Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 26 of 133
Found at i:6331145 original size:16 final size:16
Alignment explanation
Indices: 6331124--6331158 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
6331114 AATTTTCCAC
6331124 TTAACTAAATCATGAT
1 TTAACTAAATCATGAT
*
6331140 TTAACTAAATCTTGAT
1 TTAACTAAATCATGAT
6331156 TTA
1 TTA
6331159 GAGTAGCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (16 bp):
TTAACTAAATCATGAT
Found at i:6333216 original size:11 final size:11
Alignment explanation
Indices: 6333202--6333242 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
6333192 TTTATTTTAT
*
6333202 AAATATTTAAA
1 AAATATATAAA
6333213 AAATATATAAA
1 AAATATATAAA
*
6333224 AACTA-AT-AA
1 AAATATATAAA
6333233 AAATATATAA
1 AAATATATAA
6333243 TTTAATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
9 6 0.24
10 4 0.16
11 15 0.60
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (11 bp):
AAATATATAAA
Found at i:6334137 original size:30 final size:29
Alignment explanation
Indices: 6334099--6334190 Score: 96
Period size: 30 Copynumber: 3.1 Consensus size: 29
6334089 GTCTACGTTA
*
6334099 AAGATTTATTTAGATACAAATAAAAAGTT
1 AAGATTTATTTAGATATAAATAAAAAGTT
* *
6334128 AAGAGTTTATTTTGATATAAATTAAATA-TT
1 AAGA-TTTATTTAGATATAAA-TAAAAAGTT
* * *
6334158 AAAAATTTATTTAAATATAAATTAAAAGTT
1 -AAGATTTATTTAGATATAAATAAAAAGTT
6334188 AAG
1 AAG
6334191 GGTTCGGTAG
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
29 10 0.20
30 32 0.64
31 8 0.16
ACGTcount: A:0.51, C:0.01, G:0.09, T:0.39
Consensus pattern (29 bp):
AAGATTTATTTAGATATAAATAAAAAGTT
Found at i:6339973 original size:12 final size:12
Alignment explanation
Indices: 6339941--6339974 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
6339931 ATACTGGGTT
6339941 TATATGTATGTTA
1 TATATG-ATGTTA
6339954 TAATATGATGTTA
1 T-ATATGATGTTA
6339967 TATATGAT
1 TATATGAT
6339975 ATGTATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 7 0.35
13 8 0.40
14 5 0.25
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (12 bp):
TATATGATGTTA
Found at i:6344176 original size:13 final size:13
Alignment explanation
Indices: 6344120--6344181 Score: 52
Period size: 13 Copynumber: 4.7 Consensus size: 13
6344110 TATTCAACTT
*
6344120 TTTTTTTTTTTTG
1 TTTTTTTTTTTTC
**
6344133 TTTTCATTTTTTC
1 TTTTTTTTTTTTC
* *
6344146 ATTTATTTTTTTC
1 TTTTTTTTTTTTC
* *
6344159 CTTTTTTTTTTTG
1 TTTTTTTTTTTTC
6344172 TTTTTGTTTT
1 TTTTT-TTTT
6344182 AAAAGGTCCT
Statistics
Matches: 38, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
13 34 0.89
14 4 0.11
ACGTcount: A:0.05, C:0.06, G:0.05, T:0.84
Consensus pattern (13 bp):
TTTTTTTTTTTTC
Found at i:6344525 original size:83 final size:85
Alignment explanation
Indices: 6344391--6344595 Score: 215
Period size: 83 Copynumber: 2.5 Consensus size: 85
6344381 TTTAGCTCAA
** * * *
6344391 AAGACTTATGAATCTTACTTAGAGGACTT-AAAGATTACACTTGTAGGTCTTACAAATCTTAACC
1 AAGACTTATGAATCTTACTTAGAGGACTTGAAAGATTACACCAGTAGCTCTTACAAATATCAACC
* *
6344455 CTAAAACAGATTAAC-TTGG
66 CTAAAACAAATTAACTTTAG
* * *
6344474 AAGACTTATGAATCTTGCTTGGAGGACTTGAAA-ATTATGC-CCAG-AGCTCTTACAAATATCGA
1 AAGACTTATGAATCTTACTTAGAGGACTTGAAAGATTA--CACCAGTAGCTCTTACAAATATCAA
* *
6344536 CTCTAAAACAAATTCACTTTAG
64 CCCTAAAACAAATTAACTTTAG
* * *
6344558 AAGACTTATAAATTTTACTTAGAGGACTTG-GAGATTAC
1 AAGACTTATGAATCTTACTTAGAGGACTTGAAAGATTAC
6344596 GTTTGGAGAT
Statistics
Matches: 100, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
82 1 0.01
83 60 0.60
84 38 0.38
85 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.31
Consensus pattern (85 bp):
AAGACTTATGAATCTTACTTAGAGGACTTGAAAGATTACACCAGTAGCTCTTACAAATATCAACC
CTAAAACAAATTAACTTTAG
Found at i:6344646 original size:84 final size:84
Alignment explanation
Indices: 6344348--6344656 Score: 248
Period size: 84 Copynumber: 3.7 Consensus size: 84
6344338 GCTTATGCTC
* * * *
6344348 GGAGGTCTTACAAATTATCGACTTTAAAATAGATTTAGCTCAAAAGACTTATGAATCTTACTTAG
1 GGAGGTCTTACAAA-TATCGAATCTAAAACAGATTTAGATCAAAAGACTTATGAATCTTACTTAG
* *
6344413 AGGACTTAAAGATTACACTT
65 AGGACTTGAAGATTACGCTT
* * * * *** * *
6344433 GTAGGTCTTACAAATCT-TAACCCTAAAACAGA-TTA-ACTTGGAAGACTTATGAATCTTGCTTG
1 GGAGGTCTTACAAATATCGAA-TCTAAAACAGATTTAGA-TCAAAAGACTTATGAATCTTACTTA
* * **
6344495 GAGGACTTGAAAATTATGCCC
64 GAGGACTTGAAGATTACGCTT
* * * * * ** * * * *
6344516 AGAGCTCTTACAAATATCGACTCTAAAACAAATTCACTTTAGAAGACTTATAAATTTTACTTAGA
1 GGAGGTCTTACAAATATCGAATCTAAAACAGATTTAGATCAAAAGACTTATGAATCTTACTTAGA
* *
6344581 GGACTTGGAGATTACGTTT
66 GGACTTGAAGATTACGCTT
* * *
6344600 GGAGATCTTACAAATATTGAATCTAAAATAGATTTAGATCAAAAGAC-TATGAATCTT
1 GGAGGTCTTACAAATATCGAATCTAAAACAGATTTAGATCAAAAGACTTATGAATCTT
6344657 GCTCGAAGGA
Statistics
Matches: 166, Mismatches: 53, Indels: 12
0.72 0.23 0.05
Matches are distributed among these distances:
83 69 0.42
84 84 0.51
85 13 0.08
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.32
Consensus pattern (84 bp):
GGAGGTCTTACAAATATCGAATCTAAAACAGATTTAGATCAAAAGACTTATGAATCTTACTTAGA
GGACTTGAAGATTACGCTT
Found at i:6352185 original size:23 final size:22
Alignment explanation
Indices: 6352136--6352185 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
6352126 ACGATTTATG
*
6352136 ATAAAAATTTAAAACTAGATAA
1 ATAAAAATTTAAAACTAAATAA
*
6352158 GTAAAAGA-TTAAAACATAAATAA
1 ATAAAA-ATTTAAAAC-TAAATAA
6352181 ATAAA
1 ATAAA
6352186 TAAGACAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.66, C:0.04, G:0.06, T:0.24
Consensus pattern (22 bp):
ATAAAAATTTAAAACTAAATAA
Found at i:6353432 original size:10 final size:10
Alignment explanation
Indices: 6353419--6353445 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
6353409 GAAGAAAGTA
6353419 AAAAAAAAAG
1 AAAAAAAAAG
6353429 AAAAAAAAAG
1 AAAAAAAAAG
6353439 AAAAAAA
1 AAAAAAA
6353446 GAAAACAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:6353434 original size:8 final size:8
Alignment explanation
Indices: 6353413--6353458 Score: 51
Period size: 8 Copynumber: 6.0 Consensus size: 8
6353403 AAATACGAAG
*
6353413 AAAGTAAA
1 AAAGAAAA
6353421 AAA-AAAA
1 AAAGAAAA
*
6353428 GAA-AAAA
1 AAAGAAAA
6353435 AAAGAAAA
1 AAAGAAAA
6353443 AAAGAAAA
1 AAAGAAAA
*
6353451 CAAGAAAA
1 AAAGAAAA
6353459 TGGTTTAGCT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
7 11 0.33
8 22 0.67
ACGTcount: A:0.85, C:0.02, G:0.11, T:0.02
Consensus pattern (8 bp):
AAAGAAAA
Found at i:6353434 original size:11 final size:11
Alignment explanation
Indices: 6353413--6353445 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
6353403 AAATACGAAG
6353413 AAAGTAAAAAAA
1 AAAG-AAAAAAA
6353425 AAAG-AAAAAA
1 AAAGAAAAAAA
6353435 AAAGAAAAAAA
1 AAAGAAAAAAA
6353446 GAAAACAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 6 0.30
12 4 0.20
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.03
Consensus pattern (11 bp):
AAAGAAAAAAA
Found at i:6354969 original size:34 final size:34
Alignment explanation
Indices: 6354926--6354995 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
6354916 CTTTTTGGAG
*
6354926 TTCAATAAATAAGGAGTAAATGTATTCATCTCAA
1 TTCAATAAATAAAGAGTAAATGTATTCATCTCAA
6354960 TTCAATAAATAAAGAGTAAATGTATTCATCTCAA
1 TTCAATAAATAAAGAGTAAATGTATTCATCTCAA
6354994 TT
1 TT
6354996 ACAACAAGCT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.34
Consensus pattern (34 bp):
TTCAATAAATAAAGAGTAAATGTATTCATCTCAA
Found at i:6356972 original size:19 final size:20
Alignment explanation
Indices: 6356943--6356984 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
6356933 TTGGCTTTTA
6356943 TTTTATATTTTATATTATTT
1 TTTTATATTTTATATTATTT
*
6356963 TTTTAT-TTTTATTTTATTT
1 TTTTATATTTTATATTATTT
6356982 TTT
1 TTT
6356985 CCTTTGTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (20 bp):
TTTTATATTTTATATTATTT
Found at i:6356994 original size:19 final size:19
Alignment explanation
Indices: 6356938--6356998 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
6356928 CTAATTTGGC
*
6356938 TTTTATTTTAT-ATTT-TA
1 TTTTATTTTTTCATTTGTA
* * *
6356955 TATTATTTTTTTATTTTTA
1 TTTTATTTTTTCATTTGTA
*
6356974 TTTTATTTTTTCCTTTGTA
1 TTTTATTTTTTCATTTGTA
6356993 TTTTAT
1 TTTTAT
6356999 GTATTTATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
17 9 0.25
18 4 0.11
19 23 0.64
ACGTcount: A:0.18, C:0.03, G:0.02, T:0.77
Consensus pattern (19 bp):
TTTTATTTTTTCATTTGTA
Found at i:6357013 original size:4 final size:4
Alignment explanation
Indices: 6356994--6357161 Score: 107
Period size: 4 Copynumber: 42.2 Consensus size: 4
6356984 TCCTTTGTAT
* * * *
6356994 TTTA TGTA TTTA -TTA TTTA TTTA TTTA -TTA TTCTA TGTA TTAA TATA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TTTA TTTA TTTA
* * * * * *
6357041 TGTA TATC TTTA TTTA TTTA TTTA TTTA TTTT TGTTA -ATA TTTA TATA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA
* * * *
6357089 TGTA TTTTA TTTA TCTA GTTA TATA TTTA -TTA TTATA TTATAA TTTA
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TT-T-A TTTA
6357136 TTTA TTTA -TTA -TTA TTT- TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
6357162 CTTGTAATAT
Statistics
Matches: 128, Mismatches: 25, Indels: 22
0.73 0.14 0.13
Matches are distributed among these distances:
3 20 0.16
4 90 0.70
5 15 0.12
6 3 0.02
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.66
Consensus pattern (4 bp):
TTTA
Found at i:6357088 original size:48 final size:47
Alignment explanation
Indices: 6357002--6357161 Score: 134
Period size: 48 Copynumber: 3.4 Consensus size: 47
6356992 ATTTTATGTA
*
6357002 TTTATTATTTATTTATTTATTATTCTATGTATTAATATATGTATATC
1 TTTATTATTTATTTATTTATTATTCTATATATTAATATATGTATATC
* * * * *
6357049 TTTATTTATTTATTTATTTATTTTTGT-TAATATTTATATATGTATTTTA
1 TTTA-TTATTTATTTATTTATTATTCTAT-ATATTAATATATGTA-TATC
* * * * *
6357098 TTTATCTAGTTATATATTTATTATTATAT-TA-TAATTTAT-T-TATT
1 TTTAT-TATTTATTTATTTATTATTCTATATATTAATATATGTATATC
6357142 TATTATTATTT-TTTATTTAT
1 T-TTATTATTTATTTATTTAT
6357162 CTTGTAATAT
Statistics
Matches: 91, Mismatches: 16, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
43 8 0.09
44 7 0.08
45 4 0.04
46 1 0.01
47 11 0.12
48 36 0.40
49 23 0.25
50 1 0.01
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (47 bp):
TTTATTATTTATTTATTTATTATTCTATATATTAATATATGTATATC
Found at i:6357196 original size:21 final size:22
Alignment explanation
Indices: 6357132--6357222 Score: 91
Period size: 21 Copynumber: 4.3 Consensus size: 22
6357122 TATATTATAA
6357132 TTTATTTAT-TTATTATTATTT
1 TTTATTTATCTTATTATTATTT
* *
6357153 TTTATTTATCTT-GTAATATTT
1 TTTATTTATCTTATTATTATTT
*
6357174 TTGATTTATCTTATTATTA-TT
1 TTTATTTATCTTATTATTATTT
* * *
6357195 TTTAATTATCTGT-TAATTTTTT
1 TTTATTTATCT-TATTATTATTT
6357217 TTTATT
1 TTTATT
6357223 CGTTTATCTG
Statistics
Matches: 56, Mismatches: 10, Indels: 7
0.77 0.14 0.10
Matches are distributed among these distances:
21 42 0.75
22 14 0.25
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.70
Consensus pattern (22 bp):
TTTATTTATCTTATTATTATTT
Found at i:6358159 original size:5 final size:5
Alignment explanation
Indices: 6358140--6358235 Score: 72
Period size: 5 Copynumber: 18.6 Consensus size: 5
6358130 TTAGATTAGA
* * *
6358140 TTTAT TTAAT GTTAT TTTAT CTTTAT TTTATT TTTATT TTTGT TTTACT
1 TTTAT TTTAT TTTAT TTTAT -TTTAT TTTA-T TTTA-T TTTAT TTTA-T
* *
6358189 TTTCT TTT-T TTTAT TTTCACT TTTAT TTTGT TTTA- -TTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTT-A-T TTTAT TTTAT TTTAT TTTAT TTTAT TTT
6358236 CTTTAAATAA
Statistics
Matches: 74, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
3 3 0.04
4 4 0.05
5 42 0.57
6 21 0.28
7 4 0.05
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:6358174 original size:17 final size:17
Alignment explanation
Indices: 6358154--6358235 Score: 55
Period size: 17 Copynumber: 4.9 Consensus size: 17
6358144 TTTAATGTTA
6358154 TTTTATCTTTATTTTAT
1 TTTTATCTTTATTTTAT
* *
6358171 TTTTATTTTTGTTTTA-
1 TTTTATCTTTATTTTAT
* *
6358187 CTTT-TCTTTTTTTTAT
1 TTTTATCTTTATTTTAT
* *
6358203 TTTCA-CTTTTATTTTGTT
1 TTTTATC-TTTATTTT-AT
6358221 TTATTAT-TTTATTTT
1 TT-TTATCTTTATTTT
6358236 CTTTAAATAA
Statistics
Matches: 49, Mismatches: 10, Indels: 11
0.70 0.14 0.16
Matches are distributed among these distances:
15 9 0.18
16 6 0.12
17 21 0.43
18 11 0.22
19 2 0.04
ACGTcount: A:0.13, C:0.06, G:0.02, T:0.78
Consensus pattern (17 bp):
TTTTATCTTTATTTTAT
Found at i:6358195 original size:32 final size:31
Alignment explanation
Indices: 6358159--6358236 Score: 86
Period size: 32 Copynumber: 2.5 Consensus size: 31
6358149 TGTTATTTTA
* * *
6358159 TCTTTATTTTATTTTTATTTTTGTTTTACTTT
1 TCTTTATTTTATTTTCACTTTTATTTT-CTTT
* *
6358191 TCTTTTTTTTATTTTCACTTTTATTTTGTTT
1 TCTTTATTTTATTTTCACTTTTATTTTCTTT
*
6358222 T-ATTATTTTATTTTC
1 TCTTTATTTTATTTTC
6358237 TTTAAATAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
30 12 0.31
31 4 0.10
32 23 0.59
ACGTcount: A:0.13, C:0.08, G:0.03, T:0.77
Consensus pattern (31 bp):
TCTTTATTTTATTTTCACTTTTATTTTCTTT
Found at i:6358542 original size:58 final size:56
Alignment explanation
Indices: 6358254--6358821 Score: 541
Period size: 58 Copynumber: 9.7 Consensus size: 56
6358244 AAAATCCAAA
* * *
6358254 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTTTTAAAAATAAATTTTTT
1 AAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAA-TTTTCTTAAAAATAAAGTTTTC
* * * *
6358312 AATAAAGGTTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTCTTCGAAAATCAAAGTTTTC
1 AA-AAA---ATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCTT-AAAAAT-AAAGTTTTC
** * *
6358374 AAAAAATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTTAA
1 AAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAA-TTTTCTTAAAAATAAAGTTTT-C
* * * *
6358433 AAAAAATGTTTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTTTCGAAAATCAAAGTTTTC
1 AAAAAA---TATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCTT-AAAAAT-AAAGTTTTC
*
6358495 AAAAAATATTTTCGGGAAAAGTTGAAA-TATCAATTTTCTTAAAAAAATAAA-TTTTC
1 AAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCTT--AAAAATAAAGTTTTC
** * * * *
6358551 AAAAAAGGTTATTGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCC
1 AAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTT-CTTAAAAAT-AAAGTTTTC
** *
6358610 AAAAAATATTTTCAGAAAAAGTTGAAAGTATCAATTTTCTTAAAAAATAAA-TTTTC
1 AAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCTT-AAAAATAAAGTTTTC
* ** ** *
6358666 GAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAAATCAAAGTTTCC
1 AAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAA-TTTTCTTAAAAAT-AAAGTTTTC
* *
6358725 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTCGAAATTAAAG-TTTC
1 AAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCTT-AAAAATAAAGTTTTC
6358782 AAAAGAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTT
1 AAAA-AATATTTTTGG-GAAAAGTTGAAAGTATCAATTTT
6358822 TTCTGCATAA
Statistics
Matches: 423, Mismatches: 58, Indels: 58
0.78 0.11 0.11
Matches are distributed among these distances:
56 28 0.07
57 71 0.17
58 123 0.29
59 93 0.22
60 14 0.03
61 34 0.08
62 53 0.13
63 7 0.02
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.37
Consensus pattern (56 bp):
AAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCTTAAAAATAAAGTTTTC
Found at i:6358603 original size:115 final size:115
Alignment explanation
Indices: 6358254--6358821 Score: 696
Period size: 115 Copynumber: 4.8 Consensus size: 115
6358244 AAAATCCAAA
* * * * *
6358254 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTTTTAAAAATAAATTTTTTAATAAAG
1 AAAAAATA-TTTTCGGGAAAAGTTGAAAGTATCAATTTTCTTAAAAAATAAA-TTTTCAAAAAAG
* *
6358319 GTTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTCTTCGAAAATCAAAGTTTTC
64 G---TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTCGAAAATCAAAGTTTCC
* ** *
6358374 AAAAAATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTTCTT-AAAAATAAATTTTTAAAAAAA
1 AAAAAATATTTTCG-GGAAAAGTTGAAAGTATCAA-TTTTCTTAAAAAATAAA-TTTT-CAAAAA
* * * *
6358438 ATGTTTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTTTCGAAAATCAAAGTTTTC
62 A-G--GTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTCGAAAATCAAAGTTTCC
6358495 AAAAAATATTTTCGGGAAAAGTTGAAA-TATCAATTTTCTTAAAAAAATAAATTTTCAAAAAAGG
1 AAAAAATATTTTCGGGAAAAGTTGAAAGTATCAATTTTCTT-AAAAAATAAATTTTCAAAAAAGG
* *
6358559 TTATTGAGGAAAAGTTAAAAGTATCAATTTTCCTT-GAAAATCAAAGTTTCC
65 TTTTTGAGGAAAAGTTGAAAGTATCAATTTT-CTTCGAAAATCAAAGTTTCC
* * *
6358610 AAAAAATATTTTCAGAAAAAGTTGAAAGTATCAATTTTCTTAAAAAATAAATTTTCGAAAAAGGT
1 AAAAAATATTTTCGGGAAAAGTTGAAAGTATCAATTTTCTTAAAAAATAAATTTTCAAAAAAGGT
6358675 TTTTGAGGAAAAGTTGAAAGTATCAATTTT-TCTCGAAAATCAAAGTTTCC
66 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCT-TCGAAAATCAAAGTTTCC
* ** * * *
6358725 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTCGAAATTAAAGTTTCAAAAGAAT
1 AAAAAATA-TTTTCGGGAAAAGTTGAAAGTATCAATTTTCTTAAAAAATAAATTTTCAAAA-AAG
*
6358790 ATTTTTG-GAGAAAAGTTGAAAGTATCAATTTT
64 GTTTTTGAG-GAAAAGTTGAAAGTATCAATTTT
6358822 TTCTGCATAA
Statistics
Matches: 398, Mismatches: 35, Indels: 33
0.85 0.08 0.07
Matches are distributed among these distances:
113 1 0.00
114 1 0.00
115 143 0.36
116 60 0.15
117 32 0.08
118 13 0.03
119 15 0.04
120 60 0.15
121 72 0.18
122 1 0.00
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.37
Consensus pattern (115 bp):
AAAAAATATTTTCGGGAAAAGTTGAAAGTATCAATTTTCTTAAAAAATAAATTTTCAAAAAAGGT
TTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTCGAAAATCAAAGTTTCC
Found at i:6358820 original size:27 final size:27
Alignment explanation
Indices: 6358732--6358822 Score: 69
Period size: 27 Copynumber: 3.2 Consensus size: 27
6358722 TCCAAAAAAT
*
6358732 ATTTTTGGGGAAAAGTTGAAAGTATCA
1 ATTTTTGGAGAAAAGTTGAAAGTATCA
* * * *
6358759 ATTTTCTTCGAAATTAAAGTTTCAAAAGAAT--
1 A-TTT-TTGGAGA--AAAG-TT-GAAAGTATCA
6358790 ATTTTTGGAGAAAAGTTGAAAGTATCA
1 ATTTTTGGAGAAAAGTTGAAAGTATCA
6358817 ATTTTT
1 ATTTTT
6358823 TCTGCATAAG
Statistics
Matches: 47, Mismatches: 9, Indels: 16
0.65 0.12 0.22
Matches are distributed among these distances:
25 6 0.13
26 2 0.04
27 11 0.23
28 3 0.06
29 9 0.19
30 3 0.06
31 5 0.11
32 2 0.04
33 6 0.13
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.38
Consensus pattern (27 bp):
ATTTTTGGAGAAAAGTTGAAAGTATCA
Found at i:6365669 original size:20 final size:22
Alignment explanation
Indices: 6365644--6365689 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 22
6365634 TACTATGCTT
*
6365644 AAAAAAATGAAAAA-TGAAT-A
1 AAAAAAAAGAAAAAGTGAATGA
6365664 AAAAAAAAGAAAAAGTGAATGA
1 AAAAAAAAGAAAAAGTGAATGA
6365686 AAAA
1 AAAA
6365690 GAAGGACTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.57
21 5 0.22
22 5 0.22
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (22 bp):
AAAAAAAAGAAAAAGTGAATGA
Found at i:6366736 original size:41 final size:41
Alignment explanation
Indices: 6366691--6366988 Score: 310
Period size: 41 Copynumber: 7.1 Consensus size: 41
6366681 ATGATTGCCA
*
6366691 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCTTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* *
6366732 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAA
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* **
6366773 AGGAGCAATTTACTTTCCAAAGTTATGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* *
6366814 AGGAGCAATTTACTTTTTAAAGTCGTGGTGCCTCTGATTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * * *
6366855 AGGAGCCATTTA-TGTTTCTTAAAGTCGTTGAGCCTCTGCTTAG
1 AGGAGCAATTTACT-TTTC--AAAGTCGTGGTGCCTCTGTTTAG
* * * * * * *
6366898 AGGAGTAATTTATTTTTCCAAAGTTGTTGAGCCTTTGATTAG
1 AGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAG
* * * * * *
6366940 AGGAGCCATTTATGTTTCTCAAAGTCATTGAGCCTCTGCTTAG
1 AGGAGCAATTTA-CTTT-TCAAAGTCGTGGTGCCTCTGTTTAG
6366983 AGGAGC
1 AGGAGC
6366989 TTTGGTCAAA
Statistics
Matches: 220, Mismatches: 30, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
40 1 0.00
41 124 0.56
42 30 0.14
43 62 0.28
44 3 0.01
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.37
Consensus pattern (41 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:6366954 original size:85 final size:84
Alignment explanation
Indices: 6366723--6366988 Score: 324
Period size: 85 Copynumber: 3.2 Consensus size: 84
6366713 TCGTGGTGCT
* * * * * *
6366723 TCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCT-ATTTAAAGGAGCAATTTA-C
1 TCTGCTTAGAGGAGCAATTTACTTTTTAAAGTCGTGGAGCCTCTGA-TTAGAGGAGCCATTTATG
* * *
6366786 TTTC-CAAAGTTATGGTGCC
65 TTTCTCAAAGTCATTGAGCC
* *
6366805 TCTGTTTAGAGGAGCAATTTACTTTTTAAAGTCGTGGTGCCTCTGATTAGAGGAGCCATTTATGT
1 TCTGCTTAGAGGAGCAATTTACTTTTTAAAGTCGTGGAGCCTCTGATTAGAGGAGCCATTTATGT
* *
6366870 TTCTTAAAGTCGTTGAGCC
66 TTCTCAAAGTCATTGAGCC
* * * *
6366889 TCTGCTTAGAGGAGTAATTTA-TTTTTCCAAAGTTGTTGAGCCTTTGATTAGAGGAGCCATTTAT
1 TCTGCTTAGAGGAGCAATTTACTTTTT--AAAGTCGTGGAGCCTCTGATTAGAGGAGCCATTTAT
6366953 GTTTCTCAAAGTCATTGAGCC
64 GTTTCTCAAAGTCATTGAGCC
6366974 TCTGCTTAGAGGAGC
1 TCTGCTTAGAGGAGC
6366989 TTTGGTCAAA
Statistics
Matches: 161, Mismatches: 18, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
82 57 0.35
83 10 0.06
84 29 0.18
85 65 0.40
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.37
Consensus pattern (84 bp):
TCTGCTTAGAGGAGCAATTTACTTTTTAAAGTCGTGGAGCCTCTGATTAGAGGAGCCATTTATGT
TTCTCAAAGTCATTGAGCC
Found at i:6367006 original size:6 final size:6
Alignment explanation
Indices: 6366995--6367044 Score: 56
Period size: 6 Copynumber: 9.0 Consensus size: 6
6366985 GAGCTTTGGT
6366995 CAAAAA CAAAAA -ACAAAA C-AAAA C-AAAA CAAAAA C-AAAA -AAAAA
1 CAAAAA CAAAAA CA-AAAA CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA
6367039 CAAAAA
1 CAAAAA
6367045 AAAGTAAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
5 19 0.49
6 20 0.51
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (6 bp):
CAAAAA
Found at i:6367012 original size:5 final size:5
Alignment explanation
Indices: 6367004--6367047 Score: 63
Period size: 5 Copynumber: 8.8 Consensus size: 5
6366994 TCAAAAACAA
*
6367004 AAAAC AAAAC AAAAC AAAAC AAAAAC AAAAA AAAAC AAAA- AAAA
1 AAAAC AAAAC AAAAC AAAAC -AAAAC AAAAC AAAAC AAAAC AAAA
6367048 GTAAAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
4 4 0.11
5 27 0.75
6 5 0.14
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:6367028 original size:16 final size:16
Alignment explanation
Indices: 6366997--6367044 Score: 69
Period size: 16 Copynumber: 2.9 Consensus size: 16
6366987 GCTTTGGTCA
*
6366997 AAAACAAAAAACAAAAC
1 AAAACAAAACA-AAAAC
6367014 AAAACAAAACAAAAAC
1 AAAACAAAACAAAAAC
*
6367030 AAAAAAAAACAAAAA
1 AAAACAAAACAAAAA
6367045 AAAGTAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 19 0.66
17 10 0.34
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAACAAAACAAAAAC
Found at i:6367029 original size:21 final size:21
Alignment explanation
Indices: 6366997--6367057 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
6366987 GCTTTGGTCA
*
6366997 AAAACAAAAAACAAAACAAAAC
1 AAAAC-AAAAACAAAAAAAAAC
6367019 AAAACAAAAACAAAAAAAAAC
1 AAAACAAAAACAAAAAAAAAC
**
6367040 AAAA-AAAAGTAAAAAAAA
1 AAAACAAAAACAAAAAAAA
6367058 TAAAATAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
20 12 0.33
21 19 0.53
22 5 0.14
ACGTcount: A:0.85, C:0.11, G:0.02, T:0.02
Consensus pattern (21 bp):
AAAACAAAAACAAAAAAAAAC
Found at i:6367069 original size:11 final size:10
Alignment explanation
Indices: 6367002--6367057 Score: 76
Period size: 10 Copynumber: 5.5 Consensus size: 10
6366992 GGTCAAAAAC
6367002 AAAAAACAAA
1 AAAAAACAAA
*
6367012 ACAAAACAAA
1 AAAAAACAAA
6367022 ACAAAAACAAA
1 A-AAAAACAAA
6367033 AAAAAACAAA
1 AAAAAACAAA
**
6367043 AAAAAGTAAA
1 AAAAAACAAA
6367053 AAAAA
1 AAAAA
6367058 TAAAATAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
10 32 0.78
11 9 0.22
ACGTcount: A:0.86, C:0.11, G:0.02, T:0.02
Consensus pattern (10 bp):
AAAAAACAAA
Found at i:6367240 original size:17 final size:16
Alignment explanation
Indices: 6367218--6367302 Score: 63
Period size: 15 Copynumber: 5.3 Consensus size: 16
6367208 AATTTGGCTT
*
6367218 TTATTTTGTATTTTATA
1 TTATTTTATATTTT-TA
6367235 TTATTTTATATTTTTA
1 TTATTTTATATTTTTA
6367251 TTATATTT-T-TTTCTT-
1 TTAT-TTTATATTT-TTA
* *
6367266 TGTATTTTATGTATTTA
1 T-TATTTTATATTTTTA
6367283 TTA-TTTAT-TTATTTA
1 TTATTTTATATT-TTTA
6367298 TTATT
1 TTATT
6367303 ACTATGTATT
Statistics
Matches: 57, Mismatches: 3, Indels: 17
0.74 0.04 0.22
Matches are distributed among these distances:
14 1 0.02
15 19 0.33
16 18 0.32
17 19 0.33
ACGTcount: A:0.22, C:0.01, G:0.04, T:0.73
Consensus pattern (16 bp):
TTATTTTATATTTTTA
Found at i:6367256 original size:11 final size:10
Alignment explanation
Indices: 6367228--6367262 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
6367218 TTATTTTGTA
*
6367228 TTTTATATTA
1 TTTTATATTT
6367238 TTTTATATTT
1 TTTTATATTT
6367248 TTATTATATTT
1 TT-TTATATTT
6367259 TTTT
1 TTTT
6367263 CTTTGTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTTATATTT
Found at i:6367259 original size:18 final size:17
Alignment explanation
Indices: 6367218--6367254 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
6367208 AATTTGGCTT
*
6367218 TTATTTTGTATTTTATA
1 TTATTTTATATTTTATA
6367235 TTATTTTATATTTT-TA
1 TTATTTTATATTTTATA
6367251 TTAT
1 TTAT
6367255 ATTTTTTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (17 bp):
TTATTTTATATTTTATA
Found at i:6367290 original size:4 final size:4
Alignment explanation
Indices: 6367271--6367452 Score: 79
Period size: 4 Copynumber: 44.5 Consensus size: 4
6367261 TTCTTTGTAT
* * * *
6367271 TTTA TGTA TTTA -TTA TTTA TTTA TTTA -TTA TTACTA TGTA TTAA TATA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT--TA TTTA TTTA TTTA
* * * * * *
6367319 TGTA TATC TTTA TTTA TTTA TTTA TTTA TTTT TGTTA -ATA TTTA TATA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA
** * * *
6367367 TGGA TTTTA TTTA TCTA GTTA TATA TTTA -TTA TTATA TTATAA TTTA
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TT-T-A TTTA
* *
6367414 TTTA -TTA TTTA TCTTG TAATA TTT- TTTA TTTA TCTTA TT
1 TTTA TTTA TTTA T-TTA T-TTA TTTA TTTA TTTA T-TTA TT
6367453 ATTATTTTTA
Statistics
Matches: 132, Mismatches: 32, Indels: 28
0.69 0.17 0.15
Matches are distributed among these distances:
3 17 0.13
4 89 0.67
5 20 0.15
6 6 0.05
ACGTcount: A:0.29, C:0.03, G:0.04, T:0.64
Consensus pattern (4 bp):
TTTA
Found at i:6367311 original size:41 final size:39
Alignment explanation
Indices: 6367224--6367345 Score: 104
Period size: 45 Copynumber: 2.9 Consensus size: 39
6367214 GCTTTTATTT
* * *
6367224 TGTATTTTATATTATTTTATATTTTTATTATATTT-TTTTCTT
1 TGTATTTTAT-GTA-TTTAT-TATTTATT-TATTTATTTTCTA
6367266 TGTATTTTATGTATTTATTATTTATTTATTTATTATTACTA
1 TGTATTTTATGTATTTATTATTTATTTATTTATT-TT-CTA
6367307 TGTATTAATATATGTATATCT-TTATTTATTTATTTATTT
1 TGTATT--T-TATGTAT-T-TATTATTTATTTATTTATTT
6367346 ATTTTTGTTA
Statistics
Matches: 69, Mismatches: 3, Indels: 14
0.80 0.03 0.16
Matches are distributed among these distances:
38 5 0.07
39 9 0.13
40 7 0.10
41 10 0.14
42 10 0.14
43 1 0.01
44 8 0.12
45 18 0.26
46 1 0.01
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.68
Consensus pattern (39 bp):
TGTATTTTATGTATTTATTATTTATTTATTTATTTTCTA
Found at i:6367380 original size:49 final size:49
Alignment explanation
Indices: 6367277--6367401 Score: 128
Period size: 49 Copynumber: 2.6 Consensus size: 49
6367267 GTATTTTATG
* *
6367277 TATTTA-TTATTTATTTATTTATTATTACTATGTATTAATATATGTATA
1 TATTTATTTATTTATTTATTTATTATTACTATATATTAATATATGGATA
* * ** * *
6367325 TCTTTATTTATTTATTTATTTATTTTTGTTA-ATATTTATATATGGATTT
1 TATTTATTTATTTATTTATTTATTATTACTATATATTAATATATGGA-TA
* * *
6367374 TATTTATCTAGTTATATATTTATTATTA
1 TATTTATTTATTTATTTATTTATTATTA
6367402 TATTATAATT
Statistics
Matches: 61, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
48 17 0.28
49 44 0.72
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (49 bp):
TATTTATTTATTTATTTATTTATTATTACTATATATTAATATATGGATA
Found at i:6367461 original size:22 final size:22
Alignment explanation
Indices: 6367371--6367469 Score: 80
Period size: 21 Copynumber: 4.5 Consensus size: 22
6367361 TATATATGGA
6367371 TTTTATTTATC-TAGTTATATATT
1 TTTTATTTATCTTA-TTAT-TATT
* * *
6367394 TATTA-TTATATTATAATTTATT
1 TTTTATTTATCTTATTA-TTATT
* * *
6367416 TATTATTTATCTT-GTAATATT
1 TTTTATTTATCTTATTATTATT
6367437 TTTTATTTATCTTATTATTA-T
1 TTTTATTTATCTTATTATTATT
*
6367458 TTTTAATTATCT
1 TTTTATTTATCT
6367470 GTTAATTTCT
Statistics
Matches: 61, Mismatches: 11, Indels: 10
0.74 0.13 0.12
Matches are distributed among these distances:
21 28 0.46
22 20 0.33
23 13 0.21
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (22 bp):
TTTTATTTATCTTATTATTATT
Found at i:6368443 original size:17 final size:16
Alignment explanation
Indices: 6368423--6368500 Score: 68
Period size: 17 Copynumber: 4.6 Consensus size: 16
6368413 TTTAATGTTC
6368423 TTTTATCTTTATTTTAT
1 TTTTAT-TTTATTTTAT
*
6368440 TTTTATTTTTGTTTTACT
1 TTTTA-TTTTATTTTA-T
*
6368458 TTTT-TTTTATTTTCAC
1 TTTTATTTTATTTT-AT
*
6368474 TTTTATTTTGTTTTATT
1 TTTTATTTTATTTTA-T
6368491 ATTTTATTTT
1 -TTTTATTTT
6368501 CTTTAAATAA
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
16 13 0.26
17 22 0.44
18 15 0.30
ACGTcount: A:0.14, C:0.05, G:0.03, T:0.78
Consensus pattern (16 bp):
TTTTATTTTATTTTAT
Found at i:6368448 original size:22 final size:21
Alignment explanation
Indices: 6368423--6368490 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 21
6368413 TTTAATGTTC
6368423 TTTTATCTTTATTTTATTTTTA
1 TTTTATCTTTATTTT-TTTTTA
*
6368445 TTTT-TGTTTTACTTTTTTTTTA
1 TTTTAT-CTTTA-TTTTTTTTTA
*
6368467 TTTTCA-CTTTTATTTTGTTTTA
1 TTTT-ATC-TTTATTTTTTTTTA
6368489 TT
1 TT
6368491 ATTTTATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
21 1 0.03
22 29 0.76
23 8 0.21
ACGTcount: A:0.13, C:0.06, G:0.03, T:0.78
Consensus pattern (21 bp):
TTTTATCTTTATTTTTTTTTA
Found at i:6368676 original size:59 final size:57
Alignment explanation
Indices: 6368517--6369029 Score: 541
Period size: 59 Copynumber: 8.7 Consensus size: 57
6368507 ATAAAATCTA
* * * *
6368517 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAATTTTCA
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTCC
* * **
6368575 AAAAAAGGTTTTTTTAAGGAAAAA-TTGAAAGTATCAATTTTCCTCGAAAATCAAAGTTTCC
1 AAAAAA--TATTTTTGA-GAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTCC
* *
6368636 AAAAAATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCC
* * * *
6368693 AAAAAAGTTTTTTTTGAGAAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAA
1 AAAAAA--TATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTC--C
* * *
6368755 AAAAAGATTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTT-CTTAAAAAAATAAATTTTC
1 AAAAA-A-TATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTT--AAAAATAAATTTCC
** **
6368815 AAAAAAGGTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAAGTTTCC
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTCC
* *
6368874 AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCC
* * * *
6368931 AAAAAATAAATTTTTGAGGAAAAGTTGAAAATATCAATTTT-CTTCGAAATTAAAGTTT-C
1 AAAAAAT--ATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAAA-TTTCC
6368990 AAAAGAATATTTTTG-GAGAAAAGTTGAAAGTATCAATTTT
1 AAAA-AATATTTTTGAGA-AAAAGTTGAAAGTATCAATTTT
6369030 TCCTACACAA
Statistics
Matches: 389, Mismatches: 44, Indels: 44
0.82 0.09 0.09
Matches are distributed among these distances:
57 27 0.07
58 81 0.21
59 166 0.43
60 44 0.11
61 21 0.05
62 40 0.10
63 10 0.03
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.36
Consensus pattern (57 bp):
AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCC
Found at i:6368838 original size:179 final size:177
Alignment explanation
Indices: 6368517--6369029 Score: 691
Period size: 179 Copynumber: 2.9 Consensus size: 177
6368507 ATAAAATCTA
*
6368517 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAA-TTTTCTTTAAAAATAAATTTTC-AAAAAA
1 AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTC-TTAAAAATAAATTTTCAAAAAAA
* * * * *
6368580 AGGTTTTTTTAAGGAAAAATTGAAAGTATCAATTTTCCTCGAAAATCAAAGTTTCCAAAAAATAT
65 AGATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTCGAAAAT-AAA-TTTTCAAAAAATAT
* * *
6368645 TTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTTC
128 TTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAAGTTTCC
* * *
6368693 AAAAAAGTTTTTTTTGAGAAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAA
1 AAAAAA--TATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAA
** **
6368758 AAGATTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTAAAAAAATAAATTTTCAAAAAAGG
64 AAGA-TTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTT-CGAAAATAAATTTTCAAAAAATA
*
6368823 TTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAAGTTTCC
127 TTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAAGTTTCC
*
6368874 AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAATA
1 AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAA-A
* * *
6368939 A-A--TTTTTGAGGAAAAGTTGAAAATATCAATTTTCTTCGAAATTAAAGTTTCAAAAGAATATT
65 AGATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTCGAAAATAAATTTTCAAAA-AATATT
6369001 TTTG-GAGAAAAGTTGAAAGTATCAATTTT
129 TTTGAGA-AAAAGTTGAAAGTATCAATTTT
6369030 TCCTACACAA
Statistics
Matches: 298, Mismatches: 28, Indels: 22
0.86 0.08 0.06
Matches are distributed among these distances:
175 17 0.06
176 69 0.23
178 41 0.14
179 115 0.39
180 41 0.14
181 15 0.05
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.36
Consensus pattern (177 bp):
AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAA
GATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTCGAAAATAAATTTTCAAAAAATATTTT
TGAGAAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAAGTTTCC
Found at i:6368880 original size:238 final size:236
Alignment explanation
Indices: 6368516--6369029 Score: 754
Period size: 238 Copynumber: 2.2 Consensus size: 236
6368506 AATAAAATCT
* *
6368516 AAAAAAATA-TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAATTTTCAAAAAA
1 AAAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTAAAAAATAAATTTTCAAAAAA
*
6368580 AGGTTTTTTTAAGGAAAAATTGAAAGTATCAATTTTCCTCGAAAATCAAAGTTTCCAAAAAATAT
66 AGG-TTTTTTAAGGAAAAATTGAAAGTATCAATTTTCCTCGAAAATAAAAGTTTCCAAAAAATAT
**
6368645 TTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAGT-TTTTTTTG
130 TTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA-TAAATTTTTG
* *
6368709 AGAAAAAATTGAAAGTATCAATTTTTCTT-AAAAATAAATTTTC
194 AGAAAAAATTGAAAATATCAA-TTTTCTTCAAAAATAAAGTTTC
*
6368752 AAAAAAAAGATTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTAAAAAAATAAATTTTC-A
1 --AAAAAA-ATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTT-AAAAAATAAATTTTCAA
*
6368816 AAAAAGG-TTTTTGA-GAAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAAGTTTCCAAAAA
62 AAAAAGGTTTTTTAAGGAAAAA-TTGAAAGTATCAATTTTCCTCGAAAATAAAAGTTTCCAAAAA
**
6368879 ATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAATAAATTT
126 ATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAATAAATTT
* * * *
6368944 TTGAGGAAAAGTTGAAAATATCAATTTTCTTCGAAATTAAAGTTTC
191 TTGAGAAAAAATTGAAAATATCAATTTTCTTCAAAAATAAAGTTTC
* *
6368990 AAAAGAATATTTTTGGA-GAAAAGTTGAAAGTATCAATTTT
1 AAAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTT
6369030 TCCTACACAA
Statistics
Matches: 252, Mismatches: 18, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
234 23 0.09
235 9 0.04
236 5 0.02
237 14 0.06
238 144 0.57
239 2 0.01
240 41 0.16
241 14 0.06
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.36
Consensus pattern (236 bp):
AAAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTAAAAAATAAATTTTCAAAAAA
AGGTTTTTTAAGGAAAAATTGAAAGTATCAATTTTCCTCGAAAATAAAAGTTTCCAAAAAATATT
TTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAATAAATTTTTGAG
AAAAAATTGAAAATATCAATTTTCTTCAAAAATAAAGTTTC
Found at i:6372253 original size:65 final size:65
Alignment explanation
Indices: 6372167--6372328 Score: 200
Period size: 65 Copynumber: 2.5 Consensus size: 65
6372157 ATTCTCAATT
* * ** *
6372167 AATTCTTATATTCACCCAATTAAAGCGTTTATATTAAGCAAATGTCGTAATTGAAAGTCATTTTC
1 AATTCTTATATTCACTCAATTAAAGCGTTTATATTAAACAAATGAAGTAATTAAAAGTCATTTTC
* * * *
6372232 AATTCTTATATTCACTTAATT-AAGACATTTATATTAAACAAATGAAGTAATTAAAATTTATTTT
1 AATTCTTATATTCACTCAATTAAAG-CGTTTATATTAAACAAATGAAGTAATTAAAAGTCATTTT
6372296 C
65 C
* * *
6372297 ATTTCTTATATTCACTCAATTAAGGTGTTTAT
1 AATTCTTATATTCACTCAATTAAAGCGTTTAT
6372329 TTCCAACAAA
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
64 3 0.04
65 76 0.94
66 2 0.02
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.43
Consensus pattern (65 bp):
AATTCTTATATTCACTCAATTAAAGCGTTTATATTAAACAAATGAAGTAATTAAAAGTCATTTTC
Found at i:6373947 original size:3 final size:3
Alignment explanation
Indices: 6373939--6373967 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
6373929 CTATGATATC
6373939 CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
6373968 ACTAGGAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:6377148 original size:30 final size:30
Alignment explanation
Indices: 6377107--6377163 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
6377097 TTATATATAT
* * *
6377107 ATATATATATTTATATAATGATATTTTTAA
1 ATATATATATTTAAAAAATAATATTTTTAA
*
6377137 ATATTTATATTTAAAAAATAATATTTT
1 ATATATATATTTAAAAAATAATATTTT
6377164 ATATTTTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (30 bp):
ATATATATATTTAAAAAATAATATTTTTAA
Found at i:6377166 original size:21 final size:22
Alignment explanation
Indices: 6377136--6377187 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
6377126 GATATTTTTA
6377136 AATA-TTTATA-TTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
6377156 AATATTTTATATTTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
6377178 AATATTTTAT
1 AATATTTTAT
6377188 TAATTTCGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 20 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAAT
Found at i:6377233 original size:31 final size:32
Alignment explanation
Indices: 6377198--6377275 Score: 88
Period size: 31 Copynumber: 2.4 Consensus size: 32
6377188 TAATTTCGGG
* *
6377198 TCGGGTCGGGTCGGATAC-G-ATTTATATAAT
1 TCGGGTCGGGTCGGATACGGTATTTAAAAAAT
* *
6377228 ATCGGGTCGGATCGGATTCGGGTATTTAAAAAAT
1 -TCGGGTCGGGTCGGATAC-GGTATTTAAAAAAT
6377262 TCGGGTCGGGTCGG
1 TCGGGTCGGGTCGG
6377276 GGTCGGGTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
31 16 0.41
33 14 0.36
34 9 0.23
ACGTcount: A:0.22, C:0.14, G:0.35, T:0.29
Consensus pattern (32 bp):
TCGGGTCGGGTCGGATACGGTATTTAAAAAAT
Found at i:6377282 original size:33 final size:34
Alignment explanation
Indices: 6377192--6377283 Score: 89
Period size: 33 Copynumber: 2.7 Consensus size: 34
6377182 TTTTATTAAT
* * *
6377192 TTCGGGTCGGGTC-GGGTCGGATACGATTTATATAA
1 TTCGGGTCGGGTCGGGGTCGGGTA--ATTTAAAAAA
* **
6377227 TATCGGGTCGGATCGGATTCGGGT-ATTTAAAAAA
1 T-TCGGGTCGGGTCGGGGTCGGGTAATTTAAAAAA
6377261 TTCGGGTCGGGTCGGGGTCGGGT
1 TTCGGGTCGGGTCGGGGTCGGGT
6377284 TTAATAAACA
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
33 19 0.41
34 9 0.20
35 1 0.02
36 11 0.24
37 6 0.13
ACGTcount: A:0.18, C:0.14, G:0.38, T:0.29
Consensus pattern (34 bp):
TTCGGGTCGGGTCGGGGTCGGGTAATTTAAAAAA
Found at i:6377920 original size:2 final size:2
Alignment explanation
Indices: 6377913--6377961 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
6377903 TCTTTGAATT
6377913 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
6377955 TC TC TC T
1 TC TC TC T
6377962 TTGCTTTTTC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:6386589 original size:2 final size:2
Alignment explanation
Indices: 6386582--6386610 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6386572 TATCTAAGTG
6386582 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 C
6386611 CTTTGCGTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:6387919 original size:40 final size:40
Alignment explanation
Indices: 6387874--6387953 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
6387864 TTAAGGTAAA
*
6387874 AAGTTGAGTTTTCTATTAAATATGAGTAAGATTAACATTT
1 AAGTTGAGTTTTCTATTAAATATGAGTAAGATGAACATTT
*
6387914 AAGTTGGGTTTTCTATTAAATATGAGTAAGATGAACATTT
1 AAGTTGAGTTTTCTATTAAATATGAGTAAGATGAACATTT
6387954 TTAGATTCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.36, C:0.05, G:0.17, T:0.41
Consensus pattern (40 bp):
AAGTTGAGTTTTCTATTAAATATGAGTAAGATGAACATTT
Found at i:6389767 original size:2 final size:2
Alignment explanation
Indices: 6389760--6389791 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6389750 ACCAGTTTTA
6389760 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6389792 CCACACACAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6391750 original size:22 final size:23
Alignment explanation
Indices: 6391714--6391766 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
6391704 AATATATAGG
* *
6391714 TTAAAGACCGAATATTTTCA-GCT
1 TTAAA-ACCCAATATTTTCATGCA
6391737 TTAAAACCCAATATTTTCATGCA
1 TTAAAACCCAATATTTTCATGCA
6391760 TTAAAAC
1 TTAAAAC
6391767 AGCTAATCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 13 0.48
23 14 0.52
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.34
Consensus pattern (23 bp):
TTAAAACCCAATATTTTCATGCA
Found at i:6403608 original size:78 final size:78
Alignment explanation
Indices: 6403516--6403674 Score: 266
Period size: 78 Copynumber: 2.0 Consensus size: 78
6403506 GTTCAAAGAC
*
6403516 AAAATCATTTAAAAAAGTTGAGCACATTATGAATGAAGAAAGGCAGAAGAAAGATTAAGTT-TGC
1 AAAATCATTTAAAAAAGTTGAGCACATTATGAATGAAGAAACGCAGAAGAAAGATTAAGTTCT-C
*
6403580 TATACCCGGAGGAG
65 TATACCAGGAGGAG
*
6403594 AAAATCATTTAAAAAAGTTGAGCACATTATGAATGGAGAAACGCAGAAGAAAGATTAAGTTCTCT
1 AAAATCATTTAAAAAAGTTGAGCACATTATGAATGAAGAAACGCAGAAGAAAGATTAAGTTCTCT
*
6403659 ATACCAGGTGGAG
66 ATACCAGGAGGAG
6403672 AAA
1 AAA
6403675 CAGTCTTGTC
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
78 75 0.99
79 1 0.01
ACGTcount: A:0.45, C:0.11, G:0.22, T:0.22
Consensus pattern (78 bp):
AAAATCATTTAAAAAAGTTGAGCACATTATGAATGAAGAAACGCAGAAGAAAGATTAAGTTCTCT
ATACCAGGAGGAG
Found at i:6407658 original size:6 final size:6
Alignment explanation
Indices: 6407636--6407676 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
6407626 CCATATTATT
*
6407636 AACAAA AA-TAA AA-AAA AACAAA AACAAA AACAAA AACAAA A
1 AACAAA AACAAA AACAAA AACAAA AACAAA AACAAA AACAAA A
6407677 GTTAAAGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 8 0.25
6 24 0.75
ACGTcount: A:0.85, C:0.12, G:0.00, T:0.02
Consensus pattern (6 bp):
AACAAA
Found at i:6408423 original size:87 final size:86
Alignment explanation
Indices: 6408274--6408447 Score: 321
Period size: 87 Copynumber: 2.0 Consensus size: 86
6408264 GTGGGACCTT
*
6408274 TTTTTCTTTCTTTTTTCTTATGAGCTTAGCAGTTTTTTTATTAAACTAGGATTACAAGGAAGTTG
1 TTTTTCTTTCTTTTTTCTTATGAGCTTAGCAGTTTTTTTATTAAACTAGGATTACAAAGAAGTTG
*
6408339 ACAATTGACGCCATAGATAAC
66 ACAATTGACACCATAGATAAC
6408360 TTTTTCTTTCTTTTTTCTTATGAGCTTAGCAGTTTTTTTTATTAAACTAGGATTACAAAGAAGTT
1 TTTTTCTTTCTTTTTTCTTATGAGCTTAGCAG-TTTTTTTATTAAACTAGGATTACAAAGAAGTT
6408425 GACAATTGACACCATAGATAAC
65 GACAATTGACACCATAGATAAC
6408447 T
1 T
6408448 CTCTTCAACA
Statistics
Matches: 85, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
86 32 0.38
87 53 0.62
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.44
Consensus pattern (86 bp):
TTTTTCTTTCTTTTTTCTTATGAGCTTAGCAGTTTTTTTATTAAACTAGGATTACAAAGAAGTTG
ACAATTGACACCATAGATAAC
Found at i:6408634 original size:22 final size:22
Alignment explanation
Indices: 6408609--6408662 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
6408599 TATATTTTTT
*
6408609 ATTTTTATTAAATTTATATATA
1 ATTTTTATTAAATTTATAAATA
*
6408631 ATTTTTATTAAATTTTTAAATA
1 ATTTTTATTAAATTTATAAATA
*
6408653 A-TATTATTAA
1 ATTTTTATTAA
6408663 TATAATTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 8 0.28
22 21 0.72
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTTTTATTAAATTTATAAATA
Found at i:6423165 original size:3 final size:3
Alignment explanation
Indices: 6423159--6423188 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
6423149 TTTCACTGCT
6423159 TAA TAA TAA TAA TAA TAA TTAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TA
6423189 CATGCGCTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:6427080 original size:29 final size:29
Alignment explanation
Indices: 6427043--6427101 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
6427033 GGTTAACAAA
* *
6427043 TTTATAATTCACGTAACACATTAAAAATT
1 TTTAAAATTCAAGTAACACATTAAAAATT
* *
6427072 TTTAAAATTCAAGTACCACATTAAACATT
1 TTTAAAATTCAAGTAACACATTAAAAATT
6427101 T
1 T
6427102 CATTATAGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.44, C:0.15, G:0.03, T:0.37
Consensus pattern (29 bp):
TTTAAAATTCAAGTAACACATTAAAAATT
Found at i:6430182 original size:9 final size:9
Alignment explanation
Indices: 6430168--6430210 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
6430158 ATACGAGTAC
6430168 ATATTTAAT
1 ATATTTAAT
*
6430177 ATATTTAAC
1 ATATTTAAT
*
6430186 ATGTTTAAT
1 ATATTTAAT
**
6430195 ATATTTTTT
1 ATATTTAAT
6430204 ATATTTA
1 ATATTTA
6430211 TTTGAATTTA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (9 bp):
ATATTTAAT
Found at i:6430210 original size:18 final size:18
Alignment explanation
Indices: 6430166--6430200 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6430156 TCATACGAGT
6430166 ACATATTTAATATATTTA
1 ACATATTTAATATATTTA
*
6430184 ACATGTTTAATATATTT
1 ACATATTTAATATATTT
6430201 TTTATATTTA
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:0.40, C:0.06, G:0.03, T:0.51
Consensus pattern (18 bp):
ACATATTTAATATATTTA
Found at i:6436525 original size:6 final size:6
Alignment explanation
Indices: 6436514--6436546 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
6436504 TTGAAGAGAG
6436514 TTTCAC TTTCAC TTTCAC TTTCAC TTTCAC TTT
1 TTTCAC TTTCAC TTTCAC TTTCAC TTTCAC TTT
6436547 TCCCCTAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.30, G:0.00, T:0.55
Consensus pattern (6 bp):
TTTCAC
Found at i:6436789 original size:13 final size:13
Alignment explanation
Indices: 6436771--6436797 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6436761 GGACTCTGAA
6436771 GCTGCTGCTGCTT
1 GCTGCTGCTGCTT
6436784 GCTGCTGCTGCTT
1 GCTGCTGCTGCTT
6436797 G
1 G
6436798 TTGGTTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.00, C:0.30, G:0.33, T:0.37
Consensus pattern (13 bp):
GCTGCTGCTGCTT
Found at i:6437580 original size:12 final size:12
Alignment explanation
Indices: 6437562--6437591 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
6437552 TCTTAAAATG
6437562 ATTTAATAAAAA
1 ATTTAATAAAAA
*
6437574 TTTTAATAAAAA
1 ATTTAATAAAAA
6437586 ATTTAA
1 ATTTAA
6437592 ATTGATAGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATTTAATAAAAA
Found at i:6441155 original size:44 final size:43
Alignment explanation
Indices: 6441087--6441186 Score: 125
Period size: 44 Copynumber: 2.3 Consensus size: 43
6441077 AACAATTCAT
6441087 AATTGAAATTCAAAAGTTCACAACTAAAAATTTA-AACATTTGC
1 AATTGAAATTCAAAAGTTCACAACTAAAAATTTAGAA-ATTTGC
* * *
6441130 AATTTGAAATTCAAGAA-TTCCCAACTTAAAATTTAGAAGTTTGC
1 AA-TTGAAATTCAA-AAGTTCACAACTAAAAATTTAGAAATTTGC
6441174 AATT-AAATTCAAA
1 AATTGAAATTCAAA
6441187 GATTCTCAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
41 1 0.02
42 8 0.16
43 4 0.08
44 34 0.67
45 4 0.08
ACGTcount: A:0.47, C:0.13, G:0.08, T:0.32
Consensus pattern (43 bp):
AATTGAAATTCAAAAGTTCACAACTAAAAATTTAGAAATTTGC
Found at i:6441310 original size:19 final size:18
Alignment explanation
Indices: 6441286--6441508 Score: 54
Period size: 18 Copynumber: 12.3 Consensus size: 18
6441276 ATAAAAGTTC
6441286 AAGATTTGCAAAGAATTTA
1 AAGATTTGCAAA-AATTTA
* * *
6441305 AAGATTT-TAAAAAATTC
1 AAGATTTGCAAAAATTTA
*
6441322 AAGATTT-CTTAAAAGA-TTC
1 AAGATTTGC--AAAA-ATTTA
6441341 AAGATTTGCAAAGAATTTCA
1 AAGATTTGCAAA-AATTT-A
*
6441361 AAGTTTTGC---AATTGTA
1 AAGATTTGCAAAAATT-TA
* * *
6441377 AAGATTTGTAAAAAATTC
1 AAGATTTGCAAAAATTTA
* * *
6441395 AAGATTCGTAAAAATAT-
1 AAGATTTGCAAAAATTTA
*
6441412 AAGA-TT-CATAAAAGTTCA
1 AAGATTTGCA-AAAA-TTTA
* * *
6441430 ATGATTCGCAAGAAATTCA
1 AAGATTTGCAA-AAATTTA
* ** *
6441449 ATG-TTCACAAGAGATTT-
1 AAGATTTGCAA-AAATTTA
* *
6441466 AAGATTTGCAAAGATTCA
1 AAGATTTGCAAAAATTTA
**
6441484 AAGATTTATAAAAGATTTA
1 AAGATTTGCAAAA-ATTTA
6441503 AAGATT
1 AAGATT
6441509 CGTAAGAGAT
Statistics
Matches: 154, Mismatches: 30, Indels: 40
0.69 0.13 0.18
Matches are distributed among these distances:
15 1 0.01
16 17 0.11
17 24 0.16
18 51 0.33
19 46 0.30
20 15 0.10
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (18 bp):
AAGATTTGCAAAAATTTA
Found at i:6441327 original size:17 final size:17
Alignment explanation
Indices: 6441305--6441347 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 17
6441295 AAAGAATTTA
6441305 AAGATTTTAAAAAATTC
1 AAGATTTTAAAAAATTC
*
6441322 AAGATTTCTTAAAAGATTC
1 AAGA-TT-TTAAAAAATTC
6441341 AAGATTT
1 AAGATTT
6441348 GCAAAGAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (17 bp):
AAGATTTTAAAAAATTC
Found at i:6441350 original size:55 final size:54
Alignment explanation
Indices: 6441263--6441367 Score: 160
Period size: 55 Copynumber: 1.9 Consensus size: 54
6441253 AAATAAATTG
6441263 AATTCAAAGATTCATAAAAGTTCAAGATTTGCAAAGAATTT-AAAGATTTTAAAA
1 AATTCAAAGATTCATAAAAGTTCAAGATTTGCAAAGAATTTCAAAG-TTTTAAAA
*
6441317 AATTC-AAGATTTCTTAAAAGATTCAAGATTTGCAAAGAATTTCAAAGTTTT
1 AATTCAAAGA-TTCATAAAAG-TTCAAGATTTGCAAAGAATTTCAAAGTTTT
6441368 GCAATTGTAA
Statistics
Matches: 47, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
53 4 0.09
54 14 0.30
55 25 0.53
56 4 0.09
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.34
Consensus pattern (54 bp):
AATTCAAAGATTCATAAAAGTTCAAGATTTGCAAAGAATTTCAAAGTTTTAAAA
Found at i:6441409 original size:17 final size:17
Alignment explanation
Indices: 6441377--6441449 Score: 67
Period size: 17 Copynumber: 4.1 Consensus size: 17
6441367 TGCAATTGTA
*
6441377 AAGATTTGTAAAAAATTC
1 AAGATTCGT-AAAAATTC
6441395 AAGATTCGTAAAAATAT-
1 AAGATTCGTAAAAAT-TC
* *
6441412 AAGATTCATAAAAGTTC
1 AAGATTCGTAAAAATTC
*
6441429 AATGATTCGCAAGAAATTC
1 AA-GATTCGTAA-AAATTC
6441448 AA
1 AA
6441450 TGTTCACAAG
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
16 1 0.02
17 21 0.47
18 16 0.36
19 7 0.16
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (17 bp):
AAGATTCGTAAAAATTC
Found at i:6441501 original size:36 final size:36
Alignment explanation
Indices: 6441264--6441527 Score: 120
Period size: 36 Copynumber: 7.3 Consensus size: 36
6441254 AATAAATTGA
*
6441264 ATTCAAAGATTCATAAAAG-TTCAAGATTTGCAAAG
1 ATTCAAAGATTTATAAAAGATTCAAGATTTGCAAAG
* *
6441299 AATTTAAAGATTT-TAAAAAATTCAAGATTT-CTTAAAAG
1 -ATTCAAAGATTTATAAAAGATTCAAGATTTGC---AAAG
** *
6441337 ATTC-AAGATTT-GCAAAGAATTTCAAAGTTTTGC--A-
1 ATTCAAAGATTTATAAAAG-A-TTC-AAGATTTGCAAAG
* * * * *
6441371 ATTGTAAAGATTTGTAAAAAATTCAAGATTCGTAAA-
1 ATT-CAAAGATTTATAAAAGATTCAAGATTTGCAAAG
* * * *
6441407 AAT-ATAAGATTCATAAAAG-TTCAATGATTCGCAAGAA
1 ATTCA-AAGATTTATAAAAGATTCAA-GATTTGCAA-AG
* * * * *
6441444 ATTCAATG-TTCACAAGAGATTTAAGATTTGCAAAG
1 ATTCAAAGATTTATAAAAGATTCAAGATTTGCAAAG
* * *
6441479 ATTCAAAGATTTATAAAAGATTTAAAGATTCGTAAGAG
1 ATTCAAAGATTTATAAAAGA-TTCAAGATTTGCAA-AG
6441517 ATTCAAAGATT
1 ATTCAAAGATT
6441528 CACGTGTGAT
Statistics
Matches: 172, Mismatches: 34, Indels: 42
0.69 0.14 0.17
Matches are distributed among these distances:
34 15 0.09
35 37 0.22
36 66 0.38
37 26 0.15
38 21 0.12
39 6 0.03
40 1 0.01
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.32
Consensus pattern (36 bp):
ATTCAAAGATTTATAAAAGATTCAAGATTTGCAAAG
Found at i:6441518 original size:19 final size:19
Alignment explanation
Indices: 6441412--6441678 Score: 124
Period size: 19 Copynumber: 14.4 Consensus size: 19
6441402 GTAAAAATAT
* *
6441412 AAGATTCATAAAAG-TTCA
1 AAGATTCGTAAGAGATTCA
* * *
6441430 ATGATTCGCAAGAAATTCA
1 AAGATTCGTAAGAGATTCA
* ** *
6441449 ATG-TTCACAAGAGATT-T
1 AAGATTCGTAAGAGATTCA
* *
6441466 AAGATTTGCAA-AGATTCA
1 AAGATTCGTAAGAGATTCA
** * *
6441484 AAGATTTATAAAAGATTTA
1 AAGATTCGTAAGAGATTCA
6441503 AAGATTCGTAAGAGATTCA
1 AAGATTCGTAAGAGATTCA
*
6441522 AAGATTCACGT--GTGATTCA
1 AAGATT--CGTAAGAGATTCA
6441541 AAGATTC-TCAA-ATGATTCA
1 AAGATTCGT-AAGA-GATTCA
*
6441560 AAGATTCATAAGAGATTC-
1 AAGATTCGTAAGAGATTCA
* * * *
6441578 AATATTCATAA-ATATTAA
1 AAGATTCGTAAGAGATTCA
* *
6441596 AAAATTCGTAAGAAATTCA
1 AAGATTCGTAAGAGATTCA
* * * * *
6441615 AATATTTGCAAGTGATTTA
1 AAGATTCGTAAGAGATTCA
* *
6441634 AAGATTTGTAAAAGATTCA
1 AAGATTCGTAAGAGATTCA
**
6441653 AA-AGTTCGTAATTGATTCA
1 AAGA-TTCGTAAGAGATTCA
6441672 AAGATTC
1 AAGATTC
6441679 ACAAACAATT
Statistics
Matches: 191, Mismatches: 42, Indels: 31
0.72 0.16 0.12
Matches are distributed among these distances:
16 1 0.01
17 12 0.06
18 54 0.28
19 118 0.62
20 3 0.02
21 3 0.02
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.32
Consensus pattern (19 bp):
AAGATTCGTAAGAGATTCA
Found at i:6441715 original size:18 final size:17
Alignment explanation
Indices: 6441689--6441731 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
6441679 ACAAACAATT
*
6441689 CAAAGATTTATGATTCA
1 CAAAGATTTAAGATTCA
*
6441706 CAAGAGATTTAAGATTCG
1 CAA-AGATTTAAGATTCA
6441724 CAAAGATT
1 CAAAGATT
6441732 CAAACATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (17 bp):
CAAAGATTTAAGATTCA
Found at i:6441747 original size:19 final size:19
Alignment explanation
Indices: 6441725--6441792 Score: 73
Period size: 19 Copynumber: 3.6 Consensus size: 19
6441715 TAAGATTCGC
**
6441725 AAAGATTCAAACATTTGCA
1 AAAGATTCAAACATTCACA
*
6441744 AAAGATTCAAAGATTCACA
1 AAAGATTCAAACATTCACA
* *
6441763 AATGATTCAAAAATTCACA
1 AAAGATTCAAACATTCACA
**
6441782 AGTGATTCAAA
1 AAAGATTCAAA
6441793 ATTTCAAGTG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 43 1.00
ACGTcount: A:0.50, C:0.15, G:0.10, T:0.25
Consensus pattern (19 bp):
AAAGATTCAAACATTCACA
Found at i:6441757 original size:8 final size:8
Alignment explanation
Indices: 6441724--6441815 Score: 51
Period size: 8 Copynumber: 10.2 Consensus size: 8
6441714 TTAAGATTCG
6441724 CAAAGATT
1 CAAAGATT
*
6441732 CAAACATTT
1 CAAAGA-TT
6441741 GCAAAAGATT
1 -C-AAAGATT
6441751 CAAAGATT
1 CAAAGATT
6441759 CACAAATGATT
1 --CAAA-GATT
*
6441770 CAAAAATT
1 CAAAGATT
6441778 CACAAGTGATT
1 CA-AA--GATT
6441789 CAAA-ATTT
1 CAAAGA-TT
*
6441797 CAAGTGATT
1 CAA-AGATT
6441806 CAAAGATT
1 CAAAGATT
6441814 CA
1 CA
6441816 CATTTGAAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 24
0.69 0.06 0.25
Matches are distributed among these distances:
7 1 0.02
8 28 0.42
9 14 0.21
10 10 0.15
11 13 0.20
ACGTcount: A:0.47, C:0.15, G:0.11, T:0.27
Consensus pattern (8 bp):
CAAAGATT
Found at i:6441793 original size:19 final size:19
Alignment explanation
Indices: 6441747--6441817 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
6441737 ATTTGCAAAA
* *
6441747 GATTCAAAGATTCACAAAT
1 GATTCAAAAATTCACAAGT
6441766 GATTCAAAAATTCACAAGT
1 GATTCAAAAATTCACAAGT
*
6441785 GATTC-AAAATT-TCAAGT
1 GATTCAAAAATTCACAAGT
*
6441802 GATTCAAAGATTCACA
1 GATTCAAAAATTCACA
6441818 TTTGAAAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
17 10 0.22
18 11 0.24
19 24 0.53
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.28
Consensus pattern (19 bp):
GATTCAAAAATTCACAAGT
Found at i:6441836 original size:24 final size:23
Alignment explanation
Indices: 6441809--6441884 Score: 73
Period size: 22 Copynumber: 3.3 Consensus size: 23
6441799 AGTGATTCAA
6441809 AGATTCACATTTGAAAAATTTTAG
1 AGATTCACATTTG-AAAATTTTAG
** *
6441833 AGATTCACACCT-AAAATTTTAA
1 AGATTCACATTTGAAAATTTTAG
* * *
6441855 ATATCCTCATTTGAAAATTTTAG
1 AGATTCACATTTGAAAATTTTAG
*
6441878 AAATTCA
1 AGATTCA
6441885 TATTCAAATT
Statistics
Matches: 39, Mismatches: 12, Indels: 3
0.72 0.22 0.06
Matches are distributed among these distances:
22 16 0.41
23 13 0.33
24 10 0.26
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.37
Consensus pattern (23 bp):
AGATTCACATTTGAAAATTTTAG
Found at i:6443737 original size:27 final size:28
Alignment explanation
Indices: 6443685--6443763 Score: 74
Period size: 27 Copynumber: 2.8 Consensus size: 28
6443675 GTCTTCCTTT
* *
6443685 TTTCTCATTTTTTTTTCACATCTTTC-TCA
1 TTTCTCA-TTTTTTTTCA-TTTTTTCATCA
*
6443714 TTTCTCATTTTTTTTCATTTTTTCATTA
1 TTTCTCATTTTTTTTCATTTTTTCATCA
*
6443742 -TTCT-TTTTTATTTTCATTTTTT
1 TTTCTCATTTT-TTTTCATTTTTT
6443764 TTCACTTCAT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
26 4 0.09
27 21 0.48
28 12 0.27
29 7 0.16
ACGTcount: A:0.13, C:0.16, G:0.00, T:0.71
Consensus pattern (28 bp):
TTTCTCATTTTTTTTCATTTTTTCATCA
Found at i:6443747 original size:38 final size:38
Alignment explanation
Indices: 6443705--6443781 Score: 102
Period size: 38 Copynumber: 2.0 Consensus size: 38
6443695 TTTTTTCACA
**
6443705 TCTTTCTCATTTCTCATTTTTTTTCA-TTTTTTCATTAT
1 TCTTTCTCATTT-TCATTTTTTTTCACTTCATTCATTAT
* *
6443743 TCTTTTTTATTTTCATTTTTTTTCACTTCATTCATTAT
1 TCTTTCTCATTTTCATTTTTTTTCACTTCATTCATTAT
6443781 T
1 T
6443782 TACGTCCCCA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 13 0.38
38 21 0.62
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (38 bp):
TCTTTCTCATTTTCATTTTTTTTCACTTCATTCATTAT
Found at i:6443750 original size:14 final size:13
Alignment explanation
Indices: 6443721--6443763 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
6443711 TCATTTCTCA
6443721 TTTT-TTTTCATT
1 TTTTATTTTCATT
6443733 TTTTCATTATTC-TT
1 TTTT-ATT-TTCATT
6443747 TTTTATTTTCATT
1 TTTTATTTTCATT
6443760 TTTT
1 TTTT
6443764 TTCACTTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
12 7 0.26
13 9 0.33
14 8 0.30
15 3 0.11
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTATTTTCATT
Found at i:6444062 original size:18 final size:18
Alignment explanation
Indices: 6444030--6444078 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
6444020 TGAAGTACCA
6444030 CATTTTTTTTC--CTTTT
1 CATTTTTTTTCATCTTTT
6444046 CATTTTTTTTCATCTTTT
1 CATTTTTTTTCATCTTTT
* *
6444064 TATTTTTTTACATCT
1 CATTTTTTTTCATCT
6444079 ATTTTCCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.38
18 18 0.62
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.71
Consensus pattern (18 bp):
CATTTTTTTTCATCTTTT
Found at i:6448156 original size:98 final size:94
Alignment explanation
Indices: 6447876--6448171 Score: 287
Period size: 98 Copynumber: 3.0 Consensus size: 94
6447866 AGATTGAATG
* * * **
6447876 AAAATTTGAATCCTCCAATCATTTGATAGGATTAAAATTTTATTT-TTTAAAAATTTATTA-AGT
1 AAAATTTAAATCCT-CAATCATTTGATAGGATTGAAATTTTATTTATTTAAAAAATTATTATAAA
* * * *
6447939 ACTCT-AATCATTTGGTAGAA--CTTAATTC
65 ATTTTCAATCATTT-GTAGAATTCATAATTT
* * * * *
6447967 AATATTTAAATCTTCTAATCATTTAATAGGATTAAAGACATTTTATTTATTTCTAAAAATTCATT
1 AAAATTTAAATCCTC-AATCATTTGATAGGATT---GAAATTTTATTTATTT-AAAAAATT-ATT
6448032 ATAAAAATTTTCAATCATTTGATAGAATTCATAATTT
60 AT-AAAATTTTCAATCATTTG-TAGAATTCATAATTT
6448069 AAAATTTAAATCCCTCAATCATTTGATAGGATTGAAATTTTATTTTATTTAAAAAATTATTATGA
1 AAAATTTAAAT-CCTCAATCATTTGATAGGATTGAAATTTTA-TTTATTTAAAAAATTATTAT-A
*
6448134 AAATTTTCAATCATTTAGTAGAATTCACAATTTT
63 AAATTTTCAATCATTT-GTAGAATTCATAA-TTT
6448168 AAAA
1 AAAA
6448172 ATTTTAAACC
Statistics
Matches: 167, Mismatches: 21, Indels: 26
0.78 0.10 0.12
Matches are distributed among these distances:
90 1 0.01
91 27 0.16
94 10 0.06
95 3 0.02
96 6 0.04
97 4 0.02
98 33 0.20
99 28 0.17
100 20 0.12
102 32 0.19
103 3 0.02
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (94 bp):
AAAATTTAAATCCTCAATCATTTGATAGGATTGAAATTTTATTTATTTAAAAAATTATTATAAAA
TTTTCAATCATTTGTAGAATTCATAATTT
Found at i:6450579 original size:17 final size:16
Alignment explanation
Indices: 6450557--6450597 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
6450547 TCAAAAAGAA
6450557 AAATTAATAAGCAAATC
1 AAATTAATAA-CAAATC
*
6450574 AAATTAATAACCAATC
1 AAATTAATAACAAATC
6450590 -AATTAATA
1 AAATTAATA
6450598 TGTAATTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.35
16 5 0.22
17 10 0.43
ACGTcount: A:0.59, C:0.12, G:0.02, T:0.27
Consensus pattern (16 bp):
AAATTAATAACAAATC
Found at i:6451727 original size:30 final size:28
Alignment explanation
Indices: 6451684--6451758 Score: 105
Period size: 30 Copynumber: 2.6 Consensus size: 28
6451674 ATATCATTTT
*
6451684 ATAAAAAAAATTATTTTAATCATAAATC
1 ATAAAAAATATTATTTTAATCATAAATC
*
6451712 ATAATAAATATATTATTTTACTCATAAATC
1 ATAA-AAA-ATATTATTTTAATCATAAATC
*
6451742 ATAAAGAATATTATTTT
1 ATAAAAAATATTATTTT
6451759 CTATTCATAA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
28 14 0.33
29 5 0.12
30 23 0.55
ACGTcount: A:0.51, C:0.07, G:0.01, T:0.41
Consensus pattern (28 bp):
ATAAAAAATATTATTTTAATCATAAATC
Found at i:6451767 original size:30 final size:30
Alignment explanation
Indices: 6451693--6451769 Score: 86
Period size: 30 Copynumber: 2.6 Consensus size: 30
6451683 TATAAAAAAA
* *
6451693 ATTATTTTAATCATAAATCATAATAAATAT
1 ATTATTCTACTCATAAATCATAATAAATAT
*
6451723 ATTATTTTACTCATAAATCATAA-AGAATATT
1 ATTATTCTACTCATAAATCATAATA-AATA-T
*
6451754 ATT-TTCTATTCATAAA
1 ATTATTCTACTCATAAA
6451770 ATATATATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
29 1 0.02
30 37 0.88
31 4 0.10
ACGTcount: A:0.45, C:0.09, G:0.01, T:0.44
Consensus pattern (30 bp):
ATTATTCTACTCATAAATCATAATAAATAT
Found at i:6451775 original size:23 final size:26
Alignment explanation
Indices: 6451684--6451781 Score: 71
Period size: 30 Copynumber: 3.7 Consensus size: 26
6451674 ATATCATTTT
* * *
6451684 ATAAAAAAAATTATTTTAATCATAAATC
1 ATAAAATATATTATTTTACTCAT--ATC
6451712 ATAATAAATATATTATTTTACTCATAAATC
1 AT-A-AAATATATTATTTTACTCAT--ATC
6451742 ATAAAGA-ATATTATTTT-CT-AT-TC
1 ATAAA-ATATATTATTTTACTCATATC
6451765 ATAAAATATA-TATTTTA
1 ATAAAATATATTATTTTA
6451782 AAATATTAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
22 7 0.11
23 10 0.16
26 2 0.03
27 2 0.03
28 14 0.23
29 3 0.05
30 24 0.39
ACGTcount: A:0.49, C:0.07, G:0.01, T:0.43
Consensus pattern (26 bp):
ATAAAATATATTATTTTACTCATATC
Found at i:6451866 original size:22 final size:22
Alignment explanation
Indices: 6451824--6451866 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
6451814 AATATATTTT
*
6451824 ATAAAAATAAATAAAGGAAAAG
1 ATAAAAATAAATAAAGAAAAAG
* *
6451846 ATAAAAATAATTCAAGAAAAA
1 ATAAAAATAAATAAAGAAAAA
6451867 AATGATTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.72, C:0.02, G:0.09, T:0.16
Consensus pattern (22 bp):
ATAAAAATAAATAAAGAAAAAG
Found at i:6452544 original size:7 final size:6
Alignment explanation
Indices: 6452512--6452559 Score: 53
Period size: 6 Copynumber: 7.7 Consensus size: 6
6452502 AGATTTTTGT
*
6452512 TTAAAA TTAAAA ATAAATA TTCAAAA CTTAAAA TT-AAA TTAAAA TTAA
1 TTAAAA TTAAAA TTAAA-A TT-AAAA -TTAAAA TTAAAA TTAAAA TTAA
6452560 GTGAGAATTC
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
5 5 0.14
6 19 0.53
7 7 0.19
8 5 0.14
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (6 bp):
TTAAAA
Found at i:6454439 original size:17 final size:17
Alignment explanation
Indices: 6454417--6454455 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
6454407 TTGAAAATTT
*
6454417 ATTTATTTGTGAAAATA
1 ATTTATTTGTAAAAATA
*
6454434 ATTTATTTTTAAAAATA
1 ATTTATTTGTAAAAATA
*
6454451 TTTTA
1 ATTTA
6454456 CAATATGTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (17 bp):
ATTTATTTGTAAAAATA
Found at i:6454685 original size:13 final size:14
Alignment explanation
Indices: 6454651--6454684 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
6454641 AAAAAATAGA
6454651 ACAAAAATTATCAT
1 ACAAAAATTATCAT
*
6454665 GCAAAAATTATCAT
1 ACAAAAATTATCAT
6454679 ACAAAA
1 ACAAAA
6454685 TAACATAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.59, C:0.15, G:0.03, T:0.24
Consensus pattern (14 bp):
ACAAAAATTATCAT
Found at i:6454712 original size:18 final size:18
Alignment explanation
Indices: 6454689--6454729 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
6454679 ACAAAATAAC
6454689 ATAATAAATCACACAAAA
1 ATAATAAATCACACAAAA
**
6454707 ATAAT-AATCATGCAAAA
1 ATAATAAATCACACAAAA
6454724 ATAATA
1 ATAATA
6454730 TCATTATGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.63, C:0.12, G:0.02, T:0.22
Consensus pattern (18 bp):
ATAATAAATCACACAAAA
Found at i:6454732 original size:16 final size:17
Alignment explanation
Indices: 6454702--6454733 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6454692 ATAAATCACA
6454702 CAAAAATAATAATCATG
1 CAAAAATAATAATCATG
6454719 CAAAAATAAT-ATCAT
1 CAAAAATAATAATCAT
6454734 TATGTAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.59, C:0.12, G:0.03, T:0.25
Consensus pattern (17 bp):
CAAAAATAATAATCATG
Found at i:6454764 original size:20 final size:20
Alignment explanation
Indices: 6454707--6454769 Score: 78
Period size: 20 Copynumber: 3.2 Consensus size: 20
6454697 TCACACAAAA
6454707 ATAATA-ATCATGCAA-AA-
1 ATAATATATCATGCAATAAT
* *
6454724 ATAATATCATTATGTAATAAT
1 ATAATAT-ATCATGCAATAAT
6454745 ATAATATATCATGCAATAAT
1 ATAATATATCATGCAATAAT
6454765 ATAAT
1 ATAAT
6454770 TAAATACGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
17 6 0.16
19 7 0.18
20 18 0.47
21 7 0.18
ACGTcount: A:0.52, C:0.08, G:0.05, T:0.35
Consensus pattern (20 bp):
ATAATATATCATGCAATAAT
Found at i:6454924 original size:19 final size:19
Alignment explanation
Indices: 6454902--6454967 Score: 55
Period size: 19 Copynumber: 3.5 Consensus size: 19
6454892 GAAAAAAATC
6454902 AAAAATAAAATAAAATAGA
1 AAAAATAAAATAAAATAGA
* * *
6454921 AAAAATTAAATTAAATTGA
1 AAAAATAAAATAAAATAGA
**
6454940 AGATCA-AAAATAAAA-AGA
1 A-AAAATAAAATAAAATAGA
*
6454958 AAAAAGAAAA
1 AAAAATAAAA
6454968 CTCATTACCA
Statistics
Matches: 35, Mismatches: 10, Indels: 5
0.70 0.20 0.10
Matches are distributed among these distances:
17 2 0.06
18 7 0.20
19 24 0.69
20 2 0.06
ACGTcount: A:0.74, C:0.02, G:0.08, T:0.17
Consensus pattern (19 bp):
AAAAATAAAATAAAATAGA
Found at i:6456101 original size:19 final size:18
Alignment explanation
Indices: 6456077--6456117 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
6456067 TAAGTCCTAA
*
6456077 TTTTATTTGTATTTTAATT
1 TTTTATTT-AATTTTAATT
*
6456096 TTTTATTTAATTTTTATT
1 TTTTATTTAATTTTAATT
6456114 TTTT
1 TTTT
6456118 TAGTCAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (18 bp):
TTTTATTTAATTTTAATT
Found at i:6458439 original size:14 final size:14
Alignment explanation
Indices: 6458420--6458454 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
6458410 TAAAAAAAGA
6458420 ACAAAATTTATCAT
1 ACAAAATTTATCAT
* *
6458434 ACAAAAATTATTAT
1 ACAAAATTTATCAT
6458448 ACAAAAT
1 ACAAAAT
6458455 AAAATAATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.31
Consensus pattern (14 bp):
ACAAAATTTATCAT
Found at i:6458495 original size:20 final size:19
Alignment explanation
Indices: 6458476--6458538 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
6458466 TCACACAATA
6458476 ATAATAATCATGCAAAAAT
1 ATAATAATCATGCAAAAAT
* *
6458495 A-ATATCATCATGCAATAAT
1 ATA-ATAATCATGCAAAAAT
* *
6458514 ATAATATGTCATGCAAGAAT
1 ATAATA-ATCATGCAAAAAT
6458534 ATAAT
1 ATAAT
6458539 TAAATATGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
18 1 0.03
19 18 0.50
20 17 0.47
ACGTcount: A:0.51, C:0.11, G:0.08, T:0.30
Consensus pattern (19 bp):
ATAATAATCATGCAAAAAT
Found at i:6458717 original size:18 final size:18
Alignment explanation
Indices: 6458692--6458735 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
6458682 AAAATAAACC
6458692 AAAAAAAAAT-AAAATCA
1 AAAAAAAAATCAAAATCA
*
6458709 AATAAAAAAATCAAAATTA
1 AA-AAAAAAATCAAAATCA
6458728 AAAAAAAA
1 AAAAAAAA
6458736 GAAAAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 2 0.08
18 14 0.58
19 8 0.33
ACGTcount: A:0.82, C:0.05, G:0.00, T:0.14
Consensus pattern (18 bp):
AAAAAAAAATCAAAATCA
Found at i:6458717 original size:19 final size:19
Alignment explanation
Indices: 6458692--6458746 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
6458682 AAAATAAACC
6458692 AAAAAAAAATAAAATC-AA
1 AAAAAAAAATAAAATCAAA
* *
6458710 ATAAAAAAATCAAAATTAAA
1 AAAAAAAAAT-AAAATCAAA
*
6458730 AAAAAAGAAAAAAAATC
1 AAAAAA-AAATAAAATC
6458747 TACAATTGGG
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
18 9 0.31
19 5 0.17
20 12 0.41
21 3 0.10
ACGTcount: A:0.80, C:0.05, G:0.02, T:0.13
Consensus pattern (19 bp):
AAAAAAAAATAAAATCAAA
Found at i:6458720 original size:13 final size:15
Alignment explanation
Indices: 6458702--6458733 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
6458692 AAAAAAAAAT
6458702 AAAATC-AAA-TAAA
1 AAAATCAAAATTAAA
6458715 AAAATCAAAATTAAA
1 AAAATCAAAATTAAA
6458730 AAAA
1 AAAA
6458734 AAGAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 3 0.18
15 8 0.47
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.16
Consensus pattern (15 bp):
AAAATCAAAATTAAA
Found at i:6458724 original size:25 final size:24
Alignment explanation
Indices: 6458662--6458743 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 24
6458652 AATAAAGGAG
6458662 AAAAATAAAAAATAAGACATAAAATAA
1 AAAAAT-AAAAATAA-A-ATAAAATAA
*
6458689 ACCAAAA-AAAAATAAAATCAAATAA
1 A--AAAATAAAAATAAAATAAAATAA
* * *
6458714 AAAAATCAAAATTAAAAAAAAAGAA
1 AAAAAT-AAAAATAAAATAAAATAA
6458739 AAAAA
1 AAAAA
6458744 ATCTACAATT
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
23 4 0.09
25 28 0.61
26 1 0.02
27 9 0.20
29 4 0.09
ACGTcount: A:0.79, C:0.06, G:0.02, T:0.12
Consensus pattern (24 bp):
AAAAATAAAAATAAAATAAAATAA
Found at i:6459158 original size:20 final size:20
Alignment explanation
Indices: 6459112--6459159 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
6459102 AAAAATCATT
* *
6459112 AAAAAAAACCTAAAAATATG
1 AAAAAAAACCTAAAAAGATA
*
6459132 AATAAAAACCTATAAAAGA-A
1 AAAAAAAACCTA-AAAAGATA
6459152 AAAAAAAA
1 AAAAAAAA
6459160 TCCAAAAACC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.75, C:0.08, G:0.04, T:0.12
Consensus pattern (20 bp):
AAAAAAAACCTAAAAAGATA
Found at i:6459737 original size:21 final size:20
Alignment explanation
Indices: 6459713--6459761 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 20
6459703 TACTCTTTTG
*
6459713 TTTTTTTTATACTTTTGACCT
1 TTTTTTTTAGACTTTTGA-CT
* *
6459734 TTTTGTTTTAGATTTTTTACT
1 TTTT-TTTTAGACTTTTGACT
6459755 TTTTTTT
1 TTTTTTT
6459762 AAACAAGCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 3 0.12
21 10 0.42
22 11 0.46
ACGTcount: A:0.12, C:0.08, G:0.06, T:0.73
Consensus pattern (20 bp):
TTTTTTTTAGACTTTTGACT
Found at i:6460270 original size:21 final size:21
Alignment explanation
Indices: 6460233--6460279 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
6460223 GTTAATAAAT
*
6460233 ATTAAAATTTTAATTTTAGTA
1 ATTAAAATTTTAATTTTAATA
*
6460254 ATTAAAA-TTTACTTTTTAATA
1 ATTAAAATTTTA-ATTTTAATA
6460275 ATTAA
1 ATTAA
6460280 TATATATGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
ATTAAAATTTTAATTTTAATA
Found at i:6460313 original size:11 final size:11
Alignment explanation
Indices: 6460297--6460349 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
6460287 GAGTTTATAT
6460297 TTAATATATTA
1 TTAATATATTA
*
6460308 TTAATATATAAA
1 TTAATATAT-TA
*
6460320 TTTTATATATTA
1 -TTAATATATTA
*
6460332 TTAATAAATTA
1 TTAATATATTA
6460343 TATAATA
1 T-TAATA
6460350 CCATTTTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
11 19 0.56
12 7 0.21
13 8 0.24
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
TTAATATATTA
Found at i:6460340 original size:20 final size:22
Alignment explanation
Indices: 6460300--6460346 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
6460290 TTTATATTTA
6460300 ATATATTATTAATATATAAATT
1 ATATATTATTAATATATAAATT
* *
6460322 TTATA-TATTATTA-ATAAATT
1 ATATATTATTAATATATAAATT
6460342 ATATA
1 ATATA
6460347 ATACCATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 11 0.50
21 7 0.32
22 4 0.18
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATATATTATTAATATATAAATT
Found at i:6460459 original size:18 final size:19
Alignment explanation
Indices: 6460436--6460472 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
6460426 ATTAATAAGA
6460436 TGACATT-ATAAAATTTAT
1 TGACATTAATAAAATTTAT
6460454 TGACATTAATAAAATTTAT
1 TGACATTAATAAAATTTAT
6460473 AAAAAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.43
Consensus pattern (19 bp):
TGACATTAATAAAATTTAT
Found at i:6463833 original size:2 final size:2
Alignment explanation
Indices: 6463826--6463869 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
6463816 CATGCAACTG
6463826 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
6463868 GA
1 GA
6463870 CCTCCACCAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:6471534 original size:25 final size:24
Alignment explanation
Indices: 6471503--6471563 Score: 86
Period size: 25 Copynumber: 2.5 Consensus size: 24
6471493 CTAAATGTGG
*
6471503 AAAAATGAAAAACAAAGAAGAAAAA
1 AAAAATGAAAAA-AAAAAAGAAAAA
*
6471528 ATAAATGAAAAAAAAAAAGAAAAA
1 AAAAATGAAAAAAAAAAAGAAAAA
6471552 AAAAGATGAAAA
1 AAAA-ATGAAAA
6471564 TGCATGTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
24 14 0.44
25 18 0.56
ACGTcount: A:0.80, C:0.02, G:0.11, T:0.07
Consensus pattern (24 bp):
AAAAATGAAAAAAAAAAAGAAAAA
Found at i:6471562 original size:13 final size:12
Alignment explanation
Indices: 6471503--6471563 Score: 70
Period size: 12 Copynumber: 4.9 Consensus size: 12
6471493 CTAAATGTGG
6471503 AAAAATGAAAAA
1 AAAAATGAAAAA
6471515 CAAAGAA-GAAAAA
1 -AAA-AATGAAAAA
*
6471528 ATAAATGAAAAA
1 AAAAATGAAAAA
*
6471540 AAAAAAGAAAAA
1 AAAAATGAAAAA
6471552 AAAAGATGAAAA
1 AAAA-ATGAAAA
6471564 TGCATGTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
11 2 0.05
12 22 0.54
13 15 0.37
14 2 0.05
ACGTcount: A:0.80, C:0.02, G:0.11, T:0.07
Consensus pattern (12 bp):
AAAAATGAAAAA
Found at i:6473034 original size:22 final size:22
Alignment explanation
Indices: 6472987--6473042 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
6472977 AATGTAAAAA
* *
6472987 ATGATTTGTAAAACCTTCAGGC
1 ATGATTTGTAAGACCTTCAGAC
*
6473009 ATGATTTGTAAGACCTTC-GAAT
1 ATGATTTGTAAGACCTTCAG-AC
6473031 ATGATTTGTAAG
1 ATGATTTGTAAG
6473043 GTATTCGGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 1 0.03
22 29 0.97
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (22 bp):
ATGATTTGTAAGACCTTCAGAC
Found at i:6473821 original size:44 final size:44
Alignment explanation
Indices: 6473769--6473912 Score: 216
Period size: 44 Copynumber: 3.3 Consensus size: 44
6473759 GTGAGAATAT
*
6473769 TTTTATATTTTTCAGAAGTTGTTGAGCCTCTGTTAAGATGAGTC
1 TTTTATATTTTTTAGAAGTTGTTGAGCCTCTGTTAAGATGAGTC
* *
6473813 TTTTATATTTTTTAAAAGTTGTTAAGCCTCTGTTAAGATGAGTC
1 TTTTATATTTTTTAGAAGTTGTTGAGCCTCTGTTAAGATGAGTC
* * * * *
6473857 TTTTATATTTTTTAGAAGTTATTGAGCTTCTATTGAGATGAGTT
1 TTTTATATTTTTTAGAAGTTGTTGAGCCTCTGTTAAGATGAGTC
6473901 TTTTATATTTTT
1 TTTTATATTTTT
6473913 AAAAAATTAT
Statistics
Matches: 90, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 90 1.00
ACGTcount: A:0.24, C:0.08, G:0.17, T:0.51
Consensus pattern (44 bp):
TTTTATATTTTTTAGAAGTTGTTGAGCCTCTGTTAAGATGAGTC
Found at i:6473923 original size:44 final size:44
Alignment explanation
Indices: 6473768--6474006 Score: 196
Period size: 44 Copynumber: 5.5 Consensus size: 44
6473758 AGTGAGAATA
* * * *
6473768 TTTTTATATTTTTCAGAAGTTGTTGAGCCTCTGTTAAGATGAGT
1 TTTTTATATTTTTAAAAAGTTATTGAGCCTCTATTAAGATGAGT
* * * * *
6473812 CTTTTATATTTTTTAAAAGTTGTTAAGCCTCTGTTAAGATGAGT
1 TTTTTATATTTTTAAAAAGTTATTGAGCCTCTATTAAGATGAGT
* * * * *
6473856 CTTTTATATTTTTTAGAAGTTATTGAGCTTCTATTGAGATGAGT
1 TTTTTATATTTTTAAAAAGTTATTGAGCCTCTATTAAGATGAGT
* ** * * * * *
6473900 TTTTTATATTTTTAAAAAATTATTGAGTTTTTATTGATAAGAGC
1 TTTTTATATTTTTAAAAAGTTATTGAGCCTCTATTAAGATGAGT
* * * *
6473944 TTTTTATATTTTT-AAAAGTTGTTAAGCATTTATTTAAGA-GAG-
1 TTTTTATATTTTTAAAAAGTTATTGAGCCTCTA-TTAAGATGAGT
*
6473986 TTTTTACATTGTTTAAAAAGT
1 TTTTTATATT-TTTAAAAAGT
6474007 CTGGGTTTCC
Statistics
Matches: 165, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
42 9 0.05
43 20 0.12
44 136 0.82
ACGTcount: A:0.29, C:0.06, G:0.15, T:0.50
Consensus pattern (44 bp):
TTTTTATATTTTTAAAAAGTTATTGAGCCTCTATTAAGATGAGT
Found at i:6476324 original size:3 final size:3
Alignment explanation
Indices: 6476316--6476348 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
6476306 CATATTGTAT
6476316 TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
6476349 CTTGTTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:6476336 original size:14 final size:14
Alignment explanation
Indices: 6476313--6476345 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
6476303 ACCCATATTG
6476313 TATT-TATTATTAT
1 TATTATATTATTAT
6476326 TATTATATTATTAT
1 TATTATATTATTAT
6476340 TATTAT
1 TATTAT
6476346 TATCTTGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TATTATATTATTAT
Found at i:6476338 original size:17 final size:17
Alignment explanation
Indices: 6476316--6476348 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
6476306 CATATTGTAT
6476316 TTATTATTATTATTATA
1 TTATTATTATTATTATA
6476333 TTATTATTATTATTAT
1 TTATTATTATTATTAT
6476349 CTTGTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATTATTATTATTATA
Found at i:6477377 original size:16 final size:19
Alignment explanation
Indices: 6477341--6477378 Score: 55
Period size: 16 Copynumber: 2.2 Consensus size: 19
6477331 CTATCAAATT
6477341 ATTTAAAATTTCTTCATGA
1 ATTTAAAATTTCTTCATGA
6477360 ATTT-AAATTT-TT-ATGA
1 ATTTAAAATTTCTTCATGA
6477376 ATT
1 ATT
6477379 CTACCAAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.37
17 2 0.11
18 6 0.32
19 4 0.21
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (19 bp):
ATTTAAAATTTCTTCATGA
Found at i:6492771 original size:65 final size:65
Alignment explanation
Indices: 6492594--6492872 Score: 192
Period size: 65 Copynumber: 4.3 Consensus size: 65
6492584 TGATATCAGT
* * ** ** *
6492594 TCAGTCCATATCATTTTATGTTTCTGACTTGCAATTCAATAC-CAATCACCT-ATTTTAATCTC-
1 TCAGTCCAAATCATTTTATGTTTCTAACCCGCGGTTCAAT-CTCGATCA-CTGATTTTAATCTCG
*
6492656 AGT
64 A-C
* * **
6492659 TTAGTCTAAATCATTTTATGTTTCTCGCCCGCGGTTCAATCTCGATCA-T-ATAGTTTAATCTCG
1 TCAGTCCAAATCATTTTATGTTTCTAACCCGCGGTTCAATCTCGATCACTGAT--TTTAATCTCG
6492722 AC
64 AC
* * * * * *
6492724 TCAGTCCAGATCATTTTATGTTTCTAACTCGCGGTTCAATTTTGATCACTGATTTTGATTTCGAC
1 TCAGTCCAAATCATTTTATGTTTCTAACCCGCGGTTCAATCTCGATCACTGATTTTAATCTCGAC
* * * ** ** * * * *
6492789 TCAGTCTAAATCATTTTATATTTCTGATACATGGTTCAAACCCGGTCACCTG-TTTTGATCTCGA
1 TCAGTCCAAATCATTTTATGTTTCTAACCCGCGGTTCAATCTCGATCA-CTGATTTTAATCTCGA
6492853 C
65 C
*
6492854 TCAATCCAAATCATTTTAT
1 TCAGTCCAAATCATTTTAT
6492873 AATTTTAACT
Statistics
Matches: 170, Mismatches: 37, Indels: 14
0.77 0.17 0.06
Matches are distributed among these distances:
63 3 0.02
64 1 0.01
65 159 0.94
66 5 0.03
67 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.41
Consensus pattern (65 bp):
TCAGTCCAAATCATTTTATGTTTCTAACCCGCGGTTCAATCTCGATCACTGATTTTAATCTCGAC
Found at i:6492889 original size:65 final size:65
Alignment explanation
Indices: 6492716--6492912 Score: 168
Period size: 65 Copynumber: 3.0 Consensus size: 65
6492706 ATATAGTTTA
* * * ** ****
6492716 ATCTCGACTCAGTCCAGATCATTTTATGTTTCTAACT-CGCGGTTCAATTTTGATCA-CTGATTT
1 ATCTCGACTCAATCCAAATCATTTTATATTTCTAA-TACATGGTTCAAACCCGATCACCTG-TTT
6492779 TG
64 TG
* * * * *
6492781 ATTTCGACTCAGTCTAAATCATTTTATATTTCTGATACATGGTTCAAACCCGGTCACCTGTTTTG
1 ATCTCGACTCAATCCAAATCATTTTATATTTCTAATACATGGTTCAAACCCGATCACCTGTTTTG
* * * *
6492846 ATCTCGACTCAATCCAAATCATTTTATAATTT-TAACT-CTTGGTTTAATCCTGATCACCTGTTT
1 ATCTCGACTCAATCCAAATCATTTTAT-ATTTCTAA-TACATGGTTCAAACCCGATCACCTGTTT
6492909 TG
64 TG
6492911 AT
1 AT
6492913 TTTAGCTTAG
Statistics
Matches: 107, Mismatches: 21, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
64 1 0.01
65 98 0.92
66 8 0.07
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (65 bp):
ATCTCGACTCAATCCAAATCATTTTATATTTCTAATACATGGTTCAAACCCGATCACCTGTTTTG
Found at i:6492932 original size:65 final size:65
Alignment explanation
Indices: 6492863--6493016 Score: 159
Period size: 65 Copynumber: 2.4 Consensus size: 65
6492853 CTCAATCCAA
* * * * * * *
6492863 ATCATTTTATAATTTTAACTCTTGGTTTAATCCTGATCACCTGTTTTGATTTT-AGCTTAGTCTA
1 ATCATTTTATAATTTTAACTCGTAGTTAAATCCCGATCACCTATGTTGATTTTGA-CTTAATCTA
6492927 G
65 G
* ** * *
6492928 ATCATTTCATGTTTTTTACTCGTAGTTAAATCCCGATCACCTATGTTGATTTTGATTTAATCTAG
1 ATCATTTTATAATTTTAACTCGTAGTTAAATCCCGATCACCTATGTTGATTTTGACTTAATCTAG
*
6492993 ATCATTTTAT-ATTTCTTACTCGTA
1 ATCATTTTATAATTT-TAACTCGTA
6493017 ATTCAATCTT
Statistics
Matches: 73, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
64 3 0.04
65 69 0.95
66 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.11, T:0.49
Consensus pattern (65 bp):
ATCATTTTATAATTTTAACTCGTAGTTAAATCCCGATCACCTATGTTGATTTTGACTTAATCTAG
Done.