Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 52 of 190
Found at i:14777878 original size:20 final size:20
Alignment explanation
Indices: 14777818--14777878 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
14777808 ATAACTTATA
14777818 TAATATTAAGATAAAATTTC
1 TAATATTAAGATAAAATTTC
* * *
14777838 T-A-ATT-ACAT-AACTTATA
1 TAATATTAAGATAAAATT-TC
14777855 TAATATTAAGATAAAATTTC
1 TAATATTAAGATAAAATTTC
14777875 TAAT
1 TAAT
14777879 TACATAACGT
Statistics
Matches: 30, Mismatches: 6, Indels: 10
0.65 0.13 0.22
Matches are distributed among these distances:
16 4 0.13
17 5 0.17
18 4 0.13
19 4 0.13
20 9 0.30
21 4 0.13
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.41
Consensus pattern (20 bp):
TAATATTAAGATAAAATTTC
Found at i:14777903 original size:30 final size:30
Alignment explanation
Indices: 14777869--14778054 Score: 162
Period size: 30 Copynumber: 6.1 Consensus size: 30
14777859 ATTAAGATAA
*
14777869 AATTTCTAATTACATAACGTATATAATATT
1 AATTTCTAATTACATAACTTATATAATATT
* * * * *
14777899 AATTTCTAATTTC-TAAGTACACATCAATTTCT
1 AATTTCTAATTACATAACT-TATAT-AATAT-T
* * * * *
14777931 AATTT-TATATAACTTATAC-AATATTAAGATAA
1 AATTTCTA-ATTACATA-ACTTATA-TAATAT-T
*
14777963 AATTTCGAATTACATAACTTATATAATATT
1 AATTTCTAATTACATAACTTATATAATATT
*
14777993 AATTTCTAATAACATAACTTATATAATATT
1 AATTTCTAATTACATAACTTATATAATATT
*
14778023 AATTTCTCATTACATAACTTATATAATATT
1 AATTTCTAATTACATAACTTATATAATATT
14778053 AA
1 AA
14778055 GAAAAAATTT
Statistics
Matches: 122, Mismatches: 25, Indels: 18
0.74 0.15 0.11
Matches are distributed among these distances:
29 3 0.02
30 73 0.60
31 13 0.11
32 28 0.23
33 4 0.03
34 1 0.01
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.43
Consensus pattern (30 bp):
AATTTCTAATTACATAACTTATATAATATT
Found at i:14777914 original size:37 final size:37
Alignment explanation
Indices: 14777808--14777900 Score: 177
Period size: 37 Copynumber: 2.5 Consensus size: 37
14777798 TAAAATTAAG
14777808 ATAACTTATATAATATTAAGATAAAATTTCTAATTAC
1 ATAACTTATATAATATTAAGATAAAATTTCTAATTAC
14777845 ATAACTTATATAATATTAAGATAAAATTTCTAATTAC
1 ATAACTTATATAATATTAAGATAAAATTTCTAATTAC
*
14777882 ATAACGTATATAATATTAA
1 ATAACTTATATAATATTAA
14777901 TTTCTAATTT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.40
Consensus pattern (37 bp):
ATAACTTATATAATATTAAGATAAAATTTCTAATTAC
Found at i:14777963 original size:94 final size:92
Alignment explanation
Indices: 14777832--14778073 Score: 295
Period size: 94 Copynumber: 2.6 Consensus size: 92
14777822 ATTAAGATAA
* *
14777832 AATTTCTAATTACATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACGTATATAATA
1 AATTTCTAATTACATAACTTATACAATATTAAGATAAAATTTCGAATTACATAACGTATATAATA
14777897 TTAATTTCTAATTTCTAAGTACACATC
66 TTAATTTCTAATTTCTAAGTACACATC
* *
14777924 AATTTCTAATTTTATATAACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTATATAA
1 AATTTCTAA--TTACATAACTTATACAATATTAAGATAAAATTTCGAATTACATAACGTATATAA
** * * * *
14777989 TATTAATTTCTAATAACATAACTTATATAATATT
64 TATTAATTTCTAATTTC-TAA---GTA-CACATC
* * * *
14778023 AATTTCTCATTACATAACTTATATAATATTAAGAAAAAATTTCTAATTACA
1 AATTTCTAATTACATAACTTATACAATATTAAGATAAAATTTCGAATTACA
14778074 CATCAATTTC
Statistics
Matches: 128, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
92 9 0.07
94 65 0.51
95 3 0.02
97 38 0.30
98 2 0.02
99 11 0.09
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.42
Consensus pattern (92 bp):
AATTTCTAATTACATAACTTATACAATATTAAGATAAAATTTCGAATTACATAACGTATATAATA
TTAATTTCTAATTTCTAAGTACACATC
Found at i:14778050 original size:154 final size:157
Alignment explanation
Indices: 14777832--14778142 Score: 441
Period size: 154 Copynumber: 2.0 Consensus size: 157
14777822 ATTAAGATAA
*
14777832 AATTTCTAATTACATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACGTATATAATA
1 AATTTCTAATAACATAACTTATATAATATT---AT-AAATTTCTAATTACATAACGTATATAATA
***** *
14777897 TTAATTTCTAATTTCTAAGTACACATCAATTTCTAATTTTATATAACTTATACAATATTAAGATA
62 TTAAGAAAAAATTTCTAAGTACACATCAATTTCTAATTTTAGATAACTTATACAATATTAAGATA
*
14777962 AAATTTCG-AATTACATAACTTATATAATATT
127 AAATTTCGTAA-TACATAACTTAAATAATATT
* *
14777993 AATTTCTAATAACATAACTTATATAATA-T-T-AATTTCTCATTACATAACTTATATAATATTAA
1 AATTTCTAATAACATAACTTATATAATATTATAAATTTCTAATTACATAACGTATATAATATTAA
* *
14778055 GAAAAAATTTCTAATTACACATCAATTTCTAATTTTAGATAACTTATATAATATTAAGATAAAAT
66 GAAAAAATTTCTAAGTACACATCAATTTCTAATTTTAGATAACTTATACAATATTAAGATAAAAT
14778120 TTCGTAATACATAACTTAAATAA
131 TTCGTAATACATAACTTAAATAA
14778143 GTTACATAAT
Statistics
Matches: 137, Mismatches: 12, Indels: 9
0.87 0.08 0.06
Matches are distributed among these distances:
154 106 0.77
155 2 0.01
156 1 0.01
160 1 0.01
161 27 0.20
ACGTcount: A:0.45, C:0.11, G:0.03, T:0.41
Consensus pattern (157 bp):
AATTTCTAATAACATAACTTATATAATATTATAAATTTCTAATTACATAACGTATATAATATTAA
GAAAAAATTTCTAAGTACACATCAATTTCTAATTTTAGATAACTTATACAATATTAAGATAAAAT
TTCGTAATACATAACTTAAATAATATT
Found at i:14778151 original size:9 final size:9
Alignment explanation
Indices: 14778127--14778462 Score: 129
Period size: 9 Copynumber: 39.8 Consensus size: 9
14778117 AATTTCGTAA
14778127 TACATAACT
1 TACATAACT
* *
14778136 TAAATAAGT
1 TACATAACT
14778145 TACATAA--
1 TACATAACT
*
14778152 TACACAACTTAT
1 TACATAAC---T
*
14778164 TATATAACT
1 TACATAACT
*
14778173 TAAATAACT
1 TACATAACT
14778182 TACATAA--
1 TACATAACT
14778189 TACATAACT
1 TACATAACT
*
14778198 TTCATAACT
1 TACATAACT
*
14778207 TACATTA-T
1 TACATAACT
*
14778215 T-CACAACT
1 TACATAACT
*
14778223 TGGCCGATTAA-T
1 T--AC-A-TAACT
*
14778235 TA-AT-ATT
1 TACATAACT
14778242 ATACATAACT
1 -TACATAACT
14778252 TACAT-A--
1 TACATAACT
14778258 T--ATAACT
1 TACATAACT
*
14778265 CACATAACT
1 TACATAACT
* *
14778274 TATATAGCT
1 TACATAACT
*
14778283 TACAT-TC-
1 TACATAACT
*
14778290 TACACAACT
1 TACATAACT
*
14778299 TACATAACA
1 TACATAACT
14778308 TACATAA--
1 TACATAACT
14778315 TACATAACT
1 TACATAACT
14778324 TACATAACT
1 TACATAACT
*
14778333 AACATAA--
1 TACATAACT
*
14778340 TACATAGCT
1 TACATAACT
14778349 TACATAA--
1 TACATAACT
*
14778356 TACACAACT
1 TACATAACT
*
14778365 TACATAGCT
1 TACATAACT
14778374 TACATAA--
1 TACATAACT
* *
14778381 AAAATAACT
1 TACATAACT
**
14778390 TACATAAAA
1 TACATAACT
14778399 TAC--AACT
1 TACATAACT
*
14778406 TACATAGCT
1 TACATAACT
*
14778415 TACATGA--
1 TACATAACT
14778422 TACATAACT
1 TACATAACT
* *
14778431 TACGTAGCT
1 TACATAACT
14778440 TACATAA--
1 TACATAACT
*
14778447 TAAATAACT
1 TACATAACT
14778456 TACATAA
1 TACATAA
14778463 AATATAATTT
Statistics
Matches: 237, Mismatches: 52, Indels: 76
0.65 0.14 0.21
Matches are distributed among these distances:
4 2 0.01
5 1 0.00
6 2 0.01
7 62 0.26
8 10 0.04
9 146 0.62
10 2 0.01
11 1 0.00
12 9 0.04
13 2 0.01
ACGTcount: A:0.46, C:0.19, G:0.03, T:0.32
Consensus pattern (9 bp):
TACATAACT
Found at i:14778195 original size:25 final size:25
Alignment explanation
Indices: 14778167--14778380 Score: 131
Period size: 25 Copynumber: 8.5 Consensus size: 25
14778157 AACTTATTAT
*
14778167 ATAACTTAAATAACTTACATAATAC
1 ATAACTTACATAACTTACATAATAC
* * *
14778192 ATAACTTTCATAACTTACATTATTC
1 ATAACTTACATAACTTACATAATAC
* *
14778217 ACAACTTGGCCGATTAA-TTA-ATATTATAC
1 ATAACTT--AC-A-TAACTTACATA--ATAC
14778246 ATAACTTACAT-A--T--ATAACTCAC
1 ATAACTTACATAACTTACATAA-T-AC
* * **
14778268 ATAACTTATATAGCTTACATTCTAC
1 ATAACTTACATAACTTACATAATAC
* *
14778293 ACAACTTACATAACATACATAATAC
1 ATAACTTACATAACTTACATAATAC
*
14778318 ATAACTTACATAACTAACATAATAC
1 ATAACTTACATAACTTACATAATAC
* *
14778343 ATAGCTTACATAA--TACACAACTTAC
1 ATAACTTACATAACTTACATAA--TAC
*
14778368 ATAGCTTACATAA
1 ATAACTTACATAA
14778381 AAAATAACTT
Statistics
Matches: 148, Mismatches: 26, Indels: 30
0.73 0.13 0.15
Matches are distributed among these distances:
20 1 0.01
21 1 0.01
22 15 0.10
23 6 0.04
24 1 0.01
25 100 0.68
26 2 0.01
27 6 0.04
28 4 0.03
29 12 0.08
ACGTcount: A:0.44, C:0.20, G:0.03, T:0.33
Consensus pattern (25 bp):
ATAACTTACATAACTTACATAATAC
Found at i:14778343 original size:16 final size:16
Alignment explanation
Indices: 14778290--14778370 Score: 76
Period size: 16 Copynumber: 4.9 Consensus size: 16
14778280 GCTTACATTC
*
14778290 TACACAACTTACATAACA
1 TACATAACTTACAT-A-A
14778308 TACATAA--TACATAA
1 TACATAACTTACATAA
*
14778322 CTTACATAACTAACATAA
1 --TACATAACTTACATAA
*
14778340 TACATAGCTTACATAA
1 TACATAACTTACATAA
*
14778356 TACACAACTTACATA
1 TACATAACTTACATA
14778371 GCTTACATAA
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
14 1 0.02
15 1 0.02
16 39 0.74
18 12 0.23
ACGTcount: A:0.49, C:0.22, G:0.01, T:0.27
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:14778344 original size:41 final size:41
Alignment explanation
Indices: 14778299--14778519 Score: 182
Period size: 41 Copynumber: 5.4 Consensus size: 41
14778289 CTACACAACT
* * * *
14778299 TACATAACATACATAATACATAACTTACATAACTAACATAA
1 TACATAACTTACATAATACACAACTTACATAGCTTACATAA
*
14778340 TACATAGCTTACATAATACACAACTTACATAGCTTACATAA
1 TACATAACTTACATAATACACAACTTACATAGCTTACATAA
* * * * *
14778381 AAAATAACTTACATAAAATACAACTTACATAGCTTACATGA
1 TACATAACTTACATAATACACAACTTACATAGCTTACATAA
* * * * *
14778422 TACATAACTTACGTAGCTTACATAA--TAAATAACTTACATAA
1 TACATAACTTACATA--ATACACAACTTACATAGCTTACATAA
* * * *
14778463 AATATAATTTACATAA-A-A-AAGTCTATGACATAGCTTATATAA
1 TACATAACTTACATAATACACAA--CT-T-ACATAGCTTACATAA
14778505 TACATAACTTACATA
1 TACATAACTTACATA
14778520 GCTTATATAA
Statistics
Matches: 140, Mismatches: 32, Indels: 15
0.75 0.17 0.08
Matches are distributed among these distances:
36 2 0.01
37 1 0.01
38 1 0.01
41 108 0.77
42 24 0.17
43 4 0.03
ACGTcount: A:0.49, C:0.17, G:0.04, T:0.30
Consensus pattern (41 bp):
TACATAACTTACATAATACACAACTTACATAGCTTACATAA
Found at i:14778389 original size:25 final size:25
Alignment explanation
Indices: 14778340--14778395 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
14778330 ACTAACATAA
* *
14778340 TACATAGCTTACATAATACACAACT
1 TACATAGCTTACATAAAAAACAACT
*
14778365 TACATAGCTTACATAAAAAATAACT
1 TACATAGCTTACATAAAAAACAACT
14778390 TACATA
1 TACATA
14778396 AAATACAACT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.48, C:0.20, G:0.04, T:0.29
Consensus pattern (25 bp):
TACATAGCTTACATAAAAAACAACT
Found at i:14778393 original size:16 final size:16
Alignment explanation
Indices: 14778372--14778411 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
14778362 ACTTACATAG
*
14778372 CTTACATAAAAAATAA
1 CTTACATAAAAAACAA
*
14778388 CTTACATAAAATACAA
1 CTTACATAAAAAACAA
14778404 CTTACATA
1 CTTACATA
14778412 GCTTACATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (16 bp):
CTTACATAAAAAACAA
Found at i:14778416 original size:25 final size:24
Alignment explanation
Indices: 14778388--14778461 Score: 85
Period size: 25 Copynumber: 3.0 Consensus size: 24
14778378 TAAAAAATAA
*
14778388 CTTACATAAAATACAACTTACATAG
1 CTTACATAAAA-ATAACTTACATAG
* * *
14778413 CTTACATGATACATAACTTACGTAG
1 CTTACAT-AAAAATAACTTACATAG
14778438 CTTACATAATAAATAACTTACATA
1 CTTACATAA-AAATAACTTACATA
14778462 AAATATAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
24 1 0.03
25 37 0.93
26 2 0.05
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.31
Consensus pattern (24 bp):
CTTACATAAAAATAACTTACATAG
Found at i:14778459 original size:16 final size:16
Alignment explanation
Indices: 14778438--14778480 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
14778428 ACTTACGTAG
14778438 CTTACATAATAA-ATAA
1 CTTACATAA-AATATAA
14778454 CTTACATAAAATATAA
1 CTTACATAAAATATAA
*
14778470 TTTACATAAAA
1 CTTACATAAAA
14778481 AAGTCTATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 2 0.08
16 23 0.92
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.33
Consensus pattern (16 bp):
CTTACATAAAATATAA
Found at i:14778463 original size:66 final size:66
Alignment explanation
Indices: 14778270--14778477 Score: 258
Period size: 66 Copynumber: 3.2 Consensus size: 66
14778260 TAACTCACAT
* ** * * * *
14778270 AACTTATATAGCTTACATTCTACACAACTTACATAACATACATAATACATAACTTACAT-AACTA
1 AACTTACATAGCTTACATAATACACAACTTACATAGCTTACATAATAAATAACTTACATAAAAT-
14778334 AC
65 AC
* *
14778336 ATA-ATACATAGCTTACATAATACACAACTTACATAGCTTACATAAAAAATAACTTACATAAAAT
1 A-ACTTACATAGCTTACATAATACACAACTTACATAGCTTACATAATAAATAACTTACATAAAAT
14778400 AC
65 AC
* * *
14778402 AACTTACATAGCTTACATGATACATAACTTACGTAGCTTACATAATAAATAACTTACATAAAATA
1 AACTTACATAGCTTACATAATACACAACTTACATAGCTTACATAATAAATAACTTACATAAAATA
*
14778467 T
66 C
*
14778468 AATTTACATA
1 AACTTACATA
14778478 AAAAAGTCTA
Statistics
Matches: 123, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
65 1 0.01
66 118 0.96
67 4 0.03
ACGTcount: A:0.48, C:0.19, G:0.03, T:0.30
Consensus pattern (66 bp):
AACTTACATAGCTTACATAATACACAACTTACATAGCTTACATAATAAATAACTTACATAAAATA
C
Found at i:14778515 original size:83 final size:82
Alignment explanation
Indices: 14778302--14778558 Score: 270
Period size: 82 Copynumber: 3.1 Consensus size: 82
14778292 CACAACTTAC
* * * * * * * * *
14778302 ATAACATACATAATACATAACTTACATAACTAACATAATACATAGCTTACATA--ATACACAACT
1 ATAACTTACATAAAATACAACTTACATAGCTTACATAATACATAACTTACATAGCTTACATAA--
* * *
14778365 TACATAGCTTACATAAAAA
64 TAAATAACTTACATAAAAT
* *
14778384 ATAACTTACATAAAATACAACTTACATAGCTTACATGATACATAACTTACGTAGCTTACATAATA
1 ATAACTTACATAAAATACAACTTACATAGCTTACATAATACATAACTTACATAGCTTACATAATA
14778449 AATAACTTACATAAAAT
66 AATAACTTACATAAAAT
* * * *
14778466 ATAATTTACATAAAA-A-AGTCTATGACATAGCTTATATAATACATAACTTACATAGCTTATATA
1 ATAACTTACATAAAATACA-ACT-T-ACATAGCTTACATAATACATAACTTACATAGCTTACATA
14778529 ATAAATAACTTACATAAAAT
63 ATAAATAACTTACATAAAAT
*
14778549 ACAACTTACA
1 ATAACTTACA
14778559 CAGCTTACTT
Statistics
Matches: 148, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
80 1 0.01
81 3 0.02
82 75 0.51
83 63 0.43
84 6 0.04
ACGTcount: A:0.49, C:0.17, G:0.04, T:0.30
Consensus pattern (82 bp):
ATAACTTACATAAAATACAACTTACATAGCTTACATAATACATAACTTACATAGCTTACATAATA
AATAACTTACATAAAAT
Found at i:14778518 original size:25 final size:25
Alignment explanation
Indices: 14778490--14778544 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
14778480 AAAGTCTATG
*
14778490 ACATAGCTTATATAATACATAACTT
1 ACATAGCTTATATAATAAATAACTT
14778515 ACATAGCTTATATAATAAATAACTT
1 ACATAGCTTATATAATAAATAACTT
14778540 ACATA
1 ACATA
14778545 AAATACAACT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.47, C:0.15, G:0.04, T:0.35
Consensus pattern (25 bp):
ACATAGCTTATATAATAAATAACTT
Found at i:14778519 original size:9 final size:9
Alignment explanation
Indices: 14778505--14778616 Score: 60
Period size: 9 Copynumber: 13.3 Consensus size: 9
14778495 GCTTATATAA
14778505 TACATAACT
1 TACATAACT
*
14778514 TACATAGCT
1 TACATAACT
*
14778523 TATATAA--
1 TACATAACT
*
14778530 TAAATAACT
1 TACATAACT
**
14778539 TACATAAAA
1 TACATAACT
14778548 TAC--AACT
1 TACATAACT
* *
14778555 TACACAGCT
1 TACATAACT
*
14778564 TACTTAA--
1 TACATAACT
*
14778571 TACGTAACT
1 TACATAACT
14778580 TACATAACT
1 TACATAACT
*
14778589 TATATAA--
1 TACATAACT
*
14778596 TACGTAACT
1 TACATAACT
*
14778605 TACATAATT
1 TACATAACT
14778614 TAC
1 TAC
14778617 TTAATACAGA
Statistics
Matches: 75, Mismatches: 20, Indels: 16
0.68 0.18 0.14
Matches are distributed among these distances:
7 22 0.29
9 53 0.71
ACGTcount: A:0.45, C:0.18, G:0.04, T:0.34
Consensus pattern (9 bp):
TACATAACT
Found at i:14778535 original size:149 final size:149
Alignment explanation
Indices: 14778341--14778611 Score: 425
Period size: 149 Copynumber: 1.8 Consensus size: 149
14778331 CTAACATAAT
14778341 ACATAGCTTACATAATACACAACTTACATAGCTTACATAAAAAATAACTTACATAAAATACAACT
1 ACATAGCTTACATAATACACAACTTACATAGCTTACATAAAAAATAACTTACATAAAATACAACT
* * * *
14778406 TACATAGCTTACATGATACATAACTTACGTAGCTTACATAATAAATAACTTACATAAAATATAAT
66 TACACAGCTTACATAATACATAACTTACATAACTTACATAATAAATAACTTACATAAAATATAAT
14778471 TTACATAAAAAAGTCTATG
131 TTACATAAAAAAGTCTATG
* * * *
14778490 ACATAGCTTATATAATACATAACTTACATAGCTTATATAATAAATAACTTACATAAAATACAACT
1 ACATAGCTTACATAATACACAACTTACATAGCTTACATAAAAAATAACTTACATAAAATACAACT
* * * **
14778555 TACACAGCTTACTTAATACGTAACTTACATAACTTATATAATACGTAACTTACATAA
66 TACACAGCTTACATAATACATAACTTACATAACTTACATAATAAATAACTTACATAA
14778612 TTTACTTAAT
Statistics
Matches: 109, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
149 109 1.00
ACGTcount: A:0.47, C:0.17, G:0.05, T:0.31
Consensus pattern (149 bp):
ACATAGCTTACATAATACACAACTTACATAGCTTACATAAAAAATAACTTACATAAAATACAACT
TACACAGCTTACATAATACATAACTTACATAACTTACATAATAAATAACTTACATAAAATATAAT
TTACATAAAAAAGTCTATG
Found at i:14778579 original size:25 final size:25
Alignment explanation
Indices: 14778551--14778623 Score: 103
Period size: 25 Copynumber: 2.9 Consensus size: 25
14778541 CATAAAATAC
* *
14778551 AACTTACACAGCTTACTTAATACGT
1 AACTTACATAACTTACTTAATACGT
14778576 AACTTACATAACTTA-TATAATACGT
1 AACTTACATAACTTACT-TAATACGT
*
14778601 AACTTACATAATTTACTTAATAC
1 AACTTACATAACTTACTTAATAC
14778624 AGAAATATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
24 1 0.02
25 41 0.95
26 1 0.02
ACGTcount: A:0.41, C:0.19, G:0.04, T:0.36
Consensus pattern (25 bp):
AACTTACATAACTTACTTAATACGT
Found at i:14782377 original size:43 final size:43
Alignment explanation
Indices: 14782234--14782503 Score: 301
Period size: 43 Copynumber: 6.3 Consensus size: 43
14782224 AATTCCAAAA
* * *
14782234 TTAGTGGCGTTTTTGGAAAAAGCGCCGCTAAAGAACATGACCT
1 TTAGCGGCGTTTGTGGAATAAGCGCCGCTAAAGAACATGACCT
* * * * * *
14782277 TTAACGGCGCTTGTGGGAA-AAGTGCCGCTAAA-AGTCAGGATCT
1 TTAGCGGCGTTTGT-GGAATAAGCGCCGCTAAAGA-ACATGACCT
* * * * *
14782320 ATAGCGGCGATTGTGGGATAAGCACCGCTAAAGAACATGAGCT
1 TTAGCGGCGTTTGTGGAATAAGCGCCGCTAAAGAACATGACCT
* * *
14782363 TTAGTGGCTTTTGTGGAATAAGCGCCGCTAAAGAGCATGACCT
1 TTAGCGGCGTTTGTGGAATAAGCGCCGCTAAAGAACATGACCT
* **
14782406 TTAGCGGCGTTTGTGGGATAAGCGCCGCTAAAGAACATGAGTT
1 TTAGCGGCGTTTGTGGAATAAGCGCCGCTAAAGAACATGACCT
* **
14782449 TTAGCGGCGTTTGTGGAATAAGCGCTGCTAAAGGTCATGACCT
1 TTAGCGGCGTTTGTGGAATAAGCGCCGCTAAAGAACATGACCT
14782492 TTAGCGGCGTTT
1 TTAGCGGCGTTT
14782504 ATTTCTATAA
Statistics
Matches: 186, Mismatches: 37, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
42 4 0.02
43 177 0.95
44 5 0.03
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.26
Consensus pattern (43 bp):
TTAGCGGCGTTTGTGGAATAAGCGCCGCTAAAGAACATGACCT
Found at i:14782464 original size:129 final size:129
Alignment explanation
Indices: 14782234--14782503 Score: 339
Period size: 129 Copynumber: 2.1 Consensus size: 129
14782224 AATTCCAAAA
14782234 TTAGTGGCGTTTTTGGAAAAAGCGCCGCTAAAGAACATGACCTTTAACGGCGCTTGTGGGAAAAG
1 TTAGTGGCGTTTTTGGAAAAAGCGCCGCTAAAGAACATGACCTTTAACGGCGCTTGTGGGAAAAG
* * * *
14782299 TGCCGCTAAAAGTCAGGATCTATAGCGGCGATTGTGGGATAAGCACCGCTAAAGAACATGAGCT
66 CGCCGCTAAAAGACAGGATCTATAGCGGCGATTGTGGAATAAGCACCGCTAAAGAACATGACCT
* * * * *
14782363 TTAGTGGC-TTTTGTGGAATAAGCGCCGCTAAAGAGCATGACCTTTAGCGGCGTTTGTGGGATAA
1 TTAGTGGCGTTTT-TGGAAAAAGCGCCGCTAAAGAACATGACCTTTAACGGCGCTTGTGGGAAAA
* * * * * **
14782427 GCGCCGCT-AAAGAACATGAGT-TTTAGCGGCGTTTGTGGAATAAGCGCTGCTAAAGGTCATGAC
65 GCGCCGCTAAAAG-ACAGGA-TCTATAGCGGCGATTGTGGAATAAGCACCGCTAAAGAACATGAC
14782490 CT
128 CT
*
14782492 TTAGCGGCGTTT
1 TTAGTGGCGTTT
14782504 ATTTCTATAA
Statistics
Matches: 120, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
128 8 0.07
129 108 0.90
130 4 0.03
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.26
Consensus pattern (129 bp):
TTAGTGGCGTTTTTGGAAAAAGCGCCGCTAAAGAACATGACCTTTAACGGCGCTTGTGGGAAAAG
CGCCGCTAAAAGACAGGATCTATAGCGGCGATTGTGGAATAAGCACCGCTAAAGAACATGACCT
Found at i:14782501 original size:86 final size:86
Alignment explanation
Indices: 14782234--14782503 Score: 346
Period size: 86 Copynumber: 3.1 Consensus size: 86
14782224 AATTCCAAAA
* * * * * * *
14782234 TTAGTGGCGTTTTTGGAAAAAGCGCCGCTAAAGAACATGACCTTTAACGGCGCTTGTGGGAA-AA
1 TTAGCGGCGTTTGTGGGATAAGCGCCGCTAAAGAACATGAGCTTTAGCGGCGTTTGT-GGAATAA
* * * *
14782298 GTGCCGCTAAAAGTCAGGATCT
65 GCGCCGCTAAAGGTCATGACCT
* * * * *
14782320 ATAGCGGCGATTGTGGGATAAGCACCGCTAAAGAACATGAGCTTTAGTGGCTTTTGTGGAATAAG
1 TTAGCGGCGTTTGTGGGATAAGCGCCGCTAAAGAACATGAGCTTTAGCGGCGTTTGTGGAATAAG
14782385 CGCCGCTAAAGAG-CATGACCT
66 CGCCGCTAAAG-GTCATGACCT
*
14782406 TTAGCGGCGTTTGTGGGATAAGCGCCGCTAAAGAACATGAGTTTTAGCGGCGTTTGTGGAATAAG
1 TTAGCGGCGTTTGTGGGATAAGCGCCGCTAAAGAACATGAGCTTTAGCGGCGTTTGTGGAATAAG
*
14782471 CGCTGCTAAAGGTCATGACCT
66 CGCCGCTAAAGGTCATGACCT
14782492 TTAGCGGCGTTT
1 TTAGCGGCGTTT
14782504 ATTTCTATAA
Statistics
Matches: 158, Mismatches: 23, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
85 5 0.03
86 152 0.96
87 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.26
Consensus pattern (86 bp):
TTAGCGGCGTTTGTGGGATAAGCGCCGCTAAAGAACATGAGCTTTAGCGGCGTTTGTGGAATAAG
CGCCGCTAAAGGTCATGACCT
Found at i:14784514 original size:32 final size:32
Alignment explanation
Indices: 14784453--14784690 Score: 201
Period size: 32 Copynumber: 7.5 Consensus size: 32
14784443 GAATGGCTGC
* * *
14784453 AAGCCATAAGTA-CAGTAATTTGATTGGCACA
1 AAGCCATCAGTAGCAGTAATATGATCGGCACA
* * *
14784484 ATGCCATTAGTAGCAGTGATATGATCGGCACA
1 AAGCCATCAGTAGCAGTAATATGATCGGCACA
** * * * *
14784516 CGGCTATCAGTAACGGTAACATGATCGGCACA
1 AAGCCATCAGTAGCAGTAATATGATCGGCACA
* * * *
14784548 AAGCCATCAGTAGCAATGATATGATTGGCGCA
1 AAGCCATCAGTAGCAGTAATATGATCGGCACA
* * ** *
14784580 CATCCATCAGTAATAGTGAA-ATGATCGGTACA
1 AAGCCATCAGTAGCAGT-AATATGATCGGCACA
* ** * *
14784612 TAGCCATTGGTAACGGTAATATGATCGGCACA
1 AAGCCATCAGTAGCAGTAATATGATCGGCACA
* *
14784644 AAGCCATCAGTAGCAGTACTATGATTGGCACA
1 AAGCCATCAGTAGCAGTAATATGATCGGCACA
14784676 AAGCCATCAGTAGCA
1 AAGCCATCAGTAGCA
14784691 TTGCAGCAAA
Statistics
Matches: 158, Mismatches: 46, Indels: 5
0.76 0.22 0.02
Matches are distributed among these distances:
31 12 0.08
32 145 0.92
33 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (32 bp):
AAGCCATCAGTAGCAGTAATATGATCGGCACA
Found at i:14784887 original size:24 final size:24
Alignment explanation
Indices: 14784859--14784933 Score: 66
Period size: 24 Copynumber: 3.1 Consensus size: 24
14784849 CCATGCTCAG
14784859 AATCAGTCATTCAAATCACAGAAA
1 AATCAGTCATTCAAATCACAGAAA
* *
14784883 AATCAGTTATACCAAA-CACA-AACA
1 AATCAGTCAT-TCAAATCACAGAA-A
* *
14784907 AATTAGTCATT-TAATCACAGACAA
1 AATCAGTCATTCAAATCACAGA-AA
14784931 AAT
1 AAT
14784934 AATCATTTGA
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
22 2 0.05
23 6 0.15
24 27 0.68
25 5 0.12
ACGTcount: A:0.51, C:0.20, G:0.07, T:0.23
Consensus pattern (24 bp):
AATCAGTCATTCAAATCACAGAAA
Found at i:14785009 original size:27 final size:27
Alignment explanation
Indices: 14784962--14785468 Score: 323
Period size: 27 Copynumber: 18.9 Consensus size: 27
14784952 GGCAAAAATA
* *
14784962 GTCA-TTTACCC-ACCAGGGTATTATG
1 GTCATTTTACCCTACAAGGGTATTACG
*
14784987 GTCATTTTACCCTACAAGGGTATTACA
1 GTCATTTTACCCTACAAGGGTATTACG
* * *
14785014 GTCATTTTACCATATAGGGGTATTA-G
1 GTCATTTTACCCTACAAGGGTATTACG
* *
14785040 GATCATTTTACCCTAC-AGGAGCATTACT
1 G-TCATTTTACCCTACAAGG-GTATTACG
* * **
14785068 GTCATTTTACCCTATAGGGGCGTTACG
1 GTCATTTTACCCTACAAGGGTATTACG
* * * *
14785095 ATCATTTTACCTTACATGGGCATTACG
1 GTCATTTTACCCTACAAGGGTATTACG
*
14785122 GTCATTTTACCTGTACAAGGGTATTACG
1 GTCATTTTACC-CTACAAGGGTATTACG
* * * *
14785150 ATCATTATACCCTACAAGGGCATTACA
1 GTCATTTTACCCTACAAGGGTATTACG
* *
14785177 GTCATTTTACCCTACAGGGGTATTGCG
1 GTCATTTTACCCTACAAGGGTATTACG
* * * * *
14785204 ATCATTTTACCCTATAGGGGCATTACA
1 GTCATTTTACCCTACAAGGGTATTACG
* * *
14785231 GTCATTTTACCTTATAGGGGTATTACG
1 GTCATTTTACCCTACAAGGGTATTACG
* *
14785258 ATCATTTTACCCTAC-AGAGGTATTACA
1 GTCATTTTACCCTACAAG-GGTATTACG
* * ** *
14785285 ATCATTTTATCCTA-GGGGGTATTATG
1 GTCATTTTACCCTACAAGGGTATTACG
* *** *
14785311 GTTATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTACAAGGGTATTACG
* * *
14785338 GT-ATTCTACCCTACGAGGGTATTTCG
1 GTCATTTTACCCTACAAGGGTATTACG
* * *** * * *
14785364 ATAATTTTACCCTATGGGGGCATTTCA
1 GTCATTTTACCCTACAAGGGTATTACG
* * *
14785391 ATCATTTTACCC-ATCGAGGGTATTTCG
1 GTCATTTTACCCTA-CAAGGGTATTACG
* *
14785418 GTCATTTTACCC-ATCAATGGTATTTCG
1 GTCATTTTACCCTA-CAAGGGTATTACG
* * *
14785445 ATCAGTTTA-CCTATCGAGGGTATT
1 GTCATTTTACCCTA-CAAGGGTATT
14785469 TTGGCCATTT
Statistics
Matches: 389, Mismatches: 80, Indels: 24
0.79 0.16 0.05
Matches are distributed among these distances:
25 4 0.01
26 54 0.14
27 306 0.79
28 25 0.06
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCCTACAAGGGTATTACG
Found at i:14785249 original size:163 final size:163
Alignment explanation
Indices: 14784976--14785273 Score: 463
Period size: 163 Copynumber: 1.8 Consensus size: 163
14784966 TTTACCCACC
* * * * *
14784976 AGGGTATTATGGTCATTTTACCCTACAAGGGTATTACAGTCATTTTACCATATAGGGGTATTAGG
1 AGGGTATTACGATCATTATACCCTACAAGGGCATTACAGTCATTTTACCATACAGGGGTATTAGG
* *
14785041 ATCATTTTACCCTACAGGAGCATTACTGTCATTTTACCCTATAGGGGCGTTACGATCATTTTACC
66 ATCATTTTACCCTACAGGAGCATTACAGTCATTTTACCCTATAGGGGCATTACGATCATTTTACC
*
14785106 TTACATGGGCATTACGGTCATTTTACCTGTACA
131 CTACATGGGCATTACGGTCATTTTACCTGTACA
*
14785139 AGGGTATTACGATCATTATACCCTACAAGGGCATTACAGTCATTTTACCCTACAGGGGTATT-GC
1 AGGGTATTACGATCATTATACCCTACAAGGGCATTACAGTCATTTTACCATACAGGGGTATTAG-
* * * *
14785203 GATCATTTTACCCTATAGGGGCATTACAGTCATTTTACCTTATAGGGGTATTACGATCATTTTAC
65 GATCATTTTACCCTACAGGAGCATTACAGTCATTTTACCCTATAGGGGCATTACGATCATTTTAC
14785268 CCTACA
130 CCTACA
14785274 GAGGTATTAC
Statistics
Matches: 121, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
162 1 0.01
163 120 0.99
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (163 bp):
AGGGTATTACGATCATTATACCCTACAAGGGCATTACAGTCATTTTACCATACAGGGGTATTAGG
ATCATTTTACCCTACAGGAGCATTACAGTCATTTTACCCTATAGGGGCATTACGATCATTTTACC
CTACATGGGCATTACGGTCATTTTACCTGTACA
Found at i:14785333 original size:53 final size:54
Alignment explanation
Indices: 14784961--14785429 Score: 414
Period size: 54 Copynumber: 8.7 Consensus size: 54
14784951 GGGCAAAAAT
* * * * *
14784961 AGTCA-TTTACCC-ACCA-GGGTATTATGGTCATTTTACCCTACAAGGGTATTAC
1 AGTCATTTTACCCTA-CAGGGGTATTACGATCATTTTACCCTATAGGGGCATTAC
* * * * *
14785013 AGTCATTTTACCATATAGGGGTATTAGGATCATTTTACCCTACAGGAGCATTAC
1 AGTCATTTTACCCTACAGGGGTATTACGATCATTTTACCCTATAGGGGCATTAC
* * ** * * *
14785067 TGTCATTTTACCCTATAGGGGCGTTACGATCATTTTACCTTACATGGGCATTAC
1 AGTCATTTTACCCTACAGGGGTATTACGATCATTTTACCCTATAGGGGCATTAC
* * * * * *
14785121 GGTCATTTTACCTGTACAAGGGTATTACGATCATTATACCCTACAAGGGCATTAC
1 AGTCATTTTACC-CTACAGGGGTATTACGATCATTTTACCCTATAGGGGCATTAC
*
14785176 AGTCATTTTACCCTACAGGGGTATTGCGATCATTTTACCCTATAGGGGCATTAC
1 AGTCATTTTACCCTACAGGGGTATTACGATCATTTTACCCTATAGGGGCATTAC
* * * * *
14785230 AGTCATTTTACCTTATAGGGGTATTACGATCATTTTACCCTACAGAGGTATTAC
1 AGTCATTTTACCCTACAGGGGTATTACGATCATTTTACCCTATAGGGGCATTAC
* * * * * * * * *
14785284 AATCATTTTATCCTA-GGGGGTATTATGGTTATTTTACCCTATGGGGGTATTTC
1 AGTCATTTTACCCTACAGGGGTATTACGATCATTTTACCCTATAGGGGCATTAC
* * * * * *
14785337 GGT-ATTCTACCCTAC-GAGGGTATTTCGATAATTTTACCCTATGGGGGCATTTC
1 AGTCATTTTACCCTACAG-GGGTATTACGATCATTTTACCCTATAGGGGCATTAC
* * *
14785390 AATCATTTTACCC-ATC-GAGGGTATTTCGGTCATTTTACCC
1 AGTCATTTTACCCTA-CAG-GGGTATTACGATCATTTTACCC
14785430 ATCAATGGTA
Statistics
Matches: 347, Mismatches: 62, Indels: 14
0.82 0.15 0.03
Matches are distributed among these distances:
52 15 0.04
53 71 0.20
54 216 0.62
55 45 0.13
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (54 bp):
AGTCATTTTACCCTACAGGGGTATTACGATCATTTTACCCTATAGGGGCATTAC
Found at i:14785494 original size:54 final size:54
Alignment explanation
Indices: 14785314--14785498 Score: 164
Period size: 54 Copynumber: 3.4 Consensus size: 54
14785304 TATTATGGTT
* ***
14785314 ATTTTACCCTAT-GGGGGTATTTCGGT-A-TTCTACCC-TACGAGGGTATTTCGATA
1 ATTTTACCC-ATCGGGGGTATTTCGATCAGTT-TACCCAT-CGAGGGTATTTCGGCC
* * * *
14785367 ATTTTACCCTAT-GGGGGCATTTCAATCATTTTACCCATCGAGGGTATTTCGGTC
1 ATTTTACCC-ATCGGGGGTATTTCGATCAGTTTACCCATCGAGGGTATTTCGGCC
*** * *
14785421 ATTTTACCCATCAATGGTATTTCGATCAGTTTACCTATCGAGGGTATTTTGGCC
1 ATTTTACCCATCGGGGGTATTTCGATCAGTTTACCCATCGAGGGTATTTCGGCC
* *
14785475 ATTTTAGCCTTCGGGGGTATTTCG
1 ATTTTACCCATCGGGGGTATTTCG
14785499 GTCTAAATAT
Statistics
Matches: 109, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
53 25 0.23
54 81 0.74
55 3 0.03
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (54 bp):
ATTTTACCCATCGGGGGTATTTCGATCAGTTTACCCATCGAGGGTATTTCGGCC
Found at i:14787624 original size:30 final size:30
Alignment explanation
Indices: 14787589--14787659 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
14787579 TATATACATT
14787589 TAATAATTTTATATTTCAAAAAAAATAA-CA
1 TAATAATTTTATATTTC-AAAAAAATAATCA
**
14787619 TAATAATTTTATATTTCAAAAAAATAATTT
1 TAATAATTTTATATTTCAAAAAAATAATCA
14787649 TAATAATTTTA
1 TAATAATTTTA
14787660 AAATTTTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 10 0.26
30 28 0.74
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (30 bp):
TAATAATTTTATATTTCAAAAAAATAATCA
Found at i:14796280 original size:12 final size:12
Alignment explanation
Indices: 14796263--14796299 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
14796253 ACATTATCAT
14796263 TCTTTTTTCTTC
1 TCTTTTTTCTTC
14796275 TC-TTTTTCTT-
1 TCTTTTTTCTTC
14796285 TCTTTCTTTCTTC
1 TCTTT-TTTCTTC
14796298 TC
1 TC
14796300 CATATCTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
10 2 0.09
11 10 0.45
12 8 0.36
13 2 0.09
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (12 bp):
TCTTTTTTCTTC
Found at i:14796307 original size:23 final size:22
Alignment explanation
Indices: 14796257--14796307 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
14796247 AAAAATACAT
* **
14796257 TATCATTCTTTTTTCTTCTCTT
1 TATCTTTCTTTTTTCTTCTCCA
*
14796279 TTTCTTTCTTTCTTTCTTCTCCA
1 TATCTTTCTTT-TTTCTTCTCCA
14796302 TATCTT
1 TATCTT
14796308 ATTCCTTCTC
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.08, C:0.25, G:0.00, T:0.67
Consensus pattern (22 bp):
TATCTTTCTTTTTTCTTCTCCA
Found at i:14809262 original size:14 final size:14
Alignment explanation
Indices: 14809226--14809262 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
14809216 TGTTGCCATT
*
14809226 TTATTATTATATTG
1 TTATTATTTTATTG
14809240 TTATTATTTTATTG
1 TTATTATTTTATTG
14809254 TTATTATTT
1 TTATTATTT
14809263 GGATATTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.70
Consensus pattern (14 bp):
TTATTATTTTATTG
Found at i:14810398 original size:9 final size:9
Alignment explanation
Indices: 14810380--14810419 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
14810370 TCATAAAACT
*
14810380 AATATGAAA
1 AATATTAAA
14810389 AATATTAAA
1 AATATTAAA
*
14810398 AAAATTAAA
1 AATATTAAA
14810407 AA-ATTAAA
1 AATATTAAA
14810415 AATAT
1 AATAT
14810420 AGAGCAAGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 8 0.29
9 20 0.71
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (9 bp):
AATATTAAA
Found at i:14818066 original size:20 final size:20
Alignment explanation
Indices: 14818041--14818080 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
14818031 TTCTCAATAT
14818041 TCTCCATTATCTTTGATTGA
1 TCTCCATTATCTTTGATTGA
14818061 TCTCCATTATCTTTGATTGA
1 TCTCCATTATCTTTGATTGA
14818081 GAACAATCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.10, T:0.50
Consensus pattern (20 bp):
TCTCCATTATCTTTGATTGA
Found at i:14831958 original size:43 final size:43
Alignment explanation
Indices: 14831814--14831970 Score: 164
Period size: 43 Copynumber: 3.7 Consensus size: 43
14831804 TATGATTTCG
* *
14831814 TGTAAGACCACATCTGGGAC-GTTGGCATCG-ATTTGAGATTTACG
1 TGTAAGACCACGTCTGGGACAGTTGGCATCGTATTT--GA-TTACA
** * *
14831858 TGTAAGACCATTTCTGGGACA-TTGGCATCGTATATGATTTCA
1 TGTAAGACCACGTCTGGGACAGTTGGCATCGTATTTGATTACA
14831900 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGTTATTTGATTACA
1 TGTAAGACCAC-GTCTGGGACAGTTGGCATCG-TATTTGATTACA
*
14831943 TGTAATACCACGTCTGGGA-AGTTGGCAT
1 TGTAAGACCACGTCTGGGACAGTTGGCAT
14831971 TGTACGAGCT
Statistics
Matches: 96, Mismatches: 10, Indels: 15
0.79 0.08 0.12
Matches are distributed among these distances:
42 31 0.32
43 34 0.35
44 28 0.29
45 3 0.03
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACAGTTGGCATCGTATTTGATTACA
Found at i:14839081 original size:10 final size:10
Alignment explanation
Indices: 14839066--14839141 Score: 66
Period size: 10 Copynumber: 7.5 Consensus size: 10
14839056 ATAATACCAA
14839066 AAAAAGAAAG
1 AAAAAGAAAG
14839076 AAAAAGAAAAG
1 AAAAAG-AAAG
*
14839087 AGAAAGAAA-
1 AAAAAGAAAG
* *
14839096 AATAGGAAA-
1 AAAAAGAAAG
14839105 AAGAAAGAAAG
1 AA-AAAGAAAG
* *
14839116 AGAAAGGAAAA
1 A-AAAAGAAAG
14839127 AAAAAGAAAG
1 AAAAAGAAAG
14839137 AAAAA
1 AAAAA
14839142 AATAACTTAA
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
9 8 0.15
10 26 0.50
11 17 0.33
12 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:14839087 original size:15 final size:14
Alignment explanation
Indices: 14839064--14839143 Score: 72
Period size: 15 Copynumber: 5.4 Consensus size: 14
14839054 TAATAATACC
14839064 AAAAAAAGAAAGAAA
1 AAAAAAAGAAAG-AA
14839079 AAGAAAAGAGAAAGAA
1 AA-AAAA-AGAAAGAA
*
14839095 AAATAGGAA-AAAGAA
1 AAA-A-AAAGAAAGAA
* *
14839110 AGAAAGAGAAAGGAA
1 AAAAAAAGAAA-GAA
14839125 AAAAAAAGAAAGAA
1 AAAAAAAGAAAGAA
14839139 AAAAA
1 AAAAA
14839144 TAACTTAAGT
Statistics
Matches: 53, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
13 1 0.02
14 12 0.23
15 23 0.43
16 10 0.19
17 7 0.13
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.01
Consensus pattern (14 bp):
AAAAAAAGAAAGAA
Found at i:14839092 original size:21 final size:20
Alignment explanation
Indices: 14839064--14839141 Score: 88
Period size: 21 Copynumber: 3.9 Consensus size: 20
14839054 TAATAATACC
14839064 AAAA-AAAGAAAGAAAAAGA
1 AAAAGAAAGAAAGAAAAAGA
* *
14839083 AAAGAGAAAGAAA-AATAGGA
1 AAA-AGAAAGAAAGAAAAAGA
*
14839103 AAAAGAAAGAAAGAGAAAGGA
1 AAAAGAAAGAAAGA-AAAAGA
*
14839124 AAAAAAAAGAAAGAAAAA
1 AAAAGAAAGAAAGAAAAA
14839142 AATAACTTAA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
19 12 0.24
20 13 0.26
21 25 0.50
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (20 bp):
AAAAGAAAGAAAGAAAAAGA
Found at i:14839136 original size:29 final size:29
Alignment explanation
Indices: 14839064--14839143 Score: 85
Period size: 29 Copynumber: 2.7 Consensus size: 29
14839054 TAATAATACC
14839064 AAAAAAAGAAAGAAAAAGAAAAGAGAAAGAA
1 AAAAAAAGAAAG--AAAGAAAAGAGAAAGAA
*
14839095 AAATAGGAA-AAAGAAAG-AAAGAGAAAGGAA
1 AAA-A-AAAGAAAGAAAGAAAAGAGAAA-GAA
14839125 AAAAAAAGAAAGAAA-AAAA
1 AAAAAAAGAAAGAAAGAAAA
14839144 TAACTTAAGT
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
28 2 0.05
29 20 0.48
30 10 0.24
31 3 0.07
32 5 0.12
33 2 0.05
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.01
Consensus pattern (29 bp):
AAAAAAAGAAAGAAAGAAAAGAGAAAGAA
Found at i:14839142 original size:36 final size:36
Alignment explanation
Indices: 14839065--14839142 Score: 95
Period size: 36 Copynumber: 2.2 Consensus size: 36
14839055 AATAATACCA
* *
14839065 AAAAAAGAAAGAAAAAGAAAAGAGAAAGAAAAATAG
1 AAAAAAGAAAGAAAAAGAAAAGAGAAAAAAAAAAAG
* * *
14839101 GAAAAAGAAAGAAAGAGAAAGGA-AAAAAAAAGAAAG
1 AAAAAAGAAAGAAAAAGAAAAGAGAAAAAAAA-AAAG
14839137 AAAAAA
1 AAAAAA
14839143 ATAACTTAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
35 7 0.20
36 28 0.80
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (36 bp):
AAAAAAGAAAGAAAAAGAAAAGAGAAAAAAAAAAAG
Found at i:14843724 original size:19 final size:19
Alignment explanation
Indices: 14843700--14843737 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
14843690 ACAAAAATGT
*
14843700 TAAAAGTTAAAATGATAAA
1 TAAAAGTCAAAATGATAAA
14843719 TAAAAGTCAAAATGATAAA
1 TAAAAGTCAAAATGATAAA
14843738 AATATTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.63, C:0.03, G:0.11, T:0.24
Consensus pattern (19 bp):
TAAAAGTCAAAATGATAAA
Found at i:14849588 original size:34 final size:34
Alignment explanation
Indices: 14849469--14850022 Score: 201
Period size: 34 Copynumber: 17.5 Consensus size: 34
14849459 AAGTTATTTA
* * *
14849469 TGTATTATGTAAGCTATGTAAGTTATGTAAGTGT
1 TGTATTATGTAAGTTATTTAAGTTATGTAAGTGC
*
14849503 TGTATTATGTAAGTTATATAAGTTATGT-AG-GC
1 TGTATTATGTAAGTTATTTAAGTTATGTAAGTGC
* *
14849535 TATGTATTATGCAAGTTATTTAAGTTGTGTAAGTGC
1 --TGTATTATGTAAGTTATTTAAGTTATGTAAGTGC
*
14849571 TGTATTATGTAAGTTATTT-A-TTATATAA--G-
1 TGTATTATGTAAGTTATTTAAGTTATGTAAGTGC
*** *
14849600 T-T-TTATGTAAAACATGTAAG-T-TGT-A----
1 TGTATTATGTAAGTTATTTAAGTTATGTAAGTGC
* *
14849625 T-T-TTATGAAAGTTATATAAGTTATGT-AG-GC
1 TGTATTATGTAAGTTATTTAAGTTATGTAAGTGC
* * *
14849655 TATGTATTATGCAAGTTATTTAAGTTGTGTAAGTGT
1 --TGTATTATGTAAGTTATTTAAGTTATGTAAGTGC
* *
14849691 TGTATTAGGTAAGTTATGT-A-TTATGTAA----
1 TGTATTATGTAAGTTATTTAAGTTATGTAAGTGC
* *
14849719 -G-A-TATGTAAGTTGTATT---TTATGTAAGTTC
1 TGTATTATGTAAGTTAT-TTAAGTTATGTAAGTGC
* * * *
14849748 TGTATTATGTATGTTATGTAAGTTGTGTAGAATG-
1 TGTATTATGTAAGTTATTTAAGTTATGTA-AGTGC
* * * *
14849782 T-AAGCTATGTAAGTTATGTAAGTTATGTAAGTGG
1 TGTA-TTATGTAAGTTATTTAAGTTATGTAAGTGC
*
14849816 TGTATTATGTAAGTTATGTAAGTTAT-T-A-TG-
1 TGTATTATGTAAGTTATTTAAGTTATGTAAGTGC
* *
14849846 T-AAGTTATGCAAGCTTATATATAAGTTATGTATTA-TG-
1 TGTA-TTATGTAAG-TTAT-T-TAAGTTATGTA--AGTGC
* * * **
14849883 T-TATTATGT-A-TTATGTAATTTAT-TATGTTA
1 TGTATTATGTAAGTTATTTAAGTTATGTAAGTGC
* * **
14849913 T-TA-TATATAAGTTATGTAAGTTAT-TATA-TTA
1 TGTATTATGTAAGTTATTTAAGTTATGTA-AGTGC
* * *
14849944 T-TA-TATATAAGTTATGTAAGTTATGTAAGTGG
1 TGTATTATGTAAGTTATTTAAGTTATGTAAGTGC
*
14849976 TGTATTATGTAAGTTATGTAAGTTATGTAA--G-
1 TGTATTATGTAAGTTATTTAAGTTATGTAAGTGC
14850007 T-TATTATGTAAGTTAT
1 TGTATTATGTAAGTTAT
14850023 GCAAGCTTAT
Statistics
Matches: 413, Mismatches: 58, Indels: 102
0.72 0.10 0.18
Matches are distributed among these distances:
25 33 0.08
26 4 0.01
27 18 0.04
28 3 0.01
29 7 0.02
30 32 0.08
31 58 0.14
32 31 0.08
33 24 0.06
34 182 0.44
35 8 0.02
36 8 0.02
37 5 0.01
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.47
Consensus pattern (34 bp):
TGTATTATGTAAGTTATTTAAGTTATGTAAGTGC
Found at i:14849607 original size:68 final size:68
Alignment explanation
Indices: 14849436--14849608 Score: 197
Period size: 68 Copynumber: 2.5 Consensus size: 68
14849426 TATTAAGTAA
* * *
14849436 ATTATGTAAGTTATGTATTACATAAGTTATTTATGTATTATGTAAGCTATGTAAGTTATGTAAGT
1 ATTATGTAAGTTATTTATTATATAAG-T-TTTATGTATTATGCAAGCTATGTAAGTTATGTAAGT
*
14849501 GTTGT
64 GCTGT
* * ** * * *
14849506 ATTATGTAAGTTATATAAGTTATGT-AG-GCTATGTATTATGCAAGTTATTTAAGTTGTGTAAGT
1 ATTATGTAAGTTAT-TTA-TTATATAAGTTTTATGTATTATGCAAGCTATGTAAGTTATGTAAGT
14849569 GCTGT
64 GCTGT
14849574 ATTATGTAAGTTATTTATTATATAAGTTTTATGTA
1 ATTATGTAAGTTATTTATTATATAAGTTTTATGTA
14849609 AAACATGTAA
Statistics
Matches: 84, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
66 5 0.06
67 4 0.05
68 54 0.64
70 14 0.17
71 3 0.04
72 4 0.05
ACGTcount: A:0.31, C:0.03, G:0.18, T:0.47
Consensus pattern (68 bp):
ATTATGTAAGTTATTTATTATATAAGTTTTATGTATTATGCAAGCTATGTAAGTTATGTAAGTGC
TGT
Found at i:14849727 original size:25 final size:26
Alignment explanation
Indices: 14849421--14850010 Score: 205
Period size: 25 Copynumber: 23.5 Consensus size: 26
14849411 TGATATATAT
* *
14849421 TTATGTA-TTAAGTAAATTATGTAAG
1 TTATGTAGTTATGTAAGTTATGTAAG
**
14849446 TTATGTA-TTACATAAGTTA--T---
1 TTATGTAGTTATGTAAGTTATGTAAG
*
14849466 TTATGTA-TTATGTAAGCTATGTAAG
1 TTATGTAGTTATGTAAGTTATGTAAG
14849491 TTATGTAAGTGT-TGT-A-TTATGTAAG
1 TTATGT-AGT-TATGTAAGTTATGTAAG
* * *
14849516 TTATATAAGTTATGTAGGCTATGT-A-
1 TTATGT-AGTTATGTAAGTTATGTAAG
* * *
14849541 TTATGCAAGTTATTTAAGTTGTGTAAG
1 TTATG-TAGTTATGTAAGTTATGTAAG
** *
14849568 TGCTGTA-TTATGTAAGTTAT-TTA-
1 TTATGTAGTTATGTAAGTTATGTAAG
* ***
14849591 TTATATAAGTTTTATGTAAAACATGTAAG
1 TTATGT-AG--TTATGTAAGTTATGTAAG
* * *
14849620 -T-TGTATTTTATGAAAGTTATATAAG
1 TTATGTA-GTTATGTAAGTTATGTAAG
* *
14849645 TTATGTAGGCTATGT-A-TTATGCAAG
1 TTATGTA-GTTATGTAAGTTATGTAAG
* *
14849670 TTATTTAAGTTGTGTAAGTGT-TGT-A-
1 TTATGT-AGTTATGTAAGT-TATGTAAG
*
14849695 TTAGGTAAGTTATGT-A-TTATGTAAG
1 TTATGT-AGTTATGTAAGTTATGTAAG
* **
14849720 ATATGTAAG-T-TGTATTTTATGTAAG
1 TTATGT-AGTTATGTAAGTTATGTAAG
* *
14849745 TTCTGTA-TTATGTATGTTATGTAAG
1 TTATGTAGTTATGTAAGTTATGTAAG
* * *
14849770 TTGTGTAG-AATGTAAGCTATGTAAG
1 TTATGTAGTTATGTAAGTTATGTAAG
**
14849795 TTATGTAAGTTATGTAAGTGGTGT-A-
1 TTATGT-AGTTATGTAAGTTATGTAAG
14849820 TTATGTAAGTTATGTAAGTTATTATGTAAG
1 TTATGT-AGTTATGTAAG---TTATGTAAG
* *
14849850 TTATGCAAGCTTATATATAAGTTATGT-A-
1 TTATG-TAG--T-TATGTAAGTTATGTAAG
*
14849878 TTATGTTA-TTATGT-A-TTATGTAAT
1 TTATG-TAGTTATGTAAGTTATGTAAG
*
14849902 TTAT-TATGTTAT-T-A--TATATAAG
1 TTATGTA-GTTATGTAAGTTATGTAAG
14849924 TTATGTAAGTTAT-TATA-TTAT-T-A-
1 TTATGT-AGTTATGTA-AGTTATGTAAG
*
14849947 TATAT-AAGTTATGTAAGTTATGTAAG
1 T-TATGTAGTTATGTAAGTTATGTAAG
**
14849973 TGGTGTA-TTATGTAAGTTATGTAAG
1 TTATGTAGTTATGTAAGTTATGTAAG
14849998 TTATGTAAGTTAT
1 TTATGT-AGTTAT
14850011 TATGTAAGTT
Statistics
Matches: 422, Mismatches: 79, Indels: 126
0.67 0.13 0.20
Matches are distributed among these distances:
20 16 0.04
22 27 0.06
23 29 0.07
24 27 0.06
25 216 0.51
26 20 0.05
27 49 0.12
28 15 0.04
29 2 0.00
30 13 0.03
32 1 0.00
33 7 0.02
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.47
Consensus pattern (26 bp):
TTATGTAGTTATGTAAGTTATGTAAG
Found at i:14849889 original size:8 final size:8
Alignment explanation
Indices: 14849871--14849947 Score: 53
Period size: 8 Copynumber: 10.5 Consensus size: 8
14849861 TATATATAAG
14849871 TTATG-TA
1 TTATGTTA
14849878 TTATGTTA
1 TTATGTTA
14849886 TTATG-TA
1 TTATGTTA
14849893 TTATG-TA
1 TTATGTTA
14849900 --AT-TTA
1 TTATGTTA
14849905 TTATGTTA
1 TTATGTTA
*
14849913 TTAT-ATA
1 TTATGTTA
*
14849920 -TAAGTTA
1 TTATGTTA
*
14849927 TGTAAGTTA
1 T-TATGTTA
*
14849936 TTATATTA
1 TTATGTTA
14849944 TTAT
1 TTAT
14849948 ATATAAGTTA
Statistics
Matches: 57, Mismatches: 5, Indels: 15
0.74 0.06 0.19
Matches are distributed among these distances:
5 4 0.07
6 2 0.04
7 20 0.35
8 23 0.40
9 8 0.14
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.57
Consensus pattern (8 bp):
TTATGTTA
Found at i:14849931 original size:31 final size:32
Alignment explanation
Indices: 14849893--14850013 Score: 149
Period size: 31 Copynumber: 3.8 Consensus size: 32
14849883 TTATTATGTA
* *
14849893 TTATGTAATTTAT-TATGTTATTATATATAAG
1 TTATGTAAGTTATGTAAGTTATTATATATAAG
14849924 TTATGTAAGTTAT-TATA-TTATTATATATAAG
1 TTATGTAAGTTATGTA-AGTTATTATATATAAG
** *
14849955 TTATGTAAGTTATGTAAGTGGTGTATTATGTAAG
1 TTATGTAAGTTATGTAAGTTAT-TA-TATATAAG
14849989 TTATGTAAGTTATGTAAGTTATTAT
1 TTATGTAAGTTATGTAAGTTATTAT
14850014 GTAAGTTATG
Statistics
Matches: 78, Mismatches: 7, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
31 42 0.54
32 5 0.06
33 4 0.05
34 27 0.35
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (32 bp):
TTATGTAAGTTATGTAAGTTATTATATATAAG
Found at i:14850023 original size:9 final size:9
Alignment explanation
Indices: 14849432--14850010 Score: 287
Period size: 9 Copynumber: 68.0 Consensus size: 9
14849422 TATGTATTAA
*
14849432 GTAAATTAT
1 GTAAGTTAT
14849441 GTAAGTTAT
1 GTAAGTTAT
*
14849450 GT-A-TTAC
1 GTAAGTTAT
*
14849457 ATAAGTTAT
1 GTAAGTTAT
* *
14849466 TTATGTATTAT
1 GTAAG--TTAT
*
14849477 GTAAGCTAT
1 GTAAGTTAT
14849486 GTAAGTTAT
1 GTAAGTTAT
14849495 GTAAGTGT-T
1 GTAAGT-TAT
14849504 GT-A-TTAT
1 GTAAGTTAT
14849511 GTAAGTTAT
1 GTAAGTTAT
*
14849520 ATAAGTTAT
1 GTAAGTTAT
* *
14849529 GTAGGCTAT
1 GTAAGTTAT
14849538 GT-A-TTAT
1 GTAAGTTAT
*
14849545 GCAAGTTAT
1 GTAAGTTAT
* *
14849554 TTAAGTTGT
1 GTAAGTTAT
**
14849563 GTAAGTGCT
1 GTAAGTTAT
14849572 GT-A-TTAT
1 GTAAGTTAT
14849579 GTAAGTTAT
1 GTAAGTTAT
*
14849588 -TTA-TTAT
1 GTAAGTTAT
*
14849595 ATAAGTTTTAT
1 GTAAG--TTAT
***
14849606 GTAAAACAT
1 GTAAGTTAT
14849615 GTAAG-T-T
1 GTAAGTTAT
**
14849622 GTATTTTAT
1 GTAAGTTAT
*
14849631 GAAAGTTAT
1 GTAAGTTAT
*
14849640 ATAAGTTAT
1 GTAAGTTAT
* *
14849649 GTAGGCTAT
1 GTAAGTTAT
14849658 GT-A-TTAT
1 GTAAGTTAT
*
14849665 GCAAGTTAT
1 GTAAGTTAT
* *
14849674 TTAAGTTGT
1 GTAAGTTAT
14849683 GTAAGTGT-T
1 GTAAGT-TAT
*
14849692 GT-A-TTAG
1 GTAAGTTAT
14849699 GTAAGTTAT
1 GTAAGTTAT
14849708 GT-A-TTAT
1 GTAAGTTAT
*
14849715 GTAAGATAT
1 GTAAGTTAT
14849724 GTAAG-T-T
1 GTAAGTTAT
**
14849731 GTATTTTAT
1 GTAAGTTAT
*
14849740 GTAAGTTCT
1 GTAAGTTAT
14849749 GT-A-TTAT
1 GTAAGTTAT
*
14849756 GTATGTTAT
1 GTAAGTTAT
*
14849765 GTAAGTTGT
1 GTAAGTTAT
*
14849774 GT-AG-AAT
1 GTAAGTTAT
*
14849781 GTAAGCTAT
1 GTAAGTTAT
14849790 GTAAGTTAT
1 GTAAGTTAT
14849799 GTAAGTTAT
1 GTAAGTTAT
**
14849808 GTAAGTGGT
1 GTAAGTTAT
14849817 GT-A-TTAT
1 GTAAGTTAT
14849824 GTAAGTTAT
1 GTAAGTTAT
14849833 GTAAGTTATTAT
1 GTAAG---TTAT
14849845 GTAAGTTAT
1 GTAAGTTAT
*
14849854 GCAAGCTTATAT
1 GTAAG--T-TAT
*
14849866 ATAAGTTAT
1 GTAAGTTAT
14849875 GT-A-TTAT
1 GTAAGTTAT
*
14849882 GTTA-TTAT
1 GTAAGTTAT
14849890 GT-A-TTAT
1 GTAAGTTAT
*
14849897 GTAATTTAT
1 GTAAGTTAT
*
14849906 -TATGTTAT
1 GTAAGTTAT
14849914 -T-A--TAT
1 GTAAGTTAT
*
14849919 ATAAGTTAT
1 GTAAGTTAT
14849928 GTAAGTTAT
1 GTAAGTTAT
14849937 -TATA-TTAT
1 GTA-AGTTAT
14849945 -T-A--TAT
1 GTAAGTTAT
*
14849950 ATAAGTTAT
1 GTAAGTTAT
14849959 GTAAGTTAT
1 GTAAGTTAT
**
14849968 GTAAGTGGT
1 GTAAGTTAT
14849977 GT-A-TTAT
1 GTAAGTTAT
14849984 GTAAGTTAT
1 GTAAGTTAT
14849993 GTAAGTTAT
1 GTAAGTTAT
14850002 GTAAGTTAT
1 GTAAGTTAT
14850011 TATGTAAGTT
Statistics
Matches: 433, Mismatches: 83, Indels: 108
0.69 0.13 0.17
Matches are distributed among these distances:
5 6 0.01
6 5 0.01
7 72 0.17
8 51 0.12
9 266 0.61
10 3 0.01
11 15 0.03
12 15 0.03
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.47
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:14850039 original size:21 final size:21
Alignment explanation
Indices: 14849989--14850039 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
14849979 ATTATGTAAG
* *
14849989 TTATGTAAGTTATGTAAGTTA
1 TTATATAAGTTATGCAAGTTA
*
14850010 TTATGTAAGTTATGCAAGCTTA
1 TTATATAAGTTATGCAAG-TTA
14850032 -TATATAAG
1 TTATATAAG
14850040 CTTACATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 24 0.89
22 3 0.11
ACGTcount: A:0.35, C:0.04, G:0.18, T:0.43
Consensus pattern (21 bp):
TTATATAAGTTATGCAAGTTA
Found at i:14850148 original size:13 final size:13
Alignment explanation
Indices: 14850130--14850157 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
14850120 ATACTAATAA
14850130 ATTTAGAAAACTT
1 ATTTAGAAAACTT
14850143 ATTTAGAAAACTT
1 ATTTAGAAAACTT
14850156 AT
1 AT
14850158 AAATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (13 bp):
ATTTAGAAAACTT
Found at i:14850161 original size:45 final size:45
Alignment explanation
Indices: 14850051--14850164 Score: 210
Period size: 45 Copynumber: 2.5 Consensus size: 45
14850041 TTACATATAA
* *
14850051 TTATTTAGAAAACTTATAAAATTAATACTAATAAATTTAGAACAC
1 TTATTTAGAAAACTTATAAATTTAATACTAATAAATTTAGAAAAC
14850096 TTATTTAGAAAACTTATAAATTTAATACTAATAAATTTAGAAAAC
1 TTATTTAGAAAACTTATAAATTTAATACTAATAAATTTAGAAAAC
14850141 TTATTTAGAAAACTTATAAATTTA
1 TTATTTAGAAAACTTATAAATTTA
14850165 GAAAACTTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
45 67 1.00
ACGTcount: A:0.50, C:0.07, G:0.04, T:0.39
Consensus pattern (45 bp):
TTATTTAGAAAACTTATAAATTTAATACTAATAAATTTAGAAAAC
Found at i:14850165 original size:17 final size:17
Alignment explanation
Indices: 14850053--14850222 Score: 112
Period size: 17 Copynumber: 10.2 Consensus size: 17
14850043 ACATATAATT
14850053 ATTTAGAAAACTTATAA
1 ATTTAGAAAACTTATAA
* * *
14850070 AATT--AATACTAATAA
1 ATTTAGAAAACTTATAA
*
14850085 ATTTAGAACAC-T-T--
1 ATTTAGAAAACTTATAA
14850098 ATTTAGAAAACTTATAA
1 ATTTAGAAAACTTATAA
* *
14850115 ATTT--AATACTAATAA
1 ATTTAGAAAACTTATAA
14850130 ATTTAGAAAAC-T-T--
1 ATTTAGAAAACTTATAA
14850143 ATTTAGAAAACTTATAA
1 ATTTAGAAAACTTATAA
14850160 ATTTAGAAAACTTATATA
1 ATTTAGAAAACTTATA-A
* *
14850178 GATATTAAAACAATATTTATAA
1 -AT-TT-AGA-AA-ACTTATAA
14850200 TTATTTAGAAAACTTATAA
1 --ATTTAGAAAACTTATAA
14850219 ATTT
1 ATTT
14850223 TATAGTAATA
Statistics
Matches: 118, Mismatches: 16, Indels: 38
0.69 0.09 0.22
Matches are distributed among these distances:
13 21 0.18
14 2 0.02
15 29 0.25
17 35 0.30
18 1 0.01
19 9 0.08
20 4 0.03
21 4 0.03
22 5 0.04
23 8 0.07
ACGTcount: A:0.51, C:0.06, G:0.05, T:0.38
Consensus pattern (17 bp):
ATTTAGAAAACTTATAA
Found at i:14850480 original size:21 final size:21
Alignment explanation
Indices: 14850454--14850493 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
14850444 TCCAAAATTT
14850454 ATTGCGTTTTTGGCACGAATG
1 ATTGCGTTTTTGGCACGAATG
*
14850475 ATTGCGTTTTTTGCACGAA
1 ATTGCGTTTTTGGCACGAA
14850494 CGTAGCAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.15, G:0.25, T:0.40
Consensus pattern (21 bp):
ATTGCGTTTTTGGCACGAATG
Found at i:14851153 original size:2 final size:2
Alignment explanation
Indices: 14851146--14851193 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
14851136 TTTCATCACT
14851146 TA TA TA TA TA TA TA TA TA TA TA TA TA TA 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
*
14851188 TG TA TA
1 TA TA TA
14851194 AGAAGGTAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14851357 original size:12 final size:12
Alignment explanation
Indices: 14851340--14851365 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14851330 CAAAACAGGC
14851340 TTTTAGCGGCGT
1 TTTTAGCGGCGT
14851352 TTTTAGCGGCGT
1 TTTTAGCGGCGT
14851364 TT
1 TT
14851366 GTATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:14851399 original size:41 final size:40
Alignment explanation
Indices: 14851354--14851443 Score: 119
Period size: 40 Copynumber: 2.2 Consensus size: 40
14851344 AGCGGCGTTT
14851354 TTAGCGGCG-TTTGTATAAAAAACACCGCTAAAGATCGAGCA
1 TTAGCGGCGCTTT-T-TAAAAAACACCGCTAAAGATCGAGCA
** * *
14851395 TTAGCGGCGCTTTTTGGAAAACGCCGCTAAAGATCGAGTA
1 TTAGCGGCGCTTTTTAAAAAACACCGCTAAAGATCGAGCA
14851435 TTAGCGGCG
1 TTAGCGGCG
14851444 ATTTACGGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
40 31 0.70
41 10 0.23
42 3 0.07
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (40 bp):
TTAGCGGCGCTTTTTAAAAAACACCGCTAAAGATCGAGCA
Found at i:14851422 original size:40 final size:40
Alignment explanation
Indices: 14851372--14851485 Score: 151
Period size: 40 Copynumber: 2.9 Consensus size: 40
14851362 GTTTGTATAA
* * **
14851372 AAAACACCGCTAAAGATCGAGCATTAGCGGCGCTTTTTGG
1 AAAACGCCGCTAAAGATCGAGCATTAGCGGCGATTTACGG
*
14851412 AAAACGCCGCTAAAGATCGAGTATTAGCGGCGATTTACGG
1 AAAACGCCGCTAAAGATCGAGCATTAGCGGCGATTTACGG
* *
14851452 AAAACGCCGCTAAA-AACAAGCATTAGCGGC-ATTT
1 AAAACGCCGCTAAAGATCGAGCATTAGCGGCGATTT
14851486 TCCAGAAAGC
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
38 4 0.06
39 13 0.20
40 49 0.74
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (40 bp):
AAAACGCCGCTAAAGATCGAGCATTAGCGGCGATTTACGG
Found at i:14851674 original size:82 final size:83
Alignment explanation
Indices: 14851537--14851742 Score: 297
Period size: 82 Copynumber: 2.5 Consensus size: 83
14851527 TTGTGAGCTT
14851537 TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGTGCTTTAGCGGCATTTTTG-
1 TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGTGCTTTAGCGGCATTTTTGT
* *
14851601 GAGAAGCGCCGGTAATGC
66 GAAAAGCGCCGCTAATGC
* * * * *
14851619 TCAGGGCTTTAGCGCCGCTTTTGAGAAAGCGCTGGTAATGCTCAGTGCTTTAGCGGCGTTTTTGT
1 TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGTGCTTTAGCGGCATTTTTGT
*
14851684 TAAAAGCGCCGCTAATGC
66 GAAAAGCGCCGCTAATGC
* * *
14851702 TCAGGGCTTTTAGCGGCGTTTTTTATAAAGCGCCGCAAATG
1 TCAGGGC-TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATG
14851743 TTCTATTTTT
Statistics
Matches: 107, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
82 59 0.55
83 22 0.21
84 26 0.24
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (83 bp):
TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGTGCTTTAGCGGCATTTTTGT
GAAAAGCGCCGCTAATGC
Found at i:14851703 original size:42 final size:41
Alignment explanation
Indices: 14851537--14851742 Score: 263
Period size: 41 Copynumber: 5.0 Consensus size: 41
14851527 TTGTGAGCTT
14851537 TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGC
* * *
14851578 TCAGTGCTTTAGCGGCATTTTTG-GAGAAGCGCCGGTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGAGA-AAGCGCCGCTAATGC
* * * *
14851619 TCAGGGCTTTAGCGCCGCTTTTGAGAAAGCGCTGGTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGC
*
14851660 TCAGTGCTTTAGCGGCGTTTTTGTTA-AAAGCGCCGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTG--AGAAAGCGCCGCTAATGC
* * *
14851702 TCAGGGCTTTTAGCGGCGTTTTTTATAAAGCGCCGCAAATG
1 TCAGGGC-TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATG
14851743 TTCTATTTTT
Statistics
Matches: 143, Mismatches: 16, Indels: 11
0.84 0.09 0.06
Matches are distributed among these distances:
40 2 0.01
41 89 0.62
42 36 0.25
43 16 0.11
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (41 bp):
TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGC
Found at i:14851986 original size:14 final size:14
Alignment explanation
Indices: 14851967--14852150 Score: 115
Period size: 14 Copynumber: 12.9 Consensus size: 14
14851957 TATCACTATA
*
14851967 GTTTAGGGTTTTTG
1 GTTTAGGGTTTATG
*
14851981 GTTTAGGGTATATG
1 GTTTAGGGTTTATG
* *
14851995 GTTTAGAGTTTAAG
1 GTTTAGGGTTTATG
* *
14852009 ATTTAGGTGTTACCAT-
1 GTTTAGG-GTT--TATG
*
14852025 -TTTAAGGTTTATG
1 GTTTAGGGTTTATG
* *
14852038 GATTATGGGTTTAGG
1 GTTTA-GGGTTTATG
* *
14852053 GGTTATGGTTTATG
1 GTTTAGGGTTTATG
*
14852067 GTTTATGGTTTATG
1 GTTTAGGGTTTATG
* *
14852081 GTTTATGGTTTAAAG
1 GTTTAGGGTTT-ATG
* *
14852096 G-TTGGGGTTTAAG
1 GTTTAGGGTTTATG
14852109 GTTTAGAGG-TTATG
1 GTTTAG-GGTTTATG
*
14852123 TGTTAAGGGTTTATGG
1 -GTTTAGGGTTTAT-G
14852139 GTTTAGGGTTTA
1 GTTTAGGGTTTA
14852151 GATTAACTAG
Statistics
Matches: 133, Mismatches: 25, Indels: 23
0.73 0.14 0.13
Matches are distributed among these distances:
12 2 0.02
13 4 0.03
14 81 0.61
15 44 0.33
16 1 0.01
17 1 0.01
ACGTcount: A:0.20, C:0.01, G:0.33, T:0.47
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:14852071 original size:21 final size:21
Alignment explanation
Indices: 14852033--14852150 Score: 92
Period size: 21 Copynumber: 5.5 Consensus size: 21
14852023 ATTTTAAGGT
*
14852033 TTATGGATTATGGGTTTAGGGG
1 TTATGGTTTAT-GGTTTAGGGG
* *
14852055 TTATGGTTTATGGTTTATGGT
1 TTATGGTTTATGGTTTAGGGG
**
14852076 TTATGGTTTATGGTTTAAAGG
1 TTATGGTTTATGGTTTAGGGG
** * *
14852097 TTGGGGTTTAAGGTTTAGAGG
1 TTATGGTTTATGGTTTAGGGG
* * *
14852118 TTATGTGTTAAGGGTTTATGGGT
1 TTATG-GTTTATGGTTTA-GGGG
*
14852141 TTAGGGTTTA
1 TTATGGTTTA
14852151 GATTAACTAG
Statistics
Matches: 76, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
21 46 0.61
22 24 0.32
23 6 0.08
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.47
Consensus pattern (21 bp):
TTATGGTTTATGGTTTAGGGG
Found at i:14852111 original size:7 final size:7
Alignment explanation
Indices: 14852025--14852092 Score: 91
Period size: 7 Copynumber: 9.6 Consensus size: 7
14852015 GTGTTACCAT
*
14852025 TTTAAGG
1 TTTATGG
14852032 TTTATGG
1 TTTATGG
*
14852039 ATTATGGG
1 TTTAT-GG
*
14852047 TTTAGGG
1 TTTATGG
*
14852054 GTTATGG
1 TTTATGG
14852061 TTTATGG
1 TTTATGG
14852068 TTTATGG
1 TTTATGG
14852075 TTTATGG
1 TTTATGG
14852082 TTTATGG
1 TTTATGG
14852089 TTTA
1 TTTA
14852093 AAGGTTGGGG
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
7 48 0.91
8 5 0.09
ACGTcount: A:0.18, C:0.00, G:0.31, T:0.51
Consensus pattern (7 bp):
TTTATGG
Found at i:14852149 original size:7 final size:7
Alignment explanation
Indices: 14851967--14852151 Score: 70
Period size: 7 Copynumber: 25.9 Consensus size: 7
14851957 TATCACTATA
14851967 GTTTAGG
1 GTTTAGG
**
14851974 GTTTTTG
1 GTTTAGG
14851981 GTTTAGG
1 GTTTAGG
* *
14851988 GTATATG
1 GTTTAGG
*
14851995 GTTTAGA
1 GTTTAGG
*
14852002 GTTTAAG
1 GTTTAGG
*
14852009 ATTTA-G
1 GTTTAGG
**
14852015 GTGTTACCA
1 GT-TTA-GG
* *
14852024 TTTTAAG
1 GTTTAGG
*
14852031 GTTTATG
1 GTTTAGG
*
14852038 GATTATGG
1 GTTTA-GG
14852046 GTTTAGG
1 GTTTAGG
* *
14852053 GGTTATG
1 GTTTAGG
*
14852060 GTTTATG
1 GTTTAGG
*
14852067 GTTTATG
1 GTTTAGG
*
14852074 GTTTATG
1 GTTTAGG
*
14852081 GTTTATG
1 GTTTAGG
*
14852088 GTTTAAAG
1 GTTT-AGG
*
14852096 G-TTGGG
1 GTTTAGG
*
14852102 GTTTAAG
1 GTTTAGG
14852109 GTTTAGAG
1 GTTTAG-G
*
14852117 G-TTATGT
1 GTTTA-GG
*
14852124 GTTAAGG
1 GTTTAGG
14852131 GTTTATGG
1 GTTTA-GG
14852139 GTTTAGG
1 GTTTAGG
14852146 GTTTAG
1 GTTTAG
14852152 ATTAACTAGT
Statistics
Matches: 133, Mismatches: 35, Indels: 20
0.71 0.19 0.11
Matches are distributed among these distances:
6 4 0.03
7 105 0.79
8 23 0.17
9 1 0.01
ACGTcount: A:0.19, C:0.01, G:0.33, T:0.46
Consensus pattern (7 bp):
GTTTAGG
Found at i:14852444 original size:14 final size:14
Alignment explanation
Indices: 14852427--14852454 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
14852417 AGGTTTAAGT
14852427 GTTAAGAGTTAGGG
1 GTTAAGAGTTAGGG
14852441 GTTAAGAGTTAGGG
1 GTTAAGAGTTAGGG
14852455 ATTTAGGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.43, T:0.29
Consensus pattern (14 bp):
GTTAAGAGTTAGGG
Found at i:14855294 original size:16 final size:18
Alignment explanation
Indices: 14855265--14855303 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
14855255 NNNNNATTTA
14855265 TTTTTATTATTTTAGAAT
1 TTTTTATTATTTTAGAAT
*
14855283 TTTTTA-TA-TTTATAAT
1 TTTTTATTATTTTAGAAT
14855299 TTTTT
1 TTTTT
14855304 TTCCTTATCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 12 0.60
17 2 0.10
18 6 0.30
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (18 bp):
TTTTTATTATTTTAGAAT
Found at i:14856666 original size:12 final size:12
Alignment explanation
Indices: 14856649--14856685 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
14856639 TACGTGTATA
14856649 TATATATTAGAT
1 TATATATTAGAT
*
14856661 TATATA-TATA-
1 TATATATTAGAT
14856671 TATATATTAGAT
1 TATATATTAGAT
14856683 TAT
1 TAT
14856686 TCAAAATACT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
10 6 0.29
11 6 0.29
12 9 0.43
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (12 bp):
TATATATTAGAT
Found at i:14857894 original size:43 final size:43
Alignment explanation
Indices: 14857826--14858183 Score: 405
Period size: 43 Copynumber: 8.3 Consensus size: 43
14857816 ATGATATGTT
* * * * *
14857826 TTTAGCGGCGTTTTTGCGAGAAGCGTCGCTAAAGGT-TTGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* * ** * * *
14857868 TATAGCGGTGTTTGTGATAAAAAGCGTCGCTAAAGGTCATAGTC
1 TTTAGCGGCGTTTGTG-GGAAAAGCGCCGCTAAAGGTCTTGGTC
* * *
14857912 TTTAGCGGGGTTTGTGAGGAAAAGCGCCGCTGAAGGTCATGGT-
1 TTTAGCGGCGTTTGTG-GGAAAAGCGCCGCTAAAGGTCTTGGTC
* * * * *
14857955 TTATAGTGGCGTTTGTGGAAAAAGAGCCGCTGAAGGTCATGGTC
1 TT-TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* * * *
14857999 TTTAGCGGCGTTTGTGGGAAAAGTGTCGTTAAAGGTCCTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* *
14858042 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
*
14858085 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
*
14858128 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* *
14858171 TATAGCAGCGTTT
1 TTTAGCGGCGTTT
14858184 ATTTCAAAAA
Statistics
Matches: 275, Mismatches: 37, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
42 13 0.05
43 209 0.76
44 53 0.19
ACGTcount: A:0.22, C:0.16, G:0.34, T:0.29
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
Found at i:14858070 original size:86 final size:86
Alignment explanation
Indices: 14857826--14858183 Score: 459
Period size: 86 Copynumber: 4.2 Consensus size: 86
14857816 ATGATATGTT
* * * * * * * * *
14857826 TTTAGCGGCGTTTTTGCGAGAAGCGTCGCTAAAGGT-TTGTTCTATAGCGGTGTTTGTGATAAAA
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTGTG-GAAAA
* *
14857890 AGCGTCGCTAAAGGTCATAGTC
65 AGCGCCGCTAAAGGTCATGGTC
* * * *
14857912 TTTAGCGGGGTTTGTGAGGAAAAGCGCCGCTGAAGGTCATGGT-TTATAGTGGCGTTTGTGGAAA
1 TTTAGCGGCGTTTGTG-GGAAAAGCGCCGCTAAAGGTCCTGGTCTT-TAGCGGCGTTTGTGGAAA
* *
14857976 AAGAGCCGCTGAAGGTCATGGTC
64 AAGCGCCGCTAAAGGTCATGGTC
* * *
14857999 TTTAGCGGCGTTTGTGGGAAAAGTGTCGTTAAAGGTCCTGGTCTTTAGCGGCGTTTGTGGAAAAA
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTGTGGAAAAA
14858064 GCGCCGCTAAAGGTCATGGTC
66 GCGCCGCTAAAGGTCATGGTC
*
14858085 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTGTGGGAAAA
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTGTGGAAAAA
*
14858150 GCGCCGCTAAAGGTCGTGGTC
66 GCGCCGCTAAAGGTCATGGTC
* *
14858171 TATAGCAGCGTTT
1 TTTAGCGGCGTTT
14858184 ATTTCAAAAA
Statistics
Matches: 236, Mismatches: 32, Indels: 8
0.86 0.12 0.03
Matches are distributed among these distances:
86 165 0.70
87 56 0.24
88 15 0.06
ACGTcount: A:0.22, C:0.16, G:0.34, T:0.29
Consensus pattern (86 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTGTGGAAAAA
GCGCCGCTAAAGGTCATGGTC
Found at i:14859892 original size:81 final size:83
Alignment explanation
Indices: 14859732--14859893 Score: 217
Period size: 81 Copynumber: 2.0 Consensus size: 83
14859722 AACCCTTAAC
*
14859732 CCCTAACTACTAACCCCTAAACCTTATTTAATATATAAATTTAAAACCACTAATTAATCTAAACC
1 CCCTAACCACTAACCCCTAAACCTTATTTAATATATAAATTTAAAACCACTAATTAATCTAAACC
*
14859797 GTAAACCATAACCTGAAT
66 CTAAACCATAACCTGAAT
* * *
14859815 CCCTAACCCCTAACCCCTAAATCTTATTT-A-ATATAAA-TTGAAA-CATGCTAATTAATCTAAA
1 CCCTAACCACTAACCCCTAAACCTTATTTAATATATAAATTTAAAACCA--CTAATTAATCTAAA
14859876 CCCTAAAGCC-TAACCTGA
64 CCCTAAA-CCATAACCTGA
14859894 CACCAAATCC
Statistics
Matches: 71, Mismatches: 5, Indels: 8
0.85 0.06 0.10
Matches are distributed among these distances:
79 2 0.03
80 5 0.07
81 35 0.49
82 3 0.04
83 26 0.37
ACGTcount: A:0.41, C:0.27, G:0.04, T:0.28
Consensus pattern (83 bp):
CCCTAACCACTAACCCCTAAACCTTATTTAATATATAAATTTAAAACCACTAATTAATCTAAACC
CTAAACCATAACCTGAAT
Found at i:14859989 original size:14 final size:15
Alignment explanation
Indices: 14859970--14860002 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
14859960 CTTAAACGAG
14859970 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
14859984 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
14859999 AATC
1 AATC
14860003 TATATATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:14860080 original size:14 final size:14
Alignment explanation
Indices: 14860061--14860092 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
14860051 ATCCTAAATT
*
14860061 AACCATATATCTTA
1 AACCATATATATTA
14860075 AACCATATATATTA
1 AACCATATATATTA
14860089 AACC
1 AACC
14860093 CTAAACTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (14 bp):
AACCATATATATTA
Found at i:14860394 original size:20 final size:20
Alignment explanation
Indices: 14860369--14860406 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
14860359 TTAATTAATA
*
14860369 TAAATAAACAAATTAAATTG
1 TAAATAAACAAATAAAATTG
*
14860389 TAAATAGACAAATAAAAT
1 TAAATAAACAAATAAAAT
14860407 GTTTTAGCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.26
Consensus pattern (20 bp):
TAAATAAACAAATAAAATTG
Found at i:14862635 original size:32 final size:32
Alignment explanation
Indices: 14862594--14862658 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
14862584 AGTTGCCATT
14862594 TTTTTAGTAACTTTAATGGCTACTACAATTTG
1 TTTTTAGTAACTTTAATGGCTACTACAATTTG
14862626 TTTTTAGTAACTTTAATGGCTACTACAATTTG
1 TTTTTAGTAACTTTAATGGCTACTACAATTTG
14862658 T
1 T
14862659 GTTAGATTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.48
Consensus pattern (32 bp):
TTTTTAGTAACTTTAATGGCTACTACAATTTG
Found at i:14865906 original size:19 final size:17
Alignment explanation
Indices: 14865890--14865940 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 17
14865880 ATAAAATACG
14865890 TTTTTATATTTTTAATAA
1 TTTTTA-ATTTTTAATAA
14865908 TTTTTAATTTTTTAAATTAA
1 TTTTTAA-TTTTT-AA-TAA
14865928 TTTTTATATTTTT
1 TTTTTA-ATTTTT
14865941 TTGATTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 1 0.03
18 11 0.38
19 2 0.07
20 14 0.48
21 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTAATTTTTAATAA
Found at i:14868331 original size:3 final size:3
Alignment explanation
Indices: 14868323--14868351 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
14868313 AGAATCCTTG
14868323 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
14868352 CTATTGAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:14877407 original size:29 final size:27
Alignment explanation
Indices: 14877306--14877402 Score: 151
Period size: 27 Copynumber: 3.5 Consensus size: 27
14877296 AAAAATAAAA
14877306 ATTTACCAAAATATTACAACTTTTTTT
1 ATTTACCAAAATATTACAACTTTTTTT
*
14877333 ATTTATCAAAATATTACAACTTTTTTT
1 ATTTACCAAAATATTACAACTTTTTTT
14877360 ATTTACCAAAATATATA-AACTTTTTTATT
1 ATTTACCAAAATAT-TACAAC-TTTTT-TT
14877389 ATTTACCAAAATAT
1 ATTTACCAAAATAT
14877403 ATAAAAAAAC
Statistics
Matches: 65, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
27 42 0.65
28 7 0.11
29 16 0.25
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.47
Consensus pattern (27 bp):
ATTTACCAAAATATTACAACTTTTTTT
Found at i:14877503 original size:27 final size:27
Alignment explanation
Indices: 14877473--14877548 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
14877463 TACTGGTCAC
** *
14877473 GCCAATGGTATTGGTGGCACCAAAGGT
1 GCCAATGCCATTGGCGGCACCAAAGGT
** *
14877500 GCCAAAACCATTGGCGGCACCAATGGT
1 GCCAATGCCATTGGCGGCACCAAAGGT
14877527 GCCAATGCCATTGGCGGCACCA
1 GCCAATGCCATTGGCGGCACCA
14877549 CTCGTATTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.26, C:0.28, G:0.29, T:0.17
Consensus pattern (27 bp):
GCCAATGCCATTGGCGGCACCAAAGGT
Found at i:14877727 original size:19 final size:21
Alignment explanation
Indices: 14877689--14877727 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
14877679 AATAATTGAT
*
14877689 TATATTATTGTTATTATTTTG
1 TATATTATTGTTAATATTTTG
14877710 TATATT-TTG-TAATATTTT
1 TATATTATTGTTAATATTTT
14877728 TTGTTGTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.67
Consensus pattern (21 bp):
TATATTATTGTTAATATTTTG
Found at i:14877791 original size:3 final size:3
Alignment explanation
Indices: 14877773--14877810 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
14877763 AAAATAAAAG
*
14877773 TAT TAGT TAG TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
14877811 GTTGTTGTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:14877815 original size:3 final size:3
Alignment explanation
Indices: 14877809--14877849 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
14877799 ATTATTATTA
14877809 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
14877850 AGTTATTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:14877874 original size:19 final size:19
Alignment explanation
Indices: 14877847--14877883 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14877837 TGTTGTTGTT
*
14877847 GTTAGTTATTATTATTATG
1 GTTACTTATTATTATTATG
*
14877866 GTTACTTATTATTTTTAT
1 GTTACTTATTATTATTAT
14877884 TTACGAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.03, G:0.11, T:0.62
Consensus pattern (19 bp):
GTTACTTATTATTATTATG
Found at i:14883018 original size:19 final size:19
Alignment explanation
Indices: 14882983--14883020 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
14882973 TTTAAACACA
14882983 CAAATATTACAAAAAAATT
1 CAAATATTACAAAAAAATT
*
14883002 CAAAT-TTATAAATAAAATT
1 CAAATATTACAAA-AAAATT
14883021 ACCTTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.32
Consensus pattern (19 bp):
CAAATATTACAAAAAAATT
Found at i:14883079 original size:18 final size:18
Alignment explanation
Indices: 14883056--14883158 Score: 59
Period size: 18 Copynumber: 5.3 Consensus size: 18
14883046 TCTTCCCTCT
14883056 TCTTCTTCTTTTTTTTTC
1 TCTTCTTCTTTTTTTTTC
*
14883074 TCTTCTCCTTTCCCTTTCTTTC
1 TCTTCTTCTTT---TTT-TTTC
*
14883096 -CTTCTTTCTTTCTTTTT-
1 TCTTC-TTCTTTTTTTTTC
**
14883113 TCTTC-TCTTCTCCTTTTC
1 TCTTCTTCTT-TTTTTTTC
14883131 TTCTTCTTTCTTTCCTTTTTTC
1 -TCTTC-TTCTTT--TTTTTTC
14883153 TCTTCT
1 TCTTCT
14883159 GCCTCCACCA
Statistics
Matches: 66, Mismatches: 6, Indels: 24
0.69 0.06 0.25
Matches are distributed among these distances:
16 4 0.06
17 6 0.09
18 17 0.26
19 7 0.11
20 2 0.03
21 16 0.24
22 14 0.21
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (18 bp):
TCTTCTTCTTTTTTTTTC
Found at i:14883091 original size:44 final size:44
Alignment explanation
Indices: 14883042--14883128 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 44
14883032 CTTTTTTTTT
*
14883042 CCTTTCTTCCC-TC-TTCTTCTTCTTTTTTTTTCTCTTCTCCTTTC
1 CCTTTCTTCCCTTCTTTC-T-TTCTTTTTTCTTCTCTTCTCCTTTC
*
14883086 CCTTTCTTTCCTTCTTTCTTTCTTTTTTCTTCTCTTCTCCTTT
1 CCTTTCTTCCCTTCTTTCTTTCTTTTTTCTTCTCTTCTCCTTT
14883129 TCTTCTTCTT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
44 33 0.85
45 3 0.08
46 3 0.08
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (44 bp):
CCTTTCTTCCCTTCTTTCTTTCTTTTTTCTTCTCTTCTCCTTTC
Found at i:14883093 original size:34 final size:33
Alignment explanation
Indices: 14883032--14883139 Score: 105
Period size: 39 Copynumber: 3.1 Consensus size: 33
14883022 CCTTTTTTTC
14883032 CTTTTTTTTTC-CTT-TC-TTCCCTCTTCTTCTT
1 CTTTTTTTTTCTCTTCTCTTTCCCT-TTCTTCTT
14883063 CTTTTTTTTTCTCTTCTCCTTTCCCTTTCTTTCCTT
1 CTTTTTTTTTCTCTTCT-CTTTCCCTTTC-TT-CTT
* *
14883099 CTTTCTTTCTTTTTTCTTCTCTTCTCCTTTTCTTCTT
1 C-TT-TTT-TTTTCTCTTCTCTT-TCCCTTTCTTCTT
14883136 CTTT
1 CTTT
14883140 CTTTCCTTTT
Statistics
Matches: 65, Mismatches: 2, Indels: 16
0.78 0.02 0.19
Matches are distributed among these distances:
31 11 0.17
32 3 0.05
33 1 0.02
34 4 0.06
35 9 0.14
36 6 0.09
37 6 0.09
38 8 0.12
39 17 0.26
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (33 bp):
CTTTTTTTTTCTCTTCTCTTTCCCTTTCTTCTT
Found at i:14883224 original size:27 final size:27
Alignment explanation
Indices: 14883191--14883257 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
14883181 CAAAACCAAC
14883191 TGGTGCCGCCAATGGTATTGGCACCAT
1 TGGTGCCGCCAATGGTATTGGCACCAT
* *
14883218 TGGTGCCGCCAATGGTTTTGGCACCTT
1 TGGTGCCGCCAATGGTATTGGCACCAT
*
14883245 TGGTGCCACCAAT
1 TGGTGCCGCCAAT
14883258 ACCATTGGCG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.16, C:0.27, G:0.28, T:0.28
Consensus pattern (27 bp):
TGGTGCCGCCAATGGTATTGGCACCAT
Found at i:14883265 original size:27 final size:27
Alignment explanation
Indices: 14883207--14883266 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
14883197 CGCCAATGGT
* ***
14883207 ATTGGCACCATTGGTGCCGCCAATGGT
1 ATTGGCACCATTGGTGCCACCAATACC
* *
14883234 TTTGGCACCTTTGGTGCCACCAATACC
1 ATTGGCACCATTGGTGCCACCAATACC
14883261 ATTGGC
1 ATTGGC
14883267 GTGACCAGTA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.18, C:0.28, G:0.25, T:0.28
Consensus pattern (27 bp):
ATTGGCACCATTGGTGCCACCAATACC
Found at i:14883408 original size:28 final size:28
Alignment explanation
Indices: 14883334--14883431 Score: 155
Period size: 28 Copynumber: 3.5 Consensus size: 28
14883324 TTTTTTTGAT
14883334 ATATTTTGGTAAATAATAAAAAAGTT-TA
1 ATATTTTGGTAAATAA-AAAAAAGTTGTA
*
14883362 TATATTTTGGTAAAT-AAAAAAATTTGTA
1 -ATATTTTGGTAAATAAAAAAAAGTTGTA
14883390 ATATTTTGGTAAATAAAAAAAAGTTGTA
1 ATATTTTGGTAAATAAAAAAAAGTTGTA
14883418 ATATTTTGGTAAAT
1 ATATTTTGGTAAAT
14883432 TTTTATTTTT
Statistics
Matches: 65, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
27 22 0.34
28 29 0.45
29 14 0.22
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAAGTTGTA
Found at i:14883447 original size:55 final size:56
Alignment explanation
Indices: 14883318--14883447 Score: 147
Period size: 55 Copynumber: 2.3 Consensus size: 56
14883308 GTTCTATTTT
*
14883318 TTTTTGTTTTTTTGATATATTTTGGTAAATAATAAAAAAGTTTATATATTTTGGTAAA
1 TTTTTATTTTTTT-A-ATATTTTGGTAAATAATAAAAAAGTTTATATATTTTGGTAAA
**** ** *
14883376 TAAAAAAATTTGTAATATTTTGGTAAATAA-AAAAAAGTTGTA-ATATTTTGGTAAA
1 TTTTTATTTTTTTAATATTTTGGTAAATAATAAAAAAGTT-TATATATTTTGGTAAA
14883431 TTTTTATTTTTTTAATA
1 TTTTTATTTTTTTAATA
14883448 ATATTTTTGT
Statistics
Matches: 56, Mismatches: 15, Indels: 5
0.74 0.20 0.07
Matches are distributed among these distances:
55 32 0.57
56 18 0.32
57 1 0.02
58 5 0.09
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (56 bp):
TTTTTATTTTTTTAATATTTTGGTAAATAATAAAAAAGTTTATATATTTTGGTAAA
Found at i:14883813 original size:13 final size:15
Alignment explanation
Indices: 14883795--14883827 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
14883785 GATTAAAAGC
14883795 TAATTA-GTTTTA-T
1 TAATTAGGTTTTAGT
14883808 TAATTAGGTTTTAGT
1 TAATTAGGTTTTAGT
14883823 TAATT
1 TAATT
14883828 TAAACCTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 6 0.33
15 6 0.33
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (15 bp):
TAATTAGGTTTTAGT
Found at i:14887780 original size:50 final size:50
Alignment explanation
Indices: 14887656--14887823 Score: 210
Period size: 50 Copynumber: 3.3 Consensus size: 50
14887646 GATAATAACA
* * ** *
14887656 TGCCAAAGCCATGTCCCAGACATGGTCTTATATGGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * ** *
14887707 TGCCCATGCCATGCCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
14887757 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
14887807 TGCCAACACCATGTCCC
1 TGCCAACGCCATGTCCC
14887824 GTGTAAGACC
Statistics
Matches: 99, Mismatches: 18, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
50 68 0.69
51 31 0.31
ACGTcount: A:0.21, C:0.33, G:0.21, T:0.24
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:14898105 original size:10 final size:10
Alignment explanation
Indices: 14898090--14898114 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
14898080 ATGAATGGTG
14898090 AAATGATAGA
1 AAATGATAGA
14898100 AAATGATAGA
1 AAATGATAGA
14898110 AAATG
1 AAATG
14898115 CTATCAGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (10 bp):
AAATGATAGA
Found at i:14905309 original size:45 final size:43
Alignment explanation
Indices: 14905260--14905400 Score: 115
Period size: 45 Copynumber: 3.2 Consensus size: 43
14905250 TGGAGCAGGC
*
14905260 TGAAGATAGCAGATTTTGCCTTCCTACATCGACAGTGAAGCAGAT
1 TGAAGATAGCAGATCTTGCCTTCCTAC-T-GACAGTGAAGCAGAT
* * * * ** * *
14905305 TGAAGACACCAG-CCTTGCCTCCCTGGGTTG-CAGTAAAGCAGGT
1 TGAAGATAGCAGATCTTGCCTTCCT--ACTGACAGTGAAGCAGAT
*
14905348 TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGAT
1 TGAAGATAGCAGATCTTGCCTTCC--TACTGACAGTGAAGCAGAT
*
14905393 CGAAGATA
1 TGAAGATA
14905401 TTTAGTCTTA
Statistics
Matches: 70, Mismatches: 20, Indels: 12
0.69 0.20 0.12
Matches are distributed among these distances:
43 20 0.29
44 21 0.30
45 28 0.40
46 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (43 bp):
TGAAGATAGCAGATCTTGCCTTCCTACTGACAGTGAAGCAGAT
Found at i:14905382 original size:88 final size:88
Alignment explanation
Indices: 14905227--14905398 Score: 240
Period size: 88 Copynumber: 2.0 Consensus size: 88
14905217 GAGATCACAA
* * ** * *
14905227 AGCCTTGCCTCCTTGGTTTGCAGTGGAGCAGGCTGAAGATAGCAGATTTTGCCTTCCTACATCGA
1 AGCCTTGCCTCCCTGGGTTGCAGTAAAGCAGGCTGAAAATAGCAGATCTTGCCTTCCTACATCGA
*
14905292 CAGTGAAGCAGATTGAAGACACC
66 CAGTGAAGCAGATCGAAGACACC
*
14905315 AGCCTTGCCTCCCTGGGTTGCAGTAAAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGTAC-T-
1 AGCCTTGCCTCCCTGGGTTGCAGTAAAGCAGGCTGAAAATAGCAGATCTTGCCTTCC--TACATC
14905378 GACAGTGAAGCAGATCGAAGA
64 GACAGTGAAGCAGATCGAAGA
14905399 TATTTAGTCT
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
88 70 0.95
89 1 0.01
90 3 0.04
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (88 bp):
AGCCTTGCCTCCCTGGGTTGCAGTAAAGCAGGCTGAAAATAGCAGATCTTGCCTTCCTACATCGA
CAGTGAAGCAGATCGAAGACACC
Found at i:14906064 original size:44 final size:44
Alignment explanation
Indices: 14905967--14906075 Score: 141
Period size: 44 Copynumber: 2.5 Consensus size: 44
14905957 TGAAGATGGC
14905967 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* **
14906011 AAT-TCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAGCCACA-
1 AATCT-TATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-AT
* *
14906055 GATCTTATCTTTCTGAAGTTG
1 AATCTTATCTCTCTGAAGTTG
14906076 TAGAGAACAT
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
43 1 0.02
44 53 0.95
45 2 0.04
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.32
Consensus pattern (44 bp):
AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
Found at i:14909758 original size:16 final size:16
Alignment explanation
Indices: 14909736--14909772 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
14909726 TTTCAATTTT
14909736 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
14909753 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
14909768 TAATA
1 TAATA
14909773 TTCTTCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:14909857 original size:15 final size:16
Alignment explanation
Indices: 14909812--14909859 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 16
14909802 TATTAGTATT
14909812 TTAATAATAAATATTAA
1 TTAATAATAAATA-TAA
*
14909829 TTACAATTATAAATAT-A
1 TT--AATAATAAATATAA
14909846 TTAATAATAAATAT
1 TTAATAATAAATAT
14909860 TTTGTAGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 11 0.41
17 5 0.19
18 1 0.04
19 10 0.37
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (16 bp):
TTAATAATAAATATAA
Found at i:14911373 original size:30 final size:30
Alignment explanation
Indices: 14911313--14911375 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
14911303 ATTACAAAAT
** * *
14911313 AATCATTAAATTATTTGAAAATTCTTTTTA
1 AATCATTAAATTATTAAAAAAATCTATTTA
14911343 AATCATTAAATTATTCAAAAAAAT-TATTTA
1 AATCATTAAATTATT-AAAAAAATCTATTTA
14911373 AAT
1 AAT
14911376 TATCAGGCTG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 23 0.82
31 5 0.18
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (30 bp):
AATCATTAAATTATTAAAAAAATCTATTTA
Found at i:14914474 original size:2 final size:2
Alignment explanation
Indices: 14914467--14914507 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
14914457 TTATCATGGT
14914467 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14914508 TTACAATTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14915636 original size:113 final size:113
Alignment explanation
Indices: 14915438--14915663 Score: 443
Period size: 113 Copynumber: 2.0 Consensus size: 113
14915428 ACGTCACTTG
*
14915438 GACCGCTATGGAATGTTGCCACCACCATCACAACCCTGATGATGATTCTCATAAAAATCATGATG
1 GACCGCTATGGAATGTTGCCACCACCATCACAACCCTGATGATGATTCTCATAAAAATCATGACG
14915503 TTTTCAAGCTCGAAAAAGAATTAGAAACCCTAAAATTTAAAAATCAGC
66 TTTTCAAGCTCGAAAAAGAATTAGAAACCCTAAAATTTAAAAATCAGC
14915551 GACCGCTATGGAATGTTGCCACCACCATCACAACCCTGATGATGATTCTCATAAAAATCATGACG
1 GACCGCTATGGAATGTTGCCACCACCATCACAACCCTGATGATGATTCTCATAAAAATCATGACG
14915616 TTTTCAAGCTCGAAAAAGAATTAGAAACCCTAAAATTTAAAAATCAGC
66 TTTTCAAGCTCGAAAAAGAATTAGAAACCCTAAAATTTAAAAATCAGC
14915664 AATCTCAAGA
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
113 112 1.00
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.24
Consensus pattern (113 bp):
GACCGCTATGGAATGTTGCCACCACCATCACAACCCTGATGATGATTCTCATAAAAATCATGACG
TTTTCAAGCTCGAAAAAGAATTAGAAACCCTAAAATTTAAAAATCAGC
Found at i:14916850 original size:40 final size:40
Alignment explanation
Indices: 14916806--14916886 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
14916796 AAATGCATTT
*
14916806 AAGGGTACCGAAGTAAAAACAGGGGCACGTATGTGCAATC
1 AAGGGTACCGAAGTAAAAACAAGGGCACGTATGTGCAATC
**
14916846 AAGGGTACCGAAGTACGAACAAGGGCACGTATGTGCAATC
1 AAGGGTACCGAAGTAAAAACAAGGGCACGTATGTGCAATC
14916886 A
1 A
14916887 TTCAAAATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.37, C:0.19, G:0.30, T:0.15
Consensus pattern (40 bp):
AAGGGTACCGAAGTAAAAACAAGGGCACGTATGTGCAATC
Found at i:14921371 original size:21 final size:20
Alignment explanation
Indices: 14921345--14921384 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
14921335 AATAAAGTAG
14921345 TTATATATTATTTTTCTAATA
1 TTATATATTATTTTT-TAATA
14921366 TTATATATTATTTTTTAAT
1 TTATATATTATTTTTTAAT
14921385 TGATATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (20 bp):
TTATATATTATTTTTTAATA
Found at i:14921467 original size:16 final size:16
Alignment explanation
Indices: 14921446--14921516 Score: 54
Period size: 16 Copynumber: 4.2 Consensus size: 16
14921436 ATCTTTATTA
14921446 AATTATATTTAATAAT
1 AATTATATTTAATAAT
*
14921462 AATTATATTAAAGTACGATT
1 AATTATATTTAA-TA--A-T
* * *
14921482 AAAT-TATTTATTATT
1 AATTATATTTAATAAT
14921497 AAATTATATTTAATAAT
1 -AATTATATTTAATAAT
14921514 AAT
1 AAT
14921517 CCTATTATAA
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
15 1 0.02
16 17 0.41
17 11 0.27
18 2 0.05
19 6 0.15
20 4 0.10
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (16 bp):
AATTATATTTAATAAT
Found at i:14921487 original size:61 final size:60
Alignment explanation
Indices: 14921367--14921497 Score: 153
Period size: 61 Copynumber: 2.2 Consensus size: 60
14921357 TTTCTAATAT
* *
14921367 TATA-TATTATTTTTTAATTGATATTTTACTAATAATTATATTAAGAATGTTATTAAATTA
1 TATATTATTATTTTTTAATTGATATTTTAATAATAATTATATTAAGAACG-TATTAAATTA
*
14921427 TATATTATTATCTTTATTAAATT-ATA-TTTAATAATAATTATATTAAAGTACG-ATTAAATTA
1 TATATTATTAT-TTT-TT-AATTGATATTTTAATAATAATTATATT-AAGAACGTATTAAATTA
*
14921488 TTTATTATTA
1 TATATTATTA
14921498 AATTATATTT
Statistics
Matches: 62, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
60 4 0.06
61 24 0.39
62 20 0.32
63 10 0.16
64 4 0.06
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (60 bp):
TATATTATTATTTTTTAATTGATATTTTAATAATAATTATATTAAGAACGTATTAAATTA
Found at i:14921509 original size:26 final size:26
Alignment explanation
Indices: 14921416--14921509 Score: 81
Period size: 26 Copynumber: 3.7 Consensus size: 26
14921406 ATTAAGAATG
*
14921416 TTATTAAATTATATATT--ATTATCT-
1 TTATTAAATTATAT-TTAAATTATTTA
* *
14921440 TTATTAAATTATATTTAATAATAATTA
1 TTATTAAATTATATTTAA-ATTATTTA
* *
14921467 -TATTAAAGTACGA-TTAAATTATTTA
1 TTATTAAATTA-TATTTAAATTATTTA
14921492 TTATTAAATTATATTTAA
1 TTATTAAATTATATTTAA
14921510 TAATAATCCT
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
23 2 0.04
24 14 0.26
25 7 0.13
26 30 0.56
27 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (26 bp):
TTATTAAATTATATTTAAATTATTTA
Found at i:14921523 original size:26 final size:24
Alignment explanation
Indices: 14921400--14921516 Score: 78
Period size: 24 Copynumber: 4.8 Consensus size: 24
14921390 TTTTACTAAT
* *
14921400 AATTATA-TTAAGAAT-GTTATTA
1 AATTATATTTAATAATAATTATTA
* **
14921422 AATTATATATT-ATTATCTTTATTA
1 AATTATAT-TTAATAATAATTATTA
14921446 AATTATATTTAATAATAATTATATTA
1 AATTATATTTAATAATAA-T-TATTA
* * * * *
14921472 AAGTACGATTAAATTATTTATTATTA
1 AATTA-TATTTAA-TAATAATTATTA
14921498 AATTATATTTAATAATAAT
1 AATTATATTTAATAATAAT
14921517 CCTATTATAA
Statistics
Matches: 71, Mismatches: 16, Indels: 14
0.70 0.16 0.14
Matches are distributed among these distances:
22 7 0.10
23 5 0.07
24 25 0.35
25 6 0.08
26 18 0.25
27 6 0.08
28 4 0.06
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (24 bp):
AATTATATTTAATAATAATTATTA
Found at i:14921724 original size:16 final size:16
Alignment explanation
Indices: 14921705--14921744 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
14921695 TTATAACTTC
* *
14921705 ATTCTATTACAGCTCT
1 ATTCCATTACAGCCCT
14921721 ATTCCATTACAGCCCT
1 ATTCCATTACAGCCCT
*
14921737 ATTTCATT
1 ATTCCATT
14921745 CCCCCAACCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.25, C:0.28, G:0.05, T:0.42
Consensus pattern (16 bp):
ATTCCATTACAGCCCT
Found at i:14927331 original size:50 final size:50
Alignment explanation
Indices: 14927207--14927448 Score: 218
Period size: 50 Copynumber: 4.7 Consensus size: 50
14927197 GATAATAACA
* * ** * * *
14927207 TGCCAAAGCCATGTCCCAGACATGGTCTTGCATGGGATATTTCCTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * **
14927256 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** *
14927306 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * * *
14927356 TGCCAACGCCATGTCCCAGACGTAGTCTTGCATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
*
14927412 TACCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
14927449 TCTTTTTACC
Statistics
Matches: 154, Mismatches: 31, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
48 1 0.01
49 38 0.25
50 80 0.52
53 2 0.01
56 33 0.21
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:14934680 original size:9 final size:9
Alignment explanation
Indices: 14934663--14934699 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
14934653 TGAGTTTTCG
14934663 AATTCGAAT
1 AATTCGAAT
*
14934672 AACTCGAAT
1 AATTCGAAT
14934681 AATTCGAAT
1 AATTCGAAT
14934690 AATTCGAAT
1 AATTCGAAT
14934699 A
1 A
14934700 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:14936105 original size:50 final size:50
Alignment explanation
Indices: 14936038--14936227 Score: 191
Period size: 50 Copynumber: 3.7 Consensus size: 50
14936028 TTTCCTGTAC
* * * **
14936038 TGCCAATGCCATATCCCAGATATGGTCTTCCATGAGAGTTATCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTATCATATCGG
* * * * *
14936088 TGCCTATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTATCATATCGG
* * * *
14936138 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTATCAT-A--TC---GG
*
14936194 TGCCAATGTCATGTCCCAGACATGGTCTTACATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG
14936228 GGATCTCTTT
Statistics
Matches: 117, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
50 82 0.70
53 2 0.02
56 33 0.28
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTATCATATCGG
Found at i:14945969 original size:17 final size:17
Alignment explanation
Indices: 14945930--14945978 Score: 91
Period size: 16 Copynumber: 2.9 Consensus size: 17
14945920 ATAGAAAGTC
14945930 AAAGATATGGGTATCAG
1 AAAGATATGGGTATCAG
14945947 -AAGATATGGGTATCAG
1 AAAGATATGGGTATCAG
14945963 AAAGATATGGGTATCA
1 AAAGATATGGGTATCA
14945979 AAATCTGAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
16 16 0.52
17 15 0.48
ACGTcount: A:0.41, C:0.06, G:0.29, T:0.24
Consensus pattern (17 bp):
AAAGATATGGGTATCAG
Found at i:14948673 original size:385 final size:384
Alignment explanation
Indices: 14948071--14948842 Score: 1364
Period size: 385 Copynumber: 2.0 Consensus size: 384
14948061 GAAAAATGAA
* * *
14948071 GTTTTGGATGCATTTCTGAAATGGAAAAAGATGGTGGGGACCCAGACTGGTCGAAAGGTCAAACG
1 GTTTTGGATGCATTTCTGAAATGGAAAAAGACGGTGGAGACCCAGACTAGTCGAAAGGTCAAACG
14948136 ACTTTGATCAGACAATGGTACTGAGTACAAGAATAATCAATTTCTACAAGTATGCAAGATGAGGG
66 ACTTTGATCAGACAATGGTACTGAGTACAAGAATAATCAATTTCTACAAGTATGCAAGATGAGGG
* *
14948201 CATTGTGCGACACTTCACTGTTCGAGATTCACCAAAACAGAATGGGGTGGCAGAACGTATGAATC
131 CATTGTGCGACACTTCACTGTTCGAGATACACCAAAACAGAATGGGATGGCAGAACGTATGAATC
14948266 GGACTATACTGGAGAAAGTTCGATGTATGTTGTCCAATGCTGGATTGGGCAAGGAATTTTGGGCT
196 GGACTATACTGGAGAAAGTTCGATGTATGTTGTCCAATGCTGGATTGGGCAAGGAATTTTGGGCT
*
14948331 GAGGCAGTTACATATGCATGCCATTTAATTAACCGGTTTCCATCAACTGAAATAAATAGAAAAAC
261 GAGGCAGTTACATATGCATGCCATCTAATTAACCGGTTTCCATCAACTGAAATAAATAGAAAAAC
*
14948396 TCTTATGGAGAGGTGGGCTGGTAAACCTGCTACTGATTATGATTCTTTACATGTTTTTG
326 TCCTATGGAGAGGTGGGCTGGTAAACCTGCTACTGATTATGATTCTTTACATGTTTTTG
* *
14948455 GTTTTGGATGCATTTCTGAAATGGAAGAAGACGGTGGAGACCCAGACTAGTTGAAAGGTCAAACG
1 GTTTTGGATGCATTTCTGAAATGGAAAAAGACGGTGGAGACCCAGACTAGTCGAAAGGTCAAACG
* *
14948520 ACTTTGATCAGACAATGGTACTGAGTACAAGAATGATCCATTTCTACAAGTATGTCAAGATGAGG
66 ACTTTGATCAGACAATGGTACTGAGTACAAGAATAATCAATTTCTACAAGTATG-CAAGATGAGG
* *
14948585 GCATTGTGCGACACTTCACTGTTCGAGATACACCACAACAGAATGGGATGGCAGAACGTATGAGT
130 GCATTGTGCGACACTTCACTGTTCGAGATACACCAAAACAGAATGGGATGGCAGAACGTATGAAT
14948650 CGGACTATACTGGAGAAAGTTCGATGTATGTTGTCCAATGCTGGATTGGGCAAGGAATTTTGGGC
195 CGGACTATACTGGAGAAAGTTCGATGTATGTTGTCCAATGCTGGATTGGGCAAGGAATTTTGGGC
** * * *
14948715 TGAGGCAGTTACATATGTGTGCCATCTAATTAACTGGTTTCCATCAGCTGCAATAAATAGAAAAA
260 TGAGGCAGTTACATATGCATGCCATCTAATTAACCGGTTTCCATCAACTGAAATAAATAGAAAAA
*
14948780 CTCCTATGGAGAGGTGGGCTGGTAAACCTGCTACTGATTATGATTCTTTTCATGTTTTTG
325 CTCCTATGGAGAGGTGGGCTGGTAAACCTGCTACTGATTATGATTCTTTACATGTTTTTG
14948840 GTT
1 GTT
14948843 CCACTGCATA
Statistics
Matches: 368, Mismatches: 19, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
384 112 0.30
385 256 0.70
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (384 bp):
GTTTTGGATGCATTTCTGAAATGGAAAAAGACGGTGGAGACCCAGACTAGTCGAAAGGTCAAACG
ACTTTGATCAGACAATGGTACTGAGTACAAGAATAATCAATTTCTACAAGTATGCAAGATGAGGG
CATTGTGCGACACTTCACTGTTCGAGATACACCAAAACAGAATGGGATGGCAGAACGTATGAATC
GGACTATACTGGAGAAAGTTCGATGTATGTTGTCCAATGCTGGATTGGGCAAGGAATTTTGGGCT
GAGGCAGTTACATATGCATGCCATCTAATTAACCGGTTTCCATCAACTGAAATAAATAGAAAAAC
TCCTATGGAGAGGTGGGCTGGTAAACCTGCTACTGATTATGATTCTTTACATGTTTTTG
Found at i:14949913 original size:17 final size:17
Alignment explanation
Indices: 14949891--14949926 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
14949881 ATAGAAAGTC
14949891 AAAGATATGGGTATCAA
1 AAAGATATGGGTATCAA
14949908 AAAGATATGGGTATCAA
1 AAAGATATGGGTATCAA
14949925 AA
1 AA
14949927 TCTGAGATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (17 bp):
AAAGATATGGGTATCAA
Found at i:14951947 original size:23 final size:23
Alignment explanation
Indices: 14951921--14951996 Score: 125
Period size: 23 Copynumber: 3.3 Consensus size: 23
14951911 ATAGGTGCCA
14951921 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
14951944 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
14951967 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
14951990 CATTGAT
1 CACTGAT
14951997 CAATAAAATT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:14952247 original size:18 final size:17
Alignment explanation
Indices: 14952214--14952252 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
14952204 ATTTTCCTTC
14952214 CACATTCAAAATTAATT
1 CACATTCAAAATTAATT
14952231 CACATATC-AAATATAATT
1 CACAT-TCAAAAT-TAATT
14952249 CACA
1 CACA
14952253 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.31
Consensus pattern (17 bp):
CACATTCAAAATTAATT
Found at i:14953504 original size:13 final size:13
Alignment explanation
Indices: 14953486--14953512 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14953476 AATAAAAAAA
14953486 ATATTTATTATAT
1 ATATTTATTATAT
14953499 ATATTTATTATAT
1 ATATTTATTATAT
14953512 A
1 A
14953513 GATACTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATATTTATTATAT
Found at i:14953505 original size:31 final size:30
Alignment explanation
Indices: 14953430--14953491 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
14953420 TTCGGAAATG
*
14953430 TATTTTAAAAATAA---AAAATAAAAAAAG
1 TATTTTAAAAATAATTTAAAATAAAAAAAA
14953457 TATTTTAAAAATAATTTAAAATAAAAAAAA
1 TATTTTAAAAATAATTTAAAATAAAAAAAA
14953487 TATTT
1 TATTT
14953492 ATTATATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
27 14 0.45
30 17 0.55
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (30 bp):
TATTTTAAAAATAATTTAAAATAAAAAAAA
Found at i:14963333 original size:31 final size:31
Alignment explanation
Indices: 14963262--14963336 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
14963252 ACTACCCATG
* * *
14963262 GTCACTTTTATTTACCTTAGGTTATATTTTA
1 GTCACTTATGTTTACCTTAGGTTACATTTTA
14963293 GTCACTTATGTTTACCTTAGGTTACATTTTA
1 GTCACTTATGTTTACCTTAGGTTACATTTTA
14963324 GTCACTTATGTTT
1 GTCACTTATGTTT
14963337 GAAATGTTAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.21, C:0.15, G:0.12, T:0.52
Consensus pattern (31 bp):
GTCACTTATGTTTACCTTAGGTTACATTTTA
Found at i:14966725 original size:16 final size:16
Alignment explanation
Indices: 14966704--14966734 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14966694 ATATTTAACC
*
14966704 TTGAAAATGTGAAAAA
1 TTGAAAAGGTGAAAAA
14966720 TTGAAAAGGTGAAAA
1 TTGAAAAGGTGAAAA
14966735 GGACTCACTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.23, T:0.23
Consensus pattern (16 bp):
TTGAAAAGGTGAAAAA
Found at i:14973388 original size:12 final size:12
Alignment explanation
Indices: 14973373--14973398 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14973363 TTTCACTTCC
14973373 TTTTTCTTTAAT
1 TTTTTCTTTAAT
14973385 TTTTTCTTTAAT
1 TTTTTCTTTAAT
14973397 TT
1 TT
14973399 CAGCCAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTTCTTTAAT
Found at i:14983909 original size:9 final size:9
Alignment explanation
Indices: 14983897--14983934 Score: 67
Period size: 9 Copynumber: 4.2 Consensus size: 9
14983887 TTCCTTTTTC
*
14983897 TCCTCATCT
1 TCCTCATCA
14983906 TCCTCATCA
1 TCCTCATCA
14983915 TCCTCATCA
1 TCCTCATCA
14983924 TCCTCATCA
1 TCCTCATCA
14983933 TC
1 TC
14983935 TCCTTCTTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.18, C:0.45, G:0.00, T:0.37
Consensus pattern (9 bp):
TCCTCATCA
Done.