Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167826.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_1, 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: 36299135
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Warning! 357000 characters in sequence are not A, C, G, or T
File 44 of 402
Found at i:8642568 original size:127 final size:127
Alignment explanation
Indices: 8642331--8642577 Score: 347
Period size: 127 Copynumber: 1.9 Consensus size: 127
8642321 AAGATTTTCA
* * *
8642331 GGCATAATCTCTAAGACCTTCAGGCAAAATATTTTAAGATTTCAAAGTTTCAATGCCTCTGATTA
1 GGCATAATCTCTAAGACCTTCAGGCAAAACATTTTAAGATTTCAAAATTTCAATACCTCTGATTA
* * * * *
8642396 GGGGGAACATTCAAAGATTTTGAGATTTGTAAGACTTTCAGGCATAATCTTTAAGACATCTG
66 GGGGAAACATTCAAAAATTTTGAGATTTGTAAGACCTCCAGGCATAATCTCTAAGACATCTG
* * *
8642458 GGCATAATCTCTAAGACCTT-TGGCCAAAACATTTTAAGATTTCAAAATTTTAATACCTTTGATT
1 GGCATAATCTCTAAGACCTTCAGG-CAAAACATTTTAAGATTTCAAAATTTCAATACCTCTGATT
8642522 -GAGGGAAACATTCAAAAATTTTGAGATTTGTAAGACCTCC-GAGCATAATCTCTAAG
65 AG-GGGAAACATTCAAAAATTTTGAGATTTGTAAGACCTCCAG-GCATAATCTCTAAG
8642578 TTTTTCGGGC
Statistics
Matches: 106, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
126 4 0.04
127 102 0.96
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (127 bp):
GGCATAATCTCTAAGACCTTCAGGCAAAACATTTTAAGATTTCAAAATTTCAATACCTCTGATTA
GGGGAAACATTCAAAAATTTTGAGATTTGTAAGACCTCCAGGCATAATCTCTAAGACATCTG
Found at i:8642877 original size:52 final size:51
Alignment explanation
Indices: 8642707--8643068 Score: 412
Period size: 52 Copynumber: 7.0 Consensus size: 51
8642697 ACACTTTAGA
* * *
8642707 TTTTAAAGTTTCAAAGCCTTTTGTTTAGGGAAAGCCATTTTCAAACAA-A--A
1 TTTTAAAGTTTCAAAGCC-TCTGTTTAGGG-GAGCCATTTTCAAACAAGATTT
** *
8642757 TTTTAAAGTTTCAAAGCCTCTGTTTAGGAGGAGCTTTTTTTAAAACAAGATTT
1 TTTTAAAGTTTCAAAGCCTCTGTTTAGG-GGAGC-CATTTTCAAACAAGATTT
* *
8642810 TTTTAAAGTTTCAAAGCCTCTATTTAGAGGGAGCCATTTTCAAACAATATTT
1 TTTTAAAGTTTCAAAGCCTCTGTTTAG-GGGAGCCATTTTCAAACAAGATTT
* * * *
8642862 TTTTAAAGTTTCAAAGACTTTTGTTTAGGGAAAGCCATTTTCAAACAA-A--A
1 TTTTAAAGTTTCAAAG-CCTCTGTTTAGGG-GAGCCATTTTCAAACAAGATTT
* * ** *
8642912 TTTTAAAGTTTCAAAGCCTTTGTTTAGGAGGAACTTTTTTTAAACAAGATTT
1 TTTTAAAGTTTCAAAGCCTCTGTTTAGG-GGAGCCATTTTCAAACAAGATTT
* *
8642964 TTTTAAAGTTTCAAAGCCTCTATTTAGAGGGAGCCATTTTCAAACAATATTT
1 TTTTAAAGTTTCAAAGCCTCTGTTTAG-GGGAGCCATTTTCAAACAAGATTT
*
8643016 TTTTAAAGTTTCAAAACCTCTGTTTAGGGGGAGCCATTTTCAAACAAGATTT
1 TTTTAAAGTTTCAAAGCCTCTGTTTA-GGGGAGCCATTTTCAAACAAGATTT
8643068 T
1 T
8643069 AAAAAAATAA
Statistics
Matches: 265, Mismatches: 33, Indels: 26
0.82 0.10 0.08
Matches are distributed among these distances:
49 35 0.13
50 47 0.18
51 1 0.00
52 124 0.47
53 57 0.22
54 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (51 bp):
TTTTAAAGTTTCAAAGCCTCTGTTTAGGGGAGCCATTTTCAAACAAGATTT
Found at i:8642938 original size:155 final size:154
Alignment explanation
Indices: 8642707--8643071 Score: 642
Period size: 155 Copynumber: 2.4 Consensus size: 154
8642697 ACACTTTAGA
*
8642707 TTTTAAAGTTTCAAAGCCTTTTGTTTAGGGAAAGCCATTTTCAAACAAAATTTTAAAGTTTCAAA
1 TTTTAAAGTTTCAAAGACTTTTGTTTAGGGAAAGCCATTTTCAAACAAAATTTTAAAGTTTCAAA
*
8642772 GCCTCTGTTTAGGAGGAGCTTTTTTTAAAACAAGATTTTTTTAAAGTTTCAAAGCCTCTATTTAG
66 GCCTCTGTTTAGGAGGAACTTTTTTT-AAACAAGATTTTTTTAAAGTTTCAAAGCCTCTATTTAG
8642837 AGGGAGCCATTTTCAAACAATATTT
130 AGGGAGCCATTTTCAAACAATATTT
8642862 TTTTAAAGTTTCAAAGACTTTTGTTTAGGGAAAGCCATTTTCAAACAAAATTTTAAAGTTTCAAA
1 TTTTAAAGTTTCAAAGACTTTTGTTTAGGGAAAGCCATTTTCAAACAAAATTTTAAAGTTTCAAA
*
8642927 GCCTTTGTTTAGGAGGAACTTTTTTTAAACAAGATTTTTTTAAAGTTTCAAAGCCTCTATTTAGA
66 GCCTCTGTTTAGGAGGAACTTTTTTTAAACAAGATTTTTTTAAAGTTTCAAAGCCTCTATTTAGA
8642992 GGGAGCCATTTTCAAACAATATTT
131 GGGAGCCATTTTCAAACAATATTT
* * ** *
8643016 TTTTAAAGTTTCAAA-ACCTCTGTTTAGGGGGAGCCATTTTCAAACAAGATTTTAAA
1 TTTTAAAGTTTCAAAGACTTTTGTTTAGGGAAAGCCATTTTCAAACAAAATTTTAAA
8643072 AAAATAAATA
Statistics
Matches: 202, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
153 36 0.18
154 78 0.39
155 88 0.44
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (154 bp):
TTTTAAAGTTTCAAAGACTTTTGTTTAGGGAAAGCCATTTTCAAACAAAATTTTAAAGTTTCAAA
GCCTCTGTTTAGGAGGAACTTTTTTTAAACAAGATTTTTTTAAAGTTTCAAAGCCTCTATTTAGA
GGGAGCCATTTTCAAACAATATTT
Found at i:8643123 original size:154 final size:154
Alignment explanation
Indices: 8642799--8643125 Score: 363
Period size: 154 Copynumber: 2.1 Consensus size: 154
8642789 GCTTTTTTTA
*
8642799 AAACAAGATTTTTTTAAAGTTTCAAAGCCTCTATTTAGAGGGAGCCATTTTCAAACAATATTTTT
1 AAACAACATTTTTTTAAAGTTTCAAAGCCTCTATTTAGAGGGAGCCATTTTCAAACAATATTTTT
* * *** *
8642864 TTAAAGTTTCAAAGACTTTTGTTTAGGGAAAGCCATTTTCAAACAAAATTTTAAAGTTTCAAAGC
66 TTAAAGTTTCAAAGACCTCTGTTTAGGGAAAGCCATTTTCAAACAAAATTTTAAAAAATCAAAGA
* ***** * ***** *
8642929 CTTTGTTTAGGAGGAACTTTTTTT
131 CATAAAACAAGAGGAAAAGACTCT
*
8642953 AAACAAGATTTTTTTAAAGTTTCAAAGCCTCTATTTAGAGGGAGCCATTTTCAAACAATATTTTT
1 AAACAACATTTTTTTAAAGTTTCAAAGCCTCTATTTAGAGGGAGCCATTTTCAAACAATATTTTT
** * *
8643018 TTAAAGTTTCAAA-ACCTCTGTTTAGGGGGAGCCATTTTCAAACAAGATTTTAAAAAAAT-AAAT
66 TTAAAGTTTCAAAGACCTCTGTTTAGGGAAAGCCATTTTCAAACAAAATTTT-AAAAAATCAAAG
8643081 ACATAAAACAAGAGGAAAAAGACTCT
130 ACATAAAACAAGAGG-AAAAGACTCT
* *
8643107 CAA-AACCTTTTGTTTAAAG
1 AAACAACATTTT-TTTAAAG
8643126 GAAGCCATTT
Statistics
Matches: 144, Mismatches: 26, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
153 49 0.34
154 95 0.66
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (154 bp):
AAACAACATTTTTTTAAAGTTTCAAAGCCTCTATTTAGAGGGAGCCATTTTCAAACAATATTTTT
TTAAAGTTTCAAAGACCTCTGTTTAGGGAAAGCCATTTTCAAACAAAATTTTAAAAAATCAAAGA
CATAAAACAAGAGGAAAAGACTCT
Found at i:8643167 original size:181 final size:176
Alignment explanation
Indices: 8642964--8643316 Score: 483
Period size: 181 Copynumber: 2.0 Consensus size: 176
8642954 AACAAGATTT
* * *
8642964 TTTTAAAGTTTCAAAGCCTCTATTTAGAGGGAGCCATTTTCAAACAATATTTTTTTAAAGTTTCA
1 TTTTAAAATTTCAAAACCTCTATTTAGAGGGAGCCATTTTCAAACAAGA-TTTTTT-AAGTTTCA
* * * *
8643029 AAACCTCTGTTTAGGGGGAGCCATTTTCAAACAAGATTTTAAAAAAATAAATACATAA-AACAAG
64 AAACATCTGTTTAAGGGG-GCCATTTTCAAACAAGA-TTTAAAAAAATAAATA-AGAAGAACAAA
* *
8643093 AGGAAAAAGACTCTCAAAACCTTTTGTTTAAAGGAAGCCATTTTCAAATAGG
126 AAGAAAAAGACTCTCAAAACC-TCTGTTTAAAGGAAGCCATTTTCAAATAGG
*
8643145 TTTTAAAATTTCAAAACCTCTATTTAGAGGGAGCTATTTTCAAACAAGATTTTTTAAGTTTCAAA
1 TTTTAAAATTTCAAAACCTCTATTTAGAGGGAGCCATTTTCAAACAAGATTTTTTAAGTTTCAAA
* * *
8643210 ATATCTGTTTAAGGGGGCCATTTTCAAACAAGATTTAAATAAATAAATAAGAAGAAGAAAAAGAA
66 ACATCTGTTTAAGGGGGCCATTTTCAAACAAGATTTAAAAAAATAAATAAGAAGAACAAAAAGAA
* * * * *
8643275 GAATATTCTTAAAACCTCTGTTTAGAGGAAGCCATTTTCAAA
131 AAAGACTCTCAAAACCTCTGTTTAAAGGAAGCCATTTTCAAA
8643317 CAAGATTTTT
Statistics
Matches: 153, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
176 27 0.18
177 35 0.23
178 17 0.11
179 23 0.15
180 6 0.04
181 45 0.29
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (176 bp):
TTTTAAAATTTCAAAACCTCTATTTAGAGGGAGCCATTTTCAAACAAGATTTTTTAAGTTTCAAA
ACATCTGTTTAAGGGGGCCATTTTCAAACAAGATTTAAAAAAATAAATAAGAAGAACAAAAAGAA
AAAGACTCTCAAAACCTCTGTTTAAAGGAAGCCATTTTCAAATAGG
Found at i:8643426 original size:27 final size:24
Alignment explanation
Indices: 8643396--8643455 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 24
8643386 GTAAAAGAGT
*
8643396 AAAAAAACAAACAAAAACAAAATGAA
1 AAAAAAAAAAAC-AAAACAAAAT-AA
*
8643422 AAAAAAGATAAAACCAAACAAAATAA
1 AAAAAA-A-AAAACAAAACAAAATAA
8643448 AAAAAAAA
1 AAAAAAAA
8643456 TTTTCAACAG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
24 1 0.03
25 1 0.03
26 14 0.47
27 10 0.33
28 4 0.13
ACGTcount: A:0.82, C:0.10, G:0.03, T:0.05
Consensus pattern (24 bp):
AAAAAAAAAAACAAAACAAAATAA
Found at i:8648373 original size:159 final size:159
Alignment explanation
Indices: 8648084--8648401 Score: 600
Period size: 159 Copynumber: 2.0 Consensus size: 159
8648074 AATTTGCAAC
* *
8648084 CCGGGCATGGTTGGGTTATTTTTCTAGTATTTATAATAATAAATGAAAGCAATAAGCCGGGTTGG
1 CCGGGCATGGTTGGGTTATTTTTCTAGTATTTATAATAATAAATGAAAGCAATAAGCCGGGTCGA
*
8648149 TCAATGTTCATCAGACAAATATAAATGGTTCAGAGTTTATGGTTTATATTTGTAGTTGGCTCCAT
66 TCAATGTTCATCAGACAAATATAAATGGTTCAGAGTTTATGGTTTATATTTGTAGTTCGCTCCAT
8648214 TGCTATATTAGGTATTATGCTATCACATA
131 TGCTATATTAGGTATTATGCTATCACATA
8648243 CCGGGCATGGTTGGGTTATTTTTCTAGTATTTATAATAATAAATGAAAGCAATAAGCCGGGTCGA
1 CCGGGCATGGTTGGGTTATTTTTCTAGTATTTATAATAATAAATGAAAGCAATAAGCCGGGTCGA
*
8648308 TCAATGTTCATCAGACAAATATTAATGGTTCAGAGTTTATGGTTTATATTTGTAGTTCGCTCCAT
66 TCAATGTTCATCAGACAAATATAAATGGTTCAGAGTTTATGGTTTATATTTGTAGTTCGCTCCAT
8648373 TGCTATATTAGGTATTATGCTATCACATA
131 TGCTATATTAGGTATTATGCTATCACATA
8648402 TGCATTGGAG
Statistics
Matches: 155, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
159 155 1.00
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.38
Consensus pattern (159 bp):
CCGGGCATGGTTGGGTTATTTTTCTAGTATTTATAATAATAAATGAAAGCAATAAGCCGGGTCGA
TCAATGTTCATCAGACAAATATAAATGGTTCAGAGTTTATGGTTTATATTTGTAGTTCGCTCCAT
TGCTATATTAGGTATTATGCTATCACATA
Found at i:8652762 original size:273 final size:266
Alignment explanation
Indices: 8652390--8652934 Score: 711
Period size: 263 Copynumber: 2.0 Consensus size: 266
8652380 ATTAATTTGA
* *
8652390 TATATTTGCTTTATATATTTACATATAAAATACATCAATTACTCAAATGGATACTATATTTAATC
1 TATACTTGCTTTATATATTTACACATAAAATACATCAATTAC-C--ATGGATACTATATTTAATC
*
8652455 AAATATAAATGTATCAAATAAATAATTCGAAAATCAACTATTTTATAATTGTAATTGTAGTATTT
63 AAATATAAATGTATCAAATAAATAATTAGAAAATCAACTATTTTATAATTGTAA-T-TA-TA---
* * * ** *
8652520 ATTAATTTATTATTAATCATATATTGATTGATTTAATTTTTCAAATTAAGTTATTTTTAAAATTT
122 A-T-ATTTA-T-TTAATCATATATTAATTAATTTAATTTGTCAAATTAAGAAATTATTAAAATTT
* *
8652585 TAATACTTTTAATATAAATTGAATT-ATGAGTGATTTAAAATCAATAACAAAAACATAAATATAA
183 TAATACTTTTAATATAAATTAAATTGA-GAATGATTTAAAATCAATAACAAAAACATAAATATAA
8652649 TCAATTT-AGTTTTTTGAAT
247 TCAATTTAAGTTTTTTGAAT
* *
8652668 TATACTTGCTTTATGTATTTACACATGAAATACATCAATTA-C-TGGATACTATATTTAATCAAA
1 TATACTTGCTTTATATATTTACACATAAAATACATCAATTACCATGGATACTATATTTAATCAAA
* *
8652731 TATAAATGTATCAAATAATTGATTAGAAAATCAACTATTTTATAATTGTAATTATAATATTTATT
66 TATAAATGTATCAAATAAATAATTAGAAAATCAACTATTTTATAATTGTAATTATAATATTTATT
*
8652796 TAATTATATATTAATTAATTTAATTTGTCAAATTAAGAAATTATTAAAATTTTAATACTTTTAAT
131 TAATCATATATTAATTAATTTAATTTGTCAAATTAAGAAATTATTAAAATTTTAATACTTTTAAT
* * * * * * * * *
8652861 ATGAATTAAATTGAGAATGATTTTAAGTTAATAATAAAAACGTAAATTTAATTAATTTAATTTTT
196 ATAAATTAAATTGAGAATGATTTAAAATCAATAACAAAAACATAAATATAATCAATTTAAGTTTT
8652926 TTGAAT
261 TTGAAT
8652932 TAT
1 TAT
8652935 TTTTAAATTA
Statistics
Matches: 240, Mismatches: 25, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
263 105 0.44
264 16 0.07
265 5 0.02
266 1 0.00
267 1 0.00
270 2 0.01
271 2 0.01
272 1 0.00
273 69 0.29
276 1 0.00
278 37 0.15
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.44
Consensus pattern (266 bp):
TATACTTGCTTTATATATTTACACATAAAATACATCAATTACCATGGATACTATATTTAATCAAA
TATAAATGTATCAAATAAATAATTAGAAAATCAACTATTTTATAATTGTAATTATAATATTTATT
TAATCATATATTAATTAATTTAATTTGTCAAATTAAGAAATTATTAAAATTTTAATACTTTTAAT
ATAAATTAAATTGAGAATGATTTAAAATCAATAACAAAAACATAAATATAATCAATTTAAGTTTT
TTGAAT
Found at i:8658211 original size:31 final size:30
Alignment explanation
Indices: 8658175--8658244 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 30
8658165 TAACAGTCCT
* *
8658175 TAAATTTTGAGATAAATATCATTTTGA-TCC
1 TAAATTTTGA-AAAAATATCATATTGATTCC
8658205 TAAAATTTT-AAAAAATATCATATTGATTCC
1 T-AAATTTTGAAAAAATATCATATTGATTCC
*
8658235 TGAATTTTGA
1 TAAATTTTGA
8658245 TGGTTATAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
29 20 0.59
30 7 0.21
31 7 0.21
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.43
Consensus pattern (30 bp):
TAAATTTTGAAAAAATATCATATTGATTCC
Found at i:8659778 original size:12 final size:12
Alignment explanation
Indices: 8659761--8659819 Score: 66
Period size: 12 Copynumber: 4.8 Consensus size: 12
8659751 TAAAACATGT
*
8659761 ATAAATGATAAA
1 ATAAATAATAAA
8659773 ATAAATAATAAA
1 ATAAATAATAAA
8659785 AT-AATAATAATA
1 ATAAATAATAA-A
*
8659797 ATAATTAATAAA
1 ATAAATAATAAA
*
8659809 CATAAAAAATA
1 -ATAAATAATA
8659820 TAAAAATTAC
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
11 8 0.20
12 17 0.43
13 15 0.38
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (12 bp):
ATAAATAATAAA
Found at i:8659791 original size:20 final size:20
Alignment explanation
Indices: 8659763--8659801 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
8659753 AAACATGTAT
*
8659763 AAATGATAA-AATAAATAATA
1 AAATAATAATAAT-AATAATA
8659783 AAATAATAATAATAATAAT
1 AAATAATAATAATAATAAT
8659802 TAATAAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (20 bp):
AAATAATAATAATAATAATA
Found at i:8661741 original size:20 final size:18
Alignment explanation
Indices: 8661668--8661741 Score: 76
Period size: 20 Copynumber: 3.8 Consensus size: 18
8661658 CTATTAGCTG
* *
8661668 TCTTTTTTTTTCTTTCTGT
1 TCTTTTTTTTT-TTTTTGC
8661687 TCTTTTATTTTTTTATTTGC
1 TCTTTT-TTTTTTT-TTTGC
8661707 TCTTTTTCTTTTTTTTGTGC
1 TCTTTTT-TTTTTTTT-TGC
*
8661727 TCTTTTTTTATTTTT
1 TCTTTTTTTTTTTTT
8661742 AGTTTATAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
19 18 0.38
20 30 0.62
ACGTcount: A:0.04, C:0.12, G:0.05, T:0.78
Consensus pattern (18 bp):
TCTTTTTTTTTTTTTTGC
Found at i:8662146 original size:10 final size:11
Alignment explanation
Indices: 8662133--8662210 Score: 52
Period size: 10 Copynumber: 6.5 Consensus size: 11
8662123 TCTTTTTGTC
8662133 TTTTTTA-TTT
1 TTTTTTAGTTT
8662143 TTTTTTAGTTT
1 TTTTTTAGTTT
8662154 TTATGTCTTAGATTTT
1 TT-T-T-TTAG--TTT
*
8662170 TTGCTTTTGGTCTT
1 TT--TTTTAGT-TT
8662184 TTTTTTAGTTT
1 TTTTTTAGTTT
*
8662195 TTTTTT-CTTT
1 TTTTTTAGTTT
8662205 TTTTTT
1 TTTTTT
8662211 GTCTTGATAA
Statistics
Matches: 56, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
10 16 0.29
11 13 0.23
12 7 0.12
13 2 0.04
14 8 0.14
15 3 0.05
16 6 0.11
17 1 0.02
ACGTcount: A:0.08, C:0.05, G:0.09, T:0.78
Consensus pattern (11 bp):
TTTTTTAGTTT
Found at i:8662565 original size:104 final size:104
Alignment explanation
Indices: 8662384--8662595 Score: 275
Period size: 104 Copynumber: 2.0 Consensus size: 104
8662374 GCTCGAAAGA
* * * * *
8662384 CTTAGAGATTATGCTCAGAGGTCTTACAAATCTCGAAATCTTTGAATGCTCTTCATAATAGAGGC
1 CTTAGAGATTATGCTAAAAGGTCTTACAAATCTCGAAATCTTTAAATGCTCCTCATAATAGAGAC
* * * *
8662449 ATTGAAATTTTAAAAATTTACAATGTTTTTCTTGGAGGT
66 ATTGAAACTTTAAAAATTTAAAATGTTTTGCCTGGAGGT
* * *
8662488 CTTAGAGATTATGCTAAAAGGTTTTACAAATCT-TAACATCTTTAAATGTTCCTCAT-ATCAGAG
1 CTTAGAGATTATGCTAAAAGGTCTTACAAATCTCGAA-ATCTTTAAATGCTCCTCATAAT-AGAG
*
8662551 ACATTGAAACTTTAAAATTTTAAAATGTTTTGCCTGGAGGT
64 ACATTGAAACTTTAAAAATTTAAAATGTTTTGCCTGGAGGT
8662592 CTTA
1 CTTA
8662596 CAAATCTCAA
Statistics
Matches: 93, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
103 4 0.04
104 89 0.96
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.38
Consensus pattern (104 bp):
CTTAGAGATTATGCTAAAAGGTCTTACAAATCTCGAAATCTTTAAATGCTCCTCATAATAGAGAC
ATTGAAACTTTAAAAATTTAAAATGTTTTGCCTGGAGGT
Found at i:8662648 original size:82 final size:82
Alignment explanation
Indices: 8662506--8662663 Score: 253
Period size: 82 Copynumber: 1.9 Consensus size: 82
8662496 TTATGCTAAA
* * *
8662506 AGGTTTTACAAATCTTAACATCTTTAAATGTTCCTCATATCAGAGACATTGAAACTTTAAAATTT
1 AGGTCTTACAAATCTCAACATCTTTAAATGCTCCTCATATCAGAGACATTGAAACTTTAAAATTT
8662571 TAAAATGTTTTGCCTGG
66 TAAAATGTTTTGCCTGG
* * * *
8662588 AGGTCTTACAAATCTCAACATCTTTGAATGCTCCTCGTATTAGAGGCATTGAAACTTTAAAATTT
1 AGGTCTTACAAATCTCAACATCTTTAAATGCTCCTCATATCAGAGACATTGAAACTTTAAAATTT
8662653 TAAAATGTTTT
66 TAAAATGTTTT
8662664 ACCTAAAAGT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 69 1.00
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.39
Consensus pattern (82 bp):
AGGTCTTACAAATCTCAACATCTTTAAATGCTCCTCATATCAGAGACATTGAAACTTTAAAATTT
TAAAATGTTTTGCCTGG
Found at i:8662676 original size:82 final size:82
Alignment explanation
Indices: 8662501--8662676 Score: 244
Period size: 82 Copynumber: 2.1 Consensus size: 82
8662491 AGAGATTATG
* * *
8662501 CTAAAAGGTTTTACAAATCTTAACATCTTTAAATGTTCCTCATATCAGAGACATTGAAACTTTAA
1 CTAAAA-GTCTTACAAATCTCAACATCTTTAAATGCTCCTCATATCAGAGACATTGAAACTTTAA
*
8662566 AATTTTAAAATGTTTTGC
65 AATTTTAAAATGTTTTAC
** * * * * *
8662584 CTGGAGGTCTTACAAATCTCAACATCTTTGAATGCTCCTCGTATTAGAGGCATTGAAACTTTAAA
1 CTAAAAGTCTTACAAATCTCAACATCTTTAAATGCTCCTCATATCAGAGACATTGAAACTTTAAA
8662649 ATTTTAAAATGTTTTAC
66 ATTTTAAAATGTTTTAC
8662666 CTAAAAGTCTT
1 CTAAAAGTCTT
8662677 GAAAATTATG
Statistics
Matches: 79, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
82 76 0.96
83 3 0.04
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.38
Consensus pattern (82 bp):
CTAAAAGTCTTACAAATCTCAACATCTTTAAATGCTCCTCATATCAGAGACATTGAAACTTTAAA
ATTTTAAAATGTTTTAC
Found at i:8662738 original size:32 final size:32
Alignment explanation
Indices: 8662702--8662810 Score: 123
Period size: 32 Copynumber: 3.4 Consensus size: 32
8662692 AAGAATTAGA
*
8662702 GATCTAGGTGCCAGCTTAACTAGTCTTAGTTC
1 GATCTAGGTGCCAGCTTGACTAGTCTTAGTTC
* *
8662734 GATCTAGGTGCTAGCTTGACTAGGCTTAGTTC
1 GATCTAGGTGCCAGCTTGACTAGTCTTAGTTC
* * * *
8662766 GATCTATGG-GCCAACATGACTA-TGCTTATTTT
1 GATCTA-GGTGCCAGCTTGACTAGT-CTTAGTTC
8662798 GATCTAGGTGCCA
1 GATCTAGGTGCCA
8662811 ACTAAATTAT
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
31 2 0.03
32 61 0.94
33 2 0.03
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (32 bp):
GATCTAGGTGCCAGCTTGACTAGTCTTAGTTC
Found at i:8662966 original size:22 final size:22
Alignment explanation
Indices: 8662941--8662998 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
8662931 GCTGCTCTGA
8662941 GCTTAGGTGCCAGCTAATATGG
1 GCTTAGGTGCCAGCTAATATGG
* * *
8662963 GCTTAGTTGCCAACTAATTTGG
1 GCTTAGGTGCCAGCTAATATGG
* *
8662985 ACTTAAAGTGCCAG
1 GCTT-AGGTGCCAG
8662999 GTATATTAGG
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
22 22 0.79
23 6 0.21
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (22 bp):
GCTTAGGTGCCAGCTAATATGG
Found at i:8663239 original size:11 final size:11
Alignment explanation
Indices: 8663223--8663254 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
8663213 TACATGTCTT
8663223 TTTTTTTTTGC
1 TTTTTTTTTGC
8663234 TTTTTTTTTGC
1 TTTTTTTTTGC
8663245 TCTTTTTTTT
1 T-TTTTTTTT
8663255 TCACTTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.60
12 8 0.40
ACGTcount: A:0.00, C:0.09, G:0.06, T:0.84
Consensus pattern (11 bp):
TTTTTTTTTGC
Found at i:8671417 original size:3 final size:3
Alignment explanation
Indices: 8671409--8671441 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
8671399 ATCGAGCCTT
8671409 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8671442 CAATTAATCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:8671723 original size:18 final size:18
Alignment explanation
Indices: 8671669--8671743 Score: 62
Period size: 20 Copynumber: 3.9 Consensus size: 18
8671659 TTCCAAAATT
*
8671669 TTTTTCTTTTTTTTTTCAA
1 TTTTT-TTTTGTTTTTCAA
*
8671688 TTTGCCTTTTTGTTTTTCAAA
1 TTT--TTTTTTGTTTTTC-AA
*
8671709 TTTTTTTTTG-TTTTCTA
1 TTTTTTTTTGTTTTTCAA
8671726 TTTTTTTCTTGGTTTTTC
1 TTTTTTT-TT-GTTTTTC
8671744 TTTTGTCTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
17 8 0.17
18 7 0.15
19 10 0.22
20 15 0.33
21 6 0.13
ACGTcount: A:0.08, C:0.11, G:0.07, T:0.75
Consensus pattern (18 bp):
TTTTTTTTTGTTTTTCAA
Found at i:8671747 original size:18 final size:17
Alignment explanation
Indices: 8671694--8671732 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
8671684 TCAATTTGCC
*
8671694 TTTTTGTTTTTCAAATTTT
1 TTTTTG-TTTTC-TATTTT
8671713 TTTTTGTTTTCTATTTT
1 TTTTTGTTTTCTATTTT
8671730 TTT
1 TTT
8671733 CTTGGTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 5 0.26
19 6 0.32
ACGTcount: A:0.10, C:0.05, G:0.05, T:0.79
Consensus pattern (17 bp):
TTTTTGTTTTCTATTTT
Found at i:8672091 original size:8 final size:8
Alignment explanation
Indices: 8672078--8672103 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
8672068 GCATTGAAAC
8672078 TTTAAAAT
1 TTTAAAAT
8672086 TTTAAAAT
1 TTTAAAAT
8672094 TTTAAAAT
1 TTTAAAAT
8672102 TT
1 TT
8672104 GCATAGAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (8 bp):
TTTAAAAT
Found at i:8672292 original size:104 final size:105
Alignment explanation
Indices: 8672109--8672313 Score: 277
Period size: 104 Copynumber: 2.0 Consensus size: 105
8672099 AATTTGCATA
* * * *
8672109 GAGGTCTTAGAGATTATGCCCAAAAGGTCTTACAATTCTTAACATCTTTGAATTCTCCTCATATC
1 GAGGTATTAGAGATTATGCCCAAAAGGTCTTACAAATCTTAACATCTTTGAATGCTACTCATATC
*
8672174 AAAGACATTAAAACTTTAAAATTTTAAAATATTTTAATCT
66 AAAGACATTAAAACTTTAAAATTTAAAAATATTTTAATCT
* * ** *
8672214 GAGGTATTAGAGATTATGCCC-GAAGGTCTTACAAATCTTGACATCTTTGAATGCTACTTGTATT
1 GAGGTATTAGAGATTATGCCCAAAAGGTCTTACAAATCTTAACATCTTTGAATGCTACTCATATC
* * * *
8672278 AAAGGCATTGAAACTTTCAAATTTAAAAATGTTTTA
66 AAAGACATTAAAACTTTAAAATTTAAAAATATTTTA
8672314 CTTAAAGGTC
Statistics
Matches: 86, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
104 66 0.77
105 20 0.23
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.37
Consensus pattern (105 bp):
GAGGTATTAGAGATTATGCCCAAAAGGTCTTACAAATCTTAACATCTTTGAATGCTACTCATATC
AAAGACATTAAAACTTTAAAATTTAAAAATATTTTAATCT
Found at i:8672345 original size:104 final size:104
Alignment explanation
Indices: 8672110--8672348 Score: 241
Period size: 104 Copynumber: 2.3 Consensus size: 104
8672100 ATTTGCATAG
* * * * * *
8672110 AGGTCTTAGAGATTATGCCCAAAAGGTCTTACAATTCTTAACATCTTTGAATTCTCCTCATATCA
1 AGGTATTAGAAATTATG-CCAGAAGGTCTTACAAATCTTAACATCTTTGAATGCTACTCATATCA
* *
8672175 AAGACATTAAAACTTTAAAATTTTAAAATATTTTAATCTG
65 AAGACATTAAAACTTTAAAATTTAAAAATATTTTAATCTA
* * * ** *
8672215 AGGTATTAGAGATTATGCCCGAAGGTCTTACAAATCTTGACATCTTTGAATGCTACTTGTATTAA
1 AGGTATTAGAAATTATGCCAGAAGGTCTTACAAATCTTAACATCTTTGAATGCTACTCATATCAA
* * * * *
8672280 AGGCATTGAAACTTTCAAATTTAAAAATGTTTTACT-TAA
66 AGACATTAAAACTTTAAAATTTAAAAATATTTTAATCT-A
*
8672319 AGGTCTT-GAAAATTATGCCTAG-AGGTCTTA
1 AGGTATTAG-AAATTATGCC-AGAAGGTCTTA
8672349 GAGATCTGAA
Statistics
Matches: 111, Mismatches: 20, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
103 2 0.02
104 92 0.83
105 17 0.15
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (104 bp):
AGGTATTAGAAATTATGCCAGAAGGTCTTACAAATCTTAACATCTTTGAATGCTACTCATATCAA
AGACATTAAAACTTTAAAATTTAAAAATATTTTAATCTA
Found at i:8672387 original size:32 final size:32
Alignment explanation
Indices: 8672351--8672476 Score: 155
Period size: 32 Copynumber: 3.9 Consensus size: 32
8672341 AGGTCTTAGA
* *
8672351 GATCTGAATGCCAACTTA-ATTGGGCTTAGTTT
1 GATCTGAGTGCCAAC-TAGACTGGGCTTAGTTT
* * * *
8672383 GATCTGGGTGCTAACTAAACTGAGCTTAGTTT
1 GATCTGAGTGCCAACTAGACTGGGCTTAGTTT
*
8672415 GATCTGAGTGCCAACTAGACTGGGCTTGGTTT
1 GATCTGAGTGCCAACTAGACTGGGCTTAGTTT
* *
8672447 GATCTGAGTGCCAACTAGATTGGACTTAGT
1 GATCTGAGTGCCAACTAGACTGGGCTTAGT
8672477 GTGCTAGCTA
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
31 2 0.03
32 78 0.98
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (32 bp):
GATCTGAGTGCCAACTAGACTGGGCTTAGTTT
Found at i:8672497 original size:23 final size:23
Alignment explanation
Indices: 8672477--8672522 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
8672467 TGGACTTAGT
*
8672477 GTGCTAGCTAAACTAGGCTTAAA
1 GTGCTAACTAAACTAGGCTTAAA
8672500 GTGCTAACTAAACTAGGCTTAAA
1 GTGCTAACTAAACTAGGCTTAAA
8672523 ATCTCAACCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (23 bp):
GTGCTAACTAAACTAGGCTTAAA
Found at i:8672551 original size:32 final size:32
Alignment explanation
Indices: 8672505--8672586 Score: 128
Period size: 32 Copynumber: 2.6 Consensus size: 32
8672495 TTAAAGTGCT
*
8672505 AACTAAACTAGGCTTAAAATCTCAACCATGCC
1 AACTAAACTGGGCTTAAAATCTCAACCATGCC
* * *
8672537 AATTAAACTGGGCTTAAAATCTTAATCATGCC
1 AACTAAACTGGGCTTAAAATCTCAACCATGCC
8672569 AACTAAACTGGGCTTAAA
1 AACTAAACTGGGCTTAAA
8672587 TATCATATAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.40, C:0.22, G:0.12, T:0.26
Consensus pattern (32 bp):
AACTAAACTGGGCTTAAAATCTCAACCATGCC
Found at i:8672630 original size:22 final size:21
Alignment explanation
Indices: 8672605--8672656 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 21
8672595 AAGTGCCTGT
8672605 TAATCTAGCACTAGGTGCCAAC
1 TAATCTAGC-CTAGGTGCCAAC
*
8672627 TAATCTGAGCTTAGGTGCCAAC
1 TAATCT-AGCCTAGGTGCCAAC
8672649 TAATCTAG
1 TAATCTAG
8672657 GCTTAAAGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 2 0.07
22 23 0.82
23 3 0.11
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (21 bp):
TAATCTAGCCTAGGTGCCAAC
Found at i:8672702 original size:23 final size:23
Alignment explanation
Indices: 8672619--8672702 Score: 89
Period size: 23 Copynumber: 3.7 Consensus size: 23
8672609 CTAGCACTAG
* *
8672619 GTGCCAACTAATCTGAGCTT-AG
1 GTGCCAACTAATCTGGGCTTAAA
*
8672641 GTGCCAACTAATCTAGGCTTAAA
1 GTGCCAACTAATCTGGGCTTAAA
* **
8672664 GTGCTAGGTAATCTGGGCTTAAA
1 GTGCCAACTAATCTGGGCTTAAA
* *
8672687 GTGCCAGCTAAACTGG
1 GTGCCAACTAATCTGG
8672703 ACATAAAATC
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
22 18 0.35
23 33 0.65
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (23 bp):
GTGCCAACTAATCTGGGCTTAAA
Found at i:8672709 original size:23 final size:23
Alignment explanation
Indices: 8672660--8672709 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
8672650 AATCTAGGCT
* * * * *
8672660 TAAAGTGCTAGGTAATCTGGGCT
1 TAAAGTGCCAGCTAAACTGGACA
8672683 TAAAGTGCCAGCTAAACTGGACA
1 TAAAGTGCCAGCTAAACTGGACA
8672706 TAAA
1 TAAA
8672710 ATCTCACCTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (23 bp):
TAAAGTGCCAGCTAAACTGGACA
Found at i:8672778 original size:23 final size:23
Alignment explanation
Indices: 8672752--8672820 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
8672742 TATCATCTGC
*
8672752 GTGCCAACTAAACTGGGCTTAGA
1 GTGCCAACTAAACTGGGCTTAAA
* * *
8672775 GTGCCAACTAAATTGAGCCTAAA
1 GTGCCAACTAAACTGGGCTTAAA
* *
8672798 GTGCCAACTAATCGGGGCTTAAA
1 GTGCCAACTAAACTGGGCTTAAA
8672821 TCTTTTCTTG
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (23 bp):
GTGCCAACTAAACTGGGCTTAAA
Found at i:8672864 original size:12 final size:12
Alignment explanation
Indices: 8672847--8672879 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
8672837 ATCTCATCTT
8672847 TTTTTCAACTCA
1 TTTTTCAACTCA
8672859 TTTTTCAACTCA
1 TTTTTCAACTCA
8672871 TTTTTCAAC
1 TTTTTCAAC
8672880 AACCCTCTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTTTCAACTCA
Found at i:8673051 original size:25 final size:22
Alignment explanation
Indices: 8673023--8673081 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 22
8673013 CTCTTTTTAC
8673023 TTCTTTTTTTTTGTTGCTATTTTTT
1 TTCTTTTTTTTTG--G-TATTTTTT
* *
8673048 TTCTTTTTCTTTGGTGTTTTTT
1 TTCTTTTTTTTTGGTATTTTTT
*
8673070 CTCTTTTTTTTT
1 TTCTTTTTTTTT
8673082 TTTCATTTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 17 0.57
23 1 0.03
25 12 0.40
ACGTcount: A:0.02, C:0.10, G:0.08, T:0.80
Consensus pattern (22 bp):
TTCTTTTTTTTTGGTATTTTTT
Found at i:8680911 original size:24 final size:21
Alignment explanation
Indices: 8680884--8680927 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
8680874 CAGACTAGGG
8680884 ATTGATCACCTAAATAAGGGATCA
1 ATTGAT-A-CTAAA-AAGGGATCA
*
8680908 ATTGGTACTAAAAAGGGATC
1 ATTGATACTAAAAAGGGATC
8680928 GATCCCCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 8 0.42
22 5 0.26
23 1 0.05
24 5 0.26
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (21 bp):
ATTGATACTAAAAAGGGATCA
Found at i:8682812 original size:15 final size:17
Alignment explanation
Indices: 8682794--8682825 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
8682784 TTTTCCTTTC
8682794 TTTGCT-TTT-TTTTTT
1 TTTGCTATTTCTTTTTT
8682809 TTTGCTATTTCTTTTTT
1 TTTGCTATTTCTTTTTT
8682826 GTTTTTGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 3 0.20
17 6 0.40
ACGTcount: A:0.03, C:0.09, G:0.06, T:0.81
Consensus pattern (17 bp):
TTTGCTATTTCTTTTTT
Found at i:8682978 original size:15 final size:15
Alignment explanation
Indices: 8682958--8682990 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
8682948 CATGTCTTTC
8682958 TTTCTTTCCTTTTTT
1 TTTCTTTCCTTTTTT
*
8682973 TTTCTTTTCTTTTTT
1 TTTCTTTCCTTTTTT
8682988 TTT
1 TTT
8682991 TAAACATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (15 bp):
TTTCTTTCCTTTTTT
Found at i:8686645 original size:16 final size:17
Alignment explanation
Indices: 8686621--8686657 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
8686611 TCAAAAATGT
*
8686621 TATATTAAAATTTAT-A
1 TATAATAAAATTTATAA
8686637 TATAATAAAATTTATAA
1 TATAATAAAATTTATAA
8686654 TATA
1 TATA
8686658 TAATTAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TATAATAAAATTTATAA
Found at i:8686658 original size:19 final size:19
Alignment explanation
Indices: 8686634--8686683 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
8686624 ATTAAAATTT
8686634 ATATATAATAAAATTTATA
1 ATATATAATAAAATTTATA
* *
8686653 ATATATAATTAATATTTGTA
1 ATATATAA-TAAAATTTATA
*
8686673 AAAT-TAATAAA
1 ATATATAATAAA
8686684 TTATTTTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 3 0.12
19 11 0.42
20 12 0.46
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
ATATATAATAAAATTTATA
Found at i:8686908 original size:10 final size:10
Alignment explanation
Indices: 8686887--8686919 Score: 50
Period size: 9 Copynumber: 3.3 Consensus size: 10
8686877 TATTTGTAAA
8686887 ATTAATAAATT
1 ATTAA-AAATT
8686898 ATTAAAAATT
1 ATTAAAAATT
8686908 ATT-AAAATT
1 ATTAAAAATT
8686917 ATT
1 ATT
8686920 TTATATCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.41
10 8 0.36
11 5 0.23
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (10 bp):
ATTAAAAATT
Found at i:8687027 original size:25 final size:24
Alignment explanation
Indices: 8686999--8687045 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
8686989 GTTTTCATGT
8686999 ATTAAATTATTTAATAATTTATTAG
1 ATTAAATTATTT-ATAATTTATTAG
* *
8687024 ATTATATTATTTATTATTTATT
1 ATTAAATTATTTATAATTTATT
8687046 TATGTATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (24 bp):
ATTAAATTATTTATAATTTATTAG
Found at i:8687046 original size:11 final size:11
Alignment explanation
Indices: 8687005--8687084 Score: 54
Period size: 12 Copynumber: 6.9 Consensus size: 11
8686995 ATGTATTAAA
*
8687005 TTATTTAATAAT
1 TTATTT-ATTAT
*
8687017 TTATTAGATTAT
1 TTATT-TATTAT
8687029 ATTATTTATTAT
1 -TTATTTATTAT
8687041 TTATTTATGTAT
1 TTATTTAT-TAT
* *
8687053 TTAGTTAATAT
1 TTATTTATTAT
*
8687064 TTAGTTT-TTAA
1 TTA-TTTATTAT
*
8687075 CTATTTATTA
1 TTATTTATTA
8687085 GATAATTATA
Statistics
Matches: 54, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
10 3 0.06
11 21 0.39
12 25 0.46
13 5 0.09
ACGTcount: A:0.33, C:0.01, G:0.05, T:0.61
Consensus pattern (11 bp):
TTATTTATTAT
Found at i:8690530 original size:9 final size:9
Alignment explanation
Indices: 8690504--8690543 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
8690494 TTTTCTTCTA
8690504 TTCTTTTTT
1 TTCTTTTTT
8690513 ACTTCTTTTTT
1 --TTCTTTTTT
*
8690524 TTGTTTTTT
1 TTCTTTTTT
8690533 TTCTTTTTT
1 TTCTTTTTT
8690542 TT
1 TT
8690544 AAACCAAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
9 18 0.67
11 9 0.33
ACGTcount: A:0.03, C:0.10, G:0.03, T:0.85
Consensus pattern (9 bp):
TTCTTTTTT
Found at i:8691032 original size:13 final size:13
Alignment explanation
Indices: 8691009--8691204 Score: 121
Period size: 13 Copynumber: 14.2 Consensus size: 13
8690999 CAATTAAGGT
8691009 TTTAGGATTTAGGG
1 TTTAGG-TTTAGGG
* *
8691023 TTTAGATTTAGAG
1 TTTAGGTTTAGGG
*
8691036 -CTAGGGTTTA-GG
1 TTTA-GGTTTAGGG
8691048 TTTAGGGTTTAGGG
1 TTTA-GGTTTAGGG
8691062 CTTTAGGGTTTAGGG
1 -TTTA-GGTTTAGGG
8691077 TTTTAGGGTTTAGGGG
1 -TTTA-GGTTTA-GGG
*
8691093 TTTAGGTTTATGGA
1 TTTAGGTTTA-GGG
*
8691107 TTTGGGTTT-GAGG
1 TTTAGGTTTAG-GG
*
8691120 TTAAGGTTTAGGG
1 TTTAGGTTTAGGG
*
8691133 TTTGGGTTTAGGG
1 TTTAGGTTTAGGG
8691146 TCTTATGGTTTAGGG
1 T-TTA-GGTTTAGGG
* *
8691161 TTTGGGATTTTGGG
1 TTTAGG-TTTAGGG
*
8691175 TTT-GGATTTGGGG
1 TTTAGG-TTTAGGG
* *
8691188 TTTCAAGTTTGGGG
1 TTT-AGGTTTAGGG
8691202 TTT
1 TTT
8691205 CAAATTTTTT
Statistics
Matches: 150, Mismatches: 20, Indels: 24
0.77 0.10 0.12
Matches are distributed among these distances:
12 4 0.03
13 56 0.37
14 47 0.31
15 40 0.27
16 3 0.02
ACGTcount: A:0.15, C:0.02, G:0.38, T:0.45
Consensus pattern (13 bp):
TTTAGGTTTAGGG
Found at i:8691115 original size:20 final size:20
Alignment explanation
Indices: 8691040--8691159 Score: 93
Period size: 20 Copynumber: 5.8 Consensus size: 20
8691030 TTAGAGCTAG
*
8691040 GGTTTA-GGTTTAGGGTTTAG
1 GGTTTAGGGTTTA-GGTTTAA
*
8691060 GGCTTTAGGGTTTAGGGTTTTAG
1 GG-TTTAGGGTTTA-GG-TTTAA
*
8691083 GGTTTAGGGGTTTAGGTTTAT
1 GGTTTA-GGGTTTAGGTTTAA
8691104 GGATTT-GGGTTTGAGG-TTAA
1 GG-TTTAGGGTTT-AGGTTTAA
* *
8691124 GGTTTAGGGTTTGGGTTTAG
1 GGTTTAGGGTTTAGGTTTAA
*
8691144 GGTCTTATGGTTTAGG
1 GGT-TTAGGGTTTAGG
8691160 GTTTGGGATT
Statistics
Matches: 85, Mismatches: 6, Indels: 17
0.79 0.06 0.16
Matches are distributed among these distances:
19 5 0.06
20 25 0.29
21 23 0.27
22 18 0.21
23 14 0.16
ACGTcount: A:0.14, C:0.02, G:0.40, T:0.44
Consensus pattern (20 bp):
GGTTTAGGGTTTAGGTTTAA
Found at i:8691204 original size:7 final size:7
Alignment explanation
Indices: 8691009--8691190 Score: 141
Period size: 7 Copynumber: 26.4 Consensus size: 7
8690999 CAATTAAGGT
*
8691009 TTTAGGA
1 TTTAGGG
8691016 TTTAGGG
1 TTTAGGG
*
8691023 TTTA-GA
1 TTTAGGG
*
8691029 TTTAGAG
1 TTTAGGG
*
8691036 -CTAGGG
1 TTTAGGG
8691042 TTTA-GG
1 TTTAGGG
8691048 TTTAGGG
1 TTTAGGG
8691055 TTTAGGG
1 TTTAGGG
8691062 CTTTAGGG
1 -TTTAGGG
8691070 TTTAGGG
1 TTTAGGG
8691077 TTTTAGGG
1 -TTTAGGG
8691085 TTTAGGGG
1 TTTA-GGG
8691093 TTTA-GG
1 TTTAGGG
*
8691099 TTTATGGA
1 TTTA-GGG
8691107 TTT-GGG
1 TTTAGGG
8691113 TTT-GAGG
1 TTTAG-GG
*
8691120 -TTAAGG
1 TTTAGGG
8691126 TTTAGGG
1 TTTAGGG
8691133 TTT-GGG
1 TTTAGGG
8691139 TTTAGGG
1 TTTAGGG
*
8691146 TCTTATGG
1 T-TTAGGG
8691154 TTTAGGG
1 TTTAGGG
8691161 TTT-GGG
1 TTTAGGG
*
8691167 ATTTTGGG
1 -TTTAGGG
*
8691175 TTT-GGA
1 TTTAGGG
*
8691181 TTTGGGG
1 TTTAGGG
8691188 TTT
1 TTT
8691191 CAAGTTTGGG
Statistics
Matches: 144, Mismatches: 15, Indels: 32
0.75 0.08 0.17
Matches are distributed among these distances:
6 45 0.31
7 65 0.45
8 34 0.24
ACGTcount: A:0.15, C:0.02, G:0.38, T:0.45
Consensus pattern (7 bp):
TTTAGGG
Found at i:8691205 original size:14 final size:14
Alignment explanation
Indices: 8691181--8691207 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8691171 TGGGTTTGGA
8691181 TTTGGGGTTTCAAG
1 TTTGGGGTTTCAAG
8691195 TTTGGGGTTTCAA
1 TTTGGGGTTTCAA
8691208 ATTTTTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.07, G:0.33, T:0.44
Consensus pattern (14 bp):
TTTGGGGTTTCAAG
Found at i:8693475 original size:40 final size:40
Alignment explanation
Indices: 8693425--8693595 Score: 184
Period size: 40 Copynumber: 4.3 Consensus size: 40
8693415 GAAAGAAATG
* * *
8693425 CCTTAATTGATATCAATTAAGGCATTTGTTCCTACGAGCA
1 CCTTATTTGATATCAATTAAGGCATTTCTTCCTACAAGCA
* * *
8693465 CTTTATTTGATATTAATTAAGGCGTTTGCTT--TACAAGCA
1 CCTTATTTGATATCAATTAAGGCATTT-CTTCCTACAAGCA
* * ** **
8693504 CCTTATTTGATATAAACTAAGGTGTTTCTTCCTACAAGTG
1 CCTTATTTGATATCAATTAAGGCATTTCTTCCTACAAGCA
* *
8693544 CCTTATTTGATATCAATTAAGGCATTTCTTCCCACAAACA
1 CCTTATTTGATATCAATTAAGGCATTTCTTCCTACAAGCA
*
8693584 CTTTATTTGATA
1 CCTTATTTGATA
8693596 AACATCTTTC
Statistics
Matches: 107, Mismatches: 21, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
38 3 0.03
39 30 0.28
40 72 0.67
41 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (40 bp):
CCTTATTTGATATCAATTAAGGCATTTCTTCCTACAAGCA
Found at i:8694565 original size:9 final size:9
Alignment explanation
Indices: 8694551--8694599 Score: 52
Period size: 9 Copynumber: 5.8 Consensus size: 9
8694541 TTGAAAGAGG
8694551 TTTTTTAAA
1 TTTTTTAAA
*
8694560 TTTTTTTAA
1 TTTTTTAAA
8694569 TTTTTCTAAA
1 TTTTT-TAAA
8694579 --TTTTAAA
1 TTTTTTAAA
8694586 --TTTTAAA
1 TTTTTTAAA
8694593 TTTTTTA
1 TTTTTTA
8694600 TTATTATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
7 11 0.31
8 3 0.09
9 18 0.51
10 3 0.09
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:8694762 original size:22 final size:22
Alignment explanation
Indices: 8694737--8694778 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
8694727 AAACCTTACT
8694737 CAAAGGACTTTGAGATTGTGTC
1 CAAAGGACTTTGAGATTGTGTC
8694759 CAAAGGACTTTGAGATTGTG
1 CAAAGGACTTTGAGATTGTG
8694779 CCCAGAGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.31
Consensus pattern (22 bp):
CAAAGGACTTTGAGATTGTGTC
Found at i:8694792 original size:22 final size:22
Alignment explanation
Indices: 8694737--8694794 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
8694727 AAACCTTACT
* *
8694737 CAAAGGACTTTGAGATTGTGTC
1 CAAAGAACTTTGAGATTGTGCC
*
8694759 CAAAGGACTTTGAGATTGTGCC
1 CAAAGAACTTTGAGATTGTGCC
* *
8694781 CAGAGAATTTTGAG
1 CAAAGAACTTTGAG
8694795 GTTATACCAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (22 bp):
CAAAGAACTTTGAGATTGTGCC
Found at i:8695017 original size:40 final size:40
Alignment explanation
Indices: 8694862--8695267 Score: 276
Period size: 40 Copynumber: 10.0 Consensus size: 40
8694852 ACTTAACAAG
** * * *
8694862 TTTTAGAAAATTTAAGGTTTTTCCCAAAAGTCTTTGGAAATC
1 TTTTA-AAAATTTAAAATTTTGCCTAAAGGTC-TTGGAAATC
* * * *
8694904 TTTCAAAAACTTAAAATTTTGCTTCAAA-GTCTTGAAAATC
1 TTTTAAAAATTTAAAATTTTGCCT-AAAGGTCTTGGAAATC
** * * * *** *
8694944 TTTCCAAAATTTTAGATTTTTCCCGGAGATCTTGGAAATC
1 TTTTAAAAATTTAAAATTTTGCCTAAAGGTCTTGGAAATC
* *
8694984 TTTTCAAATTTTAAAATTTTGCCTAAAGGTCTTGGAAATC
1 TTTTAAAAATTTAAAATTTTGCCTAAAGGTCTTGGAAATC
** * ** *
8695024 ATTAAAAAAATTTAAAGGTTTTGCCCGAAGGTCTTGGAATTC
1 -TTTTAAAAATTTAAA-ATTTTGCCTAAAGGTCTTGGAAATC
* * * *
8695066 GTTTAGAAATTTAAAGTTTTGCCTAAAAGTCTTGGAAATC
1 TTTTAAAAATTTAAAATTTTGCCTAAAGGTCTTGGAAATC
* ** * *
8695106 ATCAAAAAATTTAAGATTTTGCCCAAAGGTCTTTGGAAATC
1 TTTTAAAAATTTAAAATTTTGCCTAAAGGTC-TTGGAAATC
* * ** * *
8695147 ATTTAAAAATTTTGAAATTTCACCCAAAGGTCTTTGAAAATC
1 TTTTAAAAA-TTTAAAATTTTGCCTAAAGGTC-TTGGAAATC
* * *
8695189 TTTTGAAAATTTAAAATTTTGCCTAGAGGTCTT-CAACATC
1 TTTTAAAAATTTAAAATTTTGCCTAAAGGTCTTGGAA-ATC
* * * * *
8695229 ATTGAAAATTTTAAAATTTTGCCTGATGGTCTTGGAAAT
1 TTTTAAAAATTTAAAATTTTGCCTAAAGGTCTTGGAAAT
8695268 TAGTTCAAAA
Statistics
Matches: 281, Mismatches: 75, Indels: 18
0.75 0.20 0.05
Matches are distributed among these distances:
39 3 0.01
40 143 0.51
41 73 0.26
42 62 0.22
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (40 bp):
TTTTAAAAATTTAAAATTTTGCCTAAAGGTCTTGGAAATC
Found at i:8695076 original size:41 final size:41
Alignment explanation
Indices: 8694863--8695402 Score: 247
Period size: 40 Copynumber: 13.3 Consensus size: 41
8694853 CTTAACAAGT
* *
8694863 TTTAGAAAATTT-AAGGTTTTTCCCAAAAGTCTTTGGAAATC-
1 TTTA-AAAATTTAAAGGTTTTGCCCAAAGGTC-TTGGAAATCA
* * * *
8694904 TTTCAAAAACTTAAA-ATTTTGCTTCAAA-GTCTTGAAAATC-
1 TTT-AAAAATTTAAAGGTTTTGC-CCAAAGGTCTTGGAAATCA
* * * * ** * *
8694944 TTTCCAAAATTT-TAGATTTTTCCCGGAGATCTTGGAAATCT
1 TTT-AAAAATTTAAAGGTTTTGCCCAAAGGTCTTGGAAATCA
* * * *
8694985 TTTCAAATTTTAAA-ATTTTGCCTAAAGGTCTTGGAAATCA
1 TTTAAAAATTTAAAGGTTTTGCCCAAAGGTCTTGGAAATCA
* * * *
8695025 TTAAAAAAATTTAAAGGTTTTGCCCGAAGGTCTTGGAATTCG
1 TT-TAAAAATTTAAAGGTTTTGCCCAAAGGTCTTGGAAATCA
* * *
8695067 TTTAGAAATTTAAA-GTTTTGCCTAAAAGTCTTGGAAATCA
1 TTTAAAAATTTAAAGGTTTTGCCCAAAGGTCTTGGAAATCA
** *
8695107 TCAAAAAATTT-AAGATTTTGCCCAAAGGTCTTTGGAAATCA
1 TTTAAAAATTTAAAGGTTTTGCCCAAAGGTC-TTGGAAATCA
** * *
8695148 TTTAAAAATTTTGAAA--TTTCACCCAAAGGTCTTTGAAAATCT
1 TTTAAAAA-TTT-AAAGGTTTTGCCCAAAGGTC-TTGGAAATCA
* * * * *
8695190 TTTGAAAATTTAAA-ATTTTGCCTAGAGGTCTT-CAACATCA
1 TTTAAAAATTTAAAGGTTTTGCCCAAAGGTCTTGGAA-ATCA
* * * ** * *
8695230 TTGAAAATTTTAAA-ATTTTGCCTGATGGTCTTGGAAATTA
1 TTTAAAAATTTAAAGGTTTTGCCCAAAGGTCTTGGAAATCA
* * * * * *
8695270 GTTCAAAATCT-AAGGTTTTGCCTGAAGGGT-TTGGAATTCA
1 TTTAAAAATTTAAAGGTTTTGCC-CAAAGGTCTTGGAAATCA
* ** * * **
8695310 TTCAAAAATTT-AAGGTTTTATCTAGAGGT-TTTAAAATTCA
1 TTTAAAAATTTAAAGGTTTTGCCCAAAGGTCTTGGAAA-TCA
* * * * * *
8695350 TTCAAAAATCTAAA-GTTTTACCCGAAGGTCTTGAAAAAT-T
1 TTTAAAAATTTAAAGGTTTTGCCCAAAGGTCTTG-GAAATCA
8695390 TTTAAAAATTTAA
1 TTTAAAAATTTAA
8695403 GATTTTACCA
Statistics
Matches: 380, Mismatches: 96, Indels: 47
0.73 0.18 0.09
Matches are distributed among these distances:
39 17 0.04
40 214 0.56
41 81 0.21
42 66 0.17
44 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (41 bp):
TTTAAAAATTTAAAGGTTTTGCCCAAAGGTCTTGGAAATCA
Found at i:8695086 original size:82 final size:81
Alignment explanation
Indices: 8694868--8695267 Score: 297
Period size: 82 Copynumber: 4.9 Consensus size: 81
8694858 CAAGTTTTAG
* * * * * *
8694868 AAAATTTAAGGTTTTTCCCAAAAGTCTTTGGAAATC-TTTCAAAAACTTAAAATTTTGCTTCAAA
1 AAAATTTAAGATTTTGCCCAAAGGTCTTTGGAAATCATTT-AAAAATTTAAAATTTTGCCTAAAA
* * ***
8694932 GTCTTGAAAATCTTTCC
65 GTCTTGGAAATCATAAA
* * ** * * * * *
8694949 AAAATTTTAGATTTTTCCCGGAGATC-TTGGAAATCTTTTCAAATTTTAAAATTTTGCCTAAAGG
1 AAAATTTAAGATTTTGCCCAAAGGTCTTTGGAAATCATTTAAAAATTTAAAATTTTGCCTAAAAG
8695013 TCTTGGAAATCATTAAA
66 TCTTGGAAATCA-TAAA
* * * * * *
8695030 AAAATTTAAAGGTTTTGCCCGAAGGTC-TTGGAATTCGTTTAGAAATTTAAAGTTTTGCCTAAAA
1 AAAATTT-AAGATTTTGCCCAAAGGTCTTTGGAAATCATTTAAAAATTTAAAATTTTGCCTAAAA
*
8695094 GTCTTGGAAATCATCAA
65 GTCTTGGAAATCATAAA
* ** * *
8695111 AAAATTTAAGATTTTGCCCAAAGGTCTTTGGAAATCATTTAAAAATTTTGAAATTTCACCCAAAG
1 AAAATTTAAGATTTTGCCCAAAGGTCTTTGGAAATCATTTAAAAA-TTTAAAATTTTGCCTAAAA
* * ***
8695176 GTCTTTGAAAATCTTTTG
65 GTC-TTGGAAATCATAAA
* * * * * * * **
8695194 AAAATTTAAAATTTTGCCTAGAGGTC-TT-CAACATCATTGAAAATTTTAAAATTTTGCCTGATG
1 AAAATTTAAGATTTTGCCCAAAGGTCTTTGGAA-ATCATTTAAAAATTTAAAATTTTGCCTAAAA
8695257 GTCTTGGAAAT
65 GTCTTGGAAAT
8695268 TAGTTCAAAA
Statistics
Matches: 253, Mismatches: 59, Indels: 15
0.77 0.18 0.05
Matches are distributed among these distances:
80 62 0.25
81 74 0.29
82 85 0.34
83 32 0.13
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (81 bp):
AAAATTTAAGATTTTGCCCAAAGGTCTTTGGAAATCATTTAAAAATTTAAAATTTTGCCTAAAAG
TCTTGGAAATCATAAA
Found at i:8695099 original size:122 final size:120
Alignment explanation
Indices: 8694973--8695328 Score: 319
Period size: 123 Copynumber: 2.9 Consensus size: 120
8694963 TTCCCGGAGA
* **
8694973 TCTTGGAAATCTTTTCAAATTTTAAAATTTTGCCTAAAGGTCTTGGAAATCATTAAAAAAATTTA
1 TCTTGGAAATCATTAAAAATTTTAAAATTTTGCCTAAAGGTCTTGGAAATCATT-AAAAAATTTA
8695038 AAGGTTTTGCCCGAAGGTCTTGGAATTCGTTTAGAAATTTAAAGTTTTGCCTAAAAG
65 AAGGTTTTGCCCGAAGGTCTTGGAATTC-TTTAGAAATTTAAAGTTTTGCCTAAAAG
* * * * *
8695095 TCTTGGAAATCATCAAAAAATTTAAGATTTTGCCCAAAGGTCTTTGGAAATCATTTAAAAATTTT
1 TCTTGGAAATCATTAAAAATTTTAAAATTTTGCCTAAAGGTC-TTGGAAATCA-TTAAAAAATTT
** * * * * * * *
8695160 GAAA--TTTCACCCAAAGGTCTTTGAAAATCTTTTGAAAATTTAAAATTTTGCCTAGAGG
64 -AAAGGTTTTGCCCGAAGGTC-TTGGAATTCTTTAG-AAATTTAAAGTTTTGCCTAAAAG
* * * * * * *
8695218 TCTT-CAACATCATTGAAAATTTTAAAATTTTGCCTGATGGTCTTGGAAATTAGTT-CAAAATCT
1 TCTTGGAA-ATCATTAAAAATTTTAAAATTTTGCCTAAAGGTCTTGGAAATCA-TTAAAAAATTT
* * * *
8695281 -AAGGTTTTGCCTGAAGGGT-TTGGAATTCATTCAAAAATTTAAGGTTTT
64 AAAGGTTTTGCCCGAA-GGTCTTGGAATTC-TTTAGAAATTTAAAGTTTT
8695329 ATCTAGAGGT
Statistics
Matches: 183, Mismatches: 41, Indels: 22
0.74 0.17 0.09
Matches are distributed among these distances:
119 2 0.01
120 19 0.10
121 14 0.08
122 67 0.37
123 76 0.42
124 5 0.03
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.38
Consensus pattern (120 bp):
TCTTGGAAATCATTAAAAATTTTAAAATTTTGCCTAAAGGTCTTGGAAATCATTAAAAAATTTAA
AGGTTTTGCCCGAAGGTCTTGGAATTCTTTAGAAATTTAAAGTTTTGCCTAAAAG
Found at i:8695802 original size:19 final size:20
Alignment explanation
Indices: 8695760--8695807 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
8695750 CTATGCAAAC
* * *
8695760 ATGCAAATTTCTTTTTCTTG
1 ATGCAAATGTCTTTTTCCTA
8695780 ATGCAAATGTC-TTTTCCTA
1 ATGCAAATGTCTTTTTCCTA
8695799 ATGCAAATG
1 ATGCAAATG
8695808 ATCCATACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.44
Consensus pattern (20 bp):
ATGCAAATGTCTTTTTCCTA
Found at i:8697368 original size:14 final size:14
Alignment explanation
Indices: 8697349--8697379 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
8697339 CAATCATTCA
8697349 TTTCTTCTTCTTTT
1 TTTCTTCTTCTTTT
*
8697363 TTTCTTTTTCTTTT
1 TTTCTTCTTCTTTT
8697377 TTT
1 TTT
8697380 TTTCATTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTCTTCTTCTTTT
Found at i:8697388 original size:7 final size:6
Alignment explanation
Indices: 8697361--8697482 Score: 58
Period size: 6 Copynumber: 19.8 Consensus size: 6
8697351 TCTTCTTCTT
* * * **
8697361 TTTTTC TTTTTC TTTTT- TTTTTC ATTTTCC ATTTTCC ATTTTCC CCTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC -TTTTTC -TTTTTC -TTTTTC TTTTTC
*
8697411 -TTTT- TTTTTC TTTTTTC TTTCTT- TTTCTC TCTTTTC TTTTT- TTTTT-
1 TTTTTC TTTTTC -TTTTTC TTT-TTC TTTTTC T-TTTTC TTTTTC TTTTTC
*
8697457 TTTTTGC TTTTTTTC TTTTCC TTTTT
1 TTTTT-C --TTTTTC TTTTTC TTTTT
8697483 TTTCTTTGCT
Statistics
Matches: 95, Mismatches: 9, Indels: 24
0.74 0.07 0.19
Matches are distributed among these distances:
5 23 0.24
6 34 0.36
7 32 0.34
8 1 0.01
9 5 0.05
ACGTcount: A:0.02, C:0.19, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTTC
Found at i:8697422 original size:10 final size:10
Alignment explanation
Indices: 8697407--8697489 Score: 76
Period size: 10 Copynumber: 7.7 Consensus size: 10
8697397 CATTTTCCCC
8697407 TTTCTTTTTT
1 TTTCTTTTTT
8697417 TTTCTTTTTT
1 TTTCTTTTTT
*
8697427 CTTTCTTTTTC
1 -TTTCTTTTTT
*
8697438 TCTCTTTTCTT
1 TTTCTTTT-TT
*
8697449 TTTTTTTTTT
1 TTTCTTTTTT
8697459 TTTGCTTTTTTTCT
1 TTT-C--TTTTT-T
*
8697473 TTTCCTTTTT
1 TTTCTTTTTT
8697483 TTTCTTT
1 TTTCTTT
8697490 GCTATTTGGA
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
10 29 0.49
11 20 0.34
13 6 0.10
14 4 0.07
ACGTcount: A:0.00, C:0.16, G:0.01, T:0.83
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:8697427 original size:31 final size:31
Alignment explanation
Indices: 8697356--8697489 Score: 94
Period size: 31 Copynumber: 4.2 Consensus size: 31
8697346 TCATTTCTTC
* *
8697356 TTCTTTTTTTCTTTTT--CTTTTTTTTTTCATT
1 TTCTTTTTTCCTTTTTCCCTTTTCTTTTT--TT
** * *
8697387 TTCCATTTTCCATTTTCCCCTTTCTTTTTTT
1 TTCTTTTTTCCTTTTTCCCTTTTCTTTTTTT
8697418 TTCTTTTTTCTTTCTTTTTCTCTCTTTTCTTTTTTT
1 TTCTTTTTTC---CTTTTTC-C-CTTTTCTTTTTTT
* ** *
8697454 TT-TTTTTTGCTTTTTTTCTTTTCCTTTTTT
1 TTCTTTTTTCCTTTTTCCCTTTTCTTTTTTT
8697484 TTCTTT
1 TTCTTT
8697490 GCTATTTGGA
Statistics
Matches: 81, Mismatches: 14, Indels: 16
0.73 0.13 0.14
Matches are distributed among these distances:
30 14 0.17
31 25 0.31
32 6 0.07
33 9 0.11
34 6 0.07
35 7 0.09
36 14 0.17
ACGTcount: A:0.02, C:0.19, G:0.01, T:0.78
Consensus pattern (31 bp):
TTCTTTTTTCCTTTTTCCCTTTTCTTTTTTT
Found at i:8697455 original size:40 final size:39
Alignment explanation
Indices: 8697406--8697489 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 39
8697396 CCATTTTCCC
*
8697406 CTTTCTTTTTTTTTCTT-TTTTCTTTCTTTTTCTCTCTTTT
1 CTTTCTTTTTTTTT-TTCTTTT-TTTCTTTTCCTCTCTTTT
* * *
8697446 CTTTTTTTTTTTTTTTGCTTTTTTTCTTTTCCTTTTTTTT
1 CTTTCTTTTTTTTTTT-CTTTTTTTCTTTTCCTCTCTTTT
8697486 CTTT
1 CTTT
8697490 GCTATTTGGA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
39 2 0.05
40 32 0.84
41 4 0.11
ACGTcount: A:0.00, C:0.17, G:0.01, T:0.82
Consensus pattern (39 bp):
CTTTCTTTTTTTTTTTCTTTTTTTCTTTTCCTCTCTTTT
Found at i:8700392 original size:38 final size:37
Alignment explanation
Indices: 8700307--8700395 Score: 106
Period size: 37 Copynumber: 2.4 Consensus size: 37
8700297 TATACTACCT
* *
8700307 ATGTGCATGAAATATAATGCATATACTACCTATTAGG
1 ATGTGCATGAGATATAATGCATATACTACCTATTAAG
* * * * *
8700344 ATATGGATGAGATATAGTGCATTTACTACTTTATTAAG
1 ATGTGCATGAGATATAATGCATATACTAC-CTATTAAG
8700382 ATGTGCATGAGATA
1 ATGTGCATGAGATA
8700396 GGGGCATGTA
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
37 24 0.57
38 18 0.43
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.35
Consensus pattern (37 bp):
ATGTGCATGAGATATAATGCATATACTACCTATTAAG
Found at i:8701401 original size:25 final size:25
Alignment explanation
Indices: 8701372--8701526 Score: 211
Period size: 25 Copynumber: 6.2 Consensus size: 25
8701362 ATTATATAAT
8701372 AATGACATAATTAAAATATGCATGA
1 AATGACATAATTAAAATATGCATGA
* * *
8701397 AATGACATATTTACAATATGCAAGA
1 AATGACATAATTAAAATATGCATGA
8701422 AATGACATAATTAAAATATGCATGA
1 AATGACATAATTAAAATATGCATGA
* *
8701447 ATTGACATAATTAAAATATGCATAA
1 AATGACATAATTAAAATATGCATGA
8701472 AATGACATAATTAAAAATATGCATGA
1 AATGACATAATT-AAAATATGCATGA
* ** **
8701498 AATGGCATAGCTAAAATACACATGA
1 AATGACATAATTAAAATATGCATGA
8701523 AATG
1 AATG
8701527 TAAAGCACAT
Statistics
Matches: 114, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
25 93 0.82
26 21 0.18
ACGTcount: A:0.51, C:0.10, G:0.12, T:0.27
Consensus pattern (25 bp):
AATGACATAATTAAAATATGCATGA
Found at i:8701565 original size:8 final size:8
Alignment explanation
Indices: 8701554--8701646 Score: 80
Period size: 8 Copynumber: 11.0 Consensus size: 8
8701544 TTTTTTTGAA
8701554 ATTTTTTT
1 ATTTTTTT
8701562 ATTTTTTTT
1 A-TTTTTTT
8701571 ATTTTTTT
1 ATTTTTTT
8701579 ATTTTTTT
1 ATTTTTTT
* *
8701587 AATTTTTC
1 ATTTTTTT
*
8701595 A-TTTTTC
1 ATTTTTTT
8701602 ATTTTTGTT
1 ATTTTT-TT
*
8701611 CGTTTTTTT
1 -ATTTTTTT
*
8701620 CATTTTTCTA
1 -ATTTTT-TT
8701630 ATTTTTTTT
1 A-TTTTTTT
8701639 ATTTTTTT
1 ATTTTTTT
8701647 CACTTTTTAA
Statistics
Matches: 72, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
7 7 0.10
8 34 0.47
9 20 0.28
10 11 0.15
ACGTcount: A:0.13, C:0.05, G:0.02, T:0.80
Consensus pattern (8 bp):
ATTTTTTT
Found at i:8701653 original size:9 final size:9
Alignment explanation
Indices: 8701554--8701654 Score: 88
Period size: 9 Copynumber: 11.8 Consensus size: 9
8701544 TTTTTTTGAA
8701554 ATTTTTTT-
1 ATTTTTTTC
*
8701562 ATTTTTTTT
1 ATTTTTTTC
8701571 ATTTTTTT-
1 ATTTTTTTC
8701579 ATTTTTTT-
1 ATTTTTTTC
*
8701587 A-ATTTTTC
1 ATTTTTTTC
8701595 A--TTTTTC
1 ATTTTTTTC
8701602 ATTTTTGTTC
1 ATTTTT-TTC
*
8701612 GTTTTTTTC
1 ATTTTTTTC
* *
8701621 ATTTTTCTA
1 ATTTTTTTC
*
8701630 ATTTTTTTT
1 ATTTTTTTC
8701639 ATTTTTTTC
1 ATTTTTTTC
*
8701648 ACTTTTT
1 ATTTTTT
8701655 AAGAAATCAA
Statistics
Matches: 79, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
7 12 0.15
8 18 0.23
9 41 0.52
10 8 0.10
ACGTcount: A:0.13, C:0.07, G:0.02, T:0.78
Consensus pattern (9 bp):
ATTTTTTTC
Found at i:8702665 original size:7 final size:7
Alignment explanation
Indices: 8702645--8702737 Score: 104
Period size: 7 Copynumber: 13.7 Consensus size: 7
8702635 GTCTAAGTTA
8702645 GGTTTAG
1 GGTTTAG
8702652 GGTTTTAG
1 GG-TTTAG
*
8702660 GGTTTAA
1 GGTTTAG
*
8702667 GATTTA-
1 GGTTTAG
8702673 GGTTTAG
1 GGTTTAG
*
8702680 GGTTTAA
1 GGTTTAG
8702687 GGTTTAG
1 GGTTTAG
8702694 GG-TTAG
1 GGTTTAG
*
8702700 GTTTTAG
1 GGTTTAG
8702707 GG-TTAG
1 GGTTTAG
8702713 GGTTTA-
1 GGTTTAG
*
8702719 GGTTTAT
1 GGTTTAG
8702726 GGTTTAG
1 GGTTTAG
8702733 GGTTT
1 GGTTT
8702738 TTGGTTTATC
Statistics
Matches: 73, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
6 22 0.30
7 44 0.60
8 7 0.10
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.46
Consensus pattern (7 bp):
GGTTTAG
Found at i:8702707 original size:13 final size:12
Alignment explanation
Indices: 8702641--8702736 Score: 84
Period size: 13 Copynumber: 7.2 Consensus size: 12
8702631 TGGAGTCTAA
8702641 GTTAGGTTTAGG
1 GTTAGGTTTAGG
*
8702653 GTTTTAGGGTTTAAGA
1 G--TTA-GGTTT-AGG
*
8702669 TTTAGGTTTAGG
1 GTTAGGTTTAGG
8702681 GTTTAAGGTTTAGG
1 G-TT-AGGTTTAGG
8702695 GTTAGGTTTTAGG
1 GTTAGG-TTTAGG
8702708 GTTAGGGTTTAGG
1 GTTA-GGTTTAGG
*
8702721 TTTATGGTTTAGG
1 GTTA-GGTTTAGG
8702734 GTT
1 GTT
8702737 TTTGGTTTAT
Statistics
Matches: 69, Mismatches: 7, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
12 6 0.09
13 38 0.55
14 18 0.26
15 5 0.07
16 2 0.03
ACGTcount: A:0.18, C:0.00, G:0.36, T:0.46
Consensus pattern (12 bp):
GTTAGGTTTAGG
Found at i:8702737 original size:20 final size:21
Alignment explanation
Indices: 8702644--8702737 Score: 115
Period size: 20 Copynumber: 4.6 Consensus size: 21
8702634 AGTCTAAGTT
8702644 AGGTTTAGGGTTTTAGGGTTTA
1 AGGTTTAGGG-TTTAGGGTTTA
*
8702666 AGATTTA-GGTTTAGGGTTTA
1 AGGTTTAGGGTTTAGGGTTTA
*
8702686 AGGTTTAGGG-TTA-GGTTTT
1 AGGTTTAGGGTTTAGGGTTTA
*
8702705 AGGGTTAGGGTTTA-GGTTTA
1 AGGTTTAGGGTTTAGGGTTTA
*
8702725 TGGTTTAGGGTTT
1 AGGTTTAGGGTTT
8702738 TTGGTTTATC
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
19 14 0.22
20 39 0.62
21 4 0.06
22 6 0.10
ACGTcount: A:0.18, C:0.00, G:0.36, T:0.46
Consensus pattern (21 bp):
AGGTTTAGGGTTTAGGGTTTA
Found at i:8702821 original size:14 final size:14
Alignment explanation
Indices: 8702802--8702834 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
8702792 TTAGATTTAA
*
8702802 GGTTTCAATTTTGG
1 GGTTTCAACTTTGG
8702816 GGTTTCAACTTTGG
1 GGTTTCAACTTTGG
8702830 GGTTT
1 GGTTT
8702835 TTTTTTTGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.12, C:0.09, G:0.30, T:0.48
Consensus pattern (14 bp):
GGTTTCAACTTTGG
Found at i:8713838 original size:123 final size:123
Alignment explanation
Indices: 8713627--8713874 Score: 415
Period size: 123 Copynumber: 2.0 Consensus size: 123
8713617 GATCATTGAG
*
8713627 ATAGCATGTACCACATTATGTCTAAATATTTGTATCTTTATTGGTATATTGCTCTATGTGATTTG
1 ATAGCATGTACCACATTATGTCTAAATATTTGTATCTTTATTGGTATATTGCTATATGTGATTTG
* * *
8713692 AAATGTTTTTGCATATACTTGTATGATTTTGATTGAAAAATATGTTTGAACCATATTT
66 AAATGTTTTTGCATATACGTGTATGATTTGGATTGAAAAATATGTCTGAACCATATTT
* *
8713750 ATAGCATGTACCACATTATGTCTAAATATTTGTATCTTTATTGGTTTATTGTTATATGTGATTTG
1 ATAGCATGTACCACATTATGTCTAAATATTTGTATCTTTATTGGTATATTGCTATATGTGATTTG
* * *
8713815 AAATGTTTTTGCCTATGCGTGTATGATTTGGATTGAAAAATATGTCTGAACTATATTT
66 AAATGTTTTTGCATATACGTGTATGATTTGGATTGAAAAATATGTCTGAACCATATTT
8713873 AT
1 AT
8713875 GTACTTGCAT
Statistics
Matches: 116, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
123 116 1.00
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.46
Consensus pattern (123 bp):
ATAGCATGTACCACATTATGTCTAAATATTTGTATCTTTATTGGTATATTGCTATATGTGATTTG
AAATGTTTTTGCATATACGTGTATGATTTGGATTGAAAAATATGTCTGAACCATATTT
Found at i:8714374 original size:16 final size:16
Alignment explanation
Indices: 8714355--8714389 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
8714345 TGTGATAACA
*
8714355 TATCTTTAACAATTGG
1 TATCTTGAACAATTGG
8714371 TATCTTGAACAATTGG
1 TATCTTGAACAATTGG
8714387 TAT
1 TAT
8714390 GAGCTTGTAT
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:0.31, C:0.11, G:0.14, T:0.43
Consensus pattern (16 bp):
TATCTTGAACAATTGG
Found at i:8714809 original size:22 final size:21
Alignment explanation
Indices: 8714768--8714809 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
8714758 TTTATAGCAA
* *
8714768 TTGGTATAGAAACTTTAACAT
1 TTGGTATAAAAACTTAAACAT
8714789 TTGGTATAAAGAACTTAAACA
1 TTGGTATAAA-AACTTAAACA
8714810 AAAATGAGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (21 bp):
TTGGTATAAAAACTTAAACAT
Found at i:8717006 original size:14 final size:14
Alignment explanation
Indices: 8716987--8717015 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
8716977 TCTTTGAAAC
8716987 TAATATACTATGGA
1 TAATATACTATGGA
8717001 TAATATACTATGGA
1 TAATATACTATGGA
8717015 T
1 T
8717016 TATAAATCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.38
Consensus pattern (14 bp):
TAATATACTATGGA
Found at i:8717129 original size:25 final size:25
Alignment explanation
Indices: 8717101--8717149 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
8717091 TATCTTATTA
* *
8717101 TATAAAATTAAGGTTATGATTTTTT
1 TATAAAATTAAGATTATGAATTTTT
*
8717126 TATAATATTAAGATTATGAATTTT
1 TATAAAATTAAGATTATGAATTTT
8717150 AATTTCATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (25 bp):
TATAAAATTAAGATTATGAATTTTT
Found at i:8730973 original size:24 final size:27
Alignment explanation
Indices: 8730946--8731001 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 27
8730936 ATTTTATTTT
8730946 ATATATTA-AAATA-ATTTTTT-ATAA
1 ATATATTATAAATATATTTTTTAATAA
*
8730970 ATATA-TATTAATATATTTTTTAATAA
1 ATATATTATAAATATATTTTTTAATAA
*
8730996 AAATAT
1 ATATAT
8731002 ATTCTTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 2 0.08
24 9 0.35
25 7 0.27
26 8 0.31
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (27 bp):
ATATATTATAAATATATTTTTTAATAA
Found at i:8730980 original size:26 final size:26
Alignment explanation
Indices: 8730945--8731004 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
8730935 TATTTTATTT
8730945 TATATATTAAAATAATTTTTT-ATAAA
1 TATATATTAAAAT-ATTTTTTAATAAA
*
8730971 TATATATTAATATATTTTTTAATAAA
1 TATATATTAAAATATTTTTTAATAAA
*
8730997 AATATATT
1 TATATATT
8731005 CTTTTAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 7 0.23
26 24 0.77
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
TATATATTAAAATATTTTTTAATAAA
Found at i:8731059 original size:23 final size:24
Alignment explanation
Indices: 8730981--8731060 Score: 67
Period size: 27 Copynumber: 3.3 Consensus size: 24
8730971 TATATATTAA
*
8730981 TATATTTTTTAAT-AAAAATATAT
1 TATATTATTTAATAAAAAATATAT
* * *
8731004 TCTTTTAATTAATGTAAAATAATA-ATT
1 TATATTATTTAA--TAAAA-AATATA-T
8731031 TATATTATTTAATAAAAAATATAT
1 TATATTATTTAATAAAAAATATAT
8731055 T-TATTA
1 TATATTA
8731061 AATTATATAA
Statistics
Matches: 44, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
23 13 0.30
24 6 0.14
25 7 0.16
26 4 0.09
27 14 0.32
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (24 bp):
TATATTATTTAATAAAAAATATAT
Found at i:8731070 original size:25 final size:25
Alignment explanation
Indices: 8730994--8731071 Score: 72
Period size: 25 Copynumber: 3.1 Consensus size: 25
8730984 ATTTTTTAAT
*
8730994 AAAAATATATTCT-TTTAATTAATGTA
1 AAAAATATATT-TATTTAATT-ATATA
*
8731020 AAATAATA-ATTTATATTATTTA-ATA
1 AAA-AATATATTTAT-TTAATTATATA
*
8731045 AAAAATATATTTATTAAATTATATA
1 AAAAATATATTTATTTAATTATATA
8731070 AA
1 AA
8731072 TATACATATT
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
24 9 0.21
25 17 0.40
26 8 0.19
27 9 0.21
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (25 bp):
AAAAATATATTTATTTAATTATATA
Found at i:8736311 original size:9 final size:9
Alignment explanation
Indices: 8736297--8736335 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
8736287 CTTCTTCATG
8736297 TTTTGTATT
1 TTTTGTATT
8736306 TTTTGT-TT
1 TTTTGTATT
8736314 TCTTT-TATT
1 T-TTTGTATT
8736323 TTTTGTATT
1 TTTTGTATT
8736332 TTTT
1 TTTT
8736336 TAATTCAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
8 7 0.26
9 20 0.74
ACGTcount: A:0.08, C:0.03, G:0.08, T:0.82
Consensus pattern (9 bp):
TTTTGTATT
Found at i:8736324 original size:17 final size:17
Alignment explanation
Indices: 8736297--8736337 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
8736287 CTTCTTCATG
*
8736297 TTTTGTATTTTTTGT-T
1 TTTTTTATTTTTTGTAT
8736313 TTCTTTTATTTTTTGTAT
1 TT-TTTTATTTTTTGTAT
8736331 TTTTTTA
1 TTTTTTA
8736338 ATTCAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 2 0.09
17 17 0.77
18 3 0.14
ACGTcount: A:0.10, C:0.02, G:0.07, T:0.80
Consensus pattern (17 bp):
TTTTTTATTTTTTGTAT
Found at i:8736428 original size:19 final size:20
Alignment explanation
Indices: 8736406--8736450 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 20
8736396 AATTTGAACT
8736406 TAAAATTGAAGTTTG-GGCC
1 TAAAATTGAAGTTTGAGGCC
*
8736425 TAAATTTGAAGTTTGAGGCC
1 TAAAATTGAAGTTTGAGGCC
8736445 TGAAAA
1 T-AAAA
8736451 ATTAATTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 14 0.64
20 5 0.23
21 3 0.14
ACGTcount: A:0.36, C:0.09, G:0.24, T:0.31
Consensus pattern (20 bp):
TAAAATTGAAGTTTGAGGCC
Found at i:8740872 original size:9 final size:8
Alignment explanation
Indices: 8740829--8740890 Score: 52
Period size: 9 Copynumber: 7.0 Consensus size: 8
8740819 TTCTCTTTTC
8740829 TTTTTATT
1 TTTTTATT
*
8740837 TTTTGAATT
1 TTTT-TATT
8740846 TATTTTACTT
1 T-TTTTA-TT
8740856 TATTTTATT
1 T-TTTTATT
8740865 TGTTTTATT
1 T-TTTTATT
8740874 TTATTTATT
1 TT-TTTATT
*
8740883 TGTTTATT
1 TTTTTATT
8740891 ATTATTGCAC
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
8 11 0.24
9 23 0.50
10 12 0.26
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.76
Consensus pattern (8 bp):
TTTTTATT
Found at i:8740882 original size:18 final size:18
Alignment explanation
Indices: 8740830--8740896 Score: 66
Period size: 18 Copynumber: 3.7 Consensus size: 18
8740820 TCTCTTTTCT
* *
8740830 TTTTATTTT-TTGAATTTA
1 TTTTATTTTATT-TATTTG
*
8740848 TTTTACTTTATTTTATTTG
1 TTTTATTTTA-TTTATTTG
8740867 TTTTATTTTATTTATTTG
1 TTTTATTTTATTTATTTG
8740885 -TTTATTATTATT
1 TTTTATT-TTATT
8740897 GCACTATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
17 6 0.14
18 21 0.50
19 13 0.31
20 2 0.05
ACGTcount: A:0.19, C:0.01, G:0.04, T:0.75
Consensus pattern (18 bp):
TTTTATTTTATTTATTTG
Found at i:8741539 original size:19 final size:19
Alignment explanation
Indices: 8741482--8741527 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 19
8741472 TGAGATATTT
*
8741482 ATTTA-AATAATC-ACATA
1 ATTTATAATAATCTAAATA
*
8741499 A-TAATAATAATCTAAATA
1 ATTTATAATAATCTAAATA
8741517 ATTTATAATAA
1 ATTTATAATAA
8741528 ATTAAATCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 2 0.09
17 8 0.35
18 5 0.22
19 8 0.35
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (19 bp):
ATTTATAATAATCTAAATA
Found at i:8746010 original size:41 final size:41
Alignment explanation
Indices: 8745913--8746110 Score: 152
Period size: 41 Copynumber: 4.9 Consensus size: 41
8745903 TCGCATTCAC
* * * * *
8745913 ATTTGCATTTACATCA-TTGCATCTGTATCACAACAAAAAC
1 ATTTGCATTTACATCACTTGCATCTGCATCATAAGAAAGAT
* * ** *
8745953 ATTCGTATTTGTATCACTTGCATCTGCATCATGAGAAAGAT
1 ATTTGCATTTACATCACTTGCATCTGCATCATAAGAAAGAT
** * * ** *
8745994 ATTCACATTCACATCACTTGTAT-TTAAT-ATAAAAAAGAT
1 ATTTGCATTTACATCACTTGCATCTGCATCATAAGAAAGAT
* *
8746033 ATTTGCATTTACATCA-TTGCATCTGCATCACAAGAAAGAC
1 ATTTGCATTTACATCACTTGCATCTGCATCATAAGAAAGAT
* * * * *
8746073 ATTTGTATTTGCATTAGTTGCATCTGCATCATGAGAAA
1 ATTTGCATTTACATCACTTGCATCTGCATCATAAGAAA
8746111 AACATCCATT
Statistics
Matches: 120, Mismatches: 34, Indels: 7
0.75 0.21 0.04
Matches are distributed among these distances:
38 5 0.04
39 25 0.21
40 36 0.30
41 54 0.45
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (41 bp):
ATTTGCATTTACATCACTTGCATCTGCATCATAAGAAAGAT
Found at i:8746992 original size:20 final size:22
Alignment explanation
Indices: 8746955--8746994 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
8746945 TCTCAATGCA
8746955 AATCTTGAGAACCTTTGATGTG
1 AATCTTGAGAACCTTTGATGTG
8746977 AATCTTGA-AA-CTTTGATG
1 AATCTTGAGAACCTTTGATG
8746995 CGAAACTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 2 0.11
22 8 0.44
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (22 bp):
AATCTTGAGAACCTTTGATGTG
Found at i:8747072 original size:20 final size:20
Alignment explanation
Indices: 8747047--8747108 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
8747037 AAGACACTTC
8747047 GATGTGAATCTTGAACCTTT
1 GATGTGAATCTTGAACCTTT
* *
8747067 GATGTGAATTTTAAGAACCCTT
1 GATGTGAATCTT--GAACCTTT
*
8747089 -AGTGTGAATCTCGAACCTTT
1 GA-TGTGAATCTTGAACCTTT
8747109 AATATGAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
20 18 0.53
21 1 0.03
22 15 0.44
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.37
Consensus pattern (20 bp):
GATGTGAATCTTGAACCTTT
Found at i:8748133 original size:32 final size:33
Alignment explanation
Indices: 8748074--8748264 Score: 100
Period size: 32 Copynumber: 5.8 Consensus size: 33
8748064 AGGAGTTAGA
* * * * *
8748074 TAAAGTTTTATAGCCTTTGGTTTGAGGAG-TTT
1 TAAAGTCTCATAGCCTCTAGTTAGAGGAGTTTT
*
8748106 TCAAGTCTCATAGCCTCTAGTTAGAGGAGTTTCTT
1 TAAAGTCTCATAGCCTCTAGTTAGAGGAG-TT-TT
* *
8748141 TAAAG-CATCATAGTCTCTAGTTAGAGAAGTTTT
1 TAAAGTC-TCATAGCCTCTAGTTAGAGGAGTTTT
*** * ** * *
8748174 TAAAAAATTATAGTTTCTAGTTAAAGGA-ATTT
1 TAAAGTCTCATAGCCTCTAGTTAGAGGAGTTTT
* * * * *
8748206 TCAAGTTTCATAGCCTCTACTTGGAGAAGCTTTT
1 TAAAGTCTCATAGCCTCTAGTTAGAGGAG-TTTT
* * * *
8748240 TAAAATTTGATTGCCTCTAGTTAGA
1 TAAAGTCTCATAGCCTCTAGTTAGA
8748265 TTTAGTAAAA
Statistics
Matches: 118, Mismatches: 34, Indels: 12
0.72 0.21 0.07
Matches are distributed among these distances:
32 43 0.36
33 23 0.19
34 26 0.22
35 26 0.22
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.40
Consensus pattern (33 bp):
TAAAGTCTCATAGCCTCTAGTTAGAGGAGTTTT
Found at i:8748187 original size:33 final size:35
Alignment explanation
Indices: 8748113--8748196 Score: 100
Period size: 33 Copynumber: 2.5 Consensus size: 35
8748103 TTTTCAAGTC
* * **
8748113 TCATAGCCTCTAGTTAGAGGAGTTTCTTTAAAGCA
1 TCATAGTCTCTAGTTAGAGAAGTTTCTTTAAAAAA
8748148 TCATAGTCTCTAGTTAGAGAAG-TT-TTTAAAAAA
1 TCATAGTCTCTAGTTAGAGAAGTTTCTTTAAAAAA
* *
8748181 TTATAGTTTCTAGTTA
1 TCATAGTCTCTAGTTA
8748197 AAGGAATTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
33 21 0.49
34 2 0.05
35 20 0.47
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.39
Consensus pattern (35 bp):
TCATAGTCTCTAGTTAGAGAAGTTTCTTTAAAAAA
Found at i:8749609 original size:12 final size:12
Alignment explanation
Indices: 8749570--8749610 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
8749560 TTTCCTTTGT
8749570 TTATTATTATTG
1 TTATTATTATTG
* *
8749582 TTAGTATTATTT
1 TTATTATTATTG
*
8749594 TTATTATTATCG
1 TTATTATTATTG
8749606 TTATT
1 TTATT
8749611 TTTAAAAATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.66
Consensus pattern (12 bp):
TTATTATTATTG
Found at i:8750188 original size:3 final size:3
Alignment explanation
Indices: 8750180--8750214 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
8750170 TATTTAGATG
8750180 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
8750215 TAAAAAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:8750399 original size:15 final size:15
Alignment explanation
Indices: 8750379--8750431 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
8750369 TAGAATATTT
8750379 AAAAAATTAATTTAA
1 AAAAAATTAATTTAA
*
8750394 AAAAAATTAATTT-T
1 AAAAAATTAATTTAA
*
8750408 AAGAAATTAATTTGAA
1 AAAAAATTAATTT-AA
8750424 ACAAAAAT
1 A-AAAAAT
8750432 AAAGAGATTG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
14 12 0.39
15 13 0.42
16 1 0.03
17 5 0.16
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (15 bp):
AAAAAATTAATTTAA
Found at i:8750589 original size:10 final size:10
Alignment explanation
Indices: 8750576--8750613 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
8750566 TAAAAATAAT
8750576 TTTTAATTAA
1 TTTTAATTAA
8750586 TTTTAATTAA
1 TTTTAATTAA
8750596 TTTTAA--AA
1 TTTTAATTAA
*
8750604 TTTTTATTAA
1 TTTTAATTAA
8750614 AAAATAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
8 7 0.28
10 18 0.72
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
TTTTAATTAA
Found at i:8760687 original size:2 final size:2
Alignment explanation
Indices: 8760682--8760706 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8760672 AAAAAAAAAA
8760682 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
8760707 AGATTACTTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8764191 original size:35 final size:33
Alignment explanation
Indices: 8764131--8764196 Score: 80
Period size: 35 Copynumber: 1.9 Consensus size: 33
8764121 TCCAAAAAAA
8764131 AAAAAATTGATATCGATATTAAATTTTATTTAAAT
1 AAAAAATTGATATC-ATATTAAA-TTTATTTAAAT
*
8764166 AAAAAATTGATAT-ATGTTAAGAATTTATTTA
1 AAAAAATTGATATCATATT-A-AATTTATTTA
8764197 TGTACAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
33 4 0.14
34 9 0.32
35 15 0.54
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.42
Consensus pattern (33 bp):
AAAAAATTGATATCATATTAAATTTATTTAAAT
Found at i:8766691 original size:28 final size:29
Alignment explanation
Indices: 8766660--8766721 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 29
8766650 TTTTCATAAT
**
8766660 TTTTTATTATTAA-TTTAGTTAATTTTTA
1 TTTTTATTAACAATTTTAGTTAATTTTTA
8766688 TTTTTATTAACAATTTTTAGTTAATTTTTA
1 TTTTTATTAACAA-TTTTAGTTAATTTTTA
8766718 TTTT
1 TTTT
8766722 ATTTTTATAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 11 0.37
30 19 0.63
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (29 bp):
TTTTTATTAACAATTTTAGTTAATTTTTA
Found at i:8766999 original size:28 final size:27
Alignment explanation
Indices: 8766968--8767031 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
8766958 AATTTTAAAA
* *
8766968 ATTATTTTCATTTATTAT-TGTTATTATT
1 ATTATTTT-AGTTATTATCTATTA-TATT
*
8766996 ATTATCTTTAGTTATTTTCTATTATATT
1 ATTAT-TTTAGTTATTATCTATTATATT
8767024 ATTATTTT
1 ATTATTTT
8767032 GTAAGGTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 3 0.10
28 21 0.68
29 7 0.23
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.67
Consensus pattern (27 bp):
ATTATTTTAGTTATTATCTATTATATT
Found at i:8767010 original size:25 final size:26
Alignment explanation
Indices: 8766968--8767030 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 26
8766958 AATTTTAAAA
*
8766968 ATTATTTTCATTTATTATTGT-TATT
1 ATTATTATCATTTATTATTGTCTATT
*
8766993 ATTATTATC-TTTAGTTATTTTCTATT
1 ATTATTATCATTTA-TTATTGTCTATT
*
8767019 A-TATTATTATTT
1 ATTATTATCATTT
8767031 TGTAAGGTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
24 4 0.12
25 20 0.62
26 8 0.25
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.67
Consensus pattern (26 bp):
ATTATTATCATTTATTATTGTCTATT
Found at i:8767170 original size:3 final size:3
Alignment explanation
Indices: 8767162--8767209 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
8767152 AAACATACAT
8767162 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8767210 CAAACTTAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:8767234 original size:6 final size:6
Alignment explanation
Indices: 8767163--8767263 Score: 55
Period size: 6 Copynumber: 16.3 Consensus size: 6
8767153 AACATACATT
* * * * * * *
8767163 AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAACA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAA-A
*
8767212 AACTTAAA ATGATAAA AAT-AA AA-AAA AATAAA CCA-AAA AATAAA AATAAA
1 AA--TAAA A--ATAAA AATAAA AATAAA AATAAA -AATAAA AATAAA AATAAA
8767262 AA
1 AA
8767264 ATTTGAACTA
Statistics
Matches: 83, Mismatches: 3, Indels: 18
0.80 0.03 0.17
Matches are distributed among these distances:
5 9 0.11
6 60 0.72
7 3 0.04
8 7 0.08
9 3 0.04
10 1 0.01
ACGTcount: A:0.72, C:0.04, G:0.01, T:0.23
Consensus pattern (6 bp):
AATAAA
Found at i:8768235 original size:12 final size:13
Alignment explanation
Indices: 8768194--8768250 Score: 71
Period size: 13 Copynumber: 4.3 Consensus size: 13
8768184 TTTTGTGTGT
*
8768194 TTTTTTTTAATTA
1 TTTTATTTAATTA
*
8768207 TTAATTAATTAATTA
1 TT--TTATTTAATTA
8768222 TTTTATTTAA-TA
1 TTTTATTTAATTA
8768234 TTTTATTTAATTA
1 TTTTATTTAATTA
8768247 TTTT
1 TTTT
8768251 TAATAAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
12 12 0.32
13 15 0.39
15 11 0.29
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTATTTAATTA
Found at i:8770759 original size:6 final size:6
Alignment explanation
Indices: 8770748--8770790 Score: 68
Period size: 6 Copynumber: 7.0 Consensus size: 6
8770738 ATTCTCCTCC
*
8770748 TTCTGG TTCTGG TTCTGG TTCTCG TTCTGG TTCTGG TCTCTGG
1 TTCTGG TTCTGG TTCTGG TTCTGG TTCTGG TTCTGG T-TCTGG
8770791 ATTGGTCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
6 29 0.85
7 5 0.15
ACGTcount: A:0.00, C:0.21, G:0.30, T:0.49
Consensus pattern (6 bp):
TTCTGG
Found at i:8777591 original size:28 final size:28
Alignment explanation
Indices: 8777553--8777612 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
8777543 CAGAAATATG
* *
8777553 AAAATAAATTTGAAATAT-AAAAATATTA
1 AAAACAAATTTGAAATATGAAAAA-AGTA
8777581 AAAACAAATTTGAAATATGAAAAAAGTA
1 AAAACAAATTTGAAATATGAAAAAAGTA
8777609 AAAA
1 AAAA
8777613 TATTAAGTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 24 0.83
29 5 0.17
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.25
Consensus pattern (28 bp):
AAAACAAATTTGAAATATGAAAAAAGTA
Found at i:8778380 original size:24 final size:24
Alignment explanation
Indices: 8778348--8778427 Score: 90
Period size: 24 Copynumber: 3.1 Consensus size: 24
8778338 TTATAAAAAT
8778348 AATTTTAAATATTTAAAAAATAAA
1 AATTTTAAATATTTAAAAAATAAA
8778372 AATTTTAAATATTTAAAAAA-AGATA
1 AATTTTAAATATTTAAAAAATA-A-A
8778397 CAATTTTAAAATATCTTTAAAAAATGAAA
1 -AATTTT-AAATA--TTTAAAAAAT-AAA
8778426 AA
1 AA
8778428 AAAAAAGGGG
Statistics
Matches: 48, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
23 1 0.02
24 21 0.44
25 1 0.02
26 6 0.12
27 5 0.10
28 2 0.04
29 10 0.21
30 1 0.02
31 1 0.02
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (24 bp):
AATTTTAAATATTTAAAAAATAAA
Found at i:8781083 original size:19 final size:20
Alignment explanation
Indices: 8781056--8781093 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
8781046 ATTAATATAT
*
8781056 ATATATAAT-TATTTAAAAA
1 ATATATAATAAATTTAAAAA
*
8781075 ATATTTAATAAATTTAAAA
1 ATATATAATAAATTTAAAA
8781094 TTTAAATCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
ATATATAATAAATTTAAAAA
Found at i:8781180 original size:2 final size:2
Alignment explanation
Indices: 8781173--8781203 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8781163 TTGATCTAAG
8781173 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8781204 AATGGTCGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8781237 original size:14 final size:14
Alignment explanation
Indices: 8781218--8781247 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8781208 GTCGGGTTTG
*
8781218 TATTCCTTATCTAT
1 TATTCCTCATCTAT
8781232 TATTCCTCATCTAT
1 TATTCCTCATCTAT
8781246 TA
1 TA
8781248 GACTAAGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.53
Consensus pattern (14 bp):
TATTCCTCATCTAT
Found at i:8782095 original size:15 final size:16
Alignment explanation
Indices: 8782063--8782096 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
8782053 TTTTTTTAAT
8782063 AACATTTTCTATGAAA
1 AACATTTTCTATGAAA
8782079 AACATTTT-TATGCAAA
1 AACATTTTCTATG-AAA
8782095 AA
1 AA
8782097 ATCAATGATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (16 bp):
AACATTTTCTATGAAA
Found at i:8782751 original size:20 final size:20
Alignment explanation
Indices: 8782714--8782792 Score: 65
Period size: 20 Copynumber: 4.0 Consensus size: 20
8782704 TTTATGGTTT
* * *
8782714 GATTTTGGGTATAAGGTTAG
1 GATTTGGGGTTTAGGGTTAG
* *
8782734 GTTTTGGGGTTTAGGGTT-T
1 GATTTGGGGTTTAGGGTTAG
* *
8782753 GACTTTGGAGTTTGGGGTT--
1 GA-TTTGGGGTTTAGGGTTAG
8782772 GATTTGGGGTTTAGGGTTAG
1 GATTTGGGGTTTAGGGTTAG
8782792 G
1 G
8782793 GTAAGGTTTT
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
18 14 0.30
19 3 0.07
20 29 0.63
ACGTcount: A:0.14, C:0.01, G:0.42, T:0.43
Consensus pattern (20 bp):
GATTTGGGGTTTAGGGTTAG
Found at i:8783168 original size:44 final size:43
Alignment explanation
Indices: 8783078--8783168 Score: 112
Period size: 44 Copynumber: 2.1 Consensus size: 43
8783068 GACCAATGTA
**
8783078 ATTTCACAAACACTTGAAAAATATAATAAAATATCACATTTCT
1 ATTTCACAAACACTTGAAAAATATAATAAAATAAAACATTTCT
* * *
8783121 ATTTCATCAAACACTTGGAAAATATATTAAAA-AAAACTATTTTT
1 ATTTCA-CAAACACTTGAAAAATATAATAAAATAAAAC-ATTTCT
8783165 ATTT
1 ATTT
8783169 GCAAGAACAT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
43 9 0.22
44 32 0.78
ACGTcount: A:0.47, C:0.13, G:0.03, T:0.36
Consensus pattern (43 bp):
ATTTCACAAACACTTGAAAAATATAATAAAATAAAACATTTCT
Found at i:8784082 original size:132 final size:131
Alignment explanation
Indices: 8783920--8784166 Score: 397
Period size: 132 Copynumber: 1.9 Consensus size: 131
8783910 TCTTTTGAGG
*
8783920 TGAAATAAGAATTTTTAATGCATCAAAACTCATAAAATAATGTTTAAATATGATCTGAAA-TTTT
1 TGAAATAAGAATTTTTAATGCATCAAAACTCACAAAATAATGTTTAAATATGATCTGAAATTTTT
8783984 TTACGAAAAACAGAGTTAAAAAAATGTTAAATTATGAAAATGCCCATAAAGGATGAAAAGTTAAA
66 TTACGAAAAACAGAGTT-AAAAAA-GTTAAATTATGAAAATGCCCATAAAGGATGAAAAGTTAAA
8784049 TTA
129 TTA
* * *
8784052 TGAAATAAGGATTTTTAATGCATCACAACTCACAAAATAATGTTTAAATATGATTTGAAATTTTT
1 TGAAATAAGAATTTTTAATGCATCAAAACTCACAAAATAATGTTTAAATATGATCTGAAATTTTT
* * * *
8784117 TTATGAAAAGCTGAGTTAAAAAAGTTAAATTATGAAAATGCCCTTAAAGG
66 TTACGAAAAACAGAGTTAAAAAAGTTAAATTATGAAAATGCCCATAAAGG
8784167 GTATTTTGTA
Statistics
Matches: 106, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
131 26 0.25
132 62 0.58
133 18 0.17
ACGTcount: A:0.47, C:0.08, G:0.13, T:0.32
Consensus pattern (131 bp):
TGAAATAAGAATTTTTAATGCATCAAAACTCACAAAATAATGTTTAAATATGATCTGAAATTTTT
TTACGAAAAACAGAGTTAAAAAAGTTAAATTATGAAAATGCCCATAAAGGATGAAAAGTTAAATT
A
Found at i:8784820 original size:27 final size:27
Alignment explanation
Indices: 8784790--8784841 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
8784780 AATTAAATAA
*
8784790 CTACACTTATAATAATATGCTCGATAT
1 CTACACTTAAAATAATATGCTCGATAT
8784817 CTACACTTAAAATAATATGCTCGAT
1 CTACACTTAAAATAATATGCTCGAT
8784842 GCCATCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (27 bp):
CTACACTTAAAATAATATGCTCGATAT
Found at i:8797928 original size:3 final size:3
Alignment explanation
Indices: 8797922--8797974 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
8797912 CATTTTTTTT
8797922 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8797970 TTA TT
1 TTA TT
8797975 TATGCTAACA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:8799846 original size:3 final size:3
Alignment explanation
Indices: 8799840--8799881 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
8799830 TCTAAAACAA
8799840 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8799882 GAAATTGGGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:8800366 original size:24 final size:24
Alignment explanation
Indices: 8800339--8800384 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
8800329 GAAAACAACT
*
8800339 TCAAAAACTCTTT-TAAATAAAAAC
1 TCAAAAACT-TTTGAAAATAAAAAC
*
8800363 TCAATAACTTTTGAAAATAAAA
1 TCAAAAACTTTTGAAAATAAAA
8800385 CAAGAGATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.16
24 16 0.84
ACGTcount: A:0.54, C:0.13, G:0.02, T:0.30
Consensus pattern (24 bp):
TCAAAAACTTTTGAAAATAAAAAC
Found at i:8800822 original size:105 final size:104
Alignment explanation
Indices: 8800569--8800814 Score: 332
Period size: 105 Copynumber: 2.4 Consensus size: 104
8800559 TTTTTGTATA
* * *
8800569 AAAGGCATTGAAACTTTAAAAATTTAAAATGTTTTGCTTGGAGG-TTTGGAGATTATGCTCGAAA
1 AAAGGCATTGAAACTTTAAAAATTTAAAATGTTTTACTTGAAGGTTTTGGAGATTATACTCGAAA
* * *
8800633 GTCTTACAAATCTTGATATCTTTGAATGCTCTTCCCAAT
66 GTCTTACAAATCTCGATATATTTGAATGCTCATCCCAAT
* * * * *
8800672 AAGAGGCATTGAAACTTTAAAATTTTAAAATGTTTTAGTTGAAGGTTTTGGAGATTATATTTGGA
1 AA-AGGCATTGAAACTTTAAAAATTTAAAATGTTTTACTTGAAGGTTTTGGAGATTATACTCGAA
* *
8800737 GGTCTTACAAATCTCGATATATTTGAATGCTCATCCTAATT
65 AGTCTTACAAATCTCGATATATTTGAATGCTCATCCCAA-T
* *
8800778 AAAGGTATTGAAACTTTAAAAATTTAAAATATTTTAC
1 AAAGGCATTGAAACTTTAAAAATTTAAAATGTTTTAC
8800815 CCAAAGGTCT
Statistics
Matches: 123, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
103 2 0.02
104 38 0.31
105 80 0.65
106 3 0.02
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (104 bp):
AAAGGCATTGAAACTTTAAAAATTTAAAATGTTTTACTTGAAGGTTTTGGAGATTATACTCGAAA
GTCTTACAAATCTCGATATATTTGAATGCTCATCCCAAT
Found at i:8800911 original size:232 final size:232
Alignment explanation
Indices: 8800637--8801067 Score: 580
Period size: 232 Copynumber: 1.9 Consensus size: 232
8800627 TCGAAAGTCT
*
8800637 TACAAATCTTGATATCTTTGAATGCTCTTCCCAATAAGAGGCATTGAAACTTTAAAATTTTAAAA
1 TACAAATCTTGATATCTTTGAATGCTCTTCCCAATAAGAGGCATTGAAACTTTAAAAATTTAAAA
** * * * * * *
8800702 TGTTTTAGTTGA-AGGTTTTGGAGATTATATTTGGAGGTCTTACAAATCTCGATATATTTGAATG
66 TGTTTTA-CCGAGAGATCTTAGAGATTATACTTGAAGGTCTTACAAATCTCGATATATTTGAATA
*
8800766 CTCATC-CTAATTAAAGGTATTGAAACTTTAAAAATTTAAAATATTTTACCCAA-AGGTCTTAGA
130 CTCATCTC-AATTAAAGGCATTGAAACTTTAAAAATTTAAAATATTTT-CCCAAGAGGTCTTAGA
8800829 GATTATGCCTTAAGGTTTTAGAAATTATGCACGGAGGTCC
193 GATTATGCCTTAAGGTTTTAGAAATTATGCACGGAGGTCC
* * * *
8800869 TACAAATTTTGATATTTTTGAATGCTCTTTCCAATTAGAGGCATTGAAACTTTAAAAATTTAAAA
1 TACAAATCTTGATATCTTTGAATGCTCTTCCCAATAAGAGGCATTGAAACTTTAAAAATTTAAAA
* * * * *
8800934 TGTTTTACCGAGAGATCTTAGAGATTATGCTTGAAGGTTTTACAAATCTTGATATCTTTGAATAT
66 TGTTTTACCGAGAGATCTTAGAGATTATACTTGAAGGTCTTACAAATCTCGATATATTTGAATAC
* * * * * * *
8800999 TCCTTTCAATTAGAGGCATTGAAACTTTGAAAATTTAAAATGTTTTGCCAAGAGGTCTTGGAGAT
131 TCATCTCAATTAAAGGCATTGAAACTTTAAAAATTTAAAATATTTTCCCAAGAGGTCTTAGAGAT
8801064 TATG
196 TATG
8801068 TTTGAAGGTC
Statistics
Matches: 170, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
231 6 0.04
232 163 0.96
233 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (232 bp):
TACAAATCTTGATATCTTTGAATGCTCTTCCCAATAAGAGGCATTGAAACTTTAAAAATTTAAAA
TGTTTTACCGAGAGATCTTAGAGATTATACTTGAAGGTCTTACAAATCTCGATATATTTGAATAC
TCATCTCAATTAAAGGCATTGAAACTTTAAAAATTTAAAATATTTTCCCAAGAGGTCTTAGAGAT
TATGCCTTAAGGTTTTAGAAATTATGCACGGAGGTCC
Found at i:8800940 original size:127 final size:127
Alignment explanation
Indices: 8800734--8800980 Score: 354
Period size: 127 Copynumber: 1.9 Consensus size: 127
8800724 GATTATATTT
* *
8800734 GGAGGTCTTACAAATCTCGATATATTTGAATGCTCATCCTAATTAAAGGTATTGAAACTTTAAAA
1 GGAGGTCCTACAAATCTCGATATATTTGAATGCTCATCCTAATTAAAGGCATTGAAACTTTAAAA
* *
8800799 ATTTAAAATATTTTACCCAAAGGTCTTAGAGATTATGCCTT-AAGGTTTTAGAAATTATGCAC
66 ATTTAAAATATTTTACCCAAAGATCTTAGAGATTATG-CTTGAAGGTTTTACAAATTATGCAC
* * * * *
8800861 GGAGGTCCTACAAATTTTGATATTTTTGAATGCTCTTTCC-AATTAGAGGCATTGAAACTTTAAA
1 GGAGGTCCTACAAATCTCGATATATTTGAATGCTC-ATCCTAATTAAAGGCATTGAAACTTTAAA
* * *
8800925 AATTTAAAATGTTTTACCGAGAGATCTTAGAGATTATGCTTGAAGGTTTTACAAAT
65 AATTTAAAATATTTTACCCAAAGATCTTAGAGATTATGCTTGAAGGTTTTACAAAT
8800981 CTTGATATCT
Statistics
Matches: 106, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
126 3 0.03
127 100 0.94
128 3 0.03
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (127 bp):
GGAGGTCCTACAAATCTCGATATATTTGAATGCTCATCCTAATTAAAGGCATTGAAACTTTAAAA
ATTTAAAATATTTTACCCAAAGATCTTAGAGATTATGCTTGAAGGTTTTACAAATTATGCAC
Found at i:8801032 original size:105 final size:103
Alignment explanation
Indices: 8800863--8801175 Score: 394
Period size: 105 Copynumber: 3.0 Consensus size: 103
8800853 TTATGCACGG
* * *
8800863 AGGTCCTACAAATTTTGATATTTTTGAATGCTCTTTCCAATTAGAGGCATTGAAACTTTAAAAAT
1 AGGTCTTACAAATCTTGATATCTTTGAATGCTCTTT-CAATTAGAGGCATTGAAACTTT-AAAAT
* * * *
8800928 TTAAAATGTTTTACCGAGAGATCTTAGAGATTATGCTTGA
64 TTAAAATGTTTTGCCAAGAGGTCTTGGAGATTATGCTTGA
* **
8800968 AGGTTTTACAAATCTTGATATCTTTGAATATTCCTTTCAATTAGAGGCATTGAAACTTTGAAAAT
1 AGGTCTTACAAATCTTGATATCTTTGAATGCT-CTTTCAATTAGAGGCATTGAAACTTT-AAAAT
*
8801033 TTAAAATGTTTTGCCAAGAGGTCTTGGAGATTATGTTTGA
64 TTAAAATGTTTTGCCAAGAGGTCTTGGAGATTATGCTTGA
* * * * *
8801073 AGGTCTTACAAATCTCGATATCTTTGAATGCTCTTACAAATCAAAAGCATTGAAACTTTAAAATT
1 AGGTCTTACAAATCTTGATATCTTTGAATGCTCTTTC-AATTAGAGGCATTGAAACTTTAAAA-T
* **
8801138 TTAAAATATTTTGCCTTGAGGTCTTGGAGATTAT-CTTG
64 TTAAAATGTTTTGCCAAGAGGTCTTGGAGATTATGCTTG
8801176 GGTGCCAGCT
Statistics
Matches: 181, Mismatches: 24, Indels: 7
0.85 0.11 0.03
Matches are distributed among these distances:
104 11 0.06
105 166 0.92
106 4 0.02
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (103 bp):
AGGTCTTACAAATCTTGATATCTTTGAATGCTCTTTCAATTAGAGGCATTGAAACTTTAAAATTT
AAAATGTTTTGCCAAGAGGTCTTGGAGATTATGCTTGA
Found at i:8801384 original size:23 final size:22
Alignment explanation
Indices: 8801344--8801393 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
8801334 AGTTGATCTG
*
8801344 GGCTTAGATGCCAACTAACCTA
1 GGCTTAAATGCCAACTAACCTA
* * *
8801366 GGCTTAAAGTGCCAGCTAATCTG
1 GGCTTAAA-TGCCAACTAACCTA
8801389 GGCTT
1 GGCTT
8801394 GGGTGCCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (22 bp):
GGCTTAAATGCCAACTAACCTA
Done.