Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 21 of 145
Found at i:6704974 original size:217 final size:217
Alignment explanation
Indices: 6704597--6705149 Score: 874
Period size: 217 Copynumber: 2.5 Consensus size: 217
6704587 TGCAGTCCAT
* * *
6704597 TCCACTGCAA-TGTCAGGGAGATAAGACTAGATACGATCTTCTCTCTGTAACTTCAGAGAGATAA
1 TCCACTGCAACT-TCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
*** * * **
6704661 GATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCCTTAATCTGTT
65 GATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCCTTAACCTACT
* **
6704726 CCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTTACTGCAACTTCAGGAGGA
130 CCACCGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGA
6704791 TAAGACTTGCTTACTTAGTCTGC
195 TAAGACTTGCTTACTTAGTCTGC
* *
6704814 TCCACTGCAACTTCAGGGAGATAAGACTAGATGCAATCTGCTCTCTGCAACTTCAGAGAGAAAAG
1 TCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAG
* * *
6704879 AGCCAAGATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAACCTACTC
66 ATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCCTTAACCTACTC
* * *
6704944 CACCGCCACTTTAGGGAGATAAGGTTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGAT
131 CACCGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGAT
*
6705009 AAGATTTGCTTACTTAGTCTGC
196 AAGACTTGCTTACTTAGTCTGC
*
6705031 TCTACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAG
1 TCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAG
*
6705096 ATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCC
66 ATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCC
6705150 ACCGATCCAT
Statistics
Matches: 306, Mismatches: 29, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
217 305 1.00
218 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (217 bp):
TCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAG
ATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCCTTAACCTACTC
CACCGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGAT
AAGACTTGCTTACTTAGTCTGC
Found at i:6717092 original size:18 final size:18
Alignment explanation
Indices: 6717065--6717120 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
6717055 TAAAAATATT
*
6717065 TATATGTATACATACGTA
1 TATATATATACATACGTA
*
6717083 TATATATATACA-A-GAA
1 TATATATATACATACGTA
* * *
6717099 TAAATATATATATACATA
1 TATATATATACATACGTA
6717117 TATA
1 TATA
6717121 GATTATAAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
16 12 0.41
17 2 0.07
18 15 0.52
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.38
Consensus pattern (18 bp):
TATATATATACATACGTA
Found at i:6717274 original size:23 final size:23
Alignment explanation
Indices: 6717235--6717304 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 23
6717225 AGATTTAAAT
6717235 AAAATAATCAAATATAAAAAGGAA
1 AAAATAATCAAA-ATAAAAAGGAA
* *
6717259 AAAATATTCAAAATAAAAAATGAA
1 AAAATAATCAAAAT-AAAAAGGAA
6717283 AATTAATTAATCAAAATAAAAA
1 AA--AA-TAATCAAAATAAAAA
6717305 AACTAATTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
23 2 0.05
24 21 0.54
26 7 0.18
27 9 0.23
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.21
Consensus pattern (23 bp):
AAAATAATCAAAATAAAAAGGAA
Found at i:6717498 original size:22 final size:23
Alignment explanation
Indices: 6717456--6717498 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
6717446 GGATCAAATT
* *
6717456 GAATTTTAAAATAAACTAAAAGC
1 GAATTTAAAAAAAAACTAAAAGC
6717479 GAATTTAAAAAAAAAC-AAAA
1 GAATTTAAAAAAAAACTAAAA
6717499 TAAACTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.65, C:0.07, G:0.07, T:0.21
Consensus pattern (23 bp):
GAATTTAAAAAAAAACTAAAAGC
Found at i:6718074 original size:28 final size:28
Alignment explanation
Indices: 6718030--6718084 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
6718020 CCGTAGCATA
* *
6718030 TAGATAACAACATATAATGAAATAACTG
1 TAGATAACAACAGATAAAGAAATAACTG
6718058 TAGATTAACAA-AGATAAAGAAATAACT
1 TAGA-TAACAACAGATAAAGAAATAACT
6718085 ATCAACCTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 18 0.75
29 6 0.25
ACGTcount: A:0.56, C:0.09, G:0.11, T:0.24
Consensus pattern (28 bp):
TAGATAACAACAGATAAAGAAATAACTG
Found at i:6719130 original size:43 final size:42
Alignment explanation
Indices: 6719022--6719204 Score: 285
Period size: 42 Copynumber: 4.3 Consensus size: 42
6719012 GTTTACAAAC
* *
6719022 AAAAACGCAGCTAAAGACCATGTTCTTTAGCGGCGCTAAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
*
6719064 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTATAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* *
6719106 TAAAAACACCGCTAAAGACGATGTTCTTTAGCGGCGCTTAGAA
1 -AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* *
6719149 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCACTTTGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
*
6719191 AGAAACGCCGCTAA
1 AAAAACGCCGCTAA
6719205 NNNNNNNNNN
Statistics
Matches: 129, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
42 90 0.70
43 39 0.30
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
Found at i:6719130 original size:85 final size:85
Alignment explanation
Indices: 6719022--6719182 Score: 286
Period size: 85 Copynumber: 1.9 Consensus size: 85
6719012 GTTTACAAAC
*
6719022 AAAAACGCAGCTAAAGACCATGTTCTTTAGCGGCGCTAAGAAAAAAACGCCGCTAAAGACCATGT
1 AAAAACACAGCTAAAGACCATGTTCTTTAGCGGCGCTAAGAAAAAAACGCCGCTAAAGACCATGT
6719087 TCTTTAGCGGCGCTTATAAT
66 TCTTTAGCGGCGCTTATAAT
* * *
6719107 AAAAACACCGCTAAAGACGATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCATGT
1 AAAAACACAGCTAAAGACCATGTTCTTTAGCGGCGCTAAGAAAAAAACGCCGCTAAAGACCATGT
6719172 TCTTTAGCGGC
66 TCTTTAGCGGC
6719183 ACTTTGAAAG
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 72 1.00
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (85 bp):
AAAAACACAGCTAAAGACCATGTTCTTTAGCGGCGCTAAGAAAAAAACGCCGCTAAAGACCATGT
TCTTTAGCGGCGCTTATAAT
Found at i:6719637 original size:21 final size:21
Alignment explanation
Indices: 6719611--6719681 Score: 106
Period size: 21 Copynumber: 3.4 Consensus size: 21
6719601 TTTTGCTCTG
*
6719611 CTCTGCTTCTCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
6719632 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * *
6719653 CGCTACTTCCCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
6719674 CTCTGCTT
1 CTCTGCTT
6719682 TAAGTTGTAG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.04, C:0.46, G:0.18, T:0.31
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:6720222 original size:37 final size:37
Alignment explanation
Indices: 6720167--6720253 Score: 138
Period size: 37 Copynumber: 2.4 Consensus size: 37
6720157 CCAGCTTCAG
* * *
6720167 GAGTCATGTAATTTGAAATCTTACCTTAATATTGTAT
1 GAGTTATGTAATTCGAAATCTTACATTAATATTGTAT
6720204 GAGTTATGTAATTCGAAATCTTACATTAATATTGTAT
1 GAGTTATGTAATTCGAAATCTTACATTAATATTGTAT
*
6720241 AAGTTATGTAATT
1 GAGTTATGTAATT
6720254 TATGTAAGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.34, C:0.08, G:0.14, T:0.44
Consensus pattern (37 bp):
GAGTTATGTAATTCGAAATCTTACATTAATATTGTAT
Found at i:6720411 original size:37 final size:37
Alignment explanation
Indices: 6720361--6720720 Score: 184
Period size: 37 Copynumber: 9.6 Consensus size: 37
6720351 ATAAGTTATG
* *
6720361 TAATATTATATAAGTTATGTAATTCGAAATTTTACCT
1 TAATATTGTATAAGTTATGTAATTCGAAATTTTATCT
*
6720398 TAATATTGTATAAGTTATGTAATTCGATATTTTATCT
1 TAATATTGTATAAGTTATGTAATTCGAAATTTTATCT
** * * * * *
6720435 TAGCATTATATAAGTTATGTAATTTATGTAA-GTTAT-G
1 TAATATTGTATAAGTTATGTAA-TT-CGAAATTTTATCT
* * * * ** *
6720472 TAAT-TAG-A-AATTTTATCTTAATAT-TATATAAGTAATCT
1 TAATATTGTATAA-GTTAT-GTAAT-TCGA-A-ATTTTATCT
* * *
6720510 TAATATTGTATGAGTTATGTAATTCGAAATCTTACCT
1 TAATATTGTATAAGTTATGTAATTCGAAATTTTATCT
* ** *
6720547 TAATATTGTATAAGTTATGTAATAT-TATATAAGTTAT-G
1 TAATATTGTATAAGTTATGTAAT-TCGA-A-ATTTTATCT
* * * ** ** *
6720585 TAAT-TCG-A-AATTTTATCTTAATATTATAAAAGTAATCT
1 TAATATTGTATAA-GTTAT-GT-A-ATTCGAAATTTTATCT
* *
6720623 TAATATTATATAAGTTATGTAATTCGAAATTTTACCT
1 TAATATTGTATAAGTTATGTAATTCGAAATTTTATCT
*
6720660 TAATATTGTATAAGTTATGTAATTCGATATTTTATCT
1 TAATATTGTATAAGTTATGTAATTCGAAATTTTATCT
* *
6720697 TAACATTATATAAGTTATGTAATT
1 TAATATTGTATAAGTTATGTAATT
6720721 TATGTAAGTT
Statistics
Matches: 242, Mismatches: 56, Indels: 50
0.70 0.16 0.14
Matches are distributed among these distances:
34 2 0.01
35 9 0.04
36 11 0.05
37 162 0.67
38 26 0.11
39 19 0.08
40 10 0.04
41 3 0.01
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.47
Consensus pattern (37 bp):
TAATATTGTATAAGTTATGTAATTCGAAATTTTATCT
Found at i:6720418 original size:93 final size:92
Alignment explanation
Indices: 6720303--6720504 Score: 296
Period size: 93 Copynumber: 2.2 Consensus size: 92
6720293 TATAAGTAAT
* * *
6720303 CTTAATATTGTATGAGTTATGTAATTCGAAATCTTACCTTAATATTGTATAAGTTATGTAATATT
1 CTTAATATTGTATAAGTTATGTAATTCGAAATCTTACCTTAACATTATATAAGTTATGTAAT-TT
*
6720368 ATATAAGTTATGTAATTCGAAATTTTAC
65 ATATAAGTTATGTAATTAGAAATTTTAC
* * * *
6720396 CTTAATATTGTATAAGTTATGTAATTCGATATTTTATCTTAGCATTATATAAGTTATGTAATTTA
1 CTTAATATTGTATAAGTTATGTAATTCGAAATCTTACCTTAACATTATATAAGTTATGTAATTTA
* *
6720461 TGTAAGTTATGTAATTAGAAATTTTAT
66 TATAAGTTATGTAATTAGAAATTTTAC
*
6720488 CTTAATATTATATAAGT
1 CTTAATATTGTATAAGT
6720505 AATCTTAATA
Statistics
Matches: 98, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
92 43 0.44
93 55 0.56
ACGTcount: A:0.36, C:0.06, G:0.11, T:0.47
Consensus pattern (92 bp):
CTTAATATTGTATAAGTTATGTAATTCGAAATCTTACCTTAACATTATATAAGTTATGTAATTTA
TATAAGTTATGTAATTAGAAATTTTAC
Found at i:6720524 original size:205 final size:205
Alignment explanation
Indices: 6720172--6720609 Score: 779
Period size: 205 Copynumber: 2.1 Consensus size: 205
6720162 TTCAGGAGTC
* * * *
6720172 ATGTAATTTGAAATCTTACCTTAATATTGTATGAGTTATGTAATTCGAAATCTTACATTAATATT
1 ATGTAATTCGAAATTTTACCTTAATATTGTATAAGTTATGTAATTCGAAATCTTACATTAACATT
*
6720237 GTATAAGTTATGTAATTTATGTAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAA
66 ATATAAGTTATGTAATTTATGTAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAA
6720302 TCTTAATATTGTATGAGTTATGTAATTCGAAATCTTACCTTAATATTGTATAAGTTATGTAATAT
131 TCTTAATATTGTATGAGTTATGTAATTCGAAATCTTACCTTAATATTGTATAAGTTATGTAATAT
6720367 TATATAAGTT
196 TATATAAGTT
* * *
6720377 ATGTAATTCGAAATTTTACCTTAATATTGTATAAGTTATGTAATTCGATATTTTATC-TTAGCAT
1 ATGTAATTCGAAATTTTACCTTAATATTGTATAAGTTATGTAATTCGAAATCTTA-CATTAACAT
6720441 TATATAAGTTATGTAATTTATGTAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTA
65 TATATAAGTTATGTAATTTATGTAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTA
6720506 ATCTTAATATTGTATGAGTTATGTAATTCGAAATCTTACCTTAATATTGTATAAGTTATGTAATA
130 ATCTTAATATTGTATGAGTTATGTAATTCGAAATCTTACCTTAATATTGTATAAGTTATGTAATA
6720571 TTATATAAGTT
195 TTATATAAGTT
*
6720582 ATGTAATTCGAAATTTTATCTTAATATT
1 ATGTAATTCGAAATTTTACCTTAATATT
6720610 ATAAAAGTAA
Statistics
Matches: 223, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
205 222 1.00
206 1 0.00
ACGTcount: A:0.36, C:0.06, G:0.11, T:0.47
Consensus pattern (205 bp):
ATGTAATTCGAAATTTTACCTTAATATTGTATAAGTTATGTAATTCGAAATCTTACATTAACATT
ATATAAGTTATGTAATTTATGTAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAA
TCTTAATATTGTATGAGTTATGTAATTCGAAATCTTACCTTAATATTGTATAAGTTATGTAATAT
TATATAAGTT
Found at i:6720549 original size:57 final size:57
Alignment explanation
Indices: 6720396--6720674 Score: 366
Period size: 57 Copynumber: 4.9 Consensus size: 57
6720386 GAAATTTTAC
* ** *
6720396 CTTAATATTGTATAAGTTATGTAATTCGATATTTTATCTTAGCATTATATAAGTTAT
1 CTTAATATTGTATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATAAGTAAT
* * * *
6720453 -GTAAT-TTATGTAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAAT
1 CTTAATATTGTATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATAAGTAAT
* * * * *
6720508 CTTAATATTGTATGAGTTATGTAATTCGAAATCTTACCTTAATATTGTATAAGTTAT
1 CTTAATATTGTATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATAAGTAAT
* * *
6720565 -GTAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATAAAAGTAAT
1 CTTAATATTGTATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATAAGTAAT
* * *
6720621 CTTAATATTATATAAGTTATGTAATTCGAAATTTTACCTTAATATTGTATAAGT
1 CTTAATATTGTATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATAAGT
6720675 TATGTAATTC
Statistics
Matches: 190, Mismatches: 29, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
55 43 0.23
56 56 0.29
57 91 0.48
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.47
Consensus pattern (57 bp):
CTTAATATTGTATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATAAGTAAT
Found at i:6720620 original size:113 final size:112
Alignment explanation
Indices: 6720396--6720683 Score: 468
Period size: 113 Copynumber: 2.6 Consensus size: 112
6720386 GAAATTTTAC
* * ** *
6720396 CTTAATATTGTATAAGTTATGTAATTCGATATTTTATCTTAGCATTATATAAGTTATGTAATTTA
1 CTTAATATTGTATAAGTTATGTAATTCGAAATTTTACCTTAATATTGTATAAGTTATGTAATTTA
* *
6720461 TGTAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAAT
66 TATAAGTTATGTAATTAGAAATTTTATCTTAATATTATAAAAGTAAT
* *
6720508 CTTAATATTGTATGAGTTATGTAATTCGAAATCTTACCTTAATATTGTATAAGTTATGTAATATT
1 CTTAATATTGTATAAGTTATGTAATTCGAAATTTTACCTTAATATTGTATAAGTTATGTAAT-TT
*
6720573 ATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATAAAAGTAAT
65 ATATAAGTTATGTAATTAGAAATTTTATCTTAATATTATAAAAGTAAT
*
6720621 CTTAATATTATATAAGTTATGTAATTCGAAATTTTACCTTAATATTGTATAAGTTATGTAATT
1 CTTAATATTGTATAAGTTATGTAATTCGAAATTTTACCTTAATATTGTATAAGTTATGTAATT
6720684 CGATATTTTA
Statistics
Matches: 162, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
112 56 0.35
113 106 0.65
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.47
Consensus pattern (112 bp):
CTTAATATTGTATAAGTTATGTAATTCGAAATTTTACCTTAATATTGTATAAGTTATGTAATTTA
TATAAGTTATGTAATTAGAAATTTTATCTTAATATTATAAAAGTAAT
Found at i:6720624 original size:20 final size:20
Alignment explanation
Indices: 6720599--6720637 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
6720589 TCGAAATTTT
6720599 ATCTTAATATTATAAAAGTA
1 ATCTTAATATTATAAAAGTA
*
6720619 ATCTTAATATTATATAAGT
1 ATCTTAATATTATAAAAGT
6720638 TATGTAATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (20 bp):
ATCTTAATATTATAAAAGTA
Found at i:6720668 original size:262 final size:260
Alignment explanation
Indices: 6720205--6720778 Score: 893
Period size: 262 Copynumber: 2.2 Consensus size: 260
6720195 ATATTGTATG
* * * * * *
6720205 AGTTATGTAATTCGAAATCTTA-CATTAATATTGTATAAGTTAT-GTAATTTATGTAAGTTATGT
1 AGTTATGTAATTAGAAATTTTATC-TTAATATTATATAAGTAATCTTAATAT-TGTAAGTTATGT
* * * * *
6720268 AATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATATTGTATGAGTTATGTAATTCGAA
64 AATTAGAAATCTTACCTTAATATTATATAAGTAATCGTAATATTATATAAGTTATGTAATTCGAA
* * *
6720333 ATCTTACCTTAATATTGTATAAGTTATGTAATATTATATAAGTTATGTAATTCGAAATTTTACCT
129 ATCTTACCTTAATATTATAAAAGTAATGTAATATTATATAAGTTATGTAATTCGAAATTTTACCT
*
6720398 TAATATTGTATAAGTTATGTAATTCGATATTTTATCTTAGCATTATATAAGTTATGTAATTTATG
194 TAATATTGTATAAGTTATGTAATTCGATATTTTATCTTAACATTATATAAGTTATGTAATTTATG
6720463 TA
259 TA
6720465 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATATTGTATGAGTTATGT
1 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATATTGTA--AGTTATGT
* * *
6720530 AATTCGAAATCTTACCTTAATATTGTATAAGTTAT-GTAATATTATATAAGTTATGTAATTCGAA
64 AATTAGAAATCTTACCTTAATATTATATAAGTAATCGTAATATTATATAAGTTATGTAATTCGAA
* * *
6720594 ATTTTATCTTAATATTATAAAAGTAATCTTAATATTATATAAGTTATGTAATTCGAAATTTTACC
129 ATCTTACCTTAATATTATAAAAGTAAT-GTAATATTATATAAGTTATGTAATTCGAAATTTTACC
6720659 TTAATATTGTATAAGTTATGTAATTCGATATTTTATCTTAACATTATATAAGTTATGTAATTTAT
193 TTAATATTGTATAAGTTATGTAATTCGATATTTTATCTTAACATTATATAAGTTATGTAATTTAT
6720724 GTA
258 GTA
6720727 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATATT
1 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATATT
6720779 NNNNNNNNNN
Statistics
Matches: 288, Mismatches: 21, Indels: 8
0.91 0.07 0.03
Matches are distributed among these distances:
260 41 0.14
261 54 0.19
262 193 0.67
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.47
Consensus pattern (260 bp):
AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATATTGTAAGTTATGTAA
TTAGAAATCTTACCTTAATATTATATAAGTAATCGTAATATTATATAAGTTATGTAATTCGAAAT
CTTACCTTAATATTATAAAAGTAATGTAATATTATATAAGTTATGTAATTCGAAATTTTACCTTA
ATATTGTATAAGTTATGTAATTCGATATTTTATCTTAACATTATATAAGTTATGTAATTTATGTA
Found at i:6720680 original size:94 final size:92
Alignment explanation
Indices: 6720566--6720766 Score: 303
Period size: 94 Copynumber: 2.2 Consensus size: 92
6720556 ATAAGTTATG
* *
6720566 TAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATAAAAGTAATCTTAATATTA
1 TAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAACATTATAAAAGTAAT-GTAAT-TTA
*
6720631 TATAAGTTATGTAATTCGAAATTTTACCT
64 TATAAGTTATGTAATTAGAAATTTTACCT
* * * * *
6720660 TAATATTGTATAAGTTATGTAATTCGATATTTTATCTTAACATTATATAAGTTATGTAATTTATG
1 TAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAACATTATAAAAGTAATGTAATTTATA
*
6720725 TAAGTTATGTAATTAGAAATTTTATCT
66 TAAGTTATGTAATTAGAAATTTTACCT
6720752 TAATATTATATAAGT
1 TAATATTATATAAGT
6720767 AATCTTAATA
Statistics
Matches: 97, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
92 43 0.44
93 4 0.04
94 50 0.52
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.47
Consensus pattern (92 bp):
TAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAACATTATAAAAGTAATGTAATTTATA
TAAGTTATGTAATTAGAAATTTTACCT
Found at i:6720699 original size:150 final size:149
Alignment explanation
Indices: 6720508--6720778 Score: 452
Period size: 149 Copynumber: 1.8 Consensus size: 149
6720498 TATAAGTAAT
* * *
6720508 CTTAATATTGTATGAGTTATGTAATTCGAAATCTTACCTTAATATTGTATAAGTTATGTAATATT
1 CTTAATATTGTATAAGTTATGTAATTCGAAATCTTACCTTAACATTATATAAGTTATGTAAT-TT
*
6720573 ATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATAAAAGTAATCTTAATATTATATAAGT
65 ATATAAGTTATGTAATTAGAAATTTTATCTTAATATTATAAAAGTAATCTTAATATTATATAAGT
6720638 TATGTAATTCGAAATTTTAC
130 TATGTAATTCGAAATTTTAC
* * *
6720658 CTTAATATTGTATAAGTTATGTAATTCGATATTTTATCTTAACATTATATAAGTTATGTAATTTA
1 CTTAATATTGTATAAGTTATGTAATTCGAAATCTTACCTTAACATTATATAAGTTATGTAATTTA
* *
6720723 TGTAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATATT
66 TATAAGTTATGTAATTAGAAATTTTATCTTAATATTATAAAAGTAATCTTAATATT
6720779 NNNNNNNNNN
Statistics
Matches: 112, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
149 56 0.50
150 56 0.50
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.47
Consensus pattern (149 bp):
CTTAATATTGTATAAGTTATGTAATTCGAAATCTTACCTTAACATTATATAAGTTATGTAATTTA
TATAAGTTATGTAATTAGAAATTTTATCTTAATATTATAAAAGTAATCTTAATATTATATAAGTT
ATGTAATTCGAAATTTTAC
Found at i:6720723 original size:18 final size:18
Alignment explanation
Indices: 6720702--6720738 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
6720692 TATCTTAACA
6720702 TTATATAAGTTATGTAAT
1 TTATATAAGTTATGTAAT
*
6720720 TTATGTAAGTTATGTAAT
1 TTATATAAGTTATGTAAT
6720738 T
1 T
6720739 AGAAATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (18 bp):
TTATATAAGTTATGTAAT
Found at i:6720733 original size:205 final size:203
Alignment explanation
Indices: 6720172--6720766 Score: 686
Period size: 205 Copynumber: 2.9 Consensus size: 203
6720162 TTCAGGAGTC
* * * ** * * * *
6720172 ATGTAATTTGAAATCTTACCTTAATATTGTATGAGTTATGTAATTCGAAATCTTA-CATTA-ATA
1 ATGTAATTCGAAATTTTACCTTAATATTATAAAAGTAATGTAATTCGATATGTTATC-GTACAT-
* *
6720235 TTGTATAAGTTATGTAATTTATGTAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGT
64 TAG-ATAAGTTATGTAATTTATATAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGT
6720300 AATCTTAATATTGTATGAGTTATGTAATTCGAAATCTTACCTTAATATTGTATAAGTTATGTAAT
128 AATCTTAATATTGTA-GAGTTATGTAATTCGAAATCTTACCTTAATATTGTATAAGTTATGTAAT
6720365 ATTATATAAGTT
192 ATTATATAAGTT
* * * * *
6720377 ATGTAATTCGAAATTTTACCTTAATATTGTATAAGTTATGTAATTCGATATTTTATCTTAGCATT
1 ATGTAATTCGAAATTTTACCTTAATATTATAAAAGTAATGTAATTCGATATGTTATCGTA-CATT
* *
6720442 ATATAAGTTATGTAATTTATGTAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAA
65 AGATAAGTTATGTAATTTATATAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAA
6720507 TCTTAATATTGTATGAGTTATGTAATTCGAAATCTTACCTTAATATTGTATAAGTTATGTAATAT
130 TCTTAATATTGTA-GAGTTATGTAATTCGAAATCTTACCTTAATATTGTATAAGTTATGTAATAT
6720572 TATATAAGTT
194 TATATAAGTT
* * *
6720582 ATGTAATTCGAAATTTTATCTTAATATTATAAAAGTAATCTTAATAT-TATATAAGTTAT-GTA-
1 ATGTAATTCGAAATTTTACCTTAATATTATAAAAGTAAT-GTAAT-TCGATAT--GTTATCGTAC
* * * * * *
6720644 ATTCGA-AATTTTACCT-TAATATTGTATAAGTTATGTAATTCGATATTTTATCTTAACATTATA
62 ATTAGATAA-GTTA--TGTAAT-TTATATAAGTTATGTAATTAGAAATTTTATCTTAATATTATA
* * * * * * *
6720707 TAAGTTAT-GTAATTTATGTA-AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGT
123 TAAGTAATCTTAATAT-TGTAGAGTTATGTAATTCGAAATCTTACCTTAATATTGTATAAGT
6720767 AATCTTAATA
Statistics
Matches: 348, Mismatches: 30, Indels: 24
0.87 0.07 0.06
Matches are distributed among these distances:
204 2 0.01
205 269 0.77
206 19 0.05
207 54 0.16
208 4 0.01
ACGTcount: A:0.37, C:0.06, G:0.11, T:0.47
Consensus pattern (203 bp):
ATGTAATTCGAAATTTTACCTTAATATTATAAAAGTAATGTAATTCGATATGTTATCGTACATTA
GATAAGTTATGTAATTTATATAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAAT
CTTAATATTGTAGAGTTATGTAATTCGAAATCTTACCTTAATATTGTATAAGTTATGTAATATTA
TATAAGTT
Found at i:6726218 original size:231 final size:231
Alignment explanation
Indices: 6725816--6726432 Score: 1006
Period size: 231 Copynumber: 2.7 Consensus size: 231
6725806 NNNNNNNNNN
* * * * *
6725816 GCAAACTCCTGTAATCTTTAAAATATATTTGCGACGTTTTGGGTGTAACGCCACAAATATC-CTT
1 GCAAACTCCTGTAATCTTTAAAATATATTTGCGGCGTTTTGGGTGTAACGCCACTAATAACAATG
* * *
6725880 GAAAACGACGCCGTTTCTGTAACAAAGAAAACATACTTGCGGCGTTTTAGATAAAACGCCACTAA
66 GAAAACGACGCCGTTTCCGTAACAAAGAAAACATACTTGCTGCGTTTTATATAAAACGCCACTAA
* *
6725945 ATGTAATAAGAAAACGACGTCGTTTTTCGTAACACCATTTCGAGTTTGCGGCGTTTATATATAAG
131 ATGTAATAAGAAAACGGCGCCGTTTTTCGTAACACCATTTCGAGTTTGCGGCGTTTATATATAAG
*
6726010 TGCCACTAAATATAAGGTCAAACGCAGTCATTTAAC
196 TGACACTAAATATAAGGTCAAACGCAGTCATTTAAC
* * *
6726046 GCAAACTCCTGTAATCTTTAAAATATATTTGTGGCGTTTCGGGTGTAACGCCACTAATAACAAAG
1 GCAAACTCCTGTAATCTTTAAAATATATTTGCGGCGTTTTGGGTGTAACGCCACTAATAACAATG
*
6726111 GAAAACGACGCCGTTTCCGTAACAAAGAAAACATACTTGCTGCGTTTTATCTAAAACGCCACTAA
66 GAAAACGACGCCGTTTCCGTAACAAAGAAAACATACTTGCTGCGTTTTATATAAAACGCCACTAA
* * *
6726176 ATGTAATAAAAAAATGGCGCCGTTTTTCGTAACACCATTTCGATTTTGCGGCGTTTATATATAAG
131 ATGTAATAAGAAAACGGCGCCGTTTTTCGTAACACCATTTCGAGTTTGCGGCGTTTATATATAAG
*
6726241 TGACACTAAATATAAGGTCAAACGCAGTCGTTTAAC
196 TGACACTAAATATAAGGTCAAACGCAGTCATTTAAC
6726277 GCAAAC-CCGTGTAATCTTTAAAATATATTTGCGGCGTTTTGGGTGTAACGCCACTAATAACAAT
1 GCAAACTCC-TGTAATCTTTAAAATATATTTGCGGCGTTTTGGGTGTAACGCCACTAATAACAAT
*
6726341 GGAAAACGACGCCGTTTCCGTAACAAAGAAAACATACTTG-TGGCGTTTTATATGAAACGCCACT
65 GGAAAACGACGCCGTTTCCGTAACAAAGAAAACATACTTGCT-GCGTTTTATATAAAACGCCACT
*
6726405 AAATGTAATAGGAAAACGGCGCCGTTTT
129 AAATGTAATAAGAAAACGGCGCCGTTTT
6726433 CTTCACAACT
Statistics
Matches: 357, Mismatches: 27, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
230 59 0.17
231 298 0.83
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (231 bp):
GCAAACTCCTGTAATCTTTAAAATATATTTGCGGCGTTTTGGGTGTAACGCCACTAATAACAATG
GAAAACGACGCCGTTTCCGTAACAAAGAAAACATACTTGCTGCGTTTTATATAAAACGCCACTAA
ATGTAATAAGAAAACGGCGCCGTTTTTCGTAACACCATTTCGAGTTTGCGGCGTTTATATATAAG
TGACACTAAATATAAGGTCAAACGCAGTCATTTAAC
Found at i:6726825 original size:7 final size:7
Alignment explanation
Indices: 6726813--6726950 Score: 114
Period size: 7 Copynumber: 19.6 Consensus size: 7
6726803 AATTATCCTT
6726813 AAACCCC
1 AAACCCC
6726820 AAACCCC
1 AAACCCC
6726827 AAACCCC
1 AAACCCC
6726834 AAACTCCC
1 AAAC-CCC
**
6726842 AAAATCC
1 AAACCCC
*
6726849 AAACCCA
1 AAACCCC
6726856 AAACCCC
1 AAACCCC
*
6726863 TAACCCC
1 AAACCCC
* *
6726870 AAACACT
1 AAACCCC
6726877 AAACCCC
1 AAACCCC
* *
6726884 AAACTCA
1 AAACCCC
* **
6726891 AAAACTA
1 AAACCCC
*
6726898 AAATCCC
1 AAACCCC
6726905 AAACCCC
1 AAACCCC
*
6726912 AAACCCT
1 AAACCCC
6726919 AAACCCC
1 AAACCCC
*
6726926 TAACCCC
1 AAACCCC
** *
6726933 AAAAACT
1 AAACCCC
6726940 AAACCCC
1 AAACCCC
6726947 AAAC
1 AAAC
6726951 TCAAAAACCA
Statistics
Matches: 99, Mismatches: 31, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
7 93 0.94
8 6 0.06
ACGTcount: A:0.48, C:0.45, G:0.00, T:0.07
Consensus pattern (7 bp):
AAACCCC
Found at i:6726914 original size:63 final size:64
Alignment explanation
Indices: 6726812--6726971 Score: 223
Period size: 63 Copynumber: 2.5 Consensus size: 64
6726802 AAATTATCCT
* * * * * * *
6726812 TAAACCCCAAACCCCAAACCCCAAACTCCCAAAATCCAAACCCAAAACCCCTAACCCCAAACAC
1 TAAACCCCAAACTCAAAAACCAAAAATCCCAAAACCCAAACCCAAAACCCCTAACCCCAAAAAC
* * *
6726876 TAAACCCCAAACTCAAAAA-CTAAAATCCCAAACCCCAAACCCTAAACCCCTAACCCCAAAAAC
1 TAAACCCCAAACTCAAAAACCAAAAATCCCAAAACCCAAACCCAAAACCCCTAACCCCAAAAAC
6726939 TAAACCCCAAACTCAAAAACCAAAAATCCCAAA
1 TAAACCCCAAACTCAAAAACCAAAAATCCCAAA
6726972 TCGTAATATT
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
63 57 0.67
64 28 0.33
ACGTcount: A:0.49, C:0.42, G:0.00, T:0.08
Consensus pattern (64 bp):
TAAACCCCAAACTCAAAAACCAAAAATCCCAAAACCCAAACCCAAAACCCCTAACCCCAAAAAC
Found at i:6732029 original size:29 final size:30
Alignment explanation
Indices: 6731963--6732019 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
6731953 TTGGCTTGAA
6731963 TATATTATGTTATAAAAATAATTATATTAAT
1 TATA-TATGTTATAAAAATAATTATATTAAT
*
6731994 TATATATGTTA-AATAATAATTATATT
1 TATATATGTTATAAAAATAATTATATT
6732020 TTTTTTATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 14 0.56
30 7 0.28
31 4 0.16
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (30 bp):
TATATATGTTATAAAAATAATTATATTAAT
Found at i:6732870 original size:98 final size:98
Alignment explanation
Indices: 6732701--6733185 Score: 862
Period size: 98 Copynumber: 4.9 Consensus size: 98
6732691 ACAATAAAAC
* * * *
6732701 TAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATCCCTT
1 TAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGACACGATTCCTC
*
6732766 TAGAATCCCAAACTCGGAATATTTCCTTTACTT
66 TAGAATCCCAAACTCGGAGTATTTCCTTTACTT
*
6732799 TAAAAGAACATCCACTTATCCAAGATTTAAGGAATCACACCCAATACGTTAGGACACGATTCCTC
1 TAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGACACGATTCCTC
6732864 TAGAATCCCAAACTCGGAGTATTTCCTTTACTT
66 TAGAATCCCAAACTCGGAGTATTTCCTTTACTT
*
6732897 TAAAAGAACATCCACTTATCCAAGATTTAAGGAATCACACCCAATACGTTAGGACACGATTCCTC
1 TAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGACACGATTCCTC
6732962 TAGAATCCCAAACTCGGAGTATTTCCTTTACTT
66 TAGAATCCCAAACTCGGAGTATTTCCTTTACTT
6732995 TAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGACACGATTCCTC
1 TAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGACACGATTCCTC
6733060 TAGAATCCCAAACTCGGAGTATTTCCTTTACTT
66 TAGAATCCCAAACTCGGAGTATTTCCTTTACTT
* * *
6733093 TAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCCTT
1 TAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGACACGATTCCTC
* *
6733158 TAGAATCTCAAACTCGGAATATTTCCTT
66 TAGAATCCCAAACTCGGAGTATTTCCTT
6733186 CATGATTTTT
Statistics
Matches: 375, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 375 1.00
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.27
Consensus pattern (98 bp):
TAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGACACGATTCCTC
TAGAATCCCAAACTCGGAGTATTTCCTTTACTT
Found at i:6751348 original size:29 final size:30
Alignment explanation
Indices: 6751283--6751350 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 30
6751273 GAAAGCTCTT
* ** *
6751283 TTTTTTTTCTTTCCTATTTTGTTAAACCAA
1 TTTTTTTTCTTTCCCAAATTGCTAAACCAA
6751313 -TTTTTTTCTTTCCCAAATTGCTAAA-CAA
1 TTTTTTTTCTTTCCCAAATTGCTAAACCAA
6751341 TTTTTTTTCT
1 TTTTTTTTCT
6751351 CTTTTTTTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.21, C:0.18, G:0.03, T:0.59
Consensus pattern (30 bp):
TTTTTTTTCTTTCCCAAATTGCTAAACCAA
Found at i:6752643 original size:18 final size:19
Alignment explanation
Indices: 6752617--6752653 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
6752607 GTTCAACTTT
*
6752617 CAAGCCAAAAATA-TTTTA
1 CAAGACAAAAATACTTTTA
6752635 CAAGACAAAAATACTTTTA
1 CAAGACAAAAATACTTTTA
6752654 AAAAGTATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.51, C:0.16, G:0.05, T:0.27
Consensus pattern (19 bp):
CAAGACAAAAATACTTTTA
Found at i:6753429 original size:31 final size:31
Alignment explanation
Indices: 6753389--6753454 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
6753379 TAGATGCCAA
*
6753389 ATGATACTTTTTAATTAAGTTAAAGTATCAC
1 ATGACACTTTTTAATTAAGTTAAAGTATCAC
*
6753420 ATGACACTTTTTAATTGAGTTAAAGTATCAC
1 ATGACACTTTTTAATTAAGTTAAAGTATCAC
6753451 ATGA
1 ATGA
6753455 TACATTTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (31 bp):
ATGACACTTTTTAATTAAGTTAAAGTATCAC
Found at i:6753697 original size:15 final size:15
Alignment explanation
Indices: 6753677--6753705 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6753667 AAAATGACTC
6753677 ATTTTCTTGATTATT
1 ATTTTCTTGATTATT
6753692 ATTTTCTTGATTAT
1 ATTTTCTTGATTAT
6753706 ATACGTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (15 bp):
ATTTTCTTGATTATT
Found at i:6754163 original size:13 final size:13
Alignment explanation
Indices: 6754145--6754170 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6754135 CCAATGTAAT
6754145 TTGTTTTTTTTAA
1 TTGTTTTTTTTAA
6754158 TTGTTTTTTTTAA
1 TTGTTTTTTTTAA
6754171 ATTCTTTTAG
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:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (13 bp):
TTGTTTTTTTTAA
Found at i:6766817 original size:139 final size:140
Alignment explanation
Indices: 6766656--6766931 Score: 545
Period size: 139 Copynumber: 2.0 Consensus size: 140
6766646 ATATTCATGA
6766656 GCATATAATTGAACATGTTCACGAATAATGTTAATAAATAATAATAAAAACAATAAATAAATACA
1 GCATATAATTGAACATGTTCACGAATAATGTTAATAAATAATAATAAAAACAATAAATAAATACA
6766721 TACATACACATATATTGTTTAAATATAAAATAGTCAAATGTAAATATTAATAATTATATTATAAA
66 TACATACACATATATTGTTTAAATATAAAATAGTCAAATGTAAATATTAATAATTATATTATAAA
6766786 TAAAAAATGG
131 TAAAAAATGG
6766796 GCATAT-ATTGAACATGTTCACGAATAATGTTAATAAATAATAATAAAAACAATAAATAAATACA
1 GCATATAATTGAACATGTTCACGAATAATGTTAATAAATAATAATAAAAACAATAAATAAATACA
6766860 TACATACACATATATTGTTTAAATATAAAATAGTCAAATGTAAATATTAATAATTATATTATAAA
66 TACATACACATATATTGTTTAAATATAAAATAGTCAAATGTAAATATTAATAATTATATTATAAA
6766925 TAAAAAA
131 TAAAAAA
6766932 ATTACAAACC
Statistics
Matches: 136, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
139 130 0.96
140 6 0.04
ACGTcount: A:0.54, C:0.07, G:0.07, T:0.32
Consensus pattern (140 bp):
GCATATAATTGAACATGTTCACGAATAATGTTAATAAATAATAATAAAAACAATAAATAAATACA
TACATACACATATATTGTTTAAATATAAAATAGTCAAATGTAAATATTAATAATTATATTATAAA
TAAAAAATGG
Found at i:6782287 original size:5 final size:5
Alignment explanation
Indices: 6782243--6782301 Score: 52
Period size: 5 Copynumber: 11.6 Consensus size: 5
6782233 ATTATTATTT
*
6782243 AATT- AATTA TAATTA AA-T- AATTA AAGTTTAA AAATA AATTA AATTA
1 AATTA AATTA -AATTA AATTA AATTA AA--TT-A AATTA AATTA AATTA
6782289 AATTA AATTA AAT
1 AATTA AATTA AAT
6782302 ATATTTTCTT
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
3 2 0.04
4 6 0.13
5 27 0.59
6 6 0.13
7 2 0.04
8 3 0.07
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (5 bp):
AATTA
Found at i:6785364 original size:15 final size:14
Alignment explanation
Indices: 6785344--6785386 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 14
6785334 TAATTTTTAA
6785344 TATAAATTCAATACC
1 TATAAATTCAATA-C
6785359 TATAAAATTCAATAC
1 TAT-AAATTCAATAC
* *
6785374 TAAAAATTAAATA
1 TATAAATTCAATA
6785387 TTTAAATCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 9 0.36
15 6 0.24
16 10 0.40
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.33
Consensus pattern (14 bp):
TATAAATTCAATAC
Found at i:6785381 original size:14 final size:16
Alignment explanation
Indices: 6785347--6785386 Score: 57
Period size: 14 Copynumber: 2.6 Consensus size: 16
6785337 TTTTTAATAT
6785347 AAATTCAATACCTATA
1 AAATTCAATACCTATA
6785363 AAATTCAATA-CTA-A
1 AAATTCAATACCTATA
*
6785377 AAATTAAATA
1 AAATTCAATA
6785387 TTTAAATCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.43
15 3 0.13
16 10 0.43
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.30
Consensus pattern (16 bp):
AAATTCAATACCTATA
Found at i:6786060 original size:24 final size:24
Alignment explanation
Indices: 6786006--6786079 Score: 71
Period size: 24 Copynumber: 3.1 Consensus size: 24
6785996 ATGGATGTTC
*
6786006 AACCTTTCATCTTTCAT-TTCCCTT
1 AACCTTTCAACTTTCATCTT-CCTT
* * * *
6786030 GATCTTTCACCTTTCATCTTCTTT
1 AACCTTTCAACTTTCATCTTCCTT
6786054 AACCTTT-AACTTTCCATCTTCCTT
1 AACCTTTCAACTTT-CATCTTCCTT
6786078 AA
1 AA
6786080 GTTGTGTAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
23 5 0.12
24 33 0.82
25 2 0.05
ACGTcount: A:0.19, C:0.31, G:0.01, T:0.49
Consensus pattern (24 bp):
AACCTTTCAACTTTCATCTTCCTT
Found at i:6789094 original size:34 final size:35
Alignment explanation
Indices: 6789054--6789127 Score: 89
Period size: 34 Copynumber: 2.1 Consensus size: 35
6789044 AGCATATATT
* * *
6789054 TATACTTATCAAT-TACATGTGCTGAATGC-ACATA
1 TATACTTAT-AATCCACATATGCCGAATGCAACATA
6789088 TATACTTATAATCCACATATGCCGAATGCATACATA
1 TATACTTATAATCCACATATGCCGAATGCA-ACATA
6789124 TATA
1 TATA
6789128 TATATATATC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
33 3 0.09
34 22 0.65
36 9 0.26
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (35 bp):
TATACTTATAATCCACATATGCCGAATGCAACATA
Found at i:6789350 original size:41 final size:41
Alignment explanation
Indices: 6789300--6789660 Score: 431
Period size: 41 Copynumber: 8.8 Consensus size: 41
6789290 TTAATTTAAA
* *
6789300 CAGATTCACCGGCACTTAACCTGTTAGGCTTAAAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
* *
6789342 CAGATCACCAGCACTTTGCCTGCTAGGCTTATAA-CCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTA-AAGCCTGATT
* * *
6789383 TAGATCACCGGCACTTGGCCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
* *
6789424 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCTTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
*
6789465 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAA-CCTGGTT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTA-AAGCCTGATT
* * * *
6789506 CAGATCACTGGCACTTAGCTTGCTTGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
* *
6789547 CAGATCACCGGCACTTAGCCCGCTAGGCTTATAA-CCTGGTT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTA-AAGCCTGATT
* * * *
6789588 CAGGTCACCGGCACTTAGCTTGCTAGGTTTTAAAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGG-CTTAAAGCCTGATT
* * ** *
6789630 CAGTTCACCAGCTTTTAGCCTGCTAGACTTA
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTA
6789661 TAGTCTGAAA
Statistics
Matches: 275, Mismatches: 37, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
40 2 0.01
41 235 0.85
42 38 0.14
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.29
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
Found at i:6789535 original size:123 final size:123
Alignment explanation
Indices: 6789300--6789668 Score: 495
Period size: 123 Copynumber: 3.0 Consensus size: 123
6789290 TTAATTTAAA
* * * * *
6789300 CAGATTCACCGGCACTTAACCTGTTAGGCTTAAAGCCTGATTCAGATCACCAGCACTTTGCCTGC
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGC
* *
6789365 TAGGCTTATAACCTGATTTAGATCACCGGCACTTGGCCTGCTAGGCTTATAGCCTGATT
65 TAGGCTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
*
6789424 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCTTGATTCAGATCACCGGCACTTAGCCTGCT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCT
* * * *
6789489 AGGCTTATAACCTGGTTCAGATCACTGGCACTTAGCTTGCTTGGCTTATAGCCTGATT
66 AGGCTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
* * * * *
6789547 CAGATCACCGGCACTTAGCCCGCTAGGCTTATAACCTGGTTCAGGTCACCGGCACTTAGCTTGCT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCT
* * * * ** * *
6789612 AGGTTTTAAAACCTGATTCAGTTCACCAGCTTTTAGCCTGCTAGACTTATAGTCTGA
66 AGG-CTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGA
6789669 AACGTTTCAC
Statistics
Matches: 214, Mismatches: 30, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
123 169 0.79
124 45 0.21
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (123 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCT
AGGCTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
Found at i:6804009 original size:6 final size:6
Alignment explanation
Indices: 6804000--6804033 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
6803990 CTATTGCTAC
6804000 AATATA AATATA AATATA AATATA AATATA AATA
1 AATATA AATATA AATATA AATATA AATATA AATA
6804034 GTTCATTAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AATATA
Found at i:6805231 original size:7 final size:7
Alignment explanation
Indices: 6805219--6805264 Score: 56
Period size: 7 Copynumber: 6.1 Consensus size: 7
6805209 TTAAGGAAGA
6805219 TGAAAGG
1 TGAAAGG
6805226 TGAAAGG
1 TGAAAGG
6805233 TGAAAGG
1 TGAAAGG
*
6805240 TTGAGGAAGA
1 -TGA--AAGG
6805250 TGAAAGG
1 TGAAAGG
6805257 TGAAAGG
1 TGAAAGG
6805264 T
1 T
6805265 TGGAGAAGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
7 25 0.74
8 3 0.09
9 3 0.09
10 3 0.09
ACGTcount: A:0.41, C:0.00, G:0.41, T:0.17
Consensus pattern (7 bp):
TGAAAGG
Found at i:6805235 original size:31 final size:31
Alignment explanation
Indices: 6805197--6805264 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
6805187 CAATAAGATA
6805197 AAAGGTG-AAGAGTTAAGGAAGATGAAAGGTG
1 AAAGGTGAAAG-GTTAAGGAAGATGAAAGGTG
*
6805228 AAAGGTGAAAGGTTGAGGAAGATGAAAGGTG
1 AAAGGTGAAAGGTTAAGGAAGATGAAAGGTG
6805259 AAAGGT
1 AAAGGT
6805265 TGGAGAAGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
31 32 0.91
32 3 0.09
ACGTcount: A:0.44, C:0.00, G:0.40, T:0.16
Consensus pattern (31 bp):
AAAGGTGAAAGGTTAAGGAAGATGAAAGGTG
Found at i:6805253 original size:24 final size:24
Alignment explanation
Indices: 6805226--6805281 Score: 96
Period size: 24 Copynumber: 2.3 Consensus size: 24
6805216 AGATGAAAGG
6805226 TGAAAGGTGAAAGGTT-GAGGAAGA
1 TGAAAGGTGAAAGGTTGGA-GAAGA
6805250 TGAAAGGTGAAAGGTTGGAGAAGA
1 TGAAAGGTGAAAGGTTGGAGAAGA
6805274 TGAAAGGT
1 TGAAAGGT
6805282 TGAACATCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 29 0.94
25 2 0.06
ACGTcount: A:0.41, C:0.00, G:0.41, T:0.18
Consensus pattern (24 bp):
TGAAAGGTGAAAGGTTGGAGAAGA
Found at i:6805255 original size:17 final size:17
Alignment explanation
Indices: 6805212--6805257 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
6805202 TGAAGAGTTA
6805212 AGGAAGATGAAAGG-TG
1 AGGAAGATGAAAGGTTG
*
6805228 A--AAGGTGAAAGGTTG
1 AGGAAGATGAAAGGTTG
6805243 AGGAAGATGAAAGGT
1 AGGAAGATGAAAGGT
6805258 GAAAGGTTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
14 10 0.40
15 3 0.12
16 1 0.04
17 11 0.44
ACGTcount: A:0.43, C:0.00, G:0.41, T:0.15
Consensus pattern (17 bp):
AGGAAGATGAAAGGTTG
Found at i:6806259 original size:71 final size:71
Alignment explanation
Indices: 6806141--6806285 Score: 254
Period size: 71 Copynumber: 2.0 Consensus size: 71
6806131 ATGAAATAAT
* *
6806141 TTATACTAGCCGAATACAAATTCACTAGACGTAAATAAATAAATTTATTTAGTGTTTGAATACAC
1 TTATACTAGCCAAATACAAATTCACTAGACGTAAATAAATAAATTTATATAGTGTTTGAATACAC
6806206 CACAAA
66 CACAAA
* *
6806212 TTATACTAGCCAAATACAAATTCACTAGACGTAAATAAATAAGTTTATATGGTGTTTGAATACAC
1 TTATACTAGCCAAATACAAATTCACTAGACGTAAATAAATAAATTTATATAGTGTTTGAATACAC
6806277 CACAAA
66 CACAAA
6806283 TTA
1 TTA
6806286 ATCATTTTTC
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.31
Consensus pattern (71 bp):
TTATACTAGCCAAATACAAATTCACTAGACGTAAATAAATAAATTTATATAGTGTTTGAATACAC
CACAAA
Found at i:6807180 original size:37 final size:35
Alignment explanation
Indices: 6807111--6807202 Score: 87
Period size: 37 Copynumber: 2.5 Consensus size: 35
6807101 GAATATTTAA
*
6807111 TATTAAAATAATCACTTTAATACTAAATTAATA-AAATAC
1 TATTAAAATAAT-A--TTAA-ATTAAATTAATATAAA-AC
* *
6807150 TATTAAGATAAGTATTAAATTAAATTTAATATTAAAC
1 TATTAAAATAA-TATTAAATTAAA-TTAATATAAAAC
6807187 TATTAAAATAATATTA
1 TATTAAAATAATATTA
6807203 TTTTTGGAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
36 10 0.22
37 22 0.48
38 2 0.04
39 11 0.24
40 1 0.02
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.39
Consensus pattern (35 bp):
TATTAAAATAATATTAAATTAAATTAATATAAAAC
Found at i:6807202 original size:48 final size:50
Alignment explanation
Indices: 6807070--6807202 Score: 130
Period size: 48 Copynumber: 2.6 Consensus size: 50
6807060 TAAACTTAAT
* *
6807070 CACTTTAATATTAAATCTTATTAAAATAATA-GAATATTTAATATTAAAATAA
1 CACTTTAATATTAAA-C-TATTAAAATAATATTAAGA-TTAATATTAAAATAA
* * * * *
6807122 TCACTTTAATACTAAATTAATAAAATACTATTAAGA-TAAGTATTAAATTAA
1 -CACTTTAATATTAAACTATTAAAATAATATTAAGATTAA-TATTAAAATAA
6807173 -A-TTTAATATTAAACTATTAAAATAATATTA
1 CACTTTAATATTAAACTATTAAAATAATATTA
6807203 TTTTTGGAAC
Statistics
Matches: 67, Mismatches: 11, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
48 25 0.37
49 1 0.01
50 3 0.04
51 21 0.31
52 3 0.04
53 14 0.21
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (50 bp):
CACTTTAATATTAAACTATTAAAATAATATTAAGATTAATATTAAAATAA
Found at i:6808971 original size:7 final size:7
Alignment explanation
Indices: 6808961--6808990 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
6808951 AGGTCAAGGG
6808961 AGATGAA
1 AGATGAA
6808968 AGATGAA
1 AGATGAA
6808975 AGATGAA
1 AGATGAA
6808982 AGATGAA
1 AGATGAA
6808989 AG
1 AG
6808991 GTTGAACATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.30, T:0.13
Consensus pattern (7 bp):
AGATGAA
Found at i:6810313 original size:22 final size:21
Alignment explanation
Indices: 6810271--6810315 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
6810261 ATAAATCAAT
*
6810271 AAAAATAAACCTAATTAAATA
1 AAAAATAAACATAATTAAATA
* *
6810292 AAAAATATACATACTTATAATA
1 AAAAATAAACATAATTA-AATA
6810314 AA
1 AA
6810316 TATTAAGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (21 bp):
AAAAATAAACATAATTAAATA
Found at i:6821827 original size:6 final size:6
Alignment explanation
Indices: 6821816--6821840 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6821806 GTGGTATTAA
6821816 AAAATT AAAATT AAAATT AAAATT A
1 AAAATT AAAATT AAAATT AAAATT A
6821841 TTTATTTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAAATT
Found at i:6841597 original size:27 final size:27
Alignment explanation
Indices: 6841557--6841760 Score: 293
Period size: 27 Copynumber: 7.6 Consensus size: 27
6841547 CGGAAAGGTT
*
6841557 GTAAAATGATCGTAATACCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* *
6841584 GTAAAATGACCGTAAT-GCCCTGTAAG
1 GTAAAATGACCGTAATACCCCTGTAGG
* * *
6841610 GTAAAATGACTGTAATACCCTTGTTGG
1 GTAAAATGACCGTAATACCCCTGTAGG
*
6841637 GTAAAATGATCGTAATACCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
6841664 GTAAAATGACCGTAATACCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* *
6841691 GTAAAATAACCGTAATACCCCTATAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* *
6841718 GTAGAATGACCGTAATACCACTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
*
6841745 GTAAAATGAACGTAAT
1 GTAAAATGACCGTAAT
6841761 GCCCTGGTGG
Statistics
Matches: 155, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
26 23 0.15
27 132 0.85
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (27 bp):
GTAAAATGACCGTAATACCCCTGTAGG
Found at i:6841827 original size:23 final size:24
Alignment explanation
Indices: 6841799--6841865 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 24
6841789 CCTCGAGGTC
6841799 AAATGATTGATTTCTCTGTGGTT-
1 AAATGATTGATTTCTCTGTGGTTG
* *
6841822 AAATGACTGA-TTCGTCTGTGTTTG
1 AAATGATTGATTTC-TCTGTGGTTG
** *
6841846 GTATGATTGATTTGTCTGTG
1 AAATGATTGATTTCTCTGTG
6841866 ATTTGAATGA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
22 3 0.09
23 17 0.49
24 13 0.37
25 2 0.06
ACGTcount: A:0.19, C:0.09, G:0.25, T:0.46
Consensus pattern (24 bp):
AAATGATTGATTTCTCTGTGGTTG
Found at i:6841856 original size:24 final size:25
Alignment explanation
Indices: 6841824--6841882 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
6841814 CTGTGGTTAA
6841824 ATGACTGATTCGTCTGTG-TTTGGT
1 ATGACTGATTCGTCTGTGATTTGGT
* * *
6841848 ATGATTGATTTGTCTGTGATTT-GA
1 ATGACTGATTCGTCTGTGATTTGGT
6841872 ATGACTGATTC
1 ATGACTGATTC
6841883 TGAGCATGGC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
24 26 0.90
25 3 0.10
ACGTcount: A:0.19, C:0.10, G:0.25, T:0.46
Consensus pattern (25 bp):
ATGACTGATTCGTCTGTGATTTGGT
Found at i:6842035 original size:26 final size:26
Alignment explanation
Indices: 6841970--6842029 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
6841960 TTGGCCACAT
* *
6841970 ATACTATTATTGGCAGCTTTGCTGCG
1 ATACTACTACTGGCAGCTTTGCTGCG
*
6841996 ATACTGCTACTGGCAGCTTTGCTGCG
1 ATACTACTACTGGCAGCTTTGCTGCG
*
6842022 ATGCTACT
1 ATACTACT
6842030 GATGGCTTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (26 bp):
ATACTACTACTGGCAGCTTTGCTGCG
Found at i:6842102 original size:32 final size:32
Alignment explanation
Indices: 6842026--6842195 Score: 218
Period size: 32 Copynumber: 5.4 Consensus size: 32
6842016 GCTGCGATGC
*
6842026 TACTGATGGCTTTGTGCCGATCATATTACC-A
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
6842057 TACTGATGGCTTTGTGCCGATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* *
6842089 TACTGATGTCTTTGTGCCAATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* * ** * *
6842121 TACTGATAGCTTTGTACCGATCATATCGCTGC
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* *
6842153 TACTGATGGCTTTGTGCCAATCATATTACTG-
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
*
6842184 TACTTATGGCTT
1 TACTGATGGCTT
6842196 GTAGCCATTC
Statistics
Matches: 121, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
31 41 0.34
32 80 0.66
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.38
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATATTACCGT
Found at i:6842212 original size:22 final size:21
Alignment explanation
Indices: 6842187--6842250 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 21
6842177 ATTACTGTAC
6842187 TTATGGCTTGTAGCCATTCTGT
1 TTATGGCTT-TAGCCATTCTGT
* * *
6842209 TTATAGCTTATAGCTATCCTGT
1 TTATGGCTT-TAGCCATTCTGT
*
6842231 TTATGACTCTTAGCCATTCT
1 TTATGGCT-TTAGCCATTCT
6842251 AACTACTGGC
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
22 32 0.97
23 1 0.03
ACGTcount: A:0.19, C:0.20, G:0.16, T:0.45
Consensus pattern (21 bp):
TTATGGCTTTAGCCATTCTGT
Found at i:6845944 original size:342 final size:336
Alignment explanation
Indices: 6845313--6845987 Score: 806
Period size: 342 Copynumber: 2.0 Consensus size: 336
6845303 TCCATATAAC
* * *
6845313 TGTTGGATCTGGTGCCCTAAGTGTAGTATTTTTGTCTAAGTACACTTGTAATTTTTTGAACAGAT
1 TGTTGGATCTGATGCCCTAAGTGTAGTATTTTCGTCTAAGTACACTTGTAATTTTTTAAACAGAT
* *
6845378 TGATTAATAAAACTATTCATGAATTACATTAATACTTTGTATATTATCCTCAAATGGTTTTTGCA
66 TGATTAATAAAACAATTCATGAATTACATTAATACTTTGAATATTATCCTCAAATGGTTTTTGCA
* * *
6845443 CACAAAGAAAAATAGAAGCAAGTGTTGCTCATTGGTTGTCTATTGTTTAAACTGATACTAAGCGT
131 CACAAAGAAAAATAGAAGCAAGTGTTGCTCATTGGTTGTCTAATGTTTAAACTAATACTAAGCGG
* * * * * * *
6845508 TATTATGTGGTCGAATCATATTATAGAAAGACAGCTTGTATTAGTAGATGAACCTAAAAATATCT
196 TATTATGTGGTCGAATCATAGTAGAGAAAGACAACTTATATTAGTAAACGAACCTAAAAATATCC
* * *
6845573 TTAGTCTAAACAGAAATTAGAAAACCAATTGAAAGACTAATATATCATCTATCAAGTCCAATTAG
261 TTAGTCTAAACAGAAATGAGAAAACCAATTAAAAGACTAATATATCATCTAACAAGTCCAATTAG
6845638 GGAGATGCTTT
326 GGAGATGCTTT
* * * *
6845649 TGTTGGATCTGATGCCGTAAGTGTAGTATTTTCGT-TTAGTTAGACTTGTAATTTTTTTTAAATA
1 TGTTGGATCTGATGCCCTAAGTGTAGTATTTTCGTCTAAG-TACACTTGTAA--TTTTTTAAACA
* *
6845713 GATTGGTT-ATCAAAACAAATTCATTG-ATTACAATTAATATACTTTGAATTATTGTCCTCAAAT
63 GATTGATTAAT-AAAAC-AATTCA-TGAATTAC-ATT-A-ATACTTTGAA-TATTATCCTCAAAT
* * * *
6845776 GGTTTTTGGATACAAAGCAAAATGGAAGCTAA-TGTTGCTCATTGGTTGTCTAATGTTT-AACTA
121 GGTTTTTGCACACAAAGAAAAATAGAAGC-AAGTGTTGCTCATTGGTTGTCTAATGTTTAAACTA
* * * *
6845839 ATACTAAGCGGTATTATGTGGTCGGATCGTAGTACGA-AAAGTCAACTTATATTAGTAAACGAAT
185 ATACTAAGCGGTATTATGTGGTCGAATCATAGTA-GAGAAAGACAACTTATATTAGTAAACGAAC
* * * * * * * **
6845903 CTATACATGTCCTTAGTCTAATC-GAAAATGAGCAGACCAATTAAAAGACTAATATGTTGTCTAA
249 CTAAAAATATCCTTAGTCTAAACAG-AAATGAGAAAACCAATTAAAAGACTAATATATCATCTAA
*
6845967 CAAGTCTAATTAGGGAGATGC
313 CAAGTCCAATTAGGGAGATGC
6845988 CTTATCTTGG
Statistics
Matches: 284, Mismatches: 42, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
335 3 0.01
336 42 0.15
337 2 0.01
338 21 0.07
339 10 0.04
340 5 0.02
341 2 0.01
342 133 0.47
343 64 0.23
344 2 0.01
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (336 bp):
TGTTGGATCTGATGCCCTAAGTGTAGTATTTTCGTCTAAGTACACTTGTAATTTTTTAAACAGAT
TGATTAATAAAACAATTCATGAATTACATTAATACTTTGAATATTATCCTCAAATGGTTTTTGCA
CACAAAGAAAAATAGAAGCAAGTGTTGCTCATTGGTTGTCTAATGTTTAAACTAATACTAAGCGG
TATTATGTGGTCGAATCATAGTAGAGAAAGACAACTTATATTAGTAAACGAACCTAAAAATATCC
TTAGTCTAAACAGAAATGAGAAAACCAATTAAAAGACTAATATATCATCTAACAAGTCCAATTAG
GGAGATGCTTT
Found at i:6852877 original size:72 final size:72
Alignment explanation
Indices: 6852791--6852934 Score: 288
Period size: 72 Copynumber: 2.0 Consensus size: 72
6852781 TATTGGGAGA
6852791 ATGAATATTATCTCAAAGAGATCAAGGATATCCTATGGGGGTAACACACTTATGACAAGGTCATT
1 ATGAATATTATCTCAAAGAGATCAAGGATATCCTATGGGGGTAACACACTTATGACAAGGTCATT
6852856 GGATGAG
66 GGATGAG
6852863 ATGAATATTATCTCAAAGAGATCAAGGATATCCTATGGGGGTAACACACTTATGACAAGGTCATT
1 ATGAATATTATCTCAAAGAGATCAAGGATATCCTATGGGGGTAACACACTTATGACAAGGTCATT
6852928 GGATGAG
66 GGATGAG
6852935 CACTAAGTAG
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (72 bp):
ATGAATATTATCTCAAAGAGATCAAGGATATCCTATGGGGGTAACACACTTATGACAAGGTCATT
GGATGAG
Found at i:6855782 original size:86 final size:85
Alignment explanation
Indices: 6855632--6855798 Score: 262
Period size: 86 Copynumber: 2.0 Consensus size: 85
6855622 AGGAAGGCCC
* *
6855632 TGCATGGGGGTCGCATATAGTTGAAATTTTAGTAAAATGTCTGTAATGGGGATTCTAATGGAAAT
1 TGCATGGGGGTCGCATATAGTTGAAATTTTAGTAAAATGTCTATAATAGGGATTCTAATGGAAAT
*
6855697 GTTATGATATTTTAAGTAGT
66 CTTATGATATTTTAAGTAGT
* * *
6855717 TGCATGGGGGGTCGCATGTAGTTTAAATTTTAGTAAAATGTCTATAATAGGGATTTTAATGGAAA
1 TGCAT-GGGGGTCGCATATAGTTGAAATTTTAGTAAAATGTCTATAATAGGGATTCTAATGGAAA
*
6855782 TCTTATGATCTTTTAAG
65 TCTTATGATATTTTAAG
6855799 AACTTGCTAC
Statistics
Matches: 74, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
85 5 0.07
86 69 0.93
ACGTcount: A:0.31, C:0.07, G:0.25, T:0.38
Consensus pattern (85 bp):
TGCATGGGGGTCGCATATAGTTGAAATTTTAGTAAAATGTCTATAATAGGGATTCTAATGGAAAT
CTTATGATATTTTAAGTAGT
Found at i:6856640 original size:50 final size:50
Alignment explanation
Indices: 6856563--6856691 Score: 177
Period size: 50 Copynumber: 2.6 Consensus size: 50
6856553 GAATTCTCTA
* * * *
6856563 GAAAACCTTTATGGAAAATTATCTGGAAAGCATTTGTGGTGTATCATCTG
1 GAAAACCTTTGTGGCAAATTATCTGGAAAGCACTTGTAGTGTATCATCTG
* * * *
6856613 GAAACCCTTTGTGGCAAATTCTTTGGAAAGCACTTGTAGTGTATCATTTG
1 GAAAACCTTTGTGGCAAATTATCTGGAAAGCACTTGTAGTGTATCATCTG
*
6856663 GAAAGCCTTTGTGGCAAATTATCTGGAAA
1 GAAAACCTTTGTGGCAAATTATCTGGAAA
6856692 CCCATTGTGG
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 68 1.00
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.33
Consensus pattern (50 bp):
GAAAACCTTTGTGGCAAATTATCTGGAAAGCACTTGTAGTGTATCATCTG
Found at i:6856689 original size:25 final size:25
Alignment explanation
Indices: 6856554--6856701 Score: 91
Period size: 25 Copynumber: 5.9 Consensus size: 25
6856544 TAAACTCGAG
* * * * *
6856554 AATTCTCTAGAAAACCTTTATGGAA
1 AATTATCTGGAAAGCCTTTGTGGCA
* **
6856579 AATTATCTGGAAAGCATTTGTGGTG
1 AATTATCTGGAAAGCCTTTGTGGCA
* * *
6856604 TATCATCTGGAAACCCTTTGTGGCA
1 AATTATCTGGAAAGCCTTTGTGGCA
* * * **
6856629 AATTCTTTGGAAAGCAC-TTGTAGTG
1 AATTATCTGGAAAGC-CTTTGTGGCA
* * *
6856654 TATCATTTGGAAAGCCTTTGTGGCA
1 AATTATCTGGAAAGCCTTTGTGGCA
* *
6856679 AATTATCTGGAAACCCATTGTGG
1 AATTATCTGGAAAGCCTTTGTGG
6856702 TGAGTTGTTA
Statistics
Matches: 89, Mismatches: 32, Indels: 4
0.71 0.26 0.03
Matches are distributed among these distances:
24 1 0.01
25 87 0.98
26 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.34
Consensus pattern (25 bp):
AATTATCTGGAAAGCCTTTGTGGCA
Found at i:6858544 original size:2 final size:2
Alignment explanation
Indices: 6858539--6859392 Score: 1681
Period size: 2 Copynumber: 427.0 Consensus size: 2
6858529 TAAAAAAATT
* * *
6858539 CA CA CA CA TA CA CA CA CA CA CA CA CA CG CG CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
6858581 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
6858623 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
6858665 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
6858707 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
6858749 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
6858791 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
6858833 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
6858875 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
6858917 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
6858959 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
6859001 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
6859043 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
6859085 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
6859127 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
6859169 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
6859211 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
6859253 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
6859295 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
6859337 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
6859379 CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA
6859393 AACATGCCAT
Statistics
Matches: 848, Mismatches: 4, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 848 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:6873120 original size:16 final size:16
Alignment explanation
Indices: 6873099--6873129 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
6873089 CAATTGATGG
6873099 ACAAAATCAATCAAAA
1 ACAAAATCAATCAAAA
6873115 ACAAAATCAATCAAA
1 ACAAAATCAATCAAA
6873130 TAGAGGCTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.68, C:0.19, G:0.00, T:0.13
Consensus pattern (16 bp):
ACAAAATCAATCAAAA
Found at i:6895800 original size:29 final size:28
Alignment explanation
Indices: 6895755--6895906 Score: 180
Period size: 29 Copynumber: 5.2 Consensus size: 28
6895745 TTTTCTTTAA
6895755 TCGATGGTTAAAACCATCCCTTTTCATAT
1 TCGATGGTT-AAACCATCCCTTTTCATAT
* *
6895784 TCAATGGTTGAAGCCATCCCTTTTCATAT
1 TCGATGGTT-AAACCATCCCTTTTCATAT
* *
6895813 TCGATGATTATCACCATCCCTTTTCATAT
1 TCGATGGTTA-AACCATCCCTTTTCATAT
*
6895842 TCGATGGTCGT-CACCATCCCTTTTCATAT
1 TCGATGGT--TAAACCATCCCTTTTCATAT
* *
6895871 TCGATGGTCAAAATCATCCCTTTTCATAT
1 TCGATGGT-TAAACCATCCCTTTTCATAT
6895900 TCGATGG
1 TCGATGG
6895907 GAGTCGATAC
Statistics
Matches: 107, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
28 1 0.01
29 105 0.98
31 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.38
Consensus pattern (28 bp):
TCGATGGTTAAACCATCCCTTTTCATAT
Found at i:6901866 original size:2 final size:2
Alignment explanation
Indices: 6901861--6901891 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6901851 AATTTTTTTA
6901861 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
6901892 GCTTCACTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:6903668 original size:20 final size:20
Alignment explanation
Indices: 6903624--6903697 Score: 78
Period size: 20 Copynumber: 3.7 Consensus size: 20
6903614 TACATGATTT
*
6903624 GCACTTCGGTGCCTCTT-TTT
1 GCACTTCGGTGCCT-TTATTC
* * *
6903644 TCACTTTGGTGCCTTTGTTC
1 GCACTTCGGTGCCTTTATTC
*
6903664 GCACTTCGGTGTCTTTATTC
1 GCACTTCGGTGCCTTTATTC
*
6903684 GCACTACGGTGCCT
1 GCACTTCGGTGCCT
6903698 CTGCTTACAC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
19 2 0.05
20 42 0.95
ACGTcount: A:0.08, C:0.28, G:0.22, T:0.42
Consensus pattern (20 bp):
GCACTTCGGTGCCTTTATTC
Found at i:6912117 original size:5 final size:5
Alignment explanation
Indices: 6912107--6912133 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
6912097 TAATAATGAG
6912107 AAAAT AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AA
6912134 TATGACAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:6914640 original size:20 final size:21
Alignment explanation
Indices: 6914596--6914648 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
6914586 CACGCATCCT
6914596 TATGTTGAGCCACAACAACCC
1 TATGTTGAGCCACAACAACCC
* * *
6914617 TATGTTAAGCCAGATCAA-CC
1 TATGTTGAGCCACAACAACCC
6914637 TATGTTGAGCCA
1 TATGTTGAGCCA
6914649 TAAACCTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (21 bp):
TATGTTGAGCCACAACAACCC
Found at i:6925080 original size:30 final size:33
Alignment explanation
Indices: 6925040--6925099 Score: 81
Period size: 30 Copynumber: 1.9 Consensus size: 33
6925030 AAAATTTTAA
6925040 TAAATGAAAA-TA-TATAAA-ATTATTAAATAT
1 TAAATGAAAATTAGTATAAATATTATTAAATAT
* *
6925070 TAAATTAAAATTAGTATAAATATTTTTAAA
1 TAAATGAAAATTAGTATAAATATTATTAAA
6925100 AAGTTAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 9 0.36
31 2 0.08
32 6 0.24
33 8 0.32
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (33 bp):
TAAATGAAAATTAGTATAAATATTATTAAATAT
Found at i:6925704 original size:5 final size:5
Alignment explanation
Indices: 6925689--6925724 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
6925679 ATAACTTCTC
*
6925689 TAATT TGATT TAATT TAATT TAATTT TAATT TAATT
1 TAATT TAATT TAATT TAATT TAA-TT TAATT TAATT
6925725 ATTTTAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (5 bp):
TAATT
Found at i:6925718 original size:11 final size:11
Alignment explanation
Indices: 6925696--6925724 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
6925686 CTCTAATTTG
6925696 ATTTAA-TTTA
1 ATTTAATTTTA
6925706 ATTTAATTTTA
1 ATTTAATTTTA
6925717 ATTTAATT
1 ATTTAATT
6925725 ATTTTAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
ATTTAATTTTA
Found at i:6925778 original size:18 final size:18
Alignment explanation
Indices: 6925755--6925807 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
6925745 TTGAAACACG
6925755 TTGAAATGAAAAAATAAA
1 TTGAAATGAAAAAATAAA
* *
6925773 TTGAAAT-AAATCAATAAC
1 TTGAAATGAAA-AAATAAA
*
6925791 TTAAAATG-AAAAATAAA
1 TTGAAATGAAAAAATAAA
6925808 CTAAAAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
17 8 0.29
18 20 0.71
ACGTcount: A:0.64, C:0.04, G:0.08, T:0.25
Consensus pattern (18 bp):
TTGAAATGAAAAAATAAA
Found at i:6929566 original size:181 final size:181
Alignment explanation
Indices: 6929262--6929626 Score: 694
Period size: 181 Copynumber: 2.0 Consensus size: 181
6929252 TGATTACGTG
6929262 ACATTAATGGTAAATTATACACTCCTAATTCTTTATATTCATGTTTTGATGCTTAATAGGGCACT
1 ACATTAATGGTAAATTATACACTCCTAATTCTTTATATTCATGTTTTGATGCTTAATAGGGCACT
* *
6929327 TGGGAGCAATAGGAGTGAAAAATGGGTGGAAATTAGAACATTAGAGCATTTTGGAAGCTGTACAC
66 TGGAAGCAATAGGAGTGAAAAATGGGTGGAAATTAGAACATTAGAGCATTTCGGAAGCTGTACAC
6929392 ATGCAATAGACTTTCACACCGGCATGTGGATTTCAGGAACCATGTGCACTA
131 ATGCAATAGACTTTCACACCGGCATGTGGATTTCAGGAACCATGTGCACTA
* *
6929443 ACATTAATGGTAAATTGTACACTCTTAATTCTTTATATTCATGTTTTGATGCTTAATAGGGCACT
1 ACATTAATGGTAAATTATACACTCCTAATTCTTTATATTCATGTTTTGATGCTTAATAGGGCACT
6929508 TGGAAGCAATAGGAGTGAAAAATGGGTGGAAATTAGAACATTAGAGCATTTCGGAAGCTGTACAC
66 TGGAAGCAATAGGAGTGAAAAATGGGTGGAAATTAGAACATTAGAGCATTTCGGAAGCTGTACAC
6929573 ATGCAATAGACTTTCACACCGGCATGTGGATTTCAGGAACCATGTGCACTA
131 ATGCAATAGACTTTCACACCGGCATGTGGATTTCAGGAACCATGTGCACTA
6929624 ACA
1 ACA
6929627 GTGGAAAGTT
Statistics
Matches: 180, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
181 180 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (181 bp):
ACATTAATGGTAAATTATACACTCCTAATTCTTTATATTCATGTTTTGATGCTTAATAGGGCACT
TGGAAGCAATAGGAGTGAAAAATGGGTGGAAATTAGAACATTAGAGCATTTCGGAAGCTGTACAC
ATGCAATAGACTTTCACACCGGCATGTGGATTTCAGGAACCATGTGCACTA
Found at i:6930103 original size:43 final size:43
Alignment explanation
Indices: 6930037--6930127 Score: 139
Period size: 43 Copynumber: 2.1 Consensus size: 43
6930027 ATATCCCATA
* * *
6930037 ATAATATCTTATAATATGCCATTAGGAATCATATTGCTAAGAG
1 ATAATATCTTATAATATGCCATTAAGAATCAAATTGCTAAAAG
6930080 ATAATATCTTATAATAT-CTCATTAAGAATCAAATTGCTAAAAG
1 ATAATATCTTATAATATGC-CATTAAGAATCAAATTGCTAAAAG
6930123 ATAAT
1 ATAAT
6930128 GTCCCATAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 1 0.02
43 43 0.98
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.35
Consensus pattern (43 bp):
ATAATATCTTATAATATGCCATTAAGAATCAAATTGCTAAAAG
Found at i:6930137 original size:43 final size:43
Alignment explanation
Indices: 6930037--6930138 Score: 116
Period size: 43 Copynumber: 2.4 Consensus size: 43
6930027 ATATCCCATA
** * * *
6930037 ATAATATCTTATAATATGCCATTAGGAATCATATTGCTAAGAG
1 ATAATATCCCATAATATGCCATTAAGAATCAAATTGCTAAAAG
**
6930080 ATAATATCTTATAATAT-CTCATTAAGAATCAAATTGCTAAAAG
1 ATAATATCCCATAATATGC-CATTAAGAATCAAATTGCTAAAAG
*
6930123 ATAATGTCCCATAATA
1 ATAATATCCCATAATA
6930139 ATATCCTAAC
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 1 0.02
43 51 0.98
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (43 bp):
ATAATATCCCATAATATGCCATTAAGAATCAAATTGCTAAAAG
Found at i:6938234 original size:20 final size:20
Alignment explanation
Indices: 6938206--6938244 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
6938196 AATTTTAGCG
6938206 ATCCCAGAAAAATAAGAAAA
1 ATCCCAGAAAAATAAGAAAA
*
6938226 ATCCTAGAAAAATAAGAAA
1 ATCCCAGAAAAATAAGAAA
6938245 TTTTAATTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.64, C:0.13, G:0.10, T:0.13
Consensus pattern (20 bp):
ATCCCAGAAAAATAAGAAAA
Found at i:6938678 original size:20 final size:20
Alignment explanation
Indices: 6938653--6938694 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
6938643 GACCTATCTT
6938653 TTGCTTCA-TCATTCTTGTTC
1 TTGCTTCAGTCA-TCTTGTTC
*
6938673 TTGCTTGAGTCATCTTGTTC
1 TTGCTTCAGTCATCTTGTTC
6938693 TT
1 TT
6938695 TCCTTGACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 17 0.85
21 3 0.15
ACGTcount: A:0.10, C:0.21, G:0.14, T:0.55
Consensus pattern (20 bp):
TTGCTTCAGTCATCTTGTTC
Found at i:6948455 original size:20 final size:19
Alignment explanation
Indices: 6948417--6948456 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
6948407 ATATATCCTG
*
6948417 ATTTATTTGATTCTCATCA
1 ATTTATTTGATTCTAATCA
*
6948436 ATTTGATTTGATTTTAATCA
1 ATTT-ATTTGATTCTAATCA
6948456 A
1 A
6948457 ACTGATTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.53
Consensus pattern (19 bp):
ATTTATTTGATTCTAATCA
Found at i:6950265 original size:43 final size:43
Alignment explanation
Indices: 6950217--6950335 Score: 193
Period size: 43 Copynumber: 2.8 Consensus size: 43
6950207 GTTACATAGG
6950217 AATCAAATTGCTAAAAGATAATATCCTATAATATCCCATTAGA
1 AATCAAATTGCTAAAAGATAATATCCTATAATATCCCATTAGA
* * *
6950260 AATCAAATTGCTAAGAGATAATATCTTATAATATCCCATTAGG
1 AATCAAATTGCTAAAAGATAATATCCTATAATATCCCATTAGA
* *
6950303 AATCAAATTTCTAAAAGATAATATCCCATAATA
1 AATCAAATTGCTAAAAGATAATATCCTATAATA
6950336 ATATCCTAAC
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 69 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (43 bp):
AATCAAATTGCTAAAAGATAATATCCTATAATATCCCATTAGA
Found at i:6952329 original size:19 final size:19
Alignment explanation
Indices: 6952305--6952396 Score: 130
Period size: 19 Copynumber: 4.8 Consensus size: 19
6952295 AATTTTTGAG
*
6952305 GATATGCAATCTTATATAT
1 GATATGCAATCTTAGATAT
*
6952324 GATATGCAATCGTAGATAT
1 GATATGCAATCTTAGATAT
6952343 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* ** *
6952362 GATGTATAATCTTTGATAT
1 GATATGCAATCTTAGATAT
6952381 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
6952397 AGATATGATT
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 62 1.00
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:6967181 original size:20 final size:21
Alignment explanation
Indices: 6967113--6967181 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 21
6967103 ACTTGTACGA
* *
6967113 GTTTGCACTTCAGTG-CCTCT
1 GTTTGCACTTTAGTGCCCTAT
* *
6967133 GTTATGCACTTTGGTCCCCTAT
1 GTT-TGCACTTTAGTGCCCTAT
*
6967155 -TTT-CACTTTTGTGCCCT-T
1 GTTTGCACTTTAGTGCCCTAT
6967173 GTTTGCACT
1 GTTTGCACT
6967182 AAGGCGCCCC
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
18 1 0.03
19 15 0.38
20 8 0.21
21 11 0.28
22 4 0.10
ACGTcount: A:0.10, C:0.28, G:0.17, T:0.45
Consensus pattern (21 bp):
GTTTGCACTTTAGTGCCCTAT
Found at i:6967210 original size:20 final size:20
Alignment explanation
Indices: 6967113--6967212 Score: 76
Period size: 20 Copynumber: 5.0 Consensus size: 20
6967103 ACTTGTACGA
* *
6967113 GTTTGCACTTCAGTGCCTCT
1 GTTTGCACTTCGGTGCCCCT
*
6967133 GTTATGCACTTTGGT-CCCCT
1 GTT-TGCACTTCGGTGCCCCT
* * ** *
6967153 ATTTTCACTTTTGTGCCCTT
1 GTTTGCACTTCGGTGCCCCT
** *
6967173 GTTTGCACTAAGGCGCCCCT
1 GTTTGCACTTCGGTGCCCCT
*
6967193 GCTTGCACTTCGGTGCCCCT
1 GTTTGCACTTCGGTGCCCCT
6967213 ATATAGCATT
Statistics
Matches: 60, Mismatches: 18, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
19 9 0.15
20 42 0.70
21 9 0.15
ACGTcount: A:0.10, C:0.32, G:0.20, T:0.38
Consensus pattern (20 bp):
GTTTGCACTTCGGTGCCCCT
Found at i:6971969 original size:2 final size:2
Alignment explanation
Indices: 6971962--6971995 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
6971952 AGTATTGTAA
6971962 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6971996 AAGAGAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6974844 original size:25 final size:25
Alignment explanation
Indices: 6974810--6974866 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
6974800 TGGGACGCTT
6974810 GTCACACGATCGTGTGCCACACATA
1 GTCACACGATCGTGTGCCACACATA
* * *
6974835 GTCACACGATTGTGTGCCATACATG
1 GTCACACGATCGTGTGCCACACATA
6974860 GTCACAC
1 GTCACAC
6974867 CATACGACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (25 bp):
GTCACACGATCGTGTGCCACACATA
Found at i:6977566 original size:51 final size:51
Alignment explanation
Indices: 6977490--6977676 Score: 171
Period size: 51 Copynumber: 3.6 Consensus size: 51
6977480 AGTATATTGC
* * * *
6977490 GTAAGACCATCGATGAATGATGCTATGGCAGTCTAGTATGAGGCACGTAGT
1 GTAAGACCATAGATGAAAGACGCTATGGCAGTCTAGTATGAGGTACGTAGT
* * *
6977541 GTAAGACCATAGATGAAAGACGCTATGACAG-CAATGTATAAGGTATACGGT-GT
1 GTAAGACCATAGATGAAAGACGCTATGGCAGTCTA-GTATGAGG--TAC-GTAGT
* * * * ** * *
6977594 AATAAAATCGTAGATGAAAGATACTATGGCAGTCTGGTATGAGGTACGTAGC
1 -GTAAGACCATAGATGAAAGACGCTATGGCAGTCTAGTATGAGGTACGTAGT
*
6977646 GTAAGACCATAGATGAAAGACGCCATGGCAG
1 GTAAGACCATAGATGAAAGACGCTATGGCAG
6977677 CAAGGTATAA
Statistics
Matches: 104, Mismatches: 25, Indels: 14
0.73 0.17 0.10
Matches are distributed among these distances:
50 2 0.02
51 60 0.58
52 4 0.04
53 4 0.04
54 33 0.32
55 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.28, T:0.22
Consensus pattern (51 bp):
GTAAGACCATAGATGAAAGACGCTATGGCAGTCTAGTATGAGGTACGTAGT
Found at i:6977685 original size:105 final size:105
Alignment explanation
Indices: 6977501--6977740 Score: 363
Period size: 105 Copynumber: 2.3 Consensus size: 105
6977491 TAAGACCATC
* * * *
6977501 GATGAATGATGCTATGGCAGTCTAGTATGAGGCACGTAGTGTAAGACCATAGATGAAAGACGCTA
1 GATGAAAGATGCTATGGCAGTCTGGTATGAGGCACGTAGCGTAAGACCATAGATGAAAGACGCCA
* *
6977566 TGACAGCAATGTATAAGGTATACGGTGTAATAAAATCGTA
66 TGACAGCAAGGTATAAGGTATACAGTGTAATAAAATCGTA
* *
6977606 GATGAAAGATACTATGGCAGTCTGGTATGAGGTACGTAGCGTAAGACCATAGATGAAAGACGCCA
1 GATGAAAGATGCTATGGCAGTCTGGTATGAGGCACGTAGCGTAAGACCATAGATGAAAGACGCCA
* *
6977671 TGGCAGCAAGGTATAAGGTATACAGTGTAATAAAATTGTA
66 TGACAGCAAGGTATAAGGTATACAGTGTAATAAAATCGTA
* * *
6977711 GATGAAAGATGCTATGACAGCCAGGTATGA
1 GATGAAAGATGCTATGGCAGTCTGGTATGA
6977741 TGAGTAAGAC
Statistics
Matches: 121, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
105 121 1.00
ACGTcount: A:0.37, C:0.12, G:0.28, T:0.23
Consensus pattern (105 bp):
GATGAAAGATGCTATGGCAGTCTGGTATGAGGCACGTAGCGTAAGACCATAGATGAAAGACGCCA
TGACAGCAAGGTATAAGGTATACAGTGTAATAAAATCGTA
Found at i:6977737 original size:54 final size:53
Alignment explanation
Indices: 6977550--6977738 Score: 168
Period size: 54 Copynumber: 3.6 Consensus size: 53
6977540 TGTAAGACCA
* *
6977550 TAGATGAAAGACGCTATGACAGCAATGTATAAGGTATACGGTGTAATAAAATCG
1 TAGATGAAAGACGCTATGACAGCAAGGTATAAGGTATACAGTGTAATAAAAT-G
** * * * *** * * **
6977604 TAGATGAAAGATACTATGGCAGTC-TGGTATGAGGTACGTAGCGTAAGACCA--
1 TAGATGAAAGACGCTATGACAG-CAAGGTATAAGGTATACAGTGTAATAAAATG
* *
6977655 TAGATGAAAGACGCCATGGCAGCAAGGTATAAGGTATACAGTGTAATAAAATTG
1 TAGATGAAAGACGCTATGACAGCAAGGTATAAGGTATACAGTGTAATAAAA-TG
* *
6977709 TAGATGAAAGATGCTATGACAGCCAGGTAT
1 TAGATGAAAGACGCTATGACAGCAAGGTAT
6977739 GATGAGTAAG
Statistics
Matches: 100, Mismatches: 30, Indels: 10
0.71 0.21 0.07
Matches are distributed among these distances:
50 1 0.01
51 37 0.37
54 61 0.61
55 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.23
Consensus pattern (53 bp):
TAGATGAAAGACGCTATGACAGCAAGGTATAAGGTATACAGTGTAATAAAATG
Found at i:6977770 original size:98 final size:102
Alignment explanation
Indices: 6977541--6977772 Score: 310
Period size: 105 Copynumber: 2.3 Consensus size: 102
6977531 GGCACGTAGT
* * * *
6977541 GTAAGACCATAGATGAAAGACGCTATGACAGCAATGTATAAGGTATACGGTGTAATAAAATCGTA
1 GTAAGACCATAGATGAAAGACGCCATGGCAGCAAGGTATAAGGTATACAGTGTAATAAAATCGTA
* * *
6977606 GATGAAAGATACTATGGCAGTCTGGTATGAGGTACGTAGC
66 GATGAAAGATACTATGACAGCCAGGTATGA-GTA-GTA-C
*
6977646 GTAAGACCATAGATGAAAGACGCCATGGCAGCAAGGTATAAGGTATACAGTGTAATAAAATTGTA
1 GTAAGACCATAGATGAAAGACGCCATGGCAGCAAGGTATAAGGTATACAGTGTAATAAAATCGTA
*
6977711 GATGAAAGATGCTATGACAGCCAGGTATGA-T-G-A-
66 GATGAAAGATACTATGACAGCCAGGTATGAGTAGTAC
* *
6977744 GTAAGACCATGGATGAAAGACTCCATGGC
1 GTAAGACCATAGATGAAAGACGCCATGGC
6977773 TTTATAAGCT
Statistics
Matches: 116, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
98 27 0.23
100 1 0.01
101 1 0.01
103 1 0.01
105 86 0.74
ACGTcount: A:0.38, C:0.13, G:0.27, T:0.22
Consensus pattern (102 bp):
GTAAGACCATAGATGAAAGACGCCATGGCAGCAAGGTATAAGGTATACAGTGTAATAAAATCGTA
GATGAAAGATACTATGACAGCCAGGTATGAGTAGTAC
Found at i:6977887 original size:33 final size:33
Alignment explanation
Indices: 6977850--6978036 Score: 311
Period size: 33 Copynumber: 5.7 Consensus size: 33
6977840 ATAGAGCAAG
*
6977850 TCCTCTAAGACAGTAAACACGGAACAGAGTAAA
1 TCCTCTAGGACAGTAAACACGGAACAGAGTAAA
* *
6977883 TCCTCTAGGACAGTAAACACGGAATAGAGTAAG
1 TCCTCTAGGACAGTAAACACGGAACAGAGTAAA
*
6977916 TCCTCTAGGACAATAAACACGGAACAGAGTAAA
1 TCCTCTAGGACAGTAAACACGGAACAGAGTAAA
* *
6977949 TCCTCTAGGACAGTAAACACGGAATAGAGTAAG
1 TCCTCTAGGACAGTAAACACGGAACAGAGTAAA
*
6977982 TCCTCTAGGACAATAAACACGGAACAGAGTAAA
1 TCCTCTAGGACAGTAAACACGGAACAGAGTAAA
6978015 TCCTCTAGGACAGTAAACACGG
1 TCCTCTAGGACAGTAAACACGG
6978037 GGTGGTCTAC
Statistics
Matches: 141, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 141 1.00
ACGTcount: A:0.42, C:0.21, G:0.21, T:0.17
Consensus pattern (33 bp):
TCCTCTAGGACAGTAAACACGGAACAGAGTAAA
Found at i:6977946 original size:66 final size:66
Alignment explanation
Indices: 6977840--6978036 Score: 367
Period size: 66 Copynumber: 3.0 Consensus size: 66
6977830 TATGGTATCC
* * *
6977840 ATAGAGCAAGTCCTCTAAGACAGTAAACACGGAACAGAGTAAATCCTCTAGGACAGTAAACACGG
1 ATAGAGTAAGTCCTCTAGGACAATAAACACGGAACAGAGTAAATCCTCTAGGACAGTAAACACGG
6977905 A
66 A
6977906 ATAGAGTAAGTCCTCTAGGACAATAAACACGGAACAGAGTAAATCCTCTAGGACAGTAAACACGG
1 ATAGAGTAAGTCCTCTAGGACAATAAACACGGAACAGAGTAAATCCTCTAGGACAGTAAACACGG
6977971 A
66 A
6977972 ATAGAGTAAGTCCTCTAGGACAATAAACACGGAACAGAGTAAATCCTCTAGGACAGTAAACACGG
1 ATAGAGTAAGTCCTCTAGGACAATAAACACGGAACAGAGTAAATCCTCTAGGACAGTAAACACGG
6978037 GGTGGTCTAC
Statistics
Matches: 128, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 128 1.00
ACGTcount: A:0.42, C:0.20, G:0.21, T:0.16
Consensus pattern (66 bp):
ATAGAGTAAGTCCTCTAGGACAATAAACACGGAACAGAGTAAATCCTCTAGGACAGTAAACACGG
A
Found at i:6982135 original size:22 final size:22
Alignment explanation
Indices: 6982099--6982165 Score: 98
Period size: 22 Copynumber: 3.0 Consensus size: 22
6982089 TTATATTGCA
6982099 AAAATGTTAAAAATTAAATAAAT
1 AAAA-GTTAAAAATTAAATAAAT
*
6982122 AAAAGTTAATAATTAAATAAAT
1 AAAAGTTAAAAATTAAATAAAT
*
6982144 AAAAGTTAAAAACATAAATAAA
1 AAAAGTTAAAAA-TTAAATAAA
6982166 GGAAAGAAAC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
22 28 0.70
23 12 0.30
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.27
Consensus pattern (22 bp):
AAAAGTTAAAAATTAAATAAAT
Found at i:6983914 original size:2 final size:2
Alignment explanation
Indices: 6983909--6983933 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6983899 GGCGCGCACA
6983909 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
6983934 AAATTGGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:6984528 original size:15 final size:15
Alignment explanation
Indices: 6984508--6984540 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
6984498 TGCATAATCC
6984508 TATTAGTATATATAA
1 TATTAGTATATATAA
6984523 TATTAGTATATATAA
1 TATTAGTATATATAA
6984538 TAT
1 TAT
6984541 GAATGTGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (15 bp):
TATTAGTATATATAA
Found at i:6985426 original size:16 final size:16
Alignment explanation
Indices: 6985401--6985448 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
6985391 ATGGAAAAAC
6985401 ACAA-TTGTTCTAAAT
1 ACAAGTTGTTCTAAAT
*
6985416 ACAAGTTGTTCGAAAT
1 ACAAGTTGTTCTAAAT
*
6985432 -CATGATTGTTCTAAAT
1 ACAAG-TTGTTCTAAAT
6985448 A
1 A
6985449 TAACTATTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 7 0.26
16 20 0.74
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (16 bp):
ACAAGTTGTTCTAAAT
Found at i:6986917 original size:28 final size:28
Alignment explanation
Indices: 6986878--6986942 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 28
6986868 ATAAAAATTA
6986878 ACCAAAATATTATAAC-TTTTTT-TTATTT
1 ACCAAAATATT-T-ACTTTTTTTATTATTT
6986906 ACCAAAATA-TTACTTTTTTTATTATTT
1 ACCAAAATATTTACTTTTTTTATTATTT
*
6986933 ACGAAAATAT
1 ACCAAAATAT
6986943 ACCAAAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
25 2 0.06
26 7 0.21
27 15 0.45
28 9 0.27
ACGTcount: A:0.38, C:0.11, G:0.02, T:0.49
Consensus pattern (28 bp):
ACCAAAATATTTACTTTTTTTATTATTT
Found at i:6987034 original size:27 final size:27
Alignment explanation
Indices: 6987003--6987083 Score: 128
Period size: 27 Copynumber: 3.0 Consensus size: 27
6986993 CAAGCCAATC
*
6987003 ACATTGGCGGCACCAAAGGTGCCAAAG
1 ACATTGGCGGCACCAATGGTGCCAAAG
6987030 ACATTGGCGGCACCAATGGTGCCAAAG
1 ACATTGGCGGCACCAATGGTGCCAAAG
*
6987057 -CGATTGGCGGCATCAATGGTGCCAAAG
1 AC-ATTGGCGGCACCAATGGTGCCAAAG
6987084 GGGCTAATTG
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
26 1 0.02
27 50 0.98
ACGTcount: A:0.30, C:0.25, G:0.31, T:0.15
Consensus pattern (27 bp):
ACATTGGCGGCACCAATGGTGCCAAAG
Found at i:6987497 original size:30 final size:31
Alignment explanation
Indices: 6987438--6987499 Score: 90
Period size: 33 Copynumber: 2.0 Consensus size: 31
6987428 ATTATTTTCT
*
6987438 TTTTATTCCCCTTCGACTCATTTTTTTAGTAAA
1 TTTTATTCCCCTTCAACTCA--TTTTTAGTAAA
6987471 TTTTATTCCCCTTCAACTCA-TTTTAGTAA
1 TTTTATTCCCCTTCAACTCATTTTTAGTAA
6987500 TAATAAAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 9 0.32
33 19 0.68
ACGTcount: A:0.23, C:0.23, G:0.05, T:0.50
Consensus pattern (31 bp):
TTTTATTCCCCTTCAACTCATTTTTAGTAAA
Found at i:6987584 original size:41 final size:39
Alignment explanation
Indices: 6987539--6987690 Score: 121
Period size: 33 Copynumber: 4.1 Consensus size: 39
6987529 CCAAATAGAA
6987539 AAAATGAGTTTTATTATTACTAAAATGAGTTGAAGGGGAAT
1 AAAATGA--TTTATTATTACTAAAATGAGTTGAAGGGGAAT
* *
6987580 -AAA--ATTTACTA--A-AAAAATGAGTTGAAGGGGAAT
1 AAAATGATTTATTATTACTAAAATGAGTTGAAGGGGAAT
* * *
6987613 AAAAAGAAAATAATTATTACTAAAATGAGTTGAAGGGGAAT
1 AAAATG--ATTTATTATTACTAAAATGAGTTGAAGGGGAAT
* *
6987654 -AAA--ATTTACTA--A-AAAAATGAGTTGAAGGGGAAT
1 AAAATGATTTATTATTACTAAAATGAGTTGAAGGGGAAT
6987687 AAAA
1 AAAA
6987691 AGAAAATAAT
Statistics
Matches: 92, Mismatches: 10, Indels: 25
0.72 0.08 0.20
Matches are distributed among these distances:
33 40 0.43
34 8 0.09
36 11 0.12
38 6 0.07
40 7 0.08
41 20 0.22
ACGTcount: A:0.51, C:0.03, G:0.20, T:0.26
Consensus pattern (39 bp):
AAAATGATTTATTATTACTAAAATGAGTTGAAGGGGAAT
Found at i:6987601 original size:33 final size:33
Alignment explanation
Indices: 6987560--6987690 Score: 163
Period size: 33 Copynumber: 3.7 Consensus size: 33
6987550 TATTATTACT
6987560 AAAATGAGTTGAAGGGGAATAAAATTTACTAAA
1 AAAATGAGTTGAAGGGGAATAAAATTTACTAAA
* **
6987593 AAAATGAGTTGAAGGGGAATAAAAAGAAAATAATTATTACT
1 AAAATGAGTTGAAGGGGAAT------AAAAT--TTACTAAA
6987634 AAAATGAGTTGAAGGGGAATAAAATTTACTAAA
1 AAAATGAGTTGAAGGGGAATAAAATTTACTAAA
6987667 AAAATGAGTTGAAGGGGAATAAAA
1 AAAATGAGTTGAAGGGGAATAAAA
6987691 AGAAAATAAT
Statistics
Matches: 84, Mismatches: 6, Indels: 16
0.79 0.06 0.15
Matches are distributed among these distances:
33 49 0.58
35 5 0.06
39 5 0.06
41 25 0.30
ACGTcount: A:0.53, C:0.02, G:0.22, T:0.23
Consensus pattern (33 bp):
AAAATGAGTTGAAGGGGAATAAAATTTACTAAA
Found at i:6987631 original size:74 final size:74
Alignment explanation
Indices: 6987551--6987700 Score: 300
Period size: 74 Copynumber: 2.0 Consensus size: 74
6987541 AATGAGTTTT
6987551 ATTATTACTAAAATGAGTTGAAGGGGAATAAAATTTACTAAAAAAATGAGTTGAAGGGGAATAAA
1 ATTATTACTAAAATGAGTTGAAGGGGAATAAAATTTACTAAAAAAATGAGTTGAAGGGGAATAAA
6987616 AAGAAAATA
66 AAGAAAATA
6987625 ATTATTACTAAAATGAGTTGAAGGGGAATAAAATTTACTAAAAAAATGAGTTGAAGGGGAATAAA
1 ATTATTACTAAAATGAGTTGAAGGGGAATAAAATTTACTAAAAAAATGAGTTGAAGGGGAATAAA
6987690 AAGAAAATA
66 AAGAAAATA
6987699 AT
1 AT
6987701 AAATAAGGAG
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 76 1.00
ACGTcount: A:0.53, C:0.03, G:0.20, T:0.25
Consensus pattern (74 bp):
ATTATTACTAAAATGAGTTGAAGGGGAATAAAATTTACTAAAAAAATGAGTTGAAGGGGAATAAA
AAGAAAATA
Found at i:6988084 original size:20 final size:18
Alignment explanation
Indices: 6988044--6988086 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
6988034 TTGGTGTCAG
*
6988044 GTTTTTTTTTTCTTTTCT
1 GTTTTTTTTTTCTTTTAT
*
6988062 GTTTTTTGTTTTTTTTATAT
1 GTTTTTT-TTTTCTTT-TAT
6988082 GTTTT
1 GTTTT
6988087 GGTAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 7 0.33
19 7 0.33
20 7 0.33
ACGTcount: A:0.05, C:0.05, G:0.09, T:0.81
Consensus pattern (18 bp):
GTTTTTTTTTTCTTTTAT
Found at i:6989147 original size:5 final size:5
Alignment explanation
Indices: 6989139--6989172 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
6989129 TCTTCAGTAA
*
6989139 AAAAA AAAAG AAAAG AAAAG AAAAG AAAAAG AAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG -AAAAG AAA
6989173 GAAGTGAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:6990655 original size:35 final size:35
Alignment explanation
Indices: 6990616--6990697 Score: 164
Period size: 35 Copynumber: 2.3 Consensus size: 35
6990606 ATATACTATC
6990616 ACATATATCAAATAGGGTTGACCAAAAAGAAAAAT
1 ACATATATCAAATAGGGTTGACCAAAAAGAAAAAT
6990651 ACATATATCAAATAGGGTTGACCAAAAAGAAAAAT
1 ACATATATCAAATAGGGTTGACCAAAAAGAAAAAT
6990686 ACATATATCAAA
1 ACATATATCAAA
6990698 AATAAATTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 47 1.00
ACGTcount: A:0.55, C:0.12, G:0.12, T:0.21
Consensus pattern (35 bp):
ACATATATCAAATAGGGTTGACCAAAAAGAAAAAT
Found at i:6992770 original size:20 final size:21
Alignment explanation
Indices: 6992745--6992790 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
6992735 ATGTATTATT
6992745 AGGGGCAAAATAC-CAAAAAA
1 AGGGGCAAAATACACAAAAAA
* *
6992765 AGGGGCAAATTACACATAAAA
1 AGGGGCAAAATACACAAAAAA
6992786 AGGGG
1 AGGGG
6992791 GTATTTATCC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.52, C:0.13, G:0.26, T:0.09
Consensus pattern (21 bp):
AGGGGCAAAATACACAAAAAA
Found at i:6995743 original size:405 final size:406
Alignment explanation
Indices: 6994984--6995796 Score: 1619
Period size: 405 Copynumber: 2.0 Consensus size: 406
6994974 TTTTATAATA
6994984 AAATTTTAAAATTTTCATTAATAATAAAGTTTTAAAATTTACAATTTTTAACAGAATTTTAGTCT
1 AAATTTTAAAATTTTCATTAATAATAAAGTTTTAAAATTTACAATTTTTAACAGAATTTTAGTCT
6995049 TTTTATTGAAAATATAAATAAACCTTTTAATTTTATGTTCTTTTGAAGAGTAACAATCAAATTGA
66 TTTTATTGAAAATATAAATAAACCTTTTAATTTTATGTTCTTTTGAAGAGTAACAATCAAATTGA
6995114 CAAAAAAAAATGAACGTTGACAGTAAAAATTGCAAAATTAGATGAAGGGATTAAGATTTTTAAAT
131 CAAAAAAAAATGAACGTTGACAGTAAAAATTGCAAAATTAGATGAAGGGATTAAGATTTTTAAAT
6995179 AAGATTCAATAACTCAAAATTAAAATACACGGACTAAATTTTAACTTTTTTAAAAGTACAGATAT
196 AAGATTCAATAACTCAAAATTAAAATACACGGACTAAATTTTAACTTTTTTAAAAGTACAGATAT
6995244 CTTTGACATATAGAAAGCTTGAAAAATAGTTTGACATTAGTAATGAAATCTAGTGTGTGTGTGTA
261 CTTTGACATATAGAAAGCTTGAAAAATAGTTTGACATTAGTAATGAAATCTAGTGTGTGTGTGTA
6995309 TATACATATATAGTTAATAATTAAATATTTGTTATTACTAGAAACCAAAGTGCTTTTGTTTTCGG
326 TATACATATATAGTTAATAATTAAATATTTGTTATTACTAGAAACCAAAGTGCTTTTGTTTTCGG
6995374 GAGGAGCATTAGTGAC
391 GAGGAGCATTAGTGAC
6995390 AAATTTT-AAATTTTCATTAATAATAAAGTTTTAAAATTTACAATTTTTAACAGAATTTTAGTCT
1 AAATTTTAAAATTTTCATTAATAATAAAGTTTTAAAATTTACAATTTTTAACAGAATTTTAGTCT
6995454 TTTTATTGAAAATATAAATAAACCTTTTAATTTTATGTTCTTTTGAAGAGTAACAATCAAATTGA
66 TTTTATTGAAAATATAAATAAACCTTTTAATTTTATGTTCTTTTGAAGAGTAACAATCAAATTGA
6995519 CAAAAAAAAATGAACGTTGACAGTAAAAATTGCAAAATTAGATGAAGGGATTAAGATTTTTAAAT
131 CAAAAAAAAATGAACGTTGACAGTAAAAATTGCAAAATTAGATGAAGGGATTAAGATTTTTAAAT
6995584 AAGATTCAATAACTCAAAATTAAAATACACGGACTAAATTTTAACTTTTTTAAAAGTACAGATAT
196 AAGATTCAATAACTCAAAATTAAAATACACGGACTAAATTTTAACTTTTTTAAAAGTACAGATAT
6995649 CTTTGACATATAGAAAGCTTGAAAAATAGTTTGACATTAGTAATGAAATCTAGTGTGTGTGTGTA
261 CTTTGACATATAGAAAGCTTGAAAAATAGTTTGACATTAGTAATGAAATCTAGTGTGTGTGTGTA
6995714 TATACATATATAGTTAATAATTAAATATTTGTTATTACTAGAAACCAAAGTGCTTTTGTTTTCGG
326 TATACATATATAGTTAATAATTAAATATTTGTTATTACTAGAAACCAAAGTGCTTTTGTTTTCGG
6995779 GAGGAGCATTAGTGAC
391 GAGGAGCATTAGTGAC
6995795 AA
1 AA
6995797 TATACTGTTG
Statistics
Matches: 407, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
405 400 0.98
406 7 0.02
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.37
Consensus pattern (406 bp):
AAATTTTAAAATTTTCATTAATAATAAAGTTTTAAAATTTACAATTTTTAACAGAATTTTAGTCT
TTTTATTGAAAATATAAATAAACCTTTTAATTTTATGTTCTTTTGAAGAGTAACAATCAAATTGA
CAAAAAAAAATGAACGTTGACAGTAAAAATTGCAAAATTAGATGAAGGGATTAAGATTTTTAAAT
AAGATTCAATAACTCAAAATTAAAATACACGGACTAAATTTTAACTTTTTTAAAAGTACAGATAT
CTTTGACATATAGAAAGCTTGAAAAATAGTTTGACATTAGTAATGAAATCTAGTGTGTGTGTGTA
TATACATATATAGTTAATAATTAAATATTTGTTATTACTAGAAACCAAAGTGCTTTTGTTTTCGG
GAGGAGCATTAGTGAC
Found at i:6997087 original size:3 final size:3
Alignment explanation
Indices: 6997081--6997152 Score: 144
Period size: 3 Copynumber: 24.0 Consensus size: 3
6997071 CACTATTATT
6997081 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
6997129 ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC
6997153 TATGCTAGTA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:7001886 original size:22 final size:24
Alignment explanation
Indices: 7001861--7001912 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 24
7001851 AAAAAAAAAG
*
7001861 AAAAATGAT-CAAAGTC-AAAAT-A
1 AAAAATCATCCAAA-TCAAAAATGA
*
7001883 AAAAGTCATCCAAATCAAAAATGA
1 AAAAATCATCCAAATCAAAAATGA
7001907 AAAAAT
1 AAAAAT
7001913 AAGAAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
22 9 0.38
23 9 0.38
24 6 0.25
ACGTcount: A:0.63, C:0.12, G:0.08, T:0.17
Consensus pattern (24 bp):
AAAAATCATCCAAATCAAAAATGA
Found at i:7002777 original size:7 final size:7
Alignment explanation
Indices: 7002767--7002817 Score: 63
Period size: 7 Copynumber: 7.4 Consensus size: 7
7002757 AAAAAGAGAG
7002767 ATGAAAA
1 ATGAAAA
7002774 ATG-AAA
1 ATGAAAA
7002780 ATG-AAA
1 ATGAAAA
7002786 ATGAAAA
1 ATGAAAA
7002793 ATGAAAAA
1 ATG-AAAA
7002801 ATGAAAA
1 ATGAAAA
7002808 A-GTAAAA
1 ATG-AAAA
7002815 ATG
1 ATG
7002818 GAGAGGCTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
6 13 0.32
7 19 0.47
8 8 0.20
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.16
Consensus pattern (7 bp):
ATGAAAA
Found at i:7004302 original size:50 final size:50
Alignment explanation
Indices: 7004212--7004794 Score: 302
Period size: 50 Copynumber: 11.6 Consensus size: 50
7004202 GTAGCGGAGC
* * * * * * *
7004212 AGATTAAAGCCACATCGGTGAATATTGCTTCCCTGACATTGTAGTTAAAA
1 AGATTAAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTTAAAA
* * *
7004262 AGCTTAAAGCTACAACAGCGAATCTTATTTCCCTGGCATTGCAGTTAAAA
1 AGATTAAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTTAAAA
* * * * * ** *
7004312 AGATTAAAGCCACATC-GATGAATCTTGCCTCCCTGATGTTGCGGTTAAAA
1 AGATTAAAGCTACAACAG-CGAATCTTACTTCCCTGACATTGCAGTTAAAA
* * * * ** ** *
7004362 AGGTTAAAGCTACAACAGCGAATCTTACCTCCCAGGCGGTGCAGTGGAAC
1 AGATTAAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTTAAAA
* * * * *
7004412 GGATTAAAGCCACAACAGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTTAAAA
* * * * * * ** **
7004462 GGATTAAAG-TCACGAC-GACAAATCTTACTCTCCCAGGCAGTGCAGTGGAGT
1 AGATTAAAGCT-ACAACAG-CGAATCTTACT-TCCCTGACATTGCAGTTAAAA
* * *
7004513 AGATTAAAGAC-ACAACAGAGAATCTTGCTTTCCC-AACATTGCAGTTAAAA
1 AGATTAAAG-CTACAACAGCGAATCTTAC-TTCCCTGACATTGCAGTTAAAA
* * * * * * **
7004563 GGATTAAAG-TCACAAC-GATGAATCTTACTCTCCCAGGCAGTGCAGTGAAGC
1 AGATTAAAGCT-ACAACAG-CGAATCTTACT-TCCCTGACATTGCAGTTAAAA
* * * * *
7004614 AGATTAAAGCCACAACGGTGAATCTTGCTTTCCC-GACATTGCAATTAAAA
1 AGATTAAAGCTACAACAGCGAATCTTAC-TTCCCTGACATTGCAGTTAAAA
* * * * * * * * *
7004664 GGATTAAAGTTACAAAAACGAATCTTACTCTCCCAGGCAGTGCAGTGAAGCA
1 AGATTAAAGCTACAACAGCGAATCTTACT-TCCCTGACATTGCAGTTAA-AA
* * * * * *
7004716 A-ATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTACAGTTAAAA
1 AGATTAAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTTAAAA
* * **
7004765 AGATTGAAGCCACAATGGCGAATCTTACTT
1 AGATTAAAGCTACAACAGCGAATCTTACTT
7004795 TCCAAAGTTA
Statistics
Matches: 392, Mismatches: 120, Indels: 42
0.71 0.22 0.08
Matches are distributed among these distances:
49 7 0.02
50 276 0.70
51 104 0.27
52 5 0.01
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.24
Consensus pattern (50 bp):
AGATTAAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTTAAAA
Found at i:7004527 original size:101 final size:100
Alignment explanation
Indices: 7004209--7004793 Score: 651
Period size: 101 Copynumber: 5.8 Consensus size: 100
7004199 GCAGTAGCGG
* * * * * *
7004209 AGCAGATTAAAGCCACATCGGTGAATATTGCTTCCCTGACATTGTAGTTAAAAAGCTTAAAG-CT
1 AGCAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAGGATTAAAGTC-
* * * *
7004273 ACAACAGCGAATCTTA-TTTCCCTGGCATTGCAGTTA
65 ACAACA-CGAATCTTACTCTCCCAGGCAGTGCAGTGA
** * * * * ** *
7004309 AAAAGATTAAAGCCACATCGATGAATCTTGCCTCCCTGATGTTGCGGTTAAAAAGG-TTAAAG-C
1 AGCAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTT-AAAAGGATTAAAGTC
*
7004372 TACAACAGCGAATCTTAC-CTCCCAGGCGGTGCAGTGGA
65 -ACAACA-CGAATCTTACTCTCCCAGGCAGTGCAGT-GA
* *
7004410 A-CGGATTAAAGCCACAACAGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAGGATTAAAGTCA
1 AGCAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAGGATTAAAGTCA
* * *
7004474 CGACGACAAATCTTACTCTCCCAGGCAGTGCAGTGG
66 CAAC-ACGAATCTTACTCTCCCAGGCAGTGCAGTGA
* * * * * *
7004510 AGTAGATTAAAGACACAACAGAGAATCTTGCTTTCCCAACATTGCAGTTAAAAGGATTAAAGTCA
1 AGCAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAGGATTAAAGTCA
*
7004575 CAACGATGAATCTTACTCTCCCAGGCAGTGCAGTGA
66 CAAC-ACGAATCTTACTCTCCCAGGCAGTGCAGTGA
* * *
7004611 AGCAGATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAATTAAAAGGATTAAAGTTA
1 AGCAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAGGATTAAAGTCA
*
7004676 CAAAAACGAATCTTACTCTCCCAGGCAGTGCAGTGA
66 C-AACACGAATCTTACTCTCCCAGGCAGTGCAGTGA
* * * * *
7004712 AGCAAATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTGAAGCCA
1 AGCAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAGGATTAAAGTCA
**
7004777 CAATGGCGAATCTTACT
66 CAA-CACGAATCTTACT
7004794 TTCCAAAGTT
Statistics
Matches: 417, Mismatches: 58, Indels: 19
0.84 0.12 0.04
Matches are distributed among these distances:
99 6 0.01
100 137 0.33
101 272 0.65
102 2 0.00
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.24
Consensus pattern (100 bp):
AGCAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAGGATTAAAGTCA
CAACACGAATCTTACTCTCCCAGGCAGTGCAGTGA
Found at i:7014844 original size:18 final size:18
Alignment explanation
Indices: 7014810--7014844 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7014800 AAAAATCATA
7014810 AATAATTTAAAAGATTTC
1 AATAATTTAAAAGATTTC
*
7014828 AATAATTTAAAATATTT
1 AATAATTTAAAAGATTT
7014845 GTAAACTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (18 bp):
AATAATTTAAAAGATTTC
Found at i:7025712 original size:17 final size:17
Alignment explanation
Indices: 7025685--7025717 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
7025675 AAATACTATG
7025685 TCAATTAATT-ATAATT
1 TCAATTAATTAATAATT
7025701 TCAATCTAATTAATAAT
1 TCAAT-TAATTAATAAT
7025718 AAATTCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 5 0.33
18 5 0.33
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (17 bp):
TCAATTAATTAATAATT
Found at i:7027585 original size:4 final size:4
Alignment explanation
Indices: 7027576--7027610 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
7027566 GGTTCATTTT
7027576 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT
7027611 TGTGAATGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (4 bp):
TGTA
Found at i:7043141 original size:24 final size:25
Alignment explanation
Indices: 7043114--7043161 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
7043104 AGAGGAAAGT
7043114 TTAAAGAACATAAAA-GAAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAAA
** *
7043138 TTAAATTACTTAAAACGAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAA
7043162 TATGGGGATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.19
Consensus pattern (25 bp):
TTAAAGAACATAAAACGAAAAAAAA
Found at i:7044974 original size:106 final size:107
Alignment explanation
Indices: 7044790--7045003 Score: 421
Period size: 106 Copynumber: 2.0 Consensus size: 107
7044780 TGGATCACCT
7044790 AAAAAACGGCTTTGGTACGAGTTTTAGGAAAACAGATCCGGGAGTCAGTTACATATGAGGAAGGA
1 AAAAAACGGCTTTGGTACGAGTTTTAGGAAAACAGATCCGGGAGTCAGTTACATATGAGGAAGGA
7044855 TTAGCACCCTCTTAACGCCCAAAATTGGTACCTAGTTAATTA
66 TTAGCACCCTCTTAACGCCCAAAATTGGTACCTAGTTAATTA
7044897 AAAAAACGGC-TTGGTACGAGTTTTAGGAAAACAGATCCGGGAGTCAGTTACATATGAGGAAGGA
1 AAAAAACGGCTTTGGTACGAGTTTTAGGAAAACAGATCCGGGAGTCAGTTACATATGAGGAAGGA
7044961 TTAGCACCCTCTTAACGCCCAAAATTGGTACCTAGTTAATTA
66 TTAGCACCCTCTTAACGCCCAAAATTGGTACCTAGTTAATTA
7045003 A
1 A
7045004 TTAGTGTCTT
Statistics
Matches: 107, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
106 97 0.91
107 10 0.09
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (107 bp):
AAAAAACGGCTTTGGTACGAGTTTTAGGAAAACAGATCCGGGAGTCAGTTACATATGAGGAAGGA
TTAGCACCCTCTTAACGCCCAAAATTGGTACCTAGTTAATTA
Found at i:7045536 original size:12 final size:11
Alignment explanation
Indices: 7045519--7045552 Score: 52
Period size: 10 Copynumber: 3.1 Consensus size: 11
7045509 AATGCAAATG
7045519 AATTTATATATA
1 AATTTATATA-A
7045531 AATTTATA-AA
1 AATTTATATAA
7045541 AATTTATATAA
1 AATTTATATAA
7045552 A
1 A
7045553 CAAAATACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 9 0.43
11 4 0.19
12 8 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AATTTATATAA
Found at i:7045829 original size:18 final size:18
Alignment explanation
Indices: 7045801--7045853 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
7045791 AGTTTGAAAA
*
7045801 AAATAATAATACATATGT
1 AAATAAAAATACATATGT
* * *
7045819 ACATAAAAATATACATGT
1 AAATAAAAATACATATGT
*
7045837 AAATAATAATTACATAT
1 AAATAA-AAATACATAT
7045854 AAAAATTAAA
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
18 19 0.73
19 7 0.27
ACGTcount: A:0.57, C:0.08, G:0.04, T:0.32
Consensus pattern (18 bp):
AAATAAAAATACATATGT
Found at i:7045891 original size:22 final size:22
Alignment explanation
Indices: 7045841--7045885 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
7045831 ACATGTAAAT
7045841 AATAATTACATATAAAAATTAA
1 AATAATTACATATAAAAATTAA
* *
7045863 AAAAATTACATTATTAAAATTAA
1 AATAATTACA-TATAAAAATTAA
7045886 TTAATTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (22 bp):
AATAATTACATATAAAAATTAA
Found at i:7046462 original size:19 final size:19
Alignment explanation
Indices: 7046438--7046510 Score: 119
Period size: 19 Copynumber: 3.8 Consensus size: 19
7046428 AATCATATAT
7046438 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
7046457 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
*
7046476 TCTAAGATTGCGTATCATA
1 TCTAAGATTGCATATCATA
7046495 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
7046511 CTCAAAAATT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 48 1.00
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:7056826 original size:6 final size:6
Alignment explanation
Indices: 7056815--7056885 Score: 135
Period size: 6 Copynumber: 12.0 Consensus size: 6
7056805 TAAGGATGTA
7056815 TATATG TATATG TATATG TATATG TATATG TATATG T-TATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
7056862 TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG
7056886 AATTAAAATA
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.08
6 59 0.92
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (6 bp):
TATATG
Found at i:7056860 original size:35 final size:35
Alignment explanation
Indices: 7056817--7056885 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
7056807 AGGATGTATA
7056817 TATGTATATGTATATGTATATGTATATGTATATGT
1 TATGTATATGTATATGTATATGTATATGTATATGT
7056852 TATGTATATGTATATGTATATGTATATGTATATG
1 TATGTATATGTATATGTATATGTATATGTATATG
7056886 AATTAAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (35 bp):
TATGTATATGTATATGTATATGTATATGTATATGT
Done.