Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 210 of 325
Found at i:68206297 original size:36 final size:36
Alignment explanation
Indices: 68206250--68206322 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
68206240 TGAACAAAGG
68206250 TTAAAAGATGATAACTTTAACTTTTGTTTTATTTAA
1 TTAAAAGATGATAACTTTAACTTTTGTTTTATTTAA
68206286 TTAAAAGATGATAACTTTAACTTTTGTTTTATTTAA
1 TTAAAAGATGATAACTTTAACTTTTGTTTTATTTAA
68206322 T
1 T
68206323 ATTAACATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.51
Consensus pattern (36 bp):
TTAAAAGATGATAACTTTAACTTTTGTTTTATTTAA
Found at i:68227308 original size:40 final size:40
Alignment explanation
Indices: 68227264--68227487 Score: 237
Period size: 40 Copynumber: 5.6 Consensus size: 40
68227254 GCTCCTCATT
*
68227264 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
68227304 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
68227344 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * *
68227383 CAAATGCCTTC-GGATTTTAGTCCGGATT-TAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGG-TTATAGTAACTCGCA
* * * * *
68227423 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
68227464 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
68227488 ACATCATTCA
Statistics
Matches: 159, Mismatches: 15, Indels: 20
0.82 0.08 0.10
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 112 0.70
41 13 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:68227367 original size:79 final size:78
Alignment explanation
Indices: 68227264--68227488 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 78
68227254 GCTCCTCATT
* *
68227264 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
68227329 ATTTAGTAACTCGCA
64 ATTTAGTAACTCGCA
* * * *
68227344 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTC-GGATTTTAGTCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGG
*
68227408 ATTTAGTATCTCGCA
64 ATTTAGTAACTCGCA
* * * * *
68227423 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
68227487 GA
63 GA
68227489 CATCATTCAA
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
78 4 0.03
79 65 0.53
80 42 0.34
81 12 0.10
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
TTAGTAACTCGCA
Found at i:68232815 original size:46 final size:44
Alignment explanation
Indices: 68232684--68232852 Score: 162
Period size: 46 Copynumber: 3.7 Consensus size: 44
68232674 ATTGTGAGCT
* * *
68232684 AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAAATGA-GTGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCG--A-GACGTGCC
* *
68232732 AGTGTAAGGCATGTTTGGGACATGCATCGGCCTCGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGT--GCC
* **
68232778 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATGTGTG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGTGCC
68232822 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
68232853 ACACAGATAT
Statistics
Matches: 105, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
43 2 0.02
44 13 0.12
45 16 0.15
46 53 0.50
47 13 0.12
48 8 0.08
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTGCC
Found at i:68233033 original size:45 final size:45
Alignment explanation
Indices: 68232969--68233061 Score: 186
Period size: 45 Copynumber: 2.1 Consensus size: 45
68232959 AACGGTGAAA
68232969 GTATGATTTCAAGTTAACAAGGAAACTATAACCGTGTTATGAGTG
1 GTATGATTTCAAGTTAACAAGGAAACTATAACCGTGTTATGAGTG
68233014 GTATGATTTCAAGTTAACAAGGAAACTATAACCGTGTTATGAGTG
1 GTATGATTTCAAGTTAACAAGGAAACTATAACCGTGTTATGAGTG
68233059 GTA
1 GTA
68233062 CAGGTACCTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.31
Consensus pattern (45 bp):
GTATGATTTCAAGTTAACAAGGAAACTATAACCGTGTTATGAGTG
Found at i:68240126 original size:46 final size:42
Alignment explanation
Indices: 68240039--68240156 Score: 112
Period size: 46 Copynumber: 2.6 Consensus size: 42
68240029 TTGAAAAAAG
* * *
68240039 TGCTAGTGTAAGGCATGTCTAGGACATACATCAGCCTCGAGACA
1 TGCTAGTGTAAGACATGTCTGGGACATACATCAGCCACGAG--A
* *
68240083 TAAGCTAGTGTAAGACATGTCTGGGACATGCAT-TGCCCACGAGA
1 T--GCTAGTGTAAGACATGTCTGGGACATACATCAG-CCACGAGA
68240127 TGTCTTAGTGTAAGACCATGTCTGGGACAT
1 TG-C-TAGTGTAAGA-CATGTCTGGGACAT
68240157 TGGATCGGCA
Statistics
Matches: 63, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
42 1 0.02
43 1 0.02
44 13 0.21
45 15 0.24
46 33 0.52
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.25
Consensus pattern (42 bp):
TGCTAGTGTAAGACATGTCTGGGACATACATCAGCCACGAGA
Found at i:68249124 original size:21 final size:20
Alignment explanation
Indices: 68249085--68249126 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
68249075 TCCTTAAAAC
*
68249085 AGGGCACAAGCCTGTGTGGA
1 AGGGCACAAGCCCGTGTGGA
*
68249105 AGGGCAACACGCCCGTGTGGA
1 AGGGC-ACAAGCCCGTGTGGA
68249126 A
1 A
68249127 TTAATTTCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.26, C:0.24, G:0.38, T:0.12
Consensus pattern (20 bp):
AGGGCACAAGCCCGTGTGGA
Found at i:68250229 original size:47 final size:48
Alignment explanation
Indices: 68250161--68250381 Score: 253
Period size: 47 Copynumber: 4.7 Consensus size: 48
68250151 GGTAAGGTTT
* *
68250161 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCAAGC
*
68250208 CGATGCCATGTCCCAGACATGGTCTTACACT-GACT-ATCATCTCGTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCATCATCTC-AAGC
* *
68250256 CGATG-CATGTCTCAGACAT-GTCTTACACTAGCTC-TCGTCTCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCAA-GC
* ***
68250302 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCATAATGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCAT-CTCAAGC
*
68250350 CGAT-ACATGTCCCAGACAT-GTCTTACACTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGC
68250382 CAACCATAAC
Statistics
Matches: 153, Mismatches: 12, Indels: 19
0.83 0.07 0.10
Matches are distributed among these distances:
45 1 0.01
46 41 0.27
47 79 0.52
48 31 0.20
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCAAGC
Found at i:68250328 original size:94 final size:93
Alignment explanation
Indices: 68250161--68250381 Score: 295
Period size: 94 Copynumber: 2.3 Consensus size: 93
68250151 GGTAAGGTTT
* *
68250161 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTCCCAGAC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCATATCTCAAGCCGATGCCATGTCCCAGAC
*
68250226 ATGGTCTTACACT-GACTATCAT-CTCGTAGC
64 ATGGTCTTACACTAG-CTATCATAAT-GTAGC
* *
68250256 CGATGCATGTCTCAGACATGTCTTACACTAGCTC-TCGTCTCAATGCCGATGCCATGTCCCAGAC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCAT-ATCTCAA-GCCGATGCCATGTCCCAGAC
* *
68250320 ATGGTCTTACACTAGCTCTCATAATGTGGC
64 ATGGTCTTACACTAGCTATCATAATGTAGC
*
68250350 CGATACATGTCCCAGACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
68250382 CAACCATAAC
Statistics
Matches: 113, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
92 1 0.01
93 20 0.18
94 85 0.75
95 7 0.06
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (93 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCATATCTCAAGCCGATGCCATGTCCCAGACAT
GGTCTTACACTAGCTATCATAATGTAGC
Found at i:68253000 original size:14 final size:14
Alignment explanation
Indices: 68252981--68253022 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
68252971 TATCGTTATT
68252981 TTTAATTATATATA
1 TTTAATTATATATA
68252995 TTTAA-TATATTATA
1 TTTAATTATA-TATA
**
68253009 TAAAATTATATATA
1 TTTAATTATATATA
68253023 AATATCATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 4 0.17
14 16 0.67
15 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TTTAATTATATATA
Found at i:68253072 original size:18 final size:19
Alignment explanation
Indices: 68253051--68253095 Score: 74
Period size: 20 Copynumber: 2.4 Consensus size: 19
68253041 TAAATAAAAT
68253051 TTTAA-ATATAAAATATTA
1 TTTAATATATAAAATATTA
68253069 TTTAATTATATAAAATATTA
1 TTTAA-TATATAAAATATTA
68253089 TTTAATA
1 TTTAATA
68253096 AATTTTACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.20
19 2 0.08
20 18 0.72
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTAATATATAAAATATTA
Found at i:68253081 original size:20 final size:20
Alignment explanation
Indices: 68253056--68253094 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
68253046 AAAATTTTAA
68253056 ATATAAAATATTATTTAATT
1 ATATAAAATATTATTTAATT
68253076 ATATAAAATATTATTTAAT
1 ATATAAAATATTATTTAAT
68253095 AAATTTTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATAAAATATTATTTAATT
Found at i:68258457 original size:25 final size:25
Alignment explanation
Indices: 68258429--68258479 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
68258419 TAATTATATA
*
68258429 GCAAGAACTTAGAAATCTATGATAG
1 GCAAGAACTTAGAAATCTATAATAG
68258454 GCAAGAACTTAGAAATCTATAATAG
1 GCAAGAACTTAGAAATCTATAATAG
68258479 G
1 G
68258480 AACAATATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.45, C:0.12, G:0.20, T:0.24
Consensus pattern (25 bp):
GCAAGAACTTAGAAATCTATAATAG
Found at i:68276437 original size:64 final size:64
Alignment explanation
Indices: 68276333--68276462 Score: 217
Period size: 64 Copynumber: 2.0 Consensus size: 64
68276323 TTCATATCAT
*
68276333 AAACTAATCATAATCAATCATATTGTCCATTATGTAAGCCCTGGA-GGTCCAAAACACGCATTAG
1 AAACTAATCATAATCAATCATATTGTCCATTATGTAAGCCCT-CACGGTCCAAAACACGCATTAG
* *
68276397 AAACTAATCATAATCAATCATATTGTCTATTATGTGAGCCCTCACGGTCCAAAACACGCATTAG
1 AAACTAATCATAATCAATCATATTGTCCATTATGTAAGCCCTCACGGTCCAAAACACGCATTAG
68276461 AA
1 AA
68276463 TTAAGTCGGG
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
63 1 0.02
64 61 0.98
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (64 bp):
AAACTAATCATAATCAATCATATTGTCCATTATGTAAGCCCTCACGGTCCAAAACACGCATTAG
Found at i:68278467 original size:21 final size:22
Alignment explanation
Indices: 68278439--68278502 Score: 78
Period size: 21 Copynumber: 3.0 Consensus size: 22
68278429 CAGAAGCAGT
*
68278439 ATACGACACATAAAGTGCCTGA
1 ATACGACACATATAGTGCCTGA
* * *
68278461 A-ACGACATACATGGTGCCT-A
1 ATACGACACATATAGTGCCTGA
68278481 ATACGACACATATAGTGCCTGA
1 ATACGACACATATAGTGCCTGA
68278503 TCGGCAAAGC
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
20 2 0.06
21 29 0.88
22 2 0.06
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (22 bp):
ATACGACACATATAGTGCCTGA
Found at i:68278882 original size:75 final size:76
Alignment explanation
Indices: 68278803--68278975 Score: 185
Period size: 78 Copynumber: 2.3 Consensus size: 76
68278793 TTATTCAATT
*
68278803 CATA-TTT-TTAATTC-ATT-TTTCAATCAAATTCAAATCACTAATTACTTTTCAATCAATATAC
1 CATATTTTCTTAATTCAATTATTTCAATC-AATTCAAATCACT-ATTACTTTCCAATCAATATAC
68278864 ATTTCAAATACTCA
64 -TTTCAAATACTCA
* * * * *
68278878 CATATTTTCTTCATTCAATTCAATTTGATTCAATTCAAATCACTTTTAGTTTCCAATCAATATAC
1 CATATTTTCTTAATTCAATT--ATTTCAATCAATTCAAATCACTATTACTTTCCAATCAATATAC
*
68278943 TTTCAAATATTCA
64 TTTCAAATACTCA
* *
68278956 CATA-ATTCATAATTCAATTA
1 CATATTTTCTTAATTCAATTA
68278976 CTTAATTCAA
Statistics
Matches: 82, Mismatches: 10, Indels: 12
0.79 0.10 0.12
Matches are distributed among these distances:
75 5 0.06
76 3 0.04
77 18 0.22
78 19 0.23
79 18 0.22
80 13 0.16
81 6 0.07
ACGTcount: A:0.37, C:0.18, G:0.01, T:0.43
Consensus pattern (76 bp):
CATATTTTCTTAATTCAATTATTTCAATCAATTCAAATCACTATTACTTTCCAATCAATATACTT
TCAAATACTCA
Found at i:68280554 original size:25 final size:26
Alignment explanation
Indices: 68280500--68280565 Score: 71
Period size: 25 Copynumber: 2.5 Consensus size: 26
68280490 CGAGCACTTA
*
68280500 AACGAGAAGCTCTCTCTCGAGCCATAT
1 AACGAGAAGCTC-ATCTCGAGCCATAT
* *
68280527 AACGAGAAGCTCATGT-GAGCCATGT
1 AACGAGAAGCTCATCTCGAGCCATAT
* *
68280552 AACGGGAAACTCAT
1 AACGAGAAGCTCAT
68280566 AAGAGTCATA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
25 20 0.59
26 2 0.06
27 12 0.35
ACGTcount: A:0.33, C:0.24, G:0.23, T:0.20
Consensus pattern (26 bp):
AACGAGAAGCTCATCTCGAGCCATAT
Found at i:68283467 original size:37 final size:36
Alignment explanation
Indices: 68283374--68283858 Score: 307
Period size: 37 Copynumber: 13.3 Consensus size: 36
68283364 TAGTCAAGGC
** * * *
68283374 CAACCTTTAAAAAAGGTTAAGATAAACCCGTCTAAGG
1 CAACC-TTAAAAAAGGTTGGGATAGACCAGTCTAAGA
* * *
68283411 CAA-CTTTAAAAAGGATGGGATAGACCAGTTTAAGA
1 CAACCTTAAAAAAGGTTGGGATAGACCAGTCTAAGA
* * *
68283446 TAACCTTTAAAAAAAGTTGGGATAGAACTCA-TCTAAAA
1 CAACC-TTAAAAAAGGTTGGGATAG-AC-CAGTCTAAGA
* * * * *
68283484 CAACCTTTAAAATATGTTGAGATA-AACATGTCTAAGG
1 CAACC-TTAAAAAAGGTTGGGATAGACCA-GTCTAAGA
* *
68283521 CAACCTT-AAAAAGGTTGGGGTAGACCTTGTCTAAGGA
1 CAACCTTAAAAAAGGTTGGGATAGACC-AGTCTAA-GA
* * * *
68283558 -AAGCCTTAAAAAATGTTAGGATAGACTC-GTTTAAGG
1 CAA-CCTTAAAAAAGGTTGGGATAGAC-CAGTCTAAGA
* *
68283594 CAACCCTT-AAAAAGGTTGGGATAGACCTTGTCTAAGG
1 CAA-CCTTAAAAAAGGTTGGGATAGACC-AGTCTAAGA
68283631 CAACCCTTAAAAAAGGTTGGGATAGACCCA-TCTAA-A
1 CAA-CCTTAAAAAAGGTTGGGATAGA-CCAGTCTAAGA
* * *
68283667 GCAACCCT-AAAAAGGTTGGGATAGACCTTGTCTAAGG
1 -CAACCTTAAAAAAGGTTGGGATAGACC-AGTCTAAGA
* * **
68283704 CAATCTTTAAAAAGGTTAAGATAGATCC-GTCT-AGTA
1 CAACCTTAAAAAAGGTTGGGATAGA-CCAGTCTAAG-A
* *
68283740 TAACCTT-AAAAAGGTTGGGATATACCTTA-TCTAAGA
1 CAACCTTAAAAAAGGTTGGGATAGACC--AGTCTAAGA
* * *
68283776 CAACCTTTAAAAAGGTTGGGATAGACCCGTCTAAGG
1 CAACCTTAAAAAAGGTTGGGATAGACCAGTCTAAGA
* * * * *
68283812 CAACCTT-TAAAAGGTTGGGATAAACCCGTTTAAAA
1 CAACCTTAAAAAAGGTTGGGATAGACCAGTCTAAGA
*
68283847 CAATCTTAAAAA
1 CAACCTTAAAAA
68283859 TGTTGGAATA
Statistics
Matches: 354, Mismatches: 63, Indels: 63
0.74 0.13 0.13
Matches are distributed among these distances:
34 4 0.01
35 101 0.29
36 80 0.23
37 103 0.29
38 61 0.17
39 5 0.01
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (36 bp):
CAACCTTAAAAAAGGTTGGGATAGACCAGTCTAAGA
Found at i:68283481 original size:73 final size:72
Alignment explanation
Indices: 68283403--68283833 Score: 417
Period size: 72 Copynumber: 5.9 Consensus size: 72
68283393 AGATAAACCC
* * * *
68283403 GTCTAAGGCAA-CTTTAAAAAGGATGGGATAGACCAGTTTAAGATAACCTTTAAAAAAAGTTGGG
1 GTCTAAGGCAACCTTTAAAAAGGTTGGGATAGACCAGTCTAAGACAACC-TT-AAAAAGGTTGGG
* *
68283467 ATAGAACTC
64 ATAGACCTT
* ** * * * *
68283476 ATCTAAAACAACCTTTAAAATATGTTGAGATA-AACATGTCTAAGGCAACCTTAAAAAGGTTGGG
1 GTCTAAGGCAACCTTTAAAA-AGGTTGGGATAGACCA-GTCTAAGACAACCTTAAAAAGGTTGGG
*
68283540 GTAGACCTT
64 ATAGACCTT
* * * * * *
68283549 GTCTAAGGAAAGCCTTAAAAAATGTTAGGATAGACTC-GTTTAAGGCAACCCTTAAAAAGGTTGG
1 GTCTAAGGCAA-CCTTTAAAAAGGTTGGGATAGAC-CAGTCTAAGACAA-CCTTAAAAAGGTTGG
68283613 GATAGACCTT
63 GATAGACCTT
* *
68283623 GTCTAAGGCAACCCTTAAAAAAGGTTGGGATAGACCCA-TCTAA-AGCAACCCTAAAAAGGTTGG
1 GTCTAAGGCAA-CCTTTAAAAAGGTTGGGATAGA-CCAGTCTAAGA-CAACCTTAAAAAGGTTGG
68283686 GATAGACCTT
63 GATAGACCTT
* ** *
68283696 GTCTAAGGCAATCTTTAAAAAGGTTAAGATAGATCC-GTCT-AGTATAACCTTAAAAAGGTTGGG
1 GTCTAAGGCAACCTTTAAAAAGGTTGGGATAGA-CCAGTCTAAG-ACAACCTTAAAAAGGTTGGG
*
68283759 ATATACCTT
64 ATAGACCTT
* * * * *
68283768 ATCTAAGACAACCTTTAAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTTTAAAAGGTTGGGAT
1 GTCTAAGGCAACCTTTAAAAAGGTTGGGATAGACCAGTCTAAGACAACCTTAAAAAGGTTGGGAT
68283833 A
66 A
68283834 AACCCGTTTA
Statistics
Matches: 296, Mismatches: 47, Indels: 31
0.79 0.13 0.08
Matches are distributed among these distances:
71 3 0.01
72 100 0.34
73 89 0.30
74 84 0.28
75 20 0.07
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.26
Consensus pattern (72 bp):
GTCTAAGGCAACCTTTAAAAAGGTTGGGATAGACCAGTCTAAGACAACCTTAAAAAGGTTGGGAT
AGACCTT
Found at i:68283545 original size:110 final size:109
Alignment explanation
Indices: 68283374--68283836 Score: 329
Period size: 110 Copynumber: 4.2 Consensus size: 109
68283364 TAGTCAAGGC
* ** * *
68283374 CAACCTTTAAAAAAGGTTAAGATAAACCCGTCTAAGGCAACTTTAAAAAGGATGGGATAGACC-A
1 CAACCTTT-AAAAAGGTTGAGATAAACATGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTA
* *
68283438 GTTTAA-GATAA-CCTTTAAAAAAAGTTGGGATAGAACTCATCTAAAA
65 GTCTAAGGA-AAGCC-TTAAAAAAAGTTAGGATAG-ACTCATCTAAAA
* * *
68283484 CAACCTTTAAAATATGTTGAGATAAACATGTCTAAGGCAACCTTAAAAAGGTTGGGGTAGACCTT
1 CAACCTTTAAAA-AGGTTGAGATAAACATGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTA
* * * **
68283549 GTCTAAGGAAAGCCTTAAAAAATGTTAGGATAGACTCGTTTAAGG
65 GTCTAAGGAAAGCCTTAAAAAAAGTTAGGATAGACTCATCTAAAA
* * * *
68283594 CAACCCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCCTTAAAAAAGGTTGGGATAGACC
1 CAACCTTTAAAAAGGTTGAGATA-AACATGTCTAAGGCAA-CCTT-AAAAAGGTTGGGATAGACC
* * * * * * ** **
68283659 CA-TCTAAAGCAA-CCCT-AAAAAGGTTGGGATAGACCTTGTCTAAGG
63 TAGTCTAAGGAAAGCCTTAAAAAAAGTTAGGATAGA-CTCATCTAAAA
* * * * ** *
68283704 CAATCTTTAAAAAGGTTAAGATAGATC-CGTCT-AGTATAACCTTAAAAAGGTTGGGATATACCT
1 CAACCTTTAAAAAGGTTGAGATA-AACATGTCTAAG-GCAACCTTAAAAAGGTTGGGATAGACC-
* * * * * **
68283767 TA-TCTAA-GACAA-CCTTTAAAAAGGTTGGGATAGACCCGTCTAAGG
63 TAGTCTAAGGA-AAGCCTTAAAAAAAGTTAGGATAGACTCATCTAAAA
*
68283812 CAACCTTT-AAAAGGTTGGGATAAAC
1 CAACCTTTAAAAAGGTTGAGATAAAC
68283837 CCGTTTAAAA
Statistics
Matches: 293, Mismatches: 48, Indels: 28
0.79 0.13 0.08
Matches are distributed among these distances:
106 2 0.01
107 31 0.11
108 33 0.11
109 51 0.17
110 118 0.40
111 36 0.12
112 22 0.08
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (109 bp):
CAACCTTTAAAAAGGTTGAGATAAACATGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTAG
TCTAAGGAAAGCCTTAAAAAAAGTTAGGATAGACTCATCTAAAA
Found at i:68290863 original size:125 final size:130
Alignment explanation
Indices: 68290622--68291288 Score: 522
Period size: 140 Copynumber: 4.9 Consensus size: 130
68290612 ATCAAATCTA
* * * *
68290622 AGTGTTGGACAAAACCGACTCTTATTTAAGTGTTGTCTTAGGCATGCATATCCCGACCCTTATGC
1 AGTGTTGGAC-AAAGCGACTCTTATTTAAGTGTTGCCTTAGGCATGCATATCCCAACCC-TATAC
* *
68290687 AAAGAGTTGGCCAAAGCGTATGTCGGCAAGTCTATTCCAACACTTAGGAAAGTGTCGG-C-A-T-
64 AAAGAGTTGGCCAAAGCATATGTCGGCAAGTCTATCCCAACACTTAGGAAAGTGTCGGCCAAGTG
68290748 A-
129 AT
* *
68290749 A-TGTTGGACAAAGGCGATTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTATACA
1 AGTGTTGGACAAA-GCGACTCTTATTTAAGTGTTGCCTTAGGCATGCATATCCCAACCCTATACA
** *
68290813 AAGAGTTATCCAAAGCATATGTCGGCAAGTCTATCCCAACACTTAAGAAAGTGTCGGCCCAAAAG
65 AAGAGTTGGCCAAAGCATATGTCGGCAAGTCTATCCCAACACTTAGGAAAGTGTCGG-CC--AA-
68290878 CGTTGGCAT
126 -G-T-G-AT
* * * *
68290887 AGTGTTCGACAAAGCTGACTCTTATTTAAGTGTTGCCCTAGGCATGCATATCCCAACACTTATAA
1 AGTGTTGGACAAAGC-GACTCTTATTTAAGTGTTGCCTTAGGCATGCATATCCCAAC-CCTATAC
* * * * * *
68290952 AAAGGGATGGCCAAAGCATATGTCAGCAAGTCTATCCCAACACTTAGGAAATTGCCGACCCAAAA
64 AAAGAGTTGGCCAAAGCATATGTCGGCAAGTCTATCCCAACACTTAGGAAAGTGTCG-GCC--AA
68291017 GTGTCGGTAT
126 --GT--G-AT
* ** *
68291027 AGTGTTGGAGAAATTTGACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATAC
1 AGTGTTGGACAAA-GCGACTCTTATTTAAGTGTTGCCTTAGGCATGCATATCCCAACCC-TATAC
* * * * ** * * **
68291092 AAAGGGTTTGCCAAA-CTGTGTGTCAACAAGTCTATCCCTACACTTGGGAAAGTGTCTACCCAAA
64 AAAGAGTTGGCCAAAGC-ATATGTCGGCAAGTCTATCCCAACACTTAGGAAAGTGTC-GGCC--A
*
68291156 AGTGTCGGCAC
125 A--GT--G-AT
* * * ** * * * *
68291167 AGTGTTGGGCAAAGCCAACTCTTATGTAAGCT-TTGCCTTAGATATGAACATCTCAAACCTTATA
1 AGTGTTGGACAAAG-CGACTCTTATTTAAG-TGTTGCCTTAGGCATGCATATC-CCAACCCTATA
* * * *
68291231 CAAAGTGTAGTCCAAAGCATATGTCGGCAAGCCTATCCCAACACTTAGGAAAGTGTCG
63 CAAAGAGTTGGCCAAAGCATATGTCGGCAAGTCTATCCCAACACTTAGGAAAGTGTCG
68291289 CCCCAAAAGT
Statistics
Matches: 440, Mismatches: 73, Indels: 42
0.79 0.13 0.08
Matches are distributed among these distances:
125 60 0.14
126 48 0.11
127 2 0.00
130 1 0.00
134 1 0.00
137 1 0.00
138 3 0.01
139 51 0.12
140 267 0.61
141 6 0.01
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (130 bp):
AGTGTTGGACAAAGCGACTCTTATTTAAGTGTTGCCTTAGGCATGCATATCCCAACCCTATACAA
AGAGTTGGCCAAAGCATATGTCGGCAAGTCTATCCCAACACTTAGGAAAGTGTCGGCCAAGTGAT
Found at i:68291029 original size:140 final size:140
Alignment explanation
Indices: 68290735--68291302 Score: 658
Period size: 140 Copynumber: 4.1 Consensus size: 140
68290725 AACACTTAGG
* *
68290735 AAAGTGTCGGCATAATGTTGGACAAAGGC-GATTCTTATTTAAGCGTTGCCTTAGGCATGCATAT
1 AAAGTGTCGGCATAGTGTTGGACAAA-GCTGACTCTTATTTAAGCGTTGCCTTAGGCATGCATAT
* * ** * *
68290799 CCCAAC-CCTATACAAAGAGTTATCCAAAGCATATGTCGGCAAGTCTATCCCAACACTTAAGAAA
65 CCCAACACTTATACAAAGGGTTGGCCAAAGCATATGTCAGCAAGTCTATCCCAACACTTAGGAAA
*
68290863 GTGTCGGCCCA
130 GTGTCGACCCA
* * * * *
68290874 AAAGCGTTGGCATAGTGTTCGACAAAGCTGACTCTTATTTAAGTGTTGCCCTAGGCATGCATATC
1 AAAGTGTCGGCATAGTGTTGGACAAAGCTGACTCTTATTTAAGCGTTGCCTTAGGCATGCATATC
* * *
68290939 CCAACACTTATAAAAAGGGATGGCCAAAGCATATGTCAGCAAGTCTATCCCAACACTTAGGAAAT
66 CCAACACTTATACAAAGGGTTGGCCAAAGCATATGTCAGCAAGTCTATCCCAACACTTAGGAAAG
*
68291004 TGCCGACCCA
131 TGTCGACCCA
* * **
68291014 AAAGTGTCGGTATAGTGTTGGAGAAATTTGACTCTTATTTAAGCGTTGCCTTAGGCATGCATATC
1 AAAGTGTCGGCATAGTGTTGGACAAAGCTGACTCTTATTTAAGCGTTGCCTTAGGCATGCATATC
* * * * * * *
68291079 CCAACCCTTATACAAAGGGTTTGCCAAA-CTGTGTGTCAACAAGTCTATCCCTACACTTGGGAAA
66 CCAACACTTATACAAAGGGTTGGCCAAAGC-ATATGTCAGCAAGTCTATCCCAACACTTAGGAAA
*
68291143 GTGTCTACCCA
130 GTGTCGACCCA
* * ** * * ** * *
68291154 AAAGTGTCGGCACAGTGTTGGGCAAAGCCAACTCTTATGTAAGCTTTGCCTTAGATATGAACATC
1 AAAGTGTCGGCATAGTGTTGGACAAAGCTGACTCTTATTTAAGCGTTGCCTTAGGCATGCATATC
* * * * * *
68291219 TCAA-ACCTTATACAAAGTGTAGTCCAAAGCATATGTCGGCAAGCCTATCCCAACACTTAGGAAA
66 CCAACA-CTTATACAAAGGGTTGGCCAAAGCATATGTCAGCAAGTCTATCCCAACACTTAGGAAA
*
68291283 GTGTCGCCCCA
130 GTGTCGACCCA
68291294 AAAGTGTCG
1 AAAGTGTCG
68291303 TCTCAGTACT
Statistics
Matches: 356, Mismatches: 68, Indels: 9
0.82 0.16 0.02
Matches are distributed among these distances:
138 2 0.01
139 61 0.17
140 292 0.82
141 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (140 bp):
AAAGTGTCGGCATAGTGTTGGACAAAGCTGACTCTTATTTAAGCGTTGCCTTAGGCATGCATATC
CCAACACTTATACAAAGGGTTGGCCAAAGCATATGTCAGCAAGTCTATCCCAACACTTAGGAAAG
TGTCGACCCA
Found at i:68292077 original size:20 final size:20
Alignment explanation
Indices: 68292040--68292077 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
68292030 ATGAATATGC
*
68292040 TAAAAATTAGAAATTTGTGG
1 TAAAAATTAGAAAGTTGTGG
68292060 TAAAAATT-GAAAGGTTGT
1 TAAAAATTAGAAA-GTTGT
68292078 TGATAGATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (20 bp):
TAAAAATTAGAAAGTTGTGG
Found at i:68292943 original size:24 final size:24
Alignment explanation
Indices: 68292889--68292944 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
68292879 TGGCTATTCA
*
68292889 GAGCTTCCCGATGTTGTTCTTTGT
1 GAGCTTCCCGATGTTGCTCTTTGT
*
68292913 GAACTTCCCGAT-TATAGCTCTTT-T
1 GAGCTTCCCGATGT-T-GCTCTTTGT
68292937 GAGCTTCC
1 GAGCTTCC
68292945 TATTATATAG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 1 0.04
24 20 0.74
25 6 0.22
ACGTcount: A:0.14, C:0.25, G:0.20, T:0.41
Consensus pattern (24 bp):
GAGCTTCCCGATGTTGCTCTTTGT
Found at i:68294853 original size:53 final size:54
Alignment explanation
Indices: 68294785--68294991 Score: 222
Period size: 53 Copynumber: 3.8 Consensus size: 54
68294775 TTCCTTTTTA
*
68294785 AACTTACCATTGCCATGCCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * *
68294838 AACTCACCATTGCCATGCCTT-AGCATGGCCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCATTGCCATGCCTTGA-CATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * ** * *
68294892 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATAATTTCCTTGCCTTGTAG
1 -AACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* *
68294947 AACTTACCAATT-CCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACC-ATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
68294992 AAACCCTAAT
Statistics
Matches: 121, Mismatches: 28, Indels: 9
0.77 0.18 0.06
Matches are distributed among these distances:
52 1 0.01
53 45 0.37
54 33 0.27
55 41 0.34
56 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (54 bp):
AACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:68301909 original size:55 final size:54
Alignment explanation
Indices: 68301754--68301960 Score: 220
Period size: 53 Copynumber: 3.8 Consensus size: 54
68301744 TTCCTTTTTA
* *
68301754 AACTTACC-ATGGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAAT-GCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * *
68301807 AACTAACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * *
68301861 TAGTTTATCAATGCCATGTCTTGACATGGTCTTCCATGATTTCCTTGCCTTGTAG
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * *
68301916 AACTTCCCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
68301961 AAACCTTAAT
Statistics
Matches: 121, Mismatches: 30, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
53 43 0.36
54 37 0.31
55 41 0.34
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:68312286 original size:22 final size:23
Alignment explanation
Indices: 68312245--68312287 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
68312235 TGAATTATAT
* *
68312245 AAATGAAATTTTCAATAGAAACC
1 AAATCAAATTTTCAAAAGAAACC
68312268 AAATCAAA-TTTCAAAAGAAA
1 AAATCAAATTTTCAAAAGAAA
68312288 TTGATTAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.58, C:0.12, G:0.07, T:0.23
Consensus pattern (23 bp):
AAATCAAATTTTCAAAAGAAACC
Found at i:68315521 original size:35 final size:34
Alignment explanation
Indices: 68315482--68315605 Score: 131
Period size: 35 Copynumber: 3.6 Consensus size: 34
68315472 ATTTGGCCAC
* * *
68315482 ATGTGATGTTATATTAAACTTGAATATTCGACTAT
1 ATGTGATGATATATTGAACTTGTATATTCG-CTAT
* * *
68315517 ATGTGATGTTTTATTGAACTTGTATATTCGGTCAT
1 ATGTGATGATATATTGAACTTGTATATTCGCT-AT
* * *
68315552 ATATGATGATATATTGTACTTGTATATTCGGCCAT
1 ATGTGATGATATATTGAACTTGTATATTC-GCTAT
*
68315587 ATGTGATGATATAATGAAC
1 ATGTGATGATATATTGAAC
68315606 CATGTGTATT
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
34 1 0.01
35 72 0.97
36 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.43
Consensus pattern (34 bp):
ATGTGATGATATATTGAACTTGTATATTCGCTAT
Found at i:68315605 original size:70 final size:71
Alignment explanation
Indices: 68315442--68315623 Score: 168
Period size: 70 Copynumber: 2.6 Consensus size: 71
68315432 TAGGTATGTA
* * * * * * * * *
68315442 CATATGTGATGATGTATTCAACTTATATATATTTGGCCACATGTGATGTTATATTAAACTTGAAT
1 CATATGTGATGATATAATGAAC-CATGTATATTCGGCCATATATGATGATATATTAAACTTGAAT
68315507 ATTCGAC
65 ATTCGAC
* * * * * * ** *
68315514 TATATGTGATGTTTTATTGAA-CTTGTATATTCGGTCATATATGATGATATATTGTACTTGTATA
1 CATATGTGATGATATAATGAACCATGTATATTCGGCCATATATGATGATATATTAAACTTGAATA
*
68315578 TTCGGC
66 TTCGAC
*
68315584 CATATGTGATGATATAATGAACCATGTGTATTCGGCCATA
1 CATATGTGATGATATAATGAACCATGTATATTCGGCCATA
68315624 CAAGTAAGTA
Statistics
Matches: 86, Mismatches: 23, Indels: 3
0.77 0.21 0.03
Matches are distributed among these distances:
70 54 0.63
71 15 0.17
72 17 0.20
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.41
Consensus pattern (71 bp):
CATATGTGATGATATAATGAACCATGTATATTCGGCCATATATGATGATATATTAAACTTGAATA
TTCGAC
Found at i:68317468 original size:20 final size:21
Alignment explanation
Indices: 68317440--68317485 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
68317430 ACTCATGCTC
*
68317440 ATATAACATATCATAATTAA-
1 ATATAACATAACATAATTAAG
* *
68317460 ATATTACATAACATACTTAAG
1 ATATAACATAACATAATTAAG
68317481 ATATA
1 ATATA
68317486 TCTTACCAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.35
Consensus pattern (21 bp):
ATATAACATAACATAATTAAG
Found at i:68317917 original size:36 final size:36
Alignment explanation
Indices: 68317870--68317942 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
68317860 AATTTCGATG
*
68317870 TAAAAGCCACCACGAGACTCCCAGAATCTAAAATAA
1 TAAAAGCCACCACGAGACTCCCAAAATCTAAAATAA
68317906 TAAAAGCCACCACGAGACTCCCAAAATCTAAAATAA
1 TAAAAGCCACCACGAGACTCCCAAAATCTAAAATAA
68317942 T
1 T
68317943 CATATAACAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.48, C:0.27, G:0.10, T:0.15
Consensus pattern (36 bp):
TAAAAGCCACCACGAGACTCCCAAAATCTAAAATAA
Found at i:68321505 original size:22 final size:22
Alignment explanation
Indices: 68321466--68321512 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
68321456 TTTATTGTGC
68321466 TTAGGGTTTTAAGGTTAATTAGA
1 TTAGGGTTTTAAGGTTAATTA-A
68321489 TTAGGG-TTT-AGGATTAATTAA
1 TTAGGGTTTTAAGG-TTAATTAA
68321510 TTA
1 TTA
68321513 AATTAACTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 7 0.30
22 10 0.43
23 6 0.26
ACGTcount: A:0.32, C:0.00, G:0.23, T:0.45
Consensus pattern (22 bp):
TTAGGGTTTTAAGGTTAATTAA
Found at i:68321530 original size:21 final size:20
Alignment explanation
Indices: 68321501--68321539 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
68321491 AGGGTTTAGG
**
68321501 ATTAATTAATTAAATTAACT
1 ATTAATTAAAAAAATTAACT
68321521 ATTAATTTAAAAAAATTAA
1 ATTAA-TTAAAAAAATTAA
68321540 TTAAATTAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (20 bp):
ATTAATTAAAAAAATTAACT
Found at i:68321672 original size:125 final size:123
Alignment explanation
Indices: 68321573--68321802 Score: 302
Period size: 125 Copynumber: 1.8 Consensus size: 123
68321563 AAGATTAATT
* * *
68321573 AATTAAATTAAGCTTTAAGGTTAGGGCT-TTAAGAGTTTATGGTTTTATTGTGTTTATGGTTTTA
1 AATTAAATTAAGCTTTAAGATTA-GGATATT-AGAGTTTAAGGTTTTATTGTGTTTATGGTTTTA
* **
68321637 GGGTTAACTAAATT-AGAGTTTAGGGTTAATTAATTAAATTAACTATTAATTTTAAAAAAATC
64 GGGTTAACTAAATTAAG-GTTTAAGGTTAATTAATTAAATT-A-TAGGAATTTTAAAAAAATC
* * * *
68321699 AATTAAATTAGGGTTTAAGATTAGTATATTAGGGTTTAAGGTTTTATTGTGTTTATGGTTTTAGG
1 AATTAAATTAAGCTTTAAGATTAGGATATTAGAGTTTAAGGTTTTATTGTGTTTATGGTTTTAGG
*
68321764 GTTAATTAAATTAAGGTTTAAGGTTAATTAATTAAATTA
66 GTTAACTAAATTAAGGTTTAAGGTTAATTAATTAAATTA
68321803 ACTATTAATT
Statistics
Matches: 93, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
124 1 0.01
125 68 0.73
126 24 0.26
ACGTcount: A:0.34, C:0.02, G:0.19, T:0.45
Consensus pattern (123 bp):
AATTAAATTAAGCTTTAAGATTAGGATATTAGAGTTTAAGGTTTTATTGTGTTTATGGTTTTAGG
GTTAACTAAATTAAGGTTTAAGGTTAATTAATTAAATTATAGGAATTTTAAAAAAATC
Found at i:68321788 original size:22 final size:21
Alignment explanation
Indices: 68321758--68321798 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
68321748 TGTTTATGGT
*
68321758 TTTAGGGTTAATTAAATTAAGG
1 TTTAAGGTTAATT-AATTAAGG
68321780 TTTAAGGTTAATTAATTAA
1 TTTAAGGTTAATTAATTAA
68321799 ATTAACTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.44
Consensus pattern (21 bp):
TTTAAGGTTAATTAATTAAGG
Found at i:68321803 original size:125 final size:123
Alignment explanation
Indices: 68321607--68321838 Score: 394
Period size: 125 Copynumber: 1.9 Consensus size: 123
68321597 GGCTTTAAGA
* *
68321607 GTTTATGGTTTTATTGTGTTTATGGTTTTAGGGTTAACTAAATTAGAGTTTAGGGTTAATTAATT
1 GTTTAAGGTTTTATTGTGTTTATGGTTTTAGGGTTAACTAAATTAGAGTTTAAGGTTAATTAATT
68321672 AAATTAACTATTAATTTTAAAAAAATCAATTAAATTAGGGTTTAAGATTAGTATATTAGG
66 AAATTAACTATTAA-TTT-AAAAAATCAATTAAATTAGGGTTTAAGATTAGTATATTAGG
*
68321732 GTTTAAGGTTTTATTGTGTTTATGGTTTTAGGGTTAATTAAATTA-AGGTTTAAGGTTAATTAAT
1 GTTTAAGGTTTTATTGTGTTTATGGTTTTAGGGTTAACTAAATTAGA-GTTTAAGGTTAATTAAT
*
68321796 TAAATTAACTATTAATTTAAAAAATTAATTAAATTAGGGTTTA
65 TAAATTAACTATTAATTTAAAAAATCAATTAAATTAGGGTTTA
68321839 GAGTTTTTAG
Statistics
Matches: 102, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
123 24 0.24
124 4 0.04
125 74 0.73
ACGTcount: A:0.36, C:0.02, G:0.17, T:0.46
Consensus pattern (123 bp):
GTTTAAGGTTTTATTGTGTTTATGGTTTTAGGGTTAACTAAATTAGAGTTTAAGGTTAATTAATT
AAATTAACTATTAATTTAAAAAATCAATTAAATTAGGGTTTAAGATTAGTATATTAGG
Found at i:68322147 original size:126 final size:126
Alignment explanation
Indices: 68321866--68322434 Score: 852
Period size: 126 Copynumber: 4.5 Consensus size: 126
68321856 TAATTAAATT
* * * ****
68321866 AGGATGCACTATCAACAAAAGTACTAAAAAAAGCTTTTGCGTGGACGCTCTTTTGCTACAGTAGT
1 AGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGT
* *
68321931 ATCTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCCAAAACGCTTCAAGT
66 ATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAAACGCTTCAAGC
*
68321992 AGGATGCACTATCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGT
1 AGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGT
* *
68322057 ATTTG-AAAAATAATTTTAAGAAGACGTTTCTGAACAAATAGTGTCCAAAACGCTTCAAGC
66 ATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAAACGCTTCAAGC
* * *
68322117 AGGATGCACTGTCAGTAAAATTACTAAAAAAAAACTCTCACGTGGACGCTCTTTTGCTACAGTAG
1 AGGATGCACTGTCAGCAAAATTACT-AAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAG
* *
68322182 TATCTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCCAAAACACTTCAAGC
65 TATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAAACGCTTCAAGC
* * * *
68322244 AGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTCACGTGGGCGTTCTTTTGCTACAGTAGT
1 AGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGT
* * * * **
68322309 ATCTAAAAAAATAATTTTGAGAAGACGTTTCTAAAAAAATAGTGTCCAAAATGCTTCAAAT
66 ATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAAACGCTTCAAGC
* * *
68322370 AGGATGCACTGTCAGCAAATTTATTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGT
1 AGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGT
68322435 TCCTATTTGG
Statistics
Matches: 405, Mismatches: 36, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
125 75 0.19
126 254 0.63
127 76 0.19
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.28
Consensus pattern (126 bp):
AGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGT
ATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAAACGCTTCAAGC
Found at i:68326037 original size:18 final size:18
Alignment explanation
Indices: 68326006--68326040 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
68325996 AAAGGAAACA
**
68326006 TATAAGGGTTAGGATACT
1 TATAAGGGCCAGGATACT
68326024 TATAAGGGCCAGGATAC
1 TATAAGGGCCAGGATAC
68326041 GCACGTGGCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (18 bp):
TATAAGGGCCAGGATACT
Found at i:68326134 original size:30 final size:30
Alignment explanation
Indices: 68326100--68326161 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
68326090 GTGTTGGGTT
68326100 CGGTGACTGTGT-GGTCGCTGTTGATAGGCC
1 CGGTGACTGTGTAGG-CGCTGTTGATAGGCC
* * *
68326130 CGGTGATTGTGTAGGCGTTGTTGATGGGCC
1 CGGTGACTGTGTAGGCGCTGTTGATAGGCC
68326160 CG
1 CG
68326162 CGTTGTCATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 26 0.93
31 2 0.07
ACGTcount: A:0.10, C:0.18, G:0.42, T:0.31
Consensus pattern (30 bp):
CGGTGACTGTGTAGGCGCTGTTGATAGGCC
Found at i:68326668 original size:7 final size:7
Alignment explanation
Indices: 68326658--68326683 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
68326648 TTATATACAT
68326658 AATACTA
1 AATACTA
68326665 AATACTA
1 AATACTA
68326672 AATACTA
1 AATACTA
68326679 AATAC
1 AATAC
68326684 GAAACAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:68327875 original size:9 final size:10
Alignment explanation
Indices: 68327827--68327888 Score: 61
Period size: 11 Copynumber: 5.8 Consensus size: 10
68327817 TAAAGAGAGT
*
68327827 TTTGAGAAAA
1 TTTGAGAGAA
* *
68327837 TATGAAAGAAA
1 TTTGAGAG-AA
68327848 TTTGAGAGAA
1 TTTGAGAGAA
68327858 TTTGGAGAGAA
1 TTT-GAGAGAA
68327869 TTTAGAGAGAA
1 TTT-GAGAGAA
68327880 TTATGAGAG
1 TT-TGAGAG
68327889 GACTTTTGTG
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
10 10 0.23
11 32 0.74
12 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.27, T:0.27
Consensus pattern (10 bp):
TTTGAGAGAA
Found at i:68329389 original size:22 final size:20
Alignment explanation
Indices: 68329362--68329410 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 20
68329352 AAACATAATT
68329362 TAATATTTATCATAAATATAAA
1 TAATATTTATCA-AAAT-TAAA
68329384 T-A-A--TATCAAAATTAAA
1 TAATATTTATCAAAATTAAA
68329400 TAATATTTATC
1 TAATATTTATC
68329411 TTAATATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 10
0.70 0.00 0.30
Matches are distributed among these distances:
16 5 0.22
17 5 0.22
18 6 0.26
20 5 0.22
21 1 0.04
22 1 0.04
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (20 bp):
TAATATTTATCAAAATTAAA
Found at i:68329401 original size:16 final size:18
Alignment explanation
Indices: 68329369--68329405 Score: 60
Period size: 16 Copynumber: 2.2 Consensus size: 18
68329359 ATTTAATATT
68329369 TATCATAAATATAAATAA
1 TATCATAAATATAAATAA
68329387 TATCA-AAAT-TAAATAA
1 TATCATAAATATAAATAA
68329403 TAT
1 TAT
68329406 TTATCTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.53
17 4 0.21
18 5 0.26
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.35
Consensus pattern (18 bp):
TATCATAAATATAAATAA
Found at i:68335890 original size:13 final size:13
Alignment explanation
Indices: 68335872--68335902 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
68335862 CTAAAGTTGT
68335872 ATATATGGTTAAA
1 ATATATGGTTAAA
*
68335885 ATATATGGTTATA
1 ATATATGGTTAAA
68335898 ATATA
1 ATATA
68335903 GCTTTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (13 bp):
ATATATGGTTAAA
Found at i:68337410 original size:105 final size:105
Alignment explanation
Indices: 68337292--68337501 Score: 377
Period size: 105 Copynumber: 2.0 Consensus size: 105
68337282 CCAAAATTTA
*
68337292 AAAATAAATATAT-GAGCTAATTGCACCTTATGACCCTCATTCTAAATTGATCCCTAAATTTCAA
1 AAAATAAATATATGGA-CTAATTGCACCTTATGACCCTCATTCTAAATTGATCCCGAAATTTCAA
*
68337356 GTCATTCTAATTACATCTCTAACTATCAAGGTCATATCAAT
65 GTCATTCTAATTACATCTCCAACTATCAAGGTCATATCAAT
*
68337397 AAAATAAATATATGGACTAATTGCACCTTATGACCCTCATTCTAAATTGGTCCCGAAATTTCAAG
1 AAAATAAATATATGGACTAATTGCACCTTATGACCCTCATTCTAAATTGATCCCGAAATTTCAAG
68337462 TCATTCTAATTACATCTCCAACTATCAAGGTCATATCAAT
66 TCATTCTAATTACATCTCCAACTATCAAGGTCATATCAAT
68337502 TAGGACATTT
Statistics
Matches: 101, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
105 99 0.98
106 2 0.02
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (105 bp):
AAAATAAATATATGGACTAATTGCACCTTATGACCCTCATTCTAAATTGATCCCGAAATTTCAAG
TCATTCTAATTACATCTCCAACTATCAAGGTCATATCAAT
Found at i:68342981 original size:21 final size:20
Alignment explanation
Indices: 68342949--68342987 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
68342939 TATTAAAAGG
*
68342949 TTAATATAATAAATTAGTTA
1 TTAATATAATAAAATAGTTA
*
68342969 TTAATTATGATAAAATAGT
1 TTAA-TATAATAAAATAGT
68342988 AAAAAAAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.44
Consensus pattern (20 bp):
TTAATATAATAAAATAGTTA
Found at i:68343924 original size:24 final size:24
Alignment explanation
Indices: 68343887--68343955 Score: 86
Period size: 23 Copynumber: 2.9 Consensus size: 24
68343877 TACCGACATA
*
68343887 TCAGCTCGTAAGAGCTTACTGTTT
1 TCAGCTCGTTAGAGCTTACTGTTT
* *
68343911 TCAGCTTGTTAGAGCTTACCG-TT
1 TCAGCTCGTTAGAGCTTACTGTTT
**
68343934 TCAGCTCAATAGAGCTTACTGT
1 TCAGCTCGTTAGAGCTTACTGT
68343956 CCATCAGCTC
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
23 19 0.51
24 18 0.49
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (24 bp):
TCAGCTCGTTAGAGCTTACTGTTT
Found at i:68343939 original size:23 final size:24
Alignment explanation
Indices: 68343887--68343940 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
68343877 TACCGACATA
*
68343887 TCAGCTCGTAAGAGCTTACTGTTT
1 TCAGCTCGTAAGAGCTTACCGTTT
* *
68343911 TCAGCTTGTTAGAGCTTACCG-TT
1 TCAGCTCGTAAGAGCTTACCGTTT
68343934 TCAGCTC
1 TCAGCTC
68343941 AATAGAGCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 8 0.31
24 18 0.69
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.37
Consensus pattern (24 bp):
TCAGCTCGTAAGAGCTTACCGTTT
Found at i:68347190 original size:14 final size:15
Alignment explanation
Indices: 68347166--68347195 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
68347156 TACAATACAT
68347166 AAAAAGAAAAAAGAA
1 AAAAAGAAAAAAGAA
68347181 AAAAAG-AAAAAGAA
1 AAAAAGAAAAAAGAA
68347195 A
1 A
68347196 CTAACTGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAAAGAA
Found at i:68350532 original size:197 final size:197
Alignment explanation
Indices: 68350190--68350585 Score: 783
Period size: 197 Copynumber: 2.0 Consensus size: 197
68350180 CTTCATGACC
68350190 TAGATTGTCGGATATCACAGTGATATCAACTGCATTCAAATAATAAACCACCACAAGATCCAGAT
1 TAGATTGTCGGATATCACAGTGATATCAACTGCATTCAAATAATAAACCACCACAAGATCCAGAT
68350255 TTACAAGCAAATATCTTCGAAATACTCCAAGAATACAAACAAGTATCATAGCTCATATGACATTT
66 TTACAAGCAAATATCTTCGAAATACTCCAAGAATACAAACAAGTATCATAGCTCATATGACATTT
68350320 GAACACCAAACTATGCCTAGTTATTGGTTGATGATTATTGTTAAGCATCCAGCCAAACACCAATT
131 GAACACCAAACTATGCCTAGTTATTGGTTGATGATTATTGTTAAGCATCCAGCCAAACACCAATT
68350385 GG
196 GG
68350387 TAGATTGTCGGATATCACAGTGATATCAACTGCATTCAAATAATAAACCACCACAAGATCCAGAT
1 TAGATTGTCGGATATCACAGTGATATCAACTGCATTCAAATAATAAACCACCACAAGATCCAGAT
68350452 TTACAAGCAAATATCTTCGAAATACTCCAAGAATACAAACAAGTATCATAGCTCATATGACATTT
66 TTACAAGCAAATATCTTCGAAATACTCCAAGAATACAAACAAGTATCATAGCTCATATGACATTT
*
68350517 GAACACCACACTATGCCTAGTTATTGGTTGATGATTATTGTTAAGCATCCAGCCAAACACCAATT
131 GAACACCAAACTATGCCTAGTTATTGGTTGATGATTATTGTTAAGCATCCAGCCAAACACCAATT
68350582 GG
196 GG
68350584 TA
1 TA
68350586 ATCTAGAGGC
Statistics
Matches: 198, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
197 198 1.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (197 bp):
TAGATTGTCGGATATCACAGTGATATCAACTGCATTCAAATAATAAACCACCACAAGATCCAGAT
TTACAAGCAAATATCTTCGAAATACTCCAAGAATACAAACAAGTATCATAGCTCATATGACATTT
GAACACCAAACTATGCCTAGTTATTGGTTGATGATTATTGTTAAGCATCCAGCCAAACACCAATT
GG
Found at i:68354014 original size:40 final size:40
Alignment explanation
Indices: 68353930--68354014 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
68353920 AAGTTAACTT
**** *
68353930 CATGTTTTTCTATAGAATTAGAGTGCACATAAAATGTTCT
1 CATGTTTTTCTATAGAATTAGAGTGCACATAAAACCCCCA
68353970 CATGTTCTTT-TATAGAATTAGAGTGCACATAAAACCCCCA
1 CATGTT-TTTCTATAGAATTAGAGTGCACATAAAACCCCCA
68354010 CATGT
1 CATGT
68354015 ACACACTCAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 36 0.92
41 3 0.08
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (40 bp):
CATGTTTTTCTATAGAATTAGAGTGCACATAAAACCCCCA
Found at i:68371748 original size:56 final size:56
Alignment explanation
Indices: 68371670--68371781 Score: 197
Period size: 56 Copynumber: 2.0 Consensus size: 56
68371660 TACAAAATTA
*
68371670 AATAGATGGCTTACAATCAACAATTCTCTGGTGTAGTCCCTTCAACAAAATCACTT
1 AATAGATGGCTCACAATCAACAATTCTCTGGTGTAGTCCCTTCAACAAAATCACTT
* *
68371726 AATAGATGGCTCATAATTAACAATTCTCTGGTGTAGTCCCTTCAACAAAATCACTT
1 AATAGATGGCTCACAATCAACAATTCTCTGGTGTAGTCCCTTCAACAAAATCACTT
68371782 CCTTTAGTTA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.31
Consensus pattern (56 bp):
AATAGATGGCTCACAATCAACAATTCTCTGGTGTAGTCCCTTCAACAAAATCACTT
Found at i:68373589 original size:25 final size:25
Alignment explanation
Indices: 68373561--68373610 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
68373551 CACAATGAAA
68373561 AGGAAAAATCAAAGTTTTAAATTTG
1 AGGAAAAATCAAAGTTTTAAATTTG
68373586 AGGAAAAATCAAAGTTTTAAATTTG
1 AGGAAAAATCAAAGTTTTAAATTTG
68373611 TTTCCAAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.04, G:0.16, T:0.32
Consensus pattern (25 bp):
AGGAAAAATCAAAGTTTTAAATTTG
Found at i:68383093 original size:27 final size:27
Alignment explanation
Indices: 68383055--68383119 Score: 121
Period size: 27 Copynumber: 2.4 Consensus size: 27
68383045 TTACAGATTC
68383055 AGATACAGTTTAGGCCTTAGCCCATTT
1 AGATACAGTTTAGGCCTTAGCCCATTT
*
68383082 AGATACAGTTTAGGCCTTAGCCCGTTT
1 AGATACAGTTTAGGCCTTAGCCCATTT
68383109 AGATACAGTTT
1 AGATACAGTTT
68383120 CTGACATAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (27 bp):
AGATACAGTTTAGGCCTTAGCCCATTT
Found at i:68388585 original size:68 final size:68
Alignment explanation
Indices: 68388448--68388604 Score: 192
Period size: 68 Copynumber: 2.3 Consensus size: 68
68388438 TTAACTGTGA
* * * *
68388448 AATC-AACAGATTCGGACAGCTACATTTACTAAATAAAACAACATATATGGTAGTGCATCGAACA
1 AATCTAACACATTCGGACAGCTACATTTACCAAATAAAACAACATAAATGATAGTGCATCGAACA
68388512 ATG
66 ATG
* * * * *
68388515 AATTTAACACATTCGGACAGCTACATTTACCAAATAAAACAGCATAAATGAT-GATGCTTTGAAT
1 AATCTAACACATTCGGACAGCTACATTTACCAAATAAAACAACATAAATGATAG-TGCATCGAAC
*
68388579 AGTG
65 AATG
*
68388583 AATCTAACACATTCGAACAGCT
1 AATCTAACACATTCGGACAGCT
68388605 TAATTTTAAG
Statistics
Matches: 76, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
67 4 0.05
68 72 0.95
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.25
Consensus pattern (68 bp):
AATCTAACACATTCGGACAGCTACATTTACCAAATAAAACAACATAAATGATAGTGCATCGAACA
ATG
Found at i:68395507 original size:47 final size:47
Alignment explanation
Indices: 68395453--68395788 Score: 429
Period size: 47 Copynumber: 7.1 Consensus size: 47
68395443 TTAGGATTTT
* * * *
68395453 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACGTGCATATATGTGATAAGGCCGAATGGCCA
*
68395500 ATGTGATGAATGTGAACCTGCATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACGTGC--ATATAT--GTGATAAGGCCGAATGGCCA
* * * *
68395551 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACGTGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
68395598 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGTCAAATGGCCA
1 ATGTGATGAATGTGAACGTGCATATATGTGATAAGGCCGAATGGCCA
* * * *
68395645 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACGTGCATATATGTGATAAGGCCGAATGGCCA
*
68395692 ATGTGATGAATGTGAACGTGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACGTGCATATATGTGATAAGGCCGAATGGCCA
* * * *
68395739 ATGTGATGAATGTGAACGTGTATATATGTGGTAAGGCTGAATGGCTA
1 ATGTGATGAATGTGAACGTGCATATATGTGATAAGGCCGAATGGCCA
68395786 ATG
1 ATG
68395789 CGAAACGTGT
Statistics
Matches: 260, Mismatches: 25, Indels: 8
0.89 0.09 0.03
Matches are distributed among these distances:
47 212 0.82
49 10 0.04
51 38 0.15
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACGTGCATATATGTGATAAGGCCGAATGGCCA
Found at i:68395578 original size:23 final size:23
Alignment explanation
Indices: 68395551--68395672 Score: 83
Period size: 23 Copynumber: 5.2 Consensus size: 23
68395541 CGAATGGCCA
68395551 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* **
68395574 ATGTG-TGATAAGGCTG-A-ATGGCCA
1 ATGTGATG--AATG-TGAACAT-GCGT
68395598 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
68395621 ATGTG-TGATAAGGTCAA-ATGGCCA
1 ATGTGATG--AATGTGAACAT-GCGT
68395645 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
68395668 ATGTG
1 ATGTG
68395673 TGATAAGGCC
Statistics
Matches: 73, Mismatches: 14, Indels: 24
0.66 0.13 0.22
Matches are distributed among these distances:
22 6 0.08
23 33 0.45
24 28 0.38
25 6 0.08
ACGTcount: A:0.30, C:0.10, G:0.31, T:0.29
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:68395698 original size:22 final size:22
Alignment explanation
Indices: 68395671--68395745 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
68395661 CATGCGTATG
68395671 TGTGATAAGGCCGAATGGCTAA
1 TGTGATAAGGCCGAATGGCTAA
* * *
68395693 TGTGATGAATG-TGAACGTGCATATA
1 TGTGAT-AAGGCCGAATG-GC-TA-A
* *
68395718 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCTAA
68395740 TGTGAT
1 TGTGAT
68395746 GAATGTGAAC
Statistics
Matches: 39, Mismatches: 9, Indels: 10
0.67 0.16 0.17
Matches are distributed among these distances:
22 16 0.41
23 6 0.15
24 7 0.18
25 10 0.26
ACGTcount: A:0.32, C:0.12, G:0.31, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCTAA
Found at i:68395822 original size:94 final size:93
Alignment explanation
Indices: 68395536--68395845 Score: 314
Period size: 94 Copynumber: 3.3 Consensus size: 93
68395526 TATGCGTGAT
* *
68395536 AAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCAATG
1 AAGGCCAAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCTAATG
*
68395601 TGATGAATGTGA-ACATGCG-TATGT-GTGA
66 TGA-GAATGTGAGAGATG-GATATGTGGT-A
* *
68395629 TAAGGTCAAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTAAT
1 -AAGGCCAAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCTAAT
* *
68395694 GTGATGAATGTGA-ACG-TGCATATATGAG-A
65 GTGA-GAATGTGAGA-GATGGATATGTG-GTA
* * ** * *
68395723 TAAGGCCGAATGGCCAATGTGATGAATGTGAACGTGTATATATGTGGTAAGGCTGAATGGCTAAT
1 -AAGGCCAAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCTAAT
* *
68395788 GCGA-AACGTGTATGAGATGGATATGTGGTA
65 GTGAGAATGTG-A-GAGATGGATATGTGGTA
*
68395818 AAGG-CAAATGGCTAATGTGA-GATATGTG
1 AAGGCCAAATGGCCAATGTGATGA-ATGTG
68395846 TGAGATGTGT
Statistics
Matches: 185, Mismatches: 21, Indels: 21
0.81 0.09 0.09
Matches are distributed among these distances:
92 7 0.04
93 20 0.11
94 147 0.79
95 10 0.05
96 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.32, T:0.26
Consensus pattern (93 bp):
AAGGCCAAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCTAATG
TGAGAATGTGAGAGATGGATATGTGGTA
Found at i:68395850 original size:46 final size:46
Alignment explanation
Indices: 68395762--68395852 Score: 112
Period size: 46 Copynumber: 2.0 Consensus size: 46
68395752 GAACGTGTAT
* *
68395762 ATATGTGGTAAGGCTGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAGGCTAAATGGCTAATGCGAAACATGTATGAGATGG
* * * *
68395808 ATATGTGGTAAAGGC-AAATGGCTAATGTGAGATATGTGTGAGATG
1 ATATGTGGT-AAGGCTAAATGGCTAATGCGAAACATGTATGAGATG
68395853 TGTATATATA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
46 33 0.87
47 5 0.13
ACGTcount: A:0.32, C:0.07, G:0.34, T:0.27
Consensus pattern (46 bp):
ATATGTGGTAAGGCTAAATGGCTAATGCGAAACATGTATGAGATGG
Found at i:68408444 original size:23 final size:23
Alignment explanation
Indices: 68408408--68408478 Score: 70
Period size: 23 Copynumber: 3.1 Consensus size: 23
68408398 GGACTCACCA
*
68408408 CAACTCGTATGAGCTTACTGATT
1 CAACTCGTAAGAGCTTACTGATT
* *
68408431 CAACTTGTAAGAGCTTACTGTTT
1 CAACTCGTAAGAGCTTACTGATT
* * ** *
68408454 CAGCTCATTGGAGCTTACCGATT
1 CAACTCGTAAGAGCTTACTGATT
68408477 CA
1 CA
68408479 GCTTAAAAGA
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (23 bp):
CAACTCGTAAGAGCTTACTGATT
Found at i:68408490 original size:23 final size:23
Alignment explanation
Indices: 68408418--68408516 Score: 83
Period size: 23 Copynumber: 4.3 Consensus size: 23
68408408 CAACTCGTAT
* ***
68408418 GAGCTTACTGATTCAACTTGTAA
1 GAGCTTACTGATTCAGCTCAAAA
* ***
68408441 GAGCTTACTGTTTCAGCTCATTG
1 GAGCTTACTGATTCAGCTCAAAA
* *
68408464 GAGCTTACCGATTCAGCTTAAAA
1 GAGCTTACTGATTCAGCTCAAAA
* *
68408487 GAGCTTATTG-TTCAGCTCAATA
1 GAGCTTACTGATTCAGCTCAAAA
68408509 GAGCTTAC
1 GAGCTTAC
68408517 CATTTTCAGC
Statistics
Matches: 59, Mismatches: 17, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
22 17 0.29
23 42 0.71
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.33
Consensus pattern (23 bp):
GAGCTTACTGATTCAGCTCAAAA
Found at i:68408516 original size:45 final size:46
Alignment explanation
Indices: 68408418--68408517 Score: 130
Period size: 46 Copynumber: 2.2 Consensus size: 46
68408408 CAACTCGTAT
* ** * *
68408418 GAGCTTACTGATTCAACTTGTAAGAGCTTACTGTTTCAGCTCATTG
1 GAGCTTACCGATTCAACTTAAAAGAGCTTACTGTTTCAGCTCAATA
* *
68408464 GAGCTTACCGATTCAGCTTAAAAGAGCTTATTG-TTCAGCTCAATA
1 GAGCTTACCGATTCAACTTAAAAGAGCTTACTGTTTCAGCTCAATA
68408509 GAGCTTACC
1 GAGCTTACC
68408518 ATTTTCAGCT
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
45 19 0.40
46 28 0.60
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (46 bp):
GAGCTTACCGATTCAACTTAAAAGAGCTTACTGTTTCAGCTCAATA
Found at i:68408525 original size:46 final size:46
Alignment explanation
Indices: 68408439--68408537 Score: 121
Period size: 46 Copynumber: 2.2 Consensus size: 46
68408429 TTCAACTTGT
* * *
68408439 AAGAGCTTACTGTTTCAGCTCATTGGAGCTTACCGATTCAGCTTAA
1 AAGAGCTTACTGTTTCAGCTCAATAGAGCTTACCGATTCAGCTCAA
*
68408485 AAGAGCTTATTG-TTCAGCTCAATAGAGCTTACC-ATTTTCAGCTCAA
1 AAGAGCTTACTGTTTCAGCTCAATAGAGCTTACCGA--TTCAGCTCAA
*
68408531 TAGAGCT
1 AAGAGCT
68408538 ATTATTTATC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
44 1 0.02
45 19 0.41
46 26 0.57
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.32
Consensus pattern (46 bp):
AAGAGCTTACTGTTTCAGCTCAATAGAGCTTACCGATTCAGCTCAA
Found at i:68408551 original size:24 final size:24
Alignment explanation
Indices: 68408451--68408537 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
68408441 GAGCTTACTG
* *
68408451 TTTCAGCTCATTGGAGCTTACCGA-
1 TTTCAGCTCAATAGAGCTTACC-AT
* *
68408475 -TTCAGCTTAAAAGAGCTT---AT
1 TTTCAGCTCAATAGAGCTTACCAT
68408495 TGTTCAGCTCAATAGAGCTTACCAT
1 T-TTCAGCTCAATAGAGCTTACCAT
68408520 TTTCAGCTCAATAGAGCT
1 TTTCAGCTCAATAGAGCT
68408538 ATTATTTATC
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
19 1 0.02
22 16 0.31
23 14 0.27
24 17 0.33
25 3 0.06
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (24 bp):
TTTCAGCTCAATAGAGCTTACCAT
Found at i:68420958 original size:29 final size:28
Alignment explanation
Indices: 68420916--68421000 Score: 93
Period size: 29 Copynumber: 3.0 Consensus size: 28
68420906 ACATGGCTTG
* *
68420916 GAAT-TGATTCGGGCCGGATGGGCCATAT
1 GAATGTGATTTGGGCC-AATGGGCCATAT
68420944 GAATGTGATTTGGGCCTAATGGGCCATAT
1 GAATGTGATTTGGGCC-AATGGGCCATAT
* *
68420973 GAATGAGA-TTGGGCCTAGTGGGCCATAT
1 GAATGTGATTTGGGCC-AATGGGCCATAT
68421001 ACATGTATGT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
28 23 0.45
29 28 0.55
ACGTcount: A:0.24, C:0.15, G:0.34, T:0.27
Consensus pattern (28 bp):
GAATGTGATTTGGGCCAATGGGCCATAT
Found at i:68420994 original size:28 final size:29
Alignment explanation
Indices: 68420933--68421000 Score: 111
Period size: 28 Copynumber: 2.4 Consensus size: 29
68420923 TTCGGGCCGG
*
68420933 ATGGGCCATATGAATGTGATTTGGGCCTA
1 ATGGGCCATATGAATGAGATTTGGGCCTA
68420962 ATGGGCCATATGAATGAGA-TTGGGCCTA
1 ATGGGCCATATGAATGAGATTTGGGCCTA
*
68420990 GTGGGCCATAT
1 ATGGGCCATAT
68421001 ACATGTATGT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.28
Consensus pattern (29 bp):
ATGGGCCATATGAATGAGATTTGGGCCTA
Found at i:68421694 original size:11 final size:11
Alignment explanation
Indices: 68421678--68421703 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
68421668 ATTGCATGTA
68421678 TGATATTATTG
1 TGATATTATTG
68421689 TGATATTATTG
1 TGATATTATTG
68421700 TGAT
1 TGAT
68421704 GTGGGCTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (11 bp):
TGATATTATTG
Found at i:68422601 original size:22 final size:21
Alignment explanation
Indices: 68422576--68422617 Score: 50
Period size: 22 Copynumber: 1.9 Consensus size: 21
68422566 GTATTATGTA
68422576 ATTA-AGTTTAGGTTGATTGATT
1 ATTAGAGTTT-GG-TGATTGATT
68422598 ATTATGAGTTTGGTGATTGA
1 ATTA-GAGTTTGGTGATTGA
68422618 CATTTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
22 11 0.61
23 2 0.11
24 5 0.28
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (21 bp):
ATTAGAGTTTGGTGATTGATT
Found at i:68431297 original size:21 final size:21
Alignment explanation
Indices: 68431239--68431298 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
68431229 AAGCGCACGC
* * *
68431239 CCGTGTGAAAGAGGCACACGG
1 CCGTATGAAAGAGGCATACAG
* *
68431260 CCCTATGAACGAGGCATACAG
1 CCGTATGAAAGAGGCATACAG
68431281 CCGTATGAAAGAGGCATA
1 CCGTATGAAAGAGGCATA
68431299 TAACTATGGA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.33, C:0.23, G:0.30, T:0.13
Consensus pattern (21 bp):
CCGTATGAAAGAGGCATACAG
Found at i:68433948 original size:38 final size:38
Alignment explanation
Indices: 68433866--68433957 Score: 107
Period size: 38 Copynumber: 2.4 Consensus size: 38
68433856 TAATTAATTG
* *
68433866 AATATAATAATTATAATAATATTTGAACAAAAAATTAC
1 AATACAATAATTATAATAATATTTCAACAAAAAATTAC
* *
68433904 AATACAATAATTATAATAATA-TTCAATC-ATAAATTAT
1 AATACAATAATTATAATAATATTTCAA-CAAAAAATTAC
*
68433941 AGTTACAATAATTATAA
1 A-ATACAATAATTATAA
68433958 CAAGGATTTC
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
37 12 0.26
38 35 0.74
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (38 bp):
AATACAATAATTATAATAATATTTCAACAAAAAATTAC
Found at i:68438547 original size:66 final size:66
Alignment explanation
Indices: 68438438--68438571 Score: 232
Period size: 66 Copynumber: 2.0 Consensus size: 66
68438428 CAGGCCGAAA
* *
68438438 ACGGACAAATTGGGCCTAATTTAGTGTTTTACACAGCTTAAGCACTTCCACATGGGTAAATCACA
1 ACGGACAAATTGGGCCTAATTTAGTGTTTTACACAGCTGAAGCACTTCCACATGGGTAAACCACA
68438503 C
66 C
* *
68438504 ACGGACAAATTGGGCCTAATTTAGTGTTTTACACATCTGAAGCACTTTCACATGGGTAAACCACA
1 ACGGACAAATTGGGCCTAATTTAGTGTTTTACACAGCTGAAGCACTTCCACATGGGTAAACCACA
68438569 C
66 C
68438570 AC
1 AC
68438572 CCGTGTGTGA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (66 bp):
ACGGACAAATTGGGCCTAATTTAGTGTTTTACACAGCTGAAGCACTTCCACATGGGTAAACCACA
C
Found at i:68438591 original size:30 final size:30
Alignment explanation
Indices: 68438552--68438609 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
68438542 GAAGCACTTT
*
68438552 CACATGGGTAAACCACACACCCGTGTGTGA
1 CACACGGGTAAACCACACACCCGTGTGTGA
** *
68438582 CACACGGGTAGGCCACACGCCCGTGTGT
1 CACACGGGTAAACCACACACCCGTGTGT
68438610 CATGGCCGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.24, C:0.33, G:0.28, T:0.16
Consensus pattern (30 bp):
CACACGGGTAAACCACACACCCGTGTGTGA
Found at i:68440359 original size:13 final size:13
Alignment explanation
Indices: 68440337--68440369 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
68440327 AATGACTGAA
68440337 AAAT-TTTTACTT
1 AAATATTTTACTT
68440349 AAATATTTTACTT
1 AAATATTTTACTT
68440362 AAATATTT
1 AAATATTT
68440370 CTCTTCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (13 bp):
AAATATTTTACTT
Found at i:68442277 original size:124 final size:124
Alignment explanation
Indices: 68442052--68442301 Score: 412
Period size: 124 Copynumber: 2.0 Consensus size: 124
68442042 CACCTAGGAA
* * *
68442052 GAACATGATGGATCCACATTCTAGTCCATGTGACAAAAATAGAATGAGTCATGGGGAACGAAGAC
1 GAACATGATGGATCCACACTCTAGTCCATGTGACAAAAAGAGAATGAGTCATGAGGAACGAAGAC
* * *
68442117 TACAAATTGATGAACTAGATGAGTGGTAGACACATGTCAAGGAGCAACCAAAAGTACAC
66 TACAAATTGATGAACTAGATGAATGGCAGACACATGTCAAGAAGCAACCAAAAGTACAC
*
68442176 GAACGTGATGGATCCACACTCTAGTCCATGTGACAAAAACGA-AATGAGTCATGAGGAACGAAGA
1 GAACATGATGGATCCACACTCTAGTCCATGTGACAAAAA-GAGAATGAGTCATGAGGAACGAAGA
*
68442240 CTACACATTGATGAACTAGATGAATGGCAGACACATGTCAAGAAGCAACCAAAAGTACAC
65 CTACAAATTGATGAACTAGATGAATGGCAGACACATGTCAAGAAGCAACCAAAAGTACAC
68442300 GA
1 GA
68442302 TGAATCAAAG
Statistics
Matches: 117, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
124 116 0.99
125 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.18
Consensus pattern (124 bp):
GAACATGATGGATCCACACTCTAGTCCATGTGACAAAAAGAGAATGAGTCATGAGGAACGAAGAC
TACAAATTGATGAACTAGATGAATGGCAGACACATGTCAAGAAGCAACCAAAAGTACAC
Found at i:68443664 original size:3 final size:3
Alignment explanation
Indices: 68443626--68443652 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
68443616 ACCCCTTCTA
68443626 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
68443653 GGAATTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:68443748 original size:16 final size:17
Alignment explanation
Indices: 68443729--68443766 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
68443719 TTATTATGCC
68443729 TTTG-AGTTATTTTAGT
1 TTTGTAGTTATTTTAGT
**
68443745 TTTGTCTTTATTTTAGT
1 TTTGTAGTTATTTTAGT
68443762 TTTGT
1 TTTGT
68443767 TTGCTGCAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.13, C:0.03, G:0.16, T:0.68
Consensus pattern (17 bp):
TTTGTAGTTATTTTAGT
Found at i:68461642 original size:37 final size:36
Alignment explanation
Indices: 68461583--68461653 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 36
68461573 AGCTCAGATG
*
68461583 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGATA
1 AAATCTCCACACGAAGTCATCGGGTCTT-CCCGGATA
*
68461620 AAATCTCCACACGTAGTCATCGGGTCTTCCCGGA
1 AAATCTCCACACGAAGTCATCGGGTCTTCCCGGA
68461654 ATATATTTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
36 6 0.19
37 26 0.81
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.24
Consensus pattern (36 bp):
AAATCTCCACACGAAGTCATCGGGTCTTCCCGGATA
Found at i:68461918 original size:100 final size:99
Alignment explanation
Indices: 68461800--68462091 Score: 482
Period size: 100 Copynumber: 3.0 Consensus size: 99
68461790 ACACATCGCC
* *
68461800 TACATATTTCACACTAGCCATCCGGCTTTACCACATATACATATCTCATATATATATATTTCACA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAT-TATATATATTTCACA
68461865 TTAGCCATTCGGCTTTACCACATATACATATCTCA
65 TTAGCCATTCGGCTTTACCACATATACATATCTCA
68461900 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATGTATATATATTTCACA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAT-TATATATATTTCACA
*
68461965 TTAGCCATTCGGCTTTGCCACATATACATATCTCA
65 TTAGCCATTCGGCTTTACCACATATACATATCTCA
* **
68462000 TACATATTTCACATTAGCCATTTGGCTTTACCACATATACATATCTC---ATGCATATTTCACAT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATTATATATATTTCACAT
*
68462062 TAGCCATTCGGATTTACCACATATACATAT
66 TAGCCATTCGGCTTTACCACATATACATAT
68462092 ATTTATCTTG
Statistics
Matches: 183, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
96 41 0.22
100 142 0.78
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.36
Consensus pattern (99 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATTATATATATTTCACAT
TAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:68461926 original size:48 final size:48
Alignment explanation
Indices: 68461800--68462091 Score: 440
Period size: 48 Copynumber: 5.9 Consensus size: 48
68461790 ACACATCGCC
* *
68461800 TACATATTTCACACTAGCCATCCGGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----A
*
68461852 TATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
68461900 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATGTA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----A
* *
68461952 TATATATTTCACATTAGCCATTCGGCTTTGCCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
68462000 TACATATTTCACATTAGCCATTTGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
68462048 TGCATATTTCACATTAGCCATTCGGATTTACCACATATACATAT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
68462092 ATTTATCTTG
Statistics
Matches: 224, Mismatches: 12, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
48 134 0.60
52 90 0.40
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:68462509 original size:21 final size:20
Alignment explanation
Indices: 68462484--68462524 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
68462474 AAATTTTATC
68462484 TTATAACCATTTTTTTAAAAA
1 TTATAACCA-TTTTTTAAAAA
**
68462505 TTATAATGATTTTTTAAAAA
1 TTATAACCATTTTTTAAAAA
68462525 CAGAACGGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (20 bp):
TTATAACCATTTTTTAAAAA
Found at i:68465418 original size:21 final size:25
Alignment explanation
Indices: 68465369--68465423 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
68465359 CGGTTAAAGA
68465369 ATTCGCACACATAGTGCCTCAATTC
1 ATTCGCACACATAGTGCCTCAATTC
*
68465394 ATTCGCACACATAGTG-CTTATATTC
1 ATTCGCACACATAGTGCCTCA-ATTC
68465419 ATTCG
1 ATTCG
68465424 TTATTACACA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 3 0.11
25 25 0.89
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (25 bp):
ATTCGCACACATAGTGCCTCAATTC
Found at i:68465652 original size:40 final size:40
Alignment explanation
Indices: 68465585--68465866 Score: 411
Period size: 40 Copynumber: 7.0 Consensus size: 40
68465575 CTGATTACAC
* * * * *
68465585 ATCACCGGCATGAATGCCCTTCAGGACTTAGCCCGGATGT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* *
68465625 AGCACCAGCACGAATGCTCTTTGGGACTTAGCCCGGATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* *
68465665 AACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAC
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* * *
68465705 ATCACTAGCACGAATGCTCTTCGGGACATAGCCCGAATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* *
68465745 AACACCAGCACGAATGCTCTTCGGGACTTAGCCCGAATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
*
68465785 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* *
68465825 ATCACTAGCACAAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
68465865 AT
1 AT
68465867 ATAACTCTCG
Statistics
Matches: 220, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 220 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (40 bp):
ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
Found at i:68467452 original size:48 final size:48
Alignment explanation
Indices: 68467333--68467613 Score: 505
Period size: 48 Copynumber: 5.9 Consensus size: 48
68467323 ACACATCGCC
*
68467333 TACATA-TTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
68467380 T--ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
68467426 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
68467474 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
68467522 TATATATTTCACATTAGCCATTCGGCTTTGCCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
68467570 TACATATTTCACATTAGCCATTCGGATTTACCACATATACATAT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
68467614 ATTTATCTTG
Statistics
Matches: 225, Mismatches: 6, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
45 3 0.01
46 41 0.18
47 1 0.00
48 180 0.80
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:68470932 original size:25 final size:25
Alignment explanation
Indices: 68470898--68470952 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
68470888 CGGTTAAAGA
68470898 ATTCGCACACACAGTGCCTCA-ATTC
1 ATTCGCACACACAGTG-CTCATATTC
* *
68470923 ATTCGCACACATAGTGCTTATATTC
1 ATTCGCACACACAGTGCTCATATTC
68470948 ATTCG
1 ATTCG
68470953 TTATTACACA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 3 0.11
25 24 0.89
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.31
Consensus pattern (25 bp):
ATTCGCACACACAGTGCTCATATTC
Found at i:68471181 original size:40 final size:40
Alignment explanation
Indices: 68471114--68471395 Score: 429
Period size: 40 Copynumber: 7.0 Consensus size: 40
68471104 CTGATTACAC
* * * * *
68471114 ATCACCGGCATGAATGCCCTTCAGGACTTAGCCCGGATGT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
*
68471154 AGCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* *
68471194 AACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAC
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* * * *
68471234 ATCACTAGCACGAATGTTCTTCGGGACATAGCCCGAATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
*
68471274 AACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
*
68471314 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
*
68471354 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
68471394 AT
1 AT
68471396 ATAACTCTCG
Statistics
Matches: 221, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 221 1.00
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
Found at i:68472709 original size:37 final size:36
Alignment explanation
Indices: 68472650--68472720 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 36
68472640 AGCTCAGATG
*
68472650 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGATA
1 AAATCTCCACACGAAGTCATCGGGTCTT-CCCGGATA
*
68472687 AAATCTCCACACGTAGTCATCGGGTCTTCCCGGA
1 AAATCTCCACACGAAGTCATCGGGTCTTCCCGGA
68472721 ATATATTTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
36 6 0.19
37 26 0.81
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.24
Consensus pattern (36 bp):
AAATCTCCACACGAAGTCATCGGGTCTTCCCGGATA
Found at i:68472983 original size:98 final size:96
Alignment explanation
Indices: 68472866--68473200 Score: 564
Period size: 98 Copynumber: 3.5 Consensus size: 96
68472856 ACACATCGCC
* *
68472866 TACATA-TTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATT
68472930 AGCCATTCGGCTTTACCACATATACATATCTCA
64 AGCCATTCGGCTTTACCACATATACATATCTCA
68472963 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
68473028 CCATTCGGCTTTACCACATATACATATCTCATA
66 CCATTCGGCTTTACCACATATACATATCTC--A
* *
68473061 TATATATTTCACATTAGCCATTCGGCTTTGCCACATATACATATCTCATACATATTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
*
68473126 CCATTTGGCTTTACCACATATACATATCTCA
66 CCATTCGGCTTTACCACATATACATATCTCA
* *
68473157 TACATATTTCACATTAGCCACTCGGATTTACCACATATACATAT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
68473201 ATTTATCTTG
Statistics
Matches: 226, Mismatches: 9, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
96 88 0.39
97 6 0.03
98 132 0.58
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.36
Consensus pattern (96 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
CCATTCGGCTTTACCACATATACATATCTCA
Found at i:68472989 original size:48 final size:48
Alignment explanation
Indices: 68472866--68473200 Score: 564
Period size: 48 Copynumber: 6.9 Consensus size: 48
68472856 ACACATCGCC
*
68472866 TACATA-TTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
*
68472915 TATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
68472963 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
68473011 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
68473061 TATATATTTCACATTAGCCATTCGGCTTTGCCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
68473109 TACATATTTCACATTAGCCATTTGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
68473157 TACATATTTCACATTAGCCACTCGGATTTACCACATATACATAT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
68473201 ATTTATCTTG
Statistics
Matches: 272, Mismatches: 11, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
48 182 0.67
49 5 0.02
50 85 0.31
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:68473030 original size:146 final size:146
Alignment explanation
Indices: 68472866--68473200 Score: 618
Period size: 146 Copynumber: 2.3 Consensus size: 146
68472856 ACACATCGCC
*
68472866 TACATA-TTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
68472930 AGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACC
66 AGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACC
68472995 ACATATACATATCTCA
131 ACATATACATATCTCA
68473011 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
* *
68473076 AGCCATTCGGCTTTGCCACATATACATATCTCATACATATTTCACATTAGCCATTTGGCTTTACC
66 AGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACC
68473141 ACATATACATATCTCA
131 ACATATACATATCTCA
* *
68473157 TACATATTTCACATTAGCCACTCGGATTTACCACATATACATAT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
68473201 ATTTATCTTG
Statistics
Matches: 184, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
145 6 0.03
146 178 0.97
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.36
Consensus pattern (146 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
AGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACC
ACATATACATATCTCA
Found at i:68476998 original size:46 final size:46
Alignment explanation
Indices: 68476938--68477164 Score: 323
Period size: 46 Copynumber: 5.0 Consensus size: 46
68476928 TTTGACATGA
* * * * * *
68476938 TGCCATAGTTTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * *
68476984 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
68477030 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA-ATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
68477075 TGCCATGGTATCTTTCAACTATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
68477121 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
68477165 AGAGCACACT
Statistics
Matches: 166, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
45 45 0.27
46 121 0.73
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:68477099 original size:91 final size:91
Alignment explanation
Indices: 68476938--68477164 Score: 319
Period size: 91 Copynumber: 2.5 Consensus size: 91
68476928 TTTGACATGA
* * * * ** * *
68476938 TGCCATAGTTTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCAATCAGGCTGCCATGGTATCTTTCAAC
** *
68477003 CATGGTCTTATTCATTTCATGTCACGT
65 CATGGTCTTACACATTTCATATCACGT
*
68477030 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAATCAGGCTGCCATGGTATCTTTCAACT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAATCAGGCTGCCATGGTATCTTTCAACC
*
68477095 ATGGTCTTACACATTTCATATCAGGT
66 ATGGTCTTACACATTTCATATCACGT
68477121 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA-ATCAG
68477165 AGAGCACACT
Statistics
Matches: 121, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
91 87 0.72
92 34 0.28
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.40
Consensus pattern (91 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAATCAGGCTGCCATGGTATCTTTCAACC
ATGGTCTTACACATTTCATATCACGT
Found at i:68485288 original size:23 final size:22
Alignment explanation
Indices: 68485243--68485288 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
68485233 CAACCAATCC
*
68485243 AATTCAACATATTTTCAAGATA
1 AATTCAACATATTTTCAAAATA
68485265 AATTCATACATATTTAT-AAAATA
1 AATTCA-ACATATTT-TCAAAATA
68485288 A
1 A
68485289 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.37
Consensus pattern (22 bp):
AATTCAACATATTTTCAAAATA
Found at i:68500029 original size:3 final size:3
Alignment explanation
Indices: 68500021--68500059 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
68500011 CAGGAAATGC
68500021 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
68500060 ACTAATTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:68500433 original size:17 final size:17
Alignment explanation
Indices: 68500411--68500445 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
68500401 TATAGACTCG
*
68500411 TTTAGATATACTTAGTA
1 TTTAGATATAATTAGTA
68500428 TTTAGATATAATTAGTA
1 TTTAGATATAATTAGTA
68500445 T
1 T
68500446 AATATATAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.03, G:0.11, T:0.49
Consensus pattern (17 bp):
TTTAGATATAATTAGTA
Found at i:68500703 original size:28 final size:29
Alignment explanation
Indices: 68500650--68500709 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
68500640 TTAATTAAAA
*
68500650 TTTTAAAATTTTAAAAAACATAAAAATTAT
1 TTTTAAAA-TTTAAAAAACATAAAAAATAT
* *
68500680 TTTTAAAA-TTAAAAATCATTAAAAATAT
1 TTTTAAAATTTAAAAAACATAAAAAATAT
68500708 TT
1 TT
68500710 ACGGGACAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 19 0.70
30 8 0.30
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (29 bp):
TTTTAAAATTTAAAAAACATAAAAAATAT
Found at i:68509150 original size:79 final size:78
Alignment explanation
Indices: 68509048--68509271 Score: 263
Period size: 79 Copynumber: 2.8 Consensus size: 78
68509038 GCTCCTCGTT
* * *
68509048 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
*
68509113 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* * *
68509128 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTTGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGA
*
68509192 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
* * * * *
68509206 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCAGAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TAGCACAAATGCCTTCGGGACTTAGCCCG
68509270 GA
63 GA
68509272 CATCATTCAA
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
78 36 0.29
79 55 0.44
80 33 0.27
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:68509168 original size:39 final size:40
Alignment explanation
Indices: 68509048--68509271 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
68509038 GCTCCTCGTT
* *
68509048 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
68509088 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
68509128 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
68509167 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
68509206 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
*
68509247 GAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
68509272 CATCATTCAA
Statistics
Matches: 163, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
38 2 0.01
39 72 0.44
40 77 0.47
41 12 0.07
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:68511533 original size:102 final size:102
Alignment explanation
Indices: 68511357--68511561 Score: 376
Period size: 102 Copynumber: 2.0 Consensus size: 102
68511347 CTAGGGTAAA
*
68511357 ATTGTAAATTAGCCAAAATGAATGTGTTAGGCTAAATTGAATTGAATGAAAGTTTGAATGAGTTA
1 ATTGTAAATTAGCCAAAATGAATGTGTTAGGCTAAATTGAATTGAATGAAAGTTTGAATAAGTTA
68511422 ATTTGATATTATATAGATCAAGATAAGCAAATATCGG
66 ATTTGATATTATATAGATCAAGATAAGCAAATATCGG
*
68511459 ATTGTAAATTAGCCAAAATGAATGTGTTTA-GCTAATTTGAATTGAATGAAAGTTTGAATAAGTT
1 ATTGTAAATTAGCCAAAATGAATGTG-TTAGGCTAAATTGAATTGAATGAAAGTTTGAATAAGTT
68511523 AATTTGATATTATATAGATCAAGATAAGCAAATATCGG
65 AATTTGATATTATATAGATCAAGATAAGCAAATATCGG
68511561 A
1 A
68511562 ACTAGATCGA
Statistics
Matches: 100, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
102 97 0.97
103 3 0.03
ACGTcount: A:0.41, C:0.06, G:0.19, T:0.34
Consensus pattern (102 bp):
ATTGTAAATTAGCCAAAATGAATGTGTTAGGCTAAATTGAATTGAATGAAAGTTTGAATAAGTTA
ATTTGATATTATATAGATCAAGATAAGCAAATATCGG
Found at i:68511906 original size:22 final size:22
Alignment explanation
Indices: 68511865--68511948 Score: 91
Period size: 22 Copynumber: 3.7 Consensus size: 22
68511855 TTTAGCTCAT
68511865 TAGAGCTTACCGT-TTCAGCTCGA
1 TAGAGCTTA-C-TATTCAGCTCGA
68511888 TAGAGCTTACTATTCAGCTCGA
1 TAGAGCTTACTATTCAGCTCGA
*
68511910 TAGAGCTTACTGTTTCAGCTC-A
1 TAGAGCTTACT-ATTCAGCTCGA
* *
68511932 TTACAGTTTACTATTCA
1 -TAGAGCTTACTATTCA
68511949 TCAGCTCAGG
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
21 1 0.02
22 27 0.50
23 26 0.48
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.36
Consensus pattern (22 bp):
TAGAGCTTACTATTCAGCTCGA
Found at i:68511943 original size:23 final size:23
Alignment explanation
Indices: 68511833--68511930 Score: 121
Period size: 23 Copynumber: 4.3 Consensus size: 23
68511823 GGACTCACCA
68511833 CAGCTCG-TAAGAGCTTACTGTTTT
1 CAGCTCGAT-AGAGCTTACTG-TTT
* *
68511857 TAGCTC-ATTAGAGCTTACCGTTT
1 CAGCTCGA-TAGAGCTTACTGTTT
*
68511880 CAGCTCGATAGAGCTTACT-ATT
1 CAGCTCGATAGAGCTTACTGTTT
68511902 CAGCTCGATAGAGCTTACTGTTT
1 CAGCTCGATAGAGCTTACTGTTT
68511925 CAGCTC
1 CAGCTC
68511931 ATTACAGTTT
Statistics
Matches: 64, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
22 21 0.33
23 26 0.41
24 16 0.25
25 1 0.02
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.35
Consensus pattern (23 bp):
CAGCTCGATAGAGCTTACTGTTT
Found at i:68516061 original size:46 final size:46
Alignment explanation
Indices: 68516008--68516275 Score: 248
Period size: 46 Copynumber: 5.8 Consensus size: 46
68515998 TATTTGGGCA
*
68516008 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
68516054 TCCGAACTCGTT-AGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
* *
68516098 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
68516146 TCCGAACTCGTTGAGTTGAGTCCGACTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
* * *
68516191 CATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
68516239 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
68516276 GCGGGTTACA
Statistics
Matches: 181, Mismatches: 22, Indels: 38
0.75 0.09 0.16
Matches are distributed among these distances:
41 3 0.02
42 7 0.04
43 4 0.02
44 3 0.02
45 18 0.10
46 85 0.47
47 42 0.23
48 5 0.03
50 8 0.04
51 6 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:68516123 original size:47 final size:47
Alignment explanation
Indices: 68516054--68516221 Score: 195
Period size: 47 Copynumber: 3.6 Consensus size: 47
68516044 GATGCGAACG
68516054 TCCGAACTCGTT-AGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
* * * *
68516100 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAAC---G--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCA
*
68516146 TCCGAACTCGTTGAGTTGAGTCCGACTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
* *
68516193 TCCGAGCTCGTTGAGTTGAGTCCAAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
68516222 ACTTATGGAT
Statistics
Matches: 100, Mismatches: 12, Indels: 19
0.76 0.09 0.15
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 3 0.03
46 38 0.38
47 42 0.42
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
Found at i:68516209 original size:93 final size:93
Alignment explanation
Indices: 68516004--68516263 Score: 441
Period size: 93 Copynumber: 2.8 Consensus size: 93
68515994 CAGATATTTG
* *
68516004 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGTCCGAACTCGTT-AG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
*
68516068 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGACTTCGTGAGATGTAACTA
*
68516096 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
68516161 TTGAGTCCGACTTCGTGAGATGTAACTA
66 TTGAGTCCGACTTCGTGAGATGTAACTA
* ** *
68516189 GGCATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACACCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
68516254 TTGAGTCCGA
66 TTGAGTCCGA
68516264 GTTCACTTAT
Statistics
Matches: 158, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 59 0.37
93 99 0.63
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGACTTCGTGAGATGTAACTA
Found at i:68522330 original size:23 final size:23
Alignment explanation
Indices: 68522248--68522331 Score: 66
Period size: 23 Copynumber: 3.7 Consensus size: 23
68522238 AACTGTTTTT
* *
68522248 AGCTCATTGGAGCTTACCGTTTC
1 AGCTCATTAGAGCTTATCGTTTC
* *
68522271 AGCTC-GTATGAGCTTATTG-TTC
1 AGCTCATTA-GAGCTTATCGTTTC
** *
68522293 AAATCGA-TAGAGCTTATCGTTTT
1 AGCTC-ATTAGAGCTTATCGTTTC
68522316 AGCTCATTAGAGCTTA
1 AGCTCATTAGAGCTTA
68522332 CTGTTCATCA
Statistics
Matches: 46, Mismatches: 10, Indels: 10
0.70 0.15 0.15
Matches are distributed among these distances:
22 17 0.37
23 29 0.63
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (23 bp):
AGCTCATTAGAGCTTATCGTTTC
Found at i:68536903 original size:26 final size:26
Alignment explanation
Indices: 68536865--68536932 Score: 118
Period size: 26 Copynumber: 2.6 Consensus size: 26
68536855 ACTCGAAAAA
*
68536865 GCTCACACAAGTTGTGAAATGAGCCT
1 GCTCACACGAGTTGTGAAATGAGCCT
*
68536891 GCTCACACGAGTTGTGAAATGGGCCT
1 GCTCACACGAGTTGTGAAATGAGCCT
68536917 GCTCACACGAGTTGTG
1 GCTCACACGAGTTGTG
68536933 GGTCAAAATG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (26 bp):
GCTCACACGAGTTGTGAAATGAGCCT
Found at i:68540522 original size:15 final size:15
Alignment explanation
Indices: 68540477--68540584 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
68540467 CCAATATCTC
68540477 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
68540492 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
68540507 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
68540522 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
68540537 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
68540552 GACTTTCCAT-TATTT
1 GA-TACCCATATCTTT
68540567 GATACCCATATCTTT
1 GATACCCATATCTTT
68540582 GAT
1 GAT
68540585 TTTCCATAAA
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 13 0.19
15 43 0.62
16 13 0.19
ACGTcount: A:0.26, C:0.23, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:68540591 original size:30 final size:30
Alignment explanation
Indices: 68540467--68540590 Score: 212
Period size: 30 Copynumber: 4.1 Consensus size: 30
68540457 TTTTATTATG
*
68540467 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
68540498 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
68540528 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
68540558 CCATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
68540588 CCA
1 CCA
68540591 TAAATATGGA
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
30 83 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.25, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:68545401 original size:27 final size:27
Alignment explanation
Indices: 68545371--68545575 Score: 259
Period size: 27 Copynumber: 7.6 Consensus size: 27
68545361 ATATTGAGTC
* * * *
68545371 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
68545398 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
68545425 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
68545453 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
68545480 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
68545507 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
68545534 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
68545561 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
68545576 GTACAATTTA
Statistics
Matches: 157, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 24 0.15
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:68553604 original size:27 final size:27
Alignment explanation
Indices: 68553574--68553753 Score: 191
Period size: 27 Copynumber: 6.6 Consensus size: 27
68553564 ATATTGAGTC
* * *
68553574 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAAAT
*
68553601 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
*
68553628 CGCACACTTAGTGCTACATAGTTCAAACT
1 CGCACACTTAGTGCTACATA-ATCAAA-T
** ** *
68553657 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAAAT
* **
68553684 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAAAT
* *
68553711 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
68553738 CGCACACTTAGTGCTA
1 CGCACACTTAGTGCTA
68553754 GTCAATCGCA
Statistics
Matches: 130, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 102 0.78
28 10 0.08
29 18 0.14
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:68553714 original size:83 final size:76
Alignment explanation
Indices: 68553595--68553774 Score: 218
Period size: 83 Copynumber: 2.3 Consensus size: 76
68553585 TGCTATATAA
* *
68553595 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTTCAAACTCGC
1 TCAA-TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAG-TCAAA-TCGC
*
68553660 ACACTTAGTGCCGCATGG
63 ACACTTAGT---GC-TAG
* **
68553678 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAA-TCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
68553742 CACTTAGTGCTAG
64 CACTTAGTGCTAG
68553755 TCAATCGCACACTTAGTGCT
1 TCAATCGCACACTTAGTGCT
68553775 GTACAATTTA
Statistics
Matches: 88, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
76 15 0.17
77 6 0.07
78 2 0.02
81 13 0.15
82 6 0.07
83 46 0.52
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (76 bp):
TCAATCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACA
CTTAGTGCTAG
Found at i:68553774 original size:22 final size:23
Alignment explanation
Indices: 68553595--68553774 Score: 101
Period size: 27 Copynumber: 6.9 Consensus size: 23
68553585 TGCTATATAA
*
68553595 TCAACTCGCACACTTAGTGCTACG
1 TCAAATCGCACACTTAGTGCTA-G
68553619 TAATCAAATCGCACACTTAGTGCTACATAG
1 ---TCAAATCGCACACTTAGTG---C-TAG
*
68553649 TTCAAACTCGCACACTTAGTGCCGCATGG
1 -TCAAA-TCGCACACTTAGT---GC-TAG
* *
68553678 TCAATTCGCACACTTAGTGCATCATAT
1 TCAAATCGCACACTTAGTG---C-TAG
**
68553705 TCATTTCGCACACTTAGTGCAACATAG
1 TCAAATCGCACACTTAGTG---C-TAG
68553732 TCAAATCGCACACTTAGTGCTAG
1 TCAAATCGCACACTTAGTGCTAG
68553755 TC-AATCGCACACTTAGTGCT
1 TCAAATCGCACACTTAGTGCT
68553775 GTACAATTTA
Statistics
Matches: 131, Mismatches: 11, Indels: 27
0.78 0.07 0.16
Matches are distributed among these distances:
22 18 0.14
23 5 0.04
24 2 0.02
27 75 0.57
28 9 0.07
29 17 0.13
30 2 0.02
31 2 0.02
32 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (23 bp):
TCAAATCGCACACTTAGTGCTAG
Found at i:68553781 original size:22 final size:22
Alignment explanation
Indices: 68553710--68553774 Score: 85
Period size: 22 Copynumber: 2.7 Consensus size: 22
68553700 CATATTCATT
68553710 TCGCACACTTAGTGCAACATAGTCAAA
1 TCGCACACTTAGTG---C-TAGTC-AA
68553737 TCGCACACTTAGTGCTAGTCAA
1 TCGCACACTTAGTGCTAGTCAA
68553759 TCGCACACTTAGTGCT
1 TCGCACACTTAGTGCT
68553775 GTACAATTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
22 18 0.47
23 5 0.13
24 1 0.03
27 14 0.37
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (22 bp):
TCGCACACTTAGTGCTAGTCAA
Found at i:68556803 original size:30 final size:30
Alignment explanation
Indices: 68556757--68556880 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
68556747 TTTTATTATG
*
68556757 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
68556788 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
68556818 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
68556848 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
68556878 CCA
1 CCA
68556881 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:68556812 original size:15 final size:15
Alignment explanation
Indices: 68556767--68556874 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
68556757 CCAATATCTC
68556767 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
68556782 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
68556797 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
68556812 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
68556827 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
68556842 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
68556857 GATACCCATATCTTT
1 GATACCCATATCTTT
68556872 GAT
1 GAT
68556875 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:68557573 original size:27 final size:28
Alignment explanation
Indices: 68557529--68557587 Score: 93
Period size: 27 Copynumber: 2.1 Consensus size: 28
68557519 TTGTACTTTT
*
68557529 TTTAATTAATAACATTATTTTATTTTAA
1 TTTAATTAATAAAATTATTTTATTTTAA
*
68557557 TTTAATT-ATAAAATTATTTTATTTTAT
1 TTTAATTAATAAAATTATTTTATTTTAA
68557584 TTTA
1 TTTA
68557588 TGAAATTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 22 0.76
28 7 0.24
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (28 bp):
TTTAATTAATAAAATTATTTTATTTTAA
Found at i:68557576 original size:22 final size:22
Alignment explanation
Indices: 68557548--68557621 Score: 73
Period size: 22 Copynumber: 3.5 Consensus size: 22
68557538 TAACATTATT
68557548 TTATTTTAATTTAATTATAAAA
1 TTATTTTAATTTAATTATAAAA
* * *
68557570 TTATTTTATTTTATTTTATGAAA
1 TTATTTTAATTTA-ATTATAAAA
*
68557593 TTA-TTTAATTT-ATT-TTAAA
1 TTATTTTAATTTAATTATAAAA
*
68557612 TTATATTAAT
1 TTATTTTAAT
68557622 GTGGAGAGCT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
19 7 0.16
20 7 0.16
22 19 0.44
23 10 0.23
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (22 bp):
TTATTTTAATTTAATTATAAAA
Found at i:68558199 original size:28 final size:28
Alignment explanation
Indices: 68558141--68558199 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
68558131 ATTATTAATG
** *
68558141 ATAAAATTATATTTTAATCTTTAAAATA
1 ATAAAATTATATTTTAATCGATAAAAAA
*
68558169 ATAAAATTATATTTTTA-CGATAATAAAA
1 ATAAAATTATATTTTAATCGATAA-AAAA
68558197 ATA
1 ATA
68558200 TATAATTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 4 0.15
28 22 0.85
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (28 bp):
ATAAAATTATATTTTAATCGATAAAAAA
Found at i:68563654 original size:19 final size:19
Alignment explanation
Indices: 68563630--68563666 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
68563620 CAAATTTAAC
*
68563630 AATTAAGCTTAATTAAATA
1 AATTAAGATTAATTAAATA
*
68563649 AATTAAGATTGATTAAAT
1 AATTAAGATTAATTAAAT
68563667 CTAAAACATG
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:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (19 bp):
AATTAAGATTAATTAAATA
Found at i:68563904 original size:13 final size:14
Alignment explanation
Indices: 68563874--68563907 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
68563864 AAAAGTAAGT
*
68563874 CATTTTCTAGAAAT
1 CATTTTCTAGAAAC
68563888 CATTTTCT-GAAAC
1 CATTTTCTAGAAAC
68563901 CATTTTC
1 CATTTTC
68563908 AGTGAAACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.29, C:0.21, G:0.06, T:0.44
Consensus pattern (14 bp):
CATTTTCTAGAAAC
Done.