Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr1
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: 37323695
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 1370832 characters in sequence are not A, C, G, or T
File 39 of 93
Found at i:15073914 original size:2 final size:2
Alignment explanation
Indices: 15073907--15073943 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
15073897 AGTTTGTTCT
15073907 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
15073944 TATATATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:15073968 original size:2 final size:2
Alignment explanation
Indices: 15073963--15073993 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
15073953 ATATATATAT
15073963 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
15073994 TGGATAGATA
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:15088801 original size:34 final size:33
Alignment explanation
Indices: 15088757--15088854 Score: 108
Period size: 34 Copynumber: 2.9 Consensus size: 33
15088747 AAAAGAAGCT
* *
15088757 TTGGCGTGTAACATCTGGTGGTGAAGCTTTGACC
1 TTGGCGTGTAACATTTGGTGCTGAAGCTTTGA-C
* * *
15088791 TTGGCATGTAACATTTGATGCTGAAACTTTGGAC
1 TTGGCGTGTAACATTTGGTGCTGAAGCTTT-GAC
* *
15088825 TTGGCGTGTAA-ATTTGGTGTTGAAGTTTTG
1 TTGGCGTGTAACATTTGGTGCTGAAGCTTTG
15088855 GTGTTGCTTA
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
32 1 0.02
33 14 0.26
34 36 0.68
35 2 0.04
ACGTcount: A:0.20, C:0.12, G:0.30, T:0.38
Consensus pattern (33 bp):
TTGGCGTGTAACATTTGGTGCTGAAGCTTTGAC
Found at i:15089358 original size:34 final size:34
Alignment explanation
Indices: 15089302--15089366 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
15089292 AATTTAGCAT
*
15089302 TAGATGTTGCATGTCAAAGTCAAAGCTTCAATAC
1 TAGATGTTACATGTCAAAGTCAAAGCTTCAATAC
*
15089336 TAGATGTTACATG-CTAAGGTCAAAGCTTCAA
1 TAGATGTTACATGTC-AAAGTCAAAGCTTCAA
15089367 CACCATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 1 0.04
34 27 0.96
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.29
Consensus pattern (34 bp):
TAGATGTTACATGTCAAAGTCAAAGCTTCAATAC
Found at i:15098889 original size:189 final size:188
Alignment explanation
Indices: 15098585--15098941 Score: 513
Period size: 189 Copynumber: 1.9 Consensus size: 188
15098575 TTACCAATTA
* * *
15098585 CATTTTCTTTTTCATTTTTTTTTCTGCCATTCATAAGGAGCCATATGATCCTAGACCAATGCATT
1 CATTTTCTTTTCCATTTTTTTTTCTGCCATTCATAAGGAGCCACATGATCCTAGACCAATGCATC
* * * * * *
15098650 TGTTTATATTGGATTAAAACCTACTCGTTCTTCATATCAATTTTAGCAAAACAAATTTGTAATAT
66 TGTTTATACTAGATTAAAACCTACCCCTTCCTCATATCAATTTTAGCAAAACAAATTTGCAATAT
*
15098715 TACTTTTTTATTATAAATATAAAAATACATATAATATAGGTTTGAATCTTGCTAGTTG
131 TACTTTTTTATGATAAATATAAAAATACATATAATATAGGTTTGAATCTTGCTAGTTG
*
15098773 CATTTTCTTTTCCAATTTTTTTTGT-TGCCA-TCTATAAGGCGCCACATGA-CCTTAGACCAATG
1 CATTTTCTTTTCC-ATTTTTTTT-TCTGCCATTC-ATAAGGAGCCACATGATCC-TAGACCAATG
* * *
15098835 CATCTGTTTGTACTAGATTGAAGCCTACCCCTTCCTCATATCAATTTTAGCAAAACAAATTTGCA
62 CATCTGTTTATACTAGATTAAAACCTACCCCTTCCTCATATCAATTTTAGCAAAACAAATTTGCA
* *
15098900 ATATTATTTTTTTATGATATATATAAAAATACATATAATATA
127 ATATTACTTTTTTATGATAAATATAAAAATACATATAATATA
15098942 TTGTTAGAAA
Statistics
Matches: 149, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
188 16 0.11
189 132 0.89
190 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.42
Consensus pattern (188 bp):
CATTTTCTTTTCCATTTTTTTTTCTGCCATTCATAAGGAGCCACATGATCCTAGACCAATGCATC
TGTTTATACTAGATTAAAACCTACCCCTTCCTCATATCAATTTTAGCAAAACAAATTTGCAATAT
TACTTTTTTATGATAAATATAAAAATACATATAATATAGGTTTGAATCTTGCTAGTTG
Found at i:15099462 original size:16 final size:15
Alignment explanation
Indices: 15099433--15099498 Score: 59
Period size: 15 Copynumber: 4.6 Consensus size: 15
15099423 TATTTTTTTA
15099433 AAATTTAAACAAATT
1 AAATTTAAACAAATT
*
15099448 AAATTTAAATGAAATT
1 AAATTTAAA-CAAATT
** *
15099464 -AATTT---TTATTT
1 AAATTTAAACAAATT
15099475 AAATTTAAACAAATT
1 AAATTTAAACAAATT
15099490 AAATTTAAA
1 AAATTTAAA
15099499 TATAATGGAT
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
11 3 0.08
12 5 0.13
15 26 0.67
16 5 0.13
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.41
Consensus pattern (15 bp):
AAATTTAAACAAATT
Found at i:15099494 original size:57 final size:57
Alignment explanation
Indices: 15099433--15099555 Score: 142
Period size: 57 Copynumber: 2.2 Consensus size: 57
15099423 TATTTTTTTA
* *
15099433 AAATTTAAACA-AATTAAAT-TTAAATGAAATTAATTTTTATTTAAATTTAAACAAATT
1 AAATTTAAACATAATGAAATATTAAAT-AAA-TAATCTTTATTTAAATTTAAACAAATT
* * * * * *
15099490 AAATTTAAATATAATGGATTATTACATAGATAATCTTTATTTAAATTTAAATAAATT
1 AAATTTAAACATAATGAAATATTAAATAAATAATCTTTATTTAAATTTAAACAAATT
15099547 AAATTTAAA
1 AAATTTAAA
15099556 TATATATCAT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
57 44 0.79
58 7 0.12
59 5 0.09
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.42
Consensus pattern (57 bp):
AAATTTAAACATAATGAAATATTAAATAAATAATCTTTATTTAAATTTAAACAAATT
Found at i:15099495 original size:21 final size:21
Alignment explanation
Indices: 15099433--15099499 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
15099423 TATTTTTTTA
15099433 AAATTTAAACAAATTAAATTT
1 AAATTTAAACAAATTAAATTT
* * * **
15099454 AAA-TGAAATTAATTTTTATTT
1 AAATTTAAA-CAAATTAAATTT
15099475 AAATTTAAACAAATTAAATTT
1 AAATTTAAACAAATTAAATTT
15099496 AAAT
1 AAAT
15099500 ATAATGGATT
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
20 4 0.12
21 26 0.76
22 4 0.12
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (21 bp):
AAATTTAAACAAATTAAATTT
Found at i:15099600 original size:54 final size:54
Alignment explanation
Indices: 15099528--15099684 Score: 296
Period size: 54 Copynumber: 2.9 Consensus size: 54
15099518 GATAATCTTT
*
15099528 ATTTAAATTTAAATAAATTAAATTTAAATATATATCATATCCCAAACATGATAA
1 ATTTAAATTTAAACAAATTAAATTTAAATATATATCATATCCCAAACATGATAA
15099582 ATTTAAATTTAAACAAATTAAATTTAAATATATATCATATCCCAAACATGATAA
1 ATTTAAATTTAAACAAATTAAATTTAAATATATATCATATCCCAAACATGATAA
*
15099636 ATTTAAATTTAAACAAATTAAATTTAAATTTATATCATATCCCAAACAT
1 ATTTAAATTTAAACAAATTAAATTTAAATATATATCATATCCCAAACAT
15099685 TTTTCAATTA
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 101 1.00
ACGTcount: A:0.51, C:0.11, G:0.01, T:0.37
Consensus pattern (54 bp):
ATTTAAATTTAAACAAATTAAATTTAAATATATATCATATCCCAAACATGATAA
Found at i:15110011 original size:26 final size:26
Alignment explanation
Indices: 15109982--15110035 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
15109972 TATAATTGTC
* *
15109982 AACCTAACGCTTAACCTTGCTGTCTG
1 AACCTAACGCTTAACCCTGCTGACTG
*
15110008 AACCTAATGCTTAACCCTGCTGACTG
1 AACCTAACGCTTAACCCTGCTGACTG
15110034 AA
1 AA
15110036 GGTTCCACCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.28
Consensus pattern (26 bp):
AACCTAACGCTTAACCCTGCTGACTG
Found at i:15121893 original size:19 final size:19
Alignment explanation
Indices: 15121869--15121906 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
15121859 AATTATCAAG
15121869 TCGCATATTCCATTACATA
1 TCGCATATTCCATTACATA
15121888 TCGCATATTCCATTACATA
1 TCGCATATTCCATTACATA
15121907 AGTGATTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.37
Consensus pattern (19 bp):
TCGCATATTCCATTACATA
Found at i:15122348 original size:15 final size:17
Alignment explanation
Indices: 15122311--15122345 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
15122301 AGAAATTTAT
*
15122311 AAACAAAAATATATAAA
1 AAACTAAAATATATAAA
15122328 AAACTAAAATAT-TAAA
1 AAACTAAAATATATAAA
15122344 AA
1 AA
15122346 CTATTAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.20
Consensus pattern (17 bp):
AAACTAAAATATATAAA
Found at i:15123497 original size:16 final size:17
Alignment explanation
Indices: 15123472--15123510 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
15123462 TGATTTCACA
*
15123472 AAATAATTAAAT-ATAT
1 AAATAGTTAAATAATAT
15123488 AAATAGTTAAATAATAT
1 AAATAGTTAAATAATAT
15123505 AAATAG
1 AAATAG
15123511 AAAGAAGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (17 bp):
AAATAGTTAAATAATAT
Found at i:15123919 original size:46 final size:48
Alignment explanation
Indices: 15123837--15123946 Score: 120
Period size: 46 Copynumber: 2.3 Consensus size: 48
15123827 CTAAAAATAT
* *
15123837 ATATATATTAAATAAAAAATTCCATAAATTTTTTAAAGAA-TCATTAAAAA
1 ATATATAATAAAT-AAAAATTCCATAAA-TTTTTAAA-AAGCCATTAAAAA
* *
15123887 ATATATAATAAATAAAAATTTCA-AAA-TTTTAAAAAGGCCATTAAAAT
1 ATATATAATAAATAAAAATTCCATAAATTTTTAAAAA-GCCATTAAAAA
15123934 ATATAT-ATAAATA
1 ATATATAATAAATA
15123947 TATATAATAA
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
45 2 0.04
46 14 0.26
47 14 0.26
48 3 0.06
49 9 0.17
50 12 0.22
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (48 bp):
ATATATAATAAATAAAAATTCCATAAATTTTTAAAAAGCCATTAAAAA
Found at i:15127330 original size:20 final size:20
Alignment explanation
Indices: 15127305--15127350 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
15127295 CTTCTAAACC
15127305 TCAAATCATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
*
15127325 TCAAATTATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
15127345 TCAAAT
1 TCAAAT
15127351 GGGGCCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.46, C:0.22, G:0.04, T:0.28
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:15128388 original size:60 final size:61
Alignment explanation
Indices: 15128324--15128485 Score: 222
Period size: 60 Copynumber: 2.7 Consensus size: 61
15128314 AGAACTGTCA
* * * *
15128324 ATGCCACC-AGATGAATCGGGGCTTCAGGTCTCTCTTTTTACCTACTTGTGGGAACTACCC
1 ATGCCACCAATATAAATCGGGGCTTCAGGTCTCTCTTTTTACCTACTCGTGGGAACTAACC
*
15128384 ATGCCACCATATATAAATCGGGGCTTCAGGTC-CTC-CTTTACCTACTCGTGGGAACTAACC
1 ATGCCACCA-ATATAAATCGGGGCTTCAGGTCTCTCTTTTTACCTACTCGTGGGAACTAACC
* *
15128444 ACGCCACCTAATATAAATCGGGGCTTCAGGTCTCCCTTTTTA
1 ATGCCACC-AATATAAATCGGGGCTTCAGGTCTCTCTTTTTA
15128486 AATCAAATAT
Statistics
Matches: 89, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
60 59 0.66
61 6 0.07
62 24 0.27
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (61 bp):
ATGCCACCAATATAAATCGGGGCTTCAGGTCTCTCTTTTTACCTACTCGTGGGAACTAACC
Found at i:15129228 original size:13 final size:13
Alignment explanation
Indices: 15129181--15129228 Score: 50
Period size: 12 Copynumber: 4.0 Consensus size: 13
15129171 CCCCTTTTCT
15129181 TCTTTTT-T-TTC
1 TCTTTTTCTCTTC
* *
15129192 TC-TTTTCTTTTG
1 TCTTTTTCTCTTC
15129204 TCTTTTTC-CTTC
1 TCTTTTTCTCTTC
15129216 TCTTTTTCTCTTC
1 TCTTTTTCTCTTC
15129229 ACATGCTGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
10 4 0.13
11 3 0.10
12 14 0.47
13 9 0.30
ACGTcount: A:0.00, C:0.25, G:0.02, T:0.73
Consensus pattern (13 bp):
TCTTTTTCTCTTC
Found at i:15137247 original size:26 final size:25
Alignment explanation
Indices: 15137205--15137259 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
15137195 ATGATTATTT
**
15137205 TATTTTTTTATTTTTTAAAT-ATTAA
1 TATTTTTTTATAATTT-AATCATTAA
15137230 TATTTTATTTATAATTTAATCATTAA
1 TATTTT-TTTATAATTTAATCATTAA
15137256 TATT
1 TATT
15137260 ATAAAATACT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 9 0.35
26 17 0.65
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (25 bp):
TATTTTTTTATAATTTAATCATTAA
Found at i:15137283 original size:22 final size:22
Alignment explanation
Indices: 15137210--15137285 Score: 70
Period size: 22 Copynumber: 3.5 Consensus size: 22
15137200 TATTTTATTT
* *
15137210 TTTTATTTTTTAAATATTAATA
1 TTTTATTTATAAAATATTAATA
15137232 TTTTATTTAT--AAT-TTAATCA
1 TTTTATTTATAAAATATTAAT-A
* *
15137252 -TTAATATTATAAAATACTAATA
1 TTTTAT-TTATAAAATATTAATA
15137274 TTTTATTTATAA
1 TTTTATTTATAA
15137286 TTTAAATGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
19 9 0.20
20 8 0.18
22 19 0.43
23 8 0.18
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTTATTTATAAAATATTAATA
Found at i:15137537 original size:10 final size:10
Alignment explanation
Indices: 15137507--15137552 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
15137497 NNNNNTTATA
15137507 ATTTAATTTT
1 ATTTAATTTT
15137517 ATTATAA--TT
1 ATT-TAATTTT
*
15137526 ATTTATTTTT
1 ATTTAATTTT
*
15137536 ATTTAATTAT
1 ATTTAATTTT
15137546 ATTTAAT
1 ATTTAAT
15137553 ATAATAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
8 2 0.07
9 5 0.17
10 20 0.67
11 3 0.10
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
ATTTAATTTT
Found at i:15137542 original size:18 final size:19
Alignment explanation
Indices: 15137507--15137545 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
15137497 NNNNNTTATA
15137507 ATTTAATTTTATTATAATT
1 ATTTAATTTTATTATAATT
*
15137526 ATTTATTTTTATT-TAATT
1 ATTTAATTTTATTATAATT
15137544 AT
1 AT
15137546 ATTTAATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTAATTTTATTATAATT
Found at i:15137562 original size:29 final size:29
Alignment explanation
Indices: 15137502--15137568 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
15137492 NNNNNNNNNN
* * *
15137502 TTATAATTTAATTTTATTATAATTATTTAT
1 TTAT-ATTTAATTATATTATAATTAATAAT
*
15137532 TTTTATTTAATTATATT-TAATATAATAAT
1 TTATATTTAATTATATTATAAT-TAATAAT
15137561 TTATATTT
1 TTATATTT
15137569 TTTAAATATT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 4 0.13
29 24 0.77
30 3 0.10
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (29 bp):
TTATATTTAATTATATTATAATTAATAAT
Found at i:15137610 original size:19 final size:21
Alignment explanation
Indices: 15137539--15137637 Score: 66
Period size: 22 Copynumber: 4.7 Consensus size: 21
15137529 TATTTTTATT
15137539 TAATTA-TATTT-AATA-TAA
1 TAATTATTATTTAAATATTAA
*
15137557 TAATTTATATTTTTTAAATATTAA
1 TAA--T-TATTATTTAAATATTAA
*
15137581 TAATTGATTATTTAAGTATTAA
1 TAATT-ATTATTTAAATATTAA
15137603 T-ATT-TTATTTATAAT-TTAA
1 TAATTATTATTTA-AATATTAA
* *
15137622 TCATTAATATTATAAA
1 TAATTATTATT-TAAA
15137638 ATACTACTAT
Statistics
Matches: 65, Mismatches: 5, Indels: 19
0.73 0.06 0.21
Matches are distributed among these distances:
18 3 0.05
19 12 0.18
20 6 0.09
21 12 0.18
22 22 0.34
23 4 0.06
24 6 0.09
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (21 bp):
TAATTATTATTTAAATATTAA
Found at i:15137746 original size:27 final size:26
Alignment explanation
Indices: 15137697--15137788 Score: 66
Period size: 27 Copynumber: 3.5 Consensus size: 26
15137687 TATTTTATTT
* *
15137697 TTTAAATATTAATCATTTATAATTGA
1 TTTAAATATTAATAATTGATAATTGA
* *
15137723 TTTAGAATATTAATAATTGGTAATTTAA
1 TTTA-AATATTAATAATTGATAA-TTGA
*
15137751 TTTATAAT-TTAA-ATATT-ATTA-TGA
1 TTTA-AATATTAATA-ATTGATAATTGA
*
15137775 TTAAAATATTAATA
1 TTTAAATATTAATA
15137789 CTTTTAATTA
Statistics
Matches: 52, Mismatches: 9, Indels: 11
0.72 0.12 0.15
Matches are distributed among these distances:
23 3 0.06
24 9 0.17
25 1 0.02
26 7 0.13
27 22 0.42
28 10 0.19
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.49
Consensus pattern (26 bp):
TTTAAATATTAATAATTGATAATTGA
Found at i:15152349 original size:86 final size:86
Alignment explanation
Indices: 15152202--15152960 Score: 1084
Period size: 86 Copynumber: 8.9 Consensus size: 86
15152192 AGTTTACAAA
* *
15152202 TTACAAGTTCAACTAATATAAAAATTTTATATATTTAAATTTACATCA-AAGTTCAAGTAATATA
1 TTACAAGTTCAACTAATATAAAAATTTTATATATTTAAGTTTGCATCATAA-TTCAAGTAATATA
*
15152266 AATTTATTTTACATTGATTAGT
65 AATTTATTTTACATTTATTAGT
*
15152288 TTACAAGTTCAACTAATATAAAAATTTTATATATTTAAGTTTGCATCATAATTCAAATAATATAA
1 TTACAAGTTCAACTAATATAAAAATTTTATATATTTAAGTTTGCATCATAATTCAAGTAATATAA
* *
15152353 ATTTATTTTATATTTGTTAGT
66 ATTTATTTTACATTTATTAGT
* * *
15152374 TTACAAGTTCAAATAATATAAATATTTTATATA-TTAAGTTTGCTTCATAATTCAAGTAATATAA
1 TTACAAGTTCAACTAATATAAAAATTTTATATATTTAAGTTTGCATCATAATTCAAGTAATATAA
* *
15152438 ATTAATTTTACACTTATTAGT
66 ATTTATTTTACATTTATTAGT
* *
15152459 TTACATGTTCAACTACTATAAAAATTTTATATATTTAAGTTTGCATCATAATTCAAGTAATATAA
1 TTACAAGTTCAACTAATATAAAAATTTTATATATTTAAGTTTGCATCATAATTCAAGTAATATAA
*
15152524 ATTTATTTTATATTTATTAGT
66 ATTTATTTTACATTTATTAGT
* *
15152545 TTACAAGTTCAACTAATATAAAAATTTTATATATTTAAATTTAG-ATCATAGTTCAAGTAATATA
1 TTACAAGTTCAACTAATATAAAAATTTTATATATTTAAGTTT-GCATCATAATTCAAGTAATATA
* * *
15152609 AATTTATTCTATATTTATTATTT
65 AATTTATTTTACATTTATTA-GT
* * *
15152632 TTACAAGTTCAACTAATATAAAAATTTTATATATTTAAGTTTGTATCATAGTTCAAGTAATTTAA
1 TTACAAGTTCAACTAATATAAAAATTTTATATATTTAAGTTTGCATCATAATTCAAGTAATATAA
* *
15152697 ATTTATTGTACATTTGTTAGT
66 ATTTATTTTACATTTATTAGT
* * * *
15152718 TTAC-AGTTCAACTAATAT-AACAGTTTATATA-TTAAGTTTGCCTCATAGTTCAAGTAATATAA
1 TTACAAGTTCAACTAATATAAAAATTTTATATATTTAAGTTTGCATCATAATTCAAGTAATATAA
* *
15152780 ATTAATTTTACATTTTTTAGT
66 ATTTATTTTACATTTATTAGT
* ** * *
15152801 TTACAAATTCAACTGCTATAAAAATCTTATATATTTAAGTTTGCATCATAGTTCAAGTAATATAA
1 TTACAAGTTCAACTAATATAAAAATTTTATATATTTAAGTTTGCATCATAATTCAAGTAATATAA
15152866 ATTTATTTTACATTTATTAGT
66 ATTTATTTTACATTTATTAGT
* * * *
15152887 TTATAAGTTCAACT-A-ATAAAAATTTTATATAATTAAGTTTGCATCATACTTTAAGTAATATAA
1 TTACAAGTTCAACTAATATAAAAATTTTATATATTTAAGTTTGCATCATAATTCAAGTAATATAA
15152950 ATTTATTTTAC
66 ATTTATTTTAC
15152961 TTCTAATAAT
Statistics
Matches: 607, Mismatches: 58, Indels: 18
0.89 0.08 0.03
Matches are distributed among these distances:
83 50 0.08
84 77 0.13
85 99 0.16
86 300 0.49
87 81 0.13
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.45
Consensus pattern (86 bp):
TTACAAGTTCAACTAATATAAAAATTTTATATATTTAAGTTTGCATCATAATTCAAGTAATATAA
ATTTATTTTACATTTATTAGT
Found at i:15152459 original size:171 final size:171
Alignment explanation
Indices: 15152148--15152960 Score: 1089
Period size: 171 Copynumber: 4.7 Consensus size: 171
15152138 TGTTATTACA
* * **
15152148 TTTGCATCATAATTCAAGTAATATAAATTCATTTTCCATATATGAGTTTACAAATTACAAGTTCA
1 TTTGCATCATAATTCAAGTAATATAAATTTATTTT--ATAT-T-TG-TT--AGTTTACAAGTTCA
* *
15152213 ACTAATATAAAAATTTTATATATTTAAATTTACATCA-AAGTTCAAGTAATATAAATTTATTTTA
59 ACTAATATAAAAATTTTATATA-TTAAGTTTGCATCATAA-TTCAAGTAATATAAATTTATTTTA
*
15152277 CATTGATTAGTTTACAAGTTCAACTAATATAAAAATTTTATATATTTAAG
122 CATTTATTAGTTTACAAGTTCAACTAATATAAAAATTTTATATATTTAAG
* *
15152327 TTTGCATCATAATTCAAATAATATAAATTTATTTTATATTTGTTAGTTTACAAGTTCAAATAATA
1 TTTGCATCATAATTCAAGTAATATAAATTTATTTTATATTTGTTAGTTTACAAGTTCAACTAATA
* * * *
15152392 TAAATATTTTATATATTAAGTTTGCTTCATAATTCAAGTAATATAAATTAATTTTACACTTATTA
66 TAAAAATTTTATATATTAAGTTTGCATCATAATTCAAGTAATATAAATTTATTTTACATTTATTA
* *
15152457 GTTTACATGTTCAACTACTATAAAAATTTTATATATTTAAG
131 GTTTACAAGTTCAACTAATATAAAAATTTTATATATTTAAG
*
15152498 TTTGCATCATAATTCAAGTAATATAAATTTATTTTATATTTATTAGTTTACAAGTTCAACTAATA
1 TTTGCATCATAATTCAAGTAATATAAATTTATTTTATATTTGTTAGTTTACAAGTTCAACTAATA
* * * *
15152563 TAAAAATTTTATATATTTAAATTTAG-ATCATAGTTCAAGTAATATAAATTTATTCTATATTTAT
66 TAAAAATTTTATATA-TTAAGTTT-GCATCATAATTCAAGTAATATAAATTTATTTTACATTTAT
*
15152627 TATTTTTACAAGTTCAACTAATATAAAAATTTTATATATTTAAG
129 TA-GTTTACAAGTTCAACTAATATAAAAATTTTATATATTTAAG
* * * * *
15152671 TTTGTATCATAGTTCAAGTAATTTAAATTTATTGTACATTTGTTAGTTTAC-AGTTCAACTAATA
1 TTTGCATCATAATTCAAGTAATATAAATTTATTTTATATTTGTTAGTTTACAAGTTCAACTAATA
* * * * * *
15152735 T-AACAGTTTATATATTAAGTTTGCCTCATAGTTCAAGTAATATAAATTAATTTTACATTTTTTA
66 TAAAAATTTTATATATTAAGTTTGCATCATAATTCAAGTAATATAAATTTATTTTACATTTATTA
* ** *
15152799 GTTTACAAATTCAACTGCTATAAAAATCTTATATATTTAAG
131 GTTTACAAGTTCAACTAATATAAAAATTTTATATATTTAAG
* * * *
15152840 TTTGCATCATAGTTCAAGTAATATAAATTTATTTTACATTTATTAGTTTATAAGTTCAACT-A-A
1 TTTGCATCATAATTCAAGTAATATAAATTTATTTTATATTTGTTAGTTTACAAGTTCAACTAATA
* *
15152903 TAAAAATTTTATATAATTAAGTTTGCATCATACTTTAAGTAATATAAATTTATTTTAC
66 TAAAAATTTTATAT-ATTAAGTTTGCATCATAATTCAAGTAATATAAATTTATTTTAC
15152961 TTCTAATAAT
Statistics
Matches: 567, Mismatches: 59, Indels: 25
0.87 0.09 0.04
Matches are distributed among these distances:
168 2 0.00
169 94 0.17
170 90 0.16
171 167 0.29
172 89 0.16
173 84 0.15
174 2 0.00
175 1 0.00
176 1 0.00
177 4 0.01
179 33 0.06
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.45
Consensus pattern (171 bp):
TTTGCATCATAATTCAAGTAATATAAATTTATTTTATATTTGTTAGTTTACAAGTTCAACTAATA
TAAAAATTTTATATATTAAGTTTGCATCATAATTCAAGTAATATAAATTTATTTTACATTTATTA
GTTTACAAGTTCAACTAATATAAAAATTTTATATATTTAAG
Found at i:15152946 original size:42 final size:42
Alignment explanation
Indices: 15152219--15152953 Score: 234
Period size: 42 Copynumber: 17.2 Consensus size: 42
15152209 TTCAACTAAT
* * * *
15152219 ATAAAAATTTTATATATTTAAATTTACATCAAAGTTCAAGTA
1 ATAAAAATTTTATATAATTAAGTTTGCATCATAGTTCAAGTA
* * *
15152261 ATATAAA-TTTATTTTACATTGATTAGTTT--A-CA-AGTTCAACTAA
1 ATAAAAATTTTA-TATA-ATT-A--AGTTTGCATCATAGTTCAAGT-A
* * *
15152304 TATAAAAATTTTATATATTTAAGTTTGCATCATAATTCAAATA
1 -ATAAAAATTTTATATAATTAAGTTTGCATCATAGTTCAAGTA
* * *
15152347 ATATAAATTTATTTTATAT-TTGTTAGTTT--A-CA-AGTTCAAATA
1 ATA-AAA---ATTTTATATAAT-TAAGTTTGCATCATAGTTCAAGTA
* *
15152389 ATATAAATATTTTATAT-ATTAAGTTTGCTTCATAATTCAAGTAA
1 ATA-AAA-ATTTTATATAATTAAGTTTGCATCATAGTTCAAGT-A
* * *
15152433 TATAAATTAATTTTACACTTATT-AGTTT--A-CAT-GTTCAACTA
1 -ATAAA--AATTTTATA-TAATTAAGTTTGCATCATAGTTCAAGTA
* *
15152474 CTATAAAAATTTTATATATTTAAGTTTGCATCATAATTCAAGTA
1 --ATAAAAATTTTATATAATTAAGTTTGCATCATAGTTCAAGTA
* *
15152518 ATATAAATTTATTTTATATTTATT-AGTTT--A-CA-AGTTCAACTAA
1 ATA-AAA---ATTTTATA-TAATTAAGTTTGCATCATAGTTCAAGT-A
* *
15152561 TATAAAAATTTTATATATTTAAATTTAG-ATCATAGTTCAAGTA
1 -ATAAAAATTTTATATAATTAAGTTT-GCATCATAGTTCAAGTA
* * * ** *
15152604 ATATAAATTTATTCTATATTTATTA-TTTTTA-CA-AGTTCAACTAA
1 ATA-AAAATT-TTATATAATTA--AGTTTGCATCATAGTTCAAGT-A
* *
15152648 TATAAAAATTTTATATATTTAAGTTTGTATCATAGTTCAAGTA
1 -ATAAAAATTTTATATAATTAAGTTTGCATCATAGTTCAAGTA
** * * * * * * *
15152691 ATTTAAA-TTTATTGTACATT-TGTTAG-TTTACAGTTCAACTA
1 ATAAAAATTTTA-TATA-ATTAAGTTTGCATCATAGTTCAAGTA
* * *
15152732 ATATAACAGTTTATAT-ATTAAGTTTGCCTCATAGTTCAAGTAA
1 ATA-AAAATTTTATATAATTAAGTTTGCATCATAGTTCAAGT-A
* ** * *
15152775 TATAAATTAATTTTACATTTTTTAGTTT--A-CA-AATTCAACTGCT-
1 -ATAAA--AATTTTATATAATTAAGTTTGCATCATAGTTCAA--G-TA
* *
15152818 ATAAAAATCTTATATATTTAAGTTTGCATCATAGTTCAAGTA
1 ATAAAAATTTTATATAATTAAGTTTGCATCATAGTTCAAGTA
* * *
15152860 ATATAAA-TTTATTTTACATTTATTAGTTT--AT-A-AGTTCAACTA
1 ATAAAAATTTTA-TATA-A-TTA--AGTTTGCATCATAGTTCAAGTA
* *
15152902 ATAAAAATTTTATATAATTAAGTTTGCATCATACTTTAAGTA
1 ATAAAAATTTTATATAATTAAGTTTGCATCATAGTTCAAGTA
*
15152944 ATATAAATTT
1 ATAAAAATTT
15152954 ATTTTACTTC
Statistics
Matches: 524, Mismatches: 85, Indels: 168
0.67 0.11 0.22
Matches are distributed among these distances:
38 5 0.01
39 12 0.02
40 65 0.12
41 33 0.06
42 154 0.29
43 84 0.16
44 82 0.16
45 31 0.06
46 52 0.10
47 6 0.01
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.46
Consensus pattern (42 bp):
ATAAAAATTTTATATAATTAAGTTTGCATCATAGTTCAAGTA
Found at i:15153726 original size:2 final size:2
Alignment explanation
Indices: 15153714--15153754 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
15153704 TTTTCAAAGT
* *
15153714 TA TA CA TA TA TA TA TA TA TA CA 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 TA TA TA TA TA T
15153755 GTAAATATTC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:15155044 original size:39 final size:39
Alignment explanation
Indices: 15154956--15155188 Score: 328
Period size: 39 Copynumber: 6.1 Consensus size: 39
15154946 TCAACTCAGC
* * **
15154956 TCATGTGCAGTCCCACACCGCACATAGCTGATA-C--CA
1 TCATGTGCACTCCCACACCGCACATGGCAAATATCATCA
* *
15154992 TCATGTGCACTCCCACACTGCACATGGCAAACATCATCA
1 TCATGTGCACTCCCACACCGCACATGGCAAATATCATCA
15155031 TCATGTGCACTCCCACACCGCACATGGCAAATATCATCA
1 TCATGTGCACTCCCACACCGCACATGGCAAATATCATCA
* * *
15155070 TCATGTTCACTCCCACAACGCACATGGTAAATATCATCA
1 TCATGTGCACTCCCACACCGCACATGGCAAATATCATCA
* *
15155109 TCATGTGCACTCCCACACCACACATGGTAAATATCATCA
1 TCATGTGCACTCCCACACCGCACATGGCAAATATCATCA
* *
15155148 TCATGTGCACTCTCACACCACACATGGCAAATATCATCA
1 TCATGTGCACTCCCACACCGCACATGGCAAATATCATCA
15155187 TC
1 TC
15155189 CCAAACTCCC
Statistics
Matches: 178, Mismatches: 16, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
36 27 0.15
37 1 0.01
39 150 0.84
ACGTcount: A:0.31, C:0.34, G:0.12, T:0.22
Consensus pattern (39 bp):
TCATGTGCACTCCCACACCGCACATGGCAAATATCATCA
Found at i:15157563 original size:22 final size:23
Alignment explanation
Indices: 15157533--15157579 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
15157523 ATATAGAATT
15157533 ATTTGAGCTTAATTTTGATAATA
1 ATTTGAGCTTAATTTTGATAATA
* *
15157556 ATTT-AGCTTAGTTTTGGTAATA
1 ATTTGAGCTTAATTTTGATAATA
15157578 AT
1 AT
15157580 ACATAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.32, C:0.04, G:0.15, T:0.49
Consensus pattern (23 bp):
ATTTGAGCTTAATTTTGATAATA
Found at i:15173426 original size:50 final size:51
Alignment explanation
Indices: 15173362--15173470 Score: 175
Period size: 50 Copynumber: 2.2 Consensus size: 51
15173352 TTTAGCTTAG
* *
15173362 AGGATGAAAAAGAAAAGATTGAAGCAAAAGCCAACTTTTGCTTAATGG-CA
1 AGGATGAAAAAGAAAAAATGGAAGCAAAAGCCAACTTTTGCTTAATGGCCA
*
15173412 AGGATGAAAAAGAAAAAATGGAAGCAAAAGCCAACTTTTGCTTGATGGCCA
1 AGGATGAAAAAGAAAAAATGGAAGCAAAAGCCAACTTTTGCTTAATGGCCA
*
15173463 AAGATGAA
1 AGGATGAA
15173471 TAACTAAAGG
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
50 45 0.83
51 9 0.17
ACGTcount: A:0.47, C:0.12, G:0.23, T:0.18
Consensus pattern (51 bp):
AGGATGAAAAAGAAAAAATGGAAGCAAAAGCCAACTTTTGCTTAATGGCCA
Found at i:15178918 original size:42 final size:42
Alignment explanation
Indices: 15178871--15178964 Score: 161
Period size: 42 Copynumber: 2.2 Consensus size: 42
15178861 TAACTTGCAC
15178871 CTTTGGATATTTGATCTTGCTCAGGAATTAGATTCCCAAACT
1 CTTTGGATATTTGATCTTGCTCAGGAATTAGATTCCCAAACT
** *
15178913 CTTTGGATATTTGATCTTGCTTGGGAATTGGATTCCCAAACT
1 CTTTGGATATTTGATCTTGCTCAGGAATTAGATTCCCAAACT
15178955 CTTTGGATAT
1 CTTTGGATAT
15178965 GAAAATAGAT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.40
Consensus pattern (42 bp):
CTTTGGATATTTGATCTTGCTCAGGAATTAGATTCCCAAACT
Found at i:15180646 original size:46 final size:46
Alignment explanation
Indices: 15180593--15180680 Score: 151
Period size: 46 Copynumber: 1.9 Consensus size: 46
15180583 AGTATAAAAT
15180593 ATCAGCATAAAATGTTGGCTTGTTGGACTT-GAGCAATGATGGATCA
1 ATCAGCATAAAATGTTGGCTTGTTGGACTTGGA-CAATGATGGATCA
*
15180639 ATCAGCATAAAATGTTGGCTTGTTGGATTTGGACAATGATGG
1 ATCAGCATAAAATGTTGGCTTGTTGGACTTGGACAATGATGG
15180681 GGCTGGACCA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
46 38 0.95
47 2 0.05
ACGTcount: A:0.30, C:0.11, G:0.27, T:0.32
Consensus pattern (46 bp):
ATCAGCATAAAATGTTGGCTTGTTGGACTTGGACAATGATGGATCA
Found at i:15183525 original size:6 final size:6
Alignment explanation
Indices: 15183514--15183545 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
15183504 AAGAGAGGAA
15183514 CAAAAG CAAAAG CAAAAG CAAAAG CAAAAG CA
1 CAAAAG CAAAAG CAAAAG CAAAAG CAAAAG CA
15183546 GTGGGGAAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.66, C:0.19, G:0.16, T:0.00
Consensus pattern (6 bp):
CAAAAG
Found at i:15189920 original size:28 final size:28
Alignment explanation
Indices: 15189879--15189937 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
15189869 CTTGGGTATT
* *
15189879 TTTTTTTCAGTTAGCACCTTTTGAATATA
1 TTTTTTTCAATTAGCACCTTATGAATA-A
*
15189908 TTTTTTT-AATTAGCATCTTATGAATAA
1 TTTTTTTCAATTAGCACCTTATGAATAA
15189935 TTT
1 TTT
15189938 ATGCTTTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 4 0.15
28 16 0.59
29 7 0.26
ACGTcount: A:0.27, C:0.10, G:0.08, T:0.54
Consensus pattern (28 bp):
TTTTTTTCAATTAGCACCTTATGAATAA
Found at i:15190409 original size:27 final size:28
Alignment explanation
Indices: 15190360--15190412 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
15190350 TAATCTTAAG
15190360 AGGGATTAGGGATTATAAGATAAATACA
1 AGGGATTAGGGATTATAAGATAAATACA
*
15190388 AGGGATTA-GTATTATGAA-ATAAATA
1 AGGGATTAGGGATTAT-AAGATAAATA
15190413 TAAGTAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.47, C:0.02, G:0.23, T:0.28
Consensus pattern (28 bp):
AGGGATTAGGGATTATAAGATAAATACA
Found at i:15195557 original size:3 final size:3
Alignment explanation
Indices: 15195551--15195577 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
15195541 ATAATTTATT
15195551 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
15195578 GGGGCTGCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:15196604 original size:20 final size:19
Alignment explanation
Indices: 15196559--15196606 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
15196549 TGATTATTAA
*
15196559 AAAATAAATATATTTTTAT
1 AAAATAATTATATTTTTAT
* *
15196578 ATGAATAATTATTTTTTTAGT
1 A-AAATAATTATATTTTTA-T
15196599 AAAATAAT
1 AAAATAAT
15196607 ATGTTGAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 1 0.04
20 20 0.87
21 2 0.09
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (19 bp):
AAAATAATTATATTTTTAT
Found at i:15206204 original size:9 final size:9
Alignment explanation
Indices: 15206184--15206221 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
15206174 ACATATATAT
*
15206184 AAATATATA
1 AAATATAAA
*
15206193 AAATTTAAA
1 AAATATAAA
15206202 AAATATAAA
1 AAATATAAA
15206211 AAATA-AAA
1 AAATATAAA
15206219 AAA
1 AAA
15206222 AGCTTAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
8 6 0.23
9 20 0.77
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
AAATATAAA
Found at i:15218107 original size:9 final size:10
Alignment explanation
Indices: 15218075--15218110 Score: 54
Period size: 10 Copynumber: 3.4 Consensus size: 10
15218065 TGTAAAAGAC
15218075 AAATTAAATAA
1 AAATTAAA-AA
15218086 TAAATTAAAAA
1 -AAATTAAAAA
15218097 AAATTAAAAA
1 AAATTAAAAA
15218107 AAAT
1 AAAT
15218111 GAGAAGAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.58
11 2 0.08
12 8 0.33
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (10 bp):
AAATTAAAAA
Found at i:15221140 original size:2 final size:2
Alignment explanation
Indices: 15221133--15221164 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
15221123 GCTATTAATT
15221133 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15221165 ATAATAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15221632 original size:2 final size:2
Alignment explanation
Indices: 15221625--15221658 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
15221615 TTGNTATTAT
15221625 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15221659 AAATAAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15223354 original size:2 final size:2
Alignment explanation
Indices: 15223347--15223388 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
15223337 TTCAATTAAA
15223347 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15223389 CAAAAGATGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15224499 original size:21 final size:21
Alignment explanation
Indices: 15224475--15224514 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
15224465 TTCTATTGAA
15224475 AATGTATTGATACATTTGATT
1 AATGTATTGATACATTTGATT
*
15224496 AATGTATTGATACTTTTGA
1 AATGTATTGATACATTTGA
15224515 GGCAGCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.47
Consensus pattern (21 bp):
AATGTATTGATACATTTGATT
Found at i:15225187 original size:2 final size:2
Alignment explanation
Indices: 15225182--15225242 Score: 90
Period size: 2 Copynumber: 31.5 Consensus size: 2
15225172 TCTGTGTGTC
* *
15225182 TA TA TA CA TA TA T- TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15225223 TA TA TA TA -A TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
15225243 GTTCTTGTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
1 2 0.04
2 51 0.96
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:15227856 original size:38 final size:39
Alignment explanation
Indices: 15227726--15227873 Score: 156
Period size: 39 Copynumber: 3.8 Consensus size: 39
15227716 ATCCTCTTTG
* **
15227726 GGGTGTTTCGAATGCTACTCGTGATGCTTCTTCTCCTAA
1 GGGTGTTTCGAATTCTACTCGCAATGCTTCTTCTCCTAA
* * * **
15227765 GGGTGTTTTG-ATTACTACTTGTAATGCTTCTTCTTTTAA
1 GGGTGTTTCGAATT-CTACTCGCAATGCTTCTTCTCCTAA
* * *
15227804 GGGTGTTTTGAATTCTACTTGCAATACTTCTTCTCCT-A
1 GGGTGTTTCGAATTCTACTCGCAATGCTTCTTCTCCTAA
* *
15227842 TGGTGTTTCGAATTCTACTCGCAATTCTTCTT
1 GGGTGTTTCGAATTCTACTCGCAATGCTTCTT
15227874 ATTTTATTGG
Statistics
Matches: 93, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
38 31 0.33
39 59 0.63
40 3 0.03
ACGTcount: A:0.17, C:0.20, G:0.18, T:0.45
Consensus pattern (39 bp):
GGGTGTTTCGAATTCTACTCGCAATGCTTCTTCTCCTAA
Found at i:15229580 original size:21 final size:21
Alignment explanation
Indices: 15229555--15229603 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
15229545 ATAAGAACAA
*
15229555 CATCATGCTATATCTTAGGAT
1 CATCATGCCATATCTTAGGAT
15229576 CATCATGCCATATCTTAGGAT
1 CATCATGCCATATCTTAGGAT
15229597 CATCATG
1 CATCATG
15229604 TACCATTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (21 bp):
CATCATGCCATATCTTAGGAT
Found at i:15241930 original size:9 final size:9
Alignment explanation
Indices: 15241916--15241942 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
15241906 TATAATGCCC
15241916 TTCGATTAG
1 TTCGATTAG
15241925 TTCGATTAG
1 TTCGATTAG
15241934 TTCGATTAG
1 TTCGATTAG
15241943 AAATTTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.22, T:0.44
Consensus pattern (9 bp):
TTCGATTAG
Found at i:15242187 original size:20 final size:20
Alignment explanation
Indices: 15242162--15242201 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
15242152 TCTCTAGTAA
15242162 ACCTAACAGGAAGGTATTTT
1 ACCTAACAGGAAGGTATTTT
15242182 ACCTAACAGGAAGGTATTTT
1 ACCTAACAGGAAGGTATTTT
15242202 GATGGAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (20 bp):
ACCTAACAGGAAGGTATTTT
Found at i:15243886 original size:16 final size:17
Alignment explanation
Indices: 15243864--15243902 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
15243854 TATTAATTTT
15243864 TAAAAATTAAAA-TCACA
1 TAAAAA-TAAAATTCACA
15243881 -AAAAATAAAATTCACA
1 TAAAAATAAAATTCACA
15243897 TAAAAA
1 TAAAAA
15243903 AATTTTGGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 5 0.25
16 10 0.50
17 5 0.25
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (17 bp):
TAAAAATAAAATTCACA
Found at i:15243889 original size:15 final size:16
Alignment explanation
Indices: 15243865--15243902 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
15243855 ATTAATTTTT
*
15243865 AAAAATTAAAA-TCAC
1 AAAAAATAAAATTCAC
15243880 AAAAAATAAAATTCAC
1 AAAAAATAAAATTCAC
15243896 ATAAAAA
1 A-AAAAA
15243903 AATTTTGGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 10 0.50
16 5 0.25
17 5 0.25
ACGTcount: A:0.71, C:0.11, G:0.00, T:0.18
Consensus pattern (16 bp):
AAAAAATAAAATTCAC
Found at i:15244036 original size:23 final size:25
Alignment explanation
Indices: 15244003--15244067 Score: 75
Period size: 23 Copynumber: 2.7 Consensus size: 25
15243993 AAACTTATAA
*
15244003 AAATTTAAAATATATAAAT-AA-AT
1 AAATTAAAAATATATAAATCAATAT
*
15244026 AGAA-TAAAAATAAATAAATCAATAT
1 A-AATTAAAAATATATAAATCAATAT
15244051 AAATTAAAAA-ATATAAA
1 AAATTAAAAATATATAAA
15244068 AACGATAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
23 14 0.40
24 12 0.34
25 9 0.26
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (25 bp):
AAATTAAAAATATATAAATCAATAT
Found at i:15244054 original size:14 final size:14
Alignment explanation
Indices: 15244020--15244067 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
15244010 AAATATATAA
*
15244020 ATAAATAGAATAAAA
1 ATAAATA-AATAAAT
*
15244035 ATAAATAAATCAAT
1 ATAAATAAATAAAT
15244049 ATAAATTAAA-AAAT
1 ATAAA-TAAATAAAT
15244063 ATAAA
1 ATAAA
15244068 AACGATAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 18 0.62
15 11 0.38
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (14 bp):
ATAAATAAATAAAT
Found at i:15244058 original size:19 final size:19
Alignment explanation
Indices: 15244016--15244063 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
15244006 TTTAAAATAT
*
15244016 ATAAATAAATAGAATAAAA
1 ATAAATAAATACAATAAAA
15244035 ATAAATAAAT-CAATATAAA
1 ATAAATAAATACAATA-AAA
*
15244054 TTAAA-AAATA
1 ATAAATAAATA
15244064 TAAAAACGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 8 0.32
19 17 0.68
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (19 bp):
ATAAATAAATACAATAAAA
Found at i:15246355 original size:21 final size:21
Alignment explanation
Indices: 15246317--15246357 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
15246307 CATTTTCTTT
* *
15246317 TTTTTTATTATGTGAATTTTA
1 TTTTTTATGATGTAAATTTTA
*
15246338 TTTTTTATGATTTAAATTTT
1 TTTTTTATGATGTAAATTTT
15246358 TTAAAATTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.68
Consensus pattern (21 bp):
TTTTTTATGATGTAAATTTTA
Found at i:15253378 original size:19 final size:21
Alignment explanation
Indices: 15253356--15253403 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
15253346 AGAGCTAGTA
15253356 AGAAA-AAAAA-AGGAAAAGC
1 AGAAAGAAAAAGAGGAAAAGC
*
15253375 AGAAAGAAAAAGAGGAAAAGG
1 AGAAAGAAAAAGAGGAAAAGC
*
15253396 TGAAAGAA
1 AGAAAGAA
15253404 CAGAAAGAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 5 0.20
20 5 0.20
21 15 0.60
ACGTcount: A:0.69, C:0.02, G:0.27, T:0.02
Consensus pattern (21 bp):
AGAAAGAAAAAGAGGAAAAGC
Found at i:15257360 original size:20 final size:19
Alignment explanation
Indices: 15257335--15257373 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
15257325 CTAAAGTTAT
*
15257335 ATTAGTCATTTGACTTTTTA
1 ATTAGTCA-TTAACTTTTTA
*
15257355 ATTAGTTATTAACTTTTTA
1 ATTAGTCATTAACTTTTTA
15257374 CTAGATACTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.28, C:0.08, G:0.08, T:0.56
Consensus pattern (19 bp):
ATTAGTCATTAACTTTTTA
Found at i:15257491 original size:17 final size:17
Alignment explanation
Indices: 15257471--15257510 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
15257461 TAAAATTAAT
15257471 TAATTATAAATAAAAAA
1 TAATTATAAATAAAAAA
* * *
15257488 TAATTATAATTGAAATA
1 TAATTATAAATAAAAAA
15257505 TAATTA
1 TAATTA
15257511 ATATTTTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TAATTATAAATAAAAAA
Found at i:15258532 original size:77 final size:76
Alignment explanation
Indices: 15258398--15258612 Score: 308
Period size: 77 Copynumber: 2.8 Consensus size: 76
15258388 TGAAAAGCCA
* * *
15258398 AACTTTTCTTTGAAGTTTTT-TTTTT-TGGTATTTTAACTATAATTAGCAGATGTGATTATGGAA
1 AACTTTTCTTTGAAGTTTTTGTTTTTGTGGTATTTTAACTATATTTAGTAGATTTGATTATGGAA
*
15258461 ATCAAAACTCG
66 ATCAAAACCCG
* *
15258472 GACTTTTCTTTGAAGTTTTTGTTTTTGTGGGTATTTAAACTATATTTAGTAGATTTGATTATGGA
1 AACTTTTCTTTGAAGTTTTTGTTTTTGT-GGTATTTTAACTATATTTAGTAGATTTGATTATGGA
15258537 AATCAAAACCCG
65 AATCAAAACCCG
* * **
15258549 AACTTTTCTTTAAAGTTTTTGTTTTCGTAGGTATTTTAGTTATATTTAGTAGATTTGATTATGG
1 AACTTTTCTTTGAAGTTTTTGTTTTTGT-GGTATTTTAACTATATTTAGTAGATTTGATTATGG
15258613 GTTTTGATGC
Statistics
Matches: 125, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
74 19 0.15
75 5 0.04
76 1 0.01
77 100 0.80
ACGTcount: A:0.27, C:0.08, G:0.17, T:0.48
Consensus pattern (76 bp):
AACTTTTCTTTGAAGTTTTTGTTTTTGTGGTATTTTAACTATATTTAGTAGATTTGATTATGGAA
ATCAAAACCCG
Found at i:15262332 original size:87 final size:87
Alignment explanation
Indices: 15262186--15262360 Score: 273
Period size: 87 Copynumber: 2.0 Consensus size: 87
15262176 CATGTATACA
15262186 ACCACCACCTCCTCACCCAGCTCATGTGCAACCCCCACATTGCGCACATAGCTGGAGTCATCATG
1 ACCACCACCTCCTCACCCAGCTCATGTGCAACCCCCACATTGCGCACATAGCTGGAGTCATCATG
15262251 TGCATCC-CCCTACATCGTGCAC
66 TGCATCCGCCC-ACATCGTGCAC
* * * * *
15262273 ACCACCACTTCCTCACCGAGCTCATGTGCAACCCCCACATCT-CTCACATAGGTGGAGTCATCGT
1 ACCACCACCTCCTCACCCAGCTCATGTGCAACCCCCACAT-TGCGCACATAGCTGGAGTCATCAT
15262337 GTGCATCCGCCCACATCGTGCAC
65 GTGCATCCGCCCACATCGTGCAC
15262360 A
1 A
15262361 GCTAATACCA
Statistics
Matches: 81, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
87 77 0.95
88 4 0.05
ACGTcount: A:0.23, C:0.41, G:0.16, T:0.20
Consensus pattern (87 bp):
ACCACCACCTCCTCACCCAGCTCATGTGCAACCCCCACATTGCGCACATAGCTGGAGTCATCATG
TGCATCCGCCCACATCGTGCAC
Found at i:15262699 original size:18 final size:18
Alignment explanation
Indices: 15262674--15262714 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
15262664 CTTAATCATG
15262674 ATAT-CGTGTTTAAACGT
1 ATATACGTGTTTAAACGT
*
15262691 GTATACGTGTTTAAACGT
1 ATATACGTGTTTAAACGT
15262709 ATATAC
1 ATATAC
15262715 ATGACACGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.39
Consensus pattern (18 bp):
ATATACGTGTTTAAACGT
Found at i:15262890 original size:19 final size:19
Alignment explanation
Indices: 15262855--15262899 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
15262845 ATATTAAATT
15262855 TTATTA-TATTTGATGTTA
1 TTATTATTATTTGATGTTA
**
15262873 TTATTATTATTTTTTGTTA
1 TTATTATTATTTGATGTTA
*
15262892 TAATTATT
1 TTATTATT
15262900 TTTATAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (19 bp):
TTATTATTATTTGATGTTA
Found at i:15273598 original size:21 final size:22
Alignment explanation
Indices: 15273574--15273629 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
15273564 TAACCGGGGC
*
15273574 TGATGTGGCATTGATCAGTG-T
1 TGATGTGGAATTGATCAGTGTT
* *
15273595 TGATGT-GATGTTTATCAGTGTT
1 TGATGTGGA-ATTGATCAGTGTT
15273617 TGATGTGGAATTG
1 TGATGTGGAATTG
15273630 TTGGGGATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
20 1 0.04
21 15 0.56
22 9 0.33
23 2 0.07
ACGTcount: A:0.20, C:0.05, G:0.32, T:0.43
Consensus pattern (22 bp):
TGATGTGGAATTGATCAGTGTT
Found at i:15273753 original size:31 final size:31
Alignment explanation
Indices: 15273673--15273847 Score: 176
Period size: 31 Copynumber: 5.6 Consensus size: 31
15273663 TCCCTATACT
* *
15273673 AAAATGTTGGATTTTGT-CCTGGTACTCTATC
1 AAAATGTTGGATTTAGTCCCT-GTACTTTATC
* * * *
15273704 AAAAATATTGAATGTAGTCCCTATACTTTATC
1 -AAAATGTTGGATTTAGTCCCTGTACTTTATC
* *
15273736 AAAATGTTGGATTTAGTCCTTGTACTCTATC
1 AAAATGTTGGATTTAGTCCCTGTACTTTATC
* * *
15273767 AAAATGTTGGATTTAGTTCCTATACTTTACC
1 AAAATGTTGGATTTAGTCCCTGTACTTTATC
* *
15273798 AAAATATTGGATTTAGTCTCTGTA-TTCTAGT-
1 AAAATGTTGGATTTAGTCCCTGTACTT-TA-TC
15273829 AAAATGTTGGATTTAGTCC
1 AAAATGTTGGATTTAGTCC
15273848 TGTGTTATAG
Statistics
Matches: 116, Mismatches: 24, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
30 2 0.02
31 90 0.78
32 21 0.18
33 3 0.03
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.41
Consensus pattern (31 bp):
AAAATGTTGGATTTAGTCCCTGTACTTTATC
Found at i:15273802 original size:62 final size:62
Alignment explanation
Indices: 15273673--15273847 Score: 228
Period size: 62 Copynumber: 2.8 Consensus size: 62
15273663 TCCCTATACT
* * * * * *
15273673 AAAATGTTGGATTTTGTCCTGGTACTCTATCAAAAATATTGAATGTAGTCCCTATACTTTATC
1 AAAATGTTGGATTTAGTCCTTGTACTCTATC-AAAATGTTGGATTTAGTCCCTATACTTTACC
*
15273736 AAAATGTTGGATTTAGTCCTTGTACTCTATCAAAATGTTGGATTTAGTTCCTATACTTTACC
1 AAAATGTTGGATTTAGTCCTTGTACTCTATCAAAATGTTGGATTTAGTCCCTATACTTTACC
* *
15273798 AAAATATTGGATTTAGT-CTCTGTATTCTAGT-AAAATGTTGGATTTAGTCC
1 AAAATGTTGGATTTAGTCCT-TGTACTCTA-TCAAAATGTTGGATTTAGTCC
15273848 TGTGTTATAG
Statistics
Matches: 100, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
61 2 0.02
62 68 0.68
63 30 0.30
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.41
Consensus pattern (62 bp):
AAAATGTTGGATTTAGTCCTTGTACTCTATCAAAATGTTGGATTTAGTCCCTATACTTTACC
Found at i:15274738 original size:21 final size:21
Alignment explanation
Indices: 15274714--15274754 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
15274704 AGAAGTTCTA
15274714 TGTTAGCACCAGTCAATGTCG
1 TGTTAGCACCAGTCAATGTCG
* *
15274735 TGTTAGCATCGGTCAATGTC
1 TGTTAGCACCAGTCAATGTC
15274755 ACATCAGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (21 bp):
TGTTAGCACCAGTCAATGTCG
Found at i:15286289 original size:7 final size:7
Alignment explanation
Indices: 15286279--15286303 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
15286269 TATAATAATG
15286279 TTAAATT
1 TTAAATT
15286286 TTAAATT
1 TTAAATT
15286293 TTAAATT
1 TTAAATT
15286300 TTAA
1 TTAA
15286304 TGCCAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TTAAATT
Found at i:15291263 original size:340 final size:336
Alignment explanation
Indices: 15290680--15291772 Score: 1387
Period size: 340 Copynumber: 3.3 Consensus size: 336
15290670 TTACTATTAT
* *
15290680 ATATATACACTTTTAATATAAATATATTTACTTTCTATTTTGTGTTAACATTACAAAAATTATAA
1 ATATATACACTTTAAATATAAACATATTTACTTTCTATTTTGTGTTAACATTACAAAAATTATAA
* * * *
15290745 CTTAGAAAATTATAAATTAT-AATATATACCATTGTTTATATAAACTTATAATATATATA-CTTA
66 CTTATAAAATTATTAATTATAAATATATACCTTTGTTTATATAAACTTATAATATATAAATC-TA
* * * * ** *
15290808 AAGA-GAGACTCTGAGATTAGAATAGTTTTGGAACCTAAATATCTTTTTTAATTTCATGTAATTA
130 AAGATAAG-TTGTGAGATTAGAATAGTTTTGAAACCTAGTTATTTTTTTTAATTTCATGTAATTA
** * * * * *
15290872 AGGACAAACTTTTCTAGTTAATTAAATTAATTTATGAAATTAT-GATTATTAATTAAGTTGTAAT
194 AGGACAAACTCATATAATTAATTAAATTAATTAATGAAACTATAG-TTATTAATTAACTTGTAAT
* * *
15290936 GTCTTTTAATATATATAGTTTACATATTGTGTTAATATATAAGAAATATAATTACTATTGTATAT
258 GTCTTTTAATATATATATTTTATATATTGTGTTAATTTATAAGAAATATAATTACTATTGTATAT
15291001 ATACTAAAATCCTTTTA
323 ATAC-AAAAT-C-TTTA
* * * *
15291018 ATATATATACTTTAAATATAAACATATTTACTTTCTATTTTGTGTTAACATTAAAAAAAGTATAT
1 ATATATACACTTTAAATATAAACATATTTACTTTCTATTTTGTGTTAACATTACAAAAATTATAA
*
15291083 CTTATAAAATTATTAATTATAACATATATACCTTTATTTATATAAACTTATAATATATAAATCTA
66 CTTATAAAATTATTAATTATAA-ATATATACCTTTGTTTATATAAACTTATAATATATAAATCTA
* *
15291148 AAGATAAGTTGTGAGATTAGAATAGTATTGAAACCTAGTTATTTTTTTTAATTTCATGTAATTTA
130 AAGATAAGTTGTGAGATTAGAATAGTTTTGAAACCTAGTTATTTTTTTTAATTTCATGTAATTAA
* *
15291213 GGACAAACTCAAATAATTAATTAAATTAATTCATGAAACTATAGTTATTAATTAACTTGTAATGT
195 GGACAAACTCATATAATTAATTAAATTAATTAATGAAACTATAGTTATTAATTAACTTGTAATGT
*
15291278 CTTTTAATATATATATTTTATATATAT-TAGGTTTATTTATAAGAAATATAATTAC---TGT-TA
260 CTTTTAATATATATATTTTATATAT-TGT--GTTAATTTATAAGAAATATAATTACTATTGTATA
15291338 TATAC---A-C----
322 TATACAAAATCTTTA
* * *
15291345 --ACACACACTTTAAATATAAACATATTTACTTTCTATTTTGTATTAACATTACAAAAATTATAA
1 ATATATACACTTTAAATATAAACATATTTACTTTCTATTTTGTGTTAACATTACAAAAATTATAA
* *
15291408 ATTATAAAATTATTAATTATAATATATATAACTTTGTTTATATAAACTTATAATATATAAATCTA
66 CTTATAAAATTATTAATTATAA-ATATATACCTTTGTTTATATAAACTTATAATATATAAATCTA
* * *
15291473 AAGATAAGTTGTGATATTATAAGAGTTTTGAAACCTAGTTATTTTTTTTTAATTTCATGTAATTA
130 AAGATAAGTTGTGAGATTAGAATAGTTTTGAAACCTAGTTA-TTTTTTTTAATTTCATGTAATTA
* * * * * *
15291538 AGGATAGACCCATATATTTAATTAAATTAATTAATGAAACTATAATTATTAATTAACTTGTAATA
194 AGGACAAACTCATATAATTAATTAAATTAATTAATGAAACTATAGTTATTAATTAACTTGTAATG
* * * * *
15291603 TCTTTTAATATATGTACTTTATATATATTGGGTTCATTTATAAAAAATATAATTACTATTATATA
259 TCTTTTAATATATATA-TTT-TATATATTGTGTTAATTTATAAGAAATATAATTACTATTGTATA
15291668 TATACACAAATACTTTAA
322 TATACA-AAAT-CTTT-A
* * *
15291686 GTATATATACACTTTAAATAGAAAGATATTTACTTTCTATTTTGTGTTAATATTACAAAAATTAT
1 --ATATATACACTTTAAATATAAACATATTTACTTTCTATTTTGTGTTAACATTACAAAAATTAT
15291751 AACTTATAAAATTATTAATTAT
64 AACTTATAAAATTATTAATTAT
15291773 GTTTGAGATA
Statistics
Matches: 656, Mismatches: 68, Indels: 55
0.84 0.09 0.07
Matches are distributed among these distances:
325 154 0.23
326 117 0.18
327 4 0.01
328 7 0.01
329 2 0.00
330 7 0.01
332 1 0.00
334 2 0.00
336 1 0.00
338 84 0.13
339 4 0.01
340 169 0.26
341 5 0.01
342 23 0.04
345 76 0.12
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.44
Consensus pattern (336 bp):
ATATATACACTTTAAATATAAACATATTTACTTTCTATTTTGTGTTAACATTACAAAAATTATAA
CTTATAAAATTATTAATTATAAATATATACCTTTGTTTATATAAACTTATAATATATAAATCTAA
AGATAAGTTGTGAGATTAGAATAGTTTTGAAACCTAGTTATTTTTTTTAATTTCATGTAATTAAG
GACAAACTCATATAATTAATTAAATTAATTAATGAAACTATAGTTATTAATTAACTTGTAATGTC
TTTTAATATATATATTTTATATATTGTGTTAATTTATAAGAAATATAATTACTATTGTATATATA
CAAAATCTTTA
Found at i:15291416 original size:15 final size:15
Alignment explanation
Indices: 15291398--15291429 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
15291388 TAACATTACA
15291398 AAAATTATAAATTAT
1 AAAATTATAAATTAT
*
15291413 AAAATTATTAATTAT
1 AAAATTATAAATTAT
15291428 AA
1 AA
15291430 TATATATAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AAAATTATAAATTAT
Found at i:15309546 original size:47 final size:47
Alignment explanation
Indices: 15309492--15309586 Score: 118
Period size: 47 Copynumber: 2.0 Consensus size: 47
15309482 TTAATCTTAC
* * * * * * *
15309492 GTATCAAATATTTTGTGCTATTTGAGATTAACTTAAATTGTAAGCAT
1 GTATCAAACACTTTATGCCATTTGAGATTAAATCAAATAGTAAGCAT
*
15309539 GTATCAAACACTTTATGCCATTTGAGTTTAAATCAAATAGTAAGCAT
1 GTATCAAACACTTTATGCCATTTGAGATTAAATCAAATAGTAAGCAT
15309586 G
1 G
15309587 GTAATGAGAT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.38
Consensus pattern (47 bp):
GTATCAAACACTTTATGCCATTTGAGATTAAATCAAATAGTAAGCAT
Found at i:15311008 original size:27 final size:27
Alignment explanation
Indices: 15310978--15311032 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
15310968 AAATAATGAC
*
15310978 ATAAAAGTCATTTCATTATAACATCCA
1 ATAAAACTCATTTCATTATAACATCCA
*
15311005 ATAAAACTCATTTTATTATAACATCCA
1 ATAAAACTCATTTCATTATAACATCCA
15311032 A
1 A
15311033 AGTACAAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.45, C:0.18, G:0.02, T:0.35
Consensus pattern (27 bp):
ATAAAACTCATTTCATTATAACATCCA
Found at i:15314349 original size:19 final size:19
Alignment explanation
Indices: 15314325--15314361 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
15314315 ATTTAAAAAT
*
15314325 ATTATTTTTTATAATTTTA
1 ATTATTTTTAATAATTTTA
15314344 ATTATTTTTAATAATTTT
1 ATTATTTTTAATAATTTT
15314362 TGACATGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
ATTATTTTTAATAATTTTA
Found at i:15315029 original size:22 final size:22
Alignment explanation
Indices: 15314985--15315029 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
15314975 TTGATTAAAA
*
15314985 TGGTTTTTAAGTATTGTGAGAC
1 TGGTTTTTAAGTATTGCGAGAC
* *
15315007 TGGTTTTTAGGTATTGCGTGAC
1 TGGTTTTTAAGTATTGCGAGAC
15315029 T
1 T
15315030 TAATCATTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.18, C:0.07, G:0.29, T:0.47
Consensus pattern (22 bp):
TGGTTTTTAAGTATTGCGAGAC
Found at i:15315059 original size:22 final size:21
Alignment explanation
Indices: 15315029--15315119 Score: 83
Period size: 22 Copynumber: 4.2 Consensus size: 21
15315019 ATTGCGTGAC
*
15315029 TTAATCATTGTGTGACTAGTTT
1 TTAAACATTGTGTGACT-GTTT
* * *
15315051 TTAAACATTATGTGATTGATT
1 TTAAACATTGTGTGACTGTTT
** **
15315072 TTAGGCATTGCATGACTGGTTT
1 TTAAACATTGTGTGACT-GTTT
15315094 TTAAACATTGTGTGACTGATTT
1 TTAAACATTGTGTGACTG-TTT
15315116 TTAA
1 TTAA
15315120 GTAATGCCTA
Statistics
Matches: 52, Mismatches: 15, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
21 15 0.29
22 37 0.71
ACGTcount: A:0.26, C:0.09, G:0.19, T:0.46
Consensus pattern (21 bp):
TTAAACATTGTGTGACTGTTT
Found at i:15315163 original size:23 final size:23
Alignment explanation
Indices: 15315129--15315213 Score: 125
Period size: 23 Copynumber: 3.7 Consensus size: 23
15315119 AGTAATGCCT
*
15315129 AAGTCACACAATGCCTTACTAAC
1 AAGTCACGCAATGCCTTACTAAC
* *
15315152 TAGTTACGCAATGCCTTACTAAC
1 AAGTCACGCAATGCCTTACTAAC
* *
15315175 AAGTCATGCAATGCCTCACTAAC
1 AAGTCACGCAATGCCTTACTAAC
15315198 AAGTCACGCAATGCCT
1 AAGTCACGCAATGCCT
15315214 ATCAACTAGT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 54 1.00
ACGTcount: A:0.34, C:0.29, G:0.13, T:0.24
Consensus pattern (23 bp):
AAGTCACGCAATGCCTTACTAAC
Found at i:15315248 original size:23 final size:22
Alignment explanation
Indices: 15315199--15315241 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
15315189 CTCACTAACA
* *
15315199 AGTCACGCAATGCCTATCAACT
1 AGTCACACAATGCATATCAACT
15315221 AGTCACACAATGCTATATCAA
1 AGTCACACAATGC-ATATCAA
15315242 TCAGTCATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.37, C:0.28, G:0.12, T:0.23
Consensus pattern (22 bp):
AGTCACACAATGCATATCAACT
Found at i:15315572 original size:60 final size:61
Alignment explanation
Indices: 15315451--15315572 Score: 149
Period size: 60 Copynumber: 2.0 Consensus size: 61
15315441 TTTGACAAAG
* * * ** *
15315451 AATACTCAAAATGTTCAAAAGTTTTTTTTCATATATCAAAAATCATTCCAAAATGCTTAAA
1 AATACTCAAAATGCTCAAAAGGTTTTCTTCATATATCAAAAATCACCCCAAAACGCTTAAA
* *
15315512 AATACTCAAAATGCTC-AAAGGTTTTCTTCGTGTATCAAAAA-CTACCCCAAAACGCTTAAA
1 AATACTCAAAATGCTCAAAAGGTTTTCTTCATATATCAAAAATC-ACCCCAAAACGCTTAAA
15315572 A
1 A
15315573 TGCTTAAACG
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
59 1 0.02
60 36 0.69
61 15 0.29
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (61 bp):
AATACTCAAAATGCTCAAAAGGTTTTCTTCATATATCAAAAATCACCCCAAAACGCTTAAA
Found at i:15320534 original size:23 final size:23
Alignment explanation
Indices: 15320484--15320543 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
15320474 AGTAGTTAAT
** *
15320484 ATGGAATCGCGTGACTAATCGAT
1 ATGGAATCGCGTGACTAATAAAA
* *
15320507 TTGGAATCGCGTGACTATTAAAA
1 ATGGAATCGCGTGACTAATAAAA
15320530 ATGGAATCGCGTGA
1 ATGGAATCGCGTGA
15320544 ACTGTTAAGA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.27
Consensus pattern (23 bp):
ATGGAATCGCGTGACTAATAAAA
Found at i:15320538 original size:46 final size:46
Alignment explanation
Indices: 15320439--15320543 Score: 122
Period size: 46 Copynumber: 2.3 Consensus size: 46
15320429 TTATTTGATG
* * * * * *
15320439 TGGAATCACGCGACTACTCAATTTTGAATCACGTGAGTAGTTAATA
1 TGGAATCGCGTGACTAATCAATTTGGAATCACGTGACTAGTTAAAA
* *
15320485 TGGAATCGCGTGACTAATCGATTTGGAATCGCGTGACTA-TTAAAAA
1 TGGAATCGCGTGACTAATCAATTTGGAATCACGTGACTAGTT-AAAA
15320531 TGGAATCGCGTGA
1 TGGAATCGCGTGA
15320544 ACTGTTAAGA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
45 2 0.04
46 48 0.96
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (46 bp):
TGGAATCGCGTGACTAATCAATTTGGAATCACGTGACTAGTTAAAA
Found at i:15320672 original size:26 final size:23
Alignment explanation
Indices: 15320616--15320666 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
15320606 GTGATGTTAG
15320616 TAGTTATTATGAAATCACGTGAC
1 TAGTTATTATGAAATCACGTGAC
**
15320639 TAGTTATTATGAAATCGTGTGAC
1 TAGTTATTATGAAATCACGTGAC
15320662 TAGTT
1 TAGTT
15320667 GATATTGAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (23 bp):
TAGTTATTATGAAATCACGTGAC
Found at i:15320737 original size:23 final size:22
Alignment explanation
Indices: 15320678--15320740 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 22
15320668 ATATTGAGTC
*
15320678 GCGTGAGTATTATTTATGGAGTG
1 GCGTGAGTATTA-TTATGGAATG
* **
15320701 GCGTTACCACTTATTATGGAATG
1 GCGTGAGTA-TTATTATGGAATG
15320724 GCGTGAGTATTTATTAT
1 GCGTGAGTA-TTATTAT
15320741 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
23 28 0.90
24 3 0.10
ACGTcount: A:0.24, C:0.10, G:0.27, T:0.40
Consensus pattern (22 bp):
GCGTGAGTATTATTATGGAATG
Found at i:15320879 original size:23 final size:23
Alignment explanation
Indices: 15320853--15320915 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
15320843 TACCACTTGT
*
15320853 TATGGAATTGCGTGAGTAGTTGA
1 TATGGAATTGCGTGACTAGTTGA
* *
15320876 TATGGAATCGCATGACTAGTTGA
1 TATGGAATTGCGTGACTAGTTGA
15320899 TAT-GAGATTGCGTGACT
1 TATGGA-ATTGCGTGACT
15320916 CATTTATTGT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
22 2 0.06
23 32 0.94
ACGTcount: A:0.27, C:0.10, G:0.30, T:0.33
Consensus pattern (23 bp):
TATGGAATTGCGTGACTAGTTGA
Found at i:15321350 original size:78 final size:78
Alignment explanation
Indices: 15321172--15321547 Score: 386
Period size: 78 Copynumber: 4.9 Consensus size: 78
15321162 TTTCAAAGAG
* * * * * *
15321172 ACATCTTGTGTTTTAGATTTGCTTTTCCCCTAATCACCCCACTCA--AT-TTCCGTTGTACTGGT
1 ACATCTTGTGTTTTAGATTTGCTTGTCCCCCAATCACACCACTCAGTTTGTTTCATTGTACTGGT
* *
15321234 CACAGCTACTGCA
66 CACAACTGCTGCA
*
15321247 ACATCTTGTGTTTTAGATTTGCTTGTCCCCCAATCAC-CCGACTCAGTTTGTTTCATTGTACTAG
1 ACATCTTGTGTTTTAGATTTGCTTGTCCCCCAATCACACC-ACTCAGTTTGTTTCATTGTACTGG
*
15321311 TCACAACTGTTGCA
65 TCACAACTGCTGCA
* * * * * * * *
15321325 AAATCTTGTGTTTTAGATTTACTTGTCACCCAATCACACCACTTATTTTG-CTCTACTGTATTGG
1 ACATCTTGTGTTTTAGATTTGCTTGTCCCCCAATCACACCACTCAGTTTGTTTC-ATTGTACTGG
*
15321389 TCACAATTGCTGCA
65 TCACAACTGCTGCA
* * * * * * * *
15321403 ACATCTTGTGTTTTGGATTTGCTTGTCCCCCAATCACACCAGTAATTTTGCTTCGTTGTACTAGA
1 ACATCTTGTGTTTTAGATTTGCTTGTCCCCCAATCACACCACTCAGTTTGTTTCATTGTACTGGT
* *
15321468 CATAGCTGCTGCA
66 CACAACTGCTGCA
* * * *
15321481 ACTTCTTGTGTTTTAGATTTGTTTGTCCCCCAATCACACCGCTTAGTTT-TCTTCATTGTACTGG
1 ACATCTTGTGTTTTAGATTTGCTTGTCCCCCAATCACACCACTCAGTTTGT-TTCATTGTACTGG
15321545 TCA
65 TCA
15321548 GAGTATCATT
Statistics
Matches: 247, Mismatches: 46, Indels: 13
0.81 0.15 0.04
Matches are distributed among these distances:
74 2 0.01
75 40 0.16
77 3 0.01
78 198 0.80
79 4 0.02
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.39
Consensus pattern (78 bp):
ACATCTTGTGTTTTAGATTTGCTTGTCCCCCAATCACACCACTCAGTTTGTTTCATTGTACTGGT
CACAACTGCTGCA
Found at i:15324896 original size:22 final size:22
Alignment explanation
Indices: 15324845--15324898 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
15324835 GTCACGCGCC
*
15324845 ACCAGTC-TCGCAATATATAACA
1 ACCAGTCAT-GCAATATATAAAA
15324867 A-CAGGTCATGCAATATATAAAA
1 ACCA-GTCATGCAATATATAAAA
15324889 ACCAGTCATG
1 ACCAGTCATG
15324899 TAATGACTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
21 2 0.07
22 23 0.82
23 3 0.11
ACGTcount: A:0.43, C:0.22, G:0.13, T:0.22
Consensus pattern (22 bp):
ACCAGTCATGCAATATATAAAA
Found at i:15325104 original size:22 final size:22
Alignment explanation
Indices: 15325057--15325105 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
15325047 TGGCCCAATG
* ***
15325057 TCACGCAATATATAACAACGGG
1 TCACGCAATATATAAAAACCAA
15325079 TCACGCAATATATAAAAACCAA
1 TCACGCAATATATAAAAACCAA
15325101 TCACG
1 TCACG
15325106 AAAACTTCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.45, C:0.24, G:0.12, T:0.18
Consensus pattern (22 bp):
TCACGCAATATATAAAAACCAA
Found at i:15325208 original size:207 final size:207
Alignment explanation
Indices: 15324853--15325289 Score: 547
Period size: 207 Copynumber: 2.1 Consensus size: 207
15324843 CCACCAGTCT
* * * *
15324853 CGCAATATATAACAACAGGTCATGCAATATATAAAAACCAGTCATGTAATGACTAAAAACTACTA
1 CGCAATATATAACAACAGGTCACGCAATATATAAAAACCAATCACGTAATAACTAAAAACTACTA
* * * * * *
15324918 AACAAAAGCCTCAAAACAAAACATGAATTACACAAGTCAGTCATGTACCGGCAGTCTCGCTATAC
66 AACAAAAGCCTCAAAACAAAACATAAATTACACAACTCAGTCACGCACCGCCAGTCTCGCTACAC
* * *
15324983 CTAATAATAAGTCACTTGATTCCTAATATCCACTCACGTTATGCCAACATAACCAGTTC-CGTAA
131 CTAAGAATAAGTCACTTGATGCCTAATATCCACTCACGTTATGCCAACATAACCA-TCCACGTAA
* **
15325047 TGGCCCAATGTCA
195 TGCCCCAACATCA
* *
15325060 CGCAATATATAACAACGGGTCACGCAATATATAAAAACCAATCACG-AA-AACTTCAAAAACTAG
1 CGCAATATATAACAACAGGTCACGCAATATATAAAAACCAATCACGTAATAAC-T-AAAAACTAC
* * * * * * * *
15325123 TGACCAAAAGCCTTAAAAGAAGAGATAAATTGCACAACTCAGTCACGCACCTCCAGTCTCGCTAC
64 TAAACAAAAGCCTCAAAACAAAACATAAATTACACAACTCAGTCACGCACCGCCAGTCTCGCTAC
* *
15325188 ACTTAAGAATAAGTCACTTGATGCCTAATATCCACTCATGTTATGCCAACATAACCATCCACGTA
129 ACCTAAGAATAAGTCACTTGATGCCTAATATCCACTCACGTTATGCCAACATAACCATCCACGTA
*
15325253 CTGCCCCAACATCA
194 ATGCCCCAACATCA
* *
15325267 CGCAATACATAACAACACGTCAC
1 CGCAATATATAACAACAGGTCAC
15325290 CATATGTACT
Statistics
Matches: 195, Mismatches: 32, Indels: 6
0.84 0.14 0.03
Matches are distributed among these distances:
205 2 0.01
206 5 0.03
207 188 0.96
ACGTcount: A:0.40, C:0.26, G:0.12, T:0.22
Consensus pattern (207 bp):
CGCAATATATAACAACAGGTCACGCAATATATAAAAACCAATCACGTAATAACTAAAAACTACTA
AACAAAAGCCTCAAAACAAAACATAAATTACACAACTCAGTCACGCACCGCCAGTCTCGCTACAC
CTAAGAATAAGTCACTTGATGCCTAATATCCACTCACGTTATGCCAACATAACCATCCACGTAAT
GCCCCAACATCA
Found at i:15326437 original size:22 final size:22
Alignment explanation
Indices: 15326411--15326540 Score: 86
Period size: 22 Copynumber: 5.6 Consensus size: 22
15326401 TAGGTAGATA
15326411 AAGTCACGCAATGCCTAAAAAT
1 AAGTCACGCAATGCCTAAAAAT
*
15326433 AAGTCATGCAATG-CTCAACAAAT
1 AAGTCACGCAATGCCT-AA-AAAT
* * *
15326456 ATTCAGTCACGTAATGCCTATAAAC
1 A---AGTCACGCAATGCCTAAAAAT
* *
15326481 AAGTCATGCAATGCTTAACAAAT
1 AAGTCACGCAATGCCTAA-AAAT
* *
15326504 ATTCAGTCACGTAATGCCT--AAAC
1 A---AGTCACGCAATGCCTAAAAAT
15326527 AAGTCACGCAATGC
1 AAGTCACGCAATGC
15326541 TCAACAAATA
Statistics
Matches: 83, Mismatches: 15, Indels: 22
0.69 0.12 0.18
Matches are distributed among these distances:
20 12 0.14
21 2 0.02
22 27 0.33
23 13 0.16
25 4 0.05
26 23 0.28
27 2 0.02
ACGTcount: A:0.40, C:0.23, G:0.14, T:0.23
Consensus pattern (22 bp):
AAGTCACGCAATGCCTAAAAAT
Found at i:15326472 original size:48 final size:47
Alignment explanation
Indices: 15326412--15326564 Score: 245
Period size: 48 Copynumber: 3.2 Consensus size: 47
15326402 AGGTAGATAA
* *
15326412 AGTCACGCAATGCCTAAAAATAAGTCATGCAATGCTCAACAAATATTC
1 AGTCACGTAATGCCT-AAAACAAGTCATGCAATGCTCAACAAATATTC
*
15326460 AGTCACGTAATGCCTATAAACAAGTCATGCAATGCTTAACAAATATTC
1 AGTCACGTAATGCCTA-AAACAAGTCATGCAATGCTCAACAAATATTC
*
15326508 AGTCACGTAATGCCT-AAACAAGTCACGCAATGCTCAACAAATATTC
1 AGTCACGTAATGCCTAAAACAAGTCATGCAATGCTCAACAAATATTC
15326554 AGTCACGTAAT
1 AGTCACGTAAT
15326565 ATTCATGCAC
Statistics
Matches: 99, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
46 40 0.40
47 1 0.01
48 58 0.59
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.24
Consensus pattern (47 bp):
AGTCACGTAATGCCTAAAACAAGTCATGCAATGCTCAACAAATATTC
Found at i:15328325 original size:2 final size:2
Alignment explanation
Indices: 15328318--15328357 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
15328308 AGTCAATTAA
15328318 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15328358 TCAATCGAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15330408 original size:28 final size:28
Alignment explanation
Indices: 15330354--15330408 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
15330344 TTTCGTTGAA
15330354 AAATAAATTTCAACGAAAAATTCCGTTAT
1 AAATAAATTTCAACG-AAAATTCCGTTAT
*
15330383 AAATGAATTTCCAACG-AAATTCCGTT
1 AAATAAATTT-CAACGAAAATTCCGTT
15330409 GGAAATGCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 10 0.42
29 9 0.38
30 5 0.21
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (28 bp):
AAATAAATTTCAACGAAAATTCCGTTAT
Found at i:15330414 original size:28 final size:28
Alignment explanation
Indices: 15330354--15330415 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
15330344 TTTCGTTGAA
* *
15330354 AAATAAATTTCAACGAAAAATTCCGTTAT
1 AAATGAATTTCAACG-AAAATTCCGTTAG
*
15330383 AAATGAATTTCCAACG-AAATTCCGTTGG
1 AAATGAATTT-CAACGAAAATTCCGTTAG
15330411 AAATG
1 AAATG
15330416 CTTTTACAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 15 0.52
29 9 0.31
30 5 0.17
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.29
Consensus pattern (28 bp):
AAATGAATTTCAACGAAAATTCCGTTAG
Found at i:15338865 original size:70 final size:69
Alignment explanation
Indices: 15338747--15339028 Score: 345
Period size: 70 Copynumber: 4.0 Consensus size: 69
15338737 GAAGCAAAGT
* * *
15338747 AGACTCGATTTGGGTAAAGTGAACGACGCACAGAGAAGGGCAGA-AAACAACCTCTGGTCTCAGC
1 AGACTCGATTTGGG-AAAGTGAGCGACGCACAGAGAAGGGCA-ACAAACAGCCTCTGGTCTCGGC
15338811 ACAAGA
64 ACAAGA
*
15338817 AGACTCGATTTTGGGAAAGTGAGCGACGCAC-GAAGAAGGGCAACAAACAGCCTCTGGTCTTGGC
1 AGACTCGA-TTTGGGAAAGTGAGCGACGCACAG-AGAAGGGCAACAAACAGCCTCTGGTCTCGGC
*
15338881 ACAAAA
64 ACAAGA
** * *
15338887 AGACTTAATTTCGGGAAAGTGAGCGACGCACAGAGAAGGGCAGCAAACAGCGTCTGGTCTCGGCA
1 AGACTCGATTT-GGGAAAGTGAGCGACGCACAGAGAAGGGCAACAAACAGCCTCTGGTCTCGGCA
15338952 CAAGA
65 CAAGA
** * * **
15338957 AGA-GAGATTTGAGGAAAGTGGGCGACGCACGGAGAAGGGCAGTAAACAGCCTCTGGTCTCGGCA
1 AGACTCGATTTG-GGAAAGTGAGCGACGCACAGAGAAGGGCAACAAACAGCCTCTGGTCTCGGCA
*
15339021 GAAGA
65 CAAGA
15339026 AGA
1 AGA
15339029 GGAAGCAAAG
Statistics
Matches: 187, Mismatches: 19, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
68 1 0.01
69 64 0.34
70 115 0.61
71 7 0.04
ACGTcount: A:0.34, C:0.20, G:0.31, T:0.14
Consensus pattern (69 bp):
AGACTCGATTTGGGAAAGTGAGCGACGCACAGAGAAGGGCAACAAACAGCCTCTGGTCTCGGCAC
AAGA
Found at i:15340648 original size:2 final size:2
Alignment explanation
Indices: 15340641--15340675 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
15340631 ACCTCTGCTT
15340641 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
15340676 TTGTTCTTGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:15341962 original size:23 final size:23
Alignment explanation
Indices: 15341920--15341963 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
15341910 CCATTTTTTT
*
15341920 GAAAAACATTATGTGTAATTTAA
1 GAAAAACATTAAGTGTAATTTAA
15341943 GAAAAACATTGAAGTG-AATTT
1 GAAAAACATT-AAGTGTAATTT
15341964 TTCGATGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.48, C:0.05, G:0.16, T:0.32
Consensus pattern (23 bp):
GAAAAACATTAAGTGTAATTTAA
Found at i:15344589 original size:31 final size:30
Alignment explanation
Indices: 15344514--15344592 Score: 85
Period size: 28 Copynumber: 2.7 Consensus size: 30
15344504 CCTAAAAAAT
**
15344514 AAATAA-AAAAATTT-AAATTATAATAAAG
1 AAATAATAAAAATTTAAAAAAATAATAAAG
* *
15344542 TAA-AAT-AAAATATAAAAAAATAATAAAG
1 AAATAATAAAAATTTAAAAAAATAATAAAG
15344570 AAAATAATAAAAATTTAAAAAAA
1 -AAATAATAAAAATTTAAAAAAA
15344593 GAAGAAGAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
27 8 0.20
28 14 0.35
29 2 0.05
30 3 0.08
31 13 0.32
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (30 bp):
AAATAATAAAAATTTAAAAAAATAATAAAG
Found at i:15344876 original size:14 final size:14
Alignment explanation
Indices: 15344830--15344878 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
15344820 AAGAAATACA
*
15344830 AAAAAAC-AACGATC
1 AAAAAACAAAAGA-C
15344844 AAAAAACAAAAGAC
1 AAAAAACAAAAGAC
*
15344858 AAAAAACAAATATAC
1 AAAAAACAAA-AGAC
15344873 AAAAAA
1 AAAAAA
15344879 ATGAGAGAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
14 18 0.58
15 13 0.42
ACGTcount: A:0.76, C:0.14, G:0.04, T:0.06
Consensus pattern (14 bp):
AAAAAACAAAAGAC
Found at i:15345678 original size:2 final size:2
Alignment explanation
Indices: 15345671--15345703 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
15345661 GTTTAGAAGA
15345671 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15345704 ATAAGTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15345781 original size:17 final size:16
Alignment explanation
Indices: 15345746--15345795 Score: 59
Period size: 15 Copynumber: 3.1 Consensus size: 16
15345736 TTTTTTTTCT
15345746 TAAAAAT-AAAAAATAA
1 TAAAAATAAAAAAAT-A
15345762 TAATAAATAAAAAAATA
1 TAA-AAATAAAAAAATA
*
15345779 TAAAAA-AAATAAATA
1 TAAAAATAAAAAAATA
15345794 TA
1 TA
15345796 GTAATAATGA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
15 10 0.32
16 6 0.19
17 8 0.26
18 7 0.23
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (16 bp):
TAAAAATAAAAAAATA
Found at i:15358162 original size:62 final size:62
Alignment explanation
Indices: 15358065--15358358 Score: 507
Period size: 62 Copynumber: 4.7 Consensus size: 62
15358055 CATTAAAGAA
* * *
15358065 TTAAATCAAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTTTT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAAGAATTTTAATTTTGT
*
15358127 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAAGAATTTTAATCTTGT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAAGAATTTTAATTTTGT
* * * * *
15358189 TTAAATCGAACCTGTTATGAGATAGGTCGAGCCTAAATTAAGTTTAGGAATTTCAATTTTGT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAAGAATTTTAATTTTGT
15358251 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAAGAATTTTAATTTTGT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAAGAATTTTAATTTTGT
15358313 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTA
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTA
15358359 NNNNNNNNNN
Statistics
Matches: 217, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 217 1.00
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.36
Consensus pattern (62 bp):
TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAAGAATTTTAATTTTGT
Found at i:15368208 original size:28 final size:28
Alignment explanation
Indices: 15368176--15368232 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
15368166 AGTCAGCAAC
*
15368176 AAACTTAATCTTTACAATAATCGATTGA
1 AAACTTAATCTGTACAATAATCGATTGA
15368204 AAACTTAATCTGTACAATAATCGATTGA
1 AAACTTAATCTGTACAATAATCGATTGA
15368232 A
1 A
15368233 TGCTCTCAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.33
Consensus pattern (28 bp):
AAACTTAATCTGTACAATAATCGATTGA
Found at i:15374314 original size:43 final size:43
Alignment explanation
Indices: 15374244--15374375 Score: 185
Period size: 43 Copynumber: 3.1 Consensus size: 43
15374234 GTAATTATGT
*
15374244 TGACTCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCG-GTGA
* *
15374287 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAATCCGGTGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGA
* * * *
15374330 TGACCCAGCCATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGA
15374373 TGA
1 TGA
15374376 TGATGATGAG
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
42 1 0.01
43 78 0.99
ACGTcount: A:0.22, C:0.19, G:0.39, T:0.20
Consensus pattern (43 bp):
TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGA
Found at i:15374386 original size:20 final size:20
Alignment explanation
Indices: 15374361--15374423 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
15374351 GGGAGTGCGC
15374361 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
15374381 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
* *
15374401 ATGGGTTGGTGA-GATGATG
1 ATGAGCTGGTGATGATGATG
15374420 ATGA
1 ATGA
15374424 TGGGTATATA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 10 0.25
20 30 0.75
ACGTcount: A:0.25, C:0.03, G:0.41, T:0.30
Consensus pattern (20 bp):
ATGAGCTGGTGATGATGATG
Found at i:15375665 original size:8 final size:8
Alignment explanation
Indices: 15375652--15375676 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
15375642 AAATGGTTCC
15375652 TTTTGTTG
1 TTTTGTTG
15375660 TTTTGTTG
1 TTTTGTTG
15375668 TTTTGTTG
1 TTTTGTTG
15375676 T
1 T
15375677 GTCATGATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.24, T:0.76
Consensus pattern (8 bp):
TTTTGTTG
Found at i:15385376 original size:33 final size:34
Alignment explanation
Indices: 15385305--15385390 Score: 156
Period size: 34 Copynumber: 2.6 Consensus size: 34
15385295 TTCTCCCTCT
15385305 AAAGTCTACAAAAGGTTTTGTTTTTCAAAAAAAA
1 AAAGTCTACAAAAGGTTTTGTTTTTCAAAAAAAA
*
15385339 AAAGTCTACAAAAGGTTTTGTTTTTC-ACAAAAA
1 AAAGTCTACAAAAGGTTTTGTTTTTCAAAAAAAA
15385372 AAAGTCTACAAAAGGTTTT
1 AAAGTCTACAAAAGGTTTT
15385391 TTCGATTTCC
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
33 25 0.49
34 26 0.51
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (34 bp):
AAAGTCTACAAAAGGTTTTGTTTTTCAAAAAAAA
Found at i:15389735 original size:2 final size:2
Alignment explanation
Indices: 15389728--15389753 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15389718 CAAATTAAAG
15389728 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
15389754 GCCCACCCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:15414143 original size:15 final size:15
Alignment explanation
Indices: 15414115--15414163 Score: 64
Period size: 15 Copynumber: 3.2 Consensus size: 15
15414105 GTTTGGTACT
15414115 TTACAATGTAATGTGA
1 TTACAA-GTAATGTGA
15414131 TTAC-AGATAATGTGA
1 TTACAAG-TAATGTGA
*
15414146 TTGCAAGTAATGTGA
1 TTACAAGTAATGTGA
15414161 TTA
1 TTA
15414164 TAGGGAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
14 1 0.03
15 22 0.76
16 6 0.21
ACGTcount: A:0.37, C:0.06, G:0.20, T:0.37
Consensus pattern (15 bp):
TTACAAGTAATGTGA
Found at i:15414418 original size:33 final size:32
Alignment explanation
Indices: 15414381--15414466 Score: 127
Period size: 33 Copynumber: 2.6 Consensus size: 32
15414371 TTTTAATGTC
*
15414381 ATATATTTTATTTTTATTTTTTATTATAATCTT
1 ATATATTTTATTTTTATTTTTTAATATAA-CTT
15414414 ATATATTTTATTTTTATTTTTTAATATAACTT
1 ATATATTTTATTTTTATTTTTTAATATAACTT
* *
15414446 TTATATTATATATTTTATTTT
1 ATATATTTTAT-TTTTATTTT
15414467 AATTTTTTTA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
32 12 0.24
33 37 0.76
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (32 bp):
ATATATTTTATTTTTATTTTTTAATATAACTT
Found at i:15414438 original size:28 final size:29
Alignment explanation
Indices: 15414370--15414435 Score: 78
Period size: 33 Copynumber: 2.1 Consensus size: 29
15414360 CTTAAATATA
*
15414370 TTTTTAATGTCATATATTTTATTTTTATTTT
1 TTTTTAATCTCATATATTTTATTTTTA--TT
*
15414401 TTATTATAATCTTATATATTTTATTTTTATT
1 TT-TT-TAATCTCATATATTTTATTTTTATT
15414432 TTTT
1 TTTT
15414436 AATATAACTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
30 2 0.06
31 6 0.19
32 2 0.06
33 21 0.68
ACGTcount: A:0.24, C:0.03, G:0.02, T:0.71
Consensus pattern (29 bp):
TTTTTAATCTCATATATTTTATTTTTATT
Found at i:15414455 original size:39 final size:33
Alignment explanation
Indices: 15414381--15414536 Score: 120
Period size: 33 Copynumber: 4.5 Consensus size: 33
15414371 TTTTAATGTC
*
15414381 ATATATTTTATTTTTATTTTTTATTATAATCTT
1 ATATATTTTATTTTTATTTTTTATTATAATATT
*
15414414 ATATATTTTATTTTTATTTTTTAATATAACTTTTATATT
1 ATATATTTTATTTTTATTTTTT-AT-T-A---TAATATT
* *
15414453 ATATATTTTATTTTAATTTTTTTATCTAT-ATTTT
1 ATATATTTTATTTTTA-TTTTTTAT-TATAATATT
* * * *
15414487 ATAAATTTTAATTTTTTATATTTTATT-TTATTTT
1 ATATATTTT-A-TTTTTATTTTTTATTATAATATT
*
15414521 A-ATTTTTTATTTTTAT
1 ATATATTTTATTTTTAT
15414537 ATTATATATT
Statistics
Matches: 103, Mismatches: 10, Indels: 22
0.76 0.07 0.16
Matches are distributed among these distances:
31 7 0.07
32 1 0.01
33 28 0.27
34 21 0.20
35 10 0.10
36 6 0.06
38 1 0.01
39 23 0.22
40 6 0.06
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (33 bp):
ATATATTTTATTTTTATTTTTTATTATAATATT
Found at i:15414489 original size:7 final size:7
Alignment explanation
Indices: 15414382--15414550 Score: 80
Period size: 6 Copynumber: 25.4 Consensus size: 7
15414372 TTTAATGTCA
15414382 TATATTT
1 TATATTT
15414389 TAT-TTT
1 TATATTT
15414395 TAT-TTT
1 TATATTT
*
15414401 T-TATTA
1 TATATTT
15414407 TA-ATCTT
1 TATAT-TT
15414414 ATATATTT
1 -TATATTT
15414422 TAT-TTT
1 TATATTT
15414428 TAT-TTT
1 TATATTT
* *
15414434 T-TAATA
1 TATATTT
15414440 TA-ACTTT
1 TATA-TTT
*
15414447 TATATTA
1 TATATTT
15414454 TATATTT
1 TATATTT
15414461 TAT-TTT
1 TATATTT
*
15414467 AAT-TTT
1 TATATTT
* *
15414473 TTTA-TC
1 TATATTT
15414479 TATATTT
1 TATATTT
15414486 TATAAATTT
1 TAT--ATTT
15414495 TA-ATTT
1 TATATTT
*
15414501 TTTATATT
1 TATAT-TT
15414509 T-TATTT
1 TATATTT
15414515 TAT-TTT
1 TATATTT
* *
15414521 AATTTTT
1 TATATTT
15414528 TAT-TTT
1 TATATTT
*
15414534 TATATTA
1 TATATTT
15414541 TATATTT
1 TATATTT
15414548 TAT
1 TAT
15414551 TTTAATGCTT
Statistics
Matches: 125, Mismatches: 19, Indels: 36
0.69 0.11 0.20
Matches are distributed among these distances:
5 2 0.02
6 60 0.48
7 47 0.38
8 8 0.06
9 8 0.06
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (7 bp):
TATATTT
Found at i:15414499 original size:29 final size:29
Alignment explanation
Indices: 15414444--15414553 Score: 96
Period size: 25 Copynumber: 4.1 Consensus size: 29
15414434 TTAATATAAC
15414444 TTTTATATTATATATTT-T--ATTTTAATT
1 TTTTATATTATAT-TTTATAAATTTTAATT
15414471 TTTT-TATCTATATTTTATAAATTTTAATT
1 TTTTATAT-TATATTTTATAAATTTTAATT
*
15414500 TTTTATATTTTA-TTT-T--ATTTTAATT
1 TTTTATATTATATTTTATAAATTTTAATT
* * *
15414525 TTTTAT-TTTTATATTATATATTTT-ATT
1 TTTTATATTATATTTTATAAATTTTAATT
15414552 TT
1 TT
15414554 AATGCTTTTT
Statistics
Matches: 72, Mismatches: 2, Indels: 18
0.78 0.02 0.20
Matches are distributed among these distances:
24 5 0.07
25 17 0.24
26 7 0.10
27 16 0.22
28 8 0.11
29 16 0.22
30 3 0.04
ACGTcount: A:0.27, C:0.01, G:0.00, T:0.72
Consensus pattern (29 bp):
TTTTATATTATATTTTATAAATTTTAATT
Found at i:15414541 original size:24 final size:25
Alignment explanation
Indices: 15414388--15414541 Score: 99
Period size: 25 Copynumber: 6.2 Consensus size: 25
15414378 GTCATATATT
*
15414388 TTATTTTTATTTTTTATTATAATCTTATA
1 TTATTTTAATTTTTTA-TAT--T-TTATA
*
15414417 -TATTTT-A-TTTTTATTTTTTAATA
1 TTATTTTAATTTTTTATATTTT-ATA
* * * *
15414440 TAACTTTT-ATATTATATATTTTATT
1 TTA-TTTTAATTTTTTATATTTTATA
*
15414465 TTAATTTT--TTTATCTATATTTTATA
1 TT-ATTTTAATTT-TTTATATTTTATA
* *
15414490 -AATTTTAATTTTTTATATTTTATT
1 TTATTTTAATTTTTTATATTTTATA
15414514 TTATTTTAATTTTTTAT-TTTTATA
1 TTATTTTAATTTTTTATATTTTATA
15414538 TTAT
1 TTAT
15414542 ATATTTTATT
Statistics
Matches: 101, Mismatches: 15, Indels: 23
0.73 0.11 0.17
Matches are distributed among these distances:
22 2 0.02
23 9 0.09
24 24 0.24
25 43 0.43
26 16 0.16
27 1 0.01
28 6 0.06
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (25 bp):
TTATTTTAATTTTTTATATTTTATA
Found at i:15414565 original size:29 final size:27
Alignment explanation
Indices: 15414444--15414553 Score: 115
Period size: 27 Copynumber: 4.1 Consensus size: 27
15414434 TTAATATAAC
15414444 TTTTATATTATATATTTTATTTTAATT
1 TTTTATATTATATATTTTATTTTAATT
15414471 TTTT-TATCTATAT-TTTATAAATTTTAATT
1 TTTTATAT-TATATATTT-T--ATTTTAATT
15414500 TTTTATATT-T-TATTTTATTTTAATT
1 TTTTATATTATATATTTTATTTTAATT
*
15414525 TTTTAT-TTTTATATTATATATTTT-ATT
1 TTTTATATTATATATT-T-TATTTTAATT
15414552 TT
1 TT
15414554 AATGCTTTTT
Statistics
Matches: 73, Mismatches: 0, Indels: 20
0.78 0.00 0.22
Matches are distributed among these distances:
24 2 0.03
25 16 0.22
26 10 0.14
27 18 0.25
28 10 0.14
29 14 0.19
30 3 0.04
ACGTcount: A:0.27, C:0.01, G:0.00, T:0.72
Consensus pattern (27 bp):
TTTTATATTATATATTTTATTTTAATT
Found at i:15414569 original size:5 final size:5
Alignment explanation
Indices: 15414456--15414554 Score: 57
Period size: 5 Copynumber: 20.4 Consensus size: 5
15414446 TTATATTATA
* * * * *
15414456 TATTT TATTT TAATT T-TTT TATCTA TATTT TA-TA AATTT TAATTT T-TTA
1 TATTT TATTT TATTT TATTT TAT-TT TATTT TATTT TATTT T-ATTT TATTT
* * *
15414505 TATTT TATTT TATTT TA-AT T-TTT TATTTT TATAT TA-TA TATTT TATTT
1 TATTT TATTT TATTT TATTT TATTT TA-TTT TATTT TATTT TATTT TATTT
15414553 TA
1 TA
15414555 ATGCTTTTTA
Statistics
Matches: 69, Mismatches: 16, Indels: 18
0.67 0.16 0.17
Matches are distributed among these distances:
4 14 0.20
5 41 0.59
6 14 0.20
ACGTcount: A:0.27, C:0.01, G:0.00, T:0.72
Consensus pattern (5 bp):
TATTT
Found at i:15414575 original size:33 final size:33
Alignment explanation
Indices: 15414368--15414533 Score: 95
Period size: 34 Copynumber: 4.8 Consensus size: 33
15414358 CTCTTAAATA
*
15414368 TATTTTTA-ATGTCATATATTTTATTTTTATTTTT
1 TATTTTTATAT-T-ATATATTTTATTTTAATTTTT
* * * *
15414402 TATTATAATCTTATATATTTTATTTTTATTTTTT
1 TATTTTTATATTATATATTTTA-TTTTAATTTTT
15414436 AATATAACTTTTATATTATATATTTTATTTTAATTTTTT
1 --TAT---TTTTATATTATATATTTTATTTTAA-TTTTT
* * * * * *
15414475 TATCTATATTTTATAAATTTTAATTTTTTATATTT
1 TATTTTTATATTATATATTTT-A-TTTTAATTTTT
* *
15414510 TA-TTTTATTTTA-ATTTTTTATTTT
1 TATTTTTATATTATATATTTTATTTT
15414534 TATATTATAT
Statistics
Matches: 103, Mismatches: 19, Indels: 23
0.71 0.13 0.16
Matches are distributed among these distances:
31 4 0.04
32 1 0.01
33 15 0.15
34 38 0.37
35 8 0.08
36 8 0.08
37 3 0.03
38 5 0.05
39 21 0.20
ACGTcount: A:0.28, C:0.02, G:0.01, T:0.69
Consensus pattern (33 bp):
TATTTTTATATTATATATTTTATTTTAATTTTT
Found at i:15414575 original size:38 final size:31
Alignment explanation
Indices: 15414499--15414568 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 31
15414489 AAATTTTAAT
15414499 TTTTTATATTTTATTTTATTTTAATTTTTTA
1 TTTTTATATTTTATTTTATTTTAATTTTTTA
15414530 TTTTTATATTATATATTTTATTTTAATGCTTTTTA
1 TTTTTATATT-T-TATTTTATTTTAAT--TTTTTA
15414565 TTTT
1 TTTT
15414569 AATTATAATG
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
31 10 0.29
32 1 0.03
33 14 0.40
35 10 0.29
ACGTcount: A:0.23, C:0.01, G:0.01, T:0.74
Consensus pattern (31 bp):
TTTTTATATTTTATTTTATTTTAATTTTTTA
Found at i:15420303 original size:33 final size:33
Alignment explanation
Indices: 15420274--15420342 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
15420264 ACATATCATG
* *
15420274 TTATTATCAATTATTATATATCAATATATCACA
1 TTATCATCAATTATGATATATCAATATATCACA
* *
15420307 TTATCATCAATTATGATATATTAATATATTACA
1 TTATCATCAATTATGATATATCAATATATCACA
15420340 TTA
1 TTA
15420343 GCATAGAATG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.42, C:0.10, G:0.01, T:0.46
Consensus pattern (33 bp):
TTATCATCAATTATGATATATCAATATATCACA
Found at i:15420646 original size:20 final size:20
Alignment explanation
Indices: 15420621--15420664 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
15420611 ACTATATGCA
15420621 ATTAGGCATAGCATTTTGCG
1 ATTAGGCATAGCATTTTGCG
15420641 ATTAGGCATAGCATTTTGCG
1 ATTAGGCATAGCATTTTGCG
15420661 ATTA
1 ATTA
15420665 AGCTCAAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (20 bp):
ATTAGGCATAGCATTTTGCG
Found at i:15421143 original size:2 final size:2
Alignment explanation
Indices: 15421138--15421197 Score: 104
Period size: 2 Copynumber: 30.5 Consensus size: 2
15421128 CTCAATTAAG
*
15421138 AT AT AT AT AT AT AT AT AT AT AT NT AT AT AT A- AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15421179 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
15421198 AAGAAAAATA
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 54 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15421566 original size:15 final size:14
Alignment explanation
Indices: 15421522--15421571 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
15421512 TCTGTTCATT
* *
15421522 TTATTATTATTATTA
1 TTATTATTATCA-AA
*
15421537 TTATTATTATTAAA
1 TTATTATTATCAAA
15421551 TTATTATATATCAAA
1 TTATTAT-TATCAAA
15421566 TTATTA
1 TTATTA
15421572 GCATTAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
14 8 0.25
15 24 0.75
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (14 bp):
TTATTATTATCAAA
Done.