Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167949.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_21, 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: 19848060
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Warning! 113000 characters in sequence are not A, C, G, or T
File 40 of 138
Found at i:8846918 original size:29 final size:29
Alignment explanation
Indices: 8846863--8846919 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
8846853 CTTGTAATTT
**
8846863 TTTTTATTTCATTATTTTGTTTATTATTC
1 TTTTTATTTCATTATTTCATTTATTATTC
*
8846892 TTTTTACTTTTATTATTTCATTT-TTATT
1 TTTTTA-TTTCATTATTTCATTTATTATT
8846920 TTATTTTGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 11 0.46
30 13 0.54
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.74
Consensus pattern (29 bp):
TTTTTATTTCATTATTTCATTTATTATTC
Found at i:8847124 original size:20 final size:20
Alignment explanation
Indices: 8847101--8847141 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
8847091 AATAAAATAC
8847101 AAAAAAAGAAATAAAAAATT
1 AAAAAAAGAAATAAAAAATT
* * *
8847121 AAAAATATATATAAAAAATT
1 AAAAAAAGAAATAAAAAATT
8847141 A
1 A
8847142 GTTAAAAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (20 bp):
AAAAAAAGAAATAAAAAATT
Found at i:8847891 original size:11 final size:11
Alignment explanation
Indices: 8847877--8847908 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
8847867 TGAAAATTCA
8847877 AAAAAAATAAG
1 AAAAAAATAAG
*
8847888 AAAAATATAAG
1 AAAAAAATAAG
8847899 AAAAAAATAA
1 AAAAAAATAA
8847909 TTATAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.12
Consensus pattern (11 bp):
AAAAAAATAAG
Found at i:8851798 original size:36 final size:36
Alignment explanation
Indices: 8851756--8851826 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
8851746 TTTATTTATT
8851756 ATTAATTAAGAGTAA-ACTTGAATTTTAAAATAAATA
1 ATTAATTAAGAGTAACA-TTGAATTTTAAAATAAATA
*
8851792 ATTAATTAAGAGTAACATTGAATTTTAAATTAAAT
1 ATTAATTAAGAGTAACATTGAATTTTAAAATAAAT
8851827 TCTTATTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
36 32 0.97
37 1 0.03
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (36 bp):
ATTAATTAAGAGTAACATTGAATTTTAAAATAAATA
Found at i:8851875 original size:17 final size:17
Alignment explanation
Indices: 8851853--8851897 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
8851843 TTTGATAAAA
8851853 ATTTTAAATAAATGGAT
1 ATTTTAAATAAATGGAT
**
8851870 ATTTTAACATATTTGGAT
1 ATTTTAA-ATAAATGGAT
8851888 A-TTTAAATAA
1 ATTTTAAATAA
8851898 TAATACTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 3 0.12
17 12 0.50
18 9 0.38
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.44
Consensus pattern (17 bp):
ATTTTAAATAAATGGAT
Found at i:8854032 original size:27 final size:27
Alignment explanation
Indices: 8853979--8854033 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
8853969 CATTCTTGTA
*
8853979 TTCATTGTATATGAAAAAAATATCATT
1 TTCATTGTATATGAAAAAAATAGCATT
*
8854006 TTCATTGTATAT-AACAAAATAAGCATT
1 TTCATTGTATATGAAAAAAAT-AGCATT
8854033 T
1 T
8854034 GCTATTCTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 7 0.28
27 18 0.72
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (27 bp):
TTCATTGTATATGAAAAAAATAGCATT
Found at i:8855901 original size:116 final size:115
Alignment explanation
Indices: 8855699--8856135 Score: 630
Period size: 116 Copynumber: 3.8 Consensus size: 115
8855689 TTGTACAAGA
*
8855699 AAAATTGATACTTTCAACTTTTCCCCAAAA-TATTTTTTAGAAACTTTTAATTTCGAGAAAAATT
1 AAAATTGATACTTTCAACTTTTTCCCAAAATTATTTTTTA-AAACTTTTAATTTCGAGAAAAATT
*
8855763 GATACTTTCAACTTTTCCTCAAAACTCTTTTTTGAAAATTTATTTTTAAGG
65 GATACTTTCAACTTTTCCTCAAAACCCTTTTTTGAAAATTTATTTTTAAGG
*
8855814 AAAATTAATACTTTCAAC-TTTTCCCTAAAATTATTTTTTGAAAACTTTTAATTTC-AGGAAAAA
1 AAAATTGATACTTTCAACTTTTTCCC-AAAATTATTTTTT-AAAACTTTTAATTTCGA-GAAAAA
8855877 TTGATACTTTCAACTTTTCCTCAAAACCCTTTTTTTGAAAATTTATTTTTAAGG
63 TTGATACTTTCAACTTTTCCTCAAAACCC-TTTTTTGAAAATTTATTTTTAAGG
* * * * ** *
8855931 AAAATTGATACTTTTAACTTTTTTCCAAAAATATTTTTTGGAAACTTTTAATTTTAAGGAAAATT
1 AAAATTGATACTTTCAACTTTTTCCCAAAATTATTTTTT-AAAACTTTTAATTTCGAGAAAAATT
*
8855996 GATACTTTCAACTTTTCTTCAAAACCCTTTTTTGAAAATTTATTTTTAAGG
65 GATACTTTCAACTTTTCCTCAAAACCCTTTTTTGAAAATTTATTTTTAAGG
* * **
8856047 AAAATTGATACTTTCAACTTTTTTTCAAAAATATATTTTTTTTAA-TTTTAATTTCGAGAAAAAT
1 AAAATTGATACTTTCAAC-TTTTTCCCAAAAT-TATTTTTTAAAACTTTTAATTTCGAGAAAAAT
*
8856111 TGATACTTTCAATTTTTCCTCAAAA
64 TGATACTTTCAACTTTTCCTCAAAA
8856136 ATATTTTTTT
Statistics
Matches: 292, Mismatches: 21, Indels: 17
0.88 0.06 0.05
Matches are distributed among these distances:
114 6 0.02
115 22 0.08
116 136 0.47
117 113 0.39
118 15 0.05
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.45
Consensus pattern (115 bp):
AAAATTGATACTTTCAACTTTTTCCCAAAATTATTTTTTAAAACTTTTAATTTCGAGAAAAATTG
ATACTTTCAACTTTTCCTCAAAACCCTTTTTTGAAAATTTATTTTTAAGG
Found at i:8856132 original size:233 final size:232
Alignment explanation
Indices: 8855699--8856135 Score: 673
Period size: 233 Copynumber: 1.9 Consensus size: 232
8855689 TTGTACAAGA
* *
8855699 AAAATTGATACTTTCAACTTTTCCCCAAAATATTTTTTAGAAACTTTTAATTTCGAGAAAAATTG
1 AAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTAGAAACTTTTAATTTCAAGAAAAATTG
*
8855764 ATACTTTCAACTTTTCCTCAAAACTCTTTTTTGAAAATTTATTTTTAAGGAAAATTAATACTTTC
66 ATACTTTCAACTTTTCCTCAAAACCCTTTTTTGAAAATTTATTTTTAAGGAAAATTAATACTTTC
*
8855829 AACTTTTCCCTAAAATTATTTTTTGAAAACTTTTAATTTCAGGAAAAATTGATACTTTCAACTTT
131 AACTTTTCCCAAAAATTATTTTTTGAAAACTTTTAATTTCAGGAAAAATTGATACTTTCAACTTT
8855894 TCCTCAAAACCCTTTTTTTGAAAATTTATTTTTAAGG
196 TCCTCAAAACCCTTTTTTTGAAAATTTATTTTTAAGG
* * * * *
8855931 AAAATTGATACTTTTAACTTTTTTCCAAAAATATTTTTTGGAAACTTTTAATTTTAAGGAAAATT
1 AAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTAGAAACTTTTAATTTCAAGAAAAATT
* *
8855996 GATACTTTCAACTTTTCTTCAAAACCCTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTT
65 GATACTTTCAACTTTTCCTCAAAACCCTTTTTTGAAAATTTATTTTTAAGGAAAATTAATACTTT
** **
8856061 CAACTTTTTTTCAAAAATATATTTTTT-TTAA-TTTTAATTTC-GAGAAAAATTGATACTTTCAA
130 CAAC-TTTTCCCAAAAAT-TATTTTTTGAAAACTTTTAATTTCAG-GAAAAATTGATACTTTCAA
*
8856123 TTTTTCCTCAAAA
192 CTTTTCCTCAAAA
8856136 ATATTTTTTT
Statistics
Matches: 185, Mismatches: 16, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
232 18 0.10
233 147 0.79
234 12 0.06
235 8 0.04
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.45
Consensus pattern (232 bp):
AAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTAGAAACTTTTAATTTCAAGAAAAATTG
ATACTTTCAACTTTTCCTCAAAACCCTTTTTTGAAAATTTATTTTTAAGGAAAATTAATACTTTC
AACTTTTCCCAAAAATTATTTTTTGAAAACTTTTAATTTCAGGAAAAATTGATACTTTCAACTTT
TCCTCAAAACCCTTTTTTTGAAAATTTATTTTTAAGG
Found at i:8856145 original size:58 final size:58
Alignment explanation
Indices: 8855695--8856165 Score: 472
Period size: 59 Copynumber: 8.1 Consensus size: 58
8855685 GCTTTTGTAC
* * *
8855695 AAGAAAAATTGATACTTTCAACTTTTCC-CCAAAATATTTTTTAGAAACTTTTAATTTC
1 AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAA-TTTTAATTTT
* * * * *
8855753 GAGAAAAATTGATACTTTCAACTTTTCCTCAAAACT-CTTTTTTGAAAATTTATTTTT
1 AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAATTTTAATTTT
* * * *
8855810 AAGGAAAATTAATACTTTCAACTTTTCC-CTAAAAT-TATTTTTTGAAAACTTTTAATTTC
1 AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTTG-AAA-TTTTAATTTT
* *** * *
8855869 AGGAAAAATTGATACTTTCAACTTTTCCTCAAAACCCTTTTTTTGAAAATTTATTTTT
1 AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAATTTTAATTTT
* * * *
8855927 AAGGAAAATTGATACTTTTAACTTTT-TTCCAAAAATATTTTTTGGAAACTTTTAATTTT
1 AAGAAAAATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTTTGAAA-TTTTAATTTT
* * *** * *
8855986 AAGGAAAATTGATACTTTCAACTTTTCTTC-AAAACCCTTTTTTGAAAATTTATTTTT
1 AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAATTTTAATTTT
* ** ** *
8856043 AAGGAAAATTGATACTTTCAACTTTTTTTCAAAAATATATTTTTTTTAATTTTAATTTC
1 AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTTGAAATTTTAATTTT
* * *
8856102 GAGAAAAATTGATACTTTCAATTTTTCCTCAAAAATATTTTTTTTG-AATTTT-ATTTA
1 AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTGAAATTTTAATTTT
8856159 AAGAAAA
1 AAGAAAA
8856166 TAAAATAATA
Statistics
Matches: 341, Mismatches: 60, Indels: 25
0.80 0.14 0.06
Matches are distributed among these distances:
56 5 0.01
57 87 0.26
58 107 0.31
59 127 0.37
60 14 0.04
61 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (58 bp):
AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAATTTTAATTTT
Found at i:8856187 original size:22 final size:22
Alignment explanation
Indices: 8856157--8856238 Score: 56
Period size: 28 Copynumber: 3.3 Consensus size: 22
8856147 GAATTTTATT
*
8856157 TAAAGAAAATAAAATAATAAAA
1 TAAATAAAATAAAATAATAAAA
*
8856179 TAAATAAAAATAAAAATATTAAACAA
1 TAAAT-AAAAT-AAAATAAT-AA-AA
*
8856205 TCCTAATAATAATAATAATAAATAAAA
1 T--AAATAA-AATAA-AAT-AATAAAA
8856232 TAAATAA
1 TAAATAA
8856239 CTAAACGAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 15
0.70 0.08 0.23
Matches are distributed among these distances:
22 4 0.09
23 5 0.11
24 7 0.15
25 7 0.15
26 3 0.07
27 7 0.15
28 11 0.24
29 2 0.04
ACGTcount: A:0.71, C:0.04, G:0.01, T:0.24
Consensus pattern (22 bp):
TAAATAAAATAAAATAATAAAA
Found at i:8856196 original size:233 final size:231
Alignment explanation
Indices: 8855725--8856198 Score: 564
Period size: 233 Copynumber: 2.0 Consensus size: 231
8855715 ACTTTTCCCC
* *
8855725 AAAATATTTTTTAGAAACTTTTAATTTCGAGAAAAATTGATACTTTCAACTTTTCCTCAAAACTC
1 AAAATATTTTTTAGAAACTTTTAATTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAACCC
*
8855790 TTTTTTGAAAATTTATTTTTAAGGAAAATTAATACTTTCAACTTTTCCCTAAAATTATTTTTTGA
66 TTTTTTGAAAATTTATTTTTAAGGAAAATTAATACTTTCAACTTTTCCCAAAAATTATTTTTTGA
*
8855855 AAACTTTTAATTTCAGGAAAAATTGATACTTTCAACTTTTCCTCAAAACCCTTTTTTTGAAAATT
131 AAACTTTTAATTTCAGGAAAAATTGATACTTTCAACTTTTCCTCAAAACACTTTTTTTG-AAATT
* * ** * ** * ****
8855920 TATTTTTAAGGAAAATTGATACTTTTAACTTTTTTCCA
195 TATATTTAAAGAAAATAAATAATAATAAATAAAAT-CA
* * * *
8855958 AAAATATTTTTTGGAAACTTTTAATTTTAAGGAAAATTGATACTTTCAACTTTTCTTCAAAACCC
1 AAAATATTTTTTAGAAACTTTTAATTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAACCC
* **
8856023 TTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTTTTCAAAAATATATTTTTT
66 TTTTTTGAAAATTTATTTTTAAGGAAAATTAATACTTTCAAC-TTTTCCCAAAAAT-TATTTTTT
** * * *
8856088 -TTAA-TTTTAATTTC-GAGAAAAATTGATACTTTCAATTTTTCCTCAAAAATATTTTTTTTG-A
129 GAAAACTTTTAATTTCAG-GAAAAATTGATACTTTCAACTTTTCCTC-AAAACACTTTTTTTGAA
8856149 ATTT-TATTTAAAGAAAATAAAATAATAAAATAAATAAAAAT-A
192 ATTTATATTTAAAGAAAAT-AAATAAT--AATAAAT-AAAATCA
8856191 AAAATATT
1 AAAATATT
8856199 AAACAATCCT
Statistics
Matches: 205, Mismatches: 28, Indels: 16
0.82 0.11 0.06
Matches are distributed among these distances:
231 12 0.06
232 10 0.05
233 146 0.71
234 28 0.14
235 9 0.04
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.45
Consensus pattern (231 bp):
AAAATATTTTTTAGAAACTTTTAATTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAACCC
TTTTTTGAAAATTTATTTTTAAGGAAAATTAATACTTTCAACTTTTCCCAAAAATTATTTTTTGA
AAACTTTTAATTTCAGGAAAAATTGATACTTTCAACTTTTCCTCAAAACACTTTTTTTGAAATTT
ATATTTAAAGAAAATAAATAATAATAAATAAAATCA
Found at i:8856238 original size:13 final size:12
Alignment explanation
Indices: 8856163--8856234 Score: 51
Period size: 12 Copynumber: 5.9 Consensus size: 12
8856153 TATTTAAAGA
8856163 AAATAAAATAAT
1 AAATAAAATAAT
8856175 AAA-ATAAATAA-
1 AAATA-AAATAAT
*
8856186 AAATAAAAATATT
1 AAAT-AAAATAAT
* **
8856199 AAACAATCCTAAT
1 AAATAA-AATAAT
8856212 -AATAATAATAAT
1 AAATAA-AATAAT
8856224 AAATAAAATAA
1 AAATAAAATAA
8856235 ATAACTAAAC
Statistics
Matches: 46, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
11 4 0.09
12 30 0.65
13 12 0.26
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (12 bp):
AAATAAAATAAT
Found at i:8857183 original size:7 final size:8
Alignment explanation
Indices: 8857173--8857244 Score: 60
Period size: 8 Copynumber: 9.0 Consensus size: 8
8857163 ATAATAATGG
8857173 ATAAAT-T
1 ATAAATAT
8857180 AT-AATAT
1 ATAAATAT
*
8857187 ATAAATAG
1 ATAAATAT
8857195 ATAAATAAT
1 ATAAAT-AT
8857204 AATAAATAT
1 -ATAAATAT
* *
8857213 ATAACTAG
1 ATAAATAT
8857221 ATAAATA-
1 ATAAATAT
*
8857228 AAAATATAT
1 ATAA-ATAT
8857237 ATAAATAT
1 ATAAATAT
8857245 TAACAGAAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
6 3 0.06
7 8 0.15
8 29 0.56
9 6 0.12
10 6 0.12
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.33
Consensus pattern (8 bp):
ATAAATAT
Found at i:8857197 original size:22 final size:22
Alignment explanation
Indices: 8857150--8857237 Score: 72
Period size: 22 Copynumber: 3.9 Consensus size: 22
8857140 AAAAATTAAC
*
8857150 AGATAAATTA-AAAATA-ATAAT
1 AGATAAATTATAATATATA-AAT
*
8857171 GGATAAATTATAATATATAAAT
1 AGATAAATTATAATATATAAAT
*
8857193 AGATAAATAATAATAAATATATAACT
1 AGATAAAT--T-AT-AATATATAAAT
* *
8857219 AGATAAATAAAAATATATA
1 AGATAAATTATAATATATA
8857238 TAAATATTAA
Statistics
Matches: 55, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
21 9 0.16
22 23 0.42
23 2 0.04
24 1 0.02
25 2 0.04
26 18 0.33
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.31
Consensus pattern (22 bp):
AGATAAATTATAATATATAAAT
Found at i:8857211 original size:26 final size:24
Alignment explanation
Indices: 8857182--8857243 Score: 88
Period size: 26 Copynumber: 2.5 Consensus size: 24
8857172 GATAAATTAT
8857182 AATATATAAATAGATAAATAATAATA
1 AATATATAAATAGATAAATAA-AA-A
*
8857208 AATATATAACTAGATAAATAAAAA
1 AATATATAAATAGATAAATAAAAA
*
8857232 TATATATAAATA
1 AATATATAAATA
8857244 TTAACAGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 11 0.33
25 2 0.06
26 20 0.61
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.31
Consensus pattern (24 bp):
AATATATAAATAGATAAATAAAAA
Found at i:8857357 original size:7 final size:7
Alignment explanation
Indices: 8857345--8857394 Score: 59
Period size: 7 Copynumber: 7.4 Consensus size: 7
8857335 AGGAAAATAT
8857345 ATATAAA
1 ATATAAA
8857352 ATATAAA
1 ATATAAA
8857359 ATA-AAA
1 ATATAAA
*
8857365 ATA-AAG
1 ATATAAA
*
8857371 ATAAAAA
1 ATATAAA
8857378 ATATAAA
1 ATATAAA
*
8857385 ATACAAA
1 ATATAAA
8857392 ATA
1 ATA
8857395 AAAGCAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
6 11 0.29
7 27 0.71
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (7 bp):
ATATAAA
Found at i:8858487 original size:17 final size:18
Alignment explanation
Indices: 8858456--8858509 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
8858446 TTTAATAAAA
*
8858456 TAAAATATCATAATTATT
1 TAAAATAGCATAATTATT
*
8858474 TAAAATAG-ATAATT-GT
1 TAAAATAGCATAATTATT
*
8858490 TCAAATAGTCATAATTATT
1 TAAAATAG-CATAATTATT
8858509 T
1 T
8858510 TAACAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
16 8 0.28
17 6 0.21
18 13 0.45
19 2 0.07
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.43
Consensus pattern (18 bp):
TAAAATAGCATAATTATT
Found at i:8858782 original size:35 final size:35
Alignment explanation
Indices: 8858736--8858805 Score: 108
Period size: 35 Copynumber: 2.0 Consensus size: 35
8858726 AATTTTCTAA
8858736 CATAAACTTCTAT-AGATACTAACA-AAAGATCTTCT
1 CATAAACTTCTATGA-ATACTAA-AGAAAGATCTTCT
8858771 CATAAACTTCTATGAATACTAAAGAAAGATCTTCT
1 CATAAACTTCTATGAATACTAAAGAAAGATCTTCT
8858806 ACAATATTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
34 1 0.03
35 31 0.94
36 1 0.03
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (35 bp):
CATAAACTTCTATGAATACTAAAGAAAGATCTTCT
Found at i:8860051 original size:28 final size:28
Alignment explanation
Indices: 8859996--8860056 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
8859986 CTAAACTATA
8859996 ATAAAATATTTAATGTAGTATCTAAATT
1 ATAAAATATTTAATGTAGTATCTAAATT
* * * *
8860024 TTAAAATATTTTATGT-GATATTTGAATT
1 ATAAAATATTTAATGTAG-TATCTAAATT
8860052 ATAAA
1 ATAAA
8860057 TCTATTAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
27 1 0.04
28 26 0.96
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.46
Consensus pattern (28 bp):
ATAAAATATTTAATGTAGTATCTAAATT
Found at i:8863988 original size:15 final size:15
Alignment explanation
Indices: 8863970--8864028 Score: 52
Period size: 15 Copynumber: 4.1 Consensus size: 15
8863960 TAAAATAAAA
8863970 TAATATTATTTAATT
1 TAATATTATTTAATT
*
8863985 TAATCTTATTT-A--
1 TAATATTATTTAATT
*
8863997 TAATATTATTTTATT
1 TAATATTATTTAATT
* *
8864012 TTATCTTATTATAATT
1 TAATATTATT-TAATT
8864028 T
1 T
8864029 TATAAATTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
12 10 0.29
13 1 0.03
14 1 0.03
15 18 0.51
16 5 0.14
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (15 bp):
TAATATTATTTAATT
Found at i:8864001 original size:27 final size:26
Alignment explanation
Indices: 8863969--8864031 Score: 90
Period size: 27 Copynumber: 2.4 Consensus size: 26
8863959 ATAAAATAAA
8863969 ATAATATTATTTAATTTAATCTTATTT
1 ATAATATTATTTAATTTAATCTTA-TT
* *
8863996 ATAATATTATTTTATTTTATCTTATT
1 ATAATATTATTTAATTTAATCTTATT
*
8864022 ATAATTTTAT
1 ATAATATTAT
8864032 AAATTAAACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 11 0.33
27 22 0.67
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (26 bp):
ATAATATTATTTAATTTAATCTTATT
Found at i:8864143 original size:15 final size:14
Alignment explanation
Indices: 8864122--8864169 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
8864112 AGATTTAAAA
8864122 AATTTTTAAATTTT
1 AATTTTTAAATTTT
*
8864136 AGATTTTTAAAATTT
1 A-ATTTTTAAATTTT
*
8864151 ATTTTTTGAAATTTT
1 AATTTTT-AAATTTT
8864166 AATT
1 AATT
8864170 AAAAATAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 6 0.21
15 22 0.79
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (14 bp):
AATTTTTAAATTTT
Found at i:8865333 original size:21 final size:22
Alignment explanation
Indices: 8865303--8865348 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
8865293 TATAAATTTT
8865303 TTTAGTTTTTAAAAATATTAAA
1 TTTAGTTTTTAAAAATATTAAA
* * *
8865325 TTTA-TTTTTCAATATTTTAAA
1 TTTAGTTTTTAAAAATATTAAA
8865346 TTT
1 TTT
8865349 TTTATTTCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (22 bp):
TTTAGTTTTTAAAAATATTAAA
Found at i:8865350 original size:46 final size:45
Alignment explanation
Indices: 8865295--8865396 Score: 109
Period size: 46 Copynumber: 2.2 Consensus size: 45
8865285 TTAAATTTTA
* *
8865295 TAAATTTTTT-TAGT-TTTTAAAAATATTAAATTTATTTTTCAATATTT
1 TAAATTTTTTAT-GTATTTTAAAAAAATT---TTTATTTTTCAAAATTT
*
8865342 TAAATTTTTTATTTCATTTTAAAAAAATTTTTATTTTTCAAAATTT
1 TAAATTTTTTATGT-ATTTTAAAAAAATTTTTATTTTTCAAAATTT
*
8865388 AAAATTTTT
1 TAAATTTTT
8865397 ATTATAAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
46 24 0.50
47 11 0.23
48 1 0.02
49 12 0.25
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (45 bp):
TAAATTTTTTATGTATTTTAAAAAAATTTTTATTTTTCAAAATTT
Found at i:8865395 original size:22 final size:22
Alignment explanation
Indices: 8865302--8865395 Score: 54
Period size: 22 Copynumber: 4.2 Consensus size: 22
8865292 TTATAAATTT
*
8865302 TTTTAGTTTTTAAAAATATT-AAA
1 TTTTA-TTTTTCAAAAT-TTAAAA
* *
8865325 -TTTATTTTTCAATATTTTAAA
1 TTTTATTTTTCAAAATTTAAAA
*
8865346 TTTT-TTATTTC--ATTTTAAAAAAA
1 TTTTATT-TTTCAAAATTT---AAAA
8865369 TTTTTATTTTTCAAAATTTAAAA
1 -TTTTATTTTTCAAAATTTAAAA
8865392 TTTT
1 TTTT
8865396 TATTATAAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 21
0.67 0.07 0.26
Matches are distributed among these distances:
20 5 0.09
21 14 0.25
22 15 0.27
23 7 0.13
24 8 0.15
25 2 0.04
26 4 0.07
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (22 bp):
TTTTATTTTTCAAAATTTAAAA
Found at i:8865407 original size:23 final size:23
Alignment explanation
Indices: 8865365--8865412 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
8865355 TCATTTTAAA
* ** *
8865365 AAAATTTTTATTTTTCAAAATTT
1 AAAATTTTTATTATAAAAAAATT
8865388 AAAATTTTTATTATAAAAAAATT
1 AAAATTTTTATTATAAAAAAATT
8865411 AA
1 AA
8865413 TTTTATTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
AAAATTTTTATTATAAAAAAATT
Found at i:8873528 original size:24 final size:23
Alignment explanation
Indices: 8873483--8873528 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
8873473 CTTTTTGCAT
* *
8873483 CATTATGAGGTTTGAGCGAGAAC
1 CATTATGAGGATTGAGAGAGAAC
*
8873506 CATTAATGAGGATTGAGATAGAA
1 CATT-ATGAGGATTGAGAGAGAA
8873529 GCTGTTGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.37, C:0.09, G:0.28, T:0.26
Consensus pattern (23 bp):
CATTATGAGGATTGAGAGAGAAC
Found at i:8873971 original size:18 final size:18
Alignment explanation
Indices: 8873938--8873973 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8873928 ATTTGAAATT
* *
8873938 TTAAAAATACATAAAAAA
1 TTAAAAATAAAAAAAAAA
8873956 TTAAAAATAAAAAAAAAA
1 TTAAAAATAAAAAAAAAA
8873974 ACATTGTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (18 bp):
TTAAAAATAAAAAAAAAA
Found at i:8875237 original size:1 final size:1
Alignment explanation
Indices: 8875231--8875257 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
8875221 TAGATATTGC
8875231 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
8875258 GGGGGGGGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:8878248 original size:19 final size:19
Alignment explanation
Indices: 8878221--8878257 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
8878211 ATTAAATGAT
8878221 AATTATATATTGAACATAA
1 AATTATATATTGAACATAA
* *
8878240 AATTGTATATTGTACATA
1 AATTATATATTGAACATA
8878258 TAACATAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (19 bp):
AATTATATATTGAACATAA
Found at i:8878396 original size:30 final size:29
Alignment explanation
Indices: 8878328--8878396 Score: 70
Period size: 30 Copynumber: 2.3 Consensus size: 29
8878318 TCAATTTTTT
*
8878328 TTTATACAAGTCTTTATATTCTTATTGTA
1 TTTATATAAGTCTTTATATTCTTATTGTA
* *
8878357 TTCAAATAAGT-TTT-TATTCTTTCATTTGTA
1 TTTATATAAGTCTTTATATTC-TT-A-TTGTA
8878387 TTTATATAAG
1 TTTATATAAG
8878397 GCCTTACTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
27 5 0.16
28 5 0.16
29 9 0.28
30 13 0.41
ACGTcount: A:0.29, C:0.09, G:0.07, T:0.55
Consensus pattern (29 bp):
TTTATATAAGTCTTTATATTCTTATTGTA
Found at i:8878461 original size:30 final size:30
Alignment explanation
Indices: 8878426--8878533 Score: 108
Period size: 30 Copynumber: 3.5 Consensus size: 30
8878416 ATTAAATTAT
8878426 ATTAAAGGTTTATTTAAATACAAATTAAAA
1 ATTAAAGGTTTATTTAAATACAAATTAAAA
* **
8878456 ATTAAAAGTTTATTTGTATACAAATTAAAA
1 ATTAAAGGTTTATTTAAATACAAATTAAAA
* * ** * *
8878486 GTTAATGACTTATTTAGATATAAATTAAAA
1 ATTAAAGGTTTATTTAAATACAAATTAAAA
*
8878516 GTTAAGAGAGTTTATTTA
1 ATTAA-AG-GTTTATTTA
8878534 GATATAATAA
Statistics
Matches: 62, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
30 54 0.87
31 1 0.02
32 7 0.11
ACGTcount: A:0.47, C:0.03, G:0.10, T:0.40
Consensus pattern (30 bp):
ATTAAAGGTTTATTTAAATACAAATTAAAA
Found at i:8878882 original size:18 final size:15
Alignment explanation
Indices: 8878850--8878881 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
8878840 TACTAAATTC
8878850 ATAATAAAAAATATT
1 ATAATAAAAAATATT
8878865 ATAATAAAAAATATT
1 ATAATAAAAAATATT
8878880 AT
1 AT
8878882 TTATCTTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
ATAATAAAAAATATT
Found at i:8883628 original size:28 final size:28
Alignment explanation
Indices: 8883588--8883643 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
8883578 TCCAGAGTTA
*
8883588 AGCACAGACACTTTCAAGTTAGTAACAT
1 AGCACAGACACTTCCAAGTTAGTAACAT
*
8883616 AGCACAGACACTTCCAAGTTAGTGACAT
1 AGCACAGACACTTCCAAGTTAGTAACAT
8883644 GGTACTCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.23
Consensus pattern (28 bp):
AGCACAGACACTTCCAAGTTAGTAACAT
Found at i:8891791 original size:2 final size:2
Alignment explanation
Indices: 8891784--8891821 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
8891774 AAGCAGGTTC
8891784 AT AT AT 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 AT AT AT
8891822 TTTTAATTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8892867 original size:11 final size:10
Alignment explanation
Indices: 8892782--8892867 Score: 59
Period size: 11 Copynumber: 8.1 Consensus size: 10
8892772 CTCTCTCTTA
8892782 TTTATTTATTT
1 TTTA-TTATTT
*
8892793 ATTATTATTT
1 TTTATTATTT
8892803 TATTATTATTT
1 T-TTATTATTT
8892814 TTCGT-TTA-TT
1 TT--TATTATTT
8892824 TTTATTATTT
1 TTTATTATTT
**
8892834 GCTATTATATT
1 TTTATTAT-TT
*
8892845 GTTATTATTTT
1 TTTATTA-TTT
8892856 TTTATTGATTT
1 TTTATT-ATTT
8892867 T
1 T
8892868 ATCTTTTCTT
Statistics
Matches: 61, Mismatches: 6, Indels: 16
0.73 0.07 0.19
Matches are distributed among these distances:
8 1 0.02
9 3 0.05
10 19 0.31
11 35 0.57
12 3 0.05
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.72
Consensus pattern (10 bp):
TTTATTATTT
Found at i:8893290 original size:20 final size:20
Alignment explanation
Indices: 8893265--8893307 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
8893255 AAAACCTAGA
8893265 TTTCGATGTACTTTTCCAGT
1 TTTCGATGTACTTTTCCAGT
8893285 TTTCGATGTACTTTTCCAGT
1 TTTCGATGTACTTTTCCAGT
8893305 TTT
1 TTT
8893308 TGGTTAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.14, C:0.19, G:0.14, T:0.53
Consensus pattern (20 bp):
TTTCGATGTACTTTTCCAGT
Found at i:8893936 original size:59 final size:60
Alignment explanation
Indices: 8893737--8894110 Score: 236
Period size: 60 Copynumber: 6.0 Consensus size: 60
8893727 CATTTTTTTA
* * * * *
8893737 TTTTCTTTAAAAT-TAAAGTTTTAAAAATATATATTTTTAAGG-GAAAGCTGAAAGTATCAAT
1 TTTTCTTGAAAATAAAAAGGTTT-AAAA-ATATATTTTT-AGGAAAAAGTTGAAAGTATCAAT
*
8893798 TTTT-TTAAAAATAAAAAAAGGGTTTTAAAAA-ATATTTTTA-GAAAAAGTTGAAAGTATCAAT
1 TTTTCTTGAAAAT--AAAAA-GG-TTTAAAAATATATTTTTAGGAAAAAGTTGAAAGTATCAAT
*
8893859 TTCTCTTGAAAATAAAAAGGTTTAAAAATATATTTTTAGGAAAAAGTTGAAAGTATCAAT
1 TTTTCTTGAAAATAAAAAGGTTTAAAAATATATTTTTAGGAAAAAGTTGAAAGTATCAAT
* * * *
8893919 TTTTCTTGGAAAT-AAAA-GTTTTAAAATAAAATTTTCAAAAAGTATTTTGAGGAAAAGTTGAAA
1 TTTTCTTGAAAATAAAAAGGTTTAAAAAT-ATATTTT-------TA----G-GAAAAAGTTGAAA
8893982 GTATCAAT
53 GTATCAAT
* * * * * * *
8893990 TTTT-TTAAAAATTAAAA--TTAAGAAAAAAACATTTTGAGG-AAAAGTTGAAAGTACCAAT
1 TTTTCTTGAAAATAAAAAGGTT--TAAAAATATATTTTTAGGAAAAAGTTGAAAGTATCAAT
* * *
8894048 TTTTCTTAAAAATAAAAA--TTATAAAAAAAAATATTTTAAGG-AAAAGTTGAAAGTATCAAT
1 TTTTCTTGAAAATAAAAAGGTT-T--AAAAATATATTTTTAGGAAAAAGTTGAAAGTATCAAT
8894108 TTT
1 TTT
8894111 CCTTATACAA
Statistics
Matches: 260, Mismatches: 25, Indels: 57
0.76 0.07 0.17
Matches are distributed among these distances:
58 40 0.15
59 36 0.14
60 82 0.32
61 25 0.10
62 15 0.06
63 4 0.02
64 6 0.02
65 3 0.01
66 2 0.01
70 9 0.03
71 34 0.13
72 4 0.02
ACGTcount: A:0.48, C:0.04, G:0.12, T:0.36
Consensus pattern (60 bp):
TTTTCTTGAAAATAAAAAGGTTTAAAAATATATTTTTAGGAAAAAGTTGAAAGTATCAAT
Found at i:8894024 original size:71 final size:71
Alignment explanation
Indices: 8893889--8894024 Score: 170
Period size: 71 Copynumber: 1.9 Consensus size: 71
8893879 TTTAAAAATA
* ** * *
8893889 TATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTTGGAAATAAAAGTTTTAAAATAAAATTTT
1 TATTTTGAGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAG-TTAAAAAAAAAATTTT
8893954 CAAAAAG
65 CAAAAAG
8893961 TATTTTGAGG-AAAAGTTGAAAGTATCAATTTTT-TTAAAAATTAAAA-TTAAGAAAAAAACATT
1 TATTTTGAGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAA-TAAAAGTTAA-AAAAAAA-ATT
8894023 TT
63 TT
8894025 GAGGAAAAGT
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
69 3 0.05
70 11 0.20
71 33 0.59
72 9 0.16
ACGTcount: A:0.47, C:0.04, G:0.12, T:0.38
Consensus pattern (71 bp):
TATTTTGAGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAGTTAAAAAAAAAATTTTC
AAAAAG
Found at i:8894079 original size:129 final size:129
Alignment explanation
Indices: 8893820--8894079 Score: 319
Period size: 129 Copynumber: 2.0 Consensus size: 129
8893810 AAAAAAAGGG
* * *
8893820 TTTTAAAAAATATTTTTAGAAAAAGTTGAAAGTATCAATTTCTCTTGAAAATAAAAAGGTTTAAA
1 TTTTAAAAAATATTTTGAGAAAAAGTTGAAAGTATCAATTTCTCTTAAAAATAAAAA-GTTGAAA
* * * * ** * * *
8893885 AATATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTTGGAAATAAAAGTTTTAAAATAAAA
65 AAAACATTTTGAGGAAAAAGTTGAAAGTACCAATTTTTCTTAAAAATAAAAATTATAAAAAAAAA
* * * *
8893950 TTTTCAAAAAGTATTTTGAGGAAAAGTTGAAAGTATCAATTT-TTTTAAAAATTAAAA-TTAAGA
1 TTTT-AAAAAATATTTTGAGAAAAAGTTGAAAGTATCAATTTCTCTTAAAAATAAAAAGTT--GA
8894013 AAAAAACATTTTGAGG-AAAAGTTGAAAGTACCAATTTTTCTTAAAAATAAAAATTATAAAAAAA
63 AAAAAACATTTTGAGGAAAAAGTTGAAAGTACCAATTTTTCTTAAAAATAAAAATTATAAAAAAA
8894077 AA
128 AA
8894079 T
1 T
8894080 ATTTTAAGGA
Statistics
Matches: 111, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
128 2 0.02
129 45 0.41
130 30 0.27
131 34 0.31
ACGTcount: A:0.50, C:0.04, G:0.11, T:0.35
Consensus pattern (129 bp):
TTTTAAAAAATATTTTGAGAAAAAGTTGAAAGTATCAATTTCTCTTAAAAATAAAAAGTTGAAAA
AAACATTTTGAGGAAAAAGTTGAAAGTACCAATTTTTCTTAAAAATAAAAATTATAAAAAAAAA
Found at i:8894100 original size:60 final size:59
Alignment explanation
Indices: 8893955--8894115 Score: 243
Period size: 60 Copynumber: 2.7 Consensus size: 59
8893945 TAAAATTTTC
* * *
8893955 AAAAAGTATTTTGAGGAAAAGTTGAAAGTATCAATTTTT-TTAAAAATTAAAATTAAGA
1 AAAAAATATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAATTAAAA
* *
8894013 AAAAAACATTTTGAGGAAAAGTTGAAAGTACCAATTTTTCTTAAAAATAAAAATTATAAA
1 AAAAAATATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAATTA-AAA
* *
8894073 AAAAAATATTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTA
1 AAAAAATATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTA
8894116 TACAAAAGCA
Statistics
Matches: 92, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
58 36 0.39
59 15 0.16
60 41 0.45
ACGTcount: A:0.50, C:0.05, G:0.12, T:0.33
Consensus pattern (59 bp):
AAAAAATATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAATTAAAA
Found at i:8900158 original size:52 final size:52
Alignment explanation
Indices: 8900072--8900175 Score: 181
Period size: 52 Copynumber: 2.0 Consensus size: 52
8900062 ATCACAGTCA
* *
8900072 AGTGTAAGAGTCATATCATAGCTAAAATCTTTATTGATAATGGCTCCACTAT
1 AGTGTAAGAGCCATATCATAGCTAAAATCCTTATTGATAATGGCTCCACTAT
*
8900124 AGTGTAAGAGCCATATCATAGCTAAAGTCCTTATTGATAATGGCTCCACTAT
1 AGTGTAAGAGCCATATCATAGCTAAAATCCTTATTGATAATGGCTCCACTAT
8900176 CAACATCTTA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (52 bp):
AGTGTAAGAGCCATATCATAGCTAAAATCCTTATTGATAATGGCTCCACTAT
Found at i:8904394 original size:60 final size:59
Alignment explanation
Indices: 8904330--8904496 Score: 185
Period size: 60 Copynumber: 2.8 Consensus size: 59
8904320 AGAAATTATT
* * * *
8904330 TTTTTAAGGAAAATTGATACTTTTAACTTTTCCTTAAAATGTTTTTCTTGATAATTTTTA
1 TTTTTAAGGAAAATTGATACTTTCAACTTTTCCTTAAAATGTTTTT-TTCAAAATTTTCA
* * * *
8904390 TTTTTAAGGAAAATTGGTACTTCCAATTTTTCCTCAAAA-GACTTTTTTTCAAAATTTTCA
1 TTTTTAAGGAAAATTGATACTTTCAACTTTTCCTTAAAATG--TTTTTTTCAAAATTTTCA
* * * *
8904450 -TTTTAAGGAAAATTGATTCCTTCAACTTTTCTTTAAAATATTTTTTT
1 TTTTTAAGGAAAATTGATACTTTCAACTTTTCCTTAAAATGTTTTTTT
8904497 TATTTTAAAA
Statistics
Matches: 88, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
58 7 0.08
59 32 0.36
60 44 0.50
61 5 0.06
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.50
Consensus pattern (59 bp):
TTTTTAAGGAAAATTGATACTTTCAACTTTTCCTTAAAATGTTTTTTTCAAAATTTTCA
Found at i:8904637 original size:11 final size:11
Alignment explanation
Indices: 8904621--8904689 Score: 84
Period size: 11 Copynumber: 5.9 Consensus size: 11
8904611 ATCATAAAGG
8904621 AAAAAAATACT
1 AAAAAAATACT
8904632 AAAAAAATACT
1 AAAAAAATACT
8904643 AAGAAAAATACT
1 AA-AAAAATACT
*
8904655 AAATAAATACT
1 AAAAAAATACT
*
8904666 AAATAAAATAAAT
1 AAA-AAAAT-ACT
8904679 AAATAAAATAC
1 AAA-AAAATAC
8904690 CATAGAAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
11 24 0.47
12 16 0.31
13 11 0.22
ACGTcount: A:0.71, C:0.07, G:0.01, T:0.20
Consensus pattern (11 bp):
AAAAAAATACT
Found at i:8904652 original size:23 final size:23
Alignment explanation
Indices: 8904623--8904709 Score: 90
Period size: 23 Copynumber: 3.7 Consensus size: 23
8904613 CATAAAGGAA
8904623 AAAAATACTAAAAAAATACTAAG
1 AAAAATACTAAAAAAATACTAAG
*
8904646 AAAAATACTAAATAAATACTAA-
1 AAAAATACTAAAAAAATACTAAG
* *
8904668 ATAAAATAAATAAATAAAATACCATAG
1 A-AAAAT-ACTAAA-AAAATACTA-AG
8904695 AAAAATA--AAAAAAAT
1 AAAAATACTAAAAAAAT
8904710 GGCTCGGCTG
Statistics
Matches: 55, Mismatches: 4, Indels: 11
0.79 0.06 0.16
Matches are distributed among these distances:
22 6 0.11
23 29 0.53
24 5 0.09
25 8 0.15
26 6 0.11
27 1 0.02
ACGTcount: A:0.71, C:0.07, G:0.02, T:0.20
Consensus pattern (23 bp):
AAAAATACTAAAAAAATACTAAG
Found at i:8905581 original size:4 final size:4
Alignment explanation
Indices: 8905574--8905622 Score: 50
Period size: 4 Copynumber: 13.0 Consensus size: 4
8905564 AAAAAAGAAA
* * *
8905574 AAAT AAAT AAAT -AAC AAAT -AAT ATAT AAA- AGAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
8905619 AAAT
1 AAAT
8905623 CTTTAGGCCT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
3 7 0.19
4 29 0.81
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:8905601 original size:14 final size:15
Alignment explanation
Indices: 8905574--8905616 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
8905564 AAAAAAGAAA
8905574 AAATAAATAAATAAC
1 AAATAAATAAATAAC
*
8905589 AAAT-AATATATAA-
1 AAATAAATAAATAAC
8905602 AAGATAAATAAATAA
1 AA-ATAAATAAATAA
8905617 ATAAATCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 2 0.08
14 10 0.42
15 12 0.50
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.23
Consensus pattern (15 bp):
AAATAAATAAATAAC
Found at i:8907711 original size:44 final size:44
Alignment explanation
Indices: 8907617--8907892 Score: 351
Period size: 44 Copynumber: 6.3 Consensus size: 44
8907607 GGTGCCTTTG
* * * *
8907617 TTTAGAGGAGTTTTGTTTATTT-TTCAAAGTCGTTAAGCCTCTG
1 TTTAGAGGAGCTTTGTTTATTTGTCCAAAGTCGTTGAGCCTCTA
* * * *
8907660 CTTAGAGGAGCTTTGTTTATTTGTCTAAAGTTGTTGAGTCTCTA
1 TTTAGAGGAGCTTTGTTTATTTGTCCAAAGTCGTTGAGCCTCTA
* * * *
8907704 TTTAGAGGAGCTTTGTTTATTT-TCCAAAGTCATTAAACCTCTG
1 TTTAGAGGAGCTTTGTTTATTTGTCCAAAGTCGTTGAGCCTCTA
* * *
8907747 CTTAGAGGAGCTTTGTTTATTTGTCCAAAGTTGTTGAGCCTCTG
1 TTTAGAGGAGCTTTGTTTATTTGTCCAAAGTCGTTGAGCCTCTA
* * *
8907791 TTTAAAGGAGCTTTGTTTATTT-TTCAAAGTCATTGAGCCTCTA
1 TTTAGAGGAGCTTTGTTTATTTGTCCAAAGTCGTTGAGCCTCTA
8907834 TTTAGAGGAGCTTTGTTTATTTGTCCAAAGTCGTTGAGCCTCTA
1 TTTAGAGGAGCTTTGTTTATTTGTCCAAAGTCGTTGAGCCTCTA
* *
8907878 ATTAGAAGAGCTTTG
1 TTTAGAGGAGCTTTG
8907893 ATCAAGATTT
Statistics
Matches: 198, Mismatches: 32, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
43 93 0.47
44 105 0.53
ACGTcount: A:0.22, C:0.14, G:0.21, T:0.43
Consensus pattern (44 bp):
TTTAGAGGAGCTTTGTTTATTTGTCCAAAGTCGTTGAGCCTCTA
Found at i:8907745 original size:87 final size:87
Alignment explanation
Indices: 8907599--8907892 Score: 426
Period size: 87 Copynumber: 3.4 Consensus size: 87
8907589 TTTACTTTCA
* * * * * *
8907599 AAAGTTGTGGTGCCTTTGTTTAGAGGAGTTTTGTTTATTTTTCAAAGTCGTTAAGCCTCTGCTTA
1 AAAGTTGTTGAGCCTCTATTTAGAGGAGCTTTGTTTATTTTTCAAAGTCATTAAGCCTCTGCTTA
*
8907664 GAGGAGCTTTGTTTATTTGTCT
66 GAGGAGCTTTGTTTATTTGTCC
* * *
8907686 AAAGTTGTTGAGTCTCTATTTAGAGGAGCTTTGTTTATTTTCCAAAGTCATTAAACCTCTGCTTA
1 AAAGTTGTTGAGCCTCTATTTAGAGGAGCTTTGTTTATTTTTCAAAGTCATTAAGCCTCTGCTTA
8907751 GAGGAGCTTTGTTTATTTGTCC
66 GAGGAGCTTTGTTTATTTGTCC
* * * **
8907773 AAAGTTGTTGAGCCTCTGTTTAAAGGAGCTTTGTTTATTTTTCAAAGTCATTGAGCCTCTATTTA
1 AAAGTTGTTGAGCCTCTATTTAGAGGAGCTTTGTTTATTTTTCAAAGTCATTAAGCCTCTGCTTA
8907838 GAGGAGCTTTGTTTATTTGTCC
66 GAGGAGCTTTGTTTATTTGTCC
* * *
8907860 AAAGTCGTTGAGCCTCTAATTAGAAGAGCTTTG
1 AAAGTTGTTGAGCCTCTATTTAGAGGAGCTTTG
8907893 ATCAAGATTT
Statistics
Matches: 184, Mismatches: 23, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 184 1.00
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.43
Consensus pattern (87 bp):
AAAGTTGTTGAGCCTCTATTTAGAGGAGCTTTGTTTATTTTTCAAAGTCATTAAGCCTCTGCTTA
GAGGAGCTTTGTTTATTTGTCC
Found at i:8908097 original size:3 final size:3
Alignment explanation
Indices: 8908091--8908168 Score: 83
Period size: 3 Copynumber: 26.7 Consensus size: 3
8908081 TATTTTTTAT
* *
8908091 TTA TTA TT- TTA TTA TT- TTA TTA TTA TTA TT- TTGT TTA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
*
8908134 TTA TTTA CTA TTA -TA TTA TTA TTA TTA TTA TTA TT
1 TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
8908169 TGATTGATTT
Statistics
Matches: 64, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
2 8 0.12
3 51 0.80
4 5 0.08
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:8908168 original size:39 final size:40
Alignment explanation
Indices: 8908090--8908169 Score: 110
Period size: 39 Copynumber: 2.0 Consensus size: 40
8908080 TTATTTTTTA
* * *
8908090 TTTATTATTTTATTATTTTATTATTATTATTTTGTTTATT
1 TTTATTATTTTACTATTATATTATTATTATTTTGATTATT
8908130 TTTATTA-TTTACTATTATATTATTATTATTATT-ATTATT
1 TTTATTATTTTACTATTATATTATTATTATT-TTGATTATT
8908169 T
1 T
8908170 GATTGATTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
39 27 0.75
40 9 0.25
ACGTcount: A:0.26, C:0.01, G:0.01, T:0.71
Consensus pattern (40 bp):
TTTATTATTTTACTATTATATTATTATTATTTTGATTATT
Found at i:8908180 original size:47 final size:46
Alignment explanation
Indices: 8908082--8908181 Score: 132
Period size: 47 Copynumber: 2.2 Consensus size: 46
8908072 CTCTTTTTTT
* * *
8908082 ATTTT-TTATTTATTATTTTATTATTTTATTATTATTATTTTGTTT
1 ATTTTATTATTTACTATTATATTATTTTATTATTATTATTTTGTTG
8908127 ATTTTTATTATTTACTATTATATTATTATTATTATTATTA-TTTGATTG
1 A-TTTTATTATTTACTATTATATTATT-TTATTATTATTATTTTG-TTG
8908175 ATTTTAT
1 ATTTTAT
8908182 CTTTTCTTGA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
45 1 0.02
46 4 0.08
47 28 0.58
48 15 0.31
ACGTcount: A:0.26, C:0.01, G:0.03, T:0.70
Consensus pattern (46 bp):
ATTTTATTATTTACTATTATATTATTTTATTATTATTATTTTGTTG
Found at i:8908878 original size:4 final size:4
Alignment explanation
Indices: 8908871--8908902 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
8908861 TTTTTTTTTC
8908871 ATTT ATTT ATTT ATTT ATTT ATTT ATTAT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATT-T ATT
8908903 ATTATTATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:8908989 original size:6 final size:6
Alignment explanation
Indices: 8908945--8908973 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
8908935 GTATTCCTTA
8908945 TTTTA- TTTTAT TTTTAT TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
8908974 ACATTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:8909057 original size:59 final size:58
Alignment explanation
Indices: 8908985--8909181 Score: 182
Period size: 60 Copynumber: 3.3 Consensus size: 58
8908975 CATTTTTTTT
* *
8908985 ATTTTCTTTAAAAT-TAAA-GTTTCAAAAAAAAAGTTTTTAAGGGAAAGTTAAAAGTATCA
1 ATTTTCTTGAAAATAAAAAGGTTT-AAAAAAAAA-TTTTT-AGGGAAAGTTAAAAGTATCA
* * *
8909044 ATTTTCTTGAAAATAAAAAAGGGTTTTAAAAAATATTTTTAGGGAAAGTTGAAAGTATCA
1 ATTTTCTTGAAAAT-AAAAA-GGTTTAAAAAAAAATTTTTAGGGAAAGTTAAAAGTATCA
* * * * * * **
8909104 ATTTCTGTTGACAATAAAAAGGTTTAAAAATATATTTTTAGGAAAAAGTTGAAAGTGCCA
1 ATTT-TCTTGAAAATAAAAAGGTTTAAAAAAAAATTTTTAGG-GAAAGTTAAAAGTATCA
* *
8909164 ATTTTCTTGGAAGTAAAA
1 ATTTTCTTGAAAATAAAA
8909182 TTTCTAAAAT
Statistics
Matches: 116, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
59 43 0.37
60 46 0.40
61 16 0.14
62 7 0.06
63 4 0.03
ACGTcount: A:0.45, C:0.05, G:0.15, T:0.35
Consensus pattern (58 bp):
ATTTTCTTGAAAATAAAAAGGTTTAAAAAAAAATTTTTAGGGAAAGTTAAAAGTATCA
Found at i:8909099 original size:60 final size:58
Alignment explanation
Indices: 8909009--8909181 Score: 195
Period size: 60 Copynumber: 2.9 Consensus size: 58
8908999 TAAAGTTTCA
* *
8909009 AAAAAAAAGTTTTTAAGGGAAAGTTAAAAGTATCAATTTTCTTGAAAATAAAAAAGGGTTTT
1 AAAAAATA-TTTTT-AGGGAAAGTTGAAAGTATCAATTTTCTTGAAAATAAAAAA-GG-TTT
* *
8909071 AAAAAATATTTTTAGGGAAAGTTGAAAGTATCAATTTCTGTTGACAAT-AAAAAGGTTT
1 AAAAAATATTTTTAGGGAAAGTTGAAAGTATCAATTT-TCTTGAAAATAAAAAAGGTTT
* ** * *
8909129 AAAAATATATTTTTAGGAAAAAGTTGAAAGTGCCAATTTTCTTGGAAGTAAAA
1 AAAAA-ATATTTTTAGG-GAAAGTTGAAAGTATCAATTTTCTTGAAAATAAAA
8909182 TTTCTAAAAT
Statistics
Matches: 96, Mismatches: 11, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
58 8 0.08
59 19 0.20
60 49 0.51
61 13 0.14
62 7 0.07
ACGTcount: A:0.46, C:0.05, G:0.17, T:0.33
Consensus pattern (58 bp):
AAAAAATATTTTTAGGGAAAGTTGAAAGTATCAATTTTCTTGAAAATAAAAAAGGTTT
Found at i:8909223 original size:69 final size:71
Alignment explanation
Indices: 8909129--8909264 Score: 179
Period size: 70 Copynumber: 1.9 Consensus size: 71
8909119 AAAAAGGTTT
* * ** *
8909129 AAAAATATATTTTTAGGAAAAAGTTGAAAGTGCCAA-TTTTCTTGGAAGTAAAATTTCTAAAATA
1 AAAAATATATTTTAAGGAAAAAGTTGAAAGTACCAATTTTTCTTAAAAGTAAAATTTC-AAAAAA
8909193 AATTTTC
65 AATTTTC
* *
8909200 AAAAAT-TATTTTAAGG-AAAAGTTGAAAGTATCAATTTTTCTTAAAATTAAAATTTCAAAAAAA
1 AAAAATATATTTTAAGGAAAAAGTTGAAAGTACCAATTTTTCTTAAAAGTAAAATTTCAAAAAAA
8909263 AT
66 AT
8909265 ATATTTTGAG
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
69 24 0.42
70 27 0.47
71 6 0.11
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (71 bp):
AAAAATATATTTTAAGGAAAAAGTTGAAAGTACCAATTTTTCTTAAAAGTAAAATTTCAAAAAAA
ATTTTC
Found at i:8909277 original size:60 final size:61
Alignment explanation
Indices: 8909200--8909357 Score: 207
Period size: 60 Copynumber: 2.6 Consensus size: 61
8909190 ATAAATTTTC
*
8909200 AAAAAT-TATTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTT-AAAATTAAAATT-TCAAA
1 AAAAATATATTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAATTATC-AA
* * *
8909259 AAAAATATATTTTGAGGAAAAGTTGGAAGTACCAATTTTTCTTAAAAATAAAAATTATCAA
1 AAAAATATATTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAATTATCAA
* * **
8909320 GAAAA-ACATTTTAAAAAAAAGTTGAAAGTATCAATTTT
1 AAAAATATATTTTAAGGAAAAGTTGAAAGTATCAATTTT
8909358 CCTTGTACAA
Statistics
Matches: 85, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
59 6 0.07
60 60 0.71
61 17 0.20
62 2 0.02
ACGTcount: A:0.50, C:0.06, G:0.10, T:0.34
Consensus pattern (61 bp):
AAAAATATATTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAATTATCAA
Found at i:8911413 original size:3 final size:3
Alignment explanation
Indices: 8911405--8911475 Score: 115
Period size: 3 Copynumber: 23.7 Consensus size: 3
8911395 TATAACTTGG
*
8911405 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TCA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
8911453 TCA TAA TCA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TA
8911476 TATGATTACT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:8916960 original size:57 final size:57
Alignment explanation
Indices: 8916898--8917109 Score: 261
Period size: 57 Copynumber: 3.7 Consensus size: 57
8916888 TTTGTACAGG
*
8916898 GAAAATTGATACTTTCAACTTTTTTCCAAAATATTTTTTAGAAGCTTTAATTTCGAA
1 GAAAATTGATACTTTCAACTTTTTCCCAAAATATTTTTTAGAAGCTTTAATTTCGAA
* * * * *
8916955 AAAAATTAATACTTTCAACTTTTCCCCAAAATATTTTTTAGAAACTTTAATTTCGAG
1 GAAAATTGATACTTTCAACTTTTTCCCAAAATATTTTTTAGAAGCTTTAATTTCGAA
*
8917012 GAAAATTGATACTTTCAAC-TTTTCCTCAAAGATATTTTTTTTCA-AAGC-TTATTTTC-AA
1 GAAAATTGATACTTTCAACTTTTTCC-CAAA-ATA--TTTTTT-AGAAGCTTTAATTTCGAA
*
8917070 GGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTT
1 -GAAAATTGATACTTTCAACTTTTTC-CCAAAATATTTTT
8917110 AAAAAATTTT
Statistics
Matches: 134, Mismatches: 13, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
56 5 0.04
57 77 0.57
58 4 0.03
59 29 0.22
60 17 0.13
61 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.43
Consensus pattern (57 bp):
GAAAATTGATACTTTCAACTTTTTCCCAAAATATTTTTTAGAAGCTTTAATTTCGAA
Found at i:8919197 original size:5 final size:5
Alignment explanation
Indices: 8919189--8919245 Score: 57
Period size: 5 Copynumber: 11.6 Consensus size: 5
8919179 TCGACACTTA
* *
8919189 TTTTG TTTTTG TTTTT TTTTC TCTTTG -TTT- TTTTG TTTTG TTTT- TTTTG
1 TTTTG -TTTTG TTTTG TTTTG T-TTTG TTTTG TTTTG TTTTG TTTTG TTTTG
8919238 TTTTG TTT
1 TTTTG TTT
8919246 GTTAAAATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
4 10 0.23
5 26 0.59
6 8 0.18
ACGTcount: A:0.00, C:0.04, G:0.12, T:0.84
Consensus pattern (5 bp):
TTTTG
Found at i:8919218 original size:22 final size:22
Alignment explanation
Indices: 8919190--8919245 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
8919180 CGACACTTAT
8919190 TTTGTTTTTGTTTTTT-TTTCTC
1 TTTGTTTTTGTTTTTTGTTT-TC
*
8919212 TTTGTTTTT-TTGTTTTGTTTTT
1 TTTGTTTTTGTT-TTTTGTTTTC
8919234 TTTG-TTTTGTTT
1 TTTGTTTTTGTTT
8919246 GTTAAAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
21 7 0.23
22 20 0.67
23 3 0.10
ACGTcount: A:0.00, C:0.04, G:0.12, T:0.84
Consensus pattern (22 bp):
TTTGTTTTTGTTTTTTGTTTTC
Found at i:8919219 original size:14 final size:13
Alignment explanation
Indices: 8919202--8919245 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
8919192 TGTTTTTGTT
8919202 TTTTTTTCTCTTTG
1 TTTTTTTCT-TTTG
*
8919216 TTTTTTTGTTTTG
1 TTTTTTTCTTTTG
*
8919229 TTTTTTTTGTTTTG
1 -TTTTTTTCTTTTG
8919243 TTT
1 TTT
8919246 GTTAAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 7 0.25
14 21 0.75
ACGTcount: A:0.00, C:0.05, G:0.11, T:0.84
Consensus pattern (13 bp):
TTTTTTTCTTTTG
Found at i:8919363 original size:44 final size:44
Alignment explanation
Indices: 8919260--8919480 Score: 275
Period size: 44 Copynumber: 5.0 Consensus size: 44
8919250 AAATTTTTAT
** * *
8919260 CAAAGCTTTTCTAAGCAGAGGCTTAACGAC-TTTGAGAAACATAAA
1 CAAAGCTCCTCTAATCAGAGGCTTAATGACTTTTGA-AAA-ATAAA
*
8919305 CAAAGCTCCTCTAATCAGAGGCTTAATAACTTTTGAAAAATAAA
1 CAAAGCTCCTCTAATCAGAGGCTTAATGACTTTTGAAAAATAAA
* * * *
8919349 TAAGGCTCCTCTAATCAGAGGCTCAATGACTTTTGGAAAATAAA
1 CAAAGCTCCTCTAATCAGAGGCTTAATGACTTTTGAAAAATAAA
* * **
8919393 CAAAGCTCTTCTAATCAGAGGCTTGACAACTTTTGAAAAATAAA
1 CAAAGCTCCTCTAATCAGAGGCTTAATGACTTTTGAAAAATAAA
*
8919437 CAAAGCTCCTCTAATCAGAGGCTCAATGA-TTTTGGAAAAATAAA
1 CAAAGCTCCTCTAATCAGAGGCTTAATGACTTTT-GAAAAATAAA
8919481 TGGCTCATCT
Statistics
Matches: 151, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
43 4 0.03
44 114 0.75
45 28 0.19
46 5 0.03
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.26
Consensus pattern (44 bp):
CAAAGCTCCTCTAATCAGAGGCTTAATGACTTTTGAAAAATAAA
Found at i:8919424 original size:88 final size:88
Alignment explanation
Indices: 8919260--8919480 Score: 311
Period size: 88 Copynumber: 2.5 Consensus size: 88
8919250 AAATTTTTAT
** * * *
8919260 CAAAGCTTTTCTAAGCAGAGGCTTAACGAC-TTTGAGAAACATAAACAAAGCTCCTCTAATCAGA
1 CAAAGCTCCTCTAATCAGAGGCTCAATGACTTTTG-GAAA-ATAAACAAAGCTCCTCTAATCAGA
*
8919324 GGCTTAATAACTTTTGAAAAATAAA
64 GGCTTAACAACTTTTGAAAAATAAA
* * *
8919349 TAAGGCTCCTCTAATCAGAGGCTCAATGACTTTTGGAAAATAAACAAAGCTCTTCTAATCAGAGG
1 CAAAGCTCCTCTAATCAGAGGCTCAATGACTTTTGGAAAATAAACAAAGCTCCTCTAATCAGAGG
*
8919414 CTTGACAACTTTTGAAAAATAAA
66 CTTAACAACTTTTGAAAAATAAA
8919437 CAAAGCTCCTCTAATCAGAGGCTCAATGA-TTTTGGAAAAATAAA
1 CAAAGCTCCTCTAATCAGAGGCTCAATGACTTTTGG-AAAATAAA
8919481 TGGCTCATCT
Statistics
Matches: 118, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
87 6 0.05
88 81 0.69
89 27 0.23
90 4 0.03
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.26
Consensus pattern (88 bp):
CAAAGCTCCTCTAATCAGAGGCTCAATGACTTTTGGAAAATAAACAAAGCTCCTCTAATCAGAGG
CTTAACAACTTTTGAAAAATAAA
Found at i:8919533 original size:41 final size:42
Alignment explanation
Indices: 8919309--8919517 Score: 130
Period size: 44 Copynumber: 4.8 Consensus size: 42
8919299 CATAAACAAA
* * * ** *
8919309 GCTCCTCTAATCAGAGGCTTAATAACTTTTGAAAAATAAATAAG
1 GCTCATCTAATCAAAGGCTCAACGACTTTAGAAAAATAAAT--G
* * * * * **
8919353 GCTCCTCTAATCAGAGGCTCAATGACTTTTGGAAAATAAACAAA
1 GCTCATCTAATCAAAGGCTCAACGACTTTAGAAAAAT-AA-ATG
* * ** * * **
8919397 GCTCTTCTAATCAGAGGCTTGACAACTTTTGAAAAATAAACAAA
1 GCTCATCTAATCAAAGGCTCAACGACTTTAGAAAAAT-AA-ATG
* * * * *
8919441 GCTCCTCTAATCAGAGGCTCAATGATTTTGGAAAAATAAATG
1 GCTCATCTAATCAAAGGCTCAACGACTTTAGAAAAATAAATG
8919483 GCTCATCTAATCAAAGGCTCAACGACTTTAGAAAA
1 GCTCATCTAATCAAAGGCTCAACGACTTTAGAAAA
8919518 TAAGTTGCTC
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
42 31 0.22
43 2 0.01
44 102 0.74
45 2 0.01
46 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (42 bp):
GCTCATCTAATCAAAGGCTCAACGACTTTAGAAAAATAAATG
Found at i:8919553 original size:42 final size:41
Alignment explanation
Indices: 8919506--8919610 Score: 113
Period size: 41 Copynumber: 2.5 Consensus size: 41
8919496 AAGGCTCAAC
* * * * *
8919506 GACTTTAGAAAATAAGTTGCTCTTCTAAACATAGGCAACTA
1 GACTTTAGAAAATAAATTGCTCCTCTAAACAGAAGCAACGA
* *
8919547 TGACTTT-GGAAGTAAATTGCTCCTCTAAACAGAAGCAACGA
1 -GACTTTAGAAAATAAATTGCTCCTCTAAACAGAAGCAACGA
*
8919588 AACTTTAGAAAAATAAATTGCTC
1 GACTTTAG-AAAATAAATTGCTC
8919611 ATTGACAATC
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
40 5 0.10
41 28 0.55
42 18 0.35
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (41 bp):
GACTTTAGAAAATAAATTGCTCCTCTAAACAGAAGCAACGA
Found at i:8920088 original size:20 final size:20
Alignment explanation
Indices: 8920051--8920089 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
8920041 CACATCTAAA
*
8920051 AGTTTAAAACTTTTCATTCT
1 AGTTTAAAACTTTACATTCT
8920071 AGTTTGAAAA-TTTACATTC
1 AGTTT-AAAACTTTACATTC
8920090 GATGAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (20 bp):
AGTTTAAAACTTTACATTCT
Found at i:8921377 original size:8 final size:8
Alignment explanation
Indices: 8921293--8921397 Score: 50
Period size: 8 Copynumber: 13.2 Consensus size: 8
8921283 TCTTTTTCTC
8921293 TTTTTTCA
1 TTTTTTCA
8921301 -TTTTTCA
1 TTTTTTCA
8921308 TTCTTTCTC-
1 TT-TTT-TCA
8921317 TTTTTTC-
1 TTTTTTCA
8921324 TTTTCTT--
1 TTTT-TTCA
8921331 TTTTTT-A
1 TTTTTTCA
8921338 TTATTTT-A
1 TT-TTTTCA
8921346 TTATTTT-A
1 TT-TTTTCA
*
8921354 TTTTTTTTA
1 -TTTTTTCA
8921363 TTGTTTTTCA
1 -T-TTTTTCA
8921373 TTTTTCTC-
1 TTTTT-TCA
8921381 TTTTTTCA
1 TTTTTTCA
8921389 -TTTTTCA
1 TTTTTTCA
8921396 TT
1 TT
8921398 CACTCACCCA
Statistics
Matches: 84, Mismatches: 1, Indels: 24
0.77 0.01 0.22
Matches are distributed among these distances:
6 2 0.02
7 28 0.33
8 33 0.39
9 13 0.15
10 8 0.10
ACGTcount: A:0.10, C:0.11, G:0.01, T:0.77
Consensus pattern (8 bp):
TTTTTTCA
Found at i:8921377 original size:25 final size:25
Alignment explanation
Indices: 8921324--8921386 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
8921314 CTCTTTTTTC
*
8921324 TTTTCTTTTTTTTATTATTTTATTA
1 TTTTCTTTTTTTTATTATTTTATCA
* *
8921349 TTTTATTTTTTTTATTGTTTT-TCA
1 TTTTCTTTTTTTTATTATTTTATCA
*
8921373 TTTTTCTCTTTTTT
1 -TTTTCTTTTTTTT
8921387 CATTTTTCAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 2 0.06
25 30 0.94
ACGTcount: A:0.11, C:0.06, G:0.02, T:0.81
Consensus pattern (25 bp):
TTTTCTTTTTTTTATTATTTTATCA
Found at i:8925508 original size:30 final size:29
Alignment explanation
Indices: 8925474--8925576 Score: 72
Period size: 30 Copynumber: 3.4 Consensus size: 29
8925464 TTTTTAGAAA
8925474 AACTTATTTTCAAGGAAAATTGATACTTTC
1 AACTT-TTTTCAAGGAAAATTGATACTTTC
* *
8925504 AACTTTTTCTCAA--AAATATT--T-TTTTAAAAA
1 AACTTTTT-TCAAGGAAA-ATTGATACTTT----C
8925534 AACTTATTTTCAAGGAAAATTGATACTTTC
1 AACTT-TTTTCAAGGAAAATTGATACTTTC
8925564 AACTTTTCTTCAA
1 AACTTTT-TTCAA
8925577 AAATATTTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 26
0.65 0.05 0.30
Matches are distributed among these distances:
26 3 0.05
27 1 0.02
28 3 0.05
29 8 0.14
30 28 0.50
31 6 0.11
32 3 0.05
33 1 0.02
34 3 0.05
ACGTcount: A:0.38, C:0.14, G:0.06, T:0.43
Consensus pattern (29 bp):
AACTTTTTTCAAGGAAAATTGATACTTTC
Found at i:8925526 original size:58 final size:59
Alignment explanation
Indices: 8925371--8925659 Score: 419
Period size: 58 Copynumber: 4.9 Consensus size: 59
8925361 TTTTGTACAG
* * * *
8925371 GGAAAATTGATATTTTCAAC-TTTTCTCCAAAATATTTTTTAG--AAACTTTAATTTCGA
1 GGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAAAC-TTATTTTCAA
*
8925428 GAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAAACTTATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAAACTTATTTTCAA
*
8925487 GGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAAAAAAACTTATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTTCTCAAAAATA-TTTTTTAGAAAAACTTATTTTCAA
**
8925547 GGAAAATTGATACTTTCAAC-TTTTCTTCAAAAATATTTTTTAG-AAATTTTATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTTC-TCAAAAATATTTTTTAGAAAAACTTATTTTCAA
* *
8925605 GAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTA-AAAAATTTATTTT
1 GGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAAACTTATTTT
8925660 TAAAGGTCAT
Statistics
Matches: 213, Mismatches: 12, Indels: 13
0.89 0.05 0.05
Matches are distributed among these distances:
57 18 0.08
58 80 0.38
59 59 0.28
60 56 0.26
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.45
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAAACTTATTTTCAA
Found at i:8927524 original size:18 final size:17
Alignment explanation
Indices: 8927498--8927540 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 17
8927488 TAAAACAGAT
8927498 AAATCAAATAAAAAATAAA
1 AAAT-AAATAAAAAAT-AA
8927517 AAATAAATAAAAAATAA
1 AAATAAATAAAAAATAA
8927534 AAATAAA
1 AAATAAA
8927541 GGTCAATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 9 0.38
18 11 0.46
19 4 0.17
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.16
Consensus pattern (17 bp):
AAATAAATAAAAAATAA
Found at i:8927526 original size:11 final size:11
Alignment explanation
Indices: 8927486--8927534 Score: 55
Period size: 11 Copynumber: 4.2 Consensus size: 11
8927476 TGATAAATCT
8927486 AATAAAACAGATA
1 AATAAAA-A-ATA
8927499 AATCAAATAAA-A
1 AAT-AAA-AAATA
8927511 AATAAAAAATA
1 AATAAAAAATA
8927522 AATAAAAAATA
1 AATAAAAAATA
8927533 AA
1 AA
8927535 AATAAAGGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
10 3 0.09
11 17 0.52
12 4 0.12
13 4 0.12
14 4 0.12
15 1 0.03
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (11 bp):
AATAAAAAATA
Found at i:8927984 original size:2 final size:2
Alignment explanation
Indices: 8927977--8928014 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
8927967 AACTAATGAA
*
8927977 AT AT AT AT -T AT AT AT AT -T AT AC 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 AT AT AT AT
8928015 CATAAGATGG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8927991 original size:9 final size:9
Alignment explanation
Indices: 8927977--8928012 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
8927967 AACTAATGAA
8927977 ATATATATT
1 ATATATATT
8927986 ATATATATT
1 ATATATATT
*
8927995 ATACATATAT
1 ATATATAT-T
8928005 ATATATAT
1 ATATATAT
8928013 ATCATAAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 16 0.67
10 8 0.33
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (9 bp):
ATATATATT
Found at i:8935661 original size:22 final size:22
Alignment explanation
Indices: 8935633--8935676 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
8935623 TTTTTTTGTC
8935633 CTTAATTCTAAGGATACAAATA
1 CTTAATTCTAAGGATACAAATA
*
8935655 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAAGGATACAAATA
8935677 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAAGGATACAAATA
Found at i:8940764 original size:26 final size:27
Alignment explanation
Indices: 8940735--8940791 Score: 64
Period size: 26 Copynumber: 2.1 Consensus size: 27
8940725 AAAATATATG
*
8940735 ATTTTGAT-TAATAATTAGTTTTTAA-A
1 ATTTTAATATAATAATTA-TTTTTAATA
* *
8940761 ATTTTAATATATTTATTATTTTTAATA
1 ATTTTAATATAATAATTATTTTTAATA
8940788 ATTT
1 ATTT
8940792 GTATTTCTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.60
Consensus pattern (27 bp):
ATTTTAATATAATAATTATTTTTAATA
Found at i:8941097 original size:7 final size:7
Alignment explanation
Indices: 8941076--8941129 Score: 65
Period size: 7 Copynumber: 7.3 Consensus size: 7
8941066 TTTTTCTCTC
8941076 TTATTAT
1 TTATTAT
8941083 TTATTTAT
1 TTA-TTAT
8941091 TTATTAT
1 TTATTAT
8941098 TTATTA-
1 TTATTAT
8941104 TTATTATT
1 TTATTA-T
8941112 TTCATTTAT
1 TT-A-TTAT
8941121 TTATTAT
1 TTATTAT
8941128 TT
1 TT
8941130 GCTATTATAT
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
6 6 0.14
7 19 0.45
8 10 0.24
9 4 0.10
10 3 0.07
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (7 bp):
TTATTAT
Found at i:8941097 original size:11 final size:11
Alignment explanation
Indices: 8941083--8941164 Score: 66
Period size: 11 Copynumber: 7.7 Consensus size: 11
8941073 CTCTTATTAT
8941083 TTATTTATTTA
1 TTATTTATTTA
8941094 TTATTTA-TTA
1 TTATTTATTTA
8941104 TTA-TTATTT-
1 TTATTTATTTA
*
8941113 TCATTTATTTA
1 TTATTTATTTA
**
8941124 TTATTT-GCTA
1 TTATTTATTTA
*
8941134 TTATATT-GTTA
1 TTAT-TTATTTA
*
8941145 TTATTTTTTTA
1 TTATTTATTTA
8941156 TTGATTTAT
1 TT-ATTTAT
8941165 CTTTCTTGAT
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
9 5 0.09
10 22 0.38
11 26 0.45
12 5 0.09
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.70
Consensus pattern (11 bp):
TTATTTATTTA
Found at i:8941136 original size:30 final size:28
Alignment explanation
Indices: 8941076--8941137 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 28
8941066 TTTTTCTCTC
*
8941076 TTATTATTTATTTATTTATTATTTATTA
1 TTATTATTTATTTATTTATTATTTACTA
*
8941104 TTATTATTTTCATTTATTTATTATTTGCTA
1 TTATTA-TTT-ATTTATTTATTATTTACTA
8941134 TTAT
1 TTAT
8941138 ATTGTTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 6 0.20
29 3 0.10
30 21 0.70
ACGTcount: A:0.26, C:0.03, G:0.02, T:0.69
Consensus pattern (28 bp):
TTATTATTTATTTATTTATTATTTACTA
Found at i:8941606 original size:21 final size:20
Alignment explanation
Indices: 8941563--8941605 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
8941553 AAAACCTAGA
8941563 TTTCGATGTACTTTTCCAGT
1 TTTCGATGTACTTTTCCAGT
*
8941583 TTTCGATGTACTTTTTCAGT
1 TTTCGATGTACTTTTCCAGT
8941603 TTT
1 TTT
8941606 TGGTTAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.14, C:0.16, G:0.14, T:0.56
Consensus pattern (20 bp):
TTTCGATGTACTTTTCCAGT
Found at i:8942053 original size:6 final size:6
Alignment explanation
Indices: 8942001--8942038 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
8941991 AATTATTTGA
8942001 TATTTCT TA-TTT TA-TTT TATTTT TATTTT TATTTT TAT
1 TATTT-T TATTTT TATTTT TATTTT TATTTT TATTTT TAT
8942039 ACATTTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 8 0.27
6 20 0.67
7 2 0.07
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (6 bp):
TATTTT
Found at i:8952260 original size:16 final size:15
Alignment explanation
Indices: 8952241--8952280 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
8952231 AAAAAATTTC
8952241 AAAAAAGAAAAGAAGA
1 AAAAAAGAAAAGAA-A
* *
8952257 AAAAAATAAAATAAA
1 AAAAAAGAAAAGAAA
8952272 AAAAAAGAA
1 AAAAAAGAA
8952281 TAATGATTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.05
Consensus pattern (15 bp):
AAAAAAGAAAAGAAA
Found at i:8952458 original size:60 final size:59
Alignment explanation
Indices: 8952385--8952551 Score: 192
Period size: 60 Copynumber: 2.8 Consensus size: 59
8952375 AAAGATTCAG
* **
8952385 AAATTTTTATTTTAAGGAAAATTGATACTTTCAACTTTTCCTTAAAATG-TTTTTCTTGA
1 AAATTTTCATTTTAAGGAAAATTGATACTTTCAACTTTTCCTTAAAATGCTTTTT-TCCA
* * * * * *
8952444 TAATTTTCATTTTTAAGGAAAATTGGTACTTCCAATTTTTCCTCAAAAGGCTTTTTTCCA
1 AAATTTTCA-TTTTAAGGAAAATTGATACTTTCAACTTTTCCTTAAAATGCTTTTTTCCA
* * * *
8952504 AAATTTTCATTTTAAAGAAAATTGATTCCTTCAACTTTTCTTTAAAAT
1 AAATTTTCATTTTAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAT
8952552 ATATTTTTTT
Statistics
Matches: 87, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
59 37 0.43
60 45 0.52
61 5 0.06
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.47
Consensus pattern (59 bp):
AAATTTTCATTTTAAGGAAAATTGATACTTTCAACTTTTCCTTAAAATGCTTTTTTCCA
Found at i:8952580 original size:20 final size:20
Alignment explanation
Indices: 8952544--8952602 Score: 50
Period size: 19 Copynumber: 3.0 Consensus size: 20
8952534 TCAACTTTTC
*
8952544 TTTAAAATATATT-TTTTTTAT
1 TTTAAAAT-T-TTATTTTTTAG
**
8952565 TTTAAAATTTTATTTTCAAG
1 TTTAAAATTTTATTTTTTAG
*
8952585 TTT-AAATTTTAATTTTTA
1 TTTAAAATTTTATTTTTTA
8952603 AGAAAAATTG
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
19 14 0.45
20 9 0.29
21 8 0.26
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTAAAATTTTATTTTTTAG
Found at i:8952704 original size:13 final size:12
Alignment explanation
Indices: 8952686--8952743 Score: 55
Period size: 13 Copynumber: 4.8 Consensus size: 12
8952676 ATCATAAAGG
8952686 AAAAAATACTTAA
1 AAAAAATAC-TAA
8952699 AAAAAATACT-A
1 AAAAAATACTAA
*
8952710 AATAAATACTAA
1 AAAAAATACTAA
* *
8952722 ATAAAATAAATAA
1 AAAAAAT-ACTAA
*
8952735 ATAAAATAC
1 AAAAAATAC
8952744 CATAGAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
11 10 0.26
12 8 0.21
13 20 0.53
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (12 bp):
AAAAAATACTAA
Found at i:8952716 original size:24 final size:24
Alignment explanation
Indices: 8952689--8952757 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
8952679 ATAAAGGAAA
*
8952689 AAATACTTAAAAAAAAT-ACTAAAT
1 AAATAC-TAAAAAAAATAAATAAAT
*
8952713 AAATACTAAATAAAATAAATAAAT
1 AAATACTAAAAAAAATAAATAAAT
* *
8952737 AAAATACCATAGAAAAATAAA
1 -AAATACTA-AAAAAAATAAA
8952758 AAAAATGGCT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
23 9 0.24
24 12 0.32
25 7 0.19
26 9 0.24
ACGTcount: A:0.70, C:0.07, G:0.01, T:0.22
Consensus pattern (24 bp):
AAATACTAAAAAAAATAAATAAAT
Found at i:8955756 original size:43 final size:44
Alignment explanation
Indices: 8955709--8955948 Score: 313
Period size: 44 Copynumber: 5.5 Consensus size: 44
8955699 AAGTTGTGGT
* *
8955709 GCCTCTGTTTAGAGGAGTTTTGTTTATTT-TTCAAAGTCGTTGA
1 GCCTCTGTTTAGAGGAGCTTTGTTTATTTGTCCAAAGTCGTTGA
* *
8955752 GCCTCTGCTTAGAGGAGCTTTGTTTATTTGTCCAAAGTTGTTGA
1 GCCTCTGTTTAGAGGAGCTTTGTTTATTTGTCCAAAGTCGTTGA
* * *
8955796 GTCTCTGTTTAGAGGAGCTTTGTTTATTT-TTCAAAGTCATTGA
1 GCCTCTGTTTAGAGGAGCTTTGTTTATTTGTCCAAAGTCGTTGA
* * * * *
8955839 ACCTTTGCTTAGATGAGCTTTGTTTATTTGTCCAAAGTTGTTGA
1 GCCTCTGTTTAGAGGAGCTTTGTTTATTTGTCCAAAGTCGTTGA
* *
8955883 GCCTCTGTTTAAAGGAGCTTTGTTTATTTATCCAAAGTCGTTGA
1 GCCTCTGTTTAGAGGAGCTTTGTTTATTTGTCCAAAGTCGTTGA
** *
8955927 GCCTCTAATTAGATGAGCTTTG
1 GCCTCTGTTTAGAGGAGCTTTG
8955949 ATCAAGATTT
Statistics
Matches: 167, Mismatches: 28, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
43 62 0.37
44 105 0.63
ACGTcount: A:0.20, C:0.14, G:0.22, T:0.43
Consensus pattern (44 bp):
GCCTCTGTTTAGAGGAGCTTTGTTTATTTGTCCAAAGTCGTTGA
Found at i:8955848 original size:87 final size:87
Alignment explanation
Indices: 8955698--8955948 Score: 367
Period size: 87 Copynumber: 2.9 Consensus size: 87
8955688 TTTACTTTCA
* * * *
8955698 AAAGTTGTGGTGCCTCTGTTTAGAGGAGTTTTGTTTATTTTTCAAAGTCGTTGAGCCTCTGCTTA
1 AAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTTGTTTATTTTTCAAAGTCGTTGAACCTCTGCTTA
8955763 GAGGAGCTTTGTTTATTTGTCC
66 GAGGAGCTTTGTTTATTTGTCC
* * *
8955785 AAAGTTGTTGAGTCTCTGTTTAGAGGAGCTTTGTTTATTTTTCAAAGTCATTGAACCTTTGCTTA
1 AAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTTGTTTATTTTTCAAAGTCGTTGAACCTCTGCTTA
*
8955850 GATGAGCTTTGTTTATTTGTCC
66 GAGGAGCTTTGTTTATTTGTCC
* * * **
8955872 AAAGTTGTTGAGCCTCTGTTTAAAGGAGCTTTGTTTATTTATCCAAAGTCGTTGAGCCTCTAATT
1 AAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTTGTTTATTT-TTCAAAGTCGTTGAACCTCTGCTT
*
8955937 AGATGAGCTTTG
65 AGAGGAGCTTTG
8955949 ATCAAGATTT
Statistics
Matches: 147, Mismatches: 16, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
87 117 0.80
88 30 0.20
ACGTcount: A:0.21, C:0.14, G:0.23, T:0.43
Consensus pattern (87 bp):
AAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTTGTTTATTTTTCAAAGTCGTTGAACCTCTGCTTA
GAGGAGCTTTGTTTATTTGTCC
Found at i:8956146 original size:3 final size:3
Alignment explanation
Indices: 8956140--8956214 Score: 50
Period size: 3 Copynumber: 25.7 Consensus size: 3
8956130 CTTTTTTTAT
* * * *
8956140 TTA TTA TTA TT- TTA TTTA TTA TTT TTA TTA TTA TT- TTT TTC GT-
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
8956183 TTA TTT TTA TTA TTTA CTA TTA -TA TTA TTA TT
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TT
8956215 TTTTTTATTG
Statistics
Matches: 57, Mismatches: 9, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
2 7 0.12
3 44 0.77
4 6 0.11
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:8956154 original size:15 final size:15
Alignment explanation
Indices: 8956134--8956223 Score: 76
Period size: 15 Copynumber: 5.7 Consensus size: 15
8956124 TTCTCTCTTT
8956134 TTTTATTTATTATTA
1 TTTTATTTATTATTA
*
8956149 TTTTATTTATTATTT
1 TTTTATTTATTATTA
* *
8956164 TTATTA-TTATTTTTT
1 TT-TTATTTATTATTA
8956179 TCGTTTATTT-TTATTA
1 T--TTTATTTATTATTA
8956195 TTTACTATTATATTATTA
1 TTT--TATT-TATTATTA
*
8956213 TTTTTTTTATT
1 TTTTATTTATT
8956224 GATTTTATAT
Statistics
Matches: 62, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
14 2 0.03
15 29 0.47
16 18 0.29
17 4 0.06
18 9 0.15
ACGTcount: A:0.22, C:0.02, G:0.01, T:0.74
Consensus pattern (15 bp):
TTTTATTTATTATTA
Found at i:8956160 original size:12 final size:12
Alignment explanation
Indices: 8956139--8956231 Score: 64
Period size: 13 Copynumber: 7.4 Consensus size: 12
8956129 TCTTTTTTTA
8956139 TTTA-TTATTAT
1 TTTATTTATTAT
8956150 TTTATTTATTATT
1 TTTATTTATTA-T
*
8956163 TTTATTATTATTTT
1 TTTA-T-TTATTAT
* *
8956177 TTTCGTTTATTTT
1 TTT-ATTTATTAT
*
8956190 TATTATTTACTAT
1 T-TTATTTATTAT
*
8956203 TATA-TTATTAT
1 TTTATTTATTAT
*
8956214 TTTTTTTATTGAT
1 TTTATTTATT-AT
8956227 TTTAT
1 TTTAT
8956232 ATTTTCTTGA
Statistics
Matches: 64, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
11 12 0.19
12 13 0.20
13 26 0.41
14 8 0.12
15 5 0.08
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (12 bp):
TTTATTTATTAT
Found at i:8958791 original size:3 final size:3
Alignment explanation
Indices: 8958783--8958829 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
8958773 TATAACTTGG
8958783 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
8958830 TATGATTACT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:8962988 original size:144 final size:144
Alignment explanation
Indices: 8962728--8963163 Score: 845
Period size: 144 Copynumber: 3.0 Consensus size: 144
8962718 AACACAATGA
8962728 TTTATAGAGTTTCGGTCTTTCTCCACAAGGCACCTACGTTCTCTCTTCTTGTTTGTCCACACCAA
1 TTTATAGAGTTTCGGTCTTTCTCCACAAGGCACCTACGTTCTCTCTTCTTGTTTGTCCACACCAA
8962793 GGCTTCAATCCACTATTCTTGAATTGAAAATATTTTTCTTTCTAAGGCTTAAGATATAAACCTCT
66 GGCTTCAATCCACTATTCTTGAATTGAAAATATTTTTCTTTCTAAGGCTTAAGATATAAACCTCT
8962858 ACCCTTTGTAATAT
131 ACCCTTTGTAATAT
*
8962872 TTTATAGAGTTTCGATCTTTCTCCACAAGGCACCTACGTTCTCTCTTCTTGTTTGTCCACACCAA
1 TTTATAGAGTTTCGGTCTTTCTCCACAAGGCACCTACGTTCTCTCTTCTTGTTTGTCCACACCAA
8962937 GGCTTCAATCCACTATTCTTGAATTGAAAATATTTTTCTTTCTAAGGCTTAAGATATAAACCTCT
66 GGCTTCAATCCACTATTCTTGAATTGAAAATATTTTTCTTTCTAAGGCTTAAGATATAAACCTCT
8963002 ACCCTTTGTAATAT
131 ACCCTTTGTAATAT
8963016 TTTATAGAGTTTCGGTCTTTCTCCACAAGGCACCTACGTTCTCTCTTCTTGTTTGTCCACACCAA
1 TTTATAGAGTTTCGGTCTTTCTCCACAAGGCACCTACGTTCTCTCTTCTTGTTTGTCCACACCAA
*
8963081 GGCTTCAATCCACTATTCTTGAATTGAAAATATTTTTCTTTCTAAGGCTTAAGATAGAAACCTCT
66 GGCTTCAATCCACTATTCTTGAATTGAAAATATTTTTCTTTCTAAGGCTTAAGATATAAACCTCT
*
8963146 ACCTTTTGTAATAT
131 ACCCTTTGTAATAT
8963160 TTTA
1 TTTA
8963164 CCCAATCTCA
Statistics
Matches: 288, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
144 288 1.00
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (144 bp):
TTTATAGAGTTTCGGTCTTTCTCCACAAGGCACCTACGTTCTCTCTTCTTGTTTGTCCACACCAA
GGCTTCAATCCACTATTCTTGAATTGAAAATATTTTTCTTTCTAAGGCTTAAGATATAAACCTCT
ACCCTTTGTAATAT
Found at i:8964655 original size:57 final size:57
Alignment explanation
Indices: 8964569--8964798 Score: 291
Period size: 57 Copynumber: 4.0 Consensus size: 57
8964559 TTGTACAGGG
* * *
8964569 AAAATTGATACTTTCAACTTTTTCCCAAAATATTTTTTAGAATCTTTAATTTCGAGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAATATTTTTTAGAAACTTTAATTTCAAGA
8964626 AAAATTGATACTTTCAACTTTTCCCCAAAATATTTTTTAGAAACTTTAATTTCAAGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAATATTTTTTAGAAACTTTAATTTCAAGA
* ** * *
8964683 AAAATTGATACTTTCAACTTTTCCTCAAAGATATTTTTTTTCAAAGC-TTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAA-ATA-TTTTTTAGAAA-CTTTAATTTCAAGA
* * * * * *
8964742 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTAAAAAATTTTATTTTCAAG
1 AAAATTGATACTTTCAAC-TTTTCCCCAAAATATTTTTTAGAAACTTTAATTTCAAG
8964799 GGTCATTTAA
Statistics
Matches: 153, Mismatches: 15, Indels: 9
0.86 0.08 0.05
Matches are distributed among these distances:
57 82 0.54
58 22 0.14
59 40 0.26
60 9 0.06
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAATATTTTTTAGAAACTTTAATTTCAAGA
Found at i:8964772 original size:27 final size:27
Alignment explanation
Indices: 8964682--8964773 Score: 64
Period size: 27 Copynumber: 3.2 Consensus size: 27
8964672 TAATTTCAAG
*
8964682 AAAAATTGATACTTTCAACTTTTCCTC
1 AAAAATTGATACTTTCAACTTTTTCTC
**
8964709 AAAGATATT--TTTTTTCAAAGCTTATTT-TC
1 AAA-A-ATTGATACTTTC-AA-CTT-TTTCTC
8964738 AAGGAAAATTGATACTTTCAACTTTTTCTC
1 -A--AAAATTGATACTTTCAACTTTTTCTC
8964768 AAAAAT
1 AAAAAT
8964774 ATTTTTAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 22
0.64 0.07 0.29
Matches are distributed among these distances:
27 13 0.27
28 3 0.06
29 12 0.24
30 11 0.22
31 3 0.06
32 7 0.14
ACGTcount: A:0.36, C:0.15, G:0.07, T:0.42
Consensus pattern (27 bp):
AAAAATTGATACTTTCAACTTTTTCTC
Found at i:8966024 original size:11 final size:11
Alignment explanation
Indices: 8965994--8966027 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
8965984 AGTGATCTAT
*
8965994 TTCCTTCAAAG
1 TTCCTTCAGAG
8966005 TTCCTTCAGAG
1 TTCCTTCAGAG
8966016 TTCCTTCAGAG
1 TTCCTTCAGAG
8966027 T
1 T
8966028 GAGAGATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (11 bp):
TTCCTTCAGAG
Found at i:8966921 original size:17 final size:16
Alignment explanation
Indices: 8966873--8966909 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
8966863 AACTCGACAC
* *
8966873 TTTTTTTGTTTTTGTT
1 TTTTTTTCTCTTTGTT
8966889 TTTTTTTCTCTTTGTT
1 TTTTTTTCTCTTTGTT
8966905 TTTTT
1 TTTTT
8966910 GTTTTGTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.00, C:0.05, G:0.08, T:0.86
Consensus pattern (16 bp):
TTTTTTTCTCTTTGTT
Found at i:8967032 original size:44 final size:44
Alignment explanation
Indices: 8966947--8967189 Score: 269
Period size: 44 Copynumber: 5.5 Consensus size: 44
8966937 TTCTTTTAAG
* * *
8966947 CAGAGGCTTAACGAC-TTTGAAAAATATAAACAAAGCTCCTCTAAT
1 CAGAGGCTCAATGACTTTTG-AAAA-ATAAACAAGGCTCCTCTAAT
* *
8966992 CAGAGGCTTAATAACTTTTGAAAAATAAACAAGGCTCCTCTAAT
1 CAGAGGCTCAATGACTTTTGAAAAATAAACAAGGCTCCTCTAAT
* * **
8967036 CAGAGGCTCAATGACTTTTGGAAAATAAACAAGACTTTTCTAAT
1 CAGAGGCTCAATGACTTTTGAAAAATAAACAAGGCTCCTCTAAT
* ** * *
8967080 CAGAGGCTCGACAACTTTTAAAAAATAAACAAAGCTCCTCTAAT
1 CAGAGGCTCAATGACTTTTGAAAAATAAACAAGGCTCCTCTAAT
* * *
8967124 AAGAGGCTCAATGA-TTTTGGAAAAAT-AA-ATGGCTCATCTAAT
1 CAGAGGCTCAATGACTTTT-GAAAAATAAACAAGGCTCCTCTAAT
*
8967166 CAGAGGCTCAATGACTTTAGAAAA
1 CAGAGGCTCAATGACTTTTGAAAA
8967190 TAAGTTACTC
Statistics
Matches: 167, Mismatches: 28, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
42 29 0.17
43 9 0.05
44 108 0.65
45 17 0.10
46 4 0.02
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (44 bp):
CAGAGGCTCAATGACTTTTGAAAAATAAACAAGGCTCCTCTAAT
Found at i:8967246 original size:41 final size:41
Alignment explanation
Indices: 8967125--8967278 Score: 136
Period size: 41 Copynumber: 3.7 Consensus size: 41
8967115 TCCTCTAATA
* * * *
8967125 AGAGGCTCAATGATTTTGGAAAAATAAATGGCTCATCTAATC
1 AGAGGCTCAATGACTTTAG-AAAATAAATTGCTCATCTAAAC
* * *
8967167 AGAGGCTCAATGACTTTAGAAAATAAGTTACTCTTCTAAAC
1 AGAGGCTCAATGACTTTAGAAAATAAATTGCTCATCTAAAC
* *
8967208 AGAGG-TAACTATGACTTTAG-AAGTAAATTGCTCATCTAAAC
1 AGAGGCT--CAATGACTTTAGAAAATAAATTGCTCATCTAAAC
*
8967249 ATAGG--CAATGAAACTTTAGAAAAATAAATT
1 AGAGGCTCAATG--ACTTTAG-AAAATAAATT
8967279 ACTCCTTGAC
Statistics
Matches: 91, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
38 4 0.04
40 8 0.09
41 43 0.47
42 36 0.40
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.29
Consensus pattern (41 bp):
AGAGGCTCAATGACTTTAGAAAATAAATTGCTCATCTAAAC
Found at i:8968981 original size:16 final size:16
Alignment explanation
Indices: 8968962--8969090 Score: 120
Period size: 16 Copynumber: 7.9 Consensus size: 16
8968952 TCTTTTCTTT
8968962 TTTTTTCATTTTTCTC
1 TTTTTTCATTTTTCTC
8968978 TTTTTTCATTTTTCATTC
1 TTTTTTCATTTTTC--TC
*
8968996 TTTCTTT--TTTTTCTTT
1 TTT-TTTCATTTTTC-TC
*
8969012 TTTTTTC-TTTTTTTC
1 TTTTTTCATTTTTCTC
* * *
8969027 TTTTTTTATTTTTTTA
1 TTTTTTCATTTTTCTC
* *
8969043 TTTTTTCATTTTTTTAT
1 TTTTTTCATTTTTCT-C
8969060 TGTTTTTCATTTTTCTC
1 T-TTTTTCATTTTTCTC
8969077 TTTTTTCATTTTTC
1 TTTTTTCATTTTTC
8969091 ATTCGCTCAC
Statistics
Matches: 97, Mismatches: 9, Indels: 14
0.81 0.08 0.12
Matches are distributed among these distances:
15 10 0.10
16 58 0.60
17 8 0.08
18 18 0.19
19 3 0.03
ACGTcount: A:0.07, C:0.12, G:0.01, T:0.80
Consensus pattern (16 bp):
TTTTTTCATTTTTCTC
Found at i:8969018 original size:50 final size:50
Alignment explanation
Indices: 8968949--8969094 Score: 197
Period size: 50 Copynumber: 2.9 Consensus size: 50
8968939 CAATTTAAGT
8968949 ATTTCTTTTCTTTTTTTTTCATTTTTCTCTTTTTTCATTTTTCATTCTTTC
1 ATTT-TTTTCTTTTTTTTTCATTTTTCTCTTTTTTCATTTTTCATTCTTTC
* * * * *
8969000 TTTTTTTTCTTTTTTTTTC-TTTTTTTCTTTTTTTATTTTTTTATTTTTTC
1 ATTTTTTTCTTTTTTTTTCATTTTTCTCTTTTTTCA-TTTTTCATTCTTTC
* *
8969050 ATTTTTTT-ATTGTTTTTCATTTTTCTCTTTTTTCATTTTTCATTC
1 ATTTTTTTCTTTTTTTTTCATTTTTCTCTTTTTTCATTTTTCATTC
8969095 GCTCACCCAT
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
49 30 0.37
50 48 0.59
51 3 0.04
ACGTcount: A:0.08, C:0.13, G:0.01, T:0.79
Consensus pattern (50 bp):
ATTTTTTTCTTTTTTTTTCATTTTTCTCTTTTTTCATTTTTCATTCTTTC
Found at i:8969066 original size:1 final size:1
Alignment explanation
Indices: 8969000--8969048 Score: 53
Period size: 1 Copynumber: 49.0 Consensus size: 1
8968990 TCATTCTTTC
* * * * *
8969000 TTTTTTTTCTTTTTTTTTCTTTTTTTCTTTTTTTATTTTTTTATTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
8969049 CATTTTTTTA
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.04, C:0.06, G:0.00, T:0.90
Consensus pattern (1 bp):
T
Found at i:8969081 original size:41 final size:39
Alignment explanation
Indices: 8968986--8969093 Score: 93
Period size: 41 Copynumber: 2.8 Consensus size: 39
8968976 TCTTTTTTCA
* * *
8968986 TTTTTCATTCTT-TCTTTTTT-TTCTTT--TTTTTTCTT
1 TTTTTCATTTTTCTCTTTTTTATTTTTTCATTTTTTTTT
* *
8969021 TTTTTC-TTTTTTTATTTTTTTATTTTTTCATTTTTTTATT
1 TTTTTCATTTTTCT-CTTTTTTATTTTTTCATTTTTTT-TT
8969061 GTTTTTCATTTTTCTCTTTTTTCA-TTTTTCATT
1 -TTTTTCATTTTTCTCTTTTTT-ATTTTTTCATT
8969094 CGCTCACCCA
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
34 4 0.07
35 7 0.12
36 6 0.10
37 5 0.09
39 6 0.10
40 2 0.03
41 21 0.36
42 7 0.12
ACGTcount: A:0.07, C:0.11, G:0.01, T:0.81
Consensus pattern (39 bp):
TTTTTCATTTTTCTCTTTTTTATTTTTTCATTTTTTTTT
Found at i:8969088 original size:8 final size:8
Alignment explanation
Indices: 8968962--8969093 Score: 104
Period size: 8 Copynumber: 17.2 Consensus size: 8
8968952 TCTTTTCTTT
8968962 TTTTTTCA
1 TTTTTTCA
8968970 TTTTTCTC-
1 TTTTT-TCA
8968978 TTTTTTCA
1 TTTTTTCA
8968986 -TTTTTCA
1 TTTTTTCA
*
8968993 TTCTTTC-
1 TTTTTTCA
8969000 TTTTTT--
1 TTTTTTCA
*
8969006 TTCTTT--
1 TTTTTTCA
*
8969012 TTTTTTCT
1 TTTTTTCA
8969020 TTTTTTC-
1 TTTTTTCA
*
8969027 TTTTTTTA
1 TTTTTTCA
*
8969035 TTTTTTTA
1 TTTTTTCA
8969043 TTTTTTCA
1 TTTTTTCA
*
8969051 TTTTTTTA
1 TTTTTTCA
8969059 TTGTTTTTCA
1 -T-TTTTTCA
8969069 TTTTTCTC-
1 TTTTT-TCA
8969077 TTTTTTCA
1 TTTTTTCA
8969085 -TTTTTCA
1 TTTTTTCA
8969092 TT
1 TT
8969094 CGCTCACCCA
Statistics
Matches: 105, Mismatches: 8, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
6 10 0.10
7 29 0.28
8 54 0.51
9 6 0.06
10 6 0.06
ACGTcount: A:0.08, C:0.12, G:0.01, T:0.80
Consensus pattern (8 bp):
TTTTTTCA
Found at i:8973056 original size:11 final size:11
Alignment explanation
Indices: 8973014--8973053 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
8973004 ATTTAATATT
8973014 AAAGAAAATAA
1 AAAGAAAATAA
8973025 AAAGAAAATAA
1 AAAGAAAATAA
8973036 AAAGAAAA-AA
1 AAAGAAAATAA
*
8973046 GAAGAAAA
1 AAAGAAAA
8973054 AAATGATTGC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.05
Consensus pattern (11 bp):
AAAGAAAATAA
Found at i:8973147 original size:59 final size:59
Alignment explanation
Indices: 8973074--8973426 Score: 471
Period size: 59 Copynumber: 6.0 Consensus size: 59
8973064 TTTTGTACAG
* * * **
8973074 GAAAAATCGATACTTTCAACTTTTTCTCAAAGATATTTTTTTTAAAAGCTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAAAAAATTTATTTTCAA
*
8973133 GAAAAATTGATACTTTCAACTTTTTCTCAAAAATA-TTTTTTAGAAAAACTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTA-AAAAATTTATTTTCAA
* * * * *
8973192 GGAAAATTAATACTTTCAACATTTTCTAAAAAATATTTCTTTAAAAAAATTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTT-TTTTAAAAAATTTATTTTCAA
* * * *
8973252 GGAAAATTGATACTTTCAACTTTTTTTCAAAAATA-TTTTTTAGAAATTTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAAAAAATTTATTTTCAA
* * *
8973310 GAAAAATTGATACTTTCAACTTTTCCTCAAAAACATTTTTTTAAAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAAAAAATTTATTTTCAA
* *
8973369 GAAAAATTGATGCTTTCAAC-TTTTCTTCAAAAATA-TTTTTTAAAAATTTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTTC-TCAAAAATATTTTTTTAAAAAATTTATTTTCAA
8973427 AGGTCATTTA
Statistics
Matches: 260, Mismatches: 29, Indels: 11
0.87 0.10 0.04
Matches are distributed among these distances:
58 80 0.31
59 128 0.49
60 48 0.18
61 4 0.02
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.44
Consensus pattern (59 bp):
GAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAAAAAATTTATTTTCAA
Found at i:8973458 original size:117 final size:112
Alignment explanation
Indices: 8973108--8973426 Score: 377
Period size: 117 Copynumber: 2.7 Consensus size: 112
8973098 TCTCAAAGAT
* **
8973108 ATTTTTTTTAAAAGCTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTT
1 ATTTTTTTAAAAAATTTATTTTCAAGAAAAATTGATACTTTCAACTTTTT-TCAAAAATATTTTT
** **
8973173 TAGAAAAACTTATTTTCAAGGAAAATTAATACTTTCAACATTTTCTAAAAA
65 TA-AAAATTTTATTTTCAAGGAAAATTAATACTTTCAACA-AATC-AAAAA
*
8973224 ATATTTCTTTAAAAAAATTTATTTTCAAGGAAAATTGATACTTTCAACTTTTTTTCAAAAATATT
1 AT-TTT-TTT-AAAAAATTTATTTTCAAGAAAAATTGATACTTTCAAC-TTTTTTCAAAAATATT
* * * ***
8973289 TTTTAGAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAA
62 TTTTAAAAATTTTATTTTCAAGGAAAATTAATACTTTCAAC---AAATCAAAAA
* *
8973343 CATTTTTTTAAAAAATTTATTTTTAAGAAAAATTGATGCTTTCAACTTTTCTTCAAAAATATTTT
1 -ATTTTTTTAAAAAATTTATTTTCAAGAAAAATTGATACTTTCAACTTTT-TTCAAAAATATTTT
8973408 TTAAAAATTTTATTTTCAA
64 TTAAAAATTTTATTTTCAA
8973427 AGGTCATTTA
Statistics
Matches: 178, Mismatches: 16, Indels: 17
0.84 0.08 0.08
Matches are distributed among these distances:
116 6 0.03
117 69 0.39
118 37 0.21
119 57 0.32
120 9 0.05
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.45
Consensus pattern (112 bp):
ATTTTTTTAAAAAATTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTTCAAAAATATTTTTT
AAAAATTTTATTTTCAAGGAAAATTAATACTTTCAACAAATCAAAAA
Found at i:8975291 original size:17 final size:18
Alignment explanation
Indices: 8975263--8975296 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
8975253 AAATCAACTA
8975263 AAAAAATCAAAAATAAAT
1 AAAAAATCAAAAATAAAT
8975281 AAAAAAT-AAAAATAAA
1 AAAAAATCAAAAATAAA
8975297 GGTCAATTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (18 bp):
AAAAAATCAAAAATAAAT
Found at i:8975739 original size:2 final size:2
Alignment explanation
Indices: 8975732--8975776 Score: 60
Period size: 2 Copynumber: 24.0 Consensus size: 2
8975722 AACTAATGAA
*
8975732 AT AT AT AT -T AT AT AT AT -T AT AT AT AT -T AT AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8975771 AT AT AT
1 AT AT AT
8975777 CATAAGATGG
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
1 3 0.08
2 35 0.92
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:8975746 original size:9 final size:9
Alignment explanation
Indices: 8975732--8975776 Score: 72
Period size: 9 Copynumber: 4.9 Consensus size: 9
8975722 AACTAATGAA
8975732 ATATATATT
1 ATATATATT
8975741 ATATATATT
1 ATATATATT
8975750 ATATATATT
1 ATATATATT
*
8975759 ATACATATAT
1 ATATATAT-T
8975769 ATATATAT
1 ATATATAT
8975777 CATAAGATGG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
9 25 0.76
10 8 0.24
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (9 bp):
ATATATATT
Found at i:8986592 original size:23 final size:25
Alignment explanation
Indices: 8986535--8986592 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
8986525 AATGGTTCGG
* * *
8986535 CAATGAAGGCCTAAATAGGATTCAG
1 CAATGAAGGCCTAAATAGAAGTCAA
*
8986560 CGATGAAGGCCTAAA-A-AAGTCAA
1 CAATGAAGGCCTAAATAGAAGTCAA
8986583 CAATGAAGGC
1 CAATGAAGGC
8986593 TGAAAATTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
23 13 0.46
24 1 0.04
25 14 0.50
ACGTcount: A:0.43, C:0.17, G:0.24, T:0.16
Consensus pattern (25 bp):
CAATGAAGGCCTAAATAGAAGTCAA
Found at i:8988085 original size:20 final size:20
Alignment explanation
Indices: 8988060--8988098 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
8988050 TGGAATTTTC
8988060 TTATAGGGATGTTTTTGGAA
1 TTATAGGGATGTTTTTGGAA
8988080 TTATAGGGATGTTTTTGGA
1 TTATAGGGATGTTTTTGGA
8988099 CTTTAAGTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (20 bp):
TTATAGGGATGTTTTTGGAA
Found at i:8992034 original size:11 final size:12
Alignment explanation
Indices: 8992023--8992056 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
8992013 ATTTAAGTTT
8992023 AATTAAATTTTA
1 AATTAAATTTTA
*
8992035 AATTTTAATTTTA
1 AA-TTAAATTTTA
8992048 AATTAAATT
1 AATTAAATT
8992057 ATTTGTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
AATTAAATTTTA
Found at i:8992186 original size:32 final size:32
Alignment explanation
Indices: 8992125--8992188 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 32
8992115 ATTAAATTAT
*
8992125 TCGAATTCAAATTTTTTTCGATAATAATCAAA
1 TCGAATTCAAATTTTTATCGATAATAATCAAA
*
8992157 TCGAATTTAAATTTTATAT-GA-AATGAATCAAA
1 TCGAATTCAAATTTT-TATCGATAAT-AATCAAA
8992189 ATAATTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 3 0.11
32 23 0.82
33 2 0.07
ACGTcount: A:0.44, C:0.09, G:0.08, T:0.39
Consensus pattern (32 bp):
TCGAATTCAAATTTTTATCGATAATAATCAAA
Found at i:8992315 original size:9 final size:10
Alignment explanation
Indices: 8992301--8992344 Score: 51
Period size: 9 Copynumber: 4.7 Consensus size: 10
8992291 CTGTTTCTTT
8992301 TGTATT-TTA
1 TGTATTATTA
8992310 TGTATT-TTA
1 TGTATTATTA
8992319 T-TATTTATTA
1 TGTA-TTATTA
8992329 T-TATTATTA
1 TGTATTATTA
8992338 TGTATTA
1 TGTATTA
8992345 ATATATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 2 0.06
9 19 0.59
10 11 0.34
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (10 bp):
TGTATTATTA
Found at i:8992325 original size:16 final size:16
Alignment explanation
Indices: 8992306--8992361 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
8992296 TCTTTTGTAT
8992306 TTTATGTATT-TTATTA
1 TTTAT-TATTATTATTA
8992322 TTTATTATTATTATTA
1 TTTATTATTATTATTA
* *
8992338 TGTATTAATATATATATA
1 TTTATTATTAT-TAT-TA
8992356 TTTATT
1 TTTATT
8992362 TTTTTTATCA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
15 4 0.12
16 20 0.59
17 3 0.09
18 7 0.21
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (16 bp):
TTTATTATTATTATTA
Found at i:8992919 original size:25 final size:24
Alignment explanation
Indices: 8992863--8992919 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
8992853 GTTTTGGGAG
*
8992863 TGAGAAAAAATTTTTAGAAATTTT
1 TGAGAAAAAATTTTTAGAAATTTC
* *
8992887 TGGCGAAAAAATTTTCTGGAAATTTC
1 T-GAGAAAAAATTTT-TAGAAATTTC
8992913 TGAGAAA
1 TGAGAAA
8992920 TTTCCAGATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 1 0.04
25 17 0.63
26 9 0.33
ACGTcount: A:0.42, C:0.05, G:0.18, T:0.35
Consensus pattern (24 bp):
TGAGAAAAAATTTTTAGAAATTTC
Found at i:8993198 original size:18 final size:18
Alignment explanation
Indices: 8993164--8993199 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8993154 AAAAAAAGAT
*
8993164 AGAGGAGGAATCTGAATA
1 AGAGGAGGAATCCGAATA
*
8993182 AGAGGAGGAGTCCGAATA
1 AGAGGAGGAATCCGAATA
8993200 GGAGAGAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.08, G:0.36, T:0.14
Consensus pattern (18 bp):
AGAGGAGGAATCCGAATA
Done.