Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, 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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 111 of 129
Found at i:19980927 original size:39 final size:39
Alignment explanation
Indices: 19980843--19980939 Score: 110
Period size: 39 Copynumber: 2.5 Consensus size: 39
19980833 TTTTAAATTA
19980843 TAAAAAAATTCTAAAAA-TTCTAAAAATTTTAAACAATTC
1 TAAAAAAATTCTAAAAATTTCTAAAAATTTTAAACAA-TC
* *
19980882 TAAAAAAATTCTAAAAATTTTTAAAAATATTTTTAA-AA-C
1 TAAAAAAATTCTAAAAATTTCT-AAAA-ATTTTAAACAATC
*
19980921 TTAAAAAATTCTCAAAAAT
1 TAAAAAAATTCT-AAAAAT
19980940 ATTGAATTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
39 29 0.57
40 9 0.18
41 6 0.12
42 7 0.14
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (39 bp):
TAAAAAAATTCTAAAAATTTCTAAAAATTTTAAACAATC
Found at i:19981027 original size:19 final size:19
Alignment explanation
Indices: 19980989--19981037 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
19980979 AAATTCTAAG
***
19980989 AATTTTAAAATTTTTTAAA
1 AATTTTAAAATTTCAAAAA
19981008 AATTTTAAAATTTCAAAAA
1 AATTTTAAAATTTCAAAAA
19981027 AACTTTTAAAA
1 AA-TTTTAAAA
19981038 ACTTATAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 18 0.69
20 8 0.31
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (19 bp):
AATTTTAAAATTTCAAAAA
Found at i:19981113 original size:27 final size:27
Alignment explanation
Indices: 19981070--19981122 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
19981060 TTAAAATTTC
*
19981070 TTTTAAATTCTAAAAAAATTTAAAAAT
1 TTTTAAATTCTAAAAAAAATTAAAAAT
*
19981097 TTTTAAATT-TATTAAAAAATTAAAAA
1 TTTTAAATTCTA-AAAAAAATTAAAAA
19981123 AAATATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (27 bp):
TTTTAAATTCTAAAAAAAATTAAAAAT
Found at i:19981145 original size:13 final size:12
Alignment explanation
Indices: 19981110--19981138 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
19981100 TAAATTTATT
19981110 AAAAA-ATTAAA
1 AAAAATATTAAA
19981121 AAAAATATTAAA
1 AAAAATATTAAA
19981133 AAAAAT
1 AAAAAT
19981139 TTTTAAAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAAATATTAAA
Found at i:19981195 original size:30 final size:29
Alignment explanation
Indices: 19981161--19981244 Score: 89
Period size: 30 Copynumber: 2.8 Consensus size: 29
19981151 AAATTTTTTT
*
19981161 AAAATTTTTCAAAAATTTAAAAAGTACTA
1 AAAATTTTTCAAAAATTTAAAAAATACTA
* *
19981190 AAAAATTTT-AAACAATTTTAAAAAATTCTA
1 AAAATTTTTCAAA-AA-TTTAAAAAATACTA
**
19981220 AATTTTTTTCAAAAATTATAAAAAA
1 AAAATTTTTCAAAAATT-TAAAAAA
19981245 ATTTTAAATT
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
28 3 0.07
29 12 0.27
30 27 0.60
31 3 0.07
ACGTcount: A:0.56, C:0.06, G:0.01, T:0.37
Consensus pattern (29 bp):
AAAATTTTTCAAAAATTTAAAAAATACTA
Found at i:19981201 original size:10 final size:10
Alignment explanation
Indices: 19981156--19981252 Score: 61
Period size: 10 Copynumber: 9.7 Consensus size: 10
19981146 GTGAAAAATT
* *
19981156 TTTTTAAAAT
1 TTTTAAAAAA
*
19981166 TTTTCAAAAA
1 TTTTAAAAAA
*
19981176 -TTTAAAAAG
1 TTTTAAAAAA
**
19981185 TACTAAAAAA
1 TTTTAAAAAA
*
19981195 TTTTAAACAA
1 TTTTAAAAAA
19981205 TTTTAAAAAA
1 TTTTAAAAAA
* ***
19981215 TTCTAAATTT
1 TTTTAAAAAA
*
19981225 TTTTCAAAAA
1 TTTTAAAAAA
*
19981235 TTATAAAAAAA
1 TT-TTAAAAAA
19981246 TTTTAAA
1 TTTTAAA
19981253 TTTTATAAAA
Statistics
Matches: 62, Mismatches: 23, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
9 7 0.11
10 47 0.76
11 8 0.13
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (10 bp):
TTTTAAAAAA
Found at i:19981335 original size:17 final size:18
Alignment explanation
Indices: 19981308--19981341 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
19981298 TTATCATAAC
19981308 TTTGAAAATTTTACAAAT
1 TTTGAAAATTTTACAAAT
*
19981326 TTTG-AAATTTTTCAAA
1 TTTGAAAATTTTACAAA
19981342 AAAAAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (18 bp):
TTTGAAAATTTTACAAAT
Found at i:19981422 original size:18 final size:17
Alignment explanation
Indices: 19981375--19981423 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
19981365 TTTTGGATTT
19981375 AAAAAAA-TACAAAATAA
1 AAAAAAACTA-AAAATAA
19981392 AAAAAAACTAAAAATAA
1 AAAAAAACTAAAAATAA
* *
19981409 GAAATAATCTAAAAA
1 -AAAAAAACTAAAAA
19981424 CTTTTAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 14 0.50
18 14 0.50
ACGTcount: A:0.78, C:0.06, G:0.02, T:0.14
Consensus pattern (17 bp):
AAAAAAACTAAAAATAA
Found at i:19981638 original size:19 final size:18
Alignment explanation
Indices: 19981605--19981653 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
19981595 TTAAGAATTT
*
19981605 TTTAAAA-TATTTTGAAA
1 TTTAAAATTTTTTTGAAA
19981622 TCTTAAAATTTTTTTGAAA
1 T-TTAAAATTTTTTTGAAA
*
19981641 TTTTAAATTTTTT
1 TTTAAAATTTTTT
19981654 AATAAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 1 0.04
18 17 0.61
19 10 0.36
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (18 bp):
TTTAAAATTTTTTTGAAA
Found at i:19981648 original size:18 final size:18
Alignment explanation
Indices: 19981604--19981666 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 18
19981594 TTTAAGAATT
* *
19981604 TTTTAAAATATTTTGAAA
1 TTTTAAATTTTTTTGAAA
*
19981622 TCTTAAAATTTTTTTGAAA
1 T-TTTAAATTTTTTTGAAA
19981641 TTTTAAATTTTTTAAT-AAA
1 TTTTAAATTTTTT--TGAAA
19981660 TTTTAAA
1 TTTTAAA
19981667 AAGGTTTTAG
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
18 12 0.32
19 25 0.66
20 1 0.03
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (18 bp):
TTTTAAATTTTTTTGAAA
Found at i:19981761 original size:20 final size:19
Alignment explanation
Indices: 19981720--19981763 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
19981710 TTCTAAATAT
* *
19981720 ATTTTTTAATTATTTTAGA
1 ATTTTTGAAATATTTTAGA
*
19981739 ATTTTTGAAATATTGTTATA
1 ATTTTTGAAATATT-TTAGA
19981759 ATTTT
1 ATTTT
19981764 AAAATTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (19 bp):
ATTTTTGAAATATTTTAGA
Found at i:19981879 original size:10 final size:10
Alignment explanation
Indices: 19981857--19981893 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
19981847 ATTAGTTTAG
19981857 AATTT-TTAGA
1 AATTTATTA-A
19981867 AATTTATTAA
1 AATTTATTAA
19981877 AATTTATT-A
1 AATTTATTAA
19981886 AATTTATT
1 AATTTATT
19981894 TTAATTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.35
10 14 0.54
11 3 0.12
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (10 bp):
AATTTATTAA
Found at i:19981903 original size:40 final size:40
Alignment explanation
Indices: 19981859--19982023 Score: 101
Period size: 40 Copynumber: 4.2 Consensus size: 40
19981849 TAGTTTAGAA
19981859 TTTTTAGAAATTTATTAAAATTTATTAAATTTATTTTAAT
1 TTTTTAGAAATTTATTAAAATTTATTAAATTTATTTTAAT
*** * * * *
19981899 TTTTTAGGTTTTTATTTAACA-TT-TGAATTTTTTTTTGAAAT
1 TTTTTAGAAATTTA-TTAAAATTTATTAAATTTATTTT--AAT
* * * *
19981940 TTTTTTGAAA---ATTGAAAATTAAATAAATTTATTTTAGAA
1 TTTTTAGAAATTTATT-AAAATTTATTAAATTTATTTTA-AT
* * *
19981979 TTTTTAGAAAATT-TTAAAATTTCTTAAAATCT-TTTTAAT
1 TTTTTAGAAATTTATTAAAATTTATT-AAATTTATTTTAAT
19982018 TTTTTA
1 TTTTTA
19982024 TTTTTTTTTA
Statistics
Matches: 90, Mismatches: 24, Indels: 23
0.66 0.18 0.17
Matches are distributed among these distances:
37 2 0.02
38 5 0.06
39 28 0.31
40 34 0.38
41 21 0.23
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.56
Consensus pattern (40 bp):
TTTTTAGAAATTTATTAAAATTTATTAAATTTATTTTAAT
Found at i:19982071 original size:119 final size:116
Alignment explanation
Indices: 19981840--19982059 Score: 263
Period size: 119 Copynumber: 1.9 Consensus size: 116
19981830 AAATTTTTTT
* *
19981840 TTAAAAAATTAGTTTAGAATTTTTAGAAATTTATTAAAATTTATTAAATTTATTTTAATTTTTTA
1 TTAAAAAATTAGTTTAGAATTTTTAGAAAATTATTAAAATTTATTAAATCTATTTTAATTTTTTA
****
19981905 GGTTTTTATTTAACATTTGAATTTTTTTTTGAAATTTTTTTGAAAATTGAAAA
66 -GTTTTTATTTAACATTTGAAAAAATTTTTG-AATTTTTTTGAAAATTGAAAA
* *
19981958 TTAAATAAATTTATTTTAGAATTTTTAGAAAATT-TTAAAATTTCTTAAAATCT-TTTTAATTTT
1 TTAAA-AAA-TTAGTTTAGAATTTTTAGAAAATTATTAAAATTTATT-AAATCTATTTTAATTTT
*
19982021 TTA-TTTTTTTTTAAC-TTCT-AAAAAATTTTTG-ATTTTTTT
63 TTAGTTTTTATTTAACATT-TGAAAAAATTTTTGAATTTTTTT
19982060 AGAATCTAAA
Statistics
Matches: 89, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
114 8 0.09
116 10 0.11
117 12 0.13
118 5 0.06
119 27 0.30
120 27 0.30
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.56
Consensus pattern (116 bp):
TTAAAAAATTAGTTTAGAATTTTTAGAAAATTATTAAAATTTATTAAATCTATTTTAATTTTTTA
GTTTTTATTTAACATTTGAAAAAATTTTTGAATTTTTTTGAAAATTGAAAA
Found at i:19982362 original size:13 final size:14
Alignment explanation
Indices: 19982339--19982367 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
19982329 TAACCTATCC
19982339 AAAAAAGTTAATTT
1 AAAAAAGTTAATTT
19982353 AAAAAA-TTAATTT
1 AAAAAAGTTAATTT
19982366 AA
1 AA
19982368 TTTTTTATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (14 bp):
AAAAAAGTTAATTT
Found at i:19984015 original size:3 final size:3
Alignment explanation
Indices: 19984009--19984046 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
19983999 GGTTCTTCTT
19984009 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
19984047 TGGTTTAGTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:19988698 original size:23 final size:24
Alignment explanation
Indices: 19988660--19988713 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 24
19988650 TATTGCTTTC
19988660 AAAAGAAAACTAAAAA-ATT-TA-T
1 AAAA-AAAACTAAAAATATTATAGT
19988682 AAAAAAAACTTATAAAATATTATAGT
1 AAAAAAAAC-TA-AAAATATTATAGT
19988708 AAAAAA
1 AAAAAA
19988714 GTTTTCTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 5 0.19
22 6 0.22
23 4 0.15
24 3 0.11
25 2 0.07
26 7 0.26
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.24
Consensus pattern (24 bp):
AAAAAAAACTAAAAATATTATAGT
Found at i:19990277 original size:29 final size:27
Alignment explanation
Indices: 19990223--19990294 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 27
19990213 TTTATTACGG
*
19990223 TTAAATAAGATCTTAACTTTTCATTTGAA
1 TTAAATAA-AT-TTTACTTTTCATTTGAA
*
19990252 CTTAAATAAATTTTACTTTTTTATTTGAA
1 -TTAAATAAATTTTAC-TTTTCATTTGAA
19990281 TTCAAATAAATTTT
1 TT-AAATAAATTTT
19990295 TAATATTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
28 6 0.16
29 24 0.63
30 8 0.21
ACGTcount: A:0.38, C:0.08, G:0.04, T:0.50
Consensus pattern (27 bp):
TTAAATAAATTTTACTTTTCATTTGAA
Found at i:19990303 original size:29 final size:29
Alignment explanation
Indices: 19990245--19990303 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 29
19990235 TTAACTTTTC
* *
19990245 ATTTGAACTTAAATAAATTTTACTTTTTT
1 ATTTGAACTTAAATAAATTTTACATATTT
19990274 ATTTGAA-TTCAAATAAATTTTTA-ATATTT
1 ATTTGAACTT-AAATAAA-TTTTACATATTT
19990303 A
1 A
19990304 ATTTATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 2 0.08
29 19 0.73
30 5 0.19
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (29 bp):
ATTTGAACTTAAATAAATTTTACATATTT
Found at i:19990359 original size:30 final size:29
Alignment explanation
Indices: 19990223--19990360 Score: 115
Period size: 30 Copynumber: 4.7 Consensus size: 29
19990213 TTTATTACGG
* *
19990223 TTAAATAAGATC-TTAACTTTTCATTTGAA
1 TTAAATAA-ATCTTTAATTTTTAATTTGAA
* *
19990252 CTTAAATAAAT-TTTACTTTTTTATTTGAA
1 -TTAAATAAATCTTTAATTTTTAATTTGAA
* *
19990281 TTCAAATAAATTTTTAATATTTAATTT-ATA
1 TT-AAATAAATCTTTAATTTTTAATTTGA-A
19990311 TATAAATAAA-CATTTAATTTTTAATTT-ATA
1 T-TAAATAAATC-TTTAATTTTTAATTTGA-A
19990341 CTTAAATAAATCTTTAATTT
1 -TTAAATAAATCTTTAATTT
19990361 ATATAATCTT
Statistics
Matches: 92, Mismatches: 8, Indels: 16
0.79 0.07 0.14
Matches are distributed among these distances:
28 2 0.02
29 25 0.27
30 62 0.67
31 3 0.03
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.51
Consensus pattern (29 bp):
TTAAATAAATCTTTAATTTTTAATTTGAA
Found at i:19990410 original size:28 final size:28
Alignment explanation
Indices: 19990378--19990447 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
19990368 CTTTGATTCG
*
19990378 AAATAAAAGTTTATTTAAATAT-ATAAAA
1 AAATAAAAATTTATTTAAATATAAT-AAA
19990406 AAATAAAAATTTATTTAAATATAATAAA
1 AAATAAAAATTTATTTAAATATAATAAA
*
19990434 ATATAAAAATTTAT
1 AAATAAAAATTTAT
19990448 CGAACTAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.37
Consensus pattern (28 bp):
AAATAAAAATTTATTTAAATATAATAAA
Found at i:19990459 original size:28 final size:28
Alignment explanation
Indices: 19990403--19990459 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
19990393 TAAATATATA
** *
19990403 AAAAAATAAAAATTTATTTAAATATAAT
1 AAAAAATAAAAATTTATCGAAATAAAAT
* *
19990431 AAAATATAAAAATTTATCGAACTAAAAT
1 AAAAAATAAAAATTTATCGAAATAAAAT
19990459 A
1 A
19990460 GTAAAATTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.32
Consensus pattern (28 bp):
AAAAAATAAAAATTTATCGAAATAAAAT
Found at i:19992572 original size:19 final size:19
Alignment explanation
Indices: 19992545--19992581 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
19992535 ATTCTCTTCA
19992545 AACTAATTAGAAAAGAATT
1 AACTAATTAGAAAAGAATT
*
19992564 AACTTATTAGAAAAGAAT
1 AACTAATTAGAAAAGAAT
19992582 CATAACTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.57, C:0.05, G:0.11, T:0.27
Consensus pattern (19 bp):
AACTAATTAGAAAAGAATT
Found at i:19994184 original size:66 final size:66
Alignment explanation
Indices: 19994082--19994222 Score: 162
Period size: 66 Copynumber: 2.1 Consensus size: 66
19994072 AAAATATATA
* *
19994082 TTTTAAAATTTAATAAAAACAACATTTTTATGATAAAAACGTAATTTTTATT-AAAAATATTAAT
1 TTTTAAAATTTAATAAAAACAACATTTCTATGATAAAAACATAATTTTTATTGAAAAATATTAAT
19994146 T
66 T
* * * *
19994147 TTTTCAAAATTTAATAAAATCAACGTTTCTA-GAATAAAAATATAGTTTTTATTGAAAAA-ATTG
1 TTTT-AAAATTTAATAAAAACAACATTTCTATG-ATAAAAACATAATTTTTATTGAAAAATATT-
*
19994210 ACTT
63 AATT
*
19994214 TTCTAAAAT
1 TTTTAAAAT
19994223 AAAAAACACA
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
65 5 0.08
66 48 0.75
67 11 0.17
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.42
Consensus pattern (66 bp):
TTTTAAAATTTAATAAAAACAACATTTCTATGATAAAAACATAATTTTTATTGAAAAATATTAAT
T
Found at i:19994336 original size:37 final size:37
Alignment explanation
Indices: 19994264--19994338 Score: 116
Period size: 37 Copynumber: 2.0 Consensus size: 37
19994254 AAATAAAAAG
*
19994264 TAAAATATCTTTACTTAATATTATTTCATATAAAATT
1 TAAAATATATTTACTTAATATTATTTCATATAAAATT
*
19994301 TAAAATATATTTATTTAATATTATTAT-ATATAAAATT
1 TAAAATATATTTACTTAATATTATT-TCATATAAAATT
19994338 T
1 T
19994339 GTTTCGAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
37 34 0.97
38 1 0.03
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (37 bp):
TAAAATATATTTACTTAATATTATTTCATATAAAATT
Found at i:19994698 original size:15 final size:16
Alignment explanation
Indices: 19994669--19994698 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19994659 AAAAATCATA
19994669 TTTTTTTTAATATCAC
1 TTTTTTTTAATATCAC
19994685 TTTTTTTTAA-ATCA
1 TTTTTTTTAATATCA
19994699 AATTTTCTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTTTTTTAATATCAC
Found at i:20005164 original size:189 final size:191
Alignment explanation
Indices: 20004947--20005302 Score: 404
Period size: 189 Copynumber: 1.9 Consensus size: 191
20004937 GGGCTTATTT
* * * *
20004947 AAAATTTTTTTTATTTCTCTTTTTTTTTTAAAAAAAAATATATGA-CAATTATT-TTCCTTAAAA
1 AAAAATTTTTTTATTTCTCTTATTTTTTTAAAAAAAAATAAAT-ATCAATTATTGTT-ATTAAAA
* * * * *
20005010 TTTCATTTAAAAT-TTTTCACAATTTGGGACAAATTTA-AAGAAAATTT-TCACCTAGAGATTTC
64 TTTAATCT-AAATCATTCCACAATTTGGGACAAATTTAGAA-AAAATTTCTCACCTA-AGAATT-
* *
20005072 TTA-AAAAATTTACCATTTGAAATTTTTAAGAATCTCATCATTATATAATTATCAAATATTTTCA
125 TTATAAAAATTTACCATTTAAAATTTTTAAAAATCTCATCATTATATAATTATCAAATATTTTCA
20005136 AC
190 AC
***** * *
20005138 AAAAATTTTTTTATTT-T-TTATTTTTTTGTTTGAAAATAAATATTAATTATTGTTATTTAAATT
1 AAAAATTTTTTTATTTCTCTTATTTTTTTAAAAAAAAATAAATATCAATTATTGTTATTAAAATT
* * *
20005201 TAATCTAAATCATTCCACAATTTGGGATAAATTTAGAAAAAATTTCTCACTTAAGAATTTTATAG
66 TAATCTAAATCATTCCACAATTTGGGACAAATTTAGAAAAAATTTCTCACCTAAGAATTTTATAA
*
20005266 AAATTTACCATTTAAAATTTTTAAAAATTTCATCATT
131 AAATTTACCATTTAAAATTTTTAAAAATCTCATCATT
20005303 GGATATTTAT
Statistics
Matches: 137, Mismatches: 22, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
188 8 0.06
189 103 0.75
190 11 0.08
191 15 0.11
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.46
Consensus pattern (191 bp):
AAAAATTTTTTTATTTCTCTTATTTTTTTAAAAAAAAATAAATATCAATTATTGTTATTAAAATT
TAATCTAAATCATTCCACAATTTGGGACAAATTTAGAAAAAATTTCTCACCTAAGAATTTTATAA
AAATTTACCATTTAAAATTTTTAAAAATCTCATCATTATATAATTATCAAATATTTTCAAC
Found at i:20005302 original size:25 final size:27
Alignment explanation
Indices: 20005238--20005302 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 27
20005228 TAAATTTAGA
*
20005238 AAAAATTTC-TCACTTAAGAATTTTAT
1 AAAAATTTCATCATTTAAGAATTTTAT
* *
20005264 AGAAATTT-ACCATTTAA-AATTTT-T
1 AAAAATTTCATCATTTAAGAATTTTAT
20005288 AAAAATTTCATCATT
1 AAAAATTTCATCATT
20005303 GGATATTTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
24 8 0.25
25 11 0.34
26 13 0.41
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (27 bp):
AAAAATTTCATCATTTAAGAATTTTAT
Found at i:20005367 original size:20 final size:20
Alignment explanation
Indices: 20005330--20005367 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
20005320 TCTTAAAACA
*
20005330 TATTTTATTTTTATATTTTT
1 TATTTTATTTTTAAATTTTT
20005350 TATTTT-TTTTCTAAATTT
1 TATTTTATTTT-TAAATTT
20005368 AACCATGCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (20 bp):
TATTTTATTTTTAAATTTTT
Found at i:20006642 original size:43 final size:43
Alignment explanation
Indices: 20006498--20006936 Score: 261
Period size: 43 Copynumber: 10.3 Consensus size: 43
20006488 AAGGCTCCTC
* * * ** * *
20006498 ACAACTTTTAAAAAATTAAATAAAGCTTCTCTAAACAAAGGTTCA
1 ACAAC-TTTGAAAAA-TAAATAATGCTCCTCTAATTAGAGGCTCA
* *
20006543 ACGACTTTGAAAAAT-AA-AA-GCTTCTCTAATTAGAGGCTCA
1 ACAACTTTGAAAAATAAATAATGCTCCTCTAATTAGAGGCTCA
* *
20006583 ACAACTTTTGAAAAATAAATAATGCTCCTCTAATTAGATGCTTA
1 ACAAC-TTTGAAAAATAAATAATGCTCCTCTAATTAGAGGCTCA
* * * *
20006627 ACAACTTCGAAAAATAAATAATGCTCCTATAATCAGAGGCTCC
1 ACAACTTTGAAAAATAAATAATGCTCCTCTAATTAGAGGCTCA
* * *
20006670 ACAACTTTGAAAAATAAATAAGGCTCTTCTAATCAGAGGCTCA
1 ACAACTTTGAAAAATAAATAATGCTCCTCTAATTAGAGGCTCA
* * * * ** **
20006713 CCGACTTT-AAAAA-ATA-AAGGCTTTTCTAAACAGAGGCTCA
1 ACAACTTTGAAAAATAAATAATGCTCCTCTAATTAGAGGCTCA
** * * * * * *
20006753 ATGACTTTGAAAAATAAACAAGGTTCCTCTAATCAAATGCTCA
1 ACAACTTTGAAAAATAAATAATGCTCCTCTAATTAGAGGCTCA
** * * * * ** *
20006796 ATGACTTTTGGAAAAT-AA-AAGGCTCTTCCAAACAAAGGCTCA
1 ACAAC-TTTGAAAAATAAATAATGCTCCTCTAATTAGAGGCTCA
* **
20006838 ACAACTTTGAAAAAT--A-AAGGCTCCTCTAACCAGAGGCTCA
1 ACAACTTTGAAAAATAAATAATGCTCCTCTAATTAGAGGCTCA
* * * * * * *
20006878 ACAACCATAGAAAAAATAAATAAGGCTCCTCTAATCAGAAGTTTA
1 ACAA-CTTTG-AAAAATAAATAATGCTCCTCTAATTAGAGGCTCA
*
20006923 ACAACTTTTAAAAA
1 ACAACTTTGAAAAA
20006937 AGATAAATAC
Statistics
Matches: 324, Mismatches: 57, Indels: 28
0.79 0.14 0.07
Matches are distributed among these distances:
40 74 0.23
41 31 0.10
42 39 0.12
43 109 0.34
44 43 0.13
45 28 0.09
ACGTcount: A:0.43, C:0.19, G:0.12, T:0.26
Consensus pattern (43 bp):
ACAACTTTGAAAAATAAATAATGCTCCTCTAATTAGAGGCTCA
Found at i:20006813 original size:170 final size:168
Alignment explanation
Indices: 20006487--20006879 Score: 391
Period size: 170 Copynumber: 2.3 Consensus size: 168
20006477 TCCCCTAAGT
* * * *
20006487 AAAGGCTCCTCACAACTTTTAAAAAATTAAATAAAGCT-TCTCTAAACAAAGGTTCAACGACTTT
1 AAAGGCT-C-CACAAC-TTTGAAAAA-TAAATAAGGCTCT-TCTAAACAGAGGCTCAACGACTTT
* ** * *
20006551 GAAAAATAAAAGCTTCTCTAATTAGAGGCTCAACAACTTTTGAAAAATAAATAATGCTCCTCTAA
61 AAAAAATAAAAGCTTCTCTAAACAGAGGCTCAACAACTTTTGAAAAATAAACAAGGCTCCTCTAA
* * * * * *
20006616 TTAGATGCTTAACAACTTCGAAAAATAAATAATGCTCCTATAATC
126 TCAAATGCTCAACAACTTCGAAAAAT-AA-AAGGCTCCTACAAAC
* * *
20006661 AGAGGCTCCACAACTTTGAAAAATAAATAAGGCTCTTCTAATCAGAGGCTCACCGACTTTAAAAA
1 AAAGGCTCCACAACTTTGAAAAATAAATAAGGCTCTTCTAAACAGAGGCTCAACGACTTTAAAAA
* * ** *
20006726 ATAAAGGCTTTTCTAAACAGAGGCTCAATGAC-TTTGAAAAATAAACAAGGTTCCTCTAATCAAA
66 ATAAAAGCTTCTCTAAACAGAGGCTCAACAACTTTTGAAAAATAAACAAGGCTCCTCTAATCAAA
** * * * *
20006790 TGCTCAATGACTTTTGGAAAATAAAAGGCTCTTCCAAAC
131 TGCTCAACAAC-TTCGAAAAATAAAAGGCTCCTACAAAC
* * *
20006829 AAAGGCTCAACAACTTTGAAAAAT--A-AAGGCTCCTCTAACCAGAGGCTCAAC
1 AAAGGCTCCACAACTTTGAAAAATAAATAAGGCTCTTCTAAACAGAGGCTCAAC
20006880 AACCATAGAA
Statistics
Matches: 183, Mismatches: 34, Indels: 13
0.80 0.15 0.06
Matches are distributed among these distances:
165 23 0.13
166 1 0.01
168 32 0.17
169 37 0.20
170 68 0.37
171 9 0.05
172 6 0.03
173 1 0.01
174 6 0.03
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (168 bp):
AAAGGCTCCACAACTTTGAAAAATAAATAAGGCTCTTCTAAACAGAGGCTCAACGACTTTAAAAA
ATAAAAGCTTCTCTAAACAGAGGCTCAACAACTTTTGAAAAATAAACAAGGCTCCTCTAATCAAA
TGCTCAACAACTTCGAAAAATAAAAGGCTCCTACAAAC
Found at i:20006845 original size:125 final size:129
Alignment explanation
Indices: 20006675--20006914 Score: 308
Period size: 125 Copynumber: 1.9 Consensus size: 129
20006665 GCTCCACAAC
* * * * * **
20006675 TTTGAAAAATAAATAAGGCTCTTCTAATCAGAGGCTCACCGACTTTAAAAAATAAAGGCTTTTCT
1 TTTGAAAAATAAATAAGGCTCTTCCAAACAAAGGCTCAACAACTTTAAAAAATAAAGGCTCCTCT
** * * *
20006740 AAACAGAGGCTCAATGA-CTTTG-AAAAATAAACAAGGTTCCTCTAATCAAATGCTCAATGACT
66 AAACAGAGGCTCAACAACCATAGAAAAAATAAACAAGGCTCCTCTAATCAAATGCTCAATGACT
* *
20006802 TTTGGAAAAT-AA-AAGGCTCTTCCAAACAAAGGCTCAACAACTTTGAAAAATAAAGGCTCCTCT
1 TTTGAAAAATAAATAAGGCTCTTCCAAACAAAGGCTCAACAACTTTAAAAAATAAAGGCTCCTCT
* *
20006865 AACCAGAGGCTCAACAACCATAGAAAAAATAAATAAGGCTCCTCTAATCA
66 AAACAGAGGCTCAACAACCATAGAAAAAATAAACAAGGCTCCTCTAATCA
20006915 GAAGTTTAAC
Statistics
Matches: 95, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
125 57 0.60
126 5 0.05
127 33 0.35
ACGTcount: A:0.42, C:0.20, G:0.14, T:0.24
Consensus pattern (129 bp):
TTTGAAAAATAAATAAGGCTCTTCCAAACAAAGGCTCAACAACTTTAAAAAATAAAGGCTCCTCT
AAACAGAGGCTCAACAACCATAGAAAAAATAAACAAGGCTCCTCTAATCAAATGCTCAATGACT
Found at i:20007056 original size:15 final size:15
Alignment explanation
Indices: 20007036--20007067 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
20007026 TTGAGTTTGA
20007036 AATTCAAACATTCAC
1 AATTCAAACATTCAC
*
20007051 AATTCAAAGATTCAC
1 AATTCAAACATTCAC
20007066 AA
1 AA
20007068 GAATTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.22, G:0.03, T:0.25
Consensus pattern (15 bp):
AATTCAAACATTCAC
Found at i:20007501 original size:42 final size:44
Alignment explanation
Indices: 20007328--20007520 Score: 175
Period size: 44 Copynumber: 4.4 Consensus size: 44
20007318 TCTTTATTTG
* * *
20007328 AGTTCAAAGATTCACATTCAATAAATCTTAAAGTTTCATATCT-A
1 AGTTCAAAGGTTCTCATTCAA-AAATCTTAAAGTTTCACATCTAA
* * * *
20007372 AGTTCAAAGGTTTTCACTT-AAAAAT-TTAAAGCTTCGCAT-TCA
1 AGTTCAAAGGTTCTCA-TTCAAAAATCTTAAAGTTTCACATCTAA
* * * *
20007414 AGTTTAAAGGTT-TACATTTGATAAATCTTAGAGTTTCACATCT-A
1 AGTTCAAAGGTTCT-CA-TTCAAAAATCTTAAAGTTTCACATCTAA
*
20007458 AGTTCAAAGGTTCTCATTCAAAAAT-TTAAAGATTCACATCTAA
1 AGTTCAAAGGTTCTCATTCAAAAATCTTAAAGTTTCACATCTAA
*
20007501 GAGTTCAAAGCTTCTCATTC
1 -AGTTCAAAGGTTCTCATTC
20007521 GAATTCAAAG
Statistics
Matches: 122, Mismatches: 18, Indels: 18
0.77 0.11 0.11
Matches are distributed among these distances:
41 2 0.02
42 41 0.34
43 17 0.14
44 58 0.48
45 4 0.03
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (44 bp):
AGTTCAAAGGTTCTCATTCAAAAATCTTAAAGTTTCACATCTAA
Found at i:20007536 original size:42 final size:41
Alignment explanation
Indices: 20007448--20007538 Score: 112
Period size: 42 Copynumber: 2.2 Consensus size: 41
20007438 ATCTTAGAGT
* *
20007448 TTCACATCTAAGTTCAAAGGTTCTCATTCAAAAATTTAAAGA
1 TTCACATCTAAGTTCAAAGCTTCTCATTC-AAAATTCAAAGA
* *
20007490 TTCACATCTAAGAGTTCAAAGCTTCTCATTC-GAATTCAAAGG
1 TTCACATCT-A-AGTTCAAAGCTTCTCATTCAAAATTCAAAGA
20007532 TTCACAT
1 TTCACAT
20007539 TTGACAAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
42 24 0.56
43 1 0.02
44 18 0.42
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (41 bp):
TTCACATCTAAGTTCAAAGCTTCTCATTCAAAATTCAAAGA
Found at i:20007539 original size:108 final size:107
Alignment explanation
Indices: 20007399--20007674 Score: 333
Period size: 108 Copynumber: 2.6 Consensus size: 107
20007389 TTAAAAATTT
* * *
20007399 AAAGCTTCGCATTCAAGTTTAAAGGTTTACATTTGATAAATCTTAGAGTTTCACATCTAAGTTCA
1 AAAGCTTCTCATTCAAGTTCAAAGGTTCACATTTGATAAATCTTAGAGTTTCACATCTAAGTTCA
* * *
20007464 AAGGTTCTCATTCAAAAATTTAAAGATTCACATCTAAGAGTTC
66 AAGCTTCTCATTC-AAAATTTAAAGATTCACATCCAAAAGTTC
* * * *
20007507 AAAGCTTCTCATTCGAA-TTCAAAGGTTCACATTTGACAAAT-TTGGGGTTT-ACATCCAAAAAG
1 AAAGCTTCTCATTC-AAGTTCAAAGGTTCACATTTGATAAATCTTAGAGTTTCACAT-C--TAAG
* * *
20007569 TTTAAAGCTTTTCATTCAAAATTTGAAGATTCACATCCAAAAGTTC
62 TTCAAAGCTTCTCATTCAAAATTTAAAGATTCACATCCAAAAGTTC
* * **
20007615 AAAGCTACTCATTTAAGTTCAAAGGTTCACATTCAATAAATCTTAGAGTTTCACATCTAA
1 AAAGCTTCTCATTCAAGTTCAAAGGTTCACATTTGATAAATCTTAGAGTTTCACATCTAA
20007675 AACCTCAAAA
Statistics
Matches: 140, Mismatches: 21, Indels: 15
0.80 0.12 0.09
Matches are distributed among these distances:
106 4 0.03
107 12 0.09
108 93 0.66
109 27 0.19
110 4 0.03
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (107 bp):
AAAGCTTCTCATTCAAGTTCAAAGGTTCACATTTGATAAATCTTAGAGTTTCACATCTAAGTTCA
AAGCTTCTCATTCAAAATTTAAAGATTCACATCCAAAAGTTC
Found at i:20007809 original size:22 final size:22
Alignment explanation
Indices: 20007762--20007824 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
20007752 GGTTTCACAT
* *
20007762 CTCAAATATTCTCATTT-AAAA
1 CTCAAAAATTCTTATTTGAAAA
*
20007783 TTCAAAAATTCTTATTTGAAAA
1 CTCAAAAATTCTTATTTGAAAA
* *
20007805 CTCAAAGATTCCTATTTGAA
1 CTCAAAAATTCTTATTTGAA
20007825 GATTCACAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
21 14 0.40
22 21 0.60
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.38
Consensus pattern (22 bp):
CTCAAAAATTCTTATTTGAAAA
Found at i:20008917 original size:26 final size:25
Alignment explanation
Indices: 20008888--20008955 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 25
20008878 TGAGTCTTCC
*
20008888 TTTTATCTTTTTTTCATTTTTCCCTT
1 TTTTAT-TTTTTTTCATTTTTCACTT
* * *
20008914 TTTTTTTCTTTTTTCATTTTTTATTT
1 TTTTATT-TTTTTTCATTTTTCACTT
20008940 TTTTATTTTTTTTCAT
1 TTTTATTTTTTTTCAT
20008956 CCATTAGTGA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
25 10 0.28
26 26 0.72
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (25 bp):
TTTTATTTTTTTTCATTTTTCACTT
Found at i:20008933 original size:15 final size:15
Alignment explanation
Indices: 20008915--20008950 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
20008905 TTTTCCCTTT
*
20008915 TTTTTTCTTTTTTCA
1 TTTTTTATTTTTTCA
*
20008930 TTTTTTATTTTTTTA
1 TTTTTTATTTTTTCA
20008945 TTTTTT
1 TTTTTT
20008951 TTCATCCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.08, C:0.06, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTTTTATTTTTTCA
Found at i:20008934 original size:19 final size:19
Alignment explanation
Indices: 20008895--20008935 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
20008885 TCCTTTTATC
*
20008895 TTTTTTTCATTTTTCCCTT
1 TTTTTTTCATTTTTCACTT
*
20008914 TTTTTTTCTTTTTTCA-TT
1 TTTTTTTCATTTTTCACTT
20008932 TTTT
1 TTTT
20008936 ATTTTTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTTTTCATTTTTCACTT
Found at i:20008952 original size:9 final size:8
Alignment explanation
Indices: 20008914--20008951 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
20008904 TTTTTCCCTT
*
20008914 TTTTTTTC
1 TTTTTTTA
*
20008922 TTTTTTCA
1 TTTTTTTA
20008930 -TTTTTTA
1 TTTTTTTA
20008937 TTTTTTTA
1 TTTTTTTA
20008945 TTTTTTT
1 TTTTTTT
20008952 TCATCCATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.08, C:0.05, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTTTA
Found at i:20013296 original size:15 final size:15
Alignment explanation
Indices: 20013273--20013313 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
20013263 GTATTTGGAA
* *
20013273 TTTTAGATTTTACGG
1 TTTTGGATTTTAAGG
20013288 TTTTGGATTTTAAGG
1 TTTTGGATTTTAAGG
*
20013303 TTTGGGATTTT
1 TTTTGGATTTT
20013314 GGATTTTAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.17, C:0.02, G:0.24, T:0.56
Consensus pattern (15 bp):
TTTTGGATTTTAAGG
Found at i:20013450 original size:22 final size:21
Alignment explanation
Indices: 20013419--20013485 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
20013409 GGGATTAAAT
* *
20013419 TTTAGGGTTTTGATTTTTGGG
1 TTTAGGGTTTAGAGTTTTGGG
**
20013440 TTTAGAGGTTTAGAGTTTTGAT
1 TTTAG-GGTTTAGAGTTTTGGG
* *
20013462 TTTAGGGTTTAGGGTTTAGGG
1 TTTAGGGTTTAGAGTTTTGGG
20013483 TTT
1 TTT
20013486 TAGTTTTAGG
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
21 20 0.54
22 17 0.46
ACGTcount: A:0.15, C:0.00, G:0.33, T:0.52
Consensus pattern (21 bp):
TTTAGGGTTTAGAGTTTTGGG
Found at i:20013472 original size:7 final size:7
Alignment explanation
Indices: 20013437--20013580 Score: 65
Period size: 7 Copynumber: 19.9 Consensus size: 7
20013427 TTTGATTTTT
20013437 GGGTTTA
1 GGGTTTA
20013444 GAGGTTTA
1 G-GGTTTA
* *
20013452 GAGTTTT
1 GGGTTTA
**
20013459 GATTTTA
1 GGGTTTA
20013466 GGGTTTA
1 GGGTTTA
20013473 GGGTTTA
1 GGGTTTA
20013480 GGGTTTTA
1 GGG-TTTA
*
20013488 -GTTTTA
1 GGGTTTA
20013494 GGGTTTGGA
1 GGGTTT--A
*
20013503 GGATTTA
1 GGGTTTA
*
20013510 GGGTTTT
1 GGGTTTA
**
20013517 GATTTTA
1 GGGTTTA
*
20013524 AGGTTTGAA
1 GGGTTT--A
**
20013533 GGACTTA
1 GGGTTTA
*
20013540 GGGTTTC
1 GGGTTTA
**
20013547 GATTTTA
1 GGGTTTA
20013554 GGGTTTA
1 GGGTTTA
***
20013561 AATTTTA
1 GGGTTTA
20013568 GGGTTTA
1 GGGTTTA
20013575 GGGTTT
1 GGGTTT
20013581 GAAGGATTTA
Statistics
Matches: 96, Mismatches: 34, Indels: 14
0.67 0.24 0.10
Matches are distributed among these distances:
6 4 0.04
7 71 0.74
8 11 0.11
9 10 0.10
ACGTcount: A:0.19, C:0.01, G:0.33, T:0.47
Consensus pattern (7 bp):
GGGTTTA
Found at i:20013512 original size:30 final size:30
Alignment explanation
Indices: 20013419--20013559 Score: 173
Period size: 30 Copynumber: 4.8 Consensus size: 30
20013409 GGGATTAAAT
* *
20013419 TTTAGGGTTTTGATTTTTGGGTTTAGAGG-
1 TTTAGGGTTTTGATTTTAGGGTTTGGAGGA
* *
20013448 TTTAGAGTTTTGATTTTAGGGTTT--AGGG
1 TTTAGGGTTTTGATTTTAGGGTTTGGAGGA
20013476 TTTAGGGTTTT-AGTTTTAGGGTTTGGAGGA
1 TTTAGGGTTTTGA-TTTTAGGGTTTGGAGGA
* *
20013506 TTTAGGGTTTTGATTTTAAGGTTTGAAGGA
1 TTTAGGGTTTTGATTTTAGGGTTTGGAGGA
* *
20013536 CTTAGGGTTTCGATTTTAGGGTTT
1 TTTAGGGTTTTGATTTTAGGGTTT
20013560 AAATTTTAGG
Statistics
Matches: 98, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
27 4 0.04
28 21 0.21
29 22 0.22
30 50 0.51
31 1 0.01
ACGTcount: A:0.17, C:0.01, G:0.33, T:0.49
Consensus pattern (30 bp):
TTTAGGGTTTTGATTTTAGGGTTTGGAGGA
Found at i:20013574 original size:14 final size:14
Alignment explanation
Indices: 20013417--20013575 Score: 117
Period size: 14 Copynumber: 11.0 Consensus size: 14
20013407 TGGGGATTAA
*
20013417 ATTTTAGGGTTTTG
1 ATTTTAGGGTTTAG
*
20013431 ATTTTTGGGTTTAG
1 ATTTTAGGGTTTAG
* * *
20013445 AGGTTTAGAGTTTTG
1 A-TTTTAGGGTTTAG
20013460 ATTTTAGGGTTTAG
1 ATTTTAGGGTTTAG
**
20013474 GGTTTAGGGTTTTAG
1 ATTTTAGGG-TTTAG
20013489 -TTTTAGGGTTTGGAGG
1 ATTTTAGGGTTT--A-G
*
20013505 A-TTTAGGGTTTTG
1 ATTTTAGGGTTTAG
*
20013518 ATTTTAAGGTTTGAAGG
1 ATTTTAGGGTTT--A-G
* *
20013535 A-CTTAGGGTTTCG
1 ATTTTAGGGTTTAG
*
20013548 ATTTTAGGGTTTAA
1 ATTTTAGGGTTTAG
20013562 ATTTTAGGGTTTAG
1 ATTTTAGGGTTTAG
20013576 GGTTTGAAGG
Statistics
Matches: 112, Mismatches: 22, Indels: 22
0.72 0.14 0.14
Matches are distributed among these distances:
13 7 0.06
14 68 0.61
15 16 0.14
16 19 0.17
17 2 0.02
ACGTcount: A:0.19, C:0.01, G:0.31, T:0.48
Consensus pattern (14 bp):
ATTTTAGGGTTTAG
Found at i:20013708 original size:29 final size:29
Alignment explanation
Indices: 20013663--20013726 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
20013653 GGGTTTTGCG
20013663 GGTTTTAGGTCTCAATTTCAGGGTTTAGA
1 GGTTTTAGGTCTCAATTTCAGGGTTTAGA
* * *
20013692 GGTTTTAAGGT-TTAATTTTAGGGTTTGGA
1 GGTTTT-AGGTCTCAATTTCAGGGTTTAGA
20013721 GAGTTT
1 G-GTTT
20013727 AGGGTTTCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 22 0.73
30 8 0.27
ACGTcount: A:0.20, C:0.05, G:0.30, T:0.45
Consensus pattern (29 bp):
GGTTTTAGGTCTCAATTTCAGGGTTTAGA
Found at i:20013727 original size:29 final size:29
Alignment explanation
Indices: 20013619--20013733 Score: 74
Period size: 29 Copynumber: 4.0 Consensus size: 29
20013609 TGAGGTTTTG
* *
20013619 ATTTTAGGGTTTGTA-AGATT-AGGATTTA
1 ATTTTAGGGTTTGGAGAGTTTAAGG-TTTA
* * * * * * *
20013647 GTTTTGGGGTTTTGCGGGTTTTAGGTCTCA
1 ATTTTAGGGTTTGGAGAGTTTAAGGT-TTA
* *
20013677 ATTTCAGGGTTTAGAG-GTTTTAAGGTTTA
1 ATTTTAGGGTTTGGAGAG-TTTAAGGTTTA
*
20013706 ATTTTAGGGTTTGGAGAGTTTAGGGTTT
1 ATTTTAGGGTTTGGAGAGTTTAAGGTTT
20013734 CATTCTGAAT
Statistics
Matches: 64, Mismatches: 18, Indels: 9
0.70 0.20 0.10
Matches are distributed among these distances:
28 10 0.16
29 30 0.47
30 24 0.38
ACGTcount: A:0.19, C:0.03, G:0.31, T:0.46
Consensus pattern (29 bp):
ATTTTAGGGTTTGGAGAGTTTAAGGTTTA
Found at i:20013889 original size:25 final size:26
Alignment explanation
Indices: 20013825--20013891 Score: 70
Period size: 25 Copynumber: 2.6 Consensus size: 26
20013815 ATTTTTAAAA
20013825 ATTAATTAAAATTATTCATATGTTTTTT
1 ATTAA-TAAAATTATT-ATATGTTTTTT
*
20013853 A-TAA-AAATTTATTAT-T-TTTTATT
1 ATTAATAAAATTATTATATGTTTT-TT
20013876 ATTAATAAAATTATTA
1 ATTAATAAAATTATTA
20013892 ATTAATTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
22 4 0.12
23 4 0.12
24 5 0.15
25 17 0.50
27 3 0.09
28 1 0.03
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (26 bp):
ATTAATAAAATTATTATATGTTTTTT
Found at i:20013906 original size:12 final size:12
Alignment explanation
Indices: 20013873--20013906 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
20013863 ATTATTTTTT
*
20013873 ATTATTAATAAA
1 ATTATTAATTAA
20013885 ATTATTAATTAA
1 ATTATTAATTAA
*
20013897 TTTATTAATT
1 ATTATTAATT
20013907 TTTTTATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
ATTATTAATTAA
Found at i:20014087 original size:3 final size:3
Alignment explanation
Indices: 20014079--20014124 Score: 65
Period size: 3 Copynumber: 15.0 Consensus size: 3
20014069 ATTCATTTGA
* *
20014079 ATT ATT ATT ATT ATT ATC ACT ATT ATT ATT ATT ATT ATT AATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT
20014125 GTAAAACAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:20014842 original size:184 final size:184
Alignment explanation
Indices: 20014291--20014842 Score: 701
Period size: 184 Copynumber: 3.0 Consensus size: 184
20014281 GTTTAGTCTG
* * * * *
20014291 ACGGTTCAGAGCAAAGGTGGTTCAAACTGGTTCAAACCGATTGATTGGCAA-TTCGATTCGATCT
1 ACGGTTCGGAGCAAAGGTGGTTCAAACTAGTTCAAACCGATTCATTGGTAATTTAG-TTCGATCT
* * * ** * *** *
20014355 AATTGAACCGATTCAGGATTGTGAAAAAGACGGGTCAGTGGGTCAATTGTACGGATCTCAGGTCG
65 GATTGAACTGATTCAAGATTGTGAAAAAGGTGGGTCAGTGGGTCAGTTACGCGGATCTCGGGTCG
* * * * * ** ** ** *
20014420 ATCCGATCCACGTGCAGATTCTCCCCTTGAGTAAAACGATTTTGTTTTATTTCTG
130 ATCCGATCCACGTGTAAATTCTTCCCTTAAGCAAAACGACATCATTTTGCTTCTA
* * * * *
20014475 ATGGTTCGGAGCAAAGGTGGTTCAAAATAGTTCAAACCGATTCATTGGTAATTCAGTTTGATTTG
1 ACGGTTCGGAGCAAAGGTGGTTCAAACTAGTTCAAACCGATTCATTGGTAATTTAGTTCGATCTG
*
20014540 ATTGAACTGATTCAAGATTGTGAAAAAGGTGGGTCAGTGGGTTAGTTACGCGGATCTCGGGTCGA
66 ATTGAACTGATTCAAGATTGTGAAAAAGGTGGGTCAGTGGGTCAGTTACGCGGATCTCGGGTCGA
*
20014605 TCCGATCCACGTGTAAATTCTTCCCTTAAGCAAAACGACGTCATTTTGCTTCTA
131 TCCGATCCACGTGTAAATTCTTCCCTTAAGCAAAACGACATCATTTTGCTTCTA
* * * *
20014659 ACGGTTCGGAGCAGAGGTGGTTCAAACTAGTTCAAATCGATTCATTGATAATTTAGTCCGATCTG
1 ACGGTTCGGAGCAAAGGTGGTTCAAACTAGTTCAAACCGATTCATTGGTAATTTAGTTCGATCTG
* * *
20014724 ATTGAACTGGTTCAAGATTGTGAAAAAGGTGGGTTAGTGGGTCAGTTACGCGGATCTCGGGTCGG
66 ATTGAACTGATTCAAGATTGTGAAAAAGGTGGGTCAGTGGGTCAGTTACGCGGATCTCGGGTCGA
* *
20014789 TCCGATCCACGTGTAAATTCTTCTCTTAAGCAAAATGACATCATTTTGCTTCTA
131 TCCGATCCACGTGTAAATTCTTCCCTTAAGCAAAACGACATCATTTTGCTTCTA
20014843 GCTTTCTATA
Statistics
Matches: 318, Mismatches: 49, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
184 316 0.99
185 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.31
Consensus pattern (184 bp):
ACGGTTCGGAGCAAAGGTGGTTCAAACTAGTTCAAACCGATTCATTGGTAATTTAGTTCGATCTG
ATTGAACTGATTCAAGATTGTGAAAAAGGTGGGTCAGTGGGTCAGTTACGCGGATCTCGGGTCGA
TCCGATCCACGTGTAAATTCTTCCCTTAAGCAAAACGACATCATTTTGCTTCTA
Found at i:20016161 original size:22 final size:22
Alignment explanation
Indices: 20016136--20016179 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
20016126 ATCGCAAGTC
20016136 AAAATTATGTCT-GAAGGTCTTA
1 AAAATTAT-TCTCGAAGGTCTTA
*
20016158 AAAATTATTTTCGAAGGTCTTA
1 AAAATTATTCTCGAAGGTCTTA
20016180 GAGATTGTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 2 0.10
22 18 0.90
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.39
Consensus pattern (22 bp):
AAAATTATTCTCGAAGGTCTTA
Found at i:20016219 original size:22 final size:22
Alignment explanation
Indices: 20016174--20016247 Score: 69
Period size: 22 Copynumber: 3.4 Consensus size: 22
20016164 ATTTTCGAAG
*
20016174 GTCTTAGAGATTGTGCCTGAAA
1 GTCTTAGAGATTATGCCTGAAA
*
20016196 GTTTTAGAGATTATGCCCTG-AA
1 GTCTTAGAGATTATG-CCTGAAA
* * * *
20016218 GTCTTAAAGATCATACCTGAAG
1 GTCTTAGAGATTATGCCTGAAA
*
20016240 GCCTTAGA
1 GTCTTAGA
20016248 AATCATGTCT
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
21 4 0.10
22 33 0.80
23 4 0.10
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (22 bp):
GTCTTAGAGATTATGCCTGAAA
Found at i:20016387 original size:22 final size:22
Alignment explanation
Indices: 20016334--20016387 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
20016324 ACCACGAATC
*
20016334 GAAATTATGCTCGGATGTCTTA
1 GAAATTATGCTCGGAGGTCTTA
20016356 -AAGATTATGCTCGGAGGTCTTA
1 GAA-ATTATGCTCGGAGGTCTTA
*
20016378 GAAATCATGC
1 GAAATTATGC
20016388 CAATAGGTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 2 0.07
22 24 0.86
23 2 0.07
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (22 bp):
GAAATTATGCTCGGAGGTCTTA
Found at i:20016442 original size:132 final size:132
Alignment explanation
Indices: 20016242--20016509 Score: 347
Period size: 132 Copynumber: 2.0 Consensus size: 132
20016232 ACCTGAAGGC
* * * *
20016242 CTTAGAAATCATGTCTAGAGATCTTACAAAATTGACTGAGATAACACCGTAAGTCAAAAAATAAA
1 CTTAGAAATCATGCCAAGAGATCTTACAAAATTGACTGAGACAACACCGCAAGTCAAAAAATAAA
* * * * * * *
20016307 GAATTGATCGGAATAACACCACGAATCGAAATTATGCTCGGATGTCTTAAAGATTATGCTCGGAG
66 GAATTGATCGGAATAACACCACAAATCAAAATCATGCCCGGAGGTCTTAAAAATCATGCTCGGAG
20016372 GT
131 GT
* * * * * *
20016374 CTTAGAAATCATGCCAATAGGTCTTACAAAATTGATTGGGACAATATCGCAAGTCAAAAAATAAA
1 CTTAGAAATCATGCCAAGAGATCTTACAAAATTGACTGAGACAACACCGCAAGTCAAAAAATAAA
* * * *
20016439 GAATTGATTGGGATAACATCATAAATCAAAATCATGCCCGGAGGTCTTAAAAATCATGCTCGGAG
66 GAATTGATCGGAATAACACCACAAATCAAAATCATGCCCGGAGGTCTTAAAAATCATGCTCGGAG
20016504 GT
131 GT
20016506 CTTA
1 CTTA
20016510 TAGAATCGAT
Statistics
Matches: 115, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
132 115 1.00
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.26
Consensus pattern (132 bp):
CTTAGAAATCATGCCAAGAGATCTTACAAAATTGACTGAGACAACACCGCAAGTCAAAAAATAAA
GAATTGATCGGAATAACACCACAAATCAAAATCATGCCCGGAGGTCTTAAAAATCATGCTCGGAG
GT
Found at i:20016493 original size:22 final size:22
Alignment explanation
Indices: 20016466--20016509 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
20016456 ATCATAAATC
20016466 AAAATCATGCCCGGAGGTCTTA
1 AAAATCATGCCCGGAGGTCTTA
*
20016488 AAAATCATGCTCGGAGGTCTTA
1 AAAATCATGCCCGGAGGTCTTA
20016510 TAGAATCGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (22 bp):
AAAATCATGCCCGGAGGTCTTA
Found at i:20016564 original size:110 final size:110
Alignment explanation
Indices: 20016362--20016602 Score: 295
Period size: 110 Copynumber: 2.2 Consensus size: 110
20016352 CTTAAAGATT
* * * * * *
20016362 ATGCTCGGAGGTCTTAGAAATCATGCCAATAGGTCTTACAAAATTGATTGGGACAATATCGCAAG
1 ATGCTCGGAGGTCTTAAAAATCATGCCAAGAGGTCTTACAAAATCGATTGAGACAACATCGCAAA
* *
20016427 TCAAAAAATAAAGAATTGATTGGGATAACATCATAAATCAAAATC
66 TCAAAAAATAAAGAATTGATTGAGATAACACCATAAATCAAAATC
* * * * * *
20016472 ATGCCCGGAGGTCTTAAAAATCATGCTC-GGAGGTCTTATAGAATCGATTGAGATAACATCGTAA
1 ATGCTCGGAGGTCTTAAAAATCATGC-CAAGAGGTCTTACAAAATCGATTGAGACAACATCGCAA
* * *
20016536 ATCAAAAAATAAAGAATTGATTGAGATAACACCGTGAATCAAAATT
65 ATCAAAAAATAAAGAATTGATTGAGATAACACCATAAATCAAAATC
* *
20016582 ATGCTCAGAGATCTTAAAAAT
1 ATGCTCGGAGGTCTTAAAAAT
20016603 TATACCCAAA
Statistics
Matches: 110, Mismatches: 20, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
110 109 0.99
111 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (110 bp):
ATGCTCGGAGGTCTTAAAAATCATGCCAAGAGGTCTTACAAAATCGATTGAGACAACATCGCAAA
TCAAAAAATAAAGAATTGATTGAGATAACACCATAAATCAAAATC
Found at i:20016603 original size:22 final size:22
Alignment explanation
Indices: 20016576--20016624 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
20016566 ACCGTGAATC
* * *
20016576 AAAATTATGCTCAGAGATCTTA
1 AAAATTATACCCAAAGATCTTA
20016598 AAAATTATACCCAAAGATCTTA
1 AAAATTATACCCAAAGATCTTA
*
20016620 GAAAT
1 AAAAT
20016625 CATATCTGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.29
Consensus pattern (22 bp):
AAAATTATACCCAAAGATCTTA
Found at i:20017024 original size:22 final size:22
Alignment explanation
Indices: 20016997--20017052 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
20016987 TATACCTAAA
*
20016997 GTCTTAGAAATTACGCTCGAAG
1 GTCTTAGAAATCACGCTCGAAG
* * *
20017019 GTCTTAGGAATCATGCTTGAAG
1 GTCTTAGAAATCACGCTCGAAG
*
20017041 GTCTTACAAATC
1 GTCTTAGAAATC
20017053 TCAAAATTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (22 bp):
GTCTTAGAAATCACGCTCGAAG
Found at i:20017600 original size:117 final size:118
Alignment explanation
Indices: 20017400--20017654 Score: 309
Period size: 121 Copynumber: 2.1 Consensus size: 118
20017390 ATGCGAATTT
* * * * * * * *
20017400 TTATGATGCAGATACAAGTGATGCAAATGCAAATGTCCCTTTCATGGTGCACAGGCAAGCGATGT
1 TTATGATGCAAATGCAAGTGATGCAAATGCAAATGTCACTTTCATGATACACAGGCAAACGACGC
* *
20017465 AATTATGGACATTTC-TT-TTTTTTTTTTTCATTTGCT-GGTCAAATGTCTTTC
66 AACTACGGACATTTCTTTGTTTTTTTTTTTCATTTG-TAGGTCAAATGTCTTTC
* * * *
20017516 TTATTATGCAAATGCAAGTGATGCAAATGCAAATGTTCATTTTCGTGATACACAGGCAAATGACG
1 TTATGATGCAAATGCAAGTGATGCAAATGCAAATG-TCACTTTCATGATACACAGGCAAACGACG
20017581 CAACTACGGACATTTCTTTTTGTTTTTTTTTTTCATTTGTAGGTCAAATGTCTTTC
65 CAACTACGGACATTTC--TTTGTTTTTTTTTTTCATTTGTAGGTCAAATGTCTTTC
*
20017637 TTAGTGATGTAAATGCAA
1 TTA-TGATGCAAATGCAA
20017655 AGATTCTTTT
Statistics
Matches: 116, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
116 32 0.28
117 34 0.29
120 3 0.03
121 35 0.30
122 12 0.10
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (118 bp):
TTATGATGCAAATGCAAGTGATGCAAATGCAAATGTCACTTTCATGATACACAGGCAAACGACGC
AACTACGGACATTTCTTTGTTTTTTTTTTTCATTTGTAGGTCAAATGTCTTTC
Found at i:20019065 original size:22 final size:22
Alignment explanation
Indices: 20019039--20019098 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
20019029 TGAAGATGTC
*
20019039 TTTTTACTTTTTTTATT-TATTT
1 TTTTTACTTTTTTT-TTGCATTT
* *
20019061 TTTTTGCTTTTTTTTTGCCTTT
1 TTTTTACTTTTTTTTTGCATTT
20019083 TTTTTACTTTTTTTTT
1 TTTTTACTTTTTTTTT
20019099 TGTGATGCCC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 2 0.06
22 31 0.94
ACGTcount: A:0.07, C:0.08, G:0.03, T:0.82
Consensus pattern (22 bp):
TTTTTACTTTTTTTTTGCATTT
Found at i:20019073 original size:12 final size:11
Alignment explanation
Indices: 20019058--20019098 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
20019048 TTTTTATTTA
20019058 TTTTTTTTGCT
1 TTTTTTTTGCT
*
20019069 TTTTTTTTGCC
1 TTTTTTTTGCT
*
20019080 TTTTTTTTACT
1 TTTTTTTTGCT
20019091 TTTTTTTT
1 TTTTTTTT
20019099 TGTGATGCCC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.02, C:0.10, G:0.05, T:0.83
Consensus pattern (11 bp):
TTTTTTTTGCT
Found at i:20023918 original size:12 final size:12
Alignment explanation
Indices: 20023901--20023926 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
20023891 AAACTCTTTT
20023901 TTTTTTTTTTGC
1 TTTTTTTTTTGC
20023913 TTTTTTTTTTGC
1 TTTTTTTTTTGC
20023925 TT
1 TT
20023927 ATTGGATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.85
Consensus pattern (12 bp):
TTTTTTTTTTGC
Found at i:20025768 original size:15 final size:15
Alignment explanation
Indices: 20025750--20025790 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
20025740 GTGTTTAGAA
20025750 TTTTGGATTTTAAAG
1 TTTTGGATTTTAAAG
*
20025765 TTTTGGATTTTAAGG
1 TTTTGGATTTTAAAG
*
20025780 TTTGGGATTTT
1 TTTTGGATTTT
20025791 GGATTTTAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.20, C:0.00, G:0.24, T:0.56
Consensus pattern (15 bp):
TTTTGGATTTTAAAG
Found at i:20025790 original size:22 final size:21
Alignment explanation
Indices: 20025764--20025812 Score: 71
Period size: 22 Copynumber: 2.3 Consensus size: 21
20025754 GGATTTTAAA
*
20025764 GTTTTGGATTTTAAGGTTTGG
1 GTTTTGGATTTTAAGGTTAGG
*
20025785 GATTTTGGATTTTAGGGTTAGG
1 G-TTTTGGATTTTAAGGTTAGG
20025807 GTTTTG
1 GTTTTG
20025813 AGTTTTAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 6 0.24
22 19 0.76
ACGTcount: A:0.14, C:0.00, G:0.35, T:0.51
Consensus pattern (21 bp):
GTTTTGGATTTTAAGGTTAGG
Found at i:20025818 original size:28 final size:28
Alignment explanation
Indices: 20025785--20025853 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
20025775 TAAGGTTTGG
20025785 GATTTTGGATTTTAGGG-TTAGGGTTTT
1 GATTTTGGATTTTAGGGTTTAGGGTTTT
* ** *
20025812 GAGTTTTAGATCCTAGGGTTTAGGTTTTT
1 GA-TTTTGGATTTTAGGGTTTAGGGTTTT
20025841 GATTTTAGGATTT
1 GATTTT-GGATTT
20025854 GAGGTTTGGG
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
27 2 0.06
28 16 0.50
29 14 0.44
ACGTcount: A:0.17, C:0.03, G:0.29, T:0.51
Consensus pattern (28 bp):
GATTTTGGATTTTAGGGTTTAGGGTTTT
Found at i:20025905 original size:14 final size:14
Alignment explanation
Indices: 20025886--20025919 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
20025876 CAAGCACTTG
20025886 GGGTTTTAATTTTA
1 GGGTTTTAATTTTA
* *
20025900 GGGTTTTGATTTTT
1 GGGTTTTAATTTTA
20025914 GGGTTT
1 GGGTTT
20025920 AGAGGTTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.29, T:0.59
Consensus pattern (14 bp):
GGGTTTTAATTTTA
Found at i:20025957 original size:29 final size:30
Alignment explanation
Indices: 20025895--20025958 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 30
20025885 GGGGTTTTAA
* **
20025895 TTTTAGGGTTTTGATTTTTGGGTTTAGAGG
1 TTTTAGAGTTTTGATTTTAAGGTTTAGAGG
20025925 -TTTAGAGTTTTGATTTTAAGGTTTAG-GG
1 TTTTAGAGTTTTGATTTTAAGGTTTAGAGG
20025953 TTTTAG
1 TTTTAG
20025959 CTTTAGGGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 2 0.07
29 28 0.93
ACGTcount: A:0.17, C:0.00, G:0.30, T:0.53
Consensus pattern (30 bp):
TTTTAGAGTTTTGATTTTAAGGTTTAGAGG
Found at i:20025963 original size:21 final size:21
Alignment explanation
Indices: 20025917--20025970 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
20025907 GATTTTTGGG
*
20025917 TTTAGAGGTTTAGAGTTTTGAT
1 TTTA-AGGTTTAGAGTTTTGAC
*
20025939 TTTAAGGTTTAGGGTTTT-AGC
1 TTTAAGGTTTAGAGTTTTGA-C
*
20025960 TTTAGGGTTTA
1 TTTAAGGTTTA
20025971 AAGGATTTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.04
21 23 0.82
22 4 0.14
ACGTcount: A:0.20, C:0.02, G:0.28, T:0.50
Consensus pattern (21 bp):
TTTAAGGTTTAGAGTTTTGAC
Found at i:20025995 original size:14 final size:14
Alignment explanation
Indices: 20025946--20026093 Score: 95
Period size: 14 Copynumber: 10.1 Consensus size: 14
20025936 GATTTTAAGG
*
20025946 TTTAGGGTTTTAG-C
1 TTTAGGG-TTTAGAT
20025960 TTTAGGGTTTAAAGGA-
1 TTTAGGGTTT--A-GAT
*
20025976 TTTAGGGTTTCGAT
1 TTTAGGGTTTAGAT
20025990 TTTAGGGTTTGAGAT
1 TTTAGGGTTT-AGAT
*
20026005 TTTAGGGTTTTGAT
1 TTTAGGGTTTAGAT
* *
20026019 ATTAAGGTTTGGAAGA-
1 TTTAGGGTTT---AGAT
* * *
20026035 CTTAGGGTTTCGAA
1 TTTAGGGTTTAGAT
*
20026049 TTTAGGGTTTAAAT
1 TTTAGGGTTTAGAT
**
20026063 TTTAGGGTTTAGGG
1 TTTAGGGTTTAGAT
20026077 TTTAGGGTTTAGGAT
1 TTTAGGGTTTA-GAT
20026092 TT
1 TT
20026094 GGAGGATTTA
Statistics
Matches: 105, Mismatches: 18, Indels: 21
0.73 0.12 0.15
Matches are distributed among these distances:
13 7 0.07
14 60 0.57
15 17 0.16
16 19 0.18
17 2 0.02
ACGTcount: A:0.22, C:0.03, G:0.30, T:0.45
Consensus pattern (14 bp):
TTTAGGGTTTAGAT
Found at i:20026027 original size:29 final size:29
Alignment explanation
Indices: 20025976--20026072 Score: 101
Period size: 29 Copynumber: 3.3 Consensus size: 29
20025966 GTTTAAAGGA
*
20025976 TTTAGGGTTTCGATTTTAGGGTTTGAGAT
1 TTTAGGGTTTCGATATTAGGGTTTGAGAT
* *
20026005 TTTAGGGTTTTGATATTAAGGTTTGGAAGA-
1 TTTAGGGTTTCGATATTAGGGTTT-G-AGAT
* *
20026035 CTTAGGGTTTCGA-ATTTAGGGTTT-AAAT
1 TTTAGGGTTTCGATA-TTAGGGTTTGAGAT
20026063 TTTAGGGTTT
1 TTTAGGGTTT
20026073 AGGGTTTAGG
Statistics
Matches: 56, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
27 2 0.04
28 9 0.16
29 22 0.39
30 20 0.36
31 3 0.05
ACGTcount: A:0.22, C:0.03, G:0.29, T:0.46
Consensus pattern (29 bp):
TTTAGGGTTTCGATATTAGGGTTTGAGAT
Found at i:20026028 original size:59 final size:58
Alignment explanation
Indices: 20025946--20026072 Score: 159
Period size: 59 Copynumber: 2.2 Consensus size: 58
20025936 GATTTTAAGG
* * * * *
20025946 TTTAGGGTTTTAGCTTTAGGGTTT-AAAGGATTTAGGGTTTCGATTTTAGGGTTTGAGAT
1 TTTAGGGTTTTAGATTTAAGGTTTGAAA-GACTTAGGGTTTCGAATTTAGGGTTT-AAAT
*
20026005 TTTAGGGTTTT-GATATTAAGGTTTGGAAGACTTAGGGTTTCGAATTTAGGGTTTAAAT
1 TTTAGGGTTTTAGAT-TTAAGGTTTGAAAGACTTAGGGTTTCGAATTTAGGGTTTAAAT
20026063 TTTAGGGTTT
1 TTTAGGGTTT
20026073 AGGGTTTAGG
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
58 15 0.25
59 43 0.72
60 2 0.03
ACGTcount: A:0.22, C:0.03, G:0.29, T:0.46
Consensus pattern (58 bp):
TTTAGGGTTTTAGATTTAAGGTTTGAAAGACTTAGGGTTTCGAATTTAGGGTTTAAAT
Found at i:20026073 original size:7 final size:7
Alignment explanation
Indices: 20026049--20026089 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
20026039 GGGTTTCGAA
20026049 TTTAGGG
1 TTTAGGG
***
20026056 TTTAAAT
1 TTTAGGG
20026063 TTTAGGG
1 TTTAGGG
20026070 TTTAGGG
1 TTTAGGG
20026077 TTTAGGG
1 TTTAGGG
20026084 TTTAGG
1 TTTAGG
20026090 ATTTGGAGGA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:20026152 original size:28 final size:27
Alignment explanation
Indices: 20026111--20026191 Score: 74
Period size: 28 Copynumber: 2.9 Consensus size: 27
20026101 TTAATGTTTC
20026111 AATTTT-AGGATTTGAGGTTTGAGGATTT
1 AATTTTAAGG-TTTGAGGTTT-AGGATTT
* *
20026139 GATTTTAAGGTTTGAAGGTTTAGGGTTT
1 AATTTTAAGGTTTG-AGGTTTAGGATTT
* *
20026167 AATATTAGGGTTTGACGGGTTTAGG
1 AATTTTAAGGTTTGA--GGTTTAGG
20026192 GGCTCAATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
27 1 0.02
28 26 0.59
29 17 0.39
ACGTcount: A:0.23, C:0.01, G:0.32, T:0.43
Consensus pattern (27 bp):
AATTTTAAGGTTTGAGGTTTAGGATTT
Found at i:20026254 original size:29 final size:28
Alignment explanation
Indices: 20026068--20026254 Score: 110
Period size: 29 Copynumber: 6.4 Consensus size: 28
20026058 TAAATTTTAG
** *
20026068 GGTTTAGGGTTTAGGGTTTAGGATTTGGA
1 GGTTTAGGGTTTA-ATTTTAGGGTTTGGA
** *
20026097 GGATTTAATGTTTCAATTTTAGGATTT-GA
1 GG-TTTAGGGTTT-AATTTTAGGGTTTGGA
* * * *
20026126 GGTTTGAGGATTTGATTTTAAGGTTTGAA
1 GGTTT-AGGGTTTAATTTTAGGGTTTGGA
*
20026155 GGTTTAGGGTTTAATATTAGGGTTT-GA
1 GGTTTAGGGTTTAATTTTAGGGTTTGGA
* * * *
20026182 CGGGTTTAGGGGCTCAA-TTTCGAGGTTTAGA
1 --GGTTTA-GGGTTTAATTTTAG-GGTTTGGA
**
20026213 GGATTTAAAGTTTAATTTTAGGGTTTGGA
1 GG-TTTAGGGTTTAATTTTAGGGTTTGGA
20026242 GAGTTTAGGGTTT
1 G-GTTTAGGGTTT
20026255 CGTTTTGAAT
Statistics
Matches: 118, Mismatches: 28, Indels: 24
0.69 0.16 0.14
Matches are distributed among these distances:
27 1 0.01
28 29 0.25
29 47 0.40
30 38 0.32
31 3 0.03
ACGTcount: A:0.22, C:0.03, G:0.32, T:0.43
Consensus pattern (28 bp):
GGTTTAGGGTTTAATTTTAGGGTTTGGA
Found at i:20026614 original size:3 final size:3
Alignment explanation
Indices: 20026606--20026651 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
20026596 ATTCATTTGA
* * *
20026606 ATT ATT ATT ATT ATT ATC ACT ATT ATT GTT ATT ATT ATT AATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT
20026652 GTAAAACAAC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:20028772 original size:16 final size:16
Alignment explanation
Indices: 20028748--20028778 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20028738 ATGTTTAACT
*
20028748 ATTTTTATTTTTTATC
1 ATTTATATTTTTTATC
20028764 ATTTATATTTTTTAT
1 ATTTATATTTTTTAT
20028779 TTTAGGTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (16 bp):
ATTTATATTTTTTATC
Found at i:20029343 original size:4 final size:4
Alignment explanation
Indices: 20029336--20029384 Score: 64
Period size: 4 Copynumber: 12.2 Consensus size: 4
20029326 AAAACCTTAA
* *
20029336 AAAT AAAT AAAT ACAT AAAT AAAT AACT AAAT AAAAT AAAT AAA- AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT
20029384 A
1 A
20029385 TCAAAAAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
3 3 0.08
4 32 0.82
5 4 0.10
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:20030274 original size:2 final size:2
Alignment explanation
Indices: 20030267--20030297 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
20030257 GTCTATAATC
20030267 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
20030298 CACACAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:20036210 original size:10 final size:10
Alignment explanation
Indices: 20036195--20036224 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
20036185 ATCAAATTTT
20036195 TATATTTTAA
1 TATATTTTAA
20036205 TATATTTTAA
1 TATATTTTAA
20036215 T-TATTTTAA
1 TATATTTTAA
20036224 T
1 T
20036225 TAATAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:20036221 original size:9 final size:9
Alignment explanation
Indices: 20036197--20036226 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
20036187 CAAATTTTTA
20036197 TATTTTAAT
1 TATTTTAAT
20036206 ATATTTTAAT
1 -TATTTTAAT
20036216 TATTTTAAT
1 TATTTTAAT
20036225 TA
1 TA
20036227 ATAAATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TATTTTAAT
Found at i:20037569 original size:2 final size:2
Alignment explanation
Indices: 20037564--20037601 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
20037554 GACCTCATAA
* *
20037564 AT AT AT AT TT AA AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20037602 CATAGCTGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20037578 original size:12 final size:12
Alignment explanation
Indices: 20037560--20037598 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
20037550 AAAAGACCTC
20037560 ATAAATATATAT
1 ATAAATATATAT
*
20037572 TTAAATATATAT
1 ATAAATATATAT
*
20037584 ATATATATATAT
1 ATAAATATATAT
20037596 ATA
1 ATA
20037599 TATCATAGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
ATAAATATATAT
Found at i:20038964 original size:25 final size:24
Alignment explanation
Indices: 20038919--20038966 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
20038909 TATGTTCTTG
*
20038919 AATTAAGGTTCCTTTACCATGTCA
1 AATTAAGGTTCATTTACCATGTCA
20038943 AATTGAAGGTTCATTT-CTCATGTC
1 AATT-AAGGTTCATTTAC-CATGTC
20038967 CTTGTATGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.40
Consensus pattern (24 bp):
AATTAAGGTTCATTTACCATGTCA
Found at i:20051430 original size:4 final size:4
Alignment explanation
Indices: 20051421--20051466 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
20051411 GCAATAACAT
* * * *
20051421 ATAC ATAC ATAC ATAC ATAT GTAC ATAC ATAC ATAT ATAT ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
20051467 TTAAACTTAC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.02, T:0.33
Consensus pattern (4 bp):
ATAC
Found at i:20051447 original size:16 final size:16
Alignment explanation
Indices: 20051425--20051466 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
20051415 TAACATATAC
20051425 ATACATACATACATAT
1 ATACATACATACATAT
*
20051441 GTACATACATACATAT
1 ATACATACATACATAT
*
20051457 ATATATACAT
1 ATACATACAT
20051467 TTAAACTTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.48, C:0.17, G:0.02, T:0.33
Consensus pattern (16 bp):
ATACATACATACATAT
Found at i:20051813 original size:8 final size:8
Alignment explanation
Indices: 20051800--20051850 Score: 68
Period size: 8 Copynumber: 6.4 Consensus size: 8
20051790 ATTCTTTTAA
20051800 AATTTTTT
1 AATTTTTT
20051808 -ATTTTTT
1 AATTTTTT
*
20051815 ATTTTTTGT
1 AATTTTT-T
*
20051824 AACTTTTT
1 AATTTTTT
20051832 AATTTTTT
1 AATTTTTT
20051840 AATTTTTT
1 AATTTTTT
20051848 AAT
1 AAT
20051851 ATATGATCTC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
7 7 0.19
8 24 0.65
9 6 0.16
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (8 bp):
AATTTTTT
Found at i:20051817 original size:25 final size:24
Alignment explanation
Indices: 20051780--20051849 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 24
20051770 TCCATGAGAC
20051780 TTTT-TTTTTTATTCTTTTAAAATT
1 TTTTATTTTTTATT-TTTTAAAATT
* *
20051804 TTTTATTTTTTATTTTTTGTAACTT
1 TTTTATTTTTTATTTTTT-AAAATT
*
20051829 TTTAATTTTTTAATTTTTTAA
1 TTTTATTTTTT-ATTTTTTAA
20051850 TATATGATCT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
24 8 0.21
25 24 0.62
26 7 0.18
ACGTcount: A:0.21, C:0.03, G:0.01, T:0.74
Consensus pattern (24 bp):
TTTTATTTTTTATTTTTTAAAATT
Found at i:20051925 original size:15 final size:15
Alignment explanation
Indices: 20051901--20051931 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
20051891 TTTCCTTTCG
*
20051901 TTTTTGCTTTTTTTT
1 TTTTTACTTTTTTTT
20051916 TTTTTACTTTTTTTT
1 TTTTTACTTTTTTTT
20051931 T
1 T
20051932 CTAATATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.03, C:0.06, G:0.03, T:0.87
Consensus pattern (15 bp):
TTTTTACTTTTTTTT
Found at i:20052445 original size:17 final size:18
Alignment explanation
Indices: 20052402--20052448 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
20052392 CCATTTTTCC
* *
20052402 TTTTTAAATATTTATATT
1 TTTTTTAATATTTATAAT
20052420 TTCTTTTAATATTTA-AAT
1 TT-TTTTAATATTTATAAT
20052438 TTTTTTAATAT
1 TTTTTTAATAT
20052449 GAAATCCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 9 0.35
18 6 0.23
19 11 0.42
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTTTAATATTTATAAT
Found at i:20052759 original size:30 final size:31
Alignment explanation
Indices: 20052701--20052759 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
20052691 TAATTTGATC
* *
20052701 ATTTACAAAAAAAGAAATTAATAAATAAAGT
1 ATTTACAAAAAAAGAAATAAAGAAATAAAGT
* *
20052732 ATTTA-AAAAAAATAAATAAAGATATAAA
1 ATTTACAAAAAAAGAAATAAAGAAATAAA
20052760 TAACAAAACA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (31 bp):
ATTTACAAAAAAAGAAATAAAGAAATAAAGT
Found at i:20058742 original size:21 final size:21
Alignment explanation
Indices: 20058701--20058744 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
20058691 GGCTAAATAA
**
20058701 CAAAATAAAAGGCTTGTACAT
1 CAAAATAAAAGGCTTACACAT
20058722 CAAAATAAAATGGC-TACACAT
1 CAAAATAAAA-GGCTTACACAT
20058743 CA
1 CA
20058745 GTTTGTAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.50, C:0.18, G:0.11, T:0.20
Consensus pattern (21 bp):
CAAAATAAAAGGCTTACACAT
Found at i:20059058 original size:24 final size:24
Alignment explanation
Indices: 20059031--20059089 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
20059021 TTCTTCTACT
20059031 AACATTTTCAACATCTCTTTGTCC
1 AACATTTTCAACATCTCTTTGTCC
* * *
20059055 AACATTTTTAGCATCTTTTTGTCC
1 AACATTTTCAACATCTCTTTGTCC
*
20059079 AACACTTTCAA
1 AACATTTTCAA
20059090 TAGATTCAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.27, C:0.25, G:0.05, T:0.42
Consensus pattern (24 bp):
AACATTTTCAACATCTCTTTGTCC
Found at i:20060093 original size:28 final size:28
Alignment explanation
Indices: 20060044--20060097 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
20060034 AACTTAATAA
* *
20060044 ACTTGGCATATTAATAATATAAAAAAGT
1 ACTTGGCATATTAAAAAAATAAAAAAGT
20060072 ACTT-GCATATTAAAAAGAATAAAAAA
1 ACTTGGCATATTAAAAA-AATAAAAAA
20060098 TTTTGATACC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.56, C:0.07, G:0.09, T:0.28
Consensus pattern (28 bp):
ACTTGGCATATTAAAAAAATAAAAAAGT
Found at i:20060134 original size:15 final size:15
Alignment explanation
Indices: 20060114--20060143 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
20060104 TACCCATTTA
20060114 ATATATATTTAAAAT
1 ATATATATTTAAAAT
20060129 ATATATATTTAAAAT
1 ATATATATTTAAAAT
20060144 TTAATATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATATATATTTAAAAT
Found at i:20065148 original size:21 final size:20
Alignment explanation
Indices: 20065124--20065166 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
20065114 GACAAAAAGC
*
20065124 AAAAAAAGAGAAAGAAAGGAA
1 AAAAAAAGAGAAA-AAAAGAA
*
20065145 AAAAAATGAGAAAAAAAGAA
1 AAAAAAAGAGAAAAAAAGAA
20065165 AA
1 AA
20065167 CTTAAACTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (20 bp):
AAAAAAAGAGAAAAAAAGAA
Found at i:20067071 original size:121 final size:120
Alignment explanation
Indices: 20066768--20067100 Score: 312
Period size: 121 Copynumber: 2.8 Consensus size: 120
20066758 ATTTCTGACA
* * * * * *
20066768 CATGGTTTCATCTTCGTTGTCCAATCTCGGCTCAATCTAGATCATTTTCTTGACTCACG-TTTCA
1 CATGGTTTCATCCT-GTTGTCCAATCTCGGCTTAGTTTAAATCATTTTTTTGACTCACGATTTCA
* * * *
20066832 TCCTGATCATTCATTTTTTATCTCGACTCAGTCCTGGTCGCTTTATCTCTTAGACT
65 TCCTGATCATTCATCTTTAACCTCGACTCAGTCCTGGTAGCTTTATCTCTTAGACT
* ** ** * * * * * *
20066888 --TGCAGTTTTATCCTGATCATCTTATCTCGACTTAGTTCAAATAATTTTTCTGACTTATGATTT
1 CATG--GTTTCATCCTG-TTGTCCAATCTCGGCTTAGTTTAAATCATTTTTTTGACTCACGATTT
* * * *
20066951 CATCCTTATCATTCGTCTTTAACCTTGACTTAGTCCTGGTAGCTTTATCTCTTAGACT
63 CATCCTGATCATTCATCTTTAACCTCGACTCAGTCCTGGTAGCTTTATCTCTTAGACT
* * * **
20067009 CATGGTTTCATCCTAGTTGTCCAATCTTGGTTTAGTTTATATCATTTTTTTGACTCACGATTTTG
1 CATGGTTTCATCCT-GTTGTCCAATCTCGGCTTAGTTTAAATCATTTTTTTGACTCACGATTTCA
* *
20067074 TCCTGTTCATTCATCTTTGACCTCGAC
65 TCCTGATCATTCATCTTTAACCTCGAC
20067101 ATAGTTTTGG
Statistics
Matches: 160, Mismatches: 46, Indels: 13
0.73 0.21 0.06
Matches are distributed among these distances:
118 2 0.01
119 1 0.01
120 36 0.22
121 118 0.74
122 1 0.01
123 2 0.01
ACGTcount: A:0.19, C:0.23, G:0.13, T:0.45
Consensus pattern (120 bp):
CATGGTTTCATCCTGTTGTCCAATCTCGGCTTAGTTTAAATCATTTTTTTGACTCACGATTTCAT
CCTGATCATTCATCTTTAACCTCGACTCAGTCCTGGTAGCTTTATCTCTTAGACT
Found at i:20067211 original size:37 final size:37
Alignment explanation
Indices: 20067170--20067259 Score: 112
Period size: 37 Copynumber: 2.4 Consensus size: 37
20067160 TTCAATTCAA
20067170 ATCATCTTTTTT-ACTTTTCGATCT-TAGCTCAATCTAG
1 ATCAT-TTTTTTGACTTTTCGAT-TATAGCTCAATCTAG
* * *
20067207 ATCATTTTTTTGGCTTTTCGATTATAGCTTAGTCTAG
1 ATCATTTTTTTGACTTTTCGATTATAGCTCAATCTAG
*
20067244 ATCATTTTTCTGACTT
1 ATCATTTTTTTGACTT
20067260 GTAGTTTAGT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
36 7 0.15
37 39 0.85
ACGTcount: A:0.20, C:0.18, G:0.11, T:0.51
Consensus pattern (37 bp):
ATCATTTTTTTGACTTTTCGATTATAGCTCAATCTAG
Found at i:20067512 original size:3 final size:3
Alignment explanation
Indices: 20067506--20067541 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
20067496 ACCATCATGA
20067506 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
20067542 ATCTTTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:20068087 original size:11 final size:12
Alignment explanation
Indices: 20068030--20068094 Score: 54
Period size: 12 Copynumber: 5.9 Consensus size: 12
20068020 TAAAGAACAC
20068030 ATGAATTTTTCA
1 ATGAATTTTTCA
20068042 ATG-ATTTTTCA
1 ATGAATTTTTCA
**
20068053 AGTGAA-AGTT--
1 A-TGAATTTTTCA
20068063 -TGAATTTTTCA
1 ATGAATTTTTCA
20068074 ATGAATTTTT-A
1 ATGAATTTTTCA
20068085 ATG-ATTTTTC
1 ATGAATTTTTC
20068095 CAAAAATCAG
Statistics
Matches: 42, Mismatches: 4, Indels: 15
0.69 0.07 0.25
Matches are distributed among these distances:
8 4 0.10
9 2 0.05
10 6 0.14
11 13 0.31
12 16 0.38
13 1 0.02
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.51
Consensus pattern (12 bp):
ATGAATTTTTCA
Found at i:20068337 original size:15 final size:15
Alignment explanation
Indices: 20068317--20068387 Score: 58
Period size: 15 Copynumber: 4.7 Consensus size: 15
20068307 GCAGGTATCC
*
20068317 TTTTTTCATTTTCAT
1 TTTTTTTATTTTCAT
20068332 TTTTTTTA-TTTCAT
1 TTTTTTTATTTTCAT
* *
20068346 TATTTTAAGTTTT-AT
1 TTTTTTTA-TTTTCAT
20068361 TTTATTTTATTTTC-T
1 TTT-TTTTATTTTCAT
*
20068376 AATTTTTTATTT
1 -TTTTTTTATTT
20068388 ACTTGCATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
14 12 0.27
15 24 0.53
16 9 0.20
ACGTcount: A:0.18, C:0.06, G:0.01, T:0.75
Consensus pattern (15 bp):
TTTTTTTATTTTCAT
Found at i:20068381 original size:30 final size:30
Alignment explanation
Indices: 20068325--20068381 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
20068315 CCTTTTTTCA
*
20068325 TTTTCATTTTTTTTATTTCATTATTTTAAG
1 TTTTCATTTTTTTTATTTCATAATTTTAAG
20068355 TTTT-ATTTTATTTTATTTTC-TAATTTT
1 TTTTCATTTT-TTTTA-TTTCATAATTTT
20068382 TTATTTACTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 5 0.21
30 15 0.62
31 4 0.17
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (30 bp):
TTTTCATTTTTTTTATTTCATAATTTTAAG
Found at i:20068659 original size:13 final size:13
Alignment explanation
Indices: 20068641--20068666 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20068631 AGTTTTTTTC
20068641 AAAAAAAAATAAT
1 AAAAAAAAATAAT
20068654 AAAAAAAAATAAT
1 AAAAAAAAATAAT
20068667 TTTATCTTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAAAAAATAAT
Found at i:20069466 original size:22 final size:23
Alignment explanation
Indices: 20069438--20069491 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
20069428 TTTTTCCTTT
20069438 TTTTTTTTTAG-TTT-AAAGCACA
1 TTTTTTTTTAGTTTTCAAAGC-CA
* *
20069460 TTTTTTTTAAGTTTTCAAAGCCT
1 TTTTTTTTTAGTTTTCAAAGCCA
20069483 TTTTTTTTT
1 TTTTTTTTT
20069492 TTACTTTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.37
23 12 0.44
24 5 0.19
ACGTcount: A:0.20, C:0.09, G:0.07, T:0.63
Consensus pattern (23 bp):
TTTTTTTTTAGTTTTCAAAGCCA
Found at i:20069491 original size:24 final size:23
Alignment explanation
Indices: 20069436--20069491 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
20069426 CTTTTTTCCT
*
20069436 TTTTTTTTTTTAGTTTAAAGCAC
1 TTTTTTTTTTAAGTTTAAAGCAC
*
20069459 -ATTTTTTTTAAGTTTTCAAAGC-C
1 TTTTTTTTTTAAG-TTT-AAAGCAC
20069482 TTTTTTTTTT
1 TTTTTTTTTT
20069492 TTACTTTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
22 10 0.37
23 4 0.15
24 13 0.48
ACGTcount: A:0.20, C:0.09, G:0.07, T:0.64
Consensus pattern (23 bp):
TTTTTTTTTTAAGTTTAAAGCAC
Found at i:20074558 original size:12 final size:13
Alignment explanation
Indices: 20074541--20074572 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
20074531 CGTACATAGA
20074541 GAATGAATATC-T
1 GAATGAATATCAT
20074553 GAATGAA-ATCAT
1 GAATGAATATCAT
20074565 GAATGAAT
1 GAATGAAT
20074573 TAAGTAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.17
12 15 0.83
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (13 bp):
GAATGAATATCAT
Found at i:20082957 original size:2 final size:2
Alignment explanation
Indices: 20082950--20082982 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
20082940 GTAGTATTGT
20082950 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
20082983 CCTAAAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:20084387 original size:2 final size:2
Alignment explanation
Indices: 20084375--20084406 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
20084365 TGGATATTGC
*
20084375 AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20084407 GATTGTGAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20086592 original size:3 final size:3
Alignment explanation
Indices: 20086584--20086647 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
20086574 GATGGTGCTA
20086584 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
20086632 TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT T
20086648 TCCTTTCTCA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:20087519 original size:18 final size:18
Alignment explanation
Indices: 20087481--20087528 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
20087471 TATTTTTTAC
*
20087481 TTATTTTATATTTTGACTT
1 TTATTTT-TATTTTCACTT
*
20087500 TTATTTTTATTTTCAGTT
1 TTATTTTTATTTTCACTT
*
20087518 TT-TATTTATTT
1 TTATTTTTATTT
20087529 CATTTTACTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 8 0.31
18 11 0.42
19 7 0.27
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.73
Consensus pattern (18 bp):
TTATTTTTATTTTCACTT
Found at i:20088505 original size:15 final size:16
Alignment explanation
Indices: 20088485--20088514 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
20088475 ATTATTTTCT
20088485 TTTCTTTCC-TATTTA
1 TTTCTTTCCATATTTA
20088500 TTTCTTTCCATATTT
1 TTTCTTTCCATATTT
20088515 GCCTAGTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.13, C:0.20, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTCTTTCCATATTTA
Found at i:20099723 original size:3 final size:3
Alignment explanation
Indices: 20099708--20099816 Score: 96
Period size: 3 Copynumber: 36.0 Consensus size: 3
20099698 ATGGTACTAC
* * * * * *
20099708 ATT ATT GTT ATT ATT A-T AGTT A-T ATT ATC ATT ATC ATC ATC ATC
1 ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
20099752 ATC ATT ATT ATT ATT ATT ATT ATT ATTT ATT TTT ATT TTT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT
20099798 ATT ATTT ATT ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT
20099817 TTTTTTTTAT
Statistics
Matches: 91, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
2 4 0.04
3 79 0.87
4 8 0.09
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:20099793 original size:25 final size:25
Alignment explanation
Indices: 20099755--20099816 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 25
20099745 CATCATCATC
20099755 ATTATTATTATTATTATTATTATTT
1 ATTATTATTATTATTATTATTATTT
* *
20099780 ATTTTTATTTTTATTATTATTATTT
1 ATTATTATTATTATTATTATTATTT
20099805 ATTATTATTATT
1 ATTATTATTATT
20099817 TTTTTTTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (25 bp):
ATTATTATTATTATTATTATTATTT
Found at i:20099795 original size:28 final size:28
Alignment explanation
Indices: 20099755--20099827 Score: 100
Period size: 25 Copynumber: 2.8 Consensus size: 28
20099745 CATCATCATC
*
20099755 ATTATTATTATTATTATTATTATTTA-T
1 ATTATTATTTTTATTATTATTATTTATT
20099782 -TT-TTATTTTTATTATTATTATTTATT
1 ATTATTATTTTTATTATTATTATTTATT
*
20099808 ATTATTATTTTT-TTTTTATT
1 ATTATTATTTTTATTATTATT
20099828 TTTGTTCTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
25 21 0.51
26 3 0.07
27 9 0.22
28 8 0.20
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (28 bp):
ATTATTATTTTTATTATTATTATTTATT
Found at i:20099824 original size:6 final size:6
Alignment explanation
Indices: 20099759--20099830 Score: 65
Period size: 6 Copynumber: 11.3 Consensus size: 6
20099749 ATCATCATTA
* * *
20099759 TTATTA TTATTA TTATTAT TTATTT TTATTT TTATTATT ATTATTT ATTATTA
1 TTATTT TTATTT TTATT-T TTATTT TTATTT TTA-T-TT -TTATTT -TTATTT
20099812 TTATTT TT-TTT TTATTT TT
1 TTATTT TTATTT TTATTT TT
20099831 GTTCTTATGC
Statistics
Matches: 58, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
5 5 0.09
6 33 0.57
7 14 0.24
8 3 0.05
9 3 0.05
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (6 bp):
TTATTT
Found at i:20100637 original size:7 final size:6
Alignment explanation
Indices: 20100619--20100684 Score: 53
Period size: 6 Copynumber: 10.7 Consensus size: 6
20100609 CGAATCACAG
* * * *
20100619 ATTTTT CTTTTT CTATTTT AATTTT ATTTTT -TATTT ATTTTTT ATTTTT
1 ATTTTT ATTTTT AT-TTTT ATTTTT ATTTTT ATTTTT A-TTTTT ATTTTT
*
20100668 ATTTTCA ATTTTT ATTT
1 ATTTT-T ATTTTT ATTT
20100685 ATTTCGTTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
5 4 0.08
6 30 0.62
7 14 0.29
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (6 bp):
ATTTTT
Found at i:20100643 original size:13 final size:12
Alignment explanation
Indices: 20100627--20100684 Score: 50
Period size: 13 Copynumber: 4.8 Consensus size: 12
20100617 AGATTTTTCT
20100627 TTTTCTATTTTAA
1 TTTT-TATTTTAA
20100640 -TTTTATTTT--
1 TTTTTATTTTAA
*
20100649 TTATTTATTTTTTA
1 TT-TTTA-TTTTAA
20100663 TTTTTATTTTCAA
1 TTTTTATTTT-AA
20100676 TTTTTATTT
1 TTTTTATTT
20100685 ATTTCGTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
10 1 0.03
11 10 0.26
12 11 0.29
13 14 0.37
14 2 0.05
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTATTTTAA
Found at i:20100660 original size:30 final size:30
Alignment explanation
Indices: 20100626--20100688 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
20100616 CAGATTTTTC
*
20100626 TTTTTCTATTTTAATTTT-ATTTTTTATTTA
1 TTTTT-TATTTTAATTTTCAATTTTTATTTA
*
20100656 TTTTTTATTTTTATTTTCAATTTTTATTTA
1 TTTTTTATTTTAATTTTCAATTTTTATTTA
20100686 TTT
1 TTT
20100689 CGTTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 11 0.37
30 19 0.63
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (30 bp):
TTTTTTATTTTAATTTTCAATTTTTATTTA
Found at i:20102848 original size:19 final size:19
Alignment explanation
Indices: 20102812--20102851 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
20102802 GTTGGTGTTT
*
20102812 AAAAAATAGTAAATTAATA
1 AAAAAATAGTAAAATAATA
20102831 AAAAAATA-TAAAAATAATA
1 AAAAAATAGT-AAAATAATA
20102850 AA
1 AA
20102852 TAATAAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 1 0.05
19 18 0.95
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (19 bp):
AAAAAATAGTAAAATAATA
Done.