Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007105.1 Hibiscus syriacus cultivar Beakdansim tig00018568_pilon, 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: 286207
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 1 of 2
Found at i:1246 original size:93 final size:91
Alignment explanation
Indices: 1134--1328 Score: 336
Period size: 93 Copynumber: 2.1 Consensus size: 91
1124 ATAAGATTCG
*
1134 CCCATATAGTAACCAGAAATTAGACTAGTCCAAGATGGATTTGGCAATTTTAGACACAAAACAAA
1 CCCATATAGTAACCAGAAATTAGACTAGTCCAAGATGGATCTGGCAATTTTAGACACAAAACAAA
*
1199 TAGAACACGAATATACCAACATAATTAC
66 TACAACACG-A-ATACCAACATAATTAC
1227 CCCATATAGTAACCAGAAATTAGACTAGTCCAAGATGGATCTGGCAATTTTAGACACAAAACAAA
1 CCCATATAGTAACCAGAAATTAGACTAGTCCAAGATGGATCTGGCAATTTTAGACACAAAACAAA
*
1292 TACAACACGAATACCAACATAATTTC
66 TACAACACGAATACCAACATAATTAC
1318 CACCATATAGT
1 C-CCATATAGT
1329 TTCTTAATGC
Statistics
Matches: 98, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
91 16 0.16
92 10 0.10
93 72 0.73
ACGTcount: A:0.44, C:0.21, G:0.12, T:0.23
Consensus pattern (91 bp):
CCCATATAGTAACCAGAAATTAGACTAGTCCAAGATGGATCTGGCAATTTTAGACACAAAACAAA
TACAACACGAATACCAACATAATTAC
Found at i:4283 original size:18 final size:17
Alignment explanation
Indices: 4253--4289 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
4243 TTTGATCTTG
4253 AATAATATTTATTAAAT
1 AATAATATTTATTAAAT
*
4270 AATAATATTTTATTTAAT
1 AATAATA-TTTATTAAAT
4288 AA
1 AA
4290 AAAATAGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AATAATATTTATTAAAT
Found at i:7865 original size:14 final size:14
Alignment explanation
Indices: 7846--7886 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
7836 GTCTGGGAAT
7846 TAATCCCTGCATAA
1 TAATCCCTGCATAA
*
7860 TAATCCCTGCAAAA
1 TAATCCCTGCATAA
* *
7874 GAATCTCTGCATA
1 TAATCCCTGCATA
7887 TAAACAGAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.37, C:0.27, G:0.10, T:0.27
Consensus pattern (14 bp):
TAATCCCTGCATAA
Found at i:13197 original size:12 final size:12
Alignment explanation
Indices: 13155--13197 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 12
13145 AATAAACTAT
13155 TTATAATTAATA
1 TTATAATTAATA
13167 TTAAAATAATTATATA
1 TT---ATAATTA-ATA
13183 TTATAATTAATA
1 TTATAATTAATA
13195 TTA
1 TTA
13198 ATATAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 8 0.30
13 7 0.26
15 7 0.26
16 5 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
TTATAATTAATA
Found at i:13225 original size:31 final size:28
Alignment explanation
Indices: 13155--13233 Score: 88
Period size: 28 Copynumber: 2.7 Consensus size: 28
13145 AATAAACTAT
* *
13155 TTATAATTAATATTAAAATAATTATATA
1 TTATAATTAATATTAATATAATAATATA
13183 TTATAATTAATATTAATATAA-AATATA
1 TTATAATTAATATTAATATAATAATATA
*
13210 GTCTATAAAATTAATATTACTATA
1 -T-TAT--AATTAATATTAATATA
13234 GGCTATATGT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
27 5 0.11
28 21 0.48
29 3 0.07
31 15 0.34
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (28 bp):
TTATAATTAATATTAATATAATAATATA
Found at i:13261 original size:21 final size:21
Alignment explanation
Indices: 13236--13297 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 21
13226 TTACTATAGG
13236 CTATATGTTATAAATTATATA
1 CTATATGTTATAAATTATATA
* *
13257 GTATA-GTTTATAAACTATATA
1 CTATATG-TTATAAATTATATA
13278 CTATAT-TAATATAAATTATA
1 CTATATGT--TATAAATTATA
13298 GTTAAAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
20 2 0.06
21 21 0.64
22 10 0.30
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (21 bp):
CTATATGTTATAAATTATATA
Found at i:13284 original size:88 final size:89
Alignment explanation
Indices: 13192--13367 Score: 214
Period size: 88 Copynumber: 2.0 Consensus size: 89
13182 ATTATAATTA
* * * ** *
13192 ATATTAATATAAAATATAGTCTATAA-AATTAATATTACTATAGGCTATAT-GT-TATAAATTAT
1 ATATTAATATAAAATATAGT-TAAAATAATTAACATTAATATAAACTATATAGTACATAAA-TAT
* *
13254 ATAGTATAGTTTATAAACTATATACT
64 AAACTATAGTTTATAAACTATATACT
* *
13280 ATATTAATATAAATTATAGTTAAAATAATTAACATTAATATAAACTATATAGTACATTAATATAA
1 ATATTAATATAAAATATAGTTAAAATAATTAACATTAATATAAACTATATAGTACATAAATATAA
*
13345 ACTATAGTTTATAAATTATATAC
66 ACTATAGTTTATAAACTATATAC
13368 AATAGGTTAT
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
87 4 0.05
88 39 0.53
89 27 0.36
90 4 0.05
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.41
Consensus pattern (89 bp):
ATATTAATATAAAATATAGTTAAAATAATTAACATTAATATAAACTATATAGTACATAAATATAA
ACTATAGTTTATAAACTATATACT
Found at i:13297 original size:15 final size:15
Alignment explanation
Indices: 13279--13329 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
13269 AACTATATAC
13279 TATATTAATATAAAT
1 TATATTAATATAAAT
*
13294 TATAGTTAAAAT-AAT
1 TATA-TTAATATAAAT
* *
13309 TAACATTAATATAAAC
1 T-ATATTAATATAAAT
13325 TATAT
1 TATAT
13330 AGTACATTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
15 17 0.61
16 11 0.39
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (15 bp):
TATATTAATATAAAT
Found at i:13352 original size:20 final size:21
Alignment explanation
Indices: 13311--13410 Score: 71
Period size: 22 Copynumber: 4.7 Consensus size: 21
13301 AAAATAATTA
13311 ACATTAATATAAACTATATAGT
1 ACATTAATATAAAC-ATATAGT
13333 ACATTAATATAAAC-TATAGT
1 ACATTAATATAAACATATAGT
** * *
13353 TTATAAATTATATACA-ATAGGT
1 ACATTAA-TATAAACATATA-GT
* *
13375 -TATAAAGTATAAACTATATAGT
1 ACATTAA-TATAAAC-ATATAGT
*
13397 ACACTAATATAAAC
1 ACATTAATATAAAC
13411 TATTGCTTAT
Statistics
Matches: 63, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
20 10 0.16
21 21 0.33
22 26 0.41
23 6 0.10
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.35
Consensus pattern (21 bp):
ACATTAATATAAACATATAGT
Found at i:13462 original size:20 final size:22
Alignment explanation
Indices: 13439--13496 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 22
13429 GGTTACATAT
13439 ATAGTTTATATA-ACATATA-A
1 ATAGTTTATATATACATATACA
*
13459 ATAGATTGTATATATACATATACT
1 ATAG-TT-TATATATACATATACA
*
13483 ATAGGTTATATATA
1 ATAGTTTATATATA
13497 TAGTTTATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 4 0.12
21 2 0.06
22 14 0.44
23 8 0.25
24 4 0.12
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (22 bp):
ATAGTTTATATATACATATACA
Found at i:13474 original size:24 final size:25
Alignment explanation
Indices: 13445--13498 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
13435 ATATATAGTT
*
13445 TATATAACATATA-AATAGATTGTA
1 TATATAACATATACAATAGATTATA
* *
13469 TATAT-ACATATACTATAGGTTATA
1 TATATAACATATACAATAGATTATA
13493 TATATA
1 TATATA
13499 GTTTATATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 7 0.28
24 18 0.72
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.41
Consensus pattern (25 bp):
TATATAACATATACAATAGATTATA
Found at i:13484 original size:57 final size:55
Alignment explanation
Indices: 13423--13553 Score: 174
Period size: 57 Copynumber: 2.3 Consensus size: 55
13413 TTGCTTATAA
*
13423 ACTATAGGTTACATATATAGTTTATATA-ACATATAAATAGATTGTATATATACATAT
1 ACTATAGGTTACATATATAGTTTATATATAC-TATAAATAG-TT-TATACATACATAT
* * * *
13480 ACTATAGGTTATATATATAGTTTATATATACTTTACATAGTTTGTACATACATAT
1 ACTATAGGTTACATATATAGTTTATATATACTATAAATAGTTTATACATACATAT
*
13535 ACTATAAGTTACATATATA
1 ACTATAGGTTACATATATA
13554 TAGTTTACAT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
55 28 0.42
56 2 0.03
57 34 0.52
58 2 0.03
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.42
Consensus pattern (55 bp):
ACTATAGGTTACATATATAGTTTATATATACTATAAATAGTTTATACATACATAT
Found at i:13498 original size:13 final size:13
Alignment explanation
Indices: 13476--13509 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
13466 GTATATATAC
13476 ATATACTATAGGTT
1 ATATA-TATAGGTT
*
13490 ATATATATAGTTT
1 ATATATATAGGTT
13503 ATATATA
1 ATATATA
13510 CTTTACATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (13 bp):
ATATATATAGGTT
Found at i:13557 original size:37 final size:38
Alignment explanation
Indices: 13516--13591 Score: 91
Period size: 39 Copynumber: 2.0 Consensus size: 38
13506 TATACTTTAC
* *
13516 ATAGTTT-GTACATACATATACTATAAGTTACATATAT
1 ATAGTTTAATACATACATATACTATAAGTAACATATAT
** *
13553 ATAGTTTACATGTATACATATACTATAGGTAACATATAT
1 ATAGTTTA-ATACATACATATACTATAAGTAACATATAT
13592 TAACTATTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
37 7 0.22
39 25 0.78
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (38 bp):
ATAGTTTAATACATACATATACTATAAGTAACATATAT
Found at i:13641 original size:7 final size:7
Alignment explanation
Indices: 13629--13668 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
13619 GGTTTATAGA
13629 TTAGGGT
1 TTAGGGT
13636 TTAGGGT
1 TTAGGGT
* *
13643 TTAAGAT
1 TTAGGGT
*
13650 TTAAGGT
1 TTAGGGT
13657 TTAGGGT
1 TTAGGGT
13664 TTAGG
1 TTAGG
13669 ATCTTTATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (7 bp):
TTAGGGT
Found at i:13643 original size:21 final size:21
Alignment explanation
Indices: 13617--13666 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
13607 CATAATGTTC
*
13617 AGGGTTTATAGA-TTAGGGTTT
1 AGGGTTTA-AGATTTAAGGTTT
13638 AGGGTTTAAGATTTAAGGTTT
1 AGGGTTTAAGATTTAAGGTTT
13659 AGGGTTTA
1 AGGGTTTA
13667 GGATCTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 3 0.11
21 24 0.89
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (21 bp):
AGGGTTTAAGATTTAAGGTTT
Found at i:13845 original size:20 final size:20
Alignment explanation
Indices: 13791--13845 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
13781 GTTTATATAA
13791 ATAGTATA-AAATATAGCAT
1 ATAGTATATAAATATAGCAT
* *
13810 ATA-AATATAAACTATAGTAT
1 ATAGTATATAAA-TATAGCAT
*
13830 GTAGTATATAAATATA
1 ATAGTATATAAATATA
13846 AACTATAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
18 3 0.10
19 6 0.21
20 13 0.45
21 7 0.24
ACGTcount: A:0.53, C:0.04, G:0.09, T:0.35
Consensus pattern (20 bp):
ATAGTATATAAATATAGCAT
Found at i:13847 original size:33 final size:33
Alignment explanation
Indices: 13808--13871 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
13798 AAAATATAGC
*
13808 ATATAAA-TATAAACTATAGTATGTAGTATATAA
1 ATATAAACTATAAACTATA-TATATAGTATATAA
**
13841 ATATAAACTATAATTTATATATATAGTATAT
1 ATATAAACTATAAACTATATATATAGTATAT
13872 GCTATATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 18 0.67
34 9 0.33
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.41
Consensus pattern (33 bp):
ATATAAACTATAAACTATATATATAGTATATAA
Found at i:13871 original size:27 final size:27
Alignment explanation
Indices: 13795--13865 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 27
13785 ATATAAATAG
* *
13795 TATAAAATATAGCATATAAATATAAAC
1 TATAATATATAGTATATAAATATAAAC
* *
13822 TATAGTATGTAGTATATAAATATAAAC
1 TATAATATATAGTATATAAATATAAAC
*
13849 TATAATTTATA-TATATA
1 TATAATATATAGTATATA
13866 GTATATGCTA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
26 6 0.16
27 31 0.84
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.38
Consensus pattern (27 bp):
TATAATATATAGTATATAAATATAAAC
Found at i:13914 original size:24 final size:24
Alignment explanation
Indices: 13874--13936 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
13864 TAGTATATGC
* *
13874 TATATAAA-TAGTTTATATAGTTCA
1 TATATAAACTA-TATATATAGGTCA
13898 CTA-ATAAACTATATATATAGGTCA
1 -TATATAAACTATATATATAGGTCA
*
13922 TATGTAAACTATATA
1 TATATAAACTATATA
13937 GTTTACATAG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
23 2 0.06
24 27 0.82
25 4 0.12
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (24 bp):
TATATAAACTATATATATAGGTCA
Found at i:13945 original size:22 final size:22
Alignment explanation
Indices: 13920--13969 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
13910 ATATATAGGT
13920 CATA-TGTAAACTATATAGTTTA
1 CATAGTGTAAA-TATATAGTTTA
* *
13942 CATAGTTTATATATATAGTTTA
1 CATAGTGTAAATATATAGTTTA
*
13964 TATAGT
1 CATAGT
13970 TTATACATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.46
Consensus pattern (22 bp):
CATAGTGTAAATATATAGTTTA
Found at i:13961 original size:13 final size:13
Alignment explanation
Indices: 13943--13967 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13933 TATAGTTTAC
13943 ATAGTTTATATAT
1 ATAGTTTATATAT
13956 ATAGTTTATATA
1 ATAGTTTATATA
13968 GTTTATACAT
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:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (13 bp):
ATAGTTTATATAT
Found at i:13965 original size:9 final size:9
Alignment explanation
Indices: 13953--14023 Score: 57
Period size: 9 Copynumber: 8.7 Consensus size: 9
13943 ATAGTTTATA
13953 TATATAGTT
1 TATATAGTT
13962 TATATAGTT
1 TATATAGTT
* *
13971 TATACA-TG
1 TATATAGTT
13979 TATATA---
1 TATATAGTT
*
13985 TATATAGTA
1 TATATAGTT
13994 TATATAG-T
1 TATATAGTT
14002 T-T-TAGTT
1 TATATAGTT
*
14009 TATATTGTT
1 TATATAGTT
14018 TATATA
1 TATATA
14024 TAGTTTAAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
6 9 0.18
7 3 0.06
8 8 0.16
9 30 0.60
ACGTcount: A:0.35, C:0.01, G:0.10, T:0.54
Consensus pattern (9 bp):
TATATAGTT
Found at i:13990 original size:32 final size:32
Alignment explanation
Indices: 13931--14005 Score: 109
Period size: 32 Copynumber: 2.4 Consensus size: 32
13921 ATATGTAAAC
* *
13931 TATATAG-TTTACATAGTTTATATATATAGTT
1 TATATAGTTTTACATAGTATATATATATAGTA
13962 TATATAGTTTATACAT-GTATATATATATAGTA
1 TATATAGTTT-TACATAGTATATATATATAGTA
13994 TATATAGTTTTA
1 TATATAGTTTTA
14006 GTTTATATTG
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
31 9 0.22
32 26 0.65
33 5 0.12
ACGTcount: A:0.37, C:0.03, G:0.09, T:0.51
Consensus pattern (32 bp):
TATATAGTTTTACATAGTATATATATATAGTA
Found at i:14149 original size:22 final size:23
Alignment explanation
Indices: 14110--14285 Score: 80
Period size: 24 Copynumber: 7.6 Consensus size: 23
14100 ACCTTAAACC
*
14110 ATATATATATATATATAAACTAT
1 ATATTTATATATATATAAACTAT
14133 ATAGTTTATAT-TA-ATAAACTAT
1 ATA-TTTATATATATATAAACTAT
* * *
14155 ATATTTATACA-ATATATA-TTT
1 ATATTTATATATATATAAACTAT
* *
14176 ATAACTATACATAATATATAAA-TAT
1 AT-A-TTTATAT-ATATATAAACTAT
* * * *
14201 AAATTGTATAGTTTATATATA-TTT
1 ATATT-TATA-TATATATAAACTAT
* *
14225 CATATATAATCTATATATAAACTAT
1 -ATAT-TTATATATATATAAACTAT
14250 ATAATTTATAT-TA-ATAAACTAT
1 AT-ATTTATATATATATAAACTAT
* *
14272 GTAGTTTCTATATA
1 ATA-TTTATATATA
14286 GTTCATATAT
Statistics
Matches: 113, Mismatches: 25, Indels: 30
0.67 0.15 0.18
Matches are distributed among these distances:
21 12 0.11
22 33 0.29
23 14 0.12
24 34 0.30
25 19 0.17
26 1 0.01
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (23 bp):
ATATTTATATATATATAAACTAT
Found at i:14159 original size:15 final size:15
Alignment explanation
Indices: 14139--14184 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
14129 CTATATAGTT
*
14139 TATATTAATAAACTA
1 TATATTTATAAACTA
14154 TATATTTATACAA-TA
1 TATATTTATA-AACTA
14169 TATATTTAT-AACTA
1 TATATTTATAAACTA
14183 TA
1 TA
14185 CATAATATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 2 0.07
14 4 0.14
15 20 0.71
16 2 0.07
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.46
Consensus pattern (15 bp):
TATATTTATAAACTA
Found at i:14250 original size:20 final size:22
Alignment explanation
Indices: 14227--14271 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
14217 ATATATTTCA
14227 TATATAATCTATA-T-ATAAAC
1 TATATAATCTATATTAATAAAC
*
14247 TATATAATTTATATTAATAAAC
1 TATATAATCTATATTAATAAAC
14269 TAT
1 TAT
14272 GTAGTTTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.55
21 1 0.05
22 9 0.41
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (22 bp):
TATATAATCTATATTAATAAAC
Found at i:14333 original size:2 final size:2
Alignment explanation
Indices: 14326--14399 Score: 105
Period size: 2 Copynumber: 36.5 Consensus size: 2
14316 TTTTACATGG
* *
14326 TA TA TA TA GTT TA TA AA TA GTA TA TA TA T- TA TA TA TA TA TA TA
1 TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
14369 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 T
14400 TTGTTTCAAT
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
1 1 0.02
2 61 0.94
3 3 0.05
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14335 original size:20 final size:20
Alignment explanation
Indices: 14303--14390 Score: 78
Period size: 20 Copynumber: 4.6 Consensus size: 20
14293 TATAAACTAT
* *
14303 ATAGTAT-TATAGTTTTTAC
1 ATAGTATATATAGTTTATAA
*
14322 ATGGTATATATAGTTTATAA
1 ATAGTATATATAGTTTATAA
*
14342 ATAGTATATATA-TTATATAT
1 ATAGTATATATAGTT-TATAA
* *
14362 ATA-TATATATA-TATATAT
1 ATAGTATATATAGTTTATAA
14380 ATA-TATATATA
1 ATAGTATATATA
14391 TATATATATT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
18 16 0.26
19 17 0.28
20 28 0.46
ACGTcount: A:0.43, C:0.01, G:0.07, T:0.49
Consensus pattern (20 bp):
ATAGTATATATAGTTTATAA
Found at i:14843 original size:216 final size:214
Alignment explanation
Indices: 14486--15205 Score: 1161
Period size: 216 Copynumber: 3.3 Consensus size: 214
14476 TTGATCCCTT
* *
14486 TGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTGTTCTATTTAGTCCTTAAAA
1 TGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTGTTCAATTTAGTCCTTCAAA
*
14551 TTATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTCTATTTTTTAATTGGCTCATAAC
66 TTATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATATTTTTTAATTGGC-CATAAC
*
14616 TTTTAAAATGGGTATAATTTAGTACTTTGTTGTATTAATTTAAACCTCACAATTTAAAATTATTT
130 TTTTTAAATGGGTATAATTTAGTACTTT-TTGTATTAATTTAAACCTCACAATTTAAAATTATTT
*
14681 CGATTTGATCCCTCATCAATT
194 CGATTTGATCCCTCATCAATG
* *
14702 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTTAATTTAGTCCTTCAAA
1 TGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTGTTCAATTTAGTCCTTCAAA
* **
14767 TTATATTTGCATATGAAATTGACTTATACTTATTACTTATTTATATTTTTTAATTGGTCCATAAC
66 TTATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATATTTTTTAATTGG-CCATAAC
*
14832 TTTTTAAATGGGTATAATTTAGTATTTTTTGTATTAATTTAAACCTCACAATTTAAAATTATTTC
130 TTTTTAAATGGGTATAATTTAGTACTTTTTGTATTAATTTAAACCTCACAATTTAAAATTATTTC
*
14897 GATTTGATCCATCATCAATG
195 GATTTGATCCCTCATCAATG
* * * *
14917 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGATCAATTTAGTCGTCCAAA
1 TGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTGTTCAATTTAGTCCTTCAAA
* * *
14982 TTATGTTTGCATCTGAAATTGACCCATACTGATTACTTATTTATATTTTTTTAATTGACCCATAA
66 TTATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATA-TTTTTTAATTG-GCCATAA
* * * *
15047 CTTTTTAAATGGGTATAATTTAGTACTTTTTGCATTAATTTCATCCACACAATTTAAAATTATTT
129 CTTTTTAAATGGGTATAATTTAGTACTTTTTGTATTAATTTAAACCTCACAATTTAAAATTATTT
15112 CGATTTGATCCCTCATCAATG
194 CGATTTGATCCCTCATCAATG
* *
15133 TGTGTTGTTTAATTTATTTAAATTTTAATTTTTAATTTCATATTTGTTCAATTTAGTCCTTCAAT
1 TGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTGTTCAATTTAGTCCTTCAAA
*
15198 TTGTATTT
66 TTATATTT
15206 TTCATAAAAT
Statistics
Matches: 465, Mismatches: 36, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
215 156 0.34
216 308 0.66
217 1 0.00
ACGTcount: A:0.29, C:0.11, G:0.09, T:0.51
Consensus pattern (214 bp):
TGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTGTTCAATTTAGTCCTTCAAA
TTATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATATTTTTTAATTGGCCATAACT
TTTTAAATGGGTATAATTTAGTACTTTTTGTATTAATTTAAACCTCACAATTTAAAATTATTTCG
ATTTGATCCCTCATCAATG
Found at i:23577 original size:22 final size:22
Alignment explanation
Indices: 23547--23631 Score: 77
Period size: 23 Copynumber: 3.9 Consensus size: 22
23537 TAATTATAGG
23547 GAAGAGGGAATCGATACCCCCTT
1 GAAG-GGGAATCGATACCCCCTT
* *
23570 GAAGGGGAACCGATTCCCCCTTT
1 GAAGGGGAATCGATACCCCC-TT
* * *
23593 GAATGGGAA-CAGATTCCCCCCT
1 GAAGGGGAATC-GATACCCCCTT
23615 G--GGGGAATCGATACCCC
1 GAAGGGGAATCGATACCCC
23632 TATGGGGTTC
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
20 12 0.23
21 1 0.02
22 17 0.32
23 23 0.43
ACGTcount: A:0.26, C:0.29, G:0.27, T:0.18
Consensus pattern (22 bp):
GAAGGGGAATCGATACCCCCTT
Found at i:35179 original size:28 final size:28
Alignment explanation
Indices: 35132--35347 Score: 216
Period size: 29 Copynumber: 7.6 Consensus size: 28
35122 ATCAACCATT
35132 TTACGAAAATAACACCCTTTTAAAAATAA
1 TTACGAAAATAACA-CCTTTTAAAAATAA
* *
35161 TTACAAAAATAACACCTTTTAGAAATAA
1 TTACGAAAATAACACCTTTTAAAAATAA
* * **
35189 TTACTAAAGTAGTACCTTTTAAAAATAA
1 TTACGAAAATAACACCTTTTAAAAATAA
* *
35217 TTACGAAAATAGCATCCTTTTAGAAATAA
1 TTACGAAAATAACA-CCTTTTAAAAATAA
* * **
35246 TTACTAAAATAGCACAATTTAAAAATAA
1 TTACGAAAATAACACCTTTTAAAAATAA
* *
35274 TTACGAAAATAACACCTTTTTCAAGATAA
1 TTACGAAAATAACACC-TTTTAAAAATAA
* * * *
35303 TTACCAGAATACCACCATTTTCAAAATAA
1 TTACGAAAATAACACC-TTTTAAAAATAA
* *
35332 TTACCAAAATACCACC
1 TTACGAAAATAACACC
35348 GGGTCAACGT
Statistics
Matches: 158, Mismatches: 27, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
28 71 0.45
29 87 0.55
ACGTcount: A:0.49, C:0.17, G:0.05, T:0.29
Consensus pattern (28 bp):
TTACGAAAATAACACCTTTTAAAAATAA
Found at i:35267 original size:57 final size:56
Alignment explanation
Indices: 35149--35347 Score: 245
Period size: 57 Copynumber: 3.5 Consensus size: 56
35139 AATAACACCC
* * * *
35149 TTTTAAAAATAATTACAAAAATAACACCTTTTAGAAATAATTACTAAAGTAGTACC
1 TTTTAAAAATAATTACGAAAATAACACCTTTTAGAAATAATTACTAAAATAGCACA
*
35205 TTTTAAAAATAATTACGAAAATAGCATCCTTTTAGAAATAATTACTAAAATAGCACA
1 TTTTAAAAATAATTACGAAAATAACA-CCTTTTAGAAATAATTACTAAAATAGCACA
* ** * * *
35262 ATTTAAAAATAATTACGAAAATAACACCTTTTTCAAGATAATTACCAGAATACCACCA
1 TTTTAAAAATAATTACGAAAATAACACCTTTTAGAA-ATAATTACTAAAATAGCA-CA
* * *
35320 TTTTCAAAATAATTACCAAAATACCACC
1 TTTTAAAAATAATTACGAAAATAACACC
35348 GGGTCAACGT
Statistics
Matches: 124, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
56 32 0.26
57 66 0.53
58 26 0.21
ACGTcount: A:0.49, C:0.16, G:0.05, T:0.30
Consensus pattern (56 bp):
TTTTAAAAATAATTACGAAAATAACACCTTTTAGAAATAATTACTAAAATAGCACA
Found at i:35403 original size:18 final size:17
Alignment explanation
Indices: 35361--35409 Score: 71
Period size: 18 Copynumber: 2.8 Consensus size: 17
35351 TCAACGTTCA
*
35361 TCGGGTCGGGTTAACGG
1 TCGGGTCGGGTCAACGG
*
35378 TCGAGTCGGGTCAACGGG
1 TCGGGTCGGGTCAAC-GG
35396 TCGGGTCGGGTCAA
1 TCGGGTCGGGTCAA
35410 AACCAGGCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 13 0.46
18 15 0.54
ACGTcount: A:0.14, C:0.20, G:0.45, T:0.20
Consensus pattern (17 bp):
TCGGGTCGGGTCAACGG
Found at i:41613 original size:24 final size:24
Alignment explanation
Indices: 41586--41637 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
41576 AGTAGATCAG
* *
41586 AATCCATGTCATGTATCATATAAA
1 AATCCAGGTCAAGTATCATATAAA
*
41610 AATCCAGGTCAAGTATCATATCAA
1 AATCCAGGTCAAGTATCATATAAA
41634 AATC
1 AATC
41638 TCGTCAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (24 bp):
AATCCAGGTCAAGTATCATATAAA
Found at i:42255 original size:29 final size:29
Alignment explanation
Indices: 42222--42386 Score: 188
Period size: 29 Copynumber: 5.7 Consensus size: 29
42212 ACGGTCGTTT
*
42222 AATAATTACGAAAATAGCACCATTTTAAA
1 AATAATTACCAAAATAGCACCATTTTAAA
* *
42251 AATAATTACGAAAATAGCACCCTTTTAAA
1 AATAATTACCAAAATAGCACCATTTTAAA
**
42280 AATAATTAATAAAATAGCACC-TTTTAAA
1 AATAATTACCAAAATAGCACCATTTTAAA
* * * *
42308 AATAATTACAAAAATAACACCCTTTTGAA
1 AATAATTACCAAAATAGCACCATTTTAAA
* ** * *
42337 GATAATTACCTGAATACCACCATTTTCAA
1 AATAATTACCAAAATAGCACCATTTTAAA
*
42366 AATAATTACCAAAATACCACC
1 AATAATTACCAAAATAGCACC
42387 CGGTCAACAG
Statistics
Matches: 118, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
28 25 0.21
29 93 0.79
ACGTcount: A:0.49, C:0.18, G:0.05, T:0.28
Consensus pattern (29 bp):
AATAATTACCAAAATAGCACCATTTTAAA
Found at i:42313 original size:57 final size:58
Alignment explanation
Indices: 42222--42387 Score: 210
Period size: 57 Copynumber: 2.9 Consensus size: 58
42212 ACGGTCGTTT
* * *
42222 AATAATTACGAAAATAGCACCATTTTAAAAATAATTACGAAAATAGCACCCTTTTAAA
1 AATAATTACTAAAATAGCACCATTTTAAAAATAATTACAAAAATAACACCCTTTTAAA
* *
42280 AATAATTAATAAAATAGCACC-TTTTAAAAATAATTACAAAAATAACACCCTTTTGAA
1 AATAATTACTAAAATAGCACCATTTTAAAAATAATTACAAAAATAACACCCTTTTAAA
* * * * * *
42337 GATAATTACCT-GAATACCACCATTTTCAAAATAATTACCAAAATACCACCC
1 AATAATTA-CTAAAATAGCACCATTTTAAAAATAATTACAAAAATAACACCC
42388 GGTCAACAGT
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
57 48 0.51
58 46 0.49
ACGTcount: A:0.49, C:0.19, G:0.05, T:0.28
Consensus pattern (58 bp):
AATAATTACTAAAATAGCACCATTTTAAAAATAATTACAAAAATAACACCCTTTTAAA
Found at i:42380 original size:86 final size:86
Alignment explanation
Indices: 42222--42386 Score: 204
Period size: 86 Copynumber: 1.9 Consensus size: 86
42212 ACGGTCGTTT
* * * * *
42222 AATAATTACGAAAATAGCACCATTTTAAAAATAATTACGAAAATAGCACCCTTTTAAAAATAATT
1 AATAATTACAAAAATAACACCATTTTAAAAATAATTACCAAAATACCACCATTTTAAAAATAATT
* *
42287 AATAAAATAGCACCTTTTAAA
66 AACAAAATACCACCTTTTAAA
* * * ** *
42308 AATAATTACAAAAATAACACCCTTTTGAAGATAATTACCTGAATACCACCATTTTCAAAATAATT
1 AATAATTACAAAAATAACACCATTTTAAAAATAATTACCAAAATACCACCATTTTAAAAATAATT
*
42373 ACCAAAATACCACC
66 AACAAAATACCACC
42387 CGGTCAACAG
Statistics
Matches: 65, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
86 65 1.00
ACGTcount: A:0.49, C:0.18, G:0.05, T:0.28
Consensus pattern (86 bp):
AATAATTACAAAAATAACACCATTTTAAAAATAATTACCAAAATACCACCATTTTAAAAATAATT
AACAAAATACCACCTTTTAAA
Found at i:42420 original size:13 final size:15
Alignment explanation
Indices: 42387--42422 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
42377 AAATACCACC
42387 CGGTCAAC-AGTCAA
1 CGGTCAACGAGTCAA
42401 CGGTCAACGAGTC-A
1 CGGTCAACGAGTCAA
42415 -GGTCAACG
1 CGGTCAACG
42423 GTCGGTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.38
14 9 0.43
15 4 0.19
ACGTcount: A:0.31, C:0.28, G:0.28, T:0.14
Consensus pattern (15 bp):
CGGTCAACGAGTCAA
Found at i:42454 original size:18 final size:17
Alignment explanation
Indices: 42411--42455 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
42401 CGGTCAACGA
42411 GTCAGGTCAACGGTCGG
1 GTCAGGTCAACGGTCGG
* *
42428 TTCAAGTCAACGGGTCGG
1 GTCAGGTCAAC-GGTCGG
*
42446 GTCGGGTCAA
1 GTCAGGTCAA
42456 AACCGGTCAA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.20, C:0.22, G:0.38, T:0.20
Consensus pattern (17 bp):
GTCAGGTCAACGGTCGG
Found at i:45223 original size:163 final size:167
Alignment explanation
Indices: 44946--45275 Score: 632
Period size: 163 Copynumber: 2.0 Consensus size: 167
44936 AGTTCATGCA
44946 CGCTCCAAGGGAGAAACATATGGAAGCTGCATACAAGATATTAAGGTATCTCAAGGGGGCTCCGG
1 CGCTCCAAGGGAGAAACATATGGAAGCTGCATACAAGATATTAAGGTATCTCAAGGGGGCTCCGG
45011 GTAAAGGCCTGCAATTCAAGAAAACTGCCAACCGAAGTGTAGAAGTATACACTAATGCAGACTAG
66 GTAAAGGCCTGCAATTCAAGAAAACTGCCAACCGAAGTGTAGAAGTATACACTAATGCAGACTAG
45076 ACAGGTGTTGTTAAC-A-AGA-GTTCTACAAGTGGTT
131 ACAGGTGTTGTTAACAACAGACGTTCTACAAGTGGTT
45110 CGCTCC-AGGGAGAAACATATGGAAGCTGCATACAAGATATTAAGGTATCTCAAGGGGGCTCCGG
1 CGCTCCAAGGGAGAAACATATGGAAGCTGCATACAAGATATTAAGGTATCTCAAGGGGGCTCCGG
45174 GTAAAGGCCTGCAATTCAAGAAAACTGCCAACCGAAGTGTAGAAGTATACACTAATGCAGACTAG
66 GTAAAGGCCTGCAATTCAAGAAAACTGCCAACCGAAGTGTAGAAGTATACACTAATGCAGACTAG
45239 ACAGGTGTTGTTAACAACAGACGTTCTACAAGTGGTT
131 ACAGGTGTTGTTAACAACAGACGTTCTACAAGTGGTT
45276 ACTATAGCTA
Statistics
Matches: 163, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
163 138 0.85
164 7 0.04
165 3 0.02
166 15 0.09
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (167 bp):
CGCTCCAAGGGAGAAACATATGGAAGCTGCATACAAGATATTAAGGTATCTCAAGGGGGCTCCGG
GTAAAGGCCTGCAATTCAAGAAAACTGCCAACCGAAGTGTAGAAGTATACACTAATGCAGACTAG
ACAGGTGTTGTTAACAACAGACGTTCTACAAGTGGTT
Found at i:49551 original size:23 final size:23
Alignment explanation
Indices: 49518--49561 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
49508 AAAAAATGTT
* * *
49518 AATATTTTTTAATATTTTAATAG
1 AATATTATTTAAAATATTAATAG
49541 AATATTATTTAAAATATTAAT
1 AATATTATTTAAAATATTAAT
49562 TTTTTATTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
AATATTATTTAAAATATTAATAG
Found at i:51825 original size:25 final size:25
Alignment explanation
Indices: 51779--51850 Score: 103
Period size: 25 Copynumber: 3.0 Consensus size: 25
51769 TTTTACTCAT
*
51779 AAGATTAAA-T-TAAATATAATTAA
1 AAGATTAAATTATAAAAATAATTAA
*
51802 AAGATTAAATTATAAAAATGATTAA
1 AAGATTAAATTATAAAAATAATTAA
*
51827 AAGATTAAATTATAAAAACAATTA
1 AAGATTAAATTATAAAAATAATTA
51851 TTTGTAATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
23 9 0.21
24 1 0.02
25 33 0.77
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.32
Consensus pattern (25 bp):
AAGATTAAATTATAAAAATAATTAA
Found at i:59750 original size:170 final size:171
Alignment explanation
Indices: 59467--59774 Score: 528
Period size: 170 Copynumber: 1.8 Consensus size: 171
59457 GCAACACAGT
*
59467 AGGCATTCACCGAAACTCCCCAAGAATATAAGCATATATTTGTTAGAATTCTATCGCACCAGGCC
1 AGGCATTCACCGAAACTCCCCAAGAATATAAGCAGATATTTGTTAGAATTCTATCGCACCAGGCC
* *
59532 AACCAAATAAAGAACTTCCATTTAGGGATAATTGGCAAACGTCAAATCCATGAGAAATCAACATA
66 AACCAAATAAAGAACTTCCATTTAGGGATAATCGACAAACGTCAAATCCATGAGAAATCAACATA
*
59597 TGACTCTCTCAGATTATTAACGGTGATGGCGAGATAAGCCG
131 CGACTCTCTCAGATTATTAACGGTGATGGCGAGATAAGCCG
* * *
59638 AGGCATTCACCGAAACTCCCCAAGAATATAAGCGGATATTT-TTAGAATTCTATCGCGCCAGGTC
1 AGGCATTCACCGAAACTCCCCAAGAATATAAGCAGATATTTGTTAGAATTCTATCGCACCAGGCC
* *
59702 TACCAAATAAAGAACTTCCATTTAGGGATAATCGACAAACGTCAAATCCATGAGAAATCAACATC
66 AACCAAATAAAGAACTTCCATTTAGGGATAATCGACAAACGTCAAATCCATGAGAAATCAACATA
59767 CGACTCTC
131 CGACTCTC
59775 GAACTCAGAT
Statistics
Matches: 128, Mismatches: 9, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
170 89 0.70
171 39 0.30
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.24
Consensus pattern (171 bp):
AGGCATTCACCGAAACTCCCCAAGAATATAAGCAGATATTTGTTAGAATTCTATCGCACCAGGCC
AACCAAATAAAGAACTTCCATTTAGGGATAATCGACAAACGTCAAATCCATGAGAAATCAACATA
CGACTCTCTCAGATTATTAACGGTGATGGCGAGATAAGCCG
Found at i:62938 original size:33 final size:33
Alignment explanation
Indices: 62902--63220 Score: 221
Period size: 34 Copynumber: 9.3 Consensus size: 33
62892 AATACATATA
*
62902 ATATATATATAATTTTGAAAACGGTTTTTGAAAAT
1 ATATATATATAATTTTGAAAAC-ATTTTTG-AAAT
*
62937 ATATATTATATAATTTTTGGAAAACTTTTTTGGAAACAT
1 ATATA-TATATAA-TTTT-GAAAACATTTTT-G-AA-AT
62976 ATATATAATATATGATTTTTGAAAACA-TTTT-AATAT
1 ATATAT-ATATA--A-TTTTGAAAACATTTTTGAA-AT
63012 ATATATATATATATTTTTGAAAACA-TTTTGAAA-
1 ATATATATATA-A-TTTTGAAAACATTTTTGAAAT
* *
63045 ATATATTATATAGTTTTGAAATCATTTTT-AAAT
1 ATATA-TATATAATTTTGAAAACATTTTTGAAAT
** *
63078 ATA-ATATAT-ATTTAAAAAAACATTTTTGAAAAC
1 ATATATATATAATTT-TGAAAACATTTTTG-AAAT
*
63111 ATGTAATATATAATTTT-AAAACATTTTTGAAA-
1 ATAT-ATATATAATTTTGAAAACATTTTTGAAAT
*
63143 ATTATATAATATAATTTTGGAAAATATTTTT-AAAT
1 A-TATAT-ATATAATTTT-GAAAACATTTTTGAAAT
* * * *
63178 ATATAATATATAGTTTTTAAAA-ATATTTTTATAT
1 ATAT-ATATATAATTTTGAAAACAT-TTTTGAAAT
63212 AT-TATATAT
1 ATATATATAT
63221 TATATTTTAT
Statistics
Matches: 240, Mismatches: 18, Indels: 55
0.77 0.06 0.18
Matches are distributed among these distances:
30 3 0.01
31 15 0.06
32 25 0.10
33 41 0.17
34 56 0.23
35 31 0.13
36 21 0.09
37 9 0.04
38 11 0.05
39 16 0.07
40 6 0.03
41 6 0.03
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (33 bp):
ATATATATATAATTTTGAAAACATTTTTGAAAT
Found at i:62987 original size:75 final size:69
Alignment explanation
Indices: 62902--63220 Score: 245
Period size: 67 Copynumber: 4.6 Consensus size: 69
62892 AATACATATA
*
62902 ATATATATATAATTTTGAAAACGGTTTTTGAAAATATATATTATATAATTTTTGGAAAACTTTTT
1 ATATATATATAATTTTGAAAAC-ATTTTT-AAAATATATA-TATATAA-TTTTGGAAAAC-TTTT
*
62967 TGGAAACAT
61 TGAAAACAT
* * *
62976 ATATATAATATATGATTTTTGAAAACA-TTTTAATATATATATATATATATTTTTGAAAACATTT
1 ATATAT-ATATA--A-TTTTGAAAACATTTTTAAAATATATATATATA-ATTTTGGAAAACTTTT
63040 TG-AAA-AT
61 TGAAAACAT
* * ***
63047 ATAT-TATATAGTTTTGAAATCATTTTT-AAATATA-ATATAT-ATTTAAAAAAACATTTTTGAA
1 ATATATATATAATTTTGAAAACATTTTTAAAATATATATATATAATTTTGGAAAAC-TTTTTGAA
63108 AACAT
65 AACAT
*
63113 GTA-ATATATAATTTT-AAAACATTTTTGAAAAT-TATATAATATAATTTTGGAAAA-TATTTT-
1 ATATATATATAATTTTGAAAACATTTTT-AAAATATATAT-ATATAATTTTGGAAAACT-TTTTG
* *
63173 TAAATAT
63 AAAACAT
* * * *
63180 ATA-ATATATAGTTTTTAAAA-ATATTTTTATATAT-TATATAT
1 ATATATATATAATTTTGAAAACAT-TTTTAAAATATATATATAT
63221 TATATTTTAT
Statistics
Matches: 203, Mismatches: 23, Indels: 46
0.75 0.08 0.17
Matches are distributed among these distances:
63 9 0.04
64 5 0.02
65 19 0.09
66 36 0.18
67 37 0.18
68 17 0.08
69 13 0.06
70 1 0.00
71 6 0.03
72 3 0.01
73 5 0.02
74 22 0.11
75 15 0.07
76 4 0.02
77 1 0.00
78 10 0.05
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (69 bp):
ATATATATATAATTTTGAAAACATTTTTAAAATATATATATATAATTTTGGAAAACTTTTTGAAA
ACAT
Found at i:63252 original size:15 final size:14
Alignment explanation
Indices: 63219--63259 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
63209 TATATTATAT
63219 ATTA-TATTTTATT-
1 ATTATTATTTT-TTA
63232 ATTATTATTCTTTTA
1 ATTATTATT-TTTTA
63247 ATTATTATTTTTT
1 ATTATTATTTTTT
63260 CTTATTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 4 0.16
14 10 0.40
15 11 0.44
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (14 bp):
ATTATTATTTTTTA
Found at i:63252 original size:18 final size:16
Alignment explanation
Indices: 63211--63255 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 16
63201 TATTTTTATA
63211 TATTATATATTATATTT
1 TATTAT-TATTATATTT
*
63228 TATTATTATTATTCTTT
1 TATTATTATTA-TATTT
63245 TAATTATTATT
1 T-ATTATTATT
63256 TTTTCTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 5 0.20
17 11 0.44
18 9 0.36
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (16 bp):
TATTATTATTATATTT
Found at i:63267 original size:21 final size:19
Alignment explanation
Indices: 63211--63255 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
63201 TATTTTTATA
* *
63211 TATTATATATTATATTTTAT
1 TATTAT-TATTCTATTTAAT
63231 TATTATTATTCT-TTTAAT
1 TATTATTATTCTATTTAAT
63249 TATTATT
1 TATTATT
63256 TTTTCTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 12 0.52
19 5 0.22
20 6 0.26
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
TATTATTATTCTATTTAAT
Found at i:63272 original size:21 final size:21
Alignment explanation
Indices: 63226--63273 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
63216 TATATTATAT
63226 TTTATTATTATTATTCTTTTA
1 TTTATTATTATTATTCTTTTA
*
63247 ATTATTATT-TT-TTCTTATTTA
1 TTTATTATTATTATTC-T-TTTA
63268 TTTATT
1 TTTATT
63274 TCTTTTTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.13
20 3 0.13
21 17 0.74
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTATTATTATTATTCTTTTA
Found at i:66367 original size:19 final size:19
Alignment explanation
Indices: 66333--66377 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
66323 ATTTAGACAT
66333 TTTGCA-TTTCTTATTTTC
1 TTTGCATTTTCTTATTTTC
*
66351 TTTGCATTTTGTTATTTTC
1 TTTGCATTTTCTTATTTTC
66370 TTTGCATT
1 TTTGCATT
66378 CACATTAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.11, C:0.13, G:0.09, T:0.67
Consensus pattern (19 bp):
TTTGCATTTTCTTATTTTC
Found at i:70013 original size:84 final size:83
Alignment explanation
Indices: 69760--70621 Score: 872
Period size: 84 Copynumber: 10.4 Consensus size: 83
69750 GCTCAAGGCC
* *
69760 AGAAGGGCTATCTGCC-ACCAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
1 AGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
* *
69824 GCAGAATAGCTTAAGTCG
66 GCAGCATAACTTAAGTCG
* ** * * * * *
69842 AGAAGGGCTATCTG-C--CAAAGACCCCCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATT
1 AGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATT
* * * *
69904 TACAGCATAACTCAAGGCT
65 TGCAGCATAACTTAAGTCG
* *
69923 AGAAGGGTTATCTACCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATT
1 AGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
*
69988 TGCAGCATAGCTTAAGTCG
65 TGCAGCATAACTTAAGTCG
* * * * ** * *
70007 AGAAGGGCTATCTG-C--CAAAGACCCTT-AAGTTCGATTACACTCAGCTTTAAGGGCATAACAT
1 AGAAGGGTTATCTGCCAACAAAGA-CCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCAT
* * * *
70068 TTACAGCATAACTCAAGGCT
64 TTGCAGCATAACTTAAGTCG
** * *
70088 AGAAGGGTTATCTGTTAGCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
1 AGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
* *
70153 GCAGTATAGCTTAAGTCG
66 GCAGCATAACTTAAGTCG
* ** * * * ***
70171 AGAAGGGCTATCTG-C--CAAAGACCCCCAAGTTCGATTACACTCAGCTTCGGGGGCACATCATT
1 AGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATT
70233 TGCAGCATAACTTAAGTCG
65 TGCAGCATAACTTAAGTCG
*
70252 AGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATT
1 AGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
** * *
70317 TGCAATACAACTTAAGTCT
65 TGCAGCATAACTTAAGTCG
* *
70336 AGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTCCGACTACGCTCAGCTCCAAGGCATATCATT
1 AGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
** * *
70401 TGCAATACAACTTAAGTCT
65 TGCAGCATAACTTAAGTCG
* * *
70420 AGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAACGACACATCAT
1 AGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCAT
* * * *
70484 TTACAGCATAACTCAAGGCT
64 TTGCAGCATAACTTAAGTCG
* ** * *
70504 AAAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTCCGCTCAGCTCCAAGGCACATCATT
1 AGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* *
70569 TGCAGCATAGCTTAAGTTG
65 TGCAGCATAACTTAAGTCG
* *
70588 AGAAGGGATATCTG-C--TAAAGACCTTCGAGTTCGA
1 AGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGA
70622 TTATATTCAA
Statistics
Matches: 648, Mismatches: 114, Indels: 38
0.81 0.14 0.05
Matches are distributed among these distances:
80 90 0.14
81 125 0.19
82 16 0.02
83 43 0.07
84 323 0.50
85 51 0.08
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (83 bp):
AGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
GCAGCATAACTTAAGTCG
Found at i:70021 original size:165 final size:165
Alignment explanation
Indices: 69751--70493 Score: 974
Period size: 165 Copynumber: 4.5 Consensus size: 165
69741 TGCAGCTTAG
* * *
69751 CTCAAGGCCAGAAGGGCTATCTGCC-AC-CAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
1 CTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
*
69814 CACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTA
66 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTA
69879 CACTCAGCTTCGAGGGCACATCATTTACAGCATAA
131 CACTCAGCTTCGAGGGCACATCATTTACAGCATAA
*
69914 CTCAAGGCTAGAAGGGTTATCTACCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
1 CTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
* **
69979 CATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTA
66 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTA
** * *
70044 CACTCAGCTTTAAGGGCATAACATTTACAGCATAA
131 CACTCAGCTTCGAGGGCACATCATTTACAGCATAA
** * *
70079 CTCAAGGCTAGAAGGGTTATCTGTTAGC-AAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGG
1 CTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
*
70143 CACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTA
66 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTA
* *
70208 CACTCAGCTTCGGGGGCACATCATTTGCAGCATAA
131 CACTCAGCTTCGAGGGCACATCATTTACAGCATAA
* * *
70243 CTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
1 CTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
* ** * * * * ** * *
70308 CATATCATTTGCAATACAACTTAAGTCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTCCG
66 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACCCCCAAGTTCG
* * * * * * ** *
70373 ACTACGCTCAGC-TCCAAGGCATATCATTTGCAATACAA
127 ATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAA
* * * *
70411 CTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAACG
1 CTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-G
* *
70475 ACACATCATTTACAGCATA
65 GCACATCATTTGCAGCATA
70494 ACTCAAGGCT
Statistics
Matches: 510, Mismatches: 62, Indels: 11
0.87 0.11 0.02
Matches are distributed among these distances:
163 22 0.04
164 149 0.29
165 222 0.44
166 1 0.00
167 3 0.01
168 90 0.18
169 23 0.05
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.24
Consensus pattern (165 bp):
CTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTA
CACTCAGCTTCGAGGGCACATCATTTACAGCATAA
Found at i:71298 original size:35 final size:34
Alignment explanation
Indices: 71259--71556 Score: 238
Period size: 34 Copynumber: 8.6 Consensus size: 34
71249 AATACATATA
*
71259 ATATATATATAATTTTGAAAACGGTTTTTGAAAAT
1 ATATATATATAATTTTGAAAAC-ATTTTTGAAAAT
* * *
71294 ATATATTATATAATTTTTGGAAAACTTTTTTGGAAAC
1 ATATA-TATATAA-TTTT-GAAAACATTTTTGAAAAT
* * *
71331 ATATATATATGATTTTTGAAAATATTTTAAT-ATATAT
1 ATATATATAT-AATTTTGAAAACATTTT--TGA-AAAT
71368 ATATATATATAATTTTTGAAAACA-TTTTGAAAAT
1 ATATATATATAA-TTTTGAAAACATTTTTGAAAAT
* *
71402 ATATATTATATAGTTTTGAAATCATTTTT--AAAT
1 ATATA-TATATAATTTTGAAAACATTTTTGAAAAT
*** *
71435 ATA-ATATAT-ATTAAAAAAAACATTTTTGAAAAC
1 ATATATATATAATT-TTGAAAACATTTTTGAAAAT
*
71468 ATGTAATATATAATTTT-AAAACATTTTTGAAAAT
1 ATAT-ATATATAATTTTGAAAACATTTTTGAAAAT
*
71502 -TATATAATATAATTTTGGAAAATATTTTT--AAAT
1 ATATAT-ATATAATTTT-GAAAACATTTTTGAAAAT
* *
71535 ATATAATATATAGTTTTTAAAA
1 ATAT-ATATATAATTTTGAAAA
71557 ATATTTTTTA
Statistics
Matches: 213, Mismatches: 28, Indels: 46
0.74 0.10 0.16
Matches are distributed among these distances:
30 2 0.01
31 15 0.07
32 3 0.01
33 32 0.15
34 47 0.22
35 43 0.20
36 23 0.11
37 42 0.20
38 6 0.03
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (34 bp):
ATATATATATAATTTTGAAAACATTTTTGAAAAT
Found at i:71369 original size:72 final size:73
Alignment explanation
Indices: 71291--71583 Score: 207
Period size: 72 Copynumber: 4.2 Consensus size: 73
71281 GGTTTTTGAA
* * *
71291 AATATATATTATATAATTTTTGGAAAACTTTTTTGGAAACATATA-TATATGATTTTTGAAA--A
1 AATATATATTATATAATTTTT-GAAAAC-ATTTTGAAAACATATATTATAT-AGTTTTGAAATCA
71353 TATTTT-AATAT
63 T-TTTTAAATAT
*
71364 -ATATATATATATATAATTTTTGAAAACATTTTGAAAATATATATTATATAGTTTTGAAATCATT
1 AATATATAT-TATATAATTTTTGAAAACATTTTGAAAACATATATTATATAGTTTTGAAATCATT
71428 TTTAAATAT
65 TTTAAATAT
* * * *
71437 AATATATATTA-A-AA------AAAACATTTTTGAAAACATGTAATATATAATTTT-AAAACATT
1 AATATATATTATATAATTTTTGAAAACA-TTTTGAAAACATATATTATATAGTTTTGAAATCATT
71493 TTTGAAA-AT
65 TTT-AAATAT
* * * * * *
71502 --TATATA--ATATAATTTTGGAAAATATTTT-TAAATATATAATATATAGTTTTTAAAAAT-AT
1 AATATATATTATATAATTTTTGAAAACATTTTGAAAACATATATTATATAG-TTTT-GAAATCAT
*
71561 TTTT-TATAT
64 TTTTAAATAT
*
71570 ATTATATATTATAT
1 AATATATATTATAT
71584 TTTATTATTA
Statistics
Matches: 180, Mismatches: 16, Indels: 49
0.73 0.07 0.20
Matches are distributed among these distances:
61 1 0.01
62 1 0.01
63 8 0.04
65 18 0.10
66 26 0.14
67 15 0.08
68 10 0.06
69 11 0.06
70 9 0.05
71 24 0.13
72 28 0.16
73 21 0.12
74 8 0.04
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.47
Consensus pattern (73 bp):
AATATATATTATATAATTTTTGAAAACATTTTGAAAACATATATTATATAGTTTTGAAATCATTT
TTAAATAT
Found at i:71558 original size:34 final size:33
Alignment explanation
Indices: 71290--71587 Score: 153
Period size: 34 Copynumber: 8.7 Consensus size: 33
71280 CGGTTTTTGA
* *
71290 AAATATATATTATATAATTTTTGGAAAACT-TTTTT
1 AAATATATAATATAT-ATTTTT--AAAAATATTTTT
* *
71325 GGAAACATAT-ATATATGATTTTTGAAAATATTTTAAT
1 --AAATATATAATATAT-ATTTTTAAAAATATTTT--T
* * * *
71362 ATATATATATATATATAATTTTTGAAAACATTTTGA
1 AAATATATA-ATATAT-ATTTTTAAAAATATTTT-T
* * *
71398 AAATATATATTATATAGTTTT-GAAATCATTTTT
1 AAATATATAATATATATTTTTAAAAAT-ATTTTT
*** *
71431 -AA-ATATAATATATATTAAAAAAAACATTTTT
1 AAATATATAATATATATTTTTAAAAATATTTTT
* * * *
71462 GAAAACATGTAATATATAATTTTAAAACAT-TTTTGA
1 --AAATATATAATATATATTTTTAAAA-ATATTTT-T
**
71498 AAATTATATAATATA-ATTTTGGAAAATATTTTT
1 AAA-TATATAATATATATTTTTAAAAATATTTTT
71531 AAATATATAATATATAGTTTTTAAAAATATTTTT
1 AAATATATAATATATA-TTTTTAAAAATATTTTT
* *
71565 -TATATATTATATATTATATTTTA
1 AAATATATAATATA-TAT-TTTTA
71588 TTATTATTAT
Statistics
Matches: 201, Mismatches: 41, Indels: 41
0.71 0.14 0.14
Matches are distributed among these distances:
31 18 0.09
32 16 0.08
33 21 0.10
34 52 0.26
35 44 0.22
36 20 0.10
37 30 0.15
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.47
Consensus pattern (33 bp):
AAATATATAATATATATTTTTAAAAATATTTTT
Found at i:71576 original size:7 final size:7
Alignment explanation
Indices: 71564--71600 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
71554 AAAATATTTT
71564 TTATATA
1 TTATATA
71571 TTATATA
1 TTATATA
*
71578 TTATATT
1 TTATATA
71585 TTAT-TA
1 TTATATA
71591 TTAT-TA
1 TTATATA
71597 TTAT
1 TTAT
71601 TCTTTTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
6 11 0.39
7 17 0.61
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (7 bp):
TTATATA
Found at i:71581 original size:14 final size:13
Alignment explanation
Indices: 71564--71616 Score: 56
Period size: 12 Copynumber: 4.2 Consensus size: 13
71554 AAAATATTTT
71564 TTATATATTATATA
1 TTATATATTAT-TA
*
71578 TTATATTTTATTA
1 TTATATATTATTA
*
71591 TTAT-TATTATTC
1 TTATATATTATTA
*
71603 TTTTA-ATTATTA
1 TTATATATTATTA
71615 TT
1 TT
71617 TTTTCTTATT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
12 17 0.52
13 6 0.18
14 10 0.30
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (13 bp):
TTATATATTATTA
Found at i:71618 original size:12 final size:11
Alignment explanation
Indices: 71558--71627 Score: 53
Period size: 10 Copynumber: 6.7 Consensus size: 11
71548 TTTTTAAAAA
71558 TATT-TTTTAT
1 TATTATTTTAT
*
71568 ATATTA-TATAT
1 -TATTATTTTAT
71579 TA-TATTTTAT
1 TATTATTTTAT
71589 TATTA--TTAT
1 TATTATTTTAT
*
71598 TATTCTTTTAAT
1 TATTATTTT-AT
71610 TATTATTTT-T
1 TATTATTTTAT
*
71620 TCTTATTT
1 TATTATTT
71628 ATTTATTTCT
Statistics
Matches: 48, Mismatches: 5, Indels: 13
0.73 0.08 0.20
Matches are distributed among these distances:
9 10 0.21
10 16 0.33
11 12 0.25
12 10 0.21
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:71628 original size:21 final size:22
Alignment explanation
Indices: 71564--71634 Score: 67
Period size: 21 Copynumber: 3.2 Consensus size: 22
71554 AAAATATTTT
* *
71564 TTATATATTATATATTATATTTTA
1 TTAT-TATTAT-TATTCTATTTAA
71588 TTATTATTATTATTCT-TTTAA
1 TTATTATTATTATTCTATTTAA
*
71609 TTATTATT-TT-TTCTTATTTAT
1 TTATTATTATTATTC-TATTTAA
71630 TTATT
1 TTATT
71635 TCTTTTTGTT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
19 3 0.07
20 3 0.07
21 21 0.50
22 5 0.12
23 6 0.14
24 4 0.10
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (22 bp):
TTATTATTATTATTCTATTTAA
Found at i:71638 original size:34 final size:31
Alignment explanation
Indices: 71577--71640 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 31
71567 TATATTATAT
71577 ATTATATTTTATTATTATTATTATTCTTTTA
1 ATTATATTTTATTATTATTATTATTCTTTTA
*
71608 ATTATTATTTT-TTCTTATTTATTTATTTCTTTT
1 ATTA-TATTTTATTATTA-TTA-TTA-TTCTTTT
71641 TGTTTTTCTG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
31 9 0.32
32 9 0.32
33 3 0.11
34 7 0.25
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (31 bp):
ATTATATTTTATTATTATTATTATTCTTTTA
Found at i:80410 original size:41 final size:41
Alignment explanation
Indices: 80360--80443 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
80350 ACTGTATTTA
*
80360 TTAATATGGTATCAATTTTAATATAGATTAAAGTATTAAAT
1 TTAATATGGTATCAATTTTAATATAGATTAAAGGATTAAAT
80401 TTAATATGGTATCAATTTTAATATAGATTAAAGGATTAAAT
1 TTAATATGGTATCAATTTTAATATAGATTAAAGGATTAAAT
80442 TT
1 TT
80444 CCAAATCTCA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.44
Consensus pattern (41 bp):
TTAATATGGTATCAATTTTAATATAGATTAAAGGATTAAAT
Found at i:88242 original size:20 final size:20
Alignment explanation
Indices: 88186--88236 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
88176 ATCTTATTCT
88186 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTTTATTCCCA
*
88206 CTGGTAATCTTTTATTCCTA
1 CTGGTAATCTTTTATTCCCA
88226 CTGGTAATCTT
1 CTGGTAATCTT
88237 ACATTCTGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.20, C:0.22, G:0.12, T:0.47
Consensus pattern (20 bp):
CTGGTAATCTTTTATTCCCA
Found at i:88494 original size:38 final size:40
Alignment explanation
Indices: 88428--88502 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
88418 TAAACTCTAC
88428 TTTTTATTTCATTTTAGTATCTCGCTATTAAAAATTTTAG
1 TTTTTATTTCATTTTAGTATCTCGCTATTAAAAATTTTAG
* * *
88468 TTTTTGTTTCATTTTAGTA-CT-TCTATTCAAAATTT
1 TTTTTATTTCATTTTAGTATCTCGCTATTAAAAATTT
88503 AACGTTAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 12 0.38
39 2 0.06
40 18 0.56
ACGTcount: A:0.25, C:0.11, G:0.07, T:0.57
Consensus pattern (40 bp):
TTTTTATTTCATTTTAGTATCTCGCTATTAAAAATTTTAG
Found at i:94795 original size:22 final size:23
Alignment explanation
Indices: 94753--94806 Score: 83
Period size: 22 Copynumber: 2.4 Consensus size: 23
94743 GAGAGAGAGT
94753 TCGGTTCCCCTTCAAAGGGGGAA
1 TCGGTTCCCCTTCAAAGGGGGAA
*
94776 TCGGTTCCCCTTC-AAGGGGGTA
1 TCGGTTCCCCTTCAAAGGGGGAA
*
94798 TCGATTCCC
1 TCGGTTCCC
94807 TCTGCCCTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 16 0.55
23 13 0.45
ACGTcount: A:0.17, C:0.30, G:0.28, T:0.26
Consensus pattern (23 bp):
TCGGTTCCCCTTCAAAGGGGGAA
Found at i:101413 original size:21 final size:21
Alignment explanation
Indices: 101384--101443 Score: 102
Period size: 21 Copynumber: 2.8 Consensus size: 21
101374 TCTACGTGGT
101384 CTTTCGGGACATATATGTAATC
1 CTTT-GGGACATATATGTAATC
101406 CTTTGGGACATATATGTAATC
1 CTTTGGGACATATATGTAATC
*
101427 CTTTGGAACATATATGT
1 CTTTGGGACATATATGT
101444 GATACTTCGG
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
21 33 0.89
22 4 0.11
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.38
Consensus pattern (21 bp):
CTTTGGGACATATATGTAATC
Found at i:111861 original size:19 final size:19
Alignment explanation
Indices: 111837--111876 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
111827 AAGGAGAAGC
111837 GTTTGATAAGAGAATCCTT
1 GTTTGATAAGAGAATCCTT
111856 GTTTGATAAGAGAATCCTT
1 GTTTGATAAGAGAATCCTT
111875 GT
1 GT
111877 CCTTGGGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.38
Consensus pattern (19 bp):
GTTTGATAAGAGAATCCTT
Found at i:111915 original size:6 final size:6
Alignment explanation
Indices: 111899--111932 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
111889 GGCTACCTGC
111899 CTTTC- CTTTCT CTTTCT CTTTCT CTTTCT CTTTC
1 CTTTCT CTTTCT CTTTCT CTTTCT CTTTCT CTTTC
111933 CCTACACTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (6 bp):
CTTTCT
Found at i:112556 original size:182 final size:181
Alignment explanation
Indices: 112260--112882 Score: 779
Period size: 182 Copynumber: 3.4 Consensus size: 181
112250 CGATACAAAT
* ** * * * * * *
112260 TAAAAATGTATTGATCCGTAGCAATATAACAGGTAAAAATATAATAAAACCGGTGTC-ATTATGA
1 TAAAAATGTATCGATCCAAAGTAATATAACAGGTAAAAATATGACAAAACAGGTCTCGA-AATGA
** * * *
112324 TAAAACCGGTAAAGCGCTACCGAATATATTGAAAGTGTCGATAAATTAATATAAGTGTAGACACT
65 TAAAACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACT
* * *
112389 TTTGTAATTTAAAAGAGAAGAAGGTATAACGCCTAAAAGGTATCGATACTTTA
130 TTTGTAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAA-GTGTCGATACTTTA
* *
112442 TAAAAATGTGTCGATCCAAAGTAATATAACAGGTAATAATATGACAAAACAGGTCTCGAAATGAT
1 TAAAAATGTATCGATCCAAAGTAATATAACAGGTAAAAATATGACAAAACAGGTCTCGAAATGAT
* *
112507 AAAACTGTTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTT
66 AAAACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTT
112572 TTGTAATTTAAAAGAGAAGAAGTTATAGCGCCTGAAAAGTGTCGATACTTTA
131 TTGTAATTTAAAAGAGAAGAAGTTATAGCGCCT-AAAAGTGTCGATACTTTA
* * * * * *
112624 TACAAATATATCGATCCATAGTAATATATCCA-GTAATAATATGACAAAAGAGGTCTCGAAATGA
1 TAAAAATGTATCGATCCAAAGTAATATA-ACAGGTAAAAATATGACAAAACAGGTCTCGAAATGA
* * *
112688 TAAAACCGGTAAAAAGATATCAGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACT
65 TAAAACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACT
** * *
112753 TACGTAATTTAAAAGAGAAAAAATTATAGCGCCTAAAAAGTGTCGATACTTTA
130 TTTGTAATTTAAAAGAGAAGAAGTTATAGCGCCT-AAAAGTGTCGATACTTTA
* * * * *
112806 -AGAAAATGTATCGATCCATAA-CAATATAATAGGTAAAAATATGATAAAATC-GATATCGAAAT
1 TA-AAAATGTATCGATCCA-AAGTAATATAACAGGTAAAAATATGACAAAA-CAGGTCTCGAAAT
*
112868 GACAAAACCGGTAAA
63 GATAAAACCGGTAAA
112883 GCTCTATCGG
Statistics
Matches: 385, Mismatches: 49, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
181 2 0.01
182 375 0.97
183 8 0.02
ACGTcount: A:0.45, C:0.12, G:0.16, T:0.27
Consensus pattern (181 bp):
TAAAAATGTATCGATCCAAAGTAATATAACAGGTAAAAATATGACAAAACAGGTCTCGAAATGAT
AAAACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTT
TTGTAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAGTGTCGATACTTTA
Found at i:114783 original size:201 final size:198
Alignment explanation
Indices: 114357--116176 Score: 1909
Period size: 201 Copynumber: 9.0 Consensus size: 198
114347 AAAGGAAAAA
* *
114357 GTGTCCATAATGTGTTTTCCAAACAAAACAAGTTCAC-AAATAAGTGTCGACACATTTATATAAA
1 GTGTCCATAATGT-TTTTCCAAAC----CAAGTTCACGAAA-AAGTGTCGATACATTTATAAAAA
* * * * *
114421 GTTTCGATCCTAAAAACATCGAAACCCATAACTATAATGTAATAGGTCACTTTACAATGTAACCA
60 GTATCGATCCCAAAAACATCGAAACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCG
* * * * *
114486 GTTTAAATTTACCAGTTTTATGAGAAAATATGTCTACAATATGTGTCGACACTTTATTCATTTGT
125 GTTTAAATTTACC-GGTTTATGAGAAAATAGGTATACAA-ATGTATCGACACTTTATACATTTGT
*
114551 GTCGATAC-AT
188 GTCGATACTTT
* * * *
114561 GTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAACAAAGTGTCGATACATATATAAAAAGTAT
1 G-TGTCCATAATGTTTTTCCAAACCAAGTTCACGAA-AAAGTGTCGATACATTTATAAAAAGTAT
* * ** * *
114626 CGATCCCAAAAACATCGAAATCCGTAATTATAATGTAATAGGTAAAATAACAATGTAACCGGTCT
64 CGATCCCAAAAACATCGAAACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTT
* * * * * * **
114691 AAATATACCGGTTTATGAGAAAAGAGGTATTCATAAAGTATCGACAGTTTATAAATTTGTACCGA
129 AAATTTACCGGTTTATGAGAAAATAGGTATACA-AATGTATCGACACTTTATACATTTGTGTCGA
114756 TACTTT
193 TACTTT
* **
114762 GTGTCCATAATGTGTTTTCCAAACAAAACAAGTTCAC-AAATAAGTGTCGACACATTTATATCAA
1 GTGTCCATAATGT-TTTTCCAAAC----CAAGTTCACGAAA-AAGTGTCGATACATTTATAAAAA
* *
114826 GTGTCGATCCCAAAAACATCGAAACCCGTAACTATAATGTAATAGGTCACTTTACAATGTAACCG
60 GTATCGATCCCAAAAACATCGAAACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCG
* * * *
114891 GTTTAAATTTATCGGTTTTATGAGAAAATAGGTCTACAATATGTGTCGACACTTTATTCATTTGT
125 GTTTAAATTTACCGG-TTTATGAGAAAATAGGTATACAA-ATGTATCGACACTTTATACATTTGT
*
114956 GTCGATAC-AT
188 GTCGATACTTT
* * *
114966 GTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAACAAAGTGTCGATACATTTATAAAAAGTAT
1 G-TGTCCATAATGTTTTTCCAAACCAAGTTCACGAA-AAAGTGTCGATACATTTATAAAAAGTAT
* * ** * *
115031 CGATCCCAAAAACATCGAAATCCGTAATTATAATGTAATAGGTAAAATAACAATGTAACCGGTCT
64 CGATCCCAAAAACATCGAAACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTT
* * * * * **
115096 AAATATACCGGTTTATGAGAAAAGAGGTATTCATAAAGTATCGACACTTTATAAATTTGTACCGA
129 AAATTTACCGGTTTATGAGAAAATAGGTATACA-AATGTATCGACACTTTATACATTTGTGTCGA
115161 TACTTT
193 TACTTT
* * **
115167 GTGTCCATAATGTGTTTTCCAAACAAAACAAGTTCAC-AAATAAGTGTCAACACATTTATATCAA
1 GTGTCCATAATGT-TTTTCCAAAC----CAAGTTCACGAAA-AAGTGTCGATACATTTATAAAAA
* * * * *
115231 GTGTCGATCCCAAAAACATCCAAACCCGTAACTATAATGTAATAGGTCACTTTACAATGTAATCA
60 GTATCGATCCCAAAAACATCGAAACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCG
* * * * *
115296 GTTTAAATTTATCGATTTTATGAGAAAATAGGTCTACAATATGTGTCGACACTTTATTCATTTGT
125 GTTTAAATTTACCG-GTTTATGAGAAAATAGGTATACAA-ATGTATCGACACTTTATACATTTGT
*
115361 GTCGATAC-AT
188 GTCGATACTTT
* * *
115371 GTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAACAAAGTGTCGATACATTTATAAAAAGTAT
1 G-TGTCCATAATGTTTTTCCAAACCAAGTTCACGAA-AAAGTGTCGATACATTTATAAAAAGTAT
* * ** *
115436 CGATCCCAAAAACATCGAAATCCGTAATTATAATGTAATAGGTAAAATAACAATGTAACC-GTTC
64 CGATCCCAAAAACATCGAAACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTT-
* * * * * * * *
115500 TAAATATACCGGTTTATGAGAAAAGAGGTATTCATAAAGTATCGATACTTTATAAATTTGTATCT
128 TAAATTTACCGGTTTATGAGAAAATAGGTATACA-AATGTATCGACACTTTATACATTTGTGTCG
115565 ATACTTT
192 ATACTTT
* * **
115572 GTGTCCATAATGTGTTTTCCAAACAAAACAAGTTCAC-AAATAAGTGTCGACACATTTAGATCAA
1 GTGTCCATAATGT-TTTTCCAAAC----CAAGTTCACGAAA-AAGTGTCGATACATTTATAAAAA
* * * *
115636 GTGTCGATCCCAAAAACATTGAAACCCGTAACTATAATGTAATATGTCACTTTACAATGTAACCG
60 GTATCGATCCCAAAAACATCGAAACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCG
* * * *
115701 GTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACAATATGTGTCGACACTTTATTCATTTTT
125 GTTTAAATTTACCGG-TTTATGAGAAAATAGGTATACAA-ATGTATCGACACTTTATACATTTGT
*
115766 GTCGATAC-AT
188 GTCGATACTTT
* * * * *
115776 GTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAACAAAGTGTCTATACATTTATAAAAAAGTG
1 G-TGTCCATAATGTTTTTCCAAACCAAGTTCACGAA-AAAGTGTCGATACATTTAT-AAAAAGTA
* * * * * * * * * *
115841 TCGATCCTACAAACATCAAAACACATAATTATAATGTAATCGGTAACATAACAATGTAACCGGTC
63 TCGATCCCAAAAACATCGAAACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTT
* * * * *
115906 TAAATATACTGG-TTATTTA-AAAAAAGGTATACATAATGTATCGATACTTTATACATTTGTGTC
128 TAAATTTACCGGTTTA-TGAGAAAATAGGTATACA-AATGTATCGACACTTTATACATTTGTGTC
*
115969 GACACTTT
191 GATACTTT
* ** *
115977 ATGTCCATAATAAATTTTCCAAA-CAAGTTCACGAAAAAGTGTCGATACATTTAGAAAAAGTATC
1 GTGTCCATAAT-GTTTTTCCAAACCAAGTTCACGAAAAAGTGTCGATACATTTATAAAAAGTATC
* *
116041 GATCCTAAAAACATTGAAACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTA
65 GATCCCAAAAACATCGAAACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTA
* * * * *
116106 AATTTACCGATTTTATGAGAAAATAGGTGTACAGAATGTATCGACACTTTTTAAATTAGTGTCGA
130 AATTTACCG-GTTTATGAGAAAATAGGTATACA-AATGTATCGACACTTTATACATTTGTGTCGA
116171 TACTTT
193 TACTTT
116177 TGAAAATTAC
Statistics
Matches: 1326, Mismatches: 238, Indels: 108
0.79 0.14 0.06
Matches are distributed among these distances:
198 71 0.05
199 19 0.01
200 314 0.24
201 330 0.25
202 72 0.05
203 3 0.00
204 311 0.23
205 206 0.16
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.31
Consensus pattern (198 bp):
GTGTCCATAATGTTTTTCCAAACCAAGTTCACGAAAAAGTGTCGATACATTTATAAAAAGTATCG
ATCCCAAAAACATCGAAACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTAA
ATTTACCGGTTTATGAGAAAATAGGTATACAAATGTATCGACACTTTATACATTTGTGTCGATAC
TTT
Found at i:115108 original size:405 final size:405
Alignment explanation
Indices: 114357--116173 Score: 2972
Period size: 405 Copynumber: 4.5 Consensus size: 405
114347 AAAGGAAAAA
*
114357 GTGTCCATAATGTGTTTTCCAAACAAAACAAGTTCACAAATAAGTGTCGACACATTTATATAAAG
1 GTGTCCATAATGTGTTTTCCAAACAAAACAAGTTCACAAATAAGTGTCGACACATTTATATCAAG
* * * *
114422 TTTCGATCCTAAAAACATCGAAACCCATAACTATAATGTAATAGGTCACTTTACAATGTAACCAG
66 TGTCGATCCCAAAAACATCGAAACCCGTAACTATAATGTAATAGGTCACTTTACAATGTAACCGG
* *
114487 TTTAAATTTACCAGTTTTATGAGAAAATATGTCTACAATATGTGTCGACACTTTATTCATTTGTG
131 TTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACAATATGTGTCGACACTTTATTCATTTGTG
*
114552 TCGATACATGTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAACAAAGTGTCGATACATATAT
196 TCGATACATGTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAACAAAGTGTCGATACATTTAT
114617 AAAAAGTATCGATCCCAAAAACATCGAAATCCGTAATTATAATGTAATAGGTAAAATAACAATGT
261 AAAAAGTATCGATCCCAAAAACATCGAAATCCGTAATTATAATGTAATAGGTAAAATAACAATGT
*
114682 AACCGGTCTAAATATACCGGTTTATGAGAAAAGAGGTATTCATAAAGTATCGACAGTTTATAAAT
326 AACCGGTCTAAATATACCGGTTTATGAGAAAAGAGGTATTCATAAAGTATCGACACTTTATAAAT
114747 TTGTACCGATACTTT
391 TTGTACCGATACTTT
114762 GTGTCCATAATGTGTTTTCCAAACAAAACAAGTTCACAAATAAGTGTCGACACATTTATATCAAG
1 GTGTCCATAATGTGTTTTCCAAACAAAACAAGTTCACAAATAAGTGTCGACACATTTATATCAAG
114827 TGTCGATCCCAAAAACATCGAAACCCGTAACTATAATGTAATAGGTCACTTTACAATGTAACCGG
66 TGTCGATCCCAAAAACATCGAAACCCGTAACTATAATGTAATAGGTCACTTTACAATGTAACCGG
*
114892 TTTAAATTTATCGGTTTTATGAGAAAATAGGTCTACAATATGTGTCGACACTTTATTCATTTGTG
131 TTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACAATATGTGTCGACACTTTATTCATTTGTG
114957 TCGATACATGTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAACAAAGTGTCGATACATTTAT
196 TCGATACATGTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAACAAAGTGTCGATACATTTAT
115022 AAAAAGTATCGATCCCAAAAACATCGAAATCCGTAATTATAATGTAATAGGTAAAATAACAATGT
261 AAAAAGTATCGATCCCAAAAACATCGAAATCCGTAATTATAATGTAATAGGTAAAATAACAATGT
115087 AACCGGTCTAAATATACCGGTTTATGAGAAAAGAGGTATTCATAAAGTATCGACACTTTATAAAT
326 AACCGGTCTAAATATACCGGTTTATGAGAAAAGAGGTATTCATAAAGTATCGACACTTTATAAAT
115152 TTGTACCGATACTTT
391 TTGTACCGATACTTT
*
115167 GTGTCCATAATGTGTTTTCCAAACAAAACAAGTTCACAAATAAGTGTCAACACATTTATATCAAG
1 GTGTCCATAATGTGTTTTCCAAACAAAACAAGTTCACAAATAAGTGTCGACACATTTATATCAAG
* * *
115232 TGTCGATCCCAAAAACATCCAAACCCGTAACTATAATGTAATAGGTCACTTTACAATGTAATCAG
66 TGTCGATCCCAAAAACATCGAAACCCGTAACTATAATGTAATAGGTCACTTTACAATGTAACCGG
* *
115297 TTTAAATTTATCGATTTTATGAGAAAATAGGTCTACAATATGTGTCGACACTTTATTCATTTGTG
131 TTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACAATATGTGTCGACACTTTATTCATTTGTG
115362 TCGATACATGTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAACAAAGTGTCGATACATTTAT
196 TCGATACATGTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAACAAAGTGTCGATACATTTAT
115427 AAAAAGTATCGATCCCAAAAACATCGAAATCCGTAATTATAATGTAATAGGTAAAATAACAATGT
261 AAAAAGTATCGATCCCAAAAACATCGAAATCCGTAATTATAATGTAATAGGTAAAATAACAATGT
* *
115492 AACCGTTCTAAATATACCGGTTTATGAGAAAAGAGGTATTCATAAAGTATCGATACTTTATAAAT
326 AACCGGTCTAAATATACCGGTTTATGAGAAAAGAGGTATTCATAAAGTATCGACACTTTATAAAT
* *
115557 TTGTATCTATACTTT
391 TTGTACCGATACTTT
*
115572 GTGTCCATAATGTGTTTTCCAAACAAAACAAGTTCACAAATAAGTGTCGACACATTTAGATCAAG
1 GTGTCCATAATGTGTTTTCCAAACAAAACAAGTTCACAAATAAGTGTCGACACATTTATATCAAG
* *
115637 TGTCGATCCCAAAAACATTGAAACCCGTAACTATAATGTAATATGTCACTTTACAATGTAACCGG
66 TGTCGATCCCAAAAACATCGAAACCCGTAACTATAATGTAATAGGTCACTTTACAATGTAACCGG
*
115702 TTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACAATATGTGTCGACACTTTATTCATTTTTG
131 TTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACAATATGTGTCGACACTTTATTCATTTGTG
*
115767 TCGATACATGTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAACAAAGTGTCTATACATTTAT
196 TCGATACATGTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAACAAAGTGTCGATACATTTAT
* * * * * * *
115832 AAAAAAGTGTCGATCCTACAAACATC-AAAACACATAATTATAATGTAATCGGTAACATAACAAT
261 -AAAAAGTATCGATCCCAAAAACATCGAAATC-CGTAATTATAATGTAATAGGTAAAATAACAAT
* * * * * *
115896 GTAACCGGTCTAAATATACTGG-TTATTTA-AAAAAAGGTATACATAATGTATCGATACTTTATA
324 GTAACCGGTCTAAATATACCGGTTTA-TGAGAAAAGAGGTATTCATAAAGTATCGACACTTTATA
* ** *
115959 CATTTGTGTCGACACTTT
388 AATTTGTACCGATACTTT
* *** * * **
115977 ATGTCCATAATAAATTTT-C---C-AAACAAGTTCACGAAA-AAGTGTCGATACATTTAGAAAAA
1 GTGTCCATAATGTGTTTTCCAAACAAAACAAGTTCAC-AAATAAGTGTCGACACATTTATATCAA
* * * *
116036 GTATCGATCCTAAAAACATTGAAACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCG
65 GTGTCGATCCCAAAAACATCGAAACCCGTAACTATAATGTAATAGGTCACTTTACAATGTAACCG
* * * * *
116101 GTTTAAATTTACCGATTTTATGAGAAAATAGGTGTACAGA-ATGTATCGACACTTT-TTAAATTA
130 GTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACA-ATATGTGTCGACACTTTATT-CATTT
116164 GTGTCGATAC
193 GTGTCGATAC
116174 TTTTGAAAAT
Statistics
Matches: 1342, Mismatches: 64, Indels: 17
0.94 0.04 0.01
Matches are distributed among these distances:
399 2 0.00
400 155 0.12
401 5 0.00
404 1 0.00
405 1106 0.82
406 73 0.05
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.31
Consensus pattern (405 bp):
GTGTCCATAATGTGTTTTCCAAACAAAACAAGTTCACAAATAAGTGTCGACACATTTATATCAAG
TGTCGATCCCAAAAACATCGAAACCCGTAACTATAATGTAATAGGTCACTTTACAATGTAACCGG
TTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACAATATGTGTCGACACTTTATTCATTTGTG
TCGATACATGTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAACAAAGTGTCGATACATTTAT
AAAAAGTATCGATCCCAAAAACATCGAAATCCGTAATTATAATGTAATAGGTAAAATAACAATGT
AACCGGTCTAAATATACCGGTTTATGAGAAAAGAGGTATTCATAAAGTATCGACACTTTATAAAT
TTGTACCGATACTTT
Found at i:115959 original size:22 final size:21
Alignment explanation
Indices: 115933--115978 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
115923 TAAAAAAAGG
*
115933 TATACATAATGTATCGATACTT
1 TATACAT-ATGTATCGACACTT
* *
115955 TATACATTTGTGTCGACACTT
1 TATACATATGTATCGACACTT
115976 TAT
1 TAT
115979 GTCCATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.43
Consensus pattern (21 bp):
TATACATATGTATCGACACTT
Found at i:117754 original size:604 final size:604
Alignment explanation
Indices: 116606--117816 Score: 2298
Period size: 604 Copynumber: 2.0 Consensus size: 604
116596 TTGTATTCAG
116606 TGGTTGAAGAATTATTTTTAATTTTATACGAATATAGTTGTAATGTTCAAACATGATTGAATAAT
1 TGGTTGAAGAATTATTTTTAATTTTATACGAATATAGTTGTAATGTTCAAACATGATTGAATAAT
*
116671 GTGGTTAATTTGCAATAACAATAGGTTGTTGTACATGTTTCCTATACACAGTAGGAGTCATGTTG
66 GTGGTTAATTTGCAATAACAATAGGTTGTTGTACATATTTCCTATACACAGTAGGAGTCATGTTG
* *
116736 ATACTTAGGATATATGGAGATCGTTGTCTGCATTATTCCAAATGTCTCTAACATCATGTGCGGGA
131 ATACTTAGGATATATGGAGATCATTGTCTGCATTATTCCAAATATCTCTAACATCATGTGCGGGA
* *
116801 CTGAATGACCAGTCCATTTTGCCTTCAAAAAAATCAGTTGAAGTAGGCTGCGTGCTTGTATTCAA
196 CTGAATGACCAGTCCATTTCGCCTTCAAAAAAATCAGTTGAAGTAGGCTGCGAGCTTGTATTCAA
116866 ACCCAGCTTGACTTGAGGACATGTTAGTTTGTTATGTCCCTCACCGTTGCAGAACCCACATCGCC
261 ACCCAGCTTGACTTGAGGACATGTTAGTTTGTTATGTCCCTCACCGTTGCAGAACCCACATCGCC
*
116931 TAATTTTCTTCTCGACCTTGTTCTTTGTTACTTCTTTTCGCTTGCGTTGTTTTCGTTGAGGGTCG
326 TAATTTTCTTCTCGACCTTGTTCTTTGTTACTTCTTTTCGCTTGCATTGTTTTCGTTGAGGGTCG
116996 CAAACGTTGTTTAATACACTGCTCCGATTGACTAAATCATTCAAACCAAACGAGTTCTCAAATTC
391 CAAACGTTGTTTAATACACTGCTCCGATTGACTAAATCATTCAAACCAAACGAGTTCTCAAATTC
117061 TTCTATTAATCTTTTCATCTCATCTCTTGCGGTTTTGAAAGACGCGTCTGCCTTTGATGCAGAAT
456 TTCTATTAATCTTTTCATCTCATCTCTTGCGGTTTTGAAAGACGCGTCTGCCTTTGATGCAGAAT
117126 AGCATAACATACTTGTTGTTGCACGTAGAGAAGCAAACCTTGCCATTTGCATTATTTCTGGAGGA
521 AGCATAACATACTTGTTGTTGCACGTAGAGAAGCAAACCTTGCCATTTGCATTATTTCTGGAGGA
117191 ACATTAAAATCAACAAAAC
586 ACATTAAAATCAACAAAAC
* *
117210 TGGTTGAAGAATTGTTTTTAATTTTATACGAATATAGTTGTAATGTTCAAACATGATTGAATGAT
1 TGGTTGAAGAATTATTTTTAATTTTATACGAATATAGTTGTAATGTTCAAACATGATTGAATAAT
117275 GTGGTTAATTTGCAATAACAATAGGTTGTTGTACATATTTCCTATACACAGTAGGAGTCATGTTG
66 GTGGTTAATTTGCAATAACAATAGGTTGTTGTACATATTTCCTATACACAGTAGGAGTCATGTTG
117340 ATACTTAGGATATATGGAGATCATTGTCTGCATTATTCCAAATATCTCTAACATCATGTGCGGGA
131 ATACTTAGGATATATGGAGATCATTGTCTGCATTATTCCAAATATCTCTAACATCATGTGCGGGA
117405 CTGAATGACCAGTCCATTTCGCCTTCAAAAAAATCAGTTGAAGTAGGCTGCGAGCTTGTATTCAA
196 CTGAATGACCAGTCCATTTCGCCTTCAAAAAAATCAGTTGAAGTAGGCTGCGAGCTTGTATTCAA
117470 ACCCAGCTTGACTTGAGGACATGTTAGTTTGTTATGTCCCTCACCGTTGCAGAACCCACATCGCC
261 ACCCAGCTTGACTTGAGGACATGTTAGTTTGTTATGTCCCTCACCGTTGCAGAACCCACATCGCC
*
117535 TAATTTTCTTCTCGACCTTGTTCTTTGTTACTTCTTTTCGCTTGTATTGTTTTCGTTGAGGGTCG
326 TAATTTTCTTCTCGACCTTGTTCTTTGTTACTTCTTTTCGCTTGCATTGTTTTCGTTGAGGGTCG
* *
117600 CGAACGTTGTTTAATACACTGCTCCGATTGACTGAATCATTCAAACCAAACGAGTTCTCAAATTC
391 CAAACGTTGTTTAATACACTGCTCCGATTGACTAAATCATTCAAACCAAACGAGTTCTCAAATTC
*
117665 TTCTGTTAATCTTTTCATCTCATCTCTTGCGGTTTTGAAAGACGCGTCTGCCTTTGATGCA-ACA
456 TTCTATTAATCTTTTCATCTCATCTCTTGCGGTTTTGAAAGACGCGTCTGCCTTTGATGCAGA-A
117729 TAGCATAACATACTTGTTGTTGCACGTAGAGAAGCAAACCTTGCCATTTGCATTATTTCTGGAGG
520 TAGCATAACATACTTGTTGTTGCACGTAGAGAAGCAAACCTTGCCATTTGCATTATTTCTGGAGG
117794 AACATTAAAATCAACAAAAC
585 AACATTAAAATCAACAAAAC
117814 TGG
1 TGG
117817 GTGCAGAAGC
Statistics
Matches: 594, Mismatches: 12, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
603 1 0.00
604 593 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (604 bp):
TGGTTGAAGAATTATTTTTAATTTTATACGAATATAGTTGTAATGTTCAAACATGATTGAATAAT
GTGGTTAATTTGCAATAACAATAGGTTGTTGTACATATTTCCTATACACAGTAGGAGTCATGTTG
ATACTTAGGATATATGGAGATCATTGTCTGCATTATTCCAAATATCTCTAACATCATGTGCGGGA
CTGAATGACCAGTCCATTTCGCCTTCAAAAAAATCAGTTGAAGTAGGCTGCGAGCTTGTATTCAA
ACCCAGCTTGACTTGAGGACATGTTAGTTTGTTATGTCCCTCACCGTTGCAGAACCCACATCGCC
TAATTTTCTTCTCGACCTTGTTCTTTGTTACTTCTTTTCGCTTGCATTGTTTTCGTTGAGGGTCG
CAAACGTTGTTTAATACACTGCTCCGATTGACTAAATCATTCAAACCAAACGAGTTCTCAAATTC
TTCTATTAATCTTTTCATCTCATCTCTTGCGGTTTTGAAAGACGCGTCTGCCTTTGATGCAGAAT
AGCATAACATACTTGTTGTTGCACGTAGAGAAGCAAACCTTGCCATTTGCATTATTTCTGGAGGA
ACATTAAAATCAACAAAAC
Found at i:120296 original size:200 final size:202
Alignment explanation
Indices: 119936--120302 Score: 485
Period size: 200 Copynumber: 1.8 Consensus size: 202
119926 AGATTTTGTG
* * * * *
119936 TCGATAAATATAATGTAATAGGTAAATTTCCAATGTAAGCGGTAGAAATATACCGGGTTCATGAG
1 TCGATAAATATAATGTAACAGGTAAATTTACAAGGTAACCGGTAGAAATATACCGGGTTAATGAG
* * *
120001 AGAATAGGTCAACATAAAGTATCGACACTTTGTTTAATTTGTGTCGATACATTTTTTCAAAATGA
66 AGAATAGGTCAACATAAAGTATCGACACTATGTTAAATATGTGTCGATACATTTTTTCAAAATGA
* * *
120066 ATGGCAAACGAGGTGTACGCATAAAGTGTCGATACATTTTTTTAAAAAGTATCGATCCTCAAAAC
131 AAGACAAACGAGGTGCACGCATAAAGTGTCGATACATTTTTTTAAAAAGTATCGATCCTCAAAAC
120131 ATCGAAA
196 ATCGAAA
* * * *
120138 TCGATAATTATTATGTAACAGGTAAATTTACAAGGTAACCGGTTA-AAATATATC-GGTTAATTA
1 TCGATAAATATAATGTAACAGGTAAATTTACAAGGTAACCGG-TAGAAATATACCGGGTTAATGA
* * *
120201 GCA-AATAGGTCTACATTATGTATCGACACTAT-TTAAATATGTGTCGATAC-TTTTTTCCAAAA
65 G-AGAATAGGTCAACATAAAGTATCGACACTATGTTAAATATGTGTCGATACATTTTTT-CAAAA
*
120263 T-AAAGCACAAACGAGTTGCACGCATAAAGTGTCGATACAT
128 TGAAAG-ACAAACGAGGTGCACGCATAAAGTGTCGATACAT
120303 AATGTATCGA
Statistics
Matches: 142, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
199 9 0.06
200 53 0.37
201 33 0.23
202 45 0.32
203 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (202 bp):
TCGATAAATATAATGTAACAGGTAAATTTACAAGGTAACCGGTAGAAATATACCGGGTTAATGAG
AGAATAGGTCAACATAAAGTATCGACACTATGTTAAATATGTGTCGATACATTTTTTCAAAATGA
AAGACAAACGAGGTGCACGCATAAAGTGTCGATACATTTTTTTAAAAAGTATCGATCCTCAAAAC
ATCGAAA
Found at i:120510 original size:87 final size:86
Alignment explanation
Indices: 120406--120572 Score: 264
Period size: 87 Copynumber: 1.9 Consensus size: 86
120396 AAATAGGTCA
* *
120406 ATATAAGCGCTACCTATTACATTATATAAGCGTTACCTAATTTGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
120471 -TCGGTTAAATGCATATTTTATT
66 CT-GGTTAAATG-ATATTTTATT
* * *
120493 ATATAAGCGTTACCTATTACATTATCTAAGCGCTACCTAATATGTTATTGTGCTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
120558 CTGGTTAAATGATAT
66 CTGGTTAAATGATAT
120573 AACATAACCG
Statistics
Matches: 74, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
86 4 0.05
87 69 0.93
88 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (86 bp):
ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
CTGGTTAAATGATATTTTATT
Found at i:120540 original size:23 final size:23
Alignment explanation
Indices: 120490--120534 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
120480 TGCATATTTT
* *
120490 ATTATATAAGCGTTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
120513 ATTATCTAAGCGCTACCTAATA
1 ATTATATAAGCGCTACCTAATA
120535 TGTTATTGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.36
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:127090 original size:33 final size:33
Alignment explanation
Indices: 127033--127113 Score: 112
Period size: 33 Copynumber: 2.5 Consensus size: 33
127023 ATTTAATTTG
* *
127033 TTTAGTGCCTAAA--TTATCAATTTTGGTCCAT
1 TTTAGTACCTAAACTTTATCAATTTTGATCCAT
* *
127064 TTTAGTACCTAAACTTTATCAGTTTTGATCTAT
1 TTTAGTACCTAAACTTTATCAATTTTGATCCAT
127097 TTTAGTACCTAAACTTT
1 TTTAGTACCTAAACTTT
127114 CATATTTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
31 12 0.27
33 32 0.73
ACGTcount: A:0.27, C:0.16, G:0.10, T:0.47
Consensus pattern (33 bp):
TTTAGTACCTAAACTTTATCAATTTTGATCCAT
Found at i:127579 original size:20 final size:19
Alignment explanation
Indices: 127550--127587 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
127540 AAAATATATA
127550 ATATATATAGTTTTTGAAG
1 ATATATATAGTTTTTGAAG
127569 ATATAATATAGTTTTTGAA
1 ATAT-ATATAGTTTTTGAA
127588 AACATGTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.47
Consensus pattern (19 bp):
ATATATATAGTTTTTGAAG
Found at i:127683 original size:24 final size:24
Alignment explanation
Indices: 127634--127695 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
127624 TTAAAAAAAA
**
127634 ATAGTTTTCGAAAACATATATAAT
1 ATAGTTTTAAAAAACATATATAAT
* *
127658 ATTGTTTTTAAAAACATATA-ATAT
1 ATAGTTTTAAAAAACATATATA-AT
127682 ATAGTTTTAAAAAA
1 ATAGTTTTAAAAAA
127696 TGGTTTTGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 1 0.03
24 31 0.97
ACGTcount: A:0.48, C:0.05, G:0.06, T:0.40
Consensus pattern (24 bp):
ATAGTTTTAAAAAACATATATAAT
Found at i:127708 original size:36 final size:35
Alignment explanation
Indices: 127663--127795 Score: 115
Period size: 36 Copynumber: 3.6 Consensus size: 35
127653 ATAATATTGT
* *
127663 TTTTAAAAACATATAATATATAGTTTTAAAAAATGG
1 TTTTGAAAACATAT-ATATATAGTTTTAAAAAATGA
* *
127699 TTTTGAAAACATATATAATATAATTTTTGAAAACATATTA
1 TTTTGAAAACATATAT-ATAT-AGTTTT-AAAA-A-ATGA
* * * *
127739 TTTTGAAAATATATATAAATAG-TTTAAAAAACAGC
1 TTTTGAAAACATATATATATAGTTTTAAAAAA-TGA
127774 TTTTGAAAACATATATAATATA
1 TTTTGAAAACATATAT-ATATA
127796 TATAATCTTT
Statistics
Matches: 78, Mismatches: 12, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
34 1 0.01
35 18 0.23
36 25 0.32
37 8 0.10
38 5 0.06
39 4 0.05
40 17 0.22
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.39
Consensus pattern (35 bp):
TTTTGAAAACATATATATATAGTTTTAAAAAATGA
Found at i:127778 original size:75 final size:79
Alignment explanation
Indices: 127663--127818 Score: 205
Period size: 75 Copynumber: 2.0 Consensus size: 79
127653 ATAATATTGT
* * *
127663 TTTTAAAAACATATAATATATAGTTTTAAAAAATGGTTTTGAAAACATATATAATATA-AT-T-T
1 TTTTAAAAACATATAATAAATAGTTTTAAAAAAAGCTTTTGAAAACATATATAATATATATATCT
127725 TTGAAAACATATTA
66 TTGAAAACATATTA
* *
127739 TTTTGAAAATATAT-ATAAATAG-TTTAAAAAACAGCTTTTGAAAACATATATAATATATATAAT
1 TTTTAAAAACATATAATAAATAGTTTTAAAAAA-AGCTTTTGAAAACATATATAATATATAT-AT
*
127802 CTTTGAAAATATATTA
64 CTTTGAAAACATATTA
127818 T
1 T
127819 ATTGTTTTTT
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
74 9 0.13
75 30 0.43
76 14 0.20
78 1 0.01
79 15 0.22
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.40
Consensus pattern (79 bp):
TTTTAAAAACATATAATAAATAGTTTTAAAAAAAGCTTTTGAAAACATATATAATATATATATCT
TTGAAAACATATTA
Found at i:127819 original size:24 final size:24
Alignment explanation
Indices: 127786--127847 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 24
127776 TTGAAAACAT
*
127786 ATATAATATATATAATCTTTGAAA
1 ATATATTATATATAATCTTTGAAA
* * **
127810 ATATATTATAT-T-GTTTTTTTAA
1 ATATATTATATATAATCTTTGAAA
127832 ATATATTATATATAAT
1 ATATATTATATATAAT
127848 ACATATATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
22 17 0.57
23 2 0.07
24 11 0.37
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (24 bp):
ATATATTATATATAATCTTTGAAA
Found at i:129167 original size:25 final size:25
Alignment explanation
Indices: 129139--129192 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
129129 TGTTTAGTTC
129139 TTTTCCATTTAATCCTTTAATTCAA
1 TTTTCCATTTAATCCTTTAATTCAA
* * * * *
129164 TTTTTCTTTTAATTCTTTCATTCAC
1 TTTTCCATTTAATCCTTTAATTCAA
129189 TTTT
1 TTTT
129193 ATATTTTATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.20, C:0.19, G:0.00, T:0.61
Consensus pattern (25 bp):
TTTTCCATTTAATCCTTTAATTCAA
Found at i:129355 original size:21 final size:23
Alignment explanation
Indices: 129313--129366 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 23
129303 TTATTCTCTC
*
129313 TTATTT-TTTTTAAAATTTC-TT
1 TTATTTATTTTTAAAATTCCTTT
*
129334 TTATTTATTTTTAACA-TCCTTT
1 TTATTTATTTTTAAAATTCCTTT
*
129356 TTTTTTATTTT
1 TTATTTATTTT
129367 ATTATTTAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 8 0.29
22 20 0.71
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.72
Consensus pattern (23 bp):
TTATTTATTTTTAAAATTCCTTT
Found at i:131923 original size:16 final size:16
Alignment explanation
Indices: 131902--131960 Score: 82
Period size: 16 Copynumber: 3.7 Consensus size: 16
131892 AACTGATATT
*
131902 ACCTGACATGTTTTCA
1 ACCTGACCTGTTTTCA
*
131918 ACCTGACCTATTTTCA
1 ACCTGACCTGTTTTCA
* *
131934 TCCTGACCTGTTTTTA
1 ACCTGACCTGTTTTCA
131950 ACCTGACCTGT
1 ACCTGACCTGT
131961 AAATGATCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.20, C:0.29, G:0.12, T:0.39
Consensus pattern (16 bp):
ACCTGACCTGTTTTCA
Found at i:132183 original size:22 final size:24
Alignment explanation
Indices: 132153--132218 Score: 73
Period size: 22 Copynumber: 2.8 Consensus size: 24
132143 TAGACCTATT
* *
132153 ATTATATAAAATTATTTAAT-AAA
1 ATTAGATAAAATTATTAAATGAAA
*
132176 ATTA-ATAAAATTATTAAATGTAA
1 ATTAGATAAAATTATTAAATGAAA
132199 ATTAGATAAAACATTATTAA
1 ATTAGAT-AAA-ATTATTAA
132219 TAATTAATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
22 14 0.38
23 10 0.27
24 2 0.05
25 3 0.08
26 8 0.22
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (24 bp):
ATTAGATAAAATTATTAAATGAAA
Found at i:132270 original size:22 final size:23
Alignment explanation
Indices: 132239--132284 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
132229 TGCAAAGGAA
*
132239 AATTAATATAGTTTAATTTATAT
1 AATTAATATAGTTCAATTTATAT
132262 AATT-ATATAGTTCAATTTATAT
1 AATTAATATAGTTCAATTTATAT
132284 A
1 A
132285 TAAAAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.50
Consensus pattern (23 bp):
AATTAATATAGTTCAATTTATAT
Found at i:132471 original size:29 final size:28
Alignment explanation
Indices: 132402--132493 Score: 77
Period size: 29 Copynumber: 3.4 Consensus size: 28
132392 AAATAATATT
*
132402 ATATTTTTATTAT--T-ATATAAAAT-A
1 ATATTTTTATTATAATAATATATAATAA
* * *
132426 ATCAATTATATTATAATAATATA-AGATATT
1 AT-ATTTTTATTATAATAATATATA-ATA-A
*
132456 ATATTTTTATTTTAATAATATATAATAA
1 ATATTTTTATTATAATAATATATAATAA
132484 ATATTTTTAT
1 ATATTTTTAT
132494 ATATTTAATA
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
24 2 0.04
25 9 0.17
27 2 0.04
28 17 0.32
29 20 0.38
30 3 0.06
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (28 bp):
ATATTTTTATTATAATAATATATAATAA
Found at i:132497 original size:21 final size:22
Alignment explanation
Indices: 132463--132504 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
132453 ATTATATTTT
132463 TATTTTAATAATATATAATAAA
1 TATTTTAATAATATATAATAAA
* *
132485 TATTTTTAT-ATATTTAATAA
1 TATTTTAATAATATATAATAA
132505 TGAATAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TATTTTAATAATATATAATAAA
Found at i:132510 original size:24 final size:27
Alignment explanation
Indices: 132477--132535 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 27
132467 TTAATAATAT
132477 ATAAT-AAATATT-TTTATATATTT-A
1 ATAATAAAATATTATTTATATATTTAA
132501 ATAATGAATAATATTATTTATATATTTAA
1 ATAAT-AA-AATATTATTTATATATTTAA
132530 ATAATA
1 ATAATA
132536 TTTTAATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
24 5 0.17
26 1 0.03
27 6 0.20
28 12 0.40
29 6 0.20
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (27 bp):
ATAATAAAATATTATTTATATATTTAA
Found at i:132514 original size:19 final size:19
Alignment explanation
Indices: 132492--132544 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
132482 AAATATTTTT
*
132492 ATATATTTAATAATGAATA
1 ATATATTTAATAATAAATA
*
132511 ATATTATTTATATATTTAAATA
1 ATA-TATTTA-ATA-ATAAATA
132533 ATAT-TTTAATAA
1 ATATATTTAATAA
132545 AGATATTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
19 6 0.21
20 10 0.36
21 4 0.14
22 8 0.29
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (19 bp):
ATATATTTAATAATAAATA
Found at i:132565 original size:23 final size:23
Alignment explanation
Indices: 132539--132583 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
132529 AATAATATTT
132539 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
132562 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
132584 ATATAACACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:132678 original size:21 final size:21
Alignment explanation
Indices: 132652--132723 Score: 65
Period size: 21 Copynumber: 3.1 Consensus size: 21
132642 AAAATATACA
*
132652 AAAATTAATATTTTTATTAAT
1 AAAATTAATATTTTTAATAAT
132673 AAAATTATAAAAATATTATTTAATAAT
1 AAAA-T-T---AATATT-TTTAATAAT
132700 -AAATTAATTATTTTTAATAAT
1 AAAATTAA-TATTTTTAATAAT
132721 AAA
1 AAA
132724 TAAGTTTTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 15
0.72 0.02 0.26
Matches are distributed among these distances:
21 15 0.36
22 7 0.17
23 1 0.02
24 1 0.02
25 1 0.02
26 9 0.21
27 8 0.19
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AAAATTAATATTTTTAATAAT
Found at i:132752 original size:19 final size:19
Alignment explanation
Indices: 132679--132751 Score: 64
Period size: 21 Copynumber: 3.8 Consensus size: 19
132669 TAATAAAATT
132679 ATAAA-AATATTATTTAATA
1 ATAAATAATATT-TTTAATA
132698 ATAAATTAATTATTTTTAATA
1 ATAAA-TAA-TATTTTTAATA
* *
132719 ATAAAT-A-AGTTTT-ATG
1 ATAAATAATATTTTTAATA
132735 ATAAATAATATTATTTA
1 ATAAATAATATT-TTTA
132752 TTGTTGTAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
16 8 0.18
17 6 0.14
18 2 0.05
19 9 0.20
20 1 0.02
21 14 0.32
22 4 0.09
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.47
Consensus pattern (19 bp):
ATAAATAATATTTTTAATA
Found at i:132931 original size:20 final size:20
Alignment explanation
Indices: 132894--132932 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
132884 CATGAAAACG
**
132894 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATCAAATTCA
*
132914 TTTTCCAGAATTCAAATTC
1 TTTTCCAGAAATCAAATTC
132933 CAGTAATTCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (20 bp):
TTTTCCAGAAATCAAATTCA
Found at i:132963 original size:15 final size:15
Alignment explanation
Indices: 132906--132957 Score: 79
Period size: 15 Copynumber: 3.5 Consensus size: 15
132896 TTCCAGAAAT
**
132906 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
132921 G-AATTCAAATTCCA
1 GTAATTCAAATTCCA
132935 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
132950 GTAATTCA
1 GTAATTCA
132958 TTTTCCGGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.35
15 22 0.65
ACGTcount: A:0.37, C:0.19, G:0.08, T:0.37
Consensus pattern (15 bp):
GTAATTCAAATTCCA
Found at i:135525 original size:21 final size:21
Alignment explanation
Indices: 135487--135526 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
135477 ATTTAATCCA
*
135487 AATTTAATGTTATAATTTATT
1 AATTTAATGTCATAATTTATT
135508 AATTTAAGTGTCAT-ATTTA
1 AATTTAA-TGTCATAATTTA
135527 AAATTTGTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.53
Consensus pattern (21 bp):
AATTTAATGTCATAATTTATT
Found at i:135631 original size:18 final size:18
Alignment explanation
Indices: 135601--135850 Score: 164
Period size: 18 Copynumber: 14.1 Consensus size: 18
135591 AATAAATTAA
135601 TATATAG-TTATATATAC
1 TATATAGTTTATATATAC
135618 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
* *
135636 TA-AT-G--AACTATATAA
1 TATATAGTTTA-TATATAC
*
135651 TATATAGTTTGTATATAC
1 TATATAGTTTATATATAC
* * *
135669 CATATACTATATAGGTTATA-
1 TATATAGTTTATA---TATAC
* ** *
135689 TATACTAATGAACTATATAA
1 TATA-TAGTTTA-TATATAC
*
135709 TATAGAGTTTATATATAC
1 TATATAGTTTATATATAC
135727 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
* *
135745 TA-AT-G--AACTATATAA
1 TATATAGTTTA-TATATAC
135760 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
** *
135778 TA-AT-GAACTATATATAA
1 TATATAG-TTTATATATAC
*
135795 TGTATAGTTTATATATAC
1 TATATAGTTTATATATAC
* * *
135813 CATATAGTCTATATATAT
1 TATATAGTTTATATATAC
135831 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
135849 TA
1 TA
135851 ATAAACTATA
Statistics
Matches: 176, Mismatches: 37, Indels: 39
0.70 0.15 0.15
Matches are distributed among these distances:
14 2 0.01
15 16 0.09
16 7 0.04
17 24 0.14
18 101 0.57
19 9 0.05
20 7 0.04
21 8 0.05
22 2 0.01
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (18 bp):
TATATAGTTTATATATAC
Found at i:135648 original size:33 final size:33
Alignment explanation
Indices: 135611--135728 Score: 135
Period size: 33 Copynumber: 3.8 Consensus size: 33
135601 TATATAGTTA
*
135611 TATATACTATATAGTTTATATATACTAATGAAC
1 TATATAATATATAGTTTATATATACTAATGAAC
*
135644 TATATAATATATAGTTTGTATATAC-------C
1 TATATAATATATAGTTTATATATACTAATGAAC
* *
135670 -ATATACTATATAGGTTATATATACTAATGAAC
1 TATATAATATATAGTTTATATATACTAATGAAC
*
135702 TATATAATATAGAGTTTATATATACTA
1 TATATAATATATAGTTTATATATACTA
135729 TATAGTTTAT
Statistics
Matches: 69, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
25 21 0.30
26 1 0.01
32 1 0.01
33 46 0.67
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (33 bp):
TATATAATATATAGTTTATATATACTAATGAAC
Found at i:135676 original size:58 final size:56
Alignment explanation
Indices: 135612--135873 Score: 252
Period size: 51 Copynumber: 4.9 Consensus size: 56
135602 ATATAGTTAT
135612 ATATACTATATAGTTTATATATACTAATGAACTATATAATATATAGTTTGTATATACC
1 ATATACTATATAGTTTATATATACTAATGAACTATATAATATATAGTTT-TATATA-C
* *
135670 ATATACTATATAGGTTATATATACTAATGAACTATATAATATAGAG--TT-TAT--
1 ATATACTATATAGTTTATATATACTAATGAACTATATAATATATAGTTTTATATAC
135721 ATATACTATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATATATAC
1 ATATACTATATAGTTTATATATACTAATGAACTATATAATATATAGTTT-TATATAC
* * ** ** *
135778 -TAATGAACTATATA---TA-ATGTA-TAGTTTA-TATATACCATATAG-TCTATAT--
1 AT-AT--ACTATATAGTTTATATATACTAATGAACTATATAATATATAGTTTTATATAC
* *
135827 ATAT--TATATAGTTTATATATACTAATAAACTATATAATGTATAGTTT
1 ATATACTATATAGTTTATATATACTAATGAACTATATAATATATAGTTT
135874 AGGATTTAGG
Statistics
Matches: 168, Mismatches: 19, Indels: 40
0.74 0.08 0.18
Matches are distributed among these distances:
45 6 0.04
48 2 0.01
49 6 0.04
50 5 0.03
51 60 0.36
52 2 0.01
53 13 0.08
54 8 0.05
55 8 0.05
56 4 0.02
57 2 0.01
58 44 0.26
59 8 0.05
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (56 bp):
ATATACTATATAGTTTATATATACTAATGAACTATATAATATATAGTTTTATATAC
Found at i:135679 original size:25 final size:25
Alignment explanation
Indices: 135645--135693 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
135635 CTAATGAACT
* *
135645 ATATAATATATAGTTTGTATATACC
1 ATATAATATATAGGTTATATATACC
*
135670 ATATACTATATAGGTTATATATAC
1 ATATAATATATAGGTTATATATAC
135694 TAATGAACTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (25 bp):
ATATAATATATAGGTTATATATACC
Found at i:135757 original size:33 final size:33
Alignment explanation
Indices: 135720--135874 Score: 195
Period size: 33 Copynumber: 4.5 Consensus size: 33
135710 ATAGAGTTTA
*
135720 TATATACTATATAGTTTATATATACTAATGAAC
1 TATATAATATATAGTTTATATATACTAATGAAC
135753 TATATAATATATAGTTTATATATACTAATGAAC
1 TATATAATATATAGTTTATATATACTAATGAAC
* * *
135786 TATATATAATGTATAGTTTATATATACCATAT-AGTC
1 --TATATAATATATAGTTTATATATACTA-ATGA-AC
*
135822 TATATATATTATATAGTTTATATATACTAATAAAC
1 TATATA-A-TATATAGTTTATATATACTAATGAAC
*
135857 TATATAATGTATAGTTTA
1 TATATAATATATAGTTTA
135875 GGATTTAGGG
Statistics
Matches: 107, Mismatches: 8, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
33 42 0.39
34 7 0.07
35 36 0.34
36 22 0.21
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (33 bp):
TATATAATATATAGTTTATATATACTAATGAAC
Found at i:135933 original size:34 final size:36
Alignment explanation
Indices: 135895--135964 Score: 99
Period size: 34 Copynumber: 2.0 Consensus size: 36
135885 TTTAGAATTT
*
135895 TTATATATAGTTCATATGTA-AAT-TATACTATATA
1 TTATATATAGTTCATATATATAATATATACTATATA
* *
135929 TTATATATAGTTTATATATATAATATATAGTATATA
1 TTATATATAGTTCATATATATAATATATACTATATA
135965 AATATAAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
34 18 0.58
35 3 0.10
36 10 0.32
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.49
Consensus pattern (36 bp):
TTATATATAGTTCATATATATAATATATACTATATA
Found at i:135935 original size:2 final size:2
Alignment explanation
Indices: 135918--135988 Score: 56
Period size: 2 Copynumber: 34.0 Consensus size: 2
135908 ATATGTAAAT
*
135918 TA TA CTA TA TA T- TA TA TA TA GTT TA TA TA TA TA -A TA TA TA GTA
1 TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA
* *
135961 TA TA AA TA TA AA CTA TA GTA TA TA TA TA
1 TA TA TA TA TA TA -TA TA -TA TA TA TA TA
135989 GGTCATAGGT
Statistics
Matches: 56, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
1 2 0.04
2 46 0.82
3 8 0.14
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (2 bp):
TA
Found at i:135948 original size:20 final size:20
Alignment explanation
Indices: 135918--135988 Score: 81
Period size: 20 Copynumber: 3.5 Consensus size: 20
135908 ATATGTAAAT
135918 TATACTATATATTATATATAG
1 TATA-TATATATTATATATAG
* *
135939 TTTATATATATAATATATAG
1 TATATATATATTATATATAG
* *
135959 TATATAAATA-TAAACTATAG
1 TATATATATATTATA-TATAG
135979 TATATATATA
1 TATATATATA
135989 GGTCATAGGT
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.05
20 37 0.88
21 3 0.07
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (20 bp):
TATATATATATTATATATAG
Found at i:136007 original size:51 final size:51
Alignment explanation
Indices: 135952--136072 Score: 206
Period size: 51 Copynumber: 2.4 Consensus size: 51
135942 ATATATATAA
135952 TATATAGTATATAAATATAAACTATAGTATATATATAGGTCATAGGTAAAC
1 TATATAGTATATAAATATAAACTATAGTATATATATAGGTCATAGGTAAAC
* *
136003 TATATAGTATATAAATATCAACTATAGTATATATATAGGTCATATGTAAAC
1 TATATAGTATATAAATATAAACTATAGTATATATATAGGTCATAGGTAAAC
* *
136054 TATATAGTTTATATATATA
1 TATATAGTATATAAATATA
136073 GTTCATATGT
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 65 1.00
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (51 bp):
TATATAGTATATAAATATAAACTATAGTATATATATAGGTCATAGGTAAAC
Found at i:136269 original size:168 final size:162
Alignment explanation
Indices: 136005--136320 Score: 519
Period size: 168 Copynumber: 1.9 Consensus size: 162
135995 AGGTAAACTA
*
136005 TATAGTATATAAATATCAACTATAGTATATATATAGGTCATATGTAAACTATATAGTTTATATAT
1 TATAGTATATAAATATCAACTATAGTATATATATAGGTCATATGTAAACTATATAGTTTATAAAT
136070 ATAGTTCATATGTAAACTATAGTTCATATGTAAATATTAACTATAGTTTATATGTAAACTATAGT
66 ATAGTTCATATGTAAACTATAGTTCATATGTAAATATTAACTATAGTTTATATGTAAACTATAGT
136135 T-AGTATATAAACTATATAGTTTATATACTAAC
131 TCA-TATATAAACTATATAGTTTATATACTAAC
136167 TATAGT-TATAAATATCAACTATAGTATATATATATAGGTCATATGTAAACTATATAGTTCATAT
1 TATAGTATATAAATATCAACTATAG--TATATATATAGGTCATATGTAAACTATATAGTT--TA-
136231 GTAAACTATAGTTCATATGTAAACTATAGTTCATATGTAAATATTAACTATAGTTTATATGTAAA
61 -TAAA-TATAGTTCATATGTAAACTATAGTTCATATGTAAATATTAACTATAGTTTATATGTAAA
* *
136296 CTATAGTTCATATATATAGTATATA
124 CTATAGTTCATATATAAACTATATA
136321 AATATAAACT
Statistics
Matches: 143, Mismatches: 3, Indels: 10
0.92 0.02 0.06
Matches are distributed among these distances:
161 18 0.13
162 6 0.04
163 33 0.23
165 2 0.01
167 3 0.02
168 80 0.56
169 1 0.01
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.41
Consensus pattern (162 bp):
TATAGTATATAAATATCAACTATAGTATATATATAGGTCATATGTAAACTATATAGTTTATAAAT
ATAGTTCATATGTAAACTATAGTTCATATGTAAATATTAACTATAGTTTATATGTAAACTATAGT
TCATATATAAACTATATAGTTTATATACTAAC
Found at i:136280 original size:150 final size:144
Alignment explanation
Indices: 136067--136347 Score: 347
Period size: 150 Copynumber: 1.9 Consensus size: 144
136057 ATAGTTTATA
**
136067 TATATAGTTCATATGTAAACTATAGTTCATATGTAAATATTAACTATAGTTTATATGTAAACTAT
1 TATATAGTTCATATGTAAACTATAGTTCATATGTAAATATTAACTATAGTAAATATGTAAACTAT
* *
136132 AG-TTAGTATATAAACTATATAGTTTATATACTAACTA-TAGTTATAAATATCAACTATAGTATA
66 AGTTTA-TATATAAAC--TATAGTTCATATA-T-A-TAGTA--TATAAATATAAACTATAGTATA
*
136195 TATATATAGGTCATATGTAAAC
123 TATAAATAGGTCATATGTAAAC
**
136217 TATATAGTTCATATGTAAACTATAGTTCATATGTAAACTA-TAGTTCATATGTAAATAT-T-AAC
1 TATATAGTTCATATGTAAACTATAGTTCATATGTAAA-TATTAACT-ATA-GTAAATATGTAAAC
* *
136279 TATAGTTTATATGTAAACTATAGTTCATATATATAGTATATAAATATAAACTATAGTTTATATAA
63 TATAGTTTATATATAAACTATAGTTCATATATATAGTATATAAATATAAACTATAGTATATATAA
136344 ATAG
128 ATAG
136348 TATAAAATAT
Statistics
Matches: 117, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
144 28 0.24
145 2 0.02
146 3 0.03
147 1 0.01
148 12 0.10
150 56 0.48
151 9 0.08
152 6 0.05
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.41
Consensus pattern (144 bp):
TATATAGTTCATATGTAAACTATAGTTCATATGTAAATATTAACTATAGTAAATATGTAAACTAT
AGTTTATATATAAACTATAGTTCATATATATAGTATATAAATATAAACTATAGTATATATAAATA
GGTCATATGTAAAC
Found at i:136318 original size:18 final size:18
Alignment explanation
Indices: 136069--136308 Score: 163
Period size: 18 Copynumber: 12.7 Consensus size: 18
136059 AGTTTATATA
136069 TATAGTTCATATGTAAAC
1 TATAGTTCATATGTAAAC
136087 TATAGTTCATATGTAAATATTAAC
1 TATAGTTCATATG----TA--AAC
*
136111 TATAGTTTATATGTAAAC
1 TATAGTTCATATGTAAAC
*
136129 TATAGTT-AGTATATAAAC
1 TATAGTTCA-TATGTAAAC
* *
136147 TATATAGTTTATATACT-AAC
1 --TATAGTTCATAT-GTAAAC
* *
136167 TATAGTT-ATAAATATCAAC
1 TATAGTTCAT--ATGTAAAC
*
136186 TATAG-T-ATA--TATA-
1 TATAGTTCATATGTAAAC
*
136199 TATAGGTCATATGTAAAC
1 TATAGTTCATATGTAAAC
136217 TATATAGTTCATATGTAAAC
1 --TATAGTTCATATGTAAAC
136237 TATAGTTCATATGTAAAC
1 TATAGTTCATATGTAAAC
136255 TATAGTTCATATGTAAATATTAAC
1 TATAGTTCATATG----TA--AAC
*
136279 TATAGTTTATATGTAAAC
1 TATAGTTCATATGTAAAC
136297 TATAGTTCATAT
1 TATAGTTCATAT
136309 ATATAGTATA
Statistics
Matches: 185, Mismatches: 10, Indels: 54
0.74 0.04 0.22
Matches are distributed among these distances:
13 5 0.03
14 3 0.02
15 3 0.02
16 1 0.01
17 6 0.03
18 87 0.47
19 10 0.05
20 34 0.18
21 2 0.01
22 4 0.02
24 30 0.16
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (18 bp):
TATAGTTCATATGTAAAC
Found at i:136333 original size:20 final size:20
Alignment explanation
Indices: 136309--136382 Score: 85
Period size: 20 Copynumber: 3.5 Consensus size: 20
136299 TAGTTCATAT
136309 ATATAGTATATAAATATAAA
1 ATATAGTATATAAATATAAA
*
136329 CTATAGTTTATATAAATAGTATAAA
1 ATATAG--TATAT-AA-A-TATAAA
136354 ATATAGTATATAAATATAAA
1 ATATAGTATATAAATATAAA
*
136374 TTATAGTAT
1 ATATAGTAT
136383 GTAGTTTATA
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
20 19 0.41
21 1 0.02
22 7 0.15
23 7 0.15
24 1 0.02
25 11 0.24
ACGTcount: A:0.53, C:0.01, G:0.07, T:0.39
Consensus pattern (20 bp):
ATATAGTATATAAATATAAA
Found at i:136333 original size:33 final size:32
Alignment explanation
Indices: 136292--136358 Score: 107
Period size: 33 Copynumber: 2.1 Consensus size: 32
136282 AGTTTATATG
*
136292 TAAACTATAGTTCATATATATAGTATATAAATA
1 TAAACTATAGTTCATATAAATAGTATA-AAATA
*
136325 TAAACTATAGTTTATATAAATAGTATAAAATA
1 TAAACTATAGTTCATATAAATAGTATAAAATA
136357 TA
1 TA
136359 GTATATAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 7 0.22
33 25 0.78
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (32 bp):
TAAACTATAGTTCATATAAATAGTATAAAATA
Found at i:136335 original size:51 final size:51
Alignment explanation
Indices: 136219--136380 Score: 149
Period size: 45 Copynumber: 3.1 Consensus size: 51
136209 ATGTAAACTA
* *
136219 TATAGTTCATATGTAAACTATAGTTCATATGTAAACTATAGTTCATATGTAAATATTAAC
1 TATAGTTTATATGTAAACTATAGTTCATA--T--A-TATAG-T-ATA--TAAATATAAAC
136279 TATAGTTTATATGTAAACTATAGTTCATATATATAGTATATAAATATAAAC
1 TATAGTTTATATGTAAACTATAGTTCATATATATAGTATATAAATATAAAC
* *
136330 TATAGTTTATA--T-AA--ATAG-T-ATAAAATATAGTATATAAATATAAAT
1 TATAGTTTATATGTAAACTATAGTTCAT-ATATATAGTATATAAATATAAAC
136375 TATAGT
1 TATAGT
136381 ATGTAGTTTA
Statistics
Matches: 97, Mismatches: 4, Indels: 17
0.82 0.03 0.14
Matches are distributed among these distances:
44 2 0.02
45 28 0.29
46 4 0.04
48 2 0.02
49 1 0.01
51 21 0.22
53 3 0.03
54 1 0.01
55 5 0.05
56 1 0.01
58 1 0.01
60 28 0.29
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.41
Consensus pattern (51 bp):
TATAGTTTATATGTAAACTATAGTTCATATATATAGTATATAAATATAAAC
Found at i:136358 original size:25 final size:23
Alignment explanation
Indices: 136309--136369 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
136299 TAGTTCATAT
136309 ATATAGTATAT-AA-A-TATAAA
1 ATATAGTATATAAATAGTATAAA
*
136329 CTATAGTTTATATAAATAGTATAAA
1 ATATAG--TATATAAATAGTATAAA
136354 ATATAGTATATAAATA
1 ATATAGTATATAAATA
136370 TAAATTATAG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
20 5 0.15
22 5 0.15
23 12 0.35
24 1 0.03
25 11 0.32
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.38
Consensus pattern (23 bp):
ATATAGTATATAAATAGTATAAA
Found at i:136361 original size:12 final size:13
Alignment explanation
Indices: 136322--136371 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
136312 TAGTATATAA
136322 ATATAAACTATAGT
1 ATATAAA-TATAGT
*
136336 TTATATAA-ATAGT
1 ATATA-AATATAGT
136349 ATA-AAATATAGT
1 ATATAAATATAGT
136361 ATATAAATATA
1 ATATAAATATA
136372 AATTATAGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
11 2 0.06
12 9 0.29
13 14 0.45
14 4 0.13
15 2 0.06
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.38
Consensus pattern (13 bp):
ATATAAATATAGT
Found at i:136370 original size:29 final size:29
Alignment explanation
Indices: 136338--136406 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
136328 ACTATAGTTT
136338 ATATAAATAGTATAAAATATAG-TATATAA
1 ATATAAATA-TATAAAATATAGTTATATAA
** *
136367 ATATAAAT-TATAGTATGTAGTTTATATAA
1 ATATAAATATATAAAATATAG-TTATATAA
136396 ATATAAATATA
1 ATATAAATATA
136407 AACCCTAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
27 9 0.26
29 23 0.68
30 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (29 bp):
ATATAAATATATAAAATATAGTTATATAA
Found at i:136417 original size:7 final size:7
Alignment explanation
Indices: 136405--136475 Score: 97
Period size: 7 Copynumber: 9.9 Consensus size: 7
136395 AATATAAATA
136405 TAAACCC
1 TAAACCC
136412 TAAACCC
1 TAAACCC
136419 TAAACCC
1 TAAACCC
136426 TAAAACCC
1 T-AAACCC
136434 TAAAACCC
1 T-AAACCC
**
136442 TAAACAT
1 TAAACCC
136449 TAAACCC
1 TAAACCC
136456 TAAACCC
1 TAAACCC
*
136463 TAAACTC
1 TAAACCC
136470 TAAACC
1 TAAACC
136476 ATATATAATA
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
7 42 0.74
8 15 0.26
ACGTcount: A:0.46, C:0.37, G:0.00, T:0.17
Consensus pattern (7 bp):
TAAACCC
Found at i:136501 original size:22 final size:23
Alignment explanation
Indices: 136470--136531 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 23
136460 CCCTAAACTC
136470 TAAACCATATATAATATATA-T-A
1 TAAA-CATATATAATATATATTAA
*
136492 TAAAC-TATATAATTTATATTAA
1 TAAACATATATAATATATATTAA
*
136514 TAAAC-TATATAATTTATA
1 TAAACATATATAATATATA
136532 CAATATATTA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
20 12 0.32
21 2 0.05
22 23 0.62
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (23 bp):
TAAACATATATAATATATATTAA
Found at i:136700 original size:27 final size:28
Alignment explanation
Indices: 136654--136722 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 28
136644 ATATATAAAC
* * **
136654 TATATAGTATTATAGTTTATACATGGTA
1 TATATACTATTATACTTTATACATACTA
136682 TATATACT-TTATACTTTATACATACTA
1 TATATACTATTATACTTTATACATACTA
136709 TATATA-TATATATA
1 TATATACTAT-TATA
136723 TATATATATC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
26 1 0.03
27 23 0.66
28 11 0.31
ACGTcount: A:0.39, C:0.07, G:0.06, T:0.48
Consensus pattern (28 bp):
TATATACTATTATACTTTATACATACTA
Found at i:136714 original size:2 final size:2
Alignment explanation
Indices: 136707--136737 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
136697 TTATACATAC
*
136707 TA TA TA TA TA TA TA TA TA TA TA TA TC TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
136738 TAGTTGTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:137191 original size:216 final size:215
Alignment explanation
Indices: 136762--137363 Score: 928
Period size: 217 Copynumber: 2.8 Consensus size: 215
136752 TTTTCTCTCA
* * * * **
136762 ACTTATTACTTATTTATATTAATTAATTGTCCCATAACTTTTTAAATGAGTATAATTTAGTACAT
1 ACTTATTACTTATTTCTATT-TTTAATTGACCCATAACTTTTTAAATGGGTATAATTTAGTATTT
* * *
136827 TTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTTGATTTGAT--C-CAT---TTTGTGTT
65 TTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGTGTT
* *
136886 GTTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTAT
130 GTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAACTTAGTCCTCCAAATTTTAT
*
136951 TTGCACCTGAAATTGACCCAT
195 TTGCACATGAAATTGACCCAT
136972 ACTTATTACTTATTTCTATTTTTAAATTGACCCATAACTTTTTAAATGGGTATAATTTAGTATTT
1 ACTTATTACTTATTTCTATTTTT-AATTGACCCATAACTTTTTAAATGGGTATAATTTAGTATTT
* *
137037 TTTTGTATTAATTTCAACATCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGAGTGTT
65 TTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGTGTT
137102 GTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAACTTAGTCCTCCAAATTTTAT
130 GTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAACTTAGTCCTCCAAATTTTAT
* *
137167 TTGCATATGAAATTGATCCAT
195 TTGCACATGAAATTGACCCAT
* * * *
137188 ACTTATTACTTAATTCTATTTTTTTAATTGGCCTATACCTTTTTAAATGGGTATAATTTAGTATT
1 ACTTATTACTTATTTCTA--TTTTTAATTGACCCATAACTTTTTAAATGGGTATAATTTAGTATT
137253 TTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGTGT
64 TTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGTGT
**
137318 TGTTTAATTTATTTAAATTTTTATTTGTAATTTTTTATTTGTTCAA
129 TGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAA
137364 TTTAATTCTT
Statistics
Matches: 359, Mismatches: 24, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
209 2 0.01
210 100 0.28
212 1 0.00
213 3 0.01
216 104 0.29
217 144 0.40
218 5 0.01
ACGTcount: A:0.30, C:0.12, G:0.08, T:0.50
Consensus pattern (215 bp):
ACTTATTACTTATTTCTATTTTTAATTGACCCATAACTTTTTAAATGGGTATAATTTAGTATTTT
TTTGTATTAATTTCAACCTCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGTGTTG
TTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAACTTAGTCCTCCAAATTTTATT
TGCACATGAAATTGACCCAT
Done.