Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 58 of 356
Found at i:18767253 original size:16 final size:16
Alignment explanation
Indices: 18767232--18767263 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
18767222 CTATTCTTAC
18767232 TGTTATTATCATCACT
1 TGTTATTATCATCACT
*
18767248 TGTTATTCTCATCACT
1 TGTTATTATCATCACT
18767264 ATCATGCACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (16 bp):
TGTTATTATCATCACT
Found at i:18768930 original size:26 final size:26
Alignment explanation
Indices: 18768893--18768952 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
18768883 CTCAAAAAAA
18768893 AAAAAGAAAAATCCCCTCTTGAATCTC
1 AAAAA-AAAAATCCCCTCTTGAATCTC
* *
18768920 AAAAAAAAAATCTCTTCTTGAATCTC
1 AAAAAAAAAATCCCCTCTTGAATCTC
18768946 AAAAAAA
1 AAAAAAA
18768953 TCTCTTCTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 26 0.84
27 5 0.16
ACGTcount: A:0.52, C:0.20, G:0.05, T:0.23
Consensus pattern (26 bp):
AAAAAAAAAATCCCCTCTTGAATCTC
Found at i:18768953 original size:23 final size:24
Alignment explanation
Indices: 18768899--18768960 Score: 81
Period size: 26 Copynumber: 2.5 Consensus size: 24
18768889 AAAAAAAAAG
* *
18768899 AAAAATCCCCTCTTGAATCTCAAAAA
1 AAAAATCTCTTCTTGAATCTC--AAA
18768925 AAAAATCTCTTCTTGAATCTC-AA
1 AAAAATCTCTTCTTGAATCTCAAA
18768948 AAAAATCTCTTCT
1 AAAAATCTCTTCT
18768961 CTCCAAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 15 0.44
26 19 0.56
ACGTcount: A:0.42, C:0.24, G:0.03, T:0.31
Consensus pattern (24 bp):
AAAAATCTCTTCTTGAATCTCAAA
Found at i:18773255 original size:32 final size:32
Alignment explanation
Indices: 18773189--18773259 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
18773179 ATAGCATTGT
* * *
18773189 TCAAATTGAATGTAATTAAAATTAAATCGAGA
1 TCAAATTAAATGTAATTAAAACTAAATCAAGA
*
18773221 TCAAATTAAAT-TAATTAAAACTAAATTAAGGA
1 TCAAATTAAATGTAATTAAAACTAAATCAA-GA
18773253 TCAAATT
1 TCAAATT
18773260 CCATAAGAGG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 15 0.44
32 19 0.56
ACGTcount: A:0.52, C:0.07, G:0.08, T:0.32
Consensus pattern (32 bp):
TCAAATTAAATGTAATTAAAACTAAATCAAGA
Found at i:18780664 original size:3 final size:3
Alignment explanation
Indices: 18780656--18780689 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
18780646 TTACTAGATC
18780656 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
18780690 AATAAAATAA
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:18781939 original size:40 final size:41
Alignment explanation
Indices: 18781823--18781939 Score: 166
Period size: 40 Copynumber: 2.9 Consensus size: 41
18781813 CCTTCTCGAG
18781823 AATTAAAAGTGAATAGGATTTATTCCTGATTCACTA-AAAGA
1 AATT-AAAGTGAATAGGATTTATTCCTGATTCACTATAAAGA
* *
18781864 AATTAAAGTGAATAGGATTTATTCTTGATTCACTATAAATA
1 AATTAAAGTGAATAGGATTTATTCCTGATTCACTATAAAGA
* * *
18781905 TA-TAAAGTGGATAGGATTTGTTCCTGATTCACTAT
1 AATTAAAGTGAATAGGATTTATTCCTGATTCACTAT
18781940 GGTAACTTAA
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
40 60 0.87
41 9 0.13
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.37
Consensus pattern (41 bp):
AATTAAAGTGAATAGGATTTATTCCTGATTCACTATAAAGA
Found at i:18781955 original size:40 final size:38
Alignment explanation
Indices: 18781823--18781963 Score: 147
Period size: 40 Copynumber: 3.5 Consensus size: 38
18781813 CCTTCTCGAG
* *
18781823 AATTAAAAGTGAATAGGATTTATTCCTGATTCACTAAAAGA
1 AATT-AAAGTGGATAGGATTTATTCCTGATTCACT--ATGA
* * *
18781864 AATTAAAGTGAATAGGATTTATTCTTGATTCACTATAA
1 AATTAAAGTGGATAGGATTTATTCCTGATTCACTATGA
*
18781902 ATATATAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTA
1 A-AT-TAAAGTGGATAGGATTTATTCCTGATTCACTAT-G-A
* *
18781944 ACTTAAGGTGGATAGGATTT
1 AATTAAAGTGGATAGGATTT
18781964 TCCCTAAAAT
Statistics
Matches: 87, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
38 3 0.03
39 2 0.02
40 75 0.86
41 5 0.06
42 2 0.02
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.36
Consensus pattern (38 bp):
AATTAAAGTGGATAGGATTTATTCCTGATTCACTATGA
Found at i:18784590 original size:57 final size:58
Alignment explanation
Indices: 18784494--18784635 Score: 148
Period size: 57 Copynumber: 2.5 Consensus size: 58
18784484 CATGTATACA
* * * * * * *
18784494 ATAGGATTACCAGTTCAGGCTAAAT-CATTTTTATGACATATGCTCTA-AGGAGCTTGAT
1 ATAGGATTACCCGTCCGGGCTAAATCCATATTTATAACATACGCTCGAGAGGA-CTT-AT
*
18784552 CT-GGATTACCCGTCCGGGCTAAATCCA-ATTTATAACATACGCTCGAGAGGACTTAT
1 ATAGGATTACCCGTCCGGGCTAAATCCATATTTATAACATACGCTCGAGAGGACTTAT
*
18784608 ATAAGGATTACCCGTCCGAGCTAAATCC
1 AT-AGGATTACCCGTCCGGGCTAAATCC
18784636 TTTCTATCAT
Statistics
Matches: 70, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
56 3 0.04
57 37 0.53
58 30 0.43
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (58 bp):
ATAGGATTACCCGTCCGGGCTAAATCCATATTTATAACATACGCTCGAGAGGACTTAT
Found at i:18787797 original size:18 final size:17
Alignment explanation
Indices: 18787774--18787812 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
18787764 CGTGTAGCTT
18787774 GCCCGTATAGGCCCACAC
1 GCCCGTAT-GGCCCACAC
* *
18787792 GCCCGTGTGGCCCACAT
1 GCCCGTATGGCCCACAC
18787809 GCCC
1 GCCC
18787813 AGATTGGCCT
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:0.15, C:0.46, G:0.26, T:0.13
Consensus pattern (17 bp):
GCCCGTATGGCCCACAC
Found at i:18798188 original size:25 final size:25
Alignment explanation
Indices: 18798160--18798238 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
18798150 CTAATGGCCG
18798160 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
18798185 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
18798207 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
18798232 ATGTGAT
1 ATGTGAT
18798239 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:18798199 original size:47 final size:47
Alignment explanation
Indices: 18798109--18799050 Score: 1600
Period size: 47 Copynumber: 19.8 Consensus size: 47
18798099 ATTTAGGATT
*
18798109 CGATGTGATGAATGTGAAAGTGTGTATATATGTGATAATGCCTAATGGC
1 CGATGTGATGAATGTGAAA--GTGTATATATGTGATAAGGCCTAATGGC
18798158 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
18798205 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
18798252 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
18798301 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
18798348 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
18798397 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
18798444 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
*
18798493 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTACTGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
* *
18798542 CGATGTGATGAATTTGAAAGTGTATATATGTGACAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
*
18798589 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAAGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
18798636 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
18798685 CGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAA--GTGTATATATGTGATAAGGCCTAATGGC
*
18798734 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
18798781 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
18798828 CGATGTGATGAATGTGAAAGTGTATATA--TGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
*
18798873 CGATGTGATTAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
*
18798920 CGATGTGATTAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * * *
18798967 CGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * * *
18799014 CAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
18799051 TCCCGAAGGG
Statistics
Matches: 858, Mismatches: 23, Indels: 26
0.95 0.03 0.03
Matches are distributed among these distances:
45 44 0.05
47 517 0.60
49 294 0.34
51 3 0.00
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (47 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
Found at i:18798219 original size:96 final size:94
Alignment explanation
Indices: 18798109--18799050 Score: 1600
Period size: 96 Copynumber: 9.9 Consensus size: 94
18798099 ATTTAGGATT
*
18798109 CGATGTGATGAATGTGAAAGTGTGTATATATGTGATAATGCCTAATGGCCGATGTGATGAATGTG
1 CGATGTGATGAATGTGAAA--GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
18798174 AAAGTGTATATATGTGATAAGGCCTAATGGC
64 AAAGTGTATATATGTGATAAGGCCTAATGGC
18798205 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
18798270 AGTGTATATATATGTGATAAGGCCTAATGGC
66 AGTG--TATATATGTGATAAGGCCTAATGGC
18798301 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
18798366 AGTGTATATATATGTGATAAGGCCTAATGGC
66 AGTG--TATATATGTGATAAGGCCTAATGGC
18798397 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
18798462 AGTGTATATATATGTGATAAGGCCTAATGGC
66 AGTG--TATATATGTGATAAGGCCTAATGGC
* *
18798493 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTACTGGCCGATGTGATGAATTTG
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
18798558 AAAGTGTATATATGTGACAAGGCCTAATGGC
64 AAAGTGTATATATGTGATAAGGCCTAATGGC
*
18798589 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAAGCCTAATGGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
18798654 AGTGTATATATATGTGATAAGGCCTAATGGC
66 AGTG--TATATATGTGATAAGGCCTAATGGC
18798685 CGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 CGATGTGATGAATGTGAAA--GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
18798750 AAAGTGTATATATGTGATAAGGCCTAATAGC
64 AAAGTGTATATATGTGATAAGGCCTAATGGC
18798781 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
18798846 AGTGTATATA--TGATAAGGCCTAATGGC
66 AGTGTATATATGTGATAAGGCCTAATGGC
* *
18798873 CGATGTGATTAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATTAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
18798938 AGTGTATATATGTGATAAGGCCTAATGGC
66 AGTGTATATATGTGATAAGGCCTAATGGC
* * * * * * *
18798967 CGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
18799032 AGTGTATAAATGTGATAAG
66 AGTGTATATATGTGATAAG
18799051 TCCCGAAGGG
Statistics
Matches: 813, Mismatches: 23, Indels: 22
0.95 0.03 0.03
Matches are distributed among these distances:
92 89 0.11
94 240 0.30
96 390 0.48
98 94 0.12
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (94 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
AGTGTATATATGTGATAAGGCCTAATGGC
Found at i:18799225 original size:37 final size:37
Alignment explanation
Indices: 18799169--18799247 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
18799159 CCGAGCTCTA
* * *
18799169 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
18799206 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
18799243 AAGAC
1 AAGAC
18799248 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:18800784 original size:40 final size:40
Alignment explanation
Indices: 18800461--18800772 Score: 471
Period size: 40 Copynumber: 7.8 Consensus size: 40
18800451 GAGAATTGAG
* * *
18800461 AGTGATGTATCCGGGCTAATTCCCGAAGAGCATTCGTGGT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
18800501 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
*
18800541 AGTAATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
18800581 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
18800621 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
*
18800661 AGTAATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
* * * ** * *
18800701 AGTGATATATCTGTGCTAAACCCCGAAAAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
* * * * *
18800741 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCA
18800773 ATCATGCTGG
Statistics
Matches: 250, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 250 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
Found at i:18804710 original size:47 final size:47
Alignment explanation
Indices: 18804620--18805465 Score: 1408
Period size: 47 Copynumber: 17.8 Consensus size: 47
18804610 ATTTAGGATT
18804620 CGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAA--GTGTATATATGTGATAAGGCCTAATGGC
18804669 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
18804716 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
*
18804765 CGATGTGATGAATGTGAAAGTGTATATATATGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
18804812 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
18804859 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
*
18804908 CGATGTGATGAATGTGAAAGTGTATATATATGTGGTAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
* *
18804957 CGATGTGATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATAGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
*
18805004 CGATGTGATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
*
18805051 CGATGTGATGAATGTGAAAGTGTATATATATTTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
18805100 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
*
18805147 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTACTGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
* *
18805196 CGATGTGATGAATGTGGAAGTGTATATATGTGATAAGGCCTAATAGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
18805243 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
*
18805290 CAATGTGATGAATGTGAAAGTGTATATA--TGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
18805335 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * * *
18805382 CGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * * *
18805429 CAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
18805466 TTTCGAAGGG
Statistics
Matches: 759, Mismatches: 28, Indels: 22
0.94 0.03 0.03
Matches are distributed among these distances:
45 44 0.06
47 464 0.61
49 251 0.33
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.30
Consensus pattern (47 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
Found at i:18804730 original size:96 final size:94
Alignment explanation
Indices: 18804620--18805465 Score: 1408
Period size: 96 Copynumber: 8.9 Consensus size: 94
18804610 ATTTAGGATT
18804620 CGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 CGATGTGATGAATGTGAAA--GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
18804685 AAAGTGTATATATGTGATAAGGCCTAATGGC
64 AAAGTGTATATATGTGATAAGGCCTAATGGC
18804716 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
18804781 AAAGTGTATATATATGATAAGGCCTAATGGC
64 AAAGTGTATATATGTGATAAGGCCTAATGGC
18804812 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
18804877 AGTGTATATATATGTGATAAGGCCTAATGGC
66 AGTG--TATATATGTGATAAGGCCTAATGGC
*
18804908 CGATGTGATGAATGTGAAAGTGTATATATATGTGGTAAGGCCTAATGGCCGATGTGATGAATGTG
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
* *
18804973 AAGGTGTATATATGTGATAAGGCCTAATAGC
64 AAAGTGTATATATGTGATAAGGCCTAATGGC
*
18805004 CGATGTGATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
18805069 AGTGTATATATATTTGATAAGGCCTAATGGC
66 AGTG--TATATATGTGATAAGGCCTAATGGC
18805100 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
18805165 AGTGTATATATATGTGATAAGGCCTACTGGC
66 AGTG--TATATATGTGATAAGGCCTAATGGC
* *
18805196 CGATGTGATGAATGTGGAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
18805261 AGTGTATATATGTGATAAGGCCTAATGGC
66 AGTGTATATATGTGATAAGGCCTAATGGC
*
18805290 CAATGTGATGAATGTGAAAGTGTATATA--TGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
18805353 AGTGTATATATGTGATAAGGCCTAATGGC
66 AGTGTATATATGTGATAAGGCCTAATGGC
* * * * * * *
18805382 CGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
18805447 AGTGTATAAATGTGATAAG
66 AGTGTATATATGTGATAAG
18805466 TTTCGAAGGG
Statistics
Matches: 712, Mismatches: 28, Indels: 22
0.93 0.04 0.03
Matches are distributed among these distances:
92 90 0.13
94 191 0.27
96 386 0.54
98 45 0.06
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.30
Consensus pattern (94 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
AGTGTATATATGTGATAAGGCCTAATGGC
Found at i:18804820 original size:143 final size:143
Alignment explanation
Indices: 18804620--18805465 Score: 1420
Period size: 143 Copynumber: 5.9 Consensus size: 143
18804610 ATTTAGGATT
*
18804620 CGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 CGATGTGATGAATGTGAAA--GTGTATATATATGATAAGGCCTAATGGCCGATGTGATGAATGTG
18804685 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTG
64 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTG
18804750 ATAAGGCCTAATGGC
129 ATAAGGCCTAATGGC
18804765 CGATGTGATGAATGTGAAAGTGTATATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
18804830 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
66 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
18804895 AAGGCCTAATGGC
131 AAGGCCTAATGGC
*
18804908 CGATGTGATGAATGTGAAAGTGTATATATATGTGGTAAGGCCTAATGGCCGATGTGATGAATGTG
1 CGATGTGATGAATGTGAAAGTGTATATATA--TGATAAGGCCTAATGGCCGATGTGATGAATGTG
* * *
18804973 AAGGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTG-AAG-GTGTATATATGTG
64 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTG
18805036 ATAAGGCCTAATGGC
129 ATAAGGCCTAATGGC
18805051 CGATGTGATGAATGTGAAAGTGTATATATATTTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 CGATGTGATGAATGTGAAAGTGTATATATA--TGATAAGGCCTAATGGCCGATGTGATGAATGTG
18805116 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTG
64 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTG
*
18805181 ATAAGGCCTACTGGC
129 ATAAGGCCTAATGGC
* * *
18805196 CGATGTGATGAATGTGGAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
18805261 AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG--TATATA--TGAT
66 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
18805322 AAGGCCTAATGGC
131 AAGGCCTAATGGC
*
18805335 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
18805400 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGAT
66 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
18805463 AAG
131 AAG
18805466 TTTCGAAGGG
Statistics
Matches: 669, Mismatches: 24, Indels: 20
0.94 0.03 0.03
Matches are distributed among these distances:
139 125 0.19
140 1 0.00
141 15 0.02
143 372 0.56
144 6 0.01
145 150 0.22
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.30
Consensus pattern (143 bp):
CGATGTGATGAATGTGAAAGTGTATATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
AAGGCCTAATGGC
Found at i:18810855 original size:47 final size:47
Alignment explanation
Indices: 18810804--18810926 Score: 167
Period size: 47 Copynumber: 2.6 Consensus size: 47
18810794 ATAAGTACTG
* * * *
18810804 ATACCATGGCCCGTAGCGAAATCAAGGTAACTTATC-CTGGAGTACCT
1 ATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCT-AAATACCT
* *
18810851 ATACCATGGCCCGCAGCCAAATCAAGGTAACTCCTCTCTAAATACCT
1 ATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCTAAATACCT
*
18810898 ATACCATAGCCCGTAGCCAAATCAAGGTA
1 ATACCATGGCCCGTAGCCAAATCAAGGTA
18810927 TTGTTCACAA
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
47 65 0.97
48 2 0.03
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (47 bp):
ATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCTAAATACCT
Found at i:18812325 original size:4 final size:4
Alignment explanation
Indices: 18812316--18812348 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
18812306 AAGTTTTGAG
18812316 TATT TATT TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT TATT T
18812349 TTAATTTGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:18823863 original size:32 final size:32
Alignment explanation
Indices: 18823821--18823885 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
18823811 AATGCTTACC
*
18823821 ATGCTCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
18823853 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
18823885 A
1 A
18823886 AATGCATACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.32
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:18828088 original size:18 final size:17
Alignment explanation
Indices: 18828061--18828123 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 17
18828051 ATCAAATTGT
18828061 AAAATA-AAATAAAATA
1 AAAATATAAATAAAATA
*
18828077 AAAATATTAAATAAAA-C
1 AAAATA-TAAATAAAATA
*
18828094 AAAATAAGAAATAATAATA
1 AAAAT-ATAAATAA-AATA
*
18828113 ATAATATAAAT
1 AAAATATAAAT
18828124 TTTGAAAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
16 6 0.16
17 11 0.30
18 16 0.43
19 4 0.11
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (17 bp):
AAAATATAAATAAAATA
Found at i:18828092 original size:23 final size:24
Alignment explanation
Indices: 18828062--18828123 Score: 74
Period size: 23 Copynumber: 2.6 Consensus size: 24
18828052 TCAAATTGTA
*
18828062 AAATAAAATAAAATAA-AAATATT
1 AAATAAAATAAAATAAGAAATAAT
*
18828085 AAATAAAACAAAATAAGAAATAAT
1 AAATAAAATAAAATAAGAAATAAT
18828109 -AATAATAATATAAAT
1 AAATAA-AATA-AAAT
18828124 TTTGAAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 20 0.61
24 9 0.27
25 4 0.12
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (24 bp):
AAATAAAATAAAATAAGAAATAAT
Found at i:18828178 original size:14 final size:14
Alignment explanation
Indices: 18828154--18828188 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
18828144 ATACATAAGT
18828154 AAATAAATAATGAAA
1 AAAT-AATAATGAAA
*
18828169 TAATAATAATGAAA
1 AAATAATAATGAAA
18828183 AAATAA
1 AAATAA
18828189 ACAGACCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 15 0.83
15 3 0.17
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (14 bp):
AAATAATAATGAAA
Found at i:18828280 original size:3 final size:3
Alignment explanation
Indices: 18828272--18828310 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
18828262 AAACAAATGA
*
18828272 AAT AAT AAT AAT AAT -AT AAAG AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT
18828311 GATGATGATG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 29 0.91
4 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:18828315 original size:3 final size:3
Alignment explanation
Indices: 18828309--18828346 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
18828299 AATAATAATA
18828309 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
18828347 AGTAATAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:18828361 original size:9 final size:9
Alignment explanation
Indices: 18828349--18828392 Score: 72
Period size: 9 Copynumber: 4.9 Consensus size: 9
18828339 ATGATGATAG
18828349 TAATAATAT
1 TAATAATAT
18828358 TAATAATAT
1 TAATAATAT
18828367 TAATAATAT
1 TAATAATAT
18828376 TAATTAAT-T
1 TAA-TAATAT
18828385 TAATAATA
1 TAATAATA
18828393 ATGTAGCTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 4 0.12
9 25 0.76
10 4 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
TAATAATAT
Found at i:18829502 original size:16 final size:16
Alignment explanation
Indices: 18829483--18829514 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
18829473 TTAGGTTGAA
18829483 TTGGGTTTAGTTTTTT
1 TTGGGTTTAGTTTTTT
*
18829499 TTGGGTTTGGTTTTTT
1 TTGGGTTTAGTTTTTT
18829515 GGTCTTATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.03, C:0.00, G:0.28, T:0.69
Consensus pattern (16 bp):
TTGGGTTTAGTTTTTT
Found at i:18843830 original size:25 final size:23
Alignment explanation
Indices: 18843778--18843832 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
18843768 TATAAATAGT
18843778 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
18843801 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
18843826 AATAGTG
1 AATAGTG
18843833 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:18843923 original size:25 final size:25
Alignment explanation
Indices: 18843895--18844044 Score: 92
Period size: 25 Copynumber: 5.9 Consensus size: 25
18843885 TAGATATAAA
18843895 AAAATATATATACATAATATAGTGT
1 AAAATATATATACATAATATAGTGT
* * *
18843920 AAAAAATACATACATAATATAAT-T
1 AAAATATATATACATAATATAGTGT
* * *
18843944 AAAATATATACATAAGATAACAT-GTAGAAA
1 AAAATATAT--AT-ACATAATATAGT-G--T
* *
18843974 AAATATATATATAAATAATATAGTAT
1 AAA-ATATATATACATAATATAGTGT
* * *
18844000 TAAAGATATATACATAAAATA--GT
1 AAAATATATATACATAATATAGTGT
* *
18844023 ATAATATATATACGTAATATAG
1 AAAATATATATACATAATATAG
18844045 AATTTAGAAT
Statistics
Matches: 92, Mismatches: 23, Indels: 21
0.68 0.17 0.15
Matches are distributed among these distances:
23 17 0.18
24 8 0.09
25 35 0.38
26 5 0.05
27 7 0.08
28 7 0.08
29 4 0.04
30 3 0.03
31 6 0.07
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (25 bp):
AAAATATATATACATAATATAGTGT
Found at i:18843954 original size:22 final size:24
Alignment explanation
Indices: 18843895--18843963 Score: 79
Period size: 22 Copynumber: 2.9 Consensus size: 24
18843885 TAGATATAAA
*
18843895 AAAATATATATACATAATATAGTGT
1 AAAA-ATATATACATAATATAATGT
*
18843920 AAAAAATACATACATAATATAAT-T
1 -AAAAATATATACATAATATAATGT
*
18843944 -AAAATATATACATAAGATAA
1 AAAAATATATACATAATATAA
18843964 CATGTAGAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
22 18 0.46
24 1 0.03
25 16 0.41
26 4 0.10
ACGTcount: A:0.59, C:0.06, G:0.04, T:0.30
Consensus pattern (24 bp):
AAAAATATATACATAATATAATGT
Found at i:18844008 original size:29 final size:28
Alignment explanation
Indices: 18843893--18844017 Score: 100
Period size: 29 Copynumber: 4.6 Consensus size: 28
18843883 AATAGATATA
* * *
18843893 AAAAAATATATATACATAATATAGT-GT
1 AAAATATATACATAAATAATATAGTAGT
* *
18843920 AAAA-A-ATACATACATAATATA--ATT
1 AAAATATATACATAAATAATATAGTAGT
* *
18843944 AAAATATATACATAAGATAACAT-GTAGAA
1 AAAATATATACATAA-ATAATATAGTAG-T
* *
18843973 AAAATATATATATAAATAATATAGTATT
1 AAAATATATACATAAATAATATAGTAGT
18844001 AAAGATATATACATAAA
1 AAA-ATATATACATAAA
18844018 ATAGTATAAT
Statistics
Matches: 78, Mismatches: 11, Indels: 16
0.74 0.10 0.15
Matches are distributed among these distances:
24 5 0.06
25 16 0.21
26 8 0.10
27 10 0.13
28 10 0.13
29 29 0.37
ACGTcount: A:0.59, C:0.05, G:0.06, T:0.30
Consensus pattern (28 bp):
AAAATATATACATAAATAATATAGTAGT
Found at i:18844105 original size:15 final size:15
Alignment explanation
Indices: 18844085--18844116 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
18844075 ATATATATAT
*
18844085 AATATAATATTAAAA
1 AATATAATAATAAAA
18844100 AATATAATAATAAAA
1 AATATAATAATAAAA
18844115 AA
1 AA
18844117 AGAGGGAGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AATATAATAATAAAA
Found at i:18844623 original size:30 final size:30
Alignment explanation
Indices: 18844586--18844714 Score: 222
Period size: 30 Copynumber: 4.3 Consensus size: 30
18844576 TAGGTACAAG
18844586 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* *
18844616 AGGTGGTGGAGGAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
*
18844646 TGGTGGTGGAGGAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
*
18844676 TGGTGGTGAAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
18844706 TGGTGGTGG
1 TGGTGGTGG
18844715 CAAAGGCTAG
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 93 1.00
ACGTcount: A:0.17, C:0.05, G:0.52, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:18844644 original size:18 final size:18
Alignment explanation
Indices: 18844621--18844674 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
18844611 GGAGTAGGTG
18844621 GTGGAGGAAGTGTGGCTA
1 GTGGAGGAAGTGTGGCTA
*
18844639 GT---GG-AGT-TGG-TG
1 GTGGAGGAAGTGTGGCTA
18844651 GTGGAGGAAGTGTGGCTA
1 GTGGAGGAAGTGTGGCTA
18844669 GTGGAG
1 GTGGAG
18844675 TTGGTGGTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 3 0.11
13 3 0.11
14 3 0.11
15 4 0.14
16 3 0.11
17 3 0.11
18 9 0.32
ACGTcount: A:0.19, C:0.04, G:0.54, T:0.24
Consensus pattern (18 bp):
GTGGAGGAAGTGTGGCTA
Found at i:18846954 original size:50 final size:50
Alignment explanation
Indices: 18846879--18847055 Score: 273
Period size: 50 Copynumber: 3.5 Consensus size: 50
18846869 CCATAGCAAC
*
18846879 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAATGA
*
18846929 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAATGA
* *
18846979 AAGTGATAAGTGATAGCTTTGGCTACACTTATCTAATCAAGGATAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAATGA
* * * *
18847029 CAAATAAAAAGTGGTAGCTTCGGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
18847056 CTGATCAGTG
Statistics
Matches: 116, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 95 0.82
51 21 0.18
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAATGA
Found at i:18847073 original size:31 final size:31
Alignment explanation
Indices: 18847035--18847093 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
18847025 ATGACAAATA
18847035 AAAAGTGGTAGCTTCGGCTACCTGATCAGTG
1 AAAAGTGGTAGCTTCGGCTACCTGATCAGTG
*
18847066 AAAAGTGGTAGCTTCGGGTACCTGATCA
1 AAAAGTGGTAGCTTCGGCTACCTGATCA
18847094 TCTGCTACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (31 bp):
AAAAGTGGTAGCTTCGGCTACCTGATCAGTG
Found at i:18847123 original size:46 final size:46
Alignment explanation
Indices: 18847051--18847139 Score: 142
Period size: 46 Copynumber: 1.9 Consensus size: 46
18847041 GGTAGCTTCG
* * *
18847051 GCTACCTGATCAGTGAAAAGTGGTAGCTTCGGGTACCTGATCATCT
1 GCTACCTGATCAGTGAAAAATAGTAGCTTCGGCTACCTGATCATCT
*
18847097 GCTACTTGATCAGTGAAAAATAGTAGCTTCGGCTACCTGATCA
1 GCTACCTGATCAGTGAAAAATAGTAGCTTCGGCTACCTGATCA
18847140 GTGAATAGTG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (46 bp):
GCTACCTGATCAGTGAAAAATAGTAGCTTCGGCTACCTGATCATCT
Found at i:18847138 original size:31 final size:31
Alignment explanation
Indices: 18847097--18847163 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
18847087 CTGATCATCT
*
18847097 GCTACTTGATCAGTGAAAAATAGTAGCTTCG
1 GCTACCTGATCAGTGAAAAATAGTAGCTTCG
* * *
18847128 GCTACCTGATCAGTGAATAGTGGTAGCTTCG
1 GCTACCTGATCAGTGAAAAATAGTAGCTTCG
18847159 GCTAC
1 GCTAC
18847164 AAGTGACAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.28
Consensus pattern (31 bp):
GCTACCTGATCAGTGAAAAATAGTAGCTTCG
Found at i:18851703 original size:3 final size:3
Alignment explanation
Indices: 18851695--18851723 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
18851685 GCTTTTACTT
18851695 CTG CTG CTG CTG CTG CTG CTG CTG CTG CT
1 CTG CTG CTG CTG CTG CTG CTG CTG CTG CT
18851724 TCTGTAGACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.31, T:0.34
Consensus pattern (3 bp):
CTG
Found at i:18854498 original size:27 final size:29
Alignment explanation
Indices: 18854446--18854499 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
18854436 GGTATCGTTT
*
18854446 TATATAAATTTTTATTTTGAATAATTTAA
1 TATATAAATGTTTATTTTGAATAATTTAA
18854475 TATATGAAATGTTT-TTTT-AA-AATTT
1 TATAT-AAATGTTTATTTTGAATAATTT
18854500 TGACAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 5 0.22
28 2 0.09
29 9 0.39
30 7 0.30
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (29 bp):
TATATAAATGTTTATTTTGAATAATTTAA
Found at i:18855455 original size:20 final size:22
Alignment explanation
Indices: 18855416--18855455 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
18855406 AATATAATAT
*
18855416 GATTTTATATAATTTAAAAACG
1 GATTTTATATAATCTAAAAACG
18855438 GATTTT-TA-AATCTAAAAA
1 GATTTTATATAATCTAAAAA
18855456 ATTAAATGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 2 0.12
22 6 0.35
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.40
Consensus pattern (22 bp):
GATTTTATATAATCTAAAAACG
Found at i:18857047 original size:22 final size:22
Alignment explanation
Indices: 18857028--18857071 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
18857018 AAATTAAATT
18857028 ATTAAA-AATAAATATATAAAA
1 ATTAAATAATAAATATATAAAA
**
18857049 ATTAAATTTTAAATATATAAAA
1 ATTAAATAATAAATATATAAAA
18857071 A
1 A
18857072 GCACAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
ATTAAATAATAAATATATAAAA
Found at i:18857049 original size:15 final size:14
Alignment explanation
Indices: 18857017--18857061 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
18857007 TACCCTCAAC
18857017 AAAATTAAATTATTA
1 AAAATTAAATTA-TA
18857032 AAAA-TAAATATATA
1 AAAATTAAAT-TATA
*
18857046 AAAATTAAATTTTA
1 AAAATTAAATTATA
18857060 AA
1 AA
18857062 TATATAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AAAATTAAATTATA
Found at i:18859165 original size:17 final size:17
Alignment explanation
Indices: 18859143--18859179 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
18859133 ATGGCCGAAT
18859143 CACACGCTCGGCTGAGA
1 CACACGCTCGGCTGAGA
18859160 CACACGCTCGGCTGAGA
1 CACACGCTCGGCTGAGA
18859177 CAC
1 CAC
18859180 GCACTCGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.24, C:0.38, G:0.27, T:0.11
Consensus pattern (17 bp):
CACACGCTCGGCTGAGA
Found at i:18859186 original size:17 final size:17
Alignment explanation
Indices: 18859143--18859186 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
18859133 ATGGCCGAAT
*
18859143 CACACGCTCGGCTGAGA
1 CACACACTCGGCTGAGA
*
18859160 CACACGCTCGGCTGAGA
1 CACACACTCGGCTGAGA
*
18859177 CACGCACTCG
1 CACACACTCG
18859187 TGTCTCTACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.23, C:0.39, G:0.27, T:0.11
Consensus pattern (17 bp):
CACACACTCGGCTGAGA
Found at i:18860879 original size:15 final size:15
Alignment explanation
Indices: 18860859--18860889 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
18860849 CGTAATTTAA
18860859 TATTTTCGACACCAC
1 TATTTTCGACACCAC
18860874 TATTTTCGACACCAC
1 TATTTTCGACACCAC
18860889 T
1 T
18860890 GAAAAATCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.32, G:0.06, T:0.35
Consensus pattern (15 bp):
TATTTTCGACACCAC
Found at i:18865636 original size:8 final size:8
Alignment explanation
Indices: 18865623--18865649 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
18865613 GTCAATATAT
18865623 TTATTTTA
1 TTATTTTA
18865631 TTATTTTA
1 TTATTTTA
18865639 TTATTTTA
1 TTATTTTA
18865647 TTA
1 TTA
18865650 AAGTTTACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
TTATTTTA
Found at i:18866836 original size:26 final size:23
Alignment explanation
Indices: 18866792--18866857 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 23
18866782 CTCACCACAA
* *
18866792 CTCGTATGAGCTTATTGATATATCAG
1 CTCGTAAGAGCTTACTGAT-T-T-AG
*
18866818 CTCGTAAGAGCTAACTGATTTAG
1 CTCGTAAGAGCTTACTGATTTAG
*
18866841 CTCGTCAGAGCTTACTG
1 CTCGTAAGAGCTTACTG
18866858 TTCATCATCT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
23 17 0.49
24 1 0.03
25 1 0.03
26 16 0.46
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (23 bp):
CTCGTAAGAGCTTACTGATTTAG
Found at i:18870205 original size:10 final size:10
Alignment explanation
Indices: 18870190--18870248 Score: 66
Period size: 10 Copynumber: 5.9 Consensus size: 10
18870180 AATTTTAGCT
18870190 TTTATCTTTA
1 TTTATCTTTA
*
18870200 TTTATCCTTA
1 TTTATCTTTA
18870210 TTTATCTTTA
1 TTTATCTTTA
* *
18870220 ATTATTTTTA
1 TTTATCTTTA
*
18870230 TTTAAT-TGTA
1 TTT-ATCTTTA
18870240 TTTATCTTT
1 TTTATCTTT
18870249 TAGAATTTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
9 2 0.05
10 36 0.90
11 2 0.05
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:18870224 original size:14 final size:15
Alignment explanation
Indices: 18870207--18870248 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
18870197 TTATTTATCC
18870207 TTATTTATCTTTAA-
1 TTATTTATCTTTAAT
* *
18870221 TTATTTTTATTTAAT
1 TTATTTATCTTTAAT
18870236 TGTATTTATCTTT
1 T-TATTTATCTTT
18870249 TAGAATTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 12 0.55
15 1 0.05
16 9 0.41
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.69
Consensus pattern (15 bp):
TTATTTATCTTTAAT
Found at i:18876580 original size:4 final size:4
Alignment explanation
Indices: 18876571--18876634 Score: 55
Period size: 4 Copynumber: 15.8 Consensus size: 4
18876561 AACCTTTATT
18876571 TTTA TTTA TTTTA TTTTA TTTA -TTA TTTA -TTA TATTA TTTA -TTA TATTA
1 TTTA TTTA -TTTA -TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA T-TTA
18876620 TTTA -TTA CTTTA TTT
1 TTTA TTTA -TTTA TTT
18876635 TTGATATTTA
Statistics
Matches: 52, Mismatches: 0, Indels: 16
0.76 0.00 0.24
Matches are distributed among these distances:
3 12 0.23
4 20 0.38
5 20 0.38
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:18876598 original size:12 final size:12
Alignment explanation
Indices: 18876572--18876626 Score: 80
Period size: 12 Copynumber: 4.8 Consensus size: 12
18876562 ACCTTTATTT
*
18876572 TTATTTATTTTA
1 TTATTTATTATA
18876584 -T-TTTATT-TA
1 TTATTTATTATA
18876593 TTATTTATTATA
1 TTATTTATTATA
18876605 TTATTTATTATA
1 TTATTTATTATA
18876617 TTATTTATTA
1 TTATTTATTA
18876627 CTTTATTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
9 2 0.05
10 7 0.17
11 7 0.17
12 24 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
TTATTTATTATA
Found at i:18876603 original size:24 final size:24
Alignment explanation
Indices: 18876565--18876635 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
18876555 CAACCCAACC
18876565 TTTATT-TTTATTTATTTTATTTTA
1 TTTATTATTTA-TTATTTTATTTTA
*
18876589 TTTATTATTTATTATATTA-TTTA
1 TTTATTATTTATTATTTTATTTTA
*
18876612 TTATATTATTTATTACTTTATTTT
1 TT-TATTATTTATTATTTTATTTT
18876636 TGATATTTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
23 6 0.15
24 28 0.68
25 7 0.17
ACGTcount: A:0.25, C:0.01, G:0.00, T:0.73
Consensus pattern (24 bp):
TTTATTATTTATTATTTTATTTTA
Found at i:18876634 original size:12 final size:11
Alignment explanation
Indices: 18876565--18876625 Score: 74
Period size: 12 Copynumber: 5.5 Consensus size: 11
18876555 CAACCCAACC
18876565 TTTATTT-TTA
1 TTTATTTATTA
18876575 TTTA-TT-TTA
1 TTTATTTATTA
18876584 TTTTATTTATTA
1 -TTTATTTATTA
18876596 TTTATTATATTA
1 TTTATT-TATTA
18876608 TTTATTATATTA
1 TTTATT-TATTA
18876620 TTTATT
1 TTTATT
18876626 ACTTTATTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
9 5 0.11
10 8 0.17
11 8 0.17
12 26 0.55
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTATTTATTA
Found at i:18881309 original size:42 final size:42
Alignment explanation
Indices: 18881256--18881348 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
18881246 TAGCCCAGCT
* *
18881256 ATGGTCTTACACGAAATTTCGTATCAG-TGCCATGTCCCAAAC
1 ATGGTCTTACACGAAATATCATA-CAGATGCCATGTCCCAAAC
* * * *
18881298 ATGGTCTTACACGTAATATCATACCGATGCCATGTCCTAAAT
1 ATGGTCTTACACGAAATATCATACAGATGCCATGTCCCAAAC
18881340 ATGGTCTTA
1 ATGGTCTTA
18881349 TACGTATTCT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
41 2 0.05
42 42 0.95
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (42 bp):
ATGGTCTTACACGAAATATCATACAGATGCCATGTCCCAAAC
Found at i:18882610 original size:24 final size:23
Alignment explanation
Indices: 18882583--18882630 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 23
18882573 TTATTACAGT
*
18882583 AATAATAATGATAAAAAGAAAAAA
1 AATAATAAT-AGAAAAAGAAAAAA
18882607 AATAATAATAGAAAAAGAAAAAA
1 AATAATAATAGAAAAAGAAAAAA
18882630 A
1 A
18882631 GTGATGTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (23 bp):
AATAATAATAGAAAAAGAAAAAA
Found at i:18883275 original size:10 final size:10
Alignment explanation
Indices: 18883260--18883318 Score: 57
Period size: 10 Copynumber: 5.9 Consensus size: 10
18883250 AATTTTAGCT
18883260 TTTATCTTTA
1 TTTATCTTTA
*
18883270 TTTATCCTTA
1 TTTATCTTTA
*
18883280 TTTAACTTTA
1 TTTATCTTTA
* *
18883290 ATTATTTTTA
1 TTTATCTTTA
*
18883300 TTTAAT-TGTA
1 TTT-ATCTTTA
18883310 TTTATCTTT
1 TTTATCTTT
18883319 TAGAATTTAA
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
9 2 0.05
10 34 0.89
11 2 0.05
ACGTcount: A:0.24, C:0.08, G:0.02, T:0.66
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:18886481 original size:39 final size:39
Alignment explanation
Indices: 18886438--18886512 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
18886428 CAGAATTTCA
18886438 ATCAAAACTTTTAATTCTGTTT-TATTTTATTTTTTCTTG
1 ATCAAAACTTTTAATTCTGTTTAT-TTTTATTTTTTCTTG
18886477 ATCAAAACTTTTAATTCTGTTTATTTTTATTTTTTC
1 ATCAAAACTTTTAATTCTGTTTATTTTTATTTTTTC
18886513 CAGGTACGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
39 34 0.97
40 1 0.03
ACGTcount: A:0.24, C:0.11, G:0.04, T:0.61
Consensus pattern (39 bp):
ATCAAAACTTTTAATTCTGTTTATTTTTATTTTTTCTTG
Found at i:18891733 original size:5 final size:5
Alignment explanation
Indices: 18891723--18891769 Score: 71
Period size: 5 Copynumber: 9.6 Consensus size: 5
18891713 TTGGTATATG
18891723 TGGAT TGGAT TGGAT TGGAT TGGAT TGGAT TGG-T T-GAT GTGGAT TGG
1 TGGAT TGGAT TGGAT TGGAT TGGAT TGGAT TGGAT TGGAT -TGGAT TGG
18891770 TCTCAGTTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
3 1 0.03
4 3 0.08
5 32 0.82
6 3 0.08
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (5 bp):
TGGAT
Found at i:18892061 original size:2 final size:2
Alignment explanation
Indices: 18892054--18892132 Score: 158
Period size: 2 Copynumber: 39.5 Consensus size: 2
18892044 ACTCAACATT
18892054 TC TC 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 TC TC
18892096 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
18892133 TTTATAACTC
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 77 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:18894750 original size:46 final size:46
Alignment explanation
Indices: 18894699--18895021 Score: 371
Period size: 46 Copynumber: 7.0 Consensus size: 46
18894689 GTGTGCTTTC
* *
18894699 TGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
*
18894745 TGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
18894791 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
18894837 GGATATAAAATGTGTAAGACCATGGTTGAAAGATACTATGGCAACA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
** * ** * * **
18894883 TGA-CGGGAATGAATAAGACCATGGTTGAAACATACCGTGGCAATG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * *** * *
18894928 TAACATGAAATGAACAAAACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * * *
18894974 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
18895020 TG
1 TG
18895022 TTAAAGATAA
Statistics
Matches: 237, Mismatches: 38, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
45 34 0.14
46 203 0.86
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:18894950 original size:137 final size:138
Alignment explanation
Indices: 18894707--18895021 Score: 389
Period size: 137 Copynumber: 2.3 Consensus size: 138
18894697 TCTGATATGG
* * * **
18894707 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAATGTGTAAGACCATGGTT
1 AATGTGTAAGACCATGGTTGAAAGATACTATGGCAACATGATAGAAAATGAATAAGACCATGGTT
* * * *** *
18894772 GAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
66 GAAACATACCATGGCAACATAACATGAAATGAACAAAACCATGGTTGAAAGATACCATGGCAACA
* *
18894837 GGATATAA
131 GGACAGAA
* **
18894845 AATGTGTAAGACCATGGTTGAAAGATACTATGGCAACATGA-CGGGAATGAATAAGACCATGGTT
1 AATGTGTAAGACCATGGTTGAAAGATACTATGGCAACATGATAGAAAATGAATAAGACCATGGTT
* ** *
18894909 GAAACATACCGTGGCAATGTAACATGAAATGAACAAAACCATGGTTGAAAGATACCATGGCAACC
66 GAAACATACCATGGCAACATAACATGAAATGAACAAAACCATGGTTGAAAGATACCATGGCAACA
*
18894974 TGACAGAA
131 GGACAGAA
* * * *
18894982 AATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 AATGTGTAAGACCATGGTTGAAAGATACTATGGCAACATG
18895022 TTAAAGATAA
Statistics
Matches: 151, Mismatches: 26, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
137 112 0.74
138 39 0.26
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (138 bp):
AATGTGTAAGACCATGGTTGAAAGATACTATGGCAACATGATAGAAAATGAATAAGACCATGGTT
GAAACATACCATGGCAACATAACATGAAATGAACAAAACCATGGTTGAAAGATACCATGGCAACA
GGACAGAA
Found at i:18895323 original size:16 final size:17
Alignment explanation
Indices: 18895302--18895334 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
18895292 ATGATGGAGT
18895302 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
18895318 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
18895335 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:18896953 original size:53 final size:53
Alignment explanation
Indices: 18896826--18896971 Score: 204
Period size: 53 Copynumber: 2.7 Consensus size: 53
18896816 TGCGCCTGTT
**
18896826 TAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACTCCGTA
1 TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCGTA
*
18896879 TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATTCCGTA
1 TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCGTA
* * *
18896932 TAAGACCAT-GTTTGGGATATGGCTTCGGTATGATATGTGA
1 TAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
18896972 ACCGTGTAAG
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 76 0.90
54 1 0.01
55 6 0.07
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (53 bp):
TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCGTA
Found at i:18900117 original size:22 final size:22
Alignment explanation
Indices: 18900092--18900134 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
18900082 TCATATGACA
*
18900092 GATT-TTATACATTTTCATTAAC
1 GATTATTA-ACATCTTCATTAAC
*
18900114 GATTATTAACATCTTCCTTAA
1 GATTATTAACATCTTCATTAA
18900135 AGATCTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.33, C:0.16, G:0.05, T:0.47
Consensus pattern (22 bp):
GATTATTAACATCTTCATTAAC
Found at i:18900787 original size:21 final size:21
Alignment explanation
Indices: 18900757--18900798 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
18900747 CTTTAGAATT
18900757 AATTTTTTTTT-TAAATTTTA
1 AATTTTTTTTTGTAAATTTTA
*
18900777 AATTATTTTTTTGTAATTTTTA
1 AATT-TTTTTTTGTAAATTTTA
18900799 TTAAAAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 7 0.37
22 8 0.42
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (21 bp):
AATTTTTTTTTGTAAATTTTA
Found at i:18909724 original size:11 final size:11
Alignment explanation
Indices: 18909710--18909734 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18909700 GTTCTATTAA
18909710 TATGGTCATCT
1 TATGGTCATCT
18909721 TATGGTCATCT
1 TATGGTCATCT
18909732 TAT
1 TAT
18909735 TTACACAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.48
Consensus pattern (11 bp):
TATGGTCATCT
Found at i:18911362 original size:19 final size:19
Alignment explanation
Indices: 18911316--18911363 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
18911306 GTTTATATTT
18911316 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
18911334 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
18911353 TAAGTTTTATT
1 TAAATTTTATT
18911364 CATATTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:18933723 original size:18 final size:18
Alignment explanation
Indices: 18933696--18933733 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
18933686 AATAAAGCTT
*
18933696 TAATTGTTATCATAATTA
1 TAATTATTATCATAATTA
18933714 TAATTATTATCATAATTA
1 TAATTATTATCATAATTA
18933732 TA
1 TA
18933734 CCTAAATGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (18 bp):
TAATTATTATCATAATTA
Found at i:18935330 original size:13 final size:13
Alignment explanation
Indices: 18935312--18935337 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18935302 CCTGACACCC
18935312 TTTTACTTTTTTT
1 TTTTACTTTTTTT
18935325 TTTTACTTTTTTT
1 TTTTACTTTTTTT
18935338 AACTTTTATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTACTTTTTTT
Found at i:18935479 original size:21 final size:23
Alignment explanation
Indices: 18935434--18935497 Score: 87
Period size: 23 Copynumber: 2.8 Consensus size: 23
18935424 AAATTTGAGT
*
18935434 TATATATTTGAAATGTTTTATAA
1 TATATATTTGAAATATTTTATAA
*
18935457 TATATATTTTAAA-ATTTTA-AA
1 TATATATTTGAAATATTTTATAA
18935478 TATATATTTGAAATTATTTT
1 TATATATTTGAAA-TATTTT
18935498 TTAAAATTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 14 0.39
22 5 0.14
23 17 0.47
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (23 bp):
TATATATTTGAAATATTTTATAA
Found at i:18935482 original size:19 final size:19
Alignment explanation
Indices: 18935458--18935537 Score: 73
Period size: 19 Copynumber: 4.5 Consensus size: 19
18935448 GTTTTATAAT
18935458 ATATATTTTAAAATTTTAA
1 ATATATTTTAAAATTTTAA
*
18935477 ATATATATTTGAAA--TT--
1 ATATAT-TTTAAAATTTTAA
18935493 AT-T-TTTTAAAATTTTAA
1 ATATATTTTAAAATTTTAA
** *
18935510 ATATATTTTTTAATATTAA
1 ATATATTTTAAAATTTTAA
18935529 ATATATTTT
1 ATATATTTT
18935538 TTAATAATAT
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
13 6 0.12
14 1 0.02
15 3 0.06
16 2 0.04
17 2 0.04
18 3 0.06
19 26 0.53
20 6 0.12
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (19 bp):
ATATATTTTAAAATTTTAA
Found at i:18935506 original size:20 final size:20
Alignment explanation
Indices: 18935483--18935556 Score: 82
Period size: 21 Copynumber: 3.7 Consensus size: 20
18935473 TTAAATATAT
18935483 ATTTGAAAT-TATTTTTTAAA
1 ATTT-AAATATATTTTTTAAA
*
18935503 ATTTTAAATATATTTTTTAAT
1 A-TTTAAATATATTTTTTAAA
18935524 A-TTAAATATATTTTTTAATA
1 ATTTAAATATATTTTTTAA-A
*
18935544 ATATAAA-ATATTT
1 ATTTAAATATATTT
18935557 AAATATTTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
19 17 0.36
20 12 0.26
21 18 0.38
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (20 bp):
ATTTAAATATATTTTTTAAA
Found at i:18935550 original size:21 final size:20
Alignment explanation
Indices: 18935488--18935556 Score: 83
Period size: 19 Copynumber: 3.5 Consensus size: 20
18935478 TATATATTTG
18935488 AAAT-TATTTTTTAA-AATTTT
1 AAATATATTTTTTAATAA--TT
18935508 AAATATATTTTTTAAT-ATT
1 AAATATATTTTTTAATAATT
18935527 AAATATATTTTTTAATAATAT
1 AAATATATTTTTTAATAAT-T
18935548 AAA-ATATTT
1 AAATATATTT
18935557 AAATATTTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
19 18 0.40
20 12 0.27
21 15 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
AAATATATTTTTTAATAATT
Found at i:18935665 original size:11 final size:12
Alignment explanation
Indices: 18935637--18935674 Score: 51
Period size: 11 Copynumber: 3.1 Consensus size: 12
18935627 TTTTATAATA
18935637 TTTTAAATTATGAT
1 TTTTAAA-TAT-AT
18935651 TTTTAAAT-TAT
1 TTTTAAATATAT
18935662 TTTTAAATATAT
1 TTTTAAATATAT
18935674 T
1 T
18935675 CAAACCTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 10 0.43
12 5 0.22
13 1 0.04
14 7 0.30
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (12 bp):
TTTTAAATATAT
Found at i:18935742 original size:19 final size:19
Alignment explanation
Indices: 18935694--18935772 Score: 81
Period size: 17 Copynumber: 4.2 Consensus size: 19
18935684 TTTTAAATTC
* *
18935694 TATTTAAAAGTTAAAAAAA
1 TATTTAAAATTTAAAAATA
*
18935713 TATTT--TATTTAAAAATA
1 TATTTAAAATTTAAAAATA
*
18935730 TATTTAATATTTAAAAAATAA
1 TATTTAAAATTT-AAAAAT-A
*
18935751 TATTTAAAATTTTAAAATA
1 TATTTAAAATTTAAAAATA
18935770 TAT
1 TAT
18935773 ATATTATAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
17 14 0.27
19 14 0.27
20 11 0.22
21 12 0.24
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (19 bp):
TATTTAAAATTTAAAAATA
Found at i:18935795 original size:23 final size:22
Alignment explanation
Indices: 18935720--18935815 Score: 90
Period size: 22 Copynumber: 4.3 Consensus size: 22
18935710 AAATATTTTA
18935720 TTTAAAAATATATTT--AATAT
1 TTTAAAAATATATTTAAAATAT
*
18935740 TTAAAAAATAATATTTAAAAT-T
1 TTTAAAAAT-ATATTTAAAATAT
*
18935762 TTAAAATATATATATTATAAAATAT
1 TTTAAA-A-ATATATT-TAAAATAT
* * *
18935787 TTTAAATATATATTTTAAATTT
1 TTTAAAAATATATTTAAAATAT
18935809 TTTAAAA
1 TTTAAAA
18935816 TTAATAATGA
Statistics
Matches: 63, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
20 8 0.13
21 6 0.10
22 19 0.30
23 16 0.25
24 8 0.13
25 6 0.10
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TTTAAAAATATATTTAAAATAT
Found at i:18935816 original size:23 final size:23
Alignment explanation
Indices: 18935727--18935816 Score: 96
Period size: 23 Copynumber: 3.9 Consensus size: 23
18935717 TTATTTAAAA
* *
18935727 ATATATTTAATA-TTTAAAAAAT
1 ATATATTTAAAATTTTAAAATAT
18935749 A-ATATTTAAAATTTTAAAATAT
1 ATATATTTAAAATTTTAAAATAT
*
18935771 ATATATTATAAAATATTTTAAATAT
1 ATATATT-TAAAAT-TTTAAAATAT
*
18935796 ATAT-TTTAAATTTTTTAAAAT
1 ATATATTTAAA-ATTTTAAAAT
18935817 TAATAATGAA
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
21 9 0.16
22 11 0.19
23 16 0.28
24 9 0.16
25 13 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
ATATATTTAAAATTTTAAAATAT
Found at i:18941566 original size:19 final size:21
Alignment explanation
Indices: 18941525--18941569 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
18941515 AACATTAAGA
18941525 ATATATTATGAAATGTATAAAAT
1 ATATATTATGAAA--TATAAAAT
18941548 ATATATTATGAAA-AT-AAAT
1 ATATATTATGAAATATAAAAT
18941567 ATA
1 ATA
18941570 CATAATTAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 7 0.32
20 2 0.09
23 13 0.59
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.38
Consensus pattern (21 bp):
ATATATTATGAAATATAAAAT
Found at i:18941587 original size:21 final size:21
Alignment explanation
Indices: 18941552--18941596 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
18941542 TAAAATATAT
*
18941552 ATTATGAAAATAAATATACATA
1 ATTATGAAAAAAAATA-ACATA
*
18941574 ATTA-GAAAAAAAATAACTTA
1 ATTATGAAAAAAAATAACATA
18941594 ATT
1 ATT
18941597 TTCTTGAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.33
21 10 0.48
22 4 0.19
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.31
Consensus pattern (21 bp):
ATTATGAAAAAAAATAACATA
Found at i:18944727 original size:37 final size:37
Alignment explanation
Indices: 18944677--18944747 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
18944667 GCTCAGACGA
18944677 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
18944714 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
18944748 ATATATTTCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:18945009 original size:98 final size:96
Alignment explanation
Indices: 18944893--18945076 Score: 316
Period size: 98 Copynumber: 1.9 Consensus size: 96
18944883 GCACATCGCC
*
18944893 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATT
18944958 -GACCATTCGGCTTTACCACATATGCATATTTCA
64 AG-CCATTCGGCTTTACCACATATGCATATTTCA
*
18944991 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
18945056 CCATTCGGCTTTACCACATAT
66 CCATTCGGCTTTACCACATAT
18945077 ATGCATGTTC
Statistics
Matches: 83, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
96 36 0.43
97 1 0.01
98 46 0.55
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.36
Consensus pattern (96 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
CCATTCGGCTTTACCACATATGCATATTTCA
Found at i:18945017 original size:48 final size:48
Alignment explanation
Indices: 18944893--18945077 Score: 300
Period size: 48 Copynumber: 3.8 Consensus size: 48
18944883 GCACATCGCC
*
18944893 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
18944943 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATTTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
18944991 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
18945039 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
18945078 TGCATGTTCA
Statistics
Matches: 126, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
48 83 0.66
49 2 0.02
50 41 0.33
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:18945079 original size:98 final size:97
Alignment explanation
Indices: 18944893--18945205 Score: 328
Period size: 94 Copynumber: 3.3 Consensus size: 97
18944883 GCACATCGCC
* *
18944893 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATT
*
18944958 -GACCATTCGGCTTTACCAC--ATATGCATATTTCA
64 AG-CCATTCGGCTTTACCACATATATGCAT-GTTCA
18944991 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
18945056 CCATTCGGCTTTACCACATATATGCATGTTCA
66 CCATTCGGCTTTACCACATATATGCATGTTCA
** * * * * *
18945088 T--AT-TCACCACATTGGCCATTCGGCCTTATCACACATATGCAT-GCTC--ACAT-TCATCACA
1 TACATAT-TTCACATTAGCCATTCGGCTTTA-C-CACATATACATATCTCATACATAT-TTCACA
* *
18945146 TTAGCCATTCGGCCTTATCACATATATGCATGTTC-
62 TTAGCCATTCGGCTTTACCACATATATGCATGTTCA
* *
18945181 -ACAT-TCATCACATTGGCCATTCGGC
1 TACATAT-TTCACATTAGCCATTCGGC
18945206 CTTATCTCAT
Statistics
Matches: 193, Mismatches: 13, Indels: 22
0.85 0.06 0.10
Matches are distributed among these distances:
93 1 0.01
94 65 0.34
95 21 0.11
96 36 0.19
97 16 0.08
98 54 0.28
ACGTcount: A:0.28, C:0.27, G:0.10, T:0.35
Consensus pattern (97 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
CCATTCGGCTTTACCACATATATGCATGTTCA
Found at i:18945126 original size:47 final size:47
Alignment explanation
Indices: 18944999--18945240 Score: 283
Period size: 47 Copynumber: 5.1 Consensus size: 47
18944989 CATACATATT
* * * *
18944999 TCACATTAGCCATTCGGCTTTACCACATATA--CATATCTCATACATAT-T
1 TCACATTAGCCATTCGGCCTTATCACATATATGCATGT-TC--ACAT-TCA
* * *
18945047 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTAGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * *
18945094 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTAGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
18945141 TCACATTAGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTAGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * **
18945188 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTAGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
18945235 TCACAT
1 TCACAT
18945241 AAAATCCTAA
Statistics
Matches: 172, Mismatches: 19, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
46 1 0.01
47 134 0.78
48 31 0.18
49 2 0.01
50 4 0.02
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (47 bp):
TCACATTAGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:18945167 original size:22 final size:22
Alignment explanation
Indices: 18945140--18945211 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
18945130 GCTCACATTC
18945140 ATCACATTAGCCATTCGGCCTT
1 ATCACATTAGCCATTCGGCCTT
* *
18945162 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-TA-GCCA--TTCGGCCTT
*
18945186 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTAGCCATTCGGCCTT
18945209 ATC
1 ATC
18945212 TCATATATAC
Statistics
Matches: 38, Mismatches: 5, Indels: 14
0.67 0.09 0.25
Matches are distributed among these distances:
22 13 0.34
23 8 0.21
24 7 0.18
25 10 0.26
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.33
Consensus pattern (22 bp):
ATCACATTAGCCATTCGGCCTT
Found at i:18952734 original size:21 final size:21
Alignment explanation
Indices: 18952710--18952749 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
18952700 GAAATGTTTT
*
18952710 TTTTTTGCCATGAAAACTAGA
1 TTTTTAGCCATGAAAACTAGA
* *
18952731 TTTTTAGCTATGGAAACTA
1 TTTTTAGCCATGAAAACTA
18952750 CTAATTGGTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (21 bp):
TTTTTAGCCATGAAAACTAGA
Found at i:18959401 original size:23 final size:23
Alignment explanation
Indices: 18959334--18959407 Score: 62
Period size: 23 Copynumber: 3.3 Consensus size: 23
18959324 CAGTATAGGT
* * * *
18959334 GAACCCCATAAGAATTGTTATAC
1 GAACCCTATAGGAATTGTAATGC
* *
18959357 GAA-CCTATAGGAAAT-AACATGC
1 GAACCCTATAGGAATTGTA-ATGC
18959379 GAACCCTATAGGAATTGTAATGC
1 GAACCCTATAGGAATTGTAATGC
*
18959402 AAACCC
1 GAACCC
18959408 CATTTTAGGC
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
22 15 0.38
23 23 0.59
24 1 0.03
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.22
Consensus pattern (23 bp):
GAACCCTATAGGAATTGTAATGC
Found at i:18959732 original size:15 final size:15
Alignment explanation
Indices: 18959709--18959743 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
18959699 CCGTATAAAC
* *
18959709 CCCTTGGTGTGCGAA
1 CCCTAGGTGTGAGAA
18959724 CCCTAGGTGTGAGAA
1 CCCTAGGTGTGAGAA
18959739 CCCTA
1 CCCTA
18959744 ATATGCGAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.29, T:0.23
Consensus pattern (15 bp):
CCCTAGGTGTGAGAA
Found at i:18959878 original size:27 final size:27
Alignment explanation
Indices: 18959846--18959897 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
18959836 AATCTCATAT
* *
18959846 GTGCGAACTCATCTATGTGAACCCTAA
1 GTGCGAACCCATCCATGTGAACCCTAA
18959873 GTGCGAACCCATCCATGTGAACCCT
1 GTGCGAACCCATCCATGTGAACCCT
18959898 TGGGTGTGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (27 bp):
GTGCGAACCCATCCATGTGAACCCTAA
Found at i:18959920 original size:15 final size:15
Alignment explanation
Indices: 18959888--18959929 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
18959878 AACCCATCCA
*
18959888 TGTGAACCCTTGGGTG
1 TGTGAACCC-TAGGTG
18959904 TGTGAACCCTAGGTG
1 TGTGAACCCTAGGTG
*
18959919 TGAGAACCCTA
1 TGTGAACCCTA
18959930 ATGTACGAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 15 0.62
16 9 0.38
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.26
Consensus pattern (15 bp):
TGTGAACCCTAGGTG
Found at i:18960458 original size:46 final size:47
Alignment explanation
Indices: 18960370--18960467 Score: 144
Period size: 46 Copynumber: 2.1 Consensus size: 47
18960360 TATGGTAGTT
* * *
18960370 TAAAAATCCATCAAAACCGGGTAAACCAGAATGATAATTTATTGTAG
1 TAAAAAGCCATCAAAACCGAGTAAACCAGAATGATAAGTTATTGTAG
* *
18960417 TAAAAAGCCATCAAAATCGAG-CAACCAGAATGATAAGTTATTGTAG
1 TAAAAAGCCATCAAAACCGAGTAAACCAGAATGATAAGTTATTGTAG
18960463 TAAAA
1 TAAAA
18960468 GTCATTATCA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
46 28 0.61
47 18 0.39
ACGTcount: A:0.47, C:0.14, G:0.15, T:0.23
Consensus pattern (47 bp):
TAAAAAGCCATCAAAACCGAGTAAACCAGAATGATAAGTTATTGTAG
Found at i:18964634 original size:17 final size:15
Alignment explanation
Indices: 18964612--18964655 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 15
18964602 AGTAAAGTCC
*
18964612 AACTTAAATCTAGATCA
1 AACTTAAATC-AGA-AA
18964629 AACTTAAATACAGAAA
1 AACTTAAAT-CAGAAA
18964645 AACTTAAATCA
1 AACTTAAATCA
18964656 AATTCAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 2 0.08
16 10 0.40
17 12 0.48
18 1 0.04
ACGTcount: A:0.55, C:0.16, G:0.05, T:0.25
Consensus pattern (15 bp):
AACTTAAATCAGAAA
Found at i:18970554 original size:22 final size:20
Alignment explanation
Indices: 18970529--18970572 Score: 70
Period size: 22 Copynumber: 2.1 Consensus size: 20
18970519 TGTTTAGGGT
18970529 TTTAGGGTTAATTAAATTAGAA
1 TTTAGGGTTAATT-AATTA-AA
18970551 TTTAGGGTTAATTAATTAAA
1 TTTAGGGTTAATTAATTAAA
18970571 TT
1 TT
18970573 AATTATTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 4 0.18
21 5 0.23
22 13 0.59
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (20 bp):
TTTAGGGTTAATTAATTAAA
Found at i:18971211 original size:125 final size:126
Alignment explanation
Indices: 18970792--18971233 Score: 688
Period size: 126 Copynumber: 3.5 Consensus size: 126
18970782 TAATTAAATT
* * * * *
18970792 AGGATGCACTATCAGCAAAATTACTGAAAAAAGTTTCCACGTGGACGCTCTTTTGATACAATAGT
1 AGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGT
*
18970857 ATCTGAAAAAATAATTTTGAGAAGACATTTTTGAACAAATAGTGTCCAAAACGCTTTAAGC
66 ATCTGAAAAAATAATTTTGAGAAGACATTTTTGAACAAATAGTGTCCAAAACGCTTCAAGC
* * * * *
18970918 ATGATGCACTGTCAACAAAATTACTGAAAAAAGCTTCCACGTGGACACTCTTTTGCTACAGTAGC
1 AGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGT
* * * * *
18970983 ATCTAAAAAAATAATTTTGAGAAGACGTTTATGAATAAATAGTGTCCAAAATGCTTCAAGC
66 ATCTGAAAAAATAATTTTGAGAAGACATTTTTGAACAAATAGTGTCCAAAACGCTTCAAGC
*
18971044 AGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTATAGTAGT
1 AGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGT
* *
18971109 ATCTGAAAAAATAATTTTGAGAAGACTTTTTTGAACAAATAGTGTCTAAAACG-TTCAAGC
66 ATCTGAAAAAATAATTTTGAGAAGACATTTTTGAACAAATAGTGTCCAAAACGCTTCAAGC
* *
18971169 AGGATACACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGTTCTTTTGCTACAGTAGT
1 AGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGT
18971234 TTCTATTTAG
Statistics
Matches: 287, Mismatches: 29, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
125 69 0.24
126 218 0.76
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.28
Consensus pattern (126 bp):
AGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGT
ATCTGAAAAAATAATTTTGAGAAGACATTTTTGAACAAATAGTGTCCAAAACGCTTCAAGC
Found at i:18975471 original size:6 final size:6
Alignment explanation
Indices: 18975460--18975484 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
18975450 TGGATAATGG
18975460 TTGTGT TTGTGT TTGTGT TTGTGT T
1 TTGTGT TTGTGT TTGTGT TTGTGT T
18975485 GACCATTTGT
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:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (6 bp):
TTGTGT
Found at i:18978355 original size:9 final size:9
Alignment explanation
Indices: 18978332--18978361 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
18978322 ATTTATATTT
18978332 TATTAAAAA
1 TATTAAAAA
18978341 TA-TAAAAA
1 TATTAAAAA
18978349 TATTAAAAA
1 TATTAAAAA
18978358 TATT
1 TATT
18978362 GCCTTATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
TATTAAAAA
Found at i:18978604 original size:21 final size:21
Alignment explanation
Indices: 18978575--18978621 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
18978565 AGCTTCCAGT
*
18978575 GGGGGTTGTGGTTACTCTGGC
1 GGGGATTGTGGTTACTCTGGC
*
18978596 GGGGATTGTGGTTCCTCTGGC
1 GGGGATTGTGGTTACTCTGGC
*
18978617 AGGGA
1 GGGGA
18978622 ATCTGGTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.09, C:0.15, G:0.47, T:0.30
Consensus pattern (21 bp):
GGGGATTGTGGTTACTCTGGC
Found at i:18978628 original size:21 final size:21
Alignment explanation
Indices: 18978583--18978629 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
18978573 GTGGGGGTTG
* * *
18978583 TGGTTACTCTGGCGGGGATTG
1 TGGTTACTCTGGCAGGGAATC
*
18978604 TGGTTCCTCTGGCAGGGAATC
1 TGGTTACTCTGGCAGGGAATC
18978625 TGGTT
1 TGGTT
18978630 GTGGTTGTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.11, C:0.17, G:0.38, T:0.34
Consensus pattern (21 bp):
TGGTTACTCTGGCAGGGAATC
Found at i:18978983 original size:30 final size:30
Alignment explanation
Indices: 18978949--18979017 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
18978939 GTTGAAGTGT
*
18978949 TGGGCCCGCTGATTGTGTGGGCACTGTTGA
1 TGGGCCCGCTGATTGTGTAGGCACTGTTGA
* * *
18978979 TGGGCTCGGTGATTGTGTAGGCGCTGTTGA
1 TGGGCCCGCTGATTGTGTAGGCACTGTTGA
18979009 TGGGCCCGC
1 TGGGCCCGC
18979018 GTCGTCATCC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.09, C:0.20, G:0.42, T:0.29
Consensus pattern (30 bp):
TGGGCCCGCTGATTGTGTAGGCACTGTTGA
Found at i:18981308 original size:11 final size:11
Alignment explanation
Indices: 18981292--18981316 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18981282 TTATATATAC
18981292 TAATAAAATAA
1 TAATAAAATAA
18981303 TAATAAAATAA
1 TAATAAAATAA
18981314 TAA
1 TAA
18981317 AATATCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:18981367 original size:4 final size:4
Alignment explanation
Indices: 18981346--18981385 Score: 57
Period size: 4 Copynumber: 10.5 Consensus size: 4
18981336 AAATTAAAAT
*
18981346 ATTA A-TA ACTA A-TA ATTA ATTA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
18981386 CTAAAATATC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 6 0.18
4 28 0.82
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (4 bp):
ATTA
Found at i:18983388 original size:616 final size:615
Alignment explanation
Indices: 18982216--18983454 Score: 2235
Period size: 616 Copynumber: 2.0 Consensus size: 615
18982206 GTCGTATATA
* *
18982216 TTCAAGAGAGGTGGGTATTCCAACATAACTCGCCAAATGGTTCTACCTAATTAAATAAATTTTTA
1 TTCAAGAGAAGTGGGTATTCCAACATAACTCGCCAAATGGTTCCACCTAATTAAATAAATTTTTA
*
18982281 GCATACAATTATATTATAAATCTACGTAATAATTTTAAAATCTAATATAAAATTTACCTAGTTAT
66 GCATACAATTATATTATAAATCTACGTAATAATTGTAAAATCTAATATAAAATTTACCTAGTTAT
* * * *
18982346 CAGTGGGAATGTATATGGGTGGTTCACTGAGGATGTAAAAATGGAAAGTGAAATCGTGCCCATGA
131 CAGTGGGAATGTATATGGGTGGTTCACTGAGCACGTAAAAATGGAAAGTAAAATCATGCCCATGA
*
18982411 TTGCAGTAGTGATAGGCAACCTCAGATTTTGGCTTTATTCGGTCGCGTCGCCCCACACATCTCCC
196 TTGCAGTAGTGATAGGCAACCTCAGATTTTGGCTTTATTCGGACGCGTCGCCCCACACATCTCCC
* * *
18982476 GGTACAATATTGCCAACATAGCAGACTCAAACCTAAATTCATCAGCTGCTCTAAGATCAACGAGT
261 GGTAAAATATTGCCAACACAGCAGACTCAAACCTAAATTCATCAGCTGCTCTAAAATCAACGAGT
*
18982541 TTCAACAGCCACCTCAGATATACGAGGTTTCGTGACAAGTCCGCCATCAGATAACCTCTAATCAT
326 TTCAACAGCCACCTCAGATATACGAGGTTTCGTGACAAGTCCGCCATCAGATAACCTCAAATCAT
18982606 CTCAAGAATGTATGCCCGAGCATATCGTATTCTTTCTAGTTCAGTCAAATCATTATCCGGCTCTG
391 CTCAAGAATGTATGCCCGAGCATATCGTATTCTTTCTAGTTCAGTCAAATCATTATCCGGCTCTG
*
18982671 AGAATGTGTCTTGTAACCAGCCCATCTCGATCCGACCTCCGTTAATATTATCCGGAATAGCACCC
456 AGAATGTGTCTTGTAACCAGACCATCTCGATCCGACCTCCGTTAATATTATCCGGAATAGCACCC
* **
18982736 AAAAGCTCGTAGCATACAGCTCCTCAATCAGCAGATTGAGCGGACCCGGTGACTGTGTACCCATC
521 AAAAGCTCGTAGCATACAGCTCCTCAATCAGCAGATTGAGCGGACCCCGTGACTACGTACCCATC
18982801 TATCGACAATCCCAATTGCAATTGCACGTC
586 TATCGACAATCCCAATTGCAATTGCACGTC
18982831 TTCAAGAGAAGTGGGTATTCCAACATAACTCGCCAAATGGTTCCACCTAATTAAATAAATTTTTA
1 TTCAAGAGAAGTGGGTATTCCAACATAACTCGCCAAATGGTTCCACCTAATTAAATAAATTTTTA
*
18982896 GCATACAATTATATTATAAATCTACGTAATAATTGTAAAATCTAATATAAAATTTACCTCGTTAT
66 GCATACAATTATATTATAAATCTACGTAATAATTGTAAAATCTAATATAAAATTTACCTAGTTAT
18982961 CAGTGGGAATGTATATGGGTGGTTCACTCGAGCACGTAAAAATGGAAAGTAAAATCATGCCCATG
131 CAGTGGGAATGTATATGGGTGGTTCACT-GAGCACGTAAAAATGGAAAGTAAAATCATGCCCATG
18983026 ATTGCAGTAGTGATAGGCAACCTCAGATTTTGGCTTTATTCGGACGCGTCGCCCCACACATCTCC
195 ATTGCAGTAGTGATAGGCAACCTCAGATTTTGGCTTTATTCGGACGCGTCGCCCCACACATCTCC
* *
18983091 CGGTAAAATGTTGCTAACACAGCAGACTCAAACCTAAATTCATCAGCTGCTCTAAAATCAACGAG
260 CGGTAAAATATTGCCAACACAGCAGACTCAAACCTAAATTCATCAGCTGCTCTAAAATCAACGAG
*
18983156 TTTCAGCAGCCACCTCAGATATACGAGGTTTCGTGACAAGTCCGCCATCAGATAACCTCAAATCA
325 TTTCAACAGCCACCTCAGATATACGAGGTTTCGTGACAAGTCCGCCATCAGATAACCTCAAATCA
* *
18983221 TCTCAAGAATGTATGCTCGAGCATATCGTATTCTTTCTAGTTCAGTCGAATCATTATCCGGCTCT
390 TCTCAAGAATGTATGCCCGAGCATATCGTATTCTTTCTAGTTCAGTCAAATCATTATCCGGCTCT
* *
18983286 GAGAATGTGTCTTGTAACCAGACTATCTTGATCCGACCTCCGTTAATATTATCCGGAATAGCACC
455 GAGAATGTGTCTTGTAACCAGACCATCTCGATCCGACCTCCGTTAATATTATCCGGAATAGCACC
*
18983351 CAAAAGCTCGTAGCATACGGCTCCTCAATCAGCAGATTGAGCGGACCCCGTGACTACGTACCCAT
520 CAAAAGCTCGTAGCATACAGCTCCTCAATCAGCAGATTGAGCGGACCCCGTGACTACGTACCCAT
18983416 CTATCGACAATCCCAATTGCAATTGCACGTC
585 CTATCGACAATCCCAATTGCAATTGCACGTC
*
18983447 TTCTAGAG
1 TTCAAGAG
18983455 TGATAGTACA
Statistics
Matches: 597, Mismatches: 26, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
615 154 0.26
616 443 0.74
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (615 bp):
TTCAAGAGAAGTGGGTATTCCAACATAACTCGCCAAATGGTTCCACCTAATTAAATAAATTTTTA
GCATACAATTATATTATAAATCTACGTAATAATTGTAAAATCTAATATAAAATTTACCTAGTTAT
CAGTGGGAATGTATATGGGTGGTTCACTGAGCACGTAAAAATGGAAAGTAAAATCATGCCCATGA
TTGCAGTAGTGATAGGCAACCTCAGATTTTGGCTTTATTCGGACGCGTCGCCCCACACATCTCCC
GGTAAAATATTGCCAACACAGCAGACTCAAACCTAAATTCATCAGCTGCTCTAAAATCAACGAGT
TTCAACAGCCACCTCAGATATACGAGGTTTCGTGACAAGTCCGCCATCAGATAACCTCAAATCAT
CTCAAGAATGTATGCCCGAGCATATCGTATTCTTTCTAGTTCAGTCAAATCATTATCCGGCTCTG
AGAATGTGTCTTGTAACCAGACCATCTCGATCCGACCTCCGTTAATATTATCCGGAATAGCACCC
AAAAGCTCGTAGCATACAGCTCCTCAATCAGCAGATTGAGCGGACCCCGTGACTACGTACCCATC
TATCGACAATCCCAATTGCAATTGCACGTC
Found at i:18984803 original size:29 final size:29
Alignment explanation
Indices: 18984770--18984828 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
18984760 CTTCCCTTTC
18984770 ATCAACATGTATATTACTTAAATCCTAAA
1 ATCAACATGTATATTACTTAAATCCTAAA
18984799 ATCAACATGTATATTACTTAAATCCTAAA
1 ATCAACATGTATATTACTTAAATCCTAAA
18984828 A
1 A
18984829 CGGCACATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.46, C:0.17, G:0.03, T:0.34
Consensus pattern (29 bp):
ATCAACATGTATATTACTTAAATCCTAAA
Found at i:18985368 original size:31 final size:31
Alignment explanation
Indices: 18985318--18985378 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
18985308 TATACACATG
* *
18985318 AAACTTTGATTGTGGTTCAAAT-ATATATATA
1 AAACTTTAATTGTGATTC-AATCATATATATA
*
18985349 AAACTTTAATTTTGATTCAATCATATATAT
1 AAACTTTAATTGTGATTCAATCATATATAT
18985379 TTAAAGAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 3 0.12
31 23 0.88
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.44
Consensus pattern (31 bp):
AAACTTTAATTGTGATTCAATCATATATATA
Found at i:18993513 original size:21 final size:23
Alignment explanation
Indices: 18993466--18993519 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
18993456 CATTCAAGAT
**
18993466 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAACTAATTA
*
18993489 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
18993510 AAAAT-ATATA
1 AAAATAATATA
18993520 ATGTGTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:18993557 original size:25 final size:24
Alignment explanation
Indices: 18993529--18993590 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
18993519 AATGTGTAAA
*
18993529 AAAATTTTGAAATATATAATATAT
1 AAAATTTTGAAATAAATAATATAT
* *
18993553 GAAAATATT-AAAGTAAATAATGTAT
1 -AAAATTTTGAAA-TAAATAATATAT
*
18993578 AAAAATTTGAAAT
1 AAAATTTTGAAAT
18993591 GAGCGTTATA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
24 10 0.33
25 20 0.67
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.35
Consensus pattern (24 bp):
AAAATTTTGAAATAAATAATATAT
Found at i:18993761 original size:23 final size:23
Alignment explanation
Indices: 18993695--18993761 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 23
18993685 TATAAGAAAA
*
18993695 ATAAT-AAT-GAAA-ATAATATT
1 ATAATAAATAGAAATATAATAAT
18993715 AGTATATAAATAGAAATA-AA-AAT
1 A-TA-ATAAATAGAAATATAATAAT
18993738 ATAATAAATAGAAATATAATAAT
1 ATAATAAATAGAAATATAATAAT
18993761 A
1 A
18993762 GTAGAAATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 6 0.15
23 10 0.26
24 6 0.15
25 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (23 bp):
ATAATAAATAGAAATATAATAAT
Found at i:18993761 original size:29 final size:28
Alignment explanation
Indices: 18993675--18993791 Score: 71
Period size: 29 Copynumber: 4.0 Consensus size: 28
18993665 TAACAAGAGT
* * *
18993675 GAAAAACATATATAAGAAAAATAATAAT-
1 GAAAAATATAAAT-AGATAAATAATAATA
* * *
18993703 GAAAATAATATTAGTATATAAATAGA-AATA
1 G-AAA-AATATAAATAGATAAATA-ATAATA
18993733 -AAAATATAATAAATAGA-AATATAATAATA
1 GAAAA-AT-ATAAATAGATAA-ATAATAATA
*
18993762 GTAGAAATATAAATAGATAAATAATAATA
1 G-AAAAATATAAATAGATAAATAATAATA
18993791 G
1 G
18993792 TATTAGAATA
Statistics
Matches: 68, Mismatches: 10, Indels: 21
0.69 0.10 0.21
Matches are distributed among these distances:
27 1 0.01
28 9 0.13
29 45 0.66
30 10 0.15
31 3 0.04
ACGTcount: A:0.64, C:0.01, G:0.09, T:0.26
Consensus pattern (28 bp):
GAAAAATATAAATAGATAAATAATAATA
Found at i:18993768 original size:17 final size:15
Alignment explanation
Indices: 18993728--18993773 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
18993718 ATATAAATAG
*
18993728 AAATAAAAATATAAT
1 AAATAGAAATATAAT
18993743 AAATAGAAATATAAT
1 AAATAGAAATATAAT
18993758 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
18993774 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:18993773 original size:14 final size:15
Alignment explanation
Indices: 18993753--18993793 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
18993743 AAATAGAAAT
18993753 ATAATAATAGTAGAA
1 ATAATAATAGTAGAA
*
18993768 AT-ATAAATAG-ATAA
1 ATAAT-AATAGTAGAA
18993782 ATAATAATAGTA
1 ATAATAATAGTA
18993794 TTAGAATAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (15 bp):
ATAATAATAGTAGAA
Found at i:18993788 original size:15 final size:14
Alignment explanation
Indices: 18993728--18993788 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 14
18993718 ATATAAATAG
*
18993728 AAATAAAAATATAAT
1 AAATAGAAA-ATAAT
18993743 AAATAGAAATATAAT
1 AAATAGAAA-ATAAT
18993758 -AATAGTAGAAAT-AT
1 AAATAG-A-AAATAAT
18993772 AAATAGATAAATAAT
1 AAATAGA-AAATAAT
18993787 AA
1 AA
18993789 TAGTATTAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
14 12 0.30
15 26 0.65
16 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (14 bp):
AAATAGAAAATAAT
Found at i:18997145 original size:53 final size:52
Alignment explanation
Indices: 18997012--18997146 Score: 173
Period size: 52 Copynumber: 2.6 Consensus size: 52
18997002 CCATGGCAAC
* * *
18997012 ATGTGATATGTGCTTCCATATAAGACCATAGCAGGGCTATGACATGGGTGTG
1 ATGTGATATGTGCTTCCATATAAGACCATAACAGGGCTATGACATCGGTGAG
** * * *
18997064 ATGTGATATGTGC-TCTTGTATAAGACCATAATAGGGTTATGGCATCGGTGAG
1 ATGTGATATGTGCTTC-CATATAAGACCATAACAGGGCTATGACATCGGTGAG
18997116 ATGTGATTATGTGCTTCCATATAAGACCATA
1 ATGTGA-TATGTGCTTCCATATAAGACCATA
18997147 TTTGAGATAT
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
51 2 0.03
52 47 0.67
53 19 0.27
54 2 0.03
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (52 bp):
ATGTGATATGTGCTTCCATATAAGACCATAACAGGGCTATGACATCGGTGAG
Found at i:18997220 original size:47 final size:46
Alignment explanation
Indices: 18997064--18997222 Score: 124
Period size: 47 Copynumber: 3.3 Consensus size: 46
18997054 CATGGGTGTG
* *
18997064 ATGTGATATGTGC-TCTTGTATAAGACCATAATAGGGTTATGGCATCGGTGA
1 ATGTGATATGTGCTTC-TGTATAAGACCAT-ATTGGGATATGGCATC----A
** * * *
18997115 GATGTGATTATGTGCTTCCATATAAGACCATATTTGAGATATAGCATCG
1 -ATGTGA-TATGTGCTTCTGTATAAGACCATA-TTGGGATATGGCATCA
* *
18997164 ATAAT-ATATGTGCTTCTGTGTAAGACCATATCTGGGATATGGCATCA
1 AT-GTGATATGTGCTTCTGTATAAGACCATAT-TGGGATATGGCATCA
18997211 ATGTGATATGTG
1 ATGTGATATGTG
18997223 ATCCGTGTAA
Statistics
Matches: 86, Mismatches: 15, Indels: 17
0.73 0.13 0.14
Matches are distributed among these distances:
46 2 0.02
47 42 0.49
48 3 0.03
49 1 0.01
52 7 0.08
53 29 0.34
54 2 0.02
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.35
Consensus pattern (46 bp):
ATGTGATATGTGCTTCTGTATAAGACCATATTGGGATATGGCATCA
Found at i:18998071 original size:13 final size:13
Alignment explanation
Indices: 18998053--18998077 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18998043 GGGCTCTAAC
18998053 ATGGCCGTGTGAT
1 ATGGCCGTGTGAT
18998066 ATGGCCGTGTGA
1 ATGGCCGTGTGA
18998078 AGTCTGTACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.16, G:0.40, T:0.28
Consensus pattern (13 bp):
ATGGCCGTGTGAT
Found at i:18999614 original size:14 final size:13
Alignment explanation
Indices: 18999591--18999632 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
18999581 AACCTAAACT
*
18999591 AAAAATGAAAAGCA
1 AAAAAAGAAAAG-A
18999605 AAAAAAGAAAAGA
1 AAAAAAGAAAAGA
*
18999618 AAAAGAG-AAAGA
1 AAAAAAGAAAAGA
18999630 AAA
1 AAA
18999633 CCTAACCTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 8 0.31
13 7 0.27
14 11 0.42
ACGTcount: A:0.79, C:0.02, G:0.17, T:0.02
Consensus pattern (13 bp):
AAAAAAGAAAAGA
Found at i:19001425 original size:46 final size:45
Alignment explanation
Indices: 19001372--19001546 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 45
19001362 TGTTTGGGCA
19001372 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-ATGCGAATG
* * *
19001418 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCGAA-T--G
* * *
19001463 CATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTCATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATGCGAATG
* * *
19001511 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG
19001547 GGCGGGTTAC
Statistics
Matches: 107, Mismatches: 13, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 4 0.04
46 59 0.55
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCGAATG
Found at i:19001527 original size:93 final size:93
Alignment explanation
Indices: 19001368--19001540 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
19001358 AGGATGTTTG
* * *
19001368 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGAATGCGAACGCCCGAACTCGTTGAG
19001433 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
19001461 GGCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGAATGCGAACGCCCGAACTCGTTGAG
19001526 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
19001541 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGAATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:19003786 original size:15 final size:15
Alignment explanation
Indices: 19003760--19003820 Score: 68
Period size: 15 Copynumber: 4.0 Consensus size: 15
19003750 TTAAACTCAA
19003760 CACTTAATTTTTTTAG
1 CACTT-ATTTTTTTAG
* * *
19003776 TAATTATTTTTTTAA
1 CACTTATTTTTTTAG
*
19003791 CACTTATTTTTTCAG
1 CACTTATTTTTTTAG
*
19003806 CACTTAATTTTTTAG
1 CACTTATTTTTTTAG
19003821 TTTATCAAAC
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
15 33 0.92
16 3 0.08
ACGTcount: A:0.26, C:0.11, G:0.05, T:0.57
Consensus pattern (15 bp):
CACTTATTTTTTTAG
Found at i:19003816 original size:31 final size:31
Alignment explanation
Indices: 19003758--19003819 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
19003748 ACTTAAACTC
* *
19003758 AACACTTAATTTTTTTAGTAATTATTTTTTT
1 AACACTTAATTTTTTCAGCAATTATTTTTTT
* *
19003789 AACACTT-ATTTTTTCAGCACTTAATTTTTT
1 AACACTTAATTTTTTCAGCAATTATTTTTTT
19003819 A
1 A
19003820 GTTTATCAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 20 0.74
31 7 0.26
ACGTcount: A:0.29, C:0.11, G:0.03, T:0.56
Consensus pattern (31 bp):
AACACTTAATTTTTTCAGCAATTATTTTTTT
Done.