Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, whole genome shotgun sequence
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: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 87 of 105
Found at i:15311412 original size:17 final size:17
Alignment explanation
Indices: 15311369--15311400 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15311359 TATGTGTAAA
15311369 ATTTT-ATTTTATTTTT
1 ATTTTGATTTTATTTTT
15311385 ATTTTGATTTTATTTT
1 ATTTTGATTTTATTTT
15311401 GTTTTTGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (17 bp):
ATTTTGATTTTATTTTT
Found at i:15314718 original size:30 final size:29
Alignment explanation
Indices: 15314656--15314720 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
15314646 TATAGATCAA
* **
15314656 TATTAAATTTTGTTATTATACTTTGCTTT
1 TATTTAATTTTGTTATTATACTTTAATTT
15314685 TATTTAATTTTGTTATTATACTTTTAATTT
1 TATTTAATTTTGTTATTATAC-TTTAATTT
15314715 TATTTA
1 TATTTA
15314721 TAGATATTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 20 0.62
30 12 0.38
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.65
Consensus pattern (29 bp):
TATTTAATTTTGTTATTATACTTTAATTT
Found at i:15315333 original size:26 final size:26
Alignment explanation
Indices: 15315304--15315353 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
15315294 GATAAAATTA
*
15315304 TTATGTTTAT-TTGAAAATATATTTCT
1 TTAT-TTTATATTGAAAAGATATTTCT
*
15315330 TTATTTTTTATTGAAAAGATATTT
1 TTATTTTATATTGAAAAGATATTT
15315354 TTTTGTCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.58
Consensus pattern (26 bp):
TTATTTTATATTGAAAAGATATTTCT
Found at i:15315940 original size:10 final size:10
Alignment explanation
Indices: 15315925--15315959 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
15315915 TGTTCTTCCC
15315925 AAAAACCCAA
1 AAAAACCCAA
15315935 AAAAACCCAA
1 AAAAACCCAA
**
15315945 AAAAATTCAA
1 AAAAACCCAA
15315955 AAAAA
1 AAAAA
15315960 ATTCCAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.74, C:0.20, G:0.00, T:0.06
Consensus pattern (10 bp):
AAAAACCCAA
Found at i:15315958 original size:12 final size:11
Alignment explanation
Indices: 15315943--15315985 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
15315933 AAAAAAACCC
15315943 AAAAAAATTCA
1 AAAAAAATTCA
15315954 AAAAAAATTC-
1 AAAAAAATTCA
* * *
15315964 CAAAAAAGTCC
1 AAAAAAATTCA
15315975 AAAAAAATTCA
1 AAAAAAATTCA
15315986 TAAATTGTTC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
10 8 0.31
11 18 0.69
ACGTcount: A:0.67, C:0.14, G:0.02, T:0.16
Consensus pattern (11 bp):
AAAAAAATTCA
Found at i:15316396 original size:19 final size:19
Alignment explanation
Indices: 15316374--15316410 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
15316364 AAAAGGAAAG
15316374 AAAGAACAAAAAAAAAAAA
1 AAAGAACAAAAAAAAAAAA
*
15316393 AAAGAAGAAAAAAAAAAA
1 AAAGAACAAAAAAAAAAA
15316411 TAGAAATATA
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:0.89, C:0.03, G:0.08, T:0.00
Consensus pattern (19 bp):
AAAGAACAAAAAAAAAAAA
Found at i:15316403 original size:17 final size:17
Alignment explanation
Indices: 15316383--15316415 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15316373 GAAAGAACAA
15316383 AAAAAAAAAAAAAGAAG
1 AAAAAAAAAAAAAGAAG
*
15316400 AAAAAAAAAAATAGAA
1 AAAAAAAAAAAAAGAA
15316416 ATATAATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.03
Consensus pattern (17 bp):
AAAAAAAAAAAAAGAAG
Found at i:15316424 original size:3 final size:3
Alignment explanation
Indices: 15316418--15316676 Score: 183
Period size: 3 Copynumber: 86.7 Consensus size: 3
15316408 AAATAGAAAT
* *
15316418 ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA A-A CATA AAA AGGA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA A-TA ATA
* *
15316462 GTG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
15316510 ATA ATA AGA A-A AAA ATA TAGA AAA ATA AAA ATA A-A CATA A-A AGTG
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA -ATA ATA A-TA
* * * *
15316555 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AAA AGA AAA AAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * *
15316603 ACA CAAA AAA AGGA A-A GTG ATA ATA GTA ATA ATA ATA ACA ATA ATA
1 ATA -ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
15316649 ATA AT- ATA ATA ACA ATG ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
15316677 TTATAAAAAC
Statistics
Matches: 208, Mismatches: 33, Indels: 30
0.77 0.12 0.11
Matches are distributed among these distances:
2 12 0.06
3 185 0.89
4 11 0.05
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (3 bp):
ATA
Found at i:15316814 original size:26 final size:26
Alignment explanation
Indices: 15316781--15316863 Score: 76
Period size: 26 Copynumber: 3.2 Consensus size: 26
15316771 ATCGAGCTCG
**
15316781 GACATCAATAGGCTTAATTGGGTCCA
1 GACATCAATAGGCTTAATTGGACCCA
** ** **
15316807 GATGTCAACGGGCCGAATTGGACCCA
1 GACATCAATAGGCTTAATTGGACCCA
* *
15316833 GACATCAATAGGCTTAATAGGACCTA
1 GACATCAATAGGCTTAATTGGACCCA
15316859 GACAT
1 GACAT
15316864 AAATGGGTGT
Statistics
Matches: 41, Mismatches: 16, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.22
Consensus pattern (26 bp):
GACATCAATAGGCTTAATTGGACCCA
Found at i:15317726 original size:478 final size:482
Alignment explanation
Indices: 15316853--15319745 Score: 3673
Period size: 504 Copynumber: 5.8 Consensus size: 482
15316843 GGCTTAATAG
* *
15316853 GACCTAGACATAAATGGGTGTCTACAGCTACCCTTATTTGCATATCTTTGTTAGATAAAGATGAT
1 GACCCAGACATAAATGGGTGTCTACAGCTACCCTTATTTGCATATCTTTGTTAGACAAAGATGAT
* * *
15316918 GCAAAGACTCAGACACCCATTATGTTCAATTCAAATTAGCGTGTAAAATTGACTGGGGATAAACC
66 GCAAAGACTCAGACACCCATTCTGTTCAATTCAAATTAGCATGTAAAATTGACT-GGGATGAACC
* * *
15316983 TCGAATTGAAAGTAAAATGATCTAGCCTGAGTCGAGATTGAATGATTGGGACAATGTCGTGAGTC
130 TCGAATTGAAAGTAAAATGATCTGGCCTAAGTCGAGGTTGAATGATTGGGACAATGTCGTGAGTC
* * *
15317048 AGAAAATGATCCGA-CTGGAGTTGAGATCAAATGATTGGGATGATGCCCCGAGTATGAAGATGAT
195 AGAAGATGATCTGATC-GGAGTTGAGATCAAATGACTGGGATGATGCCCCGAGTATGAAGATGAT
* * * *
15317112 CTAATCGAAGTCGAGATCAAATAACTGAACTGATGTCGTGAGTCTAAAGATAATCTAACCTGAGT
259 CTAATCGAAGTCGAGATCAAATGACTGAACTGATGTCGTGAGTCTGAAGATGATCTGACCTGAGT
* * *
15317177 CAAGATCAATTGAATAGGATGATATCGCAAGTCAAAAGGTGACGAATACTGAGTCGATGTCGTAA
324 CAAGATCAAATGAATAAGATGATATCGCAAGTTAAAAGGTGACGAATACTGAGTCGATGTCGTAA
* *
15317242 ATAAATGATTGGGCCCAGACGTCACCGGGCCTAATCGAGCTCGAACATTAATAGGCTTAATTGGG
389 ATAAATGATTGGGCCCAGACGTCACCGGGCCTAATCGAGCTCGGACATCAATAGGCTTAATTGGG
* *
15317307 TCCAGACATCAATGGG-T-CG-AAT-C-A
454 TCCAGACGTCAACGGGATCCGAAATGCAA
* *
15317331 GACCCAGACATAAATGGGTGTCTACAACTACCCCTATTTGCATATCTTTGTTAGACAAAGATGAT
1 GACCCAGACATAAATGGGTGTCTACAGCTACCCTTATTTGCATATCTTTGTTAGACAAAGATGAT
* *
15317396 GCAAAGACTCGGACACCTATTCTGTTCAATTCAAATTAGCATGTAAAATTGACTAGGGATGAACC
66 GCAAAGACTCAGACACCCATTCTGTTCAATTCAAATTAGCATGTAAAATTGACT-GGGATGAACC
*
15317461 TCGAATTGAAAGTAAAATGATCTGGCCTGAGTCGAGGTTGAATGATTGGGACAATGTCGTGAGTC
130 TCGAATTGAAAGTAAAATGATCTGGCCTAAGTCGAGGTTGAATGATTGGGACAATGTCGTGAGTC
* *
15317526 AGAAGATGATCTGATCAGAGTTGAGATCAAATGACTGGGATGATGCCTCGAGTATGAAGATGATC
195 AGAAGATGATCTGATCGGAGTTGAGATCAAATGACTGGGATGATGCCCCGAGTATGAAGATGATC
* * * *
15317591 TAATCGAAGCCGAGATCAAATGACTCAACTGATGTCGTGAGTTTGAAGATGATTTGACCTGAGTC
260 TAATCGAAGTCGAGATCAAATGACTGAACTGATGTCGTGAGTCTGAAGATGATCTGACCTGAGTC
* ** * *
15317656 AAGATCAAATGAATAGGATGATATTACAAGTTGAAAGGTGACGAATACTGAGTCAATGTCGTAAA
325 AAGATCAAATGAATAAGATGATATCGCAAGTTAAAAGGTGACGAATACTGAGTCGATGTCGTAAA
* *
15317721 TAAATGATTGGGCCCAGATGTCACCGAGCCTAATCGAGCTCGGACATCAATAGGCTTAATTGGGT
390 TAAATGATTGGGCCCAGACGTCACCGGGCCTAATCGAGCTCGGACATCAATAGGCTTAATTGGGT
15317786 CCAGACGTCAACGGGCCAAATCGGACCCCGACATCAATAGACCTAATA
455 CCAGACGTCAACGGG----AT------CCG--A--AAT-G--C--A-A
15317834 GGA-CCAGAACATAAATGGGTGTCTACAGCTACCCTTATTTGCATATCTTTGTTAGACAAAGATG
1 -GACCCAG-ACATAAATGGGTGTCTACAGCTACCCTTATTTGCATATCTTTGTTAGACAAAGATG
* **
15317898 ATACAAAGACTCAGACACCCATTCTGTTCAATTCAAATTAGTGTGTAAAATTGACTGGGATGAAC
64 ATGCAAAGACTCAGACACCCATTCTGTTCAATTCAAATTAGCATGTAAAATTGACTGGGATGAAC
* *
15317963 CTCGAATTGAAAGTAAAATAATCTGGCCTAAGTCGAGGTTGAATAATTGGGACAATGTCGTGAGT
129 CTCGAATTGAAAGTAAAATGATCTGGCCTAAGTCGAGGTTGAATGATTGGGACAATGTCGTGAGT
*
15318028 CA-AATGATGATCTGATCGGAGTTGAGATCAAATGACTGGGATGATGCCCCGAGTATAAAGATGA
194 CAGAA-GATGATCTGATCGGAGTTGAGATCAAATGACTGGGATGATGCCCCGAGTATGAAGATGA
* * * * *
15318092 TCCAATCGAAGTCGAGATCAAATGACTGAACTGATGTCGTGAGTTTAAAAATGATCTGACCTAAG
258 TCTAATCGAAGTCGAGATCAAATGACTGAACTGATGTCGTGAGTCTGAAGATGATCTGACCTGAG
* * *
15318157 TCAAGATCAAATGAATAAGATGATATTGTAAGTTAAAAGTTGACGAATACTGAGTCGATGTCGTA
323 TCAAGATCAAATGAATAAGATGATATCGCAAGTTAAAAGGTGACGAATACTGAGTCGATGTCGTA
* *
15318222 AATAAATGATTGGGCCCAGACGTCACCGGGCCTAATCGAGCTTGGACATCAATAAGCTTAATTGG
388 AATAAATGATTGGGCCCAGACGTCACCGGGCCTAATCGAGCTCGGACATCAATAGGCTTAATTGG
15318287 GTCCAGACGTCAACGGGTTGAATCAAACCCGAACATCAATAGGCCTAATA
453 GTCCAGACGTCAAC-GG--G-AT-----CCG---A--AAT--G-C--A-A
* * * *
15318337 GGACCCGGACATAAATGAGTGTCTACATCTACCCTTATTTGCATATCTTTATTAGACAAAGATGA
1 -GACCCAGACATAAATGGGTGTCTACAGCTACCCTTATTTGCATATCTTTGTTAGACAAAGATGA
* * * *
15318402 TGCAAAGACTCAAACACCCATTCTATTCAATTCAAAGTAGCATGTAAAATTGACTGAGAATGAAC
65 TGCAAAGACTCAGACACCCATTCTGTTCAATTCAAATTAGCATGTAAAATTGACTG-GGATGAAC
* * * *
15318467 CTCGAATTGAAAGTAAAATGATCTGGCCTGAGTCGAGGTTGAATGATTGAGATAATGTCATGAGT
129 CTCGAATTGAAAGTAAAATGATCTGGCCTAAGTCGAGGTTGAATGATTGGGACAATGTCGTGAGT
* * *
15318532 CAGAAGAAGATCTGATTGGAGTTGAAATCAAATGACTGGGATGATGCCCCGAGTATGAAGATGAT
194 CAGAAGATGATCTGATCGGAGTTGAGATCAAATGACTGGGATGATGCCCCGAGTATGAAGATGAT
* *
15318597 CTAATCGAAGTCGAGATCAAATGACTGAATTGATGTCTTGAGTCTGAAGATGATCTGACCTGAGT
259 CTAATCGAAGTCGAGATCAAATGACTGAACTGATGTCGTGAGTCTGAAGATGATCTGACCTGAGT
* * ** ** *
15318662 CAAAATCAAATGAATATGATGATATCATAAGTCGAAAGGTGACGAATACTGAGTCGATGTCATAA
324 CAAGATCAAATGAATAAGATGATATCGCAAGTTAAAAGGTGACGAATACTGAGTCGATGTCGTAA
** * * * * * * *
15318727 ATAAATGATTGGATCGAAATGTCATCAGACCTAATCGAGCTCGAACATCAATAGGCTTAATTGGG
389 ATAAATGATTGGGCCCAGACGTCACCGGGCCTAATCGAGCTCGGACATCAATAGGCTTAATTGGG
*
15318792 CCCAGACGTCAACGGGCCAAATCGGACCCGAACATCAATAGGCCTAATA
454 TCCAGACGTCAACGGG----AT-----CCG---A--AAT--G-C--A-A
*
15318841 GAACCCAGACATAAATGGGTGTCTACAGCTACCTTTATTTGCATATCTTTGTTAGACAAAGATGA
1 G-ACCCAGACATAAATGGGTGTCTACAGCTACCCTTATTTGCATATCTTTGTTAGACAAAGATGA
*
15318906 TGCAAAGACTCAGACACCCATTCTGTTCAATTCAAATTAGCATGTAAATTTGACTGGGGATGAAC
65 TGCAAAGACTCAGACACCCATTCTGTTCAATTCAAATTAGCATGTAAAATTGACT-GGGATGAAC
* * *
15318971 CTCAAATTGAAAGTAAAATGATCTGGCCTAAGTCGAGGTTGAATGATTGGGATAATATCGTGAGT
129 CTCGAATTGAAAGTAAAATGATCTGGCCTAAGTCGAGGTTGAATGATTGGGACAATGTCGTGAGT
* * * * *
15319036 CAAAAGATGATCTGATCGAAATTGAGATCAAATGACTGGGATGATGTCTCGAGTATGAAGATGAT
194 CAGAAGATGATCTGATCGGAGTTGAGATCAAATGACTGGGATGATGCCCCGAGTATGAAGATGAT
*
15319101 CTAATCGAAGTCGAGATCAAATGACTGAACTGATGTCTTGAGTCTGAAGATGATCTGACCTGAGT
259 CTAATCGAAGTCGAGATCAAATGACTGAACTGATGTCGTGAGTCTGAAGATGATCTGACCTGAGT
* * *
15319166 CAAAATCAAATGAATATGATGATATCGCAAGTTAAAAGGTGACGAATACTGAGTCGATGTTGTAA
324 CAAGATCAAATGAATAAGATGATATCGCAAGTTAAAAGGTGACGAATACTGAGTCGATGTCGTAA
* * *
15319231 ATAAATGATTGGGCCCAAACATCATCGGGCCTAATCGAGCTCGGACATCAATAGGCTTAATTGGG
389 ATAAATGATTGGGCCCAGACGTCACCGGGCCTAATCGAGCTCGGACATCAATAGGCTTAATTGGG
* * *
15319296 TCTAGACGTCAACGATCTGAATCGAACCCAAACATTAATAGGCCTAATA
454 TCCAGACGTCAACG----G----G-ATCC---GA--AAT--G-C--A-A
* *
15319345 GGACCC-GAACATAAATAGGTGTCTACAGCTACCCCTATTTGCATATCTTTGTTAGACAAAGATG
1 -GACCCAG-ACATAAATGGGTGTCTACAGCTACCCTTATTTGCATATCTTTGTTAGACAAAGATG
* * * * * *
15319409 ATGCAAGGGCTCAGACACCCATTCTGTTCAATTCGAATTAGCGTGTAAAATTGACTGAAGATAAA
64 ATGCAAAGACTCAGACACCCATTCTGTTCAATTCAAATTAGCATGTAAAATTGACTG-GGATGAA
* * *
15319474 CCTCGAATTGAAAGTAAAATGATCTGGCCTAAGTTGAGGTTGAATGATTGGGATAATGTCATGAG
128 CCTCGAATTGAAAGTAAAATGATCTGGCCTAAGTCGAGGTTGAATGATTGGGACAATGTCGTGAG
* * *
15319539 TCAGAAGATGATCTGATTGGAGTTGAGATCAAATGGCTGGGATGATGCCCCAAGTATGAAGATGA
193 TCAGAAGATGATCTGATCGGAGTTGAGATCAAATGACTGGGATGATGCCCCGAGTATGAAGATGA
* * * * * *
15319604 TCTAACCAAAGCCGAGATCAAATGACTAAACTAATGTTGTGAGTCTGAAGATGATCTGACCTGAG
258 TCTAATCGAAGTCGAGATCAAATGACTGAACTGATGTCGTGAGTCTGAAGATGATCTGACCTGAG
* ** *
15319669 TCAAGATCAAATGAATAAGATGATATCGTAAG-TCCAAGGTGATGAATACTGAGTCGATGTCGTA
323 TCAAGATCAAATGAATAAGATGATATCGCAAGTTAAAAGGTGACGAATACTGAGTCGATGTCGTA
15319733 AATAAATGATTGG
388 AATAAATGATTGG
15319746 ACTGATGTCA
Statistics
Matches: 2159, Mismatches: 200, Indels: 87
0.88 0.08 0.04
Matches are distributed among these distances:
478 431 0.20
479 1 0.00
483 1 0.00
490 2 0.00
495 3 0.00
499 1 0.00
501 1 0.00
502 7 0.00
503 497 0.23
504 1206 0.56
505 4 0.00
506 1 0.00
508 1 0.00
509 2 0.00
512 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.26
Consensus pattern (482 bp):
GACCCAGACATAAATGGGTGTCTACAGCTACCCTTATTTGCATATCTTTGTTAGACAAAGATGAT
GCAAAGACTCAGACACCCATTCTGTTCAATTCAAATTAGCATGTAAAATTGACTGGGATGAACCT
CGAATTGAAAGTAAAATGATCTGGCCTAAGTCGAGGTTGAATGATTGGGACAATGTCGTGAGTCA
GAAGATGATCTGATCGGAGTTGAGATCAAATGACTGGGATGATGCCCCGAGTATGAAGATGATCT
AATCGAAGTCGAGATCAAATGACTGAACTGATGTCGTGAGTCTGAAGATGATCTGACCTGAGTCA
AGATCAAATGAATAAGATGATATCGCAAGTTAAAAGGTGACGAATACTGAGTCGATGTCGTAAAT
AAATGATTGGGCCCAGACGTCACCGGGCCTAATCGAGCTCGGACATCAATAGGCTTAATTGGGTC
CAGACGTCAACGGGATCCGAAATGCAA
Found at i:15317808 original size:52 final size:52
Alignment explanation
Indices: 15317727--15317825 Score: 119
Period size: 52 Copynumber: 1.9 Consensus size: 52
15317717 TAAATAAATG
* * * * *
15317727 ATTGGGCCCAGATGTCACCGAGCCTAATC-GAGCTCGGACATCAATAGGCTTA
1 ATTGGGCCCAGACGTCAACGAGCCAAATCGGA-CCCCGACATCAATAGGCTTA
* *
15317779 ATTGGGTCCAGACGTCAACGGGCCAAATCGGACCCCGACATCAATAG
1 ATTGGGCCCAGACGTCAACGAGCCAAATCGGACCCCGACATCAATAG
15317826 ACCTAATAGG
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
52 37 0.95
53 2 0.05
ACGTcount: A:0.28, C:0.28, G:0.25, T:0.18
Consensus pattern (52 bp):
ATTGGGCCCAGACGTCAACGAGCCAAATCGGACCCCGACATCAATAGGCTTA
Found at i:15318146 original size:54 final size:54
Alignment explanation
Indices: 15318042--15318170 Score: 125
Period size: 54 Copynumber: 2.4 Consensus size: 54
15318032 TGATGATCTG
* * * *
15318042 ATCGGAGTTGAGATCAAATGACTGGGATGATGCCCCGAGTATAAAGATGATCCA
1 ATCGAAGTCGAGATCAAATGACTGGAATGATGCCCCGAGTATAAAAATGATCCA
* ** * **
15318096 ATCGAAGTCGAGATCAAATGACT-GAACTGATGTCGTGAGTTTAAAAATGATCTG
1 ATCGAAGTCGAGATCAAATGACTGGAA-TGATGCCCCGAGTATAAAAATGATCCA
* * *
15318150 ACCTAAGTCAAGATCAAATGA
1 ATCGAAGTCGAGATCAAATGA
15318171 ATAAGATGAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
53 2 0.03
54 59 0.97
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (54 bp):
ATCGAAGTCGAGATCAAATGACTGGAATGATGCCCCGAGTATAAAAATGATCCA
Found at i:15319070 original size:54 final size:54
Alignment explanation
Indices: 15319012--15319127 Score: 137
Period size: 54 Copynumber: 2.1 Consensus size: 54
15319002 GTCGAGGTTG
* * *
15319012 AATGATTGGGATAATATCGT-GAGTCA-AAAGATGATCTGATCGAAATTGAGATCA
1 AATGACTGGGATAATATC-TCGAGT-ATAAAGATGATCTAATCGAAATCGAGATCA
* * * *
15319066 AATGACTGGGATGATGTCTCGAGTATGAAGATGATCTAATCGAAGTCGAGATCA
1 AATGACTGGGATAATATCTCGAGTATAAAGATGATCTAATCGAAATCGAGATCA
15319120 AATGACTG
1 AATGACTG
15319128 AACTGATGTC
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
53 2 0.04
54 51 0.96
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.27
Consensus pattern (54 bp):
AATGACTGGGATAATATCTCGAGTATAAAGATGATCTAATCGAAATCGAGATCA
Found at i:15319135 original size:54 final size:54
Alignment explanation
Indices: 15319039--15319156 Score: 166
Period size: 54 Copynumber: 2.2 Consensus size: 54
15319029 CGTGAGTCAA
* * *
15319039 AAGATGATCTGATCGAAATTGAGATCAAATGACTGGGATGATGTCTCGAGTATG
1 AAGATGATCTAATCGAAATCGAGATCAAATGACTGGAATGATGTCTCGAGTATG
* * *
15319093 AAGATGATCTAATCGAAGTCGAGATCAAATGACT-GAACTGATGTCTTGAGTCTG
1 AAGATGATCTAATCGAAATCGAGATCAAATGACTGGAA-TGATGTCTCGAGTATG
15319147 AAGATGATCT
1 AAGATGATCT
15319157 GACCTGAGTC
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
53 2 0.04
54 55 0.96
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (54 bp):
AAGATGATCTAATCGAAATCGAGATCAAATGACTGGAATGATGTCTCGAGTATG
Found at i:15319174 original size:54 final size:54
Alignment explanation
Indices: 15319062--15319178 Score: 139
Period size: 54 Copynumber: 2.2 Consensus size: 54
15319052 CGAAATTGAG
* * * *
15319062 ATCAAATGACTGGGATGATGTCTCGAGTATGAAGATGATCTAATCGAAGTCGAG
1 ATCAAATGACTGGAATGATGTCTCGAGTATGAAGATGATCTAACCGAAGTCAAA
* * *
15319116 ATCAAATGACT-GAACTGATGTCTTGAGTCTGAAGATGATCTGACCTG-AGTCAAA
1 ATCAAATGACTGGAA-TGATGTCTCGAGTATGAAGATGATCTAACC-GAAGTCAAA
15319170 ATCAAATGA
1 ATCAAATGA
15319179 ATATGATGAT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
53 2 0.04
54 51 0.94
55 1 0.02
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (54 bp):
ATCAAATGACTGGAATGATGTCTCGAGTATGAAGATGATCTAACCGAAGTCAAA
Found at i:15324630 original size:15 final size:16
Alignment explanation
Indices: 15324602--15324640 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
15324592 ATTTTTCTTT
15324602 TATTT-TTATCTTATG
1 TATTTATTATCTTATG
*
15324617 TATTTATTAT-TTATT
1 TATTTATTATCTTATG
15324632 TATTTATTA
1 TATTTATTA
15324641 CTACTATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 18 0.82
16 4 0.18
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (16 bp):
TATTTATTATCTTATG
Found at i:15325618 original size:5 final size:5
Alignment explanation
Indices: 15325610--15325820 Score: 93
Period size: 5 Copynumber: 41.8 Consensus size: 5
15325600 TACCAAATTT
* *
15325610 TTTTA TTTTA TTTTA TTTTA TTATA -TATA TTTTA -TTTA -TTTA -TTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
** * * * *
15325656 TTATTA TTATTA GATTA GGTTTA TTTAA TATTC TTTTA TTTTTA TCTTTA
1 TT-TTA TT-TTA TTTTA -TTTTA TTTTA TTTTA TTTTA -TTTTA T-TTTA
* * *
15325706 TTTTA TTTTTA TTTT- TTTTG TTTTA --TTA TTTTCA CTTTA TTTTG TTTTA
1 TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTT-A TTTTA TTTTA TTTTA
* * * *
15325755 --TTA TTTTCA CTTTTC TTTGTT TTTTA TTTTTTA TTTTCA CTTTA TTTTG
1 TTTTA TTTT-A -TTTTA TTT-TA TTTTA --TTTTA TTTT-A TTTTA TTTTA
15325804 TTTTA --TTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTT
15325821 CTTTAAATAA
Statistics
Matches: 161, Mismatches: 24, Indels: 42
0.71 0.11 0.19
Matches are distributed among these distances:
3 9 0.06
4 20 0.12
5 82 0.51
6 41 0.25
7 9 0.06
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.73
Consensus pattern (5 bp):
TTTTA
Found at i:15325642 original size:19 final size:18
Alignment explanation
Indices: 15325618--15325663 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
15325608 TTTTTTATTT
15325618 TATTTTATTTTATTATATA
1 TATTTTATTTTATT-TATA
*
15325637 TATTTTA-TTTATTTATT
1 TATTTTATTTTATTTATA
15325654 TATTATTATT
1 TATT-TTATT
15325664 ATTAGATTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 7 0.29
18 9 0.38
19 8 0.33
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TATTTTATTTTATTTATA
Found at i:15325709 original size:17 final size:15
Alignment explanation
Indices: 15325689--15325756 Score: 59
Period size: 14 Copynumber: 4.5 Consensus size: 15
15325679 TTTAATATTC
15325689 TTTTATTTTTATCTTT
1 TTTTATTTTTAT-TTT
15325705 ATTTTATTTTTATTTT
1 -TTTTATTTTTATTTT
* *
15325721 TTTT-GTTTTATTAT
1 TTTTATTTTTATTTT
* *
15325735 TTTCA-CTTTATTTT
1 TTTTATTTTTATTTT
15325749 GTTTTATT
1 -TTTTATT
15325757 ATTTTCACTT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
14 18 0.44
15 8 0.20
16 3 0.07
17 12 0.29
ACGTcount: A:0.15, C:0.04, G:0.03, T:0.78
Consensus pattern (15 bp):
TTTTATTTTTATTTT
Found at i:15325753 original size:24 final size:24
Alignment explanation
Indices: 15325708--15325815 Score: 121
Period size: 24 Copynumber: 4.3 Consensus size: 24
15325698 TATCTTTATT
* *
15325708 TTATTTTTA-TTTTTTTTGTTTTA
1 TTATTTTCACTTTATTTTGTTTTA
15325731 TTATTTTCACTTTATTTTGTTTTA
1 TTATTTTCACTTTATTTTGTTTTA
15325755 TTATTTTCACTTT-TCTTTGTTTTTTA
1 TTATTTTCACTTTAT-TTTG--TTTTA
15325781 TTTTTTATTTTCACTTTATTTTGTTTTA
1 ----TTATTTTCACTTTATTTTGTTTTA
15325809 TTATTTT
1 TTATTTT
15325816 ATTTTCTTTA
Statistics
Matches: 74, Mismatches: 2, Indels: 17
0.80 0.02 0.18
Matches are distributed among these distances:
23 9 0.12
24 37 0.50
26 5 0.07
28 5 0.07
30 17 0.23
31 1 0.01
ACGTcount: A:0.14, C:0.06, G:0.04, T:0.76
Consensus pattern (24 bp):
TTATTTTCACTTTATTTTGTTTTA
Found at i:15325791 original size:30 final size:31
Alignment explanation
Indices: 15325745--15325818 Score: 107
Period size: 30 Copynumber: 2.4 Consensus size: 31
15325735 TTTCACTTTA
*
15325745 TTTTGTTTTATTATTTTCACTTT-TCTTTGTT
1 TTTTATTTTATTATTTTCACTTTAT-TTTGTT
15325776 TTTTATTTT-TTATTTTCACTTTATTTTGTT
1 TTTTATTTTATTATTTTCACTTTATTTTGTT
15325806 TTATTATTTTATT
1 TT-TTATTTTATT
15325819 TTCTTTAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
30 21 0.54
31 16 0.41
32 2 0.05
ACGTcount: A:0.14, C:0.07, G:0.04, T:0.76
Consensus pattern (31 bp):
TTTTATTTTATTATTTTCACTTTATTTTGTT
Found at i:15325792 original size:54 final size:53
Alignment explanation
Indices: 15325703--15325824 Score: 187
Period size: 54 Copynumber: 2.3 Consensus size: 53
15325693 ATTTTTATCT
*
15325703 TTATTTTATTTT-TATT-TTTTTTGTTTTATTATTTTCACTTTATTTTGTTTTA
1 TTATTTTATTTTCT-TTGTTTTTTATTTTATTATTTTCACTTTATTTTGTTTTA
15325755 TTATTTTCACTTTTCTTTGTTTTTTATTTT-TTATTTTCACTTTATTTTGTTTTA
1 TTATTTT-A-TTTTCTTTGTTTTTTATTTTATTATTTTCACTTTATTTTGTTTTA
15325809 TTATTTTATTTTCTTT
1 TTATTTTATTTTCTTT
15325825 AAATAAAATC
Statistics
Matches: 65, Mismatches: 1, Indels: 8
0.88 0.01 0.11
Matches are distributed among these distances:
52 15 0.23
53 2 0.03
54 37 0.57
55 11 0.17
ACGTcount: A:0.14, C:0.07, G:0.03, T:0.76
Consensus pattern (53 bp):
TTATTTTATTTTCTTTGTTTTTTATTTTATTATTTTCACTTTATTTTGTTTTA
Found at i:15325901 original size:59 final size:57
Alignment explanation
Indices: 15325838--15326233 Score: 393
Period size: 61 Copynumber: 6.7 Consensus size: 57
15325828 TAAAATCCAA
* * *
15325838 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATCAAGCTTTCC
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAT-AA-ATTTCC
** * *
15325897 AAAAAAAAATATTTTTAGAAAAAAGTTAAAAGTATCAATTTTCCTTAAGAATAAATTTTC
1 --AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAA-AATAAATTTCC
* * * * * *
15325957 AAAAAAAAAGTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAAATTTCA
1 AAAAAAATA--TTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCT-TAAA--ATAAATTTCC
*
15326020 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAATAAATTTCC
* * * * *
15326078 AAAAAAGGT-TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTTCC
1 AAAAAA-ATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCT-TAAAATAAA--TTTCC
* * *
15326139 -AAAAAATATTTTTAGGGAAAAGTTAAAAATATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAATAAATTTCC
* *
15326196 AAAAAAA-GTTTTTAAGGAAAAGTTGAAAGTATCAATTT
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTT
15326234 AGTATCAATT
Statistics
Matches: 277, Mismatches: 42, Indels: 36
0.78 0.12 0.10
Matches are distributed among these distances:
57 31 0.11
58 33 0.12
59 66 0.24
60 50 0.18
61 77 0.28
62 5 0.02
63 15 0.05
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.35
Consensus pattern (57 bp):
AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAATTTCC
Found at i:15326023 original size:60 final size:58
Alignment explanation
Indices: 15325837--15326233 Score: 433
Period size: 59 Copynumber: 6.7 Consensus size: 58
15325827 ATAAAATCCA
* * *
15325837 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTG-AAATCAAGCTTTCC
1 AAAAAAAATATTTTT-AGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AA-ATTTTC
* *
15325897 AAAAAAAAATATTTTTAGAAAAAAGTTAAAAGTATCAATTTTCCTT-AAGAATAAATTTTC
1 -AAAAAAAATATTTTTAG-GAAAAGTTGAAAGTATCAATTTTCCTTGAA-AATAAATTTTC
* * * * *
15325957 AAAAAAAAAGTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAAATTTC
1 -AAAAAAAA-TATTTTT-AGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAATTTTC
*
15326019 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAAAATATTTTTA-GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAATTTTC
** * * * *
15326078 AAAAAAGGTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTTC
1 AAAAAAAATATTTTT-AGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAA-TTTTC
* * * *
15326138 -CAAAAAATATTTTTAGGGAAAAGTTAAAAATATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAAAATATTTTTA-GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAATTTTC
* *
15326196 AAAAAAAGT-TTTTAAGGAAAAGTTGAAAGTATCAATTT
1 AAAAAAAATATTTTTAGGAAAAGTTGAAAGTATCAATTT
15326234 AGTATCAATT
Statistics
Matches: 284, Mismatches: 40, Indels: 28
0.81 0.11 0.08
Matches are distributed among these distances:
57 21 0.07
58 11 0.04
59 100 0.35
60 56 0.20
61 82 0.29
62 14 0.05
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.35
Consensus pattern (58 bp):
AAAAAAAATATTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAATTTTC
Found at i:15326194 original size:17 final size:18
Alignment explanation
Indices: 15326161--15326195 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
15326151 TAGGGAAAAG
15326161 TTAAAAATATCAATTTTCC
1 TTAAAAATA-CAATTTTCC
15326180 TTAAAAATA-AATTTTC
1 TTAAAAATACAATTTTC
15326196 AAAAAAAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
19 9 0.56
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (18 bp):
TTAAAAATACAATTTTCC
Found at i:15326291 original size:67 final size:68
Alignment explanation
Indices: 15326168--15326299 Score: 187
Period size: 68 Copynumber: 2.0 Consensus size: 68
15326158 AAGTTAAAAA
* * *
15326168 TATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAGTTTTTAAGGAAAAGTTGAAAGTATCAATT
1 TATCAATTTTCCTCAAAAATAAATTTCCAAAAAAAGTTTTGAAGGAAAAGTTGAAAGTATCAATT
15326233 TAG
66 TAG
* * *
15326236 TATCAATTTTCCTCGAAATTAAAGTTTCCAAAAATA-TTTTGAA-GAAAAGTTGAAAGTATCAAT
1 TATCAATTTTCCTCAAAAATAAA-TTTCCAAAAAAAGTTTTGAAGGAAAAGTTGAAAGTATCAAT
15326299 T
65 T
15326300 GTCCCTGCAT
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
67 21 0.37
68 26 0.46
69 10 0.18
ACGTcount: A:0.44, C:0.09, G:0.11, T:0.36
Consensus pattern (68 bp):
TATCAATTTTCCTCAAAAATAAATTTCCAAAAAAAGTTTTGAAGGAAAAGTTGAAAGTATCAATT
TAG
Found at i:15334656 original size:16 final size:16
Alignment explanation
Indices: 15334632--15334674 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
15334622 ACTATGCTTG
*
15334632 AAGAAAAAAAATAAAA
1 AAGAAAAAAAAAAAAA
*
15334648 AATAAAAAAAAAAAAA
1 AAGAAAAAAAAAAAAA
15334664 AAGAAAAAAAA
1 AAGAAAAAAAA
15334675 GTGAATGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.91, C:0.00, G:0.05, T:0.05
Consensus pattern (16 bp):
AAGAAAAAAAAAAAAA
Found at i:15334686 original size:1 final size:1
Alignment explanation
Indices: 15334635--15334674 Score: 53
Period size: 1 Copynumber: 40.0 Consensus size: 1
15334625 ATGCTTGAAG
* * *
15334635 AAAAAAAATAAAAAATAAAAAAAAAAAAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
15334675 GTGAATGAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:0.93, C:0.00, G:0.03, T:0.05
Consensus pattern (1 bp):
A
Found at i:15335993 original size:46 final size:43
Alignment explanation
Indices: 15335819--15336009 Score: 213
Period size: 43 Copynumber: 4.3 Consensus size: 43
15335809 TTGCCTTTGT
*
15335819 TTAGAGGAGCTTTGTTTATTTTCAAAAGTCGTTAAGCCTCTGA
1 TTAGAGGAGCTTTGTTTATTTTCAAAAGTCGTTGAGCCTCTGA
* * * *
15335862 TTAGAGGAGCTTTATTTATTTTCCAAAGTCGTTCAGCCTCTAA
1 TTAGAGGAGCTTTGTTTATTTTCAAAAGTCGTTGAGCCTCTGA
* * * * *
15335905 TTAGATGAGCTTTACTTATTTTTTTC-AAAGTCATTGAACCTCTGA
1 TTAGAGGAGCTTT--GT-TTATTTTCAAAAGTCGTTGAGCCTCTGA
*
15335950 TTAGAGGAGCTTTGTTTATGTTTTTCAAAAGTCGTTGAGCCTCTGC
1 TTAGAGGAGCTTTGTTTA---TTTTCAAAAGTCGTTGAGCCTCTGA
*
15335996 TTAGAGGAGTTTTG
1 TTAGAGGAGCTTTG
15336010 ATCAAATGTC
Statistics
Matches: 123, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
42 2 0.02
43 52 0.42
45 33 0.27
46 36 0.29
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (43 bp):
TTAGAGGAGCTTTGTTTATTTTCAAAAGTCGTTGAGCCTCTGA
Found at i:15336177 original size:13 final size:13
Alignment explanation
Indices: 15336155--15336202 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
15336145 GGGTAAGCCC
*
15336155 ATTTTCTTTTTTT
1 ATTTTATTTTTTT
*
15336168 ATTTTATTTTTGT
1 ATTTTATTTTTTT
*
15336181 ATTTT-TCATTTTT
1 ATTTTAT-TTTTTT
15336194 ATTTTATTT
1 ATTTTATTT
15336203 ACATTTTTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
12 1 0.04
13 26 0.93
14 1 0.04
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.79
Consensus pattern (13 bp):
ATTTTATTTTTTT
Found at i:15336271 original size:15 final size:14
Alignment explanation
Indices: 15336242--15336294 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 14
15336232 TATTTTTCTT
15336242 TTATTT-TTATCTTA
1 TTATTTATTAT-TTA
15336256 TGTATTTATTATTTA
1 T-TATTTATTATTTA
*
15336271 TTTATTTATTA-CTA
1 -TTATTTATTATTTA
15336285 TTATTTATTA
1 TTATTTATTA
15336295 ATATATATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
13 10 0.29
14 3 0.09
15 17 0.49
16 5 0.14
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (14 bp):
TTATTTATTATTTA
Found at i:15336362 original size:22 final size:23
Alignment explanation
Indices: 15336329--15336386 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
15336319 TTAATATTTA
*
15336329 TATATATTTATCTGATTATAT-GT
1 TATA-ATTTATCTGATTATATAAT
*
15336352 TATAATTTATCT-ATTATTTAAT
1 TATAATTTATCTGATTATATAAT
*
15336374 TTTAATTTATCTG
1 TATAATTTATCTG
15336387 TTAATTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 6 0.20
22 20 0.67
23 4 0.13
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (23 bp):
TATAATTTATCTGATTATATAAT
Found at i:15337225 original size:18 final size:18
Alignment explanation
Indices: 15337199--15337241 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
15337189 TCGTACCAAG
15337199 TTTTT-TTTATATATATA
1 TTTTTATTTATATATATA
* *
15337216 TTTTTATTTATTTATTTA
1 TTTTTATTTATATATATA
*
15337234 TTATTATT
1 TTTTTATT
15337242 ATTATTAGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTATTTATATATATA
Found at i:15337240 original size:14 final size:14
Alignment explanation
Indices: 15337202--15337300 Score: 51
Period size: 14 Copynumber: 6.6 Consensus size: 14
15337192 TACCAAGTTT
* *
15337202 TTTTTATATATATA
1 TTTTTATTTATTTA
15337216 TTTTTATTTATTTA
1 TTTTTATTTATTTA
15337230 TTTATTA-TTA-TTA
1 TTT-TTATTTATTTA
* *
15337243 TTATTAGATTAGATTTA
1 TT-TT-TATT-TATTTA
*
15337260 TTTGATATTCT-TTTA
1 TTT-TTATT-TATTTA
15337275 TTTTTATCTTTATTTTA
1 TTTTTA--TTTA-TTTA
15337292 TTTTTATTT
1 TTTTTATTT
15337301 TTGTTTTACT
Statistics
Matches: 65, Mismatches: 9, Indels: 21
0.68 0.09 0.22
Matches are distributed among these distances:
13 6 0.09
14 22 0.34
15 15 0.23
16 7 0.11
17 15 0.23
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.70
Consensus pattern (14 bp):
TTTTTATTTATTTA
Found at i:15337281 original size:6 final size:6
Alignment explanation
Indices: 15337270--15337365 Score: 60
Period size: 6 Copynumber: 16.5 Consensus size: 6
15337260 TTTGATATTC
* * * *
15337270 TTTTAT TTTTAT CTTTA- TTTTAT TTTTAT TTTT-G TTTTAC TTTTCT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
* * *
15337316 TTGT-T TTTTATT TTTTAT TTTCA- CTTTAT TTTGT-T TTATTA- TTTTAT
1 TTTTAT TTTTA-T TTTTAT TTTTAT TTTTAT TTT-TAT TT-TTAT TTTTAT
15337363 TTT
1 TTT
15337366 CTTTAAATAA
Statistics
Matches: 69, Mismatches: 12, Indels: 18
0.70 0.12 0.18
Matches are distributed among these distances:
5 18 0.26
6 43 0.62
7 8 0.12
ACGTcount: A:0.14, C:0.05, G:0.03, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:15337292 original size:17 final size:16
Alignment explanation
Indices: 15337270--15337365 Score: 75
Period size: 17 Copynumber: 5.6 Consensus size: 16
15337260 TTTGATATTC
15337270 TTTTATTTTTATCTTTA
1 TTTTATTTTTAT-TTTA
*
15337287 TTTTATTTTTATTTTTG
1 TTTTATTTTTA-TTTTA
* * *
15337304 TTTTACTTTTCTTTGTT
1 TTTTATTTTTATTT-TA
15337321 TTTTATTTTTTATTTTCA
1 TTTTA-TTTTTATTTT-A
* *
15337339 CTTTATTTTGTTTTATTA
1 TTTTATTTT-TATT-TTA
15337357 TTTTATTTT
1 TTTTATTTT
15337366 CTTTAAATAA
Statistics
Matches: 63, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
16 3 0.05
17 34 0.54
18 24 0.38
19 2 0.03
ACGTcount: A:0.14, C:0.05, G:0.03, T:0.78
Consensus pattern (16 bp):
TTTTATTTTTATTTTA
Found at i:15337307 original size:11 final size:11
Alignment explanation
Indices: 15337270--15337365 Score: 63
Period size: 11 Copynumber: 8.3 Consensus size: 11
15337260 TTTGATATTC
15337270 TTTTATTTTTAT
1 TTTTA-TTTTAT
*
15337282 CTTTATTTTAT
1 TTTTATTTTAT
15337293 TTTTATTTT-T
1 TTTTATTTTAT
*
15337303 GTTTTACTTTTCT
1 -TTTTA-TTTTAT
15337316 TTGTT-TTTTATT
1 TT-TTATTTTA-T
15337328 TTTTATTTTCA-
1 TTTTATTTT-AT
* *
15337339 CTTTATTTTGTT
1 TTTTATTTT-AT
15337351 TTATTATTTTAT
1 TT-TTATTTTAT
15337363 TTT
1 TTT
15337366 CTTTAAATAA
Statistics
Matches: 67, Mismatches: 8, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
10 1 0.01
11 34 0.51
12 21 0.31
13 11 0.16
ACGTcount: A:0.14, C:0.05, G:0.03, T:0.78
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:15337353 original size:28 final size:29
Alignment explanation
Indices: 15337265--15337366 Score: 88
Period size: 30 Copynumber: 3.5 Consensus size: 29
15337255 ATTTATTTGA
* * *
15337265 TATTCTTTTATTTTTATCTTTATTTT-ATT
1 TATTATTTTATTTTCA-CTTTATTTTGTTT
*
15337294 T-TTATTTT-TGTTTTACTTT-TCTTTGTTT
1 TATTATTTTAT-TTTCACTTTAT-TTTGTTT
15337322 T-TTATTTTTTATTTTCACTTTATTTTGTTT
1 TATTA--TTTTATTTTCACTTTATTTTGTTT
15337352 TATTATTTTATTTTC
1 TATTATTTTATTTTC
15337367 TTTAAATAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 16
0.77 0.04 0.20
Matches are distributed among these distances:
26 1 0.02
27 8 0.13
28 17 0.27
29 11 0.18
30 20 0.32
31 5 0.08
ACGTcount: A:0.14, C:0.07, G:0.03, T:0.76
Consensus pattern (29 bp):
TATTATTTTATTTTCACTTTATTTTGTTT
Found at i:15337359 original size:13 final size:13
Alignment explanation
Indices: 15337217--15337365 Score: 50
Period size: 13 Copynumber: 11.3 Consensus size: 13
15337207 ATATATATAT
15337217 TTTTATT-TATTTA
1 TTTTATTAT-TTTA
15337230 -TTTATTATTATTA
1 TTTTATTATT-TTA
*
15337243 TTATTAGATTAGATTTA
1 TT-TT--ATTA-TTTTA
*
15337260 TTTGATATTCTTTTA
1 TTT--TATTATTTTA
15337275 -TTT-TTATCTTTA
1 TTTTATTAT-TTTA
15337287 TTTTA-T-TTTTA
1 TTTTATTATTTTA
*
15337298 -TTT-TTGTTTTA
1 TTTTATTATTTTA
* *
15337309 CTTTTCTT-TGTT-
1 -TTTTATTATTTTA
15337321 TTTTATT-TTTTA
1 TTTTATTATTTTA
*
15337333 TTTTCACTTTATTTTG
1 TTTT-A--TTATTTTA
15337349 TTTTATTATTTTA
1 TTTTATTATTTTA
15337362 TTTT
1 TTTT
15337366 CTTTAAATAA
Statistics
Matches: 105, Mismatches: 9, Indels: 44
0.66 0.06 0.28
Matches are distributed among these distances:
10 4 0.04
11 21 0.20
12 17 0.16
13 26 0.25
14 5 0.05
15 9 0.09
16 12 0.11
17 9 0.09
18 2 0.02
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.73
Consensus pattern (13 bp):
TTTTATTATTTTA
Found at i:15337503 original size:60 final size:59
Alignment explanation
Indices: 15337379--15337538 Score: 193
Period size: 60 Copynumber: 2.7 Consensus size: 59
15337369 TAAATAAAAT
** * * *
15337379 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAGAATAAATTTTC
1 AAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTGAAGAATAAAGTTTC
* *
15337438 AAAAAAAAGTTTTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTCGAA-ATTAAAGTTTC
1 AAAAAAAA-TATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCT-GAAGAATAAAGTTTC
* *
15337498 --CAAAAATATTTTTGAA-AAAAGTTGAAAGTATCAATTATCCT
1 AAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCT
15337539 TGCACAAAAG
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
56 24 0.27
57 9 0.10
58 5 0.06
59 8 0.09
60 41 0.46
61 2 0.02
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.36
Consensus pattern (59 bp):
AAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTGAAGAATAAAGTTTC
Found at i:15339554 original size:14 final size:15
Alignment explanation
Indices: 15339511--15339556 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 15
15339501 TAAGATGAAT
15339511 AAATAA-ATATCAT-A
1 AAATAATATAT-ATAA
*
15339525 AAATAATATATTTAA
1 AAATAATATATATAA
15339540 AAATAATA-ATATAA
1 AAATAATATATATAA
15339554 AAA
1 AAA
15339557 ATGAATTAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 15 0.54
15 13 0.46
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (15 bp):
AAATAATATATATAA
Found at i:15339557 original size:15 final size:15
Alignment explanation
Indices: 15339511--15339573 Score: 51
Period size: 15 Copynumber: 4.2 Consensus size: 15
15339501 TAAGATGAAT
* *
15339511 AAATAA-ATATCATA
1 AAATAATATATTAAA
*
15339525 AAATAATATATTTAA
1 AAATAATATATTAAA
15339540 AAATAATA-ATATAAA
1 AAATAATATAT-TAAA
15339555 AAATGAAT-TAGTTAAA
1 AAAT-AATATA-TTAAA
15339571 AAA
1 AAA
15339574 GATAATATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
14 8 0.20
15 20 0.50
16 11 0.28
17 1 0.03
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (15 bp):
AAATAATATATTAAA
Found at i:15339727 original size:17 final size:15
Alignment explanation
Indices: 15339682--15339728 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 15
15339672 ATGAAATAAT
15339682 AAAATAT-TAACAA-
1 AAAATATATAACAAC
*
15339695 ATAATATATAACAAC
1 AAAATATATAACAAC
15339710 AAAATATAATAACTAAC
1 AAAATAT-ATAAC-AAC
15339727 AA
1 AA
15339729 TATGCTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 6 0.21
14 6 0.21
15 6 0.21
16 5 0.18
17 5 0.18
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAATATATAACAAC
Found at i:15342234 original size:3 final size:3
Alignment explanation
Indices: 15342226--15342260 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
15342216 TATGTAAAGC
15342226 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
15342261 CAACAACAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:15346010 original size:154 final size:155
Alignment explanation
Indices: 15345852--15346136 Score: 375
Period size: 155 Copynumber: 1.8 Consensus size: 155
15345842 ATAATATGAC
* * * * * * *
15345852 AATTATTTTTATTGAAA-TTTCATTTAAATTCTTCTACCATTTGGGATAAATTTA-A-AGAAATT
1 AATTATTGTTATTGAAACTTT-ATCTAAATTATTCCACCATTTGAGACAAATTTAGACAAAAATT
* * *
15345914 TCTCACCTA-AAGATTTCT-TAAAAAATTTACTATTTGAAATTTTTA-AGAATCTCATCATTAGA
65 TCTCACCTAGAA-ATTT-TAT-AAAAATTTACCATTTAAAATTTCTATA-AATCTCATCATTAGA
15345976 TAATTATCAAATATTTTCAACCAAAATATT
126 TAATTATCAAATATTTTCAACCAAAATATT
15346006 AATTATTGTTATTGAAACTTTATCTAAATTATTCCACCATTTGAGACAAATTTAGACAAAAATTT
1 AATTATTGTTATTGAAACTTTATCTAAATTATTCCACCATTTGAGACAAATTTAGACAAAAATTT
* *
15346071 CTCACCTAGAAATTTTATAAAAATTTACCATTTAAAATTTCTATAAATTTCATCATTGGATAATT
66 CTCACCTAGAAATTTTATAAAAATTTACCATTTAAAATTTCTATAAATCTCATCATTAGATAATT
15346136 A
131 A
15346137 ATATTTATTC
Statistics
Matches: 113, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
154 44 0.39
155 46 0.41
156 21 0.19
157 2 0.02
ACGTcount: A:0.40, C:0.12, G:0.06, T:0.42
Consensus pattern (155 bp):
AATTATTGTTATTGAAACTTTATCTAAATTATTCCACCATTTGAGACAAATTTAGACAAAAATTT
CTCACCTAGAAATTTTATAAAAATTTACCATTTAAAATTTCTATAAATCTCATCATTAGATAATT
ATCAAATATTTTCAACCAAAATATT
Found at i:15346172 original size:154 final size:152
Alignment explanation
Indices: 15345852--15346136 Score: 355
Period size: 154 Copynumber: 1.9 Consensus size: 152
15345842 ATAATATGAC
* * * * * *
15345852 AATTATTTTTATTGAAATTTCATTTAAATTCTTCTACCATTTGGGATAAATTTAAAGAAATTTCT
1 AATTATTTTTATTGAAATTTCATCTAAATTATTCCACCATTTGAGACAAATTTAAAAAAATTTCT
* * *
15345917 CACCTAAAGATTTCTTAAAAAATTTACTATTTGAAATTTTTAAGAATCTCATCATTAGATAATTA
66 CACCTAAAGATTTCTTAAAAAATTTACCATTTAAAATTTCTAAGAATCTCATCATTAGATAATTA
15345982 TCAAATATTTTCAACCAAAATATT
131 -CAAATATTTTC-ACCAAAATATT
*
15346006 AATTATTGTTATTGAAACTTT-ATCTAAATTATTCCACCATTTGAGACAAATTTAGACAAAAATT
1 AATTATTTTTATTGAAA-TTTCATCTAAATTATTCCACCATTTGAGACAAATTTA-A-AAAAATT
* *
15346070 TCTCACCTAGAA-A-TT-TTATAAAAATTTACCATTTAAAATTTCTATA-AATTTCATCATTGGA
63 TCTCACCTA-AAGATTTCTTA-AAAAATTTACCATTTAAAATTTCTA-AGAATCTCATCATTAGA
15346131 TAATTA
125 TAATTA
15346137 ATATTTATTC
Statistics
Matches: 113, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
154 47 0.42
155 47 0.42
156 17 0.15
157 2 0.02
ACGTcount: A:0.40, C:0.12, G:0.06, T:0.42
Consensus pattern (152 bp):
AATTATTTTTATTGAAATTTCATCTAAATTATTCCACCATTTGAGACAAATTTAAAAAAATTTCT
CACCTAAAGATTTCTTAAAAAATTTACCATTTAAAATTTCTAAGAATCTCATCATTAGATAATTA
CAAATATTTTCACCAAAATATT
Found at i:15347401 original size:51 final size:51
Alignment explanation
Indices: 15347322--15347418 Score: 151
Period size: 51 Copynumber: 1.9 Consensus size: 51
15347312 GAAAAATAAA
15347322 TGCTCCTCTAAATACAGGCAACACAACTTT-AGAAAAATAAATTGCTCCAAT
1 TGCTCCTCTAAATACAGGCAACACAACTTTGA-AAAAATAAATTGCTCCAAT
* * *
15347373 TGCTCCTCTAAATAGAGGCACCATAACTTTGAAAAAATAAATTGCT
1 TGCTCCTCTAAATACAGGCAACACAACTTTGAAAAAATAAATTGCT
15347419 TCTCTAAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
51 41 0.98
52 1 0.02
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.27
Consensus pattern (51 bp):
TGCTCCTCTAAATACAGGCAACACAACTTTGAAAAAATAAATTGCTCCAAT
Found at i:15347429 original size:42 final size:42
Alignment explanation
Indices: 15347307--15347667 Score: 393
Period size: 42 Copynumber: 8.4 Consensus size: 42
15347297 GCTCAATGAT
* *
15347307 TTTGAGAAAAATAAA-TGCTCCTCTAAATACAGGCAACACAAC
1 TTTGA-AAAAATAAATTGCTCCTCTAAATAGAGGCAACAAAAC
* * *
15347349 TTTAGAAAAATAAATTGCTCCAATTGCTCCTCTAAATAGAGGCACCATAAC
1 TTT-G--AAA-AAA----T-AAATTGCTCCTCTAAATAGAGGCAACAAAAC
* * *
15347400 TTTGAAAAAATAAATTGCTTCTCTAAATAGAGGCAATACAAC
1 TTTGAAAAAATAAATTGCTCCTCTAAATAGAGGCAACAAAAC
* * *
15347442 TTTG-AAAAATAAGTTGCTCTTCTAAATAGAGGCAACACAAC
1 TTTGAAAAAATAAATTGCTCCTCTAAATAGAGGCAACAAAAC
* * *
15347483 TTTTAAAAAATAAATTGCTCCTCTAAATAAAGCCAACAAAAC
1 TTTGAAAAAATAAATTGCTCCTCTAAATAGAGGCAACAAAAC
* * *
15347525 TTTGAGAAAATAAATTGCTCCTCTAAATAGAGGCAATAGAAC
1 TTTGAAAAAATAAATTGCTCCTCTAAATAGAGGCAACAAAAC
* * *
15347567 TTTGAAAAAATAAATTGCTCCTCTAAATAAAGGCAATAGAAC
1 TTTGAAAAAATAAATTGCTCCTCTAAATAGAGGCAACAAAAC
* * * *
15347609 TTTGGAAAAATAAATTGCTCATCTGAATAAAGGCAACAAAAC
1 TTTGAAAAAATAAATTGCTCCTCTAAATAGAGGCAACAAAAC
15347651 TTTGAAAAAAATAAATT
1 TTTG-AAAAAATAAATT
15347668 ACTCTTGGAC
Statistics
Matches: 274, Mismatches: 33, Indels: 23
0.83 0.10 0.07
Matches are distributed among these distances:
41 36 0.13
42 182 0.66
43 13 0.05
44 2 0.01
45 4 0.01
47 3 0.01
48 3 0.01
49 1 0.00
50 3 0.01
51 27 0.10
ACGTcount: A:0.45, C:0.16, G:0.12, T:0.26
Consensus pattern (42 bp):
TTTGAAAAAATAAATTGCTCCTCTAAATAGAGGCAACAAAAC
Found at i:15347542 original size:125 final size:126
Alignment explanation
Indices: 15347307--15347667 Score: 447
Period size: 126 Copynumber: 2.8 Consensus size: 126
15347297 GCTCAATGAT
* *
15347307 TTTGAGAAAAATAAA-TGCTCCTCTAAATACAGGCAACACAACTTTAGAAAAATAAATTGCTCCA
1 TTTGA-AAAAATAAATTGCTCCTCTAAATAAAGGCAACACAACTTT-G--AAA-AAA----T-AA
* * * *
15347371 ATTGCTCCTCTAAATAGAGGCACCATAACTTTGAAAAAATAAATTGCTTCTCTAAATAGAGGCAA
56 ATTGCTCCTCTAAATAAAGGCAACAAAACTTTGAAAAAATAAATTGCTCCTCTAAATAGAGGCAA
15347436 TACAAC
121 TACAAC
* * * *
15347442 TTTG-AAAAATAAGTTGCTCTTCTAAATAGAGGCAACACAACTTTTAAAAAATAAATTGCTCCTC
1 TTTGAAAAAATAAATTGCTCCTCTAAATAAAGGCAACACAACTTTGAAAAAATAAATTGCTCCTC
* * *
15347506 TAAATAAAGCCAACAAAACTTTGAGAAAATAAATTGCTCCTCTAAATAGAGGCAATAGAAC
66 TAAATAAAGGCAACAAAACTTTGAAAAAATAAATTGCTCCTCTAAATAGAGGCAATACAAC
* * * *
15347567 TTTGAAAAAATAAATTGCTCCTCTAAATAAAGGCAATAGAACTTTGGAAAAATAAATTGCTCATC
1 TTTGAAAAAATAAATTGCTCCTCTAAATAAAGGCAACACAACTTTGAAAAAATAAATTGCTCCTC
*
15347632 TGAATAAAGGCAACAAAACTTTGAAAAAAATAAATT
66 TAAATAAAGGCAACAAAACTTTG-AAAAAATAAATT
15347668 ACTCTTGGAC
Statistics
Matches: 200, Mismatches: 23, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
125 69 0.34
126 74 0.37
127 11 0.05
130 3 0.01
131 3 0.01
133 8 0.04
134 28 0.14
135 4 0.02
ACGTcount: A:0.45, C:0.16, G:0.12, T:0.26
Consensus pattern (126 bp):
TTTGAAAAAATAAATTGCTCCTCTAAATAAAGGCAACACAACTTTGAAAAAATAAATTGCTCCTC
TAAATAAAGGCAACAAAACTTTGAAAAAATAAATTGCTCCTCTAAATAGAGGCAATACAAC
Found at i:15348010 original size:20 final size:20
Alignment explanation
Indices: 15347972--15348010 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
15347962 TCACATCTAA
**
15347972 AAGTTTAAAGCTTTTCATTC
1 AAGTTTAAAGCTTCACATTC
*
15347992 AAGTTTAAAGGTTCACATT
1 AAGTTTAAAGCTTCACATT
15348011 TGACAAATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (20 bp):
AAGTTTAAAGCTTCACATTC
Found at i:15348060 original size:21 final size:21
Alignment explanation
Indices: 15348035--15348113 Score: 113
Period size: 21 Copynumber: 3.8 Consensus size: 21
15348025 GTTTCACATC
*
15348035 TCAAATATTCTCATTTGAAAT
1 TCAAAGATTCTCATTTGAAAT
15348056 TCAAAGATTCTCATTTGAAAT
1 TCAAAGATTCTCATTTGAAAT
*
15348077 TCAAAGATTCTTATTTGAAAT
1 TCAAAGATTCTCATTTGAAAT
* * *
15348098 TAAAAAATTCGCATTT
1 TCAAAGATTCTCATTT
15348114 AAGAACTCAA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.41
Consensus pattern (21 bp):
TCAAAGATTCTCATTTGAAAT
Found at i:15348682 original size:71 final size:71
Alignment explanation
Indices: 15348571--15348743 Score: 168
Period size: 71 Copynumber: 2.4 Consensus size: 71
15348561 ATAGGCTCTT
* * * * * * * * * *
15348571 TAGCAATTTCAACATAAACTTCATCCATTGACACATACTATTTCCTCCACCATTCATAGGCTTCT
1 TAGCTATTTCAGCATAAATTTCATCCACTGACACACACTATTTCCACCACAATTCACAAGCTTAT
15348636 CAGCAC
66 CAGCAC
* * *
15348642 TAGCTCTTTCAGCATAAATTTCATCCACTGAC-CTACACTATTTTCACCATAATTCACAAGCTTA
1 TAGCTATTTCAGCATAAATTTCATCCACTGACAC-ACACTATTTCCACCACAATTCACAAGCTTA
*
15348706 TCAGCAT
65 TCAGCAC
* * * *
15348713 TAGCTATTTTAGAATAAATTTTATCCTCTGA
1 TAGCTATTTCAGCATAAATTTCATCCACTGA
15348744 TCCACATTAT
Statistics
Matches: 82, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
70 1 0.01
71 81 0.99
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (71 bp):
TAGCTATTTCAGCATAAATTTCATCCACTGACACACACTATTTCCACCACAATTCACAAGCTTAT
CAGCAC
Found at i:15349403 original size:20 final size:19
Alignment explanation
Indices: 15349380--15349452 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 19
15349370 TTCCTTTCCA
15349380 TTTTTCTCTTTTTCTTTAT
1 TTTTTCTCTTTTTCTTTAT
*
15349399 TTTTTCCATTTTTTTTCTTT-T
1 TTTTT-C--TCTTTTTCTTTAT
* *
15349420 TTTTCCATTTTTTTTCTTTAT
1 TTTTTC--TCTTTTTCTTTAT
15349441 TTTTTCTCTTTT
1 TTTTTCTCTTTT
15349453 CTTCTTTACT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
19 10 0.22
20 15 0.33
21 11 0.24
22 10 0.22
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTTCTCTTTTTCTTTAT
Found at i:15349430 original size:27 final size:27
Alignment explanation
Indices: 15349374--15349430 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
15349364 TTTTCCTTCC
**
15349374 TTTCCATTTTTCTCTTTTTCTTTATTT
1 TTTCCATTTTTCTCTTTTTCTTTACAT
* *
15349401 TTTCCATTTTTTTTCTTTTT-TTTCCAT
1 TTTCCA-TTTTTCTCTTTTTCTTTACAT
15349428 TTT
1 TTT
15349431 TTTTCTTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 13 0.52
28 12 0.48
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (27 bp):
TTTCCATTTTTCTCTTTTTCTTTACAT
Found at i:15349452 original size:21 final size:21
Alignment explanation
Indices: 15349380--15349460 Score: 82
Period size: 21 Copynumber: 4.0 Consensus size: 21
15349370 TTCCTTTCCA
15349380 TTTTTCTC--TTTTTCTTTAT
1 TTTTTCTCTTTTTTTCTTTAT
15349399 TTTTTC-CATTTTTTTTCTTT-T
1 TTTTTCTC--TTTTTTTCTTTAT
*
15349420 TTTTCCAT-TTTTTTTCTTTAT
1 TTTTTC-TCTTTTTTTCTTTAT
*
15349441 TTTTTCTCTTTTCTTCTTTA
1 TTTTTCTCTTTTTTTCTTTA
15349461 CTTTATTCAT
Statistics
Matches: 51, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
18 1 0.02
19 6 0.12
20 12 0.24
21 23 0.45
22 9 0.18
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTTCTCTTTTTTTCTTTAT
Found at i:15352336 original size:23 final size:26
Alignment explanation
Indices: 15352310--15352402 Score: 111
Period size: 28 Copynumber: 3.5 Consensus size: 26
15352300 TAGGTATGAG
15352310 ATGATGCATAGAAT-AA-A-ATGATA
1 ATGATGCATAGAATAAAGATATGATA
*
15352333 ATGATGCATTGAATGAAATGATATGATA
1 ATGATGCATAGAAT-AAA-GATATGATA
*
15352361 ATGATGCATTGAATGAAATGATATGATA
1 ATGATGCATAGAAT-AAA-GATATGATA
15352389 ATGATGCATAGAAT
1 ATGATGCATAGAAT
15352403 GTAATGAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
23 13 0.21
25 2 0.03
27 1 0.02
28 47 0.75
ACGTcount: A:0.45, C:0.04, G:0.20, T:0.30
Consensus pattern (26 bp):
ATGATGCATAGAATAAAGATATGATA
Found at i:15352358 original size:28 final size:28
Alignment explanation
Indices: 15352327--15352409 Score: 148
Period size: 28 Copynumber: 3.0 Consensus size: 28
15352317 ATAGAATAAA
15352327 ATGATAATGATGCATTGAATGAAATGAT
1 ATGATAATGATGCATTGAATGAAATGAT
15352355 ATGATAATGATGCATTGAATGAAATGAT
1 ATGATAATGATGCATTGAATGAAATGAT
* *
15352383 ATGATAATGATGCATAGAATGTAATGA
1 ATGATAATGATGCATTGAATGAAATGA
15352410 AAATGATGCA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 53 1.00
ACGTcount: A:0.43, C:0.04, G:0.22, T:0.31
Consensus pattern (28 bp):
ATGATAATGATGCATTGAATGAAATGAT
Found at i:15352409 original size:23 final size:26
Alignment explanation
Indices: 15352310--15352419 Score: 106
Period size: 28 Copynumber: 4.3 Consensus size: 26
15352300 TAGGTATGAG
*
15352310 ATGATGCATAGAAT-A--AAATGATA
1 ATGATGCATAGAATGATGATATGATA
*
15352333 ATGATGCATTGAATGAAATGATATGATA
1 ATGATGCATAGAATG--ATGATATGATA
*
15352361 ATGATGCATTGAATGAAATGATATGATA
1 ATGATGCATAGAATG--ATGATATGATA
*
15352389 ATGATGCATAGAATG-T-A-ATGAAA
1 ATGATGCATAGAATGATGATATGATA
15352412 ATGATGCA
1 ATGATGCA
15352420 GGTGCACAAA
Statistics
Matches: 78, Mismatches: 4, Indels: 10
0.85 0.04 0.11
Matches are distributed among these distances:
23 26 0.33
24 1 0.01
25 1 0.01
26 1 0.01
28 49 0.63
ACGTcount: A:0.45, C:0.05, G:0.21, T:0.29
Consensus pattern (26 bp):
ATGATGCATAGAATGATGATATGATA
Found at i:15353532 original size:45 final size:46
Alignment explanation
Indices: 15353483--15353570 Score: 126
Period size: 45 Copynumber: 1.9 Consensus size: 46
15353473 CTTTTTCAGA
* *
15353483 ATTTCTAAATTTTTCATC-ATTTGGGCCTATTTAGAAA-ATTTTTTT
1 ATTTCTAAATTTTTC-TCAATTTGGGCCAATCTAGAAATATTTTTTT
*
15353528 ATTTCTAAATTTTTCTCAATTTGGGTCAATCTAGAAATATTTT
1 ATTTCTAAATTTTTCTCAATTTGGGCCAATCTAGAAATATTTT
15353571 CTTTTCTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
44 2 0.05
45 31 0.82
46 5 0.13
ACGTcount: A:0.28, C:0.11, G:0.09, T:0.51
Consensus pattern (46 bp):
ATTTCTAAATTTTTCTCAATTTGGGCCAATCTAGAAATATTTTTTT
Found at i:15354428 original size:20 final size:19
Alignment explanation
Indices: 15354403--15354440 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
15354393 ATTAAATGTT
15354403 TTATTGGAAACTAGGAAAAG
1 TTATTGGAAACTA-GAAAAG
15354423 TTATTGGAAACTAGAAAA
1 TTATTGGAAACTAGAAAA
15354441 TATCATCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.47, C:0.05, G:0.21, T:0.26
Consensus pattern (19 bp):
TTATTGGAAACTAGAAAAG
Found at i:15359377 original size:21 final size:22
Alignment explanation
Indices: 15359351--15359392 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
15359341 AAACATATGA
* *
15359351 CAAGTATATATATA-AAATAAT
1 CAAGTAAATATAAACAAATAAT
15359372 CAAGTAAATATAAACAAATAA
1 CAAGTAAATATAAACAAATAA
15359393 ATATAAGGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.62, C:0.07, G:0.05, T:0.26
Consensus pattern (22 bp):
CAAGTAAATATAAACAAATAAT
Found at i:15360018 original size:21 final size:19
Alignment explanation
Indices: 15359989--15360027 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
15359979 TTAGAAGATA
*
15359989 AAAATTATTTTGTTTATTTG
1 AAAATTA-TTTCTTTATTTG
15360009 AAAATATATTTCTTTATTT
1 AAAAT-TATTTCTTTATTT
15360028 TTATTGAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (19 bp):
AAAATTATTTCTTTATTTG
Found at i:15360250 original size:25 final size:24
Alignment explanation
Indices: 15360216--15360269 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
15360206 AAAATAGGTT
15360216 AAAAATAAAAT-AAAATAGAAATCA
1 AAAAATAAAATAAAAATA-AAATCA
*
15360240 AAAAATAAAAATAAAAATAAAATGA
1 AAAAAT-AAAATAAAAATAAAATCA
15360265 AAAAA
1 AAAAA
15360270 AGAAAATCTG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 6 0.22
25 15 0.56
26 6 0.22
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.15
Consensus pattern (24 bp):
AAAAATAAAATAAAAATAAAATCA
Found at i:15360261 original size:19 final size:19
Alignment explanation
Indices: 15360222--15360261 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
15360212 GGTTAAAAAT
*
15360222 AAAATAAAATAGAAATCAA
1 AAAATAAAATAAAAATCAA
15360241 AAAATAAAAATAAAAAT-AA
1 AAAAT-AAAATAAAAATCAA
15360260 AA
1 AA
15360262 TGAAAAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.15
Consensus pattern (19 bp):
AAAATAAAATAAAAATCAA
Found at i:15360275 original size:25 final size:24
Alignment explanation
Indices: 15360216--15360276 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
15360206 AAAATAGGTT
*
15360216 AAAAATAAAATAAAATAGAAATCA
1 AAAAAAAAAATAAAATAGAAATCA
*
15360240 AAAAATAAAAATAAAAATA-AAATGA
1 AAAAA-AAAAAT-AAAATAGAAATCA
15360265 AAAAAAGAAAAT
1 AAAAAA-AAAAT
15360277 CTGCAATCGG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 6 0.19
25 20 0.62
26 6 0.19
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.15
Consensus pattern (24 bp):
AAAAAAAAAATAAAATAGAAATCA
Found at i:15361113 original size:16 final size:17
Alignment explanation
Indices: 15361075--15361114 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
15361065 AGAAAGAACA
15361075 AAGAACAAAAATGAAAAT
1 AAGAA-AAAAATGAAAAT
15361093 AAGAAAAAAATGAAAAT
1 AAGAAAAAAATGAAAAT
15361110 -AGAAA
1 AAGAAA
15361115 TATAATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 5 0.23
17 12 0.55
18 5 0.23
ACGTcount: A:0.75, C:0.03, G:0.12, T:0.10
Consensus pattern (17 bp):
AAGAAAAAAATGAAAAT
Found at i:15361124 original size:3 final size:3
Alignment explanation
Indices: 15361116--15361185 Score: 74
Period size: 3 Copynumber: 23.7 Consensus size: 3
15361106 AAATAGAAAT
* * *
15361116 ATA ATA ATA ATA ATA ATA ATA ATA A-A CA-A AGA A-A AAA AGTG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA A-TA ATA
15361160 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
15361186 TTATAAAAAC
Statistics
Matches: 60, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
2 4 0.07
3 55 0.92
4 1 0.02
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:15361346 original size:26 final size:26
Alignment explanation
Indices: 15361317--15361375 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
15361307 ATGTTAATGA
*
15361317 GCCTAATCAGGCTTGGACATCAACAG
1 GCCTAATCAGGCTTGAACATCAACAG
* **
15361343 GCCTAATCGGGCTTGAACATCAATGG
1 GCCTAATCAGGCTTGAACATCAACAG
15361369 GCCTAAT
1 GCCTAAT
15361376 AGGACCCGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.22
Consensus pattern (26 bp):
GCCTAATCAGGCTTGAACATCAACAG
Found at i:15362656 original size:18 final size:19
Alignment explanation
Indices: 15362633--15362673 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
15362623 GATAAGGTAA
15362633 TTTTATA-TT-TTTATATAT
1 TTTTATATTTATTTAT-TAT
15362651 TTTTATATTTATTTATTAT
1 TTTTATATTTATTTATTAT
15362670 TTTT
1 TTTT
15362674 TTGTTATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.33
19 9 0.43
20 5 0.24
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTATATTTATTTATTAT
Found at i:15362683 original size:11 final size:11
Alignment explanation
Indices: 15362635--15362686 Score: 54
Period size: 10 Copynumber: 4.9 Consensus size: 11
15362625 TAAGGTAATT
*
15362635 TTATATTTTTA
1 TTATTTTTTTA
*
15362646 -TATATTTTTA
1 TTATTTTTTTA
*
15362656 -TATTTATTTA
1 TTATTTTTTTA
*
15362666 TTATTTTTTTG
1 TTATTTTTTTA
15362677 TTATTTTTTT
1 TTATTTTTTT
15362687 CTTGTTCACA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
10 18 0.50
11 18 0.50
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (11 bp):
TTATTTTTTTA
Found at i:15374980 original size:50 final size:51
Alignment explanation
Indices: 15374921--15375092 Score: 181
Period size: 50 Copynumber: 3.4 Consensus size: 51
15374911 GTTTCGAGAA
*
15374921 AAGATGAAGA-TTTTAAAGTTGTTAAGCCTTTACTTAGAGGAGCTTTTTTC
1 AAGATGAAGATTTTTAAAGTTGTTAAGCCTTTACTTAGAAGAGCTTTTTTC
* * * * *
15374971 AAGATGAAGA-TTTTAAAATTATTAAGTCTTTATTTAAAAGAG-TTATTTTC
1 AAGATGAAGATTTTTAAAGTTGTTAAGCCTTTACTTAGAAGAGCTT-TTTTC
* * * * * * *
15375021 AAGATAAAAATTTTTAAAGTTGTTAAACCTCTACTTAGATGAACCTTTTTC
1 AAGATGAAGATTTTTAAAGTTGTTAAGCCTTTACTTAGAAGAGCTTTTTTC
15375072 AAGATG-AGAATTTTTAAAGTT
1 AAGATGAAG-ATTTTTAAAGTT
15375093 ATTGAGCATC
Statistics
Matches: 98, Mismatches: 20, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
49 2 0.02
50 50 0.51
51 45 0.46
52 1 0.01
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.41
Consensus pattern (51 bp):
AAGATGAAGATTTTTAAAGTTGTTAAGCCTTTACTTAGAAGAGCTTTTTTC
Found at i:15377074 original size:21 final size:21
Alignment explanation
Indices: 15377029--15377074 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
15377019 TAATAAACAT
*
15377029 AAAAAATAACTAGAAAATATT
1 AAAAAATAACTAGAAAATATG
15377050 AAAAAATAA-TA-AAAATGATAG
1 AAAAAATAACTAGAAAAT-AT-G
15377071 AAAA
1 AAAA
15377075 TTTTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 5 0.23
20 4 0.18
21 13 0.59
ACGTcount: A:0.72, C:0.02, G:0.07, T:0.20
Consensus pattern (21 bp):
AAAAAATAACTAGAAAATATG
Found at i:15378053 original size:29 final size:29
Alignment explanation
Indices: 15378020--15378086 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
15378010 AAAAATAATA
* *
15378020 AAATTGAAAGTGGAGTGAT-AAATTCAATT
1 AAATTGAAAGTAGAATGATAAAATTCAA-T
* *
15378049 AAATTAAAAGTATAATGATAAAATTCAAT
1 AAATTGAAAGTAGAATGATAAAATTCAAT
15378078 AAATTGAAA
1 AAATTGAAA
15378087 TACAGTGTCA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 24 0.75
30 8 0.25
ACGTcount: A:0.54, C:0.03, G:0.13, T:0.30
Consensus pattern (29 bp):
AAATTGAAAGTAGAATGATAAAATTCAAT
Found at i:15379175 original size:2 final size:2
Alignment explanation
Indices: 15379168--15379194 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15379158 AATTCATTAG
15379168 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 A
15379195 AACTGTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15380781 original size:3 final size:3
Alignment explanation
Indices: 15380773--15380848 Score: 89
Period size: 3 Copynumber: 25.3 Consensus size: 3
15380763 CCATTTTCTG
* * * * * * *
15380773 ATT ATT ATT ATT ATT ATT GTT GTT GTT GTT GTT ATT GTT ATT GTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
15380821 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
15380849 GTTAAAAGAA
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:15380960 original size:21 final size:21
Alignment explanation
Indices: 15380917--15380974 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
15380907 TTTATAATTT
* *
15380917 TTGCATGAT-TATTA-ATTAC
1 TTGCATGATATTTTATATTAA
15380936 TTGCATGATATTTTATATTAA
1 TTGCATGATATTTTATATTAA
*
15380957 TTGCATGATAATTTATAT
1 TTGCATGATATTTTATAT
15380975 ATTATATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 9 0.26
20 4 0.12
21 21 0.62
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (21 bp):
TTGCATGATATTTTATATTAA
Found at i:15381010 original size:19 final size:19
Alignment explanation
Indices: 15380988--15381056 Score: 95
Period size: 19 Copynumber: 3.7 Consensus size: 19
15380978 ATATTATTCC
*
15380988 ATGATTATATTATTTTTTT
1 ATGATTATATTATTTTTGT
15381007 ATGATTATATTATTTTTGT
1 ATGATTATATTATTTTTGT
* **
15381026 ATGATTAAATTATAATTGT
1 ATGATTATATTATTTTTGT
15381045 ATGA-TATATTAT
1 ATGATTATATTAT
15381057 ATTATTGCAT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
18 7 0.16
19 38 0.84
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (19 bp):
ATGATTATATTATTTTTGT
Found at i:15382411 original size:20 final size:20
Alignment explanation
Indices: 15382386--15382426 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
15382376 CTTTATGTTG
* *
15382386 TTCTTTGTATTTATATATTA
1 TTCTTTATATATATATATTA
15382406 TTCTTTATATATATATATTA
1 TTCTTTATATATATATATTA
15382426 T
1 T
15382427 GCCTACTAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (20 bp):
TTCTTTATATATATATATTA
Found at i:15387023 original size:22 final size:22
Alignment explanation
Indices: 15386989--15387154 Score: 90
Period size: 22 Copynumber: 7.4 Consensus size: 22
15386979 AACCTTTAAA
* * *
15386989 TTTTGGATATGAATCTAAAATT
1 TTTTGAATGTGAATCTTAAATT
15387011 TTTTGAATGTGAATCTTTGAAATT
1 TTTTGAATGTGAATC-TT-AAATT
*
15387035 TTTT--ATGTGAATCTCTAAGTT
1 TTTTGAATGTGAATCT-TAAATT
** *** * *
15387056 TTTCAAATAAAAATCTTTAA-C
1 TTTTGAATGTGAATCTTAAATT
* *
15387077 TTTTGGATGTGAATATCTAAAATT
1 TTTTGAATGTG-A-ATCTTAAATT
*
15387101 TTTCGAATGTGAATCTTTGAAA--
1 TTTTGAATGTGAATC-TT-AAATT
*
15387123 TTTTGGATGTGAATCTTTAAATT
1 TTTTGAATGTGAATC-TTAAATT
15387146 TTTTGAATG
1 TTTTGAATG
15387155 AAAATCTTTA
Statistics
Matches: 106, Mismatches: 26, Indels: 23
0.68 0.17 0.15
Matches are distributed among these distances:
21 16 0.15
22 45 0.42
23 24 0.23
24 21 0.20
ACGTcount: A:0.32, C:0.07, G:0.14, T:0.47
Consensus pattern (22 bp):
TTTTGAATGTGAATCTTAAATT
Found at i:15387034 original size:44 final size:43
Alignment explanation
Indices: 15386982--15387201 Score: 197
Period size: 44 Copynumber: 5.0 Consensus size: 43
15386972 GAAAAAGAAC
* **
15386982 CTTTAAATTTTGGATATGAATCTAAAATTTTTTGAATGTGAAT
1 CTTTAAATTTTGGATGTGAATCTAAAATTTTTTGAATGAAAAT
** * * ** *
15387025 CTTTGAAATTTTTTATGTGAATCTCTAAGTTTTTCAAATAAAAAT
1 CTTT-AAATTTTGGATGTGAATCT-AAAATTTTTTGAATGAAAAT
* * **
15387070 CTTTAACTTTTGGATGTGAATATCTAAAATTTTTCGAATGTGAAT
1 CTTTAAATTTTGGATGTG-A-ATCTAAAATTTTTTGAATGAAAAT
*
15387115 CTTTGAAATTTTGGATGTGAATCTTTAAATTTTTTGAATGAAAAT
1 CTTT-AAATTTTGGATGTGAATC-TAAAATTTTTTGAATGAAAAT
* * * * *
15387160 CTTTAACTATTGGGTGTGAATTTATAAAATTTTTGAATGAAA
1 CTTTAAATTTTGGATGTGAATCTA-AAATTTTTTGAATGAAA
15387202 GTATGTGAAT
Statistics
Matches: 140, Mismatches: 30, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
43 5 0.04
44 60 0.43
45 58 0.41
46 17 0.12
ACGTcount: A:0.34, C:0.06, G:0.14, T:0.45
Consensus pattern (43 bp):
CTTTAAATTTTGGATGTGAATCTAAAATTTTTTGAATGAAAAT
Found at i:15387073 original size:45 final size:45
Alignment explanation
Indices: 15386982--15387201 Score: 198
Period size: 45 Copynumber: 5.0 Consensus size: 45
15386972 GAAAAAGAAC
* * * **
15386982 CTTT-AAATTTTGGATATGAATCT-AAAATTTTTTGAATGTGAAT
1 CTTTGAAATTTTGGATGTGAATCTCTAAATTTTTCGAATGAAAAT
** * * *
15387025 CTTTGAAATTTTTTATGTGAATCTCTAAGTTTTTCAAATAAAAAT
1 CTTTGAAATTTTGGATGTGAATCTCTAAATTTTTCGAATGAAAAT
* * **
15387070 CTTT-AACTTTTGGATGTGAATATCTAAAATTTTTCGAATGTGAAT
1 CTTTGAAATTTTGGATGTGAATCTCT-AAATTTTTCGAATGAAAAT
* *
15387115 CTTTGAAATTTTGGATGTGAATCTTTAAATTTTTTGAATGAAAAT
1 CTTTGAAATTTTGGATGTGAATCTCTAAATTTTTCGAATGAAAAT
* * * * *
15387160 CTTT-AACTATTGGGTGTGAATTTATAAAATTTTT-GAATGAAA
1 CTTTGAAATTTTGGATGTGAATCTCT-AAATTTTTCGAATGAAA
15387202 GTATGTGAAT
Statistics
Matches: 142, Mismatches: 30, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
43 4 0.03
44 57 0.40
45 63 0.44
46 18 0.13
ACGTcount: A:0.34, C:0.06, G:0.14, T:0.45
Consensus pattern (45 bp):
CTTTGAAATTTTGGATGTGAATCTCTAAATTTTTCGAATGAAAAT
Found at i:15387094 original size:23 final size:22
Alignment explanation
Indices: 15387066--15387179 Score: 72
Period size: 23 Copynumber: 5.1 Consensus size: 22
15387056 TTTCAAATAA
15387066 AAATCTTTAACTTTTGGATGTG
1 AAATCTTTAACTTTTGGATGTG
** * *
15387088 AATATCTAAAATTTTTCGAATGTG
1 AA-ATCTTTAACTTTT-GGATGTG
*
15387112 -AATCTTTGAAATTTTGGATGTG
1 AAATCTTT-AACTTTTGGATGTG
* * *
15387134 -AATCTTTAAATTTTTTGAATG-A
1 AAATCTTT-AA-CTTTTGGATGTG
* *
15387156 AAATCTTTAACTATTGGGTGTG
1 AAATCTTTAACTTTTGGATGTG
15387178 AA
1 AA
15387180 TTTATAAAAT
Statistics
Matches: 69, Mismatches: 17, Indels: 12
0.70 0.17 0.12
Matches are distributed among these distances:
21 6 0.09
22 25 0.36
23 32 0.46
24 6 0.09
ACGTcount: A:0.32, C:0.07, G:0.17, T:0.44
Consensus pattern (22 bp):
AAATCTTTAACTTTTGGATGTG
Found at i:15387110 original size:90 final size:89
Alignment explanation
Indices: 15386982--15387198 Score: 285
Period size: 90 Copynumber: 2.4 Consensus size: 89
15386972 GAAAAAGAAC
* * **
15386982 CTTTAAATTTTGGATATG-A-ATCTAAAATTTTTTGAATGTGAATCTTTGAAATTTTTTATGTGA
1 CTTTAACTTTTGGATGTGAATATCTAAAA-TTTTTGAATGTGAATCTTTGAAATTTTGGATGTGA
*
15387045 ATCTCTAAGTTTTTCAAATAAAAAT
65 ATCTCTAAATTTTTCAAATAAAAAT
15387070 CTTTAACTTTTGGATGTGAATATCTAAAATTTTTCGAATGTGAATCTTTGAAATTTTGGATGTGA
1 CTTTAACTTTTGGATGTGAATATCTAAAATTTTT-GAATGTGAATCTTTGAAATTTTGGATGTGA
* ** *
15387135 ATCTTTAAATTTTTTGAATGAAAAT
65 ATCTCTAAATTTTTCAAATAAAAAT
* * * *
15387160 CTTTAACTATTGGGTGTGAATTTATAAAATTTTTGAATG
1 CTTTAACTTTTGGATGTGAATATCTAAAATTTTTGAATG
15387199 AAAGTATGTG
Statistics
Matches: 113, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
88 16 0.14
89 11 0.10
90 86 0.76
ACGTcount: A:0.33, C:0.06, G:0.14, T:0.46
Consensus pattern (89 bp):
CTTTAACTTTTGGATGTGAATATCTAAAATTTTTGAATGTGAATCTTTGAAATTTTGGATGTGAA
TCTCTAAATTTTTCAAATAAAAAT
Found at i:15387430 original size:70 final size:70
Alignment explanation
Indices: 15387339--15387483 Score: 154
Period size: 70 Copynumber: 2.1 Consensus size: 70
15387329 TTTATAATGA
* * * *
15387339 TGAAAATTCTTTTAAACCTAAATC-TCTTACGAATCTTTAAAATTCTTATGAATTTG-AATTTTT
1 TGAAAATTCTTTCAAACCTAAAACTTC-TACGAAAC-TTAAAATTCTTATGAATTTGAAACTTTT
*
15387402 GTGAATC
64 GCGAATC
* * **
15387409 TGAAAA-TCTTTGCAAATCTAAAACTTCTGCGAAACTTGGAATTCTTATGAATTTGAAACTTTTG
1 TGAAAATTCTTT-CAAACCTAAAACTTCTACGAAACTTAAAATTCTTATGAATTTGAAACTTTTG
15387473 CGAATC
65 CGAATC
15387479 T-AAAA
1 TGAAAA
15387484 CCTCTGTGAA
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
69 27 0.43
70 34 0.54
71 2 0.03
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (70 bp):
TGAAAATTCTTTCAAACCTAAAACTTCTACGAAACTTAAAATTCTTATGAATTTGAAACTTTTGC
GAATC
Found at i:15387484 original size:52 final size:52
Alignment explanation
Indices: 15387394--15387551 Score: 176
Period size: 51 Copynumber: 3.0 Consensus size: 52
15387384 TTATGAATTT
* * * *
15387394 GAATTTTTGTGAATCTGAAAATCTTTGCAAATCTAAAACTTCTGCGAAACTTG
1 GAATTCTTGTGAATTTG-AAATCTTTGCGAATCTAAAACCTCTGCGAAACTTG
* * * *
15387447 GAATTCTTATGAATTTGAAA-CTTTTGCGAATCTAAAACCTCTGTGAAAGTTA
1 GAATTCTTGTGAATTTGAAATC-TTTGCGAATCTAAAACCTCTGCGAAACTTG
* * * *
15387499 GAA-TCTTGTGAATTTGGAATCTTTACGAATTTGAAACCTCTGCGAAACTTG
1 GAATTCTTGTGAATTTGAAATCTTTGCGAATCTAAAACCTCTGCGAAACTTG
15387550 GA
1 GA
15387552 TTATTGCAAA
Statistics
Matches: 87, Mismatches: 16, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
51 41 0.47
52 32 0.37
53 14 0.16
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (52 bp):
GAATTCTTGTGAATTTGAAATCTTTGCGAATCTAAAACCTCTGCGAAACTTG
Found at i:15387637 original size:18 final size:18
Alignment explanation
Indices: 15387616--15387701 Score: 50
Period size: 18 Copynumber: 4.9 Consensus size: 18
15387606 TTTACGAACT
15387616 TTGAAATCTTTACAAAAC
1 TTGAAATCTTTACAAAAC
* * *
15387634 TTGAATTC-TTGCAAATC
1 TTGAAATCTTTACAAAAC
* * *** *
15387651 TAGAAACCTTTGTGAATC
1 TTGAAATCTTTACAAAAC
* *
15387669 TTG-AATCCTTACAAAAT
1 TTGAAATCTTTACAAAAC
*
15387686 TTGAAATCATTACAAA
1 TTGAAATCTTTACAAA
15387702 TTTTTTACGA
Statistics
Matches: 49, Mismatches: 17, Indels: 4
0.70 0.24 0.06
Matches are distributed among these distances:
17 22 0.45
18 27 0.55
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (18 bp):
TTGAAATCTTTACAAAAC
Found at i:15389304 original size:14 final size:13
Alignment explanation
Indices: 15389270--15389315 Score: 51
Period size: 14 Copynumber: 3.6 Consensus size: 13
15389260 GATTTGTAGG
*
15389270 TTTTTTTTTTCA-
1 TTTTTTTTTTTAT
*
15389282 -TTTTCTTTTTAT
1 TTTTTTTTTTTAT
15389294 TTTTATTTTTTTAT
1 TTTT-TTTTTTTAT
15389308 TTTTTTTT
1 TTTTTTTT
15389316 CTTTCTCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
11 9 0.32
13 7 0.25
14 12 0.43
ACGTcount: A:0.09, C:0.04, G:0.00, T:0.87
Consensus pattern (13 bp):
TTTTTTTTTTTAT
Found at i:15389314 original size:24 final size:25
Alignment explanation
Indices: 15389273--15389333 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
15389263 TTGTAGGTTT
*
15389273 TTTTTTTCATTTTCTTTTTATTTTTA
1 TTTTTTT-ATTTTCTTTTTATTTCTA
* *
15389299 TTTTTTTATTTT-TTTTTCTTTCTC
1 TTTTTTTATTTTCTTTTTATTTCTA
*
15389323 TTTCTTTATTT
1 TTTTTTTATTT
15389334 CCATTCTCTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 19 0.61
25 5 0.16
26 7 0.23
ACGTcount: A:0.08, C:0.10, G:0.00, T:0.82
Consensus pattern (25 bp):
TTTTTTTATTTTCTTTTTATTTCTA
Found at i:15389392 original size:12 final size:12
Alignment explanation
Indices: 15389371--15389402 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
15389361 ATTATTATTA
*
15389371 TTGTTGTTGTTG
1 TTGTTATTGTTG
15389383 TTGTTATTGTTG
1 TTGTTATTGTTG
15389395 TTGTTATT
1 TTGTTATT
15389403 ATTAATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.00, G:0.25, T:0.69
Consensus pattern (12 bp):
TTGTTATTGTTG
Found at i:15389568 original size:18 final size:19
Alignment explanation
Indices: 15389535--15389583 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 19
15389525 ATGTTATATT
15389535 ATTGCATGATTATATTATA
1 ATTGCATGATTATATTATA
*
15389554 ATTGTATGA-TATATTATA
1 ATTGCATGATTATATTATA
15389572 TTATTGCATGAT
1 --ATTGCATGAT
15389584 GTTGCATGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 9 0.36
19 8 0.32
20 8 0.32
ACGTcount: A:0.35, C:0.04, G:0.12, T:0.49
Consensus pattern (19 bp):
ATTGCATGATTATATTATA
Found at i:15390715 original size:22 final size:20
Alignment explanation
Indices: 15390681--15390724 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
15390671 GGTTTTAAGG
15390681 TTTTTTGGGAATT-TAGGGTA
1 TTTTTTGGGAATTCTA-GGTA
15390701 TTTTTTGGGTTAATTCTAGGTA
1 TTTTTTGGG--AATTCTAGGTA
15390723 TT
1 TT
15390725 GCTTCTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
22 10 0.48
23 2 0.10
ACGTcount: A:0.18, C:0.02, G:0.25, T:0.55
Consensus pattern (20 bp):
TTTTTTGGGAATTCTAGGTA
Found at i:15391723 original size:30 final size:29
Alignment explanation
Indices: 15391687--15391781 Score: 86
Period size: 30 Copynumber: 3.2 Consensus size: 29
15391677 TATTTGTAAC
*
15391687 TTATTTATATAAAAATTAAAATTTAAGAAT
1 TTATTTA-ATAAAAATTAAAAATTAAGAAT
* *
15391717 TTATTTAGATATAAAA-TAAAAAATAA-AAA
1 TTATTTA-ATA-AAAATTAAAAATTAAGAAT
** *
15391746 TTATTTGAATGTATATTAAAAATTAAGAAT
1 TTATTT-AATAAAAATTAAAAATTAAGAAT
15391776 TTATTT
1 TTATTT
15391782 TTTTTATACA
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
28 2 0.04
29 19 0.37
30 27 0.52
31 4 0.08
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (29 bp):
TTATTTAATAAAAATTAAAAATTAAGAAT
Found at i:15395971 original size:33 final size:33
Alignment explanation
Indices: 15395924--15395988 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
15395914 CCTTTAAAGC
*
15395924 CACTACTGAGATCTTTTCATCAACCTCTGAAGT
1 CACTACTGAGATCTTTTCATCAACCACTGAAGT
* *
15395957 CACTTCTGAGATCTTTTCATCAGCCACTGAAG
1 CACTACTGAGATCTTTTCATCAACCACTGAAG
15395989 CTACTATAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.32
Consensus pattern (33 bp):
CACTACTGAGATCTTTTCATCAACCACTGAAGT
Found at i:15400992 original size:15 final size:15
Alignment explanation
Indices: 15400972--15401001 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15400962 TTATCAAAAA
15400972 ATTTTAAAGTAATAT
1 ATTTTAAAGTAATAT
*
15400987 ATTTTAAATTAATAT
1 ATTTTAAAGTAATAT
15401002 TTTAAACAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (15 bp):
ATTTTAAAGTAATAT
Found at i:15403092 original size:17 final size:16
Alignment explanation
Indices: 15403070--15403114 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
15403060 TTTTATCTAA
15403070 AAAATTTTTAAAAATTT
1 AAAATTTTTAAAAA-TT
15403087 AAAA-TTTTAAAAATT
1 AAAATTTTTAAAAATT
15403102 ATAAATTTTTAAA
1 A-AAATTTTTAAA
15403115 TTTATATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 3 0.12
16 12 0.46
17 11 0.42
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AAAATTTTTAAAAATT
Found at i:15403096 original size:16 final size:17
Alignment explanation
Indices: 15403070--15403114 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
15403060 TTTTATCTAA
15403070 AAAATTTTTAAAAATT-T
1 AAAA-TTTTAAAAATTAT
15403087 AAAATTTTAAAAATTAT
1 AAAATTTTAAAAATTAT
*
15403104 AAATTTTTAAA
1 AAAATTTTAAA
15403115 TTTATATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAAATTTTAAAAATTAT
Found at i:15403130 original size:16 final size:15
Alignment explanation
Indices: 15403075--15403126 Score: 61
Period size: 16 Copynumber: 3.4 Consensus size: 15
15403065 TCTAAAAAAT
15403075 TTTTAAAAATTTAAAA
1 TTTTAAAAATTT-AAA
15403091 TTTTAAAAATTATAAA
1 TTTTAAAAATT-TAAA
* *
15403107 TTTT-TAAATTTATA
1 TTTTAAAAATTTAAA
15403121 TTTTAA
1 TTTTAA
15403127 TAAAATTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 7 0.23
15 5 0.16
16 18 0.58
17 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTTTAAAAATTTAAA
Found at i:15403422 original size:622 final size:628
Alignment explanation
Indices: 15402538--15403696 Score: 1868
Period size: 622 Copynumber: 1.9 Consensus size: 628
15402528 TTACGTGGCA
* *
15402538 GCATGCTTATTATTTTATATAAAAATAAAATAAACTTATATTTAAAAATATTAATGTTACTTATT
1 GCATGCTTACTATTTTATATAAAAACAAAATAAACTTATATTTAAAAATATTAATGTTACTTATT
* * * *
15402603 CATCATTAAAAATTGAATCTACATTAAATTTTTTAATTTTTAGTTTTTAATCTTAAAAATAATAT
66 CATCATAAAAAATTGAATCTACATTAAATTTTGTAATTTTTAATTTTTAATCTTAAAAATAATAG
* ***
15402668 ATCGTAAAACGCTAAATTCATTAAGTAACTTAATCTTTTTGATATACTAATTGATGTAAAAAGCT
131 ATCATAAAACGCTAAATTCATTAAGTAACTTAATCTTTTTGATATACTAATTGATGTAAAAAAAA
15402733 TTTTATCACAAATTACTTTCAATATACTATATAATAAATAAAATATTCAATAATTACACAAAAAT
196 TTTTATCACAAATTACTTTCAATATACTATATAATAAATAAAATATTCAATAATTACACAAAAAT
* ** * *
15402798 AAAAATAAATTAATAAGAATTAATTCAATATCAAAAGAATTGACAGTAATATTAATACCAAAATA
261 AAAAATAAATTAATAAGAATTAATTCAATAGCAAAAGAATTGACAACAATATAAATACCAAAACA
* * *
15402863 ACAAAAAAATTATTAAATTTTAAATATAAAAGTATAAATTAATAAATAACAAAATCAAAATATAA
326 ACAAAAAAATTATTAAAGTTCAAATATAAAAGTATAAATTAATAAACAACAAAATCAAAATATAA
*
15402928 CATTTAATTTTAATTA-TT-TT-T-A-TTATA-AAAAAATTTTATTAAAATTTTTAATCTAAAAT
391 CATTTAATTTTAATTATTTCTTCTAACTTATACAAAAAAATTTATTAAAATTTTTAATCTAAAAT
*
15402987 CCCTATACATATCATATTAAATTATTAATCTCTTAA-TTTTTTCAATTAT-AAATTTCCAATCCC
456 CCCTATACATATCATATTAAATTATTAATCTCTTAATTTTTTTCAATTATAAAATCT-CAATCCC
15403050 TCTAACTAAATTTTATCTAAAAAATTTTTAAAAATTTAAAATTTTAAAAATTATAAATTTTTAAA
520 TCTAACTAAATTTTATCTAAAAAATTTTTAAAAATTTAAAATTTTAAAAATTATAAATTTTTAAA
15403115 TTTATATTTTAATAAAATTAATTACAAAATTAAATAACATGGTG
585 TTTATATTTTAATAAAATTAATTACAAAATTAAATAACATGGTG
* * *
15403159 GCATGCTTGCTATTTTGTATAAAAACAAAATAAACTTATATTTAGAAATATTAATGTTACTTATT
1 GCATGCTTACTATTTTATATAAAAACAAAATAAACTTATATTTAAAAATATTAATGTTACTTATT
* *
15403224 CCATCATAAAAAAATTGAATCTACATTAAATTTTGTAATTTTTAATTTTTAATCTTAAGAGTAAT
66 -CATCAT-AAAAAATTGAATCTACATTAAATTTTGTAATTTTTAATTTTTAATCTTAAAAATAAT
* * * *
15403289 AGATTATAAAATGCTAAATTTATTAAGTAACTTAATCTTTTTTATATACTAA-TGATGTAAAAAA
129 AGATCATAAAACGCTAAATTCATTAAGTAACTTAATCTTTTTGATATACTAATTGATGTAAAAAA
*
15403353 AATTTTATCACAAATTACTTTCAATATATTATATAATAAATAAAATATTCAATAATTACACAAAA
194 AATTTTATCACAAATTACTTTCAATATACTATATAATAAATAAAATATTCAATAATTACACAAAA
*
15403418 ATAAAAATAAATTAATAAGAATTAATTTAATAGCAAAAGAATTGACAACAATATAAATACCAAAA
259 ATAAAAATAAATTAATAAGAATTAATTCAATAGCAAAAGAATTGACAACAATATAAATACCAAAA
* * *
15403483 CAACAAAAATATTATTAAAGTTCAAATATAAAATTATAAATTAATAAACAATAAAATCAAAATAT
324 CAACAAAAAAATTATTAAAGTTCAAATATAAAAGTATAAATTAATAAACAACAAAATCAAAATAT
* *
15403548 AATATTTAATTTTAATTATTTTTCTTCTAACTTATACAAAAAAATTTATTAAAATTTTTCATCTA
389 AACATTTAATTTTAATTA--TTTCTTCTAACTTATACAAAAAAATTTATTAAAATTTTTAATCTA
*
15403613 AAATCCCTATATATATCATATTAAATTATTAATCTCTTAATTTTTTTCAATTATAAAATCTCAAT
452 AAATCCCTATACATATCATATTAAATTATTAATCTCTTAATTTTTTTCAATTATAAAATCTCAAT
*
15403678 TCCTCTAACTAAATTTTAT
517 CCCTCTAACTAAATTTTAT
15403697 TTTTAAAATT
Statistics
Matches: 488, Mismatches: 38, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
621 60 0.12
622 214 0.44
623 98 0.20
625 2 0.00
626 2 0.00
627 1 0.00
628 1 0.00
629 5 0.01
630 65 0.13
631 35 0.07
632 5 0.01
ACGTcount: A:0.48, C:0.09, G:0.03, T:0.40
Consensus pattern (628 bp):
GCATGCTTACTATTTTATATAAAAACAAAATAAACTTATATTTAAAAATATTAATGTTACTTATT
CATCATAAAAAATTGAATCTACATTAAATTTTGTAATTTTTAATTTTTAATCTTAAAAATAATAG
ATCATAAAACGCTAAATTCATTAAGTAACTTAATCTTTTTGATATACTAATTGATGTAAAAAAAA
TTTTATCACAAATTACTTTCAATATACTATATAATAAATAAAATATTCAATAATTACACAAAAAT
AAAAATAAATTAATAAGAATTAATTCAATAGCAAAAGAATTGACAACAATATAAATACCAAAACA
ACAAAAAAATTATTAAAGTTCAAATATAAAAGTATAAATTAATAAACAACAAAATCAAAATATAA
CATTTAATTTTAATTATTTCTTCTAACTTATACAAAAAAATTTATTAAAATTTTTAATCTAAAAT
CCCTATACATATCATATTAAATTATTAATCTCTTAATTTTTTTCAATTATAAAATCTCAATCCCT
CTAACTAAATTTTATCTAAAAAATTTTTAAAAATTTAAAATTTTAAAAATTATAAATTTTTAAAT
TTATATTTTAATAAAATTAATTACAAAATTAAATAACATGGTG
Found at i:15403426 original size:27 final size:28
Alignment explanation
Indices: 15403372--15403423 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
15403362 ACAAATTACT
* *
15403372 TTCAATATATTATATAATAAATAAAATA
1 TTCAATATATTACACAATAAATAAAATA
15403400 TTCAATA-ATTACACAA-AAATAAAA
1 TTCAATATATTACACAATAAATAAAA
15403424 ATAAATTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 8 0.36
27 7 0.32
28 7 0.32
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.33
Consensus pattern (28 bp):
TTCAATATATTACACAATAAATAAAATA
Found at i:15403801 original size:26 final size:27
Alignment explanation
Indices: 15403759--15403815 Score: 82
Period size: 26 Copynumber: 2.1 Consensus size: 27
15403749 TAAATAAAAA
15403759 CTACCCACCTACCCACCCCA-CCCACC
1 CTACCCACCTACCCACCCCACCCCACC
*
15403785 CTACCC-CCTAACGCACCCCACCCCACC
1 CTACCCACCT-ACCCACCCCACCCCACC
15403812 CTAC
1 CTAC
15403816 TTTGAGACGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 3 0.11
26 15 0.54
27 10 0.36
ACGTcount: A:0.23, C:0.67, G:0.02, T:0.09
Consensus pattern (27 bp):
CTACCCACCTACCCACCCCACCCCACC
Found at i:15405317 original size:23 final size:23
Alignment explanation
Indices: 15405291--15405336 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
15405281 AAATTTTTAT
*
15405291 TAAAATAATATATAAAAATTAAA
1 TAAAATAAAATATAAAAATTAAA
* * *
15405314 TAAATTAAAATCTATAAATTAAA
1 TAAAATAAAATATAAAAATTAAA
15405337 CTGATAAAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (23 bp):
TAAAATAAAATATAAAAATTAAA
Found at i:15408679 original size:29 final size:29
Alignment explanation
Indices: 15408606--15408671 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
15408596 TTCAAATACT
* * *
15408606 ATATTAT-TT-AACATATTTATAATTTAA
1 ATATTATATTAAACATTTTTAAAATATAA
*
15408633 ATATTATATTAAAAATTTTTAAAATATAA
1 ATATTATATTAAACATTTTTAAAATATAA
15408662 ATATTATATT
1 ATATTATATT
15408672 GTACATTTAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 7 0.21
28 2 0.06
29 24 0.73
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (29 bp):
ATATTATATTAAACATTTTTAAAATATAA
Found at i:15409283 original size:13 final size:13
Alignment explanation
Indices: 15409265--15409289 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15409255 ATCTTTAATC
15409265 ATAATATTTTATA
1 ATAATATTTTATA
15409278 ATAATATTTTAT
1 ATAATATTTTAT
15409290 TTTATTTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATAATATTTTATA
Found at i:15409301 original size:17 final size:18
Alignment explanation
Indices: 15409268--15409308 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
15409258 TTTAATCATA
15409268 ATATTTTATAATAATATT
1 ATATTTTATAATAATATT
* *
15409286 TTATTTTAT-TTAATATT
1 ATATTTTATAATAATATT
15409303 ATATTT
1 ATATTT
15409309 ATGATTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
ATATTTTATAATAATATT
Found at i:15432494 original size:238 final size:237
Alignment explanation
Indices: 15432060--15432934 Score: 996
Period size: 237 Copynumber: 3.7 Consensus size: 237
15432050 TTCTAATAGC
* * * *
15432060 AAATTATTGAAGGCATTTTTTGAAAAAAAAAT-CCTTGAATAAATTTCTTTTAAAAATTGTTTGG
1 AAATTATTGAAGGCATTTCTT--AAGAAAAATGCCTTGAATAAATTTTTTTTAAAAATTGTTTGA
* * * * * *
15432124 GATTAATAAATGCGTATTCTAGTAGAAAACGC-TTCAATATTCTACTACTAAATTGCAAGATGGT
64 GATTATTAAAGGCGTCTTCTAGTAGAAAACACTTTCAATATTCCACTACTAAATTGCAAGACGGT
* * *
15432188 TATTGAAGGCATTTATT-TCAAAAAAACGCCTTCACTAATTCCTTTTAATTTTTGAAAGAATTTA
129 TATTGAAGGCATTTATTCT-AGAAAAACGCCTTCACTAATTCATTTTAATTTTTGAAAAAATTTA
* *
15432252 TTGAAGGCTTTTTTTGTATTATACGCCTTCAATAATTTTTATACA
193 TTGAAGGCTTTTTTTGCATTATACGCCTTCAATAATTTTTGTACA
* *
15432297 AAATTATTGAAGGCGTTTCTTAAGAAAAATCGCCTTGAATAAATTTTTTTTAAAAATTTTTTGAG
1 AAATTATTGAAGGCATTTCTTAAGAAAAAT-GCCTTGAATAAATTTTTTTTAAAAATTGTTTGAG
* * *
15432362 ATTATTAAAGGCGTCTTCTAGTAGAAAACACTTTCAATATTCCATTACTAAATTACAAAACGGTT
65 ATTATTAAAGGCGTCTTCTAGTAGAAAACACTTTCAATATTCCACTACTAAATTGCAAGACGGTT
* * * ** ** *
15432427 ACTGAAAGCGTTTATTCTAGAAAAATACCTTCACTAATTTGTTTTAATTTTTTAAAAAATTTATT
130 ATTGAAGGCATTTATTCTAGAAAAACGCCTTCACTAATTCATTTTAATTTTTGAAAAAATTTATT
* * * * * *
15432492 GAATGCATGTTTTCCATTATACACCTTTAATAATTTTTGTACA
195 GAAGGCTTTTTTTGCATTATACGCCTTCAATAATTTTTGTACA
* * **
15432535 AAATTATTGAAGGCATTTCTTGAGAAAAAATACCTTGAATAAATTCATTTT-AAAATTGTTTGAG
1 AAATTATTGAAGGCATTTCTTAAG-AAAAATGCCTTGAATAAATTTTTTTTAAAAATTGTTTGAG
* * * * **
15432599 ATTATTAGAGGCATCTTCTAGTA-AAAATTACCTTT-AATATTTCACTACTAAATTGCAAGACAA
65 ATTATTAAAGGCGTCTTCTAGTAGAAAA-CA-CTTTCAATATTCCACTACTAAATTGCAAGACGG
* ** * * * *
15432662 TTAGTGAAGGTGTTTATTGTAGAAAAACGCCTTCACTAATTCATTCTAATATTTGAAGAAATTTA
128 TTATTGAAGGCATTTATTCTAGAAAAACGCCTTCACTAATTCATTTTAATTTTTGAAAAAATTTA
15432727 TTGAAGG-TGTTTTTTGCATTATACGCCTTCAATAATTTTTGTACA
193 TTGAAGGCT-TTTTTTGCATTATACGCCTTCAATAATTTTTGTACA
* * * *
15432772 GAATTATTGAAGGCATTTCTTGAGAGAAAATGCCTTCAAT-AATTTTCTTTTAAAAATTTTTTTG
1 AAATTATTGAAGGCATTTCTTAAGA-AAAATGCCTTGAATAAATTTT-TTTTAAAAA-TTGTTTG
* * * * ** *
15432836 -GTTTATTAAAGGCGTCTTCTAGTAG-AAACGCCTTCAATATTCTACTACTAAAATTTTAAGATG
63 AGATTATTAAAGGCGTCTTCTAGTAGAAAACACTTTCAATATTCCACTACT-AAATTGCAAGACG
* *
15432899 GTTATTGAAGGCATTTATTCTATAAAAATGCCTTCA
127 GTTATTGAAGGCATTTATTCTAGAAAAACGCCTTCA
15432935 ATATTCCACT
Statistics
Matches: 532, Mismatches: 91, Indels: 29
0.82 0.14 0.04
Matches are distributed among these distances:
235 8 0.02
236 12 0.02
237 274 0.52
238 225 0.42
239 13 0.02
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (237 bp):
AAATTATTGAAGGCATTTCTTAAGAAAAATGCCTTGAATAAATTTTTTTTAAAAATTGTTTGAGA
TTATTAAAGGCGTCTTCTAGTAGAAAACACTTTCAATATTCCACTACTAAATTGCAAGACGGTTA
TTGAAGGCATTTATTCTAGAAAAACGCCTTCACTAATTCATTTTAATTTTTGAAAAAATTTATTG
AAGGCTTTTTTTGCATTATACGCCTTCAATAATTTTTGTACA
Found at i:15432904 original size:62 final size:62
Alignment explanation
Indices: 15432838--15432997 Score: 182
Period size: 63 Copynumber: 2.5 Consensus size: 62
15432828 TTTTTTTGGT
* * *
15432838 TTATTAAAGGC-GTCTTCTAGTAGAAACGCCTTCAATATTCTACTACTAAAATTTTAAGATGG
1 TTATTAAAGGCAGTATTCTA-TAAAAACGCCTTCAATATTCCACTACTAAAATTTTAAGATGG
* * * *
15432900 TTATTGAAGGCATTTATTCTATAAAAATGCCTTCAATATTCCACTATTAAAATTTTAAGATGG
1 TTATTAAAGGCA-GTATTCTATAAAAACGCCTTCAATATTCCACTACTAAAATTTTAAGATGG
*
15432963 TTATTGAAA-GC-GTTTATTCCATAAAAACGCCTTCA
1 TTATT-AAAGGCAG--TATTCTATAAAAACGCCTTCA
15432998 CAAATTCATA
Statistics
Matches: 82, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
62 10 0.12
63 64 0.78
64 8 0.10
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (62 bp):
TTATTAAAGGCAGTATTCTATAAAAACGCCTTCAATATTCCACTACTAAAATTTTAAGATGG
Found at i:15433162 original size:301 final size:302
Alignment explanation
Indices: 15432684--15433236 Score: 745
Period size: 301 Copynumber: 1.8 Consensus size: 302
15432674 TTTATTGTAG
* * * ** * *
15432684 AAAAACGCCTTCACTAATTCATTCTAATATTTGAAGAAATTTATTGAAGGTGTTTTTTGCATTAT
1 AAAAACGCCTTCACAAATTCATTCTAATATTTGAAGAAATTTATTAAAAGCATTTCTTGCATGAT
* * *
15432749 ACGCCTTCAATAATTTTTGTACAGAATTATTGAAGGCATTTCTTGAGAGAAAATGCCTTCAATAA
66 ACGCCTTCAATAATTTTTGTAAAGAATTATTGAAGGCATTTCTTGAGAAAAAATACCTTCAATAA
* * * * * * * *
15432814 TTTTCTTTTAAAAATTTTTTTGGTTTATTAAAGGCGTCTTCTAGTAG-AAACGCCTTCAATATTC
131 TTTTCTTTAAAAAATTGTTTGGGATTAATAAAGGCATCTTCTAGTAGAAAACACATTCAATATTC
* ** * * * * *
15432878 TACTACTAAAATTTTAAGATGGTTATTGAAGGCATTTATTCTATAAAAATGCCTTCAATATTCCA
196 CACTACTAAAATTGCAAGATGATTAGTGAAGGCATTTATTCCAAAAAAATACCTTCAATATTCCA
15432943 CTATTAAAATTTTAAGATGGTTATTGAAAGCGTTTATTCCAT
261 CTATTAAAATTTTAAGATGGTTATTGAAAGCGTTTATTCCAT
* * *
15432985 AAAAACGCCTTCACAAATTCATAT-TGATTTTTGAAGGAATTTATTAAAAGCATTTCTTGC-TGA
1 AAAAACGCCTTCACAAATTCAT-TCTAATATTTGAAGAAATTTATTAAAAGCATTTCTTGCATGA
* * * *
15433048 TTAGGCCTTCAATAATTTTTGTAAATAGTTATTGAAGGCATTTTTTGAGAAAAAATACCTTCAAT
65 -TACGCCTTCAATAATTTTTGTAAAGAATTATTGAAGGCATTTCTTGAGAAAAAATACCTTCAAT
15433113 AATTTT-TTTAAAAAAATTGTTTGGGATTAATAAAGGCATCTTCTAGTAGAAAACACATTCAATA
129 AATTTTCTTT-AAAAAATTGTTTGGGATTAATAAAGGCATCTTCTAGTAGAAAACACATTCAATA
*
15433177 TTCCACTATTAAAATTGCAAGATGATTAGTGAAGGCATTTATTCCAAAAAAATACCTTCA
193 TTCCACTACTAAAATTGCAAGATGATTAGTGAAGGCATTTATTCCAAAAAAATACCTTCA
15433237 CTAATTCATT
Statistics
Matches: 214, Mismatches: 34, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
300 5 0.02
301 145 0.68
302 64 0.30
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.39
Consensus pattern (302 bp):
AAAAACGCCTTCACAAATTCATTCTAATATTTGAAGAAATTTATTAAAAGCATTTCTTGCATGAT
ACGCCTTCAATAATTTTTGTAAAGAATTATTGAAGGCATTTCTTGAGAAAAAATACCTTCAATAA
TTTTCTTTAAAAAATTGTTTGGGATTAATAAAGGCATCTTCTAGTAGAAAACACATTCAATATTC
CACTACTAAAATTGCAAGATGATTAGTGAAGGCATTTATTCCAAAAAAATACCTTCAATATTCCA
CTATTAAAATTTTAAGATGGTTATTGAAAGCGTTTATTCCAT
Found at i:15433177 original size:239 final size:239
Alignment explanation
Indices: 15432931--15433387 Score: 605
Period size: 239 Copynumber: 1.9 Consensus size: 239
15432921 TAAAAATGCC
** * * * * *
15432931 TTCAATATTCCACTATTAAAATTTTAAGATGGTTATTGAAAGCGTTTATTCCATAAAAACGCCTT
1 TTCAATATTCCACTATTAAAATTGCAAGATGATTAGTGAAAGCATTTATTCCAAAAAAACACCTT
* * * ** * *
15432996 CACAAATTCATATTGATTTTTGAAGGAATTTATTAAA-AGCATTTCTTGCTGATTAGGCCTTCAA
66 CACAAATTCATATTAAATTTTAAAAAAATTTATTAAAGA-CATTTCTTGCTGAATACGCCTTCAA
* *
15433060 TAATTTTTGTA-AATAGTTATTGAAGGCATTTTTTGAGAA-AAAATACCTTCAATAATTTTTTTA
130 TAATTTTTGTACAA-AATTATTGAAGACATTTTTTGAGAACAAAA-ACCTTCAATAATTTTTTTA
*
15433123 AAAAAATTGTTTGGGATTAATAAAGGCATCTTCTAGTAGAAAACACA
193 AAAAAATTGTTTGAGATTAATAAAGGCATCTTCTAGTAGAAAACACA
* *
15433170 TTCAATATTCCACTATTAAAATTGCAAGATGATTAGTGAAGGCATTTATTCCAAAAAAATACCTT
1 TTCAATATTCCACTATTAAAATTGCAAGATGATTAGTGAAAGCATTTATTCCAAAAAAACACCTT
* * * * *
15433235 CACTAATTCATTTTAAATTTTAAAAAAATTTATTGAAGACATTTTTTGTTGAATACGCCTTCAAT
66 CACAAATTCATATTAAATTTTAAAAAAATTTATTAAAGACATTTCTTGCTGAATACGCCTTCAAT
* * * *
15433300 TATTTTTGTACAAAATTATTGAAGACATTTTTTTAGAACAAAAACCTTTAATATTTTTTTTAAAA
131 AATTTTTGTACAAAATTATTGAAGACATTTTTTGAGAACAAAAACCTTCAATAATTTTTTTAAAA
*
15433365 AAATTGTTTGAGATTATTAAAGG
196 AAATTGTTTGAGATTAATAAAGG
15433388 TGTCTTTTAA
Statistics
Matches: 186, Mismatches: 29, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
239 179 0.96
240 7 0.04
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (239 bp):
TTCAATATTCCACTATTAAAATTGCAAGATGATTAGTGAAAGCATTTATTCCAAAAAAACACCTT
CACAAATTCATATTAAATTTTAAAAAAATTTATTAAAGACATTTCTTGCTGAATACGCCTTCAAT
AATTTTTGTACAAAATTATTGAAGACATTTTTTGAGAACAAAAACCTTCAATAATTTTTTTAAAA
AAATTGTTTGAGATTAATAAAGGCATCTTCTAGTAGAAAACACA
Found at i:15434324 original size:28 final size:28
Alignment explanation
Indices: 15434198--15434317 Score: 195
Period size: 28 Copynumber: 4.2 Consensus size: 28
15434188 TTTTCTTTAA
15434198 ATATTGTGGTTTGCTGAATGGTATTGTGTG
1 ATATTGT--TTTGCTGAATGGTATTGTGTG
** *
15434228 ATATTGTTTTATTGAATGTTATTGTGTG
1 ATATTGTTTTGCTGAATGGTATTGTGTG
15434256 ATATTGTTTTGCTGAATGGTATTGTGTG
1 ATATTGTTTTGCTGAATGGTATTGTGTG
15434284 ATATTGTTTTGCTGAATGGTATTGTGTG
1 ATATTGTTTTGCTGAATGGTATTGTGTG
15434312 ATATTG
1 ATATTG
15434318 GTATGCTAAA
Statistics
Matches: 84, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
28 77 0.92
30 7 0.08
ACGTcount: A:0.19, C:0.03, G:0.28, T:0.51
Consensus pattern (28 bp):
ATATTGTTTTGCTGAATGGTATTGTGTG
Found at i:15434348 original size:24 final size:24
Alignment explanation
Indices: 15434263--15434402 Score: 111
Period size: 25 Copynumber: 5.4 Consensus size: 24
15434253 GTGATATTGT
* *
15434263 TTTGCTGAATGGTATTGTGTGATATTGT
1 TTTGCTGAATAGTATT-T-TGA-A-TGG
*
15434291 TTTGCTGAATGGTATTGTGTGATATTGG
1 TTTGCTGAATAGTATT-T-TGA-A-TGG
* * *
15434319 TATGCTAAATCA-TATGTTGAATGG
1 TTTGCTGAAT-AGTATTTTGAATGG
15434343 TTTGCTGAATAGTATTTTCGAATGG
1 TTTGCTGAATAGTATTTT-GAATGG
15434368 TTTGCTGAATAGTATTTCTGAATGG
1 TTTGCTGAATAGTATTT-TGAATGG
*
15434393 TTTACTGAAT
1 TTTGCTGAAT
15434403 GATTTTTTTG
Statistics
Matches: 99, Mismatches: 9, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
23 1 0.01
24 16 0.16
25 39 0.39
26 4 0.04
27 1 0.01
28 38 0.38
ACGTcount: A:0.24, C:0.06, G:0.25, T:0.45
Consensus pattern (24 bp):
TTTGCTGAATAGTATTTTGAATGG
Found at i:15434351 original size:12 final size:12
Alignment explanation
Indices: 15434336--15434403 Score: 57
Period size: 12 Copynumber: 5.5 Consensus size: 12
15434326 AATCATATGT
15434336 TGAATGGTTTGC
1 TGAATGGTTTGC
* *
15434348 TGAATAGTATT-T
1 TGAATGGT-TTGC
15434360 TCGAATGGTTTGC
1 T-GAATGGTTTGC
* *
15434373 TGAATAGTATTTC
1 TGAATGGT-TTGC
*
15434386 TGAATGGTTTAC
1 TGAATGGTTTGC
15434398 TGAATG
1 TGAATG
15434404 ATTTTTTTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
12 25 0.57
13 19 0.43
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.43
Consensus pattern (12 bp):
TGAATGGTTTGC
Found at i:15437947 original size:177 final size:175
Alignment explanation
Indices: 15437643--15438173 Score: 581
Period size: 177 Copynumber: 3.0 Consensus size: 175
15437633 ACTGAAAGCG
* *
15437643 TTTTTAGCAAGAAAATGCCTTAAATAATCCCTAAGAAAATGTTATTAAAGGCATTTTAAACCAAA
1 TTTTTAGCAAGAAAATGCCTTAAATAATCCCTAACAAAATGTTATTAAAGGCATTTTAGACCAAA
* * * * * *
15437708 ACCACCTTCAATAATC-CTAAGT-AAAATTTATTAATTTG-ATTATT-AAAGGTACTTTCGGCCA
66 ATCACCTTCAATAATCTC-AACTAAAAATTTA-T-GTGTGAAATATTAAAAGGT--TTTGGGCCA
*
15437769 AAAACGCTTTCAAGAATCTATTTCATATTTTCTTATGGATTATTAAGGGCA
126 AAAA-GCCTTCAAGAATCTATTTCATATTTTCTTATGGATTATTAAGGGCA
* * * * * *
15437820 TTTTCAGCAAGAAAATGCCTTAAATAATCCATATCAAAACGTTATT-GAGGCATTTTTGACCAAA
1 TTTTTAGCAAGAAAATGCCTTAAATAATCCCTAACAAAATGTTATTAAAGGCATTTTAGACCAAA
*
15437884 ATCACCTTCAATAATCTCACCTAAAAATTTATCGTGTGAAATATTAAAAGCGTTTTGGGCCAAAA
66 ATCACCTTCAATAATCTCAACTAAAAATTTAT-GTGTGAAATATTAAAAG-GTTTTGGGCCAAAA
* * *
15437949 GAGCCTTCAAGAATCTGTTTCATATATTTTCCTATGGATTATTAAGGGTA
129 -AGCCTTCAAGAATCTATTTC--ATATTTTCTTATGGATTATTAAGGGCA
** * * * *
15437999 TTTTTAGCAAGAAAACACTTTAAATAATCCCTAACAAAATGTTATTAAAGGCGTTTTCGATCAAA
1 TTTTTAGCAAGAAAATGCCTTAAATAATCCCTAACAAAATGTTATTAAAGGCATTTTAGACCAAA
* * * *
15438064 ATCGCCTTCAATAATCTCATCTAAAAATTTAATGTGTGAAATAATAAAGGTGTTTTGGGCCAAAA
66 ATCACCTTCAATAATCTCAACTAAAAATTT-ATGTGTGAAATATTAAAAG-GTTTTGGGCCAAAA
* * *
15438129 ATGCCTTCAAGAATC-CTTTAACATTTT-TGTATGGATTATTGAAGG
129 A-GCCTTCAAGAATCTATTTCATATTTTCT-TATGGATTATT-AAGG
15438174 TGTTTTTGAT
Statistics
Matches: 301, Mismatches: 40, Indels: 25
0.82 0.11 0.07
Matches are distributed among these distances:
176 36 0.12
177 100 0.33
178 9 0.03
179 70 0.23
180 84 0.28
181 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.34
Consensus pattern (175 bp):
TTTTTAGCAAGAAAATGCCTTAAATAATCCCTAACAAAATGTTATTAAAGGCATTTTAGACCAAA
ATCACCTTCAATAATCTCAACTAAAAATTTATGTGTGAAATATTAAAAGGTTTTGGGCCAAAAAG
CCTTCAAGAATCTATTTCATATTTTCTTATGGATTATTAAGGGCA
Found at i:15438121 original size:180 final size:178
Alignment explanation
Indices: 15437643--15438143 Score: 602
Period size: 180 Copynumber: 2.8 Consensus size: 178
15437633 ACTGAAAGCG
* *
15437643 TTTTTAGCAAGAAAATGCCTTAAATAATCCCTAAGAAAATGTTATTAAAGGCATTTTAAACCAAA
1 TTTTTAGCAAGAAAATGCCTTAAATAATCCCTAACAAAATGTTATTAAAGGCATTTTAGACCAAA
* * * * ** *
15437708 ACCACCTTCAATAATC-CTAAGTAAAATTTATTAAT-T-TG-ATTATTAAAGGTACTTTCGGCCA
66 ATCACCTTCAATAATCTC-AACTAAAA-AT-TTAATGTGTGAAATATTAAAGGTGTTTTGGGCCA
* *
15437769 AAAACGCTTTCAAGAATCTATTTCATATTTTCTTATGGATTATTAAGGGCA
128 AAAACGCCTTCAAGAATCTATTTCATATTTTCCTATGGATTATTAAGGGCA
* * * * * *
15437820 TTTTCAGCAAGAAAATGCCTTAAATAATCCATATCAAAACGTTATT-GAGGCATTTTTGACCAAA
1 TTTTTAGCAAGAAAATGCCTTAAATAATCCCTAACAAAATGTTATTAAAGGCATTTTAGACCAAA
* * *
15437884 ATCACCTTCAATAATCTCACCTAAAAATTT-ATCGTGTGAAATATTAAAAGCGTTTTGGGCCAAA
66 ATCACCTTCAATAATCTCAACTAAAAATTTAAT-GTGTGAAATATTAAAGGTGTTTTGGGCCAAA
* *
15437948 AGA-GCCTTCAAGAATCTGTTTCATATATTTTCCTATGGATTATTAAGGGTA
130 A-ACGCCTTCAAGAATCTATTTC--ATATTTTCCTATGGATTATTAAGGGCA
** * * * *
15437999 TTTTTAGCAAGAAAACACTTTAAATAATCCCTAACAAAATGTTATTAAAGGCGTTTTCGATCAAA
1 TTTTTAGCAAGAAAATGCCTTAAATAATCCCTAACAAAATGTTATTAAAGGCATTTTAGACCAAA
* * *
15438064 ATCGCCTTCAATAATCTCATCTAAAAATTTAATGTGTGAAATAATAAAGGTGTTTTGGGCCAAAA
66 ATCACCTTCAATAATCTCAACTAAAAATTTAATGTGTGAAATATTAAAGGTGTTTTGGGCCAAAA
*
15438129 ATGCCTTCAAGAATC
131 ACGCCTTCAAGAATC
15438144 CTTTAACATT
Statistics
Matches: 275, Mismatches: 38, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
173 2 0.01
174 2 0.01
175 2 0.01
176 38 0.14
177 79 0.29
178 1 0.00
179 65 0.24
180 84 0.31
181 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.34
Consensus pattern (178 bp):
TTTTTAGCAAGAAAATGCCTTAAATAATCCCTAACAAAATGTTATTAAAGGCATTTTAGACCAAA
ATCACCTTCAATAATCTCAACTAAAAATTTAATGTGTGAAATATTAAAGGTGTTTTGGGCCAAAA
ACGCCTTCAAGAATCTATTTCATATTTTCCTATGGATTATTAAGGGCA
Found at i:15438408 original size:302 final size:305
Alignment explanation
Indices: 15437954--15438603 Score: 898
Period size: 302 Copynumber: 2.1 Consensus size: 305
15437944 CAAAAGAGCC
* * *
15437954 TTCAAGAATCTGTTTCATATATTTTCCTATGGATTATTAAGGGTATTTTTAGCAAGAAAACACTT
1 TTCAAGAATCTGTTTCATAT-TTTTCCTATGGATTATTAAGGGCATTTTTAACAAGAAAACACCT
* *
15438019 TAAATAATCCCTAACAAAATGTTATTAAAGGCGTTTTCGATCAAAATCGCCTTCAATAATCTCAT
65 TAAATAATCCCTAACAAAATGTTATTAAAGGCGTTTTCGACCAAAATCGCCTTCAATAATCTCAC
* * * * * * *
15438084 CTAAAAATTTAATGTGTGAAATAATAAAGGT-GTTTTGGGCCAAAAATGCCTTCAAGAA-TCCTT
130 CTAAAAATTTAATATGTGAAATAATAAA-ATCATTTAGGGCC-AAAACGCCTTCAAAAATTCATT
* * * *
15438147 -TAACATTTTTGTATGGATTATTGAAGGTGTTTTTGA-TAAAATCGGC-TTCAATAACCCAAACT
193 GAAACATTTTTGTATGGATTATTGAAGGTGTTTTTGACAAAAATC-ACTTTAAATAACCCAAACT
15438209 AAAAA-TTTATTGATTAGATTATTAAAGGCGATTTCGACCAAAAACGCA
257 AAAAATTTTATTGATTAGATTATTAAAGGCGATTTCGACCAAAAACGCA
* *
15438257 TTCAAGAATCTGTTCCATATTTTTCCTATGGATTATTAAGGGCATTTTTAACAAGAAAATACCTT
1 TTCAAGAATCTGTTTCATATTTTTCCTATGGATTATTAAGGGCATTTTTAACAAGAAAACACCTT
* * * *
15438322 AAATAATCCCTAATAAAATGTTATTGAAGGCGTTTTCGACCAAAATCGCCTTTAATAATTTCACC
66 AAATAATCCCTAACAAAATGTTATTAAAGGCGTTTTCGACCAAAATCGCCTTCAATAATCTCACC
* *
15438387 TAAAAATTTATTATGTGAAATATTAAAATCATTTAGGGCCAAAACGCCTTCAAAAATTCATTGAA
131 TAAAAATTTAATATGTGAAATAATAAAATCATTTAGGGCCAAAACGCCTTCAAAAATTCATTGAA
* * **
15438452 ACTTTTTTGTATGGATTATTGAAGGTGTTTTTGACAAAAATCACTTTAAATAAGCTTAACTAAAA
196 ACATTTTTGTATGGATTATTGAAGGTGTTTTTGACAAAAATCACTTTAAATAACCCAAACTAAAA
* * * * * *
15438517 ATTTTATTGATTGGATTATTGAAGGCGATTTTGATCAAAAATGCC
261 ATTTTATTGATTAGATTATTAAAGGCGATTTCGACCAAAAACGCA
* *
15438562 TTCAAGAATCCGTTTCATATTTTGCCTATGGATTATTAAGGG
1 TTCAAGAATCTGTTTCATATTTTTCCTATGGATTATTAAGGG
15438604 TGTTTTTCTG
Statistics
Matches: 304, Mismatches: 37, Indels: 10
0.87 0.11 0.03
Matches are distributed among these distances:
301 15 0.05
302 136 0.45
303 54 0.18
304 23 0.08
305 76 0.25
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (305 bp):
TTCAAGAATCTGTTTCATATTTTTCCTATGGATTATTAAGGGCATTTTTAACAAGAAAACACCTT
AAATAATCCCTAACAAAATGTTATTAAAGGCGTTTTCGACCAAAATCGCCTTCAATAATCTCACC
TAAAAATTTAATATGTGAAATAATAAAATCATTTAGGGCCAAAACGCCTTCAAAAATTCATTGAA
ACATTTTTGTATGGATTATTGAAGGTGTTTTTGACAAAAATCACTTTAAATAACCCAAACTAAAA
ATTTTATTGATTAGATTATTAAAGGCGATTTCGACCAAAAACGCA
Found at i:15440480 original size:2 final size:2
Alignment explanation
Indices: 15440473--15440509 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
15440463 GGCTGAAATG
15440473 TA TA TA 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 TA TA TA T
15440510 TGTCCCTTTT
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15440804 original size:22 final size:24
Alignment explanation
Indices: 15440770--15440816 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
15440760 ATTAAAAATT
15440770 AAAAATCAAAATT-TATAGATTAA
1 AAAAATCAAAATTATATAGATTAA
*
15440793 AAAAATC-TAATTATATAGATTAA
1 AAAAATCAAAATTATATAGATTAA
15440816 A
1 A
15440817 TGTATAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (24 bp):
AAAAATCAAAATTATATAGATTAA
Found at i:15441688 original size:13 final size:13
Alignment explanation
Indices: 15441670--15441694 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15441660 TTACTTCAAC
15441670 TATATATATATAA
1 TATATATATATAA
15441683 TATATATATATA
1 TATATATATATA
15441695 TATTACAAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TATATATATATAA
Found at i:15442123 original size:26 final size:26
Alignment explanation
Indices: 15442087--15442140 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
15442077 GACTTACACG
15442087 TCGAAGTACGAAAACAAAAAACATCC
1 TCGAAGTACGAAAACAAAAAACATCC
15442113 TCGAAGTACGAAAACAAAAAACATCC
1 TCGAAGTACGAAAACAAAAAACATCC
15442139 TC
1 TC
15442141 TTACTTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.52, C:0.24, G:0.11, T:0.13
Consensus pattern (26 bp):
TCGAAGTACGAAAACAAAAAACATCC
Found at i:15445729 original size:22 final size:21
Alignment explanation
Indices: 15445704--15445745 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
15445694 TACTCAATTT
15445704 ATTATAAAATATAATAATTTTA
1 ATTATAAAATATAA-AATTTTA
* *
15445726 ATTATTAATTATAAAATTTT
1 ATTATAAAATATAAAATTTT
15445746 TTATTTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTATAAAATATAAAATTTTA
Found at i:15445795 original size:16 final size:16
Alignment explanation
Indices: 15445774--15445820 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 16
15445764 TCATTTATTT
15445774 TATTTATTTAAAAAAA
1 TATTTATTTAAAAAAA
*
15445790 TATTTA--TAATAAAA
1 TATTTATTTAAAAAAA
15445804 TATTCATATTTAAAAAA
1 TATT--TATTTAAAAAA
15445821 TCATTTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 11 0.44
16 8 0.32
18 6 0.24
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (16 bp):
TATTTATTTAAAAAAA
Done.