Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 71 of 109
Found at i:14213868 original size:21 final size:21
Alignment explanation
Indices: 14213843--14213971 Score: 89
Period size: 20 Copynumber: 6.4 Consensus size: 21
14213833 AATAATGAAC
14213843 TTTTAAAAATTAAAATTTAAT
1 TTTTAAAAATTAAAATTTAAT
14213864 TTTTAAAAATTAAAA--T-A-
1 TTTTAAAAATTAAAATTTAAT
14213881 TTTTAAAATATT-AAA-TTAAT
1 TTTTAAAA-ATTAAAATTTAAT
14213901 ATTTT-AAAATATAAAATTT--T
1 -TTTTAAAAAT-TAAAATTTAAT
* * * * *
14213921 TCTAAAAAATATGAGATTTGATT
1 TTTTAAAAAT-TAAAATTT-AAT
*
14213944 TTTTAAAAATTAAAATCTAA-
1 TTTTAAAAATTAAAATTTAAT
14213964 TTTTAAAA
1 TTTTAAAA
14213972 TAAAAGTAAA
Statistics
Matches: 86, Mismatches: 10, Indels: 25
0.71 0.08 0.21
Matches are distributed among these distances:
17 11 0.13
18 5 0.06
19 6 0.07
20 25 0.29
21 23 0.27
22 7 0.08
23 9 0.10
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (21 bp):
TTTTAAAAATTAAAATTTAAT
Found at i:14213874 original size:15 final size:17
Alignment explanation
Indices: 14213843--14213928 Score: 66
Period size: 21 Copynumber: 4.5 Consensus size: 17
14213833 AATAATGAAC
14213843 TTTTAAAAATTAAAATTTAA
1 TTTTAAAAATTAAAA--T-A
14213863 TTTTTAAAAATTAAAATA
1 -TTTTAAAAATTAAAATA
14213881 TTTTAAAATATTAAATTAATA
1 TTTTAAAA-ATT-AA--AATA
*
14213902 TTTT-AAAATATAAAATT
1 TTTTAAAAAT-TAAAATA
14213919 TTTCTAAAAA
1 TTT-TAAAAA
14213929 ATATGAGATT
Statistics
Matches: 57, Mismatches: 1, Indels: 16
0.77 0.01 0.22
Matches are distributed among these distances:
17 14 0.25
18 5 0.09
19 11 0.19
20 4 0.07
21 23 0.40
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (17 bp):
TTTTAAAAATTAAAATA
Found at i:14213896 original size:23 final size:21
Alignment explanation
Indices: 14213877--14213918 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
14213867 TAAAAATTAA
*
14213877 AATATTTTAAAATATTAAATT
1 AATATTTTAAAATATAAAATT
14213898 AATATTTTAAAATATAAAATT
1 AATATTTTAAAATATAAAATT
14213919 TTTCTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
AATATTTTAAAATATAAAATT
Found at i:14214463 original size:18 final size:17
Alignment explanation
Indices: 14214430--14214484 Score: 76
Period size: 18 Copynumber: 3.2 Consensus size: 17
14214420 CAACTTCTCA
*
14214430 ATTTTTTAGTTT-TTTT
1 ATTTTTTATTTTATTTT
14214446 ATTTTTTACTTTTATTTT
1 ATTTTTTA-TTTTATTTT
14214464 ATTTTTTAGTTTTATTTT
1 ATTTTTTA-TTTTATTTT
14214482 ATT
1 ATT
14214485 CTACTATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.23
17 3 0.09
18 24 0.69
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (17 bp):
ATTTTTTATTTTATTTT
Found at i:14214476 original size:13 final size:12
Alignment explanation
Indices: 14214440--14214481 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 12
14214430 ATTTTTTAGT
14214440 TTTTTTATTTT-
1 TTTTTTATTTTA
14214451 TTACTTTTATTTTA
1 TT--TTTTATTTTA
14214465 TTTTTTAGTTTTA
1 TTTTTTA-TTTTA
14214478 TTTT
1 TTTT
14214482 ATTCTACTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 2 0.07
12 5 0.19
13 18 0.67
14 2 0.07
ACGTcount: A:0.14, C:0.02, G:0.02, T:0.81
Consensus pattern (12 bp):
TTTTTTATTTTA
Found at i:14214494 original size:23 final size:24
Alignment explanation
Indices: 14214449--14214494 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
14214439 TTTTTTTATT
* * *
14214449 TTTTACTTTTATTTTATTTTTTAG
1 TTTTACTTTTATTCTACTATTTAG
14214473 TTTTA-TTTTATTCTACTATTTA
1 TTTTACTTTTATTCTACTATTTA
14214495 TCATTTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.72
Consensus pattern (24 bp):
TTTTACTTTTATTCTACTATTTAG
Found at i:14214503 original size:34 final size:34
Alignment explanation
Indices: 14214430--14214510 Score: 80
Period size: 34 Copynumber: 2.4 Consensus size: 34
14214420 CAACTTCTCA
* * **
14214430 ATTTTTTAGTTTTTTTATTTTTTACTTTTATTTT
1 ATTTTTTAGTTTTTTTATATTCTACTTTTATCAT
14214464 ATTTTTTAGTTTTATTT-TATTCTACTATTTATC--
1 ATTTTTTAGTTTT-TTTATATTCTACT-TTTATCAT
14214497 ATTTTTTA-TTTTTT
1 ATTTTTTAGTTTTTT
14214511 ATTTATATAA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
31 2 0.05
32 4 0.10
33 8 0.19
34 20 0.48
35 8 0.19
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.75
Consensus pattern (34 bp):
ATTTTTTAGTTTTTTTATATTCTACTTTTATCAT
Found at i:14214511 original size:34 final size:32
Alignment explanation
Indices: 14214430--14214514 Score: 84
Period size: 31 Copynumber: 2.6 Consensus size: 32
14214420 CAACTTCTCA
**
14214430 ATTTTTTAGTTTTTTTATTTTTTACTTTTATTTT
1 ATTTTTTA--TTTTTTATTTTTTACTACTATTTT
*
14214464 ATTTTTTA-GTTTTATTTTATT-CTACTATTTAT
1 ATTTTTTATTTTTTATTTT-TTACTACTATTT-T
14214496 CATTTTTTATTTTTTATTT
1 -ATTTTTTATTTTTTATTT
14214515 ATATAAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
31 16 0.37
32 3 0.07
33 8 0.19
34 16 0.37
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (32 bp):
ATTTTTTATTTTTTATTTTTTACTACTATTTT
Found at i:14218675 original size:25 final size:25
Alignment explanation
Indices: 14218630--14218677 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
14218620 ATTTATTATC
14218630 TATAATAAAATAAAAAGTAAAAATT
1 TATAATAAAATAAAAAGTAAAAATT
*
14218655 TATAATAAATATAAATA-TAAAAA
1 TATAATAAA-ATAAAAAGTAAAAA
14218678 AAAACTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (25 bp):
TATAATAAAATAAAAAGTAAAAATT
Found at i:14221250 original size:19 final size:19
Alignment explanation
Indices: 14221226--14221265 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
14221216 ATTTTGAATG
14221226 TTTTTAATGTTGGATCTAC
1 TTTTTAATGTTGGATCTAC
14221245 TTTTTAATGTTGGATCTAC
1 TTTTTAATGTTGGATCTAC
14221264 TT
1 TT
14221266 AATATTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.20, C:0.10, G:0.15, T:0.55
Consensus pattern (19 bp):
TTTTTAATGTTGGATCTAC
Found at i:14221437 original size:35 final size:35
Alignment explanation
Indices: 14221371--14221436 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 35
14221361 TATGAATTTG
14221371 ATTTTTTAACTTTTCATTTTTTAGTCTTTTTTAAT
1 ATTTTTTAACTTTTCATTTTTTAGTCTTTTTTAAT
* * *
14221406 ATTTTTTACCTTTT-ATTTTTTTGTATTTTTT
1 ATTTTTTAACTTTTCATTTTTTAGTCTTTTTT
14221437 TTAATTTGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 15 0.54
35 13 0.46
ACGTcount: A:0.17, C:0.08, G:0.03, T:0.73
Consensus pattern (35 bp):
ATTTTTTAACTTTTCATTTTTTAGTCTTTTTTAAT
Found at i:14222462 original size:20 final size:21
Alignment explanation
Indices: 14222413--14222467 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
14222403 TTCAAGATTT
14222413 AAAAAGGGATCAATCACCCAG
1 AAAAAGGGATCAATCACCCAG
** *
14222434 ACTAAGGGATCAATCACCTA-
1 AAAAAGGGATCAATCACCCAG
14222454 AAAAAGGGATCAAT
1 AAAAAGGGATCAAT
14222468 TGGTACTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 12 0.41
21 17 0.59
ACGTcount: A:0.47, C:0.20, G:0.18, T:0.15
Consensus pattern (21 bp):
AAAAAGGGATCAATCACCCAG
Found at i:14231341 original size:39 final size:40
Alignment explanation
Indices: 14231257--14231344 Score: 103
Period size: 39 Copynumber: 2.2 Consensus size: 40
14231247 AGTTTAGTTT
*
14231257 TACATATACACTACGTTTGAAAAGAAAAAGTAGTCTATTA
1 TACATATACACTACATTTGAAAAGAAAAAGTAGTCTATTA
* *
14231297 T-CATATAGACTACATTT-AAAA-AAAACA-TTGTCTATTA
1 TACATATACACTACATTTGAAAAGAAAA-AGTAGTCTATTA
14231334 TCACATATACA
1 T-ACATATACA
14231345 AAACGTTTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
37 14 0.34
38 5 0.12
39 21 0.51
40 1 0.02
ACGTcount: A:0.45, C:0.15, G:0.08, T:0.32
Consensus pattern (40 bp):
TACATATACACTACATTTGAAAAGAAAAAGTAGTCTATTA
Found at i:14235954 original size:16 final size:16
Alignment explanation
Indices: 14235933--14235964 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
14235923 GCTTATATGG
14235933 ATTCAAAATTTTCTAA
1 ATTCAAAATTTTCTAA
14235949 ATTCAAAATTTTCTAA
1 ATTCAAAATTTTCTAA
14235965 CTAAGCTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTCAAAATTTTCTAA
Found at i:14237301 original size:15 final size:15
Alignment explanation
Indices: 14237281--14237310 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14237271 TTACTTTTTA
*
14237281 AATTTATATATAAAT
1 AATTTATAAATAAAT
14237296 AATTTATAAATAAAT
1 AATTTATAAATAAAT
14237311 TAAAACAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AATTTATAAATAAAT
Found at i:14241655 original size:6 final size:6
Alignment explanation
Indices: 14241616--14241662 Score: 58
Period size: 6 Copynumber: 7.8 Consensus size: 6
14241606 TTGTATATTT
* * * *
14241616 ATTTAC ATGTAC ATTTAC GTTTAC ATTCAC ATTTAC ATTTAG ATTTA
1 ATTTAC ATTTAC ATTTAC ATTTAC ATTTAC ATTTAC ATTTAC ATTTA
14241663 TATATTTACT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.32, C:0.15, G:0.06, T:0.47
Consensus pattern (6 bp):
ATTTAC
Found at i:14247423 original size:2 final size:2
Alignment explanation
Indices: 14247416--14247441 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14247406 CAAATTGCCT
14247416 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
14247442 CACTAGTCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14248049 original size:2 final size:2
Alignment explanation
Indices: 14248042--14248079 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
14248032 TAAACTTGAA
* *
14248042 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14248080 GTATGTATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
AT
Found at i:14248084 original size:12 final size:12
Alignment explanation
Indices: 14248042--14248088 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
14248032 TAAACTTGAA
*
14248042 ATATATATATAT
1 ATATATGTATAT
*
14248054 ATATATATATAT
1 ATATATGTATAT
*
14248066 ATTTATGTATAT
1 ATATATGTATAT
*
14248078 ATGTATGTATA
1 ATATATGTATA
14248089 ATTCATATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (12 bp):
ATATATGTATAT
Found at i:14248169 original size:17 final size:17
Alignment explanation
Indices: 14248149--14248181 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
14248139 AAATATTATT
14248149 TTTAATATAAAT-TATAC
1 TTTAAT-TAAATATATAC
14248166 TTTAATTAAATATATA
1 TTTAATTAAATATATA
14248182 AAGATAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTAATTAAATATATAC
Found at i:14248495 original size:17 final size:16
Alignment explanation
Indices: 14248475--14248522 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 16
14248465 TATTTTATTT
*
14248475 AAAAAAGGAAAAAAAG
1 AAAAAAAGAAAAAAAG
**
14248491 CAAAAACTGAAAAAAAG
1 -AAAAAAAGAAAAAAAG
14248508 AAAAAAAGAAAAAAA
1 AAAAAAAGAAAAAAA
14248523 TGACCAATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
16 13 0.48
17 14 0.52
ACGTcount: A:0.81, C:0.04, G:0.12, T:0.02
Consensus pattern (16 bp):
AAAAAAAGAAAAAAAG
Found at i:14248511 original size:7 final size:8
Alignment explanation
Indices: 14248475--14248522 Score: 60
Period size: 8 Copynumber: 5.9 Consensus size: 8
14248465 TATTTTATTT
*
14248475 AAAAAAGG
1 AAAAAAAG
14248483 AAAAAAAG
1 AAAAAAAG
**
14248491 CAAAAACTG
1 -AAAAAAAG
14248500 AAAAAAAG
1 AAAAAAAG
14248508 AAAAAAAG
1 AAAAAAAG
14248516 AAAAAAA
1 AAAAAAA
14248523 TGACCAATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
8 28 0.82
9 6 0.18
ACGTcount: A:0.81, C:0.04, G:0.12, T:0.02
Consensus pattern (8 bp):
AAAAAAAG
Found at i:14251255 original size:111 final size:111
Alignment explanation
Indices: 14251119--14251326 Score: 242
Period size: 112 Copynumber: 1.9 Consensus size: 111
14251109 AATGCATAAT
* * * * *
14251119 TATGAAGTAATCAAAA-ATATATTTTTGTAATTATATTTAGAGGGTATTATAATAATTTT-GACT
1 TATGAAGTAATCAAAATAGAT-TTTTTATAATTATAGTTAGAGAGAATTATAATAATTTTAG-CT
* **
14251182 AATTATAATATGGAAGATATTTTTGTAATTATGGTTGAAGAGGCATTA
64 AATTATAATATGAAAGATATTTTCATAATTATGGTTGAAGAGGCATTA
* * * *
14251230 TATGAAGTAATC-AAATGAGACTTTTTTATAATTATGGTTAGAGAGAATTCTAGTAATTTTAGTT
1 TATGAAGTAATCAAAAT-AGA-TTTTTTATAATTATAGTTAGAGAGAATTATAATAATTTTAGCT
*
14251294 AATTATAATATGAAAGATGTTTTCATAATTATG
64 AATTATAATATGAAAGATATTTTCATAATTATG
14251327 ATAAAAGGAT
Statistics
Matches: 80, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
110 3 0.04
111 12 0.15
112 63 0.79
113 2 0.03
ACGTcount: A:0.38, C:0.03, G:0.16, T:0.42
Consensus pattern (111 bp):
TATGAAGTAATCAAAATAGATTTTTTATAATTATAGTTAGAGAGAATTATAATAATTTTAGCTAA
TTATAATATGAAAGATATTTTCATAATTATGGTTGAAGAGGCATTA
Found at i:14251323 original size:26 final size:25
Alignment explanation
Indices: 14251293--14251350 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
14251283 TAATTTTAGT
*
14251293 TAATTATAATATGAAA-GATGTTTTCA
1 TAATTATAATA--AAAGGATATTTTCA
*
14251319 TAATTATGATAAAAGGATATTTTCA
1 TAATTATAATAAAAGGATATTTTCA
14251344 TAATTAT
1 TAATTAT
14251351 GGTTAGAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 3 0.10
25 16 0.55
26 10 0.34
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.43
Consensus pattern (25 bp):
TAATTATAATAAAAGGATATTTTCA
Found at i:14251739 original size:17 final size:18
Alignment explanation
Indices: 14251717--14251759 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
14251707 ATTTTTTTGA
* *
14251717 AAAAAAATG-ATCAAATT
1 AAAAAAATGAATAAAAAT
*
14251734 AAAAAAAAGAATAAAAAT
1 AAAAAAATGAATAAAAAT
14251752 AAAAAAAT
1 AAAAAAAT
14251760 TAAACATATA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (18 bp):
AAAAAAATGAATAAAAAT
Found at i:14252284 original size:23 final size:23
Alignment explanation
Indices: 14252258--14252301 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
14252248 TTGGTCTCAC
*
14252258 CAATTGAAAAAAAAAAAAAGAAT
1 CAATGGAAAAAAAAAAAAAGAAT
* *
14252281 CAATGGGAAAAGAAAAAAAGA
1 CAATGGAAAAAAAAAAAAAGA
14252302 GCCCCACACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.70, C:0.05, G:0.16, T:0.09
Consensus pattern (23 bp):
CAATGGAAAAAAAAAAAAAGAAT
Found at i:14253913 original size:14 final size:14
Alignment explanation
Indices: 14253894--14253921 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
14253884 GAATGAGTGA
14253894 TTTTTGTGTTTTGT
1 TTTTTGTGTTTTGT
14253908 TTTTTGTGTTTTGT
1 TTTTTGTGTTTTGT
14253922 AGATTTTAAG
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:0.00, C:0.00, G:0.21, T:0.79
Consensus pattern (14 bp):
TTTTTGTGTTTTGT
Found at i:14254425 original size:19 final size:19
Alignment explanation
Indices: 14254401--14254451 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
14254391 CATTTGTCAC
14254401 TATCAATTATTTATTTTAT
1 TATCAATTATTTATTTTAT
*
14254420 TATCAATTATTT-TATTAT
1 TATCAATTATTTATTTTAT
*
14254438 T-T-ATTTATTTATTT
1 TATCAATTATTTATTT
14254452 ATACCTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 7 0.25
17 3 0.11
18 6 0.21
19 12 0.43
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (19 bp):
TATCAATTATTTATTTTAT
Found at i:14254441 original size:12 final size:12
Alignment explanation
Indices: 14254406--14254453 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
14254396 GTCACTATCA
14254406 ATTATTTATTTT
1 ATTATTTATTTT
14254418 ATTATCAATTATTTT
1 ATTAT---TTATTTT
14254433 ATTATTTA-TTT
1 ATTATTTATTTT
14254444 ATTTATTTAT
1 A-TTATTTAT
14254454 ACCTTAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
11 4 0.13
12 15 0.48
15 12 0.39
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (12 bp):
ATTATTTATTTT
Found at i:14254450 original size:15 final size:15
Alignment explanation
Indices: 14254406--14254447 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
14254396 GTCACTATCA
14254406 ATTATTTATTTTATT
1 ATTATTTATTTTATT
* *
14254421 ATCAATTATTTTATT
1 ATTATTTATTTTATT
14254436 ATTTATTTATTT
1 A-TTATTTATTT
14254448 ATTTATACCT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTATTTATTTTATT
Found at i:14256296 original size:13 final size:13
Alignment explanation
Indices: 14256259--14256300 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
14256249 GCCATTTTTA
14256259 TTTTTTTAGTA-T
1 TTTTTTTAGTATT
**
14256271 TTCATTTATGTATT
1 TTTTTTTA-GTATT
14256285 TTTTTTTAGTATT
1 TTTTTTTAGTATT
14256298 TTT
1 TTT
14256301 GCATAATTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
12 6 0.25
13 11 0.46
14 7 0.29
ACGTcount: A:0.17, C:0.02, G:0.07, T:0.74
Consensus pattern (13 bp):
TTTTTTTAGTATT
Found at i:14256777 original size:54 final size:55
Alignment explanation
Indices: 14256719--14256838 Score: 154
Period size: 54 Copynumber: 2.2 Consensus size: 55
14256709 AAAAAAAGAA
* * * *
14256719 AAAAAAAG-ATAGAATTTTTAAATAGGCCAAAATGGTAAAAAATTTAGAAATTTC
1 AAAAAAAGAAAAGAATTTTTAAATAAGCCAAAATGGTAAAAAATTTAAAAATTCC
* **
14256773 -AAAAAAGAAAAGAATTTTTAAATAAGCCCAAATGGTGGAAAATTTAAAAATTCC
1 AAAAAAAGAAAAGAATTTTTAAATAAGCCAAAATGGTAAAAAATTTAAAAATTCC
*
14256827 AAAAAAAAAAAA
1 AAAAAAAGAAAA
14256839 TTTCTAAATT
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
53 7 0.12
54 39 0.70
55 10 0.18
ACGTcount: A:0.58, C:0.07, G:0.12, T:0.23
Consensus pattern (55 bp):
AAAAAAAGAAAAGAATTTTTAAATAAGCCAAAATGGTAAAAAATTTAAAAATTCC
Found at i:14260757 original size:23 final size:21
Alignment explanation
Indices: 14260726--14260789 Score: 83
Period size: 23 Copynumber: 2.9 Consensus size: 21
14260716 AAAAAGTGAA
14260726 AGAAAAGAAAAAATGACAAAAG
1 AGAAAAGAAAAAATGA-AAAAG
14260748 AGAAAGAGAAAAAATGAAAAAG
1 AGAAA-AGAAAAAATGAAAAAG
*
14260770 ATGAAAAAAAAAAGATGAAA
1 A-GAAAAGAAAAA-ATGAAA
14260790 GAAAAAAAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
22 17 0.45
23 21 0.55
ACGTcount: A:0.73, C:0.02, G:0.19, T:0.06
Consensus pattern (21 bp):
AGAAAAGAAAAAATGAAAAAG
Found at i:14260794 original size:13 final size:14
Alignment explanation
Indices: 14260727--14260810 Score: 64
Period size: 15 Copynumber: 5.7 Consensus size: 14
14260717 AAAAGTGAAA
14260727 GAAAAGAAAAA-AT
1 GAAAAGAAAAAGAT
14260740 GACAAAAGAGAAAGAGA-
1 G--AAAAGA-AAA-AGAT
*
14260757 AAAAATGAAAAAGAT
1 GAAAA-GAAAAAGAT
*
14260772 GAAAAAAAAAAGAT
1 GAAAAGAAAAAGAT
*
14260786 GAAAGAAAAAAAGAT
1 GAAA-AGAAAAAGAT
*
14260801 GAAAATAAAA
1 GAAAAGAAAA
14260811 GAAAAAGAAG
Statistics
Matches: 59, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
13 1 0.02
14 20 0.34
15 31 0.53
16 5 0.08
17 1 0.02
18 1 0.02
ACGTcount: A:0.74, C:0.01, G:0.18, T:0.07
Consensus pattern (14 bp):
GAAAAGAAAAAGAT
Found at i:14260794 original size:15 final size:14
Alignment explanation
Indices: 14260764--14260810 Score: 76
Period size: 15 Copynumber: 3.2 Consensus size: 14
14260754 AGAAAAAATG
14260764 AAAAAGATGAAAAA
1 AAAAAGATGAAAAA
14260778 AAAAAGATGAAAGAA
1 AAAAAGATGAAA-AA
14260793 AAAAAGATGAAAATA
1 AAAAAGATGAAAA-A
14260808 AAA
1 AAA
14260811 GAAAAAGAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
14 13 0.42
15 18 0.58
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.09
Consensus pattern (14 bp):
AAAAAGATGAAAAA
Found at i:14260828 original size:22 final size:21
Alignment explanation
Indices: 14260714--14260821 Score: 61
Period size: 21 Copynumber: 5.4 Consensus size: 21
14260704 AAAAAATTAA
*
14260714 AAAAAAAG-TG-AAAGAAAAG
1 AAAAAAAGATGAAAATAAAAG
* * *
14260733 AAAAAATGA-CAAAAGAGAAAG
1 AAAAAAAGATGAAAATA-AAAG
* * *
14260754 AGAAAAA-ATGAAAA-AGATG
1 AAAAAAAGATGAAAATAAAAG
* *
14260773 AAAAAAA-A--AAGATGAAAG
1 AAAAAAAGATGAAAATAAAAG
14260791 AAAAAAAGATGAAAATAAAAG
1 AAAAAAAGATGAAAATAAAAG
14260812 AAAAAGAAGA
1 AAAAA-AAGA
14260822 CTCAAATTGA
Statistics
Matches: 66, Mismatches: 14, Indels: 15
0.69 0.15 0.16
Matches are distributed among these distances:
17 3 0.05
18 9 0.14
19 17 0.26
20 7 0.11
21 26 0.39
22 4 0.06
ACGTcount: A:0.74, C:0.01, G:0.19, T:0.06
Consensus pattern (21 bp):
AAAAAAAGATGAAAATAAAAG
Found at i:14261959 original size:14 final size:13
Alignment explanation
Indices: 14261940--14262043 Score: 52
Period size: 14 Copynumber: 8.5 Consensus size: 13
14261930 ATAAAATTAT
14261940 GAATCTTCAAATGA
1 GAATCTT-AAATGA
14261954 GAATCTT---TGA
1 GAATCTTAAATGA
*
14261964 G--TCTTAAATAA
1 GAATCTTAAATGA
*
14261975 GAATCTTTAA-GA
1 GAATCTTAAATGA
14261987 -AATCTTCAAATGA
1 GAATCTT-AAATGA
14262000 GAATCTT---TGA
1 GAATCTTAAATGA
14262010 G--TCTTAAATGA
1 GAATCTTAAATGA
*
14262021 GAATATCCATAAATGA
1 G-A-AT-CTTAAATGA
14262037 GAATCTT
1 GAATCTT
14262044 TGACTCTTAA
Statistics
Matches: 68, Mismatches: 6, Indels: 33
0.64 0.06 0.31
Matches are distributed among these distances:
8 8 0.12
10 8 0.12
11 13 0.19
12 3 0.04
13 10 0.15
14 15 0.22
15 2 0.03
16 9 0.13
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (13 bp):
GAATCTTAAATGA
Found at i:14262040 original size:83 final size:83
Alignment explanation
Indices: 14261948--14262107 Score: 241
Period size: 83 Copynumber: 1.9 Consensus size: 83
14261938 ATGAATCTTC
* * *
14261948 AAATGAGAATCTTTGAGTCTTAAATAAGAATCTTTAAGAAATCTTCAAATGAGAA-TCTTTGAGT
1 AAATGAGAATCTTTGACTCTTAAACAAGAATCTTTAAGAAATCTTCAAATGAAAAGT-TTTGAGT
14262012 CTTAAATGAGAATATCCAT
65 CTTAAATGAGAATATCCAT
** *
14262031 AAATGAGAATCTTTGACTCTTAAACAAGAATCTTTAAGACGTTTTCAAATGAAAAGTTTTGAGTC
1 AAATGAGAATCTTTGACTCTTAAACAAGAATCTTTAAGAAATCTTCAAATGAAAAGTTTTGAGTC
*
14262096 TTAAGTGAGAAT
66 TTAAATGAGAAT
14262108 CTTTAAGATG
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
83 68 0.99
84 1 0.01
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.34
Consensus pattern (83 bp):
AAATGAGAATCTTTGACTCTTAAACAAGAATCTTTAAGAAATCTTCAAATGAAAAGTTTTGAGTC
TTAAATGAGAATATCCAT
Found at i:14262135 original size:25 final size:25
Alignment explanation
Indices: 14262057--14262198 Score: 142
Period size: 25 Copynumber: 6.0 Consensus size: 25
14262047 CTCTTAAACA
*
14262057 AGAATCTTTAAGACGTTTTCAAATG
1 AGAATCTTTAAGATGTTTTCAAATG
* * *
14262082 AAAAGT-TTT--GA-GTCTT-AAGTG
1 AGAA-TCTTTAAGATGTTTTCAAATG
14262103 AGAATCTTTAAGATGTTTTCAAATG
1 AGAATCTTTAAGATGTTTTCAAATG
*
14262128 AGAATCTTTAATATGTTTTCAAATG
1 AGAATCTTTAAGATGTTTTCAAATG
*
14262153 AGAA-CTTT--GA-GTCTT-AAATG
1 AGAATCTTTAAGATGTTTTCAAATG
*
14262173 AAAATCTTTAAGATGTTTTCAAATG
1 AGAATCTTTAAGATGTTTTCAAATG
14262198 A
1 A
14262199 TATTAAATGA
Statistics
Matches: 95, Mismatches: 11, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
20 9 0.09
21 18 0.19
22 5 0.05
23 6 0.06
24 12 0.13
25 44 0.46
26 1 0.01
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (25 bp):
AGAATCTTTAAGATGTTTTCAAATG
Found at i:14262225 original size:151 final size:152
Alignment explanation
Indices: 14262057--14262337 Score: 426
Period size: 151 Copynumber: 1.9 Consensus size: 152
14262047 CTCTTAAACA
* *
14262057 AGAATCTTTAAGACGTTTTCAAATGAA-AAGTTTTGAGTCTTAAGTGAGAATCTTTAAGATGTTT
1 AGAATCTTTAAGACGTTTTCAAAT-AAGAAGCTTTGAGTCTTAAATGAGAATCTTTAAGATGTTT
* * * **
14262121 TCAAATGAGA-ATCTTTAATATGTTTTCAAATGAGAA-CTTTGAGTCTTAAATGAA-AATCTTTA
65 TCAAAT-AAATATCCTTAAGACATTTTCAAATGAGAACCTTTGAGTCTTAAAT-AAGAATCTTTA
14262183 AGATGTTTTCAAATGATATTAAATG
128 AGATGTTTTCAAATGATATTAAATG
* *
14262208 AGAATCTTTAAGACGTTTTCAAATAAGAAGCTTTGAGTCTTAAATGAGAATCTTTAATATTTTTT
1 AGAATCTTTAAGACGTTTTCAAATAAGAAGCTTTGAGTCTTAAATGAGAATCTTTAAGATGTTTT
14262273 CAAATAAATATCCTTAAGACATTTTCAAATGAGAACCTTTGAGTCTTAAATAAGAATCTTTAAGA
66 CAAATAAATATCCTTAAGACATTTTCAAATGAGAACCTTTGAGTCTTAAATAAGAATCTTTAAGA
14262338 ATTTTTAAGT
Statistics
Matches: 117, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
150 4 0.03
151 87 0.74
152 26 0.22
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (152 bp):
AGAATCTTTAAGACGTTTTCAAATAAGAAGCTTTGAGTCTTAAATGAGAATCTTTAAGATGTTTT
CAAATAAATATCCTTAAGACATTTTCAAATGAGAACCTTTGAGTCTTAAATAAGAATCTTTAAGA
TGTTTTCAAATGATATTAAATG
Found at i:14262241 original size:25 final size:24
Alignment explanation
Indices: 14262203--14262342 Score: 87
Period size: 25 Copynumber: 6.0 Consensus size: 24
14262193 AAATGATATT
*
14262203 AAATGAGAATCTTTAAGACGTTTTC
1 AAATAAGAATCTTTAAGA-GTTTTC
* *
14262228 AAATAAGAAGCTTT--GAGTCTT-
1 AAATAAGAATCTTTAAGAGTTTTC
* * *
14262249 AAATGAGAATCTTTAATATTTTTTC
1 AAATAAGAATCTTTAAGA-GTTTTC
* *
14262274 AAATAA-ATATCCTTAAGACATTTTC
1 AAATAAGA-ATCTTTAAGA-GTTTTC
* * *
14262299 AAATGAGAACCTTT--GAGTCTT-
1 AAATAAGAATCTTTAAGAGTTTTC
*
14262320 AAATAAGAATCTTTAAGAATTTT
1 AAATAAGAATCTTTAAGAGTTTT
14262343 TAAGTTTTCA
Statistics
Matches: 85, Mismatches: 22, Indels: 18
0.68 0.18 0.14
Matches are distributed among these distances:
21 24 0.28
22 7 0.08
23 10 0.12
24 4 0.05
25 39 0.46
26 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (24 bp):
AAATAAGAATCTTTAAGAGTTTTC
Found at i:14262257 original size:21 final size:23
Alignment explanation
Indices: 14262201--14262263 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 23
14262191 TCAAATGATA
*
14262201 TTAAATGAGAATCTTTAAGACGTT
1 TTAAATGAGAATCTTT-AGACGTC
* *
14262225 TTCAAATAAGAAGCTTT-GA-GTC
1 TT-AAATGAGAATCTTTAGACGTC
14262247 TTAAATGAGAATCTTTA
1 TTAAATGAGAATCTTTA
14262264 ATATTTTTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
21 12 0.38
22 4 0.12
23 2 0.06
24 2 0.06
25 12 0.38
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.37
Consensus pattern (23 bp):
TTAAATGAGAATCTTTAGACGTC
Found at i:14262264 original size:81 final size:74
Alignment explanation
Indices: 14262057--14262337 Score: 317
Period size: 71 Copynumber: 3.8 Consensus size: 74
14262047 CTCTTAAACA
* * *
14262057 AGAATCTTTAAGACGTTTTCAAATGAAAAGTTTTGAGTCTTAAGTGAGAATCTTTAAGATGTTTT
1 AGAATCTTTAAGACGTTTTCAAATGAGAA-CTTTGAGTCTTAAATGAGAATCTTTAAGATGTTTT
14262122 C----AAATG
65 CAAATAAATG
* * *
14262128 AGAATCTTTAATATGTTTTCAAATGAGAACTTTGAGTCTTAAATGAAAATCTTTAAGATGTTTTC
1 AGAATCTTTAAGACGTTTTCAAATGAGAACTTTGAGTCTTAAATGAGAATCTTTAAGATGTTTTC
14262193 AAATGATATTAAATG
66 --A--A-A-TAAATG
* * *
14262208 AGAATCTTTAAGACGTTTTCAAATAAGAAGCTTTGAGTCTTAAATGAGAATCTTTAATATTTTTT
1 AGAATCTTTAAGACGTTTTCAAATGAGAA-CTTTGAGTCTTAAATGAGAATCTTTAAGATGTTTT
14262273 CAAATAAAT-
65 CAAATAAATG
* * *
14262282 ---ATCCTTAAGACATTTTCAAATGAGAACCTTTGAGTCTTAAATAAGAATCTTTAAGA
1 AGAATCTTTAAGACGTTTTCAAATGAGAA-CTTTGAGTCTTAAATGAGAATCTTTAAGA
14262338 ATTTTTAAGT
Statistics
Matches: 181, Mismatches: 18, Indels: 22
0.82 0.08 0.10
Matches are distributed among these distances:
70 33 0.18
71 76 0.42
75 5 0.03
76 1 0.01
77 1 0.01
79 1 0.01
80 31 0.17
81 33 0.18
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (74 bp):
AGAATCTTTAAGACGTTTTCAAATGAGAACTTTGAGTCTTAAATGAGAATCTTTAAGATGTTTTC
AAATAAATG
Found at i:14262956 original size:44 final size:44
Alignment explanation
Indices: 14262807--14263075 Score: 246
Period size: 44 Copynumber: 6.2 Consensus size: 44
14262797 GATTATCGAT
*
14262807 GAGCTTTATTTATTTTTTTCAAAGTTATTGTGCCTTTGTTTAGAG
1 GAGCTTTATTTA-TTTTTTCAAAGTTGTTGTGCCTTTGTTTAGAG
* * * * * *
14262852 GAGC-CT-TTTA-TTTGTCAAAGTTATTGTGTCTTTGTTTTGAA
1 GAGCTTTATTTATTTTTTCAAAGTTGTTGTGCCTTTGTTTAGAG
* * *
14262893 GAGC-CT-TTTA-TTTTTCAAAGTTGTTGTGCCTTTGCTTAGAT
1 GAGCTTTATTTATTTTTTCAAAGTTGTTGTGCCTTTGTTTAGAG
* *
14262934 GAGCTTTATTTATTTTTTCAAAGTTGTTGAGCCTGTGTTTAGAG
1 GAGCTTTATTTATTTTTTCAAAGTTGTTGTGCCTTTGTTTAGAG
* * * *
14262978 GAGCTTGATCTATTTTTTCTAAAGTTGTTGAG-CTTCTATTTAGAG
1 GAGCTTTATTTATTTTTTC-AAAGTTGTTGTGCCTT-TGTTTAGAG
* * * * * *
14263023 GAGCTTTGTTTACTTTTTCAAAGTTATGGAGCCTCTGTTTAGAG
1 GAGCTTTATTTATTTTTTCAAAGTTGTTGTGCCTTTGTTTAGAG
* *
14263067 AAGTTTTAT
1 GAGCTTTAT
14263076 GATGTTTAAA
Statistics
Matches: 187, Mismatches: 31, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
41 66 0.35
42 1 0.01
43 8 0.04
44 71 0.38
45 41 0.22
ACGTcount: A:0.20, C:0.11, G:0.20, T:0.49
Consensus pattern (44 bp):
GAGCTTTATTTATTTTTTCAAAGTTGTTGTGCCTTTGTTTAGAG
Found at i:14263010 original size:45 final size:44
Alignment explanation
Indices: 14262807--14263066 Score: 219
Period size: 41 Copynumber: 6.0 Consensus size: 44
14262797 GATTATCGAT
* * * *
14262807 GAGCTTTATTTATTTTTTTCAAAGTTATTGTGCCTTTGTTTAGAG
1 GAGCTTGATTTA-TTTTTTCAAAGTTGTTGAGCCTCTGTTTAGAG
* * * * * * * *
14262852 GAGCCT--TTTA-TTTGTCAAAGTTATTGTGTCTTTGTTTTGAA
1 GAGCTTGATTTATTTTTTCAAAGTTGTTGAGCCTCTGTTTAGAG
* * * * *
14262893 GAGCCT--TTTA-TTTTTCAAAGTTGTTGTGCCTTTGCTTAGAT
1 GAGCTTGATTTATTTTTTCAAAGTTGTTGAGCCTCTGTTTAGAG
* *
14262934 GAGCTTTATTTATTTTTTCAAAGTTGTTGAGCCTGTGTTTAGAG
1 GAGCTTGATTTATTTTTTCAAAGTTGTTGAGCCTCTGTTTAGAG
* * *
14262978 GAGCTTGATCTATTTTTTCTAAAGTTGTTGAGCTTCTATTTAGAG
1 GAGCTTGATTTATTTTTTC-AAAGTTGTTGAGCCTCTGTTTAGAG
* * *
14263023 GAGCTTTG-TTTACTTTTTCAAAGTTATGGAGCCTCTGTTTAGAG
1 GAGC-TTGATTTATTTTTTCAAAGTTGTTGAGCCTCTGTTTAGAG
14263067 AAGTTTTATG
Statistics
Matches: 183, Mismatches: 27, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
41 67 0.37
43 8 0.04
44 65 0.36
45 40 0.22
46 3 0.02
ACGTcount: A:0.20, C:0.11, G:0.20, T:0.48
Consensus pattern (44 bp):
GAGCTTGATTTATTTTTTCAAAGTTGTTGAGCCTCTGTTTAGAG
Found at i:14263021 original size:89 final size:88
Alignment explanation
Indices: 14262820--14263066 Score: 222
Period size: 89 Copynumber: 2.9 Consensus size: 88
14262810 CTTTATTTAT
* * ** * * * * *
14262820 TTTTTTCAAAGTTATTGTGCCTTTGTTTAGAGGAGC-CT-TTTA-TTTGTCAAAGTTATTGTGTC
1 TTTTTTCAAAGTTGTTGAGCCTTTACTTAGAGGAGCTTTATTTACTTTTTCAAAGTTATGGAGCC
* * *
14262882 TTTGTTTTGAAGAGCCTT--T-TA
66 TCTGTTTAGAGGAG-CTTGATCTA
* * * * * *
14262903 -TTTTTCAAAGTTGTTGTGCCTTTGCTTAGATGAGCTTTATTTATTTTTTCAAAGTTGTTGAGCC
1 TTTTTTCAAAGTTGTTGAGCCTTTACTTAGAGGAGCTTTATTTACTTTTTCAAAGTTATGGAGCC
*
14262967 TGTGTTTAGAGGAGCTTGATCTA
66 TCTGTTTAGAGGAGCTTGATCTA
* *
14262990 TTTTTTCTAAAGTTGTTGAG-CTTCTATTTAGAGGAGCTTTGTTTACTTTTTCAAAGTTATGGAG
1 TTTTTTC-AAAGTTGTTGAGCCTT-TACTTAGAGGAGCTTTATTTACTTTTTCAAAGTTATGGAG
14263054 CCTCTGTTTAGAG
64 CCTCTGTTTAGAG
14263067 AAGTTTTATG
Statistics
Matches: 135, Mismatches: 20, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
82 32 0.24
83 1 0.01
84 7 0.05
85 27 0.20
86 1 0.01
87 2 0.01
88 9 0.07
89 56 0.41
ACGTcount: A:0.20, C:0.11, G:0.21, T:0.48
Consensus pattern (88 bp):
TTTTTTCAAAGTTGTTGAGCCTTTACTTAGAGGAGCTTTATTTACTTTTTCAAAGTTATGGAGCC
TCTGTTTAGAGGAGCTTGATCTA
Found at i:14264571 original size:52 final size:52
Alignment explanation
Indices: 14264420--14264577 Score: 183
Period size: 54 Copynumber: 3.0 Consensus size: 52
14264410 AAAAGAAGAA
* * * *
14264420 AAAAAAAACAAAATTTCTAAA-TAAGCTCAAATGGTGAAAAATTTAGAAATTTT
1 AAAAAAAA-AAAATTTCTAAATTGA-CCCAAATGGTGAAAAATTTAAAAATTTC
* * * *
14264473 AAAAAAGAAAAGAATATCTAAATAGGCCCAAATGATGAAAAATTTAAAAATTTC
1 AAAAAA-AAAA-AATTTCTAAATTGACCCAAATGGTGAAAAATTTAAAAATTTC
* *
14264527 AAAAAAAAAATATTTCTAAATTGACCCAAATGGTGAAAATTTTAAAAATTT
1 AAAAAAAAAAAATTTCTAAATTGACCCAAATGGTGAAAAATTTAAAAATTT
14264578 AAGGGAGAAA
Statistics
Matches: 88, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
52 35 0.40
53 12 0.14
54 41 0.47
ACGTcount: A:0.55, C:0.08, G:0.09, T:0.27
Consensus pattern (52 bp):
AAAAAAAAAAAATTTCTAAATTGACCCAAATGGTGAAAAATTTAAAAATTTC
Found at i:14264589 original size:52 final size:51
Alignment explanation
Indices: 14264447--14264611 Score: 161
Period size: 52 Copynumber: 3.1 Consensus size: 51
14264437 TAAATAAGCT
* * * * *
14264447 CAAATGGTGAAAAATTTAGAAATTTTAAAAAAGAAAAGAATATCTAAATAGGCC
1 CAAATGGTGAAAAATTTA-AAAATTT-AAAAAGAAAA-TATTTCTAAATTGACC
* *
14264501 CAAATGATGAAAAATTTAAAAATTTCAAAAAAAAAATATTTCTAAATTGACC
1 CAAATGGTGAAAAATTTAAAAATTT-AAAAAGAAAATATTTCTAAATTGACC
* ** * *
14264553 CAAATGGTGAAAATTTTAAAAATTTAAGGGAGAAAATATTT-TTAATTTAGCC
1 CAAATGGTGAAAAATTTAAAAATTTAA-AAAGAAAATATTTCTAAATTGA-CC
14264605 CAAATGG
1 CAAATGG
14264612 GGGAATAATT
Statistics
Matches: 94, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
51 8 0.09
52 54 0.57
53 15 0.16
54 17 0.18
ACGTcount: A:0.51, C:0.08, G:0.13, T:0.28
Consensus pattern (51 bp):
CAAATGGTGAAAAATTTAAAAATTTAAAAAGAAAATATTTCTAAATTGACC
Found at i:14264651 original size:9 final size:8
Alignment explanation
Indices: 14264634--14264662 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
14264624 ATATATTTTT
14264634 AATAAAAA
1 AATAAAAA
14264642 AATAAAAA
1 AATAAAAA
14264650 AAT-AAAA
1 AATAAAAA
14264657 AATAAA
1 AATAAA
14264663 TATTTTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (8 bp):
AATAAAAA
Found at i:14272491 original size:21 final size:22
Alignment explanation
Indices: 14272462--14272502 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
14272452 ATTTTTGCAT
* *
14272462 TGATCTTTAGAGTTTTTTTTTA
1 TGATCTTTAGAATTTATTTTTA
14272484 TGAT-TTTAGAATTTATTTT
1 TGATCTTTAGAATTTATTTT
14272503 GATCATTTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.22, C:0.02, G:0.12, T:0.63
Consensus pattern (22 bp):
TGATCTTTAGAATTTATTTTTA
Found at i:14272510 original size:21 final size:21
Alignment explanation
Indices: 14272467--14272510 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
14272457 TGCATTGATC
* * * *
14272467 TTTAGAGTTTTTTTTTATGAT
1 TTTAGAATTTATTTTGATCAT
14272488 TTTAGAATTTATTTTGATCAT
1 TTTAGAATTTATTTTGATCAT
14272509 TT
1 TT
14272511 CTCGAGATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.02, G:0.11, T:0.64
Consensus pattern (21 bp):
TTTAGAATTTATTTTGATCAT
Found at i:14272801 original size:18 final size:19
Alignment explanation
Indices: 14272774--14272818 Score: 67
Period size: 18 Copynumber: 2.5 Consensus size: 19
14272764 AGAGTAAAGC
14272774 TTGG-AAAAGAATGAAAAA
1 TTGGAAAAAGAATGAAAAA
*
14272792 TT-GAAAAAGAATGAGAAA
1 TTGGAAAAAGAATGAAAAA
14272810 TTGGAAAAA
1 TTGGAAAAA
14272819 AAAAGTGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 1 0.04
18 17 0.71
19 6 0.25
ACGTcount: A:0.60, C:0.00, G:0.22, T:0.18
Consensus pattern (19 bp):
TTGGAAAAAGAATGAAAAA
Found at i:14273501 original size:21 final size:22
Alignment explanation
Indices: 14273459--14273506 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
14273449 TTGCATTAAA
* *
14273459 ATTTTAGTATTTTTATATTTAT
1 ATTTTAGTATATTTATACTTAT
14273481 -TTTTAGTATAATTT-TACTTAT
1 ATTTTAGTAT-ATTTATACTTAT
14273502 ATTTT
1 ATTTT
14273507 GGCTTGTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (22 bp):
ATTTTAGTATATTTATACTTAT
Found at i:14289410 original size:10 final size:10
Alignment explanation
Indices: 14289380--14289418 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
14289370 TTAAAAAGTG
14289380 AAGTTAGTTA
1 AAGTTAGTTA
*
14289390 GAAGGTAGTTA
1 -AAGTTAGTTA
14289401 AAGTTAGTTA
1 AAGTTAGTTA
*
14289411 AAATTAGT
1 AAGTTAGT
14289419 CAATTCTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.41, C:0.00, G:0.23, T:0.36
Consensus pattern (10 bp):
AAGTTAGTTA
Found at i:14294938 original size:22 final size:22
Alignment explanation
Indices: 14294898--14294948 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
14294888 GAGGTCTTGA
14294898 AGATTATGCCCAGAAGTTTT-T
1 AGATTATGCCCAGAAGTTTTAT
* * *
14294919 GAGATTATGTCCGGAGGTTTTAT
1 -AGATTATGCCCAGAAGTTTTAT
14294942 AGATTAT
1 AGATTAT
14294949 TCTTATCTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 24 0.96
23 1 0.04
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.39
Consensus pattern (22 bp):
AGATTATGCCCAGAAGTTTTAT
Found at i:14295367 original size:18 final size:18
Alignment explanation
Indices: 14295354--14295580 Score: 174
Period size: 18 Copynumber: 12.7 Consensus size: 18
14295344 CTAAGATTTG
14295354 TAAAGGTTTCAAGATTCA
1 TAAAGGTTTCAAGATTCA
** **
14295372 TAAAGGTTAGAAGATTTG
1 TAAAGGTTTCAAGATTCA
* *
14295390 TAAAGATTTCAAAACTTGC-
1 TAAAGGTTTCAAGA-TT-CA
* *
14295409 --AAGATTCCAAGATTCA
1 TAAAGGTTTCAAGATTCA
* **
14295425 TAAAGATTTCTAAGATTTG
1 TAAAGGTTTC-AAGATTCA
* * *
14295444 CAAAGGTTACAAGATTCG
1 TAAAGGTTTCAAGATTCA
* * *
14295462 CAAAGGTTCCAAGACTCA
1 TAAAGGTTTCAAGATTCA
* * *
14295480 CAATGGTTACAAGATTCA
1 TAAAGGTTTCAAGATTCA
*
14295498 TAAAAGTTTCAAGATTCA
1 TAAAGGTTTCAAGATTCA
*
14295516 TAAAGG-TTCTAGATTCA
1 TAAAGGTTTCAAGATTCA
*
14295533 TAAAGGTTTCAAGATGCA
1 TAAAGGTTTCAAGATTCA
*
14295551 TAAAGGTTACAAGATTCA
1 TAAAGGTTTCAAGATTCA
*
14295569 TAAAGGATTCAA
1 TAAAGGTTTCAA
14295581 AATTTTCAAA
Statistics
Matches: 166, Mismatches: 36, Indels: 14
0.77 0.17 0.06
Matches are distributed among these distances:
15 1 0.01
16 2 0.01
17 26 0.16
18 122 0.73
19 15 0.09
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.30
Consensus pattern (18 bp):
TAAAGGTTTCAAGATTCA
Found at i:14295369 original size:36 final size:35
Alignment explanation
Indices: 14295329--14295655 Score: 118
Period size: 36 Copynumber: 9.1 Consensus size: 35
14295319 AAAATTTTTT
* *
14295329 AGATTTGCAAAAGTTCTAAGATTTGTAAAGGTTTCA
1 AGATTTGCAAAAGTTC-AAGATTCGTAAAGATTTCA
* *
14295365 AGA-TT-CATAAAGGTTAGAAGATTTGTAAAGATTTCA
1 AGATTTGCA-AAA-GTT-CAAGATTCGTAAAGATTTCA
* * * *
14295401 AAACTTGCAAGA-TTCCAAGATTCATAAAGATTTCTA
1 AGATTTGCAAAAGTT-CAAGATTCGTAAAGATTTC-A
* * * *
14295437 AGATTTGCAAAGGTTACAAGATTCGCAAAGGTTCCA
1 AGATTTGCAAAAGTT-CAAGATTCGTAAAGATTTCA
* ** ** *
14295473 AGACTCACAATGGTTACAAGATTCATAAA-AGTTTCA
1 AGATTTGCAAAAGTT-CAAGATTCGTAAAGA-TTTCA
* * *
14295509 AGA-TT-CATAAAGGTTCTAGATTCATAAAGGTTTCA
1 AGATTTGCA-AAA-GTTCAAGATTCGTAAAGATTTCA
*
14295544 AGA--TGCATAAAGGTTACAAGATTCATAAAGGA-TTCA
1 AGATTTGCA-AAA-GTT-CAAGATTCGTAAA-GATTTCA
* * ** *
14295580 AAATTTTCAAACA-TTCCAAGATTCACAAAGATTCCA
1 AGATTTGCAAA-AGTT-CAAGATTCGTAAAGATTTCA
* * * * * *
14295616 A-ATTTGTAAAGATTTCAAGATTTGCAAAGGTTCCA
1 AGATTTGCAAA-AGTTCAAGATTCGTAAAGATTTCA
14295651 AGATT
1 AGATT
14295656 CTCAAAGATT
Statistics
Matches: 228, Mismatches: 43, Indels: 40
0.73 0.14 0.13
Matches are distributed among these distances:
34 5 0.02
35 83 0.36
36 110 0.48
37 24 0.11
38 6 0.03
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (35 bp):
AGATTTGCAAAAGTTCAAGATTCGTAAAGATTTCA
Found at i:14295457 original size:45 final size:44
Alignment explanation
Indices: 14295342--14295460 Score: 107
Period size: 45 Copynumber: 2.7 Consensus size: 44
14295332 TTTGCAAAAG
* * * *
14295342 TTCTAAGATTTGTAAAGGTTTCAAGATTCATAAAGGTTAGAAGAT
1 TTCTAAGATTTGCAAAGGTTACAAGATTCA-AAAGATTAAAAGAT
* ** * *
14295387 TTGTAAAGATTT-CAAAACTTGCAAGATTC-CAAGATTCATAAAGAT
1 TTCT-AAGATTTGCAAAGGTTACAAGATTCAAAAGATT-A-AAAGAT
14295432 TTCTAAGATTTGCAAAGGTTACAAGATTC
1 TTCTAAGATTTGCAAAGGTTACAAGATTC
14295461 GCAAAGGTTC
Statistics
Matches: 58, Mismatches: 12, Indels: 8
0.74 0.15 0.10
Matches are distributed among these distances:
43 5 0.09
44 8 0.14
45 38 0.66
46 7 0.12
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.34
Consensus pattern (44 bp):
TTCTAAGATTTGCAAAGGTTACAAGATTCAAAAGATTAAAAGAT
Found at i:14295488 original size:108 final size:108
Alignment explanation
Indices: 14295300--14295495 Score: 261
Period size: 108 Copynumber: 1.8 Consensus size: 108
14295290 ACAAAAGATT
* * * * * *
14295300 CAAGATTCGTAAGATTCATAAAATTTTTTAGATTTGCAAAAGTTCTAAGATTTGTAAAGGTTTCA
1 CAAGATTCGCAAGATTCATAAAATTTCTAAGATTTGCAAAAGTTCTAAGATTCGCAAAGGTTCCA
* * *
14295365 AGATTCATAAAGGTTAGAAGATTTGTAAAGATTTCAAAACTTG
66 AGACTCACAAAGGTTACAAGATTTGTAAAGATTTCAAAACTTG
*
14295408 CAAGATTC-CAAGATTCATAAAGATTTCTAAGATTTGCAAAGGTTAC-AAGATTCGCAAAGGTTC
1 CAAGATTCGCAAGATTCATAAA-ATTTCTAAGATTTGCAAAAGTT-CTAAGATTCGCAAAGGTTC
*
14295471 CAAGACTCACAATGGTTACAAGATT
64 CAAGACTCACAAAGGTTACAAGATT
14295496 CATAAAAGTT
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
107 12 0.16
108 62 0.83
109 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (108 bp):
CAAGATTCGCAAGATTCATAAAATTTCTAAGATTTGCAAAAGTTCTAAGATTCGCAAAGGTTCCA
AGACTCACAAAGGTTACAAGATTTGTAAAGATTTCAAAACTTG
Found at i:14295580 original size:71 final size:71
Alignment explanation
Indices: 14295416--14295616 Score: 190
Period size: 71 Copynumber: 2.8 Consensus size: 71
14295406 TGCAAGATTC
** *
14295416 CAAGATTCATAAAGATTTCTAAGATTTGCAAAGGTTACAAGATTCGCAAAGGTTCCAAGACTCAC
1 CAAGATTCATAAAGA-TTC-AAGATTCACAAAGGTTACAAGATTCACAAAGGTTCCAAGACTCAC
*
14295481 AATGGTTA
64 AAAGGTTA
* * * * * *
14295489 CAAGATTCATAAAAGTTTCAAGATTCATAAAGGTT-CTAGATTCATAAAGGTTTCAAGA-TGCAT
1 CAAGATTCAT-AAAGATTCAAGATTCACAAAGGTTACAAGATTCACAAAGGTTCCAAGACT-CAC
14295552 AAAGGTTA
64 AAAGGTTA
* ** ** * *
14295560 CAAGATTCATAAAGGATTCAAAATTTTCAAACATTCCAAGATTCACAAAGATTCCAA
1 CAAGATTCATAAA-GATTCAAGATTCACAAAGGTTACAAGATTCACAAAGGTTCCAA
14295617 ATTTGTAAAG
Statistics
Matches: 103, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
70 4 0.04
71 52 0.50
72 30 0.29
73 13 0.13
74 4 0.04
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.28
Consensus pattern (71 bp):
CAAGATTCATAAAGATTCAAGATTCACAAAGGTTACAAGATTCACAAAGGTTCCAAGACTCACAA
AGGTTA
Found at i:14295613 original size:18 final size:18
Alignment explanation
Indices: 14295409--14295699 Score: 144
Period size: 18 Copynumber: 16.3 Consensus size: 18
14295399 CAAAACTTGC
*
14295409 AAGATTCCAAGATTCATA
1 AAGATTCCAAGATTCACA
* **
14295427 AAGATTTCTAAGATTTGCA
1 AAGA-TTCCAAGATTCACA
* * *
14295446 AAGGTTACAAGATTCGCA
1 AAGATTCCAAGATTCACA
* *
14295464 AAGGTTCCAAGACTCACA
1 AAGATTCCAAGATTCACA
* * * *
14295482 ATGGTTACAAGATTCATA
1 AAGATTCCAAGATTCACA
* *
14295500 AA-AGTTTCAAGATTCATA
1 AAGA-TTCCAAGATTCACA
* * *
14295518 AAGGTT-CTAGATTCATA
1 AAGATTCCAAGATTCACA
* * * *
14295535 AAGGTTTCAAGATGCATA
1 AAGATTCCAAGATTCACA
* * *
14295553 AAGGTTACAAGATTCATA
1 AAGATTCCAAGATTCACA
* **
14295571 AAGGATT-CAAAATTTTCA
1 AA-GATTCCAAGATTCACA
*
14295589 AACATTCCAAGATTCACA
1 AAGATTCCAAGATTCACA
***
14295607 AAGATTCCAA-ATTTGTA
1 AAGATTCCAAGATTCACA
* **
14295624 AAGATTTCAAGATTTGCA
1 AAGATTCCAAGATTCACA
* *
14295642 AAGGTTCCAAGATTCTCA
1 AAGATTCCAAGATTCACA
** * *
14295660 AAGATTTTAAAATTCATA
1 AAGATTCCAAGATTCACA
14295678 AAGA-TCC-AGATTCACA
1 AAGATTCCAAGATTCACA
14295694 AAGATT
1 AAGATT
14295700 TTAAGATTTG
Statistics
Matches: 212, Mismatches: 53, Indels: 17
0.75 0.19 0.06
Matches are distributed among these distances:
16 11 0.05
17 34 0.16
18 151 0.71
19 16 0.08
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (18 bp):
AAGATTCCAAGATTCACA
Found at i:14295619 original size:35 final size:35
Alignment explanation
Indices: 14295560--14295661 Score: 98
Period size: 35 Copynumber: 2.9 Consensus size: 35
14295550 ATAAAGGTTA
* *
14295560 CAAGATTCATAAAGGATTCAAAATTTTCAAACATTC
1 CAAGATTCACAAA-GATTCCAAATTTTCAAACATTC
* *
14295596 CAAGATTCACAAAGATTCCAAATTTGT-AAAGATTT
1 CAAGATTCACAAAGATTCCAAATTT-TCAAACATTC
** * *
14295631 CAAGATTTGCAAAGGTTCCAAGATTCTCAAA
1 CAAGATTCACAAAGATTCCAA-ATTTTCAAA
14295662 GATTTTAAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
35 36 0.65
36 19 0.35
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (35 bp):
CAAGATTCACAAAGATTCCAAATTTTCAAACATTC
Found at i:14295714 original size:34 final size:35
Alignment explanation
Indices: 14295623--14295725 Score: 109
Period size: 34 Copynumber: 2.9 Consensus size: 35
14295613 CCAAATTTGT
* * * *
14295623 AAAGATTTCAAGATTTGCAAAGGTTCCAAGATTCTC
1 AAAGATTTTAAGATTTGTAAA-GATCCAAGATTCAC
* **
14295659 AAAGATTTTAAAATTCATAAAGATCC-AGATTCAC
1 AAAGATTTTAAGATTTGTAAAGATCCAAGATTCAC
*
14295693 AAAGATTTTAAGATTTGTAAAGGTCCTAAGATT
1 AAAGATTTTAAGATTTGTAAAGATCC-AAGATT
14295726 TGCAAAGGTT
Statistics
Matches: 54, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
34 29 0.54
35 4 0.07
36 21 0.39
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.32
Consensus pattern (35 bp):
AAAGATTTTAAGATTTGTAAAGATCCAAGATTCAC
Found at i:14295748 original size:19 final size:18
Alignment explanation
Indices: 14295701--14295755 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
14295691 ACAAAGATTT
*
14295701 TAAGATTTGTAAAGGTCC
1 TAAGATTTGCAAAGGTCC
*
14295719 TAAGATTTGCAAAGGTTC
1 TAAGATTTGCAAAGGTCC
*
14295737 TAAGTTTTTGCAAATGGTC
1 TAAG-ATTTGCAAA-GGTC
14295756 TTTGCTTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
18 20 0.65
19 8 0.26
20 3 0.10
ACGTcount: A:0.31, C:0.11, G:0.22, T:0.36
Consensus pattern (18 bp):
TAAGATTTGCAAAGGTCC
Found at i:14299511 original size:18 final size:18
Alignment explanation
Indices: 14299488--14299527 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
14299478 GTTGTGGATG
14299488 AGGATGTTATAAATTGTA
1 AGGATGTTATAAATTGTA
* * *
14299506 AGGATGTTGTGAATTGTG
1 AGGATGTTATAAATTGTA
14299524 AGGA
1 AGGA
14299528 AAGTAAGGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.35
Consensus pattern (18 bp):
AGGATGTTATAAATTGTA
Found at i:14306823 original size:30 final size:28
Alignment explanation
Indices: 14306789--14306869 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 28
14306779 TAAAAAGAAA
14306789 AAAAACAAATGATAAAAATAATAATTAAAT
1 AAAAA-AAATGATAAAAATAATAATT-AAT
* * *
14306819 AAAAAAATTAATAAAAGT--TAATTAAT
1 AAAAAAAATGATAAAAATAATAATTAAT
14306845 AAAAAAAATGATATATAAATAATAA
1 AAAAAAAATGATA-A-AAATAATAA
14306870 AATTGAGATT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
26 14 0.34
27 6 0.15
28 3 0.07
29 10 0.24
30 8 0.20
ACGTcount: A:0.69, C:0.01, G:0.04, T:0.26
Consensus pattern (28 bp):
AAAAAAAATGATAAAAATAATAATTAAT
Found at i:14306839 original size:23 final size:24
Alignment explanation
Indices: 14306805--14306871 Score: 61
Period size: 23 Copynumber: 2.9 Consensus size: 24
14306795 AAATGATAAA
14306805 AATAATAATTAAATAA-AAAAATT
1 AATAATAATTAAATAATAAAAATT
* *
14306828 AATAA-AAGTTAATTAATAAAAA-A
1 AATAATAA-TTAAATAATAAAAATT
*
14306851 AATGAT-ATATAAATAATAAAA
1 AATAATAAT-TAAATAATAAAA
14306872 TTGAGATTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
22 3 0.08
23 28 0.78
24 5 0.14
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (24 bp):
AATAATAATTAAATAATAAAAATT
Found at i:14306867 original size:27 final size:25
Alignment explanation
Indices: 14306787--14306871 Score: 66
Period size: 27 Copynumber: 3.2 Consensus size: 25
14306777 TGTAAAAAGA
*
14306787 AAAAAAACAAATGATAAAAATAATAATT
1 AAAAAAA-AAATGAT-ATAA-AATAATT
*
14306815 AAATAAAAAAATTA-ATAAAAGTTAATT
1 AAA-AAAAAAATGATATAAAA--TAATT
14306842 AATAAAAAAAATGATATATAAATAA-T
1 AA-AAAAAAAATGATATA-AAATAATT
14306868 AAAA
1 AAAA
14306872 TTGAGATTAA
Statistics
Matches: 48, Mismatches: 3, Indels: 15
0.73 0.05 0.23
Matches are distributed among these distances:
25 4 0.08
26 6 0.12
27 19 0.40
28 12 0.25
29 7 0.15
ACGTcount: A:0.71, C:0.01, G:0.04, T:0.25
Consensus pattern (25 bp):
AAAAAAAAAATGATATAAAATAATT
Found at i:14307123 original size:19 final size:18
Alignment explanation
Indices: 14307082--14307134 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
14307072 TACTTTTATG
14307082 TATAATAATAATAATATA
1 TATAATAATAATAATATA
*
14307100 AATAATTAATAATAATAGT-
1 TATAA-TAATAATAATA-TA
* *
14307119 TATAAAAATTATAATA
1 TATAATAATAATAATA
14307135 ATGATATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 13 0.45
19 15 0.52
20 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
TATAATAATAATAATATA
Found at i:14312834 original size:29 final size:29
Alignment explanation
Indices: 14312802--14312862 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
14312792 TCAGTGACTT
14312802 AAATAATTAATGAGTCAAGTTTGAACATA
1 AAATAATTAATGAGTCAAGTTTGAACATA
14312831 AAATAATTAATGAGTCAAGTTTGAACATA
1 AAATAATTAATGAGTCAAGTTTGAACATA
14312860 AAA
1 AAA
14312863 AATAAAACTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.51, C:0.07, G:0.13, T:0.30
Consensus pattern (29 bp):
AAATAATTAATGAGTCAAGTTTGAACATA
Found at i:14313199 original size:3 final size:3
Alignment explanation
Indices: 14313191--14313232 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
14313181 CTTTGGCCCA
14313191 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
14313233 CGAAAAAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:14314108 original size:7 final size:7
Alignment explanation
Indices: 14314098--14314201 Score: 59
Period size: 7 Copynumber: 13.9 Consensus size: 7
14314088 TTTCTTTTTC
14314098 TTTTTAT
1 TTTTTAT
14314105 TTTTTAT
1 TTTTTAT
*
14314112 TTTTT-G
1 TTTTTAT
**
14314118 TTTACAT
1 TTTTTAT
14314125 TTTTTAT
1 TTTTTAT
*
14314132 TTTTTTT
1 TTTTTAT
14314139 ATTTTTAGGT
1 -TTTTTA--T
14314149 TTTTTACAT
1 TTTTT--AT
14314158 ATTTTTAT
1 -TTTTTAT
14314166 TTTATT-T
1 TTT-TTAT
* *
14314173 TTATTCT
1 TTTTTAT
14314180 TTATTTAT
1 TT-TTTAT
14314188 TTTTTAT
1 TTTTTAT
14314195 TATTTTA
1 T-TTTTA
14314202 CTTATTTTAA
Statistics
Matches: 75, Mismatches: 11, Indels: 21
0.70 0.10 0.20
Matches are distributed among these distances:
6 5 0.07
7 38 0.51
8 19 0.25
9 6 0.08
10 6 0.08
11 1 0.01
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.77
Consensus pattern (7 bp):
TTTTTAT
Found at i:14314138 original size:11 final size:11
Alignment explanation
Indices: 14314099--14314200 Score: 53
Period size: 11 Copynumber: 8.5 Consensus size: 11
14314089 TTCTTTTTCT
14314099 TTTTATTTTTTA
1 TTTT-TTTTTTA
*
14314111 TTTTTTGTTTACA
1 TTTTTT-TTT-TA
14314124 TTTTTTATTTT-
1 TTTTTT-TTTTA
*
14314135 TTTTATTTTTA
1 TTTTTTTTTTA
***
14314146 GGTTTTTTACATA
1 --TTTTTTTTTTA
*
14314159 TTTTTATTTTA
1 TTTTTTTTTTA
14314170 TTTTTATTCTTTA
1 TTTTT-TT-TTTA
*
14314183 TTTATTTTTTA
1 TTTTTTTTTTA
14314194 TTATTTT
1 TT-TTTT
14314201 ACTTATTTTA
Statistics
Matches: 67, Mismatches: 15, Indels: 16
0.68 0.15 0.16
Matches are distributed among these distances:
10 4 0.06
11 25 0.37
12 13 0.19
13 25 0.37
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.77
Consensus pattern (11 bp):
TTTTTTTTTTA
Found at i:14314160 original size:28 final size:26
Alignment explanation
Indices: 14314129--14314200 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 26
14314119 TTACATTTTT
*
14314129 TATTTTTTTTATTTTTAGGTTTTTTACA
1 TATTTTTTTTATTTTTA--TTCTTTACA
**
14314157 TATTTTTATTTTATTTTTATTCTTTATT
1 TA-TTTT-TTTTATTTTTATTCTTTACA
14314185 TATTTTTTATTATTTT
1 TATTTTTT-TTATTTT
14314201 ACTTATTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
26 2 0.05
27 11 0.29
28 10 0.26
29 4 0.11
30 11 0.29
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (26 bp):
TATTTTTTTTATTTTTATTCTTTACA
Found at i:14314206 original size:19 final size:18
Alignment explanation
Indices: 14314170--14314209 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
14314160 TTTTATTTTA
*
14314170 TTTTTATTCTTTATTTAT
1 TTTTTATTCTTTACTTAT
*
14314188 TTTTTATTATTTTACTTAT
1 TTTTTATT-CTTTACTTAT
14314207 TTT
1 TTT
14314210 AAATTGAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTATTCTTTACTTAT
Found at i:14314209 original size:18 final size:17
Alignment explanation
Indices: 14314167--14314209 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
14314157 TATTTTTATT
*
14314167 TTATTTTTATTCTTTAT
1 TTATTTTTATTCTTTAC
*
14314184 TTATTTTTTATTATTTTAC
1 TTA-TTTTTATT-CTTTAC
14314203 TTATTTT
1 TTATTTT
14314210 AAATTGAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 12 0.55
19 7 0.32
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.77
Consensus pattern (17 bp):
TTATTTTTATTCTTTAC
Found at i:14314210 original size:24 final size:23
Alignment explanation
Indices: 14314148--14314210 Score: 58
Period size: 24 Copynumber: 2.7 Consensus size: 23
14314138 TATTTTTAGG
*
14314148 TTTTTTACATATTTT-TATTTTA
1 TTTTTTACTTATTTTATATTTTA
* *
14314170 TTTTTATTCTT-TATTTATTTTTTA
1 TTTTT-TACTTAT-TTTATATTTTA
14314194 TTATTTTACTTATTTTA
1 TT-TTTTACTTATTTTA
14314211 AATTGAACAA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
22 6 0.19
23 6 0.19
24 16 0.50
25 4 0.12
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTTTTACTTATTTTATATTTTA
Found at i:14315549 original size:14 final size:14
Alignment explanation
Indices: 14315530--14315560 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
14315520 AAATAGGATA
14315530 TATGATTTGATGTT
1 TATGATTTGATGTT
14315544 TATGATTTGATGTT
1 TATGATTTGATGTT
14315558 TAT
1 TAT
14315561 TTTACTTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.19, T:0.58
Consensus pattern (14 bp):
TATGATTTGATGTT
Found at i:14316552 original size:22 final size:23
Alignment explanation
Indices: 14316517--14316564 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
14316507 TTTTATATTC
*
14316517 AAATTTATTTAAAT-ATAT-TAA
1 AAATTTATTAAAATAATATATAA
14316538 AAATCTTATTAAAATAATATATAA
1 AAAT-TTATTAAAATAATATATAA
14316562 AAA
1 AAA
14316565 ACAAAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 4 0.17
22 9 0.39
23 4 0.17
24 6 0.26
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
AAATTTATTAAAATAATATATAA
Found at i:14319994 original size:14 final size:14
Alignment explanation
Indices: 14319975--14320017 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
14319965 CAAATTTGTC
14319975 ATATTATATATAAT
1 ATATTATATATAAT
*
14319989 ATATTATTTAT-A-
1 ATATTATATATAAT
14320001 ATATTATATTATAAT
1 ATATTATA-TATAAT
14320016 AT
1 AT
14320018 GCATAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
12 7 0.29
13 4 0.17
14 11 0.46
15 2 0.08
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
ATATTATATATAAT
Found at i:14320008 original size:17 final size:18
Alignment explanation
Indices: 14319978--14320012 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
14319968 ATTTGTCATA
14319978 TTATATATAATATATTAT
1 TTATATATAATATATTAT
*
14319996 TTATA-ATATTATATTAT
1 TTATATATAATATATTAT
14320013 AATATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTATATATAATATATTAT
Found at i:14326628 original size:15 final size:16
Alignment explanation
Indices: 14326608--14326638 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14326598 TATAAATTTT
14326608 TTTTAT-TTTTTTAAA
1 TTTTATATTTTTTAAA
14326623 TTTTATATTTTTTAAA
1 TTTTATATTTTTTAAA
14326639 AAATAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTATATTTTTTAAA
Found at i:14326691 original size:20 final size:20
Alignment explanation
Indices: 14326666--14326710 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
14326656 TCAAAACATA
14326666 TTTTTTCAACTTTTTT-AATT
1 TTTTTTCAA-TTTTTTCAATT
*
14326686 TTTTTTCAATTTTTTCACTT
1 TTTTTTCAATTTTTTCAATT
14326706 TTTTT
1 TTTTT
14326711 AGGAAAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTTTCAATTTTTTCAATT
Found at i:14327270 original size:30 final size:30
Alignment explanation
Indices: 14327203--14327277 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
14327193 TCAAAAGTAT
*
14327203 TTCTTGAAAACAAATCATTTTTCATTTTGTA
1 TTCTTGAAAACAAATCATTTTT-ATTTTGAA
* *
14327234 TT-TTGAATACAAATTA-TTTTATTTTTGAA
1 TTCTTGAAAACAAATCATTTTTA-TTTTGAA
14327263 TTCTTGAAAATCAAA
1 TTCTTGAAAA-CAAA
14327278 ATTAATAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
28 1 0.03
29 12 0.32
30 18 0.49
31 6 0.16
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.48
Consensus pattern (30 bp):
TTCTTGAAAACAAATCATTTTTATTTTGAA
Found at i:14327520 original size:16 final size:15
Alignment explanation
Indices: 14327499--14327531 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
14327489 TCTTATTTTA
14327499 TTTTTTAAAAATATAT
1 TTTTTTAAAAATA-AT
14327515 TTTTTTAAAAATAAT
1 TTTTTTAAAAATAAT
14327530 TT
1 TT
14327532 ATTCATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTTTTAAAAATAAT
Found at i:14327698 original size:18 final size:18
Alignment explanation
Indices: 14327675--14327710 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
14327665 TTTGGTTTAA
*
14327675 GGTTCAGTTTAGGGTTTG
1 GGTTCAATTTAGGGTTTG
*
14327693 GGTTCAATTTGGGGTTTG
1 GGTTCAATTTAGGGTTTG
14327711 AGGATTTGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.06, G:0.39, T:0.44
Consensus pattern (18 bp):
GGTTCAATTTAGGGTTTG
Found at i:14327823 original size:33 final size:32
Alignment explanation
Indices: 14327752--14327823 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 32
14327742 TTGAGTTTGG
*
14327752 GTTTGGTTTAGGATTTAGGTTAGGGTTTGAGG
1 GTTTGGTTTAGGATTTAGGTTAGGGTTTGAGC
* * *
14327784 GCTTGGTTTAGGGTTTAAGTTTAGGGTTTGAGC
1 GTTTGGTTTAGGATTT-AGGTTAGGGTTTGAGC
14327817 GTTTGGT
1 GTTTGGT
14327824 GATTTGATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 14 0.41
33 20 0.59
ACGTcount: A:0.14, C:0.03, G:0.39, T:0.44
Consensus pattern (32 bp):
GTTTGGTTTAGGATTTAGGTTAGGGTTTGAGC
Found at i:14327956 original size:23 final size:23
Alignment explanation
Indices: 14327930--14327981 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
14327920 TCGAGCTTGA
14327930 GGATTTGGTTTAGGGTTTGG-TTT
1 GGATTTGGTTT-GGGTTTGGATTT
*
14327953 GGATTGGGGTTTGGGTTTGGATTT
1 GGATT-TGGTTTGGGTTTGGATTT
14327977 -GATTT
1 GGATTT
14327982 AGGATTTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 17 0.68
24 8 0.32
ACGTcount: A:0.10, C:0.00, G:0.40, T:0.50
Consensus pattern (23 bp):
GGATTTGGTTTGGGTTTGGATTT
Found at i:14327971 original size:18 final size:17
Alignment explanation
Indices: 14327942--14327975 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
14327932 ATTTGGTTTA
14327942 GGGTTTGGTTTGGATTG
1 GGGTTTGGTTTGGATTG
14327959 GGGTTTGGGTTTGGATT
1 GGGTTT-GGTTTGGATT
14327976 TGATTTAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.06, C:0.00, G:0.47, T:0.47
Consensus pattern (17 bp):
GGGTTTGGTTTGGATTG
Found at i:14328025 original size:201 final size:203
Alignment explanation
Indices: 14327791--14328173 Score: 542
Period size: 201 Copynumber: 1.9 Consensus size: 203
14327781 AGGGCTTGGT
* * **
14327791 TTAGGGTTTAAGTTTAGGGTTTGAGCGTTTGGTGATTTGATTTAGGGTTTAGGGTT-GATTTGGG
1 TTAGGGTTTAAATTTAGGGTTTGAGCGTTTGGTGATTTGATTTAGGGTTTA-GGTTCGATCTAAG
* *
14327855 GTATAATCGGTA-ATTTGGGTTTGGTTTGGAGTTTAAGTTTAAGGGATTGGTTTGGAGTTTGAGT
65 GTATAATCGG-AGATTTGGGTTTGGTTTGGAATTTAAGTTTAAGGGATTGGTTTGGAGTTTGAAT
*
14327919 TTCGAGCTTGAGGATTTGGTTTAGGGT-T-TGGTTT-GGATTGGGGTTTGGGTTTGGATTTGATT
129 TTCGAGCTTGAGG-TTTGGTTTAGGGTCTAAGGTTTGGGATTGGGGTTTGGGTTTGGATTTGATT
14327981 TAGGATTTAAG
193 TAGGATTTAAG
* * *
14327992 TTAGGGTTTAAATTTAGGGTTTGAGCTTTTGGTGGTTTGATTTAGGGTTTAGGTTCGGTCTAAGG
1 TTAGGGTTTAAATTTAGGGTTTGAGCGTTTGGTGATTTGATTTAGGGTTTAGGTTCGATCTAAGG
* * ** *
14328057 TTTAGTTTGAGGTTTGGGTTTGGTTTGGAATTTAAGTTTAAGGGATTGGTTTGGAGTTTGAATTT
66 TATAATCGGAGATTTGGGTTTGGTTTGGAATTTAAGTTTAAGGGATTGGTTTGGAGTTTGAATTT
* * *
14328122 TGAGTTTGAGGTTTGGTTTAGGGTCTAAGGTTTGGGTTTGGGGTTTGGGTTT
131 CGAGCTTGAGGTTTGGTTTAGGGTCTAAGGTTTGGGATTGGGGTTTGGGTTT
14328174 CGTCTGAGGT
Statistics
Matches: 159, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
200 18 0.11
201 119 0.75
202 5 0.03
203 17 0.11
ACGTcount: A:0.16, C:0.02, G:0.36, T:0.46
Consensus pattern (203 bp):
TTAGGGTTTAAATTTAGGGTTTGAGCGTTTGGTGATTTGATTTAGGGTTTAGGTTCGATCTAAGG
TATAATCGGAGATTTGGGTTTGGTTTGGAATTTAAGTTTAAGGGATTGGTTTGGAGTTTGAATTT
CGAGCTTGAGGTTTGGTTTAGGGTCTAAGGTTTGGGATTGGGGTTTGGGTTTGGATTTGATTTAG
GATTTAAG
Found at i:14328081 original size:53 final size:54
Alignment explanation
Indices: 14327960--14328083 Score: 130
Period size: 53 Copynumber: 2.3 Consensus size: 54
14327950 TTTGGATTGG
* *
14327960 GGTTTGGGTTTGGATTTGATTTAGGATTTAAGTTAGGGTTTAAATTTAGGGTTTGA
1 GGTTTGGGTTTGG-TTTGATTTAGGATTTAAGTTACGGTCTAAATTTA-GGTTTGA
* * * * *
14328016 GCTTTTGG--TGGTTTGATTTAGGGTTTAGGTT-CGGTCTAAGGTTTA-GTTTGA
1 GGTTTGGGTTTGGTTTGATTTAGGATTTAAGTTACGGTCTAA-ATTTAGGTTTGA
14328067 GGTTTGGGTTTGGTTTG
1 GGTTTGGGTTTGGTTTG
14328084 GAATTTAAGT
Statistics
Matches: 56, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
51 12 0.21
52 6 0.11
53 29 0.52
54 3 0.05
56 6 0.11
ACGTcount: A:0.15, C:0.02, G:0.35, T:0.48
Consensus pattern (54 bp):
GGTTTGGGTTTGGTTTGATTTAGGATTTAAGTTACGGTCTAAATTTAGGTTTGA
Found at i:14328138 original size:32 final size:30
Alignment explanation
Indices: 14328060--14328140 Score: 83
Period size: 32 Copynumber: 2.6 Consensus size: 30
14328050 TCTAAGGTTT
14328060 AGTTTGAGGTTTGGGTTTGGTTTGGAATTTA
1 AGTTTGAGGTTT-GGTTTGGTTTGGAATTTA
* * *
14328091 AGTTTAAGGGATTGGTTTGGAGTTT-GAATTTTG
1 AGTTTGA-GGTTTGGTTT-G-GTTTGGAA-TTTA
14328124 AGTTTGAGGTTTGGTTT
1 AGTTTGAGGTTTGGTTT
14328141 AGGGTCTAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
31 11 0.27
32 17 0.41
33 13 0.32
ACGTcount: A:0.17, C:0.00, G:0.35, T:0.48
Consensus pattern (30 bp):
AGTTTGAGGTTTGGTTTGGTTTGGAATTTA
Found at i:14328360 original size:18 final size:18
Alignment explanation
Indices: 14328333--14328375 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
14328323 TTTGATTTAA
*
14328333 GGTTTAGTTTGGGGTTTG
1 GGTTTAGTTTGGGATTTG
*
14328351 GGTTTGGTTTGGGATTTG
1 GGTTTAGTTTGGGATTTG
*
14328369 AGTTTAG
1 GGTTTAG
14328376 GGATTAAAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.09, C:0.00, G:0.42, T:0.49
Consensus pattern (18 bp):
GGTTTAGTTTGGGATTTG
Found at i:14328406 original size:33 final size:33
Alignment explanation
Indices: 14328352--14328421 Score: 79
Period size: 33 Copynumber: 2.1 Consensus size: 33
14328342 TGGGGTTTGG
*
14328352 GTTTGGTTTGGGATTTGAGTTTAGGGATTAAAA
1 GTTTGGTTTGGGATTTGAGTTTAAGGATTAAAA
* * * *
14328385 GTTTTGTTTGGGGCTTT-AGTTTAAGGTTTAAAT
1 GTTTGGTTT-GGGATTTGAGTTTAAGGATTAAAA
14328418 GTTT
1 GTTT
14328422 CATTTAAGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
33 25 0.81
34 6 0.19
ACGTcount: A:0.20, C:0.01, G:0.30, T:0.49
Consensus pattern (33 bp):
GTTTGGTTTGGGATTTGAGTTTAAGGATTAAAA
Found at i:14332843 original size:10 final size:10
Alignment explanation
Indices: 14332830--14332878 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
14332820 TACATACATC
14332830 TATGTATATG
1 TATGTATATG
14332840 TATGTATATG
1 TATGTATATG
* * *
14332850 TATACATACATC
1 TAT--GTATATG
14332862 TATGTATATG
1 TATGTATATG
14332872 TATGTAT
1 TATGTAT
14332879 GTATACATAC
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
10 24 0.77
12 7 0.23
ACGTcount: A:0.33, C:0.06, G:0.14, T:0.47
Consensus pattern (10 bp):
TATGTATATG
Found at i:14332847 original size:26 final size:26
Alignment explanation
Indices: 14332836--14332907 Score: 76
Period size: 30 Copynumber: 2.7 Consensus size: 26
14332826 CATCTATGTA
* *
14332836 TATGTATGTATATGTATACATACATC
1 TATGTATATGTATGTATACATACATC
14332862 TATGTATATGTATGTATGTATACATACATC
1 TATG--TA--TATGTATGTATACATACATC
14332892 TATG--TATGTATGTATA
1 TATGTATATGTATGTATA
14332908 TACATATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
24 12 0.30
26 4 0.10
28 2 0.05
30 22 0.55
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.44
Consensus pattern (26 bp):
TATGTATATGTATGTATACATACATC
Found at i:14332859 original size:32 final size:32
Alignment explanation
Indices: 14332818--14332924 Score: 155
Period size: 32 Copynumber: 3.3 Consensus size: 32
14332808 CATATACACA
14332818 TATACATACATCTATGTATATGTATGTATATG
1 TATACATACATCTATGTATATGTATGTATATG
14332850 TATACATACATCTATGTATATGTATG--TATG
1 TATACATACATCTATGTATATGTATGTATATG
* * *
14332880 TATACATACATCTATGTATGTATGTATATACATA
1 TATACATACATCTATGTA--TATGTATGTATATG
14332914 TATACATACAT
1 TATACATACAT
14332925 ATACATATAC
Statistics
Matches: 68, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
30 22 0.32
32 33 0.49
34 13 0.19
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.42
Consensus pattern (32 bp):
TATACATACATCTATGTATATGTATGTATATG
Found at i:14332926 original size:10 final size:10
Alignment explanation
Indices: 14332907--14332947 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
14332897 ATGTATGTAT
14332907 ATACATAT--
1 ATACATATAC
* *
14332915 ATACATACAT
1 ATACATATAC
14332925 ATACATATAC
1 ATACATATAC
14332935 ATACATATAC
1 ATACATATAC
14332945 ATA
1 ATA
14332948 TACATATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
8 7 0.25
10 21 0.75
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (10 bp):
ATACATATAC
Found at i:14332928 original size:6 final size:6
Alignment explanation
Indices: 14332905--14332955 Score: 70
Period size: 6 Copynumber: 8.8 Consensus size: 6
14332895 GTATGTATGT
* *
14332905 ATATAC ATATAT ACATAC ATATAC ATATAC --ATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
14332951 ATATA
1 ATATA
14332956 ATGATATGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
4 4 0.10
6 35 0.90
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAC
Found at i:14332934 original size:16 final size:16
Alignment explanation
Indices: 14332913--14332953 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
14332903 GTATATACAT
14332913 ATATACATACATATAC
1 ATATACATACATATAC
14332929 ATATACATACATATAC
1 ATATACATACATATAC
14332945 ATATACATA
1 ATATACATA
14332954 TAATGATATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (16 bp):
ATATACATACATATAC
Found at i:14333010 original size:4 final size:4
Alignment explanation
Indices: 14333001--14333043 Score: 50
Period size: 4 Copynumber: 10.8 Consensus size: 4
14332991 TGTAGACTAC
* * * *
14333001 ATAT ATAT ATAT ACAT ATAC ATAC ATAT ATAT ATAC ATAT ATA
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATA
14333044 ATGATATGGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (4 bp):
ATAT
Found at i:14333012 original size:6 final size:6
Alignment explanation
Indices: 14333001--14333043 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
14332991 TGTAGACTAC
* * * *
14333001 ATATAT ATATAT ACATAT ACATAC ATATAT ATATAC ATATAT A
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT A
14333044 ATGATATGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (6 bp):
ATATAT
Found at i:14333040 original size:10 final size:10
Alignment explanation
Indices: 14333005--14333043 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
14332995 GACTACATAT
14333005 ATATATATAC
1 ATATATATAC
*
14333015 ATATACATAC
1 ATATATATAC
14333025 ATATATATATAC
1 --ATATATATAC
14333037 ATATATA
1 ATATATA
14333044 ATGATATGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 16 0.64
12 9 0.36
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.38
Consensus pattern (10 bp):
ATATATATAC
Found at i:14333352 original size:18 final size:19
Alignment explanation
Indices: 14333311--14333353 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
14333301 AGAAAAAAGA
* *
14333311 TGAAAATTTTTTTCTTTCT
1 TGAAATTTTTTTTATTTCT
14333330 T-AAATTTTTTTTATTT-T
1 TGAAATTTTTTTTATTTCT
14333347 TGAAATT
1 TGAAATT
14333354 CAAAAAATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 2 0.10
18 18 0.86
19 1 0.05
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.65
Consensus pattern (19 bp):
TGAAATTTTTTTTATTTCT
Found at i:14333395 original size:14 final size:14
Alignment explanation
Indices: 14333353--14333396 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
14333343 TTTTTGAAAT
14333353 TCAAAAAATAGAAAA
1 TCAAAAAATA-AAAA
* *
14333368 TCAAAACATCAAAA
1 TCAAAAAATAAAAA
14333382 TCAAAAAATAAAAA
1 TCAAAAAATAAAAA
14333396 T
1 T
14333397 ATGTTTTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
14 17 0.68
15 8 0.32
ACGTcount: A:0.70, C:0.11, G:0.02, T:0.16
Consensus pattern (14 bp):
TCAAAAAATAAAAA
Found at i:14333931 original size:2 final size:2
Alignment explanation
Indices: 14333924--14333971 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
14333914 GTACTTAACC
* * *
14333924 AT AT AT AT AT AT AT GT AT GT AT GT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14333966 AT AT AT
1 AT AT AT
14333972 GTATGTATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14333980 original size:12 final size:12
Alignment explanation
Indices: 14333927--14333980 Score: 58
Period size: 12 Copynumber: 4.7 Consensus size: 12
14333917 CTTAACCATA
14333927 TATATATATATG
1 TATATATATATG
* *
14333939 TATGTATGTA--
1 TATATATATATG
*
14333949 TATATATATATA
1 TATATATATATG
14333961 TATATATATATG
1 TATATATATATG
*
14333973 TATGTATA
1 TATATATA
14333981 ATCAAACATA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 8 0.24
12 26 0.76
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (12 bp):
TATATATATATG
Found at i:14336695 original size:2 final size:2
Alignment explanation
Indices: 14336688--14336722 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
14336678 AATCTAGTGC
*
14336688 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14336723 AATTTTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14336754 original size:16 final size:16
Alignment explanation
Indices: 14336727--14336777 Score: 66
Period size: 16 Copynumber: 3.0 Consensus size: 16
14336717 TATATAAATT
14336727 TTTTATTATTTATTTAA
1 TTTTA-TATTTATTTAA
14336744 TTTTATATTTATTTAA
1 TTTTATATTTATTTAA
*
14336760 GTTTATATGTATATTTAA
1 TTTTATAT-T-TATTTAA
14336778 AAAAATTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
16 18 0.58
17 6 0.19
18 7 0.23
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (16 bp):
TTTTATATTTATTTAA
Found at i:14337197 original size:24 final size:24
Alignment explanation
Indices: 14337151--14337198 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
14337141 TGAAAAACAC
*
14337151 AAAAACAAAAAAAAAAAGTAAAGG
1 AAAAACAAAAAAAAAAAGAAAAGG
*
14337175 AAAAATAAAAAATAAAAA-AAAAGG
1 AAAAACAAAAAA-AAAAAGAAAAGG
14337199 TTTATAAGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.81, C:0.02, G:0.10, T:0.06
Consensus pattern (24 bp):
AAAAACAAAAAAAAAAAGAAAAGG
Found at i:14337795 original size:12 final size:11
Alignment explanation
Indices: 14337766--14337800 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
14337756 AATAACAATT
14337766 AAAAGAAAAAA
1 AAAAGAAAAAA
14337777 AAAAGAAATAAA
1 AAAAGAAA-AAA
*
14337789 CAAAGAAAAAA
1 AAAAGAAAAAA
14337800 A
1 A
14337801 GATACCATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.86, C:0.03, G:0.09, T:0.03
Consensus pattern (11 bp):
AAAAGAAAAAA
Found at i:14337942 original size:109 final size:107
Alignment explanation
Indices: 14337794--14337997 Score: 381
Period size: 109 Copynumber: 1.9 Consensus size: 107
14337784 ATAAACAAAG
14337794 AAAAAAAGATACCATAGACTACCATATGAATATTCAAATTAAGTTTAAAATATTAATATATTAAA
1 AAAAAAAGATACCATAGACTACCATATGAATATTCAAATTAAGTTTAAAATATTAATATATTAAA
14337859 ATAAGCTATAAAATAATAACTTAATTAATAAAAAAAGAAAAA
66 ATAAGCTATAAAATAATAACTTAATTAATAAAAAAAGAAAAA
*
14337901 AAAAAAGAGATACCATCAGACTATCATATGAATATTCAAATTAAGTTTAAAATATTAATATATTA
1 AAAAAA-AGATACCAT-AGACTACCATATGAATATTCAAATTAAGTTTAAAATATTAATATATTA
14337966 AAATAAGCTATAAAATAATAACTTAATTAATA
64 AAATAAGCTATAAAATAATAACTTAATTAATA
14337998 TTATACGTAC
Statistics
Matches: 94, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
107 6 0.06
108 9 0.10
109 79 0.84
ACGTcount: A:0.56, C:0.08, G:0.06, T:0.30
Consensus pattern (107 bp):
AAAAAAAGATACCATAGACTACCATATGAATATTCAAATTAAGTTTAAAATATTAATATATTAAA
ATAAGCTATAAAATAATAACTTAATTAATAAAAAAAGAAAAA
Found at i:14338444 original size:10 final size:9
Alignment explanation
Indices: 14338429--14338501 Score: 67
Period size: 10 Copynumber: 7.6 Consensus size: 9
14338419 TTATCATTAA
14338429 AAAAAATCAT
1 AAAAAAT-AT
14338439 AAAAAATTAT
1 AAAAAA-TAT
14338449 AAAAAA-AT
1 AAAAAATAT
* *
14338457 CACAAAATTTT
1 -A-AAAAATAT
14338468 AAAAAATATT
1 AAAAAATA-T
14338478 AAAAAATAT
1 AAAAAATAT
14338487 AAAAAATTAT
1 AAAAAA-TAT
14338497 AAAAA
1 AAAAA
14338502 TTTTAATAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
8 2 0.04
9 13 0.25
10 36 0.68
11 2 0.04
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (9 bp):
AAAAAATAT
Found at i:14338452 original size:9 final size:9
Alignment explanation
Indices: 14338430--14338518 Score: 54
Period size: 9 Copynumber: 9.4 Consensus size: 9
14338420 TATCATTAAA
*
14338430 AAAAATCAT
1 AAAAATTAT
14338439 AAAAAATTAT
1 -AAAAATTAT
*
14338449 AAAAA-AAT
1 AAAAATTAT
*
14338457 CACAAAATTTT
1 -A-AAAATTAT
*
14338468 AAAAAATATT
1 AAAAATTA-T
*
14338478 AAAAAATAT
1 AAAAATTAT
14338487 AAAAAATTAT
1 -AAAAATTAT
*
14338497 AAAAATTTT
1 AAAAATTAT
* *
14338506 AATAATTTT
1 AAAAATTAT
14338515 AAAA
1 AAAA
14338519 TAGTTTTAAT
Statistics
Matches: 64, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
8 2 0.03
9 31 0.48
10 30 0.47
11 1 0.02
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:14338452 original size:20 final size:19
Alignment explanation
Indices: 14338424--14338501 Score: 79
Period size: 19 Copynumber: 4.0 Consensus size: 19
14338414 TCACATTATC
*
14338424 ATTAAAAAAAATCATAAAAA
1 ATTATAAAAAAT-ATAAAAA
*
14338444 ATTATAAAAAA-ATCACAAA
1 ATTATAAAAAATAT-AAAAA
*
14338463 ATTTTAAAAAATATTAAAAA
1 ATTATAAAAAATA-TAAAAA
14338483 A-TATAAAAAATTATAAAAA
1 ATTATAAAAAA-TATAAAAA
14338502 TTTTAATAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
18 2 0.04
19 28 0.57
20 18 0.37
21 1 0.02
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.26
Consensus pattern (19 bp):
ATTATAAAAAATATAAAAA
Found at i:14338464 original size:29 final size:29
Alignment explanation
Indices: 14338429--14338501 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
14338419 TTATCATTAA
*
14338429 AAAAAATCATAAAAAAT-TATAAAAAA-AT
1 AAAAAATTATAAAAAATAT-TAAAAAATAT
* *
14338457 CACAAAATTTTAAAAAATATTAAAAAATAT
1 -AAAAAATTATAAAAAATATTAAAAAATAT
14338487 AAAAAATTATAAAAA
1 AAAAAATTATAAAAA
14338502 TTTTAATAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 34 0.92
30 3 0.08
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (29 bp):
AAAAAATTATAAAAAATATTAAAAAATAT
Found at i:14338546 original size:10 final size:10
Alignment explanation
Indices: 14338438--14338589 Score: 109
Period size: 10 Copynumber: 15.5 Consensus size: 10
14338428 AAAAAAATCA
*
14338438 TAAAAAATTA
1 TAAAAAATTT
*
14338448 TAAAAAA-AT
1 TAAAAAATTT
* *
14338457 CACAAAATTT
1 TAAAAAATTT
*
14338467 TAAAAAATAT
1 TAAAAAATTT
*
14338477 TAAAAAA-TA
1 TAAAAAATTT
*
14338486 TAAAAAATTA
1 TAAAAAATTT
14338496 T-AAAAATTT
1 TAAAAAATTT
*
14338505 T-AATAATTT
1 TAAAAAATTT
*
14338514 TAAAATAGTTT
1 TAAAA-AATTT
***
14338525 T-AATTTTTT
1 TAAAAAATTT
14338534 TAAAAAATTT
1 TAAAAAATTT
14338544 TAAAATAATTTT
1 TAAAA-AA-TTT
14338556 TAAAAAATTT
1 TAAAAAATTT
*
14338566 TATAAAATTT
1 TAAAAAATTT
*
14338576 TTAAAAA-TT
1 TAAAAAATTT
14338585 TAAAA
1 TAAAA
14338590 CAATCAAAAC
Statistics
Matches: 111, Mismatches: 24, Indels: 15
0.74 0.16 0.10
Matches are distributed among these distances:
9 38 0.34
10 56 0.50
11 9 0.08
12 8 0.07
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (10 bp):
TAAAAAATTT
Found at i:14338734 original size:11 final size:11
Alignment explanation
Indices: 14338718--14338748 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
14338708 GAATTCTTAA
*
14338718 AATTTTACAAT
1 AATTTTAAAAT
14338729 AATTTTAAAAT
1 AATTTTAAAAT
14338740 AATTTTAAA
1 AATTTTAAA
14338749 TTTTTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (11 bp):
AATTTTAAAAT
Found at i:14338846 original size:40 final size:40
Alignment explanation
Indices: 14338792--14338898 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 40
14338782 AACAAATCTA
*
14338792 TAAAATTTTTAAAAATTCTAAAAGATATTCTAAAA-GTTTT
1 TAAAATTTTAAAAAATTCTAAAAGA-ATTCTAAAACGTTTT
* * * *
14338832 TAAAACTTTAAAAAACTT-TTAAAGAATTGTAAAACTTTTT
1 TAAAATTTTAAAAAA-TTCTAAAAGAATTCTAAAACGTTTT
* *
14338872 TGAATTTTTAAAAAATTCTAAAAGAAT
1 TAAAATTTTAAAAAATTCTAAAAGAAT
14338899 AAAGGAAACT
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
39 10 0.18
40 43 0.78
41 2 0.04
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.40
Consensus pattern (40 bp):
TAAAATTTTAAAAAATTCTAAAAGAATTCTAAAACGTTTT
Found at i:14338947 original size:21 final size:21
Alignment explanation
Indices: 14338921--14338964 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
14338911 AAATTTTTTT
14338921 AAAAATTC-AAAAATTTAGAAA
1 AAAAATTCAAAAAATTTA-AAA
14338942 AAAAATTCAAAAAATTTAAAA
1 AAAAATTCAAAAAATTTAAAA
14338963 AA
1 AA
14338965 TACAAAAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (21 bp):
AAAAATTCAAAAAATTTAAAA
Done.