Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 701 of 770
Found at i:221263147 original size:39 final size:39
Alignment explanation
Indices: 221262980--221263161 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
221262970 TCGTTCAAAC
* * ** * **
221262980 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
221263020 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
221263060 GCCTTCGGGCTTAGCCCGGATATCATAACTCGC-CAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
221263098 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
221263137 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
221263162 CTCGAACATT
Statistics
Matches: 126, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
38 38 0.30
39 50 0.40
40 38 0.30
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:221267461 original size:40 final size:39
Alignment explanation
Indices: 221267417--221267570 Score: 191
Period size: 39 Copynumber: 3.9 Consensus size: 39
221267407 GTTCAAAACA
* * ** * *
221267417 CCTTCGGGACGTAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
221267457 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
221267497 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
221267536 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
221267571 TTCATTTACA
Statistics
Matches: 100, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 60 0.60
40 40 0.40
ACGTcount: A:0.23, C:0.32, G:0.22, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:221267528 original size:39 final size:39
Alignment explanation
Indices: 221267447--221267570 Score: 194
Period size: 39 Copynumber: 3.2 Consensus size: 39
221267437 TATGGTAACC
* *
221267447 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
221267487 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
221267526 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
221267565 CGCACA
1 CGCACA
221267571 TTCATTTACA
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 60 0.78
40 17 0.22
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:221269490 original size:39 final size:40
Alignment explanation
Indices: 221269375--221269518 Score: 175
Period size: 39 Copynumber: 3.6 Consensus size: 40
221269365 TCGTTCAAAC
* * ** * **
221269375 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATT
* * * *
221269415 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATT
221269455 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATT
221269494 GCCTTCGGG-CTTAGCCCGGATATCA
1 GCCTTCGGGACTTAGCCCGGATATCA
221269519 CTCGAACATT
Statistics
Matches: 89, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 51 0.57
40 38 0.43
ACGTcount: A:0.24, C:0.30, G:0.23, T:0.24
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATT
Found at i:221280530 original size:68 final size:66
Alignment explanation
Indices: 221280458--221280660 Score: 197
Period size: 64 Copynumber: 3.1 Consensus size: 66
221280448 CATCATGTGT
* * * *
221280458 ACAAGAAAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATG-TGT-ACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAAGATGTGACACCA
221280521 TGTAG
62 TGTAG
** * *
221280526 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGATGTGACACCATGTA
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAAGATGTGACACCATGTA
221280591 G
66 G
* * *
221280592 ACAAGAGAGCTACG-GATATATGTAG-TAGGTCG-ATGCGTGGT-CCAAG-TGAAGGACA-CATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAAGATG--TGACACCATG
221280651 TAG
64 TAG
221280654 ACAAGAG
1 ACAAGAG
221280661 CTACGAGATA
Statistics
Matches: 122, Mismatches: 9, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
61 2 0.02
62 19 0.16
63 13 0.11
64 32 0.26
65 17 0.14
66 27 0.22
68 12 0.10
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAAGATGTGACACCATGTA
G
Found at i:221280562 original size:64 final size:64
Alignment explanation
Indices: 221280482--221280724 Score: 252
Period size: 64 Copynumber: 3.8 Consensus size: 64
221280472 AGACATTATG
* * * *
221280482 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGCGTGGTACCAAGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
*
221280546 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGATGTGACACCATGTAGACAAGAGAGCTAC-GGATA
1 ATGTAGCTAGGTCGCATGCGTGGTACCAAG-TGT-ACACCATGTAGACAAGAGAGCTACGGGATA
221280610 T
64 T
* * *
221280611 ATGTAG-TAGGTCG-ATGCGTGGT-CCAAGTGAAGGACACATGTAGAC-A-AGAGCTACGAGATA
1 ATGTAGCTAGGTCGCATGCGTGGTACCAAGTGTA-CAC-CATGTAGACAAGAGAGCTACGGGATA
*
221280671 A
64 T
* * * *
221280672 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGCGTGGTACCAAGTGTACACCATGTAG-ACAAGAGAGC
221280725 CGAACTATAT
Statistics
Matches: 152, Mismatches: 15, Indels: 25
0.79 0.08 0.13
Matches are distributed among these distances:
60 11 0.07
61 23 0.15
62 27 0.18
63 20 0.13
64 32 0.21
65 15 0.10
66 24 0.16
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGCGTGGTACCAAGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
Found at i:221285108 original size:40 final size:39
Alignment explanation
Indices: 221285053--221285260 Score: 231
Period size: 40 Copynumber: 5.2 Consensus size: 39
221285043 TGAATGATAC
* * *
221285053 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG-TTATAT
*
221285093 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
*
221285133 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
* * * *
221285173 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGT-TACCAAAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGT--TATAT
* * **
221285213 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGT-GTTATAT
221285253 CC-GGCTAA
1 CCGGGCTAA
221285261 ATTCCGAAGA
Statistics
Matches: 146, Mismatches: 17, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
38 1 0.01
39 6 0.04
40 136 0.93
41 2 0.01
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGTTATAT
Found at i:221293002 original size:40 final size:40
Alignment explanation
Indices: 221292947--221293052 Score: 176
Period size: 40 Copynumber: 2.6 Consensus size: 40
221292937 CTACGCTGTA
*
221292947 AAGACCCAAAGGCATTCGTGCGAGTTGTTATATCCGGGCT
1 AAGACCCGAAGGCATTCGTGCGAGTTGTTATATCCGGGCT
*
221292987 AAGACCCGAAGGCATTCGTGCGAGTTGTTATATCTGGGCT
1 AAGACCCGAAGGCATTCGTGCGAGTTGTTATATCCGGGCT
* *
221293027 AAGACCCGAAGGCATTTGTGCAAGTT
1 AAGACCCGAAGGCATTCGTGCGAGTT
221293053 CCCAAACCCG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
AAGACCCGAAGGCATTCGTGCGAGTTGTTATATCCGGGCT
Found at i:221293070 original size:40 final size:40
Alignment explanation
Indices: 221292980--221293087 Score: 117
Period size: 40 Copynumber: 2.7 Consensus size: 40
221292970 GTTGTTATAT
* * *** * *
221292980 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTCCCAAAC
*
221293020 CTGGGCTAAGACCCGAAGGCATTTGTGCAAGTTCCCAAAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTCCCAAAC
* * *
221293060 CCGGGTTAAGACCCTAAGGCAATTGTGC
1 CCGGGCTAAGACCCGAAGGCATTTGTGC
221293088 TTGTAGTTAT
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTCCCAAAC
Found at i:221296075 original size:27 final size:27
Alignment explanation
Indices: 221295922--221296145 Score: 184
Period size: 27 Copynumber: 8.3 Consensus size: 27
221295912 TTTGGTTTAC
*
221295922 AAAATTACCAAAATACCCTAG-TTTGT
1 AAAATTACCAAAATACCCTCGATTTGT
* *
221295948 AAAATTATCAAAATACCCATAG-TTTGT
1 AAAATTACCAAAATACCC-TCGATTTGT
*
221295975 AAAATTACCAAAATACCC-CTAATTTGT
1 AAAATTACCAAAATACCCTC-GATTTGT
* ** **
221296002 GAAATTACTGAAATACCCTCGACCTGT
1 AAAATTACCAAAATACCCTCGATTTGT
** *
221296029 AAAATTATTAAAATACCCTCGACTTGT
1 AAAATTACCAAAATACCCTCGATTTGT
* *
221296056 AAAATTACCAAAGTACCCTCGATTTAT
1 AAAATTACCAAAATACCCTCGATTTGT
* ****
221296083 AGAATTACCGTTTTACCCTCGATTTGT
1 AAAATTACCAAAATACCCTCGATTTGT
**** *
221296110 AAAATTACCGTTTTACCCTCGATTTAT
1 AAAATTACCAAAATACCCTCGATTTGT
*
221296137 AGAATTACC
1 AAAATTACC
221296146 GTTTTACCCT
Statistics
Matches: 166, Mismatches: 28, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
26 17 0.10
27 148 0.89
28 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.33
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTCGATTTGT
Found at i:221296415 original size:27 final size:27
Alignment explanation
Indices: 221296069--221296414 Score: 419
Period size: 27 Copynumber: 12.8 Consensus size: 27
221296059 ATTACCAAAG
*
221296069 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
** *
221296096 TACCCTCGATTTGTAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
221296123 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
**
221296150 TACCCTC-AGTTTACAGAATTACTATTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
*
221296177 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
221296204 TACCC-CTAATTTACATAATTACCATTT
1 TACCCTC-GATTTACAGAATTACCGTTT
* *
221296231 TACCC-CAGATTTACATAATTATCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
221296258 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
221296285 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
221296312 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * **
221296339 TACCCTTGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
221296366 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
221296393 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
221296415 TAAAATACCC
Statistics
Matches: 287, Mismatches: 28, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
26 2 0.01
27 283 0.99
28 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:221296451 original size:54 final size:54
Alignment explanation
Indices: 221296258--221296478 Score: 127
Period size: 54 Copynumber: 4.1 Consensus size: 54
221296248 ATTATCGTTT
* * *** * * ***
221296258 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTT
1 TACCCTTGATTTACAAAATTACCGCAATACCCTCGATTTACAAAATTACTAAAA
* * * ***** * ***
221296312 TACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAAAATTACTATTT
1 TACCCTTGATTTACAAAATTACCGCAATACCCTCGATTTACAAAATTACTAAAA
* ***
221296366 TACCCTTGATTTACAAAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACCGCAATACCCTCGATTTACAAAATTACTAAAA
* *** * ** * *
221296420 TACCCTTGGTTTGTGAAATTACCGCAATACCCTCAATTTGTAAAACTACCAAAA
1 TACCCTTGATTTACAAAATTACCGCAATACCCTCGATTTACAAAATTACTAAAA
221296474 TACCC
1 TACCC
221296479 CTGTATGGTA
Statistics
Matches: 140, Mismatches: 27, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 140 1.00
ACGTcount: A:0.33, C:0.23, G:0.08, T:0.37
Consensus pattern (54 bp):
TACCCTTGATTTACAAAATTACCGCAATACCCTCGATTTACAAAATTACTAAAA
Found at i:221296451 original size:81 final size:81
Alignment explanation
Indices: 221296123--221296458 Score: 196
Period size: 81 Copynumber: 4.1 Consensus size: 81
221296113 ATTACCGTTT
* * * * *** *
221296123 TACCCTCGATTTATAGAATTACCGTTTTACCCTC-AGTTTACAGAATTACTATTTTACCCTCGAT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGA-TTTACAAAATTACTAAAATACCCTTGAT
* * ****
221296187 TTATAGAATTACCGTTT
65 TTACAAAATTACCACAA
* * * ** *
221296204 TACCC-CTAATTTACATAATTACCATTTTACCC-CAGATTTACATAATTATCGT--TTTACCCTC
1 TACCCTC-GATTTACAAAATTACCATTTTACCCTC-GATTTACAAAATTA-C-TAAAATACCCTT
* ****
221296265 GATTTACAGAATTACCGTTT
62 GATTTACAAAATTACCACAA
* * * ***
221296285 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGATT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGATT
* ***
221296350 TACAAAATTACTATTT
66 TACAAAATTACCACAA
* ** *
221296366 TACCCTTGATTTACAAAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGATT
*** *
221296431 TGTGAAATTACCGCAA
66 TACAAAATTACCACAA
*
221296447 TACCCTCAATTT
1 TACCCTCGATTT
221296459 GTAAAACTAC
Statistics
Matches: 212, Mismatches: 34, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
79 1 0.00
80 3 0.01
81 203 0.96
82 4 0.02
83 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGATT
TACAAAATTACCACAA
Found at i:221297683 original size:25 final size:25
Alignment explanation
Indices: 221297654--221297701 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
221297644 TTATAATATG
* * *
221297654 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
221297679 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
221297702 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:221297770 original size:20 final size:20
Alignment explanation
Indices: 221297745--221297803 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
221297735 TAAATATGGT
221297745 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
221297765 ATGTATGCTATGCACATGAT
1 ATGTATGATATGCACATGAA
221297785 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
221297804 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:221297881 original size:24 final size:23
Alignment explanation
Indices: 221297854--221297997 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 23
221297844 GAGGAAGTGA
221297854 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
221297877 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
221297901 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
221297925 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
221297948 AGAAAGGGCTTTTGCCCCAGTTATT
1 A-AAAGGGCTTATGCCCCAGTTA-T
*
221297973 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
221297997 A
1 A
221297998 TGATAAAGCA
Statistics
Matches: 113, Mismatches: 3, Indels: 8
0.91 0.02 0.06
Matches are distributed among these distances:
23 24 0.21
24 77 0.68
25 12 0.11
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:221297947 original size:47 final size:46
Alignment explanation
Indices: 221297854--221297997 Score: 209
Period size: 47 Copynumber: 3.0 Consensus size: 46
221297844 GAGGAAGTGA
221297854 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTAT
221297901 CAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT
* *
221297948 AGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 A-AAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
221297997 A
1 A
221297998 TGATAAAGCA
Statistics
Matches: 90, Mismatches: 2, Indels: 7
0.91 0.02 0.07
Matches are distributed among these distances:
46 1 0.01
47 43 0.48
48 34 0.38
49 12 0.13
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (46 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT
Found at i:221297970 original size:71 final size:72
Alignment explanation
Indices: 221297854--221297997 Score: 222
Period size: 71 Copynumber: 2.0 Consensus size: 72
221297844 GAGGAAGTGA
*
221297854 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
221297917 CCAGTTAT
65 CCAGTTAT
* *
221297925 AAAAGGGCTTATGCCCCAGTTAT-AGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCT
1 AAAAGGGCTTATGCCCCAGTTATCA-AAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCT
221297989 CCAGTTAT
65 CCAGTTAT
221297997 A
1 A
221297998 TGATAAAGCA
Statistics
Matches: 67, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
70 1 0.01
71 54 0.81
72 12 0.18
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:221298223 original size:31 final size:31
Alignment explanation
Indices: 221298188--221298282 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
221298178 CGTTTACAGT
221298188 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
221298219 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
221298250 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
221298281 AA
1 AA
221298283 TATGAAAAGG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:221300700 original size:26 final size:26
Alignment explanation
Indices: 221300677--221300829 Score: 144
Period size: 27 Copynumber: 5.7 Consensus size: 26
221300667 TTTGGTTTAC
221300677 AAAATTACCAAAATACCCTAGTTTGT
1 AAAATTACCAAAATACCCTAGTTTGT
*
221300703 AAAATTATCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATA-CCCTAGTTTGT
*
221300730 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATA-CCCTAGTTTGT
* ** * **
221300757 GAAATTACTGAAATACCCTCGACCTGT
1 AAAATTACCAAAATACCCTAG-TTTGT
*** * *
221300784 AAAATTATTGAAATACCCTCGACTTGT
1 AAAATTACCAAAATACCCTAG-TTTGT
*
221300811 AAAATTACCAAAGTACCCT
1 AAAATTACCAAAATACCCT
221300830 CGATTTATAG
Statistics
Matches: 108, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
26 18 0.17
27 90 0.83
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (26 bp):
AAAATTACCAAAATACCCTAGTTTGT
Found at i:221300843 original size:27 final size:27
Alignment explanation
Indices: 221300824--221301168 Score: 383
Period size: 27 Copynumber: 12.8 Consensus size: 27
221300814 ATTACCAAAG
221300824 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
221300851 TACCCTCGATTTGTAAAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
221300878 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* **
221300905 TACCCTC-AGTTTACAGAATTACTATTT
1 TACCCTCGA-TTTATAGAATTACCGTTT
221300932 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * * *
221300959 TACCC-CTAATTTACA-TATTACCATTT
1 TACCCTC-GATTTATAGAATTACCGTTT
* * *
221300985 TACCC-CAGATTTACATAATTATCGTTT
1 TACCCTC-GATTTATAGAATTACCGTTT
*
221301012 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
221301039 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCGTTT
**
221301066 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * * **
221301093 TACCCTTGATTTACAAAATTACTATTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * * *
221301120 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
221301147 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTAC
221301169 TAAAATACCC
Statistics
Matches: 284, Mismatches: 29, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
26 24 0.08
27 258 0.91
28 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCGTTT
Found at i:221300844 original size:54 final size:54
Alignment explanation
Indices: 221300679--221300899 Score: 144
Period size: 54 Copynumber: 4.1 Consensus size: 54
221300669 TGGTTTACAA
* * * * * * * *
221300679 AATTACCAAAATACCCTAG-TTTGTAAAATTATCAAAATACCC-CTAGTTTGTAA
1 AATTACCGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGA-TTTATAG
* * * * * ** * *
221300732 AATTACCAAAATACCC-CTAATTTGTGAAATTACTGAAA-TACCCTCGACCTGTAA
1 AATTACCGAAATACCCTC-GACTTGTAAAATTAC-CAAAGTACCCTCGATTTATAG
**
221300786 AATTATTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGATTTATAG
1 AATTACCGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGATTTATAG
*** * ****
221300840 AATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTATAG
1 AATTACCGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGATTTATAG
221300894 AATTAC
1 AATTAC
221300900 TGTTTTACCC
Statistics
Matches: 133, Mismatches: 29, Indels: 11
0.77 0.17 0.06
Matches are distributed among these distances:
53 19 0.14
54 108 0.81
55 6 0.05
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (54 bp):
AATTACCGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGATTTATAG
Found at i:221301205 original size:54 final size:54
Alignment explanation
Indices: 221301093--221301232 Score: 127
Period size: 54 Copynumber: 2.6 Consensus size: 54
221301083 ATTACTATTT
* *** * ***
221301093 TACCCTTGATTTACAAAATTACTATTTTACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTGATTTACAAAATTACCGCAA
* ***
221301147 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTGAAATTACCGCAA
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTGATTTACAAAATTACCGCAA
* ** * *
221301201 TACCCTCAATTTGTAAAACTACCAAAATACCC
1 TACCCTCGATTTACAAAATTACTAAAATACCC
221301233 CTGTATGGTA
Statistics
Matches: 69, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
54 69 1.00
ACGTcount: A:0.35, C:0.23, G:0.07, T:0.35
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACTAAAATACCCTTGATTTACAAAATTACCGCAA
Found at i:221302438 original size:25 final size:25
Alignment explanation
Indices: 221302409--221302456 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
221302399 TTATAATATG
* * *
221302409 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
221302434 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
221302457 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:221302532 original size:19 final size:20
Alignment explanation
Indices: 221302500--221302556 Score: 82
Period size: 19 Copynumber: 3.0 Consensus size: 20
221302490 TAAATATGGT
221302500 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
221302520 ATGT-TGCTATGCACATGAT
1 ATGTATGATATGCACATGAA
221302539 ATGTATGATATGCA-ATGA
1 ATGTATGATATGCACATGA
221302557 GGTAATCATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 21 0.64
20 12 0.36
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:221302634 original size:24 final size:24
Alignment explanation
Indices: 221302607--221302773 Score: 259
Period size: 24 Copynumber: 7.0 Consensus size: 24
221302597 GAGGAAGTGA
221302607 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
221302631 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
221302655 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
221302679 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
221302702 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
221302725 AGAAAGGGCTTTTGCCCCAGTTATT
1 A-AAAGGGCTTATGCCCCAGTTATC
*
221302750 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
221302774 ATGATAAAGC
Statistics
Matches: 136, Mismatches: 3, Indels: 7
0.93 0.02 0.05
Matches are distributed among these distances:
23 24 0.18
24 100 0.74
25 12 0.09
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:221303011 original size:30 final size:29
Alignment explanation
Indices: 221302964--221303055 Score: 157
Period size: 30 Copynumber: 3.1 Consensus size: 29
221302954 CGTTTACAGT
221302964 AAAGGCTTCGGCCAGTAATATGAAATATG
1 AAAGGCTTCGGCCAGTAATATGAAATATG
221302993 AAAGGCTTCGGCCCAGTAATATGAAATATG
1 AAAGGCTTCGG-CCAGTAATATGAAATATG
*
221303023 AAAAGGCTTCGGCCAGTATTATGAAATATG
1 -AAAGGCTTCGGCCAGTAATATGAAATATG
221303053 AAA
1 AAA
221303056 TATGAAAAGG
Statistics
Matches: 60, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
29 14 0.23
30 35 0.58
31 11 0.18
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.24
Consensus pattern (29 bp):
AAAGGCTTCGGCCAGTAATATGAAATATG
Found at i:221312171 original size:39 final size:38
Alignment explanation
Indices: 221312107--221312290 Score: 166
Period size: 39 Copynumber: 4.8 Consensus size: 38
221312097 CATGAGAAAT
* * *
221312107 TGAATG-ATATCCGGGCTAAGCCCCGAAGACAATTATGC
1 TGAATGTATATCCGGGCTAAGACCCGAAGGC-ATTGTGC
*
221312145 TGAAAT-TATATCCGGGTTAAGACCCGAAGGCAATTGTGC
1 TG-AATGTATATCCGGGCTAAGACCCGAAGGC-ATTGTGC
*
221312184 T-AGTGCTATATCCGGGCTAAGACCCGAAGGCATTCGTGC
1 TGAATG-TATATCCGGGCTAAGACCCGAAGGCATT-GTGC
221312223 -G-A-GTCATATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TGAATGT-ATATCCGGGCTAAGACCCGAAGGCA-TTGTGC
* * * *
221312260 -AAATGTGATATCCGGGTTAAGTCCCGTAGGC
1 TGAATGT-ATATCCGGGCTAAGACCCGAAGGC
221312291 CTTGGTGCGG
Statistics
Matches: 124, Mismatches: 12, Indels: 19
0.80 0.08 0.12
Matches are distributed among these distances:
36 1 0.01
37 32 0.26
38 8 0.06
39 83 0.67
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.23
Consensus pattern (38 bp):
TGAATGTATATCCGGGCTAAGACCCGAAGGCATTGTGC
Found at i:221312241 original size:37 final size:38
Alignment explanation
Indices: 221312151--221312335 Score: 160
Period size: 39 Copynumber: 4.8 Consensus size: 38
221312141 ATGCTGAAAT
* *
221312151 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGC
221312190 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGT-C
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGC
* *
221312228 -ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG-
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGAGTGC
* * * * * *
221312265 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAG-TGC
* * * *
221312306 CATAACCGGGCTATGTCCCGAAGGCGATTG
1 TATATCCGGGCTAAGACCCGAAGGC-ATTG
221312336 CGAGTCGCAC
Statistics
Matches: 119, Mismatches: 18, Indels: 17
0.77 0.12 0.11
Matches are distributed among these distances:
37 31 0.26
38 8 0.07
39 56 0.47
40 22 0.18
41 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.24
Consensus pattern (38 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGC
Found at i:221312249 original size:76 final size:78
Alignment explanation
Indices: 221312152--221312335 Score: 203
Period size: 76 Copynumber: 2.4 Consensus size: 78
221312142 TGCTGAAATT
* * *
221312152 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGCT-ATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATG-TGATATCCGGGCTAAGACCCGAAGGCA
221312216 TTCGTGCGAG-T-C
65 TTCGTGCGAGTTAC
* * * * *
221312228 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATGTGATATCCGGGTTAAGTCCCGTAGGCCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATGTGATATCCGGGCTAAGACCCGAAGGCAT
* *
221312293 TGGTGCGGGTTACC
66 TCGTGCGAGTTA-C
* * * *
221312307 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTG
221312336 CGAGTCGCAC
Statistics
Matches: 89, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
75 1 0.01
76 62 0.70
77 1 0.01
79 25 0.28
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.23
Consensus pattern (78 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATGTGATATCCGGGCTAAGACCCGAAGGCAT
TCGTGCGAGTTAC
Found at i:221316496 original size:43 final size:43
Alignment explanation
Indices: 221316448--221316531 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
221316438 AAATCGTACA
*
221316448 ATGCCAATGTCCCAAAC-GTGGTCTTACAT-GTAACCACATATCG
1 ATGCCAATGTCCCAAACAG-GGTCTTAC-TCGTAAACACATATCG
* *
221316491 ATGCCACTGTCCCAGACAGGGTCTTACTCGTAAACACATAT
1 ATGCCAATGTCCCAAACAGGGTCTTACTCGTAAACACATAT
221316532 GAAAATCCCA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 1 0.03
43 34 0.94
44 1 0.03
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAAACAGGGTCTTACTCGTAAACACATATCG
Found at i:221319055 original size:40 final size:40
Alignment explanation
Indices: 221319010--221319177 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
221319000 CGGAATATAA
221319010 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
221319050 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
221319090 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
221319130 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
221319170 CCGGATAT
1 CCGGATAT
221319178 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:221326650 original size:21 final size:20
Alignment explanation
Indices: 221326624--221326662 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
221326614 TGATATGTGG
221326624 ATGACTTCGACTTTAGATCGA
1 ATGACTTCGACTTT-GATCGA
221326645 ATGACTTCGACTTTGATC
1 ATGACTTCGACTTTGATC
221326663 CCGAATCGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.36
Consensus pattern (20 bp):
ATGACTTCGACTTTGATCGA
Found at i:221327075 original size:40 final size:40
Alignment explanation
Indices: 221327030--221327195 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
221327020 CGGAATATAA
221327030 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * *
221327070 CCGGATAGAAT-ACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
221327109 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
221327149 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
221327188 CCGGATAT
1 CCGGATAT
221327196 CATTCAATTT
Statistics
Matches: 107, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
38 1 0.01
39 46 0.43
40 60 0.56
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:221327094 original size:39 final size:39
Alignment explanation
Indices: 221327046--221327155 Score: 141
Period size: 39 Copynumber: 2.8 Consensus size: 39
221327036 ATAATCACGT
* *
221327046 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGA-ATACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAGACACTA
* *
221327085 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAGACACTA
*
221327125 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
221327156 TAATTTCCAG
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
39 33 0.52
40 30 0.48
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.24
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAGACACTA
Found at i:221332862 original size:46 final size:44
Alignment explanation
Indices: 221332803--221332917 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
221332793 ACAGGACAGA
* *
221332803 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
221332849 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
221332893 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
221332918 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:221332898 original size:44 final size:45
Alignment explanation
Indices: 221332803--221332936 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
221332793 ACAGGACAGA
* *
221332803 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
221332849 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
221332893 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
221332937 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:221338984 original size:46 final size:44
Alignment explanation
Indices: 221338925--221339039 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
221338915 ACAGGACAGA
* *
221338925 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
221338971 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
221339015 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
221339040 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:221339020 original size:44 final size:45
Alignment explanation
Indices: 221338925--221339058 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
221338915 ACAGGACAGA
* *
221338925 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
221338971 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
221339015 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
221339059 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:221341386 original size:44 final size:45
Alignment explanation
Indices: 221341296--221341424 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
221341286 GACAGAACGA
*
221341296 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
221341342 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
221341386 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
221341425 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:221342858 original size:2 final size:2
Alignment explanation
Indices: 221342853--221342883 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
221342843 TGTATATACG
221342853 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
221342884 GTACAGAGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:221345111 original size:15 final size:16
Alignment explanation
Indices: 221345091--221345126 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
221345081 TAGGGACTTA
221345091 AATT-TATATGTCTAG
1 AATTATATATGTCTAG
221345106 AATTTATATATGTCTAG
1 AA-TTATATATGTCTAG
221345123 AATT
1 AATT
221345127 CTGAATGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 2 0.11
16 4 0.21
17 13 0.68
ACGTcount: A:0.36, C:0.06, G:0.11, T:0.47
Consensus pattern (16 bp):
AATTATATATGTCTAG
Found at i:221356320 original size:20 final size:20
Alignment explanation
Indices: 221356257--221356321 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
221356247 CTTCTATCTA
* *
221356257 TACAGCTCTAGATGTACTTG
1 TACATCTCTAGTTGTACTTG
* *
221356277 TACATCCCCT-GATATGTACATG
1 TACAT-CTCTAG-T-TGTACTTG
221356299 TACATCTCTAGTTGTACTTG
1 TACATCTCTAGTTGTACTTG
221356319 TAC
1 TAC
221356322 TTTTCCCTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
20 15 0.43
21 7 0.20
22 13 0.37
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (20 bp):
TACATCTCTAGTTGTACTTG
Found at i:221361395 original size:40 final size:39
Alignment explanation
Indices: 221361323--221361506 Score: 158
Period size: 40 Copynumber: 4.6 Consensus size: 39
221361313 GCCACTCGTT
* * * *
221361323 CAAATACCTTCGGGACATAGCCCGGTTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGATT-TAGTAACTCGCA
* * *
221361363 CAAATGCCTTCGGGACTTAACCCTGATTTAGTAATTTGCA
1 CAAATGCCTTCGGGACTTAGCCC-GATTTAGTAACTCGCA
* *
221361403 CAAATGCCTT-TGGATCTTAGTCCGAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCG-ATTTAGTAACTCGCA
* * * * *
221361443 CAAATGCCTTC-GAATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAG-CCCGATTTAGTAAC-TCGCA
221361484 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
221361507 GACATCATTC
Statistics
Matches: 117, Mismatches: 20, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
39 7 0.06
40 95 0.81
41 15 0.13
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.28
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGATTTAGTAACTCGCA
Found at i:221361502 original size:80 final size:80
Alignment explanation
Indices: 221361323--221361506 Score: 187
Period size: 80 Copynumber: 2.3 Consensus size: 80
221361313 GCCACTCGTT
* * * * * *
221361323 CAAATACCTTCGGGACATAGCCCGGTTATAGTAGCTCGCACAAATGCCTTCGGGACTTAACCCTG
1 CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATGCCTTCGGAACTTAACCCGG
* *
221361388 ATTTAGTAATTTGCA
66 ATATAGTAATTAGCA
* * **
221361403 CAAATGCCTT-TGGATCTTAGTCCGAATT-TAGTAACTCGCACAAATGCCTTC-GAATCTTAGTC
1 CAAATGCCTTCGGGA-CTTAGCCCG-ATTATAGTAACTCGCACAAATGCCTTCGGAA-CTTAACC
*
221361465 CGGATATAGTCACTTAGCA
63 CGGATATAGT-AATTAGCA
221361484 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
221361507 GACATCATTC
Statistics
Matches: 84, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
79 5 0.06
80 64 0.76
81 15 0.18
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.28
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATGCCTTCGGAACTTAACCCGG
ATATAGTAATTAGCA
Found at i:221361508 original size:40 final size:39
Alignment explanation
Indices: 221361304--221361508 Score: 155
Period size: 40 Copynumber: 5.1 Consensus size: 39
221361294 TGGAGTTTAA
* ** * *
221361304 CCGGATATAGCCACTCGTTCAAATACCTTCGGGACATAGC
1 CCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGC
* *
221361344 CCGGTTATAGTAGCTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTA-CTCGCACAAATGCCTTCGGGACTTAGC
* * * * * *
221361384 CCTGATTTAGTAATTTGCACAAATGCCTT-TGGATCTTAGT
1 CCGGATATAGT-ACTCGCACAAATGCCTTCGGGA-CTTAGC
* * * *
221361424 CCGAATTTAGTAACTCGCACAAATGCCTTC-GAATCTTAGT
1 CCGGATATAGT-ACTCGCACAAATGCCTTCGGGA-CTTAGC
*
221361464 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGT-AC-TCGCACAAATGCCTTCGGGACTTAGC
221361504 CCGGA
1 CCGGA
221361509 CATCATTCGA
Statistics
Matches: 133, Mismatches: 26, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
39 4 0.03
40 118 0.89
41 11 0.08
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (39 bp):
CCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:221363965 original size:29 final size:29
Alignment explanation
Indices: 221363903--221364005 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
221363893 GTGACGAGAT
* * *
221363903 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
221363932 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
221363961 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
221363990 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
221364006 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:221371980 original size:29 final size:29
Alignment explanation
Indices: 221371918--221372020 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
221371908 GTGACGAGAT
* * *
221371918 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
221371947 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
221371976 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
221372005 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
221372021 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:221378718 original size:30 final size:29
Alignment explanation
Indices: 221378624--221378725 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
221378614 TATAGTGAAT
* * *
221378624 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
221378653 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
221378681 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
221378711 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
221378726 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:221386920 original size:27 final size:28
Alignment explanation
Indices: 221386887--221386985 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
221386877 ATAGTGATTC
221386887 CGCACACTTAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
221386914 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
221386942 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
221386972 CGCACACTTAGTGC
1 CGCACACTTAGTGC
221386986 CATTCTCATG
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 22 0.35
28 22 0.35
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:221390708 original size:17 final size:17
Alignment explanation
Indices: 221390686--221390721 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
221390676 GAATTAATGG
221390686 TAAGTTTTCTTATTAAC
1 TAAGTTTTCTTATTAAC
221390703 TAAGTTTTCTTATTAAC
1 TAAGTTTTCTTATTAAC
221390720 TA
1 TA
221390722 TACAAGCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.11, G:0.06, T:0.53
Consensus pattern (17 bp):
TAAGTTTTCTTATTAAC
Found at i:221395035 original size:15 final size:15
Alignment explanation
Indices: 221394989--221395036 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
221394979 AAACCTACAA
*
221394989 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
221395004 AAA-TCCATCTACAT
1 AAACTTCATATCCAT
221395018 AAACTTCATATCCAT
1 AAACTTCATATCCAT
221395033 AAAC
1 AAAC
221395037 CCACCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:221396100 original size:17 final size:18
Alignment explanation
Indices: 221396058--221396106 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
221396048 AGTTGAAAAG
221396058 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
221396077 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
221396094 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
221396107 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:221396994 original size:40 final size:40
Alignment explanation
Indices: 221396928--221397094 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
221396918 AAATTGAATG
* * *
221396928 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
221396967 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
221397007 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
221397047 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
221397087 ATATCCGG
1 ATATCCGG
221397095 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:221404101 original size:17 final size:18
Alignment explanation
Indices: 221404059--221404107 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
221404049 AGTTGAAAAG
221404059 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
221404078 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
221404095 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
221404108 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:221404996 original size:40 final size:40
Alignment explanation
Indices: 221404930--221405096 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
221404920 AAATTGAATG
* * *
221404930 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
221404969 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
221405009 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
221405049 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
221405089 ATATCCGG
1 ATATCCGG
221405097 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:221407306 original size:25 final size:24
Alignment explanation
Indices: 221407201--221407320 Score: 174
Period size: 25 Copynumber: 5.0 Consensus size: 24
221407191 GCTTTATCAT
*
221407201 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
221407226 ATAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
221407249 ATAACT-GGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
221407272 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
221407297 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
221407321 CACTTCCTCC
Statistics
Matches: 88, Mismatches: 3, Indels: 9
0.88 0.03 0.09
Matches are distributed among these distances:
22 5 0.06
23 29 0.33
24 23 0.26
25 31 0.35
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:221407393 original size:20 final size:20
Alignment explanation
Indices: 221407368--221407431 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
221407358 TTATGAATAC
221407368 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
221407388 ATCA--TGC-TATCATACAT
1 ATCATGTGCATATCATACAT
*
221407405 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
221407425 ACCATGT
1 ATCATGT
221407432 TTATCAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
17 13 0.34
18 3 0.08
19 3 0.08
20 19 0.50
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:221407400 original size:17 final size:18
Alignment explanation
Indices: 221407374--221407430 Score: 71
Period size: 17 Copynumber: 3.1 Consensus size: 18
221407364 ATACATCATG
221407374 TGCATATCATACATATCA
1 TGCATATCATACATATCA
*
221407392 TGC-TATCATACATGTCA
1 TGCATATCATACATATCA
*
221407409 TGTGCATATCATACATACCA
1 --TGCATATCATACATATCA
221407429 TG
1 TG
221407431 TTTATCAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
17 13 0.39
18 5 0.15
19 3 0.09
20 12 0.36
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.33
Consensus pattern (18 bp):
TGCATATCATACATATCA
Found at i:221407448 original size:37 final size:37
Alignment explanation
Indices: 221407370--221407448 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 37
221407360 ATGAATACAT
* * **
221407370 CATGTGCATATCATACATATCATGCTATCATACATGT
1 CATGTGCATATCATACATACCATGCTATCATAAATCC
*
221407407 CATGTGCATATCATACATACCATGTTTATCA-AAATCC
1 CATGTGCATATCATACATACCATG-CTATCATAAATCC
221407444 CATGT
1 CATGT
221407449 ATTAAATTCA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
37 31 0.86
38 5 0.14
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.34
Consensus pattern (37 bp):
CATGTGCATATCATACATACCATGCTATCATAAATCC
Found at i:221415013 original size:31 final size:31
Alignment explanation
Indices: 221414975--221415038 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
221414965 CCTTTTCATA
221414975 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
221415006 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
221415037 TT
1 TT
221415039 ACTATAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:221415335 original size:25 final size:24
Alignment explanation
Indices: 221415243--221415349 Score: 162
Period size: 24 Copynumber: 4.4 Consensus size: 24
221415233 CTGGAGGCCT
*
221415243 AGCCTCTTTTAATAACTGGGGTA-A
1 AGCC-CTTTTAATAACTGGGGCATA
221415267 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
221415291 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
* *
221415315 AGCCATTTATCATAACTGGGGCATA
1 AGCCCTTT-TAATAACTGGGGCATA
221415340 AGCCCTTTTA
1 AGCCCTTTTA
221415350 CACTTCCTCC
Statistics
Matches: 76, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
23 17 0.22
24 37 0.49
25 22 0.29
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.31
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:221415341 original size:49 final size:48
Alignment explanation
Indices: 221415224--221415349 Score: 168
Period size: 49 Copynumber: 2.6 Consensus size: 48
221415214 GCATAGCTGC
* * *
221415224 TTTATCAT-ACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGTAAAGCCC
1 TTTATCATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAGCCA
*
221415272 TTT-TAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCA
1 TTTATCATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCA-AAGCCA
221415320 TTTATCATAACTGGGGCATAAGCCCTTTTA
1 TTTATCATAACTGGGGCATAAGCCCTTTTA
221415350 CACTTCCTCC
Statistics
Matches: 69, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
47 24 0.35
48 20 0.29
49 25 0.36
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (48 bp):
TTTATCATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAGCCA
Found at i:221415420 original size:9 final size:9
Alignment explanation
Indices: 221415406--221415458 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
221415396 ACATCATGTG
221415406 CATATCATA
1 CATATCATA
*
221415415 CATATCATGTG
1 CATATCA--TA
221415426 CATATCATA
1 CATATCATA
*
221415435 CATGTCATA
1 CATATCATA
221415444 TGCATATCATA
1 --CATATCATA
221415455 CATA
1 CATA
221415459 CCATGTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 20 0.56
11 16 0.44
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.34
Consensus pattern (9 bp):
CATATCATA
Found at i:221415423 original size:20 final size:20
Alignment explanation
Indices: 221415398--221415464 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
221415388 TTACGAATAC
221415398 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
221415418 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
221415438 GTCATATGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
221415458 ACCATGT
1 ATCATGT
221415465 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:221415438 original size:15 final size:15
Alignment explanation
Indices: 221415410--221415453 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
221415400 CATGTGCATA
221415410 TCATA-CATATCATG
1 TCATATCATATCATG
221415424 TGCATATCATA-CATG
1 T-CATATCATATCATG
221415439 TCATATGCATATCAT
1 TCATAT-CATATCAT
221415454 ACATACCATG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.23
15 13 0.50
16 7 0.27
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.36
Consensus pattern (15 bp):
TCATATCATATCATG
Found at i:221417734 original size:14 final size:14
Alignment explanation
Indices: 221417715--221417742 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
221417705 ACCTATGTAA
221417715 TCATTTATACCATC
1 TCATTTATACCATC
221417729 TCATTTATACCATC
1 TCATTTATACCATC
221417743 ACATAAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (14 bp):
TCATTTATACCATC
Found at i:221420084 original size:39 final size:40
Alignment explanation
Indices: 221420026--221420126 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
221420016 AAATTGAATG
* *
221420026 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
221420065 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
221420105 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
221420127 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:221420119 original size:40 final size:40
Alignment explanation
Indices: 221420026--221420176 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
221420016 AAATTGAATG
* * * * *
221420026 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
221420065 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
221420105 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* *
221420145 AAATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
221420177 AAATCGTGAT
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
39 32 0.33
40 62 0.65
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:221420191 original size:40 final size:38
Alignment explanation
Indices: 221420022--221420193 Score: 161
Period size: 40 Copynumber: 4.4 Consensus size: 38
221420012 TGAGAAATTG
* *
221420022 AATG-ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-A
1 AATGTATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCA
* * *
221420061 AAT-TATATCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
221420098 AGTAGCTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA
1 AAT-G-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
221420138 AGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 A-ATG-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
221420178 AATCGTGATATCCGGG
1 AAT-GT-ATATCCGGG
221420194 TAAAGTCCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
36 2 0.02
37 4 0.04
38 2 0.02
39 26 0.24
40 74 0.68
41 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (38 bp):
AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
Found at i:221428106 original size:40 final size:39
Alignment explanation
Indices: 221427938--221428108 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
221427928 AGAAATTGAA
* *
221427938 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
221427978 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
221428018 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
221428058 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
221428098 TGATATCCGGG
1 TGATATCCGGG
221428109 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:221433637 original size:29 final size:29
Alignment explanation
Indices: 221433604--221433677 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
221433594 GTGACGAGAT
221433604 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
221433633 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
221433662 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
221433678 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:221433693 original size:29 final size:29
Alignment explanation
Indices: 221433661--221433736 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
221433651 CTGGAAATAT
* *
221433661 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
221433690 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
221433719 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
221433737 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:221433704 original size:58 final size:58
Alignment explanation
Indices: 221433604--221433736 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
221433594 GTGACGAGAT
* * * * * *
221433604 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
221433662 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
221433720 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
221433737 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:221441509 original size:29 final size:29
Alignment explanation
Indices: 221441476--221441549 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
221441466 GTGACGAGAT
221441476 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
221441505 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
221441534 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
221441550 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:221441565 original size:29 final size:29
Alignment explanation
Indices: 221441533--221441608 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
221441523 CTGGAAATAT
* *
221441533 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
221441562 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
221441591 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
221441609 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:221441576 original size:58 final size:58
Alignment explanation
Indices: 221441476--221441608 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
221441466 GTGACGAGAT
* * * * * *
221441476 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
221441534 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
221441592 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
221441609 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:221449368 original size:29 final size:29
Alignment explanation
Indices: 221449349--221449471 Score: 158
Period size: 29 Copynumber: 4.2 Consensus size: 29
221449339 TCCCACACCC
* * * *
221449349 AGTGCCGTATTTTTCCAGCTTGCACACAT
1 AGTGCCATATATTTCCAGCTCGCACACTT
* *
221449378 AGTGTCATATTTTTCCAGCAT-GCACACTT
1 AGTGCCATATATTTCCAGC-TCGCACACTT
*
221449407 AGTGCCATATATTTCCAGCACGCACACTT
1 AGTGCCATATATTTCCAGCTCGCACACTT
*
221449436 AGTGCCATATATTTCCAGCACGCACACTT
1 AGTGCCATATATTTCCAGCTCGCACACTT
221449465 AGTGCCA
1 AGTGCCA
221449472 ATCTCGTCAC
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
29 85 0.99
30 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.31
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCTCGCACACTT
Found at i:221449404 original size:58 final size:58
Alignment explanation
Indices: 221449311--221449471 Score: 160
Period size: 58 Copynumber: 2.8 Consensus size: 58
221449301 AATTTAAGCC
*** * * * * * *
221449311 CGCACACATAGTGCCATACCCTTCGAGCTCCCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* * * * **
221449369 TGCACACATAGTGTCATATTTTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* **
221449427 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCA
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACCCAGTGCCA
221449472 ATCTCGTCAC
Statistics
Matches: 84, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
58 84 1.00
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.27
Consensus pattern (58 bp):
CGCACACATAGTGCCATATATTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
Found at i:221456286 original size:29 final size:29
Alignment explanation
Indices: 221456254--221456414 Score: 171
Period size: 29 Copynumber: 5.6 Consensus size: 29
221456244 AATTTAAGCC
* *** *
221456254 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCT
** * *
221456283 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCT
* * * *
221456312 TGCACACATAGTGTCATATTTTTCCAGCAT
1 CGCACACTTAGTGCCATATATTTCCAGC-T
*
221456342 -GCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCT
*
221456370 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCT
221456399 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
221456415 ATCTCGTCAC
Statistics
Matches: 114, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
29 113 0.99
30 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCT
Found at i:221460024 original size:40 final size:40
Alignment explanation
Indices: 221459932--221460154 Score: 274
Period size: 40 Copynumber: 5.6 Consensus size: 40
221459922 TATTCAAATG
221459932 ATATCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* * * *
221459971 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
221460011 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
221460051 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* * *
221460091 ATATCCGGGCTAAG-TCCCGAAGACATCTGTGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
*
221460131 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
221460155 CTTGTGCAAG
Statistics
Matches: 159, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
39 21 0.13
40 136 0.86
41 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:221460073 original size:80 final size:79
Alignment explanation
Indices: 221459932--221460190 Score: 317
Period size: 80 Copynumber: 3.3 Consensus size: 79
221459922 TATTCAAATG
* * *
221459932 ATATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGTGACTATAACCGGACTAAGATCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
221459996 TTCGTGCGAGTTGCT
66 TT-GTGCAAGTAGCT
* * *
221460011 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
221460076 TTTGTGCTAG-CGACT
66 -TTGTGCAAGTAG-CT
* * * *
221460091 ATATCCGGGCTAAGTCCCGAAGACATCTGTGCTAGTGACCATATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
*
221460156 TTGTGCAAGTAGTT
66 TTGTGCAAGTAGCT
* *
221460170 ATATCC-GGCTAAATCTCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
221460191 ATTCTTGAGT
Statistics
Matches: 156, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
78 13 0.08
79 39 0.25
80 102 0.65
81 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTGTGCAAGTAGCT
Found at i:221460144 original size:120 final size:119
Alignment explanation
Indices: 221459932--221460154 Score: 326
Period size: 120 Copynumber: 1.9 Consensus size: 119
221459922 TATTCAAATG
* * *
221459932 ATATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAGTGACTATAACCGGACTAAGATCCGAAGGCAT
1 ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGCGACTATAACCGGACTAAGATCCGAAGACAT
*
221459997 TCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
66 TCGTGCGAGTTGCCATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
* *
221460051 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAG-TCCCGAAGAC
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGCGACTATAACCGGACTAAGAT-CCGAAGAC
*
221460115 A-TCTGTGCTAG-TGACCATATCCGGGCTAAGACCCGAAGGC
64 ATTC-GTGCGAGTTG-CCATATCCGGGCTAAGACCCGAAGGC
221460155 CTTGTGCAAG
Statistics
Matches: 93, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
119 28 0.30
120 65 0.70
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (119 bp):
ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGCGACTATAACCGGACTAAGATCCGAAGACAT
TCGTGCGAGTTGCCATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
Found at i:221463719 original size:40 final size:40
Alignment explanation
Indices: 221463645--221463786 Score: 167
Period size: 40 Copynumber: 3.5 Consensus size: 40
221463635 CCGCACCAAG
* * * * * *
221463645 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
221463685 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
221463725 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
221463765 GCCTTCGGGTCTTAACCCGGAT
1 GCCTTCGGGTCTTAGCCCGGAT
221463787 GTAATTTTCA
Statistics
Matches: 87, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 87 1.00
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:221463805 original size:40 final size:40
Alignment explanation
Indices: 221463677--221463828 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
221463667 ATCACGATTT
* * * * *
221463677 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
221463717 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * * **
221463757 GCACAATTGCCTTCGGGTCTTAACCCGGATGTA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
221463797 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
221463829 CATTCAATTT
Statistics
Matches: 95, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 4 0.04
40 89 0.94
41 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:221471832 original size:40 final size:40
Alignment explanation
Indices: 221471758--221471902 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
221471748 CCGCACCAAG
* * * * * *
221471758 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
221471798 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
221471838 GCCTTCGGGTCTT-GCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
221471877 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
221471903 TTTTCAGCAT
Statistics
Matches: 88, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 33 0.38
40 55 0.62
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:221471917 original size:40 final size:40
Alignment explanation
Indices: 221471790--221471940 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
221471780 ATCACGATTT
* * * * *
221471790 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
221471830 GCACGAA-TGCCTTCGGGTCTT-GCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * **
221471869 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
221471909 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
221471941 CATTCAATTT
Statistics
Matches: 95, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 34 0.36
40 57 0.60
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:221473732 original size:29 final size:28
Alignment explanation
Indices: 221473665--221473736 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 28
221473655 AAAATTGTAC
* * *
221473665 AGCACTAAGTGTGCGAGTTTGATTCTAT
1 AGCACTAAGTGTGCGAGTCTGAATATAT
221473693 AGCACTAAGTGTGCGAG-CTGAAAATATAT
1 AGCACTAAGTGTGCGAGTCTG--AATATAT
221473722 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
221473737 GATTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 2 0.05
28 17 0.44
29 20 0.51
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGAATATAT
Found at i:221481544 original size:30 final size:30
Alignment explanation
Indices: 221481508--221481608 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
221481498 GACAAGATTG
* * *
221481508 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
221481538 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
221481566 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
221481595 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
221481609 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:221481620 original size:29 final size:28
Alignment explanation
Indices: 221481537--221481612 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
221481527 AAAATTGTAC
* *
221481537 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
221481565 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
221481594 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
221481613 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:221484207 original size:106 final size:105
Alignment explanation
Indices: 221484115--221484791 Score: 481
Period size: 96 Copynumber: 6.8 Consensus size: 105
221484105 TTTATTTTAA
221484115 ATATTTTATTTTAATCACG-AAAATATTTTGTCTACTTTTATTTTATTTTAAATTACCTAATTAA
1 ATATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTAAATTACCTAATTAA
221484179 ATTAAATTGTATTTAAAGTTTTATTTTAAATATTTTATTT
66 ATTAAATTGTATTTAAAGTTTTATTTTAAATATTTTATTT
*
221484219 ATTTTATTTT-TTTTAATCAAGAAAAATATTTT-TCTACTTTTA-TTTATTTTTAAATTA--T--
1 A---TATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTA-TTTTAAATTACCTAA
*
221484277 CT-AATTAAATTGTATTTAAAGTTTTATTTTAAATATTTTATTT
62 TTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTTTATTT
*
221484320 -TA-TTTA-TTTAATCACGAAAAATATTTTGTATACTTTTATTTTATTTTAAATTACCTAATTAA
1 ATATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTAAATTACCTAATTAA
*
221484382 ATTAAATTGTATTTAAA-ATTTA-TTT---TATTTTATTT
66 ATTAAATTGTATTTAAAGTTTTATTTTAAATATTTTATTT
* *** ******* * * **
221484417 A-A--TCATGAAAAT-ATTTTGTCTA-CTT-T-TA-TTTTTTTTTAAATTACCTAATTA---AAT
1 ATATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTA---AATTACCTAAT
* *
221484471 T-AA----ATTGTA-TTAAATTTTTATTTTAAATGTTTTATTTT
63 TAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTTTA-TTT
* * * * * * * * **
221484509 AT-TTTTTTTAATCA-CGA-AAAATATTTTGTCTACTTTTA-TTTTATTTTAAATTACCTAATTA
1 ATATTTTATT-TTAATC-ACGAAAAATATT-T-T--GTCTACTTTTATTTTATTTTA---AATTA
221484570 ---AATTAAATTAAATTTGTATTTAAAGTTTTATTTTAAATA-TTTATTT
57 CCTAATTAAATTAAA-TTGTATTTAAAGTTTTATTTTAAATATTTTATTT
*
221484616 -TA-TTTATTTTAATCATGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTA
1 ATATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTA-TTTTAAATTACCTAATTA
*
221484679 AATTAAATTGTATTT-AA----T-GTTT---TATTTTATTT
65 AATTAAATTGTATTTAAAGTTTTATTTTAAATATTTTATTT
221484711 -TATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATAT
1 ATATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTA-TTTTAAATTACCT-A-AT
221484775 TAAATTAAATTGTATTT
63 TAAATTAAATTGTATTT
221484792 TTAAATATTG
Statistics
Matches: 467, Mismatches: 50, Indels: 118
0.74 0.08 0.19
Matches are distributed among these distances:
86 5 0.01
87 10 0.02
88 3 0.01
91 8 0.02
92 20 0.04
93 2 0.00
94 5 0.01
95 20 0.04
96 84 0.18
97 40 0.09
98 25 0.05
99 1 0.00
100 3 0.01
101 52 0.11
102 52 0.11
103 20 0.04
104 18 0.04
105 8 0.02
106 44 0.09
107 20 0.04
108 9 0.02
109 18 0.04
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.56
Consensus pattern (105 bp):
ATATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTAAATTACCTAATTAA
ATTAAATTGTATTTAAAGTTTTATTTTAAATATTTTATTT
Found at i:221484314 original size:87 final size:92
Alignment explanation
Indices: 221484223--221484791 Score: 502
Period size: 96 Copynumber: 5.8 Consensus size: 92
221484213 TTATTTATTT
* *
221484223 TATTTTTTTTAATCAAGAAAAATATTTT-TCTACTTTTA-TTTATTTTTAAATTA-T-CT-AATT
1 TATTTTTTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACTATTAAATT
221484283 AAATTGTATTTAAAGTTTTATTTTAAATA
66 AAATTGTATTTAAAGTTTTATTTT-AA-A
*
221484312 TTTTATTTTATTTATTTAATCACGAAAAATATTTTGTATACTTTTATTTTA-TTTTAAATTACCT
1 ---TA--TT-TTT-TTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTA-CT
*
221484376 AATTAAATTAAATTGTATTTAAA-ATTTA-TTT---
58 -ATTAAATTAAATTGTATTTAAAGTTTTATTTTAAA
* *
221484407 TATTTTATTTAATCATG-AAAATATTTTGTCTACTTTTATTTT-TTTTTAAATTACCTAATTAAA
1 TATTTTTTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTA-CT-ATTAAA
*
221484470 TTAAATTGTA-TTAAATTTTTATTTTAAATGTTTTA
64 TTAAATTGTATTTAAAGTTTTATTTT-AA------A
221484505 TTTTATTTTTTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTA-TTTTAAATTACCTAATT
1 ---TATTTTTTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTA-C----T
221484569 AAATTAAATTAAATTTGTATTTAAAGTTTTATTTTAAATA
58 --ATTAAATTAAA-TTGTATTTAAAGTTTTATTTT-AA-A
*
221484609 TTTATTTTATTTATTTTAATCATGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCT
1 --TA---T-TTT-TTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTA-CT
* **
221484674 AATTAAATTAAATTGTATTTAATGTTTTATTTTATTT
58 -ATTAAATTAAATTGTATTTAAAGTTTTATTTTA-AA
221484711 TATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATATT
1 TATTTT-TTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTA-C---TATT
221484776 AAATTAAATTGTATTT
61 AAATTAAATTGTATTT
221484792 TTAAATATTG
Statistics
Matches: 415, Mismatches: 16, Indels: 86
0.80 0.03 0.17
Matches are distributed among these distances:
86 5 0.01
87 58 0.14
88 12 0.03
89 2 0.00
90 2 0.00
92 4 0.01
94 2 0.00
95 3 0.01
96 74 0.18
97 20 0.05
98 23 0.06
99 2 0.00
100 5 0.01
101 20 0.05
102 56 0.13
103 24 0.06
104 14 0.03
105 1 0.00
106 2 0.00
107 15 0.04
108 42 0.10
109 29 0.07
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.56
Consensus pattern (92 bp):
TATTTTTTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACTATTAAATT
AAATTGTATTTAAAGTTTTATTTTAAA
Found at i:221484404 original size:41 final size:41
Alignment explanation
Indices: 221484357--221484498 Score: 117
Period size: 41 Copynumber: 3.3 Consensus size: 41
221484347 GTATACTTTT
221484357 ATTTTATTTTAAATTACCTAATTAAATTAAATTGTATTTAA
1 ATTTTATTTTAAATTACCTAATTAAATTAAATTGTATTTAA
* ** ** * ** *
221484398 AATTTATTTTATTTTATTTAATCATGAAAATATTTTGTCTACTTT-T
1 ATTTTATTTTAAATTACCTAAT--T-AAATTAAATTG--TA-TTTAA
*
221484444 ATTTTTTTTTAAATTACCTAATTAAATTAAATTGTA-TTAA
1 ATTTTATTTTAAATTACCTAATTAAATTAAATTGTATTTAA
221484484 ATTTTTATTTTAAAT
1 A-TTTTATTTTAAAT
221484499 GTTTTATTTT
Statistics
Matches: 73, Mismatches: 20, Indels: 16
0.67 0.18 0.15
Matches are distributed among these distances:
39 2 0.03
40 1 0.01
41 31 0.42
43 9 0.12
44 9 0.12
46 18 0.25
47 3 0.04
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.56
Consensus pattern (41 bp):
ATTTTATTTTAAATTACCTAATTAAATTAAATTGTATTTAA
Found at i:221484404 original size:46 final size:46
Alignment explanation
Indices: 221484353--221484495 Score: 136
Period size: 46 Copynumber: 3.2 Consensus size: 46
221484343 TTTTGTATAC
221484353 TTTTATTTTATTTTAAATTACCTAATTAAATTAAATTGTATTTAAA
1 TTTTATTTTATTTTAAATTACCTAATTAAATTAAATTGTATTTAAA
* * * * * * * * * *
221484399 ATTTATTTTATTTT-ATTTA-ATCATGAAA--ATATTTTGTCT-AC
1 TTTTATTTTATTTTAAATTACCTAATTAAATTAAATTGTATTTAAA
*
221484440 TTTTATTTTTTTTTAAATTACCTAATTAAATTAAATTGTA-TTAAA
1 TTTTATTTTATTTTAAATTACCTAATTAAATTAAATTGTATTTAAA
221484485 TTTTTATTTTA
1 -TTTTATTTTA
221484496 AATGTTTTAT
Statistics
Matches: 69, Mismatches: 22, Indels: 12
0.67 0.21 0.12
Matches are distributed among these distances:
41 13 0.19
42 11 0.16
43 6 0.09
44 7 0.10
45 10 0.14
46 22 0.32
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (46 bp):
TTTTATTTTATTTTAAATTACCTAATTAAATTAAATTGTATTTAAA
Found at i:221484498 original size:13 final size:14
Alignment explanation
Indices: 221484480--221484509 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
221484470 TTAAATTGTA
221484480 TTAAAT-TTTTATT
1 TTAAATGTTTTATT
221484493 TTAAATGTTTTATT
1 TTAAATGTTTTATT
221484507 TTA
1 TTA
221484510 TTTTTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (14 bp):
TTAAATGTTTTATT
Found at i:221484545 original size:189 final size:189
Alignment explanation
Indices: 221484056--221484800 Score: 762
Period size: 203 Copynumber: 3.8 Consensus size: 189
221484046 ATTTTAAATA
* *
221484056 TTTTATTTTATTTTTAAATTACCTAATTAAATTCAATTGTATTTAAAGTTTTATTTTAAA----T
1 TTTTATTTT-TTTTTAAATTACCTAATTAAATTAAATTGTA-TTAAATTTTTATTTTAAATTTTT
221484117 ATTTTA---TTTTAATCACG-AAAATATTTTGTCTACTTTTATTTTATTTTAAATTACCT-AATT
64 ATTTTATTTTTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTAAATTACCTAAATT
* *
221484177 AAATTAAATTGTATTTAAAGT-TTTATTTTAAATATTTTATTTATTTTATTTTTTTTAATCAAGA
129 AAATTAAATTGTATTTAAA-TATTTA-TTT---TATTTTATTTA----A-------TCAT-GA-A
* * *
221484241 AAAATATTTTTCTAC
176 AATATTTTG-TCTAC
* * *
221484256 TTTTATTTATTTTTAAATTA--T--CT-AATTAAATTGTATTTAAAGTTTTATTTTAAATATTTT
1 TTTTATTTTTTTTTAAATTACCTAATTAAATTAAATTGTA-TTAAATTTTTATTTTAAAT-TTTT
* *
221484316 ATTTTATTTATTTAATCACGAAAAATATTTTGTATACTTTTATTTTATTTTAAATTACCT-AATT
64 ATTTTATTTTTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTAAATTACCTAAATT
221484380 AAATTAAATTGTATTTAAA-ATTTATTTTATTTTATTTAATCATGAAAATATTTTGTCTAC
129 AAATTAAATTGTATTTAAATATTTATTTTATTTTATTTAATCATGAAAATATTTTGTCTAC
221484440 TTTTATTTTTTTTTAAATTACCTAATTAAATTAAATTGTATTAAATTTTTATTTTAAATGTTTTA
1 TTTTATTTTTTTTTAAATTACCTAATTAAATTAAATTGTATTAAATTTTTATTTTAAAT-TTTTA
221484505 TTTTATTTTTTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTAAATTACCTAATTA
65 TTTTA-TTTTTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTAAATTACC----TA
221484570 AATTAAATTAAATTTGTATTTAAAGTTTTATTTTAAATATTTATTTTATTTATTTTAATCATGAA
125 AATTAAATTAAA-TTGTATTTAAA----TA-TTT--AT-TTTA---T-TTTA-TTTAATCATG-A
221484635 AAATATTTTGTCTAC
175 AAATATTTTGTCTAC
*
221484650 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAATGTTTTATTTT--A-TTTT
1 TTTTATTTT-TTTTTAAATTACCTAATTAAATTAAATTGTATTAAAT-TTTTATTTTAAATTTTT
221484712 ATTTTA---TTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATA
64 ATTTTATTTTTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTA-TTTTAAATTACCTAA-A
221484774 TTAAATTAAATTGTATTTTTAAATATT
127 TTAAATTAAATTGTA--TTTAAATATT
221484801 GTTCAAAAAA
Statistics
Matches: 485, Mismatches: 17, Indels: 88
0.82 0.03 0.15
Matches are distributed among these distances:
184 24 0.05
185 7 0.01
186 2 0.00
187 3 0.01
188 29 0.06
189 63 0.13
193 1 0.00
194 43 0.09
195 12 0.02
197 1 0.00
198 13 0.03
199 20 0.04
200 9 0.02
201 14 0.03
202 25 0.05
203 69 0.14
204 42 0.09
205 12 0.02
207 1 0.00
208 14 0.03
209 10 0.02
210 26 0.05
211 36 0.07
212 9 0.02
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.57
Consensus pattern (189 bp):
TTTTATTTTTTTTTAAATTACCTAATTAAATTAAATTGTATTAAATTTTTATTTTAAATTTTTAT
TTTATTTTTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTAAATTACCTAAATTAA
ATTAAATTGTATTTAAATATTTATTTTATTTTATTTAATCATGAAAATATTTTGTCTAC
Found at i:221484652 original size:108 final size:103
Alignment explanation
Indices: 221484393--221484791 Score: 563
Period size: 96 Copynumber: 3.9 Consensus size: 103
221484383 TTAAATTGTA
*
221484393 TTTAAA-ATTTATTTTATTT-TATTTAATCATG-AAAATATTTTGTCTACTTTTATTTT-TTTTT
1 TTTAAATATTTATTTTATTTAT-TTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTT
*
221484454 AAATTACCTAATTAAATTAAATTGTA-TTAAATTTTTAT
65 AAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTAT
* *
221484492 TTTAAATGTTTTATTTTATTTTTTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTA-TTTT
1 TTTAAAT-ATTTATTTTATTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTT
221484556 AAATTACCTAATTAAATTAAATTAAATTTGTATTTAAAGTTTTAT
65 AAATTACC----T-AATTAAATTAAA-TTGTATTTAAAGTTTTAT
*
221484601 TTTAAATATTTATTTTATTTATTTTAATCATGAAAAATATTTTGTCTACTTTTATTTTATTTTTA
1 TTTAAATATTTATTTTATTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTA
*
221484666 AATTACCTAATTAAATTAAATTGTATTTAATGTTTTAT
66 AATTACCTAATTAAATTAAATTGTATTTAAAGTTTTAT
221484704 TTT--AT-TTTA---T-TTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTA
1 TTTAAATATTTATTTTATTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTA
221484762 AATTACCTAATATTAAATTAAATTGTATTT
66 AATTACCT-A-ATTAAATTAAATTGTATTT
221484792 TTAAATATTG
Statistics
Matches: 277, Mismatches: 8, Indels: 31
0.88 0.03 0.10
Matches are distributed among these distances:
96 55 0.20
97 2 0.01
98 19 0.07
99 6 0.02
100 4 0.01
101 23 0.08
102 38 0.14
103 20 0.07
104 12 0.04
105 1 0.00
106 1 0.00
107 12 0.04
108 54 0.19
109 30 0.11
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.57
Consensus pattern (103 bp):
TTTAAATATTTATTTTATTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTA
AATTACCTAATTAAATTAAATTGTATTTAAAGTTTTAT
Found at i:221484706 original size:5 final size:5
Alignment explanation
Indices: 221484698--221484722 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
221484688 GTATTTAATG
221484698 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
221484723 ATCACGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:221484750 original size:48 final size:46
Alignment explanation
Indices: 221484609--221484759 Score: 128
Period size: 48 Copynumber: 3.2 Consensus size: 46
221484599 ATTTTAAATA
221484609 TTTATTTTATTTATTTTAATCATGAAAAATATTTTGTCTACTTTTAT
1 TTTATTTTATTTATTTTAATCA-GAAAAATATTTTGTCTACTTTTAT
* ** * * * * * *
221484656 TTTATTTTTAAATTA-CCTAATTA-AATTAA-ATTGTATTTAATGTTTTAT
1 TTTA-TTTT-ATTTATTTTAATCAGAA-AAATATTTTGTCT-A-CTTTTAT
221484704 TTTATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTAT
1 TTTATTTTA-TTTATTTTAATCA-GAAAAATATTTTGTCTACTTTTAT
221484752 TTTATTTT
1 TTTATTTT
221484760 TAAATTACCT
Statistics
Matches: 76, Mismatches: 18, Indels: 19
0.67 0.16 0.17
Matches are distributed among these distances:
46 9 0.12
47 14 0.18
48 38 0.50
49 7 0.09
50 8 0.11
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (46 bp):
TTTATTTTATTTATTTTAATCAGAAAAATATTTTGTCTACTTTTAT
Found at i:221485061 original size:44 final size:42
Alignment explanation
Indices: 221485007--221485128 Score: 120
Period size: 43 Copynumber: 2.8 Consensus size: 42
221484997 AAATATATAT
* *
221485007 CATATCTTACATAATTACTTAAGATAAACAACTTACATAATTTA
1 CATAACTTACATAA-TACTTAA-ATAAACAACTTACATAACTTA
* * * * *
221485051 CATAACTTACATAATACATAAATATATATCATATCATAACTTA
1 CATAACTTACATAATACTTAAATAAACAACTTA-CATAACTTA
*
221485094 CATAACTTA-ATTATACTTATAAATAAACAACTTAC
1 CATAACTTACATAATAC-T-TAAATAAACAACTTAC
221485129 CCGTGTAAAT
Statistics
Matches: 62, Mismatches: 13, Indels: 7
0.76 0.16 0.09
Matches are distributed among these distances:
42 14 0.23
43 24 0.39
44 24 0.39
ACGTcount: A:0.48, C:0.16, G:0.01, T:0.35
Consensus pattern (42 bp):
CATAACTTACATAATACTTAAATAAACAACTTACATAACTTA
Found at i:221489988 original size:29 final size:29
Alignment explanation
Indices: 221489955--221490086 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
221489945 GTGACGAGAT
*
221489955 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* *
221489984 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * ***
221490013 TGGCACTAAGTGTGCGAGCTCGAAGGGCA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * * *
221490042 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ACA
221490071 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
221490087 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATACA
Found at i:221497714 original size:29 final size:29
Alignment explanation
Indices: 221497681--221497812 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
221497671 GTGACGAGAT
*
221497681 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* *
221497710 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * ***
221497739 TGGCACTAAGTGTGCGAGCTCGAAGGGCA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * * *
221497768 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ACA
221497797 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
221497813 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATACA
Found at i:221501091 original size:13 final size:14
Alignment explanation
Indices: 221501075--221501103 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
221501065 TTATAAATAT
221501075 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
221501088 TTATAATGGTTTAA
1 TTATAATGGTTTAA
221501102 TT
1 TT
221501104 CATCATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:221501540 original size:21 final size:21
Alignment explanation
Indices: 221501513--221501565 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
221501503 ACTTAGAGCG
221501513 GAGGCAGCAG-AGAGGGAGGCA
1 GAGGCAGCAGCA-AGGGAGGCA
* *
221501534 GCGGCAGTAGCAAGGGAGGCA
1 GAGGCAGCAGCAAGGGAGGCA
*
221501555 GAGGGAGCAGC
1 GAGGCAGCAGC
221501566 GATGGCAGCA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 25 0.96
22 1 0.04
ACGTcount: A:0.30, C:0.17, G:0.51, T:0.02
Consensus pattern (21 bp):
GAGGCAGCAGCAAGGGAGGCA
Found at i:221501853 original size:31 final size:32
Alignment explanation
Indices: 221501799--221501873 Score: 98
Period size: 31 Copynumber: 2.3 Consensus size: 32
221501789 TTAGAATTAA
*
221501799 TGTTTTTGGTTGTATTTTTTATGCGAAATTTGC
1 TGTTTTTGGTTGCA-TTTTTATGCGAAATTTGC
* * *
221501832 TGTTTTTGGTTGCA-TTTTATGCTATATTTGT
1 TGTTTTTGGTTGCATTTTTATGCGAAATTTGC
221501863 TGTTTTTGGTT
1 TGTTTTTGGTT
221501874 AGATTTAATG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
31 25 0.66
33 13 0.34
ACGTcount: A:0.12, C:0.05, G:0.21, T:0.61
Consensus pattern (32 bp):
TGTTTTTGGTTGCATTTTTATGCGAAATTTGC
Found at i:221514702 original size:80 final size:80
Alignment explanation
Indices: 221514618--221514766 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
221514608 TATGGTAACC
* * * *
221514618 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
221514682 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
221514698 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
221514763 CCGG
66 CCGG
221514767 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:221514708 original size:40 final size:38
Alignment explanation
Indices: 221514659--221514766 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
221514649 ATCACGATTT
*
221514659 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
221514699 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
221514739 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
221514767 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:221517572 original size:23 final size:24
Alignment explanation
Indices: 221517546--221517590 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
221517536 GTTTCAGTTA
221517546 TGAAATA-AATGATGG-ATGCGTAT
1 TGAAATACAAT-ATGGAATGCGTAT
*
221517569 TGAATTACAATATGGAATGCGT
1 TGAAATACAATATGGAATGCGT
221517591 TAGTTAGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (24 bp):
TGAAATACAATATGGAATGCGTAT
Found at i:221518399 original size:40 final size:40
Alignment explanation
Indices: 221518344--221518511 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
221518334 TGAATGATAC
* *
221518344 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
221518384 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
221518424 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
221518464 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
221518504 CC-GGCTAA
1 CCGGGCTAA
221518512 ATTCCGAAGA
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 6 0.06
40 98 0.92
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:221527743 original size:25 final size:25
Alignment explanation
Indices: 221527715--221527772 Score: 116
Period size: 25 Copynumber: 2.3 Consensus size: 25
221527705 GGGGAACCCG
221527715 AATTCATTCTGACCTTGTCTCACAA
1 AATTCATTCTGACCTTGTCTCACAA
221527740 AATTCATTCTGACCTTGTCTCACAA
1 AATTCATTCTGACCTTGTCTCACAA
221527765 AATTCATT
1 AATTCATT
221527773 ATATCTCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.29, C:0.26, G:0.07, T:0.38
Consensus pattern (25 bp):
AATTCATTCTGACCTTGTCTCACAA
Found at i:221529588 original size:40 final size:40
Alignment explanation
Indices: 221529492--221529670 Score: 198
Period size: 40 Copynumber: 4.5 Consensus size: 40
221529482 CGAATGGTAT
* * * *
221529492 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
221529533 CCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * *
221529573 CCGGGTTAAGTCCCGAAGGCTTTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
221529613 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
221529653 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
221529671 ACAATCGAGC
Statistics
Matches: 116, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
40 91 0.78
41 25 0.22
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:221529639 original size:80 final size:81
Alignment explanation
Indices: 221529492--221529670 Score: 254
Period size: 80 Copynumber: 2.2 Consensus size: 81
221529482 CGAATGGTAT
*
221529492 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* *
221529557 GTGCGAGTTACCAAAA
66 GTGCGAATCACCAAAA
* * *
221529573 CCGGGTTAAGTCCCGAAGGCTTTTGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAAT
* *
221529636 TGTGCGAATCACTATAA
65 TGTGCGAATCACCAAAA
*
221529653 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
221529671 ACAATCGAGC
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
79 1 0.01
80 59 0.68
81 27 0.31
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAATCACCAAAA
Found at i:221529691 original size:40 final size:40
Alignment explanation
Indices: 221529613--221529696 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
221529603 GTTACTAAAT
* * *
221529613 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* * *
221529653 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
221529693 CCGG
1 CCGG
221529697 TTAAATTCTG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:221529695 original size:80 final size:80
Alignment explanation
Indices: 221529526--221529696 Score: 191
Period size: 80 Copynumber: 2.1 Consensus size: 80
221529516 GTGCTAAGTG
* * * *
221529526 ACTAAATCCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
* ** * * *
221529591 GCTTTTGTGCGAGTT
66 ACAATCGAGCGAGTC
* * *
221529606 ACTAAATCCGGG-CTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATGTCCCGAA
1 ACTAAATCCGGGTC-AATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAA
221529670 GACAATCGAGCGAGTC
65 GACAATCGAGCGAGTC
* *
221529686 GCTATATCCGG
1 ACTAAATCCGG
221529697 TTAAATTCTG
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
79 1 0.01
80 74 0.99
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (80 bp):
ACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
ACAATCGAGCGAGTC
Found at i:221533203 original size:40 final size:40
Alignment explanation
Indices: 221533144--221533329 Score: 171
Period size: 40 Copynumber: 4.7 Consensus size: 40
221533134 CATTGGAATG
* * * *
221533144 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* *
221533184 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTATT
* **
221533224 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* * * * *
221533264 AAATCC-GGTTAAGACCCGAAGGCAATCGTGCGAA-TCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTATT
* * * *
221533303 ATAACCGGGCTAGGTCCCGAAGACAAT
1 ATATCCGGGCTAAGACCCGAAGGCAAT
221533330 CAGCGAGTCG
Statistics
Matches: 120, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
39 32 0.27
40 86 0.72
41 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
Found at i:221533246 original size:80 final size:79
Alignment explanation
Indices: 221533144--221533296 Score: 207
Period size: 80 Copynumber: 1.9 Consensus size: 79
221533134 CATTGGAATG
* * ** *
221533144 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCC-GGCTAAGACCCGAAGGCA
*
221533209 TTCGTGCGAGTTGTT
65 ATCGTGCGAGTTGTT
* * * *
221533224 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGCTAAGACCCGAAGGCAA
221533289 TCGTGCGA
66 TCGTGCGA
221533297 ATCACTATAA
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
79 25 0.40
80 38 0.60
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGCTAAGACCCGAAGGCAA
TCGTGCGAGTTGTT
Found at i:221533313 original size:79 final size:80
Alignment explanation
Indices: 221533148--221533329 Score: 204
Period size: 79 Copynumber: 2.3 Consensus size: 80
221533138 GGAATGATAT
* ** * *
221533148 CCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
* *** *
221533213 TGCGAGTTGTTATAT
66 TGCGAATCACTATAA
* * * * *
221533228 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCC-GGTTAAGACCCGAAGGCAATCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
221533292 TGCGAATCACTATAA
66 TGCGAATCACTATAA
* *
221533307 CCGGGCTAGGTCCCGAAGACAAT
1 CCGGGCTAAGTCCCGAAGGCAAT
221533330 CAGCGAGTCG
Statistics
Matches: 83, Mismatches: 19, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
79 49 0.59
80 34 0.41
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
TGCGAATCACTATAA
Found at i:221535544 original size:40 final size:40
Alignment explanation
Indices: 221535485--221535653 Score: 164
Period size: 40 Copynumber: 4.2 Consensus size: 40
221535475 CGGGACTTTA
* * *
221535485 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
221535525 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * * *
221535565 CCCGGATATAGCTACTAGCACAATTTCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
221535605 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
221535645 CCCGGATAT
1 CCCGGATAT
221535654 CATTCAATTT
Statistics
Matches: 104, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 97 0.93
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:221550482 original size:40 final size:39
Alignment explanation
Indices: 221550314--221550484 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
221550304 AGAAATTGAA
* *
221550314 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
221550354 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
221550394 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
221550434 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
221550474 TGATATCCGGG
1 TGATATCCGGG
221550485 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:221558419 original size:40 final size:39
Alignment explanation
Indices: 221558326--221558500 Score: 169
Period size: 39 Copynumber: 4.5 Consensus size: 39
221558316 AAATTGAATG
* * * * *
221558326 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TAGT
*
221558365 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAG-T
* *
221558405 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGT
* * * *
221558444 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGT
*
221558482 GATATCCGGG-TAAGTCCCG
1 -ATATCCGGGCTAAGACCCG
221558501 TTGGCCTTGG
Statistics
Matches: 117, Mismatches: 13, Indels: 12
0.82 0.09 0.08
Matches are distributed among these distances:
38 32 0.27
39 44 0.38
40 41 0.35
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGT
Done.