Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 217 of 230
Found at i:64418829 original size:19 final size:20
Alignment explanation
Indices: 64418786--64418835 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 20
64418776 CTTTAAAATT
*
64418786 TATAAAATATTAAAAAATAC
1 TATAAAATATTAAAAAATAA
64418806 T-TAAAAT-TTAAAAACA-AA
1 TATAAAATATTAAAAA-ATAA
*
64418824 TATAAAAAATTA
1 TATAAAATATTA
64418836 CATGAAGTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
18 9 0.36
19 12 0.48
20 4 0.16
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (20 bp):
TATAAAATATTAAAAAATAA
Found at i:64418830 original size:29 final size:29
Alignment explanation
Indices: 64418771--64418833 Score: 83
Period size: 28 Copynumber: 2.1 Consensus size: 29
64418761 ACTATTTGTC
* *
64418771 AAATACTTTAAAATTTATAAAATATTAAA
1 AAATACTTTAAAATTTAAAAAAAATTAAA
64418800 AAATAC-TTAAAATTTAAAAACAAATATAAA
1 AAATACTTTAAAATTTAAAAA-AAAT-TAAA
64418830 AAAT
1 AAAT
64418834 TACATGAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 13 0.43
29 9 0.30
30 8 0.27
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (29 bp):
AAATACTTTAAAATTTAAAAAAAATTAAA
Found at i:64419464 original size:2 final size:2
Alignment explanation
Indices: 64419459--64419488 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
64419449 ATATATATAT
*
64419459 AG AG AG AG AG AG AG AG AG AG AG AG AA AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
64419489 GCTGTTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:64424716 original size:17 final size:18
Alignment explanation
Indices: 64424681--64424718 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
64424671 TAGAAAAGAA
*
64424681 AAAAAAGAAAAACGGTTC
1 AAAAAAGAAAAACGATTC
*
64424699 AAAAAAGAGAAA-GATTC
1 AAAAAAGAAAAACGATTC
64424716 AAA
1 AAA
64424719 GGTTGCTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.66, C:0.08, G:0.16, T:0.11
Consensus pattern (18 bp):
AAAAAAGAAAAACGATTC
Found at i:64425826 original size:23 final size:23
Alignment explanation
Indices: 64425795--64425838 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
64425785 ATTTTATGTA
*
64425795 TATACATACATATATATTTTCCT
1 TATACATACATACATATTTTCCT
*
64425818 TATATATACATACATATTTTC
1 TATACATACATACATATTTTC
64425839 ATATTTTATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (23 bp):
TATACATACATACATATTTTCCT
Found at i:64425894 original size:4 final size:4
Alignment explanation
Indices: 64425885--64425937 Score: 56
Period size: 4 Copynumber: 13.8 Consensus size: 4
64425875 TATTTTTATT
* * **
64425885 TTTA TTTA TTTA TTTA TATG TCCA -TT- TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
64425931 TTTA TTT
1 TTTA TTT
64425938 GTTATTGTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
3 2 0.05
4 38 0.95
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:64425937 original size:26 final size:26
Alignment explanation
Indices: 64425879--64425943 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
64425869 TATTGTTATT
*
64425879 TTTATTTTTATTTATTTATTTATATG
1 TTTATTTTTATTTATTTATTTATATA
** *
64425905 TCCATTTTTATTTATTTATTTATTTA
1 TTTATTTTTATTTATTTATTTATATA
64425931 TTTATTTGTTATT
1 TTTATTT-TTATT
64425944 GTATATACAT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 27 0.84
27 5 0.16
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.72
Consensus pattern (26 bp):
TTTATTTTTATTTATTTATTTATATA
Found at i:64426275 original size:110 final size:109
Alignment explanation
Indices: 64426067--64426370 Score: 425
Period size: 110 Copynumber: 2.8 Consensus size: 109
64426057 AAAAGAAATT
* * * *
64426067 TTTTTAAATGAGGCAATGTTTAGCGTTTGGACATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
1 TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
* ** * *
64426132 CGATTTTTCTCGTTCAACCAAATGGCTTTATATCCTTTTCAGATA
66 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCC-TTTCAAAAA
* *
64426177 TTTTAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACATACCCTAAGGTGCTGGGTGT
1 TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
64426242 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTCAAAAA
66 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTCAAAAA
* * * * *
64426286 TTTCAAAATAAGGCAATGTTTTGCGTTTGAAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGTTT
1 TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
*
64426350 CGA--TTTCTCGTTTAACCAAAT
66 CGATTTTTCTCGTTCAACCAAAT
64426371 TTCCAAATAT
Statistics
Matches: 175, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
106 17 0.10
108 24 0.14
109 43 0.25
110 91 0.52
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.35
Consensus pattern (109 bp):
TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTCAAAAA
Found at i:64430488 original size:10 final size:10
Alignment explanation
Indices: 64430475--64430514 Score: 66
Period size: 9 Copynumber: 4.2 Consensus size: 10
64430465 CCAAAAAAAG
64430475 AAAAAAATCA
1 AAAAAAATCA
64430485 AAAAAAATC-
1 AAAAAAATCA
64430494 AAAAAAAT-A
1 AAAAAAATCA
64430503 AAAAAAATCA
1 AAAAAAATCA
64430513 AA
1 AA
64430515 GTCAAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 16 0.57
10 12 0.43
ACGTcount: A:0.82, C:0.07, G:0.00, T:0.10
Consensus pattern (10 bp):
AAAAAAATCA
Found at i:64430491 original size:19 final size:18
Alignment explanation
Indices: 64430467--64430514 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
64430457 TTCAGACTCC
*
64430467 AAAAAAAGAAAAAAATCAA
1 AAAAAAACAAAAAAAT-AA
*
64430486 AAAAAATCAAAAAAATAA
1 AAAAAAACAAAAAAATAA
*
64430504 AAAAAATCAAA
1 AAAAAAACAAA
64430515 GTCAAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.83, C:0.06, G:0.02, T:0.08
Consensus pattern (18 bp):
AAAAAAACAAAAAAATAA
Found at i:64430510 original size:18 final size:19
Alignment explanation
Indices: 64430475--64430514 Score: 73
Period size: 18 Copynumber: 2.2 Consensus size: 19
64430465 CCAAAAAAAG
64430475 AAAAAAATCAAAAAAAATC
1 AAAAAAATCAAAAAAAATC
64430494 AAAAAAAT-AAAAAAAATC
1 AAAAAAATCAAAAAAAATC
64430512 AAA
1 AAA
64430515 GTCAAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.82, C:0.07, G:0.00, T:0.10
Consensus pattern (19 bp):
AAAAAAATCAAAAAAAATC
Found at i:64432742 original size:46 final size:46
Alignment explanation
Indices: 64432613--64432922 Score: 471
Period size: 46 Copynumber: 6.8 Consensus size: 46
64432603 AACAGATCAA
64432613 TGAAGATAGCAGAT-TTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
1 TGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
64432658 TGAAGATAGCAGAT-TTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
1 TGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
*
64432703 TGAAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGAT
1 TGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
* * *
64432749 TGAAGATAGCGGATCTTATCTTACTGTATTTGGCAGCGGAGGAGAT
1 TGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
* * *
64432795 CGAAGATAGCAGATCTTGTCTTCTTGTATTTGGCAGTGGAGGAGAT
1 TGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
** * * *
64432841 CAAAGATAACAGATCTTTTCTTCCTGTATTTGGTAGCGGAGGAGAT
1 TGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
* * *
64432887 CGAAGATAGCAGATCTTGTTTTTCTGTATTTGGCAG
1 TGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAG
64432923 TAGAAGAGGT
Statistics
Matches: 243, Mismatches: 21, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
45 59 0.24
46 184 0.76
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.32
Consensus pattern (46 bp):
TGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
Found at i:64433113 original size:44 final size:44
Alignment explanation
Indices: 64433037--64433768 Score: 226
Period size: 44 Copynumber: 16.6 Consensus size: 44
64433027 CCATTAGTCC
* * * *
64433037 ATCACCCTAAGCAGTAGTAGG-GTAGGTTGAAGATTGCAGATTCT
1 ATCACCCTAAGTAGTAGT-GGAGCAGATCGAAGATTGCAGATTCT
* * ** *
64433081 GTCACCCTAAGTAATAGTGGAGCAGATCGAAGA-TGGTGAATCTT
1 ATCACCCTAAGTAGTAGTGGAGCAGATCGAAGATTGCAGATTC-T
* ** *
64433125 ATCTTCCC-AA-TA-TAGTGGAGAAGCAGATTTAAGCCATT--AG-TCCT
1 ATC-ACCCTAAGTAGTAGT-G-G-AGCAGATCGAAG--ATTGCAGATTCT
* * *
64433169 ATCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCT
1 ATCACCCTAAGTAGTAGTGGAGCAGATCGAAGATTGCAGATTCT
* ** *
64433213 GTCACCCTAAGTAGTAGTGGAGCAGATCGAAGA-TGGTGAATCTT
1 ATCACCCTAAGTAGTAGTGGAGCAGATCGAAGATTGCAGATTC-T
* * ** *
64433257 ATCTTCCC-AA-TA-CAGTGGAGAAGCAGATTTAAGCCATT--AG-TCCT
1 ATC-ACCCTAAGTAGTAGT-G-G-AGCAGATCGAAG--ATTGCAGATTCT
* * * *
64433301 ATCACCCTAAGCAGTAGTGGAGTAGGTCGGAGATTGCAGATTCT
1 ATCACCCTAAGTAGTAGTGGAGCAGATCGAAGATTGCAGATTCT
* ** *
64433345 GTCACCCTAAGTAGTAGTGGAGCAGATCGAAGA-TGGTGAATCTT
1 ATCACCCTAAGTAGTAGTGGAGCAGATCGAAGATTGCAGATTC-T
* * ** *
64433389 ATC-CTCCCAA-TA-CAGTGGAGAAGCAGATTTAAGCCATT--AG-TCCT
1 ATCAC-CCTAAGTAGTAGT-G-G-AGCAGATCGAAG--ATTGCAGATTCT
* * *
64433433 ATCACCCTATGCAGTAGTGGAGTAGGAT-GAAGATTGCAGATTCT
1 ATCACCCTAAGTAGTAGTGGAGCA-GATCGAAGATTGCAGATTCT
* ** *
64433477 GTCACCCTAAGTAGTAGTGGAGCAGATCGAAGA-TGGTGAATCTT
1 ATCACCCTAAGTAGTAGTGGAGCAGATCGAAGATTGCAGATTC-T
* * * ** *
64433521 ATCTTCCC-AA-TA-CAGTGGAGAAGCATATTTAAGTCATT--AG-TCCT
1 ATC-ACCCTAAGTAGTAGT-G-G-AGCAGATCGAAG--ATTGCAGATTCT
* * *
64433565 ATCACCCTATGCAGTAGTGGAGTAGGAT-GAAGATTGCAGATTCT
1 ATCACCCTAAGTAGTAGTGGAGCA-GATCGAAGATTGCAGATTCT
* ** *
64433609 GTCACCCTAAGTAGTAGTGGAGCAGATCGAAGA-TGGTGAATCAT
1 ATCACCCTAAGTAGTAGTGGAGCAGATCGAAGATTGCAGATTC-T
* * ** *
64433653 ATCTTCCC-AA-TA-CAGTGGAGAAGCAGATTTAAGCCATT--AG-TCCT
1 ATC-ACCCTAAGTAGTAGT-G-G-AGCAGATCGAAG--ATTGCAGATTCT
* * * *
64433697 ATCACCCTAAATAGTAGTGGAGTAGGTTGAAGATTGCAGATTCT
1 ATCACCCTAAGTAGTAGTGGAGCAGATCGAAGATTGCAGATTCT
* * *
64433741 GTCCCCCTAAGCAGTAGTGGAGCAGATC
1 ATCACCCTAAGTAGTAGTGGAGCAGATC
64433769 AACAATAACG
Statistics
Matches: 491, Mismatches: 122, Indels: 150
0.64 0.16 0.20
Matches are distributed among these distances:
41 15 0.03
42 16 0.03
43 112 0.23
44 239 0.49
45 78 0.16
46 21 0.04
47 5 0.01
48 5 0.01
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.26
Consensus pattern (44 bp):
ATCACCCTAAGTAGTAGTGGAGCAGATCGAAGATTGCAGATTCT
Found at i:64433782 original size:132 final size:132
Alignment explanation
Indices: 64432935--64433768 Score: 1492
Period size: 132 Copynumber: 6.3 Consensus size: 132
64432925 GAAGAGGTCA
64432935 AAGATTGCAGATTCTGTCACCCTAAGTAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTC
1 AAGATTGCAGATTCTGTCACCCTAAGTAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTC
64433000 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC-ATCACCCTAAGCAGTAGTAGG-GTAGG
66 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGT-GGAGTAGG
64433063 TTG
130 TTG
*
64433066 AAGATTGCAGATTCTGTCACCCTAAGTAATAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTC
1 AAGATTGCAGATTCTGTCACCCTAAGTAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTC
*
64433131 CCAATATAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
66 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
*
64433196 CG
131 TG
64433198 AAGATTGCAGATTCTGTCACCCTAAGTAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTC
1 AAGATTGCAGATTCTGTCACCCTAAGTAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTC
64433263 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
66 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
*
64433328 CG
131 TG
* *
64433330 GAGATTGCAGATTCTGTCACCCTAAGTAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCCTC
1 AAGATTGCAGATTCTGTCACCCTAAGTAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTC
* *
64433395 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTATGCAGTAGTGGAGTAGGA
66 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
64433460 TG
131 TG
64433462 AAGATTGCAGATTCTGTCACCCTAAGTAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTC
1 AAGATTGCAGATTCTGTCACCCTAAGTAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTC
* * * *
64433527 CCAATACAGTGGAGAAGCATATTTAAGTCATTAGTCCTATCACCCTATGCAGTAGTGGAGTAGGA
66 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
64433592 TG
131 TG
*
64433594 AAGATTGCAGATTCTGTCACCCTAAGTAGTAGTGGAGCAGATCGAAGATGGTGAATCATATCTTC
1 AAGATTGCAGATTCTGTCACCCTAAGTAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTC
**
64433659 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAATAGTAGTGGAGTAGGT
66 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
64433724 TG
131 TG
* *
64433726 AAGATTGCAGATTCTGTCCCCCTAAGCAGTAGTGGAGCAGATC
1 AAGATTGCAGATTCTGTCACCCTAAGTAGTAGTGGAGCAGATC
64433769 AACAATAACG
Statistics
Matches: 678, Mismatches: 23, Indels: 3
0.96 0.03 0.00
Matches are distributed among these distances:
131 102 0.15
132 576 0.85
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.26
Consensus pattern (132 bp):
AAGATTGCAGATTCTGTCACCCTAAGTAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTC
CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
TG
Found at i:64434446 original size:18 final size:18
Alignment explanation
Indices: 64434411--64434448 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
64434401 AGAAAATAAT
*
64434411 AAAAAGAAAAACGGTTCA
1 AAAAAGAAAAACGATTCA
64434429 AAAAAGAGAAAA-GATTCA
1 AAAAAGA-AAAACGATTCA
64434447 AA
1 AA
64434449 GGTTGCTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.66, C:0.08, G:0.16, T:0.11
Consensus pattern (18 bp):
AAAAAGAAAAACGATTCA
Found at i:64435556 original size:23 final size:23
Alignment explanation
Indices: 64435525--64435568 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
64435515 ATTTTATGTA
*
64435525 TATACATACATATATATTTTCCT
1 TATACATACATACATATTTTCCT
*
64435548 TATATATACATACATATTTTC
1 TATACATACATACATATTTTC
64435569 ATATTTTATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (23 bp):
TATACATACATACATATTTTCCT
Found at i:64435630 original size:4 final size:4
Alignment explanation
Indices: 64435621--64435677 Score: 64
Period size: 4 Copynumber: 14.8 Consensus size: 4
64435611 TATTTTTATT
* * **
64435621 TTTA TTTA TTTA TTTA TTTA TTTA TATG TCCA -TT- TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
64435667 TTTA TTTA TTT
1 TTTA TTTA TTT
64435678 GTTATTGTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
3 2 0.05
4 42 0.95
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:64435642 original size:34 final size:34
Alignment explanation
Indices: 64435604--64435683 Score: 108
Period size: 34 Copynumber: 2.3 Consensus size: 34
64435594 TCCTTTATTG
**
64435604 TTATTGTTATTTTTATTTTTATTTATTTATTTAT
1 TTATTGTTATTTCCATTTTTATTTATTTATTTAT
*
64435638 TTATT-TATATGTCCATTTTTATTTATTTATTTAT
1 TTATTGT-TATTTCCATTTTTATTTATTTATTTAT
64435672 TTATTTGTTATT
1 TTA-TTGTTATT
64435684 GTATATACAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
33 1 0.03
34 32 0.82
35 5 0.13
36 1 0.03
ACGTcount: A:0.21, C:0.03, G:0.04, T:0.72
Consensus pattern (34 bp):
TTATTGTTATTTCCATTTTTATTTATTTATTTAT
Found at i:64436015 original size:110 final size:109
Alignment explanation
Indices: 64435807--64436123 Score: 408
Period size: 110 Copynumber: 2.9 Consensus size: 109
64435797 AAAAGAAATT
* * * *
64435807 TTTTTAAATGAGGCAATATTTAGCGTTTGGACATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
1 TTTTAAAATAAGGCAATATTTTGCGTTT-GAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
* ** * *
64435872 CGATTTTTCTCGTTCAACCAAATGGCTTTATATCCTTTTCAGATA
65 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTCAAAAA
**
64435917 TTTTAAAATAAGGCAATATTTTGCGTTTAGAAATTCGAGAAAACAAACCCTAAGGTGCTGGGTGT
1 TTTTAAAATAAGGCAATATTTTGCGTTT-GAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
64435982 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCC-TTTCAAAAA
65 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTCAAAAA
* * * * *
64436026 TTTCAAAATAAGGCAATGTTTTGCGTTTGAAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGTTT
1 TTTTAAAATAAGGCAATATTTTGCGTTTG-AAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
* * *
64436090 CGA--TTTCTCGTTTAACCAAATTGCCAAATATCCT
65 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCT
64436124 CTTGATTTTA
Statistics
Matches: 183, Mismatches: 22, Indels: 7
0.86 0.10 0.03
Matches are distributed among these distances:
106 27 0.15
108 24 0.13
109 42 0.23
110 90 0.49
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (109 bp):
TTTTAAAATAAGGCAATATTTTGCGTTTGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTC
GATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTCAAAAA
Found at i:64437422 original size:296 final size:295
Alignment explanation
Indices: 64436762--64437935 Score: 1117
Period size: 298 Copynumber: 3.9 Consensus size: 295
64436752 ACTCAATTAA
* * * * * * * *
64436762 TATATAGAAGTAATGGAGATAATAACTTGTGCATATTAAAATGAAAATTTATAAATTAGAATAAA
1 TATATACAACTAATAGAGATAATAACTTGTGCATATTAAAATAAAAATGTATAAAATATATTAAA
* * * * *
64436827 ATGAAGCTTTGGTTGAATGGTAAAATT-AAGATTTTGCTAACTCAATTAGTGTGGGTTCAAATCC
66 ATAAAGCTTTGGTTGAATGGTAAATTTAAAG-TTTTACTAATTCAATTGGTGTGGGTTCAAATCC
* * * * *
64436891 TACTGTATGCATATTTTAATTTGTTTTTGTTAAAATAAAAAGATTAAAATAACTATTGTTAAATA
130 CACTATATGCATATTTTAATTTGTTTTTGTTAAAATAAAAAGACTAAAAT-AC----CTCAAATA
* * * * * *
64436956 GTATAACTTATTTTAATTACGAAAGTACATTTTTGTAATTTTCTAACCGAGTTGGTGGCCCAAAT
190 GTATAACTTATTTTAATTACGAAAGAACATTTTTGTAATTTCCTAACTGAGTTGGTGACTC-GAT
* * * * *
64437021 GGGGGTGACACCAACTTAATGAAACAATTAAT-AATTGTAAGG
254 GAGGGTGACACCAACTTAGTAAAACACTTAATAAATAGTAA-G
* * * * *
64437063 ATAGATATACAACTATTGGAGATAATAACTTATGTATATTAAAATAAAAATGAATAAAATATATT
1 -T--ATATACAACTAATAGAGATAATAACTTGTGCATATTAAAATAAAAATGTATAAAATATATT
* *
64437128 AAAATAAAGAC-TTGGTT-AAGTGGTAAATTTAATA-TTTTACTAATTTAATTGGGGTGGGTTCA
63 AAAATAAAG-CTTTGGTTGAA-TGGTAAATTTAA-AGTTTTACTAATTCAATTGGTGTGGGTTCA
* * *
64437190 AATCCCACTATATTCTTATTTTAATTTGTTTTTGTTAAAATGAAAAGACTAAAATGACCTCAAAT
125 AATCCCACTATATGCATATTTTAATTTGTTTTTGTTAAAATAAAAAGACTAAAAT-ACCTCAAAT
* * ** *
64437255 AGTATAAATTATTTTAATTATG-AAGGGCATTTTTGTAATTTCCTAACTGATTTGGTGACTCGAT
189 AGTATAACTTATTTTAATTACGAAAGAACATTTTTGTAATTTCCTAACTGAGTTGGTGACTCGAT
*
64437319 CGAGGGTGACACCAACATAGTAAAACACTTAATAAATAGTAAG
254 -GAGGGTGACACCAACTTAGTAAAACACTTAATAAATAGTAAG
* *
64437362 TATATACAATTAGTAGAGATAATAA-TGTGTGCATATTAAAATAAAAATGTATAAAATATATTAA
1 TATATACAACTAATAGAGATAATAACT-TGTGCATATTAAAATAAAAATGTATAAAATATATTAA
* * * * *
64437426 AATGAAA-TTTTGGTTGAGTGATAAATTTAAAGTTTT-TTAGATCCAATTGGTGTGGGTTCAAAT
65 AAT-AAAGCTTTGGTTGAATGGTAAATTTAAAGTTTTACTA-ATTCAATTGGTGTGGGTTCAAAT
** * *
64437489 ATCA-TCATATGCATATTTTAATTTATTTTTTGTTAAAATAAAAAGACTAAAATACCCTCAAACA
128 CCCACT-ATATGCATATTTTAATTT-GTTTTTGTTAAAATAAAAAGACTAAAATA-CCTCAAATA
* * *
64437553 GTATAACTTATTTTAATTACGAAATAACATTTTTATAATTTCCTAA-TCGAGTTGGTGACCTCGT
190 GTATAACTTATTTTAATTACGAAAGAACATTTTTGTAATTTCCTAACT-GAGTTGGTGA-CTCGA
* * *
64437617 TGAGGATGACACCAAGTTAGTAAAATACTTAATAAATAGTATA-
253 TGAGGGTGACACCAACTTAGTAAAACACTTAATAAATAGTA-AG
* * * *
64437660 TTTATACAACTAATTGAGATAATAACTTGTGCATATT-AAA-AAACATGATTATCAAATATATTA
1 TATATACAACTAATAGAGATAATAACTTGTGCATATTAAAATAAAAATG--TATAAAATATATTA
** * * ** **
64437723 AAACGAAGCTTTGGTTGAATGGTAAATTTAAAGTTTTATTAATTTAATTGGCATGTATTCAAATC
64 AAATAAAGCTTTGGTTGAATGGTAAATTTAAAGTTTTACTAATTCAATTGGTGTGGGTTCAAATC
** * * ** *
64437788 TTA-TCATATG--TATTTTAGTTGGTTTTTGTTAAAATAAAAA-TTTAAAATACCCTCAAATGGT
129 CCACT-ATATGCATATTTTAATTTGTTTTTGTTAAAATAAAAAGACTAAAATA-CCTCAAATAGT
* * * ** * *
64437849 ACAACTTATTTTAATTACAGAAA-AATATTCTCATAATTTCCTAACTGAGTTGGTGACCCAGTTG
192 ATAACTTATTTTAATTAC-GAAAGAACATTTTTGTAATTTCCTAACTGAGTTGGTGACTC-GATG
* * *
64437913 AAGGTGACACAAACTCAGTAAAA
255 AGGGTGACACCAACTTAGTAAAA
64437936 TTCAAAAAGA
Statistics
Matches: 732, Mismatches: 111, Indels: 66
0.81 0.12 0.07
Matches are distributed among these distances:
293 2 0.00
294 84 0.11
295 28 0.04
296 133 0.18
297 63 0.09
298 167 0.23
299 70 0.10
300 32 0.04
302 1 0.00
303 2 0.00
304 147 0.20
305 2 0.00
306 1 0.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.37
Consensus pattern (295 bp):
TATATACAACTAATAGAGATAATAACTTGTGCATATTAAAATAAAAATGTATAAAATATATTAAA
ATAAAGCTTTGGTTGAATGGTAAATTTAAAGTTTTACTAATTCAATTGGTGTGGGTTCAAATCCC
ACTATATGCATATTTTAATTTGTTTTTGTTAAAATAAAAAGACTAAAATACCTCAAATAGTATAA
CTTATTTTAATTACGAAAGAACATTTTTGTAATTTCCTAACTGAGTTGGTGACTCGATGAGGGTG
ACACCAACTTAGTAAAACACTTAATAAATAGTAAG
Found at i:64441083 original size:2 final size:2
Alignment explanation
Indices: 64441076--64441105 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
64441066 GTCTATATTG
64441076 AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
64441106 AAACTTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:64442528 original size:17 final size:18
Alignment explanation
Indices: 64442506--64442539 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
64442496 ATAATTGTAA
*
64442506 TTTAAAT-TTTAATTATT
1 TTTAAATGTGTAATTATT
64442523 TTTAAATGTGTAATTAT
1 TTTAAATGTGTAATTAT
64442540 CACAACTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (18 bp):
TTTAAATGTGTAATTATT
Found at i:64453907 original size:533 final size:533
Alignment explanation
Indices: 64453130--64454155 Score: 1568
Period size: 533 Copynumber: 1.9 Consensus size: 533
64453120 AAAAAAAGTT
* *
64453130 TATAATTTAAATACTCACGTTATATAGTTCGATTATTTTGATCACTCTTGTTAAAATCACAAATA
1 TATAATTTAAACACTCACGTTATATAATTCGATTATTTTGATCACTCTTGTTAAAATCACAAATA
* *
64453195 GCAAGTTGATGTGAGAGTTAAAAAAAATCGATATAATAACAAGTTTGACCCTCAACTTTTACATA
66 GCAAGTTGATGTGACAGTTAAAAAAAATAGATATAATAACAAGTTTGACCCTCAACTTTTACATA
* *
64453260 TTATATCAATTTAATCATAATTTTAAAAAACTAACCCTCAAACTTTACAAATATTCTCAATTTGA
131 TTATATCAATTTAATCATAATTTAAAAAAACTAACCCTCAAACTTTACAAATAATCTCAATTTGA
* * * *
64453325 TGATACTAATTCTAAAAATTTCAACGAATTAAATATATAAAAATACATAAATATTTTTCAAAAAA
196 TGATACTAATTCTAAAAAATTCAAC-AATGAAACACATAAAAATACATAAATATTTTTCAAAAAA
64453390 TATACTAATAAATTTAAAATATACATGAATAAAAATAATATTGTTGACAAAAAATATTAATATAT
260 TATACTAATAAATTTAAAATATACATGAATAAAAATAATATTGTTGACAAAAAATATTAATATAT
*
64453455 AAAAATAAATAAATATTTTCACAAAATATAAT-AATAAATTT-AAATTTTTATATT-A-A-T-AT
325 AAAAATAAA-AAATA-TAT-A-AAAATA-AATGAAT-AATTTCAAATTTTTATATTAATATTAAT
* * *
64453514 TAAATAAAATGAAAATCCCCCGCCTCATTCCTCTCCCTCTCCCCCTTAGTTTTCTCCACAAATTA
384 TAAATAAAATAAAAATCCCCCGCCTCATTCCTCTCCCTCTCCCCCTCAGTTTTCTCAACAAATTA
**
64453579 AGATTTCTACTTAGTTTCAACTATGATAGTATCATCATCTAATTGACCTGTGCAATGCATACAAA
449 AGATTTCTACCCAGTTTCAACTATGATAGTATCATCATCTAATTGACCTGTGCAATGCATACAAA
64453644 CTTTTACTTTGATTAATTTA
514 CTTTTACTTTGATTAATTTA
*
64453664 TATAATTTAAACACTCACGTTATATAATTTGATTATTTTGATCACTCTTGTTAAAATCACAAATA
1 TATAATTTAAACACTCACGTTATATAATTCGATTATTTTGATCACTCTTGTTAAAATCACAAATA
* *
64453729 GCAAGTTGATGTGACAGTTAAAAAAATTAG-TATAATAACAAGTTTGACCCTCAACTTTTCCATA
66 GCAAGTTGATGTGACAGTTAAAAAAAATAGATATAATAACAAGTTTGACCCTCAACTTTTACATA
* * * *
64453793 TTATATCAATTTAATCATAATTTAAAAAAAAACTAACCCTCAATATTTTATACATAATCTTAATT
131 TTATATCAATTTAATCATAATTT--AAAAAAACTAACCCTCAA-ACTTTACAAATAATCTCAATT
*
64453858 TGATGATACTAATTCTAGAAAAATTC-A-AA-GAAACACATAAAAATACATAAATATTTTTGAAA
193 TGATGATACTAATTCTA-AAAAATTCAACAATGAAACACATAAAAATACATAAATATTTTTCAAA
* * *
64453920 AAATATATTAATAAATTTAAAATATATATGAATAAAAATAATATTGTTGACAAGAAATATTAATA
257 AAATATACTAATAAATTTAAAATATACATGAATAAAAATAATATTGTTGACAAAAAATATTAATA
** * *
64453985 TATAAATTTTAAAAATATATAAAAATAAATGAATATTTTCAAATTTTTATATTAATATTAACATT
322 TATAAAAATAAAAAATATATAAAAATAAATGAATAATTTCAAATTTTTATATTAATATT-A-ATT
*
64454050 AAATAAAATAAAAATCTCCCGCCTCATTCCTCTCCCTCTCCCCCTCAGTTTTCTCAACAAATTAA
385 AAATAAAATAAAAATCCCCCGCCTCATTCCTCTCCCTCTCCCCCTCAGTTTTCTCAACAAATTAA
*
64454115 GATTTCTACCCAGTTTCAACTGTGATAGTATCATCATCTAA
450 GATTTCTACCCAGTTTCAACTATGATAGTATCATCATCTAA
64454156 CACGAAAGAC
Statistics
Matches: 447, Mismatches: 33, Indels: 23
0.89 0.07 0.05
Matches are distributed among these distances:
528 7 0.02
529 22 0.05
530 2 0.00
531 3 0.01
532 6 0.01
533 156 0.35
534 91 0.20
535 119 0.27
536 34 0.08
537 7 0.02
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.36
Consensus pattern (533 bp):
TATAATTTAAACACTCACGTTATATAATTCGATTATTTTGATCACTCTTGTTAAAATCACAAATA
GCAAGTTGATGTGACAGTTAAAAAAAATAGATATAATAACAAGTTTGACCCTCAACTTTTACATA
TTATATCAATTTAATCATAATTTAAAAAAACTAACCCTCAAACTTTACAAATAATCTCAATTTGA
TGATACTAATTCTAAAAAATTCAACAATGAAACACATAAAAATACATAAATATTTTTCAAAAAAT
ATACTAATAAATTTAAAATATACATGAATAAAAATAATATTGTTGACAAAAAATATTAATATATA
AAAATAAAAAATATATAAAAATAAATGAATAATTTCAAATTTTTATATTAATATTAATTAAATAA
AATAAAAATCCCCCGCCTCATTCCTCTCCCTCTCCCCCTCAGTTTTCTCAACAAATTAAGATTTC
TACCCAGTTTCAACTATGATAGTATCATCATCTAATTGACCTGTGCAATGCATACAAACTTTTAC
TTTGATTAATTTA
Found at i:64458278 original size:180 final size:181
Alignment explanation
Indices: 64457967--64458362 Score: 551
Period size: 180 Copynumber: 2.2 Consensus size: 181
64457957 GATAGATTGA
* * * * **
64457967 AGATCATAGCAAACTTTATCTCCTTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATTT
1 AGATCATAGCAAACTTTATCTCCCTGAAGTTGTAGCGAAGCAGGTTGAAGTTACAAGTCTTAACT
* * *
64458032 CCCTAAAGCTGCAGTGGAGCAAACTGAAGATAACGAATCTTATTTCCCTGAAGTTGTAGTGGAAC
66 CCCTAAAGCTGCAGTAGAGCAAACTGAAGATAACGAATCTTATTTCCCTAAAGTTGCAGTGGAAC
** * * *
64458097 AGATTAAAGCTATAAATTGCAGATTTTATCTCTCTAAAGTTGCAATAGGGT
131 AGATTAAAGCTATAAATTAAAGATCTTATCTCTCTAAAGTTGCAATAGAGC
* *
64458148 AG-TCATATCAAACTTTATCTCCCTGAAGTTGTAGCGAAGCAGGTTGAAGTTATAAGTCTTAACT
1 AGATCATAGCAAACTTTATCTCCCTGAAGTTGTAGCGAAGCAGGTTGAAGTTACAAGTCTTAACT
* * * * *
64458212 CCCTGAAGTTGTAGTAGAGCAGACTGAAGATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAAC
66 CCCTAAAGCTGCAGTAGAGCAAACTGAAGATAACGAATCTTATTTCCCTAAAGTTGCAGTGGAAC
* * *
64458277 AGATTAAAGCTATAAATTAAATATCTTATCTTTCTAAAGTTGCAGTAGAGC
131 AGATTAAAGCTATAAATTAAAGATCTTATCTCTCTAAAGTTGCAATAGAGC
* *
64458328 AGATCATAGCAAACCTTATCTCCCTTAAGTTGTAG
1 AGATCATAGCAAACTTTATCTCCCTGAAGTTGTAG
64458363 TGGAATAGTG
Statistics
Matches: 187, Mismatches: 27, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
180 156 0.83
181 31 0.17
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.31
Consensus pattern (181 bp):
AGATCATAGCAAACTTTATCTCCCTGAAGTTGTAGCGAAGCAGGTTGAAGTTACAAGTCTTAACT
CCCTAAAGCTGCAGTAGAGCAAACTGAAGATAACGAATCTTATTTCCCTAAAGTTGCAGTGGAAC
AGATTAAAGCTATAAATTAAAGATCTTATCTCTCTAAAGTTGCAATAGAGC
Found at i:64460282 original size:26 final size:25
Alignment explanation
Indices: 64460240--64460645 Score: 200
Period size: 26 Copynumber: 16.1 Consensus size: 25
64460230 AAAATTGTTA
*
64460240 TTTATTTATTTATTTATTTTAAATCT
1 TTTATATA-TTATTTATTTTAAATCT
* *
64460266 TTTCATATATTACTTATTTTAAATTGT
1 TTT-ATATATTATTTATTTTAAA-TCT
* *
64460293 TTTAT-TATTACTTATTTTAAGT-T
1 TTTATATATTATTTATTTTAAATCT
* *
64460316 TTTTTTTCATGTATTATTATTTTAAA-C-
1 TTTATAT-AT-TA-T-TTATTTTAAATCT
* * *
64460343 -TTATACATTATTCATTTTAAATTGT
1 TTTATATATTATTTATTTTAAA-TCT
* * *
64460368 TTTATATAGTATTCATTTCAAA-CT
1 TTTATATATTATTTATTTTAAATCT
*
64460392 GTTT-TAT-TGTATACTATTTTAAA-CT
1 -TTTATATAT-TAT-TTATTTTAAATCT
* *
64460417 AGTATATATATTAGTTATTTTAAAT-T
1 --TTTATATATTATTTATTTTAAATCT
*
64460443 GCTTTATATATTATTTATTTTAAACTGT
1 --TTTATATATTATTTATTTTAAA-TCT
* *
64460471 TTTATATTTTATTTATCTTAAAT-T
1 TTTATATATTATTTATTTTAAATCT
** * * *
64460495 TTT-TCATATGGTTTATTTTGAACCAA
1 TTTAT-ATATTATTTATTTTAAATC-T
* *
64460521 TTTGTATATTATTTATTTTAAATTT
1 TTTATATATTATTTATTTTAAATCT
*
64460546 TTTCATATATTA-TT-TTTTAAA-AT
1 TTT-ATATATTATTTATTTTAAATCT
*
64460569 TTT-TATATTATTTACTTTAAAT-T
1 TTTATATATTATTTATTTTAAATCT
* * *
64460592 GTTTCATTTATCATTTATTTTAAACCT
1 -TTT-ATATATTATTTATTTTAAATCT
* *
64460619 TTT-TATATTATTTACTTTAAATTT
1 TTTATATATTATTTATTTTAAATCT
64460643 TTT
1 TTT
64460646 TTACATATTA
Statistics
Matches: 293, Mismatches: 54, Indels: 68
0.71 0.13 0.16
Matches are distributed among these distances:
21 7 0.02
22 11 0.04
23 18 0.06
24 56 0.19
25 37 0.13
26 136 0.46
27 17 0.06
28 11 0.04
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.60
Consensus pattern (25 bp):
TTTATATATTATTTATTTTAAATCT
Found at i:64460533 original size:50 final size:48
Alignment explanation
Indices: 64460456--64460645 Score: 176
Period size: 50 Copynumber: 3.9 Consensus size: 48
64460446 TTATATATTA
** *
64460456 TTTATTTTAAA-CTGTTTTATATTTTATTTA-TCTTAAATTTTTTCATAT
1 TTTATTTTAAACCAATTTT-TATATTATTTACT-TTAAATTTTTTCATAT
* * *
64460504 GGTTTATTTTGAACCAATTTGTATATTATTTATTTTAAATTTTTTCATAT
1 --TTTATTTTAAACCAATTTTTATATTATTTACTTTAAATTTTTTCATAT
* * *
64460554 ATTATTTTTTAA--AATTTTTATATTATTTACTTTAAATTGTTTCATTTAT
1 TTTA-TTTTAAACCAATTTTTATATTATTTACTTTAAATTTTTTCA--TAT
64460603 CATTTATTTTAAACC--TTTTTATATTATTTACTTTAAATTTTTT
1 --TTTATTTTAAACCAATTTTTATATTATTTACTTTAAATTTTTT
64460646 TTACATATTA
Statistics
Matches: 118, Mismatches: 13, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
47 29 0.25
48 3 0.03
49 9 0.08
50 69 0.58
51 8 0.07
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.62
Consensus pattern (48 bp):
TTTATTTTAAACCAATTTTTATATTATTTACTTTAAATTTTTTCATAT
Found at i:64460562 original size:23 final size:23
Alignment explanation
Indices: 64460536--64460607 Score: 58
Period size: 24 Copynumber: 3.1 Consensus size: 23
64460526 ATATTATTTA
64460536 TTTTAAATTTTTTCATATATTATT
1 TTTTAAATTTTTTCATATATTA-T
*
64460560 TTTTAAAATTTTT-ATATTATT-T
1 TTTTAAATTTTTTCATA-TATTAT
* * * *
64460582 ACTTTAAATTGTTTCATTTATCAT
1 -TTTTAAATTTTTTCATATATTAT
64460606 TT
1 TT
64460608 ATTTTAAACC
Statistics
Matches: 37, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
22 1 0.03
23 17 0.46
24 19 0.51
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.64
Consensus pattern (23 bp):
TTTTAAATTTTTTCATATATTAT
Found at i:64460638 original size:97 final size:97
Alignment explanation
Indices: 64460423--64460659 Score: 257
Period size: 97 Copynumber: 2.4 Consensus size: 97
64460413 AACTAGTATA
* * *
64460423 TATATTAGTTATTTTAAATTGCTTTATATATTATTTATTTTAAACTGTTTTATATTTTATTTATC
1 TATATTATTTATTTTAAATT-TTTTATATATTA-TT-TTTTAAAATGTTTTATA-TTTATTTATC
* ** *
64460488 TTAAATTTTTTCATATGGTTTATTTTGAACCAATTTG
62 TTAAATTGTTTCATATCATTTATTTTAAACC-ATTTG
64460525 TATATTATTTATTTTAAATTTTTTCATATATTATTTTTTAAAAT-TTTTATA-TTATTTA-CTTT
1 TATATTATTTATTTTAAATTTTTT-ATATATTATTTTTTAAAATGTTTTATATTTATTTATC-TT
*
64460587 AAATTGTTTCATTTATCATTTATTTTAAACC-TTTT
64 AAATTGTTTCA--TATCATTTATTTTAAACCATTTG
* *
64460622 TATATTATTTACTTTAAATTTTTTTTACATATTATTTT
1 TATATTATTTATTTTAAA--TTTTTTATATATTATTTT
64460660 GTTTTGTTTT
Statistics
Matches: 119, Mismatches: 10, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
96 1 0.01
97 39 0.33
98 11 0.09
99 28 0.24
100 8 0.07
101 5 0.04
102 27 0.23
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (97 bp):
TATATTATTTATTTTAAATTTTTTATATATTATTTTTTAAAATGTTTTATATTTATTTATCTTAA
ATTGTTTCATATCATTTATTTTAAACCATTTG
Found at i:64465148 original size:26 final size:27
Alignment explanation
Indices: 64465115--64465175 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
64465105 TATAAGATTA
64465115 ATTATTTA-ATATA-AA-TATATATAATT
1 ATTATTTACATATATAATTA-ATATAA-T
64465141 ATTATTTATCATATATAATTAATATAAT
1 ATTATTTA-CATATATAATTAATATAAT
64465169 ATTATTT
1 ATTATTT
64465176 TATAACATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
26 8 0.26
28 13 0.42
29 8 0.26
30 2 0.06
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (27 bp):
ATTATTTACATATATAATTAATATAAT
Found at i:64466714 original size:54 final size:55
Alignment explanation
Indices: 64466645--64466754 Score: 195
Period size: 54 Copynumber: 2.0 Consensus size: 55
64466635 GAACAAATTG
*
64466645 ATATCTCTCTCAAAAAAATTATAAAAAAATTCAAAATATTTACAAAAATTTTAAA
1 ATATCACTCTCAAAAAAATTATAAAAAAATTCAAAATATTTACAAAAATTTTAAA
*
64466700 ATATCACTCT-AAAAAAATTATAAAAAAATTCAAAATATTTATAAAAATTTTAAA
1 ATATCACTCTCAAAAAAATTATAAAAAAATTCAAAATATTTACAAAAATTTTAAA
64466754 A
1 A
64466755 GTAAAGTAGA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
54 44 0.83
55 9 0.17
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (55 bp):
ATATCACTCTCAAAAAAATTATAAAAAAATTCAAAATATTTACAAAAATTTTAAA
Found at i:64470389 original size:17 final size:15
Alignment explanation
Indices: 64470353--64470392 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
64470343 ATTTATTTCA
64470353 TAATATAATAATAAT
1 TAATATAATAATAAT
*
64470368 TAATATAATTTATAATT
1 TAATATAA-TAATAA-T
64470385 TAATATAA
1 TAATATAA
64470393 AACCTTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 5 0.23
17 9 0.41
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TAATATAATAATAAT
Found at i:64473854 original size:26 final size:27
Alignment explanation
Indices: 64473821--64473881 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
64473811 CATCAGATTA
64473821 ATTATTTA-ATATA-AA-TATATATAATT
1 ATTATTTACATATATAATTA-ATATAA-T
64473847 ATTATTTATCATATATAATTAATATAAT
1 ATTATTTA-CATATATAATTAATATAAT
64473875 ATTATTT
1 ATTATTT
64473882 TATAACATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
26 8 0.26
28 13 0.42
29 8 0.26
30 2 0.06
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (27 bp):
ATTATTTACATATATAATTAATATAAT
Found at i:64476549 original size:2 final size:2
Alignment explanation
Indices: 64476542--64476579 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
64476532 ACAGCCTATT
64476542 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
64476580 CATATATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:64480674 original size:45 final size:43
Alignment explanation
Indices: 64480608--64480867 Score: 301
Period size: 45 Copynumber: 6.0 Consensus size: 43
64480598 TTAGAACGAA
* *
64480608 TATCCATTAATATAAATGTGGTTGCTAAGTGTTGATTCCACCGGG
1 TATCCATGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACC--G
*
64480653 TATCCATGAATATAAAGGTGGTTGCTAAATGTTGATTCCACCGG
1 TATCCATGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACC-G
*
64480697 ATATCCATGAATATAAAGGTGGTTGCTAAGTGTTGATTCGACCG
1 -TATCCATGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACCG
** * * *
64480741 TATCTTTGATTATAAAAGG-GGTTGCTATGTGCTGATTCC-CCG
1 TATCCATGAATAT-AAAGGTGGTTGCTAAGTGTTGATTCCACCG
*
64480783 TATCCTTGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACCG
1 TATCCATGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACCG
** * * * *
64480826 TATCTTTGATTATGAAAGG-GGTTGCTATGTGCTAATTCCACC
1 TATCCATGAATAT-AAAGGTGGTTGCTAAGTGTTGATTCCACC
64480868 AGATATCATT
Statistics
Matches: 190, Mismatches: 20, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
41 5 0.03
42 32 0.17
43 61 0.32
44 13 0.07
45 79 0.42
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (43 bp):
TATCCATGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACCG
Found at i:64480777 original size:43 final size:42
Alignment explanation
Indices: 64480618--64480905 Score: 231
Period size: 45 Copynumber: 6.6 Consensus size: 42
64480608 TATCCATTAA
* * ** *
64480618 TATAAATGTGGTTGCTAAGTGTTGATTCCACCGGGTATCCATGAA
1 TATAAAGGTGGTTGCTAAGTGCTGATT-CACC--GTATCTTTGAT
* * ** *
64480663 TATAAAGGTGGTTGCTAAATGTTGATTCCACCGGATATCCATGAA
1 TATAAAGGTGGTTGCTAAGTGCTGATT-CACC-G-TATCTTTGAT
*
64480708 TATAAAGGTGGTTGCTAAGTGTTGATTCGACCGTATCTTTGAT
1 TATAAAGGTGGTTGCTAAGTGCTGATTC-ACCGTATCTTTGAT
* * * *
64480751 TATAAAAGG-GGTTGCTATGTGCTGATTCCCCGTATCCTTGAA
1 TAT-AAAGGTGGTTGCTAAGTGCTGATTCACCGTATCTTTGAT
*
64480793 TATAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATCTTTGAT
1 TATAAAGGTGGTTGCTAAGTGCTGATT-CACCGTATCTTTGAT
* * * *
64480836 TATGAAAGG-GGTTGCTATGTGCTAATTCCACCAGATATCATTGTT
1 TAT-AAAGGTGGTTGCTAAGTGCTGATT-CACC-G-TATCTTTGAT
* * *
64480881 TATAAGGGTGG-TGCTATGTGATGAT
1 TATAAAGGTGGTTGCTAAGTGCTGAT
64480906 CCATCGTGTA
Statistics
Matches: 210, Mismatches: 24, Indels: 19
0.83 0.09 0.08
Matches are distributed among these distances:
41 5 0.02
42 30 0.14
43 62 0.30
44 31 0.15
45 82 0.39
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.35
Consensus pattern (42 bp):
TATAAAGGTGGTTGCTAAGTGCTGATTCACCGTATCTTTGAT
Found at i:64480809 original size:85 final size:87
Alignment explanation
Indices: 64480607--64480905 Score: 356
Period size: 85 Copynumber: 3.4 Consensus size: 87
64480597 ATTAGAACGA
* ** *
64480607 ATATCCATT-AATATAAATGTGGTTGCTAAGTGTTGATTCCACCGGGTATCCATGAATATAAAGG
1 ATATCC-TTGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACC--GTATCTTTGATTATAAAGG
** *
64480671 TGGTTGCTAAATGTTGATTCCACCGG
63 -GGTTGCTATGTGCTGATTCCACCGG
* *
64480697 ATATCCATGAATATAAAGGTGGTTGCTAAGTGTTGATTCGACCGTATCTTTGATTATAAAAGGGG
1 ATATCCTTGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATCTTTGATTAT-AAAGGGG
64480762 TTGCTATGTGCTGATTCC-CC-G
65 TTGCTATGTGCTGATTCCACCGG
64480783 -TATCCTTGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATCTTTGATTATGAAAGGGG
1 ATATCCTTGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATCTTTGATTAT-AAAGGGG
* *
64480847 TTGCTATGTGCTAATTCCACCAG
65 TTGCTATGTGCTGATTCCACCGG
* ** * * *
64480870 ATATCATTGTTTATAAGGGTGG-TGCTATGTGATGAT
1 ATATCCTTGAATATAAAGGTGGTTGCTAAGTGTTGAT
64480906 CCATCGTGTA
Statistics
Matches: 185, Mismatches: 19, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
85 78 0.42
86 3 0.02
87 15 0.08
88 45 0.24
89 6 0.03
90 38 0.21
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.35
Consensus pattern (87 bp):
ATATCCTTGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATCTTTGATTATAAAGGGGT
TGCTATGTGCTGATTCCACCGG
Found at i:64483728 original size:36 final size:36
Alignment explanation
Indices: 64483688--64483759 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
64483678 ACCCTCACTT
64483688 TTAATCGGTCCCTAAACTTCAAACTATTCTAATTAC
1 TTAATCGGTCCCTAAACTTCAAACTATTCTAATTAC
64483724 TTAATCGGTCCCTAAACTTCAAACTATTCTAATTAC
1 TTAATCGGTCCCTAAACTTCAAACTATTCTAATTAC
64483760 ATCTTTAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.25, G:0.06, T:0.36
Consensus pattern (36 bp):
TTAATCGGTCCCTAAACTTCAAACTATTCTAATTAC
Found at i:64488117 original size:22 final size:22
Alignment explanation
Indices: 64488092--64488134 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
64488082 AGCATCAATC
64488092 CTAATAAAAATTAACATCAGTA
1 CTAATAAAAATTAACATCAGTA
* *
64488114 CTAATGAAAATTAGCATCAGT
1 CTAATAAAAATTAACATCAGT
64488135 CAATTTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.14, G:0.09, T:0.28
Consensus pattern (22 bp):
CTAATAAAAATTAACATCAGTA
Found at i:64491070 original size:6 final size:6
Alignment explanation
Indices: 64491059--64491106 Score: 96
Period size: 6 Copynumber: 8.0 Consensus size: 6
64491049 AATAATTATA
64491059 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
64491107 AAACCACTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TATATT
Found at i:64491257 original size:36 final size:37
Alignment explanation
Indices: 64491217--64491295 Score: 115
Period size: 36 Copynumber: 2.1 Consensus size: 37
64491207 ATTTAATGCA
* * *
64491217 ATAAAATATTTATTATATTTAT-TTGTATTTTTTAAT
1 ATAAAAAAATTATTATATTTATATAGTATTTTTTAAT
64491253 ATAAAAAAATTATTATATTTATGATAGTATTTTTTAAT
1 ATAAAAAAATTATTATATTTAT-ATAGTATTTTTTAAT
64491291 ATAAA
1 ATAAA
64491296 TACTTTTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 20 0.53
38 18 0.47
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (37 bp):
ATAAAAAAATTATTATATTTATATAGTATTTTTTAAT
Found at i:64502289 original size:38 final size:38
Alignment explanation
Indices: 64502247--64502323 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
64502237 CACCATTTGC
*
64502247 CTTACTCTATTATGTATGTATAATATTAAAAACCATTA
1 CTTACTCCATTATGTATGTATAATATTAAAAACCATTA
64502285 CTTACTCCATTATGTATGTATAATATTAAAAACCATTA
1 CTTACTCCATTATGTATGTATAATATTAAAAACCATTA
64502323 C
1 C
64502324 AACCTCTATG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.40
Consensus pattern (38 bp):
CTTACTCCATTATGTATGTATAATATTAAAAACCATTA
Found at i:64506098 original size:30 final size:30
Alignment explanation
Indices: 64506030--64506103 Score: 102
Period size: 26 Copynumber: 2.6 Consensus size: 30
64506020 TGCGAACCCA
* *
64506030 GTGTCCAATGTAAATAAATATTATTTGAAG
1 GTGTCCAATGTAAATAAATAATATTTCAAG
64506060 GTGT----TGTAAATAAATAATATTTCAAG
1 GTGTCCAATGTAAATAAATAATATTTCAAG
64506086 GTGTCCAATGTAAATAAA
1 GTGTCCAATGTAAATAAA
64506104 AAAAACTATT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
26 24 0.63
30 14 0.37
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.35
Consensus pattern (30 bp):
GTGTCCAATGTAAATAAATAATATTTCAAG
Found at i:64506728 original size:24 final size:24
Alignment explanation
Indices: 64506693--64506738 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
64506683 TTAATGATGT
* *
64506693 TTAAATTAGATTTTATTATTATAA
1 TTAAATTAGATTATAATATTATAA
64506717 TTAAACTT-GATTATAATATTAT
1 TTAAA-TTAGATTATAATATTAT
64506739 TTTAGTATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 17 0.89
25 2 0.11
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.52
Consensus pattern (24 bp):
TTAAATTAGATTATAATATTATAA
Found at i:64513073 original size:32 final size:31
Alignment explanation
Indices: 64513032--64513093 Score: 115
Period size: 32 Copynumber: 2.0 Consensus size: 31
64513022 TATCTTTTCT
64513032 ATTATACTTTTAAGGCTAAAGGATATTATAAC
1 ATTATACTTTTAAGGCTAAAGGATA-TATAAC
64513064 ATTATACTTTTAAGGCTAAAGGATATATAA
1 ATTATACTTTTAAGGCTAAAGGATATATAA
64513094 GGAACTGTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 5 0.17
32 25 0.83
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.37
Consensus pattern (31 bp):
ATTATACTTTTAAGGCTAAAGGATATATAAC
Found at i:64514771 original size:45 final size:45
Alignment explanation
Indices: 64514707--64514797 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
64514697 TTAGAGAAGT
* *
64514707 TGGATTTCTTGATCATGTGATTTCAATAGAAGGCATACGGGTTGA
1 TGGATTTCTTAATCATGTGATTTCAACAGAAGGCATACGGGTTGA
64514752 TGGATTTCTTAATCATGTGATTTCAACAGAAGGCATACGGGTTGA
1 TGGATTTCTTAATCATGTGATTTCAACAGAAGGCATACGGGTTGA
64514797 T
1 T
64514798 CCGAGCAAGA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.35
Consensus pattern (45 bp):
TGGATTTCTTAATCATGTGATTTCAACAGAAGGCATACGGGTTGA
Found at i:64528831 original size:34 final size:34
Alignment explanation
Indices: 64528779--64528846 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
64528769 GCATTTTTGA
* *
64528779 CACTATACTGAGATGGGCTAAGGCCCAA-ACTGT
1 CACTATACTGAAAAGGGCTAAGGCCCAAGACTGT
*
64528812 CACTGATACTGAAAAGGGCTTAGGCCCAAGACTGT
1 CACT-ATACTGAAAAGGGCTAAGGCCCAAGACTGT
64528847 TCAACTGTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 4 0.13
34 21 0.70
35 5 0.17
ACGTcount: A:0.31, C:0.24, G:0.25, T:0.21
Consensus pattern (34 bp):
CACTATACTGAAAAGGGCTAAGGCCCAAGACTGT
Found at i:64532730 original size:20 final size:20
Alignment explanation
Indices: 64532705--64532743 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
64532695 GAATTTTTTG
64532705 GGTAATTTTCAGGTAATTCA
1 GGTAATTTTCAGGTAATTCA
**
64532725 GGTAATTTTTGGGTAATTC
1 GGTAATTTTCAGGTAATTC
64532744 GGTTAATTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.08, G:0.23, T:0.44
Consensus pattern (20 bp):
GGTAATTTTCAGGTAATTCA
Found at i:64532750 original size:9 final size:9
Alignment explanation
Indices: 64532716--64532777 Score: 63
Period size: 9 Copynumber: 6.8 Consensus size: 9
64532706 GTAATTTTCA
*
64532716 GGTAATTCA
1 GGTAATTCG
*
64532725 GGTAATTTTTG
1 GGTAA--TTCG
64532736 GGTAATTCG
1 GGTAATTCG
*
64532745 GTTAATTCG
1 GGTAATTCG
*
64532754 GTTAA-TCG
1 GGTAATTCG
64532762 GGTAATTCG
1 GGTAATTCG
64532771 GGTAATT
1 GGTAATT
64532778 TTTAACCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
8 7 0.16
9 31 0.69
11 7 0.16
ACGTcount: A:0.24, C:0.08, G:0.27, T:0.40
Consensus pattern (9 bp):
GGTAATTCG
Found at i:64532767 original size:17 final size:17
Alignment explanation
Indices: 64532735--64532776 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
64532725 GGTAATTTTT
*
64532735 GGGTAATTCGGTTAATTC
1 GGGTAA-TCGGGTAATTC
*
64532753 GGTTAATCGGGTAATTC
1 GGGTAATCGGGTAATTC
64532770 GGGTAAT
1 GGGTAAT
64532777 TTTTAACCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.24, C:0.10, G:0.31, T:0.36
Consensus pattern (17 bp):
GGGTAATCGGGTAATTC
Found at i:64534725 original size:13 final size:14
Alignment explanation
Indices: 64534691--64534728 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
64534681 TTTTCTTATG
64534691 TATATTAGTTTCGTT
1 TATATTA-TTTCGTT
64534706 TAT-TTATTT-GTT
1 TATATTATTTCGTT
64534718 TATATTATTTC
1 TATATTATTTC
64534729 TATGTCATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.29
13 9 0.43
14 3 0.14
15 3 0.14
ACGTcount: A:0.21, C:0.05, G:0.08, T:0.66
Consensus pattern (14 bp):
TATATTATTTCGTT
Found at i:64534755 original size:15 final size:15
Alignment explanation
Indices: 64534735--64534768 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
64534725 TTTCTATGTC
64534735 ATTGTTGTATTTATT
1 ATTGTTGTATTTATT
*
64534750 ATTGTTGTATTTGTT
1 ATTGTTGTATTTATT
64534765 ATTG
1 ATTG
64534769 CGACATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.65
Consensus pattern (15 bp):
ATTGTTGTATTTATT
Found at i:64544878 original size:56 final size:56
Alignment explanation
Indices: 64544773--64544896 Score: 135
Period size: 56 Copynumber: 2.2 Consensus size: 56
64544763 AAATAAATCG
* * * **
64544773 AATAGTTGAGTGACAATTTTGTAACTTTTCATAGTTGGATGACTTAAAAAATTACT
1 AATAGTTGAGTGACAATTTTGTAACTTTTAACAATTGGATGACAAAAAAAATTACT
* ** * *
64544829 AATAGTTGGGTGACTTTTTTGTAACTTTTAACAATTTGATGACAAAAAAAA-AAC-
1 AATAGTTGAGTGACAATTTTGTAACTTTTAACAATTGGATGACAAAAAAAATTACT
*
64544883 CATAGTTGAGTGAC
1 AATAGTTGAGTGAC
64544897 TACTAATGTA
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
54 12 0.21
55 2 0.04
56 42 0.75
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.36
Consensus pattern (56 bp):
AATAGTTGAGTGACAATTTTGTAACTTTTAACAATTGGATGACAAAAAAAATTACT
Found at i:64545105 original size:17 final size:17
Alignment explanation
Indices: 64545083--64545120 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
64545073 TGAATTAATA
*
64545083 CAAACCCGAAAT-AAATC
1 CAAACCCAAAATGAAA-C
64545100 CAAACCCAAAATGAAAC
1 CAAACCCAAAATGAAAC
64545117 CAAA
1 CAAA
64545121 ATTTTAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.58, C:0.29, G:0.05, T:0.08
Consensus pattern (17 bp):
CAAACCCAAAATGAAAC
Found at i:64546620 original size:21 final size:25
Alignment explanation
Indices: 64546579--64546625 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
64546569 AATGAAGTTG
64546579 ATTTAAATAAATCACTAAAAT-TTT
1 ATTTAAATAAATCACTAAAATATTT
64546603 ATTTAAA-AAA-CA-TAAAATATTT
1 ATTTAAATAAATCACTAAAATATTT
64546625 A
1 A
64546626 AAAATTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 6 0.27
22 6 0.27
23 3 0.14
24 7 0.32
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.38
Consensus pattern (25 bp):
ATTTAAATAAATCACTAAAATATTT
Found at i:64546854 original size:20 final size:20
Alignment explanation
Indices: 64546818--64546855 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
64546808 ACCCTAACTC
*
64546818 GAATCCTAAACTTAAACCTT
1 GAATCCTAAACTCAAACCTT
64546838 GAAT-CTAAACCTCAAACC
1 GAATCCTAAA-CTCAAACC
64546856 CCCAAAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.42, C:0.29, G:0.05, T:0.24
Consensus pattern (20 bp):
GAATCCTAAACTCAAACCTT
Found at i:64549184 original size:18 final size:17
Alignment explanation
Indices: 64549151--64549197 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
64549141 AATATAGCTT
*
64549151 TTTTTTAGTTTAAAAATA
1 TTTTTTA-TTTAAAAAAA
64549169 TTTTTTATTTAAAAAAA
1 TTTTTTATTTAAAAAAA
* *
64549186 TTGTCTATTTAA
1 TTTTTTATTTAA
64549198 TAATGTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 19 0.73
18 7 0.27
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.55
Consensus pattern (17 bp):
TTTTTTATTTAAAAAAA
Found at i:64550641 original size:22 final size:21
Alignment explanation
Indices: 64550614--64550662 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
64550604 CATTTGGTGA
*
64550614 AAATATGTTTGAAA-ATTTTATC
1 AAATAT-TTTCAAACATTTT-TC
64550636 AAATATTTTCAAAGCATTTTTC
1 AAATATTTTCAAA-CATTTTTC
64550658 AAATA
1 AAATA
64550663 CACTCAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 6 0.25
22 13 0.54
23 5 0.21
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.43
Consensus pattern (21 bp):
AAATATTTTCAAACATTTTTC
Found at i:64553719 original size:21 final size:23
Alignment explanation
Indices: 64553693--64553740 Score: 82
Period size: 21 Copynumber: 2.2 Consensus size: 23
64553683 AATCTGCTAC
64553693 TTTTTGTTGTTGTTTT-T-ATTG
1 TTTTTGTTGTTGTTTTGTCATTG
64553714 TTTTTGTTGTTGTTTTGTCATTG
1 TTTTTGTTGTTGTTTTGTCATTG
64553737 TTTT
1 TTTT
64553741 GGTGTCGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 16 0.64
22 1 0.04
23 8 0.32
ACGTcount: A:0.04, C:0.02, G:0.19, T:0.75
Consensus pattern (23 bp):
TTTTTGTTGTTGTTTTGTCATTG
Found at i:64556122 original size:31 final size:31
Alignment explanation
Indices: 64556084--64556143 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
64556074 AAAAGAAAGA
64556084 TCAAATTTTAACATATTAAAGGGACTAAATT
1 TCAAATTTTAACATATTAAAGGGACTAAATT
64556115 TCAAATTTTAACATATTAAAGGGACTAAA
1 TCAAATTTTAACATATTAAAGGGACTAAA
64556144 AAGTAAAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (31 bp):
TCAAATTTTAACATATTAAAGGGACTAAATT
Found at i:64558572 original size:6 final size:6
Alignment explanation
Indices: 64558561--64558587 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
64558551 GGATTATGAA
64558561 GATAAT GATAAT GATAAT GATAAT GAT
1 GATAAT GATAAT GATAAT GATAAT GAT
64558588 GTGGGCTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.33
Consensus pattern (6 bp):
GATAAT
Found at i:64560429 original size:3 final size:3
Alignment explanation
Indices: 64560403--64560625 Score: 80
Period size: 3 Copynumber: 72.7 Consensus size: 3
64560393 AAAAAAAGGA
* * * *
64560403 AAT AGT AAT AGT AAT AAT ATT AAT AAT AAAT AAT GAT AAT AAGT AGAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AA-T A-AT
* *
64560451 GAGA- AAT -AT GAA- AAT AAT AAT AAT TAT AAT AGT AAT -AT CAAT GAA-
1 -A-AT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT
* * * * *
64560496 AAT ATT AAT AAT ATT AAAT AAAT AAT AAT ATT AAC AAT AATT TAT AAT
1 AAT AAT AAT AAT AAT -AAT -AAT AAT AAT AAT AAT AAT AA-T AAT AAT
** ** * * * **
64560544 AAT GTT AAT AGG AAC AA- AAT AAC AAT AAT ACT AAT AAT AAT AAT GCT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
64560591 AGT AAT AAT AAG GAT AAT AAT AGT AAT AAA AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
64560626 AAAGGTCAAT
Statistics
Matches: 158, Mismatches: 48, Indels: 28
0.68 0.21 0.12
Matches are distributed among these distances:
2 11 0.07
3 124 0.78
4 19 0.12
5 4 0.03
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:64563992 original size:15 final size:15
Alignment explanation
Indices: 64563974--64564003 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
64563964 CGAATAATAG
64563974 TAGTAAAAATAGTAA
1 TAGTAAAAATAGTAA
*
64563989 TAGTAATAATAGTAA
1 TAGTAAAAATAGTAA
64564004 CGAAATAATA
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:0.13, T:0.30
Consensus pattern (15 bp):
TAGTAAAAATAGTAA
Found at i:64564687 original size:21 final size:21
Alignment explanation
Indices: 64564661--64564704 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
64564651 CGAACCAAGA
*
64564661 AAAAAATGAAA-AAATAAGAGC
1 AAAAAAT-AAATAAATAAAAGC
64564682 AAAAAATAAATAAATAAAAGC
1 AAAAAATAAATAAATAAAAGC
64564703 AA
1 AA
64564705 TCACCTTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.75, C:0.05, G:0.09, T:0.11
Consensus pattern (21 bp):
AAAAAATAAATAAATAAAAGC
Found at i:64565129 original size:15 final size:14
Alignment explanation
Indices: 64565109--64565142 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
64565099 GGGATACTAC
*
64565109 AATTATCTTAATATT
1 AATTATCCTAATA-T
64565124 AATTATCCTAATAT
1 AATTATCCTAATAT
64565138 AATTA
1 AATTA
64565143 AAATAGAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (14 bp):
AATTATCCTAATAT
Found at i:64567505 original size:44 final size:44
Alignment explanation
Indices: 64567455--64567545 Score: 155
Period size: 44 Copynumber: 2.1 Consensus size: 44
64567445 ACTCTATTTT
* * *
64567455 TTAGTTTTCCACTTAAACTCTTATTAGTGTAGGTTATTTTATTA
1 TTAGTTTCCCACTTAAACTCTTATTAGTCTAGGTTATTTTAATA
64567499 TTAGTTTCCCACTTAAACTCTTATTAGTCTAGGTTATTTTAATA
1 TTAGTTTCCCACTTAAACTCTTATTAGTCTAGGTTATTTTAATA
64567543 TTA
1 TTA
64567546 TTTGACCTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.26, C:0.13, G:0.10, T:0.51
Consensus pattern (44 bp):
TTAGTTTCCCACTTAAACTCTTATTAGTCTAGGTTATTTTAATA
Found at i:64567658 original size:11 final size:11
Alignment explanation
Indices: 64567642--64567686 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
64567632 TTTTAATATT
*
64567642 TTTATTCTGTG
1 TTTATTATGTG
64567653 TTTATTATGTG
1 TTTATTATGTG
** *
64567664 TGAATTTTGTG
1 TTTATTATGTG
64567675 TTTATTATGTG
1 TTTATTATGTG
64567686 T
1 T
64567687 GAATTTACAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.16, C:0.02, G:0.20, T:0.62
Consensus pattern (11 bp):
TTTATTATGTG
Found at i:64567674 original size:22 final size:22
Alignment explanation
Indices: 64567649--64567692 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
64567639 ATTTTTATTC
64567649 TGTGTTTATTATGTGTGAATTT
1 TGTGTTTATTATGTGTGAATTT
64567671 TGTGTTTATTATGTGTGAATTT
1 TGTGTTTATTATGTGTGAATTT
64567693 ACATGTGTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.23, T:0.59
Consensus pattern (22 bp):
TGTGTTTATTATGTGTGAATTT
Found at i:64568854 original size:41 final size:41
Alignment explanation
Indices: 64568797--64568953 Score: 199
Period size: 41 Copynumber: 3.8 Consensus size: 41
64568787 TTTTGTAAGT
*
64568797 TCAGGCTTTATGCCTAGCAGGCTTTATACCGGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
* **
64568838 TCAGGCTTTATGCCTAGCAGGC-TCAGTGCTAGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTA-TGCCGGTGAATTATA
* * * * *
64568879 TCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTGAAATGTA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
* *
64568920 TCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTG
64568954 TTTTATACAA
Statistics
Matches: 97, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
40 2 0.02
41 94 0.97
42 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (41 bp):
TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
Found at i:64569899 original size:138 final size:137
Alignment explanation
Indices: 64569757--64570060 Score: 393
Period size: 138 Copynumber: 2.2 Consensus size: 137
64569747 TGATGTATTG
* * *
64569757 TGTATATGCTGCCCATTTGTTATATATATATATAGTTCAA-TTTT-AGTGTAAAAATGTTGCTCA
1 TGTATATGCTGCCCATTTGTTGTATATATAT-T-G-TCAAGTTTTGA-TGTAAAAATGCTGCTAA
* * *
64569820 A-T-GT-GGTATATGCTGCCTAATTGTTGTATATCTATGCTGTTAAATTTTGGTGTAAAAGTGTT
62 ATTGGTAGGTATATGCTGCCTAATTGCTGTA-A-ATATGCTGTTAAATTTTGGTGTAAAAGTGCT
64569882 GTTAAATTTGGTA
125 GTTAAATTTGGTA
* * * * *
64569895 TGTATATGCTGCCTATTTGCTGTATATATGTTGTCAAGTTTTGATGTAAAAGTGCTGTTAAATTT
1 TGTATATGCTGCCCATTTGTTGTATATATATTGTCAAGTTTTGATGTAAAAATGCTGCTAAA-TT
*
64569960 GGTATGTATATGCTGCCTAATTGCTGTAAATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAA
65 GGTAGGTATATGCTGCCTAATTGCTGTAAATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAA
64570025 ATTTGGTA
130 ATTTGGTA
*
64570033 TGTATATGCTGTCCATTTGTTGTATATA
1 TGTATATGCTGCCCATTTGTTGTATATA
64570061 AGCTGTCCAA
Statistics
Matches: 145, Mismatches: 15, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
135 4 0.03
136 19 0.13
137 2 0.01
138 95 0.66
139 3 0.02
140 22 0.15
ACGTcount: A:0.26, C:0.09, G:0.20, T:0.45
Consensus pattern (137 bp):
TGTATATGCTGCCCATTTGTTGTATATATATTGTCAAGTTTTGATGTAAAAATGCTGCTAAATTG
GTAGGTATATGCTGCCTAATTGCTGTAAATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAA
TTTGGTA
Found at i:64569955 original size:69 final size:69
Alignment explanation
Indices: 64569825--64570103 Score: 355
Period size: 69 Copynumber: 4.0 Consensus size: 69
64569815 GCTCAATGTG
* *
64569825 GTATATGCTGCCTAATTGTTGTATATCTATGCTGTTAAATTTTGGTGTAAAAGTGTTGTTAAATT
1 GTATATGCTGCCTAATTGCTGTATA--TATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATT
64569890 TGGTAT
64 TGGTAT
* * * * *
64569896 GTATATGCTGCCTATTTGCTGTATATATGTTGTCAAGTTTTGATGTAAAAGTGCTGTTAAATTTG
1 GTATATGCTGCCTAATTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTG
64569961 GTAT
66 GTAT
*
64569965 GTATATGCTGCCTAATTGCTGTAAATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTG
1 GTATATGCTGCCTAATTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTG
64570030 GTAT
66 GTAT
* * * * * * **
64570034 GTATATGCTGTCC-ATTTGTTGTATATAAGCTGTCCAAAATTTGGTGTATAAA-TGCTATTTCAT
1 GTATATGCTG-CCTAATTGCTGTATATATGCTGT-TAAATTTTGGTGTA-AAAGTGCTGTTAAAT
64570097 TTGGTAT
63 TTGGTAT
64570104 ATATTTGTTG
Statistics
Matches: 183, Mismatches: 22, Indels: 7
0.86 0.10 0.03
Matches are distributed among these distances:
69 128 0.70
70 29 0.16
71 26 0.14
ACGTcount: A:0.26, C:0.09, G:0.21, T:0.44
Consensus pattern (69 bp):
GTATATGCTGCCTAATTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTG
GTAT
Found at i:64570081 original size:25 final size:24
Alignment explanation
Indices: 64570023--64570083 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 24
64570013 AAGTGCTGTT
* * *
64570023 AAATTTGGTATGTATATGCTGTCC
1 AAATTTGGTGTATATAAGCTGTCC
*
64570047 --ATTTGTTGTATATAAGCTGTCC
1 AAATTTGGTGTATATAAGCTGTCC
64570069 AAAATTTGGTGTATA
1 -AAATTTGGTGTATA
64570084 AATGCTATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
22 18 0.62
25 11 0.38
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.43
Consensus pattern (24 bp):
AAATTTGGTGTATATAAGCTGTCC
Found at i:64574089 original size:23 final size:23
Alignment explanation
Indices: 64574063--64574106 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
64574053 ACCCATAATG
64574063 TAATATCCC-GAAAATTACTACTT
1 TAATA-CCCTGAAAATTACTACTT
64574086 TAATACCCTGAAAATTACTAC
1 TAATACCCTGAAAATTACTAC
64574107 AGTTAGAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.32
Consensus pattern (23 bp):
TAATACCCTGAAAATTACTACTT
Found at i:64585953 original size:16 final size:15
Alignment explanation
Indices: 64585915--64585958 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 15
64585905 TACAAAAAAG
*
64585915 AAATTAAACTATGATT
1 AAATTAAA-AATGATT
64585931 AATATTAAAAATGATCT
1 AA-ATTAAAAATGAT-T
64585948 AAATTAAAAAT
1 AAATTAAAAAT
64585959 ATTTATTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 16 0.64
17 9 0.36
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.34
Consensus pattern (15 bp):
AAATTAAAAATGATT
Found at i:64587656 original size:33 final size:33
Alignment explanation
Indices: 64587616--64587737 Score: 185
Period size: 33 Copynumber: 3.8 Consensus size: 33
64587606 ATATGAATTT
64587616 TTTTATGATCTAATTGATGTCAATAATATGAAC
1 TTTTATGATCTAATTGATGTCAATAATATGAAC
64587649 TTTTATGATCTAATTGATGTCAATAATATGAAC
1 TTTTATGATCTAATTGATGTCAATAATATGAAC
* **
64587682 TTTTATGATCTAATTGATG-AAAT-ATATGAGT
1 TTTTATGATCTAATTGATGTCAATAATATGAAC
* *
64587713 TTTTATGATATAATTGATATCAATA
1 TTTTATGATCTAATTGATGTCAATA
64587738 TTAAGTGTTT
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
31 23 0.28
32 6 0.07
33 52 0.64
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (33 bp):
TTTTATGATCTAATTGATGTCAATAATATGAAC
Found at i:64587727 original size:64 final size:66
Alignment explanation
Indices: 64587616--64587737 Score: 185
Period size: 64 Copynumber: 1.9 Consensus size: 66
64587606 ATATGAATTT
* * *
64587616 TTTTATGATCTAATTGATGTCAATAATATGAACTTTTATGATCTAATTGATGTCAATAATATGAA
1 TTTTATGATCTAATTGATGTAAATAATATGAACTTTTATGATATAATTGATATCAATAATATGAA
64587681 C
66 C
**
64587682 TTTTATGATCTAATTGATG-AAAT-ATATGAGTTTTTATGATATAATTGATATCAATA
1 TTTTATGATCTAATTGATGTAAATAATATGAACTTTTATGATATAATTGATATCAATA
64587738 TTAAGTGTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
64 29 0.57
65 3 0.06
66 19 0.37
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (66 bp):
TTTTATGATCTAATTGATGTAAATAATATGAACTTTTATGATATAATTGATATCAATAATATGAA
C
Found at i:64588011 original size:205 final size:205
Alignment explanation
Indices: 64587649--64588098 Score: 744
Period size: 205 Copynumber: 2.2 Consensus size: 205
64587639 TAATATGAAC
* * * *
64587649 TTTTATGATCTAATTGATGTCAATAATATGAACTTTTATGATCTAATTGATGAAATATATGAGTT
1 TTTTATGATCTAATTGATGTCAATAATATGAATTTTTATGATCTAATTAATGAAAGATATGAGTC
64587714 TTTATGATATAATTGATATCAATATTAAGTGTTTTTTCCCCTTCCAATTCTAGGTGCATTTGTAT
66 TTTATGATATAATTGATATCAATATTAAGTGTTTTTTCCCCTTCCAATTCTAGGTGCATTTGTAT
64587779 GGATCATGCATGCTTTTTAGCTCATCCCTTGTTATATGAGTTAGTATTGAGTAGAATGAATGAAA
131 GGATCATGCATGCTTTTTAGCTCATCCCTTGTTATATGAGTTAGTATTGAGTAGAATGAATGAAA
64587844 TATATAAATT
196 TATATAAATT
* * *
64587854 TTTTAAGATCTAATTGATGTCAATAATATGATTTTTTATGATCTGATTAATGAAAGATATGAGTC
1 TTTTATGATCTAATTGATGTCAATAATATGAATTTTTATGATCTAATTAATGAAAGATATGAGTC
64587919 TTTATGATATAATTGATATCAAT-TGTAAGTGTTTTTTCCCCTTCCAATTCTAGGTGCATTTGTA
66 TTTATGATATAATTGATATCAATAT-TAAGTGTTTTTTCCCCTTCCAATTCTAGGTGCATTTGTA
* * * *
64587983 TGTATCGTGCATGCTTTTTAGTTCATCCCTTGTTATATGAGTTAGTATTTAGTAGAATGAATGAA
130 TGGATCATGCATGCTTTTTAGCTCATCCCTTGTTATATGAGTTAGTATTGAGTAGAATGAATGAA
*
64588048 ATATATGAATT
195 ATATATAAATT
* *
64588059 TTTTATGATCTAATTGATG-AAAT-ATATGAGTTTTTATGAT
1 TTTTATGATCTAATTGATGTCAATAATATGAATTTTTATGAT
64588099 ACAATTGATG
Statistics
Matches: 229, Mismatches: 15, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
203 16 0.07
204 4 0.02
205 209 0.91
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (205 bp):
TTTTATGATCTAATTGATGTCAATAATATGAATTTTTATGATCTAATTAATGAAAGATATGAGTC
TTTATGATATAATTGATATCAATATTAAGTGTTTTTTCCCCTTCCAATTCTAGGTGCATTTGTAT
GGATCATGCATGCTTTTTAGCTCATCCCTTGTTATATGAGTTAGTATTGAGTAGAATGAATGAAA
TATATAAATT
Found at i:64588096 original size:31 final size:32
Alignment explanation
Indices: 64588043--64588108 Score: 100
Period size: 31 Copynumber: 2.1 Consensus size: 32
64588033 AGTAGAATGA
*
64588043 ATGAAATATATGAATTTTTTATGAT-CTAATTG
1 ATGAAATATATGAAGTTTTTATGATAC-AATTG
64588075 ATGAAATATATG-AGTTTTTATGATACAATTG
1 ATGAAATATATGAAGTTTTTATGATACAATTG
64588106 ATG
1 ATG
64588109 TCAATTATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
31 19 0.59
32 13 0.41
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.44
Consensus pattern (32 bp):
ATGAAATATATGAAGTTTTTATGATACAATTG
Found at i:64588241 original size:171 final size:172
Alignment explanation
Indices: 64587879--64588248 Score: 507
Period size: 172 Copynumber: 2.2 Consensus size: 172
64587869 GATGTCAATA
* * *
64587879 ATAT-GATTTTTTATGATCTGATTAATGAAAGATATGAGTCTTTATGATATAATTGATATCAATT
1 ATATGGATTTTTTATGATCTAATTGATGAAAGATATGAGTCTTTATGATACAATTGATATCAATT
** * * *
64587943 GTAAGTGTTTTTTCCCCTTCCAATTCTAGGTGCATTTGTATGTATCGTGCATGCTTTTTAGTTCA
66 GTAAGACTTTTCTCCCCTTCCAATTCTAGGTGCATTTGTATGGATCGTGCATGCTTTTTAGCTCA
**
64588008 TCCCTTGTTATATGAGTTAGTATTTAGTAGAATGAATGAAAT
131 TCCCTTGTTATATGAGTTAGTACCTAGTAGAATGAATGAAAT
* * * *
64588050 ATATGAATTTTTTATGATCTAATTGATGAAATATATGAGTTTTTATGATACAATTGATGTCAATT
1 ATATGGATTTTTTATGATCTAATTGATGAAAGATATGAGTCTTTATGATACAATTGATATCAATT
* * *
64588115 ATTTAGACTTTTCT-CCCTTCCCATTCTAGGTGCATTTGTGA-GGAT-GATGCATGC-TTTTAGC
66 -GTAAGACTTTTCTCCCCTTCCAATTCTAGGTGCATTTGT-ATGGATCG-TGCATGCTTTTTAGC
*
64588176 TCATCCCTTGTTATATGAGTTAGTACCTAGTAGAATTAATGAAAT
128 TCATCCCTTGTTATATGAGTTAGTACCTAGTAGAATGAATGAAAT
*
64588221 ATATGGATTTTTTATGATCTAAGTGATG
1 ATATGGATTTTTTATGATCTAATTGATG
64588249 TCAATTATAT
Statistics
Matches: 175, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
171 79 0.45
172 87 0.50
173 9 0.05
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.44
Consensus pattern (172 bp):
ATATGGATTTTTTATGATCTAATTGATGAAAGATATGAGTCTTTATGATACAATTGATATCAATT
GTAAGACTTTTCTCCCCTTCCAATTCTAGGTGCATTTGTATGGATCGTGCATGCTTTTTAGCTCA
TCCCTTGTTATATGAGTTAGTACCTAGTAGAATGAATGAAAT
Found at i:64594028 original size:153 final size:154
Alignment explanation
Indices: 64593711--64594000 Score: 361
Period size: 153 Copynumber: 1.9 Consensus size: 154
64593701 GTGGAATATG
* * *
64593711 TGCTATTGAAATCCTTTGTGTATATATATCAACCTATGACCATTGTTAAAGTAGTGTGATAGGAG
1 TGCTGTTGAAATCCTTTGTGTATATATATCAACCTATGACCATCGTTAAAGTAGTATGATAGGAG
* ** * * * *
64593776 GGTACTTTTTGCAATTCCTCAGGGACGTATGCCTCTGCCCCTTGGAAGTTTTCAGTGGTTTATGG
66 GGTACTTTTTGCAATTCCTCAGGGACATACACATCGGCCCCTTAGAAGTTTTCAGTGATTTATGG
* *
64593841 ATGAACTAGTTGGATGTCAGTGGAA
131 ATGAACTAGTTGGATGACACT-GAA
* * * *
64593866 TGCTGTTGAAATCC-TT-TGTATATTTATCGACCTATGACCATCGTTAGAGTAGTATTATAGGAG
1 TGCTGTTGAAATCCTTTGTGTATATATATCAACCTATGACCATCGTTAAAGTAGTATGATAGGAG
* * * *
64593929 GGTA-TTTTTGGCAATTCGTCAGGGACATACACATCGGGCCCTTAGAGGTTTTTAGTGATTTATG
66 GGTACTTTTT-GCAATTCCTCAGGGACATACACATCGGCCCCTTAGAAGTTTTCAGTGATTTATG
64593993 GATGAACT
130 GATGAACT
64594001 GGTTCCTGAT
Statistics
Matches: 116, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
152 5 0.04
153 96 0.83
154 2 0.02
155 13 0.11
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (154 bp):
TGCTGTTGAAATCCTTTGTGTATATATATCAACCTATGACCATCGTTAAAGTAGTATGATAGGAG
GGTACTTTTTGCAATTCCTCAGGGACATACACATCGGCCCCTTAGAAGTTTTCAGTGATTTATGG
ATGAACTAGTTGGATGACACTGAA
Found at i:64601322 original size:15 final size:14
Alignment explanation
Indices: 64601289--64601327 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
64601279 ATTTGATTGA
64601289 AAAATGACTTCTAG
1 AAAATGACTTCTAG
*
64601303 AAAATGATTTCTAG
1 AAAATGACTTCTAG
64601317 ACAAATGACTT
1 A-AAATGACTT
64601328 ACTTTTCTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 14 0.64
15 8 0.36
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.31
Consensus pattern (14 bp):
AAAATGACTTCTAG
Found at i:64603403 original size:71 final size:71
Alignment explanation
Indices: 64603283--64603418 Score: 202
Period size: 71 Copynumber: 1.9 Consensus size: 71
64603273 TTGAATTTGA
* *
64603283 GGTTTAACTTAGTTGATCCTTGTGAGTGGGAATTTTGAAACTTAATGGACCAAAAAAGTAAATAA
1 GGTTTAACTCAGTTGATCCTTGTGAGTAGGAATTTTGAAACTTAATGGACCAAAAAAGTAAATAA
64603348 AACTTG
66 AACTTG
* * * *
64603354 GGTTTAACTCGGTTGATTCTTGTGAGTAGG-ATTGTTGAAACTTAGTGGACCAGAAAAGTAAATA
1 GGTTTAACTCAGTTGATCCTTGTGAGTAGGAATT-TTGAAACTTAATGGACCAAAAAAGTAAATA
64603418 A
65 A
64603419 TTCGAGTCTT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
70 3 0.05
71 55 0.95
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.32
Consensus pattern (71 bp):
GGTTTAACTCAGTTGATCCTTGTGAGTAGGAATTTTGAAACTTAATGGACCAAAAAAGTAAATAA
AACTTG
Found at i:64603799 original size:109 final size:109
Alignment explanation
Indices: 64603687--64604062 Score: 383
Period size: 109 Copynumber: 3.5 Consensus size: 109
64603677 TAGAGTTACT
*
64603687 CCATTTGATTTATTAATATGATTATTTGAACACACTCGTATTTCAATTTACGTTAATGCCTTATT
1 CCATTTGATTTATTAATATGATCATTTGAACACACTCGTATTTCAATTTACGTTAATGCCTTATT
* * * * * *
64603752 TGGGAAAGCAACAATGTATTGTAGCAATTGTGTGTAGGTTTAGT
66 TGGGAAGGAAACAAAGTATTGTGGCAATTGTGTCTAGGTTTAGC
* * **
64603796 CCATTTGATTTACTAATATGATCATTTGAACACACTAGTATTTCAATTTATATTAATGCCTTATT
1 CCATTTGATTTATTAATATGATCATTTGAACACACTCGTATTTCAATTTACGTTAATGCCTTATT
* * * *
64603861 TGAGAGGGAAACAAAGTATTGTGGCAATTGTGTCTAGGCTTGGC
66 TGGGAAGGAAACAAAGTATTGTGGCAATTGTGTCTAGGTTTAGC
* * * * * *
64603905 CCATTT-AGTTAATTAATATGATTATTT-AACAC-C-C-TTTTTCAATTTATGCTAATACC---T
1 CCATTTGA-TTTATTAATATGATCATTTGAACACACTCGTATTTCAATTTACGTTAATGCCTTAT
* *** * *
64603962 TT-GGAAGGGGAACAAAGTACCATGGTAGTTGTGTCTAGGTTTAGC
65 TTGGGAA-GGAAACAAAGTATTGTGGCAATTGTGTCTAGGTTTAGC
* * ** *
64604007 CCATTTGGTTTATTATTATGATCATTTGAACATGCTCGTATTTTAATTTACGTTAA
1 CCATTTGATTTATTAATATGATCATTTGAACACACTCGTATTTCAATTTACGTTAA
64604063 CGTTAAGTCA
Statistics
Matches: 218, Mismatches: 42, Indels: 17
0.79 0.15 0.06
Matches are distributed among these distances:
101 2 0.01
102 55 0.25
103 4 0.02
104 1 0.00
105 19 0.09
106 14 0.06
107 1 0.00
108 6 0.03
109 116 0.53
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.40
Consensus pattern (109 bp):
CCATTTGATTTATTAATATGATCATTTGAACACACTCGTATTTCAATTTACGTTAATGCCTTATT
TGGGAAGGAAACAAAGTATTGTGGCAATTGTGTCTAGGTTTAGC
Found at i:64605060 original size:9 final size:10
Alignment explanation
Indices: 64605034--64605067 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
64605024 TAAGGGTGTA
64605034 TTTAAAATTT
1 TTTAAAATTT
64605044 TTTAAAATTT
1 TTTAAAATTT
*
64605054 TTTAAATTTT
1 TTTAAAATTT
64605064 TTTA
1 TTTA
64605068 TATATTTGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTAAAATTT
Found at i:64611712 original size:15 final size:15
Alignment explanation
Indices: 64611692--64611721 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
64611682 TAGCAAAAAA
64611692 TAAAAATTTAAATAT
1 TAAAAATTTAAATAT
64611707 TAAAAATTTAAATAT
1 TAAAAATTTAAATAT
64611722 AGAATTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TAAAAATTTAAATAT
Found at i:64612872 original size:6 final size:6
Alignment explanation
Indices: 64612861--64612892 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
64612851 TATAATAATG
*
64612861 AGGAGA AGGAGA AGGAGA AGGAGA AGTAGA AG
1 AGGAGA AGGAGA AGGAGA AGGAGA AGGAGA AG
64612893 AAGCAATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.50, C:0.00, G:0.47, T:0.03
Consensus pattern (6 bp):
AGGAGA
Found at i:64621014 original size:80 final size:82
Alignment explanation
Indices: 64620864--64621020 Score: 246
Period size: 80 Copynumber: 1.9 Consensus size: 82
64620854 TAGGAAGGGC
* * * *
64620864 TATGTTTATGAGTTACATCTCTAATGATCTACTCAAAAAAAAACTTTGCTATTTTTTAAAAAGAT
1 TATGTTTATAAGTTACATCTCTAATGATCTACTCAAAAAAAAACTTGGCTATTGTATAAAAAGAT
64620929 ATTTAGAATTCAAAAGT
66 ATTTAGAATTCAAAAGT
* *
64620946 TATGTTTATAAGTTGCATCTCTAATGATCTA-T-TAAAAAAAACTTGGCTATTGTATAAAAAGAT
1 TATGTTTATAAGTTACATCTCTAATGATCTACTCAAAAAAAAACTTGGCTATTGTATAAAAAGAT
64621009 ATTTAGAATTCA
66 ATTTAGAATTCA
64621021 GTAAATGAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
80 39 0.57
81 1 0.01
82 29 0.42
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.39
Consensus pattern (82 bp):
TATGTTTATAAGTTACATCTCTAATGATCTACTCAAAAAAAAACTTGGCTATTGTATAAAAAGAT
ATTTAGAATTCAAAAGT
Found at i:64625657 original size:19 final size:21
Alignment explanation
Indices: 64625633--64625672 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
64625623 AGCATAAATT
64625633 ATATAATATA-TAT-AACATA
1 ATATAATATATTATAAACATA
64625652 ATATAATATATTATAAACATA
1 ATATAATATATTATAAACATA
64625673 GAAAATGGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.53
20 3 0.16
21 6 0.32
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (21 bp):
ATATAATATATTATAAACATA
Found at i:64627501 original size:18 final size:18
Alignment explanation
Indices: 64627460--64627503 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 18
64627450 CTTTTAAGTT
64627460 TGTAATATTTTATATTATA
1 TGTAAT-TTTTATATTATA
64627479 T-TAATTTTTATA-TATTA
1 TGTAATTTTTATATTA-TA
64627496 TGTAATTT
1 TGTAATTT
64627504 ATAACACATA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 2 0.09
17 10 0.43
18 10 0.43
19 1 0.04
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (18 bp):
TGTAATTTTTATATTATA
Found at i:64633053 original size:31 final size:31
Alignment explanation
Indices: 64633015--64633073 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
64633005 GATAGCCTAG
64633015 TGACTTAAATAAAAACTTTCAAATAGTTCAA
1 TGACTTAAATAAAAACTTTCAAATAGTTCAA
* **
64633046 TGACTTAAATGAAAACTTTTGAATAGTT
1 TGACTTAAATAAAAACTTTCAAATAGTT
64633074 TATTGACCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTCAAATAGTTCAA
Found at i:64643335 original size:15 final size:16
Alignment explanation
Indices: 64643307--64643336 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
64643297 TCAAAAAATA
64643307 AATAAAATAATCATAC
1 AATAAAATAATCATAC
64643323 AATAAAA-AATCATA
1 AATAAAATAATCATA
64643337 TAAAAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (16 bp):
AATAAAATAATCATAC
Found at i:64643840 original size:18 final size:19
Alignment explanation
Indices: 64643801--64643841 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
64643791 ATTGTTTGGA
*
64643801 TATTGTATAATTCTTATTT
1 TATTGTATAATTCTTATAT
64643820 TATTGT-TAATT-TTACTAT
1 TATTGTATAATTCTTA-TAT
64643838 TATT
1 TATT
64643842 TTAGGGACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 3 0.15
18 11 0.55
19 6 0.30
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.63
Consensus pattern (19 bp):
TATTGTATAATTCTTATAT
Found at i:64646805 original size:95 final size:94
Alignment explanation
Indices: 64646634--64646826 Score: 291
Period size: 95 Copynumber: 2.0 Consensus size: 94
64646624 ACTATTTGGC
* * *
64646634 AGTTAAGTTTGGCTTCAATTTTCAATTTGGTACTTGAATATTTTTTTGCCAATTTGGTACATGAG
1 AGTTAAGTTTGGCTTCAATCTTCAATTTGGCACCTGAATATTTTTTTGCCAATTTGGTACATGAG
*
64646699 TTTGGCCACAATGTTCATTTTGGTACCTG
66 TTTGGCCACAATGTTCATTTTGGTACCTA
*
64646728 AGTTGAGTTTGGCTTCAATCTTCAATTTGGCACCT-AA-ATTCTTTTTGTCCCAATTTGGTACAT
1 AGTTAAGTTTGGCTTCAATCTTCAATTTGGCACCTGAATATT-TTTTTG--CCAATTTGGTACAT
*
64646791 GAGTTTGGCTACAATGTTCATTTTGGTACCTA
63 GAGTTTGGCCACAATGTTCATTTTGGTACCTA
64646823 AGTT
1 AGTT
64646827 TTTTTGTTTT
Statistics
Matches: 90, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
92 3 0.03
93 8 0.09
94 31 0.34
95 48 0.53
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.44
Consensus pattern (94 bp):
AGTTAAGTTTGGCTTCAATCTTCAATTTGGCACCTGAATATTTTTTTGCCAATTTGGTACATGAG
TTTGGCCACAATGTTCATTTTGGTACCTA
Found at i:64649067 original size:19 final size:19
Alignment explanation
Indices: 64649038--64649089 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
64649028 GGCCACATTT
*
64649038 CAATTGGTTTTTTTAACGG
1 CAATGGGTTTTTTTAACGG
*
64649057 TAATGGGTTTTTTTAACGG
1 CAATGGGTTTTTTTAACGG
*
64649076 CAATGAGTTTTTTT
1 CAATGGGTTTTTTT
64649090 TTTAAATGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.21, C:0.08, G:0.21, T:0.50
Consensus pattern (19 bp):
CAATGGGTTTTTTTAACGG
Found at i:64651203 original size:56 final size:55
Alignment explanation
Indices: 64651110--64651217 Score: 171
Period size: 56 Copynumber: 1.9 Consensus size: 55
64651100 AGTAGTTACG
* *
64651110 TTAGAAATCAAATTGATAAATATAATGCCCCATAATAATATCCTATAATATCCCA
1 TTAGAAATCAAATTGATAAAGATAATACCCCATAATAATATCCTATAATATCCCA
* *
64651165 TTAGAAATCAAATTGTTAAGAGATAATATCCCATAATAATATCCTATAATATC
1 TTAGAAATCAAATTGATAA-AGATAATACCCCATAATAATATCCTATAATATC
64651218 TGTTAAAGTT
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
55 18 0.38
56 30 0.62
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.32
Consensus pattern (55 bp):
TTAGAAATCAAATTGATAAAGATAATACCCCATAATAATATCCTATAATATCCCA
Found at i:64651974 original size:37 final size:37
Alignment explanation
Indices: 64651911--64652005 Score: 140
Period size: 37 Copynumber: 2.6 Consensus size: 37
64651901 TATGATCACT
64651911 TATCAC-TTGTCAC-TGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCACTTGATCAGATAAGTGTAGCCACC
* ** *
64651946 TATTACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCACTTGATCAGATAAGTGTAGCCACC
64651983 TATCACTTTGTCACTTGATCAGA
1 TATCACTTTGTCACTTGATCAGA
64652006 AGTACTCAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
35 5 0.10
36 5 0.10
37 41 0.80
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (37 bp):
TATCACTTTGTCACTTGATCAGATAAGTGTAGCCACC
Found at i:64664162 original size:4 final size:4
Alignment explanation
Indices: 64664155--64664197 Score: 77
Period size: 4 Copynumber: 10.8 Consensus size: 4
64664145 ATGCATGCAT
*
64664155 TATG TATG TATG AATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
64664198 ACAGACCATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.49
Consensus pattern (4 bp):
TATG
Found at i:64664679 original size:217 final size:217
Alignment explanation
Indices: 64664156--64664791 Score: 966
Period size: 212 Copynumber: 3.0 Consensus size: 217
64664146 TGCATGCATT
* * * * *
64664156 ATGTATGTATGA-ATGTATGTATGTATGTATGTATGTATGTATACAGACCATATTTACCAT-TAA
1 ATGTATGTAT-ATATATATGTAGGTATGCATGTATGTATGTATACACACCATATTTTCCATCT-A
* * *
64664219 CAATAACACCTAACAATGAGAGTACCATATGGGAGAAAAAACATGCATAGGTTGGTCACCATTTG
64 CAAGAACACCTAACAATGAGAGTACCATATGGGAGAAGAAACATGTATAGGTTGGTCACCATTTG
*
64664284 AATCAATGCCTG-TAAGAAATCAAAGGCATATGCTATCAACTGCAGGCCTA-TTAGCCATGACTT
129 AAACAATGCC-GATAAGAAATCAAAGGCATATGCTATCAACTGCAGGCCTATTTAGCCATGACTT
64664347 TTCTCCTAACATATTTACCACCAAC
193 TTCTCCTAACATATTTACCACCAAC
* * *
64664372 A-G---GTATATATACATGTAGGTATGCATGTATGTGTGTATACACACCATATTTTCCATCAACA
1 ATGTATGTATATATATATGTAGGTATGCATGTATGTATGTATACACACCATATTTTCCATCTACA
64664433 AGAACACCTAACAATGAGAGTACCATATGGGAGAAGAAACATGTATAGGTTGGTCACCATTTGAA
66 AGAACACCTAACAATGAGAGTACCATATGGGAGAAGAAACATGTATAGGTTGGTCACCATTTGAA
64664498 ACAATGCCGATAAGAAATCAAAGGCATATGCTATCAACTGCAGGCCTATTTAGCCATGACTTTTC
131 ACAATGCCGATAAGAAATCAAAGGCATATGCTATCAACTGCAGGCCTATTTAGCCATGACTTTTC
64664563 TCCTAACATATTTACCACCAAC
196 TCCTAACATATTTACCACCAAC
64664585 ATGTATGTATATATATATGTAGGTATGCATGTATGTATGTATACACACCATATTTTCCATCTACA
1 ATGTATGTATATATATATGTAGGTATGCATGTATGTATGTATACACACCATATTTTCCATCTACA
* * * *
64664650 AGAACACCTAACAAGGAGAGTACCATATGGGAGAAGAAACATGTATAGGTTGGTGCACTAATTAA
66 AGAACACCTAACAATGAGAGTACCATATGGGAGAAGAAACATGTATAGGTTGGT-CACCATTTGA
* ** * *
64664715 AACAATGCCTATAAGAAATCAAAGGCAT-TAATATCAACTGCAGGCCCATTTAGCAATGACTTTT
130 AACAATGCCGATAAGAAATCAAAGGCATATGCTATCAACTGCAGGCCTATTTAGCCATGACTTTT
* *
64664779 GTCTTAACATATT
195 CTCCTAACATATT
64664792 CATCGATATA
Statistics
Matches: 385, Mismatches: 26, Indels: 17
0.90 0.06 0.04
Matches are distributed among these distances:
211 2 0.01
212 155 0.40
213 39 0.10
214 1 0.00
215 1 0.00
216 1 0.00
217 152 0.39
218 34 0.09
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (217 bp):
ATGTATGTATATATATATGTAGGTATGCATGTATGTATGTATACACACCATATTTTCCATCTACA
AGAACACCTAACAATGAGAGTACCATATGGGAGAAGAAACATGTATAGGTTGGTCACCATTTGAA
ACAATGCCGATAAGAAATCAAAGGCATATGCTATCAACTGCAGGCCTATTTAGCCATGACTTTTC
TCCTAACATATTTACCACCAAC
Found at i:64665715 original size:13 final size:12
Alignment explanation
Indices: 64665697--64665727 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
64665687 GGGAAAAGTG
64665697 AGAAAAAAAGAAA
1 AGAAAAAAAG-AA
64665710 AGAAAAAAAGAA
1 AGAAAAAAAGAA
64665722 AGAAAA
1 AGAAAA
64665728 TTGGAGCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.44
13 10 0.56
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AGAAAAAAAGAA
Found at i:64670437 original size:23 final size:23
Alignment explanation
Indices: 64670411--64670454 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
64670401 CAATTTTTTA
* *
64670411 ATTTAAATAAATTTAAATAATTT
1 ATTTAAATAAAATCAAATAATTT
*
64670434 ATTTAATTAAAATCAAATAAT
1 ATTTAAATAAAATCAAATAAT
64670455 AATTAAATTA
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:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
ATTTAAATAAAATCAAATAATTT
Found at i:64677392 original size:30 final size:30
Alignment explanation
Indices: 64677358--64677420 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
64677348 ACTTATTTTA
64677358 TTGTTAAATTTGTTATTATTTTAAAGGCAT
1 TTGTTAAATTTGTTATTATTTTAAAGGCAT
* *
64677388 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAAATTTGTTATTATTTTAAAGGCAT
64677418 TTG
1 TTG
64677421 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.16, T:0.56
Consensus pattern (30 bp):
TTGTTAAATTTGTTATTATTTTAAAGGCAT
Found at i:64678127 original size:21 final size:21
Alignment explanation
Indices: 64678101--64678150 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
64678091 TTAACCCAAG
*
64678101 AATAAAAGAAAAGGAAATAAA
1 AATAAAAGAAAAGAAAATAAA
* *
64678122 AATAAAATAAAATAAAATAAA
1 AATAAAAGAAAAGAAAATAAA
*
64678143 AATGAAAG
1 AATAAAAG
64678151 TAACTAGGCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (21 bp):
AATAAAAGAAAAGAAAATAAA
Found at i:64678128 original size:5 final size:5
Alignment explanation
Indices: 64678101--64678143 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
64678091 TTAACCCAAG
* **
64678101 AATAA AAGAA AAGGA AATAAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AAT-AA AATAA AATAA AATAA AATAA AA
64678144 ATGAAAGTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 29 0.88
6 4 0.12
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (5 bp):
AATAA
Found at i:64680145 original size:10 final size:10
Alignment explanation
Indices: 64680132--64680156 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
64680122 AAACATAAGC
64680132 TATTTCTGAT
1 TATTTCTGAT
64680142 TATTTCTGAT
1 TATTTCTGAT
64680152 TATTT
1 TATTT
64680157 GAGGTTAACT
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:0.20, C:0.08, G:0.08, T:0.64
Consensus pattern (10 bp):
TATTTCTGAT
Found at i:64684766 original size:24 final size:24
Alignment explanation
Indices: 64684739--64684787 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
64684729 CAACTGGGGT
64684739 TGCATTTAAAGGATCTGAGATTGA
1 TGCATTTAAAGGATCTGAGATTGA
64684763 TGCATTTAAAGGATCTGAGATTGA
1 TGCATTTAAAGGATCTGAGATTGA
64684787 T
1 T
64684788 CTTAAGTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.35
Consensus pattern (24 bp):
TGCATTTAAAGGATCTGAGATTGA
Found at i:64698492 original size:6 final size:6
Alignment explanation
Indices: 64698481--64698517 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
64698471 GGCGGAAATG
64698481 GTGGTT GTGGTT GTGGTT GTGGTT GTGGTT GTGGTT G
1 GTGGTT GTGGTT GTGGTT GTGGTT GTGGTT GTGGTT G
64698518 CTGAGAGAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.51, T:0.49
Consensus pattern (6 bp):
GTGGTT
Found at i:64700308 original size:21 final size:21
Alignment explanation
Indices: 64700262--64700310 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
64700252 TTTGTTACAT
*
64700262 TATAAATAAAAAATTTAAACTC
1 TATAAATAAAAAATTTAAAC-A
*
64700284 TATAAGTAAAAAATTATAAA-A
1 TATAAATAAAAAATT-TAAACA
64700305 TATAAA
1 TATAAA
64700311 ATGAGTATGG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 5 0.22
22 14 0.61
23 4 0.17
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (21 bp):
TATAAATAAAAAATTTAAACA
Found at i:64704795 original size:14 final size:16
Alignment explanation
Indices: 64704776--64704816 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
64704766 AATAAAAGAG
64704776 TAATTATCAT-GATA-
1 TAATTATCATAGATAT
* *
64704790 TAATTACCATATATAT
1 TAATTATCATAGATAT
64704806 TAATTATCATA
1 TAATTATCATA
64704817 ATTTAAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
14 9 0.41
15 3 0.14
16 10 0.45
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (16 bp):
TAATTATCATAGATAT
Found at i:64713473 original size:4 final size:4
Alignment explanation
Indices: 64713466--64713492 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
64713456 ATATTAAGTA
64713466 ATTT ATTT ATTT ATTT ATTT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATT
64713493 AAAAATTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
ATTT
Found at i:64713686 original size:31 final size:31
Alignment explanation
Indices: 64713618--64713694 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
64713608 TTGGTCTATT
*
64713618 TCGGTACCTAAACTTGACACTTTTTTCTAAT
1 TCGGTACCTAAACTTGACACTTTTTTCTAAG
*
64713649 TTGGTACCTAAACTTGACAC-TTTTTCTTAAG
1 TCGGTACCTAAACTTGACACTTTTTTC-TAAG
*
64713680 TCGGTACTTAAACTT
1 TCGGTACCTAAACTT
64713695 TTTGGGAGTC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 6 0.15
31 35 0.85
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.42
Consensus pattern (31 bp):
TCGGTACCTAAACTTGACACTTTTTTCTAAG
Found at i:64724688 original size:28 final size:28
Alignment explanation
Indices: 64724637--64724705 Score: 95
Period size: 28 Copynumber: 2.4 Consensus size: 28
64724627 AATAAACACC
* *
64724637 AAAATTTTATTTTTAAAATAAAAAATAA
1 AAAATATTATTTTAAAAATAAAAAATAA
64724665 AAAA-ATTATTTTAAAAATAAAAAAATAA
1 AAAATATTATTTTAAAAAT-AAAAAATAA
64724693 AAAATATATATTT
1 AAAATAT-TATTT
64724706 ATTATATTCG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
27 12 0.33
28 17 0.47
29 2 0.06
30 5 0.14
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (28 bp):
AAAATATTATTTTAAAAATAAAAAATAA
Found at i:64728139 original size:22 final size:21
Alignment explanation
Indices: 64728093--64728139 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
64728083 CACTAATTCT
*
64728093 TAATCTAATCGATTTGAACAC
1 TAATCTAATCGATTTGAACAA
64728114 TAATCTAATCTGATTTTGAA-AA
1 TAATCTAATC-GA-TTTGAACAA
64728136 TAAT
1 TAAT
64728140 ACAACAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 10 0.43
22 7 0.30
23 6 0.26
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (21 bp):
TAATCTAATCGATTTGAACAA
Found at i:64728655 original size:31 final size:31
Alignment explanation
Indices: 64728589--64728662 Score: 105
Period size: 31 Copynumber: 2.4 Consensus size: 31
64728579 AAAACTTAAC
* *
64728589 AATTTAGTAACTTAAATAAAAACTTATGAAA
1 AATTTAATGACTTAAATAAAAACTTATGAAA
*
64728620 AATTTAATGACTTAAATAAAAACTT-TCGAAT
1 AATTTAATGACTTAAATAAAAACTTAT-GAAA
64728651 AATTTAATGACT
1 AATTTAATGACT
64728663 ATTTTATTAC
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
30 1 0.03
31 38 0.97
ACGTcount: A:0.50, C:0.08, G:0.07, T:0.35
Consensus pattern (31 bp):
AATTTAATGACTTAAATAAAAACTTATGAAA
Found at i:64730589 original size:33 final size:33
Alignment explanation
Indices: 64730552--64730623 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
64730542 TCATGATTCA
* * * *
64730552 AGATTTAAGATTTGAGTTTAGGTTTGGGGTTTG
1 AGATTCAAGACTTGAGTTGAGGTATGGGGTTTG
* * *
64730585 AGATTCAGGGCTTGGGTTGAGGTATGGGGTTTG
1 AGATTCAAGACTTGAGTTGAGGTATGGGGTTTG
64730618 AGATTC
1 AGATTC
64730624 GGGATTCAGG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.19, C:0.04, G:0.38, T:0.39
Consensus pattern (33 bp):
AGATTCAAGACTTGAGTTGAGGTATGGGGTTTG
Found at i:64733031 original size:16 final size:16
Alignment explanation
Indices: 64733002--64733077 Score: 56
Period size: 15 Copynumber: 5.0 Consensus size: 16
64732992 ATCTTTAAAG
64733002 GAGAAGAAAGAAAAAA
1 GAGAAGAAAGAAAAAA
64733018 GAGAA-AAAGAAAAAA
1 GAGAAGAAAGAAAAAA
* *
64733033 -A-AATTAAAGAATGAAA
1 GAGAA-GAAAGAA-AAAA
* *
64733049 GAGACGGAA-AAAAAA
1 GAGAAGAAAGAAAAAA
64733064 -AGAAG-AAGAAAAAA
1 GAGAAGAAAGAAAAAA
64733078 TTGTGATAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 14
0.71 0.09 0.21
Matches are distributed among these distances:
13 4 0.08
14 11 0.23
15 19 0.40
16 10 0.21
17 3 0.06
18 1 0.02
ACGTcount: A:0.74, C:0.01, G:0.21, T:0.04
Consensus pattern (16 bp):
GAGAAGAAAGAAAAAA
Found at i:64733297 original size:18 final size:18
Alignment explanation
Indices: 64733276--64733314 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
64733266 CAATATACCC
64733276 TTTTT-TCTTTTTATATAT
1 TTTTTATCTTTTTA-ATAT
*
64733294 TTTTTATTTTTTTAATAT
1 TTTTTATCTTTTTAATAT
64733312 TTT
1 TTT
64733315 AAAAGAGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTATCTTTTTAATAT
Found at i:64733298 original size:17 final size:18
Alignment explanation
Indices: 64733276--64733314 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
64733266 CAATATACCC
*
64733276 TTTTTTCTTTTTAT-ATA
1 TTTTTTATTTTTATAATA
*
64733293 TTTTTTATTTTTTTAATA
1 TTTTTTATTTTTATAATA
64733311 TTTT
1 TTTT
64733315 AAAAGAGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTTATTTTTATAATA
Found at i:64735177 original size:13 final size:13
Alignment explanation
Indices: 64735159--64735186 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
64735149 TTGGGTGAGC
64735159 AAGAAAAAAGAAA
1 AAGAAAAAAGAAA
64735172 AAGAAAAAAGAAA
1 AAGAAAAAAGAAA
64735185 AA
1 AA
64735187 AAAGAGAGAG
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:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (13 bp):
AAGAAAAAAGAAA
Found at i:64735188 original size:8 final size:7
Alignment explanation
Indices: 64735159--64735187 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
64735149 TTGGGTGAGC
64735159 AAGAAAA
1 AAGAAAA
64735166 AAG-AAA
1 AAGAAAA
64735172 AAGAAAA
1 AAGAAAA
64735179 AAGAAAA
1 AAGAAAA
64735186 AA
1 AA
64735188 AAGAGAGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:64743042 original size:3 final size:3
Alignment explanation
Indices: 64743034--64743067 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
64743024 AATTTGTTTG
64743034 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
64743068 TCTTAATAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.35, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:64746990 original size:30 final size:32
Alignment explanation
Indices: 64746954--64747022 Score: 88
Period size: 30 Copynumber: 2.2 Consensus size: 32
64746944 AAGTTTTTGT
*
64746954 ATTTTTTGTATATTT-AGAATTTAG-TCTTTA
1 ATTTTTTGTATATTTAAGAATTTAGCCCTTTA
* * *
64746984 ATTTTTTTTATTTTTAAGAATTTAGCCCTTTT
1 ATTTTTTGTATATTTAAGAATTTAGCCCTTTA
64747016 ATTTTTT
1 ATTTTTT
64747023 AAAATTAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 13 0.39
31 9 0.27
32 11 0.33
ACGTcount: A:0.23, C:0.06, G:0.07, T:0.64
Consensus pattern (32 bp):
ATTTTTTGTATATTTAAGAATTTAGCCCTTTA
Done.