Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 307 of 313
Found at i:94439857 original size:31 final size:29
Alignment explanation
Indices: 94439773--94439868 Score: 86
Period size: 31 Copynumber: 3.2 Consensus size: 29
94439763 TAAATTATTA
* *
94439773 AAAATATTAAAAATTATGTTAAAATATTTTT
1 AAAA-ATTAAAAATTATATTAAAA-ATTTCT
* *
94439804 AAAAA-TAAACATTATAAATAAAAATTTCT
1 AAAAATTAAAAATTAT-ATTAAAAATTTCT
**
94439833 AAAAATTAAAAATATATATGTAAAAAAATCT
1 AAAAATTAAAAAT-TATAT-TAAAAATTTCT
94439864 AAAAA
1 AAAAA
94439869 GGTTACAAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
29 19 0.36
30 13 0.25
31 21 0.40
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.33
Consensus pattern (29 bp):
AAAAATTAAAAATTATATTAAAAATTTCT
Found at i:94447528 original size:29 final size:29
Alignment explanation
Indices: 94447480--94447536 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
94447470 CTATACATGT
* *
94447480 TTAAATGATATGAATGCAAAGAGTTGTGG
1 TTAAATGATATAAATACAAAGAGTTGTGG
94447509 TTAAATGATATAAATACAAAGAGTTGTG
1 TTAAATGATATAAATACAAAGAGTTGTG
94447537 AAATAGTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.42, C:0.04, G:0.23, T:0.32
Consensus pattern (29 bp):
TTAAATGATATAAATACAAAGAGTTGTGG
Found at i:94448209 original size:40 final size:40
Alignment explanation
Indices: 94448154--94448232 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
94448144 TTGATGTGTA
94448154 TCCGGGCTTAAAGACCCGCAGGCTATATGCTAGAATTATG
1 TCCGGGCTTAAAGACCCGCAGGCTATATGCTAGAATTATG
*
94448194 TCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTAT
1 TCCGGGCTTAAAGACCCGCAGGCTATATGCTAGAATTAT
94448233 ACCCGGACTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (40 bp):
TCCGGGCTTAAAGACCCGCAGGCTATATGCTAGAATTATG
Found at i:94448264 original size:39 final size:39
Alignment explanation
Indices: 94448169--94448306 Score: 150
Period size: 39 Copynumber: 3.5 Consensus size: 39
94448159 GCTTAAAGAC
* * ** * **
94448169 CCGCAGGCTATATGCTAGAATTATGTCCGGGCTTAAAGAC
1 CCGCAGGCTATGTGCTGGAATTATAACCGGACTT-AAGGT
* * *
94448209 CCGCAGGCTATATGCTGGAATTATACCCGGACTTCAGGT
1 CCGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGT
94448248 CCGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGT
1 CCGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGT
* * *
94448287 TCGCAGGCTACGCGCTGGAA
1 CCGCAGGCTATGTGCTGGAA
94448307 ATATGTCCAG
Statistics
Matches: 85, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 55 0.65
40 30 0.35
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGT
Found at i:94456297 original size:22 final size:22
Alignment explanation
Indices: 94456270--94456317 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
94456260 TTTAGTTTGA
94456270 TTTTGTTTTCATGGAAATCGGT
1 TTTTGTTTTCATGGAAATCGGT
94456292 TTTTGTTTTCATGGAAATCGGT
1 TTTTGTTTTCATGGAAATCGGT
94456314 TTTT
1 TTTT
94456318 ATGCCTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.17, C:0.08, G:0.21, T:0.54
Consensus pattern (22 bp):
TTTTGTTTTCATGGAAATCGGT
Found at i:94459373 original size:26 final size:26
Alignment explanation
Indices: 94459326--94459407 Score: 76
Period size: 26 Copynumber: 3.2 Consensus size: 26
94459316 ATAATATATG
* * *
94459326 TTATAAATTTGTATAA-TATATATTT
1 TTATAAATTTATAGAATTTTATATTT
** *
94459351 TTATAAATTTATAGGCTTTTATATAT
1 TTATAAATTTATAGAATTTTATATTT
* * *
94459377 TTATATATTTATATAATTTTACATTT
1 TTATAAATTTATAGAATTTTATATTT
94459403 TTATA
1 TTATA
94459408 TGCTTTTCAA
Statistics
Matches: 44, Mismatches: 12, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
25 12 0.27
26 32 0.73
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (26 bp):
TTATAAATTTATAGAATTTTATATTT
Found at i:94459391 original size:18 final size:18
Alignment explanation
Indices: 94459342--94459408 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 18
94459332 ATTTGTATAA
*
94459342 TATATATTTTTATAAATT
1 TATATATTTTTATATATT
***
94459360 TATAGGCTTTTATATATT
1 TATATATTTTTATATATT
*
94459378 TATATATTTATATA-ATT
1 TATATATTTTTATATATT
*
94459395 T-TACATTTTTATAT
1 TATATATTTTTATAT
94459409 GCTTTTCAAA
Statistics
Matches: 38, Mismatches: 10, Indels: 3
0.75 0.20 0.06
Matches are distributed among these distances:
16 10 0.26
17 4 0.11
18 24 0.63
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (18 bp):
TATATATTTTTATATATT
Found at i:94459402 original size:16 final size:17
Alignment explanation
Indices: 94459326--94459407 Score: 53
Period size: 16 Copynumber: 4.9 Consensus size: 17
94459316 ATAATATATG
* *
94459326 TTATAAATTTGTATAAT
1 TTATACATTTATATAAT
* **
94459343 ATATATTTTTATA-AAT
1 TTATACATTTATATAAT
*
94459359 TTATAGGCTTTTATAT-AT
1 TTATA--CATTTATATAAT
*
94459377 TTATATATTTATATAAT
1 TTATACATTTATATAAT
*
94459394 TT-TACATTTTTATA
1 TTATACATTTATATA
94459408 TGCTTTTCAA
Statistics
Matches: 51, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
16 24 0.47
17 13 0.25
18 14 0.27
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (17 bp):
TTATACATTTATATAAT
Found at i:94460967 original size:15 final size:15
Alignment explanation
Indices: 94460949--94460978 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
94460939 ATTTTAATTT
94460949 TTTATAATTTATATA
1 TTTATAATTTATATA
94460964 TTTATAATTTATATA
1 TTTATAATTTATATA
94460979 AATTAAATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTATAATTTATATA
Found at i:94461715 original size:23 final size:23
Alignment explanation
Indices: 94461674--94461721 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
94461664 TATTCACTTA
* **
94461674 TATTTTATTTTTATTTTAAATAT
1 TATTTTATATTTAAATTAAATAT
*
94461697 TATTTTATATTTAAATTAATTAT
1 TATTTTATATTTAAATTAAATAT
94461720 TA
1 TA
94461722 ATATTCATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (23 bp):
TATTTTATATTTAAATTAAATAT
Found at i:94462175 original size:13 final size:13
Alignment explanation
Indices: 94462159--94462184 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
94462149 AAAGTAAAAA
94462159 TTTATTAAATTTT
1 TTTATTAAATTTT
94462172 TTTATTAAATTTT
1 TTTATTAAATTTT
94462185 AATAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTATTAAATTTT
Found at i:94462517 original size:18 final size:18
Alignment explanation
Indices: 94462490--94462576 Score: 88
Period size: 19 Copynumber: 4.8 Consensus size: 18
94462480 TTATAGATTT
*
94462490 TTTTAT-ATTTCTATATA
1 TTTTATAATTTTTATATA
94462507 TTTTATAATTTTTATGAT-
1 TTTTATAATTTTTAT-ATA
* *
94462525 TTTTATAAAATTTTATATT
1 TTTTAT-AATTTTTATATA
**
94462544 TTTTACGATTTTTATATTA
1 TTTTATAATTTTTATA-TA
94462563 TTTTATAATTTTTA
1 TTTTATAATTTTTA
94462577 ATAAAAGCAT
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
17 6 0.11
18 23 0.40
19 28 0.49
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (18 bp):
TTTTATAATTTTTATATA
Found at i:94462537 original size:28 final size:28
Alignment explanation
Indices: 94462469--94462576 Score: 121
Period size: 28 Copynumber: 3.8 Consensus size: 28
94462459 TTCTTAGGAC
94462469 TTTATAAAATTTTATAGATTTTTTTAT-ATT
1 TTTATAAAATTTTATA-A--TTTTTATGATT
* *
94462499 TCTAT-ATATTTTATAATTTTTATGATT
1 TTTATAAAATTTTATAATTTTTATGATT
* *
94462526 TTTATAAAATTTTATATTTTTTACGATT
1 TTTATAAAATTTTATAATTTTTATGATT
**
94462554 TTTATATTATTTTATAATTTTTA
1 TTTATAAAATTTTATAATTTTTA
94462577 ATAAAAGCAT
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
26 7 0.10
27 7 0.10
28 40 0.60
29 9 0.13
30 4 0.06
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (28 bp):
TTTATAAAATTTTATAATTTTTATGATT
Found at i:94462566 original size:10 final size:9
Alignment explanation
Indices: 94462477--94462574 Score: 60
Period size: 10 Copynumber: 10.6 Consensus size: 9
94462467 ACTTTATAAA
*
94462477 ATTTTATAG
1 ATTTTATAT
*
94462486 ATTTTTTTAT
1 A-TTTTATAT
94462496 ATTTCTATAT
1 ATTT-TATAT
94462506 ATTTTATA-
1 ATTTTATAT
94462514 ATTTT-TAT
1 ATTTTATAT
*
94462522 GATTTTTATAAA
1 -A-TTTTAT-AT
94462534 ATTTTATAT
1 ATTTTATAT
* *
94462543 TTTTTACGAT
1 ATTTTA-TAT
94462553 -TTTTATATT
1 ATTTTATA-T
94462562 ATTTTATA-
1 ATTTTATAT
94462570 ATTTT
1 ATTTT
94462575 TAATAAAAGC
Statistics
Matches: 71, Mismatches: 8, Indels: 21
0.71 0.08 0.21
Matches are distributed among these distances:
7 2 0.03
8 11 0.15
9 21 0.30
10 34 0.48
11 2 0.03
12 1 0.01
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.65
Consensus pattern (9 bp):
ATTTTATAT
Found at i:94462580 original size:10 final size:9
Alignment explanation
Indices: 94462478--94462576 Score: 74
Period size: 9 Copynumber: 10.6 Consensus size: 9
94462468 CTTTATAAAA
94462478 TTTTATAGAT
1 TTTTATA-AT
*
94462488 TTTTTTATAT
1 TTTTATA-AT
*
94462498 TTCTAT-AT
1 TTTTATAAT
94462506 ATTTTATAAT
1 -TTTTATAAT
*
94462516 TTTTATGAT
1 TTTTATAAT
*
94462525 TTTTATAAAA
1 TTTTAT-AAT
*
94462535 TTTTATATT
1 TTTTATAAT
**
94462544 TTTTACGAT
1 TTTTATAAT
*
94462553 TTTTATATT
1 TTTTATAAT
94462562 ATTTTATAAT
1 -TTTTATAAT
94462572 TTTTA
1 TTTTA
94462577 ATAAAAGCAT
Statistics
Matches: 68, Mismatches: 17, Indels: 9
0.72 0.18 0.10
Matches are distributed among these distances:
8 2 0.03
9 37 0.54
10 29 0.43
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (9 bp):
TTTTATAAT
Found at i:94483222 original size:22 final size:22
Alignment explanation
Indices: 94483197--94483250 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
94483187 AAATTTTTCC
*
94483197 AAAAAATAAAGATAATAAAAAT-
1 AAAAAATAAA-ACAATAAAAATA
* *
94483219 AAAAAATAAACCAATCAAAATA
1 AAAAAATAAAACAATAAAAATA
94483241 AAAAAATAAA
1 AAAAAATAAA
94483251 TTTAAAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 8 0.29
22 20 0.71
ACGTcount: A:0.78, C:0.06, G:0.02, T:0.15
Consensus pattern (22 bp):
AAAAAATAAAACAATAAAAATA
Found at i:94506275 original size:42 final size:46
Alignment explanation
Indices: 94506170--94506344 Score: 153
Period size: 48 Copynumber: 3.8 Consensus size: 46
94506160 TAGTAAGATG
*
94506170 CCAACGCCATATCCCAGATATGGTCTTACATGGGATCACAACTCAAT
1 CCAAAGCCATATCCCAGATATGGTCTTACATGGGATCACAACT-AAT
* * * *
94506217 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTC-A-T-AT
1 -CCAAAGCCATATCCCAGATATGGTCTTACATGGGATCACAACTAAT
* * *
94506261 -CAAAGCCATATCCCAGATATGGTCGTACAATGTGA-CACATACTGAT
1 CCAAAGCCATATCCCAGATATGGTCTTAC-ATGGGATCACA-ACTAAT
* * * * *
94506307 GCCGATGCCATATCCCATATATGGTCTTATACGGGATC
1 -CCAAAGCCATATCCCAGATATGGTCTTACATGGGATC
94506345 TCATCACCCC
Statistics
Matches: 102, Mismatches: 17, Indels: 16
0.76 0.13 0.12
Matches are distributed among these distances:
42 26 0.25
43 5 0.05
44 3 0.03
45 1 0.01
46 3 0.03
47 5 0.05
48 59 0.58
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (46 bp):
CCAAAGCCATATCCCAGATATGGTCTTACATGGGATCACAACTAAT
Found at i:94506331 original size:90 final size:90
Alignment explanation
Indices: 94506175--94506348 Score: 235
Period size: 90 Copynumber: 1.9 Consensus size: 90
94506165 AGATGCCAAC
* *
94506175 GCCATATCCCAGATATGGTCTTACATGGGATCACAACTCAATGCCAATGCCATGTCCCAGACATG
1 GCCATATCCCAGATATGGTCGTACATGGGATCACAACTCAATGCCAATGCCATATCCCAGACATG
*
94506240 GTCTTACATGGGATCTCATATCAAA
66 GTCTTACACGGGATCTCATATCAAA
* * * * *
94506265 GCCATATCCCAGATATGGTCGTACAATGTGA-CACATACT-GATGCCGATGCCATATCCCATATA
1 GCCATATCCCAGATATGGTCGTAC-ATGGGATCACA-ACTCAATGCCAATGCCATATCCCAGACA
*
94506328 TGGTCTTATACGGGATCTCAT
64 TGGTCTTACACGGGATCTCAT
94506349 CACCCCAAAT
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
90 65 0.89
91 8 0.11
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (90 bp):
GCCATATCCCAGATATGGTCGTACATGGGATCACAACTCAATGCCAATGCCATATCCCAGACATG
GTCTTACACGGGATCTCATATCAAA
Found at i:94528435 original size:34 final size:34
Alignment explanation
Indices: 94528392--94528456 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
94528382 TCTTTAACTT
94528392 AGAATTATTAAACTCATGTTTATATTGTTACGAA
1 AGAATTATTAAACTCATGTTTATATTGTTACGAA
*
94528426 AGAATTATTAAACTCATGTTTATGTTGTTAC
1 AGAATTATTAAACTCATGTTTATATTGTTAC
94528457 AAATAAATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.43
Consensus pattern (34 bp):
AGAATTATTAAACTCATGTTTATATTGTTACGAA
Found at i:94539645 original size:21 final size:21
Alignment explanation
Indices: 94539608--94539647 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
94539598 TATCATTCTC
*
94539608 TAATTTTTGTAAAATTTATTA
1 TAATTTTTGAAAAATTTATTA
94539629 TAATTTTT-AAAATATTTAT
1 TAATTTTTGAAAA-ATTTAT
94539648 ATATTTGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (21 bp):
TAATTTTTGAAAAATTTATTA
Found at i:94539653 original size:19 final size:20
Alignment explanation
Indices: 94539612--94539653 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
94539602 ATTCTCTAAT
*
94539612 TTTTGTAAAATTTATTATAA
1 TTTTGTAAAATATATTATAA
94539632 TTTT-TAAAATAT-TTATATA
1 TTTTGTAAAATATATTATA-A
94539651 TTT
1 TTT
94539654 GATGTACTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 5 0.25
19 11 0.55
20 4 0.20
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
TTTTGTAAAATATATTATAA
Found at i:94545163 original size:44 final size:44
Alignment explanation
Indices: 94545110--94545203 Score: 163
Period size: 44 Copynumber: 2.2 Consensus size: 44
94545100 TTAATAGGTC
*
94545110 AAAC-AATATTAAAATAACCTACACTAATCAGAGTTTAAGTGGG
1 AAACTAATATTAAAATAACCTAAACTAATCAGAGTTTAAGTGGG
*
94545153 AAACTAATATTAAAATAACCTAAACTAATTAGAGTTTAAGTGGG
1 AAACTAATATTAAAATAACCTAAACTAATCAGAGTTTAAGTGGG
94545197 AAACTAA
1 AAACTAA
94545204 AAACATTGTT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
43 4 0.08
44 44 0.92
ACGTcount: A:0.49, C:0.12, G:0.13, T:0.27
Consensus pattern (44 bp):
AAACTAATATTAAAATAACCTAAACTAATCAGAGTTTAAGTGGG
Found at i:94548122 original size:37 final size:37
Alignment explanation
Indices: 94548072--94548146 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
94548062 AAGTATACAT
94548072 AGTCGTTCAAGTAATAAGTAAGTAAAAATGAGTTATC
1 AGTCGTTCAAGTAATAAGTAAGTAAAAATGAGTTATC
94548109 AGTCGTTCAAGTAATAAGTAAGTAAAAATGAGTTATC
1 AGTCGTTCAAGTAATAAGTAAGTAAAAATGAGTTATC
94548146 A
1 A
94548147 TCTCCACAGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.44, C:0.08, G:0.19, T:0.29
Consensus pattern (37 bp):
AGTCGTTCAAGTAATAAGTAAGTAAAAATGAGTTATC
Found at i:94548198 original size:18 final size:18
Alignment explanation
Indices: 94548175--94548235 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
94548165 AAGTTTAAAC
94548175 AATTAATTGCAAAATTAT
1 AATTAATTGCAAAATTAT
**
94548193 AATTAATAT--AAGCTTAAAT
1 AATTAAT-TGCAAAATT--AT
*
94548212 AATTAATTGCAAAAGTAT
1 AATTAATTGCAAAATTAT
94548230 AATTAA
1 AATTAA
94548236 CAATTTGATG
Statistics
Matches: 33, Mismatches: 5, Indels: 10
0.69 0.10 0.21
Matches are distributed among these distances:
17 4 0.12
18 16 0.48
19 10 0.30
20 3 0.09
ACGTcount: A:0.52, C:0.05, G:0.07, T:0.36
Consensus pattern (18 bp):
AATTAATTGCAAAATTAT
Found at i:94548203 original size:37 final size:37
Alignment explanation
Indices: 94548162--94548235 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
94548152 ACAGGGGCTG
* *
94548162 TATAAGTTTAAACAATTAATTGCAAAATTATAATTAA
1 TATAAGCTTAAACAATTAATTGCAAAAGTATAATTAA
*
94548199 TATAAGCTTAAATAATTAATTGCAAAAGTATAATTAA
1 TATAAGCTTAAACAATTAATTGCAAAAGTATAATTAA
94548236 CAATTTGATG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.36
Consensus pattern (37 bp):
TATAAGCTTAAACAATTAATTGCAAAAGTATAATTAA
Found at i:94548405 original size:50 final size:50
Alignment explanation
Indices: 94548344--94548451 Score: 162
Period size: 50 Copynumber: 2.2 Consensus size: 50
94548334 TTACCTAATG
* *
94548344 ATGTGCTCAACTATGCTCAGTTCAACAGCCTTTTAGATTTATTCTGACTA
1 ATGTGCTCAACTATGCTCAGTTCAACAACCTTTCAGATTTATTCTGACTA
* * * *
94548394 ATGTGCTCAACTCTGCTTAGTTCAACAACCTTTCGGATTTATTCTGACTG
1 ATGTGCTCAACTATGCTCAGTTCAACAACCTTTCAGATTTATTCTGACTA
94548444 ATGTGCTC
1 ATGTGCTC
94548452 CGTTTTGATT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (50 bp):
ATGTGCTCAACTATGCTCAGTTCAACAACCTTTCAGATTTATTCTGACTA
Found at i:94557992 original size:7 final size:7
Alignment explanation
Indices: 94557982--94558089 Score: 60
Period size: 7 Copynumber: 14.6 Consensus size: 7
94557972 TTTTATATAC
94557982 TAATAAA
1 TAATAAA
94557989 TAATAAA
1 TAATAAA
*
94557996 TAATGAAT
1 TAAT-AAA
*
94558004 TAATATA
1 TAATAAA
94558011 TAATAAA
1 TAATAAA
**
94558018 -AGGAAGA
1 TAATAA-A
*
94558025 TAATATA
1 TAATAAA
94558032 TAATAATA
1 TAATAA-A
*
94558040 TATGATAAG
1 TA--ATAAA
94558049 TAATAAAA
1 TAAT-AAA
94558057 TATATAAA
1 TA-ATAAA
94558065 TAA-AATA
1 TAATAA-A
94558072 TAATGAAA
1 TAAT-AAA
94558080 T-ATAAA
1 TAATAAA
94558086 TAAT
1 TAAT
94558090 TCAATAAATA
Statistics
Matches: 77, Mismatches: 12, Indels: 24
0.68 0.11 0.21
Matches are distributed among these distances:
6 9 0.12
7 36 0.47
8 22 0.29
9 6 0.08
10 4 0.05
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (7 bp):
TAATAAA
Found at i:94558013 original size:15 final size:14
Alignment explanation
Indices: 94557976--94558111 Score: 53
Period size: 15 Copynumber: 9.1 Consensus size: 14
94557966 TTTAATTTTT
94557976 ATATACTAATAAATA
1 ATATA-TAATAAATA
* *
94557991 ATAAATAATGAATTA
1 ATATATAAT-AAATA
*
94558006 ATATATAATAAAAGGA
1 ATATATAAT-AAA-TA
*
94558022 AGATA-ATATATAATA
1 ATATATA-ATA-AATA
* *
94558037 ATATATGATAAGTA
1 ATATATAATAAATA
*
94558051 ATAAAATATATAAATA
1 AT-ATATA-ATAAATA
*
94558067 AAATATAATGAAAT-
1 ATATATAAT-AAATA
* *
94558081 ATAAATAATTCAATA
1 ATATATAA-TAAATA
94558096 A-ATATCATATAAATA
1 ATATAT-A-ATAAATA
94558111 A
1 A
94558112 GGATAGTATA
Statistics
Matches: 88, Mismatches: 21, Indels: 24
0.66 0.16 0.18
Matches are distributed among these distances:
14 23 0.26
15 48 0.55
16 17 0.19
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (14 bp):
ATATATAATAAATA
Found at i:94558017 original size:29 final size:28
Alignment explanation
Indices: 94557976--94558111 Score: 80
Period size: 30 Copynumber: 4.5 Consensus size: 28
94557966 TTTAATTTTT
94557976 ATATACTAATAAATAATAAATAATGAATTA
1 ATATA-TAATAAATAATAAATAAT-AATTA
**
94558006 ATATATAATAAA-AGGAAGATAATATATAATA
1 ATATATAATAAATAATAA-ATAATA-AT--TA
* * *
94558037 ATATATGATAAGTAATAAAATATATAAATA
1 ATATATAATAAATAAT-AAATA-ATAATTA
* *
94558067 AAATATAATGAAAT-ATAAATAATTCAATAA
1 ATATATAAT-AAATAATAAATAA-T-AATTA
94558097 ATATCAT-ATAAATAA
1 ATAT-ATAATAAATAA
94558112 GGATAGTATA
Statistics
Matches: 81, Mismatches: 13, Indels: 24
0.69 0.11 0.20
Matches are distributed among these distances:
28 5 0.06
29 24 0.30
30 25 0.31
31 17 0.21
32 5 0.06
33 5 0.06
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (28 bp):
ATATATAATAAATAATAAATAATAATTA
Found at i:94558039 original size:10 final size:10
Alignment explanation
Indices: 94557975--94558089 Score: 60
Period size: 10 Copynumber: 11.1 Consensus size: 10
94557965 ATTTAATTTT
*
94557975 TATATACTAA
1 TATATAATAA
*
94557985 TAAATAATAA
1 TATATAATAA
94557995 -ATAATGAATTAA
1 TAT-AT-AA-TAA
94558007 TATATAATAA
1 TATATAATAA
* *
94558017 AAGGA-AGATAA
1 TA-TATA-ATAA
94558028 TATATAATAA
1 TATATAATAA
*
94558038 TATATGATAA
1 TATATAATAA
94558048 GTA-ATAA-AA
1 -TATATAATAA
94558057 TATATAAATAA
1 TATAT-AATAA
*
94558068 AATATAATGAA
1 TATATAAT-AA
94558079 -ATATAAATAA
1 TATAT-AATAA
94558089 T
1 T
94558090 TCAATAAATA
Statistics
Matches: 81, Mismatches: 10, Indels: 27
0.69 0.08 0.23
Matches are distributed among these distances:
8 2 0.02
9 5 0.06
10 43 0.53
11 24 0.30
12 5 0.06
13 2 0.02
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.32
Consensus pattern (10 bp):
TATATAATAA
Found at i:94558054 original size:17 final size:16
Alignment explanation
Indices: 94558031--94558073 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
94558021 AAGATAATAT
94558031 ATAATAATATATGATAA
1 ATAATAATATAT-ATAA
* *
94558048 GTAATAAAATATATAA
1 ATAATAATATATATAA
94558064 ATAA-AATATA
1 ATAATAATATA
94558074 ATGAAATATA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 5 0.23
16 7 0.32
17 10 0.45
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.33
Consensus pattern (16 bp):
ATAATAATATATATAA
Found at i:94558290 original size:21 final size:22
Alignment explanation
Indices: 94558266--94558318 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 22
94558256 AAAATTTATT
*
94558266 AATAAAATGTATAATA-ATATA
1 AATAAAATGGATAATATATATA
*
94558287 AATAATATAATGGGTAATATATATA
1 AAT-A-A-AATGGATAATATATATA
94558312 AATAAAA
1 AATAAAA
94558319 ATAATATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
21 3 0.12
22 3 0.12
23 2 0.08
24 10 0.38
25 8 0.31
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (22 bp):
AATAAAATGGATAATATATATA
Found at i:94559948 original size:44 final size:44
Alignment explanation
Indices: 94559900--94560437 Score: 583
Period size: 44 Copynumber: 12.2 Consensus size: 44
94559890 AAACTCAGGA
* * * * * *
94559900 ACGCCAAACCCGTTATCTTCGATCTGTTCTCTGACAAAACAAAG
1 ACGCCAAATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAG
* * * *
94559944 ACGCCAAATCTGCTATTTTCGATTTGCTCCCTGAT-AATACAGAG
1 ACGCCAAATCTGTTATCTTCGATCTGCTCTCTG-TCAATACAGAG
** ** *
94559988 ACGCCAAATCTACTATCTTCGATCTGCTCTCTAACAATACAGAA
1 ACGCCAAATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAG
* ** * *
94560032 ATGCCAAATCTACTATCTTCGATCTGCTCTTTGTCAATACAGAA
1 ACGCCAAATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAG
* * *
94560076 ACGCCAAATCTGCTATCTTTGATCTACTCTCTGTCAATACAGAG
1 ACGCCAAATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAG
* * * *
94560120 ACACCAAATCTGCTATCTTTGATCTGCTCTCTGTCAACACAGAG
1 ACGCCAAATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAG
* *
94560164 ACGCCAAATCTGTCATCTTCGATCTGCTCTCTGTCAACACAGAG
1 ACGCCAAATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAG
* * * *
94560208 ACGCCAAATCTGTTATCTTTGATCTACTCTCTGACCATACAGAG
1 ACGCCAAATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAG
* * *
94560252 ACGCCAAATCTGTCATCTTCAATCTGCTCTCTGTCAACACAGAG
1 ACGCCAAATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAG
* * * * * *
94560296 AAGCCAAATCTGTCATCTTCTATCTACTCTCTGTCAACACAAAG
1 ACGCCAAATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAG
*
94560340 ACGCCAAATCTGTTATCTTCGATCTGCTCTCTATCAATACAGAG
1 ACGCCAAATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAG
* * * ** * **
94560384 ATGCCAAATCTGCTATTTTTTATTTGCTCTCTAACAATACAGAG
1 ACGCCAAATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAG
**
94560428 ATTCCAAATC
1 ACGCCAAATC
94560438 AGCTATCGGT
Statistics
Matches: 426, Mismatches: 66, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
44 426 1.00
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.30
Consensus pattern (44 bp):
ACGCCAAATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAG
Found at i:94576691 original size:43 final size:43
Alignment explanation
Indices: 94576620--94576805 Score: 223
Period size: 43 Copynumber: 4.3 Consensus size: 43
94576610 TTGGTATATG
* * *
94576620 CAATCATGCACTATGTGTGACAGTATATTTTCTTC-GATTTATC
1 CAATGATGCACTATGTGTGCCAGCATATTTTCTTCAG-TTTATC
*
94576663 CGATGATGCACTATGTGTGCCAGCATATTTTCTTCAGTTTATC
1 CAATGATGCACTATGTGTGCCAGCATATTTTCTTCAGTTTATC
* *
94576706 CAATGATGCACTATGTGTGCTAGTC-TATTTTCTTCAGCTTATC
1 CAATGATGCACTATGTGTGCCAG-CATATTTTCTTCAGTTTATC
* * * ** * *
94576749 CAATGATGCACTATATGTTCCAGTATAGATACTTTAGTTTATC
1 CAATGATGCACTATGTGTGCCAGCATATTTTCTTCAGTTTATC
94576792 CAATGATGCACTAT
1 CAATGATGCACTAT
94576806 ATATGCTAGT
Statistics
Matches: 124, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
43 122 0.98
44 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.40
Consensus pattern (43 bp):
CAATGATGCACTATGTGTGCCAGCATATTTTCTTCAGTTTATC
Found at i:94576788 original size:86 final size:85
Alignment explanation
Indices: 94576620--94576877 Score: 286
Period size: 86 Copynumber: 3.0 Consensus size: 85
94576610 TTGGTATATG
* * * *
94576620 CAATCATGCACTATGTGTGAC-AGTATATTTTCTTCGATTTATCCGATGATGCACTATGTGTGCC
1 CAATGATGCACTATGTGTG-CTAGTATATTTTCTTCG-TTTATCCAATGATGCACTATATGTTCC
* ** *
94576684 AGCATATTTTCTTCAGTTTATC
64 AGTATAGATACTTCAGTTTATC
* *
94576706 CAATGATGCACTATGTGTGCTAGTCTATTTTCTTCAGCTTATCCAATGATGCACTATATGTTCCA
1 CAATGATGCACTATGTGTGCTAGTATATTTTCTTC-GTTTATCCAATGATGCACTATATGTTCCA
*
94576771 GTATAGATACTTTAGTTTATC
65 GTATAGATACTTCAGTTTATC
* * ** * * * *
94576792 CAATGATGCACTATATATGCTAGTATAGATACTTTGGTTTATCTAATGATGCACTATAT-TTGCT
1 CAATGATGCACTATGTGTGCTAGTATATTTTC-TTCGTTTATCCAATGATGCACTATATGTT-CC
94576856 AGTATAGATACTTCAGTTTATC
64 AGTATAGATACTTCAGTTTATC
94576878 TGATGATGAG
Statistics
Matches: 146, Mismatches: 22, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
85 3 0.02
86 140 0.96
87 3 0.02
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.41
Consensus pattern (85 bp):
CAATGATGCACTATGTGTGCTAGTATATTTTCTTCGTTTATCCAATGATGCACTATATGTTCCAG
TATAGATACTTCAGTTTATC
Found at i:94576885 original size:43 final size:43
Alignment explanation
Indices: 94576657--94576877 Score: 253
Period size: 43 Copynumber: 5.1 Consensus size: 43
94576647 TTTTCTTCGA
* * * * ** *
94576657 TTTATCCGATGATGCACTATGTGTGCCAGCATATTTTCTTCAG
1 TTTATCCAATGATGCACTATATGTGCTAGTATAGATACTTCAG
* * ** *
94576700 TTTATCCAATGATGCACTATGTGTGCTAGTCTATTTTCTTCAG
1 TTTATCCAATGATGCACTATATGTGCTAGTATAGATACTTCAG
* * * *
94576743 CTTATCCAATGATGCACTATATGTTCCAGTATAGATACTTTAG
1 TTTATCCAATGATGCACTATATGTGCTAGTATAGATACTTCAG
* **
94576786 TTTATCCAATGATGCACTATATATGCTAGTATAGATACTTTGG
1 TTTATCCAATGATGCACTATATGTGCTAGTATAGATACTTCAG
* *
94576829 TTTATCTAATGATGCACTATATTTGCTAGTATAGATACTTCAG
1 TTTATCCAATGATGCACTATATGTGCTAGTATAGATACTTCAG
94576872 TTTATC
1 TTTATC
94576878 TGATGATGAG
Statistics
Matches: 156, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 156 1.00
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.41
Consensus pattern (43 bp):
TTTATCCAATGATGCACTATATGTGCTAGTATAGATACTTCAG
Found at i:94576960 original size:43 final size:43
Alignment explanation
Indices: 94576907--94577006 Score: 166
Period size: 43 Copynumber: 2.3 Consensus size: 43
94576897 TTATTCGATG
* *
94576907 ATGCACTGTATGTGCCAGTATAGATATTTCAGA-TTATCTGATT
1 ATGCATTGTATGTGCCAGTATAGATACTTCA-ATTTATCTGATT
94576950 ATGCATTGTATGTGCCAGTATAGATACTTCAATTTATCTGATT
1 ATGCATTGTATGTGCCAGTATAGATACTTCAATTTATCTGATT
94576993 ATGCATTGTATGTG
1 ATGCATTGTATGTG
94577007 TTAGGATAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
42 1 0.02
43 53 0.98
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (43 bp):
ATGCATTGTATGTGCCAGTATAGATACTTCAATTTATCTGATT
Found at i:94576977 original size:110 final size:110
Alignment explanation
Indices: 94576784--94576991 Score: 274
Period size: 110 Copynumber: 1.9 Consensus size: 110
94576774 TAGATACTTT
* * *
94576784 AGTTTATCCAATGATGCACTATATATGCTAGTATAGATACTTTGGTTTATCTAATGATGCACTAT
1 AGTTTATCCAATGATGCACTATATATGCCAGTATAGATACTTTAGATTATCTAATGATGCACTAT
* * *
94576849 ATTTGCTAGTATAGATACTTCAGTTTATCTGATGATGAGATGTTC
66 ATGTGCCAGTATAGATACTTCAATTTATCTGATGATGAGATGTTC
* * * * * * * *
94576894 AGTTTATTCGATGATGCACTGTATGTGCCAGTATAGATA-TTTCAGATTATCTGATTATGCATTG
1 AGTTTATCCAATGATGCACTATATATGCCAGTATAGATACTTT-AGATTATCTAATGATGCACTA
94576958 TATGTGCCAGTATAGATACTTCAATTTATCTGAT
65 TATGTGCCAGTATAGATACTTCAATTTATCTGAT
94576992 TATGCATTGT
Statistics
Matches: 83, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
109 3 0.04
110 80 0.96
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.41
Consensus pattern (110 bp):
AGTTTATCCAATGATGCACTATATATGCCAGTATAGATACTTTAGATTATCTAATGATGCACTAT
ATGTGCCAGTATAGATACTTCAATTTATCTGATGATGAGATGTTC
Found at i:94592215 original size:28 final size:29
Alignment explanation
Indices: 94592173--94592232 Score: 95
Period size: 28 Copynumber: 2.1 Consensus size: 29
94592163 AAATATTGGA
*
94592173 AGAACAAAAAAACTAAATTTATGGGAGAG
1 AGAACAAAAAAACTAAATTTAAGGGAGAG
*
94592202 AGAA-AAAAAAACTAAATTTAAGGGGGAG
1 AGAACAAAAAAACTAAATTTAAGGGAGAG
94592230 AGA
1 AGA
94592233 GTGTTTACTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 25 0.86
29 4 0.14
ACGTcount: A:0.57, C:0.05, G:0.23, T:0.15
Consensus pattern (29 bp):
AGAACAAAAAAACTAAATTTAAGGGAGAG
Found at i:94592347 original size:20 final size:20
Alignment explanation
Indices: 94592324--94592361 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
94592314 TAAATTCTAA
*
94592324 AAGATAAATACAAATAAAAT
1 AAGATAAATAAAAATAAAAT
*
94592344 AAGATAATTAAAAATAAA
1 AAGATAAATAAAAATAAA
94592362 TCCTAAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (20 bp):
AAGATAAATAAAAATAAAAT
Found at i:94593185 original size:96 final size:97
Alignment explanation
Indices: 94593020--94593210 Score: 276
Period size: 96 Copynumber: 2.0 Consensus size: 97
94593010 TTTTAATTTA
* * ** *
94593020 TTTATTTTTACTTAGGAATATATTGAACCTTTTGACGCGAAGAGAGATAACAGCCAAACACCCCA
1 TTTATTTTTACTTAAGAACATATCAAACCTTTTGACGCAAAGAGAGATAACAGCCAAACACCCCA
*
94593085 CCCCGGTTACTCAGCCCAACACACTCTTAATT
66 CCCCGGTTACTCAGCCCAAAACACTCTTAATT
* * *
94593117 TTTATTTTT-CTTAAGAACATATCAAACCTTTTGACGCAAAGAGAGATGACAGCCAAGCACCTCA
1 TTTATTTTTACTTAAGAACATATCAAACCTTTTGACGCAAAGAGAGATAACAGCCAAACACCCCA
* *
94593181 CCCCGGTTACTCAGCCTAAAACATTCTTAA
66 CCCCGGTTACTCAGCCCAAAACACTCTTAA
94593211 AAATTAATTT
Statistics
Matches: 83, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
96 74 0.89
97 9 0.11
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (97 bp):
TTTATTTTTACTTAAGAACATATCAAACCTTTTGACGCAAAGAGAGATAACAGCCAAACACCCCA
CCCCGGTTACTCAGCCCAAAACACTCTTAATT
Found at i:94594128 original size:14 final size:15
Alignment explanation
Indices: 94594111--94594152 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
94594101 ATAAATCATT
94594111 AAGATAAAAT-AATA
1 AAGATAAAATAAATA
94594125 AAGA-AAAATAAATA
1 AAGATAAAATAAATA
*
94594139 AAAATAAAAATAAA
1 AAGAT-AAAATAAA
94594153 GAGAAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 5 0.21
14 11 0.46
16 8 0.33
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.17
Consensus pattern (15 bp):
AAGATAAAATAAATA
Found at i:94594149 original size:16 final size:16
Alignment explanation
Indices: 94594117--94594164 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
94594107 CATTAAGATA
*
94594117 AAATAATAAAGAAAAAT
1 AAATAA-AAATAAAAAT
94594134 AAATAAAAATAAAAAT
1 AAATAAAAATAAAAAT
* *
94594150 AAAGAGAAATAAAAA
1 AAATAAAAATAAAAA
94594165 ATAGGTTGCC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 22 0.79
17 6 0.21
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (16 bp):
AAATAAAAATAAAAAT
Found at i:94597429 original size:23 final size:23
Alignment explanation
Indices: 94597399--94597444 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
94597389 AAGGAAAGGT
94597399 CAGCCCAACAAGAGGTCAAATGA
1 CAGCCCAACAAGAGGTCAAATGA
94597422 CAGCCCAACAAGAGGTCAAATGA
1 CAGCCCAACAAGAGGTCAAATGA
94597445 TCCGGGGGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.26, G:0.22, T:0.09
Consensus pattern (23 bp):
CAGCCCAACAAGAGGTCAAATGA
Found at i:94609366 original size:21 final size:18
Alignment explanation
Indices: 94609340--94609382 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 18
94609330 ATATCATAAA
94609340 AAATAAAAGTAATTATGAATT
1 AAATAAAA--AATTA-GAATT
94609361 AAAT-AAAAATTAGAATT
1 AAATAAAAAATTAGAATT
94609378 AAATA
1 AAATA
94609383 TAATTTCGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 9 0.43
18 5 0.24
20 3 0.14
21 4 0.19
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (18 bp):
AAATAAAAAATTAGAATT
Found at i:94610786 original size:19 final size:19
Alignment explanation
Indices: 94610742--94610801 Score: 79
Period size: 17 Copynumber: 3.2 Consensus size: 19
94610732 AATCTTTAAG
*
94610742 GATATGCAATCTTAGATAT
1 GATATACAATCTTAGATAT
94610761 G--ATACAATCTTAGATAT
1 GATATACAATCTTAGATAT
94610778 GATATACAATCTTGAAGATAT
1 GATATACAATCTT--AGATAT
94610799 GAT
1 GAT
94610802 CTTGTAATCT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
17 16 0.44
19 11 0.31
21 9 0.25
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (19 bp):
GATATACAATCTTAGATAT
Found at i:94616243 original size:84 final size:84
Alignment explanation
Indices: 94616095--94616621 Score: 764
Period size: 84 Copynumber: 6.3 Consensus size: 84
94616085 AAAATCCAGT
*
94616095 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATATGCAGATCTTATCTCCCTAAGCAGTAG
1 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
94616160 TGGAGCAGATCGAAGACTC
66 TGGAGCAGATCGAAGACTC
* * *
94616179 GTCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATTTTATCTCCCTAAGTAGTAG
1 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
* *
94616244 TGGAGAAGATCGAAGACCC
66 TGGAGCAGATCGAAGACTC
94616263 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
1 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
94616328 TGGAGCAGATCGAAGACTC
66 TGGAGCAGATCGAAGACTC
* *
94616347 GCCTTAATCCCCTAAGCAGTAGGGTAATAGGTT-CA----CAGATCTTATCTCCCTAAGCAGTAG
1 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
* *
94616407 CGGAGCAGATCGACGACGATTC
66 TGGAGCAGATCGA--A-GACTC
* *
94616429 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAA-TTGCAGATCTTACCTCCCTAAGCAGTAA
1 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
* *
94616493 TGGAGCAAATCGAAGACCC
66 TGGAGCAGATCGAAGACTC
* *
94616512 ACCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTA--TCCCTAAACAGTAG
1 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
*
94616575 CGGAGCAGATCGAAGACGATGC
66 TGGAGCAGATCGAAGAC--T-C
* * *
94616597 ACCTTTACCCCCTAAGCAGTAGGGT
1 GCCTTAATCCCCTAAGCAGTAGGGT
94616622 CCAAGATGAT
Statistics
Matches: 401, Mismatches: 31, Indels: 21
0.89 0.07 0.05
Matches are distributed among these distances:
79 37 0.09
81 1 0.00
82 63 0.16
83 40 0.10
84 202 0.50
85 24 0.06
86 34 0.08
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (84 bp):
GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
TGGAGCAGATCGAAGACTC
Found at i:94616320 original size:43 final size:43
Alignment explanation
Indices: 94616104--94616327 Score: 173
Period size: 43 Copynumber: 5.3 Consensus size: 43
94616094 TGCCTTAATC
*
94616104 CCCTAAGCAGTAGGGTAACAGGTTAAATATGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
* * * *
94616147 CCCTAAGCAGTAGTGG-AGCAGATCGAAGA-CT-C-G-TCTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGT-TAA-ATTTGCAGATCTT-ATCT
*
94616188 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATTTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
* * ** *** * *
94616231 CCCTAAGTAGTAGTGG-AGA-AGATCGAA-GACCCG-CCTTAATC-
1 CCCTAAGCAGTAG-GGTA-ACAGGTTAAATTTGCAGATCTT-ATCT
94616272 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
94616315 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
94616328 TGGAGCAGAT
Statistics
Matches: 135, Mismatches: 28, Indels: 36
0.68 0.14 0.18
Matches are distributed among these distances:
39 1 0.01
40 8 0.06
41 43 0.32
42 18 0.13
43 56 0.41
44 8 0.06
45 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (43 bp):
CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
Found at i:94617351 original size:19 final size:19
Alignment explanation
Indices: 94617327--94617388 Score: 97
Period size: 19 Copynumber: 3.2 Consensus size: 19
94617317 AATCTTTAAG
94617327 GATATGCAATCTTAAATAT
1 GATATGCAATCTTAAATAT
*
94617346 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAAATAT
94617365 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT-AA-ATAT
94617386 GAT
1 GAT
94617389 CTTGTAATCT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
19 31 0.79
20 1 0.03
21 7 0.18
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAAATAT
Found at i:94623068 original size:75 final size:75
Alignment explanation
Indices: 94622971--94623682 Score: 247
Period size: 76 Copynumber: 9.4 Consensus size: 75
94622961 ACTTGGATAG
* * ** * *
94622971 CAATCCCAAGGCTCAAATTATTTTTTAAAACGGATTCAACTTTTGATAAAATGAAAACTAAAAGG
1 CAATCCCGAGGCTCGACCTATTTTTGAAAACGGATTCGACTTTTGATAAAATGAAAACTAAAAGG
94623036 ACCTCGACAG-
66 ACCTCGA-AGA
* * * * ** * *
94623046 CAA-CCTTGAGGCTCGATCTATTTTTGAAAATC-AATTCGACTTTTAATACGATGAAACATTGAA
1 CAATCC-CGAGGCTCGACCTATTTTTGAAAA-CGGATTCGACTTTTGATAAAATGAAA-ACTAAA
* *
94623109 AGGTCCTCGATGA
63 AGGACCTCGAAGA
* * * *
94623122 TAATCCCGAGGCTTGACCCATTTTTGAAAACGGATTCGACTTTTGATACAAA-GAAAACTAAAAA
1 CAATCCCGAGGCTCGACCTATTTTTGAAAACGGATTCGACTTTTGATA-AAATGAAAACTAAAAG
*
94623186 GACC-CCAACGA
65 GACCTCGAA-GA
** * * * * * * * *
94623197 TGATCTCGAGGCTTGACCCATTTTTAAAAAATC-AATT-TAGCTTTTGATAAAATGACAACTGAA
1 CAATCCCGAGGCTCGACCTATTTTT-GAAAA-CGGATTCGA-CTTTTGATAAAATGAAAACTAAA
* * *
94623260 A-GATCTCGATGG
63 AGGACCTCGAAGA
** * * * * * *
94623272 CAATCTTGAGGCTTGACCCATTTTTGAAAACGGATTCGACATTTAATAAAATGAATAACTGAAAT
1 CAATCCCGAGGCTCGACCTATTTTTGAAAACGGATTCGACTTTTGATAAAATGAA-AACTAAAAG
* *
94623337 AACCTC-AACAA
65 GACCTCGAA-GA
* * * * *** * *
94623348 TAATCCCAAGGCTTGA-CTCATTTCTGAAAATAAATTTGACTTTTGATAAAATGAAAACTAAAAA
1 CAATCCCGAGGCTCGACCT-ATTTTTGAAAACGGATTCGACTTTTGATAAAATGAAAACTAAAAG
* * *
94623412 GACATC-AGTGG
65 GACCTCGA-AGA
* * * * * * * * * *
94623423 CAATCCTGAGGCTCAACATATTTTTAAAAAATC-AATTCCACTTTTCATAAAATGACAATTGAAA
1 CAATCCCGAGGCTCGACCTATTTTT-GAAAA-CGGATTCGACTTTTGATAAAATGAAAACTAAAA
*
94623487 GGACCTTGACAG-
64 GGACCTCGA-AGA
* * * * * * * *
94623499 TAATCTCGAGGCTCGGCCCATTTTTAGAAAAAAAGGATTTGACTTTTTCATAAACA--AAAGA-G
1 CAATCCCGAGGCTCGACCTATTTTT-G--AAAACGGATTCGAC-TTTTGATAAA-ATGAAA-ACT
** *
94623561 AAAAGGATTTCGAAGG
60 AAAAGGACCTCGAAGA
* ** ** * * *
94623577 CAATTCCGAAACTTAATCC-ATTTTTGAGAAATGGATTCAACTTTTGATAAAA-GACAACTAAAA
1 CAATCCCGAGGCTCGA-CCTATTTTTGA-AAACGGATTCGACTTTTGATAAAATGAAAACTAAAA
*
94623640 GGACCTC-AACAA
64 GGACCTCGAA-GA
** *
94623652 CAATATCGAGGCTTGACCTATTTTTGGAAAA
1 CAATCCCGAGGCTCGACCTATTTTT-GAAAA
94623683 TATATTCAAA
Statistics
Matches: 464, Mismatches: 135, Indels: 76
0.69 0.20 0.11
Matches are distributed among these distances:
73 1 0.00
74 30 0.06
75 185 0.40
76 191 0.41
77 9 0.02
78 34 0.07
79 13 0.03
80 1 0.00
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (75 bp):
CAATCCCGAGGCTCGACCTATTTTTGAAAACGGATTCGACTTTTGATAAAATGAAAACTAAAAGG
ACCTCGAAGA
Found at i:94623145 original size:76 final size:75
Alignment explanation
Indices: 94623004--94623406 Score: 264
Period size: 76 Copynumber: 5.3 Consensus size: 75
94622994 TTTAAAACGG
* * * * * * * * * *
94623004 ATTCAACTTTTGATAAAATGAAAACTAAAAGGACCTCGAC-AGCAA-CCTTGAGGCTCGATCTAT
1 ATTCGACTTTTAATAAAATGAAAACTGAAAGAACCTCAACGA-TAATCC-CGAGGCTTGACCCAT
94623067 TTTTGAAAATCA
64 TTTTGAAAATCA
** * ** * *
94623079 ATTCGACTTTTAATACGATGAAACATTGAAAGGTCCTCGATGATAATCCCGAGGCTTGACCCATT
1 ATTCGACTTTTAATAAAATGAAA-ACTGAAAGAACCTCAACGATAATCCCGAGGCTTGACCCATT
*
94623144 TTTGAAAA-CGG
65 TTTGAAAATC-A
* * * * *
94623155 ATTCGACTTTTGATACAAA-GAAAACT-AAAAAGACCCCAACGATGATCTCGAGGCTTGACCCAT
1 ATTCGACTTTTAATA-AAATGAAAACTGAAAGA-ACCTCAACGATAATCCCGAGGCTTGACCCAT
*
94623218 TTTTAAAAAATCA
64 TTTT-GAAAATCA
* * * * * * ** **
94623231 ATT-TAGCTTTTGATAAAATGACAACTGAAAG-ATCTCGATGGCAATCTTGAGGCTTGACCCATT
1 ATTCGA-CTTTTAATAAAATGAAAACTGAAAGAACCTCAACGATAATCCCGAGGCTTGACCCATT
*
94623294 TTTGAAAA-CGG
65 TTTGAAAATC-A
* * * * *
94623305 ATTCGACATTTAATAAAATGAATAACTGAAATAACCTCAACAATAATCCCAAGGCTTGACTCATT
1 ATTCGACTTTTAATAAAATGAA-AACTGAAAGAACCTCAACGATAATCCCGAGGCTTGACCCATT
* *
94623370 TCTGAAAATAA
65 TTTGAAAATCA
* *
94623381 ATTTGACTTTTGATAAAATGAAAACT
1 ATTCGACTTTTAATAAAATGAAAACT
94623407 AAAAAGACAT
Statistics
Matches: 250, Mismatches: 62, Indels: 32
0.73 0.18 0.09
Matches are distributed among these distances:
73 1 0.00
74 23 0.09
75 95 0.38
76 123 0.49
77 8 0.03
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (75 bp):
ATTCGACTTTTAATAAAATGAAAACTGAAAGAACCTCAACGATAATCCCGAGGCTTGACCCATTT
TTGAAAATCA
Found at i:94623310 original size:150 final size:150
Alignment explanation
Indices: 94623129--94623406 Score: 375
Period size: 150 Copynumber: 1.9 Consensus size: 150
94623119 TGATAATCCC
* *
94623129 GAGGCTTGACCCATTTTTGAAAACGGATTCGACTTTTGATACAAA-GAA-AACT-AAAAAGACCC
1 GAGGCTTGACCCATTTTTGAAAACGGATTCGACATTTAATA-AAATGAATAACTGAAAAA-ACCC
* * * * * * *
94623191 CAACGATGATCTCGAGGCTTGACCCATTTTTAAAAAATCAATTT-AGCTTTTGATAAAATGACAA
64 CAACAATAATCCCAAGGCTTGACCCATTTCT-AAAAATAAATTTGA-CTTTTGATAAAATGAAAA
94623255 CTGAAAGATCTCGATGGCAATCTT
127 CTGAAAGATCTCGATGGCAATCTT
* *
94623279 GAGGCTTGACCCATTTTTGAAAACGGATTCGACATTTAATAAAATGAATAACTGAAATAACCTCA
1 GAGGCTTGACCCATTTTTGAAAACGGATTCGACATTTAATAAAATGAATAACTGAAAAAACCCCA
* *
94623344 ACAATAATCCCAAGGCTTGACTCATTTCTGAAAATAAATTTGACTTTTGATAAAATGAAAACT
66 ACAATAATCCCAAGGCTTGACCCATTTCTAAAAATAAATTTGACTTTTGATAAAATGAAAACT
94623407 AAAAAGACAT
Statistics
Matches: 111, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
149 3 0.03
150 71 0.64
151 33 0.30
152 4 0.04
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (150 bp):
GAGGCTTGACCCATTTTTGAAAACGGATTCGACATTTAATAAAATGAATAACTGAAAAAACCCCA
ACAATAATCCCAAGGCTTGACCCATTTCTAAAAATAAATTTGACTTTTGATAAAATGAAAACTGA
AAGATCTCGATGGCAATCTT
Found at i:94623730 original size:75 final size:74
Alignment explanation
Indices: 94623581--94623755 Score: 192
Period size: 75 Copynumber: 2.4 Consensus size: 74
94623571 CGAAGGCAAT
* * ** *
94623581 TCCGAAACTTAATCCATTTTT-GAGAAATGGATTCAACTTTTGATAAAAGACAACTAAAAGGACC
1 TCCGAGACTTGATCCATTTTTGGA-AAATATATTCAAATTTTGATAAAAGACAACTAAAAGGACC
94623645 TCAACAACAA
65 TCAACAACAA
* * * * *
94623655 TATCGAGGCTTGA-CCTATTTTTGGAAAATATATTCAAATTTTGATAAAAGGCAATTGAAAGGAC
1 T-CCGAGACTTGATCC-ATTTTTGGAAAATATATTCAAATTTTGATAAAAGACAACTAAAAGGAC
**
94623719 CTCAATGACAA
64 CTCAACAACAA
*
94623730 TCCGAGACTTGATCCATTTTTTGAAA
1 TCCGAGACTTGATCCATTTTTGGAAA
94623756 TAGTCTTGAC
Statistics
Matches: 82, Mismatches: 15, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
74 22 0.27
75 58 0.71
76 2 0.02
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.30
Consensus pattern (74 bp):
TCCGAGACTTGATCCATTTTTGGAAAATATATTCAAATTTTGATAAAAGACAACTAAAAGGACCT
CAACAACAA
Found at i:94623998 original size:30 final size:30
Alignment explanation
Indices: 94623957--94624023 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
94623947 GGGAAAATCC
* * *
94623957 AGAACTTCGACAAT-GAACGTGGATGAAACT
1 AGAAATTCGACAATGGAAC-TAGACGAAACT
*
94623987 AGAAATTCGACAATGGATCTAGACGAAACT
1 AGAAATTCGACAATGGAACTAGACGAAACT
94624017 AGAAATT
1 AGAAATT
94624024 TTAGAATGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 29 0.91
31 3 0.09
ACGTcount: A:0.43, C:0.15, G:0.21, T:0.21
Consensus pattern (30 bp):
AGAAATTCGACAATGGAACTAGACGAAACT
Found at i:94628377 original size:34 final size:34
Alignment explanation
Indices: 94628339--94628403 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
94628329 TCTAATACTA
94628339 TTATTGTAATAGGCTAAAGCCCACACTGATATTG
1 TTATTGTAATAGGCTAAAGCCCACACTGATATTG
* * *
94628373 TTATTGTAATGGGCTTAGGCCCACACTGATA
1 TTATTGTAATAGGCTAAAGCCCACACTGATA
94628404 CTGGACTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.32
Consensus pattern (34 bp):
TTATTGTAATAGGCTAAAGCCCACACTGATATTG
Found at i:94635936 original size:21 final size:21
Alignment explanation
Indices: 94635897--94635937 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
94635887 AAGTGTACTG
**
94635897 TACTGGCAGCTCTGTTGCAAT
1 TACTGGCAGCTCTACTGCAAT
94635918 TACTGGCAGCTCTACTGCAA
1 TACTGGCAGCTCTACTGCAA
94635938 ACACTGATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (21 bp):
TACTGGCAGCTCTACTGCAAT
Found at i:94635943 original size:21 final size:21
Alignment explanation
Indices: 94635898--94635943 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
94635888 AGTGTACTGT
** **
94635898 ACTGGCAGCTCTGTTGCAATT
1 ACTGGCAGCTCTACTGCAAAC
94635919 ACTGGCAGCTCTACTGCAAAC
1 ACTGGCAGCTCTACTGCAAAC
94635940 ACTG
1 ACTG
94635944 ATTAGTGTCG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (21 bp):
ACTGGCAGCTCTACTGCAAAC
Found at i:94638370 original size:4 final size:4
Alignment explanation
Indices: 94638361--94638402 Score: 75
Period size: 4 Copynumber: 10.5 Consensus size: 4
94638351 CATGTATATT
*
94638361 TTGA TTGA TTGA TTGA TTGA TTGG TTGA TTGA TTGA TTGA TT
1 TTGA TTGA TTGA TTGA TTGA TTGA TTGA TTGA TTGA TTGA TT
94638403 TTCAATTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.21, C:0.00, G:0.26, T:0.52
Consensus pattern (4 bp):
TTGA
Found at i:94638579 original size:12 final size:12
Alignment explanation
Indices: 94638562--94638607 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
94638552 TTAGATTTTA
94638562 TTATTATTATTG
1 TTATTATTATTG
94638574 TTATTATTCATT-
1 TTATTATT-ATTG
94638586 TTATTAGTTATTG
1 TTATTA-TTATTG
94638599 -TATT-TTATT
1 TTATTATTATT
94638608 TTCTTTGGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
10 5 0.16
12 21 0.68
13 5 0.16
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.67
Consensus pattern (12 bp):
TTATTATTATTG
Found at i:94643773 original size:43 final size:43
Alignment explanation
Indices: 94643603--94643774 Score: 138
Period size: 43 Copynumber: 4.0 Consensus size: 43
94643593 CATAAGATTC
* * * *
94643603 CGATATGTGATTTCATGTAAGACCACGTTTGGGA-AGTTGGCAT
1 CGATATTTGATTACATGTAAGACCACGTCTGAGACA-TTGGCAT
* * * * *
94643646 CGAT-TTAAGATTTACATGTAAGACCATGTCTGTGACATCGACAT
1 CGATATT-TGA-TTACATGTAAGACCACGTCTGAGACATTGGCAT
*** * *
94643690 CG-TATTTGATTTTGTGTAAGACC-CTGTCT-AGGAAAGTGGCAT
1 CGATATTTGATTACATGTAAGACCAC-GTCTGA-GACATTGGCAT
94643732 CGATATTTGATTACATGTAAGACCACGTCTGAGACATTGGCAT
1 CGATATTTGATTACATGTAAGACCACGTCTGAGACATTGGCAT
94643775 TGTACGAGCT
Statistics
Matches: 97, Mismatches: 23, Indels: 18
0.70 0.17 0.13
Matches are distributed among these distances:
42 25 0.26
43 40 0.41
44 31 0.32
45 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (43 bp):
CGATATTTGATTACATGTAAGACCACGTCTGAGACATTGGCAT
Found at i:94647960 original size:51 final size:49
Alignment explanation
Indices: 94647896--94648394 Score: 250
Period size: 51 Copynumber: 10.6 Consensus size: 49
94647886 TCTATCATAG
* * * *
94647896 CAAATCTTCTCTCCCTGAAGTTGCAGTGGAATAAACTAAAGCTACAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTAAA-CTA-AAGTTA
* * **
94647947 CAAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAA--AATAG--A
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTAAACTAA-AGTTA
* * * * **
94647993 -AAATCTTATCTCTCTGAAATTGCAATAGAGCAGATTAAAGCT--A--T-
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTAAA-CTAAAGTTA
* ** * * *
94648037 -AAACCTTAGT-TCCCTGAAGTTGCAGTGGAGCAGATTGAA-GATAG---
1 CAAATCTTA-TCTCCCTGAAGTTGCAGTGGAATAGATTAAACTAAAGTTA
* * * * *
94648081 CGAATCTTATTTTCCTGAAGTTGTAGTGGAATAGATTAAAGCTACAAATTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTAAA-CTA-AAGTTA
* ** * *
94648132 CAAATCTTATCTCACTGAAGTTGCA---G--TAGAGCAAATTGAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTAAACTAAAGTTA
* * *
94648176 CAGATCTTATCTCCCTGAAGTTGCAGTGGAGTAGA-T---C-AAAGATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTAAACTAAAGTTA
** * *
94648220 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-GA--AAA--TG
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTAAACTAAAGTTA
* *
94648265 CTAATCTTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAGCTACAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTAAA-CTA-AAGTTA
* * * * * *
94648316 TAAGTCTTATTTCCCTGAAGTTGAAGTGGAACAAATTAAAGCTACAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTAAA-CTA-AAGTTA
**
94648367 CAAATCTTATCTCGTTGAAGTTGCAGTG
1 CAAATCTTATCTCCCTGAAGTTGCAGTG
94648395 TGGTAGATTG
Statistics
Matches: 350, Mismatches: 65, Indels: 66
0.73 0.14 0.14
Matches are distributed among these distances:
44 99 0.28
45 103 0.29
46 9 0.03
47 6 0.02
48 6 0.02
49 6 0.02
51 121 0.35
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.30
Consensus pattern (49 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTAAACTAAAGTTA
Found at i:94648099 original size:89 final size:89
Alignment explanation
Indices: 94647941--94648308 Score: 368
Period size: 89 Copynumber: 4.1 Consensus size: 89
94647931 CTAAAGCTAC
* * * *
94647941 AAGCTA-CAAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAAAATAGAAAATCTTATCTC
1 AAGCTAGCAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAAATAG-CAATCTTATTTC
* * * * **
94648005 TCTGAAATTGCAATAGAGCAGATTA
65 CCTGAAGTTGCAGTGGAATAGATTA
* * * *
94648030 AAGCTA-TAAACCTTAGT-TCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTT
1 AAGCTAGCAAATCTTA-TCTCCCTGAAGTTGCAGTAGAGCAGATTGAAAATAGC-AATCTTATTT
* *
94648093 TCCTGAAGTTGTAGTGGAATAGATTA
64 CCCTGAAGTTGCAGTGGAATAGATTA
* * * **
94648119 AAGCTACAAATTACAAATCTTATCTCACTGAAGTTGCAGTAGAGCAAATTGAAGTTA-CAGATCT
1 AAGCT----A--GCAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAAATAGCA-ATCT
* * *
94648183 TATCTCCCTGAAGTTGCAGTGGAGTAGATCA
59 TATTTCCCTGAAGTTGCAGTGGAATAGATTA
* *
94648214 AAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAAT-GCTAATCTTATTTC
1 AAGCTAGCAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAAATAGC-AATCTTATTTC
94648278 CCTGAAGTTGCAGTGGAATAGATTA
65 CCTGAAGTTGCAGTGGAATAGATTA
94648303 AAGCTA
1 AAGCTA
94648309 CAAGTTATAA
Statistics
Matches: 228, Mismatches: 38, Indels: 26
0.78 0.13 0.09
Matches are distributed among these distances:
89 151 0.66
90 2 0.01
91 1 0.00
93 1 0.00
94 1 0.00
95 36 0.16
96 36 0.16
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.30
Consensus pattern (89 bp):
AAGCTAGCAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAAATAGCAATCTTATTTCC
CTGAAGTTGCAGTGGAATAGATTA
Found at i:94648257 original size:140 final size:134
Alignment explanation
Indices: 94647947--94648262 Score: 364
Period size: 140 Copynumber: 2.3 Consensus size: 134
94647937 CTACAAGCTA
* * *
94647947 CAAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAAAATAGAAAATCTTATCTCTCTGAAA
1 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAAAAAGAAAATCTTATCTCACTGAAA
* * **
94648012 TTGCAATAGAGCAGATTAAAGCTATAAACCTTAGTTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
66 TTGCAATAGAGCAAATTAAAGCTACAAACCTTAGTTCCCTGAAGTTGCAGTGGAGCAGATCAAAG
94648077 ATAG
131 ATAG
* * * ** *
94648081 CGAATCTTATTTTCCTGAAGTTGTAGTGGAATAGATTAAAGCTACAAATTACAAATCTTATCTCA
1 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAA---A-AAA-GA-AAATCTTATCTCA
* * * * * * *
94648146 CTGAAGTTGCAGTAGAGCAAATTGAAGTTACAGATCTTA-TCTCCCTGAAGTTGCAGTGGAGTAG
60 CTGAAATTGCAATAGAGCAAATTAAAGCTACAAACCTTAGT-TCCCTGAAGTTGCAGTGGAGCAG
94648210 ATCAAAGATAG
124 ATCAAAGATAG
* *
94648221 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAA
1 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAAA
94648263 TGCTAATCTT
Statistics
Matches: 148, Mismatches: 27, Indels: 12
0.79 0.14 0.06
Matches are distributed among these distances:
134 34 0.23
136 1 0.01
137 2 0.01
138 2 0.01
139 2 0.01
140 107 0.72
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (134 bp):
CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAAAAAGAAAATCTTATCTCACTGAAA
TTGCAATAGAGCAAATTAAAGCTACAAACCTTAGTTCCCTGAAGTTGCAGTGGAGCAGATCAAAG
ATAG
Found at i:94648496 original size:44 final size:44
Alignment explanation
Indices: 94648365--94648501 Score: 159
Period size: 44 Copynumber: 3.1 Consensus size: 44
94648355 AGCTACAAGT
* * *
94648365 TACAAATCTTATCTCGTTGAAGTTGCAGTGTG-GTAGATTGAAGA
1 TACAAATCTTATCTCCTTGAAGTTGCAGTG-GAGCAGATTGAAGC
* * *
94648409 TACAAATGTTATTTCCTTGAAGTTGTAGTGGAGCAGATTGAAGC
1 TACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGC
* * * *
94648453 TACTAATCTTATCTCCCTGAAGTTGCACTGGAGCAAATTGAAGC
1 TACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGC
*
94648497 GACAA
1 TACAA
94648502 TTACTATACC
Statistics
Matches: 77, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
43 1 0.01
44 76 0.99
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (44 bp):
TACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGC
Found at i:94649790 original size:22 final size:23
Alignment explanation
Indices: 94649746--94649791 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
94649736 CCATAGCTTG
*
94649746 TATGAGCTTATCGTTTCAGCTCT
1 TATGAGCTTATCGTTTCAACTCT
94649769 TATGAGCTTA-C-TATTCAACTCT
1 TATGAGCTTATCGT-TTCAACTCT
94649791 T
1 T
94649792 CGAAGCTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 1 0.05
22 10 0.48
23 10 0.48
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (23 bp):
TATGAGCTTATCGTTTCAACTCT
Found at i:94652366 original size:25 final size:27
Alignment explanation
Indices: 94652329--94652382 Score: 69
Period size: 25 Copynumber: 2.1 Consensus size: 27
94652319 GAGAGAAAAG
*
94652329 AAGAGAAAGAAAT-TTTTTTTTC-TAA
1 AAGAGAAAGAAATGATTTTTTTCTTAA
94652354 AAGAG-AAGCAAATGATTTTTTTCTTAA
1 AAGAGAAAG-AAATGATTTTTTTCTTAA
94652381 AA
1 AA
94652383 TTTCTGCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 3 0.12
25 9 0.36
26 8 0.32
27 5 0.20
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.37
Consensus pattern (27 bp):
AAGAGAAAGAAATGATTTTTTTCTTAA
Found at i:94653011 original size:24 final size:25
Alignment explanation
Indices: 94652974--94653025 Score: 65
Period size: 24 Copynumber: 2.1 Consensus size: 25
94652964 TATTTTTACA
94652974 ATTGGCCTTTTTTATATT-TTT-TTT
1 ATTGGCCTTTTTTAT-TTATTTATTT
94652998 ATTGTGCC-TTTTTATTTATTTATTT
1 ATTG-GCCTTTTTTATTTATTTATTT
94653023 ATT
1 ATT
94653026 TACTATTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
23 2 0.08
24 14 0.56
25 9 0.36
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (25 bp):
ATTGGCCTTTTTTATTTATTTATTT
Found at i:94653074 original size:12 final size:11
Alignment explanation
Indices: 94653057--94653095 Score: 51
Period size: 12 Copynumber: 3.3 Consensus size: 11
94653047 AATTTAGATA
94653057 TTATTATTATT
1 TTATTATTATT
94653068 GTTATTATTCATT
1 -TTATTATT-ATT
94653081 TTATTAGTTATT
1 TTATTA-TTATT
94653093 TTA
1 TTA
94653096 ATTTTTTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 20 0.80
13 5 0.20
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.67
Consensus pattern (11 bp):
TTATTATTATT
Found at i:94653099 original size:18 final size:18
Alignment explanation
Indices: 94653063--94653100 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
94653053 GATATTATTA
*
94653063 TTATTGTTATTATTCATT
1 TTATTGTTATTATTAATT
94653081 TTATTAGTTATT-TTAATT
1 TTATT-GTTATTATTAATT
94653099 TT
1 TT
94653101 TTCTTTGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (18 bp):
TTATTGTTATTATTAATT
Found at i:94654552 original size:25 final size:25
Alignment explanation
Indices: 94654524--94654580 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
94654514 CAATTGGTCA
* *
94654524 AATTTTGTTTTAATTAATA-TTTTTT
1 AATTTTATTTTAACTAA-AGTTTTTT
94654549 AATTTTATTTTAACTAAAGTTTTTT
1 AATTTTATTTTAACTAAAGTTTTTT
*
94654574 ATTTTTA
1 AATTTTA
94654581 AAAAGTATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 1 0.04
25 27 0.96
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.65
Consensus pattern (25 bp):
AATTTTATTTTAACTAAAGTTTTTT
Found at i:94659145 original size:21 final size:22
Alignment explanation
Indices: 94659114--94659158 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
94659104 TTTTATAAAA
94659114 TTTTATAAAAATAAAT-TAGTTT
1 TTTTATAAAAA-AAATATAGTTT
*
94659136 TTTTAT-AAAAAATTATAGTTT
1 TTTTATAAAAAAAATATAGTTT
94659157 TT
1 TT
94659159 AAAATAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 3 0.14
21 12 0.57
22 6 0.29
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (22 bp):
TTTTATAAAAAAAATATAGTTT
Found at i:94659206 original size:9 final size:10
Alignment explanation
Indices: 94659164--94659204 Score: 82
Period size: 10 Copynumber: 4.1 Consensus size: 10
94659154 TTTTTAAAAT
94659164 AATTTTTATA
1 AATTTTTATA
94659174 AATTTTTATA
1 AATTTTTATA
94659184 AATTTTTATA
1 AATTTTTATA
94659194 AATTTTTATA
1 AATTTTTATA
94659204 A
1 A
94659205 TTCTAAATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
AATTTTTATA
Found at i:94670324 original size:23 final size:22
Alignment explanation
Indices: 94670281--94670338 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
94670271 AAAAGGTATC
* *
94670281 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
94670302 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
94670325 TGCATATCATATCT
1 TACAAATCATATCT
94670339 AAGATTGTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:94670341 original size:19 final size:19
Alignment explanation
Indices: 94670317--94670407 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
94670307 AATCATATCT
94670317 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
94670336 TCTAAGATTGTA-ATCATA
1 TCTAAGATTGCATATCATA
94670354 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
94670371 TCTAAGATTGCATGTCATA
1 TCTAAGATTGCATATCATA
94670390 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
94670408 TGAAGATTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 34 0.52
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:94670960 original size:64 final size:64
Alignment explanation
Indices: 94670881--94671000 Score: 240
Period size: 64 Copynumber: 1.9 Consensus size: 64
94670871 ACAGGGAATC
94670881 CAGAAACCGTTCTGGCCCTGTCTCACAAGAACCTGAATATCTCTTAACATACTATCCATATGAT
1 CAGAAACCGTTCTGGCCCTGTCTCACAAGAACCTGAATATCTCTTAACATACTATCCATATGAT
94670945 CAGAAACCGTTCTGGCCCTGTCTCACAAGAACCTGAATATCTCTTAACATACTATC
1 CAGAAACCGTTCTGGCCCTGTCTCACAAGAACCTGAATATCTCTTAACATACTATC
94671001 NNNNNNNNNN
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 56 1.00
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (64 bp):
CAGAAACCGTTCTGGCCCTGTCTCACAAGAACCTGAATATCTCTTAACATACTATCCATATGAT
Found at i:94680866 original size:45 final size:45
Alignment explanation
Indices: 94680799--94681022 Score: 229
Period size: 45 Copynumber: 4.9 Consensus size: 45
94680789 CGATATCTAC
* * *
94680799 TATCTTTGATCTGCTTCCCGTCTAATACAGAGACGCCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
*
94680844 TATCTTCGATCTGCTCCTCGTCTAATACAGAGATGCCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
* * *
94680889 TATCTCCAATTTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
* * * * * * * * *
94680934 CATCTTGGATCTGCT--TCGATGTAA-ACACATGAAGGTCAGATCTAT
1 TATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ATGCCAAATCTGT
*
94680979 TATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATC
1 TA--TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
94681023 ATCTTGGATC
Statistics
Matches: 142, Mismatches: 29, Indels: 14
0.77 0.16 0.08
Matches are distributed among these distances:
43 6 0.04
44 5 0.04
45 102 0.72
47 18 0.13
48 5 0.04
49 6 0.04
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (45 bp):
TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
Found at i:94681091 original size:78 final size:78
Alignment explanation
Indices: 94680962--94681256 Score: 430
Period size: 78 Copynumber: 3.8 Consensus size: 78
94680952 ATGTAAACAC
** * *
94680962 ATGAAGGTCAGATCTATTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCT
*
94681027 TGGATCTGCTTCA
66 TGGATCTACTTCA
* *
94681040 ATGAAGGTCCA-ATCTGTTATGTCTTTGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATC
*
94681104 TTGGATCCACTTCA
65 TTGGATCTACTTCA
* * * *
94681118 ATGAAGGTCAGATCTGCTGTGTCTTCAATCTGCTCCCTGTCTAATATAGAGATACCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCT
94681183 TGGATCTACTTCA
66 TGGATCTACTTCA
* * * *
94681196 ATAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATC
94681257 TGTTTCTTCG
Statistics
Matches: 194, Mismatches: 21, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
77 2 0.01
78 190 0.98
79 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCT
TGGATCTACTTCA
Found at i:94693106 original size:17 final size:17
Alignment explanation
Indices: 94693084--94693116 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
94693074 GATATGATAC
94693084 TAAAAT-TATTAAAAAAT
1 TAAAATATA-TAAAAAAT
94693101 TAAAATATATAAAAAA
1 TAAAATATATAAAAAA
94693117 AAGGAAACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAAATATATAAAAAAT
Found at i:94693117 original size:18 final size:17
Alignment explanation
Indices: 94693084--94693117 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
94693074 GATATGATAC
*
94693084 TAAAATTATTAAAAAAT
1 TAAAATTATAAAAAAAT
94693101 TAAAATATATAAAAAAA
1 TAAAAT-TATAAAAAAA
94693118 AGGAAACATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAATTATAAAAAAAT
Found at i:94693384 original size:22 final size:21
Alignment explanation
Indices: 94693349--94693424 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
94693339 AAAAGGTATC
* *
94693349 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
94693370 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
94693393 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
94693412 TGC-AATCATATCT
1 TACAAATCATATCT
94693425 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:94693409 original size:19 final size:19
Alignment explanation
Indices: 94693385--94693472 Score: 155
Period size: 19 Copynumber: 4.8 Consensus size: 19
94693375 AATCATATCT
94693385 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
94693404 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
94693422 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
94693439 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
94693458 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
94693473 TATTGAAGAT
Statistics
Matches: 66, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 34 0.52
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:94693441 original size:35 final size:37
Alignment explanation
Indices: 94693378--94693472 Score: 144
Period size: 35 Copynumber: 2.6 Consensus size: 37
94693368 ATTACAAAAT
94693378 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
94693414 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
94693449 CATATCATATCTAAGATTGCATAT
1 CATATCATATCTAAGATTG-ATAT
94693473 TATTGAAGAT
Statistics
Matches: 54, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.41
36 19 0.35
37 10 0.19
38 3 0.06
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:94693472 original size:14 final size:15
Alignment explanation
Indices: 94693399--94693454 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
94693389 AGATTGCATA
94693399 TCATATCTAAGATTG
1 TCATATCTAAGATTG
94693414 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
94693432 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
94693449 -CATATC
1 TCATATC
94693455 ATATCTAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:94693631 original size:21 final size:20
Alignment explanation
Indices: 94693594--94693632 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
94693584 TTGGACTTCA
**
94693594 TTTTTTTTTGGGTTTATTAT
1 TTTTTTTTTGGACTTATTAT
94693614 TTTTGTTTTTGGACTTATT
1 TTTT-TTTTTGGACTTATT
94693633 TCTGGGCCCG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTGGACTTATTAT
Found at i:94696706 original size:18 final size:19
Alignment explanation
Indices: 94696663--94696707 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
94696653 TTTAAAAGTG
*
94696663 CTTTTGAAGCCAAAAACAT
1 CTTTTCAAGCCAAAAACAT
* *
94696682 ATTTTCAAGCC-AAATCAT
1 CTTTTCAAGCCAAAAACAT
94696700 CTTTTCAA
1 CTTTTCAA
94696708 ATTGGCTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.38, C:0.22, G:0.07, T:0.33
Consensus pattern (19 bp):
CTTTTCAAGCCAAAAACAT
Found at i:94702541 original size:41 final size:41
Alignment explanation
Indices: 94702370--94702529 Score: 186
Period size: 41 Copynumber: 3.9 Consensus size: 41
94702360 GGGTCTAAAT
94702370 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAA
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAA
* * * * *
94702411 CCGAACTTAGTTTCGAAGGGCTTTAGAGCCAGTG-TCATAA
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAA
* *
94702451 CCG-GACTTAGT-TCCGAAGGGCCTTTGAGCCAGTGGTCTAAT--
1 CCGAG-CTTGGTCT-CGAAGGGCTTTTGAGCCAGT-G-CTAATAA
94702492 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAA
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAA
94702530 GAATCGGGCT
Statistics
Matches: 101, Mismatches: 11, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
39 5 0.05
40 33 0.33
41 58 0.57
42 2 0.02
43 3 0.03
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.27
Consensus pattern (41 bp):
CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAA
Found at i:94710158 original size:18 final size:19
Alignment explanation
Indices: 94710121--94710160 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
94710111 ATTATGTATT
94710121 TGAATAGAAATAAAAGAAA
1 TGAATAGAAATAAAAGAAA
* *
94710140 TGAATAGGAA-AAGAGAAA
1 TGAATAGAAATAAAAGAAA
94710158 TGA
1 TGA
94710161 GAAACATTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.62, C:0.00, G:0.23, T:0.15
Consensus pattern (19 bp):
TGAATAGAAATAAAAGAAA
Found at i:94710251 original size:6 final size:6
Alignment explanation
Indices: 94710243--94710281 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
94710233 CTAAAAGTGG
*
94710243 AAATGG AAATGA AAATGA AAATGA AAATGA AAATAGA AA
1 AAATGA AAATGA AAATGA AAATGA AAATGA AAAT-GA AA
94710282 TGATCCAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
6 27 0.87
7 4 0.13
ACGTcount: A:0.67, C:0.00, G:0.18, T:0.15
Consensus pattern (6 bp):
AAATGA
Found at i:94710395 original size:26 final size:26
Alignment explanation
Indices: 94710359--94710420 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 26
94710349 ACATATTTTC
* **
94710359 TCAAATTTTTACCTTGAGAAAAATCA
1 TCAAAATTTTACCAGGAGAAAAATCA
* *
94710385 TCAAAATTTTACCAGGGGTAAAATCA
1 TCAAAATTTTACCAGGAGAAAAATCA
94710411 TCAAAATTTT
1 TCAAAATTTT
94710421 GTTGTGGATA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.34
Consensus pattern (26 bp):
TCAAAATTTTACCAGGAGAAAAATCA
Found at i:94722928 original size:32 final size:32
Alignment explanation
Indices: 94722892--94722956 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
94722882 TGTATGCATT
94722892 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
94722924 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
94722956 T
1 T
94722957 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:94732344 original size:16 final size:16
Alignment explanation
Indices: 94732319--94732365 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
94732309 TAACCCTATA
*
94732319 TATATATTTTTATTAT
1 TATATTTTTTTATTAT
94732335 TATATTTTTTTA-TAT
1 TATATTTTTTTATTAT
*
94732350 TGTTATTTGTTTTATT
1 T-ATATTT-TTTTATT
94732366 TTTAACCTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 4 0.15
16 16 0.62
17 5 0.19
18 1 0.04
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.72
Consensus pattern (16 bp):
TATATTTTTTTATTAT
Found at i:94732350 original size:18 final size:18
Alignment explanation
Indices: 94732325--94732447 Score: 69
Period size: 20 Copynumber: 6.7 Consensus size: 18
94732315 TATATATATA
94732325 TTTT-TATTATTATATTT
1 TTTTATATTATTATATTT
* *
94732342 TTTTATATTGTTAT-TTG
1 TTTTATATTATTATATTT
94732359 TTTTAT-TT-TTA-ACCTTAT
1 TTTTATATTATTATA--TT-T
94732377 TTTTATATTA-TATATTAT
1 TTTTATATTATTATATT-T
* *
94732395 ATAATTATTTTATTATATATT
1 -T-TTTATATTATTATAT-TT
*
94732416 ATTTATATTATTATTATTT
1 TTTTATATTATTA-TATTT
*
94732435 ATTATATATTATT
1 -TTTTATATTATT
94732448 TTCACAAATT
Statistics
Matches: 82, Mismatches: 10, Indels: 25
0.70 0.09 0.21
Matches are distributed among these distances:
15 3 0.04
16 2 0.02
17 14 0.17
18 18 0.22
19 17 0.21
20 21 0.26
21 6 0.07
22 1 0.01
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTATATTATTATATTT
Found at i:94732413 original size:25 final size:25
Alignment explanation
Indices: 94732377--94732446 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 25
94732367 TTAACCTTAT
94732377 TTTTA-TATTATATATTATATAATTA
1 TTTTATTATTATATATTATAT-ATTA
94732402 TTTTATTA-TATATTATT-TATATTA
1 TTTTATTATTATA-TATTATATATTA
94732426 TTATTATTTATTATATATTAT
1 TT-TTA-TTATTATATATTAT
94732447 TTTCACAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
24 6 0.15
25 15 0.38
26 13 0.33
27 5 0.13
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (25 bp):
TTTTATTATTATATATTATATATTA
Found at i:94732418 original size:3 final size:3
Alignment explanation
Indices: 94732373--94732631 Score: 80
Period size: 3 Copynumber: 84.0 Consensus size: 3
94732363 ATTTTTAACC
* *
94732373 TTA TTT TTA -TA TTA TATA TTA -TA TAA TTA TT- TTA TTA TATA TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
**
94732417 TT- TATA TTA TTA TTA TTTA TTA TATA TTA TT- TTCA CAAA TTA TTA
1 TTA T-TA TTA TTA TTA -TTA TTA T-TA TTA TTA TT-A -TTA TTA TTA
* * * *
94732462 TT- TTA -CA TTA TTA TTTA TATA TTA TTG TTA -TA TTT TTA CTT- GTA
1 TTA TTA TTA TTA TTA -TTA T-TA TTA TTA TTA TTA TTA TTA -TTA TTA
* * *
94732506 TTA TATA TTA TATA TTA TTT TTT TTA CATA TATA CTT- TTA -TA TTA
1 TTA T-TA TTA T-TA TTA TTA TTA TTA -TTA T-TA -TTA TTA TTA TTA
*
94732551 TATA TTA TAA TTA TT- TTA TTA TATA TTA TTA TGTCA TT- TT- TTA -TA
1 T-TA TTA TTA TTA TTA TTA TTA T-TA TTA TTA T-T-A TTA TTA TTA TTA
* * *
94732596 TTA TTA TACA TTT TTA TCTA TATA TTA TTA TCA TTA
1 TTA TTA T-TA TTA TTA T-TA T-TA TTA TTA TTA TTA
94732632 AAGGTTTTTA
Statistics
Matches: 192, Mismatches: 29, Indels: 70
0.66 0.10 0.24
Matches are distributed among these distances:
2 27 0.14
3 113 0.59
4 49 0.26
5 3 0.02
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:94732459 original size:30 final size:29
Alignment explanation
Indices: 94732373--94732480 Score: 86
Period size: 29 Copynumber: 3.8 Consensus size: 29
94732363 ATTTTTAACC
*
94732373 TTATTT-TTATAT-TATATATTATATAATTA
1 TTATTTATTATATAT-TAT-TTATAAAATTA
**
94732402 -T-TTTATTATATATTATTTATATTATTA
1 TTATTTATTATATATTATTTATAAAATTA
94732429 TTATTTATTATATATTATTT-TCACAAATTA
1 TTATTTATTATATATTATTTAT-A-AAATTA
*
94732459 TTA-TT-TTACATTATTATTTATA
1 TTATTTATTATA-TATTATTTATA
94732481 TATTATTGTT
Statistics
Matches: 67, Mismatches: 4, Indels: 16
0.77 0.05 0.18
Matches are distributed among these distances:
27 13 0.19
28 16 0.24
29 30 0.45
30 8 0.12
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (29 bp):
TTATTTATTATATATTATTTATAAAATTA
Found at i:94732461 original size:45 final size:46
Alignment explanation
Indices: 94732382--94732486 Score: 126
Period size: 45 Copynumber: 2.3 Consensus size: 46
94732372 CTTATTTTTA
** *
94732382 TATTATATATTATATAATTATTTTATTATATATTA-TTTATATTAT
1 TATTATATATTATATAATTATTTTAAAATATATTATTTTACATTAT
*
94732427 TATTATTTATTATAT-ATTATTTTCACAAAT-TATTATTTTACATTAT
1 TATTATATATTATATAATTATTTT-A-AAATATATTATTTTACATTAT
94732473 TATTTATATATTAT
1 TA-TTATATATTAT
94732487 TGTTATATTT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
44 8 0.16
45 20 0.39
46 13 0.25
47 10 0.20
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (46 bp):
TATTATATATTATATAATTATTTTAAAATATATTATTTTACATTAT
Found at i:94732528 original size:30 final size:29
Alignment explanation
Indices: 94732379--94732580 Score: 118
Period size: 28 Copynumber: 6.8 Consensus size: 29
94732369 AACCTTATTT
94732379 TTATATTATATATTATATAATTATTTTATTA
1 TTATATTATATATTATAT-ATTATTTT-TTA
*
94732410 -TATATTATTTATATTAT-TATTATTTATTA
1 TTATATTA--TATATTATATATTATTTTTTA
* *
94732439 -TATATTAT-T-TTCACAAATTATTATTTTACA
1 TTATATTATATATT-ATATATTATT-TTTT--A
*
94732469 TTATTATTTATATATTAT-TGTTATATTTTTA
1 TTA-TA-TTATATATTATATATTAT-TTTTTA
*
94732500 CTTGTATTATATATTATATATTATTTTTT-
1 -TTATATTATATATTATATATTATTTTTTA
* * * *
94732529 TTACA-TATATACTTTTATATTATATATTA
1 TTATATTATATA-TTATATATTATTTTTTA
*
94732558 -TA-ATTATTTTATTATATATTATT
1 TTATATTA-TATATTATATATTATT
94732581 ATGTCATTTT
Statistics
Matches: 135, Mismatches: 17, Indels: 41
0.70 0.09 0.21
Matches are distributed among these distances:
25 2 0.01
26 2 0.01
27 14 0.10
28 33 0.24
29 13 0.10
30 31 0.23
31 11 0.08
32 12 0.09
33 12 0.09
34 3 0.02
35 2 0.01
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (29 bp):
TTATATTATATATTATATATTATTTTTTA
Found at i:94732548 original size:65 final size:62
Alignment explanation
Indices: 94732373--94732592 Score: 190
Period size: 63 Copynumber: 3.5 Consensus size: 62
94732363 ATTTTTAACC
* * *
94732373 TTATTTTTATATTATATATTATATAATTATTTTATTATATAT-TA-TTTATATTATTATTAT-
1 TTATTATTATATTATATATTATAT-ATTATTTTTTTACATATATATTTTATATTATTATTATA
* * * *
94732433 TTATTA-TATATTAT-T-TTCACAAATTATTATTTTACAT-TATTATTTATATATTATTGTTATA
1 TTATTATTATATTATATATT-ATATATTATTTTTTTACATATA-TATTT-TATATTATTATTATA
* *
94732494 TTTTTACTTGTATTATATATTATATATTATTTTTTTTACATATATACTTTTATATTATATATTAT
1 TTATTA-TTATATTATATATTATATATTA-TTTTTTTACATATATA-TTTTATATTAT-TATTAT
94732559 A
62 A
*
94732560 --ATTATTTTATTATATATTAT-TATGTCATTTTTT
1 TTATTATTATATTATATATTATATAT-T-ATTTTTT
94732593 ATATTATTAT
Statistics
Matches: 129, Mismatches: 15, Indels: 29
0.75 0.09 0.17
Matches are distributed among these distances:
56 1 0.01
57 14 0.11
58 5 0.04
59 10 0.08
60 18 0.14
61 5 0.04
62 3 0.02
63 29 0.22
64 11 0.09
65 22 0.17
66 11 0.09
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (62 bp):
TTATTATTATATTATATATTATATATTATTTTTTTACATATATATTTTATATTATTATTATA
Found at i:94732591 original size:24 final size:22
Alignment explanation
Indices: 94732414--94732630 Score: 97
Period size: 21 Copynumber: 10.0 Consensus size: 22
94732404 TTATTATATA
94732414 TTATT-TATATTATTATT-A-T
1 TTATTATATATTATTATTCATT
94732433 TTATTATATATTATT-TTCACAAATT
1 TTATTATATATTATTATT--C--ATT
* * *
94732458 ATTATTTTACATTATTATTTATAT
1 -TTATTATATATTATTATTCAT-T
* *
94732482 ATTATTGT-TA-TATT-TTTACTT
1 -TTATTATATATTATTATTCA-TT
*
94732503 GTATTATATATTATATATT-ATT
1 TTATTATATATTAT-TATTCATT
* * * *
94732525 TT-TTTTACA-TA-TATACTTT
1 TTATTATATATTATTATTCATT
*
94732544 TATATTATATATTATAATT-ATT
1 T-TATTATATATTATTATTCATT
94732566 TTATTATATATTATTATGTCA-T
1 TTATTATATATTATTAT-TCATT
*
94732588 TT-TT-TATATTATTATACATTT
1 TTATTATATATTATTATTCA-TT
94732609 TTATCTATATATTATTA-TCATT
1 TTAT-TATATATTATTATTCATT
94732631 AAAGGTTTTT
Statistics
Matches: 151, Mismatches: 20, Indels: 51
0.68 0.09 0.23
Matches are distributed among these distances:
18 3 0.02
19 12 0.08
20 28 0.19
21 37 0.25
22 23 0.15
23 11 0.07
24 21 0.14
25 1 0.01
26 13 0.09
27 2 0.01
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (22 bp):
TTATTATATATTATTATTCATT
Found at i:94732610 original size:20 final size:22
Alignment explanation
Indices: 94732563--94732623 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 22
94732553 TATTATAATT
* *
94732563 ATTTTATTATATATTATTATGTC
1 ATTTTA-TCTATATTATTATGAC
94732586 ATTTT-T-TATATTATTAT-AC
1 ATTTTATCTATATTATTATGAC
94732605 ATTTTTATCTATA-TATTAT
1 A-TTTTATCTATATTATTAT
94732624 TATCATTAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
19 2 0.06
20 15 0.44
21 8 0.24
22 4 0.12
23 5 0.15
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (22 bp):
ATTTTATCTATATTATTATGAC
Found at i:94732815 original size:23 final size:21
Alignment explanation
Indices: 94732768--94732817 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 21
94732758 CATTAATTAC
*
94732768 TTATTTTATATTATTCTAAAT
1 TTATTTTATATTATTATAAAT
94732789 TTATATTTATATATATTATATAA-
1 TTAT-TTTATAT-TATTATA-AAT
94732812 TTATTT
1 TTATTT
94732818 CATTATAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 4 0.16
22 9 0.36
23 10 0.40
24 2 0.08
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
TTATTTTATATTATTATAAAT
Found at i:94732897 original size:17 final size:17
Alignment explanation
Indices: 94732877--94732942 Score: 66
Period size: 17 Copynumber: 3.9 Consensus size: 17
94732867 TTCTAAACCA
*
94732877 ATATATTTTATATTTTT
1 ATATATATTATATTTTT
*
94732894 ATATA-ATTATTATTCTT
1 ATATATATTA-TATTTTT
*
94732911 ATAAATA-TAT-TTTTT
1 ATATATATTATATTTTT
94732926 ATTATATATTATATTTT
1 A-TATATATTATATTTT
94732943 AAATTTATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
15 5 0.13
16 9 0.23
17 20 0.51
18 5 0.13
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
ATATATATTATATTTTT
Found at i:94739685 original size:35 final size:35
Alignment explanation
Indices: 94739611--94739686 Score: 98
Period size: 35 Copynumber: 2.2 Consensus size: 35
94739601 CTGTAACTGC
*
94739611 ATCTGTATTTGGAATAGGCTCAAGCCCGAATCTGT
1 ATCTGTATTTGGAATAGGCTCAAGCCCGAATCTGA
* * * * *
94739646 ATCTGTATTTGGCATAGGCTCAGGCTCGATTGTGA
1 ATCTGTATTTGGAATAGGCTCAAGCCCGAATCTGA
94739681 ATCTGT
1 ATCTGT
94739687 CTAATTTGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (35 bp):
ATCTGTATTTGGAATAGGCTCAAGCCCGAATCTGA
Found at i:94749254 original size:22 final size:22
Alignment explanation
Indices: 94749229--94749280 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
94749219 CACTAGGAAC
* *
94749229 TATGTGATCTGAGGTCATGAGA
1 TATGTGATCTAAGCTCATGAGA
*
94749251 TATGTGGTCTAAGCTCATGAGA
1 TATGTGATCTAAGCTCATGAGA
94749273 TATGTGAT
1 TATGTGAT
94749281 ATATGTTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.27, C:0.10, G:0.29, T:0.35
Consensus pattern (22 bp):
TATGTGATCTAAGCTCATGAGA
Found at i:94752431 original size:93 final size:93
Alignment explanation
Indices: 94752319--94752490 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
94752309 GCCCATAAGT
* *
94752319 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
94752384 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
94752412 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
94752477 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
94752491 CAAACATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:94752486 original size:46 final size:46
Alignment explanation
Indices: 94752311--94752486 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
94752301 TGTAACCCGC
* *
94752311 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
94752357 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
94752403 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
94752450 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
94752487 TGCCCAAACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:94761935 original size:41 final size:40
Alignment explanation
Indices: 94761888--94762014 Score: 128
Period size: 41 Copynumber: 3.1 Consensus size: 40
94761878 AGTCCAACTG
* * *
94761888 GCTTCATGCCGGTGTATATTATCAGGCTTTGTGCCTAGTAG
1 GCTTCATGTCGGTGTATATTATCAGG-TTTGTGCCTAGCAA
* * * * *
94761929 GTTTCATGTTGGTTTATATTATTAAGGTTTATGCCTAGCAA
1 GCTTCATGTCGGTGTATATTA-TCAGGTTTGTGCCTAGCAA
* * *
94761970 GCTTCGTTTCAGTGTATATTATCAGGTTTTGTGCCTAGCAA
1 GCTTCATGTCGGTGTATATTATCAGG-TTTGTGCCTAGCAA
94762011 GCTT
1 GCTT
94762015 TAAGTCAATG
Statistics
Matches: 68, Mismatches: 16, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
40 4 0.06
41 60 0.88
42 4 0.06
ACGTcount: A:0.20, C:0.16, G:0.23, T:0.42
Consensus pattern (40 bp):
GCTTCATGTCGGTGTATATTATCAGGTTTGTGCCTAGCAA
Found at i:94763830 original size:23 final size:23
Alignment explanation
Indices: 94763804--94763862 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
94763794 ATATGATGCA
94763804 TGTGTGGTGTGA-TCTGCTAAGCT
1 TGTGTGGTGT-ATTCTGCTAAGCT
* * *
94763827 TGTGTTGTGTATTCTGTTTAGCT
1 TGTGTGGTGTATTCTGCTAAGCT
94763850 T-TGTGGTGTATTC
1 TGTGTGGTGTATTC
94763863 GATATTGCCC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
22 12 0.39
23 19 0.61
ACGTcount: A:0.10, C:0.10, G:0.31, T:0.49
Consensus pattern (23 bp):
TGTGTGGTGTATTCTGCTAAGCT
Found at i:94774987 original size:16 final size:16
Alignment explanation
Indices: 94774935--94774987 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
94774925 TTATTTACTT
** *
94774935 TTTTATTTTACCTTAC
1 TTTTATTTTAGGTTAA
* *
94774951 TTTTACTTTAGGTTTA
1 TTTTATTTTAGGTTAA
*
94774967 GTTTATTTTAGGTTAA
1 TTTTATTTTAGGTTAA
94774983 TTTTA
1 TTTTA
94774988 ATTACGTTAA
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.21, C:0.08, G:0.09, T:0.62
Consensus pattern (16 bp):
TTTTATTTTAGGTTAA
Found at i:94777885 original size:21 final size:21
Alignment explanation
Indices: 94777859--94777899 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
94777849 ATCTGCTCAA
* *
94777859 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
94777880 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
94777900 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:94785904 original size:20 final size:21
Alignment explanation
Indices: 94785859--94785914 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 21
94785849 GAGAATATCA
*
94785859 AACCTAAAAATATGATAGAAG
1 AACCAAAAAATATGATAGAAG
*
94785880 TACCAAAAAATATG-T-GAAAG
1 AACCAAAAAATATGATAG-AAG
* *
94785900 AACCAGATAATATGA
1 AACCAAAAAATATGA
94785915 GGGAAAGTGA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
19 1 0.04
20 15 0.54
21 12 0.43
ACGTcount: A:0.55, C:0.11, G:0.14, T:0.20
Consensus pattern (21 bp):
AACCAAAAAATATGATAGAAG
Found at i:94786100 original size:19 final size:19
Alignment explanation
Indices: 94786066--94786103 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
94786056 GTACTTTTTA
*
94786066 TTTATTAGTATATAAAAAT
1 TTTATTAGTAGATAAAAAT
*
94786085 TTTATTAGTAGGTAAAAAT
1 TTTATTAGTAGATAAAAAT
94786104 GATATTTTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (19 bp):
TTTATTAGTAGATAAAAAT
Found at i:94786990 original size:21 final size:21
Alignment explanation
Indices: 94786933--94786992 Score: 59
Period size: 25 Copynumber: 2.7 Consensus size: 21
94786923 GATAAAGAGA
94786933 ATTATTTATGTTATTATATAAT
1 ATTATTTAT-TTATTATATAAT
*
94786955 GATTACATTAGTTTATATATATAAT
1 -ATTA-TTTA-TTTAT-TATATAAT
94786980 -TTATTTATTTATT
1 ATTATTTATTTATT
94786993 GATTCAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
20 1 0.03
21 5 0.16
22 3 0.09
23 7 0.22
24 7 0.22
25 9 0.28
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (21 bp):
ATTATTTATTTATTATATAAT
Found at i:94787054 original size:21 final size:21
Alignment explanation
Indices: 94787025--94787094 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
94787015 ATATATAATT
*
94787025 TTTTTATTATGATTAATATAA
1 TTTTAATTATGATTAATATAA
*
94787046 TTTTAATTATGATTTAATATCA
1 TTTTAATTATGA-TTAATATAA
* * * *
94787068 -TATAATTTTAAATAATATAA
1 TTTTAATTATGATTAATATAA
94787088 TTTTAAT
1 TTTTAAT
94787095 CATTTTATTC
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
20 7 0.18
21 24 0.62
22 8 0.21
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (21 bp):
TTTTAATTATGATTAATATAA
Found at i:94787085 original size:15 final size:15
Alignment explanation
Indices: 94787038--94787093 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
94787028 TTATTATGAT
94787038 TAATATAATTTT-AA
1 TAATATAATTTTAAA
*
94787052 T--TATGA-TTTAATA
1 TAATATAATTTTAA-A
*
94787065 TCATATAATTTTAAA
1 TAATATAATTTTAAA
94787080 TAATATAATTTTAA
1 TAATATAATTTTAA
94787094 TCATTTTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
11 3 0.09
12 5 0.15
13 2 0.06
14 1 0.03
15 18 0.53
16 5 0.15
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (15 bp):
TAATATAATTTTAAA
Found at i:94790922 original size:16 final size:17
Alignment explanation
Indices: 94790882--94790932 Score: 61
Period size: 16 Copynumber: 3.0 Consensus size: 17
94790872 GGATATTAAT
94790882 ATTAAT-ATATATTATA
1 ATTAATAATATATTATA
94790898 ATTTAAATAATATA-TATA
1 A-TT-AATAATATATTATA
*
94790916 ATTAATAATTTATTATA
1 ATTAATAATATATTATA
94790933 GGTTATTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 9 0.30
17 8 0.27
18 8 0.27
19 5 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTAATAATATATTATA
Found at i:94792914 original size:60 final size:60
Alignment explanation
Indices: 94792821--94792940 Score: 231
Period size: 60 Copynumber: 2.0 Consensus size: 60
94792811 CCTACTACAT
*
94792821 CAATTATGTATTTAACCAAATACATAATGACAACTAAGAATGTATTTACATGTCATTAAA
1 CAATTATGTATTTAACCAAAGACATAATGACAACTAAGAATGTATTTACATGTCATTAAA
94792881 CAATTATGTATTTAACCAAAGACATAATGACAACTAAGAATGTATTTACATGTCATTAAA
1 CAATTATGTATTTAACCAAAGACATAATGACAACTAAGAATGTATTTACATGTCATTAAA
94792941 TTTTTTTCCA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.33
Consensus pattern (60 bp):
CAATTATGTATTTAACCAAAGACATAATGACAACTAAGAATGTATTTACATGTCATTAAA
Found at i:94793438 original size:24 final size:24
Alignment explanation
Indices: 94793411--94793462 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
94793401 TTAGTAAGTC
*
94793411 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
94793435 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
94793459 AAAT
1 AAAT
94793463 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:94795408 original size:24 final size:24
Alignment explanation
Indices: 94795381--94795432 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
94795371 TTAGTAAGTC
*
94795381 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
94795405 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
94795429 AAAT
1 AAAT
94795433 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:94802526 original size:27 final size:26
Alignment explanation
Indices: 94802495--94802581 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 26
94802485 GCTCAGTTAT
* *
94802495 CAGATATTGTGATAGAGTCACCAGATA
1 CAGATATTGTGACAGAGCCACCAGA-A
* *
94802522 TAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGACAGAGCCACCAGAA
* *
94802548 CAGATATTTGTGGCACAGCCACCAGAAA
1 CAGATA-TTGTGACAGAGCCACCAG-AA
94802576 CAGATA
1 CAGATA
94802582 ATTTAGCAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
26 6 0.12
27 38 0.73
28 8 0.15
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.21
Consensus pattern (26 bp):
CAGATATTGTGACAGAGCCACCAGAA
Done.