Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 46 of 126
Found at i:9053202 original size:26 final size:26
Alignment explanation
Indices: 9053173--9053234 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 26
9053163 CCACCATCCT
* * *
9053173 AACCTTAAACCTCTATCCAAACCCAA
1 AACCCTAAACCACCATCCAAACCCAA
* * *
9053199 AACCCTAAATCACCATTCAAACCCTA
1 AACCCTAAACCACCATCCAAACCCAA
9053225 AACCCTAAAC
1 AACCCTAAAC
9053235 TAAACCTTAA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.44, C:0.39, G:0.00, T:0.18
Consensus pattern (26 bp):
AACCCTAAACCACCATCCAAACCCAA
Found at i:9053229 original size:7 final size:7
Alignment explanation
Indices: 9053217--9053468 Score: 63
Period size: 7 Copynumber: 39.6 Consensus size: 7
9053207 ATCACCATTC
9053217 AAACCCT
1 AAACCCT
9053224 AAACCCT
1 AAACCCT
9053231 AAA--CT
1 AAACCCT
*
9053236 AAACCTT
1 AAACCCT
9053243 AAA-CC-
1 AAACCCT
*
9053248 -ACCACCT
1 AAAC-CCT
**
9053255 AAACTTT
1 AAACCCT
9053262 AAACCCT
1 AAACCCT
9053269 -AA-CCT
1 AAACCCT
*
9053274 AGACCCT
1 AAACCCT
9053281 AAA--CT
1 AAACCCT
*
9053286 -AACCTT
1 AAACCCT
*
9053292 AAGCCCT
1 AAACCCT
9053299 AAA--CT
1 AAACCCT
9053304 AAACCCT
1 AAACCCT
*
9053311 AAA-GCT
1 AAACCCT
*
9053317 TAA-CCT
1 AAACCCT
*
9053323 AGACCCT
1 AAACCCT
9053330 AAA--CT
1 AAACCCT
*
9053335 -AACCAT
1 AAACCCT
9053341 AAACCCT
1 AAACCCT
9053348 AAA-CC-
1 AAACCCT
**
9053353 AAATGCT
1 AAACCCT
*
9053360 AAACCCC
1 AAACCCT
**
9053367 AAATTC-
1 AAACCCT
*
9053373 AAAACCT
1 AAACCCT
*
9053380 AAACCTT
1 AAACCCT
9053387 AAACCCT
1 AAACCCT
*
9053394 AAA--TT
1 AAACCCT
*
9053399 AAACCTT
1 AAACCCT
9053406 AAA-CC-
1 AAACCCT
*
9053411 AAACCTT
1 AAACCCT
**
9053418 AAACTTT
1 AAACCCT
9053425 AAACCCT
1 AAACCCT
*
9053432 AAACCTT
1 AAACCCT
9053439 AAA-CCT
1 AAACCCT
**
9053445 CAAAATCT
1 -AAACCCT
9053453 AAA-CC-
1 AAACCCT
9053458 AAACCCT
1 AAACCCT
9053465 AAAC
1 AAAC
9053469 TTTCTCAAAC
Statistics
Matches: 174, Mismatches: 43, Indels: 56
0.64 0.16 0.21
Matches are distributed among these distances:
4 5 0.03
5 30 0.17
6 29 0.17
7 106 0.61
8 4 0.02
ACGTcount: A:0.46, C:0.33, G:0.02, T:0.19
Consensus pattern (7 bp):
AAACCCT
Found at i:9053239 original size:12 final size:12
Alignment explanation
Indices: 9053222--9053435 Score: 64
Period size: 12 Copynumber: 17.1 Consensus size: 12
9053212 CATTCAAACC
9053222 CTAAACCCTAAA
1 CTAAACCCTAAA
*
9053234 CTAAACCTTAAA
1 CTAAACCCTAAA
* *
9053246 C-CACCACCTAAA
1 CTAAAC-CCTAAA
*
9053258 CTTTAAACCCTAAC
1 C--TAAACCCTAAA
*
9053272 CTAGACCCTAAA
1 CTAAACCCTAAA
* *
9053284 CT-AACCTTAAGCC
1 CTAAACCCTAA--A
9053297 CTAAA--CTAAA
1 CTAAACCCTAAA
* * *
9053307 CCCTAAAGCTTAAC
1 --CTAAACCCTAAA
*
9053321 CTAGACCCTAAA
1 CTAAACCCTAAA
*
9053333 CT-AACCATAAA
1 CTAAACCCTAAA
9053344 CCCTAAA-CC-AAA
1 --CTAAACCCTAAA
*
9053356 TGCTAAACCCCAAA
1 --CTAAACCCTAAA
* *
9053370 TTCAAAACCTAAA
1 CT-AAACCCTAAA
9053383 CCTTAAACCCTAAA
1 -C-TAAACCCTAAA
* *
9053397 TTAAACCTTAAA
1 CTAAACCCTAAA
* *
9053409 CCAAACCTTAAA
1 CTAAACCCTAAA
9053421 CTTTAAACCCTAAA
1 C--TAAACCCTAAA
9053435 C
1 C
9053436 CTTAAACCTC
Statistics
Matches: 145, Mismatches: 36, Indels: 40
0.66 0.16 0.18
Matches are distributed among these distances:
11 15 0.10
12 77 0.53
13 15 0.10
14 35 0.24
15 3 0.02
ACGTcount: A:0.45, C:0.33, G:0.02, T:0.20
Consensus pattern (12 bp):
CTAAACCCTAAA
Found at i:9053239 original size:19 final size:19
Alignment explanation
Indices: 9053217--9053468 Score: 79
Period size: 19 Copynumber: 12.6 Consensus size: 19
9053207 ATCACCATTC
9053217 AAACCCTAAACCCTAAACT
1 AAACCCTAAACCCTAAACT
*
9053236 AAACCTTAAACCACCACCTAAACTTT
1 AAACCCT-AA--A-C-CCTAAAC--T
9053262 AAACCCTAACCTAGACCCTAAACT
1 AAACCCT-A---A-ACCCTAAACT
* *
9053286 -AACCTTAAGCCCTAAACT
1 AAACCCTAAACCCTAAACT
* * *
9053304 AAACCCTAAAGCTTAACCT
1 AAACCCTAAACCCTAAACT
* *
9053323 AGACCCTAAA--CTAACCAT
1 AAACCCTAAACCCTAAAC-T
9053341 AAACCCTAAA-CC-AAATGCT
1 AAACCCTAAACCCTAAA--CT
* ** *
9053360 AAACCCCAAATTCAAAACCT
1 AAACCCTAAACCCTAAA-CT
* *
9053380 AAACCTTAAACCCTAAATT
1 AAACCCTAAACCCTAAACT
*
9053399 AAACCTTAAA-CC-AAACCTT
1 AAACCCTAAACCCTAAA-C-T
**
9053418 AAACTTTAAACCCTAAACCTT
1 AAACCCTAAACCCTAAA-C-T
** *
9053439 AAA-CCTCAAAATCTAAACC
1 AAACCCT-AAACCCTAAACT
9053458 AAACCCTAAAC
1 AAACCCTAAAC
9053469 TTTCTCAAAC
Statistics
Matches: 179, Mismatches: 31, Indels: 46
0.70 0.12 0.18
Matches are distributed among these distances:
17 8 0.04
18 23 0.13
19 67 0.37
20 25 0.14
21 21 0.12
22 2 0.01
23 6 0.03
24 8 0.04
26 16 0.09
27 1 0.01
28 1 0.01
29 1 0.01
ACGTcount: A:0.46, C:0.33, G:0.02, T:0.19
Consensus pattern (19 bp):
AAACCCTAAACCCTAAACT
Found at i:9053240 original size:38 final size:38
Alignment explanation
Indices: 9053198--9053284 Score: 95
Period size: 38 Copynumber: 2.3 Consensus size: 38
9053188 TCCAAACCCA
* *
9053198 AAACCCTAAATCACCA-TTCAAACCCTAAACCCTAAACT
1 AAACCCTAAACCACCACCT-AAACCCTAAACCCTAAACT
* ** *
9053236 AAACCTTAAACCACCACCTAAACTTTAAACCCTAACCT
1 AAACCCTAAACCACCACCTAAACCCTAAACCCTAAACT
*
9053274 AGACCCTAAAC
1 AAACCCTAAAC
9053285 TAACCTTAAG
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
38 39 0.98
39 1 0.03
ACGTcount: A:0.44, C:0.37, G:0.01, T:0.18
Consensus pattern (38 bp):
AAACCCTAAACCACCACCTAAACCCTAAACCCTAAACT
Found at i:9053299 original size:30 final size:32
Alignment explanation
Indices: 9053260--9053336 Score: 97
Period size: 30 Copynumber: 2.5 Consensus size: 32
9053250 CACCTAAACT
* *
9053260 TTAAACCCTAACCTAGACCCTAAA-C-TAACC
1 TTAAACCCTAAACTAAACCCTAAAGCTTAACC
*
9053290 TTAAGCCCTAAACTAAACCCTAAAGCTTAACC
1 TTAAACCCTAAACTAAACCCTAAAGCTTAACC
*
9053322 -TAGACCCTAAACTAA
1 TTAAACCCTAAACTAA
9053337 CCATAAACCC
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
30 21 0.52
31 14 0.35
32 5 0.12
ACGTcount: A:0.42, C:0.32, G:0.05, T:0.21
Consensus pattern (32 bp):
TTAAACCCTAAACTAAACCCTAAAGCTTAACC
Found at i:9053348 original size:18 final size:18
Alignment explanation
Indices: 9053302--9053351 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 18
9053292 AAGCCCTAAA
9053302 CTAAACCCTAAAGCTTAAC
1 CTAAACCCTAAA-CTTAAC
*
9053321 CTAGACCCTAAAC-TAAC
1 CTAAACCCTAAACTTAAC
9053338 CATAAACCCTAAAC
1 C-TAAACCCTAAAC
9053352 CAAATGCTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 5 0.18
18 12 0.43
19 11 0.39
ACGTcount: A:0.44, C:0.34, G:0.04, T:0.18
Consensus pattern (18 bp):
CTAAACCCTAAACTTAAC
Found at i:9053461 original size:26 final size:26
Alignment explanation
Indices: 9053358--9053468 Score: 86
Period size: 26 Copynumber: 4.2 Consensus size: 26
9053348 AAACCAAATG
* * *
9053358 CTAAACCCCAAATTCAAAACCTAAAC
1 CTAAACCTCAAAATCTAAACCTAAAC
*
9053384 CTTAAACC-CTAAAT-TAAACCTTAAAC
1 C-TAAACCTCAAAATCTAAACC-TAAAC
* * *
9053410 C-AAACCTTAAACTTTAAACCCTAAAC
1 CTAAACCTCAAAATCTAAA-CCTAAAC
9053436 CTTAAACCTCAAAATCTAAACC-AAACC
1 C-TAAACCTCAAAATCTAAACCTAAA-C
9053463 CTAAAC
1 CTAAAC
9053469 TTTCTCAAAC
Statistics
Matches: 68, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
24 5 0.07
25 8 0.12
26 29 0.43
27 12 0.18
28 14 0.21
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.21
Consensus pattern (26 bp):
CTAAACCTCAAAATCTAAACCTAAAC
Found at i:9057102 original size:23 final size:23
Alignment explanation
Indices: 9057076--9057129 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
9057066 AACTATATGA
9057076 GGCAAGTGATGCACGATGCAAAG
1 GGCAAGTGATGCACGATGCAAAG
9057099 GGCAAGTGATGCACGATGCAAAG
1 GGCAAGTGATGCACGATGCAAAG
*
9057122 GCCAAGTG
1 GGCAAGTG
9057130 TATTCTCTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.33, C:0.19, G:0.35, T:0.13
Consensus pattern (23 bp):
GGCAAGTGATGCACGATGCAAAG
Found at i:9061758 original size:58 final size:58
Alignment explanation
Indices: 9061668--9062054 Score: 392
Period size: 58 Copynumber: 6.6 Consensus size: 58
9061658 TTTGTACAAG
* *
9061668 GGAAAATTGATACTTTCAACCATTTTC-CAAAATATTTTTTTTGAAATTTTAATTTCGA
1 GGAAAATTGATACTTTCAA-CTTTTTCTCAAAATATTTTTTTTGAAATTTTAATTTCAA
* * *
9061726 GGAAAATTAATACTTTCAACTTTTTCTCAAAATA-TTTTTTTGAAAACTTTAATTTCGA
1 GGAAAATTGATACTTTCAACTTTTTCTCAAAATATTTTTTTTG-AAATTTTAATTTCAA
* * * * *
9061784 GGAAAATTGATACTTTCAAC-TTTTCTAAAAAAAAAACCTTTTTTTGAAAATTT-ATTTTAA
1 GGAAAATTGATACTTTCAACTTTTTCT---CAAAATA-TTTTTTTTGAAATTTTAATTTCAA
* * * *
9061844 GAAAAATTGATACTTTTAACTTATTT-TCAAAA-ATATTTTTTGGAAACTTTTAATTTCGA
1 GGAAAATTGATACTTTCAACTT-TTTCTCAAAATAT-TTTTTTTGAAA-TTTTAATTTCAA
* * * * * *
9061903 GAAAAATTGATACTTTCAAATTTTTCTCAAAATCTTTTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTTCTCAAAAT-ATTTTTTTTGAAATTTTAATTTCAA
* *
9061962 GAAAAATTGATACTTTCAACTTTTTTTCAAAA-ATATTTTTTTGAAAAACTTTTAATTTCAA
1 GGAAAATTGATACTTTCAACTTTTTCTCAAAATAT-TTTTTTTG--AAA-TTTTAATTTCAA
*
9062023 GGAAAATTGATACTTTCAACTTTTCCTCAAAA
1 GGAAAATTGATACTTTCAACTTTTTCTCAAAA
9062055 ATAATTTTAT
Statistics
Matches: 276, Mismatches: 34, Indels: 35
0.80 0.10 0.10
Matches are distributed among these distances:
57 32 0.12
58 76 0.28
59 69 0.25
60 41 0.15
61 47 0.17
62 11 0.04
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.45
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTTCTCAAAATATTTTTTTTGAAATTTTAATTTCAA
Found at i:9061917 original size:119 final size:116
Alignment explanation
Indices: 9061668--9062047 Score: 466
Period size: 118 Copynumber: 3.2 Consensus size: 116
9061658 TTTGTACAAG
* * * ** *
9061668 GGAAAATTGATACTTTCAACCATTTTCCAAAATA-T-TTTTTTTGAAATTTTAATTTCGAGGAAA
1 GGAAAATTGATACTTTCAA-C-TTTTCTAAAAAACTCTTTTTTTGAAAATTT-ATTTTAAGAAAA
*
9061731 ATTAATACTTTCAACTTTTTCTC-AAAATATTTTTTTGAAAAC-TTTAATTTCGA
63 ATTGATACTTTCAACTTTTT-TCAAAAATATTTTTTTGAAAACTTTTAATTTCGA
9061784 GGAAAATTGATACTTTCAACTTTTCTAAAAAAAAAAC-CTTTTTTTGAAAATTTATTTTAAGAAA
1 GGAAAATTGATACTTTCAACTTTTCT----AAAAAACTCTTTTTTTGAAAATTTATTTTAAGAAA
* *
9061848 AATTGATACTTTTAACTTATTTTCAAAAATA-TTTTTTGGAAACTTTTAATTTCGA
62 AATTGATACTTTCAACTT-TTTTCAAAAATATTTTTTTGAAAACTTTTAATTTCGA
* * * * *
9061903 GAAAAATTGATACTTTCAAATTTTTCTCAAAATCTTTTTTTTTGAAAATTTATTTTTAAGAAAAA
1 GGAAAATTGATACTTTC-AACTTTTCTAAAAAACTCTTTTTTTGAAAATTTA-TTTTAAGAAAAA
*
9061968 TTGATACTTTCAACTTTTTTTCAAAAATATTTTTTTGAAAAACTTTTAATTTCAA
64 TTGATACTTTCAAC-TTTTTTCAAAAATATTTTTTTG-AAAACTTTTAATTTCGA
9062023 GGAAAATTGATACTTTCAACTTTTC
1 GGAAAATTGATACTTTCAACTTTTC
9062048 CTCAAAAATA
Statistics
Matches: 230, Mismatches: 19, Indels: 27
0.83 0.07 0.10
Matches are distributed among these distances:
114 5 0.02
115 1 0.00
116 24 0.10
117 16 0.07
118 79 0.34
119 66 0.29
120 39 0.17
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.45
Consensus pattern (116 bp):
GGAAAATTGATACTTTCAACTTTTCTAAAAAACTCTTTTTTTGAAAATTTATTTTAAGAAAAATT
GATACTTTCAACTTTTTTCAAAAATATTTTTTTGAAAACTTTTAATTTCGA
Found at i:9063013 original size:17 final size:16
Alignment explanation
Indices: 9062986--9063018 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
9062976 AATCTTCAAC
9062986 TAAAAAAAAATAAAAA
1 TAAAAAAAAATAAAAA
9063002 TAAAAAATAAATAAAAA
1 TAAAAAA-AAATAAAAA
9063019 ACATTAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (16 bp):
TAAAAAAAAATAAAAA
Found at i:9063098 original size:14 final size:14
Alignment explanation
Indices: 9063081--9063130 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
9063071 ATAAATTAAC
9063081 AATAATAATAGATA
1 AATAATAATAGATA
9063095 AATAATAATA-A-A
1 AATAATAATAGATA
*
9063107 TAT-ATAACTAGATA
1 AATAATAA-TAGATA
*
9063121 AATAAAAATA
1 AATAATAATA
9063131 TATATATATG
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
11 4 0.14
12 5 0.17
13 2 0.07
14 15 0.52
15 3 0.10
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (14 bp):
AATAATAATAGATA
Found at i:9063130 original size:26 final size:25
Alignment explanation
Indices: 9063081--9063138 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
9063071 ATAAATTAAC
*
9063081 AATA-ATAATAGATAAATAATAATA
1 AATATATAATAGATAAATAAAAATA
9063105 AATATATAACTAGATAAATAAAAATA
1 AATATATAA-TAGATAAATAAAAATA
*
9063131 TATATATA
1 AATATATA
9063139 TGAATATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 4 0.13
25 4 0.13
26 22 0.73
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (25 bp):
AATATATAATAGATAAATAAAAATA
Found at i:9063180 original size:15 final size:15
Alignment explanation
Indices: 9063150--9063179 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
9063140 GAATATTAAC
9063150 AGAAAAGAAAGAAAA
1 AGAAAAGAAAGAAAA
9063165 AGAAAAG-AAGAAAA
1 AGAAAAGAAAGAAAA
9063179 A
1 A
9063180 AATAAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (15 bp):
AGAAAAGAAAGAAAA
Found at i:9063188 original size:4 final size:4
Alignment explanation
Indices: 9063179--9063323 Score: 56
Period size: 4 Copynumber: 36.8 Consensus size: 4
9063169 AAGAAGAAAA
* * * *
9063179 AAAT AAAT AAAT AAAG AGATAT ATAT ATAT TAAT AAAT AGTAAT -AAT
1 AAAT AAAT AAAT AAAT A-A-AT AAAT AAAT AAAT AAAT A--AAT AAAT
* * * * *
9063226 AAAT AAAT AAAT -AAT AAAT ACAT AAA- AGAT AAAGA AAAT ATAT ATATT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA-T AAAT AAAT A-AAT
* * *
9063274 AAAT ATA- AAAT AAAT ATA- AAAT ATA- AAAT ACAA- AAAT -AAT AAA-
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A-AAT AAAT AAAT AAAT
9063317 AAAT AAA
1 AAAT AAA
9063324 GTGGACCAAC
Statistics
Matches: 103, Mismatches: 22, Indels: 32
0.66 0.14 0.20
Matches are distributed among these distances:
3 22 0.21
4 68 0.66
5 8 0.08
6 5 0.05
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.27
Consensus pattern (4 bp):
AAAT
Found at i:9063241 original size:7 final size:7
Alignment explanation
Indices: 9063209--9063251 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
9063199 ATATATATAT
9063209 TAATAAA
1 TAATAAA
*
9063216 TAGT-AA
1 TAATAAA
9063222 TAATAAA
1 TAATAAA
9063229 TAAATAAA
1 T-AATAAA
9063237 TAATAAA
1 TAATAAA
9063244 TACATAAA
1 TA-ATAAA
9063252 AGATAAAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
6 5 0.16
7 14 0.45
8 12 0.39
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (7 bp):
TAATAAA
Found at i:9063314 original size:18 final size:18
Alignment explanation
Indices: 9063269--9063303 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9063259 GAAAATATAT
*
9063269 ATATTAAATATAAAATAA
1 ATATAAAATATAAAATAA
9063287 ATATAAAATATAAAATA
1 ATATAAAATATAAAATA
9063304 CAAAAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
ATATAAAATATAAAATAA
Found at i:9063574 original size:45 final size:43
Alignment explanation
Indices: 9063501--9063757 Score: 272
Period size: 42 Copynumber: 5.9 Consensus size: 43
9063491 TTTGATCAAG
* *
9063501 GCTCCTCTAAGCAGAGGCTCAATGACTTTGAAAAACATAAACAAA
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAA-ATAAA-AAA
* *
9063546 GCCCCTCTAATCAGAGGCTCAACAACTTTGAAAATGAATAAACAAA
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAA--AATAAA-AAA
* * **
9063592 TGCTCCTCTAATCAGAGGCTCAACGATTTTGGAAAAAT-AAATG
1 -GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAAAAA
* *
9063635 GCTCCTCTAATCAGAGGCTTAACGATTTTG-AAAAATAAATAAA
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAA-AAA
* * **
9063678 GCTCCTCTAATCAGAGGCTCAACAAC-TTGGAAAAAT-AAATG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAAAAA
* *
9063719 GCTCCTCTAATCAGAGGCTCAATGATTTTG-AAAAATAAA
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAA
9063758 TTACTCCTTG
Statistics
Matches: 183, Mismatches: 21, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
41 36 0.20
42 41 0.22
43 31 0.17
44 2 0.01
45 33 0.18
46 9 0.05
47 31 0.17
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (43 bp):
GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAAAAA
Found at i:9063668 original size:41 final size:41
Alignment explanation
Indices: 9063500--9063758 Score: 259
Period size: 41 Copynumber: 6.0 Consensus size: 41
9063490 ATTTGATCAA
* * * *
9063500 GGCTCCTCTAAGCAGAGGCTCAATGACTTTGAAAAACATAAACAA
1 GGCTCCTCTAATCAGAGGCTCAACGATTTTG-AAAA-AT-AA-AT
* * * *
9063545 AGCCCCTCTAATCAGAGGCTCAACAACTTTGAAAATGAATAAACAAAT
1 GGCTCCTCTAATCAGAGGCTCAACGA-TTT-----TGAA-AAATAAAT
9063593 -GCTCCTCTAATCAGAGGCTCAACGATTTTGGAAAAATAAAT
1 GGCTCCTCTAATCAGAGGCTCAACGATTTT-GAAAAATAAAT
*
9063634 GGCTCCTCTAATCAGAGGCTTAACGATTTTGAAAAATAAAT
1 GGCTCCTCTAATCAGAGGCTCAACGATTTTGAAAAATAAAT
* * * *
9063675 AAAGCTCCTCTAATCAGAGGCTCAACAACTTGGAAAAATAAAT
1 --GGCTCCTCTAATCAGAGGCTCAACGATTTTGAAAAATAAAT
*
9063718 GGCTCCTCTAATCAGAGGCTCAATGATTTTGAAAAATAAAT
1 GGCTCCTCTAATCAGAGGCTCAACGATTTTGAAAAATAAAT
9063759 TACTCCTTGA
Statistics
Matches: 181, Mismatches: 22, Indels: 26
0.79 0.10 0.11
Matches are distributed among these distances:
41 55 0.30
42 31 0.17
43 36 0.20
45 21 0.12
46 5 0.03
47 23 0.13
48 1 0.01
49 2 0.01
50 3 0.02
51 4 0.02
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (41 bp):
GGCTCCTCTAATCAGAGGCTCAACGATTTTGAAAAATAAAT
Found at i:9063727 original size:84 final size:86
Alignment explanation
Indices: 9063549--9063758 Score: 316
Period size: 84 Copynumber: 2.4 Consensus size: 86
9063539 AAACAAAGCC
* * *
9063549 CCTCTAATCAGAGGCTCAACAACTTTGAAAATGAATAAACAAATGCTCCTCTAATCAGAGGCTCA
1 CCTCTAATCAGAGGCTCAACGATTTTG-AAA--AATAAATAAATGCTCCTCTAATCAGAGGCTCA
**
9063614 ACGATTTTGGAAAAATAAATGGCT
63 ACGAACTTGGAAAAATAAATGGCT
*
9063638 CCTCTAATCAGAGGCTTAACGATTTTGAAAAATAAATAAA-GCTCCTCTAATCAGAGGCTCAAC-
1 CCTCTAATCAGAGGCTCAACGATTTTGAAAAATAAATAAATGCTCCTCTAATCAGAGGCTCAACG
9063701 AACTTGGAAAAATAAATGGCT
66 AACTTGGAAAAATAAATGGCT
*
9063722 CCTCTAATCAGAGGCTCAATGATTTTGAAAAATAAAT
1 CCTCTAATCAGAGGCTCAACGATTTTGAAAAATAAAT
9063759 TACTCCTTGA
Statistics
Matches: 113, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
84 54 0.48
85 23 0.20
86 9 0.08
88 3 0.03
89 24 0.21
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (86 bp):
CCTCTAATCAGAGGCTCAACGATTTTGAAAAATAAATAAATGCTCCTCTAATCAGAGGCTCAACG
AACTTGGAAAAATAAATGGCT
Found at i:9075287 original size:6 final size:6
Alignment explanation
Indices: 9075259--9075331 Score: 55
Period size: 6 Copynumber: 12.2 Consensus size: 6
9075249 TTTTATTAAA
* *
9075259 AAAAAT -AAAAT AATAAA- ATAAAAT AAAAAT AATAAA- AATAAAG ATAAAT
1 AAAAAT AAAAAT AA-AAAT A-AAAAT AAAAAT AA-AAAT AA-AAAT AAAAAT
*
9075308 AAAAA- ATAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT A
9075332 TTAAACAATT
Statistics
Matches: 55, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
5 9 0.16
6 37 0.67
7 9 0.16
ACGTcount: A:0.79, C:0.00, G:0.01, T:0.19
Consensus pattern (6 bp):
AAAAAT
Found at i:9075289 original size:42 final size:42
Alignment explanation
Indices: 9075255--9075336 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
9075245 ATAATTTTAT
9075255 TAAA-AAAAATAAAATAATAAA-ATAAAATAAAAATAATAAAAA
1 TAAAGAAAAATAAAA-AATAAATA-AAAATAAAAATAATAAAAA
* *
9075297 TAAAGATAAATAAAAAATAAATAAAAATAAAAATATTAAA
1 TAAAGAAAAATAAAAAATAAATAAAAATAAAAATAATAAA
9075337 CAATTCTGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
42 26 0.72
43 10 0.28
ACGTcount: A:0.78, C:0.00, G:0.01, T:0.21
Consensus pattern (42 bp):
TAAAGAAAAATAAAAAATAAATAAAAATAAAAATAATAAAAA
Found at i:9075292 original size:27 final size:26
Alignment explanation
Indices: 9075255--9075327 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 26
9075245 ATAATTTTAT
*
9075255 TAAAAAAAATAAAATAATAAA-ATAAAA
1 TAAAAATAATAAAA-AATAAAGAT-AAA
9075282 TAAAAATAAT-AAAAATAAAGATAAA
1 TAAAAATAATAAAAAATAAAGATAAA
9075307 TAAAAAATAA-ATAAAAATAAA
1 T-AAAAATAATA-AAAAATAAA
9075328 AATATTAAAC
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
25 10 0.24
26 13 0.32
27 18 0.44
ACGTcount: A:0.79, C:0.00, G:0.01, T:0.19
Consensus pattern (26 bp):
TAAAAATAATAAAAAATAAAGATAAA
Found at i:9075295 original size:36 final size:36
Alignment explanation
Indices: 9075259--9075326 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
9075249 TTTTATTAAA
*
9075259 AAAAATAAA-AT-AATAAAATA-AAATAAAAATAAT
1 AAAAATAAAGATAAATAAAAAATAAATAAAAATAAT
9075292 AAAAATAAAGATAAATAAAAAATAAATAAAAATAA
1 AAAAATAAAGATAAATAAAAAATAAATAAAAATAA
9075327 AAATATTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
33 9 0.29
34 2 0.06
35 8 0.26
36 12 0.39
ACGTcount: A:0.79, C:0.00, G:0.01, T:0.19
Consensus pattern (36 bp):
AAAAATAAAGATAAATAAAAAATAAATAAAAATAAT
Found at i:9075326 original size:33 final size:33
Alignment explanation
Indices: 9075259--9075331 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 33
9075249 TTTTATTAAA
*
9075259 AAAAATAAAATAATAAAATAAAATAAAAATAAT
1 AAAAATAAAATAATAAAATAAAATAAAAAAAAT
*
9075292 AAAAATAAAGATAA-ATAA-AAAATAAATAAAAAT
1 AAAAATAAA-ATAATAAAATAAAATAAA-AAAAAT
9075325 AAAAATA
1 AAAAATA
9075332 TTAAACAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
32 8 0.22
33 24 0.67
34 4 0.11
ACGTcount: A:0.79, C:0.00, G:0.01, T:0.19
Consensus pattern (33 bp):
AAAAATAAAATAATAAAATAAAATAAAAAAAAT
Found at i:9075336 original size:15 final size:14
Alignment explanation
Indices: 9075265--9075332 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 14
9075255 TAAAAAAAAT
9075265 AAAATAATAAA-AT-
1 AAAATAA-AAATATA
9075278 AAAATAAAAATAATA
1 AAAATAAAAAT-ATA
*
9075293 AAAATAAAGATA-A
1 AAAATAAAAATATA
9075306 ATAAA-AAATAA-ATA
1 A-AAATAAA-AATATA
9075320 AAAATAAAAATAT
1 AAAATAAAAATAT
9075333 TAAACAATTC
Statistics
Matches: 45, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
12 3 0.07
13 18 0.40
14 14 0.31
15 10 0.22
ACGTcount: A:0.78, C:0.00, G:0.01, T:0.21
Consensus pattern (14 bp):
AAAATAAAAATATA
Found at i:9076275 original size:14 final size:14
Alignment explanation
Indices: 9076258--9076307 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
9076248 ATAAATTAAC
9076258 AATAATAATAGATA
1 AATAATAATAGATA
9076272 AATAATAATA-A-A
1 AATAATAATAGATA
*
9076284 TAT-ATAACTAGATA
1 AATAATAA-TAGATA
*
9076298 AATAAAAATA
1 AATAATAATA
9076308 TATATGAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
11 4 0.14
12 5 0.17
13 2 0.07
14 15 0.52
15 3 0.10
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (14 bp):
AATAATAATAGATA
Found at i:9076307 original size:26 final size:25
Alignment explanation
Indices: 9076258--9076312 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 25
9076248 ATAAATTAAC
*
9076258 AATA-ATAATAGATAAATAATAATA
1 AATATATAATAGATAAATAAAAATA
9076282 AATATATAACTAGATAAATAAAAATA
1 AATATATAA-TAGATAAATAAAAATA
*
9076308 TATAT
1 AATAT
9076313 GAATATTAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 4 0.15
25 4 0.15
26 19 0.70
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.31
Consensus pattern (25 bp):
AATATATAATAGATAAATAAAAATA
Found at i:9076347 original size:12 final size:13
Alignment explanation
Indices: 9076325--9076353 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
9076315 ATATTAACAG
9076325 AAAAAGAAAGAAA
1 AAAAAGAAAGAAA
9076338 AAAAAG-AAGAAA
1 AAAAAGAAAGAAA
9076350 AAAA
1 AAAA
9076354 TAAATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAGAAA
Found at i:9076408 original size:8 final size:7
Alignment explanation
Indices: 9076352--9076457 Score: 60
Period size: 7 Copynumber: 14.9 Consensus size: 7
9076342 AGAAGAAAAA
9076352 AATAAAT
1 AATAAAT
*
9076359 ATATATATT
1 A-ATA-AAT
9076368 AATAAAT
1 AATAAAT
*
9076375 AGT-AAT
1 AATAAAT
9076381 AATAAAT
1 AATAAAT
9076388 AAGTAAAT
1 AA-TAAAT
9076396 AATAAAT
1 AATAAAT
9076403 ACATAAA-
1 A-ATAAAT
*
9076410 AGATAAAG
1 A-ATAAAT
*
9076418 AAAAAAT
1 AATAAAT
*
9076425 -ATATAT
1 AATAAAT
*
9076431 ATATATAT
1 A-ATAAAT
9076439 AATATAA-
1 AATA-AAT
9076446 AATAAAT
1 AATAAAT
9076453 -ATAAA
1 AATAAA
9076458 ATATAAAATA
Statistics
Matches: 79, Mismatches: 10, Indels: 21
0.72 0.09 0.19
Matches are distributed among these distances:
6 16 0.20
7 33 0.42
8 27 0.34
9 3 0.04
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (7 bp):
AATAAAT
Found at i:9076478 original size:18 final size:19
Alignment explanation
Indices: 9076350--9076467 Score: 65
Period size: 18 Copynumber: 6.3 Consensus size: 19
9076340 AAAGAAGAAA
9076350 AAAATAAATAT-AT-ATAT
1 AAAATAAATATAATAATAT
*
9076367 -TAATAAATAGTAATAATA-
1 AAAATAAATA-TAATAATAT
9076385 AATAAGTAAATAATAAATACATA-
1 AA-AA-TAAAT-AT-AATA-ATAT
* *
9076408 AAAGATAAAGA-AAAAATAT
1 AAA-ATAAATATAATAATAT
* *
9076427 -ATATATATAT-ATAATAT
1 AAAATAAATATAATAATAT
9076444 AAAATAAATATAA-AATAT
1 AAAATAAATATAATAATAT
9076462 AAAATA
1 AAAATA
9076468 CAAAAATAAT
Statistics
Matches: 77, Mismatches: 10, Indels: 27
0.68 0.09 0.24
Matches are distributed among these distances:
16 8 0.10
17 12 0.16
18 25 0.32
19 7 0.09
20 2 0.03
21 7 0.09
22 10 0.13
23 6 0.08
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (19 bp):
AAAATAAATATAATAATAT
Found at i:9076478 original size:25 final size:24
Alignment explanation
Indices: 9076392--9076483 Score: 64
Period size: 25 Copynumber: 3.8 Consensus size: 24
9076382 ATAAATAAGT
* * *
9076392 AAATAATAAAT-ACATAAAAGAT-
1 AAATAAAAAATAATATAAAATATA
* *
9076414 AAAGAAAAAAT-ATATATATATATA
1 AAATAAAAAATAATATA-AAATATA
* *
9076438 TAATATAAAATAAATATAAAATATA
1 AAATAAAAAAT-AATATAAAATATA
*
9076463 AAATACAAAAATAATAGAAAA
1 AAATA-AAAAATAATATAAAA
9076484 CAAAGTGGAC
Statistics
Matches: 53, Mismatches: 12, Indels: 7
0.74 0.17 0.10
Matches are distributed among these distances:
22 13 0.25
23 4 0.08
24 8 0.15
25 18 0.34
26 10 0.19
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (24 bp):
AAATAAAAAATAATATAAAATATA
Found at i:9087213 original size:16 final size:16
Alignment explanation
Indices: 9087194--9087228 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
9087184 TATCATAACA
*
9087194 TATCTTTAACAATTGG
1 TATCCTTAACAATTGG
9087210 TATCCTTAACAATTGG
1 TATCCTTAACAATTGG
9087226 TAT
1 TAT
9087229 GAGCTTGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.43
Consensus pattern (16 bp):
TATCCTTAACAATTGG
Found at i:9090002 original size:12 final size:12
Alignment explanation
Indices: 9089987--9090027 Score: 73
Period size: 12 Copynumber: 3.4 Consensus size: 12
9089977 AGAGCATGTT
9089987 TAAGATATTCCA
1 TAAGATATTCCA
*
9089999 TAAGATGTTCCA
1 TAAGATATTCCA
9090011 TAAGATATTCCA
1 TAAGATATTCCA
9090023 TAAGA
1 TAAGA
9090028 AGGCCTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (12 bp):
TAAGATATTCCA
Found at i:9093423 original size:19 final size:19
Alignment explanation
Indices: 9093399--9093446 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
9093389 AAAGGACTAT
9093399 ATTAAAATATTTGTCCACA
1 ATTAAAATATTTGTCCACA
* * *
9093418 ATT-AAACATTAGTTCACA
1 ATTAAAATATTTGTCCACA
9093436 A-TAAAATATTT
1 ATTAAAATATTT
9093447 ATATGACCAA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
17 1 0.04
18 19 0.83
19 3 0.13
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.38
Consensus pattern (19 bp):
ATTAAAATATTTGTCCACA
Found at i:9093617 original size:28 final size:29
Alignment explanation
Indices: 9093554--9093618 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
9093544 AATAATTAAT
*
9093554 GTAAGAAACCTACTCAAGTTACAAAAATA
1 GTAAAAAACCTACTCAAGTTACAAAAATA
*
9093583 -TATAAAAACCTACTTAAGTTAC-AAAATA
1 GTA-AAAAACCTACTCAAGTTACAAAAATA
9093611 GTAAAAAA
1 GTAAAAAA
9093619 TAATCTAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 13 0.41
29 19 0.59
ACGTcount: A:0.55, C:0.14, G:0.08, T:0.23
Consensus pattern (29 bp):
GTAAAAAACCTACTCAAGTTACAAAAATA
Found at i:9100810 original size:13 final size:13
Alignment explanation
Indices: 9100788--9100821 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
9100778 TATATAATTT
9100788 AATAATTTTTA-A
1 AATAATTTTTATA
9100800 AATATATTTTTATA
1 AATA-ATTTTTATA
9100814 AATAATTT
1 AATAATTT
9100822 AAATTTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 4 0.20
13 11 0.55
14 5 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
AATAATTTTTATA
Found at i:9101116 original size:1 final size:1
Alignment explanation
Indices: 9101110--9101135 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
9101100 GTAATCTTTG
9101110 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
9101136 AATTCAATCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:9103203 original size:3 final size:3
Alignment explanation
Indices: 9103195--9103246 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
9103185 ACTTACTTTA
9103195 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9103243 AAT A
1 AAT A
9103247 GATTTATTAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9104442 original size:40 final size:40
Alignment explanation
Indices: 9104387--9104508 Score: 219
Period size: 40 Copynumber: 3.0 Consensus size: 40
9104377 CTTCTAGGTA
9104387 ATCGATTATTACCTCTTCTAAAAATATTTCATGATCAATT
1 ATCGATTATTACCTCTTCTAAAAATATTTCATGATCAATT
9104427 ATCGATTATTACCTCTTC-AAAGAATATTTCATGATCAATT
1 ATCGATTATTACCTCTTCTAAA-AATATTTCATGATCAATT
*
9104467 ATCGATTATTACCTCTTCTAAAAATATTTCACGATCAATT
1 ATCGATTATTACCTCTTCTAAAAATATTTCATGATCAATT
9104507 AT
1 AT
9104509 TCTTTCACTT
Statistics
Matches: 79, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
39 3 0.04
40 73 0.92
41 3 0.04
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (40 bp):
ATCGATTATTACCTCTTCTAAAAATATTTCATGATCAATT
Found at i:9106993 original size:3 final size:3
Alignment explanation
Indices: 9106985--9107016 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
9106975 TTATTTTTCT
9106985 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
9107017 TAGGAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:9107064 original size:7 final size:7
Alignment explanation
Indices: 9107052--9107106 Score: 55
Period size: 7 Copynumber: 8.0 Consensus size: 7
9107042 AGAAAAGTCA
9107052 ATAAAAT
1 ATAAAAT
9107059 ATAAAAT
1 ATAAAAT
9107066 ATAAAAT
1 ATAAAAT
9107073 AAATAAAA-
1 --ATAAAAT
9107081 ATAAAAT
1 ATAAAAT
9107088 CA-AAAA-
1 -ATAAAAT
9107094 ATAAAA-
1 ATAAAAT
9107100 ATAAAAT
1 ATAAAAT
9107107 CAAAAAAAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
5 1 0.02
6 16 0.38
7 18 0.43
8 1 0.02
9 6 0.14
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (7 bp):
ATAAAAT
Found at i:9107077 original size:23 final size:23
Alignment explanation
Indices: 9107037--9107113 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 23
9107027 TTAATGAATT
*
9107037 AATCAAGAAAAGTCAATAAAATATAA
1 AATCAA-AAAA-TAAATAAAA-ATAA
*
9107063 AAT-ATAAAATAAATAAAAATAA
1 AATCAAAAAATAAATAAAAATAA
9107085 AATC---AAA-AAATAAAAATAA
1 AATCAAAAAATAAATAAAAATAA
9107104 AATCAAAAAA
1 AATCAAAAAA
9107114 AGAAAACCTA
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
19 16 0.36
20 3 0.07
22 10 0.22
23 8 0.18
24 4 0.09
25 1 0.02
26 3 0.07
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.18
Consensus pattern (23 bp):
AATCAAAAAATAAATAAAAATAA
Found at i:9107119 original size:19 final size:19
Alignment explanation
Indices: 9107073--9107113 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
9107063 AATATAAAAT
9107073 AAATAAAAATAAAATCAAA
1 AAATAAAAATAAAATCAAA
9107092 AAATAAAAATAAAATCAAA
1 AAATAAAAATAAAATCAAA
9107111 AAA
1 AAA
9107114 AGAAAACCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.80, C:0.05, G:0.00, T:0.15
Consensus pattern (19 bp):
AAATAAAAATAAAATCAAA
Found at i:9107555 original size:20 final size:21
Alignment explanation
Indices: 9107532--9107573 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
9107522 TCCAAATCTT
9107532 ACCCAGAAACT-TC-AAATCGA
1 ACCC-GAAACTCTCAAAATCGA
*
9107552 ACCCGAAATTCTCAAAATCGA
1 ACCCGAAACTCTCAAAATCGA
9107573 A
1 A
9107574 ATCTCAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 5 0.26
20 6 0.32
21 8 0.42
ACGTcount: A:0.45, C:0.29, G:0.10, T:0.17
Consensus pattern (21 bp):
ACCCGAAACTCTCAAAATCGA
Found at i:9107928 original size:3 final size:3
Alignment explanation
Indices: 9107922--9108028 Score: 98
Period size: 3 Copynumber: 36.0 Consensus size: 3
9107912 GGAAAAAAAT
* *
9107922 ATA ATA ATA ATA ATA ATA ATA A-A GGTA AT- ATA ATA TATG ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA -ATA ATA ATA
* * *
9107967 ATA AT- ATA ATA TCTA ATA TCTA ATA CTA ATA ATA ATA ATA ATA AT-
1 ATA ATA ATA ATA -ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
9108012 ATA ATA ATA AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA
9108029 TAGTATAGTA
Statistics
Matches: 85, Mismatches: 10, Indels: 18
0.75 0.09 0.16
Matches are distributed among these distances:
2 9 0.11
3 69 0.81
4 7 0.08
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:9107964 original size:21 final size:21
Alignment explanation
Indices: 9107923--9108030 Score: 73
Period size: 23 Copynumber: 5.0 Consensus size: 21
9107913 GAAAAAAATA
*
9107923 TAATAATAATAATAATAATAAA
1 TAATAATAATAAT-ATAATATA
9107945 GGTAAT-ATAATATATGATAATA-A
1 --TAATAATAATA-AT-ATAATATA
* *
9107968 TAAT-ATAAT-ATCTAATATC
1 TAATAATAATAATATAATATA
*
9107987 TAATACTAATAATAATAATA-A
1 TAATAATAATAAT-ATAATATA
9108008 TAATATAATAATAATATAATATA
1 T-A-ATAATAATAATATAATATA
9108031 GTATAGTAAT
Statistics
Matches: 69, Mismatches: 7, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
18 5 0.07
19 6 0.09
20 4 0.06
21 12 0.17
22 12 0.17
23 18 0.26
24 12 0.17
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (21 bp):
TAATAATAATAATATAATATA
Found at i:9108485 original size:54 final size:54
Alignment explanation
Indices: 9108334--9108487 Score: 164
Period size: 54 Copynumber: 2.8 Consensus size: 54
9108324 CACAAGTTAA
** * * ** *
9108334 AAAAATGATCTAGATTGAGCCAAGATCAAATGACCAAGATAAAATCGTAAATTTG
1 AAAAATGATCTAGATTGAGCCAAGATTGAATGATCGAGATAAAA-CACAAATCTG
* * * * * *
9108389 AAAACTGATCTAGACTGAGCCTAGATTGAATGATTGAAATAAAACACAAGTCTG
1 AAAAATGATCTAGATTGAGCCAAGATTGAATGATCGAGATAAAACACAAATCTG
* *
9108443 AAAAATGATCTAGATTGAGCAAAGATTGAATGATCGGGATAAAAC
1 AAAAATGATCTAGATTGAGCCAAGATTGAATGATCGAGATAAAAC
9108488 TGTGAGTCTA
Statistics
Matches: 79, Mismatches: 20, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
54 44 0.56
55 35 0.44
ACGTcount: A:0.45, C:0.12, G:0.19, T:0.23
Consensus pattern (54 bp):
AAAAATGATCTAGATTGAGCCAAGATTGAATGATCGAGATAAAACACAAATCTG
Found at i:9108501 original size:54 final size:55
Alignment explanation
Indices: 9108334--9108503 Score: 164
Period size: 55 Copynumber: 3.1 Consensus size: 55
9108324 CACAAGTTAA
** * * * *
9108334 AAAAATGATCTAGATTGAGCCAAGATCAAATGACCAAGATAAAA-TCGTAAATTTG
1 AAAAATGATCTAGATTGAGCCAAGATTGAATGATCGAGATAAAACT-GTAAGTCTG
* * * * * **
9108389 AAAACTGATCTAGACTGAGCCTAGATTGAATGATTGAAATAAAAC-ACAAGTCTG
1 AAAAATGATCTAGATTGAGCCAAGATTGAATGATCGAGATAAAACTGTAAGTCTG
* * * *
9108443 AAAAATGATCTAGATTGAGCAAAGATTGAATGATCGGGATAAAACTGTGAGTCTA
1 AAAAATGATCTAGATTGAGCCAAGATTGAATGATCGAGATAAAACTGTAAGTCTG
9108498 AAAAAT
1 AAAAAT
9108504 AAAGCGACCA
Statistics
Matches: 89, Mismatches: 24, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
54 43 0.48
55 46 0.52
ACGTcount: A:0.45, C:0.12, G:0.19, T:0.24
Consensus pattern (55 bp):
AAAAATGATCTAGATTGAGCCAAGATTGAATGATCGAGATAAAACTGTAAGTCTG
Found at i:9108970 original size:120 final size:119
Alignment explanation
Indices: 9108718--9108947 Score: 273
Period size: 120 Copynumber: 1.9 Consensus size: 119
9108708 GATGAAACTG
** * *
9108718 AGAGTCTAAAAGATAAAGTGACTAGGACCGAGTCAAGGTTGAAAATGAATGACTGGGATGAAACT
1 AGAGTCTAAAA-ATAAAGTGACTAGGACCGAGTCAAGGTCAAAAATGAATGACTGAGATGAAACC
* * * * * * * **
9108783 GTGAGTTTGAAAAATGATCTGGATTGAGCCAAGATTAGATAATTGGAACAAAATC
65 ATAAGTTTGAAAAATGATATGGACTAAGCAAAGATCAGATAACCGGAACAAAATC
* * *
9108838 ATGAGTCTAAAAATTAAA-TGACTAGGATCGAGTCGAGGTCAAAAATGAATGATTGAGATGAAAC
1 A-GAGTCTAAAAA-TAAAGTGACTAGGACCGAGTCAAGGTCAAAAATGAATGACTGAGATGAAAC
*
9108902 CATAAGTTTGAAAAATGATATGGACTAAGCAAAGATCAGATGACCG
64 CATAAGTTTGAAAAATGATATGGACTAAGCAAAGATCAGATAACCG
9108948 AGATAAAACT
Statistics
Matches: 91, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
120 77 0.85
121 14 0.15
ACGTcount: A:0.42, C:0.10, G:0.24, T:0.23
Consensus pattern (119 bp):
AGAGTCTAAAAATAAAGTGACTAGGACCGAGTCAAGGTCAAAAATGAATGACTGAGATGAAACCA
TAAGTTTGAAAAATGATATGGACTAAGCAAAGATCAGATAACCGGAACAAAATC
Found at i:9114532 original size:11 final size:11
Alignment explanation
Indices: 9114516--9114546 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
9114506 AAAAAATATA
9114516 AAATCAAAATC
1 AAATCAAAATC
*
9114527 AAATCAAAATT
1 AAATCAAAATC
9114538 AAATCAAAA
1 AAATCAAAA
9114547 AATCAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.68, C:0.13, G:0.00, T:0.19
Consensus pattern (11 bp):
AAATCAAAATC
Found at i:9114969 original size:21 final size:19
Alignment explanation
Indices: 9114943--9115002 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 19
9114933 AAAACTCTCC
*
9114943 AAAACCCTAATCCAAACCCCA
1 AAAACCCAAAT-CAAA-CCCA
*
9114964 AAAACCCAAATCTAACCCA
1 AAAACCCAAATCAAACCCA
* *
9114983 AAAACTTCAAATCGAACCCA
1 AAAAC-CCAAATCAAACCCA
9115003 GAATTCCCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
19 9 0.26
20 15 0.44
21 10 0.29
ACGTcount: A:0.50, C:0.37, G:0.02, T:0.12
Consensus pattern (19 bp):
AAAACCCAAATCAAACCCA
Found at i:9114980 original size:20 final size:20
Alignment explanation
Indices: 9114943--9115001 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
9114933 AAAACTCTCC
*
9114943 AAAACCCTAATCCAAACCCCA
1 AAAACCCAAAT-CAAACCCCA
*
9114964 AAAACCCAAATCTAA-CCCA
1 AAAACCCAAATCAAACCCCA
* *
9114983 AAAACTTCAAATCGAACCC
1 AAAAC-CCAAATCAAACCC
9115002 AGAATTCCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 9 0.28
20 11 0.34
21 12 0.38
ACGTcount: A:0.49, C:0.37, G:0.02, T:0.12
Consensus pattern (20 bp):
AAAACCCAAATCAAACCCCA
Found at i:9114984 original size:19 final size:20
Alignment explanation
Indices: 9114960--9115002 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
9114950 TAATCCAAAC
*
9114960 CCCAAAAAC-CCAAATCTAA
1 CCCAAAAACTCCAAATCGAA
*
9114979 CCCAAAAACTTCAAATCGAA
1 CCCAAAAACTCCAAATCGAA
9114999 CCCA
1 CCCA
9115003 GAATTCCCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.49, C:0.37, G:0.02, T:0.12
Consensus pattern (20 bp):
CCCAAAAACTCCAAATCGAA
Found at i:9115405 original size:3 final size:3
Alignment explanation
Indices: 9115399--9115511 Score: 76
Period size: 3 Copynumber: 38.3 Consensus size: 3
9115389 CAACAACAAC
* * ** *
9115399 AAT AAT AAT ATT AAT GAT AAT AAT GGT AAT -AT AAT -CT ACGAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A--AT AAT
* * *
9115444 AAT AAT AAT AAT AAT -GT AAT AAT AAT -AT AAT AAAT AAC ATCT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT A-AT AAT
9115489 AAT AAT AAT -AT AAT AAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
9115512 TGGTATAGTA
Statistics
Matches: 84, Mismatches: 16, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
2 10 0.12
3 68 0.81
4 4 0.05
5 2 0.02
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:9115465 original size:11 final size:11
Alignment explanation
Indices: 9115439--9115511 Score: 76
Period size: 11 Copynumber: 6.3 Consensus size: 11
9115429 ATAATCTACG
9115439 ATAATAATAATA
1 ATAATAAT-ATA
*
9115451 ATAATAATGTA
1 ATAATAATATA
9115462 ATAATAATATA
1 ATAATAATATA
*
9115473 ATAAATAACATCTA
1 AT-AAT-A-ATATA
9115487 ATAATAATA-A
1 ATAATAATATA
9115497 TATAATAATATA
1 -ATAATAATATA
9115509 ATA
1 ATA
9115512 TGGTATAGTA
Statistics
Matches: 52, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
10 1 0.02
11 28 0.54
12 13 0.25
13 4 0.08
14 6 0.12
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (11 bp):
ATAATAATATA
Found at i:9115465 original size:14 final size:13
Alignment explanation
Indices: 9115439--9115510 Score: 64
Period size: 14 Copynumber: 5.6 Consensus size: 13
9115429 ATAATCTACG
9115439 ATAATAA-TAATA
1 ATAATAATTAATA
9115451 ATAATAATGTAATA
1 ATAATAAT-TAATA
9115465 ATAAT-A-TAATAA
1 ATAATAATTAAT-A
*
9115477 ATAA-CATCTAATA
1 ATAATAAT-TAATA
9115490 ATAATAATATAATA
1 ATAATAAT-TAATA
9115504 AT-ATAAT
1 ATAATAAT
9115511 ATGGTATAGT
Statistics
Matches: 51, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
11 4 0.08
12 13 0.25
13 11 0.22
14 23 0.45
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (13 bp):
ATAATAATTAATA
Found at i:9116398 original size:21 final size:20
Alignment explanation
Indices: 9116374--9116419 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
9116364 GCAGATTTTG
*
9116374 ATTTAATTTTATATTAAATTT
1 ATTTAATTATAT-TTAAATTT
*
9116395 ATTTAATTATATTTTAATTT
1 ATTTAATTATATTTAAATTT
9116415 ATTTA
1 ATTTA
9116420 TTAATTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
ATTTAATTATATTTAAATTT
Found at i:9116439 original size:17 final size:17
Alignment explanation
Indices: 9116408--9116451 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
9116398 TAATTATATT
9116408 TTAATTTAT-TTATTAA
1 TTAATTTATATTATTAA
*
9116424 TTAATTTTTATTATTAA
1 TTAATTTATATTATTAA
*
9116441 ATAATTTATAT
1 TTAATTTATAT
9116452 ATATAAATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTAATTTATATTATTAA
Found at i:9116445 original size:21 final size:23
Alignment explanation
Indices: 9116398--9116451 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 23
9116388 TAAATTTATT
* *
9116398 TAATTATATTTTAATTTATTTAT
1 TAATTATATTTTAATTTATTAAA
*
9116421 TAATTA-ATTTTTA-TTATTAAA
1 TAATTATATTTTAATTTATTAAA
9116442 TAATTTATAT
1 TAA-TTATAT
9116452 ATATAAATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 9 0.35
22 9 0.35
23 8 0.31
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TAATTATATTTTAATTTATTAAA
Found at i:9116458 original size:17 final size:17
Alignment explanation
Indices: 9116409--9116459 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
9116399 AATTATATTT
* *
9116409 TAATTTATTTAT-TAAT
1 TAATTTATATATATAAA
*
9116425 TAATTTTTAT-TATTAAA
1 TAATTTATATATA-TAAA
9116442 TAATTTATATATATAAA
1 TAATTTATATATATAAA
9116459 T
1 T
9116460 GTAATATTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
15 1 0.04
16 8 0.29
17 17 0.61
18 2 0.07
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TAATTTATATATATAAA
Found at i:9120006 original size:3 final size:3
Alignment explanation
Indices: 9119998--9120052 Score: 101
Period size: 3 Copynumber: 18.3 Consensus size: 3
9119988 TTTCCACTGC
*
9119998 TGT TGT TGT TGT TGT TGT TGT TGT TGC TGT TGT TGT TGT TGT TGT TGT
1 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT
9120046 TGT TGT T
1 TGT TGT T
9120053 ACTTCTTCAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.00, C:0.02, G:0.33, T:0.65
Consensus pattern (3 bp):
TGT
Found at i:9123651 original size:29 final size:29
Alignment explanation
Indices: 9123606--9123673 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
9123596 ATGGTCCTCG
*
9123606 AATTATAATAAAATATTTAATATAATATTTT
1 AATTAT-A-AAAATATTTAATATAATATTTA
* *
9123637 AATTATAAAAATATTTAATGTGATATTTA
1 AATTATAAAAATATTTAATATAATATTTA
*
9123666 AACTATAA
1 AATTATAA
9123674 TTATATTAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 26 0.79
30 1 0.03
31 6 0.18
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.44
Consensus pattern (29 bp):
AATTATAAAAATATTTAATATAATATTTA
Found at i:9129936 original size:21 final size:20
Alignment explanation
Indices: 9129912--9129959 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 20
9129902 GTAGAAATGA
9129912 ATTTTTAGAAAAAAAAATTTG
1 ATTTTT-GAAAAAAAAATTTG
*
9129933 A--TTTGAAAAAGAAATTTG
1 ATTTTTGAAAAAAAAATTTG
9129951 ATGTTTTGA
1 AT-TTTTGA
9129960 TGATTGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
18 14 0.61
19 3 0.13
21 6 0.26
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.40
Consensus pattern (20 bp):
ATTTTTGAAAAAAAAATTTG
Found at i:9141299 original size:10 final size:10
Alignment explanation
Indices: 9141270--9141299 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
9141260 CTCGAGCTCG
*
9141270 CTCGATTAAG
1 CTCGATTAAT
9141280 CTCGATTAAT
1 CTCGATTAAT
9141290 CTCGATTAAT
1 CTCGATTAAT
9141300 ATGTAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (10 bp):
CTCGATTAAT
Found at i:9148218 original size:131 final size:125
Alignment explanation
Indices: 9148054--9148317 Score: 402
Period size: 131 Copynumber: 2.1 Consensus size: 125
9148044 ATACAATTAA
* * *
9148054 TAATGATATAATTAATAATAACATTAGTGATATCAAAATTAATTATTTTAAATAATGGCACATGC
1 TAATCATATAATTAATAATAACATTAGTAATATCAAAATTAATGATTTTAAATAATGGCACATGC
*
9148119 ATAAAATTCATATAAAAAATAAACCTACAAATTAAAAACAACAAAAAAATGGTTTGATTGAAAGC
66 ATAAAATTC--ATAAAAAATAAACCCACAAATT--AAACAA-AAAAAAA-GGTTTGATTGAAAGC
9148184 C
125 C
* *
9148185 TAATCATATAATTAATAATAACATTAGTAATATCAAAATTAATGATTTTAAATAATGGTACGTGC
1 TAATCATATAATTAATAATAACATTAGTAATATCAAAATTAATGATTTTAAATAATGGCACATGC
*
9148250 ATAAAATTCATAAAAAATAAACCCACAAATTAACCAAAAAAAAAGGTTTGATTGAAAGCC
66 ATAAAATTCATAAAAAATAAACCCACAAATTAAACAAAAAAAAAGGTTTGATTGAAAGCC
*
9148310 CAATCATA
1 TAATCATA
9148318 ATAAAAAAAA
Statistics
Matches: 125, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
125 23 0.18
126 7 0.06
127 5 0.04
129 21 0.17
131 69 0.55
ACGTcount: A:0.52, C:0.11, G:0.08, T:0.29
Consensus pattern (125 bp):
TAATCATATAATTAATAATAACATTAGTAATATCAAAATTAATGATTTTAAATAATGGCACATGC
ATAAAATTCATAAAAAATAAACCCACAAATTAAACAAAAAAAAAGGTTTGATTGAAAGCC
Found at i:9148952 original size:25 final size:24
Alignment explanation
Indices: 9148919--9148966 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
9148909 TAAAATGTAT
*
9148919 AATTGAAAATTAA-ATGTAAACTAA
1 AATTGAAAAATAACATG-AAACTAA
9148943 AATTGCAAAAATAACATGAAACTA
1 AATTG-AAAAATAACATGAAACTA
9148967 GAACTATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 5 0.24
25 13 0.62
26 3 0.14
ACGTcount: A:0.58, C:0.08, G:0.08, T:0.25
Consensus pattern (24 bp):
AATTGAAAAATAACATGAAACTAA
Found at i:9151600 original size:25 final size:24
Alignment explanation
Indices: 9151565--9151623 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 24
9151555 TAAATCTATG
*
9151565 AAACCTAAAATGAAACCCTAAAATA
1 AAACCTTAAATGAAACCCT-AAATA
* * *
9151590 AAATCTTAAATGGAACTCTAAATA
1 AAACCTTAAATGAAACCCTAAATA
9151614 AAACCTTAAA
1 AAACCTTAAA
9151624 CCTAAGTGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 14 0.48
25 15 0.52
ACGTcount: A:0.56, C:0.17, G:0.05, T:0.22
Consensus pattern (24 bp):
AAACCTTAAATGAAACCCTAAATA
Found at i:9151692 original size:19 final size:19
Alignment explanation
Indices: 9151668--9151731 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
9151658 AAACCTTAGA
9151668 TGAAA-CCTAATACCCTAAG
1 TGAAACCCTAA-ACCCTAAG
*
9151687 TGAAACCCTAAACCCCAAG
1 TGAAACCCTAAACCCTAAG
* * * *
9151706 TAAAATCTTAAACCCTAAA
1 TGAAACCCTAAACCCTAAG
9151725 TGAAACC
1 TGAAACC
9151732 TCAAAGCTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
19 31 0.86
20 5 0.14
ACGTcount: A:0.45, C:0.28, G:0.08, T:0.19
Consensus pattern (19 bp):
TGAAACCCTAAACCCTAAG
Found at i:9152804 original size:22 final size:22
Alignment explanation
Indices: 9152774--9152839 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 22
9152764 GGCATCATCT
9152774 AAAATTTTAAAGATTCTCATTTG
1 AAAA-TTTAAAGATTCTCATTTG
* * **
9152797 AAAATTTAGAGATTTTCA-TCC
1 AAAATTTAAAGATTCTCATTTG
* *
9152818 AAAATTTAAATATTCGCATTTG
1 AAAATTTAAAGATTCTCATTTG
9152840 GAAAGTTCAC
Statistics
Matches: 32, Mismatches: 10, Indels: 3
0.71 0.22 0.07
Matches are distributed among these distances:
21 15 0.47
22 13 0.41
23 4 0.12
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (22 bp):
AAAATTTAAAGATTCTCATTTG
Found at i:9153971 original size:10 final size:10
Alignment explanation
Indices: 9153956--9153991 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
9153946 CCTCATTCAA
9153956 TCTTTTTTTT
1 TCTTTTTTTT
*
9153966 TCTTTTCTTT
1 TCTTTTTTTT
9153976 TCTTTTTTTT
1 TCTTTTTTTT
9153986 T-TTTTT
1 TCTTTTT
9153992 ACTATTCCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 5 0.21
10 19 0.79
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (10 bp):
TCTTTTTTTT
Found at i:9155253 original size:23 final size:25
Alignment explanation
Indices: 9155227--9155280 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
9155217 TCAAACATGC
*
9155227 AATCATGC-A-AATATCATAATAAA
1 AATCATGCAAGAATATCAAAATAAA
*
9155250 AATCATGCAAGAATATTAAAATAAA
1 AATCATGCAAGAATATCAAAATAAA
9155275 AATCAT
1 AATCAT
9155281 ACCCAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 8 0.30
24 1 0.04
25 18 0.67
ACGTcount: A:0.57, C:0.11, G:0.06, T:0.26
Consensus pattern (25 bp):
AATCATGCAAGAATATCAAAATAAA
Found at i:9155257 original size:31 final size:31
Alignment explanation
Indices: 9155197--9155259 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 31
9155187 TATAAAAAAT
*
9155197 ATCATGCAATAATATCATAATCAAACATGCA
1 ATCATGCAATAATATCATAATAAAACATGCA
9155228 ATCATGC-A-AATATCATAATAAAAATCATGCA
1 ATCATGCAATAATATCATAAT-AAAA-CATGCA
9155259 A
1 A
9155260 GAATATTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 11 0.38
30 4 0.14
31 14 0.48
ACGTcount: A:0.51, C:0.17, G:0.06, T:0.25
Consensus pattern (31 bp):
ATCATGCAATAATATCATAATAAAACATGCA
Found at i:9155474 original size:25 final size:25
Alignment explanation
Indices: 9155415--9155479 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
9155405 AAATCCAAGC
*
9155415 AAAATATCATGCAAATATATATTAT
1 AAAATATCATGCAAATAAATATTAT
*
9155440 AATCAT-TCATGCAAA-AAATATTAT
1 AA-AATATCATGCAAATAAATATTAT
9155464 ATAAATATCATGCAAA
1 A-AAATATCATGCAAA
9155480 CACATAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 11 0.32
25 21 0.62
26 2 0.06
ACGTcount: A:0.52, C:0.11, G:0.05, T:0.32
Consensus pattern (25 bp):
AAAATATCATGCAAATAAATATTAT
Found at i:9155634 original size:28 final size:28
Alignment explanation
Indices: 9155575--9155640 Score: 73
Period size: 29 Copynumber: 2.4 Consensus size: 28
9155565 AAATGCAATT
* * *
9155575 AAAAATAATAAATAAAAACAAAAAATAG
1 AAAAATAAAAAACAAAAACAAAAAACAG
*
9155603 AAAAATAAGAAAACAAAAACAAGAAACA-
1 AAAAATAA-AAAACAAAAACAAAAAACAG
9155631 AAAAA-AAAAA
1 AAAAATAAAAA
9155641 GAGTCAAGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 3 0.09
27 2 0.06
28 13 0.39
29 15 0.45
ACGTcount: A:0.82, C:0.06, G:0.05, T:0.08
Consensus pattern (28 bp):
AAAAATAAAAAACAAAAACAAAAAACAG
Found at i:9155635 original size:14 final size:14
Alignment explanation
Indices: 9155588--9155634 Score: 51
Period size: 15 Copynumber: 3.4 Consensus size: 14
9155578 AATAATAAAT
* *
9155588 AAAAACAAAAAATAG
1 AAAAACAAGAAA-AC
*
9155603 AAAAATAAGAAAAC
1 AAAAACAAGAAAAC
9155617 AAAAACAAG-AAAC
1 AAAAACAAGAAAAC
9155630 AAAAA
1 AAAAA
9155635 AAAAAAGAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 9 0.32
14 9 0.32
15 10 0.36
ACGTcount: A:0.81, C:0.09, G:0.06, T:0.04
Consensus pattern (14 bp):
AAAAACAAGAAAAC
Found at i:9155638 original size:23 final size:23
Alignment explanation
Indices: 9155588--9155639 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
9155578 AATAATAAAT
9155588 AAAAACAAAAAATAGAAAAATAA
1 AAAAACAAAAAATAGAAAAATAA
* *
9155611 GAAAACAAAAACA-AGAAACAAAAA
1 AAAAACAAAAA-ATAGAAA-AATAA
9155635 AAAAA
1 AAAAA
9155640 AGAGTCAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
23 15 0.62
24 9 0.38
ACGTcount: A:0.83, C:0.08, G:0.06, T:0.04
Consensus pattern (23 bp):
AAAAACAAAAAATAGAAAAATAA
Found at i:9156048 original size:17 final size:17
Alignment explanation
Indices: 9156028--9156060 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
9156018 TTAAATTTGA
9156028 AATC-TAAATAAAATCAT
1 AATCTTAAA-AAAATCAT
9156045 AATCTTAAAAAAATCA
1 AATCTTAAAAAAATCA
9156061 AAATTTATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.61, C:0.12, G:0.00, T:0.27
Consensus pattern (17 bp):
AATCTTAAAAAAATCAT
Found at i:9156611 original size:16 final size:16
Alignment explanation
Indices: 9156586--9156617 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9156576 ATTTTGAATC
*
9156586 TAAAATTATCCAAACT
1 TAAAAATATCCAAACT
9156602 TAAAAATATCCAAACT
1 TAAAAATATCCAAACT
9156618 GAAGATGATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.19, G:0.00, T:0.28
Consensus pattern (16 bp):
TAAAAATATCCAAACT
Found at i:9157772 original size:202 final size:202
Alignment explanation
Indices: 9157074--9158120 Score: 455
Period size: 202 Copynumber: 5.2 Consensus size: 202
9157064 TTTCACCATG
* * ** * * *
9157074 TTAAA-TGGTGTTATCCCACATTTCATAAATATATAATTTCCTGT-AGTCTTGTATTCAAGTTGG
1 TTAAAGTGGTGTTATCCCACATCTAATAAATATATAATTTATTGTCA-TCTTATATTTAAGTTAG
* ** ** * * *
9157137 ATCCCTTTACTTA-TTGTCAATT-GATTTTAGGTTGGATGCTT-ATATGGTATCAAAG-CAAAGA
65 ACCCCTCCACTTACAAGT-AATTAG-TTTTAAGTTGGATGCTTAACATGATATCAAAGAC-AAGA
* ** * * * * * *
9157198 TTTCCTT-CTGTTATCCTTTACAAATCTATC-CTTGAT-AGATTTCTTCCATCTCTACCTATA-A
127 TTTTCTTCCTGTTGCCCTCTCCAAATTTATCACGTGATAAG-TTTCTTCCATCTTTACCTACACA
*
9157259 GTGATGATGGCCTT
191 -TGATGA-GGCCTA
* * * * * *
9157273 TTAAAGTGGTGTTATCCCATATCTAATAAATATATAATTTCTTAT-AGTTTTATGTTCAAGTTAG
1 TTAAAGTGGTGTTATCCCACATCTAATAAATATATAATTTATTGTCA-TCTTATATTTAAGTTAG
* ** * * ** * * * ** * *
9157337 GCCTTTTCAGTTATTA-TCAATTGGTTTTTAAGTTGGATGCTTAATATGAAATCAGGGCCATGAT
65 ACCCCTCCACTTACAAGT-AATTAG-TTTTAAGTTGGATGCTTAACATGATATCAAAGACAAGAT
* ** * ** ** * ** * * *
9157401 TTTCTT-CTATTGCTTTTTATAAATTCGTCACGTGATAGGTTTCTTCTGTCTCTACCTACACGTT
128 TTTCTTCCTGTTGCCCTCTCCAAATTTATCACGTGATAAGTTTCTTCCATCTTTACCTACACATG
* **
9157465 ATGTGGGTTTA
193 ATG-AGGCCTA
* **** ** * * * ** * *
9157476 TTAAACTAAAATTATTTCACATTTAATAAATATCTAA-TT-TTGTATAGTCTTATATACAGGTTG
1 TTAAAGTGGTGTTATCCCACATCTAATAAATATATAATTTATTGT-CA-TCTTATATTTAAGTTA
* * * * * * * *
9157539 GGCCTCTTCATTTA-TAGTCAATTAGTTTTAAGTTGGATTCTTAATATGATATCAAATACAAGA-
64 GACCCCTCCACTTACAAGT-AATTAGTTTTAAGTTGGATGCTTAACATGATATCAAAGACAAGAT
* * * ** * *
9157602 TTTCTTTCCTGTTGCCCTCTCTAAATTTATCATGTGATAGGCTTT-TTTTATTTTTGCCTACACA
128 TTTC-TTCCTGTTGCCCTCTCCAAATTTATCACGTGATAAG-TTTCTTCCATCTTTACCTACACA
* *
9157666 TTATAGAGGCCTG
191 TGAT-GAGGCCTA
* *
9157679 TTAAAGTGGTGTTATCCCACATCTAATAAATATCTAATTTATTGT-ATCTTATATTTAAGTTAGG
1 TTAAAGTGGTGTTATCCCACATCTAATAAATATATAATTTATTGTCATCTTATATTTAAGTTAGA
* *** *
9157743 CCCCTCCACTTACAAGTAATTATTTTTAAGTTGGATGCTTAACATGATATTTGAGCCAAGATTTT
66 CCCCTCCACTTACAAGTAATTAGTTTTAAGTTGGATGCTTAACATGATATCAAAGACAAGATTTT
* * * * **
9157808 CTTCTTGTTGTCCTTTCCAAATTTGTCACGTGATAAGTTTCTTCCATCTTTACCTACATGTGATG
131 CTTCCTGTTGCCCTCTCCAAATTTATCACGTGATAAGTTTCTTCCATCTTTACCTACACATGATG
*
9157873 GGGCCTA
196 AGGCCTA
** * * * *
9157880 TTAAAGTGGTGTTATTTCACATCTAATAAATATATAATTTCTTGTCGTTTTATATTTAGGTTAGA
1 TTAAAGTGGTGTTATCCCACATCTAATAAATATATAATTTATTGTCATCTTATATTTAAGTTAGA
* * ** * * * * * * * *
9157945 CTCCTTCACTTACAACCAATTGGTTTTAGGTTAGCTACTTAACAT-AGTATCAGAGCCAATATTT
66 CCCCTCCACTTACAAGTAATTAGTTTTAAGTTGGATGCTTAACATGA-TATCAAAGACAAGATTT
* * * * * * * * *** * * **
9158009 CCTT-TTGTTGCCCTTTCCAAATCTA-CATGTGATAGGCTTCTTTCATCTCGGCTTATATGTGAT
130 TCTTCCTGTTGCCCTCTCCAAATTTATCACGTGATAAGTTTCTTCCATCTTTACCTACACATGAT
* *
9158072 GGAGGCTTG
195 -GAGGCCTA
* * * *
9158081 TTAAACTGATTTTATCTCACATCTAATAAATATATAATTT
1 TTAAAGTGGTGTTATCCCACATCTAATAAATATATAATTT
9158121 CTTATAGTCT
Statistics
Matches: 655, Mismatches: 169, Indels: 46
0.75 0.19 0.05
Matches are distributed among these distances:
199 5 0.01
200 91 0.14
201 135 0.21
202 241 0.37
203 172 0.26
204 7 0.01
205 4 0.01
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (202 bp):
TTAAAGTGGTGTTATCCCACATCTAATAAATATATAATTTATTGTCATCTTATATTTAAGTTAGA
CCCCTCCACTTACAAGTAATTAGTTTTAAGTTGGATGCTTAACATGATATCAAAGACAAGATTTT
CTTCCTGTTGCCCTCTCCAAATTTATCACGTGATAAGTTTCTTCCATCTTTACCTACACATGATG
AGGCCTA
Found at i:9158026 original size:201 final size:200
Alignment explanation
Indices: 9157671--9158189 Score: 540
Period size: 201 Copynumber: 2.6 Consensus size: 200
9157661 ACACATTATA
* * * *
9157671 GAGGCCTGTTAAAGTGGTGTTATCCCACATCTAATAAATATCTAATTTATTGTATCTTATATTTA
1 GAGGCCTGTTAAAGTGGTGTTATCTCACATCTAATAAATATATAATTTCTTGTGTCTTATATTT-
* ** ** * * * **
9157736 AGTTAGGCCCCTCCACTTACAAGTAATTATTTTTAAGTTGGATGCTTAACATGATATTTGAGCCA
65 AGTTAGGCTCCTCCACTTACAACCAATTGGTTTTAGGTTAGATACTTAACATGATATCAGAGCCA
* * * * * **
9157801 AGATTTTCTTCTTGTTGTCCTTTCCAAATTTGTCACGTGATAAGTTTCTTCCATCTTTACCTACA
130 AGATTTCCTTCTTGTTGCCCTTTCCAAATCT-ACACGTGATAAGCTTCTTCCATCTCGACCTACA
9157866 TGTGATG
194 TGTGATG
* * *
9157873 G-GGCCTATTAAAGTGGTGTTATTTCACATCTAATAAATATATAATTTCTTGTCGTTTTATATTT
1 GAGGCCTGTTAAAGTGGTGTTATCTCACATCTAATAAATATATAATTTCTTGT-GTCTTATATTT
* * *
9157937 AGGTTAGACTCCTTCACTTACAACCAATTGGTTTTAGGTTAGCTACTTAACAT-AGTATCAGAGC
65 A-GTTAGGCTCCTCCACTTACAACCAATTGGTTTTAGGTTAGATACTTAACATGA-TATCAGAGC
* * * * * * *
9158001 CAATATTTCCTT-TTGTTGCCCTTTCCAAATCTACATGTGATAGGCTTCTTTCATCTCGGCTTAT
128 CAAGATTTCCTTCTTGTTGCCCTTTCCAAATCTACACGTGATAAGCTTCTTCCATCTCGACCTAC
9158065 ATGTGATG
193 ATGTGATG
* * * * * *
9158073 GAGGCTTGTTAAACTGATTTTATCTCACATCTAATAAATATATAATTTCTTATAGTCTTATGTTT
1 GAGGCCTGTTAAAGTGGTGTTATCTCACATCTAATAAATATATAATTTCTTGT-GTCTTAT-ATT
* * ** * *
9158138 TAGTTGGGCTCCTCCACTTATAGTCAATTGGTTTTAGGTTATATGCTTAACA
64 TAGTTAGGCTCCTCCACTTACAACCAATTGGTTTTAGGTTAGATACTTAACA
9158190 CATTATTCTA
Statistics
Matches: 259, Mismatches: 53, Indels: 11
0.80 0.16 0.03
Matches are distributed among these distances:
200 31 0.12
201 157 0.61
202 71 0.27
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.42
Consensus pattern (200 bp):
GAGGCCTGTTAAAGTGGTGTTATCTCACATCTAATAAATATATAATTTCTTGTGTCTTATATTTA
GTTAGGCTCCTCCACTTACAACCAATTGGTTTTAGGTTAGATACTTAACATGATATCAGAGCCAA
GATTTCCTTCTTGTTGCCCTTTCCAAATCTACACGTGATAAGCTTCTTCCATCTCGACCTACATG
TGATG
Found at i:9158751 original size:3 final size:3
Alignment explanation
Indices: 9158745--9158774 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
9158735 ATAATAATAA
9158745 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
9158775 AAAATATAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:9162677 original size:12 final size:12
Alignment explanation
Indices: 9162662--9162713 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
9162652 AATTATTCAA
9162662 ATATTATATTAT
1 ATATTATATTAT
* *
9162674 ATATCATATCAT
1 ATATTATATTAT
9162686 ATATTATATATAAT
1 ATATTATAT-T-AT
*
9162700 ATAATAATATTAT
1 AT-ATTATATTAT
9162713 A
1 A
9162714 AAATATATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
12 18 0.56
13 3 0.09
14 5 0.16
15 6 0.19
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (12 bp):
ATATTATATTAT
Found at i:9162690 original size:19 final size:19
Alignment explanation
Indices: 9162666--9162713 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
9162656 ATTCAAATAT
* *
9162666 TATATTATATATCATATCA
1 TATATTATATATAATATAA
9162685 TATATTATATATAATATAA
1 TATATTATATATAATATAA
9162704 TAATATTATA
1 T-ATATTATA
9162714 AAATATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 18 0.69
20 8 0.31
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (19 bp):
TATATTATATATAATATAA
Found at i:9162721 original size:20 final size:20
Alignment explanation
Indices: 9162698--9162737 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
9162688 ATTATATATA
*
9162698 ATATAATAATATT-ATAAAAT
1 ATATAAAAAT-TTAATAAAAT
9162718 ATATAAAAATTTAATAAAAT
1 ATATAAAAATTTAATAAAAT
9162738 TTATTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATATAAAAATTTAATAAAAT
Found at i:9172994 original size:27 final size:26
Alignment explanation
Indices: 9172963--9173019 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 26
9172953 ATATAATAGA
*
9172963 AAAAAATCAAATCTTTCTTTGTTAA-TTC
1 AAAAAA-CAAAT-TATCTTT-TTAATTTC
9172991 AAAAAACAAATTATCTTTTTAATTTC
1 AAAAAACAAATTATCTTTTTAATTTC
9173017 AAA
1 AAA
9173020 TATTTTCTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 4 0.15
26 12 0.44
27 5 0.19
28 6 0.22
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.40
Consensus pattern (26 bp):
AAAAAACAAATTATCTTTTTAATTTC
Found at i:9178663 original size:21 final size:23
Alignment explanation
Indices: 9178632--9178685 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
9178622 TTATATAATT
9178632 ATATATTTATA-TTTT-AAAAATA
1 ATAT-TTTATATTTTTAAAAAATA
9178654 ATATTTTATATTTTTAAAAAATA
1 ATATTTTATATTTTTAAAAAATA
9178677 ATATTTTAT
1 ATATTTTAT
9178686 TGATTTTGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.20
22 8 0.27
23 16 0.53
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
ATATTTTATATTTTTAAAAAATA
Found at i:9181885 original size:21 final size:21
Alignment explanation
Indices: 9181845--9181886 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
9181835 ATCTCTTGTG
*
9181845 CTTTAGTTTCTTTCATGCAAT
1 CTTTAGTTTCTTTCAAGCAAT
9181866 CTTTA-TTTCTTTACAAGCAAT
1 CTTTAGTTTCTTT-CAAGCAAT
9181887 TCGACATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.24, C:0.19, G:0.07, T:0.50
Consensus pattern (21 bp):
CTTTAGTTTCTTTCAAGCAAT
Found at i:9193805 original size:33 final size:33
Alignment explanation
Indices: 9193751--9193831 Score: 130
Period size: 33 Copynumber: 2.5 Consensus size: 33
9193741 GGTGCTAACC
*
9193751 AAACT-GGCTT-AAATTTTCATTGGTTTTAGCT
1 AAACTGGGCTTAAAATTTGCATTGGTTTTAGCT
*
9193782 ATACTGGGCTTAAAATTTGCATTGGTTTTAGCT
1 AAACTGGGCTTAAAATTTGCATTGGTTTTAGCT
9193815 AAACTGGGCTTAAAATT
1 AAACTGGGCTTAAAATT
9193832 CCATTGATGC
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
31 4 0.09
32 5 0.11
33 36 0.80
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (33 bp):
AAACTGGGCTTAAAATTTGCATTGGTTTTAGCT
Found at i:9193895 original size:97 final size:97
Alignment explanation
Indices: 9193789--9194003 Score: 304
Period size: 97 Copynumber: 2.2 Consensus size: 97
9193779 GCTATACTGG
** * * *
9193789 GCTTAAAATTTGCATTGGTTTTAGCTAAACTGGGCTTAAAATTCCATTGATGCTAGGTAAAATAG
1 GCTT-AAATTTGCATTGGTGCTAGCTAAACTGAGCTTAAAATTCCATTAATGCTAGATAAAATAG
*
9193854 GCTTAAATTTTTATTCGGTGCCAGCTACTCTAA
65 GCTTAAATTTTTATTCGGTGCCAACTACTCTAA
* * *
9193887 GCTTAAATTTACATTGGTGCTAGCTAAACTGAGCTTAAAATTTCATTAATGCTAGATAAACTAGG
1 GCTTAAATTTGCATTGGTGCTAGCTAAACTGAGCTTAAAATTCCATTAATGCTAGATAAAATAGG
** *
9193952 CTTAAATTTTTATTCGGTGTTAACTACTCTGA
66 CTTAAATTTTTATTCGGTGCCAACTACTCTAA
*
9193984 GCATAAATTTGCATTGGTGC
1 GCTTAAATTTGCATTGGTGC
9194004 CAATTAAATT
Statistics
Matches: 103, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
97 99 0.96
98 4 0.04
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (97 bp):
GCTTAAATTTGCATTGGTGCTAGCTAAACTGAGCTTAAAATTCCATTAATGCTAGATAAAATAGG
CTTAAATTTTTATTCGGTGCCAACTACTCTAA
Found at i:9193912 original size:32 final size:32
Alignment explanation
Indices: 9193757--9194003 Score: 152
Period size: 32 Copynumber: 7.6 Consensus size: 32
9193747 AACCAAACTG
** * **
9193757 GCTTAAATTTTCATTGGTTTTAGCTATACTGG
1 GCTTAAATTTTCATTGGTGCTAGCTAAACTAA
* ** **
9193789 GCTTAAAATTTGCATTGGTTTTAGCTAAACTGG
1 GCTT-AAATTTTCATTGGTGCTAGCTAAACTAA
* * * * * *
9193822 GCTTAAAATTCCATTGATGCTAGGTAAAATAG
1 GCTTAAATTTTCATTGGTGCTAGCTAAACTAA
* * **
9193854 GCTTAAATTTTTATTCGGTGCCAGCTACTCTAA
1 GCTTAAATTTTCATT-GGTGCTAGCTAAACTAA
* *
9193887 GCTTAAATTTACATTGGTGCTAGCTAAACTGA
1 GCTTAAATTTTCATTGGTGCTAGCTAAACTAA
* ** * *
9193919 GCTTAAAATTTCATTAATGCTAGATAAACTAG
1 GCTTAAATTTTCATTGGTGCTAGCTAAACTAA
* * * ** *
9193951 GCTTAAATTTTTATTCGGTGTTAACTACTCTGA
1 GCTTAAATTTTCATT-GGTGCTAGCTAAACTAA
* *
9193984 GCATAAATTTGCATTGGTGC
1 GCTTAAATTTTCATTGGTGC
9194004 CAATTAAATT
Statistics
Matches: 164, Mismatches: 48, Indels: 6
0.75 0.22 0.03
Matches are distributed among these distances:
32 91 0.55
33 73 0.45
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (32 bp):
GCTTAAATTTTCATTGGTGCTAGCTAAACTAA
Found at i:9194141 original size:33 final size:32
Alignment explanation
Indices: 9194088--9194453 Score: 131
Period size: 33 Copynumber: 11.1 Consensus size: 32
9194078 TTTGGGTTTG
*
9194088 AATCTTTTCATTGGGTGCCAACTAAACTGGTCTTA
1 AATC-TTTCA-TGAGTGCCAACTAAACTGG-CTTA
* * *
9194123 AATCTTTCATGAGTGCCAAATAGACTAGCTTA
1 AATCTTTCATGAGTGCCAACTAAACTGGCTTA
* * * *
9194155 AAACTTTTCATGAATGCCATCTAAATTGGGCTTA
1 AATC-TTTCATGAGTGCCAACTAAACT-GGCTTA
** *
9194189 AA-CTTTTCATTG-GCTGTTAACTAAATTGGGCTTA
1 AATC-TTTCA-TGAG-TGCCAACTAAACT-GGCTTA
* *
9194223 AAT-TTTCATTTG-GTGCTAGCTAAACTAGGCTTA
1 AATCTTTCA--TGAGTGCCAACTAAACT-GGCTTA
* * * *
9194256 AAT-TTTCCTTGAATGCCAGCTAAACTGGGTTTA
1 AATCTTT-CATGAGTGCCAACTAAACT-GGCTTA
* * *
9194289 AA--TTTCATTGAATGCCAGCTAAACTAAGCTTA
1 AATCTTTCA-TGAGTGCCAACTAAACT-GGCTTA
* * * *
9194321 AATTTTTCTTG-GTGCCAACTAGATTAGGCTTA
1 AATCTTTCATGAGTGCCAACTAAACT-GGCTTA
* * **
9194353 AAT-TTTCATCGA-TACCAAATAATTTGGGCTTA
1 AATCTTTCAT-GAGTGCCAACTAAACT-GGCTTA
* * * * *
9194385 AACCTTTCAGGGGTGCCAACTAGATTGTGCTTA
1 AATCTTTCATGAGTGCCAACTAAACTG-GCTTA
* * * *
9194418 AAACTTTTTATGAGTGCCAGCTAAGCTGGGCTTA
1 AATC-TTTCATGAGTGCCAACTAAACT-GGCTTA
9194452 AA
1 AA
9194454 AACTTATGAG
Statistics
Matches: 258, Mismatches: 55, Indels: 37
0.74 0.16 0.11
Matches are distributed among these distances:
31 6 0.02
32 74 0.29
33 109 0.42
34 64 0.25
35 5 0.02
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (32 bp):
AATCTTTCATGAGTGCCAACTAAACTGGCTTA
Found at i:9194305 original size:32 final size:33
Alignment explanation
Indices: 9194092--9194361 Score: 176
Period size: 33 Copynumber: 8.2 Consensus size: 33
9194082 GGTTTGAATC
** * *
9194092 TTTTCATTGGGTGCCAACTAAACTGGTCTTAAA
1 TTTTCATTGAATGCCAGCTAAACTGGGCTTAAA
* ** * *
9194125 TCTTTCA-TGAGTGCCAAATAGACT-AGCTTAAAA
1 T-TTTCATTGAATGCCAGCTAAACTGGGCTT-AAA
* *
9194158 CTTTTCA-TGAATGCCATCTAAATTGGGCTTAAA
1 -TTTTCATTGAATGCCAGCTAAACTGGGCTTAAA
** ** * *
9194191 CTTTTCATTGGCTGTTAACTAAATTGGGCTTAAA
1 -TTTTCATTGAATGCCAGCTAAACTGGGCTTAAA
* * *
9194225 TTTTCATTTG-GTGCTAGCTAAACTAGGCTTAAA
1 TTTTCA-TTGAATGCCAGCTAAACTGGGCTTAAA
* *
9194258 TTTTCCTTGAATGCCAGCTAAACTGGGTTTAAA
1 TTTTCATTGAATGCCAGCTAAACTGGGCTTAAA
**
9194291 -TTTCATTGAATGCCAGCTAAACTAAGCTTAAA
1 TTTTCATTGAATGCCAGCTAAACTGGGCTTAAA
* * * * *
9194323 TTTTTC-TTG-GTGCCAACTAGATTAGGCTTAAA
1 -TTTTCATTGAATGCCAGCTAAACTGGGCTTAAA
9194355 TTTTCAT
1 TTTTCAT
9194362 CGATACCAAA
Statistics
Matches: 192, Mismatches: 35, Indels: 21
0.77 0.14 0.08
Matches are distributed among these distances:
31 5 0.03
32 53 0.28
33 96 0.50
34 38 0.20
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.37
Consensus pattern (33 bp):
TTTTCATTGAATGCCAGCTAAACTGGGCTTAAA
Found at i:9194320 original size:65 final size:66
Alignment explanation
Indices: 9194209--9194361 Score: 177
Period size: 65 Copynumber: 2.3 Consensus size: 66
9194199 TGGCTGTTAA
* * * *
9194209 CTAAATTGGGCTTAAATTTTCATTTGGTGCTAGCTAAACTAGGCTTAAATTTTCCTTGAATGCCA
1 CTAAACTGGGCTTAAATTTTCATTTGATGCCAGCTAAACTAAGCTTAAATTTTCCTTGAATGCCA
9194274 G
66 G
* * *
9194275 CTAAACTGGGTTTAAA-TTTCA-TTGAATGCCAGCTAAACTAAGCTTAAATTTTTCTTG-GTGCC
1 CTAAACTGGGCTTAAATTTTCATTTG-ATGCCAGCTAAACTAAGCTTAAATTTTCCTTGAATGCC
*
9194337 AA
65 AG
* * *
9194339 CTAGATTAGGCTTAAATTTTCAT
1 CTAAACTGGGCTTAAATTTTCAT
9194362 CGATACCAAA
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
64 20 0.28
65 38 0.53
66 14 0.19
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.38
Consensus pattern (66 bp):
CTAAACTGGGCTTAAATTTTCATTTGATGCCAGCTAAACTAAGCTTAAATTTTCCTTGAATGCCA
G
Found at i:9195455 original size:22 final size:23
Alignment explanation
Indices: 9195404--9195456 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
9195394 ACTTTTTCCT
*
9195404 TTTTTCCTTTTTCACTTTTCTTCAC
1 TTTTT-CTTTTTCAC-TTCCTTCAC
*
9195429 CTTTTCTTTTTCA-TTCCTTCAC
1 TTTTTCTTTTTCACTTCCTTCAC
9195451 TTTTTC
1 TTTTTC
9195457 ATTTCTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 13 0.52
24 8 0.32
25 4 0.16
ACGTcount: A:0.08, C:0.28, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTTTCTTTTTCACTTCCTTCAC
Found at i:9195974 original size:9 final size:8
Alignment explanation
Indices: 9195964--9196021 Score: 59
Period size: 8 Copynumber: 7.2 Consensus size: 8
9195954 TCCCTTTTTC
9195964 TTTTCTTT
1 TTTTCTTT
9195972 CTTTT-TTT
1 -TTTTCTTT
9195980 TTTCTCTTT
1 TTT-TCTTT
*
9195989 TTTCCTTT
1 TTTTCTTT
9195997 TTCTT-TTT
1 TT-TTCTTT
9196005 TTTTC-TT
1 TTTTCTTT
9196012 TTTTCTTT
1 TTTTCTTT
9196020 TT
1 TT
9196022 GACATATCCC
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
7 12 0.29
8 19 0.45
9 11 0.26
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTCTTT
Found at i:9195991 original size:24 final size:23
Alignment explanation
Indices: 9195964--9196021 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 23
9195954 TCCCTTTTTC
9195964 TTTTCTTTCTT-TTTTTTTTCTCTT
1 TTTTCTTT-TTCTTTTTTTT-TCTT
9195988 TTTTCCTTTTTCTTTTTTTTTCTT
1 TTTT-CTTTTTCTTTTTTTTTCTT
9196012 TTTTCTTTTT
1 TTTTCTTTTT
9196022 GACATATCCC
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
23 6 0.19
24 14 0.44
25 12 0.38
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (23 bp):
TTTTCTTTTTCTTTTTTTTTCTT
Found at i:9196456 original size:72 final size:71
Alignment explanation
Indices: 9196282--9196457 Score: 165
Period size: 72 Copynumber: 2.4 Consensus size: 71
9196272 AGACCAAGTT
* * * * * * *
9196282 AATTTTAGGGTAAAAAACTAAAAGGTTAGCATGTTTTTTATCAACATGCCCTTAAGACATATGAG
1 AATTTTGGGGT-AAAAGCTAAAAGGTTGGTAAGTTTTTTATCAACATGCCCTGAAGACACATGAG
* * *
9196347 TTAGGCT
65 CTAAGCC
* * * * *
9196354 AATTTTGGGGTAAAGAGCTGAAATGATGGTAAGTTTTTTATCAACGTGTCCCTGAAG-CACATGG
1 AATTTTGGGGTAAA-AGCTAAAAGGTTGGTAAGTTTTTTATCAACATG-CCCTGAAGACACATGA
9196418 GCTAAGCC
64 GCTAAGCC
*
9196426 AATTTTGGGGTAAAATGTTAAAAGGTTGGTAA
1 AATTTTGGGGTAAAA-GCTAAAAGGTTGGTAA
9196458 ATCTAAGATC
Statistics
Matches: 82, Mismatches: 19, Indels: 6
0.77 0.18 0.06
Matches are distributed among these distances:
71 4 0.05
72 71 0.87
73 7 0.09
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (71 bp):
AATTTTGGGGTAAAAGCTAAAAGGTTGGTAAGTTTTTTATCAACATGCCCTGAAGACACATGAGC
TAAGCC
Found at i:9202060 original size:19 final size:19
Alignment explanation
Indices: 9202036--9202092 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 19
9202026 TTTATTTTTA
9202036 GGTTTAAGATTTTACCTAG
1 GGTTTAAGATTTTACCTAG
* * * **
9202055 GGTTTAGGGTTTCATTTAG
1 GGTTTAAGATTTTACCTAG
9202074 GGTTTCAA-ATTTTACCTAG
1 GGTTT-AAGATTTTACCTAG
9202093 TCTCTTAGAT
Statistics
Matches: 27, Mismatches: 10, Indels: 2
0.69 0.26 0.05
Matches are distributed among these distances:
19 26 0.96
20 1 0.04
ACGTcount: A:0.23, C:0.11, G:0.23, T:0.44
Consensus pattern (19 bp):
GGTTTAAGATTTTACCTAG
Found at i:9202145 original size:13 final size:12
Alignment explanation
Indices: 9202127--9202264 Score: 107
Period size: 13 Copynumber: 10.6 Consensus size: 12
9202117 AGGGTTTTTG
*
9202127 TTTTAGGATTTCA
1 TTTTAGGGTTT-A
*
9202140 TTTTAGGGTTTTG
1 TTTTAGGG-TTTA
*
9202153 TTTTAGGGCTTTG
1 TTTTAGGG-TTTA
9202166 TTTTAGGGTTTAA
1 TTTTAGGGTTT-A
*
9202179 TTTTAAGGATTTA
1 TTTT-AGGGTTTA
9202192 TTTTAGGGTTTAA
1 TTTTAGGGTTT-A
*
9202205 TTTTAAGGTTTTA
1 TTTT-AGGGTTTA
9202218 TTTTAGGGTTTCA
1 TTTTAGGGTTT-A
*
9202231 TTTTTGGGTTT-
1 TTTTAGGGTTTA
9202242 TGATTTAGGGTTTTAA
1 T--TTTAGGG-TTT-A
9202258 TTTTAGG
1 TTTTAGG
9202265 AATTTATGAA
Statistics
Matches: 104, Mismatches: 10, Indels: 21
0.77 0.07 0.16
Matches are distributed among these distances:
11 1 0.01
12 15 0.14
13 63 0.61
14 24 0.23
16 1 0.01
ACGTcount: A:0.18, C:0.02, G:0.23, T:0.57
Consensus pattern (12 bp):
TTTTAGGGTTTA
Found at i:9202151 original size:26 final size:26
Alignment explanation
Indices: 9202127--9202271 Score: 143
Period size: 26 Copynumber: 5.5 Consensus size: 26
9202117 AGGGTTTTTG
**
9202127 TTTT-AGGATTTCATTTTAGGGTTTTG
1 TTTTAAGGATTT-ATTTTAGGGTTTAA
* * *
9202153 TTTTAGGGCTTTGTTTTAGGGTTTAA
1 TTTTAAGGATTTATTTTAGGGTTTAA
9202179 TTTTAAGGATTTATTTTAGGGTTTAA
1 TTTTAAGGATTTATTTTAGGGTTTAA
* *
9202205 TTTTAAGGTTTTATTTTAGGGTTTCA
1 TTTTAAGGATTTATTTTAGGGTTTAA
** *
9202231 TTTTTGGGTTTTGA-TTTAGGGTTTTAA
1 TTTTAAGGATTT-ATTTTAGGG-TTTAA
9202258 TTTT-AGGAATTTAT
1 TTTTAAGG-ATTTAT
9202272 GAACCTTCTA
Statistics
Matches: 99, Mismatches: 15, Indels: 9
0.80 0.12 0.07
Matches are distributed among these distances:
26 82 0.83
27 17 0.17
ACGTcount: A:0.19, C:0.02, G:0.22, T:0.57
Consensus pattern (26 bp):
TTTTAAGGATTTATTTTAGGGTTTAA
Found at i:9202169 original size:39 final size:38
Alignment explanation
Indices: 9202114--9202264 Score: 149
Period size: 39 Copynumber: 3.8 Consensus size: 38
9202104 TCATTTAAGA
* *
9202114 TTTAGGGTTTTTGTTTTAGGATTTCATTTTAGGGTTTTGT
1 TTTAGGG-TTTTGTTTTAGG-TTTAATTTTAGGGTTTTAT
* * *
9202154 TTTAGGGCTTTGTTTTAGGGTTTAATTTTAAGGATTTAT
1 TTTAGGGTTTTGTTTTA-GGTTTAATTTTAGGGTTTTAT
** * *
9202193 TTTAGGGTTTAATTTTAAGGTTTTATTTTAGGGTTTCAT
1 TTTAGGGTTTTGTTTT-AGGTTTAATTTTAGGGTTTTAT
* *
9202232 TTTTGGGTTTTGATTTAGGGTTTTAATTTTAGG
1 TTTAGGGTTTTGTTTTA-GG-TTTAATTTTAGG
9202265 AATTTATGAA
Statistics
Matches: 90, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
38 1 0.01
39 68 0.76
40 21 0.23
ACGTcount: A:0.17, C:0.02, G:0.24, T:0.57
Consensus pattern (38 bp):
TTTAGGGTTTTGTTTTAGGTTTAATTTTAGGGTTTTAT
Found at i:9202413 original size:16 final size:16
Alignment explanation
Indices: 9202392--9202427 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
9202382 TTTATTAAAA
9202392 ATTTAATATTAATATT
1 ATTTAATATTAATATT
**
9202408 ATTTAATATTTTTATT
1 ATTTAATATTAATATT
9202424 ATTT
1 ATTT
9202428 TATTTCCCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTTAATATTAATATT
Found at i:9203850 original size:14 final size:15
Alignment explanation
Indices: 9203811--9203851 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 15
9203801 CCTATTATTG
9203811 TTTTCACTTTTTAGTT
1 TTTTC-CTTTTTAGTT
*
9203827 TTTACCTTTTT--TT
1 TTTTCCTTTTTAGTT
9203840 TTTTCCTTTTTA
1 TTTTCCTTTTTA
9203852 TGCCAAAGCC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 12 0.55
15 6 0.27
16 4 0.18
ACGTcount: A:0.10, C:0.15, G:0.02, T:0.73
Consensus pattern (15 bp):
TTTTCCTTTTTAGTT
Found at i:9203985 original size:10 final size:10
Alignment explanation
Indices: 9203970--9204013 Score: 52
Period size: 10 Copynumber: 4.1 Consensus size: 10
9203960 CTCTTGTAGT
9203970 TTTTTTTTTC
1 TTTTTTTTTC
9203980 TTTTTTTTTC
1 TTTTTTTTTC
9203990 TTGTATTTTTTTC
1 -T-T-TTTTTTTC
*
9204003 TTTTTTCTTC
1 TTTTTTTTTC
9204013 T
1 T
9204014 CAATTCTCCA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
10 18 0.60
11 2 0.07
12 2 0.07
13 8 0.27
ACGTcount: A:0.02, C:0.11, G:0.02, T:0.84
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:9206174 original size:6 final size:6
Alignment explanation
Indices: 9206156--9206198 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
9206146 CCACTTCTAC
*
9206156 TTCTTT CTCTTT TTCTTT TT-TTT TTCTTT TTGCTTGT TTCTTT
1 TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TT-CTT-T TTCTTT
9206199 GTTTTTCCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 5 0.16
6 18 0.56
7 6 0.19
8 3 0.09
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.79
Consensus pattern (6 bp):
TTCTTT
Found at i:9206185 original size:17 final size:17
Alignment explanation
Indices: 9206163--9206205 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
9206153 TACTTCTTTC
* *
9206163 TCTTTTTCTTTTTTTTT
1 TCTTTTTCTTGTTTCTT
9206180 TCTTTTTGCTTGTTTCTT
1 TCTTTTT-CTTGTTTCTT
*
9206198 TGTTTTTC
1 TCTTTTTC
9206206 CATTTTTTCC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.00, C:0.14, G:0.07, T:0.79
Consensus pattern (17 bp):
TCTTTTTCTTGTTTCTT
Found at i:9206682 original size:15 final size:15
Alignment explanation
Indices: 9206635--9206686 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
9206625 TTTTTTTATG
* *
9206635 ATTTATATATTATATT
1 ATTTAT-TATTTTGTT
*
9206651 ATATATTA-TTTGTTT
1 ATTTATTATTTTG-TT
9206666 ATTTATTATTTTGTT
1 ATTTATTATTTTGTT
9206681 ATTTAT
1 ATTTAT
9206687 ATATATTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
14 2 0.07
15 19 0.63
16 9 0.30
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (15 bp):
ATTTATTATTTTGTT
Found at i:9206697 original size:15 final size:15
Alignment explanation
Indices: 9206638--9206697 Score: 50
Period size: 15 Copynumber: 3.8 Consensus size: 15
9206628 TTTTATGATT
*
9206638 TATATATTATATTATA
1 TATATATTTTATT-TA
*
9206654 TATTATTTGTTTATTTA
1 TA-TATAT-TTTATTTA
*
9206671 T-TATTTTGTTATTTA
1 TATATATT-TTATTTA
9206686 TATATATTTTAT
1 TATATATTTTAT
9206698 GTTTAATTGC
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
14 1 0.03
15 17 0.46
16 7 0.19
17 7 0.19
18 5 0.14
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (15 bp):
TATATATTTTATTTA
Found at i:9210732 original size:25 final size:25
Alignment explanation
Indices: 9210697--9210745 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
9210687 TAACTCCAAA
*
9210697 ACATGAGCTAGAAATGAAAGCTTAT
1 ACATGAACTAGAAATGAAAGCTTAT
*
9210722 ACATGAACTAGAGATGAAAGCTTA
1 ACATGAACTAGAAATGAAAGCTTA
9210746 AATGTGCAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.45, C:0.12, G:0.20, T:0.22
Consensus pattern (25 bp):
ACATGAACTAGAAATGAAAGCTTAT
Found at i:9219084 original size:16 final size:16
Alignment explanation
Indices: 9219063--9219094 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
9219053 ATGTAGAGGC
9219063 TGGAAAAGATTGCCTT
1 TGGAAAAGATTGCCTT
9219079 TGGAAAAGATTGCCTT
1 TGGAAAAGATTGCCTT
9219095 CTTTTAGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.31
Consensus pattern (16 bp):
TGGAAAAGATTGCCTT
Found at i:9221370 original size:27 final size:27
Alignment explanation
Indices: 9221318--9221371 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
9221308 CTCTAAGGAA
* *
9221318 TTATTCTGAACAGTGGTTTCTAAAAGC
1 TTATTATGAACAGTGATTTCTAAAAGC
9221345 TTATTATGAACAGTGATTTCTAAAAGC
1 TTATTATGAACAGTGATTTCTAAAAGC
9221372 ACTTCAGTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (27 bp):
TTATTATGAACAGTGATTTCTAAAAGC
Found at i:9226685 original size:195 final size:194
Alignment explanation
Indices: 9226342--9226708 Score: 482
Period size: 195 Copynumber: 1.9 Consensus size: 194
9226332 TATGGCACCA
* * * * *
9226342 ATAAACACTTCTTATATAAGACATTCAAAAATAGTTGACTCATTATCATAAAAGCACCAACCCAC
1 ATAAACACTTATGATATAACACATCCAAAAATAGTTGACTCATTATAATAAAAGCACCAACCCAC
* * * * * * *
9226407 ACAGTACCAAAAAATAGTTTAGTCATTATCATAAACACTTCTTATATAACATGTTTAAAAATAGT
66 ACAATACCAAAAAACAATTTAGTCATTATCATAAACACTTCTTATATAACACGTTCAAAAACAAT
9226472 TTACTTATTATCATAGACCATTAAAAATCATATTACTCTTCACTAGAAAATAGAAAAATATATTC
131 TTACTTATTATCATAGACCATTAAAAATCATATT-CTCTTCACTAGAAAATAGAAAAATATATTC
* * * * *
9226537 ATAAACACTTATGATATAACACATCCAAAAATAGTTTACTCATTATAATAAGAGTACTAACCCTC
1 ATAAACACTTATGATATAACACATCCAAAAATAGTTGACTCATTATAATAAAAGCACCAACCCAC
** ** * * * *
9226602 GTAATATTAGAAAACAATTTAGTCATTATCATAAGCATTTCTTATATAACACGTTCATAAACAAT
66 ACAATACCAAAAAACAATTTAGTCATTATCATAAACACTTCTTATATAACACGTTCAAAAACAAT
* *
9226667 TTACTTTTTATTATAGACCATTAAAAATCATATTCTCTTCAC
131 TTACTTATTATCATAGACCATTAAAAATCATATTCTCTTCAC
9226709 CCAAAAAAAA
Statistics
Matches: 145, Mismatches: 27, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
194 8 0.06
195 137 0.94
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.34
Consensus pattern (194 bp):
ATAAACACTTATGATATAACACATCCAAAAATAGTTGACTCATTATAATAAAAGCACCAACCCAC
ACAATACCAAAAAACAATTTAGTCATTATCATAAACACTTCTTATATAACACGTTCAAAAACAAT
TTACTTATTATCATAGACCATTAAAAATCATATTCTCTTCACTAGAAAATAGAAAAATATATTC
Found at i:9227838 original size:39 final size:39
Alignment explanation
Indices: 9227762--9227852 Score: 101
Period size: 39 Copynumber: 2.3 Consensus size: 39
9227752 GATTAGCTTT
* * * *
9227762 TATGGTGATTCCATTGACTCATGAGCTAATTGGACTTGC
1 TATGGTGATTCTAATGACTCATGAGCTAATTGAACTTGA
* * *
9227801 TATGGTGATTCTAATGAGTCATTAGCTTATTGAACTTGA
1 TATGGTGATTCTAATGACTCATGAGCTAATTGAACTTGA
* *
9227840 TGTGGTGGTTCTA
1 TATGGTGATTCTA
9227853 GTGAAGAAGG
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.23, C:0.13, G:0.24, T:0.40
Consensus pattern (39 bp):
TATGGTGATTCTAATGACTCATGAGCTAATTGAACTTGA
Found at i:9230738 original size:18 final size:19
Alignment explanation
Indices: 9230705--9230742 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
9230695 CTTACACCAG
9230705 TCATGAAAAAAGTTTTATT
1 TCATGAAAAAAGTTTTATT
9230724 TCATGAAAAAA-TTTTATT
1 TCATGAAAAAAGTTTTATT
9230742 T
1 T
9230743 TAGAGCCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.45
Consensus pattern (19 bp):
TCATGAAAAAAGTTTTATT
Found at i:9243498 original size:29 final size:29
Alignment explanation
Indices: 9243466--9243539 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 29
9243456 AAAATTCAAA
*
9243466 TAAAAATATAAAACATTC-TAAAAATTTTT
1 TAAAAATATAAAA-ATTCTTAAAAATTTCT
* *
9243495 TAAAAATTCTAAAAATTCTTCAAAATTTCT
1 TAAAAA-TATAAAAATTCTTAAAAATTTCT
*
9243525 AAAATAATATAAAAA
1 TAAA-AATATAAAAA
9243540 AATATTTTGA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
29 10 0.27
30 25 0.68
31 2 0.05
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (29 bp):
TAAAAATATAAAAATTCTTAAAAATTTCT
Found at i:9243505 original size:20 final size:20
Alignment explanation
Indices: 9243474--9243528 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
9243464 AATAAAAATA
*
9243474 TAAAACATTCTAAAAATTTTT
1 TAAAA-ATTCTAAAAATTCTT
9243495 TAAAAATTCTAAAAATTCTT
1 TAAAAATTCTAAAAATTCTT
* *
9243515 CAAAATTTCTAAAA
1 TAAAAATTCTAAAA
9243529 TAATATAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
20 26 0.84
21 5 0.16
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (20 bp):
TAAAAATTCTAAAAATTCTT
Found at i:9243768 original size:19 final size:20
Alignment explanation
Indices: 9243746--9243788 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
9243736 ATTTTTATAT
*
9243746 TTTTTTTA-TTTTTTAAAAA
1 TTTTTTTAGATTTTTAAAAA
9243765 -TTTTTTAGGATTTTTAAAAA
1 TTTTTTTA-GATTTTTAAAAA
9243785 TTTT
1 TTTT
9243789 CAAATTATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
18 7 0.35
20 10 0.50
21 3 0.15
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (20 bp):
TTTTTTTAGATTTTTAAAAA
Found at i:9243910 original size:26 final size:25
Alignment explanation
Indices: 9243881--9243947 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 25
9243871 AAAATTTTTT
*
9243881 GAATATTAAATTTTTTTTAGTTTTAA
1 GAAT-TTAAAATTTTTTTAGTTTTAA
**
9243907 GAATTTGAAAATTTTTTTCTTTTTAA
1 GAATTT-AAAATTTTTTTAGTTTTAA
*
9243933 -AATTTTAAAAATTTT
1 GAA-TTTAAAATTTTT
9243948 GTTAAAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
25 12 0.34
26 23 0.66
ACGTcount: A:0.36, C:0.01, G:0.06, T:0.57
Consensus pattern (25 bp):
GAATTTAAAATTTTTTTAGTTTTAA
Done.