATGAAAAAA
1 AATGAAAAAA
*
19462214 AATGGAAAAA
1 AATGAAAAAA
19462224 AATGGAAAAAA
1 AAT-GAAAAAA
** *
19462235 TTTAAAAAAA
1 AATGAAAAAA
*
19462245 AATG-AAAGA
1 AATGAAAAAA
19462254 AA-GAAAAAA
1 AATGAAAAAA
19462263 AATG--AAAA
1 AATGAAAAAA
19462271 AATGAAAAAA
1 AATGAAAAAA
19462281 AA
1 AA
19462283 ATTCAAATTG
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
8 9 0.17
9 12 0.22
10 26 0.48
11 7 0.13
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (10 bp):
AATGAAAAAA
Found at i:19462710 original size:20 final size:20
Alignment explanation
Indices: 19462660--19462703 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
19462650 TATTTGTCAA
19462660 GAATTGCAATGATGATGAAT
1 GAATTGCAATGATGATGAAT
19462680 GAATTGCAATGATGATGAAT
1 GAATTGCAATGATGATGAAT
19462700 GAAT
1 GAAT
19462704 GACAATGTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.41, C:0.05, G:0.25, T:0.30
Consensus pattern (20 bp):
GAATTGCAATGATGATGAAT
Found at i:19464023 original size:41 final size:41
Alignment explanation
Indices: 19463966--19464360 Score: 393
Period size: 41 Copynumber: 9.6 Consensus size: 41
19463956 ATGATTGTGA
19463966 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAG
* * * *
19464007 AGGAGTAATTTACTTTTCAAAAGTTGAGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTATTTAG
* * *
19464049 AGGGGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAG
* * * *
19464090 AGGAGCAATTTAGTTTTCAAAGTTGAGGTGCCTCGATTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAG
* *
19464131 AGGAGCAATTTACTTTCCAAAGTCGTGGTTACCTCTATTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGG-TGCCTCTATTTAG
** * * *
19464173 AAAAGCAATTTACTTTTCAAAGTTGTGGTGCCTTTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAG
** * * *
19464214 AGGAGC-ATTTA-TTTTTGAAGTCATGGTGCTTCTACTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAG
* *** * * * *
19464253 AGAATTTATTTATTTTTCAAAGTTGTTGAGCCTCTGA-TTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCT-ATTTAG
* * * * *
19464294 AGGAGCCATTTATTTTTCAAAGTCGTTGAGCCTCTAATTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAG
*
19464335 AGGAGCCATTTA-TTTGTCAAAGTCGT
1 AGGAGCAATTTACTTT-TCAAAGTCGT
19464361 TAAGCTTCTG
Statistics
Matches: 297, Mismatches: 50, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
39 23 0.08
40 14 0.05
41 188 0.63
42 72 0.24
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.38
Consensus pattern (41 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAG
Found at i:19464109 original size:83 final size:82
Alignment explanation
Indices: 19463966--19464357 Score: 441
Period size: 83 Copynumber: 4.8 Consensus size: 82
19463956 ATGATTGTGA
*
19463966 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGTAATTTACTTTTCAAAAGT
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTACTTTTC-AAAGT
19464031 TGAGGTGCCTCTGTTTAG
65 TGAGGTGCCTCTGTTTAG
* * * *
19464049 AGGGGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTAGTTTTCAAAGTT
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTT
19464114 GAGGTGCCTC-GATTTAG
66 GAGGTGCCTCTG-TTTAG
* * **
19464131 AGGAGCAATTTACTTTCCAAAGTCGTGGTTACCTCTATTTAGAAAAGCAATTTACTTTTCAAAGT
1 AGGAGCAATTTACTTTTCAAAGTCGTGG-TGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGT
* *
19464196 TGTGGTGCCTTTGTTTAG
65 TGAGGTGCCTCTGTTTAG
** * * * * *** *
19464214 AGGAGC-ATTTA-TTTTTGAAGTCATGGTGCTTCTACTTAGAGAATTTATTTATTTTTCAAAGTT
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTT
** * *
19464277 GTTGAGCCTCTGATTAG
66 GAGGTGCCTCTGTTTAG
* * * * * *
19464294 AGGAGCCATTTATTTTTCAAAGTCGTTGAGCCTCTAATTAGAGGAGCCATTTA-TTTGTCAAAGT
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTACTTT-TCAAAGT
19464358 CGTTAAGCTT
Statistics
Matches: 261, Mismatches: 42, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
80 48 0.18
81 20 0.08
82 87 0.33
83 105 0.40
84 1 0.00
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.39
Consensus pattern (82 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTT
GAGGTGCCTCTGTTTAG
Found at i:19464186 original size:124 final size:124
Alignment explanation
Indices: 19463966--19464229 Score: 370
Period size: 124 Copynumber: 2.1 Consensus size: 124
19463956 ATGATTGTGA
* * *
19463966 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGTAATTTACTTTTCAAAAGT
1 AGGAGCAATTTACTTTTCAAAGTCGAGGTGCCTCGATTTAGAGGAGCAATTTACTTTTCAAAAGT
* * * ***
19464031 TGAGGTGCCTCTGTTTAGAGGGGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAG
66 CGAGGTACCTCTATTTAGAAAAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAG
* * *
19464090 AGGAGCAATTTAGTTTTCAAAGTTGAGGTGCCTCGATTTAGAGGAGCAATTTAC-TTTCCAAAGT
1 AGGAGCAATTTACTTTTCAAAGTCGAGGTGCCTCGATTTAGAGGAGCAATTTACTTTTCAAAAGT
* *
19464154 CGTGGTTACCTCTATTTAGAAAAGCAATTTACTTTTCAAAGTTGTGGTGCCTTTGTTTAG
66 CGAGG-TACCTCTATTTAGAAAAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAG
*
19464214 AGGAGC-ATTTATTTTT
1 AGGAGCAATTTACTTTT
19464230 GAAGTCATGG
Statistics
Matches: 124, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
123 21 0.17
124 103 0.83
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (124 bp):
AGGAGCAATTTACTTTTCAAAGTCGAGGTGCCTCGATTTAGAGGAGCAATTTACTTTTCAAAAGT
CGAGGTACCTCTATTTAGAAAAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAG
Found at i:19464361 original size:41 final size:41
Alignment explanation
Indices: 19463966--19464421 Score: 278
Period size: 41 Copynumber: 11.1 Consensus size: 41
19463956 ATGATTGTGA
* * * *
19463966 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCT-ATTTAG
1 AGGAGCCATTTATTTTTCAAAGTCGTTGAGCCTCTGA-TTAG
** * * ** * *
19464007 AGGAGTAATTTACTTTTCAAAAGTTGAGGTGCCTCTGTTTAG
1 AGGAGCCATTTATTTTTC-AAAGTCGTTGAGCCTCTGATTAG
* * * * * * *
19464049 AGGGGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAG
1 AGGAGCCATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAG
* * * ** *
19464090 AGGAGCAATTTAGTTTTCAAAGTTGAGGTGCCTC-GATTTAG
1 AGGAGCCATTTATTTTTCAAAGTCGTTGAGCCTCTGA-TTAG
* * * *
19464131 AGGAGCAATTTACTTTCCAAAGTCGTGGTTA-CCTCT-ATTTAG
1 AGGAGCCATTTATTTTTCAAAGTCGT--TGAGCCTCTGA-TTAG
** * * * * * * *
19464173 AAAAGCAATTTACTTTTCAAAGTTGTGGTGCCTTTGTTTAG
1 AGGAGCCATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAG
* * * * *
19464214 AGGAG-CATTTATTTTT-GAAGTCATGGTGCTTCT-ACTTAG
1 AGGAGCCATTTATTTTTCAAAGTCGTTGAGCCTCTGA-TTAG
* *** *
19464253 AGAATTTATTTATTTTTCAAAGTTGTTGAGCCTCTGATTAG
1 AGGAGCCATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAG
*
19464294 AGGAGCCATTTATTTTTCAAAGTCGTTGAGCCTCTAATTAG
1 AGGAGCCATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAG
* * * *
19464335 AGGAGCCATTTATTTGTCAAAGTCGTTAAGCTTCTGATTGG
1 AGGAGCCATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAG
* * * * *
19464376 AAGAGCCATTTATTTCTCAAAGTCGTAGAGCCTCTGCTTAA
1 AGGAGCCATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAG
19464417 AGGAG
1 AGGAG
19464422 TTTTAATCAA
Statistics
Matches: 337, Mismatches: 66, Indels: 24
0.79 0.15 0.06
Matches are distributed among these distances:
39 19 0.06
40 20 0.06
41 230 0.68
42 68 0.20
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.38
Consensus pattern (41 bp):
AGGAGCCATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAG
Found at i:19464581 original size:45 final size:44
Alignment explanation
Indices: 19464456--19464597 Score: 189
Period size: 45 Copynumber: 3.2 Consensus size: 44
19464446 TTACCTCCAT
*
19464456 TTAGAGGAGCTTTGTTTATGTTTTTCAAAGTCGTTAAGCCTCTGA
1 TTAGAGGAGC-TTGTTTATGTTTTTCAAAGTCGTTGAGCCTCTGA
* ** * *
19464501 TTAGAGGAGCTT-TAT-TCATTTTCAAAGTCATTGAGCCTCCGA
1 TTAGAGGAGCTTGTTTATGTTTTTCAAAGTCGTTGAGCCTCTGA
*
19464543 TTAGAGGAGCATTGTTTATGTTTTTCAAAGTCGTTGAGCCTCTGC
1 TTAGAGGAGC-TTGTTTATGTTTTTCAAAGTCGTTGAGCCTCTGA
19464588 TTAGAGGAGC
1 TTAGAGGAGC
19464598 CTTGATCAAA
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
42 32 0.39
43 4 0.05
44 4 0.05
45 42 0.51
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (44 bp):
TTAGAGGAGCTTGTTTATGTTTTTCAAAGTCGTTGAGCCTCTGA
Found at i:19464809 original size:7 final size:7
Alignment explanation
Indices: 19464799--19464872 Score: 86
Period size: 7 Copynumber: 11.1 Consensus size: 7
19464789 TTTTTTTTGT
*
19464799 TATTTTG
1 TATTTTA
19464806 TATTTTA
1 TATTTTA
19464813 TATTTTA
1 TATTTTA
19464820 TATTTTA
1 TATTTTA
19464827 TTATTTT-
1 -TATTTTA
19464834 TATTTTA
1 TATTTTA
19464841 TATTTTA
1 TATTTTA
19464848 TA-TTT-
1 TATTTTA
19464853 T-TTTT-
1 TATTTTA
*
19464858 TCTTTTA
1 TATTTTA
19464865 TATTTTA
1 TATTTTA
19464872 T
1 T
19464873 GTATTTATTA
Statistics
Matches: 60, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
5 5 0.08
6 13 0.22
7 36 0.60
8 6 0.10
ACGTcount: A:0.22, C:0.01, G:0.01, T:0.76
Consensus pattern (7 bp):
TATTTTA
Found at i:19464961 original size:4 final size:3
Alignment explanation
Indices: 19464877--19465081 Score: 73
Period size: 3 Copynumber: 63.3 Consensus size: 3
19464867 TTTTATGTAT
* *
19464877 TTA TTA TTCA TTTA TTTA TTA TTA CTA TTA TTA ATA TATA TTTA TT-
1 TTA TTA TT-A -TTA -TTA TTA TTA TTA TTA TTA TTA T-TA -TTA TTA
*
19464923 TTA TT- TTA TTA CTT- TTA TTA TTTA TCTG TTGA -TA TATA TGTA TTA
1 TTA TTA TTA TTA -TTA TTA TTA -TTA T-TA TT-A TTA T-TA T-TA TTA
19464968 TTA TTTA TCTA TTTA TATA TTA TTA TTA TTA TTTA TCTA -TA TATA TTA
1 TTA -TTA T-TA -TTA T-TA TTA TTA TTA TTA -TTA T-TA TTA T-TA TTA
* ** * *
19465016 TTA TTTA TCTA TTAA TTA ATA -TA TTA TCC TTA TTA TTA TCTT TTT TTA
1 TTA -TTA T-TA TT-A TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
* *
19465064 TTA TTT TTT TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA T
19465082 CATTTTTTTC
Statistics
Matches: 159, Mismatches: 16, Indels: 54
0.69 0.07 0.24
Matches are distributed among these distances:
2 13 0.08
3 90 0.57
4 52 0.33
5 4 0.03
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:19464971 original size:28 final size:28
Alignment explanation
Indices: 19464877--19465020 Score: 124
Period size: 28 Copynumber: 5.2 Consensus size: 28
19464867 TTTTATGTAT
*
19464877 TTATTATTCATTTATTTATT-ATTACTATTA
1 TTATTATT-ATTTATCTATTGA-TA-TATTA
* *
19464907 TTAATATATATTTAT-T-TT-ATTTTATTA
1 TTATTAT-TATTTATCTATTGA-TATATTA
*
19464934 CTT-TTATTATTTATCTGTTGATATA-TA
1 -TTATTATTATTTATCTATTGATATATTA
*
19464961 TGTATTATTATTTATCTATTTATATATTA
1 T-TATTATTATTTATCTATTGATATATTA
19464990 TTATTATTATTTATCTA-T-ATATATTA
1 TTATTATTATTTATCTATTGATATATTA
19465016 TTATT
1 TTATT
19465021 TATCTATTAA
Statistics
Matches: 100, Mismatches: 6, Indels: 20
0.79 0.05 0.16
Matches are distributed among these distances:
26 21 0.21
27 13 0.13
28 48 0.48
29 5 0.05
30 12 0.12
31 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (28 bp):
TTATTATTATTTATCTATTGATATATTA
Found at i:19465028 original size:28 final size:24
Alignment explanation
Indices: 19464869--19465052 Score: 111
Period size: 26 Copynumber: 6.9 Consensus size: 24
19464859 CTTTTATATT
19464869 TTATGTAT-TTATTATTCATTTATTTA
1 TTAT-TATATTATTATT-A-TTATTTA
*
19464895 TTATTACTATTATTAATATATATTTA
1 TTATTA-TATTATTATTAT-TATTTA
*
19464921 TT-TTATTTTATTACTTTTATTATTTA
1 TTATTATATTATTA---TTATTATTTA
*
19464947 TCTGTTGATATATATGTATTATTATTTA
1 T-TATT-ATAT-TAT-TATTATTATTTA
19464975 TCTATTTATATATTATTATTATTATTTA
1 T-TA--T-TATATTATTATTATTATTTA
*
19465003 TCTATATATATTATTATTTATCTATTAA
1 T-TAT-TATATTATTA-TTAT-TATTTA
* **
19465031 TTAATATATTATCCTTATTATT
1 TTATTATATTATTATTATTATT
19465053 ATCTTTTTTT
Statistics
Matches: 133, Mismatches: 9, Indels: 34
0.76 0.05 0.19
Matches are distributed among these distances:
24 11 0.08
25 10 0.08
26 41 0.31
27 17 0.13
28 37 0.28
29 6 0.05
30 8 0.06
31 3 0.02
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (24 bp):
TTATTATATTATTATTATTATTTA
Found at i:19465040 original size:20 final size:19
Alignment explanation
Indices: 19464956--19465053 Score: 67
Period size: 20 Copynumber: 5.0 Consensus size: 19
19464946 ATCTGTTGAT
* *
19464956 ATATATGTAT-TATTATTT
1 ATATATTTATCTATTATTA
* *
19464974 ATCTATTTATATATTATTA
1 ATATATTTATCTATTATTA
*
19464993 TTATTATTTATCTA-TATATA
1 ATA-TATTTATCTATTAT-TA
*
19465013 TTATTATTTATCTATTAATTA
1 ATA-TATTTATCTATT-ATTA
19465034 ATATA-TTATCCTTATTATTA
1 ATATATTTAT-C-TATTATTA
19465054 TCTTTTTTTA
Statistics
Matches: 66, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
18 8 0.12
19 15 0.23
20 32 0.48
21 9 0.14
22 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.59
Consensus pattern (19 bp):
ATATATTTATCTATTATTA
Found at i:19465069 original size:48 final size:48
Alignment explanation
Indices: 19464957--19465056 Score: 130
Period size: 48 Copynumber: 2.0 Consensus size: 48
19464947 TCTGTTGATA
* *
19464957 TATATGTATTATTATTTATCTATTTATATATTATTATTATTATTTATC
1 TATATATATTATTATTTATCTATTTATATATTATCATTATTATTTATC
*
19465005 TATATATATTATTATTTATCTATTAATTAATATATTATCCTTATTA-TTATC
1 TATATATATTATTATTTATCTA-T--TT-ATATATTATCATTATTATTTATC
19465056 T
1 T
19465057 TTTTTTATTA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
48 21 0.47
49 1 0.02
51 8 0.18
52 15 0.33
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (48 bp):
TATATATATTATTATTTATCTATTTATATATTATCATTATTATTTATC
Found at i:19465087 original size:16 final size:15
Alignment explanation
Indices: 19465045--19465090 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
19465035 TATATTATCC
19465045 TTATTATTATCTTTTT
1 TTATT-TTATCTTTTT
19465061 TTA--TTAT-TTTTT
1 TTATTTTATCTTTTT
19465073 TTATTTTATCATTTTT
1 TTATTTTATC-TTTTT
19465089 TT
1 TT
19465091 CTCTTCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
12 8 0.31
13 4 0.15
14 4 0.15
16 10 0.38
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.78
Consensus pattern (15 bp):
TTATTTTATCTTTTT
Found at i:19465918 original size:16 final size:17
Alignment explanation
Indices: 19465897--19465930 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
19465887 CGCTCCAGGT
*
19465897 TTTTTTTTTCAT-TTTA
1 TTTTTTTTACATATTTA
19465913 TTTTTTTTACATATTTA
1 TTTTTTTTACATATTTA
19465930 T
1 T
19465931 ATATTTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTTTTACATATTTA
Found at i:19465972 original size:19 final size:19
Alignment explanation
Indices: 19465935--19465972 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
19465925 ATTTATATAT
*
19465935 TTATTTATTATTATTATTA
1 TTATTTATTATTATGATTA
19465954 TTATTTATTGATTA-GATTA
1 TTATTTATT-ATTATGATTA
19465973 GATTTGTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (19 bp):
TTATTTATTATTATGATTA
Found at i:19466006 original size:6 final size:6
Alignment explanation
Indices: 19465995--19466033 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
19465985 ATTTTTTTCC
*
19465995 TTTATT TTTATT TTCATT TTTATT TTATATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TT-TATT TTTATT TT
19466034 CTTTAAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:19466112 original size:60 final size:58
Alignment explanation
Indices: 19466029--19466325 Score: 341
Period size: 58 Copynumber: 5.1 Consensus size: 58
19466019 TTATATTTTT
* *
19466029 ATTTT-CTTTAAAT-AATTTTCAAAAAAAAATATTTTTGGGGAAAAATTGAAAGTATCA
1 ATTTTCCTTAAAATAAATTTTC-AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCA
* * *
19466086 ATTTTCCTTAAAGATAAATTTTCAAAAAAAAGATTTTTGAGGAAAAGTTGAAAATATCA
1 ATTTTCCTTAAA-ATAAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCA
* * * * * *
19466145 ATTTTCCTCGAAATTAAAGTTTC-TAAAACATATTTTTGGGAAAAAGTTGAAAGTATCA
1 ATTTTCCT-TAAAATAAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCA
* * *
19466203 ATTTTCCTTGAAAATAAGCTTTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAATATCA
1 ATTTTCCTT-AAAATAA-ATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCA
** * * *
19466263 ATTTTCCTCGAAATTAATGTTTC-AAAAGAATATTTTTGGAGAAAAGTTGAAAGTATCA
1 ATTTTCCTTAAAATAAAT-TTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCA
19466321 ATTTT
1 ATTTT
19466326 TCCTGCACAA
Statistics
Matches: 201, Mismatches: 31, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
57 5 0.02
58 86 0.43
59 61 0.30
60 49 0.24
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (58 bp):
ATTTTCCTTAAAATAAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCA
Found at i:19466266 original size:118 final size:116
Alignment explanation
Indices: 19466052--19466325 Score: 419
Period size: 118 Copynumber: 2.3 Consensus size: 116
19466042 AATTTTCAAA
*
19466052 AAAAAATATTTTTGGGGAAAAA-TTGAAAGTATCAATTTTCCTTAAAGATAAATTTTCAAAAAAA
1 AAAAAATATTTTT-GGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAGATAAATTTCCAAAAAAA
19466116 AGATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTCGAAATTAAAGTTTC
65 AGATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTCGAAATTAAAGTTTC
* *
19466168 TAAAACATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTGAAA-ATAAGCTTTCCAAAAA
1 -AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTT-AAAGATAA-ATTTCCAAAAA
* * *
19466232 AAATATTTTTGGGGAAAAGTTGAAAATATCAATTTTCCTCGAAATTAATGTTTC
63 AAAGATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTCGAAATTAAAGTTTC
19466286 AAAAGAATATTTTT-GGAGAAAAGTTGAAAGTATCAATTTT
1 AAAA-AATATTTTTGGGA-AAAAGTTGAAAGTATCAATTTT
19466326 TCCTGCACAA
Statistics
Matches: 145, Mismatches: 7, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
116 8 0.06
117 44 0.30
118 93 0.64
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.35
Consensus pattern (116 bp):
AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAGATAAATTTCCAAAAAAAA
GATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTCGAAATTAAAGTTTC
Found at i:19470289 original size:30 final size:29
Alignment explanation
Indices: 19470255--19470340 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 29
19470245 ATCAACAACG
19470255 GATGAAAAATGAGAAAAAA-GAAAAAAAAAT
1 GATGAAAAA--AGAAAAAAGGAAAAAAAAAT
*
19470285 GATGAAAAAAGAAAAAATGGAAAAAAAAAA
1 GATGAAAAAAGAAAAAA-GGAAAAAAAAAT
* *
19470315 GAAAGAAAGAAA-AAAAAATGAAAAAA
1 G-ATGAAA-AAAGAAAAAAGGAAAAAA
19470341 TGAAAAAAAG
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
28 8 0.16
30 27 0.55
31 11 0.22
32 3 0.06
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (29 bp):
GATGAAAAAAGAAAAAAGGAAAAAAAAAT
Found at i:19470291 original size:21 final size:20
Alignment explanation
Indices: 19470259--19470351 Score: 78
Period size: 20 Copynumber: 4.8 Consensus size: 20
19470249 ACAACGGATG
19470259 AAAAATGAGAAAAAAGAAAA
1 AAAAATGAGAAAAAAGAAAA
19470279 AAAAATGATGAAAAAAG---A
1 AAAAATGA-GAAAAAAGAAAA
19470297 AAAAATG-GAAAAAA-AAAA
1 AAAAATGAGAAAAAAGAAAA
19470315 GAAAGAA--AGAAAAAA-AAATGA
1 -AAA-AATGAGAAAAAAGAAA--A
19470336 AAAAATGA-AAAAAAGA
1 AAAAATGAGAAAAAAGA
19470352 TTCAAATTGA
Statistics
Matches: 61, Mismatches: 0, Indels: 23
0.73 0.00 0.27
Matches are distributed among these distances:
16 7 0.11
18 9 0.15
19 15 0.25
20 19 0.31
21 11 0.18
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.06
Consensus pattern (20 bp):
AAAAATGAGAAAAAAGAAAA
Found at i:19470292 original size:19 final size:18
Alignment explanation
Indices: 19470259--19470349 Score: 77
Period size: 18 Copynumber: 5.2 Consensus size: 18
19470249 ACAACGGATG
19470259 AAAAATGAGAAAAAAGAAAA
1 AAAAATGAG--AAAAGAAAA
*
19470279 AAAAATGATGAAAA-AAGA
1 AAAAATGA-GAAAAGAAAA
19470297 AAAAATG-GAAAA-AAAA
1 AAAAATGAGAAAAGAAAA
*
19470313 AAGAA--AG-AAAGAAAA
1 AAAAATGAGAAAAGAAAA
*
19470328 AAAAATGAAAAAATGAAAA
1 AAAAATGAGAAAA-GAAAA
19470347 AAA
1 AAA
19470350 GATTCAAATT
Statistics
Matches: 59, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
14 3 0.05
15 9 0.15
16 12 0.20
17 1 0.02
18 13 0.22
19 12 0.20
20 8 0.14
21 1 0.02
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (18 bp):
AAAAATGAGAAAAGAAAA
Found at i:19470308 original size:28 final size:27
Alignment explanation
Indices: 19470255--19470348 Score: 88
Period size: 28 Copynumber: 3.4 Consensus size: 27
19470245 ATCAACAACG
19470255 GATGAAAAATGAGAAAAAAGAAAAAAAAA
1 GATGAAAAA--AGAAAAAAGAAAAAAAAA
19470284 TGATGAAAAAAGAAAAAATGGAAAAAAAAA
1 -GATGAAAAAAGAAAAAA--GAAAAAAAAA
*
19470314 -A-GAAAGAAAGAAAAAA-AAATGAAAAA
1 GATGAAA-AAAGAAAAAAGAAA-AAAAAA
19470340 -ATGAAAAAA
1 GATGAAAAAA
19470349 AGATTCAAAT
Statistics
Matches: 58, Mismatches: 1, Indels: 14
0.79 0.01 0.19
Matches are distributed among these distances:
25 3 0.05
26 9 0.16
27 8 0.14
28 19 0.33
30 19 0.33
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (27 bp):
GATGAAAAAAGAAAAAAGAAAAAAAAA
Found at i:19470310 original size:38 final size:39
Alignment explanation
Indices: 19470259--19470351 Score: 113
Period size: 38 Copynumber: 2.4 Consensus size: 39
19470249 ACAACGGATG
**
19470259 AAAAATGAGAAAAAAGAAA-AAA-AAATGATGAAAAAA-GA
1 AAAAATGA-AAAAAAGAAAGAAAGAAA-GAAAAAAAAATGA
19470297 AAAAATGGAAAAAAA-AAAGAAAGAAAGAAAAAAAAATGA
1 AAAAAT-GAAAAAAAGAAAGAAAGAAAGAAAAAAAAATGA
19470336 AAAAATGAAAAAAAGA
1 AAAAATGAAAAAAAGA
19470352 TTCAAATTGA
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
37 3 0.06
38 31 0.65
39 14 0.29
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.06
Consensus pattern (39 bp):
AAAAATGAAAAAAAGAAAGAAAGAAAGAAAAAAAAATGA
Found at i:19470351 original size:31 final size:31
Alignment explanation
Indices: 19470266--19470340 Score: 88
Period size: 30 Copynumber: 2.5 Consensus size: 31
19470256 ATGAAAAATG
* *
19470266 AGAAAAAA--GAAAAAAAAATG-ATGAAAAA
1 AGAAAAAATGGAAAAAAAAAAGAAAGAAAAA
19470294 AGAAAAAATGGAAAAAAAAAAGAAAGAAAGAA
1 AGAAAAAATGGAAAAAAAAAAGAAAGAAA-AA
19470326 A-AAAAAAT-GAAAAAA
1 AGAAAAAATGGAAAAAA
19470341 TGAAAAAAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
28 8 0.20
30 18 0.44
31 12 0.29
32 3 0.07
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (31 bp):
AGAAAAAATGGAAAAAAAAAAGAAAGAAAAA
Found at i:19472077 original size:41 final size:41
Alignment explanation
Indices: 19472015--19472434 Score: 450
Period size: 41 Copynumber: 10.1 Consensus size: 41
19472005 ATGATTGTCA
19472015 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * *
19472056 AGGACCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAA
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
** * *
19472097 AATAGCAATTTACTTTTCAAAAGTTGAGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAG
* * *
19472139 AGGAGCAATTTACTTCTTTTCCAAAGTTGAGGTGCCTCTATTTAG
1 AGGAGCAATTTA---CTTTT-CAAAGTCGTGGTGCCTCTGTTTAG
* *
19472184 AGGAGAAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
19472225 AGGAGCAATTTA-TTTTCCAAAGTCGTGGTTGCCTCTATTTAG
1 AGGAGCAATTTACTTTT-CAAAGTCGTGG-TGCCTCTGTTTAG
*
19472267 AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * * *
19472308 AGGAG-AATTTA-TTTTTAAAGTCATGGTGCTTCTGATTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* *** * * * * * *
19472347 AGAATTTATTTATTTTTCAAAGTCGTTGAGCATCTGATTAA
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * *** *
19472388 AGGAGCCATTTATTTTTCAAAGTCGTTAAGCCTCTGATTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
19472429 AGGAGC
1 AGGAGC
19472435 TTTGATCAAA
Statistics
Matches: 329, Mismatches: 40, Indels: 20
0.85 0.10 0.05
Matches are distributed among these distances:
39 26 0.08
40 15 0.05
41 175 0.53
42 70 0.21
43 4 0.01
45 38 0.12
46 1 0.00
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (41 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:19472195 original size:128 final size:123
Alignment explanation
Indices: 19472015--19472328 Score: 443
Period size: 128 Copynumber: 2.5 Consensus size: 123
19472005 ATGATTGTCA
* *
19472015 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGACCAATTTACTTTTCAAAGTT
1 AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGA-GAATTTACTTTTCAAAGTT
* * *
19472080 GTGGTGCCTCTGTTTAAAATAGCAATTTACTTTTCAAAAGTTGAGG-TGCCTCTGTTTAG
65 GTGGTGCCTCTGTTTAAAAGAGCAATTTA-TTTTCAAAAGTCGAGGTTGCCTCTATTTAG
* *
19472139 AGGAGCAATTTACTTCTTTTCCAAAGTTGAGGTGCCTCTATTTAGAGGAGAAATTTACTTTTCAA
1 AGGAGCAATTTA---CTTTT-CAAAGTTGTGGTGCCTCTGTTTAGAGGAG-AATTTACTTTTCAA
* * * *
19472204 AGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTCCAAAGTCGTGGTTGCCTCTATTTAG
61 AGTTGTGGTGCCTCTGTTTAAAAGAGCAATTTATTTTCAAAAGTCGAGGTTGCCTCTATTTAG
*
19472267 AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGAATTTA-TTTTTAAAGT
1 AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGAATTTACTTTTCAAAGT
19472329 CATGGTGCTT
Statistics
Matches: 170, Mismatches: 14, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
122 9 0.05
123 6 0.04
124 39 0.23
125 5 0.03
127 18 0.11
128 93 0.55
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.39
Consensus pattern (123 bp):
AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGAATTTACTTTTCAAAGTTG
TGGTGCCTCTGTTTAAAAGAGCAATTTATTTTCAAAAGTCGAGGTTGCCTCTATTTAG
Found at i:19472288 original size:83 final size:81
Alignment explanation
Indices: 19472015--19472413 Score: 451
Period size: 83 Copynumber: 4.8 Consensus size: 81
19472005 ATGATTGTCA
* * *
19472015 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGACCAATTTACTTTTCAAAGTT
1 AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTA-TTTTCAAAGTC
* *
19472080 GTGGTGCCTCTGTTTAA
65 GTGGTGCCTCTATTTAG
** *
19472097 AATAGCAATTTACTTTTCAAAAGTTGAGGTGCCTCTGTTTAGAGGAGCAATTTACTTCTTTTCCA
1 AGGAGCAATTTACTTTTC-AAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTA----TTTT-CA
* *
19472162 AAGTTGAGGTGCCTCTATTTAG
60 AAGTCGTGGTGCCTCTATTTAG
*
19472184 AGGAGAAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTCCAAAGTC
1 AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTT-CAAAGTC
19472249 GTGGTTGCCTCTATTTAG
65 GTGG-TGCCTCTATTTAG
* *
19472267 AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAG-AATTTATTTTTAAAGTCA
1 AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTCAAAGTCG
*
19472331 TGGTGCTTCTGA-TTAG
66 TGGTGCCTCT-ATTTAG
* *** * * * * * * * *
19472347 AGAATTTATTTATTTTTCAAAGTCGTTGAGCATCTGATTAAAGGAGCCATTTATTTTTCAAAGTC
1 AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTA-TTTTCAAAGTC
19472412 GT
65 GT
19472414 TAAGCCTCTG
Statistics
Matches: 276, Mismatches: 32, Indels: 18
0.85 0.10 0.06
Matches are distributed among these distances:
80 45 0.16
81 15 0.05
82 51 0.18
83 90 0.33
86 39 0.14
87 36 0.13
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.39
Consensus pattern (81 bp):
AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTCAAAGTCG
TGGTGCCTCTATTTAG
Found at i:19472511 original size:45 final size:45
Alignment explanation
Indices: 19472470--19472599 Score: 194
Period size: 42 Copynumber: 3.0 Consensus size: 45
19472460 TTGCCTCCAT
19472470 TTAGAGGAGCTTTGTTTATGTTTTTCAAAGTCGTTAAGCCTCTTA
1 TTAGAGGAGCTTTGTTTATGTTTTTCAAAGTCGTTAAGCCTCTTA
* * * *
19472515 TTAGAGGAGCTTTATTCA---TTTTCAAAGTCATTGAGCCTCTTA
1 TTAGAGGAGCTTTGTTTATGTTTTTCAAAGTCGTTAAGCCTCTTA
*
19472557 TTAGAGGAGCATTGTTTATGTTTTTCAAAGTCGTTAAGCCTCT
1 TTAGAGGAGCTTTGTTTATGTTTTTCAAAGTCGTTAAGCCTCT
19472600 GCTTAAAGAA
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
42 37 0.51
45 36 0.49
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.42
Consensus pattern (45 bp):
TTAGAGGAGCTTTGTTTATGTTTTTCAAAGTCGTTAAGCCTCTTA
Found at i:19472826 original size:7 final size:6
Alignment explanation
Indices: 19472799--19472939 Score: 67
Period size: 6 Copynumber: 22.2 Consensus size: 6
19472789 GTCCACTTTG
*
19472799 TTTTT- TTTTTA TTATTA TTTTGTA TTTTATA TTTTTTTA TTTTTA -TTTTA
1 TTTTTA TTTTTA TTTTTA TTTT-TA TTTT-TA --TTTTTA TTTTTA TTTTTA
* * * *
19472849 TTTTT- TATTTTA TTTTTC TTTATA -TTTTA TCTATTTA TTATTA CTATTTA
1 TTTTTA T-TTTTA TTTTTA TTTTTA TTTTTA T-T-TTTA TTTTTA -TTTTTA
* *
19472899 TTAATATA TATTTA -TTTTA TTTTATTA TTTTTA TTATTTA T
1 TT--TTTA TTTTTA TTTTTA -TTT-TTA TTTTTA TT-TTTA T
19472940 CTGTTGATAT
Statistics
Matches: 104, Mismatches: 15, Indels: 32
0.69 0.10 0.21
Matches are distributed among these distances:
5 19 0.18
6 42 0.40
7 25 0.24
8 14 0.13
9 4 0.04
ACGTcount: A:0.23, C:0.02, G:0.01, T:0.74
Consensus pattern (6 bp):
TTTTTA
Found at i:19472844 original size:28 final size:28
Alignment explanation
Indices: 19472802--19472878 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 28
19472792 CACTTTGTTT
* *
19472802 TTTTTTTATTATTATTTTGTATTTTATA
1 TTTTTTTATTTTTATTTTATATTTTATA
* *
19472830 TTTTTTTATTTTTATTTTATTTTTTATT
1 TTTTTTTATTTTTATTTTATATTTTATA
* *
19472858 TTATTTTTCTTTATATTTTAT
1 TT-TTTTTATTTTTATTTTAT
19472879 CTATTTATTA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 26 0.62
29 16 0.38
ACGTcount: A:0.18, C:0.01, G:0.01, T:0.79
Consensus pattern (28 bp):
TTTTTTTATTTTTATTTTATATTTTATA
Found at i:19472850 original size:33 final size:33
Alignment explanation
Indices: 19472799--19472883 Score: 111
Period size: 33 Copynumber: 2.5 Consensus size: 33
19472789 GTCCACTTTG
19472799 TTTTT-TTTTTATTATTATTTTGTATTTTATATT
1 TTTTTATTTTTATTATTATTTTGTATTTTAT-TT
*
19472832 TTTTTATTTTTATT-TTATTTTTTATTTTATTT
1 TTTTTATTTTTATTATTATTTTGTATTTTATTT
19472864 TTCTTTATATTTTATCTATT
1 TT-TTTAT-TTTTAT-TATT
19472884 TATTATTACT
Statistics
Matches: 46, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
32 4 0.09
33 25 0.54
34 14 0.30
35 1 0.02
36 2 0.04
ACGTcount: A:0.18, C:0.02, G:0.01, T:0.79
Consensus pattern (33 bp):
TTTTTATTTTTATTATTATTTTGTATTTTATTT
Found at i:19472862 original size:17 final size:17
Alignment explanation
Indices: 19472799--19472929 Score: 85
Period size: 17 Copynumber: 7.6 Consensus size: 17
19472789 GTCCACTTTG
19472799 TTTTTT-TTTTATTATTA
1 TTTTTTATTTTATT-TTA
* *
19472816 TTTTGTATTTTA-TAT-
1 TTTTTTATTTTATTTTA
19472831 TTTTTTATTTTTATTTTA
1 TTTTTTA-TTTTATTTTA
19472849 TTTTTTATTTTATTTT-
1 TTTTTTATTTTATTTTA
* *
19472865 TCTTTATATTTTA-TCTA
1 T-TTTTTATTTTATTTTA
* *
19472882 TTTATTATTACTA-TTTA
1 TTTTTTATT-TTATTTTA
* *
19472899 TTAATATATATTTATTTTA
1 TT-TTTTAT-TTTATTTTA
19472918 TTTTATTATTTT
1 TTTT-TTATTTT
19472930 TATTATTTAT
Statistics
Matches: 87, Mismatches: 16, Indels: 21
0.70 0.13 0.17
Matches are distributed among these distances:
15 6 0.07
16 15 0.17
17 35 0.40
18 21 0.24
19 10 0.11
ACGTcount: A:0.22, C:0.02, G:0.01, T:0.75
Consensus pattern (17 bp):
TTTTTTATTTTATTTTA
Found at i:19472884 original size:33 final size:31
Alignment explanation
Indices: 19472799--19472937 Score: 99
Period size: 33 Copynumber: 4.4 Consensus size: 31
19472789 GTCCACTTTG
*
19472799 TTTTTTT-TTTATTATTATTTTGTATTTTATA
1 TTTTTTTATTT-TTATTATTTTTTATTTTATA
19472830 TTTTTTTATTTTTATTTTATTTTTTATTTTAT-
1 TTTTTTTATTTTTA--TTATTTTTTATTTTATA
*
19472862 TTTTCTTTATATTTTATCTATTTATTA--TTACTA
1 TTTT-TTTAT-TTTTAT-TATTTTTTATTTTA-TA
* * * * *
19472895 TTTATTAATATATATT-TATTTTATTTTATTA
1 TTTTTTTATTTTTATTATTTTTTATTTTA-TA
19472926 TTTTTATTATTT
1 TTTTT-TTATTT
19472938 ATCTGTTGAT
Statistics
Matches: 85, Mismatches: 12, Indels: 21
0.72 0.10 0.18
Matches are distributed among these distances:
29 5 0.06
30 1 0.01
31 26 0.31
32 17 0.20
33 31 0.36
34 5 0.06
ACGTcount: A:0.22, C:0.02, G:0.01, T:0.75
Consensus pattern (31 bp):
TTTTTTTATTTTTATTATTTTTTATTTTATA
Found at i:19472935 original size:17 final size:18
Alignment explanation
Indices: 19472805--19472987 Score: 80
Period size: 17 Copynumber: 9.7 Consensus size: 18
19472795 TTTGTTTTTT
19472805 TTTTATTATTATTT-TGTA
1 TTTTATTATTATTTAT-TA
19472823 TTTTA-TATT-TTT-TTA
1 TTTTATTATTATTTATTA
*
19472838 TTTTTATT-TTATTTTTTA
1 -TTTTATTATTATTTATTA
* *
19472856 TTTTATTTTTCTTTA-TA
1 TTTTATTATTATTTATTA
19472873 TTTTATCTATT-TATTATTA
1 TTTTAT-TATTAT-TTATTA
19472892 CTATTTATTAATATATATTTATTTTA
1 -T-TTTA-T--TAT-TATTTA--TTA
19472918 TTTTATTATT-TTTATTA
1 TTTTATTATTATTTATTA
* *
19472935 -TTTATCTGTTGATATA-TA
1 TTTTAT-TATT-ATTTATTA
*
19472953 TATGTATTATTATTTATCTA
1 T-TTTATTATTATTTAT-TA
19472973 TTTATATATATTATT
1 TTT-TAT-TATTATT
19472988 ATTTATCTAT
Statistics
Matches: 130, Mismatches: 10, Indels: 47
0.70 0.05 0.25
Matches are distributed among these distances:
15 2 0.02
16 16 0.12
17 30 0.23
18 25 0.19
19 13 0.10
20 12 0.09
21 14 0.11
22 1 0.01
23 4 0.03
24 8 0.06
25 2 0.02
26 3 0.02
ACGTcount: A:0.26, C:0.03, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTTATTATTATTTATTA
Found at i:19472965 original size:30 final size:27
Alignment explanation
Indices: 19472869--19473012 Score: 104
Period size: 27 Copynumber: 5.3 Consensus size: 27
19472859 TATTTTTCTT
19472869 TATATT-TTATCTATTTAT-TA-TTACTA
1 TATATTATTAT-TATTTATCTATTTA-TA
* * *
19472895 TTTATTAATATATATTTATTTTATTT-TA
1 TATATTATTAT-TATTTA-TCTATTTATA
* *
19472923 T-TATTTTTATTATTTATCTGTTGATATA
1 TATATTATTATTATTTATCTATT--TATA
19472951 TATATGTATTATTATTTATCTATTTATA
1 TATAT-TATTATTATTTATCTATTTATA
* *
19472979 TATATTATTATTTATCTAT-TAATTA-A
1 TATATTATTA-TTATTTATCTATTTATA
19473005 TATATTAT
1 TATATTAT
19473013 CCTTATTATT
Statistics
Matches: 97, Mismatches: 11, Indels: 20
0.76 0.09 0.16
Matches are distributed among these distances:
25 4 0.04
26 20 0.21
27 27 0.28
28 23 0.24
29 5 0.05
30 18 0.19
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.62
Consensus pattern (27 bp):
TATATTATTATTATTTATCTATTTATA
Found at i:19472978 original size:24 final size:24
Alignment explanation
Indices: 19472951--19473012 Score: 88
Period size: 24 Copynumber: 2.5 Consensus size: 24
19472941 TGTTGATATA
*
19472951 TATATGTATTATTATTTATCTATT
1 TATATATATTATTATTTATCTATT
19472975 TATATATATTATTATTTATCTATT
1 TATATATATTATTATTTATCTATT
*
19472999 AATTAATATATTAT
1 TA-T-ATATATTAT
19473013 CCTTATTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
24 24 0.71
25 1 0.03
26 9 0.26
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (24 bp):
TATATATATTATTATTTATCTATT
Found at i:19472990 original size:76 final size:73
Alignment explanation
Indices: 19472808--19472991 Score: 182
Period size: 74 Copynumber: 2.5 Consensus size: 73
19472798 GTTTTTTTTT
* * * * *
19472808 TATTATTATTT-TGTATTT-TATATTTTTTTATTTTTATTTTATTTTTTATTTTATTTTTCTTTA
1 TATTATTATTTATCTATTTATATATATTATTA-TTTTATTTTATTTTTTATATTATTTATCTTTA
*
19472871 TATTTTATC
65 TATTATATC
19472880 TATTTATTA-TTA-CTATTTAT-TAATATATATTTATTTTATTTTATTATTTT-TATTATTTATC
1 TA-TTATTATTTATCTATTTATAT-ATAT-TA-TTATTTTATTTTATT-TTTTATATTATTTATC
*
19472941 TGTTGATATATATATG
61 T-TT-ATAT-TATATC
19472957 TATTATTATTTATCTATTTATATATATTATTATTT
1 TATTATTATTTATCTATTTATATATATTATTATTT
19472992 ATCTATTAAT
Statistics
Matches: 92, Mismatches: 7, Indels: 22
0.76 0.06 0.18
Matches are distributed among these distances:
72 10 0.11
73 10 0.11
74 23 0.25
75 9 0.10
76 16 0.17
77 11 0.12
78 12 0.13
79 1 0.01
ACGTcount: A:0.26, C:0.03, G:0.02, T:0.69
Consensus pattern (73 bp):
TATTATTATTTATCTATTTATATATATTATTATTTTATTTTATTTTTTATATTATTTATCTTTAT
ATTATATC
Found at i:19473044 original size:54 final size:52
Alignment explanation
Indices: 19472873--19473045 Score: 146
Period size: 54 Copynumber: 3.3 Consensus size: 52
19472863 TTTCTTTATA
*
19472873 TTTTATCTATTTATTA-TTA-CTATTTATTAATATA-TATTTATT-TTA--TTT
1 TTTTAT-T-TTTATTATTTATCTATTAATTAATATATTATTTATTATTATCTTT
* * * *
19472921 TATTATTTTTATTATTTATCTGTTGA-TATATATATGTA-TTATTATTTATCTAT
1 TTTTATTTTTATTATTTATCTATTAATTA-ATATAT-TATTTATTA-TTATCTTT
* *
19472974 TTATATATATTATTATTTATCTATTAATTAATATATTATCCTTATTATTATCTTT
1 TTTTAT-TTTTATTATTTATCTATTAATTAATATATTAT--TTATTATTATCTTT
*
19473029 TTTTATTTTTTTTATTT
1 TTTTATTTTTATTATTT
19473046 TATCATTTCT
Statistics
Matches: 98, Mismatches: 13, Indels: 22
0.74 0.10 0.17
Matches are distributed among these distances:
46 7 0.07
47 6 0.06
48 15 0.15
49 5 0.05
50 2 0.02
51 3 0.03
53 8 0.08
54 32 0.33
55 14 0.14
56 6 0.06
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (52 bp):
TTTTATTTTTATTATTTATCTATTAATTAATATATTATTTATTATTATCTTT
Found at i:19473399 original size:42 final size:41
Alignment explanation
Indices: 19473341--19473653 Score: 276
Period size: 42 Copynumber: 7.3 Consensus size: 41
19473331 ATGATTGTCA
*
19473341 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAG
* *
19473382 AGGAGCAAATTTACTTTTCAAAGTTGTAGTGCCTCTGTTTAAA
1 AGGAGC-AATTTACTTTTCAAAGTTGTGGTGCCTCTGTTT-AG
** * *
19473425 AATAGGCAATTTAGATTTTCAAAAAGTTGAGGTGCCTCTTGTTTTAG
1 AGGA-GCAATTTA-CTTTTC--AAAGTTGTGGTGCCTC-TG-TTTAG
* * *
19473472 AGGAGCAATTTACTTCTTTTCCAATAGTTTGAGGTGCCTTTATTTAG
1 AGGAGCAATTTA---CTTTT-CAA-AG-TTGTGGTGCCTCTGTTTAG
*
19473519 AGGAG-AATTTACCTTTTCAAAGTTATGGTGCCTCTGTTTAG
1 AGGAGCAATTTA-CTTTTCAAAGTTGTGGTGCCTCTGTTTAG
* *
19473560 AGGAGGCAATTTA-TTTTCCAAAGCTCGTGGTTGCCTCTATTTAG
1 AGGA-GCAATTTACTTTT-CAAAG-TTGTGG-TGCCTCTGTTTAG
* *
19473604 ATGA-CAA-TTACTTTTCAAAAGTTGTAGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTC-AAAGTTGTGGTGCCTCTGTTTAG
19473644 AGGAG-AATTT
1 AGGAGCAATTT
19473654 TTTTTTAAAA
Statistics
Matches: 222, Mismatches: 28, Indels: 44
0.76 0.10 0.15
Matches are distributed among these distances:
40 17 0.08
41 39 0.18
42 50 0.23
43 22 0.10
44 27 0.12
46 28 0.13
47 17 0.08
48 10 0.05
49 12 0.05
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.38
Consensus pattern (41 bp):
AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAG
Found at i:19473789 original size:41 final size:39
Alignment explanation
Indices: 19473698--19473816 Score: 132
Period size: 41 Copynumber: 2.9 Consensus size: 39
19473688 AGAAATTTAC
*
19473698 TTATTTTCAAAGTCGTTAGCCTCTGATTAGAGGATGCTAT
1 TTATTTTCAAAGTCGTTAGCCTCTGATTAGAGGA-GCCAT
**
19473738 TTCGTTTCAAAAGTCGTTAAGCC-CTGATTAGAGGAGCCAT
1 TTATTTTC-AAAGTCGTT-AGCCTCTGATTAGAGGAGCCAT
* *
19473778 TTATTTCTCAAAGTCCGTTGAGCCTCTGCTTAAAGGAGC
1 TTATTT-TCAAAGT-CGTT-AGCCTCTGATTAGAGGAGC
19473817 TTTGATCAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
40 19 0.29
41 31 0.47
42 16 0.24
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.34
Consensus pattern (39 bp):
TTATTTTCAAAGTCGTTAGCCTCTGATTAGAGGAGCCAT
Found at i:19474121 original size:21 final size:21
Alignment explanation
Indices: 19474089--19474183 Score: 120
Period size: 22 Copynumber: 4.3 Consensus size: 21
19474079 GTAGGTCCAC
*
19474089 TTTATTTTTTATTATTATTATT
1 TTTATTTTATATT-TTATTATT
19474111 TTGTATTTTATATTTTATTATT
1 TT-TATTTTATATTTTATTATT
19474133 TTTATTTTATATTTTATATATT
1 TTTATTTTATATTTTAT-TATT
19474155 TTT-TCTTTATATTTTATGTATT
1 TTTAT-TTTATATTTTAT-TATT
19474177 TATTATT
1 T-TTATT
19474184 CATTTATTTA
Statistics
Matches: 66, Mismatches: 2, Indels: 9
0.86 0.03 0.12
Matches are distributed among these distances:
21 16 0.24
22 36 0.55
23 13 0.20
24 1 0.02
ACGTcount: A:0.23, C:0.01, G:0.02, T:0.74
Consensus pattern (21 bp):
TTTATTTTATATTTTATTATT
Found at i:19474158 original size:11 final size:11
Alignment explanation
Indices: 19474106--19474195 Score: 58
Period size: 11 Copynumber: 8.1 Consensus size: 11
19474096 TTTATTATTA
*
19474106 TTATTTTGTATT
1 TTATTTTTTA-T
*
19474118 TTATATTTTA-
1 TTATTTTTTAT
19474128 TTA-TTTTTATT
1 TTATTTTTTA-T
*
19474139 TTATATTTTAT
1 TTATTTTTTAT
* *
19474150 ATATTTTTTCT
1 TTATTTTTTAT
*
19474161 TTATATTTTAT
1 TTATTTTTTAT
* *
19474172 GTATTTATTAT
1 TTATTTTTTAT
*
19474183 TCATTTATTTAT
1 TTATTT-TTTAT
19474195 T
1 T
19474196 ATTACTATTT
Statistics
Matches: 58, Mismatches: 16, Indels: 8
0.71 0.20 0.10
Matches are distributed among these distances:
9 5 0.09
10 3 0.05
11 32 0.55
12 18 0.31
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.72
Consensus pattern (11 bp):
TTATTTTTTAT
Found at i:19474191 original size:15 final size:17
Alignment explanation
Indices: 19474173--19474354 Score: 62
Period size: 18 Copynumber: 10.5 Consensus size: 17
19474163 ATATTTTATG
19474173 TATTTATTATT-C-ATT
1 TATTTATTATTACTATT
19474188 TATTTATTATTACTATT
1 TATTTATTATTACTATT
*
19474205 TA-TTAATA-TA-TATT
1 TATTTATTATTACTATT
* *
19474219 ATTTTTATTATTTATCTGTT
1 -TATTTATTA-TTA-CTATT
* * *
19474239 GATATATATATGTATTA-T
1 TATTTAT-TAT-TACTATT
19474257 TATTTATCTATTTA-TATAT
1 TATTTAT-TA-TTACTAT-T
19474276 TA-TTATTATTTATCTATT
1 TATTTATTA-TTA-CTATT
* *
19474294 TATATA-TATTATTATT
1 TATTTATTATTACTATT
* *
19474310 TATCTATTAATTAATATAT
1 TATTTATT-ATTACTAT-T
19474329 TATCCTTATTATTATCT-TT
1 TAT--TTATTATTA-CTATT
19474348 T-TTTATT
1 TATTTATT
19474355 TTTTTTATTT
Statistics
Matches: 127, Mismatches: 18, Indels: 43
0.68 0.10 0.23
Matches are distributed among these distances:
14 4 0.03
15 14 0.11
16 25 0.20
17 17 0.13
18 29 0.23
19 21 0.17
20 12 0.09
21 5 0.04
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.63
Consensus pattern (17 bp):
TATTTATTATTACTATT
Found at i:19474192 original size:4 final size:4
Alignment explanation
Indices: 19474145--19474317 Score: 60
Period size: 4 Copynumber: 44.5 Consensus size: 4
19474135 TATTTTATAT
* * * * *
19474145 TTTA TATA TTT- TTTC TTTA TAT- TTTA TGTA TTTA -TTA TTCA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * * *
19474190 TTTA -TTA TTACTA TTTA TTAA TATA TATTA TTTT TATTA TTTA TCTG
1 TTTA TTTA TT--TA TTTA TTTA TTTA T-TTA TTTA T-TTA TTTA TTTA
* * * * * *
19474237 TTGA TATA TATA TGTA -TTA -TTA TTTA TCTA TTTA TATA -TTA -TTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * *
19474281 -TTA TTTA TCTA TTTA TATA TATTA -TTA TTTA TCTA TT
1 TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TT
19474318 AATTAATATA
Statistics
Matches: 123, Mismatches: 34, Indels: 24
0.68 0.19 0.13
Matches are distributed among these distances:
3 27 0.22
4 84 0.68
5 8 0.07
6 4 0.03
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.64
Consensus pattern (4 bp):
TTTA
Found at i:19474197 original size:7 final size:7
Alignment explanation
Indices: 19474089--19474341 Score: 114
Period size: 7 Copynumber: 34.3 Consensus size: 7
19474079 GTAGGTCCAC
*
19474089 TTTATTT
1 TTTATTA
19474096 TTTATTA
1 TTTATTA
19474103 -TTATTA
1 TTTATTA
19474109 TTT-TGTA
1 TTTAT-TA
19474116 TTT-TATA
1 TTTAT-TA
19474123 TTTTATTA
1 -TTTATTA
19474131 TTT-TTA
1 TTTATTA
19474137 TTT-TATA
1 TTTAT-TA
19474144 TTTTATATA
1 -TTTAT-TA
* *
19474153 TTTTTTC
1 TTTATTA
19474160 TTTA-TA
1 TTTATTA
19474166 TTTTATGTA
1 -TTTAT-TA
19474175 TTTATTA
1 TTTATTA
*
19474182 TTCATTTA
1 TTTA-TTA
19474190 TTTATTA
1 TTTATTA
*
19474197 -TTACTA
1 TTTATTA
19474203 TTTATTA
1 TTTATTA
*
19474210 -ATA-TA
1 TTTATTA
19474215 TATTATT-
1 T-TTATTA
19474222 TTTATTA
1 TTTATTA
*
19474229 TTTATCTG
1 TTTAT-TA
*
19474237 TTGATATA
1 TTTAT-TA
*
19474245 TATATGTA
1 TTTAT-TA
19474253 -TTATTA
1 TTTATTA
19474259 TTTATCTA
1 TTTAT-TA
19474267 TTTATATA
1 TTTAT-TA
19474275 TTATTATTA
1 -T-TTATTA
19474284 TTTATCTA
1 TTTAT-TA
19474292 TTTATATA
1 TTTAT-TA
19474300 TATTATTA
1 T-TTATTA
19474308 TTTATCTA
1 TTTAT-TA
*
19474316 TTAATTAA
1 TTTATT-A
*
19474324 TATATTA
1 TTTATTA
19474331 TCCTTATTA
1 T--TTATTA
19474340 TT
1 TT
19474342 ATCTTTTTTT
Statistics
Matches: 193, Mismatches: 26, Indels: 54
0.71 0.10 0.20
Matches are distributed among these distances:
5 2 0.01
6 29 0.15
7 69 0.36
8 69 0.36
9 20 0.10
10 4 0.02
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.66
Consensus pattern (7 bp):
TTTATTA
Found at i:19474328 original size:55 final size:51
Alignment explanation
Indices: 19474192--19474318 Score: 93
Period size: 55 Copynumber: 2.4 Consensus size: 51
19474182 TTCATTTATT
* * * * *
19474192 TATTATTACTATTTAT-TAATATATATTATTTTTATTATTTATCTGTTGATATATA
1 TATTATTATTATTTATCT-AT-TATA-TATATGTATTATTTATCTATTAAT-TA-A
*
19474247 TATGTATTATTATTTATCTATTTATATATTAT-TATTATTTATCTATTTA-T-A
1 TAT-TATTATTATTTATCTA-TTATATA-TATGTATTATTTATCTATTAATTAA
19474298 TA-TATTATTATTTATCTATTA
1 TATTATTATTATTTATCTATTA
19474319 ATTAATATAT
Statistics
Matches: 64, Mismatches: 4, Indels: 15
0.77 0.05 0.18
Matches are distributed among these distances:
48 3 0.05
49 16 0.25
51 3 0.05
53 1 0.02
55 20 0.31
56 19 0.30
57 2 0.03
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.61
Consensus pattern (51 bp):
TATTATTATTATTTATCTATTATATATATGTATTATTTATCTATTAATTAA
Found at i:19474338 original size:81 final size:80
Alignment explanation
Indices: 19474101--19474345 Score: 191
Period size: 81 Copynumber: 3.2 Consensus size: 80
19474091 TATTTTTTAT
* * * * *
19474101 TATTATTATTTTGTATTT-TATATT-TTATTATTT-TTATTTTATATT-TTATATATT-TTT-TC
1 TATTATTATTATCTATTTATATATTATTACTATTTATTAATATATATTATTAT-TATTATTTATC
*
19474160 T-TT-ATAT-TTTATG
65 TATTAATATATATATG
* *
19474173 TA-T-TTATTAT-TCATTTATTTATTATTACTATTTATTAATATATATTATTTTTATTATTTATC
1 TATTATTATTATCT-ATTTATATATTATTACTATTTATTAATATATATTATTATTATTATTTATC
* *
19474235 TGTTGATATATATATG
65 TATTAATATATATATG
* *
19474251 TATTATTATTTATCTATTTATATATTATTATTATTTATCT-ATTTATA-TA-TATTATTATTTAT
1 TATTATTA-TTATCTATTTATATATTATTACTATTTAT-TAATATATATTATTATTATTATTTAT
19474313 CTATTAAT-TAATATAT-
64 CTATTAATAT-ATATATG
19474329 TATCCTTATTATTATCT
1 TA---TTATTATTATCT
19474346 TTTTTTATTT
Statistics
Matches: 141, Mismatches: 13, Indels: 30
0.77 0.07 0.16
Matches are distributed among these distances:
69 1 0.01
70 10 0.07
71 6 0.04
72 10 0.07
73 14 0.10
74 6 0.04
75 3 0.02
76 2 0.01
77 4 0.03
78 10 0.07
79 25 0.18
80 11 0.08
81 37 0.26
82 2 0.01
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.64
Consensus pattern (80 bp):
TATTATTATTATCTATTTATATATTATTACTATTTATTAATATATATTATTATTATTATTTATCT
ATTAATATATATATG
Found at i:19474344 original size:55 final size:52
Alignment explanation
Indices: 19474098--19474345 Score: 168
Period size: 53 Copynumber: 4.8 Consensus size: 52
19474088 CTTTATTTTT
*
19474098 TATTATTATTATTT-TGT-ATTTTATA-T-TTTATTATTT-T-TATTT-TATA
1 TATTATTATTATTTAT-TAATTATATATTATTTATTATTTATCTATTTATATA
* * ** * *
19474144 TTTTA-TA-TATTTTTTCTTTATATTTTATGTATT-TATTAT-TCATTTAT-T-
1 TATTATTATTATTTATTAATTATATATTATTTATTAT-TTATCT-ATTTATATA
* *
19474192 TATTATTACTATTTATTAA-TATATATTATTTTTATTATTTATCTGTTGATATATA
1 TATTATTATTATTTATTAATTATATATTA--TTTATTATTTATCTATT--TATATA
*
19474247 TATGTATTATTATTTATCTATTTATATATTA-TTATTATTTATCTATTTATATA
1 TAT-TATTATTATTTAT-TAATTATATATTATTTATTATTTATCTATTTATATA
*
19474300 TATTATTATTTATCTATTAATTAATATATTATCCTTATTA-TTATCT
1 TATTATTA-TTATTTATTAATT-ATATATTAT--TTATTATTTATCT
19474346 TTTTTTATTT
Statistics
Matches: 159, Mismatches: 17, Indels: 43
0.73 0.08 0.20
Matches are distributed among these distances:
44 6 0.04
45 8 0.05
46 6 0.04
47 7 0.04
48 6 0.04
49 15 0.09
50 8 0.05
51 11 0.07
52 11 0.07
53 27 0.17
54 1 0.01
55 24 0.15
56 18 0.11
57 2 0.01
58 9 0.06
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (52 bp):
TATTATTATTATTTATTAATTATATATTATTTATTATTTATCTATTTATATA
Found at i:19474385 original size:25 final size:25
Alignment explanation
Indices: 19474334--19474385 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
19474324 TATATTATCC
* *
19474334 TTATTATTATCTTTTTTTATTTTTT
1 TTATTATTATCATTTTTTATTTCTT
*
19474359 TTATT-TTATCATTTTTTCTCTTCTT
1 TTATTATTATCATTTTTTAT-TTCTT
19474384 TT
1 TT
19474386 CTTCTTTCCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 12 0.52
25 11 0.48
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (25 bp):
TTATTATTATCATTTTTTATTTCTT
Done.