Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 123 of 190
Found at i:36896270 original size:18 final size:18
Alignment explanation
Indices: 36896241--36896289 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
36896231 GTCCATGTAT
*
36896241 AAATTATAAAAATTAAAAA
1 AAATT-TAAAAATAAAAAA
*
36896260 ATATTTAAAAAATAAAAAA
1 AAATTT-AAAAATAAAAAA
36896279 AAATTTAAAAA
1 AAATTTAAAAA
36896290 AGTTCAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 6 0.23
19 20 0.77
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (18 bp):
AAATTTAAAAATAAAAAA
Found at i:36896272 original size:19 final size:19
Alignment explanation
Indices: 36896248--36896300 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
36896238 TATAAATTAT
*
36896248 AAAAATTAAAAAATATTTA
1 AAAAATTAAAAAAAATTTA
*
36896267 AAAAATAAAAAAAAATTTA
1 AAAAATTAAAAAAAATTTA
36896286 AAAAAGTTCAAAAAA
1 AAAAA-TT-AAAAAA
36896301 GCTTTTAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 22 0.76
20 1 0.03
21 6 0.21
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.23
Consensus pattern (19 bp):
AAAAATTAAAAAAAATTTA
Found at i:36898228 original size:7 final size:7
Alignment explanation
Indices: 36898216--36898246 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
36898206 ATTAGAATAT
36898216 GGAGAAG
1 GGAGAAG
36898223 GGAGAAG
1 GGAGAAG
36898230 GGAGAAG
1 GGAGAAG
36898237 GGAGAAG
1 GGAGAAG
36898244 GGA
1 GGA
36898247 ACATAAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (7 bp):
GGAGAAG
Found at i:36900651 original size:24 final size:23
Alignment explanation
Indices: 36900616--36900688 Score: 76
Period size: 24 Copynumber: 3.1 Consensus size: 23
36900606 TACGGGTTTT
*
36900616 ATAACAGAAAGCTCATAAGAGCC
1 ATAACAGGAAGCTCATAAGAGCC
**
36900639 ATAATCAGGAAGCTCATGCGAGCC
1 ATAA-CAGGAAGCTCATAAGAGCC
*
36900663 AATAACAGGTAGCTC-TGAAGAGCC
1 -ATAACAGGAAGCTCAT-AAGAGCC
36900687 AT
1 AT
36900689 TAATGGGAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
23 7 0.17
24 30 0.73
25 4 0.10
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.16
Consensus pattern (23 bp):
ATAACAGGAAGCTCATAAGAGCC
Found at i:36900911 original size:24 final size:25
Alignment explanation
Indices: 36900878--36900931 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
36900868 CAATTGGGAT
* *
36900878 GCTCGGAAGAACTAT-TAACGAGAA
1 GCTCGCAAGAACCATATAACGAGAA
*
36900902 GCTCGCAAGAACCATATAACGGGAA
1 GCTCGCAAGAACCATATAACGAGAA
36900927 GCTCG
1 GCTCG
36900932 ATAGGGCCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.37, C:0.22, G:0.26, T:0.15
Consensus pattern (25 bp):
GCTCGCAAGAACCATATAACGAGAA
Found at i:36904520 original size:21 final size:21
Alignment explanation
Indices: 36904494--36904537 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
36904484 ATATCTTATG
36904494 CACTCCCCTTCCATAGTAGAC
1 CACTCCCCTTCCATAGTAGAC
36904515 CACTCCCCTTCCATAGTAGAC
1 CACTCCCCTTCCATAGTAGAC
36904536 CA
1 CA
36904538 GTAGTATCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.43, G:0.09, T:0.23
Consensus pattern (21 bp):
CACTCCCCTTCCATAGTAGAC
Found at i:36919162 original size:24 final size:24
Alignment explanation
Indices: 36919130--36919180 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
36919120 TACTTGGGTA
36919130 ATTTTCCGTCAATTCATCCTTTAC
1 ATTTTCCGTCAATTCATCCTTTAC
36919154 ATTTTCCGTCAATTCATCCTTTAC
1 ATTTTCCGTCAATTCATCCTTTAC
36919178 ATT
1 ATT
36919181 CGTAGTGCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.27, G:0.04, T:0.47
Consensus pattern (24 bp):
ATTTTCCGTCAATTCATCCTTTAC
Found at i:36919348 original size:101 final size:101
Alignment explanation
Indices: 36919173--36919475 Score: 444
Period size: 101 Copynumber: 3.0 Consensus size: 101
36919163 CAATTCATCC
* * * * *
36919173 TTTACATTCGTAGTGCCATAAACCAGTTATGGTATTATCATCAAAATGCCATAGCGCAGCTATGG
1 TTTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGCCATAGCCCAGCTATGG
*
36919238 TCTTACATATAAACACTGCCACGGTCCAACCATGGT
66 TCTTACATATAAACACTGCCATGGTCCAACCATGGT
* *
36919274 TTTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAACTATGG
1 TTTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGCCATAGCCCAGCTATGG
*
36919339 TCTCACATATAAACACTGCCATGGTCCAACCATGGT
66 TCTTACATATAAACACTGCCATGGTCCAACCATGGT
* * * * * *
36919375 CTTACGTTCATAGTGTCATAACCTAGTTATGGTCTTTTCATTAAAATGCCATAGCTCAGCTATGG
1 TTTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGCCATAGCCCAGCTATGG
* * *
36919440 TCTTACATTTAAACATTGTCATGGTCCAACCATGGT
66 TCTTACATATAAACACTGCCATGGTCCAACCATGGT
36919476 CTTATCCGTC
Statistics
Matches: 181, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
101 181 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (101 bp):
TTTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGCCATAGCCCAGCTATGG
TCTTACATATAAACACTGCCATGGTCCAACCATGGT
Found at i:36919452 original size:33 final size:33
Alignment explanation
Indices: 36919215--36919452 Score: 81
Period size: 33 Copynumber: 7.1 Consensus size: 33
36919205 TATTATCATC
* *
36919215 AAAATGCCATAGCGCAGCTATGGTCTTACATAT
1 AAAATGCCATAGCTCAGCTATGGTCTTACATTT
* * * * * * *
36919248 AAACACTGCCA-CGGTCCAACCATGGTTTTACGTTC
1 AAA-A-TGCCATAGCT-CAGCTATGGTCTTACATTT
* * * * * *
36919283 ATAGTGCCATAACCCAGTTATGGTCTTATCA-TC
1 AAAATGCCATAGCTCAGCTATGGTCTTA-CATTT
* * * * *
36919316 AGAATGCCATAGCCCAACTATGGTCTCACATAT
1 AAAATGCCATAGCTCAGCTATGGTCTTACATTT
* * * * *
36919349 AAACACTGCCAT-GGTCCAACCATGGTCTTACGTTC
1 AAA-A-TGCCATAGCT-CAGCTATGGTCTTACATTT
* * * * * *
36919384 ATAGTGTCATAAC-CTAGTTATGGTCTTTTCA-TT
1 AAAATGCCATAGCTC-AGCTATGGTC-TTACATTT
36919417 AAAATGCCATAGCTCAGCTATGGTCTTACATTT
1 AAAATGCCATAGCTCAGCTATGGTCTTACATTT
36919450 AAA
1 AAA
36919453 CATTGTCATG
Statistics
Matches: 138, Mismatches: 53, Indels: 28
0.63 0.24 0.13
Matches are distributed among these distances:
32 7 0.05
33 80 0.58
34 9 0.07
35 42 0.30
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.30
Consensus pattern (33 bp):
AAAATGCCATAGCTCAGCTATGGTCTTACATTT
Found at i:36925570 original size:21 final size:21
Alignment explanation
Indices: 36925516--36925570 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
36925506 ATTTTTGAAA
36925516 TTTTTTAAAAT-TTTAACTTT
1 TTTTTTAAAATCTTTAACTTT
* * * *
36925536 GTTTATATATTCTTTAGA-TTT
1 TTTTTTAAAATCTTTA-ACTTT
36925557 TTTTTTAAAATCTT
1 TTTTTTAAAATCTT
36925571 ATCATTTTTA
Statistics
Matches: 25, Mismatches: 8, Indels: 3
0.69 0.22 0.08
Matches are distributed among these distances:
20 7 0.28
21 17 0.68
22 1 0.04
ACGTcount: A:0.27, C:0.05, G:0.04, T:0.64
Consensus pattern (21 bp):
TTTTTTAAAATCTTTAACTTT
Found at i:36933740 original size:4 final size:4
Alignment explanation
Indices: 36933731--36933755 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
36933721 TTTATATATG
36933731 TGTA TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA T
36933756 ATGCATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TGTA
Found at i:36939984 original size:21 final size:21
Alignment explanation
Indices: 36939939--36939985 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
36939929 AAATAATAAA
*
36939939 ATAG-ATTATATATTATTTTT
1 ATAGTATTATATATTATATTT
36939959 ATAGTATTATATATTATGATTT
1 ATAGTATTATATATTAT-ATTT
36939981 -TAGTA
1 ATAGTA
36939986 AATTCATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 4 0.17
21 17 0.71
22 3 0.12
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (21 bp):
ATAGTATTATATATTATATTT
Found at i:36940064 original size:58 final size:57
Alignment explanation
Indices: 36939968--36940132 Score: 192
Period size: 58 Copynumber: 2.9 Consensus size: 57
36939958 TATAGTATTA
* * *
36939968 TATATTATGATTTTAGTAAATTCATA--TAATAATAATTATATTAAGAATTTTATTAAAT
1 TATA-TATTATTTTATTAAATT-ATATTTAATAATAATTATATTAA-AATTTGATTAAAT
* * *
36940026 TATATATTATTTTATTAAATTATATTTAATAATAATTATGTTAAAATATGGTTAAAT
1 TATATATTATTTTATTAAATTATATTTAATAATAATTATATTAAAATTTGATTAAAT
* *
36940083 TATTTATTATTTTTATTAAATTATTTTTAATAATAA-TATTATTAAAATTT
1 TATATATTA-TTTTATTAAATTATATTTAATAATAATTA-TATTAAAATTT
36940133 AATAACAATA
Statistics
Matches: 93, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
56 3 0.03
57 35 0.38
58 55 0.59
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.53
Consensus pattern (57 bp):
TATATATTATTTTATTAAATTATATTTAATAATAATTATATTAAAATTTGATTAAAT
Found at i:36940326 original size:16 final size:16
Alignment explanation
Indices: 36940305--36940335 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
36940295 TGAATTATTT
36940305 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCA
36940321 ATTACAGCTCTATTC
1 ATTACAGCTCTATTC
36940336 CATTCACTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.26, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:36940469 original size:43 final size:43
Alignment explanation
Indices: 36940420--36940647 Score: 314
Period size: 43 Copynumber: 5.3 Consensus size: 43
36940410 TTTTAGAAAT
*
36940420 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTCAGCGGCGCTTTTCCCAC
*
36940463 AAACGCCGCTAAAGACCATGACCTTCAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTCAGCGGCGCTTTTCCCAC
* *
36940506 AAACGCCGCTAAAGACCATGACCTTCAGCGGCGCTTTTCTCAC
1 AAACGCCGCTAAAGACCAAGACCTTCAGCGGCGCTTTTCCCAC
* * * * *
36940549 AAGCGCCGCTAAAAACCAAGACCTTCAGCGGCACTTTTCCTAA
1 AAACGCCGCTAAAGACCAAGACCTTCAGCGGCGCTTTTCCCAC
* * * * *
36940592 AAACGCCACGAAAGACCAAGACCTTTAGCGACGCTTTTAACC-C
1 AAACGCCGCTAAAGACCAAGACCTTCAGCGGCGCTTTT-CCCAC
36940635 AAACGCCGCTAAA
1 AAACGCCGCTAAA
36940648 AATATATCTT
Statistics
Matches: 162, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
43 161 0.99
44 1 0.01
ACGTcount: A:0.30, C:0.34, G:0.18, T:0.18
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTCAGCGGCGCTTTTCCCAC
Found at i:36945656 original size:16 final size:17
Alignment explanation
Indices: 36945620--36945661 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
36945610 CACTATAATC
36945620 ATTATTTTAATATATTAA
1 ATTA-TTTAATATATTAA
36945638 ATTATTTAATATA-TAA
1 ATTATTTAATATATTAA
36945654 ATTATTTA
1 ATTATTTA
36945662 TAAATAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 11 0.46
17 9 0.38
18 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTATTTAATATATTAA
Found at i:36945884 original size:21 final size:21
Alignment explanation
Indices: 36945855--36945984 Score: 84
Period size: 21 Copynumber: 6.1 Consensus size: 21
36945845 CTTAATCTAT
* *
36945855 AACCTTAAACCATAAGCCATA
1 AACCCTAAACCATAAACCATA
* *
36945876 ACCCCTAAATCC-TAAACCTTA
1 AACCCTAAA-CCATAAACCATA
* **
36945897 AACCATAAACTGTAAACCATA
1 AACCCTAAACCATAAACCATA
* *
36945918 ACCCCTAAACCCATAATCCATA
1 AACCCTAAA-CCATAAACCATA
* *
36945940 AACCTTAAACTC-TATACCATA
1 AACCCTAAAC-CATAAACCATA
* * * *
36945961 TACCCTAAATCAAAAACCTTA
1 AACCCTAAACCATAAACCATA
36945982 AAC
1 AAC
36945985 TATAGAGATA
Statistics
Matches: 80, Mismatches: 24, Indels: 10
0.70 0.21 0.09
Matches are distributed among these distances:
20 2 0.03
21 59 0.74
22 19 0.24
ACGTcount: A:0.45, C:0.32, G:0.02, T:0.22
Consensus pattern (21 bp):
AACCCTAAACCATAAACCATA
Found at i:36945905 original size:14 final size:14
Alignment explanation
Indices: 36945855--36945984 Score: 68
Period size: 14 Copynumber: 9.2 Consensus size: 14
36945845 CTTAATCTAT
* *
36945855 AACCTTAAACCATA
1 AACCATAAACCTTA
* * *
36945869 AGCCATAACCCCTA
1 AACCATAAACCTTA
36945883 AATCC-TAAACCTTA
1 AA-CCATAAACCTTA
36945897 AACCATAAA-CTGTA
1 AACCATAAACCT-TA
* *
36945911 AACCATAACCCCTA
1 AACCATAAACCTTA
* *
36945925 AACCCATAATCCATA
1 AA-CCATAAACCTTA
*
36945940 AACCTTAAA-CTCTA
1 AACCATAAACCT-TA
* * *
36945954 TACCATATACCCTA
1 AACCATAAACCTTA
* *
36945968 AATCAAAAACCTTA
1 AACCATAAACCTTA
36945982 AAC
1 AAC
36945985 TATAGAGATA
Statistics
Matches: 85, Mismatches: 24, Indels: 14
0.69 0.20 0.11
Matches are distributed among these distances:
13 5 0.06
14 64 0.75
15 16 0.19
ACGTcount: A:0.45, C:0.32, G:0.02, T:0.22
Consensus pattern (14 bp):
AACCATAAACCTTA
Found at i:36946396 original size:41 final size:41
Alignment explanation
Indices: 36946333--36946521 Score: 333
Period size: 41 Copynumber: 4.6 Consensus size: 41
36946323 CTGAGCGCCG
36946333 CCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCT
1 CCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCT
* *
36946374 CTAAAAACGCCGCTAAATCCCTGAGCATTAGCGGCGCTTCT
1 CCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCT
*
36946415 CCAAAAACGCCGCTAAAGCCCCTGAGCATTAGCAGCGCTTCT
1 CCAAAAACGCCGCTAAAG-CCCTGAGCATTAGCGGCGCTTCT
36946457 CCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCT
1 CCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCT
*
36946498 CCAAAAACGCCGCTAAAGGCCTGA
1 CCAAAAACGCCGCTAAAGCCCTGA
36946522 AAGGTGAAAA
Statistics
Matches: 140, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
41 100 0.71
42 40 0.29
ACGTcount: A:0.29, C:0.34, G:0.21, T:0.17
Consensus pattern (41 bp):
CCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCT
Found at i:36946471 original size:83 final size:82
Alignment explanation
Indices: 36946333--36946521 Score: 333
Period size: 83 Copynumber: 2.3 Consensus size: 82
36946323 CTGAGCGCCG
* * *
36946333 CCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCTCTAAAAACGCCGCTAAATCCCTGA
1 CCAAAAACGCCGCTAAAGCCCTGAGCATTAGCAGCGCTTCTCCAAAAACGCCGCTAAAGCCCTGA
36946398 GCATTAGCGGCGCTTCT
66 GCATTAGCGGCGCTTCT
36946415 CCAAAAACGCCGCTAAAGCCCCTGAGCATTAGCAGCGCTTCTCCAAAAACGCCGCTAAAGCCCTG
1 CCAAAAACGCCGCTAAAG-CCCTGAGCATTAGCAGCGCTTCTCCAAAAACGCCGCTAAAGCCCTG
36946480 AGCATTAGCGGCGCTTCT
65 AGCATTAGCGGCGCTTCT
*
36946498 CCAAAAACGCCGCTAAAGGCCTGA
1 CCAAAAACGCCGCTAAAGCCCTGA
36946522 AAGGTGAAAA
Statistics
Matches: 102, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
82 23 0.23
83 79 0.77
ACGTcount: A:0.29, C:0.34, G:0.21, T:0.17
Consensus pattern (82 bp):
CCAAAAACGCCGCTAAAGCCCTGAGCATTAGCAGCGCTTCTCCAAAAACGCCGCTAAAGCCCTGA
GCATTAGCGGCGCTTCT
Found at i:36946616 original size:40 final size:40
Alignment explanation
Indices: 36946559--36946648 Score: 119
Period size: 40 Copynumber: 2.2 Consensus size: 40
36946549 TAGGTTTTTT
* *
36946559 GCGGCGTTTTCCTTAAAGCGCCGCTAACGCTCTATCTTTA
1 GCGGCGTTTTCATTAAAGCGCCGCTAACGCTCAATCTTTA
** *
36946599 GCGGCGTTTT-ATATAAAGCGCCGCTAATTCTCAATTTTTA
1 GCGGCGTTTTCAT-TAAAGCGCCGCTAACGCTCAATCTTTA
36946639 GCGGCGTTTT
1 GCGGCGTTTT
36946649 TTATGCAAAC
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
39 1 0.02
40 43 0.98
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (40 bp):
GCGGCGTTTTCATTAAAGCGCCGCTAACGCTCAATCTTTA
Found at i:36946800 original size:3 final size:3
Alignment explanation
Indices: 36946792--36946837 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
36946782 TGAGGGTCAG
36946792 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
36946838 CTAGTAGAAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:36951441 original size:20 final size:20
Alignment explanation
Indices: 36951392--36951441 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
36951382 TTTTACTTGT
*
36951392 TTTATTTA-TCTTTATGTTA
1 TTTATTTATTCTTTATATTA
*
36951411 TGTTATTTATTGTTTATATTA
1 T-TTATTTATTCTTTATATTA
36951432 TTTATTTATT
1 TTTATTTATT
36951442 ACTTCTACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 1 0.04
20 16 0.59
21 10 0.37
ACGTcount: A:0.22, C:0.02, G:0.06, T:0.70
Consensus pattern (20 bp):
TTTATTTATTCTTTATATTA
Found at i:36951529 original size:2 final size:2
Alignment explanation
Indices: 36951522--36951553 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
36951512 TGCTTTGTAC
36951522 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36951554 GTTTTGTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36958248 original size:33 final size:31
Alignment explanation
Indices: 36958201--36958266 Score: 80
Period size: 33 Copynumber: 2.1 Consensus size: 31
36958191 TCTATTTCCT
36958201 TTTTATATTACTATTATATGTTAT-TATTTAA
1 TTTTATATTACTATTATATGTTATATA-TTAA
* *
36958232 TTTTATAATATACTATTTTATTTTATATATTAA
1 TTTTAT-AT-TACTATTATATGTTATATATTAA
36958265 TT
1 TT
36958267 CAACATAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 6 0.20
32 2 0.07
33 20 0.67
34 2 0.07
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (31 bp):
TTTTATATTACTATTATATGTTATATATTAA
Found at i:36958458 original size:17 final size:16
Alignment explanation
Indices: 36958436--36958502 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 16
36958426 ATAATATGCT
36958436 ATTATTTTTTTTATAAC
1 ATTA-TTTTTTTATAAC
*
36958453 ATTA--TTTTTATAAT
1 ATTATTTTTTTATAAC
36958467 ATTATTATTTTTAT-A-
1 ATTATT-TTTTTATAAC
*
36958482 ATT-TTTTTATATAAC
1 ATTATTTTTTTATAAC
*
36958497 CTTATT
1 ATTATT
36958503 AATTTTCTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 13
0.72 0.05 0.23
Matches are distributed among these distances:
13 6 0.15
14 16 0.39
15 5 0.12
16 3 0.07
17 11 0.27
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTATTTTTTTATAAC
Found at i:36958502 original size:30 final size:31
Alignment explanation
Indices: 36958436--36958508 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 31
36958426 ATAATATGCT
* *
36958436 ATTATTTTTTTTATAACATTATTTTTATAAT
1 ATTATTATTTTTATAACATTATTTTTATAAC
*
36958467 ATTATTATTTTTAT-A-ATTTTTTTATATAAC
1 ATTATTATTTTTATAACATTATTTT-TATAAC
* *
36958497 CTTATTAATTTT
1 ATTATTATTTTT
36958509 CTTTTTGCAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
29 7 0.19
30 16 0.44
31 13 0.36
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (31 bp):
ATTATTATTTTTATAACATTATTTTTATAAC
Found at i:36962754 original size:29 final size:30
Alignment explanation
Indices: 36962694--36962764 Score: 92
Period size: 33 Copynumber: 2.3 Consensus size: 30
36962684 AATTAATAGT
36962694 AAAATTCAATCAAAAAAATATAATTTTAGTGAC
1 AAAATTCAATCAAAAAAATATAA---TAGTGAC
36962727 AAAATTCAATCAAACAAAA-ATAA-AGTGAC
1 AAAATTCAATCAAA-AAAATATAATAGTGAC
36962756 AAAATTCAA
1 AAAATTCAA
36962765 GATAAAGTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
29 15 0.41
33 18 0.49
34 4 0.11
ACGTcount: A:0.59, C:0.11, G:0.06, T:0.24
Consensus pattern (30 bp):
AAAATTCAATCAAAAAAATATAATAGTGAC
Found at i:36964630 original size:12 final size:12
Alignment explanation
Indices: 36964608--36964641 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
36964598 TATATATGAT
*
36964608 TTTAAATTTTCA
1 TTTACATTTTCA
*
36964620 TTTTCATTTTCA
1 TTTACATTTTCA
36964632 TTTACATTTT
1 TTTACATTTT
36964642 TGGAAACCTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.65
Consensus pattern (12 bp):
TTTACATTTTCA
Found at i:36978893 original size:21 final size:23
Alignment explanation
Indices: 36978854--36978898 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
36978844 GATTCGAATC
36978854 ATAAATATTTTGATATCC-ATAA
1 ATAAATATTTTGATATCCAATAA
36978876 ATAAA-ATTTTGGAT-TCCAATAA
1 ATAAATATTTT-GATATCCAATAA
36978898 A
1 A
36978899 AATTTTATGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.38
Consensus pattern (23 bp):
ATAAATATTTTGATATCCAATAA
Found at i:36979700 original size:189 final size:189
Alignment explanation
Indices: 36979380--36979763 Score: 732
Period size: 189 Copynumber: 2.0 Consensus size: 189
36979370 CTAAGAAGGG
36979380 TATTTGGTTATTTAGGTAAAATGAAGAAAATCGAAACCCAGTAAGTTAGGGCACAATTTCTCAAA
1 TATTTGGTTATTTAGGTAAAATGAAGAAAATCGAAACCCAGTAAGTTAGGGCACAATTTCTCAAA
36979445 ATTCCAAATACCGAACATTGCCTTTATTTATTTACCTTTTTTAAAAATTCTTATTTCGAGATGAC
66 ATTCCAAATACCGAACATTGCCTTTATTTATTTACCTTTTTTAAAAATTCTTATTTCGAGATGAC
36979510 AAAATGTCATGTCCAGTAAGTTAGGACCCAACATGTTCGAATTCCCGAGAATAAGCTTT
131 AAAATGTCATGTCCAGTAAGTTAGGACCCAACATGTTCGAATTCCCGAGAATAAGCTTT
*
36979569 TATTTGGTTATTTAGGTAAAATGAAGAGAATCGAAACCCAGTAAGTTAGGGCACAATTTCTCAAA
1 TATTTGGTTATTTAGGTAAAATGAAGAAAATCGAAACCCAGTAAGTTAGGGCACAATTTCTCAAA
36979634 ATTCCAAATACCGAACATTGCCTTTATTTATTTACCTTTTTTAAAAATTCTTATTTCGAGATGAC
66 ATTCCAAATACCGAACATTGCCTTTATTTATTTACCTTTTTTAAAAATTCTTATTTCGAGATGAC
* * *
36979699 AAAATGTCATGTCCAGTGAGTTAGGACCCAACATTTTTGAATTCCCGAGAATAAGCTTT
131 AAAATGTCATGTCCAGTAAGTTAGGACCCAACATGTTCGAATTCCCGAGAATAAGCTTT
36979758 TATTTG
1 TATTTG
36979764 AATCCGTGTG
Statistics
Matches: 191, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
189 191 1.00
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.34
Consensus pattern (189 bp):
TATTTGGTTATTTAGGTAAAATGAAGAAAATCGAAACCCAGTAAGTTAGGGCACAATTTCTCAAA
ATTCCAAATACCGAACATTGCCTTTATTTATTTACCTTTTTTAAAAATTCTTATTTCGAGATGAC
AAAATGTCATGTCCAGTAAGTTAGGACCCAACATGTTCGAATTCCCGAGAATAAGCTTT
Found at i:36980492 original size:14 final size:15
Alignment explanation
Indices: 36980461--36980494 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
36980451 AATAATAAAA
*
36980461 TAATATAATAGTAAT
1 TAATATAACAGTAAT
36980476 TAATATAACAG-AAT
1 TAATATAACAGTAAT
36980490 TAATA
1 TAATA
36980495 ATATAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.35
Consensus pattern (15 bp):
TAATATAACAGTAAT
Found at i:36981111 original size:22 final size:21
Alignment explanation
Indices: 36981074--36981117 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
36981064 TTATTTTAAG
36981074 AAACAAGTAAAAGAAAACAAAA
1 AAACAAGTAAAAGAAAA-AAAA
*
36981096 AAAC-AGTAAAAGGAAAAAAA
1 AAACAAGTAAAAGAAAAAAAA
36981116 AA
1 AA
36981118 CAGAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.29
21 11 0.52
22 4 0.19
ACGTcount: A:0.77, C:0.07, G:0.11, T:0.05
Consensus pattern (21 bp):
AAACAAGTAAAAGAAAAAAAA
Found at i:36982234 original size:50 final size:50
Alignment explanation
Indices: 36982180--36982438 Score: 155
Period size: 50 Copynumber: 5.2 Consensus size: 50
36982170 GCCGTCACGA
* *
36982180 CTTCAATCTATTCCATTACACCGCCAGGGAAGTAAGATCCACCGTTGTGG
1 CTTCAATCTATTCCATTGCACCGCCAGGGAAGTAAGATCTACCGTTGTGG
* ** ** * * ** * *
36982230 CTTCAATCTTTTTAATTGCAATGTCGGGGAAACCAA-ATCTACCGTCGTAG
1 CTTCAATCTATTCCATTGCACCGCCAGGG-AAGTAAGATCTACCGTTGTGG
* * **
36982280 CTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATCTGTCGTTGTGG
1 CTTCAATCTATTCCATTGCACCGCCAGGGAAGTAAGATCTACCGTTGTGG
* ** ** * * * * * * *
36982330 CTTCAATCTTTTTAATTGCAATGTCGGGGAAATTAGAT-TCGCCGTCGTAG
1 CTTCAATCTATTCCATTGCACCGCCAGGGAAGTAAGATCT-ACCGTTGTGG
* * * * * *
36982380 CTTCAATTTGTTCCACTGCACCGCTAAGGAAGTAAGA-CTTGCCGTTGTGG
1 CTTCAATCTATTCCATTGCACCGCCAGGGAAGTAAGATC-TACCGTTGTGG
36982430 CTTCAATCT
1 CTTCAATCT
36982439 TTTTAATTGC
Statistics
Matches: 148, Mismatches: 56, Indels: 10
0.69 0.26 0.05
Matches are distributed among these distances:
49 5 0.03
50 138 0.93
51 5 0.03
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (50 bp):
CTTCAATCTATTCCATTGCACCGCCAGGGAAGTAAGATCTACCGTTGTGG
Found at i:36982533 original size:50 final size:50
Alignment explanation
Indices: 36982279--36982647 Score: 181
Period size: 50 Copynumber: 7.4 Consensus size: 50
36982269 TACCGTCGTA
* * *
36982279 GCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGA-TCTGTCGTTGTG
1 GCTTCAATCTGTTCCACTGCACTGCTAGGGAAGTAAGACTC-GCCGTTGTG
* ** * * * * * * * *
36982329 GCTTCAATCTTTTTAATTGCAATG-TCGGGGAAATTAGATTCGCCGTCGTA
1 GCTTCAATCTGTTCCACTGCACTGCT-AGGGAAGTAAGACTCGCCGTTGTG
* * * *
36982379 GCTTCAATTTGTTCCACTGCACCGCTAAGGAAGTAAGACTTGCCGTTGTG
1 GCTTCAATCTGTTCCACTGCACTGCTAGGGAAGTAAGACTCGCCGTTGTG
* ** * * ** * *** ** *
36982429 GCTTCAATCTTTTTAATTGCAATGTCT-GGGAAACAAGATTCATTGTCATA
1 GCTTCAATCTGTTCCACTGCACTG-CTAGGGAAGTAAGACTCGCCGTTGTG
* *
36982479 GCTTCAATCTGTTCCACTGCACTACTAAGGAAGTAAGACTCGCCGTTGTG
1 GCTTCAATCTGTTCCACTGCACTGCTAGGGAAGTAAGACTCGCCGTTGTG
* ** * * * * ** * * *
36982529 GCTTCAATCTATTTAACTACAATGTTTGGGAAACAAGA-TCCACCGTCGTA
1 GCTTCAATCTGTTCCACTGCACTGCTAGGGAAGTAAGACT-CGCCGTTGTG
* * * * * *
36982579 GCTTCAACCTGTTCCACTACA-TCGCCAGGGAAGCAAGATTCGCCGTAGTG
1 GCTTCAATCTGTTCCACTGCACT-GCTAGGGAAGTAAGACTCGCCGTTGTG
*
36982629 GCTTCAATCTATTCCACTG
1 GCTTCAATCTGTTCCACTG
36982648 TAATGCCAAA
Statistics
Matches: 221, Mismatches: 90, Indels: 16
0.68 0.28 0.05
Matches are distributed among these distances:
49 4 0.02
50 211 0.95
51 6 0.03
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.31
Consensus pattern (50 bp):
GCTTCAATCTGTTCCACTGCACTGCTAGGGAAGTAAGACTCGCCGTTGTG
Found at i:36982641 original size:100 final size:100
Alignment explanation
Indices: 36982130--36982638 Score: 591
Period size: 100 Copynumber: 5.1 Consensus size: 100
36982120 GGATTATTTA
* * * *
36982130 CTTCAAT-TTGTTTAACTGCAATGTCAGGGAAACAAGATTCGCCGTC--ACGACTTCAATCTATT
1 CTTCAATCTT-TTTAATTGCAATGTCGGGGAAACAAGATTCACCGTCGTA-G-CTTCAATCTGTT
* * * *
36982192 CCATTACACCGCCAGGGAAGTAAGATCCACCGTTGTGG
63 CCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
36982230 CTTCAATCTTTTTAATTGCAATGTCGGGGAAACCAA-A-TCTACCGTCGTAGCTTCAATCTGTTC
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAA-CAAGATTC-ACCGTCGTAGCTTCAATCTGTTC
*
36982293 CACTGCACCGCCAGGGAAGTAAGA-TCTGTCGTTGTGG
64 CACTGCACCGCCAGGGAAGTAAGATTC-GCCGTTGTGG
** * *
36982330 CTTCAATCTTTTTAATTGCAATGTCGGGGAAATTAGATTCGCCGTCGTAGCTTCAATTTGTTCCA
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCCA
* *
36982395 CTGCACCGCTAAGGAAGTAAGACTT-GCCGTTGTGG
66 CTGCACCGCCAGGGAAGTAAGA-TTCGCCGTTGTGG
* ** *
36982430 CTTCAATCTTTTTAATTGCAATGTCTGGGAAACAAGATTCATTGTCATAGCTTCAATCTGTTCCA
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCCA
** * * *
36982495 CTGCACTACTAAGGAAGTAAGACTCGCCGTTGTGG
66 CTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
* * * ** * *
36982530 CTTCAATCTATTTAACTACAATGTTTGGGAAACAAGATCCACCGTCGTAGCTTCAACCTGTTCCA
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCCA
* * * *
36982595 CTACATCGCCAGGGAAGCAAGATTCGCCGTAGTGG
66 CTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
36982630 CTTCAATCT
1 CTTCAATCT
36982639 ATTCCACTGT
Statistics
Matches: 353, Mismatches: 45, Indels: 22
0.84 0.11 0.05
Matches are distributed among these distances:
99 5 0.01
100 338 0.96
101 8 0.02
102 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (100 bp):
CTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCCA
CTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
Found at i:36982970 original size:88 final size:88
Alignment explanation
Indices: 36982840--36983009 Score: 241
Period size: 88 Copynumber: 1.9 Consensus size: 88
36982830 AAGACTGGTG
* * * *
36982840 TCTTCAATCTGCTTCGCTGCCAGTACAAGAAGGCAATATCTGCCATTTTCAACCTACTCCACTGC
1 TCTTCAATCTACTTCGCTACCAATACAAGAAGACAATATCTGCCATTTTCAACCTACTCCACTGC
* *
36982905 TGCTCATGGAGACAAGGCTGATA
66 TACTCAGGGAGACAAGGCTGATA
* * * *
36982928 TCTTCGATCTACTTCGTTACCAATACAGGAAGACAATATCTGCTATTTTCAACCTACTCCACTGC
1 TCTTCAATCTACTTCGCTACCAATACAAGAAGACAATATCTGCCATTTTCAACCTACTCCACTGC
*
36982993 TACTCAGGGAGATAAGG
66 TACTCAGGGAGACAAGG
36983010 GTTTATGGTT
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
88 71 1.00
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (88 bp):
TCTTCAATCTACTTCGCTACCAATACAAGAAGACAATATCTGCCATTTTCAACCTACTCCACTGC
TACTCAGGGAGACAAGGCTGATA
Found at i:36984011 original size:17 final size:19
Alignment explanation
Indices: 36983968--36984013 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 19
36983958 TATACACATG
*
36983968 TATACAAAAATTATAAAAA
1 TATATAAAAATTATAAAAA
*
36983987 TAAAATAAAAA-TA-AAAAA
1 T-ATATAAAAATTATAAAAA
36984005 TATATAAAA
1 TATATAAAA
36984014 CAGATACATG
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 7 0.30
18 6 0.26
19 3 0.13
20 7 0.30
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (19 bp):
TATATAAAAATTATAAAAA
Found at i:36984131 original size:28 final size:28
Alignment explanation
Indices: 36984077--36984131 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
36984067 GTAACTTATG
*
36984077 AAAATATGAAAATATATGTATATATAAA
1 AAAATATGAAAATATATGTATAAATAAA
* *
36984105 AAAATGTGAAAAATATATTTA-AAATAA
1 AAAATATG-AAAATATATGTATAAATAA
36984132 TTTTGAATAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 12 0.52
29 11 0.48
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (28 bp):
AAAATATGAAAATATATGTATAAATAAA
Found at i:36985024 original size:24 final size:23
Alignment explanation
Indices: 36984985--36985029 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
36984975 TTATTTTAAG
36984985 AAACAAGTAAAAGAAAACAAAAAA
1 AAACAAGTAAAAGAAAA-AAAAAA
*
36985009 AAAC-AGTAAAAGGAAAAAAAA
1 AAACAAGTAAAAGAAAAAAAAA
36985030 CAGAACCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 5 0.25
23 11 0.55
24 4 0.20
ACGTcount: A:0.78, C:0.07, G:0.11, T:0.04
Consensus pattern (23 bp):
AAACAAGTAAAAGAAAAAAAAAA
Found at i:36986189 original size:23 final size:25
Alignment explanation
Indices: 36986137--36986223 Score: 76
Period size: 23 Copynumber: 3.6 Consensus size: 25
36986127 AGTCAAGACT
36986137 AAAATATTAAAATTTAACAAATAT-
1 AAAATATTAAAATTTAACAAATATA
* * *
36986161 AGAA-ATTAAAATTTACCAACT-TGA
1 AAAATATTAAAATTTAACAAATAT-A
*
36986185 AAAATATTAAAA-TTAA-AACTATA
1 AAAATATTAAAATTTAACAAATATA
*
36986208 ATAGATATTAAAATTT
1 A-AAATATTAAAATTT
36986224 TACTTTTTCT
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
22 1 0.02
23 21 0.41
24 20 0.39
25 9 0.18
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.33
Consensus pattern (25 bp):
AAAATATTAAAATTTAACAAATATA
Found at i:37006510 original size:12 final size:12
Alignment explanation
Indices: 37006493--37006518 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
37006483 AGGATATGTA
37006493 ATCTTAGATATG
1 ATCTTAGATATG
37006505 ATCTTAGATATG
1 ATCTTAGATATG
37006517 AT
1 AT
37006519 ATATGCAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (12 bp):
ATCTTAGATATG
Found at i:37006557 original size:24 final size:25
Alignment explanation
Indices: 37006510--37006557 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
37006500 ATATGATCTT
37006510 AGATATGATATATGCAATCTTAGAA
1 AGATATGATATATGCAATCTTAGAA
* *
37006535 AGATATGAT-TTTGTAATCTTAGA
1 AGATATGATATATGCAATCTTAGA
37006558 GATTTAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.38
Consensus pattern (25 bp):
AGATATGATATATGCAATCTTAGAA
Found at i:37006879 original size:29 final size:29
Alignment explanation
Indices: 37006857--37006943 Score: 103
Period size: 27 Copynumber: 3.2 Consensus size: 29
37006847 TTATTAAATT
37006857 TTATT-TTCTTGTTATTAAGTTATTATTA
1 TTATTGTTCTTGTTATTAAGTTATTATTA
*
37006885 TTATTGTTGTTGTTATT-A-TTATTATTA
1 TTATTGTTCTTGTTATTAAGTTATTATTA
* * *
37006912 TTATTATTATTATTATT-A-TTATTATTA
1 TTATTGTTCTTGTTATTAAGTTATTATTA
37006939 TTATT
1 TTATT
37006944 ATTATTATTA
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
27 38 0.70
28 6 0.11
29 10 0.19
ACGTcount: A:0.26, C:0.01, G:0.06, T:0.67
Consensus pattern (29 bp):
TTATTGTTCTTGTTATTAAGTTATTATTA
Found at i:37006884 original size:3 final size:3
Alignment explanation
Indices: 37006876--37006960 Score: 143
Period size: 3 Copynumber: 28.3 Consensus size: 3
37006866 TGTTATTAAG
* * *
37006876 TTA TTA TTA TTA TTG TTG TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
37006924 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
37006961 AACTATATAT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 80 1.00
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:37007117 original size:17 final size:17
Alignment explanation
Indices: 37007086--37007129 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
37007076 CATAACTTTT
*
37007086 ATATACA-TATATATAC
1 ATATACATTTTATATAC
*
37007102 ATTTACATTTTATATAC
1 ATATACATTTTATATAC
37007119 ATATACATTTT
1 ATATACATTTT
37007130 TTATTTCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (17 bp):
ATATACATTTTATATAC
Found at i:37014578 original size:15 final size:16
Alignment explanation
Indices: 37014553--37014583 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
37014543 GTACTAAATT
37014553 ATATAAAAAAATTAAA
1 ATATAAAAAAATTAAA
37014569 ATAT-AAAAAATTAAA
1 ATATAAAAAAATTAAA
37014584 TATCAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
ATATAAAAAAATTAAA
Found at i:37014584 original size:14 final size:14
Alignment explanation
Indices: 37014548--37014586 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
37014538 TTGAGGTACT
*
37014548 AAATTATATA-AAA
1 AAATTAAATATAAA
37014561 AAATTAAAATATAAA
1 AAATT-AAATATAAA
37014576 AAATTAAATAT
1 AAATTAAATAT
37014587 CAAATTTGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 5 0.22
14 10 0.43
15 8 0.35
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
AAATTAAATATAAA
Found at i:37015100 original size:23 final size:25
Alignment explanation
Indices: 37015060--37015114 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
37015050 TGGTATTCCA
* * *
37015060 ATTTTATAAAAATATTT-ATTTTTT
1 ATTTTTTAAAAATATTTAAATTTAT
*
37015084 ATTTTTTAAAACT-TTTAAATTTAT
1 ATTTTTTAAAAATATTTAAATTTAT
37015108 ATTTTTT
1 ATTTTTT
37015115 TTCAAATTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 3 0.12
24 23 0.88
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (25 bp):
ATTTTTTAAAAATATTTAAATTTAT
Found at i:37015255 original size:28 final size:30
Alignment explanation
Indices: 37015212--37015269 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
37015202 ATTTTTAAAA
*
37015212 TTTTAAAATTCAAAAAATTA-TAAAATTAT
1 TTTTAAAAATCAAAAAATTATTAAAATTAT
* *
37015241 TTTTAAAAATC-AAAATTTATTTAAATTAT
1 TTTTAAAAATCAAAAAATTATTAAAATTAT
37015270 ATGATAAGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (30 bp):
TTTTAAAAATCAAAAAATTATTAAAATTAT
Found at i:37015533 original size:3 final size:3
Alignment explanation
Indices: 37015525--37015555 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
37015515 TATGCCTAGA
37015525 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
37015556 TGATATACTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:37016223 original size:66 final size:63
Alignment explanation
Indices: 37016144--37016271 Score: 202
Period size: 63 Copynumber: 2.0 Consensus size: 63
37016134 ACAACTTAAT
37016144 TTAAATTTATCTTATAAAAAAGATAAATATTATATTATATATGTATGTAAAAGTTATATACAATA
1 TTAAATTTATCTTATAAAAAAGATAAATA--ATA-TATATATGTATGTAAAAGTTATATACAATA
37016209 A
63 A
* * *
37016210 TTAAATTTCTCTTATAAAAAAGATAAATAATATATATATGTATGTAAAATTTATATATAATA
1 TTAAATTTATCTTATAAAAAAGATAAATAATATATATATGTATGTAAAAGTTATATACAATA
37016272 GAGTTTTTAT
Statistics
Matches: 59, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
63 28 0.47
64 3 0.05
66 28 0.47
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.41
Consensus pattern (63 bp):
TTAAATTTATCTTATAAAAAAGATAAATAATATATATATGTATGTAAAAGTTATATACAATAA
Found at i:37017896 original size:31 final size:30
Alignment explanation
Indices: 37017818--37017900 Score: 78
Period size: 31 Copynumber: 2.6 Consensus size: 30
37017808 CCAATACTTT
*
37017818 AATTTGACCCAATTTAGTTCTTGTATTTTTCG
1 AATTTGA--CAATTTAGTCCTTGTATTTTTCG
* **
37017850 AATTAGTTAATTTTAGTCCTTGTACTTTTT-G
1 AATTTGACAA-TTTAGTCCTTGTA-TTTTTCG
37017881 AAATTTGACAATTTAGTCCT
1 -AATTTGACAATTTAGTCCT
37017901 GACCTAAATA
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
30 2 0.05
31 22 0.54
32 17 0.41
ACGTcount: A:0.25, C:0.13, G:0.12, T:0.49
Consensus pattern (30 bp):
AATTTGACAATTTAGTCCTTGTATTTTTCG
Found at i:37018384 original size:22 final size:22
Alignment explanation
Indices: 37018337--37018393 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
37018327 ATATATATTT
*
37018337 AAACCCAAACCCAGTACCAACA
1 AAACCTAAACCCAGTACCAACA
* *
37018359 AAACCTAAACCCAGTACCACCC
1 AAACCTAAACCCAGTACCAACA
*
37018381 AAACCTAATCCCA
1 AAACCTAAACCCA
37018394 ATTTAAAACT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.46, C:0.42, G:0.04, T:0.09
Consensus pattern (22 bp):
AAACCTAAACCCAGTACCAACA
Found at i:37018510 original size:19 final size:19
Alignment explanation
Indices: 37018488--37018524 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
37018478 AAAATTTAGT
* *
37018488 ATTAATGAAAAAATTAAAC
1 ATTAATAAAAAAACTAAAC
37018507 ATTAATAAAAAAACTAAA
1 ATTAATAAAAAAACTAAA
37018525 AGTAAAACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (19 bp):
ATTAATAAAAAAACTAAAC
Found at i:37020932 original size:19 final size:19
Alignment explanation
Indices: 37020908--37021037 Score: 197
Period size: 19 Copynumber: 6.8 Consensus size: 19
37020898 CATCATATCG
*
37020908 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
**
37020927 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
37020946 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
37020965 TCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATA
*
37020984 TCTAAGATTGCATATCAAA
1 TCTAAGATTGCATATCATA
37021003 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
37021022 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
37021038 CCTGAAGATT
Statistics
Matches: 100, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 100 1.00
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:37026314 original size:19 final size:19
Alignment explanation
Indices: 37026290--37026327 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
37026280 AAAGTTAATA
37026290 ACAAATTTGATTACAGTGG
1 ACAAATTTGATTACAGTGG
37026309 ACAAATTTGATTACAGTGG
1 ACAAATTTGATTACAGTGG
37026328 GTGAAAGTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.32
Consensus pattern (19 bp):
ACAAATTTGATTACAGTGG
Found at i:37030573 original size:20 final size:20
Alignment explanation
Indices: 37030527--37030574 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
37030517 ATTTAACCAT
* *
37030527 TTATATTTATATTATTTCTT
1 TTATTTTTATATTATTTCTA
*
37030547 TTCTTTTTATATTATTAT-TA
1 TTATTTTTATATTATT-TCTA
37030567 TTATTTTT
1 TTATTTTT
37030575 GGACGTTCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (20 bp):
TTATTTTTATATTATTTCTA
Found at i:37032878 original size:40 final size:37
Alignment explanation
Indices: 37032828--37032902 Score: 114
Period size: 40 Copynumber: 1.9 Consensus size: 37
37032818 GTTTGGATAA
37032828 AAAACGCCGCTAAAAATCAAGCATTAGCGACGCGTTTTGG
1 AAAACGCCGCTAAAAAT-AAGCATTAGCG--GCGTTTTGG
*
37032868 AAAACGCCGCTAAAAATGAGCATTAGCGGCGTTTT
1 AAAACGCCGCTAAAAATAAGCATTAGCGGCGTTTT
37032903 TCAAAAAGCG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
37 7 0.21
39 10 0.29
40 17 0.50
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (37 bp):
AAAACGCCGCTAAAAATAAGCATTAGCGGCGTTTTGG
Found at i:37032915 original size:39 final size:39
Alignment explanation
Indices: 37032827--37032922 Score: 115
Period size: 39 Copynumber: 2.4 Consensus size: 39
37032817 CGTTTGGATA
*
37032827 AAAAACGCCGCTAAAAATCAAGCATTAGCGACGCGTTTTG
1 AAAAACGCCGCTAAAAATCAAGCATTAGCGA-GCGTTTTC
* *
37032867 GAAAACGCCGCTAAAAAT-GAGCATTAGCG-GCGTTTTTC
1 AAAAACGCCGCTAAAAATCAAGCATTAGCGAGCG-TTTTC
*
37032905 AAAAAGCGCCGCAAAAAA
1 AAAAA-CGCCGCTAAAAA
37032923 CCTAAGCCCT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
37 3 0.06
38 8 0.16
39 21 0.43
40 17 0.35
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.18
Consensus pattern (39 bp):
AAAAACGCCGCTAAAAATCAAGCATTAGCGAGCGTTTTC
Found at i:37033021 original size:41 final size:42
Alignment explanation
Indices: 37032957--37033155 Score: 248
Period size: 41 Copynumber: 4.8 Consensus size: 42
37032947 GTATTCGGGG
* * *
37032957 ATTTAGTGGCGTTTTTTAAAAAGCGCCGCTAATGCTTAGGGT
1 ATTTAGCGGCGTTTTTTGAAAAGCGCCGCTAATGCTCAGGGT
* *
37032999 -TTTAGCGGCGTTTTTTGTAAAGCGTCGCTAATGCTCA-GGT
1 ATTTAGCGGCGTTTTTTGAAAAGCGCCGCTAATGCTCAGGGT
37033039 ATTTAGCGGCG-TTTTTGAAAATGCGCCGCTAATGCTCAGGGT
1 ATTTAGCGGCGTTTTTTGAAAA-GCGCCGCTAATGCTCAGGGT
* * * *
37033081 -TTTAGCGGCGTTTTTTAAAAAACGCCACTAATGATC-GGGT
1 ATTTAGCGGCGTTTTTTGAAAAGCGCCGCTAATGCTCAGGGT
*
37033121 CTTTAGCGGCG-TTTTTGAAAAAGCGCCGCTAATGC
1 ATTTAGCGGCGTTTTTTG-AAAAGCGCCGCTAATGC
37033156 GCTAATGCTC
Statistics
Matches: 136, Mismatches: 15, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
40 21 0.15
41 103 0.76
42 12 0.09
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (42 bp):
ATTTAGCGGCGTTTTTTGAAAAGCGCCGCTAATGCTCAGGGT
Found at i:37033094 original size:82 final size:82
Alignment explanation
Indices: 37032957--37033155 Score: 290
Period size: 82 Copynumber: 2.4 Consensus size: 82
37032947 GTATTCGGGG
* * * ** *
37032957 ATTTAGTGGCGTTTTTTAAAAAGCGCCGCTAATGCTTAGGGTTTTAGCGGCGTTTTTTGTAAAGC
1 ATTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGGTTTTAGCGGCGTTTTTTAAAAAAC
* * *
37033022 GTCGCTAATGCTCAGGT
66 GCCACTAATGATCAGGT
*
37033039 ATTTAGCGGCGTTTTTGAAAATGCGCCGCTAATGCTCAGGGTTTTAGCGGCGTTTTTTAAAAAAC
1 ATTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGGTTTTAGCGGCGTTTTTTAAAAAAC
*
37033104 GCCACTAATGATCGGGT
66 GCCACTAATGATCAGGT
*
37033121 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
1 ATTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
37033156 GCTAATGCTC
Statistics
Matches: 104, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
82 104 1.00
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (82 bp):
ATTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGGTTTTAGCGGCGTTTTTTAAAAAAC
GCCACTAATGATCAGGT
Found at i:37035311 original size:20 final size:21
Alignment explanation
Indices: 37035274--37035312 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
37035264 ATATATCTCA
*
37035274 TTTAACATATATAAAATAATT
1 TTTAACAAATATAAAATAATT
37035295 TTTAACAAATA-AAAATAA
1 TTTAACAAATATAAAATAA
37035313 ATAAAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (21 bp):
TTTAACAAATATAAAATAATT
Found at i:37036325 original size:16 final size:16
Alignment explanation
Indices: 37036304--37036334 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
37036294 TGTAACCTAT
37036304 CTGATGTTTACAATAA
1 CTGATGTTTACAATAA
37036320 CTGATGTTTACAATA
1 CTGATGTTTACAATA
37036335 GTTTGGGACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (16 bp):
CTGATGTTTACAATAA
Found at i:37037338 original size:18 final size:19
Alignment explanation
Indices: 37037310--37037349 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
37037300 AATAAAACAT
*
37037310 AATATAATATTTATATAAA
1 AATATAATATTTAAATAAA
37037329 AATA-AATATTTAAATAAA
1 AATATAATATTTAAATAAA
37037347 AAT
1 AAT
37037350 TTTTAAATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AATATAATATTTAAATAAA
Found at i:37037462 original size:44 final size:43
Alignment explanation
Indices: 37037410--37037636 Score: 267
Period size: 43 Copynumber: 5.3 Consensus size: 43
37037400 GCTTGTTTTA
* * *
37037410 TAGCGGCGTTTGTGGCAAAAAGCGTCGCTACAGATCATGACCTT
1 TAGCGGCGTTTGTGG-AAAAAGCGCCGCTAAAGATCATGATCTT
* * **
37037454 TAGCGGCGTTTGTGATAAAAAGCGCCGCTAAAGCTTGTGATCTT
1 TAGCGGCGTTTGTG-GAAAAAGCGCCGCTAAAGATCATGATCTT
* * * *
37037498 TAGCGGCGTTT-TTGTAAAAGCGCCGCTAAAGGTCGTGATCTT
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATCATGATCTT
* * * *
37037540 TAGCGGCGTTTTTTGTAAAAGCGCCGCTAAAGGTCATGATCTT
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATCATGATCTT
* * *
37037583 TAGCGGCATTTGTGGCAAAAGCGCCGCTAAAGACCATGATCTT
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATCATGATCTT
37037626 TAGCGGCGTTT
1 TAGCGGCGTTT
37037637 TTTCACATAA
Statistics
Matches: 161, Mismatches: 20, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
42 36 0.22
43 78 0.48
44 47 0.29
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATCATGATCTT
Found at i:37037637 original size:86 final size:88
Alignment explanation
Indices: 37037410--37037658 Score: 310
Period size: 86 Copynumber: 2.9 Consensus size: 88
37037400 GCTTGTTTTA
* * * *
37037410 TAGCGGCGTTTGTGGCAAAAAGCGTCGCTACAGATCATGACCTTTAGCGGCG-TTTGTGATAAAA
1 TAGCGGCGTTTGTGGC-AAAAGCGCCGCTAAAGATCATGATCTTTAGCGGCGTTTTTTGATAAAA
**
37037474 AGCGCCGCTAAAGCTTGTGATCTT
65 AGCGCCGCTAAAGCTCATGATCTT
* * * *
37037498 TAGCGGCGTTT-TTGTAAAAGCGCCGCTAAAGGTCGTGATCTTTAGCGGCGTTTTTTG-T-AAAA
1 TAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGATCATGATCTTTAGCGGCGTTTTTTGATAAAAA
*
37037560 GCGCCGCTAAAGGTCATGATCTT
66 GCGCCGCTAAAGCTCATGATCTT
* * * * *
37037583 TAGCGGCATTTGTGGCAAAAGCGCCGCTAAAGACCATGATCTTTAGCGGCGTTTTTTCACATAAA
1 TAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGATCATGATCTTTAGCGGCGTTTTTTGATAAAAA
37037648 -CGCCGCTAAAG
66 GCGCCGCTAAAG
37037659 TTAGTGACGC
Statistics
Matches: 137, Mismatches: 20, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
85 34 0.25
86 71 0.52
87 18 0.13
88 14 0.10
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (88 bp):
TAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGATCATGATCTTTAGCGGCGTTTTTTGATAAAAA
GCGCCGCTAAAGCTCATGATCTT
Found at i:37038767 original size:37 final size:35
Alignment explanation
Indices: 37038699--37038771 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 35
37038689 TTATATAACT
*
37038699 AAAATAATAGTATTATAATAAACTTAAATTTTTAA
1 AAAATAATAGTATTATAATAAACTCAAATTTTTAA
* * *
37038734 AAAATAATTGTCTTAATAATTAAACTCACATTTTTAA
1 AAAATAATAGTATT-ATAA-TAAACTCAAATTTTTAA
37038771 A
1 A
37038772 CTCAAAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 12 0.38
36 4 0.12
37 16 0.50
ACGTcount: A:0.51, C:0.07, G:0.03, T:0.40
Consensus pattern (35 bp):
AAAATAATAGTATTATAATAAACTCAAATTTTTAA
Found at i:37040377 original size:18 final size:17
Alignment explanation
Indices: 37040351--37040399 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
37040341 GTAAGGGTTA
*
37040351 ATTTTATTTTTTAATATT
1 ATTTAATTTTTTAAT-TT
37040369 ATTTAATTTTTATAATTT
1 ATTTAATTTTT-TAATTT
*
37040387 AATTAATATTTTT
1 ATTTAAT-TTTTT
37040400 TTATAATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 19 0.70
19 8 0.30
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTTAATTTTTTAATTT
Found at i:37042326 original size:2 final size:2
Alignment explanation
Indices: 37042319--37042345 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
37042309 TCCAATAATA
37042319 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
37042346 TATAATATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:37043825 original size:8 final size:8
Alignment explanation
Indices: 37043812--37043840 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
37043802 TATATATACT
37043812 AAATAATA
1 AAATAATA
37043820 AAATAATA
1 AAATAATA
37043828 AAATAATA
1 AAATAATA
37043836 AAATA
1 AAATA
37043841 TCATTTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAATAATA
Found at i:37045509 original size:92 final size:92
Alignment explanation
Indices: 37045352--37045536 Score: 327
Period size: 92 Copynumber: 2.0 Consensus size: 92
37045342 CTATTGTGCT
*
37045352 TATTTTAATGTATGACTTAAGTATGTGTTGGATTGTTATTTGCATGAAAATGATGATTGGTAACT
1 TATTTTAATGTATGACTTAAGTATGTGTTGGATTGCTATTTGCATGAAAATGATGATTGGTAACT
37045417 AAATTTATGGTGGTTGGTTGATAGAAG
66 AAATTTATGGTGGTTGGTTGATAGAAG
*
37045444 TATTTTAATGTATGACTTGAA-TATGTGTTGGGTTGCTATTTGCATGAAAATGATGATTGGTAAC
1 TATTTTAATGTATGACTT-AAGTATGTGTTGGATTGCTATTTGCATGAAAATGATGATTGGTAAC
*
37045508 TAAATTTATGGTGGTTGGTTGATGGAAG
65 TAAATTTATGGTGGTTGGTTGATAGAAG
37045536 T
1 T
37045537 GTTGTTTGGT
Statistics
Matches: 89, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
92 87 0.98
93 2 0.02
ACGTcount: A:0.28, C:0.04, G:0.26, T:0.42
Consensus pattern (92 bp):
TATTTTAATGTATGACTTAAGTATGTGTTGGATTGCTATTTGCATGAAAATGATGATTGGTAACT
AAATTTATGGTGGTTGGTTGATAGAAG
Found at i:37047556 original size:42 final size:42
Alignment explanation
Indices: 37047478--37047559 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
37047468 GCTCGTGTCT
* *
37047478 CAAACCGTGTAACTCATTGAGTTGGGTCACACGGCCGTGTGC
1 CAAACCGTGTAACTCATTGACTTGGGACACACGGCCGTGTGC
* *
37047520 CAAACCGTGTAACTC-TCTGACTTGTGACACATGGCCGTGT
1 CAAACCGTGTAACTCAT-TGACTTGGGACACACGGCCGTGT
37047560 AACAGGCCGT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 1 0.03
42 34 0.97
ACGTcount: A:0.22, C:0.27, G:0.26, T:0.26
Consensus pattern (42 bp):
CAAACCGTGTAACTCATTGACTTGGGACACACGGCCGTGTGC
Found at i:37051865 original size:21 final size:21
Alignment explanation
Indices: 37051839--37051879 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
37051829 CTCAGGGAAT
37051839 TTTTCCCAAAATCTCAAAAAA
1 TTTTCCCAAAATCTCAAAAAA
*
37051860 TTTTCCCAAAATCTCCAAAA
1 TTTTCCCAAAATCTCAAAAA
37051880 TCGGAGACAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (21 bp):
TTTTCCCAAAATCTCAAAAAA
Found at i:37054375 original size:7 final size:7
Alignment explanation
Indices: 37054363--37054416 Score: 108
Period size: 7 Copynumber: 7.7 Consensus size: 7
37054353 CATTTAACTC
37054363 ATAAATA
1 ATAAATA
37054370 ATAAATA
1 ATAAATA
37054377 ATAAATA
1 ATAAATA
37054384 ATAAATA
1 ATAAATA
37054391 ATAAATA
1 ATAAATA
37054398 ATAAATA
1 ATAAATA
37054405 ATAAATA
1 ATAAATA
37054412 ATAAA
1 ATAAA
37054417 ATTTTCAAAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 47 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
ATAAATA
Found at i:37059450 original size:45 final size:43
Alignment explanation
Indices: 37059366--37059497 Score: 128
Period size: 45 Copynumber: 3.0 Consensus size: 43
37059356 ACGATTTTCG
* * *
37059366 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGATGGCATCGAT
1 ATATGTG-ATTCGTGTAAGACCATGTCAGGGAC-ATGGCATCGAT
**
37059411 ATATGTGATTACGTGTAAGACCATGTCAATGACATTGGCATCG-T
1 ATATGTGATT-CGTGTAAGACCATGTCAGGGACA-TGGCATCGAT
* *
37059455 AT-T-TGATTCATGTAAGACC-TGTCCGGGACAGTGGCATCGAT
1 ATATGTGATTCGTGTAAGACCATGTCAGGGACA-TGGCATCGAT
37059496 AT
1 AT
37059498 GAGATAGCAT
Statistics
Matches: 74, Mismatches: 10, Indels: 10
0.79 0.11 0.11
Matches are distributed among these distances:
40 16 0.22
41 13 0.18
42 5 0.07
43 1 0.01
44 6 0.08
45 33 0.45
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (43 bp):
ATATGTGATTCGTGTAAGACCATGTCAGGGACATGGCATCGAT
Found at i:37065043 original size:21 final size:22
Alignment explanation
Indices: 37065018--37065075 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 22
37065008 ATGTCCCTAG
37065018 CCCACACGGGCGTGTGCCTCAT
1 CCCACACGGGCGTGTGCCTCAT
* * *
37065040 -CCACACGGCCATGTGCCTCCT
1 CCCACACGGGCGTGTGCCTCAT
*
37065061 CCCACATGGGCGTGT
1 CCCACACGGGCGTGT
37065076 TGACCCTCCA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
21 18 0.62
22 11 0.38
ACGTcount: A:0.14, C:0.41, G:0.26, T:0.19
Consensus pattern (22 bp):
CCCACACGGGCGTGTGCCTCAT
Found at i:37076013 original size:21 final size:22
Alignment explanation
Indices: 37075987--37076029 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
37075977 TGGGAATTTG
*
37075987 AAAATAAAA-AAATAAAAAAAT
1 AAAATAAAATAAACAAAAAAAT
37076008 AAAATAAAATAAACAAAAAAAT
1 AAAATAAAATAAACAAAAAAAT
37076030 TTCAACCCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.84, C:0.02, G:0.00, T:0.14
Consensus pattern (22 bp):
AAAATAAAATAAACAAAAAAAT
Found at i:37078565 original size:48 final size:48
Alignment explanation
Indices: 37078438--37078554 Score: 175
Period size: 48 Copynumber: 2.5 Consensus size: 48
37078428 TTTTAGGGTT
* * *
37078438 TAGGTTTAACCTAAACAAGTCACCAGACAC--TTATTCATTAATCATG
1 TAGGTTTAACCCAAACGAGTAACCAGACACTATTATTCATTAATCATG
* *
37078484 TAGGTTTAACCCAAACGGGTAACCAGACACTATTATTCATTATTCATG
1 TAGGTTTAACCCAAACGAGTAACCAGACACTATTATTCATTAATCATG
37078532 TAGGTTTAACCCAAACGAGTAAC
1 TAGGTTTAACCCAAACGAGTAAC
37078555 TAGGAACTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
46 26 0.41
48 37 0.59
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (48 bp):
TAGGTTTAACCCAAACGAGTAACCAGACACTATTATTCATTAATCATG
Found at i:37082845 original size:27 final size:28
Alignment explanation
Indices: 37082815--37082880 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
37082805 TGGCCATAAT
* *
37082815 TTTTTATAA-ATGAATATATTGTAATAC
1 TTTTTATAACAAGAATATATTATAATAC
37082842 TTTTT-TAGACTAAGAATATATTATAATAC
1 TTTTTATA-AC-AAGAATATATTATAATAC
37082871 -TTTTATAACA
1 TTTTTATAACA
37082881 TGTAAATTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
26 2 0.06
27 7 0.21
28 6 0.18
29 18 0.55
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (28 bp):
TTTTTATAACAAGAATATATTATAATAC
Found at i:37086408 original size:19 final size:17
Alignment explanation
Indices: 37086384--37086422 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
37086374 CTTATAAATA
*
37086384 AATATTA-TTTTTATAG
1 AATATTATTTTTTATAC
37086400 AATATTATTTTTTATAC
1 AATATTATTTTTTATAC
37086417 AATATT
1 AATATT
37086423 GGGGTGGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (17 bp):
AATATTATTTTTTATAC
Found at i:37087249 original size:20 final size:20
Alignment explanation
Indices: 37087214--37087264 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
37087204 TGGGTTTCTG
*
37087214 AGTGGTGGATGTGTAGTGGGA
1 AGTGG-GGAAGTGTAGTGGGA
37087235 AGTGGGGAAGTGTAGTGGGA
1 AGTGGGGAAGTGTAGTGGGA
37087255 AGTGGGGAAG
1 AGTGGGGAAG
37087265 CGATTTTAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 24 0.83
21 5 0.17
ACGTcount: A:0.24, C:0.00, G:0.55, T:0.22
Consensus pattern (20 bp):
AGTGGGGAAGTGTAGTGGGA
Found at i:37089502 original size:19 final size:18
Alignment explanation
Indices: 37089475--37089519 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
37089465 TAAAAAAACG
37089475 TTTGGAAATTGAATAATGA
1 TTTGGAAA-TGAATAATGA
*
37089494 TTTGTAAATGAATAATG-
1 TTTGGAAATGAATAATGA
37089511 TTTCGGAAA
1 TTT-GGAAA
37089520 CGAACGATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 3 0.13
18 13 0.57
19 7 0.30
ACGTcount: A:0.40, C:0.02, G:0.20, T:0.38
Consensus pattern (18 bp):
TTTGGAAATGAATAATGA
Found at i:37091392 original size:25 final size:25
Alignment explanation
Indices: 37091364--37091420 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
37091354 TTCTCGTTAT
* *
37091364 TGGCTCGTATGAGCTTCCCATTACA
1 TGGCTCGCATGAGATTCCCATTACA
* * *
37091389 TGGCTCACATGAGATTCCCGTTATA
1 TGGCTCGCATGAGATTCCCATTACA
37091414 TGGCTCG
1 TGGCTCG
37091421 AAAGAGGGCT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.32
Consensus pattern (25 bp):
TGGCTCGCATGAGATTCCCATTACA
Found at i:37099186 original size:24 final size:24
Alignment explanation
Indices: 37099159--37099216 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
37099149 GTCGCCTGAA
*
37099159 CTTCCCGTTATTGGCT-CGTATGAG
1 CTTCCCGTTATTGGCTCCCTA-GAG
*
37099183 CTTCCCGCTATTGGCTCCCTAGAG
1 CTTCCCGTTATTGGCTCCCTAGAG
*
37099207 TTTCCCGTTA
1 CTTCCCGTTA
37099217 CATGGGTCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 26 0.90
25 3 0.10
ACGTcount: A:0.12, C:0.31, G:0.21, T:0.36
Consensus pattern (24 bp):
CTTCCCGTTATTGGCTCCCTAGAG
Found at i:37100855 original size:34 final size:33
Alignment explanation
Indices: 37100796--37100862 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 33
37100786 ATACGTACGT
*
37100796 TTTTATAATATATATATACATATACATATATATA
1 TTTTATAATATACATATACA-ATACATATATATA
37100830 TTTTATAACTCATACATATAC-ATACATATATAT
1 TTTTATAA-T-ATACATATACAATACATATATAT
37100863 GTCTTTTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 20 0.67
35 1 0.03
36 9 0.30
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (33 bp):
TTTTATAATATACATATACAATACATATATATA
Found at i:37100870 original size:36 final size:34
Alignment explanation
Indices: 37100796--37100872 Score: 91
Period size: 36 Copynumber: 2.2 Consensus size: 34
37100786 ATACGTACGT
* *
37100796 TTTTATAATATATATATACATATACATATATATA
1 TTTTATAATATACATATACATACACATATATATA
* * *
37100830 TTTTATAACTCATACATATACATACATATATATGTC
1 TTTTATAA-T-ATACATATACATACACATATATATA
37100866 TTTTATA
1 TTTTATA
37100873 TTTTATAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
34 8 0.22
35 1 0.03
36 27 0.75
ACGTcount: A:0.42, C:0.10, G:0.01, T:0.47
Consensus pattern (34 bp):
TTTTATAATATACATATACATACACATATATATA
Found at i:37101078 original size:58 final size:56
Alignment explanation
Indices: 37100934--37101054 Score: 153
Period size: 58 Copynumber: 2.2 Consensus size: 56
37100924 CATACGTACG
* **
37100934 TATTTC-TAATT-TT-TATA-A-ACATGTATATACACATACTTTTATATATTTTTA
1 TATTTCATAATTCTTATATACATACATCTATATACACATACTTACATATATTTTTA
*
37100985 TATTTCATAATTCTTATATACATACATCTGTATATATACATACTTACATATATTTTTA
1 TATTTCATAATTCTTATATACATACATC--TATATACACATACTTACATATATTTTTA
37101043 TATTTCATAATT
1 TATTTCATAATT
37101055 TTAAAATATA
Statistics
Matches: 59, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
51 6 0.10
52 5 0.08
53 2 0.03
54 4 0.07
55 1 0.02
56 4 0.07
58 37 0.63
ACGTcount: A:0.36, C:0.12, G:0.02, T:0.51
Consensus pattern (56 bp):
TATTTCATAATTCTTATATACATACATCTATATACACATACTTACATATATTTTTA
Found at i:37107889 original size:24 final size:24
Alignment explanation
Indices: 37107835--37107895 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
37107825 TTTATGTCCC
* * *
37107835 AAAATTACAGTTGATTGAACTTTA
1 AAAATTACAGTGGATCGAACCTTA
*
37107859 AAAATTACAGTGGATCGAACCTTG
1 AAAATTACAGTGGATCGAACCTTA
* *
37107883 AAGATTAGAGTGG
1 AAAATTACAGTGG
37107896 GGGCAATCCG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.30
Consensus pattern (24 bp):
AAAATTACAGTGGATCGAACCTTA
Found at i:37108405 original size:132 final size:132
Alignment explanation
Indices: 37108254--37108709 Score: 680
Period size: 132 Copynumber: 3.4 Consensus size: 132
37108244 CGAAAGCACC
** * * *
37108254 AGTCCTATCTCCCTGAGCAGTGGTGGAGTAAGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGT
1 AGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAGATTGTAGATCTTGTCTCCCTAAGCAGT
* *
37108319 AGTGGAGTAGATCAAAGACAGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCA
66 AGTGGAGCAGATCAAAGACAGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCA
37108384 CT
131 CT
* * * *
37108386 AGTCCTATCTCCCTAAGCAGCAGTGGAGTAGGTTAAAGATTGCAGATCTTGTCTCTCTAAACAGT
1 AGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAGATTGTAGATCTTGTCTCCCTAAGCAGT
* * *
37108451 AGTGGAACAGATCAAAGACGGTGAATCTTATCTTCCCAAGGCAGTAGGGAAGCAGATTTAAGCCA
66 AGTGGAGCAGATCAAAGACAGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCA
37108516 CT
131 CT
* * * * *
37108518 AGTCATATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTTGTATATCATGTCTCCCTAAGTAG
1 AGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAGA-TTGTAGATCTTGTCTCCCTAAGCAG
*
37108583 TAGTGGAGCATATCAAAGACTA-TGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGC
65 TAGTGGAGCAGATCAAAGAC-AGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGC
*
37108647 CACC
129 CACT
* *
37108651 AGTCCTATCTCCCTGAGCAGTAGTGGAGTAGGTTAAAGATTGTAGATCTTGTCTTCCTA
1 AGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAGATTGTAGATCTTGTCTCCCTA
37108710 TACTGGCAGT
Statistics
Matches: 288, Mismatches: 34, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
132 171 0.59
133 117 0.41
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (132 bp):
AGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAGATTGTAGATCTTGTCTCCCTAAGCAGT
AGTGGAGCAGATCAAAGACAGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCA
CT
Found at i:37108700 original size:88 final size:88
Alignment explanation
Indices: 37108608--37108792 Score: 201
Period size: 88 Copynumber: 2.1 Consensus size: 88
37108598 AAGACTATGA
* * ** **
37108608 ATCTTATCTTCCCA-AGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTGAGCAGT
1 ATCTTATCTTCCCATA-CTAGCAGGGAAGCAGATCAAAAACACCAGTCCTATCTCCCTGAGCAGT
*
37108672 AGTGGAGTAGGTTAAAGATTGTAG
65 AATGGAGTAGGTTAAAGATTGTAG
* * * * ** * *
37108696 ATCTTGTCTTCCTATACTGGCAGTGAAGCAGATCAAAAACACTTGTCTTATCTCCTTGAGCAGTA
1 ATCTTATCTTCCCATACTAGCAGGGAAGCAGATCAAAAACACCAGTCCTATCTCCCTGAGCAGTA
*
37108761 ATGGAGTAGGTTGAAGATTGTAG
66 ATGGAGTAGGTTAAAGATTGTAG
*
37108784 ATCCTATCT
1 ATCTTATCT
37108793 CCCTAAAAAG
Statistics
Matches: 78, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
88 77 0.99
89 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (88 bp):
ATCTTATCTTCCCATACTAGCAGGGAAGCAGATCAAAAACACCAGTCCTATCTCCCTGAGCAGTA
ATGGAGTAGGTTAAAGATTGTAG
Found at i:37108747 original size:265 final size:263
Alignment explanation
Indices: 37108254--37108748 Score: 719
Period size: 265 Copynumber: 1.9 Consensus size: 263
37108244 CGAAAGCACC
* ** *
37108254 AGTCCTATCTCCCTGAGCAGTGGTGGAGTAAGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGT
1 AGTCATATCTCCCTGAGCAGCAGTGGAGTAAGTTGAAGATTGTAGATCATGTCTCCCTAAGCAGT
*
37108319 AGTGGAGTAGATCAAAGACAGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCA
66 AGTGGAGCAGATCAAAGACAGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCA
*
37108384 CTAGTCCTATCTCCCTAAGCAGCAGTGGAGTAGGTTAAAGATTGCAGATCTTGTCTCTCTAAACA
131 CCAGTCCTATCTCCCTAAGCAGCAGTGGAGTAGGTTAAAGATTGCAGATCTTGTCTCTCTAAACA
* * *
37108449 GTAGTGGAACAGATCAAAGACGGTGAATCTTATCTTCCCAAGGCAGTAGGGAAGCAGATTTAAGC
196 GCAGTGGAACAGATCAAAAACCGTG-ATCTTATCTTCCCAAGGCAGTAGGGAAGCAGATTTAAGC
37108514 CACT
260 CACT
* * *
37108518 AGTCATATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTTGTATATCATGTCTCCCTAAGTAG
1 AGTCATATCTCCCTGAGCAGCAGTGGAGTAAGTTGAAGA-TTGTAGATCATGTCTCCCTAAGCAG
* *
37108583 TAGTGGAGCATATCAAAGACTA-TGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGC
65 TAGTGGAGCAGATCAAAGAC-AGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGC
* * * *
37108647 CACCAGTCCTATCTCCCTGAGCAGTAGTGGAGTAGGTTAAAGATTGTAGATCTTGTCT-TCCTAT
129 CACCAGTCCTATCTCCCTAAGCAGCAGTGGAGTAGGTTAAAGATTGCAGATCTTGTCTCT-CTAA
* *
37108711 ACTGGCAGT-GAAGCAGATCAAAAACACTTG-TCTTATCT
193 AC-AGCAGTGGAA-CAGATCAAAAAC-CGTGATCTTATCT
37108749 CCTTGAGCAG
Statistics
Matches: 205, Mismatches: 20, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
264 36 0.18
265 151 0.74
266 16 0.08
267 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (263 bp):
AGTCATATCTCCCTGAGCAGCAGTGGAGTAAGTTGAAGATTGTAGATCATGTCTCCCTAAGCAGT
AGTGGAGCAGATCAAAGACAGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCA
CCAGTCCTATCTCCCTAAGCAGCAGTGGAGTAGGTTAAAGATTGCAGATCTTGTCTCTCTAAACA
GCAGTGGAACAGATCAAAAACCGTGATCTTATCTTCCCAAGGCAGTAGGGAAGCAGATTTAAGCC
ACT
Found at i:37108836 original size:88 final size:88
Alignment explanation
Indices: 37108656--37108815 Score: 205
Period size: 88 Copynumber: 1.8 Consensus size: 88
37108646 CCACCAGTCC
* * * * ***
37108656 TATCTCCCTGAGCAGTAGTGGAGTAGGTTAAAGATTGTAGATCTTGTCTTCCTATACTGGCAGTG
1 TATCTCCCTGAGCAGTAATGGAGTAGGTTAAAGATTGTAGATCCTATCTCCCTATAAAAGCAGTG
*
37108721 AAGCAGATCAAAAACACTTGTCT
66 AAGCAGATCAAAAACACGTGTCT
* * *
37108744 TATCTCCTTGAGCAGTAATGGAGTAGGTTGAAGATTGTAGATCCTATCTCCCTA-AAAAGTAGTG
1 TATCTCCCTGAGCAGTAATGGAGTAGGTTAAAGATTGTAGATCCTATCTCCCTATAAAAGCAGTG
*
37108808 GAGCAGAT
66 AAGCAGAT
37108816 TAAAGACGGT
Statistics
Matches: 61, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
87 13 0.21
88 48 0.79
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (88 bp):
TATCTCCCTGAGCAGTAATGGAGTAGGTTAAAGATTGTAGATCCTATCTCCCTATAAAAGCAGTG
AAGCAGATCAAAAACACGTGTCT
Found at i:37108855 original size:220 final size:221
Alignment explanation
Indices: 37108514--37108929 Score: 629
Period size: 220 Copynumber: 1.9 Consensus size: 221
37108504 AGATTTAAGC
* * *
37108514 CACTAGTCATATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTTGTATATCATGTCTCCCTAA
1 CACTAGTCATATCTCCCTGAGCAGCAATGGAGTAGGTTGAAGATTTGTAGATCATATCTCCCTAA
** * * *
37108579 GTAGTAGTGGAGCATATCAAAGACTATGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTA
66 AAAGTAGTGGAGCAGATCAAAGACGATGAATCTTATCTTCCCAAGATAGTAGGGAAGCAGATTTA
* ** * *
37108644 AGCCACCAGTCCTATCTCCCTG-AGCAGTAGTGGAGTAGGTTAAAGATTGTAGATCTTGTCTTCC
131 AGCCACCAGTCCTATCTCCC-GAAGCAGCAGTGGAGTAGGTTAAAGATTACAGATCCTGTCTCCC
37108708 TATACTGGCAGTGAAGCAGATCAAAAA
195 TATACTGGCAGTGAAGCAGATCAAAAA
* * * * *
37108735 CACTTGTCTTATCTCCTTGAGCAGTAATGGAGTAGGTTGAAGA-TTGTAGATCCTATCTCCCTAA
1 CACTAGTCATATCTCCCTGAGCAGCAATGGAGTAGGTTGAAGATTTGTAGATCATATCTCCCTAA
* *
37108799 AAAGTAGTGGAGCAGATTAAAGACGGTGAATCTTATCTTCCCAAGATAGTAGGGAAGCAGATTTA
66 AAAGTAGTGGAGCAGATCAAAGACGATGAATCTTATCTTCCCAAGATAGTAGGGAAGCAGATTTA
37108864 AGCCACCAGTCCTATCTCCCGAAGCAGCAGTGGAGTAGGTTAAAGATTACAGATCCTGTCTCCCT
131 AGCCACCAGTCCTATCTCCCGAAGCAGCAGTGGAGTAGGTTAAAGATTACAGATCCTGTCTCCCT
37108929 A
196 A
37108930 AGAACTAGTA
Statistics
Matches: 174, Mismatches: 20, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
219 1 0.01
220 135 0.78
221 38 0.22
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (221 bp):
CACTAGTCATATCTCCCTGAGCAGCAATGGAGTAGGTTGAAGATTTGTAGATCATATCTCCCTAA
AAAGTAGTGGAGCAGATCAAAGACGATGAATCTTATCTTCCCAAGATAGTAGGGAAGCAGATTTA
AGCCACCAGTCCTATCTCCCGAAGCAGCAGTGGAGTAGGTTAAAGATTACAGATCCTGTCTCCCT
ATACTGGCAGTGAAGCAGATCAAAAA
Found at i:37109401 original size:45 final size:45
Alignment explanation
Indices: 37109336--37109423 Score: 131
Period size: 45 Copynumber: 2.0 Consensus size: 45
37109326 GGATTGAAGC
** *
37109336 TACAAGTCATATCTTTCTGAAGTTACAGTGGAACAGACTGAAGAA
1 TACAAGTCATATCTCCCTGAAGTTACAATGGAACAGACTGAAGAA
* *
37109381 TACAAGTCTTATCTCCCTGAAGTTGCAATGGAACAGACTGAAG
1 TACAAGTCATATCTCCCTGAAGTTACAATGGAACAGACTGAAG
37109424 CTACTGATCC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.26
Consensus pattern (45 bp):
TACAAGTCATATCTCCCTGAAGTTACAATGGAACAGACTGAAGAA
Found at i:37111342 original size:26 final size:26
Alignment explanation
Indices: 37111313--37111395 Score: 67
Period size: 26 Copynumber: 3.0 Consensus size: 26
37111303 ACACATACTT
37111313 TTATATATTTTTATATTTCATAATTC
1 TTATATATTTTTATATTTCATAATTC
** * * *
37111339 TTATATACATATATATGTATATATACATAC
1 TTATATATTTTTATAT-T-T-CATA-ATTC
37111369 TTACATATATTTTTATATTTCATAATT
1 TT--ATATATTTTTATATTTCATAATT
37111396 TTAAAATATA
Statistics
Matches: 41, Mismatches: 10, Indels: 10
0.67 0.16 0.16
Matches are distributed among these distances:
26 13 0.32
27 1 0.02
28 3 0.07
29 6 0.15
30 6 0.15
31 1 0.02
32 11 0.27
ACGTcount: A:0.36, C:0.08, G:0.01, T:0.54
Consensus pattern (26 bp):
TTATATATTTTTATATTTCATAATTC
Found at i:37111409 original size:58 final size:58
Alignment explanation
Indices: 37111295--37111409 Score: 171
Period size: 58 Copynumber: 2.0 Consensus size: 58
37111285 TTTTATAAAC
** *
37111295 ATGTATATACACATACTTTTATATATTTTTATATTTCATAATTCTTATATACATATAT
1 ATGTATATACACATACTTACATATATTTTTATATTTCATAATTCTTAAATACATATAT
* *
37111353 ATGTATATATACATACTTACATATATTTTTATATTTCATAATT-TTAAA-ATATATAT
1 ATGTATATACACATACTTACATATATTTTTATATTTCATAATTCTTAAATACATATAT
37111409 A
1 A
37111410 CATACATATA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
56 8 0.15
57 4 0.08
58 40 0.77
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (58 bp):
ATGTATATACACATACTTACATATATTTTTATATTTCATAATTCTTAAATACATATAT
Found at i:37111450 original size:37 final size:40
Alignment explanation
Indices: 37111408--37111485 Score: 99
Period size: 42 Copynumber: 2.0 Consensus size: 40
37111398 AAAATATATA
37111408 TACAT-ACATATAT-TCTTCGT-ATTTTTATAATTTTATG
1 TACATAACATATATGTCTTCGTAATTTTTATAATTTTATG
**
37111445 TACATACACATATATGTCTTTTTACATTTTTATAATTTTAT
1 TACATA-ACATATATGTCTTCGTA-ATTTTTATAATTTTAT
37111486 TCATTTCGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
37 5 0.15
39 8 0.24
40 5 0.15
42 16 0.47
ACGTcount: A:0.31, C:0.12, G:0.04, T:0.54
Consensus pattern (40 bp):
TACATAACATATATGTCTTCGTAATTTTTATAATTTTATG
Found at i:37124337 original size:17 final size:18
Alignment explanation
Indices: 37124315--37124359 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
37124305 TTGTTATATC
*
37124315 TGTATATGTGATG-TATT
1 TGTATATGTGATGAGATT
* *
37124332 TGTATATGGGGTGAGATT
1 TGTATATGTGATGAGATT
37124350 TGTATATGTG
1 TGTATATGTG
37124360 GAGAAAGTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (18 bp):
TGTATATGTGATGAGATT
Found at i:37124528 original size:21 final size:21
Alignment explanation
Indices: 37124504--37124545 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
37124494 GGATGGTCGA
*
37124504 AGATAGTGTGTAGAGGATAGG
1 AGATAGTGTGTAGAAGATAGG
37124525 AGATAGTGTGTAGAAGATAGG
1 AGATAGTGTGTAGAAGATAGG
37124546 GGTAGGACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.40, T:0.24
Consensus pattern (21 bp):
AGATAGTGTGTAGAAGATAGG
Found at i:37126646 original size:25 final size:25
Alignment explanation
Indices: 37126618--37126669 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
37126608 TTCATTTATA
37126618 TTTCACCAGTCCCGTCTGTTTAAGT
1 TTTCACCAGTCCCGTCTGTTTAAGT
37126643 TTTCACCAGTCCCGTCTGTTTAAGT
1 TTTCACCAGTCCCGTCTGTTTAAGT
37126668 TT
1 TT
37126670 ACTGATTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.15, C:0.27, G:0.15, T:0.42
Consensus pattern (25 bp):
TTTCACCAGTCCCGTCTGTTTAAGT
Found at i:37128278 original size:61 final size:60
Alignment explanation
Indices: 37128213--37128422 Score: 155
Period size: 61 Copynumber: 3.5 Consensus size: 60
37128203 TTATAGTATC
* *
37128213 ATATATTATGATTTTAATAAATTTATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATAATTATAATAAATTTA-ATAAGAATATTGATTATTAAGAATTTTATTAAATT
* * * * ** * *
37128274 ATATATTTTAATTAAAATATATTTAATAATAAT-TATG-TTA--AATTATCTTT-TATAGTATC
1 ATATATTATAATTATAATAAATTTAATAAGAATAT-TGATTATTAAGAAT-TTTAT-TA-AATT
* * * *
37128333 ATATATTATGATT-TGAGT-AATTTCATATAAGAATATTAATTATTAGGAATTTTATTAAATT
1 ATATATTATAATTAT-AATAAATTT-A-ATAAGAATATTGATTATTAAGAATTTTATTAAATT
* *
37128394 ATATATTTTAATTATAATATATTTAATAA
1 ATATATTATAATTATAATAAATTTAATAA
37128423 TAATTATGCT
Statistics
Matches: 109, Mismatches: 26, Indels: 29
0.66 0.16 0.18
Matches are distributed among these distances:
57 5 0.05
58 9 0.08
59 20 0.18
60 21 0.19
61 40 0.37
62 10 0.09
63 4 0.04
ACGTcount: A:0.43, C:0.01, G:0.06, T:0.50
Consensus pattern (60 bp):
ATATATTATAATTATAATAAATTTAATAAGAATATTGATTATTAAGAATTTTATTAAATT
Found at i:37128289 original size:18 final size:17
Alignment explanation
Indices: 37128261--37128295 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
37128251 ATTATTAAGA
*
37128261 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
37128278 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
37128296 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:37128406 original size:120 final size:121
Alignment explanation
Indices: 37128193--37128437 Score: 413
Period size: 120 Copynumber: 2.0 Consensus size: 121
37128183 TTTTGACAAG
* *
37128193 AAATTATATTTTATAGTATCATATATTATGATTTTAATAAATTTATATAAGAATATTGATTATTA
1 AAATTATATTTTATAGTATCATATATTATGATTTGAATAAATTTATATAAGAATATTAATTATTA
37128258 AGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-TT
66 AGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGCTT
* *
37128313 AAATTATCTTTTATAGTATCATATATTATGATTTGAGT-AATTTCATATAAGAATATTAATTATT
1 AAATTATATTTTATAGTATCATATATTATGATTTGAATAAATTT-ATATAAGAATATTAATTATT
* *
37128377 AGGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGCTT
65 AAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGCTT
37128434 AAAT
1 AAAT
37128438 ATGATTAAAT
Statistics
Matches: 117, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
119 5 0.04
120 106 0.91
121 6 0.05
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (121 bp):
AAATTATATTTTATAGTATCATATATTATGATTTGAATAAATTTATATAAGAATATTAATTATTA
AGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGCTT
Found at i:37128420 original size:15 final size:15
Alignment explanation
Indices: 37128385--37128426 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
37128375 TTAGGAATTT
*
37128385 TATTAAATTAT-ATA
1 TATTTAATTATAATA
37128399 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
37128413 TATTTAATAATAAT
1 TATTTAATTATAAT
37128427 TATGCTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:37128530 original size:157 final size:157
Alignment explanation
Indices: 37128369--37128685 Score: 564
Period size: 157 Copynumber: 2.0 Consensus size: 157
37128359 ATAAGAATAT
* *
37128369 TAATTATTAGGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGCTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGCTT
*
37128434 AAATATGATTAAATTATTTATTATTGA-ATGTAATAATCTTATTAAAATTTAAATAACAATAACA
66 AAATATGATTAAATTATTTATTATTGATA-ATAATAATCTTATTAAAATTTAAATAACAATAACA
*
37128498 ATAATAATTTACCAAAACAAATTTCTGC
130 ATAATAATTTACCAAAACAAATTTATGC
*
37128526 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGCTT
37128591 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
37128656 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
37128683 TAA
1 TAA
37128686 GGGTATTCTA
Statistics
Matches: 153, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
157 152 0.99
158 1 0.01
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGCTT
AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:37128566 original size:18 final size:17
Alignment explanation
Indices: 37128538--37128572 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
37128528 ATTATTAAGA
*
37128538 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
37128555 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
37128573 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:37128762 original size:39 final size:40
Alignment explanation
Indices: 37128719--37128823 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
37128709 TTCCATTATG
37128719 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
37128758 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
37128803 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
37128824 ACACCTCTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:37128817 original size:45 final size:44
Alignment explanation
Indices: 37128717--37128826 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
37128707 TTTTCCATTA
37128717 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
37128756 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
37128801 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
37128827 CCTCTAATCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:37128826 original size:16 final size:16
Alignment explanation
Indices: 37128807--37128858 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
37128797 GATTTGCTAT
* *
37128807 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
37128823 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
37128839 TACACATCTAATCCAA
1 TACACCTCTAATCCAA
37128855 TACA
1 TACA
37128859 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:37129538 original size:21 final size:20
Alignment explanation
Indices: 37129497--37129536 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
37129487 CCGAATATGA
37129497 TAAATATATTTTTTTTATTT
1 TAAATATATTTTTTTTATTT
*
37129517 TAAA-ATACTTTTTTTATTT
1 TAAATATATTTTTTTTATTT
37129536 T
1 T
37129537 TTTATTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (20 bp):
TAAATATATTTTTTTTATTT
Found at i:37129557 original size:27 final size:27
Alignment explanation
Indices: 37129506--37129558 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
37129496 ATAAATATAT
**
37129506 TTTTTTTATTTTAAAATACTTTTTTTA
1 TTTTTTTATTTTAAAATACAATTTTTA
37129533 TTTTTTTATTTTTAAAATA-AATTTTT
1 TTTTTTTA-TTTTAAAATACAATTTTT
37129559 GGTGTTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (27 bp):
TTTTTTTATTTTAAAATACAATTTTTA
Found at i:37129557 original size:28 final size:27
Alignment explanation
Indices: 37129506--37129558 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
37129496 ATAAATATAT
**
37129506 TTTTTTTATTTTAAAATACTTTTTTTA
1 TTTTTTTATTTTAAAATAAATTTTTTA
37129533 TTTTTTTATTTTTAAAATAAATTTTT
1 TTTTTTTA-TTTTAAAATAAATTTTT
37129559 GGTGTTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (27 bp):
TTTTTTTATTTTAAAATAAATTTTTTA
Found at i:37130856 original size:6 final size:6
Alignment explanation
Indices: 37130845--37130869 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
37130835 AGGTTTCCAT
37130845 AAATGA AAATGA AAATGA AAATGA A
1 AAATGA AAATGA AAATGA AAATGA A
37130870 GAGAATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
AAATGA
Found at i:37133601 original size:3 final size:3
Alignment explanation
Indices: 37133593--37133632 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
37133583 ACATTGGTTA
37133593 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
37133633 TAGTTGAGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:37133820 original size:21 final size:21
Alignment explanation
Indices: 37133774--37133820 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
37133764 AGTCAAATAT
*
37133774 TTTTAATTGATTCGATTTTAA
1 TTTTAATTGATTCGACTTTAA
*
37133795 ATTTAATTGATTCGAACTTT-A
1 TTTTAATTGATTCG-ACTTTAA
37133816 TTTTA
1 TTTTA
37133821 TTAATATTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.30, C:0.06, G:0.09, T:0.55
Consensus pattern (21 bp):
TTTTAATTGATTCGACTTTAA
Found at i:37134565 original size:31 final size:31
Alignment explanation
Indices: 37134529--37134592 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
37134519 CCCAACATTT
*
37134529 TTTTAAAACAATTTCATTAAA-CTCC-TAAAAC
1 TTTTAAAA-AATTT-ACTAAATCTCCTTAAAAC
*
37134560 TTTTAAAAACTTTACTAAATCTCCTTAAAAC
1 TTTTAAAAAATTTACTAAATCTCCTTAAAAC
37134591 TT
1 TT
37134593 GATCCCAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 5 0.17
30 8 0.28
31 16 0.55
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.39
Consensus pattern (31 bp):
TTTTAAAAAATTTACTAAATCTCCTTAAAAC
Found at i:37135728 original size:17 final size:17
Alignment explanation
Indices: 37135700--37135741 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
37135690 AAAATACCTA
37135700 ATTATA-TTTTACTACT
1 ATTATATTTTTACTACT
*
37135716 ATTATATTTTTACTTCT
1 ATTATATTTTTACTACT
*
37135733 ATTAAATTT
1 ATTATATTT
37135742 CTAAATATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 6 0.26
17 17 0.74
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTATATTTTTACTACT
Found at i:37136085 original size:18 final size:18
Alignment explanation
Indices: 37136062--37136098 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
37136052 GAAAAGTAAG
37136062 TCATTTTCTATAATTCAT
1 TCATTTTCTATAATTCAT
*
37136080 TCATTTTTTATAATTCAT
1 TCATTTTCTATAATTCAT
37136098 T
1 T
37136099 TTCCGGCAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.14, G:0.00, T:0.59
Consensus pattern (18 bp):
TCATTTTCTATAATTCAT
Found at i:37139157 original size:57 final size:57
Alignment explanation
Indices: 37139069--37139224 Score: 235
Period size: 57 Copynumber: 2.7 Consensus size: 57
37139059 CAACCTTAAA
* *
37139069 ATTCAAAATGTGGTTGCAAAATTTGACCTTTATTTTGTTTTTCACCATTATAAGTTT
1 ATTCAAAATGTGATTGCAAAATTTGACCTTTATTTTGTTTTTCACCATTATAAGCTT
*
37139126 ATTCAAAATGTGATTGCAAAATTTTG-CCTTTATTTTGTTTTTCACCTTTATAAGCTT
1 ATTCAAAATGTGATTGCAAAA-TTTGACCTTTATTTTGTTTTTCACCATTATAAGCTT
* *
37139183 ATTCAAAA-ATGACTGCAAAATTTGACCTTTATTTTTGTTTTT
1 ATTCAAAATGTGATTGCAAAATTTGACCTTTA-TTTTGTTTTT
37139225 GTTTTTACCA
Statistics
Matches: 91, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
55 4 0.04
56 16 0.18
57 67 0.74
58 4 0.04
ACGTcount: A:0.28, C:0.13, G:0.11, T:0.48
Consensus pattern (57 bp):
ATTCAAAATGTGATTGCAAAATTTGACCTTTATTTTGTTTTTCACCATTATAAGCTT
Done.