Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 139 of 208
Found at i:42468054 original size:36 final size:36
Alignment explanation
Indices: 42468007--42468078 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
42467997 GGTTTAAGTA
42468007 TTCTCAAACTTCTCTACTATTTTATTGATTACTGTT
1 TTCTCAAACTTCTCTACTATTTTATTGATTACTGTT
42468043 TTCTCAAACTTCTCTACTATTTTATTGATTACTGTT
1 TTCTCAAACTTCTCTACTATTTTATTGATTACTGTT
42468079 CATACTTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.22, C:0.19, G:0.06, T:0.53
Consensus pattern (36 bp):
TTCTCAAACTTCTCTACTATTTTATTGATTACTGTT
Found at i:42472688 original size:13 final size:13
Alignment explanation
Indices: 42472670--42472697 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
42472660 TTTGTATGAA
42472670 ATTAATTTATTAT
1 ATTAATTTATTAT
42472683 ATTAATTTATTAT
1 ATTAATTTATTAT
42472696 AT
1 AT
42472698 AGATCAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
ATTAATTTATTAT
Found at i:42472937 original size:40 final size:40
Alignment explanation
Indices: 42472879--42473024 Score: 186
Period size: 40 Copynumber: 3.6 Consensus size: 40
42472869 AACTATTGAA
* * *
42472879 TGTTTGCACATTCATGCCCCTGTCTGTACTTTGGTACCCT
1 TGTTTGCACATACATGCCCCTGTTTGTACTTTAGTACCCT
* * ** *
42472919 TATTTGCATATATGTGCCCATGTTTGTACTTTAGTA-CCT
1 TGTTTGCACATACATGCCCCTGTTTGTACTTTAGTACCCT
* *
42472958 CTGTTTGCACATACATGCCCCTGTTTGTACTTCAGTACCCC
1 -TGTTTGCACATACATGCCCCTGTTTGTACTTTAGTACCCT
42472999 TGTTTGCACATACATGCCCCTGTTTG
1 TGTTTGCACATACATGCCCCTGTTTG
42473025 CACATACATG
Statistics
Matches: 89, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.03
40 84 0.94
41 2 0.02
ACGTcount: A:0.16, C:0.27, G:0.16, T:0.40
Consensus pattern (40 bp):
TGTTTGCACATACATGCCCCTGTTTGTACTTTAGTACCCT
Found at i:42472962 original size:20 final size:20
Alignment explanation
Indices: 42472939--42473004 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
42472929 TATGTGCCCA
*
42472939 TGTTTGTACTTTAGTACCTC
1 TGTTTGTACTTTAGTACCCC
* * * *
42472959 TGTTTGCAC-ATACATGCCCC
1 TGTTTGTACTTTA-GTACCCC
*
42472979 TGTTTGTACTTCAGTACCCC
1 TGTTTGTACTTTAGTACCCC
42472999 TGTTTG
1 TGTTTG
42473005 CACATACATG
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
19 2 0.06
20 31 0.91
21 1 0.03
ACGTcount: A:0.15, C:0.26, G:0.17, T:0.42
Consensus pattern (20 bp):
TGTTTGTACTTTAGTACCCC
Found at i:42473018 original size:20 final size:20
Alignment explanation
Indices: 42472958--42473124 Score: 196
Period size: 20 Copynumber: 8.3 Consensus size: 20
42472948 TTTAGTACCT
42472958 CTGTTTGCACATACATGCCC
1 CTGTTTGCACATACATGCCC
* * *
42472978 CTGTTTGTAC-TTCAGTACCC
1 CTGTTTGCACATACA-TGCCC
42472998 CTGTTTGCACATACATGCCC
1 CTGTTTGCACATACATGCCC
42473018 CTGTTTGCACATACATGCCC
1 CTGTTTGCACATACATGCCC
* *
42473038 CTGTTTGCAC-TTCAATACCC
1 CTGTTTGCACATAC-ATGCCC
42473058 CTGTTTGCACATACATGCCC
1 CTGTTTGCACATACATGCCC
* * *
42473078 ATGTTTGCAC-TTCAGTACCC
1 CTGTTTGCACATACA-TGCCC
*
42473098 CTGTTTGCACATACGTGCCC
1 CTGTTTGCACATACATGCCC
*
42473118 CTATTTG
1 CTGTTTG
42473125 TACTTCGGTA
Statistics
Matches: 123, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
19 8 0.07
20 108 0.88
21 7 0.06
ACGTcount: A:0.19, C:0.33, G:0.15, T:0.34
Consensus pattern (20 bp):
CTGTTTGCACATACATGCCC
Found at i:42473032 original size:60 final size:60
Alignment explanation
Indices: 42472958--42473107 Score: 239
Period size: 60 Copynumber: 2.5 Consensus size: 60
42472948 TTTAGTACCT
* *
42472958 CTGTTTGCACATACATGCCCCTGTTTGTACTTCAGTACCCCTGTTTGCACATACATGCCC
1 CTGTTTGCACATACATGCCCCTGTTTGCACTTCAATACCCCTGTTTGCACATACATGCCC
42473018 CTGTTTGCACATACATGCCCCTGTTTGCACTTCAATACCCCTGTTTGCACATACATGCCC
1 CTGTTTGCACATACATGCCCCTGTTTGCACTTCAATACCCCTGTTTGCACATACATGCCC
* * *
42473078 ATGTTTGCAC-TTCAGTACCCCTGTTTGCAC
1 CTGTTTGCACATACA-TGCCCCTGTTTGCAC
42473108 ATACGTGCCC
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
59 3 0.04
60 81 0.96
ACGTcount: A:0.19, C:0.33, G:0.15, T:0.33
Consensus pattern (60 bp):
CTGTTTGCACATACATGCCCCTGTTTGCACTTCAATACCCCTGTTTGCACATACATGCCC
Found at i:42478165 original size:46 final size:46
Alignment explanation
Indices: 42478098--42478191 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
42478088 TCCAACGGCC
42478098 TACCCCCTAATGTAAAATATTTTAGACCTCCAAAATACCTATTTCT
1 TACCCCCTAATGTAAAATATTTTAGACCTCCAAAATACCTATTTCT
42478144 TACCCCCTAATGTAAAATATTTTAGACCTCCAAAATACCTATTTCT
1 TACCCCCTAATGTAAAATATTTTAGACCTCCAAAATACCTATTTCT
42478190 TA
1 TA
42478192 ACCTAAAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.35
Consensus pattern (46 bp):
TACCCCCTAATGTAAAATATTTTAGACCTCCAAAATACCTATTTCT
Found at i:42478187 original size:22 final size:22
Alignment explanation
Indices: 42478115--42478187 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
42478105 TAATGTAAAA
42478115 TATTTTAGACCTCCAAAATACC
1 TATTTTAGACCTCCAAAATACC
* * ** **
42478137 TATTTCT-TACCCCCTAATGTAAAA
1 TATTT-TAGACCTCC-AAAAT-ACC
42478161 TATTTTAGACCTCCAAAATACC
1 TATTTTAGACCTCCAAAATACC
42478183 TATTT
1 TATTT
42478188 CTTAACCTAA
Statistics
Matches: 35, Mismatches: 12, Indels: 8
0.64 0.22 0.15
Matches are distributed among these distances:
22 16 0.46
23 8 0.23
24 11 0.31
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.37
Consensus pattern (22 bp):
TATTTTAGACCTCCAAAATACC
Found at i:42487084 original size:25 final size:25
Alignment explanation
Indices: 42487044--42487132 Score: 99
Period size: 25 Copynumber: 3.6 Consensus size: 25
42487034 CATGTACATG
* *
42487044 TATGCTCACACAAGTTATAAAACGA
1 TATGCTCACACGAGTTATAAATCGA
* * *
42487069 TATGCTCTCACGAGTTGTAAATCGG
1 TATGCTCACACGAGTTATAAATCGA
*
42487094 TATGCTCACACGAGCTATAAATC-A
1 TATGCTCACACGAGTTATAAATCGA
*
42487118 GTATGCTCTCACGAG
1 -TATGCTCACACGAG
42487133 ATGTGGGTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
25 53 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (25 bp):
TATGCTCACACGAGTTATAAATCGA
Found at i:42492618 original size:17 final size:17
Alignment explanation
Indices: 42492596--42492630 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
42492586 CTGAAAAACA
42492596 ATAAAGATTCACTAATT
1 ATAAAGATTCACTAATT
*
42492613 ATAAAGATTCATTAATT
1 ATAAAGATTCACTAATT
42492630 A
1 A
42492631 CTATCTTTGT
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:0.49, C:0.09, G:0.06, T:0.37
Consensus pattern (17 bp):
ATAAAGATTCACTAATT
Found at i:42493627 original size:10 final size:9
Alignment explanation
Indices: 42493612--42493650 Score: 51
Period size: 10 Copynumber: 4.1 Consensus size: 9
42493602 TATCAAACTT
42493612 ATAATATAA
1 ATAATATAA
42493621 CATAATATAA
1 -ATAATATAA
*
42493631 ATATTATAA
1 ATAATATAA
42493640 ATAATTATAA
1 ATAA-TATAA
42493650 A
1 A
42493651 ACAAATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
9 11 0.42
10 15 0.58
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (9 bp):
ATAATATAA
Found at i:42493855 original size:29 final size:29
Alignment explanation
Indices: 42493813--42493874 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
42493803 ATATCAGATG
42493813 TTACCACACATAAACACTTAGCAAAAATT
1 TTACCACACATAAACACTTAGCAAAAATT
42493842 TTACCACACATAAACACTTAGCAAAAATT
1 TTACCACACATAAACACTTAGCAAAAATT
42493871 TTAC
1 TTAC
42493875 AACCAGCGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.47, C:0.24, G:0.03, T:0.26
Consensus pattern (29 bp):
TTACCACACATAAACACTTAGCAAAAATT
Found at i:42511299 original size:38 final size:39
Alignment explanation
Indices: 42511245--42511320 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 39
42511235 ATAAAATTAT
*
42511245 CCAATTACCCAACCCAATAAAACTAAAACTAAAGTCTAC
1 CCAATTACCCAACCCAATAAAAATAAAACTAAAGTCTAC
42511284 CCAATTA-CCAACCCAATAAAAATAAAACTAAAGTCTA
1 CCAATTACCCAACCCAATAAAAATAAAACTAAAGTCTA
42511321 ACTCTAAGTC
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 29 0.81
39 7 0.19
ACGTcount: A:0.51, C:0.28, G:0.03, T:0.18
Consensus pattern (39 bp):
CCAATTACCCAACCCAATAAAAATAAAACTAAAGTCTAC
Found at i:42511505 original size:9 final size:9
Alignment explanation
Indices: 42511491--42511530 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
42511481 GTAGTGATTC
42511491 AATTCGGGT
1 AATTCGGGT
*
42511500 AATTCGGTT
1 AATTCGGGT
*
42511509 AATTCAGGT
1 AATTCGGGT
*
42511518 AATTCGGTT
1 AATTCGGGT
42511527 AATT
1 AATT
42511531 TTTAACCAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.40
Consensus pattern (9 bp):
AATTCGGGT
Found at i:42511518 original size:18 final size:18
Alignment explanation
Indices: 42511491--42511530 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
42511481 GTAGTGATTC
*
42511491 AATTCGGGTAATTCGGTT
1 AATTCAGGTAATTCGGTT
42511509 AATTCAGGTAATTCGGTT
1 AATTCAGGTAATTCGGTT
42511527 AATT
1 AATT
42511531 TTTAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.40
Consensus pattern (18 bp):
AATTCAGGTAATTCGGTT
Found at i:42511622 original size:24 final size:24
Alignment explanation
Indices: 42511595--42511650 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
42511585 ATTAACCGAA
*
42511595 AAAAATTTGGTTCGATTAATGTTT
1 AAAAATTTGGTTCGATTAATGGTT
*** *
42511619 AAAAAAACGGTTCGGTTAATGGTT
1 AAAAATTTGGTTCGATTAATGGTT
42511643 AAAAATTT
1 AAAAATTT
42511651 TAGAAGGTCG
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.39, C:0.05, G:0.18, T:0.38
Consensus pattern (24 bp):
AAAAATTTGGTTCGATTAATGGTT
Found at i:42511798 original size:39 final size:38
Alignment explanation
Indices: 42511754--42511852 Score: 99
Period size: 38 Copynumber: 2.6 Consensus size: 38
42511744 GTCAACATAA
** *
42511754 GCCGACCCTTATTGAAAGGTTGGGAAATACCTAGTCAAG
1 GCCGACCCTTA-AAAAAGGTTGGGAAAGACCTAGTCAAG
* * *
42511793 GCCGACCTTTAAAAAAGGTTGGGATAGACCTAGTTAAG
1 GCCGACCCTTAAAAAAGGTTGGGAAAGACCTAGTCAAG
* * * *
42511831 GCCAACCTTTGAAAATGGTTGG
1 GCCGACCCTTAAAAAAGGTTGG
42511853 CATAGACCCG
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
38 41 0.80
39 10 0.20
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.24
Consensus pattern (38 bp):
GCCGACCCTTAAAAAAGGTTGGGAAAGACCTAGTCAAG
Found at i:42511890 original size:73 final size:73
Alignment explanation
Indices: 42511804--42512249 Score: 433
Period size: 72 Copynumber: 6.1 Consensus size: 73
42511794 CCGACCTTTA
* * * * * *
42511804 AAAAAGGTTGGGATAGACCTAGT-TAAGGCCAACCTTTGAAAATGGTTGGCATAGACCCGTTTAA
1 AAAAAGGTTGGGATAGACCTAGTCTAA-GACAACCTTTAAAAAAGGTTGGGATAGACCCATCTAA
42511868 GGCAACCTT
65 GGCAACCTT
* *
42511877 AAAAAGGTTGGGATAGACC-AGTCTAAGATAACCTTTAAAAAACGTTGGGATAGACCTCATCTAA
1 AAAAAGGTTGGGATAGACCTAGTCTAAGACAACCTTTAAAAAAGGTTGGGATAGACC-CATCTAA
**
42511941 AACAACCTTT
65 GGCAACC-TT
** ** * * * * *
42511951 AAAATATATTAAGATAGACCTA-TCTAAGGCAACC-TTAAAAAAAGTTGGGATAGGCTCATTTAA
1 AAAA-AGGTTGGGATAGACCTAGTCTAAGACAACCTTTAAAAAAGGTTGGGATAGACCCATCTAA
42512014 GGCAACCTT
65 GGCAACCTT
* * *
42512023 AAAAAGGTTGGGATAGACCTTA-TTTAAGGCAAGCC-TTAAAAAAGGTTGGGATAAACCCATCTA
1 AAAAAGGTTGGGATAGACC-TAGTCTAAGACAA-CCTTTAAAAAAGGTTGGGATAGACCCATCTA
* *
42512086 AAGCAACCCT
64 AGGCAACCTT
* * **** *
42512096 AAAAAGGTTGGGATAGACCTTGTCTAAGACAACCTTT-AAAAAGGTTGAGATAGAGTTGTCTAAT
1 AAAAAGGTTGGGATAGACCTAGTCTAAGACAACCTTTAAAAAAGGTTGGGATAGACCCATCTAAG
*
42512160 ACAACCTT
66 GCAACCTT
* * *
42512168 AAAAAGGTTGGGATATACCTTA-TCTAAGAAAACCTTT-AAAAAGGTTGGGATAGACCCGTCTAA
1 AAAAAGGTTGGGATAGACC-TAGTCTAAGACAACCTTTAAAAAAGGTTGGGATAGACCCATCTAA
*
42512231 GGCAGCCTT
65 GGCAACCTT
*
42512240 TAAAAGGTTG
1 AAAAAGGTTG
42512250 AGCTAAACCT
Statistics
Matches: 306, Mismatches: 57, Indels: 21
0.80 0.15 0.05
Matches are distributed among these distances:
71 11 0.04
72 142 0.46
73 106 0.35
74 25 0.08
75 21 0.07
76 1 0.00
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (73 bp):
AAAAAGGTTGGGATAGACCTAGTCTAAGACAACCTTTAAAAAAGGTTGGGATAGACCCATCTAAG
GCAACCTT
Found at i:42511893 original size:35 final size:35
Alignment explanation
Indices: 42511804--42512305 Score: 349
Period size: 35 Copynumber: 13.9 Consensus size: 35
42511794 CCGACCTTTA
*
42511804 AAAAAGGTTGGGATAGACCTAGT-TAAGGCCAACCTTT
1 AAAAAGGTTGGGATAGACC-CGTCTAAGG-CAACC-TT
* * *
42511841 GAAAATGGTTGGCATAGACCCGTTTAAGGCAACCTT
1 -AAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTT
* **
42511877 AAAAAGGTTGGGATAGACCAGTCTAAGATAACCTTT
1 AAAAAGGTTGGGATAGACCCGTCTAAGGCAACC-TT
* * **
42511913 AAAAAACGTTGGGATAGACCTCATCTAAAACAACCTTT
1 -AAAAAGGTTGGGATAGACC-CGTCTAAGGCAACC-TT
** ** **
42511951 AAAATATATTAAGATAGACCTATCTAAGGCAACCTT
1 AAAA-AGGTTGGGATAGACCCGTCTAAGGCAACCTT
* * * * *
42511987 AAAAAAAGTTGGGATAGGCTCATTTAAGGCAACCTT
1 -AAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTT
** *
42512023 AAAAAGGTTGGGATAGACCTTATTTAAGGCAAGCCTT
1 AAAAAGGTTGGGATAGACC-CGTCTAAGGCAA-CCTT
* * * *
42512060 AAAAAAGGTTGGGATAAACCCATCTAAAGCAACCCT
1 -AAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTT
* *
42512096 AAAAAGGTTGGGATAGACCTTGTCTAAGACAACCTTT
1 AAAAAGGTTGGGATAGACC-CGTCTAAGGCAACC-TT
* *** **
42512133 AAAAAGGTTGAGATAGAGTTGTCTAATACAACCTT
1 AAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTT
* ** **
42512168 AAAAAGGTTGGGATATACCTTATCTAAGAAAACCTTT
1 AAAAAGGTTGGGATAGACC-CGTCTAAGGCAACC-TT
*
42512205 AAAAAGGTTGGGATAGACCCGTCTAAGGCAGCCTT
1 AAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTT
* * * * * * **
42512240 TAAAAGGTTGAGCTAAACCTGTTTAAGGCAGTCTT
1 AAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTT
* * * *
42512275 AAAAATGTTGGAATAAACACGTCTAAGGCAA
1 AAAAAGGTTGGGATAGACCCGTCTAAGGCAA
42512306 TTTTTTTTCT
Statistics
Matches: 374, Mismatches: 77, Indels: 29
0.78 0.16 0.06
Matches are distributed among these distances:
35 130 0.35
36 86 0.23
37 94 0.25
38 64 0.17
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (35 bp):
AAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTT
Found at i:42511924 original size:110 final size:106
Alignment explanation
Indices: 42511797--42512244 Score: 384
Period size: 109 Copynumber: 4.1 Consensus size: 106
42511787 GTCAAGGCCG
42511797 ACCTTTAAAAAAGGTTGGGATAGACCTAGTTAAGGCCAACCTTTGAAAATGGTTGGCATAGACCC
1 ACCTTTAAAAAAGGTTGGGATAGACCTA-TTAAGG-CAACCTTT-AAAATGGTTGG-ATAGACCC
* * *
42511862 GTTTAAGGCAACCTTAAAAAGGTTGGGATAGACCAGTCTAAGATA
62 ATCTAAGGCAACCTTAAAAAGGTTGGGATAGACCAGTCTAAGACA
* ** ** * *
42511907 ACCTTTAAAAAACGTTGGGATAGACCTCATCTAAAACAACCTTTAAAATATATTAAGATAGACCT
1 ACCTTTAAAAAAGGTTGGGATAGACCT-AT-TAAGGCAACCTTTAAAAT-GGTT-GGATAGACCC
* * * *
42511972 ATCTAAGGCAACCTTAAAAAAAGTTGGGATAGGCTCA-TTTAAGGCA
62 ATCTAAGGCAACCTT-AAAAAGGTTGGGATAGAC-CAGTCTAAGACA
* * *
42512018 ACC-TT-AAAAAGGTTGGGATAGACCTTATTTAAGGCAAGCCTTAAAAAAGGTTGGGATAAACCC
1 ACCTTTAAAAAAGGTTGGGATAGACC-TA-TTAAGGCAA-CCTTTAAAATGGTT-GGATAGACCC
* * *
42512081 ATCTAAAGCAACCCTAAAAAGGTTGGGATAGACCTTGTCTAAGACA
62 ATCTAAGGCAACCTTAAAAAGGTTGGGATAGACC-AGTCTAAGACA
* ** * ** * * *
42512127 ACCTTT-AAAAAGGTTGAGATAGAGTTGTCTAATACAACC-TTAAAAAGGTTGGGATATACCTTA
1 ACCTTTAAAAAAGGTTGGGATAGACCTAT-TAAGGCAACCTTTAAAATGGTT-GGATAGACC-CA
** * *
42512190 TCTAAGAAAACCTTTAAAAAGGTTGGGATAGACCCGTCTAAGGCA
63 TCTAAGGCAACC-TTAAAAAGGTTGGGATAGACCAGTCTAAGACA
*
42512235 GCCTTTAAAA
1 ACCTTTAAAA
42512245 GGTTGAGCTA
Statistics
Matches: 274, Mismatches: 48, Indels: 33
0.77 0.14 0.09
Matches are distributed among these distances:
107 20 0.07
108 43 0.16
109 92 0.34
110 87 0.32
111 30 0.11
112 2 0.01
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (106 bp):
ACCTTTAAAAAAGGTTGGGATAGACCTATTAAGGCAACCTTTAAAATGGTTGGATAGACCCATCT
AAGGCAACCTTAAAAAGGTTGGGATAGACCAGTCTAAGACA
Found at i:42512003 original size:36 final size:36
Alignment explanation
Indices: 42511768--42512249 Score: 370
Period size: 38 Copynumber: 13.2 Consensus size: 36
42511758 ACCCTTATTG
* * *
42511768 AAAGGTTGGGAAATACCTAGTC-AAGGCCGACCTTTAAA
1 AAAGGTTGGGATAGACCTA-TCTAAGG-CAACC-TTAAA
*
42511806 AAAGGTTGGGATAGACCTAGT-TAAGGCCAACCTTTGAA
1 AAAGGTTGGGATAGACCTA-TCTAAGG-CAACC-TTAAA
* * ** *
42511844 AATGGTTGGCATAGACCCGTTTAAGGCAACCTT-AA
1 AAAGGTTGGGATAGACCTATCTAAGGCAACCTTAAA
**
42511879 AAAGGTTGGGATAGACC-AGTCTAAGATAACCTTTAAA
1 AAAGGTTGGGATAGACCTA-TCTAAGGCAACC-TTAAA
* **
42511916 AAACGTTGGGATAGACCTCATCTAAAACAACCTTTAAA
1 AAAGGTTGGGATAGACCT-ATCTAAGGCAACC-TTAAA
* ** **
42511954 ATATATTAAGATAGACCTATCTAAGGCAACCTTAAA
1 AAAGGTTGGGATAGACCTATCTAAGGCAACCTTAAA
* * *
42511990 AAAAGTTGGGATAG-GCTCATTTAAGGCAACCTT-AA
1 AAAGGTTGGGATAGACCT-ATCTAAGGCAACCTTAAA
*
42512025 AAAGGTTGGGATAGACCTTATTTAAGGCAAGCCTTAAA
1 AAAGGTTGGGATAGACC-TATCTAAGGCAA-CCTTAAA
* * * *
42512063 AAAGGTTGGGATAAACCCATCTAAAGCAACCCT-AA
1 AAAGGTTGGGATAGACCTATCTAAGGCAACCTTAAA
* * *
42512098 AAAGGTTGGGATAGACCTTGTCTAAGACAACCTTTAA
1 AAAGGTTGGGATAGACC-TATCTAAGGCAACCTTAAA
* ** * **
42512135 AAAGGTTGAGATAGAGTTGTCTAATACAACCTT-AA
1 AAAGGTTGGGATAGACCTATCTAAGGCAACCTTAAA
* ** *
42512170 AAAGGTTGGGATATACCTTATCTAAGAAAACCTTTAA
1 AAAGGTTGGGATAGACC-TATCTAAGGCAACCTTAAA
** * *
42512207 AAAGGTTGGGATAGACCCGTCTAAGGCAGCCTT-TA
1 AAAGGTTGGGATAGACCTATCTAAGGCAACCTTAAA
42512242 AAAGGTTG
1 AAAGGTTG
42512250 AGCTAAACCT
Statistics
Matches: 366, Mismatches: 62, Indels: 35
0.79 0.13 0.08
Matches are distributed among these distances:
35 85 0.23
36 97 0.27
37 83 0.23
38 100 0.27
39 1 0.00
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (36 bp):
AAAGGTTGGGATAGACCTATCTAAGGCAACCTTAAA
Found at i:42513884 original size:22 final size:22
Alignment explanation
Indices: 42513854--42513895 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
42513844 ACACCAAAAC
*
42513854 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
42513876 AGGCCTTTAGCGGCGCTTTT
1 AGGCCTTTAGCGGCGCTTTT
42513896 AAGCGCCGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.10, C:0.21, G:0.29, T:0.40
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:42514134 original size:43 final size:43
Alignment explanation
Indices: 42513970--42514209 Score: 182
Period size: 43 Copynumber: 5.6 Consensus size: 43
42513960 CATTTTTTAT
* * * * *
42513970 CTTTGACCACAAACGCCACTAAAGAACCC-AATCTTTAGCGACG
1 CTTTCACCAAAAACGCCGCTAAAG-ACCCTGATCTTTAGCGGCG
* * *
42514013 CTTTTC-CCTAAAACACCGCTATAA-ACCCTGATCTATAGCGGCG
1 C-TTTCACCAAAAACGCCGCTA-AAGACCCTGATCTTTAGCGGCG
* * * *
42514056 C-TTCGACCACAAAATGCCACTAAAGAACCTAATCTTTAGCGGCG
1 CTTTC-ACCA-AAAACGCCGCTAAAGACCCTGATCTTTAGCGGCG
* * *
42514100 CTTTCCCCAAAAACGCCGCTAAAGACCATGATCTTTAGTGGCG
1 CTTTCACCAAAAACGCCGCTAAAGACCCTGATCTTTAGCGGCG
* ** * * * *
42514143 ATTTTTCCACAAACGCTGCTACAGACCCTTATCTTTAGCGGCG
1 CTTTCACCAAAAACGCCGCTAAAGACCCTGATCTTTAGCGGCG
* * *
42514186 CTTTGACAAAAAACGCCACTAAAG
1 CTTTCACCAAAAACGCCGCTAAAG
42514210 GCCAACAACA
Statistics
Matches: 150, Mismatches: 39, Indels: 16
0.73 0.19 0.08
Matches are distributed among these distances:
41 3 0.02
42 4 0.03
43 106 0.71
44 34 0.23
45 3 0.02
ACGTcount: A:0.31, C:0.30, G:0.15, T:0.23
Consensus pattern (43 bp):
CTTTCACCAAAAACGCCGCTAAAGACCCTGATCTTTAGCGGCG
Found at i:42514153 original size:87 final size:86
Alignment explanation
Indices: 42513974--42514209 Score: 249
Period size: 87 Copynumber: 2.7 Consensus size: 86
42513964 TTTTATCTTT
* * * * *
42513974 GACCACAAACGCCACTAAAGAACCCAATCTTTAGCGACGCTTTTCCCTAAAACACCGCTATAA-A
1 GACCACAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTA-AAGA
* *
42514038 CCCTGATCTATAGCGGCGCTTC
65 CCATGATCTATAGCGGCGATTC
*
42514060 GACCACAAAATGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGA
1 GACCAC-AAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGA
* * *
42514125 CCATGATCTTTAGTGGCGATTT
65 CCATGATCTATAGCGGCGATTC
** ** * * * ** * *
42514147 TTCCACAAACGCTGCTACAGACCCTTATCTTTAGCGGCGCTTTGACAAAAAACGCCACTAAAG
1 GACCACAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAG
42514210 GCCAACAACA
Statistics
Matches: 125, Mismatches: 23, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
86 55 0.44
87 70 0.56
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.22
Consensus pattern (86 bp):
GACCACAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGAC
CATGATCTATAGCGGCGATTC
Found at i:42514583 original size:21 final size:21
Alignment explanation
Indices: 42514557--42514669 Score: 127
Period size: 21 Copynumber: 5.4 Consensus size: 21
42514547 TTTGACGCTG
42514557 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
**
42514578 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
42514599 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * * *
42514620 CTGTACTTCTCTAGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
* * *
42514641 CTCTGCTTCTCTTGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
*
42514662 ATCTGCTT
1 CTCTGCTT
42514670 TAAGCTGCTG
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 79 1.00
ACGTcount: A:0.05, C:0.42, G:0.18, T:0.35
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:42514717 original size:66 final size:66
Alignment explanation
Indices: 42514640--42514786 Score: 172
Period size: 66 Copynumber: 2.2 Consensus size: 66
42514630 CTAGCTGCCG
* *
42514640 CCTCTGCTTCTCTTGCTGCCGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCAT-GCTTTCGTT
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATAGCTTT-GTT
42514703 GAA
64 GAA
* * * * * *
42514706 CCTCAGCTTCTCTCGTTGCTGCATCTGCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATAGCTTTGTTGA
42514771 A
66 A
**
42514772 CCTCAATTTCTCTCG
1 CCTCAGCTTCTCTCG
42514787 ATGTTGCCTC
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
65 1 0.01
66 64 0.93
67 4 0.06
ACGTcount: A:0.12, C:0.28, G:0.18, T:0.41
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATAGCTTTGTTGA
A
Found at i:42514802 original size:66 final size:66
Alignment explanation
Indices: 42514646--42514809 Score: 170
Period size: 66 Copynumber: 2.5 Consensus size: 66
42514636 GCCGCCTCTG
* * * * *
42514646 CTTCTCTTGCTGCCGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATGCTTTCGTTGAACCTC
1 CTTCTCTCGATGCTGCATCCGCTTTAAGTTG-TAGCTGGAGTTCTTCATGCTTTCGTTGAACCTC
*
42514710 AG
65 AA
* * * * *
42514712 CTTCTCTCGTTGCTGCATCTGCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTT-TTTGAACCTC
1 CTTCTCTCGATGCTGCATCCGCTTTAAGTTGTAGCTGGAGTTCTTCAT-GCTTTCGTTGAACCTC
42514776 AA
65 AA
* * *
42514778 TTTCTCTCGATGTTGCCTCCGCTTTAAGTTGT
1 CTTCTCTCGATGCTGCATCCGCTTTAAGTTGT
42514810 GTAATTTGCT
Statistics
Matches: 82, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
65 1 0.01
66 77 0.94
67 4 0.05
ACGTcount: A:0.13, C:0.26, G:0.19, T:0.42
Consensus pattern (66 bp):
CTTCTCTCGATGCTGCATCCGCTTTAAGTTGTAGCTGGAGTTCTTCATGCTTTCGTTGAACCTCA
A
Found at i:42520283 original size:9 final size:9
Alignment explanation
Indices: 42520266--42520645 Score: 151
Period size: 9 Copynumber: 43.2 Consensus size: 9
42520256 TAAGTATAAT
*
42520266 TAAGCTATG
1 TAAGTTATG
42520275 TAAGTTATG
1 TAAGTTATG
42520284 T-A-TTATG
1 TAAGTTATG
42520291 TAAGTTATG
1 TAAGTTATG
42520300 TAAGTTATG
1 TAAGTTATG
* **
42520309 AAAACTATG
1 TAAGTTATG
*
42520318 TAAGTTGTG
1 TAAGTTATG
42520327 T-A-TTATG
1 TAAGTTATG
*
42520334 -AA--AAT-
1 TAAGTTATG
* *
42520339 TATGCTATG
1 TAAGTTATG
*
42520348 TAAGTTATA
1 TAAGTTATG
* *
42520357 TAAGTCATA
1 TAAGTTATG
* *
42520366 TAAGTCATA
1 TAAGTTATG
42520375 TAAGTTATG
1 TAAGTTATG
42520384 T-A-TTATG
1 TAAGTTATG
42520391 TAAGTTATG
1 TAAGTTATG
42520400 TAAGTTAT-
1 TAAGTTATG
*
42520408 TTA-TTATG
1 TAAGTTATG
* * *
42520416 CAAATTAAG
1 TAAGTTATG
42520425 TAAGTTATG
1 TAAGTTATG
42520434 TAAGTTATG
1 TAAGTTATG
*
42520443 TATA-ATAT-
1 TA-AGTTATG
**
42520451 TAA-TTAAC
1 TAAGTTATG
42520459 TAAGTTATG
1 TAAGTTATG
*
42520468 TAATTTATG
1 TAAGTTATG
*
42520477 TATAATATTTATG
1 --T-A-AGTTATG
*
42520490 TATAATATTAATG
1 --TAA-GTT-ATG
42520503 TAAGTTATG
1 TAAGTTATG
*
42520512 TATA-ATAT-
1 TA-AGTTATG
42520520 TAA-TTAAT-
1 TAAGTT-ATG
42520528 TAAGTTATG
1 TAAGTTATG
*
42520537 TAATTTATG
1 TAAGTTATG
*
42520546 TATAATATTATG
1 --TAA-GTTATG
42520558 TAAGTTATG
1 TAAGTTATG
42520567 TAAGTTAT-
1 TAAGTTATG
*
42520575 TTA-TTATG
1 TAAGTTATG
* * *
42520583 CAAATTAAG
1 TAAGTTATG
42520592 TAAGTTATG
1 TAAGTTATG
42520601 TAAGTTATG
1 TAAGTTATG
*
42520610 TATA-ATAT-
1 TA-AGTTATG
**
42520618 TAA-TTAAC
1 TAAGTTATG
42520626 TAAGTTATG
1 TAAGTTATG
*
42520635 TAATTTATG
1 TAAGTTATG
42520644 TA
1 TA
42520646 TAATATTTAT
Statistics
Matches: 288, Mismatches: 51, Indels: 64
0.71 0.13 0.16
Matches are distributed among these distances:
6 3 0.01
7 33 0.11
8 32 0.11
9 182 0.63
10 8 0.03
11 8 0.03
12 9 0.03
13 13 0.05
ACGTcount: A:0.38, C:0.02, G:0.14, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:42520292 original size:16 final size:16
Alignment explanation
Indices: 42520271--42520301 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
42520261 ATAATTAAGC
42520271 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
42520287 TATGTAAGTTATGTA
1 TATGTAAGTTATGTA
42520302 AGTTATGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.48
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:42520294 original size:25 final size:25
Alignment explanation
Indices: 42520266--42520444 Score: 123
Period size: 25 Copynumber: 7.1 Consensus size: 25
42520256 TAAGTATAAT
*
42520266 TAAGCTATGTAAGTTATGTATTATG
1 TAAGTTATGTAAGTTATGTATTATG
* *
42520291 TAAGTTATGTAAGTTATGAAAACTATG
1 TAAGTTATGTAAGTTATG--TATTATG
* **
42520318 TAAGTTGTGT-A-TTATG-AAAAT-
1 TAAGTTATGTAAGTTATGTATTATG
* * * * *
42520339 TATGCTATGTAAGTTATATAAGTCATA
1 TAAGTTATGTAAGTTATGT-A-TTATG
* *
42520366 TAAGTCATATAAGTTATGTATTATG
1 TAAGTTATGTAAGTTATGTATTATG
*
42520391 TAAGTTATGTAAGTTATTTATTATG
1 TAAGTTATGTAAGTTATGTATTATG
* * *
42520416 CAAATTAAGTAAGTTATGTAAGTTATG
1 TAAGTTATGTAAGTTATGT-A-TTATG
42520443 TA
1 TA
42520445 TAATATTAAT
Statistics
Matches: 117, Mismatches: 27, Indels: 18
0.72 0.17 0.11
Matches are distributed among these distances:
21 7 0.06
22 4 0.03
23 4 0.03
25 63 0.54
26 5 0.04
27 34 0.29
ACGTcount: A:0.37, C:0.03, G:0.17, T:0.42
Consensus pattern (25 bp):
TAAGTTATGTAAGTTATGTATTATG
Found at i:42520379 original size:57 final size:57
Alignment explanation
Indices: 42520287--42520399 Score: 138
Period size: 57 Copynumber: 2.0 Consensus size: 57
42520277 AGTTATGTAT
* * * *
42520287 TATGTAAGTTATGTAAGTTATGAAAACTATGTAAGTTGTGTATTATGAAAATTATGC
1 TATGTAAGTTATATAAGTCATGAAAACTATATAAGTTATGTATTATGAAAATTATGC
* * * *
42520344 TATGTAAGTTATATAAGTCAT-ATAAGTCATATAAGTTATGTATTATGTAAGTTATG
1 TATGTAAGTTATATAAGTCATGAAAACT-ATATAAGTTATGTATTATGAAAATTATG
42520400 TAAGTTATTT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
56 4 0.09
57 43 0.91
ACGTcount: A:0.37, C:0.04, G:0.18, T:0.42
Consensus pattern (57 bp):
TATGTAAGTTATATAAGTCATGAAAACTATATAAGTTATGTATTATGAAAATTATGC
Found at i:42520428 original size:34 final size:34
Alignment explanation
Indices: 42520385--42520792 Score: 313
Period size: 34 Copynumber: 12.5 Consensus size: 34
42520375 TAAGTTATGT
* * * **
42520385 ATTATGTAAGTTATGTAAGTTATTTATTATGCAA
1 ATTAAGTAAGTTATGTAAGTTATGTATAATATAA
*
42520419 ATTAAGTAAGTTATGTAAGTTATGTATAATATTA
1 ATTAAGTAAGTTATGTAAGTTATGTATAATATAA
* * **
42520453 ATTAACTAAGTTATGTAATTTATGTATAATATTT
1 ATTAAGTAAGTTATGTAAGTTATGTATAATATAA
* *
42520487 ATGT-A-TAATATTAATGTAAGTTATGTATAATATTA
1 AT-TAAGTAA-GTT-ATGTAAGTTATGTATAATATAA
* *
42520522 ATTAATTAAGTTATGTAATTTATGTAT-A-AT--
1 ATTAAGTAAGTTATGTAAGTTATGTATAATATAA
* * * **
42520552 ATTATGTAAGTTATGTAAGTTATTTATTATGCAA
1 ATTAAGTAAGTTATGTAAGTTATGTATAATATAA
*
42520586 ATTAAGTAAGTTATGTAAGTTATGTATAATATTA
1 ATTAAGTAAGTTATGTAAGTTATGTATAATATAA
* * **
42520620 ATTAACTAAGTTATGTAATTTATGTATAATATTT
1 ATTAAGTAAGTTATGTAAGTTATGTATAATATAA
* *
42520654 ATGT-A-TAATATTAATGTAAGTTATGTATAATATTA
1 AT-TAAGTAA-GTT-ATGTAAGTTATGTATAATATAA
* * *
42520689 ATTAATTAAGTTATGTAATTTATGTATAATATTA
1 ATTAAGTAAGTTATGTAAGTTATGTATAATATAA
42520723 A-T--GTAAGTTATGT-A--TA---AT-AT-T-A
1 ATTAAGTAAGTTATGTAAGTTATGTATAATATAA
* * *
42520745 ATTAATTAAGTTATGTAATTTATGTATAATATTA
1 ATTAAGTAAGTTATGTAAGTTATGTATAATATAA
42520779 A-T--GTAAGTTATGTA
1 ATTAAGTAAGTTATGTA
42520793 TAATATTAAT
Statistics
Matches: 311, Mismatches: 37, Indels: 55
0.77 0.09 0.14
Matches are distributed among these distances:
22 2 0.01
23 2 0.01
24 2 0.01
25 12 0.04
26 1 0.00
28 4 0.01
30 24 0.08
31 24 0.08
32 4 0.01
33 10 0.03
34 168 0.54
35 52 0.17
36 6 0.02
ACGTcount: A:0.40, C:0.01, G:0.12, T:0.47
Consensus pattern (34 bp):
ATTAAGTAAGTTATGTAAGTTATGTATAATATAA
Found at i:42520433 original size:43 final size:43
Alignment explanation
Indices: 42520266--42520611 Score: 185
Period size: 43 Copynumber: 8.3 Consensus size: 43
42520256 TAAGTATAAT
* * * *
42520266 TAAGCTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTATG
1 TAAGTTATGTAAGTTATTTATTATGTAAATTAAGTAAGTTATG
* ** * * * *
42520309 AAAACTATGTAAGTTGTGTATTATGAAAATT-A-T--GCTATG
1 TAAGTTATGTAAGTTATTTATTATGTAAATTAAGTAAGTTATG
* * * * * * *
42520348 TAAGTTATATAAGTCATATAAGTCATATAAGTTATGT-A-TTATG
1 TAAGTTATGTAAGTTAT-TTA-TTATGTAAATTAAGTAAGTTATG
*
42520391 TAAGTTATGTAAGTTATTTATTATGCAAATTAAGTAAGTTATG
1 TAAGTTATGTAAGTTATTTATTATGTAAATTAAGTAAGTTATG
*
42520434 TAAGTTATGT-A--TA---A-TAT-T-AATTAACTAAGTTATG
1 TAAGTTATGTAAGTTATTTATTATGTAAATTAAGTAAGTTATG
* *
42520468 TAATTTATGTATA-ATATTTATGTA--TAATATTAATGTAAGTTATG
1 TAAGTTATGTA-AGTTATTTAT-TATGTAA-ATTAA-GTAAGTTATG
* * * * *
42520512 TATA-ATAT-TAA-TTAATTAAGTTATGTAATTTATGTATAATATTATG
1 TA-AGTTATGTAAGTT-ATTTA-TTATGTAAATTAAG--TAA-GTTATG
*
42520558 TAAGTTATGTAAGTTATTTATTATGCAAATTAAGTAAGTTATG
1 TAAGTTATGTAAGTTATTTATTATGTAAATTAAGTAAGTTATG
42520601 TAAGTTATGTA
1 TAAGTTATGTA
42520612 TAATATTAAT
Statistics
Matches: 229, Mismatches: 45, Indels: 58
0.69 0.14 0.17
Matches are distributed among these distances:
34 24 0.10
36 4 0.02
37 3 0.01
39 16 0.07
40 4 0.02
41 19 0.08
42 9 0.04
43 91 0.40
44 21 0.09
45 8 0.03
46 21 0.09
47 7 0.03
48 2 0.01
ACGTcount: A:0.38, C:0.02, G:0.15, T:0.45
Consensus pattern (43 bp):
TAAGTTATGTAAGTTATTTATTATGTAAATTAAGTAAGTTATG
Found at i:42520488 original size:13 final size:13
Alignment explanation
Indices: 42520470--42520504 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
42520460 AAGTTATGTA
42520470 ATTTATGTATAAT
1 ATTTATGTATAAT
42520483 ATTTATGTATAAT
1 ATTTATGTATAAT
*
42520496 ATTAATGTA
1 ATTTATGTA
42520505 AGTTATGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (13 bp):
ATTTATGTATAAT
Found at i:42520528 original size:56 final size:56
Alignment explanation
Indices: 42520483--42520832 Score: 461
Period size: 56 Copynumber: 6.3 Consensus size: 56
42520473 TATGTATAAT
42520483 ATTTATGTATAATATTAATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTA
1 ATTTATGTATAATATTAATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTA
* *
42520539 ATTTATGTATAATATT-ATGTAAGTTATGTAAGTTATTTATTATGCAAATTAAGTAAGTTATGTA
1 ATTTATGTATAATATTAATGTAAGTTATGT-A--TA---A-TAT--TAATTAATTAAGTTATGTA
* * * * * *
42520603 AGTTATGTATAATATTAAT-TAA-CTAAGT-T-AT-GTAA-T--TTATG-TATAAT-
1 ATTTATGTATAATATTAATGTAAGTTATGTATAATATTAATTAATTAAGTTAT-GTA
42520650 ATTTATGTATAATATTAATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTA
1 ATTTATGTATAATATTAATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTA
42520706 ATTTATGTATAATATTAATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTA
1 ATTTATGTATAATATTAATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTA
42520762 ATTTATGTATAATATTAATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTA
1 ATTTATGTATAATATTAATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTA
42520818 ATTTATGTATAATAT
1 ATTTATGTATAATAT
42520833 CACATCACCC
Statistics
Matches: 257, Mismatches: 16, Indels: 42
0.82 0.05 0.13
Matches are distributed among these distances:
47 21 0.08
48 7 0.03
49 4 0.02
50 2 0.01
51 4 0.02
52 3 0.01
53 1 0.00
54 1 0.00
55 19 0.07
56 147 0.57
58 2 0.01
59 1 0.00
61 1 0.00
62 3 0.01
63 4 0.02
64 35 0.14
65 2 0.01
ACGTcount: A:0.40, C:0.01, G:0.11, T:0.48
Consensus pattern (56 bp):
ATTTATGTATAATATTAATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTA
Found at i:42520579 original size:25 final size:25
Alignment explanation
Indices: 42520551--42520599 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
42520541 TTATGTATAA
* * *
42520551 TATTATGTAAGTTATGTAAGTTATT
1 TATTATGCAAATTAAGTAAGTTATT
42520576 TATTATGCAAATTAAGTAAGTTAT
1 TATTATGCAAATTAAGTAAGTTAT
42520600 GTAAGTTATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.37, C:0.02, G:0.14, T:0.47
Consensus pattern (25 bp):
TATTATGCAAATTAAGTAAGTTATT
Found at i:42520581 original size:167 final size:167
Alignment explanation
Indices: 42520384--42520736 Score: 697
Period size: 167 Copynumber: 2.1 Consensus size: 167
42520374 ATAAGTTATG
42520384 TATTATGTAAGTTATGTAAGTTATTTATTATGCAAATTAAGTAAGTTATGTAAGTTATGTATAAT
1 TATTATGTAAGTTATGTAAGTTATTTATTATGCAAATTAAGTAAGTTATGTAAGTTATGTATAAT
42520449 ATTAATTAACTAAGTTATGTAATTTATGTATAATATTTATGTATAATATTAATGTAAGTTATGTA
66 ATTAATTAACTAAGTTATGTAATTTATGTATAATATTTATGTATAATATTAATGTAAGTTATGTA
42520514 TAATATTAATTAATTAAGTTATGTAATTTATGTATAA
131 TAATATTAATTAATTAAGTTATGTAATTTATGTATAA
42520551 TATTATGTAAGTTATGTAAGTTATTTATTATGCAAATTAAGTAAGTTATGTAAGTTATGTATAAT
1 TATTATGTAAGTTATGTAAGTTATTTATTATGCAAATTAAGTAAGTTATGTAAGTTATGTATAAT
42520616 ATTAATTAACTAAGTTATGTAATTTATGTATAATATTTATGTATAATATTAATGTAAGTTATGTA
66 ATTAATTAACTAAGTTATGTAATTTATGTATAATATTTATGTATAATATTAATGTAAGTTATGTA
42520681 TAATATTAATTAATTAAGTTATGTAATTTATGTATAA
131 TAATATTAATTAATTAAGTTATGTAATTTATGTATAA
42520718 TATTAATGTAAGTTATGTA
1 TATT-ATGTAAGTTATGTA
42520737 TAATATTAAT
Statistics
Matches: 185, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
167 171 0.92
168 14 0.08
ACGTcount: A:0.39, C:0.01, G:0.12, T:0.47
Consensus pattern (167 bp):
TATTATGTAAGTTATGTAAGTTATTTATTATGCAAATTAAGTAAGTTATGTAAGTTATGTATAAT
ATTAATTAACTAAGTTATGTAATTTATGTATAATATTTATGTATAATATTAATGTAAGTTATGTA
TAATATTAATTAATTAAGTTATGTAATTTATGTATAA
Found at i:42520655 original size:13 final size:13
Alignment explanation
Indices: 42520637--42520671 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
42520627 AAGTTATGTA
42520637 ATTTATGTATAAT
1 ATTTATGTATAAT
42520650 ATTTATGTATAAT
1 ATTTATGTATAAT
*
42520663 ATTAATGTA
1 ATTTATGTA
42520672 AGTTATGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (13 bp):
ATTTATGTATAAT
Found at i:42520726 original size:22 final size:22
Alignment explanation
Indices: 42520701--42520751 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
42520691 TAATTAAGTT
42520701 ATGTAATTTATGTATAATATTA
1 ATGTAATTTATGTATAATATTA
*
42520723 ATGTAAGTTATGTATAATATTA
1 ATGTAATTTATGTATAATATTA
42520745 AT-TAATT
1 ATGTAATT
42520752 AAGTTATGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (22 bp):
ATGTAATTTATGTATAATATTA
Found at i:42520782 original size:22 final size:22
Alignment explanation
Indices: 42520757--42520807 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
42520747 TAATTAAGTT
42520757 ATGTAATTTATGTATAATATTA
1 ATGTAATTTATGTATAATATTA
*
42520779 ATGTAAGTTATGTATAATATTA
1 ATGTAATTTATGTATAATATTA
42520801 AT-TAATT
1 ATGTAATT
42520808 AAGTTATGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (22 bp):
ATGTAATTTATGTATAATATTA
Found at i:42520882 original size:112 final size:112
Alignment explanation
Indices: 42520654--42520882 Score: 266
Period size: 112 Copynumber: 2.0 Consensus size: 112
42520644 TATAATATTT
42520654 ATGTATAATATTAATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAAT
1 ATGTATAATATTAATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAAT
* * *** * * ** * * * *
42520719 ATTAATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTT
66 ATCAATGCAACCCATCTATAAAAAGAAATAATCAAGTTAGGTAATTA
42520766 ATGTATAATATTAATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAAT
1 ATGTATAATATTAATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAAT
* * *
42520831 ATCACAT-CACCCCATCTTTAAAAAGAAATAAGTCACG-TAGGATAA-TA
66 ATCA-ATGCAACCCATCTATAAAAAGAAATAA-TCAAGTTAGG-TAATTA
42520878 ATGTA
1 ATGTA
42520883 AGGTAACATA
Statistics
Matches: 98, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
112 90 0.92
113 8 0.08
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.43
Consensus pattern (112 bp):
ATGTATAATATTAATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAAT
ATCAATGCAACCCATCTATAAAAAGAAATAATCAAGTTAGGTAATTA
Found at i:42520918 original size:13 final size:15
Alignment explanation
Indices: 42520899--42520939 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 15
42520889 CATATAAGTT
42520899 TATGTAAGTTATG-A
1 TATGTAAGTTATGTA
42520913 -ATGTAAGTTATGTA
1 TATGTAAGTTATGTA
42520927 TTATGTAAGTTAT
1 -TATGTAAGTTAT
42520940 TTAAATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.50
14 1 0.04
16 11 0.46
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (15 bp):
TATGTAAGTTATGTA
Found at i:42522747 original size:6 final size:6
Alignment explanation
Indices: 42522738--42522765 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
42522728 TTTGCCTTGC
42522738 CTTGTT CTTGTT CTTGTT CTTGTT CTTG
1 CTTGTT CTTGTT CTTGTT CTTGTT CTTG
42522766 CCTTGTTCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.18, G:0.18, T:0.64
Consensus pattern (6 bp):
CTTGTT
Found at i:42523567 original size:8 final size:10
Alignment explanation
Indices: 42523544--42523581 Score: 67
Period size: 10 Copynumber: 3.8 Consensus size: 10
42523534 TAATAACTAT
42523544 ATATATATCC
1 ATATATATCC
*
42523554 ATATATATTC
1 ATATATATCC
42523564 ATATATATCC
1 ATATATATCC
42523574 ATATATAT
1 ATATATAT
42523582 AAGTAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (10 bp):
ATATATATCC
Found at i:42523569 original size:20 final size:20
Alignment explanation
Indices: 42523544--42523581 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
42523534 TAATAACTAT
42523544 ATATATATCCATATATATTC
1 ATATATATCCATATATATTC
42523564 ATATATATCCATATATAT
1 ATATATATCCATATATAT
42523582 AAGTAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (20 bp):
ATATATATCCATATATATTC
Found at i:42525303 original size:15 final size:16
Alignment explanation
Indices: 42525272--42525304 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
42525262 GACCAACCCT
42525272 TAATCCCTAATATCCA
1 TAATCCCTAATATCCA
42525288 TAATCCCTAA-ATCCA
1 TAATCCCTAATATCCA
42525303 TA
1 TA
42525305 TATATATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.39, C:0.30, G:0.00, T:0.30
Consensus pattern (16 bp):
TAATCCCTAATATCCA
Found at i:42526257 original size:114 final size:114
Alignment explanation
Indices: 42526093--42526517 Score: 620
Period size: 114 Copynumber: 3.7 Consensus size: 114
42526083 TAAAACCTAT
* * * * * * *
42526093 ACTAATGTCACCAAAGTGTCTCCAAACGAAGTCGTTTGGGTTTTAGTTTTTCCGGCGTTTTTGTA
1 ACTAATGTCACCGAAGTGTCTCCAAACGACGTCGTCTGGGGTTTAGTTTTTGCGGCATTTTTATA
* *
42526158 GAAACGCCGCTAATACTCATATTATTAGCGGGGCTAGTAGAAAAACGCC
66 GAAACGCCGCTAATACTCATATTATTAGCGGCGCTATTAGAAAAACGCC
* * *
42526207 ACTAAAGTCACCGAAGTATCTCCAAACGACTTCGTCTGGGGTTTAGTTTTTGCGGCATTTTTATA
1 ACTAATGTCACCGAAGTGTCTCCAAACGACGTCGTCTGGGGTTTAGTTTTTGCGGCATTTTTATA
*
42526272 GAAACGCCGCTAATACTCATATTATTAGCGGTGCTATTCA-AAAAACGCC
66 GAAACGCCGCTAATACTCATATTATTAGCGGCGCTATT-AGAAAAACGCC
* ** * *
42526321 ACTAATGTCACCGAAGTGTCCCCAAACGACGTCGTCTCAGTTTTAGTTTTTGCGGCATTTTTACA
1 ACTAATGTCACCGAAGTGTCTCCAAACGACGTCGTCTGGGGTTTAGTTTTTGCGGCATTTTTATA
* * *
42526386 GAAACGCCGCTAATTCTCATATTATTAGCGGCGCTATTCGAAAAATGCC
66 GAAACGCCGCTAATACTCATATTATTAGCGGCGCTATTAGAAAAACGCC
* *
42526435 ACTAATGTCACCGAAGTTTCTCCAAACGACGTCGTCT-GGGTTTAGTTTTTGCGGCGTTTTTATA
1 ACTAATGTCACCGAAGTGTCTCCAAACGACGTCGTCTGGGGTTTAGTTTTTGCGGCATTTTTATA
42526499 GAAACGCCGCTAATACTCA
66 GAAACGCCGCTAATACTCA
42526518 ATCGGTTGCG
Statistics
Matches: 278, Mismatches: 31, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
113 41 0.15
114 236 0.85
115 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (114 bp):
ACTAATGTCACCGAAGTGTCTCCAAACGACGTCGTCTGGGGTTTAGTTTTTGCGGCATTTTTATA
GAAACGCCGCTAATACTCATATTATTAGCGGCGCTATTAGAAAAACGCC
Found at i:42530861 original size:45 final size:45
Alignment explanation
Indices: 42530792--42531136 Score: 179
Period size: 45 Copynumber: 7.6 Consensus size: 45
42530782 TTTAATCTGT
* *
42530792 TCCACTGCAACTTCAG-GAAAATAAGATTCGCTATCTTCAGTCTAC
1 TCCACTGCAACTTCAGAG-AGATAAGATTCGTTATCTTCAGTCTAC
* ** *
42530837 TCCACTGCAACTTCAGAGAGATAAGACTCGTTATGGT-AGATTTAATCC
1 TCCACTGCAACTTCAGAGAGATAAGATTCGTTATCTTCAG-TCT-A--C
* * * * * * * **
42530885 GACCTACTGCAACTTCAGAG-GTATAGGATACATCAT-TTTAATCCGC
1 -TCC-ACTGCAACTTCAGAGAG-ATAAGATTCGTTATCTTCAGTCTAC
* ** * * *
42530931 TCCACTGCAACTTCATG-GAGATAGGATT-AATAGCTTCAATCTGC
1 TCCACTGCAACTTCA-GAGAGATAAGATTCGTTATCTTCAGTCTAC
* * * *
42530975 TCCACTGCAACTTCAGGGAGATAA-AGTTGGTTATTTTCAGTCTGC
1 TCCACTGCAACTTCAGAGAGATAAGA-TTCGTTATCTTCAGTCTAC
* * * *
42531020 TCCACTACAACTTCAGGGAGATAAGACTT-GTTATGGTGTGA-TCTAC
1 TCCACTGCAACTTCAGAGAGATAAGA-TTCGTTAT-CT-TCAGTCTAC
* *
42531066 TCTACTGCAACTTCAGAGAGATAAGA-TCTGCTATCTTCAGTCTAC
1 TCCACTGCAACTTCAGAGAGATAAGATTC-GTTATCTTCAGTCTAC
* * * *
42531111 TCTACTGCAACCTCAGTGAGACAAGA
1 TCCACTGCAACTTCAGAGAGATAAGA
42531137 CTTGTAGCTT
Statistics
Matches: 235, Mismatches: 44, Indels: 42
0.73 0.14 0.13
Matches are distributed among these distances:
43 4 0.02
44 56 0.24
45 104 0.44
46 38 0.16
47 2 0.01
48 1 0.00
49 5 0.02
50 25 0.11
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (45 bp):
TCCACTGCAACTTCAGAGAGATAAGATTCGTTATCTTCAGTCTAC
Found at i:42531327 original size:45 final size:45
Alignment explanation
Indices: 42531218--42531345 Score: 123
Period size: 45 Copynumber: 2.8 Consensus size: 45
42531208 GATCCATCAT
* **
42531218 TTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTGGTTTTA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTGGA
* * * ** *
42531263 GTTAGTCTGCTTCTTTGCAACTTCAGGGAGATAAGACTT-GTTGGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGGTTGGA
* * **
42531308 TTTAATCTACTCCACTGCAACTTTAACGAGATAAGATT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
42531346 TGCTATGATA
Statistics
Matches: 64, Mismatches: 18, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
44 2 0.03
45 60 0.94
46 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.36
Consensus pattern (45 bp):
TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTGGA
Found at i:42531429 original size:105 final size:105
Alignment explanation
Indices: 42531280--42531514 Score: 357
Period size: 105 Copynumber: 2.2 Consensus size: 105
42531270 TGCTTCTTTG
* * *
42531280 CAACTTCAGGGAGATAAGACTTGTTGGCTTTAATCTACTCCACTGCAACTTTAACGAGATAAGAT
1 CAACTTTAAGGAGATAAGACTTGTTGGCTTTAATCTACTCCACTGCAACTTCAACGAGATAAGAT
42531345 TTGCTATGATAAGATCCGCTATCTACAGTCTT-CTCCACTA
66 TTGCTATGATAAGATCCGCTATCTACAGT-TTGCTCCACTA
* * **
42531385 CAA-TTTTAGAGAGATAAGACTTGTTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 CAACTTTAAG-GAGATAAGACTTGTTGGCTTTAATCTACTCCACTGCAACTTCAACGAGATAAGA
* *
42531449 TTTGCTATGGTAAGATCTGCTATCTACAGTTTGCTCCACTA
65 TTTGCTATGATAAGATCCGCTATCTACAGTTTGCTCCACTA
42531490 CAACTTTAAGGAGATAAGACTTGTT
1 CAACTTTAAGGAGATAAGACTTGTT
42531515 ATGATAGATT
Statistics
Matches: 117, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
104 5 0.04
105 107 0.91
106 5 0.04
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (105 bp):
CAACTTTAAGGAGATAAGACTTGTTGGCTTTAATCTACTCCACTGCAACTTCAACGAGATAAGAT
TTGCTATGATAAGATCCGCTATCTACAGTTTGCTCCACTA
Found at i:42531627 original size:41 final size:43
Alignment explanation
Indices: 42531570--42531686 Score: 166
Period size: 44 Copynumber: 2.7 Consensus size: 43
42531560 TCATCATATT
*
42531570 AATCTGCTCCACTGCAACTTCAGGGAGATAGGA-T-TAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTAGCTTC
* *
42531611 AATCTACTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTAGCTTC
* *
42531655 AACCTGCTCTACTGCAACTTCAGGGAGATAAG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAG
42531687 GTTTGTTATC
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
41 31 0.46
42 1 0.01
44 35 0.52
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (43 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTAGCTTC
Found at i:42532957 original size:21 final size:21
Alignment explanation
Indices: 42532913--42532959 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
42532903 GGTACAACAA
*
42532913 GATCAACATATGGCCCAATTT
1 GATCAACATATGGCCCAATCT
* * *
42532934 GATCAACATTTGGGCCACTCT
1 GATCAACATATGGCCCAATCT
42532955 GATCA
1 GATCA
42532960 CCTCGTGCCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (21 bp):
GATCAACATATGGCCCAATCT
Found at i:42540140 original size:18 final size:19
Alignment explanation
Indices: 42540111--42540146 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
42540101 GTGAAAATTT
*
42540111 TGAAATTTAGGGATTTAAG
1 TGAAATTTAGGGAGTTAAG
42540130 TGAAA-TTAGGGAGTTAA
1 TGAAATTTAGGGAGTTAA
42540147 ATTTAGTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.39, C:0.00, G:0.28, T:0.33
Consensus pattern (19 bp):
TGAAATTTAGGGAGTTAAG
Found at i:42541649 original size:18 final size:19
Alignment explanation
Indices: 42541620--42541655 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
42541610 GTGAAAATTT
*
42541620 TGAAATTTAGGGATTTAAG
1 TGAAATTTAGGGAGTTAAG
42541639 TGAAA-TTAGGGAGTTAA
1 TGAAATTTAGGGAGTTAA
42541656 ATTTAGTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.39, C:0.00, G:0.28, T:0.33
Consensus pattern (19 bp):
TGAAATTTAGGGAGTTAAG
Found at i:42542247 original size:41 final size:41
Alignment explanation
Indices: 42542180--42542292 Score: 144
Period size: 41 Copynumber: 2.9 Consensus size: 41
42542170 GGATTTCTTC
42542180 AATTCGATGAGACACTGGGTGTCAATTTACTACTTCAGATT
1 AATTCGATGAGACACTGGGTGTCAATTTACTACTTCAGATT
* ** * *
42542221 AATTCGATGAGGCACTACGTGCCAA-TT--TACTTCAGTTT
1 AATTCGATGAGACACTGGGTGTCAATTTACTACTTCAGATT
*
42542259 AA-CCGATGAGACACTGGGTGTCAATTTACTACTT
1 AATTCGATGAGACACTGGGTGTCAATTTACTACTT
42542293 TGAAGTATCT
Statistics
Matches: 59, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
37 17 0.29
38 14 0.24
40 7 0.12
41 21 0.36
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (41 bp):
AATTCGATGAGACACTGGGTGTCAATTTACTACTTCAGATT
Found at i:42542284 original size:37 final size:38
Alignment explanation
Indices: 42542184--42542288 Score: 122
Period size: 37 Copynumber: 2.7 Consensus size: 38
42542174 TTCTTCAATT
*
42542184 CGATGAGACACTGGGTGTCAATTTACTACTTCAGATTAATT
1 CGATGAGACACTGGGTGTCAA-TT--TACTTCAGATTAATC
* ** * *
42542225 CGATGAGGCACTACGTGCCAATTTACTTCAGTTTAA-C
1 CGATGAGACACTGGGTGTCAATTTACTTCAGATTAATC
42542262 CGATGAGACACTGGGTGTCAATTTACT
1 CGATGAGACACTGGGTGTCAATTTACT
42542289 ACTTTGAAGT
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
37 23 0.43
38 12 0.22
40 2 0.04
41 17 0.31
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (38 bp):
CGATGAGACACTGGGTGTCAATTTACTTCAGATTAATC
Found at i:42551428 original size:40 final size:40
Alignment explanation
Indices: 42551384--42551737 Score: 489
Period size: 40 Copynumber: 8.7 Consensus size: 40
42551374 GAACCACAGA
* * *
42551384 TCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGCCTGAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
42551424 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
* *
42551464 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAACCACAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GCATCA-AG
* *
42551505 ATCTTATCTCTCTAAGCAGTAGTGGAGCAAATCGCATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
* *
42551546 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAACCACAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GCATCA-AG
*
42551587 ATCTTATCTCCCTAAGCTGTAGTGGAGCAGATCGCATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
* *
42551628 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAACCACAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GCATCA-AG
42551669 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
*
42551710 TCTTATCTCCCTAAGCAATAGTGGAGCA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCA
42551738 AACGAAACCA
Statistics
Matches: 280, Mismatches: 22, Indels: 24
0.86 0.07 0.07
Matches are distributed among these distances:
39 3 0.01
40 163 0.58
41 12 0.04
42 99 0.35
43 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (40 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
Found at i:42551747 original size:82 final size:82
Alignment explanation
Indices: 42551384--42551737 Score: 601
Period size: 82 Copynumber: 4.3 Consensus size: 82
42551374 GAACCACAGA
*
42551384 TCTTATCTCCCTAAGTAGTAGTGGAGCAGATC-G--CCTGA-AG-TCTTATCTCCCTAAGCAGTA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAACC--ACAGATCTTATCTCCCTAAGCAGTA
42551444 GTGGAGCAGATCGCATCAAG
63 GTGGAGCAGATCGCATCAAG
*
42551464 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAACCACAGATCTTATCTCTCTAAGCAGTAGTG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAGTAGTG
*
42551529 GAGCAAATCGCATCAAG
66 GAGCAGATCGCATCAAG
*
42551546 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAACCACAGATCTTATCTCCCTAAGCTGTAGTG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAGTAGTG
42551611 GAGCAGATCGCATCAAG
66 GAGCAGATCGCATCAAG
42551628 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAGTAGTG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAGTAGTG
42551693 GAGCAGATCGCATCAAG
66 GAGCAGATCGCATCAAG
*
42551710 TCTTATCTCCCTAAGCAATAGTGGAGCA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCA
42551738 AACGAAACCA
Statistics
Matches: 261, Mismatches: 8, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
79 1 0.00
80 31 0.12
81 2 0.01
82 227 0.87
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (82 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAGTAGTG
GAGCAGATCGCATCAAG
Found at i:42553690 original size:2 final size:2
Alignment explanation
Indices: 42553683--42553727 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
42553673 CTTTATCTTT
42553683 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
42553725 TA T
1 TA T
42553728 CTTTTTTATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:42554341 original size:107 final size:107
Alignment explanation
Indices: 42554155--42554370 Score: 396
Period size: 107 Copynumber: 2.0 Consensus size: 107
42554145 ACTATTCAAA
42554155 AAGATTTTCTAAATAAGGCAATATTTCGCGTTTGGAAATTCGAGAAAACGTACCCTAACGTGCTG
1 AAGATTTTCTAAATAAGGCAATATTTCGCGTTTGGAAATTCGAGAAAACGTACCCTAACGTGCTG
*
42554220 GGTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTT
66 GGTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTCTT
* *
42554262 AAGATTTTCTAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTG
1 AAGATTTTCTAAATAAGGCAATATTTCGCGTTTGGAAATTCGAGAAAACGTACCCTAACGTGCTG
*
42554327 GGTTTCGATTTCTCGTTCGACTAAATAGCCAAATATCCTCTT
66 GGTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTCTT
42554369 AA
1 AA
42554371 AACTTCAAAG
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
107 105 1.00
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (107 bp):
AAGATTTTCTAAATAAGGCAATATTTCGCGTTTGGAAATTCGAGAAAACGTACCCTAACGTGCTG
GGTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTCTT
Found at i:42556750 original size:24 final size:22
Alignment explanation
Indices: 42556726--42556768 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
42556716 TTCAAAAATA
42556726 AAACATAATATAATATTTATCAT
1 AAACATAA-ATAATATTTATCAT
*
42556749 AAAGATAAATAATATTTATC
1 AAACATAAATAATATTTATC
42556769 TTAATATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.37
Consensus pattern (22 bp):
AAACATAAATAATATTTATCAT
Found at i:42557641 original size:18 final size:18
Alignment explanation
Indices: 42557618--42557657 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
42557608 ACTTGAGATT
42557618 AATATTTCAATATTTT-TA
1 AATATTTCAAT-TTTTCTA
*
42557636 AATATTTTAATTTTTCTA
1 AATATTTCAATTTTTCTA
42557654 AATA
1 AATA
42557658 CCGTAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (18 bp):
AATATTTCAATTTTTCTA
Found at i:42564210 original size:105 final size:105
Alignment explanation
Indices: 42564092--42564301 Score: 393
Period size: 105 Copynumber: 2.0 Consensus size: 105
42564082 CCAAAATTTA
*
42564092 AAAATAAATATATGAGCTAATTGCACCTTATGACCCTCATTCTAAATTGATCCCTAAATTTCAAG
1 AAAATAAATATATGAGCTAATTGCACCTTATGACCCTCATTCTAAATTGATACCTAAATTTCAAG
42564157 TCATTCTAATTACATCTCAAACTATCAAGGTCATATCAAT
66 TCATTCTAATTACATCTCAAACTATCAAGGTCATATCAAT
*
42564197 AAAATAAATATATGAGCTAATTGCACCTTATGACCCTCATTCTAAATTGGTACCTAAATTTCAAG
1 AAAATAAATATATGAGCTAATTGCACCTTATGACCCTCATTCTAAATTGATACCTAAATTTCAAG
*
42564262 TCATTCTAATTACATCTCCAACTATCAAGGTCATATCAAT
66 TCATTCTAATTACATCTCAAACTATCAAGGTCATATCAAT
42564302 TAAGCCATTT
Statistics
Matches: 102, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 102 1.00
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (105 bp):
AAAATAAATATATGAGCTAATTGCACCTTATGACCCTCATTCTAAATTGATACCTAAATTTCAAG
TCATTCTAATTACATCTCAAACTATCAAGGTCATATCAAT
Found at i:42588668 original size:11 final size:11
Alignment explanation
Indices: 42588643--42588678 Score: 54
Period size: 11 Copynumber: 3.1 Consensus size: 11
42588633 AATAATAAAG
42588643 TTTTTATATTATT
1 TTTTTA-ATT-TT
42588656 TTTTTAATTTT
1 TTTTTAATTTT
42588667 TTTTTAATTTT
1 TTTTTAATTTT
42588678 T
1 T
42588679 ATGGGAACTG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 14 0.61
12 3 0.13
13 6 0.26
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTTAATTTT
Found at i:42590680 original size:22 final size:22
Alignment explanation
Indices: 42590626--42590703 Score: 102
Period size: 22 Copynumber: 3.5 Consensus size: 22
42590616 TAGATTACTA
* **
42590626 CTTAGTACGTGAAACATGAGAG
1 CTTAGTACGTTAGCCATGAGAG
42590648 CTTAGTACGTTAGCCATGAGAG
1 CTTAGTACGTTAGCCATGAGAG
*
42590670 CTTAGTACGTTAGCCATGAGGG
1 CTTAGTACGTTAGCCATGAGAG
* *
42590692 TTTAGTTCGTTA
1 CTTAGTACGTTA
42590704 AACATGAATT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (22 bp):
CTTAGTACGTTAGCCATGAGAG
Found at i:42593546 original size:19 final size:19
Alignment explanation
Indices: 42593522--42593558 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
42593512 TGCATGCATA
42593522 AATCGGTAGCATGTAACCC
1 AATCGGTAGCATGTAACCC
42593541 AATCGGTAGCATGTAACC
1 AATCGGTAGCATGTAACC
42593559 TAGAATCATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (19 bp):
AATCGGTAGCATGTAACCC
Found at i:42595017 original size:68 final size:71
Alignment explanation
Indices: 42594889--42595026 Score: 192
Period size: 68 Copynumber: 2.0 Consensus size: 71
42594879 TGATTAAACT
* *
42594889 TAATCACTTTAATATTAAAATAATATAATACTTATCTACAAGATAAATATTAAACTAAATTTAAT
1 TAATCACTTTAATAGTAAAATAATAAAATACTTATCTA-AAGATAAATATTAAACTAAATTTAAT
42594954 ATTAAGA
65 ATTAAGA
* * * *
42594961 TAATTACTTTAATAGTAAATTAATAAAATAC-TAT-T-AAGATAAGTATTAAATTAAATTTAATA
1 TAATCACTTTAATAGTAAAATAATAAAATACTTATCTAAAGATAAATATTAAACTAAATTTAATA
42595023 TTAA
66 TTAA
42595027 AACTATTAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
68 29 0.48
70 1 0.02
71 3 0.05
72 27 0.45
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.39
Consensus pattern (71 bp):
TAATCACTTTAATAGTAAAATAATAAAATACTTATCTAAAGATAAATATTAAACTAAATTTAATA
TTAAGA
Found at i:42609626 original size:28 final size:27
Alignment explanation
Indices: 42609584--42609644 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 27
42609574 CTATTTAGTG
* *
42609584 ACAGTACAGTGTGGGCCTTAGTCCAAT
1 ACAGTACAATGTGGGCCTTAGCCCAAT
42609611 ACAGTAGCAATGTGGGCCTTAGCCCAAT
1 ACAGTA-CAATGTGGGCCTTAGCCCAAT
42609639 ACAGTA
1 ACAGTA
42609645 TCGGTATAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 6 0.19
28 25 0.81
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.23
Consensus pattern (27 bp):
ACAGTACAATGTGGGCCTTAGCCCAAT
Found at i:42610028 original size:27 final size:27
Alignment explanation
Indices: 42610007--42610204 Score: 231
Period size: 27 Copynumber: 7.3 Consensus size: 27
42609997 AGGGGTATAA
*
42610007 CAGTCATTTTACCCTATTGGGGTAATT
1 CAGTCATTTTACCCTATAGGGGTAATT
* * *
42610034 CGGTCATTTTACCCTGTGGGGGTAATT
1 CAGTCATTTTACCCTATAGGGGTAATT
*
42610061 C-GATCATTTTACCCTATAAGGGTAATT
1 CAG-TCATTTTACCCTATAGGGGTAATT
* *
42610088 AAGTCATTTTACCCTATAAGGGTAATT
1 CAGTCATTTTACCCTATAGGGGTAATT
*
42610115 CAATCATTTTACCCTAT-GAGGGTAATT
1 CAGTCATTTTACCCTATAG-GGGTAATT
* *
42610142 TAGTCATTTTACCCTATGGGGGTAATT
1 CAGTCATTTTACCCTATAGGGGTAATT
* * *
42610169 CGGTCATTTTACCTTGTAGGGGTAATT
1 CAGTCATTTTACCCTATAGGGGTAATT
42610196 C-GATCATTT
1 CAG-TCATTT
42610205 ATTGACCTCT
Statistics
Matches: 149, Mismatches: 17, Indels: 10
0.85 0.10 0.06
Matches are distributed among these distances:
26 2 0.01
27 145 0.97
28 2 0.01
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (27 bp):
CAGTCATTTTACCCTATAGGGGTAATT
Found at i:42610122 original size:81 final size:81
Alignment explanation
Indices: 42610008--42610204 Score: 261
Period size: 81 Copynumber: 2.4 Consensus size: 81
42609998 GGGGTATAAC
* * * *
42610008 AGTCATTTTACCCTATTGGGGTAATTCGGTCATTTTACCCTGTGGGGGTAATTCGA-TCATTTTA
1 AGTCATTTTACCCTATAGGGGTAATTCGATCATTTTACCCTATGAGGGTAATT-GAGTCATTTTA
42610072 CCCTATAAGGGTAATTA
65 CCCTATAAGGGTAATTA
* * *
42610089 AGTCATTTTACCCTATAAGGGTAATTCAATCATTTTACCCTATGAGGGTAATTTAGTCATTTTAC
1 AGTCATTTTACCCTATAGGGGTAATTCGATCATTTTACCCTATGAGGGTAATTGAGTCATTTTAC
** *
42610154 CCTATGGGGGTAATTC
66 CCTATAAGGGTAATTA
* * *
42610170 GGTCATTTTACCTTGTAGGGGTAATTCGATCATTT
1 AGTCATTTTACCCTATAGGGGTAATTCGATCATTT
42610205 ATTGACCTCT
Statistics
Matches: 100, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 1 0.01
81 99 0.99
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (81 bp):
AGTCATTTTACCCTATAGGGGTAATTCGATCATTTTACCCTATGAGGGTAATTGAGTCATTTTAC
CCTATAAGGGTAATTA
Found at i:42613231 original size:25 final size:23
Alignment explanation
Indices: 42613202--42613272 Score: 79
Period size: 25 Copynumber: 2.9 Consensus size: 23
42613192 TCATCCCAAA
* *
42613202 TTTACCCGGTAAATTCTTTGTCAAT
1 TTTACCCGGTAAAAT-TTTGAC-AT
42613227 TTTACCCGCGATAAAATTTTGACAT
1 TTTACCCG-G-TAAAATTTTGACAT
42613252 TTTACCCTGGTAAAATTTTGA
1 TTTACCC-GGTAAAATTTTGA
42613273 GAAAATTCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
24 11 0.27
25 18 0.44
26 7 0.17
27 5 0.12
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (23 bp):
TTTACCCGGTAAAATTTTGACAT
Found at i:42628898 original size:15 final size:17
Alignment explanation
Indices: 42628878--42628919 Score: 61
Period size: 15 Copynumber: 2.5 Consensus size: 17
42628868 AAATATAGTA
42628878 ATATATTATT-TA-ATT
1 ATATATTATTATATATT
42628893 ATATATTATTATATATT
1 ATATATTATTATATATT
42628910 ATTATATTAT
1 A-TATATTAT
42628920 CATGTAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 10 0.42
16 2 0.08
17 4 0.17
18 8 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATATATTATTATATATT
Found at i:42628905 original size:10 final size:10
Alignment explanation
Indices: 42628890--42628916 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
42628880 ATATTATTTA
42628890 ATTATATATT
1 ATTATATATT
42628900 ATTATATATT
1 ATTATATATT
42628910 ATTATAT
1 ATTATAT
42628917 TATCATGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
ATTATATATT
Found at i:42629804 original size:16 final size:16
Alignment explanation
Indices: 42629783--42629820 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
42629773 TTATGTGTAT
42629783 GGTAAGCG-AATAATAA
1 GGTAAGCGAAAT-ATAA
*
42629799 GGTAAGTGAAATATAA
1 GGTAAGCGAAATATAA
42629815 GGTAAG
1 GGTAAG
42629821 TATTATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 17 0.85
17 3 0.15
ACGTcount: A:0.47, C:0.03, G:0.29, T:0.21
Consensus pattern (16 bp):
GGTAAGCGAAATATAA
Found at i:42630122 original size:23 final size:23
Alignment explanation
Indices: 42630095--42630140 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
42630085 GCTTTGCCGA
42630095 TCAGGCACTTTATGTGTCATATC
1 TCAGGCACTTTATGTGTCATATC
*
42630118 TCAGGCACTTTATGTGTCGTATC
1 TCAGGCACTTTATGTGTCATATC
42630141 AGGCAACTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.39
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCATATC
Found at i:42630144 original size:21 final size:21
Alignment explanation
Indices: 42630094--42630180 Score: 81
Period size: 23 Copynumber: 4.1 Consensus size: 21
42630084 GGCTTTGCCG
*
42630094 ATCAGGCACTTTATGTGTCAT
1 ATCAGGCACTTTATGTGTCGT
42630115 ATCTCAGGCACTTTATGTGTCGT
1 A--TCAGGCACTTTATGTGTCGT
*
42630138 ATCAGGCAACTCGT-T-TGTCGT
1 ATCAGGC-ACT-TTATGTGTCGT
* *
42630159 TTCAGGCAC-TTATATGTCGT
1 ATCAGGCACTTTATGTGTCGT
42630179 AT
1 AT
42630181 ACTGATCAGG
Statistics
Matches: 55, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
18 1 0.02
19 1 0.02
20 9 0.16
21 19 0.35
22 4 0.07
23 21 0.38
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (21 bp):
ATCAGGCACTTTATGTGTCGT
Found at i:42631256 original size:24 final size:24
Alignment explanation
Indices: 42631227--42631276 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
42631217 TGTGTGTCGT
* *
42631227 GTGTGACAGCCTGTGTCCCAGGCC
1 GTGTGACAACCCGTGTCCCAGGCC
42631251 GTGTGACAACCCGTGTCCCAGGCC
1 GTGTGACAACCCGTGTCCCAGGCC
42631275 GT
1 GT
42631277 ATGCTGCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.14, C:0.34, G:0.32, T:0.20
Consensus pattern (24 bp):
GTGTGACAACCCGTGTCCCAGGCC
Found at i:42632665 original size:5 final size:5
Alignment explanation
Indices: 42632655--42632720 Score: 132
Period size: 5 Copynumber: 13.2 Consensus size: 5
42632645 GCTCTTGATC
42632655 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
42632705 TATAA TATAA TATAA T
1 TATAA TATAA TATAA T
42632721 TATTAGCCTA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 61 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:42638818 original size:24 final size:24
Alignment explanation
Indices: 42638790--42638853 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 24
42638780 TGTGTATATG
42638790 TATTTACACTATGTAATTGAGATA
1 TATTTACACTATGTAATTGAGATA
*
42638814 TATTTTTAAACTATGTAATTGAGATA
1 TA--TTTACACTATGTAATTGAGATA
*
42638840 TATTTGCATCTATG
1 TATTTACA-CTATG
42638854 ATATGTATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
24 6 0.18
25 5 0.15
26 23 0.68
ACGTcount: A:0.34, C:0.08, G:0.12, T:0.45
Consensus pattern (24 bp):
TATTTACACTATGTAATTGAGATA
Found at i:42638821 original size:26 final size:26
Alignment explanation
Indices: 42638792--42638844 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
42638782 TGTATATGTA
*
42638792 TTTACACTATGTAATTGAGATATATT
1 TTTAAACTATGTAATTGAGATATATT
42638818 TTTAAACTATGTAATTGAGATATATT
1 TTTAAACTATGTAATTGAGATATATT
42638844 T
1 T
42638845 GCATCTATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.36, C:0.06, G:0.11, T:0.47
Consensus pattern (26 bp):
TTTAAACTATGTAATTGAGATATATT
Found at i:42655560 original size:27 final size:27
Alignment explanation
Indices: 42655533--42655996 Score: 414
Period size: 27 Copynumber: 17.1 Consensus size: 27
42655523 TATAACAGTT
* * *
42655533 ATTTTATCCTATGAGGGTATTTCGGTT
1 ATTTTACCCTATGAGGGTAATTCGGTC
* * * *
42655560 ATTTTACCCTATAACGGTATTTCAGTC
1 ATTTTACCCTATGAGGGTAATTCGGTC
* * *
42655587 ATTTTACCTTATGAGGGTATTTCAGTC
1 ATTTTACCCTATGAGGGTAATTCGGTC
* ** *
42655614 ATTTTACCCTATGAGGGTATTTTAGTT
1 ATTTTACCCTATGAGGGTAATTCGGTC
* *
42655641 ATTTTACCTTATTGAGGG-ATTTCGGTC
1 ATTTTACCCTA-TGAGGGTAATTCGGTC
* * *
42655668 ATTTTACCCTGT-AGAGGTAGTTCGGTT
1 ATTTTACCCTATGAG-GGTAATTCGGTC
* *
42655695 ATTTTACCCTATGGGGGTAGTTCGGTC
1 ATTTTACCCTATGAGGGTAATTCGGTC
*
42655722 ATTTTACCCTGTG-GTGGTAATTCGGTC
1 ATTTTACCCTATGAG-GGTAATTCGGTC
* * *
42655749 ATTTTACCCTGTGGGGGTAATTCGATC
1 ATTTTACCCTATGAGGGTAATTCGGTC
* * *
42655776 ATTGTACCCCATGAGGGTAATTCGATC
1 ATTTTACCCTATGAGGGTAATTCGGTC
* * *
42655803 ATTTTACCCTGTGGGGGTAATTCAGTC
1 ATTTTACCCTATGAGGGTAATTCGGTC
* * *
42655830 ATTTTACCCCATGGGGGTAATTTGGTC
1 ATTTTACCCTATGAGGGTAATTCGGTC
* * *
42655857 ATTTTTACCCTGTGGGGGTAATTCGATC
1 A-TTTTACCCTATGAGGGTAATTCGGTC
*
42655885 ATTTTACCCTGTGAGGGTAATTCGGTC
1 ATTTTACCCTATGAGGGTAATTCGGTC
* * * *
42655912 GTTTTACTCTGTGGGGGTAATTCGGTC
1 ATTTTACCCTATGAGGGTAATTCGGTC
** * *
42655939 ATTTTACCCCGTGGGGGTAATTCAGAT-
1 ATTTTACCCTATGAGGGTAATTC-GGTC
* **
42655966 ATTTTACCCTGTGTTGGTAATTCGGTC
1 ATTTTACCCTATGAGGGTAATTCGGTC
42655993 ATTT
1 ATTT
42655997 ATTGACCTTT
Statistics
Matches: 372, Mismatches: 56, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
25 2 0.01
26 6 0.02
27 331 0.89
28 33 0.09
ACGTcount: A:0.19, C:0.17, G:0.24, T:0.40
Consensus pattern (27 bp):
ATTTTACCCTATGAGGGTAATTCGGTC
Found at i:42657413 original size:16 final size:18
Alignment explanation
Indices: 42657383--42657419 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
42657373 GATTTTGGGG
42657383 AAAGTAAAAAAATGAA-A
1 AAAGTAAAAAAATGAACA
*
42657400 AAAG-AAAAAGATGAACA
1 AAAGTAAAAAAATGAACA
42657417 AAA
1 AAA
42657420 TATTTGATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.76, C:0.03, G:0.14, T:0.08
Consensus pattern (18 bp):
AAAGTAAAAAAATGAACA
Found at i:42672399 original size:9 final size:9
Alignment explanation
Indices: 42672382--42672418 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
42672372 TGAGTTTTCG
42672382 AATTCGAAT
1 AATTCGAAT
*
42672391 AACTCGAAT
1 AATTCGAAT
42672400 AATTCGAAT
1 AATTCGAAT
42672409 AATTCGAAT
1 AATTCGAAT
42672418 A
1 A
42672419 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:42673452 original size:5 final size:5
Alignment explanation
Indices: 42673442--42673467 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
42673432 CTCGAAAATT
42673442 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
42673468 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:42676585 original size:2 final size:2
Alignment explanation
Indices: 42676578--42676611 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
42676568 AAGAGGTTTA
42676578 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
42676612 TGGTAAACCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:42677745 original size:16 final size:18
Alignment explanation
Indices: 42677710--42677747 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
42677700 ATCCTTATTT
42677710 AAATAAAATACAATAGTA
1 AAATAAAATACAATAGTA
42677728 AAATAAAATA-AA-AGTA
1 AAATAAAATACAATAGTA
42677744 AAAT
1 AAAT
42677748 CAATATAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.40
17 2 0.10
18 10 0.50
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (18 bp):
AAATAAAATACAATAGTA
Found at i:42677939 original size:33 final size:33
Alignment explanation
Indices: 42677902--42677967 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
42677892 TAAACATAGT
42677902 CTACTCCTCTTGTAATCATTTGAATTCGACATA
1 CTACTCCTCTTGTAATCATTTGAATTCGACATA
*
42677935 CTACTCGTCTTGTAATCATTTGAATTCGACATA
1 CTACTCCTCTTGTAATCATTTGAATTCGACATA
42677968 GTGAATTTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (33 bp):
CTACTCCTCTTGTAATCATTTGAATTCGACATA
Found at i:42684753 original size:6 final size:6
Alignment explanation
Indices: 42684742--42684780 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
42684732 TAAGTCTAAG
* *
42684742 AAAATA ACAATA AACATA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
42684781 CAAATAAACT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:42688292 original size:18 final size:19
Alignment explanation
Indices: 42688259--42688294 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
42688249 AATAAAAGAA
*
42688259 AAACTAGAAAAGAAAAATT
1 AAACTAGAAAACAAAAATT
42688278 AAACTA-AAAACAAAAAT
1 AAACTAGAAAACAAAAAT
42688295 AAAATGCAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.72, C:0.08, G:0.06, T:0.14
Consensus pattern (19 bp):
AAACTAGAAAACAAAAATT
Found at i:42691927 original size:30 final size:30
Alignment explanation
Indices: 42691893--42691954 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
42691883 GCTTTTTGAA
*
42691893 AATATTTACAAAAAGAGGC-ATCTAATTTTT
1 AATATTTACAAAAAGA-GCAATCAAATTTTT
42691923 AATATTTACAAAAAGAGCAATCAAATTTTT
1 AATATTTACAAAAAGAGCAATCAAATTTTT
42691953 AA
1 AA
42691955 AAATAATTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 2 0.07
30 28 0.93
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.34
Consensus pattern (30 bp):
AATATTTACAAAAAGAGCAATCAAATTTTT
Found at i:42701102 original size:14 final size:14
Alignment explanation
Indices: 42701083--42701113 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
42701073 AAGTGAGAGA
*
42701083 TGAGAGAAGAGTTG
1 TGAGAGAAGAGATG
42701097 TGAGAGAAGAGATG
1 TGAGAGAAGAGATG
42701111 TGA
1 TGA
42701114 ATGAGGGATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.42, T:0.19
Consensus pattern (14 bp):
TGAGAGAAGAGATG
Found at i:42716650 original size:17 final size:17
Alignment explanation
Indices: 42716628--42716691 Score: 56
Period size: 17 Copynumber: 3.5 Consensus size: 17
42716618 ATTAGAGTTC
42716628 TAATTGTATACAGCTTT
1 TAATTGTATACAGCTTT
* * *
42716645 TAATTGTGTAATCCTAGAGTTC
1 TAA-T-TGT-ATAC-AG-CTTT
42716667 TAATTGTATACAGCTTT
1 TAATTGTATACAGCTTT
42716684 TAATTGTA
1 TAATTGTA
42716692 GCCATTGATG
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
17 13 0.36
18 3 0.08
19 6 0.17
20 6 0.17
21 3 0.08
22 5 0.14
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.45
Consensus pattern (17 bp):
TAATTGTATACAGCTTT
Found at i:42716989 original size:49 final size:48
Alignment explanation
Indices: 42716917--42717013 Score: 158
Period size: 49 Copynumber: 2.0 Consensus size: 48
42716907 TGAGGGAATT
* * *
42716917 CTGTTGAATCCTTTATCGTTGCGAGATTAGGCTGACTTAGGTGTTTTTA
1 CTGTTGAATCCATTATCATTGCGAG-TTAGGCTGACTTAGGCGTTTTTA
42716966 CTGTTGAATCCATTATCATTGCGAGTTAGGCTGACTTAGGCGTTTTTA
1 CTGTTGAATCCATTATCATTGCGAGTTAGGCTGACTTAGGCGTTTTTA
42717014 AGCAAAGAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
48 22 0.49
49 23 0.51
ACGTcount: A:0.20, C:0.15, G:0.24, T:0.41
Consensus pattern (48 bp):
CTGTTGAATCCATTATCATTGCGAGTTAGGCTGACTTAGGCGTTTTTA
Found at i:42721782 original size:39 final size:39
Alignment explanation
Indices: 42721728--42721806 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
42721718 GATATGATTA
42721728 TGTAATCTTAGAGTTCTAATTGTATACAACTTTTAATTG
1 TGTAATCTTAGAGTTCTAATTGTATACAACTTTTAATTG
*
42721767 TGTAATCTTAGAGTTCTAATTGTATACAGCTTTTAATTG
1 TGTAATCTTAGAGTTCTAATTGTATACAACTTTTAATTG
42721806 T
1 T
42721807 AACCATTGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (39 bp):
TGTAATCTTAGAGTTCTAATTGTATACAACTTTTAATTG
Found at i:42721786 original size:22 final size:22
Alignment explanation
Indices: 42721728--42721789 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
42721718 GATATGATTA
42721728 TGTAATCTTAGAGTTCTAATTG
1 TGTAATCTTAGAGTTCTAATTG
* * *
42721750 TAT-A-C--A-ACTTTTAATTG
1 TGTAATCTTAGAGTTCTAATTG
42721767 TGTAATCTTAGAGTTCTAATTG
1 TGTAATCTTAGAGTTCTAATTG
42721789 T
1 T
42721790 ATACAGCTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 10
0.64 0.13 0.22
Matches are distributed among these distances:
17 11 0.38
18 2 0.07
19 1 0.03
20 1 0.03
21 2 0.07
22 12 0.41
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.47
Consensus pattern (22 bp):
TGTAATCTTAGAGTTCTAATTG
Found at i:42722128 original size:48 final size:49
Alignment explanation
Indices: 42722036--42722129 Score: 127
Period size: 48 Copynumber: 1.9 Consensus size: 49
42722026 GGGAATTCTG
* * * **
42722036 TTGATTCCTTTATCGTTGCGAGATTAGGCTGACTTAGGTGTTTTTACTA
1 TTGAATCCGTTATCATTGCGAGATTAGGCTGACTTAGGCATTTTTACTA
*
42722085 TTGAATCCGTTATCATTGTGAG-TTAGGCTGACTTAGGCATTTTTA
1 TTGAATCCGTTATCATTGCGAGATTAGGCTGACTTAGGCATTTTTA
42722130 AGCAAAGAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
48 21 0.54
49 18 0.46
ACGTcount: A:0.20, C:0.14, G:0.22, T:0.44
Consensus pattern (49 bp):
TTGAATCCGTTATCATTGCGAGATTAGGCTGACTTAGGCATTTTTACTA
Found at i:42722630 original size:15 final size:17
Alignment explanation
Indices: 42722601--42722632 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
42722591 AGTTTTTTTA
42722601 TTTATTCTTTAATAATT
1 TTTATTCTTTAATAATT
42722618 TTTATT-TTT-ATAATT
1 TTTATTCTTTAATAATT
42722633 CCATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 3 0.20
17 6 0.40
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTATTCTTTAATAATT
Found at i:42735321 original size:18 final size:18
Alignment explanation
Indices: 42735277--42735324 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
42735267 AAGCTTCCGC
*
42735277 GATAAGTAACGTTTTGAAA
1 GATAA-TAACTTTTTGAAA
*
42735296 -ATTTATAACTTTTTGAAA
1 GA-TAATAACTTTTTGAAA
42735314 GATAATAACTT
1 GATAATAACTT
42735325 ATGTATATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
18 21 0.88
19 3 0.12
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.40
Consensus pattern (18 bp):
GATAATAACTTTTTGAAA
Found at i:42754780 original size:27 final size:27
Alignment explanation
Indices: 42754694--42755262 Score: 576
Period size: 27 Copynumber: 21.2 Consensus size: 27
42754684 GGTATAACAA
* * **
42754694 TCATTTTACCCTATAGAGGTATTTCAA
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
42754721 TCATTTTACCCTATGGGGGTTATTTTGA
1 TCATTTTACCCTATGGGGG-TATTTCGG
* *
42754749 TCATTTTACCTTATAGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
42754776 CCATTTTACCCTATGGGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * * *
42754803 TTATTCTACCCTATGGGAGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
42754830 TTATTTTACCCTATAGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
42754857 TTATTTTACCCTATGAGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * * *
42754884 TTATTCTACCCTATGAGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
42754911 TTATTTTACCCTATTGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
42754938 TCATTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
42754965 TCAATTTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
* **
42754992 TCATTTTACCTTATGGGGGTATTTCAA
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
42755019 TCATTCTACCCTATGGGAGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
*
42755046 TCATTCTACCCTA------TACTTT-GG
1 TCATTTTACCCTATGGGGGTA-TTTCGG
* *
42755067 TCTTTTTACCCTATAGGGGGTATTTCGA
1 TCATTTTACCCTAT-GGGGGTATTTCGG
*
42755095 TCATTTTACCCTATGGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* ** *
42755122 TCATTCTATGCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
42755149 TCATTTTACCCAATGAGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * * * *
42755176 TTATTTTACCCTATGAGTGTATTTTGA
1 TCATTTTACCCTATGGGGGTATTTCGG
42755203 TCATTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
42755230 TCATTTTATCTTATGGGGTTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
*
42755257 TTATTT
1 TCATTT
42755263 ATTGACCTCT
Statistics
Matches: 455, Mismatches: 77, Indels: 20
0.82 0.14 0.04
Matches are distributed among these distances:
21 14 0.03
22 3 0.01
27 399 0.88
28 39 0.09
ACGTcount: A:0.19, C:0.16, G:0.21, T:0.44
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCGG
Found at i:42765258 original size:18 final size:18
Alignment explanation
Indices: 42765235--42765273 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
42765225 AGTTTATTTG
* *
42765235 TTTTACTTTTATTTTTAT
1 TTTTACGTTTATTGTTAT
42765253 TTTTACGTTTATTGTTAT
1 TTTTACGTTTATTGTTAT
42765271 TTT
1 TTT
42765274 CTTAGACTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.15, C:0.05, G:0.05, T:0.74
Consensus pattern (18 bp):
TTTTACGTTTATTGTTAT
Found at i:42769913 original size:23 final size:23
Alignment explanation
Indices: 42769870--42769920 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
42769860 CATCAATTAG
*
42769870 AAGAAGATCTAAAGAGGCACTCA
1 AAGAAGATCTAAAGAGACACTCA
* *
42769893 AAGAAGAT-TGAAGAGAACACTCG
1 AAGAAGATCTAAAGAG-ACACTCA
42769916 AAGAA
1 AAGAA
42769921 CACCATCAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.51, C:0.14, G:0.24, T:0.12
Consensus pattern (23 bp):
AAGAAGATCTAAAGAGACACTCA
Found at i:42775565 original size:17 final size:18
Alignment explanation
Indices: 42775543--42775579 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
42775533 CATCACATAT
42775543 AAAT-AATTTTAAATTAA
1 AAATAAATTTTAAATTAA
*
42775560 AAATAAATTTTGAATTAA
1 AAATAAATTTTAAATTAA
42775578 AA
1 AA
42775580 GTTCATACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
AAATAAATTTTAAATTAA
Found at i:42779011 original size:34 final size:34
Alignment explanation
Indices: 42778940--42779013 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 34
42778930 AATGCCAGTA
* ** *
42778940 ATCAGTAGGGCCTTTGTCCAATTTCAGTAGTAGT
1 ATCAGTAGGGCCTTTGGCCAATAACAGTAATAGT
*
42778974 ATCAGTAGGGCC-TTGGCCCATAACAGTAATAGAT
1 ATCAGTAGGGCCTTTGGCCAATAACAGTAATAG-T
42779008 ATCAGT
1 ATCAGT
42779014 CATGCAGTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
33 15 0.44
34 19 0.56
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (34 bp):
ATCAGTAGGGCCTTTGGCCAATAACAGTAATAGT
Found at i:42779508 original size:27 final size:27
Alignment explanation
Indices: 42779478--42779621 Score: 227
Period size: 27 Copynumber: 5.4 Consensus size: 27
42779468 GGTATAACAA
42779478 TCATTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
*
42779505 TCATTTTACCCTATGGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
*
42779532 TCATTTTACCCTATGGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
42779559 TTATTTTACCTTATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
42779586 TCATTTTACCCTA-CGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
42779612 TCATTTTACC
1 TCATTTTACC
42779622 TATTACAGTG
Statistics
Matches: 109, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
26 21 0.19
27 88 0.81
ACGTcount: A:0.16, C:0.17, G:0.23, T:0.44
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCGG
Found at i:42782994 original size:27 final size:26
Alignment explanation
Indices: 42782936--42783025 Score: 99
Period size: 27 Copynumber: 3.4 Consensus size: 26
42782926 GCCATAACAA
*
42782936 TCATTTTACCCTATGGGGTATTTCAG
1 TCATTTTACCCTATGGGGTATTTTAG
* *
42782962 TAATTTTACCCTATGAGGGTATTTTGG
1 TCATTTTACCCTATG-GGGTATTTTAG
** * *
42782989 TCATTTTACTTTAAGGGTGTATTTTCG
1 TCATTTTACCCTATGGG-GTATTTTAG
42783016 TCATTTTACC
1 TCATTTTACC
42783026 TATTTTAGGG
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
26 16 0.30
27 37 0.70
ACGTcount: A:0.20, C:0.16, G:0.18, T:0.47
Consensus pattern (26 bp):
TCATTTTACCCTATGGGGTATTTTAG
Found at i:42788038 original size:17 final size:18
Alignment explanation
Indices: 42788016--42788050 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
42788006 ATTTGGGTCA
42788016 TGTGGGCC-ACATGGGCG
1 TGTGGGCCTACATGGGCG
42788033 TGTGGGCCTACATGGGCG
1 TGTGGGCCTACATGGGCG
42788051 AACATTATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.11, C:0.23, G:0.46, T:0.20
Consensus pattern (18 bp):
TGTGGGCCTACATGGGCG
Found at i:42792271 original size:26 final size:27
Alignment explanation
Indices: 42792214--42792271 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
42792204 TAATTTATCC
* * * *
42792214 ATTTTTATTTTATTTTTTATATTTTCA
1 ATTTTTAGTTTAATTTTTACATTCTCA
42792241 A-TTTTAGTTTAATTTTTACATTCT-A
1 ATTTTTAGTTTAATTTTTACATTCTCA
42792266 ATTTTT
1 ATTTTT
42792272 TATTTACTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 2 0.08
26 23 0.88
27 1 0.04
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.69
Consensus pattern (27 bp):
ATTTTTAGTTTAATTTTTACATTCTCA
Found at i:42793955 original size:9 final size:9
Alignment explanation
Indices: 42793941--42793967 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
42793931 CAGGTCGGTA
42793941 ACTAGAGTC
1 ACTAGAGTC
42793950 ACTAGAGTC
1 ACTAGAGTC
42793959 ACTAGAGTC
1 ACTAGAGTC
42793968 GCTCCGACTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (9 bp):
ACTAGAGTC
Found at i:42798651 original size:16 final size:16
Alignment explanation
Indices: 42798629--42798665 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
42798619 ATATATTTAA
42798629 ATAATTATTATCAAAAT
1 ATAATTATTA-CAAAAT
42798646 -TAATTATTACAAAAT
1 ATAATTATTACAAAAT
42798661 ATAAT
1 ATAAT
42798666 AAAATTGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (16 bp):
ATAATTATTACAAAAT
Found at i:42799843 original size:212 final size:212
Alignment explanation
Indices: 42799476--42799899 Score: 760
Period size: 212 Copynumber: 2.0 Consensus size: 212
42799466 CACGAGCTGG
* * *
42799476 ACACACGCCCATCTACCAGCCCGTTTTGATTTCGTTCCCTACTTCCAAAATACATGGAAAAACAC
1 ACACACGCCCATCTACCAGCCCGTGTTGATTTCGTGCCCTACTTCAAAAATACATGGAAAAACAC
*
42799541 AATTTTTAGGCTTTCTGAGCATTCTAAAGTCGATAAATATCAATTAGAAGAAGACATAAGGGAGC
66 AATTTTTAGGCTTTCTGAGCATTCTAAAGTCGATAAATACCAATTAGAAGAAGACATAAGGGAGC
* *
42799606 CATCAGAGAAGATCGAAGAAAACACTCGAAAAAACACTATCGAAATCAACTCAGAAGAAGATCTC
131 CATCAGAGAAAATCAAAGAAAACACTCGAAAAAACACTATCGAAATCAACTCAGAAGAAGATCTC
42799671 CATCAAGATCGAAGATT
196 CATCAAGATCGAAGATT
*
42799688 ACACACGCCCATCTACCAGCCCGTGTTGATTTCGTGCCCTGCTTCAAAAATACATGGAAAAACAC
1 ACACACGCCCATCTACCAGCCCGTGTTGATTTCGTGCCCTACTTCAAAAATACATGGAAAAACAC
42799753 AATTTTTAGGCTTTCTGAGCATTCTAAAGTCGATAAATACCAATTAGAAGAAGACATAAAGGG-G
66 AATTTTTAGGCTTTCTGAGCATTCTAAAGTCGATAAATACCAATTAGAAGAAGACAT-AAGGGAG
*
42799817 CCATCAGAGAAAATCAAAGAAAACACTCGGAAAAACACTATCGAAATCAACTCAGAAGAAGATCT
130 CCATCAGAGAAAATCAAAGAAAACACTCGAAAAAACACTATCGAAATCAACTCAGAAGAAGATCT
42799882 CCATCAAGATCGAAGATT
195 CCATCAAGATCGAAGATT
42799900 TCTTTTTAAT
Statistics
Matches: 203, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
212 198 0.98
213 5 0.02
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.22
Consensus pattern (212 bp):
ACACACGCCCATCTACCAGCCCGTGTTGATTTCGTGCCCTACTTCAAAAATACATGGAAAAACAC
AATTTTTAGGCTTTCTGAGCATTCTAAAGTCGATAAATACCAATTAGAAGAAGACATAAGGGAGC
CATCAGAGAAAATCAAAGAAAACACTCGAAAAAACACTATCGAAATCAACTCAGAAGAAGATCTC
CATCAAGATCGAAGATT
Found at i:42800347 original size:36 final size:36
Alignment explanation
Indices: 42800307--42800378 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
42800297 GTTTAATTAA
42800307 AAAGATATTTCAATTAATCAACCTAGAGTCAATTGT
1 AAAGATATTTCAATTAATCAACCTAGAGTCAATTGT
*
42800343 AAAGATATTTCTATTAATCAACCTAGAGTCAATTGT
1 AAAGATATTTCAATTAATCAACCTAGAGTCAATTGT
42800379 TCTTACTCTC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35
Consensus pattern (36 bp):
AAAGATATTTCAATTAATCAACCTAGAGTCAATTGT
Found at i:42802226 original size:22 final size:21
Alignment explanation
Indices: 42802184--42802267 Score: 84
Period size: 22 Copynumber: 4.0 Consensus size: 21
42802174 CCCTTTTCAT
42802184 TTTTTATTATTTATT-TATTTA
1 TTTTTATTATTTATTCT-TTTA
*
42802205 TTTTAATTATTTATTCCTTTTA
1 TTTTTATTATTTATT-CTTTTA
*
42802227 TTTTTATTATATATTCTTCTTA
1 TTTTTATTATTTATTCTT-TTA
*
42802249 TTATTTCTT-TTT-TTCTTTT
1 TT-TTTATTATTTATTCTTTT
42802268 TAGTATCATT
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
20 2 0.04
21 22 0.41
22 24 0.44
23 6 0.11
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTTATTATTTATTCTTTTA
Found at i:42802324 original size:29 final size:32
Alignment explanation
Indices: 42802292--42802360 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 32
42802282 TTTCTATTAC
42802292 TATTATTATTTCATTTTATT-GT-GTTTA-T-T
1 TATTATTATTTCATTTT-TTAGTAGTTTAGTGT
*
42802321 TATT-TTATTTTATTTTTTAGTAGTTTAGTGT
1 TATTATTATTTCATTTTTTAGTAGTTTAGTGT
42802352 TATTATTAT
1 TATTATTAT
42802361 GTTTGCATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
27 2 0.06
28 13 0.38
29 9 0.26
30 1 0.03
31 5 0.15
32 4 0.12
ACGTcount: A:0.22, C:0.01, G:0.09, T:0.68
Consensus pattern (32 bp):
TATTATTATTTCATTTTTTAGTAGTTTAGTGT
Found at i:42802642 original size:22 final size:23
Alignment explanation
Indices: 42802617--42802665 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
42802607 TATTGGTTCT
42802617 TTTTACTATT-AATTTTTATTTA
1 TTTTACTATTGAATTTTTATTTA
** **
42802639 TTTTGGTATTGTTTTTTTATTTA
1 TTTTACTATTGAATTTTTATTTA
42802662 TTTT
1 TTTT
42802666 GTTTATTTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.18, C:0.02, G:0.06, T:0.73
Consensus pattern (23 bp):
TTTTACTATTGAATTTTTATTTA
Found at i:42809245 original size:17 final size:16
Alignment explanation
Indices: 42809223--42809296 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 16
42809213 GTGGCCAGCT
42809223 CGTGTGGCTCACACGGA
1 CGTGTGGCTCACAC-GA
42809240 CGTGTGGCT-AGC-C--
1 CGTGTGGCTCA-CACGA
42809253 CGTGTGGCTCACACGTA
1 CGTGTGGCTCACACG-A
42809270 CGTGTGGC-CAGC-C--
1 CGTGTGGCTCA-CACGA
42809283 CGTGTGGCTCACAC
1 CGTGTGGCTCACAC
42809297 AGATATGTGG
Statistics
Matches: 48, Mismatches: 0, Indels: 21
0.70 0.00 0.30
Matches are distributed among these distances:
13 19 0.40
14 5 0.10
16 5 0.10
17 19 0.40
ACGTcount: A:0.14, C:0.32, G:0.34, T:0.20
Consensus pattern (16 bp):
CGTGTGGCTCACACGA
Found at i:42809245 original size:30 final size:30
Alignment explanation
Indices: 42809211--42809371 Score: 209
Period size: 30 Copynumber: 5.4 Consensus size: 30
42809201 GCACATGGGA
* *
42809211 GTGTGGCCAGCTCGTGTGGCTCACACGGAC
1 GTGTGGCCAGCCCGTGTGGCTCACACAGAC
*
42809241 GTGTGGCTAGCCCGTGTGGCTCACAC-GTAC
1 GTGTGGCCAGCCCGTGTGGCTCACACAG-AC
*
42809271 GTGTGGCCAGCCCGTGTGGCTCACACAGAT
1 GTGTGGCCAGCCCGTGTGGCTCACACAGAC
* * *
42809301 ATGTGGCCCA-CCCGTGTGGGTCACATAGAC
1 GTGTGG-CCAGCCCGTGTGGCTCACACAGAC
*
42809331 GTGTGGCCAGCCCGTGTAGCTCACACAGAC
1 GTGTGGCCAGCCCGTGTGGCTCACACAGAC
*
42809361 GTGTGTCCAGC
1 GTGTGGCCAGC
42809372 TTGTATGGAA
Statistics
Matches: 114, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
29 4 0.04
30 106 0.93
31 4 0.04
ACGTcount: A:0.16, C:0.30, G:0.33, T:0.20
Consensus pattern (30 bp):
GTGTGGCCAGCCCGTGTGGCTCACACAGAC
Found at i:42817943 original size:33 final size:34
Alignment explanation
Indices: 42817888--42817957 Score: 124
Period size: 33 Copynumber: 2.1 Consensus size: 34
42817878 AGAGTTTGGA
42817888 TAGCTCTTTTGCTTTTTTTTTTAATTATCTCTAAT
1 TAGCTCTTTTGC-TTTTTTTTTAATTATCTCTAAT
42817923 TAGCTCTTTTG-TTTTTTTTTAATTATCTCTAAT
1 TAGCTCTTTTGCTTTTTTTTTAATTATCTCTAAT
42817956 TA
1 TA
42817958 ACTAACCCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 24 0.69
35 11 0.31
ACGTcount: A:0.19, C:0.13, G:0.06, T:0.63
Consensus pattern (34 bp):
TAGCTCTTTTGCTTTTTTTTTAATTATCTCTAAT
Found at i:42822946 original size:28 final size:28
Alignment explanation
Indices: 42822906--42822970 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
42822896 TACATTCTAA
*
42822906 TTTTTGTTTGTTTGATTCTAATAGGTTC
1 TTTTAGTTTGTTTGATTCTAATAGGTTC
42822934 TTTTAGTTTGTTTGATTCTAATAGGTTC
1 TTTTAGTTTGTTTGATTCTAATAGGTTC
42822962 TTTTAGTTT
1 TTTTAGTTT
42822971 ATGAGTAGAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.15, C:0.06, G:0.17, T:0.62
Consensus pattern (28 bp):
TTTTAGTTTGTTTGATTCTAATAGGTTC
Found at i:42826156 original size:5 final size:5
Alignment explanation
Indices: 42826129--42826172 Score: 54
Period size: 5 Copynumber: 9.0 Consensus size: 5
42826119 TATTTTTAGT
* **
42826129 TTTTA -TTTA TTTTA GTTCC TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
42826173 ATATGCATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
4 4 0.12
5 28 0.88
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:42829743 original size:23 final size:23
Alignment explanation
Indices: 42829624--42829745 Score: 129
Period size: 23 Copynumber: 5.3 Consensus size: 23
42829614 ATAAGATATA
* *
42829624 ATTTT-TGGTGCCTTTTGTGGCAT
1 ATTTTGTGATGCC-TTTGTGGCGT
* * *
42829647 ATTCTATGATGCATTTGTGGCGT
1 ATTTTGTGATGCCTTTGTGGCGT
* *
42829670 ATGTTGTGATGCCTTTGTGGTGT
1 ATTTTGTGATGCCTTTGTGGCGT
* *
42829693 ATTATGTGATGCCTTCGTGGCGT
1 ATTTTGTGATGCCTTTGTGGCGT
* *
42829716 ATTTTGTGAAGCCTTTGTGGCAT
1 ATTTTGTGATGCCTTTGTGGCGT
42829739 ATTTTGT
1 ATTTTGT
42829746 AACACCCTTG
Statistics
Matches: 81, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
23 76 0.94
24 5 0.06
ACGTcount: A:0.13, C:0.12, G:0.28, T:0.47
Consensus pattern (23 bp):
ATTTTGTGATGCCTTTGTGGCGT
Done.