Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 144 of 253
Found at i:46245172 original size:16 final size:15
Alignment explanation
Indices: 46245130--46245399 Score: 99
Period size: 15 Copynumber: 16.9 Consensus size: 15
46245120 AAAAAACCTT
46245130 TAATGATAATAATAT-A
1 TAAT-ATAA-AATATAA
*
46245146 TAGATAAAAAAGTATAA
1 TA-ATATAAAA-TATAA
46245163 TAATATAAAAATGACATAA
1 TAATAT-AAAAT---ATAA
* *
46245182 TAATATATAATAAAA
1 TAATATAAAATATAA
*
46245197 TAATTATAATATATAA
1 TAA-TATAAAATATAA
*
46245213 T-ATATATAAT-TAA
1 TAATATAAAATATAA
* *
46245226 TAAATATATAATACAA
1 T-AATATAAAATATAA
*
46245242 GTAA-A-AATATAATAA
1 -TAATATAAAAT-ATAA
46245257 TAATATATAAATAATAAA
1 TAATATA-AAAT-AT-AA
*
46245275 CTAATATATAATA-AA
1 -TAATATAAAATATAA
* *
46245290 TAATA-ATAATGTAAA
1 TAATATAAAATAT-AA
* *
46245305 TAATATATAATAAAA
1 TAATATAAAATATAA
*
46245320 TAATTATATAATAT-A
1 TAA-TATAAAATATAA
46245335 TAATATAAAA-ATAA
1 TAATATAAAATATAA
* *
46245349 GGTTAAATAAAAAAAATAA
1 ---T-AATATAAAATATAA
*
46245368 CAATATAAAATATATA
1 TAATATAAAATATA-A
46245384 TAATAATAAATATATA
1 TAAT-ATAAA-ATATA
46245400 GGGTTAGATT
Statistics
Matches: 198, Mismatches: 25, Indels: 60
0.70 0.09 0.21
Matches are distributed among these distances:
13 11 0.06
14 24 0.12
15 52 0.26
16 45 0.23
17 23 0.12
18 22 0.11
19 21 0.11
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (15 bp):
TAATATAAAATATAA
Found at i:46245193 original size:7 final size:7
Alignment explanation
Indices: 46245181--46245341 Score: 99
Period size: 7 Copynumber: 23.1 Consensus size: 7
46245171 AAATGACATA
46245181 ATAATAT
1 ATAATAT
*
46245188 ATAATAAA
1 ATAAT-AT
46245196 ATAAT-T
1 ATAATAT
46245202 ATAATAT
1 ATAATAT
46245209 ATAATAT
1 ATAATAT
46245216 AT-ATA-
1 ATAATAT
*
46245221 ATTA-AT
1 ATAATAT
46245227 A-AATAT
1 ATAATAT
*
46245233 ATAATACA
1 ATAATA-T
*
46245241 AGTAAAAAT
1 A-T-AATAT
46245250 ATAATA-
1 ATAATAT
46245256 ATAATAT
1 ATAATAT
46245263 ATAA-AT
1 ATAATAT
46245269 AATAA-A-
1 -ATAATAT
*
46245275 CTAATAT
1 ATAATAT
*
46245282 ATAATAA
1 ATAATAT
46245289 ATAATA-
1 ATAATAT
*
46245295 ATAATGTAA
1 ATAA--TAT
46245304 ATAATAT
1 ATAATAT
*
46245311 ATAATAAA
1 ATAAT-AT
46245319 ATAATTAT
1 ATAA-TAT
46245327 ATAATAT
1 ATAATAT
46245334 ATAATAT
1 ATAATAT
46245341 A
1 A
46245342 AAAATAAGGT
Statistics
Matches: 123, Mismatches: 13, Indels: 36
0.72 0.08 0.21
Matches are distributed among these distances:
5 7 0.06
6 26 0.21
7 60 0.49
8 20 0.16
9 7 0.06
10 3 0.02
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (7 bp):
ATAATAT
Found at i:46245233 original size:17 final size:16
Alignment explanation
Indices: 46245184--46245399 Score: 102
Period size: 14 Copynumber: 14.3 Consensus size: 16
46245174 TGACATAATA
46245184 ATATATAAT-A-AAAT
1 ATATATAATAATAAAT
46245198 A-ATTATAAT-ATATAAT
1 ATA-TATAATAATA-AAT
46245214 ATATATAATTAATAAAT
1 ATATATAA-TAATAAAT
*
46245231 ATATAATACA-AGTAAA-
1 ATAT-ATA-ATAATAAAT
46245247 A-ATATAATAAT-AAT
1 ATATATAATAATAAAT
46245261 ATATA-AATAATAAACT
1 ATATATAATAATAAA-T
46245277 A-ATAT-ATAATAAAT
1 ATATATAATAATAAAT
*
46245291 A-ATAATAAT-GTAAAT
1 ATAT-ATAATAATAAAT
46245306 A-ATAT-ATAATAAA-
1 ATATATAATAATAAAT
*
46245319 ATA-ATTAT-ATAATAT
1 ATATATAATAATAA-AT
* *
46245334 ATAATATAAAAATAAGGT
1 AT-ATATAATAATAA-AT
*
46245352 -TAAATAA-AA-AAA-
1 ATATATAATAATAAAT
*
46245364 ATA-ACAAT-ATAAAAT
1 ATATATAATAAT-AAAT
46245379 ATATATAATAATAAAT
1 ATATATAATAATAAAT
46245395 ATATA
1 ATATA
46245400 GGGTTAGATT
Statistics
Matches: 159, Mismatches: 12, Indels: 60
0.69 0.05 0.26
Matches are distributed among these distances:
12 4 0.03
13 15 0.09
14 39 0.25
15 36 0.23
16 33 0.21
17 20 0.13
18 11 0.07
19 1 0.01
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (16 bp):
ATATATAATAATAAAT
Found at i:46245234 original size:45 final size:44
Alignment explanation
Indices: 46245137--46245332 Score: 156
Period size: 45 Copynumber: 4.3 Consensus size: 44
46245127 CTTTAATGAT
*
46245137 AATAATATATAGATAAAA-AAGTATAATAATATAA-A-A-ATGACAT-
1 AATAATATATA-ATAAAATAATTATAAT-ATATAATATATAT-A-ATA
*
46245180 AATAATATATAATAAAATAATTATAATATATAATATATATAATT
1 AATAATATATAATAAAATAATTATAATATATAATATATATAATA
* *
46245224 AATAAATATATAATACAAGTAAAAATATAATA-ATAATATATAAATAATA
1 AAT-AATATATAATA-AA--ATAATTATAATATATAATATAT--ATAATA
* *
46245273 AACTAATATATAAT-AAATAATAATAATGTA-AATAATATATAATAA
1 AA-TAATATATAATAAAATAATTATAATATATAAT-ATATATAAT-A
46245318 AATAATTATATAATA
1 AATAA-TATATAATA
46245333 TATAATATAA
Statistics
Matches: 128, Mismatches: 8, Indels: 31
0.77 0.05 0.19
Matches are distributed among these distances:
42 12 0.09
43 22 0.17
44 13 0.10
45 35 0.27
46 7 0.05
47 11 0.09
48 10 0.08
49 17 0.13
50 1 0.01
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.34
Consensus pattern (44 bp):
AATAATATATAATAAAATAATTATAATATATAATATATATAATA
Found at i:46245261 original size:94 final size:94
Alignment explanation
Indices: 46245159--46245332 Score: 239
Period size: 94 Copynumber: 1.9 Consensus size: 94
46245149 ATAAAAAAGT
*
46245159 ATAATAATATAAAAATGACAT-AA-TAATATATAATAAAATAATTATAATATATAAT-ATATATA
1 ATAATAATATAAAAAT-A-ATAAACTAATATATAAT-AAATAATAATAATATA-AATAATATATA
*
46245221 AT-TAATAAATATATAATACAAGTAAAAATATA
62 ATAAAATAAATATATAATACAAGTAAAAATATA
* *
46245253 ATAATAATATATAAATAATAAACTAATATATAATAAATAATAATAATGTAAATAATATATAATAA
1 ATAATAATATAAAAATAATAAACTAATATATAATAAATAATAATAATATAAATAATATATAATAA
*
46245318 AATAATTATATAATA
66 AATAAATATATAATA
46245333 TATAATATAA
Statistics
Matches: 71, Mismatches: 5, Indels: 8
0.85 0.06 0.10
Matches are distributed among these distances:
92 5 0.07
93 26 0.37
94 40 0.56
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (94 bp):
ATAATAATATAAAAATAATAAACTAATATATAATAAATAATAATAATATAAATAATATATAATAA
AATAAATATATAATACAAGTAAAAATATA
Found at i:46245307 original size:123 final size:126
Alignment explanation
Indices: 46245091--46245348 Score: 313
Period size: 125 Copynumber: 2.1 Consensus size: 126
46245081 AGTTATTAAC
* * * *
46245091 ATATAAATAATAAGTATATAATACAAGTTAAAAAACCTTTAATGATAATAATATATAGATAAAAA
1 ATATAAATAATAAATATATAATACAAGTTAAAAAA-CTATAATAATAATAATAAATAGATAAAAA
46245156 AGTATAATAATATAAAAATGACATAATAATATATAATAAAATAA-T-TATAATATATAATAT
65 AGTATAATAATATAAAAATGACATAATAATATATAATAAAATAATTATATAATATATAATAT
*
46245216 ATATAATTAATAAATATATAATACAAG-T-AAAAA-TATAATAATAATATATAAATA-ATAAACT
1 ATATAAATAATAAATATATAATACAAGTTAAAAAACTATAATAATAATA-ATAAATAGATAAA--
* *
46245277 AATA-TATAATAAATAATAATAATG-TA-AATAATATATAATAAAATAATTATATAATATATAAT
63 AA-AGTATAAT-AAT-ATAAAAATGACATAATAATATATAATAAAATAATTATATAATATATAAT
46245339 AT
125 AT
46245341 A-A-AAATAA
1 ATATAAATAA
46245349 GGTTAAATAA
Statistics
Matches: 117, Mismatches: 8, Indels: 18
0.82 0.06 0.13
Matches are distributed among these distances:
121 16 0.14
122 6 0.05
123 38 0.32
124 8 0.07
125 49 0.42
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.33
Consensus pattern (126 bp):
ATATAAATAATAAATATATAATACAAGTTAAAAAACTATAATAATAATAATAAATAGATAAAAAA
GTATAATAATATAAAAATGACATAATAATATATAATAAAATAATTATATAATATATAATAT
Found at i:46247266 original size:120 final size:119
Alignment explanation
Indices: 46247051--46247527 Score: 767
Period size: 120 Copynumber: 4.0 Consensus size: 119
46247041 CTTGAGTCTG
* *
46247051 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTTCATGTAAACACAAGAATAT
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTTCTTGTAAACACAAGAATAC
* * * *
46247116 CAAATCATCTTAGATCTTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCCATG
66 CAAATCATCTTGGATC-TGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
* * * *
46247171 TCTGAGAACATCTGAGAGTCAAATCTGCTATGTCATTGATTTGTTCCTTGTAAACACAAGAATAT
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTTCTTGTAAACACAAGAATAC
46247236 CAAATCATCTTGGATCTTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
66 CAAATCATCTTGGATC-TGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
* *
46247291 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTCTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTTCTTGTAAACACAAGAATAC
* *
46247356 CAAATCATCTTGGATCTACTTCAGTATAAACATCTGAAAACTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
*
46247410 TTTGAGAACATCTGAGAGTCAAATCTGCTATGT-CTTCGATTTGTTTCTTGTAAACAAAAGAATA
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTT-GATTTGTTTCTTGTAAACACAAGAATA
* *
46247474 CCAAATTATCTTGGATCTGCTTCATTATAAACATCTGAAAGCTAGATCTGCTAT
65 CCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTAT
46247528 TCTGCGGCCT
Statistics
Matches: 333, Mismatches: 23, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
118 2 0.01
119 144 0.43
120 187 0.56
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.34
Consensus pattern (119 bp):
TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTTCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
Found at i:46247473 original size:239 final size:239
Alignment explanation
Indices: 46247051--46247527 Score: 778
Period size: 239 Copynumber: 2.0 Consensus size: 239
46247041 CTTGAGTCTG
* * *
46247051 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTTCATGTAAACACAAGAATAT
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTCTTTCATGTAAACACAAGAATAC
* ** *
46247116 CAAATCATCTTAGATCTTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCCATGTCTGAGAACA
66 CAAATCATCTTAGATCTTACTTCAGTATAAACATCTGAAAACTAGATCTGCCATATCTGAGAACA
* *
46247181 TCTGAGAGTCAAATCTGCTATGTCATTGATTTGTTCCTTGTAAACACAAGAATATCAAATCATCT
131 TCTGAGAGTCAAATCTGCTATGTCATTGATTTGTTCCTTGTAAACAAAAGAATACCAAATCATCT
46247246 TGGATCTTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
196 TGGATC-TGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
*
46247291 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTCTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTCTTTCATGTAAACACAAGAATAC
* * *
46247356 CAAATCATCTTGGATC-TACTTCAGTATAAACATCTGAAAACTAGATCTGCTATATTTGAGAACA
66 CAAATCATCTTAGATCTTACTTCAGTATAAACATCTGAAAACTAGATCTGCCATATCTGAGAACA
* *
46247420 TCTGAGAGTCAAATCTGCTATGTC-TTCGATTTGTTTCTTGTAAACAAAAGAATACCAAATTATC
131 TCTGAGAGTCAAATCTGCTATGTCATT-GATTTGTTCCTTGTAAACAAAAGAATACCAAATCATC
*
46247484 TTGGATCTGCTTCATTATAAACATCTGAAAGCTAGATCTGCTAT
195 TTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTAT
46247528 TCTGCGGCCT
Statistics
Matches: 220, Mismatches: 16, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
238 38 0.17
239 106 0.48
240 76 0.35
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.34
Consensus pattern (239 bp):
TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTCTTTCATGTAAACACAAGAATAC
CAAATCATCTTAGATCTTACTTCAGTATAAACATCTGAAAACTAGATCTGCCATATCTGAGAACA
TCTGAGAGTCAAATCTGCTATGTCATTGATTTGTTCCTTGTAAACAAAAGAATACCAAATCATCT
TGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
Found at i:46259504 original size:19 final size:19
Alignment explanation
Indices: 46259480--46259519 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
46259470 ATTGGTTTAG
*
46259480 TAAAATAATGTATAA-AATT
1 TAAAAT-ATGTAAAAGAATT
46259499 TAAAATATGTAAAAGAATT
1 TAAAATATGTAAAAGAATT
46259518 TA
1 TA
46259520 TATTTATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (19 bp):
TAAAATATGTAAAAGAATT
Found at i:46259742 original size:21 final size:20
Alignment explanation
Indices: 46259716--46259924 Score: 76
Period size: 21 Copynumber: 10.1 Consensus size: 20
46259706 TTTAATGATA
*
46259716 ATAATATATAGATAAAAAAGT
1 ATAATATATA-ATAAAAAAAT
46259737 ATAATA-AT-ATAAAAATGACAT
1 ATAATATATAATAAAAA--A-AT
*
46259758 AATAATATATAATAAAATAATT
1 -ATAATATATAATAAAA-AAAT
* *
46259780 ATAATATATAATATATATAAT
1 ATAATATATAATA-AAAAAAT
* * *
46259801 -TAATAAATATATAATACAAGT
1 ATAATATATA-ATAA-AAAAAT
* *
46259822 A-AAAATATAAT--AATAAT
1 ATAATATATAATAAAAAAAT
* *
46259839 AT-ATAAATAATAAACTAATAT
1 ATAATATATAATAAA--AAAAT
* *
46259860 ATAATAAATAATAATAATGTAA-
1 ATAATATATAATAA-AA--AAAT
46259882 ATAATATAT-ATAAAATAATTAT
1 ATAATATATAATAAAA-AA--AT
*
46259904 ATAATATATAATATAAAAAT
1 ATAATATATAATAAAAAAAT
46259924 A
1 A
46259925 AGGTTAAATA
Statistics
Matches: 139, Mismatches: 25, Indels: 49
0.65 0.12 0.23
Matches are distributed among these distances:
17 11 0.08
18 7 0.05
19 2 0.01
20 19 0.14
21 44 0.32
22 39 0.28
23 10 0.07
24 6 0.04
25 1 0.01
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.34
Consensus pattern (20 bp):
ATAATATATAATAAAAAAAT
Found at i:46259750 original size:16 final size:15
Alignment explanation
Indices: 46259708--46259925 Score: 78
Period size: 15 Copynumber: 14.0 Consensus size: 15
46259698 AAAAAACCTT
46259708 TAATGATAATAATAT-A
1 TAAT-ATAA-AATATAA
*
46259724 TAGATAAAAAAGTATAA
1 TA-ATATAAAA-TATAA
46259741 TAATATAAAAATGACATAA
1 TAATAT-AAAAT---ATAA
* *
46259760 TAATATATAATAAAA
1 TAATATAAAATATAA
*
46259775 TAATTATAATATATAA
1 TAA-TATAAAATATAA
*
46259791 T-ATATATAAT-TAA
1 TAATATAAAATATAA
* *
46259804 TAAATATATAATACAA
1 T-AATATAAAATATAA
*
46259820 GTAA-A-AATATAATAA
1 -TAATATAAAAT-ATAA
46259835 TAATATATAAATAATAAA
1 TAATATA-AAAT-AT-AA
*
46259853 CTAATATATAATA-AA
1 -TAATATAAAATATAA
* *
46259868 TAATA-ATAATGTAAA
1 TAATATAAAATAT-AA
* *
46259883 TAATAT-ATATAAAA
1 TAATATAAAATATAA
*
46259897 TAATTATATAATAT-A
1 TAA-TATAAAATATAA
46259912 TAATATAAAA-ATAA
1 TAATATAAAATATAA
46259926 GGTTAAATAA
Statistics
Matches: 154, Mismatches: 24, Indels: 50
0.68 0.11 0.22
Matches are distributed among these distances:
13 11 0.07
14 29 0.19
15 41 0.27
16 30 0.19
17 17 0.11
18 9 0.06
19 17 0.11
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (15 bp):
TAATATAAAATATAA
Found at i:46259771 original size:7 final size:7
Alignment explanation
Indices: 46259759--46259918 Score: 98
Period size: 7 Copynumber: 24.1 Consensus size: 7
46259749 AAATGACATA
46259759 ATAATAT
1 ATAATAT
*
46259766 ATAATAAA
1 ATAAT-AT
46259774 ATAAT-T
1 ATAATAT
46259780 ATAATAT
1 ATAATAT
46259787 ATAATAT
1 ATAATAT
46259794 AT-ATA-
1 ATAATAT
*
46259799 ATTA-AT
1 ATAATAT
46259805 A-AATAT
1 ATAATAT
*
46259811 ATAATACA
1 ATAATA-T
*
46259819 AGTAAAAAT
1 A-T-AATAT
46259828 ATAATA-
1 ATAATAT
46259834 ATAATAT
1 ATAATAT
46259841 ATAA-AT
1 ATAATAT
46259847 AATAA-A-
1 -ATAATAT
*
46259853 CTAATAT
1 ATAATAT
*
46259860 ATAATAA
1 ATAATAT
46259867 ATAATA-
1 ATAATAT
*
46259873 ATAATGT
1 ATAATAT
46259880 A-AATA-
1 ATAATAT
46259885 AT-ATAT
1 ATAATAT
46259891 ATAA-A-
1 ATAATAT
46259896 ATAATTAT
1 ATAA-TAT
46259904 ATAATAT
1 ATAATAT
46259911 ATAATAT
1 ATAATAT
46259918 A
1 A
46259919 AAAATAAGGT
Statistics
Matches: 121, Mismatches: 12, Indels: 40
0.70 0.07 0.23
Matches are distributed among these distances:
5 15 0.12
6 33 0.27
7 56 0.46
8 12 0.10
9 2 0.02
10 3 0.02
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (7 bp):
ATAATAT
Found at i:46259802 original size:22 final size:22
Alignment explanation
Indices: 46259756--46259913 Score: 121
Period size: 22 Copynumber: 6.9 Consensus size: 22
46259746 TAAAAATGAC
*
46259756 ATAATAATATATAATA-AAATA
1 ATAATAATATATAATATATATA
*
46259777 ATTATAATATATAATATATATA
1 ATAATAATATATAATATATATA
*
46259799 ATTAATAAATATATAATACA-AGTA
1 A-TAAT-AATATATAATATATA-TA
*
46259823 AAAAT-ATAATAATAATATATAAATA
1 ATAATAAT-AT-ATAATATAT--ATA
46259848 ATAAACTAATATATAATA-A-ATA
1 AT-AA-TAATATATAATATATATA
*
46259870 ATAATAATGTAAATAATATATATA
1 ATAATAA--TATATAATATATATA
46259894 A-AATAATTATATAATATATA
1 ATAATAA-TATATAATATATA
46259914 ATATAAAAAT
Statistics
Matches: 111, Mismatches: 10, Indels: 31
0.73 0.07 0.20
Matches are distributed among these distances:
20 3 0.03
21 19 0.17
22 32 0.29
23 20 0.18
24 19 0.17
25 4 0.04
26 9 0.08
27 3 0.03
28 2 0.02
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (22 bp):
ATAATAATATATAATATATATA
Found at i:46259835 original size:51 final size:51
Alignment explanation
Indices: 46259759--46259925 Score: 157
Period size: 51 Copynumber: 3.3 Consensus size: 51
46259749 AAATGACATA
* * *
46259759 ATAATATATAAT-AAAATAATTATAATATATAATATATATAATTAATAAATAT
1 ATAATAAATAATAAAAAT-ATAATAATATAT-ATATAAATAATTAATAAATAT
* * *
46259811 ATAATACA-AGTAAAAATATAATAATA-ATATATAAATAATAAACT-AATAT
1 ATAATAAATAATAAAAATATAATAATATATATATAAATAATTAA-TAAATAT
* *
46259860 ATAATAAATAATAATAATGTAAATAATATATATA-AAATAATT-ATATAATAT
1 ATAATAAATAATAAAAATAT-AATAATATATATATAAATAATTAATA-AATAT
*
46259911 ATAATATAAAAATAA
1 ATAATA-AATAATAA
46259926 GGTTAAATAA
Statistics
Matches: 96, Mismatches: 11, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
49 25 0.26
50 12 0.12
51 35 0.36
52 24 0.25
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (51 bp):
ATAATAAATAATAAAAATATAATAATATATATATAAATAATTAATAAATAT
Found at i:46259873 original size:29 final size:28
Alignment explanation
Indices: 46259758--46259918 Score: 105
Period size: 29 Copynumber: 5.3 Consensus size: 28
46259748 AAAATGACAT
46259758 AATAATATATAATAAAATAATTATAAT-ATA
1 AATAATATATAAT-AAATAA-TA-AATAATA
* *
46259788 TAAT-ATATATAATTAATAAATATATAATA
1 -AATAATATATAATAAAT-AATAAATAATA
*
46259817 CAAGTAAAAATATAATAATAATATATAAATAATA
1 -AA-T-AATATATAAT-A-AATA-ATAAATAATA
46259851 AACTAATATATAATAAATAAT-AATAATGTA
1 AA-TAATATATAATAAATAATAAATAA--TA
*
46259881 AATAATATAT-ATAAAATAATTATATAATA
1 AATAATATATAAT-AAATAA-TAAATAATA
*
46259910 TATAATATA
1 AATAATATA
46259919 AAAATAAGGT
Statistics
Matches: 107, Mismatches: 10, Indels: 28
0.74 0.07 0.19
Matches are distributed among these distances:
28 9 0.08
29 36 0.34
30 21 0.20
31 8 0.07
32 17 0.16
33 4 0.04
34 12 0.11
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (28 bp):
AATAATATATAATAAATAATAAATAATA
Found at i:46259925 original size:11 final size:11
Alignment explanation
Indices: 46259739--46259925 Score: 59
Period size: 11 Copynumber: 16.5 Consensus size: 11
46259729 AAAAAAGTAT
46259739 AATAATATAAA
1 AATAATATAAA
* * *
46259750 AATGACATAAT
1 AATAATATAAA
46259761 AAT-ATATAATAA
1 AATAATAT-A-AA
46259773 AATAATTATAATA
1 AATAA-TATAA-A
*
46259786 TATAATATATATA
1 AATAATATA-A-A
*
46259799 ATTAATA-AATA
1 AATAATATAA-A
* *
46259810 TATAATACAAGTA
1 AATAATATAA--A
*
46259823 AA-AATATAAT
1 AATAATATAAA
*
46259833 AATAATATATA
1 AATAATATAAA
46259844 AAT-A-AT-AA
1 AATAATATAAA
* *
46259852 ACTAATAT-AT
1 AATAATATAAA
*
46259862 AATAA-ATAAT
1 AATAATATAAA
*
46259872 AATAATGTAAA
1 AATAATATAAA
46259883 TAAT-ATATATAA
1 -AATAATATA-AA
46259895 AATAATTATATAA
1 AATAA-TATA-AA
46259908 TATATAATATAAA
1 -A-ATAATATAAA
46259921 AATAA
1 AATAA
46259926 GGTTAAATAA
Statistics
Matches: 135, Mismatches: 22, Indels: 38
0.69 0.11 0.19
Matches are distributed among these distances:
8 3 0.02
9 5 0.04
10 20 0.15
11 43 0.32
12 25 0.19
13 27 0.20
14 8 0.06
15 4 0.03
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (11 bp):
AATAATATAAA
Found at i:46259925 original size:26 final size:25
Alignment explanation
Indices: 46259740--46259875 Score: 87
Period size: 24 Copynumber: 5.7 Consensus size: 25
46259730 AAAAAGTATA
46259740 ATAATATAAAAATGACATA-ATAATAT
1 ATAATATAAAAAT-A-ATATATAATAT
46259766 AT-A-AT-AAAATAAT-TATAATAT
1 ATAATATAAAAATAATATATAATAT
* *
46259787 ATAATATATATAATTA-ATA-AATAT
1 ATAATATA-AAAATAATATATAATAT
* *
46259811 ATAATACAAGTAA-AA-ATATAATA-
1 ATAATATAA-AAATAATATATAATAT
* *
46259834 ATAATATATAAATAATAAACTAATAT
1 ATAATATAAAAATAATATA-TAATAT
*
46259860 ATAATA-AATAATAATA
1 ATAATATAAAAATAATA
46259876 ATGTAAATAA
Statistics
Matches: 88, Mismatches: 10, Indels: 25
0.72 0.08 0.20
Matches are distributed among these distances:
21 11 0.12
22 4 0.05
23 21 0.24
24 23 0.26
25 21 0.24
26 8 0.09
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.34
Consensus pattern (25 bp):
ATAATATAAAAATAATATATAATAT
Found at i:46267105 original size:40 final size:40
Alignment explanation
Indices: 46267026--46267203 Score: 209
Period size: 40 Copynumber: 4.5 Consensus size: 40
46267016 AAGCCAGGTA
* * * *
46267026 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
46267065 CCTTCGGGACATAGCCCGGATGTAGTAACTCCCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
46267105 CCTTCAGGACTTAACCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
46267145 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
46267185 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
46267204 TTATCATCCG
Statistics
Matches: 119, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
39 13 0.11
40 106 0.89
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:46269137 original size:15 final size:15
Alignment explanation
Indices: 46269109--46269143 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
46269099 ATCTATGCTC
46269109 ATAAACACCTAAAAA
1 ATAAACACCTAAAAA
46269124 ATAAATCACC-AAAAA
1 ATAAA-CACCTAAAAA
46269139 ATAAA
1 ATAAA
46269144 GAATAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.69, C:0.17, G:0.00, T:0.14
Consensus pattern (15 bp):
ATAAACACCTAAAAA
Found at i:46272028 original size:42 final size:42
Alignment explanation
Indices: 46271969--46272048 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
46271959 CTGTCCCTCG
* *
46271969 GTCAATTATGTTTTCAATTAATCTCATGATGCATTTCAGTCA
1 GTCAATTATGTTTTCAATTAATATAATGATGCATTTCAGTCA
*
46272011 GTCAATTATTTTTTCAATTAATATAATGATGCATTTCA
1 GTCAATTATGTTTTCAATTAATATAATGATGCATTTCA
46272049 TTCAAACGTG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.45
Consensus pattern (42 bp):
GTCAATTATGTTTTCAATTAATATAATGATGCATTTCAGTCA
Found at i:46281796 original size:46 final size:45
Alignment explanation
Indices: 46281718--46281851 Score: 153
Period size: 46 Copynumber: 2.9 Consensus size: 45
46281708 CATTGGGTGG
* * *
46281718 TATGTGAGCCAGTGTAAGACATGTTTGGGACATCCATCGGCCATAT
1 TATGAGAGCCAGTGTAAGACATGTCTGGGACATACATCGGCCAT-T
* * *
46281764 TATGAGAGCCATTGTAAGACATGTCTGCGACATACATCCG-CATT
1 TATGAGAGCCAGTGTAAGACATGTCTGGGACATACATCGGCCATT
* * *
46281808 TAGACGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC
1 T--ATGAGAGCCAGTGTAAGACATGTCTGGGACATACATCGGCC
46281852 TTGAGATATA
Statistics
Matches: 73, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
44 2 0.03
45 3 0.04
46 67 0.92
47 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (45 bp):
TATGAGAGCCAGTGTAAGACATGTCTGGGACATACATCGGCCATT
Found at i:46281978 original size:49 final size:49
Alignment explanation
Indices: 46281820--46282041 Score: 176
Period size: 49 Copynumber: 4.7 Consensus size: 49
46281810 GACGAGAGCT
* * * * *
46281820 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTTGAGATAT-ACAAG-C
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGA-AAGTC
* * * * * *
46281867 TAGTGTAAGACCTATCTGGGACATGGCGTC-AGCTTG-TTG-TG--TGTC
1 -AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGTC
*
46281912 AGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAGAG-C
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGAAAGTC
* * *
46281960 TAGTGGAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGTC
1 -AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGTC
* * *
46282010 AGTGTAAGACTTGTCTGGGACACGGTATCGAC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC
46282042 TTTATTGTGC
Statistics
Matches: 138, Mismatches: 24, Indels: 23
0.75 0.13 0.12
Matches are distributed among these distances:
44 28 0.20
45 3 0.02
46 4 0.03
47 2 0.01
48 27 0.20
49 73 0.53
50 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGTC
Found at i:46283301 original size:20 final size:21
Alignment explanation
Indices: 46283262--46283301 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
46283252 GTCATAATGG
*
46283262 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCATGTTGCCCTT
46283283 CCACACGGGCATG-TGCCCT
1 CCACACGGGCATGTTGCCCT
46283302 GCCTCAAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.40, G:0.28, T:0.20
Consensus pattern (21 bp):
CCACACGGGCATGTTGCCCTT
Found at i:46290423 original size:48 final size:48
Alignment explanation
Indices: 46290352--46290444 Score: 186
Period size: 48 Copynumber: 1.9 Consensus size: 48
46290342 GTATCCATAG
46290352 CACCTTACAGAATGGCTCCTACTGAATTGAAAGAGTTGAAAGTACTAT
1 CACCTTACAGAATGGCTCCTACTGAATTGAAAGAGTTGAAAGTACTAT
46290400 CACCTTACAGAATGGCTCCTACTGAATTGAAAGAGTTGAAAGTAC
1 CACCTTACAGAATGGCTCCTACTGAATTGAAAGAGTTGAAAGTAC
46290445 AGTTGCAAGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.26
Consensus pattern (48 bp):
CACCTTACAGAATGGCTCCTACTGAATTGAAAGAGTTGAAAGTACTAT
Found at i:46294037 original size:18 final size:18
Alignment explanation
Indices: 46293985--46294042 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
46293975 ATATAGTAAC
* *
46293985 ATAAATAGTATATAA-TAT
1 ATAAATA-TATATAACAAA
* *
46294003 ATAACATATAAAAAACAAA
1 ATAA-ATATATATAACAAA
46294022 ATAAATATATATAACAAA
1 ATAAATATATATAACAAA
46294040 ATA
1 ATA
46294043 TATAAATAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
18 24 0.75
19 8 0.25
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.28
Consensus pattern (18 bp):
ATAAATATATATAACAAA
Found at i:46299689 original size:59 final size:59
Alignment explanation
Indices: 46299597--46299714 Score: 227
Period size: 59 Copynumber: 2.0 Consensus size: 59
46299587 CCCAACGCCT
46299597 CATGAAGGGCTCTCTAAAATCTTAAAATGATACGCAGATCTCTGTGTAAAATAATTGAA
1 CATGAAGGGCTCTCTAAAATCTTAAAATGATACGCAGATCTCTGTGTAAAATAATTGAA
*
46299656 CATGAAGGGCTCTCTACAATCTTAAAATGATACGCAGATCTCTGTGTAAAATAATTGAA
1 CATGAAGGGCTCTCTAAAATCTTAAAATGATACGCAGATCTCTGTGTAAAATAATTGAA
46299715 GCTGGCATCT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (59 bp):
CATGAAGGGCTCTCTAAAATCTTAAAATGATACGCAGATCTCTGTGTAAAATAATTGAA
Found at i:46305358 original size:6 final size:6
Alignment explanation
Indices: 46305347--46305378 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
46305337 ATTTTTACAA
46305347 TTTGGT TTTGG- TTTGGT TTTGGT TTTGGT TTT
1 TTTGGT TTTGGT TTTGGT TTTGGT TTTGGT TTT
46305379 TATTTTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (6 bp):
TTTGGT
Found at i:46305363 original size:11 final size:12
Alignment explanation
Indices: 46305347--46305378 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
46305337 ATTTTTACAA
46305347 TTTGGTTTTGG-
1 TTTGGTTTTGGT
46305358 TTTGGTTTTGGT
1 TTTGGTTTTGGT
46305370 TTTGGTTTT
1 TTTGGTTTT
46305379 TATTTTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (12 bp):
TTTGGTTTTGGT
Found at i:46305433 original size:7 final size:7
Alignment explanation
Indices: 46305413--46305447 Score: 61
Period size: 7 Copynumber: 4.9 Consensus size: 7
46305403 ACTCTACTAA
46305413 TTTATTC
1 TTTATTC
46305420 TTTTATTC
1 -TTTATTC
46305428 TTTATTC
1 TTTATTC
46305435 TTTATTC
1 TTTATTC
46305442 TTTATT
1 TTTATT
46305448 TATTTTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 20 0.74
8 7 0.26
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTATTC
Found at i:46308795 original size:20 final size:20
Alignment explanation
Indices: 46308759--46308796 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
46308749 AAAAGACCCT
**
46308759 TTGACTATTAACTTTAACGG
1 TTGACTATTAAAGTTAACGG
46308779 TTGACTATTAAAGTTAAC
1 TTGACTATTAAAGTTAAC
46308797 TACCTTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.39
Consensus pattern (20 bp):
TTGACTATTAAAGTTAACGG
Found at i:46308938 original size:29 final size:29
Alignment explanation
Indices: 46308906--46308973 Score: 86
Period size: 28 Copynumber: 2.3 Consensus size: 29
46308896 TTAAAATATA
46308906 ATAAAAATAT-TAAAAATTAGAAAAAATTT
1 ATAAAAATATGTAAAAATT-GAAAAAATTT
* *
46308935 ATAAAAGT-TGTAACAATTGAAAAAATTT
1 ATAAAAATATGTAAAAATTGAAAAAATTT
46308963 ATAAAATATAT
1 ATAAAA-ATAT
46308974 AGAAATATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
28 17 0.52
29 15 0.45
30 1 0.03
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.32
Consensus pattern (29 bp):
ATAAAAATATGTAAAAATTGAAAAAATTT
Found at i:46309568 original size:24 final size:26
Alignment explanation
Indices: 46309541--46309603 Score: 71
Period size: 25 Copynumber: 2.5 Consensus size: 26
46309531 ATTTTTTACT
46309541 AAATATATATTTTTGT-A-TGTATAA
1 AAATATATATTTTTGTGATTGTATAA
* *
46309565 AAATCTATA-TTTTGTGATTTTATAA
1 AAATATATATTTTTGTGATTGTATAA
46309590 AAA-ATTATATTTTT
1 AAATA-TATATTTTT
46309604 AATAAAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
23 6 0.19
24 9 0.28
25 13 0.41
26 4 0.12
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (26 bp):
AAATATATATTTTTGTGATTGTATAA
Found at i:46309732 original size:25 final size:26
Alignment explanation
Indices: 46309676--46309733 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 26
46309666 TGATCTTTAT
**
46309676 AAAAAAATTCTATGTTTTAATAAATC
1 AAAAAAATTCTATGTTTTAATAAAGA
** *
46309702 GTAAAAATTCTATGTTTT-ATAAGGA
1 AAAAAAATTCTATGTTTTAATAAAGA
46309727 AAAAAAA
1 AAAAAAA
46309734 GCCGATTTAT
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
25 9 0.36
26 16 0.64
ACGTcount: A:0.52, C:0.05, G:0.09, T:0.34
Consensus pattern (26 bp):
AAAAAAATTCTATGTTTTAATAAAGA
Found at i:46311491 original size:105 final size:107
Alignment explanation
Indices: 46311365--46311629 Score: 286
Period size: 107 Copynumber: 2.5 Consensus size: 107
46311355 TTTAAAAAAA
* * * * * **** *
46311365 TTTTGGTGTTGCCCTTATAATGGCTGGCACCAGACTAACACTA-TTT-AAATTTTTTTTCTTGGC
1 TTTTGGTGCTGACCTTGTAATGGCCGGCACCAGACTAACAATATTTTAAAAAAAATTGTCTTGGC
**
46311428 CTTCTAATGGCCAACACC-AGTACGAAAAAAAAATTCAAATTT
66 CTTCTAATAACCAACACCAAGTACG-AAAAAAAATTCAAATTT
* * * *
46311470 TTTTGGTGCTGGCCTTGTAATGGCCGACACCAGACTACCAATATTTTAAAAAAAATTGTCTTGGT
1 TTTTGGTGCTGACCTTGTAATGGCCGGCACCAGACTAACAATATTTTAAAAAAAATTGTCTTGGC
** *
46311535 CTTCTAATAACCGGCACCAAGTATGAAAAAAAATTCAAATTT
66 CTTCTAATAACCAACACCAAGTACGAAAAAAAATTCAAATTT
* * * *
46311577 TTTTGCTGCTGACCTTGTAATGGCCGGCACCAAAGTACCAATA-TTTAAAAAAA
1 TTTTGGTGCTGACCTTGTAATGGCCGGCACCAGACTAACAATATTTTAAAAAAA
46311630 TTTTATTTTA
Statistics
Matches: 134, Mismatches: 23, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
105 36 0.27
106 13 0.10
107 80 0.60
108 5 0.04
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (107 bp):
TTTTGGTGCTGACCTTGTAATGGCCGGCACCAGACTAACAATATTTTAAAAAAAATTGTCTTGGC
CTTCTAATAACCAACACCAAGTACGAAAAAAAATTCAAATTT
Found at i:46311671 original size:107 final size:107
Alignment explanation
Indices: 46311421--46311672 Score: 301
Period size: 107 Copynumber: 2.4 Consensus size: 107
46311411 AAATTTTTTT
* * * * *
46311421 TCTTGGCCTTCTAATGGCCAACACCAGTACGAAAAAAAAATTCAAATTTTTTTGGTGCTGGCCTT
1 TCTTAGCCTTCTAATGGCCGACACCAATACGAAAAAAAAATTCAAATTTTTTTGCTGCTGACCTT
* *
46311486 GTAATGGCCGACACCAGACTACCAATATTTTAAAAAAAATTG
66 GTAATGGCCGACACCAAACTACCAATATTTTAAAAAAAATTA
* * ** * *
46311528 TCTTGGTCTTCTAATAACCGGCACCAAGTATG-AAAAAAAATTCAAATTTTTTTGCTGCTGACCT
1 TCTTAGCCTTCTAATGGCCGACACCAA-TACGAAAAAAAAATTCAAATTTTTTTGCTGCTGACCT
* * *
46311592 TGTAATGGCCGGCACCAAAGTACCAATA-TTTAAAAAAATTTTA
65 TGTAATGGCCGACACCAAACTACCAATATTTTAAAAAAA-ATTA
* * *
46311635 TTTTAGCCTTCTAATGGTCGACTCCAATACGAAAAAAA
1 TCTTAGCCTTCTAATGGCCGACACCAATACGAAAAAAA
46311673 TTTAATTTTT
Statistics
Matches: 119, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
106 13 0.11
107 103 0.87
108 3 0.03
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (107 bp):
TCTTAGCCTTCTAATGGCCGACACCAATACGAAAAAAAAATTCAAATTTTTTTGCTGCTGACCTT
GTAATGGCCGACACCAAACTACCAATATTTTAAAAAAAATTA
Found at i:46312339 original size:15 final size:16
Alignment explanation
Indices: 46312314--46312343 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
46312304 TAAGAATGTT
46312314 TGTATTTTTTTATATC
1 TGTATTTTTTTATATC
46312330 TGTA-TTTTTTATAT
1 TGTATTTTTTTATAT
46312344 TTTCGTGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.20, C:0.03, G:0.07, T:0.70
Consensus pattern (16 bp):
TGTATTTTTTTATATC
Found at i:46316121 original size:13 final size:13
Alignment explanation
Indices: 46316086--46316124 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
46316076 AAAAATAGGC
*
46316086 TAAAGCTAAATTAA
1 TAAAACTAAA-TAA
46316100 TAAAA-TAAATAA
1 TAAAACTAAATAA
46316112 TAAAACTAAATAA
1 TAAAACTAAATAA
46316125 AATAAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 8 0.35
13 11 0.48
14 4 0.17
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.26
Consensus pattern (13 bp):
TAAAACTAAATAA
Found at i:46316182 original size:13 final size:14
Alignment explanation
Indices: 46316166--46316198 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
46316156 AAAATTGATG
*
46316166 AAATAAATAATA-A
1 AAATAAATAAAATA
46316179 AAATAAATAAAATA
1 AAATAAATAAAATA
46316193 AAATAA
1 AAATAA
46316199 TATCTTCTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
AAATAAATAAAATA
Found at i:46316658 original size:6 final size:6
Alignment explanation
Indices: 46316647--46316694 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
46316637 TTTTTTTTCA
* * * * *
46316647 TATTTT TATTTT TATTTT CATTTT CATTTA AATTTT TATTTT CATTTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
46316695 GGTACTTCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (6 bp):
TATTTT
Found at i:46316662 original size:12 final size:12
Alignment explanation
Indices: 46316647--46316694 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
46316637 TTTTTTTTCA
*
46316647 TATTTTTATTTT
1 TATTTTCATTTT
46316659 TATTTTCATTTT
1 TATTTTCATTTT
* **
46316671 CATTTAAATTTT
1 TATTTTCATTTT
46316683 TATTTTCATTTT
1 TATTTTCATTTT
46316695 GGTACTTCTT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (12 bp):
TATTTTCATTTT
Found at i:46317000 original size:16 final size:16
Alignment explanation
Indices: 46316982--46317075 Score: 100
Period size: 16 Copynumber: 5.8 Consensus size: 16
46316972 ACTCTTTTTT
*
46316982 TTTTATTTCTTTCC-A
1 TTTTATTTCATTCCAA
*
46316997 TTTTCATTTCATTCTAA
1 TTTT-ATTTCATTCCAA
46317014 TTTTATTTCATTCCAA
1 TTTTATTTCATTCCAA
* *
46317030 TTTCATTTCATTCTAA
1 TTTTATTTCATTCCAA
*
46317046 TTTTATTTCCATTCCTA
1 TTTTATTT-CATTCCAA
*
46317063 TTTCCATTTCATT
1 TTT-TATTTCATT
46317076 TCATTTAAAT
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
15 4 0.06
16 40 0.61
17 18 0.27
18 4 0.06
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTTATTTCATTCCAA
Found at i:46317008 original size:5 final size:5
Alignment explanation
Indices: 46316998--46317081 Score: 60
Period size: 5 Copynumber: 15.6 Consensus size: 5
46316988 TTCTTTCCAT
* * * *
46316998 TTTCA TTTCA TTCTAA TTTTA TTTCA TTCCAA TTTCA TTTCA TTCTAA
1 TTTCA TTTCA TT-TCA TTTCA TTTCA TTTC-A TTTCA TTTCA TT-TCA
* *
46317046 TTTTA TTTCCA TTCCTA TTTCCA TTTCA TTTCA TTT
1 TTTCA TTT-CA TTTC-A TTT-CA TTTCA TTTCA TTT
46317082 AAATTATATT
Statistics
Matches: 63, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
5 40 0.63
6 22 0.35
7 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.00, T:0.58
Consensus pattern (5 bp):
TTTCA
Found at i:46317019 original size:32 final size:32
Alignment explanation
Indices: 46316982--46317075 Score: 143
Period size: 32 Copynumber: 2.9 Consensus size: 32
46316972 ACTCTTTTTT
*
46316982 TTTTATTTCTTTCCATTTTCATTTCATTCTAA
1 TTTTATTTCATTCCATTTTCATTTCATTCTAA
*
46317014 TTTTATTTCATTCCAATTTCATTTCATTCTAA
1 TTTTATTTCATTCCATTTTCATTTCATTCTAA
*
46317046 TTTTATTTCCATTCCTATTTCCATTTCATT
1 TTTTATTT-CATTCC-ATTTTCATTTCATT
46317076 TCATTTAAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
32 38 0.68
33 6 0.11
34 12 0.21
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.60
Consensus pattern (32 bp):
TTTTATTTCATTCCATTTTCATTTCATTCTAA
Found at i:46317125 original size:42 final size:43
Alignment explanation
Indices: 46317079--46317160 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 43
46317069 TTTCATTTCA
* *
46317079 TTTAAATTATA-TTATTTTTTTCTCAA-TTCATTTATATTATTT
1 TTTAAATTAAATTTATTTTTTTCT-AATTTCATTTAAATTATTT
*
46317121 TTTAATTTAAATTTATTTTTTTCTAATTTCATTTAAATTA
1 TTTAAATTAAATTTATTTTTTTCTAATTTCATTTAAATTA
46317161 AAAGTTTCCC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
42 11 0.31
43 24 0.69
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.63
Consensus pattern (43 bp):
TTTAAATTAAATTTATTTTTTTCTAATTTCATTTAAATTATTT
Found at i:46317233 original size:49 final size:47
Alignment explanation
Indices: 46317173--46317451 Score: 173
Period size: 49 Copynumber: 5.8 Consensus size: 47
46317163 AGTTTCCCTA
46317173 ATTTCATTTAAATTTATCTTTCTTTCAAATTTAATTTAATTTTTTTCTC
1 ATTTCATTTAAATTTATCTTTCTTTC--ATTTAATTTAATTTTTTTCTC
** * *
46317222 ATTTCATTTAAA-TTATCAATCTTTCCATGTAATTT--TTCTCTCATT-TC
1 ATTTCATTTAAATTTATCTTTCTTT-CATTTAATTTAATT-T-T-TTTCTC
* * **
46317269 ATTTCAATTAAACTTT-TCTCTCATTTCATTTAAATTT-ATCTTTCTTTCAA
1 ATTTCATTTAAA-TTTATCTTTC-TTTCATTT-AATTTAAT-TTT-TTTCTC
* * *
46317319 ATTT-ATTT-AATTT-TTTTCTCATTTCATTTGAATTAAATTTTTTCCTC
1 ATTTCATTTAAATTTATCTT-TC-TTTCATTT-AATTTAATTTTTTTCTC
* * * *
46317366 ATTTCATTTAAATTTATCTTTCTTTCAATTTTCATTTAAATTTTGTATC
1 ATTTCATTTAAATTTATCTTTCTTTC-A-TTTAATTTAATTTTTTTCTC
* * *
46317415 ATTTCATTTCAATTTAT-TTTTTTCTCATTTCATTTAA
1 ATTTCATTTAAATTTATCTTTCTT-TCATTTAATTTAA
46317452 ATTATCAATC
Statistics
Matches: 183, Mismatches: 28, Indels: 40
0.73 0.11 0.16
Matches are distributed among these distances:
45 2 0.01
46 1 0.01
47 44 0.24
48 54 0.30
49 69 0.38
50 12 0.07
51 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.01, T:0.58
Consensus pattern (47 bp):
ATTTCATTTAAATTTATCTTTCTTTCATTTAATTTAATTTTTTTCTC
Found at i:46317235 original size:27 final size:26
Alignment explanation
Indices: 46317125--46317235 Score: 90
Period size: 27 Copynumber: 4.3 Consensus size: 26
46317115 TTATTTTTTA
46317125 ATTTAAATTTATTTTTTTCTAATTTC
1 ATTTAAATTTATTTTTTTCTAATTTC
* ** **
46317151 ATTTAAATTAAAAGTTTCCCTAATTTC
1 ATTTAAATT-TATTTTTTTCTAATTTC
46317178 ATTTAAATTTATCTTTCTTTC-AA----
1 ATTTAAATTTAT-TTT-TTTCTAATTTC
*
46317201 ATTT-AATTTAATTTTTTTCTCATTTC
1 ATTTAAATTT-ATTTTTTTCTAATTTC
46317227 ATTTAAATT
1 ATTTAAATT
46317236 ATCAATCTTT
Statistics
Matches: 64, Mismatches: 11, Indels: 19
0.68 0.12 0.20
Matches are distributed among these distances:
21 4 0.06
22 9 0.14
23 6 0.09
26 14 0.22
27 29 0.45
28 2 0.03
ACGTcount: A:0.31, C:0.11, G:0.01, T:0.58
Consensus pattern (26 bp):
ATTTAAATTTATTTTTTTCTAATTTC
Found at i:46317273 original size:27 final size:27
Alignment explanation
Indices: 46317255--46317455 Score: 108
Period size: 27 Copynumber: 7.9 Consensus size: 27
46317245 TCCATGTAAT
46317255 TTTTCTCTCATTTCATTTCAATTAAAC
1 TTTTCTCTCATTTCATTTCAATTAAAC
* * *
46317282 TTTTCTCTCATTTCATTTAAATTTATC
1 TTTTCTCTCATTTCATTTCAATTAAAC
*
46317309 -TTTCTTTCAAATTT-ATTT-AATT----
1 TTTTCTCTC--ATTTCATTTCAATTAAAC
*
46317331 TTTT-TCTCATTTCATTTGAATTAAA-
1 TTTTCTCTCATTTCATTTCAATTAAAC
* * * *
46317356 TTTTTTCCTCATTTCATTTAAATTTATC
1 TTTTCT-CTCATTTCATTTCAATTAAAC
* * *
46317384 -TTTCTTTCA-AT--TTTCATTTAAA-
1 TTTTCTCTCATTTCATTTCAATTAAAC
* * * *
46317406 TTTTGTATCATTTCATTTCAATT-TAT
1 TTTTCTCTCATTTCATTTCAATTAAAC
* *
46317432 TTTTTTCTCATTTCATTTAAATTA
1 TTTTCTCTCATTTCATTTCAATTA
46317456 TCAATCTTTC
Statistics
Matches: 134, Mismatches: 23, Indels: 34
0.70 0.12 0.18
Matches are distributed among these distances:
20 4 0.03
21 4 0.03
22 7 0.05
23 17 0.13
24 1 0.01
25 6 0.04
26 42 0.31
27 49 0.37
28 4 0.03
ACGTcount: A:0.25, C:0.15, G:0.01, T:0.59
Consensus pattern (27 bp):
TTTTCTCTCATTTCATTTCAATTAAAC
Found at i:46317278 original size:118 final size:117
Alignment explanation
Indices: 46317135--46317353 Score: 357
Period size: 118 Copynumber: 1.9 Consensus size: 117
46317125 ATTTAAATTT
*
46317135 ATTTTTTTCTAATTTCATTTAAATTAAAAGTTTCCCTAATTTCATTTAAATTTATCTTTCTTTCA
1 ATTTTTCTCTAATTTCATTTAAATTAAAAGTTTCCCTAATTTCATTTAAATTTATCTTTCTTTCA
46317200 AATTTAATTTAATTTTTTTCTCATTTCATTTAAATTATCAATCTTTCCATGTA
66 AATTT-ATTTAATTTTTTTCTCATTTCATTTAAATTATCAATCTTTCCATGTA
* * ** * *
46317253 ATTTTTCTCTCATTTCATTTCAATTAAACTTTTCTCTCATTTCATTTAAATTTATCTTTCTTTCA
1 ATTTTTCTCTAATTTCATTTAAATTAAAAGTTTCCCTAATTTCATTTAAATTTATCTTTCTTTCA
*
46317318 AATTTATTTAATTTTTTTCTCATTTCATTTGAATTA
66 AATTTATTTAATTTTTTTCTCATTTCATTTAAATTA
46317354 AATTTTTTCC
Statistics
Matches: 93, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
117 30 0.32
118 63 0.68
ACGTcount: A:0.27, C:0.15, G:0.01, T:0.57
Consensus pattern (117 bp):
ATTTTTCTCTAATTTCATTTAAATTAAAAGTTTCCCTAATTTCATTTAAATTTATCTTTCTTTCA
AATTTATTTAATTTTTTTCTCATTTCATTTAAATTATCAATCTTTCCATGTA
Found at i:46317332 original size:75 final size:75
Alignment explanation
Indices: 46317251--46317454 Score: 302
Period size: 75 Copynumber: 2.7 Consensus size: 75
46317241 TCTTTCCATG
*
46317251 TAATTTTTCTCTCATTTCATTTCAATTAAACTTTTCTCTCATTTCATTTAAATTTATCTTTCTTT
1 TAATTTTTCTCTCATTTCATTTCAATTAAA-TTTTTTCTCATTTCATTTAAATTTATCTTTCTTT
46317316 CAAATTT-ATT
65 CAAATTTCATT
* *
46317326 TAATTTTTTTCTCATTTCATTTGAATTAAATTTTTTCCTCATTTCATTTAAATTTATCTTTCTTT
1 TAATTTTTCTCTCATTTCATTTCAATTAAATTTTTT-CTCATTTCATTTAAATTTATCTTTCTTT
*
46317391 CAATTTTCATT
65 CAAATTTCATT
* * * * *
46317402 TAAATTTTGTATCATTTCATTTCAATTTATTTTTTTCTCATTTCATTTAAATT
1 TAATTTTTCTCTCATTTCATTTCAATTAAATTTTTTCTCATTTCATTTAAATT
46317455 ATCAATCTTT
Statistics
Matches: 117, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
74 5 0.04
75 79 0.68
76 33 0.28
ACGTcount: A:0.25, C:0.15, G:0.01, T:0.59
Consensus pattern (75 bp):
TAATTTTTCTCTCATTTCATTTCAATTAAATTTTTTCTCATTTCATTTAAATTTATCTTTCTTTC
AAATTTCATT
Found at i:46317455 original size:102 final size:102
Alignment explanation
Indices: 46317254--46317455 Score: 252
Period size: 102 Copynumber: 2.0 Consensus size: 102
46317244 TTCCATGTAA
* *
46317254 TTTTTCTCTCATTTCATTTCAATTAAACTTTTCTCTCATTTCATTTAAATTTATCTTTCTTTCAA
1 TTTTTCTCTCATTTCATTTAAATTAAACTTTTCTCTCATTTCATTTAAATTTATCTATCTTTC-A
*
46317319 ATTTATTTAATTTTTTTCTCATTTCATTTGAATTAAAT
65 ATTTATTTAATTTTTTTCTCATTTCATTTAAATTAAAT
* * * *
46317357 TTTTTC-CTCATTTCATTTAAATTTATC-TTTCTTTCAATTTTCATTTAAATTT-TGTATCATTT
1 TTTTTCTCTCATTTCATTTAAATTAAACTTTTCTCTC-A-TTTCATTTAAATTTATCTATC-TTT
46317419 C-ATTTCAATTT-ATTTTTTTCTCATTTCATTTAAATTA
63 CAATTT--ATTTAATTTTTTTCTCATTTCATTTAAATTA
46317456 TCAATCTTTC
Statistics
Matches: 87, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
101 11 0.13
102 48 0.55
103 28 0.32
ACGTcount: A:0.25, C:0.15, G:0.01, T:0.59
Consensus pattern (102 bp):
TTTTTCTCTCATTTCATTTAAATTAAACTTTTCTCTCATTTCATTTAAATTTATCTATCTTTCAA
TTTATTTAATTTTTTTCTCATTTCATTTAAATTAAAT
Found at i:46323597 original size:55 final size:54
Alignment explanation
Indices: 46323514--46323828 Score: 194
Period size: 55 Copynumber: 5.6 Consensus size: 54
46323504 ATTGGCACTC
* *
46323514 TGGTGCTGGCCATTACAAGGCCAACACCAAAAAAATTTGAATTTTTTTTCATACT
1 TGGTGCCGGCCATTACAAGGCCAGCACCAAAAAAATTTG-ATTTTTTTTCATACT
* * * * ** **
46323569 TGGTGTCGGCCATTAGAAGACCAGCACC----AATTTTTTTTTTTAAATATTGGTACT
1 TGGTGCCGGCCATTACAAGGCCAGCACCAAAAAAATTTGATTTTT---T-TTCATACT
* * * *
46323623 CTAGTGCCGACCATTACAAGGCCAGTACCAAAAAAATTTGATTTTTTTTCATAAT
1 -TGGTGCCGGCCATTACAAGGCCAGCACCAAAAAAATTTGATTTTTTTTCATACT
* ** * * *
46323678 TGGTGCCGACCATTAGTAGACCAGGACCAAAAAAATTT--TTTTTTTTAAATACTGGTAGT
1 TGGTGCCGGCCATTACAAGGCCAGCACCAAAAAAATTTGATTTTTTTT-CATAC------T
*
46323737 CTGGTGCCGGCCATTACAAGGCCAGCACCAAAAAATTTTGAATTTTTTTTTTCATAC-
1 -TGGTGCCGGCCATTACAAGGCCAGCACCAAAAAAATTTG-A--TTTTTTTTCATACT
* * * * *
46323794 TGGGGCCGGCAATTAGAAGGCCAGAACAAAAAAAA
1 TGGTGCCGGCCATTACAAGGCCAGCACCAAAAAAA
46323829 AATTAAATAG
Statistics
Matches: 196, Mismatches: 42, Indels: 43
0.70 0.15 0.15
Matches are distributed among these distances:
50 5 0.03
51 5 0.03
52 8 0.04
53 4 0.02
54 39 0.20
55 50 0.26
56 30 0.15
59 11 0.06
60 32 0.16
64 4 0.02
65 8 0.04
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.31
Consensus pattern (54 bp):
TGGTGCCGGCCATTACAAGGCCAGCACCAAAAAAATTTGATTTTTTTTCATACT
Found at i:46323600 original size:116 final size:110
Alignment explanation
Indices: 46323453--46323817 Score: 419
Period size: 114 Copynumber: 3.2 Consensus size: 110
46323443 AAAAAGTTCC
* * * *
46323453 TGGTGCCGGCCATTCGAAGACTAGGACCAATTTTTTTTTTATTTTTTACATATTGGCACTCTGGT
1 TGGTGCCGGCCATTAGAAGACCAGGACCAA-----TTTTT-TTTTTTAAATATTGGTACTCTGGT
* *
46323518 GCTGGCCATTACAAGGCCAACACCAAAAAAATTTGAATTTTTTTTCATACT
60 GCCGGCCATTACAAGGCCAGCACCAAAAAAATTTGAATTTTTTTTCATACT
* * * *
46323569 TGGTGTCGGCCATTAGAAGACCAGCACCAATTTTTTTTTTTAAATATTGGTACTCTAGTGCCGAC
1 TGGTGCCGGCCATTAGAAGACCAGGACCAATTTTTTTTTTTAAATATTGGTACTCTGGTGCCGGC
* *
46323634 CATTACAAGGCCAGTACCAAAAAAATTTG-ATTTTTTTTCATAAT
66 CATTACAAGGCCAGCACCAAAAAAATTTGAATTTTTTTTCATACT
* * * *
46323678 TGGTGCCGACCATTAGTAGACCAGGACCAAAAAAATTTTTTTTTTTAAATACTGGTAGTCTGGTG
1 TGGTGCCGGCCATTAGAAGACCAGGACC-----AATTTTTTTTTTTAAATATTGGTACTCTGGTG
*
46323743 CCGGCCATTACAAGGCCAGCACCAAAAAATTTTGAATTTTTTTTTTCATAC-
61 CCGGCCATTACAAGGCCAGCACCAAAAAAATTTGAA--TTTTTTTTCATACT
* * *
46323794 TGGGGCCGGCAATTAGAAGGCCAG
1 TGGTGCCGGCCATTAGAAGACCAG
46323818 AACAAAAAAA
Statistics
Matches: 213, Mismatches: 28, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
109 38 0.18
110 52 0.24
111 5 0.02
114 60 0.28
115 1 0.00
116 45 0.21
117 12 0.06
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (110 bp):
TGGTGCCGGCCATTAGAAGACCAGGACCAATTTTTTTTTTTAAATATTGGTACTCTGGTGCCGGC
CATTACAAGGCCAGCACCAAAAAAATTTGAATTTTTTTTCATACT
Found at i:46323690 original size:54 final size:58
Alignment explanation
Indices: 46323626--46323786 Score: 163
Period size: 54 Copynumber: 2.8 Consensus size: 58
46323616 TGGTACTCTA
* *
46323626 GTGCCGACCATTACAAGGCCAGTACCAAAAAAATTTGATTTTTTTT-CATA-A-T-TG
1 GTGCCGACCATTACAAGGCCAGCACCAAAAAAATTTGATTTTTTTTAAATAGAGTCTG
** * *
46323680 GTGCCGACCATTAGTAGACCAGGACCAAAAAAATTT--TTTTTTTTAAATACTGGTAGTCTG
1 GTGCCGACCATTACAAGGCCAGCACCAAAAAAATTTGATTTTTTTTAAATA---G-AGTCTG
* *
46323740 GTGCCGGCCATTACAAGGCCAGCACCAAAAAATTTTGAATTTTTTTT
1 GTGCCGACCATTACAAGGCCAGCACCAAAAAAATTTG-ATTTTTTTT
46323787 TTCATACTGG
Statistics
Matches: 85, Mismatches: 11, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
52 8 0.09
53 3 0.04
54 32 0.38
58 1 0.01
59 1 0.01
60 32 0.38
63 8 0.09
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.33
Consensus pattern (58 bp):
GTGCCGACCATTACAAGGCCAGCACCAAAAAAATTTGATTTTTTTTAAATAGAGTCTG
Found at i:46323825 original size:114 final size:111
Alignment explanation
Indices: 46323488--46323876 Score: 398
Period size: 109 Copynumber: 3.5 Consensus size: 111
46323478 ACCAATTTTT
* * *
46323488 TTTTTATTTTTTACATATTGGCACTCTGGTGCTGGCCATTACAAGGCCAACACCAAAAAAATTTG
1 TTTTT-TTTTTTAAATATTGGTACTCTGGTGCCGGCCATTACAAGGCCAACACCAAAAAAATTTG
* **
46323553 AATTTTTTTTCATACTTGGTGTCGGCCATTAGAAGACCAG-C-ACCAA
65 AATTTTTTTTCATAC-TGGTGCCGGCCATTAGAAGACCAGACAAAAAA
* * **
46323599 TTTTTTTTTTTAAATATTGGTACTCTAGTGCCGACCATTACAAGGCCAGTACCAAAAAAATTTG-
1 TTTTTTTTTTTAAATATTGGTACTCTGGTGCCGGCCATTACAAGGCCAACACCAAAAAAATTTGA
* * *
46323663 ATTTTTTTTCATAATTGGTGCCGACCATTAGTAGACCAGGACCAAAAAAA
66 ATTTTTTTTCAT-ACTGGTGCCGGCCATTAGAAGACCA-GA-C-AAAAAA
* * * *
46323713 TTTTTTTTTTTAAATACTGGTAGTCTGGTGCCGGCCATTACAAGGCCAGCACCAAAAAATTTTGA
1 TTTTTTTTTTTAAATATTGGTACTCTGGTGCCGGCCATTACAAGGCCAACACCAAAAAAATTTGA
* * *
46323778 ATTTTTTTTTTCATACTGGGGCCGGCAATTAGAAGGCCAGAACAAAAAA
66 A--TTTTTTTTCATACTGGTGCCGGCCATTAGAAGACCAG-ACAAAAAA
**** * * *
46323827 -----AAAATTAAATAGTGTTAGTCTGGTGCCGGCCATTACAAGGCCAACACCAA
1 TTTTTTTTTTTAAATATTGGTACTCTGGTGCCGGCCATTACAAGGCCAACACCAA
46323877 TTTTTTTTTT
Statistics
Matches: 236, Mismatches: 32, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
109 75 0.32
110 54 0.23
111 5 0.02
112 1 0.00
114 67 0.28
115 3 0.01
116 20 0.08
117 11 0.05
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (111 bp):
TTTTTTTTTTTAAATATTGGTACTCTGGTGCCGGCCATTACAAGGCCAACACCAAAAAAATTTGA
ATTTTTTTTCATACTGGTGCCGGCCATTAGAAGACCAGACAAAAAA
Found at i:46324297 original size:18 final size:17
Alignment explanation
Indices: 46324254--46324297 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
46324244 ATTTAGAAAT
46324254 TATTTTTATCATATTAA
1 TATTTTTATCATATTAA
46324271 TATTTTTTAT-AGTAATTAA
1 TA-TTTTTATCA-T-ATTAA
46324290 TATTTTTA
1 TATTTTTA
46324298 AATATATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 3 0.12
18 14 0.58
19 7 0.29
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (17 bp):
TATTTTTATCATATTAA
Found at i:46325592 original size:19 final size:19
Alignment explanation
Indices: 46325568--46325615 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
46325558 CATCCATCAG
*
46325568 AATCAAATTTACTCACCGT
1 AATCAAATTTACTCACAGT
*
46325587 AATCAAATTTACTCATAGT
1 AATCAAATTTACTCACAGT
46325606 AATCAAATTT
1 AATCAAATTT
46325616 GTTATTAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.42, C:0.19, G:0.04, T:0.35
Consensus pattern (19 bp):
AATCAAATTTACTCACAGT
Found at i:46333226 original size:46 final size:45
Alignment explanation
Indices: 46333170--46333345 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 45
46333160 TGGTTGAGCA
46333170 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-CTTATGGATGCGAATG
* * *
46333216 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCCTTATGGATGCGAA-T--G
* *
46333261 CATCCGAACTCATTGAGTTGAGTCCGAGTTCCCTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTT-CCTTATGGATGCGAATG
* *
46333309 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-CTTATGG
46333346 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 61 0.56
47 27 0.25
48 4 0.04
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCCTTATGGATGCGAATG
Found at i:46333326 original size:93 final size:93
Alignment explanation
Indices: 46333167--46333338 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
46333157 GGATGGTTGA
* * *
46333167 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
46333232 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
46333260 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCCCTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
46333325 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
46333339 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:46346606 original size:19 final size:18
Alignment explanation
Indices: 46346556--46346606 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 18
46346546 ATTATATATT
46346556 TATATATTTGTAA-TTTA
1 TATATATTTGTAATTTTA
* **
46346573 TAAATATGTCATAATTTTA
1 TATATAT-TTGTAATTTTA
46346592 TAGTATATTTGTAAT
1 TA-TATATTTGTAAT
46346607 GCATGTGTAA
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
17 6 0.24
18 4 0.16
19 11 0.44
20 4 0.16
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.53
Consensus pattern (18 bp):
TATATATTTGTAATTTTA
Found at i:46354207 original size:96 final size:95
Alignment explanation
Indices: 46354015--46354336 Score: 360
Period size: 96 Copynumber: 3.4 Consensus size: 95
46354005 GAGGGTGAAT
* * * * * * * *
46354015 TGTCGATGTCATGTTCCAAACATGGTCTTACACTAGCTCACATGTATAGGCTGATGCCATGTCCC
1 TGTCGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCAT-AATTGGCTGATGCCATGTCCC
* * * * *
46354080 AAACATGGTCTTATACTAGTTCTCGTCTCAA
65 AAACATGGTCTTACACTAGCTCACATATCAA
46354111 TG-CTGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCTGATGCCATGTCC
1 TGTC-GATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATAAT-TGGCTGATGCCATGTCC
* *
46354175 CAGACATGGTCTTACACTAGCGCACATATCAA
64 CAAACATGGTCTTACACTAGCTCACATATCAA
* ** *
46354207 TGTCGATGCCATATCCCAGACATGGTCTTACATTGGCTCTCATTACATT-GCCAATGCCATGTTC
1 TGTCGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCA-TA-ATTGGCTGATGCCATGTCC
* * *
46354271 CAAACATGGTCTTACACTAACTCACATGTCGA
64 CAAACATGGTCTTACACTAGCTCACATATCAA
* * *
46354303 GGTCGATGCCATGTCCCAAACATGGTCTTACACT
1 TGTCGATGCCATATCCCAGACATGGTCTTACACT
46354337 AGCGCACATA
Statistics
Matches: 193, Mismatches: 28, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
95 3 0.02
96 184 0.95
97 4 0.02
98 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (95 bp):
TGTCGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATAATTGGCTGATGCCATGTCCCA
AACATGGTCTTACACTAGCTCACATATCAA
Found at i:46354284 original size:144 final size:144
Alignment explanation
Indices: 46354016--46354358 Score: 390
Period size: 144 Copynumber: 2.4 Consensus size: 144
46354006 AGGGTGAATT
* * * * * *
46354016 GTCGATGTCATGTTCCAAACATGGTCTTACACTAGCTCACATGT--ATAGGCTGATGCCATGTCC
1 GTCGATGCCATGTCCCAAACATGGTCTTACACTAGCGCACATATCAAT-GTC-GATGCCATATCC
* * * ** *
46354079 CAAACATGGTCTTATACTAGTTCTCGTCTCAATGCTGATGCCATATCCCAGACATGGTCTTACAC
64 CAAACATGGTCTTACACTAGCTCTCATCTCAATGCCAATGCCATATCCCAAACATGGTCTTACAC
** * *
46354144 TGGCTCTCATAAT-GTG
129 TAACTCACAT-ATCGAG
*
46354160 G-CTGATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAATGTCGATGCCATATCCC
1 GTC-GATGCCATGTCCCAAACATGGTCTTACACTAGCGCACATATCAATGTCGATGCCATATCCC
* * * * * *
46354224 AGACATGGTCTTACATTGGCTCTCAT-TACATTGCCAATGCCATGTTCCAAACATGGTCTTACAC
65 AAACATGGTCTTACACTAGCTCTCATCT-CAATGCCAATGCCATATCCCAAACATGGTCTTACAC
*
46354288 TAACTCACATGTCGAG
129 TAACTCACATATCGAG
46354304 GTCGATGCCATGTCCCAAACATGGTCTTACACTAGCGCACATATCAATGTCGATG
1 GTCGATGCCATGTCCCAAACATGGTCTTACACTAGCGCACATATCAATGTCGATG
46354359 TCATGGCATG
Statistics
Matches: 168, Mismatches: 25, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
143 3 0.02
144 160 0.95
145 3 0.02
146 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (144 bp):
GTCGATGCCATGTCCCAAACATGGTCTTACACTAGCGCACATATCAATGTCGATGCCATATCCCA
AACATGGTCTTACACTAGCTCTCATCTCAATGCCAATGCCATATCCCAAACATGGTCTTACACTA
ACTCACATATCGAG
Found at i:46354356 original size:48 final size:48
Alignment explanation
Indices: 46354015--46354363 Score: 316
Period size: 48 Copynumber: 7.3 Consensus size: 48
46354005 GAGGGTGAAT
* * *
46354015 TGTCGATGTCATGTTCCAAACATGGTCTTACACTAGCTCACATGT--A
1 TGTCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAA
* * * * * *
46354061 TAGGCTGATGCCATGTCCCAAACATGGTCTTATACTAGTTCTCGTCTCAA
1 T-GTC-GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAA
* * * *
46354111 TG-CTGATGCCATATCCCAGACATGGTCTTACACTGGCTCTC--AT-AA
1 TGTC-GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAA
* *
46354156 TGTGGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAA
1 TGT--C-GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAA
* * * * * *
46354207 TGTCGATGCCATATCCCAGACATGGTCTTACATTGGCTCTCAT-TACAT
1 TGTCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAT-CAA
* * * * * *
46354255 TGCCAATGCCATGTTCCAAACATGGTCTTACACTAACTCACATGTCGA
1 TGTCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAA
* *
46354303 GGTCGATGCCATGTCCCAAACATGGTCTTACACTAGCGCACATATCAA
1 TGTCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAA
*
46354351 TGTCGATGTCATG
1 TGTCGATGCCATG
46354364 GCATGAATAT
Statistics
Matches: 246, Mismatches: 45, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
45 4 0.02
46 2 0.01
47 3 0.01
48 225 0.91
49 3 0.01
50 4 0.02
51 5 0.02
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (48 bp):
TGTCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAA
Found at i:46362105 original size:48 final size:48
Alignment explanation
Indices: 46361782--46362130 Score: 277
Period size: 48 Copynumber: 7.3 Consensus size: 48
46361772 GAGGGTGAAT
* * * * * * **
46361782 TGCCGATGCCATGTTCCAAACATGGTCTTACATTGGTTCACATGTTGA
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATCTCAA
* * * * * *
46361830 GGCCGATGTCATGTCCTAGACATGGTCTTACACAAGCTCTCGTCTCAA
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATCTCAA
* * *
46361878 TGCCAATGCCGTGTCCCAAACATGGTCTTACACTAGCTCTCGTCTCAA
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATCTCAA
* * * * *
46361926 TGCCAATGCCATGTCTCAGACATGGTCTTACACTGGCTCTCAT-TACAT
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATCT-CAA
* * * * * * * * * *
46361974 TGTCGATGCCATATTCTAAATATGGTTTTACACTGGCTCACATGTCGA
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATCTCAA
* * * * * *
46362022 GGCCAATGCCATGTCCCAGACATGGTCTTAAACTAGCTCTCATTTTAA
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATCTCAA
* * * * * *
46362070 TGTCGATGCCATGTCCCAAACATAGTCTTACACTAGCGCACATATTAA
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATCTCAA
*
46362118 TACCGATGCCATG
1 TGCCGATGCCATG
46362131 GCATGGATAT
Statistics
Matches: 234, Mismatches: 65, Indels: 4
0.77 0.21 0.01
Matches are distributed among these distances:
47 1 0.00
48 232 0.99
49 1 0.00
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATCTCAA
Found at i:46362130 original size:96 final size:96
Alignment explanation
Indices: 46361785--46362112 Score: 350
Period size: 96 Copynumber: 3.4 Consensus size: 96
46361775 GGTGAATTGC
* * * * ** * * *
46361785 CGATGCCATGTTCCAAACATGGTCTTACATTGGTTCACATGTTGAGGCCGATGTCATGTCCTAGA
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATGTCAAGGCCAATGCCATGTCCCAGA
* * * *
46361850 CATGGTCTTACACAAGCTCTCGTCTCAATGC
66 CATGGTCTTACACTAGCTCTCATTTCAATGT
* * * * * * *
46361881 CAATGCCGTGTCCCAAACATGGTCTTACACTAGCTCTCGTCTCAATGCCAATGCCATGTCTCAGA
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATGTCAAGGCCAATGCCATGTCCCAGA
* * *
46361946 CATGGTCTTACACTGGCTCTCATTACATTGT
66 CATGGTCTTACACTAGCTCTCATTTCAATGT
* * * * * * *
46361977 CGATGCCATATTCTAAATATGGTTTTACACTGGCTCACATGTCGAGGCCAATGCCATGTCCCAGA
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATGTCAAGGCCAATGCCATGTCCCAGA
* *
46362042 CATGGTCTTAAACTAGCTCTCATTTTAATGT
66 CATGGTCTTACACTAGCTCTCATTTCAATGT
* *
46362073 CGATGCCATGTCCCAAACATAGTCTTACACTAGCGCACAT
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACAT
46362113 ATTAATACCG
Statistics
Matches: 182, Mismatches: 50, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
96 182 1.00
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (96 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATGTCAAGGCCAATGCCATGTCCCAGA
CATGGTCTTACACTAGCTCTCATTTCAATGT
Found at i:46365503 original size:46 final size:43
Alignment explanation
Indices: 46365399--46365567 Score: 124
Period size: 44 Copynumber: 3.8 Consensus size: 43
46365389 GAAGTGGTGC
* * * * *
46365399 CATAATATCTTTCAACTATGGTTTTCATTC-ATTCAAATTTAATGC
1 CATAGTATCTTTCAACTATGGTCTTC-CTCGTTTC--ATTTAATGT
* * ** ** *
46365444 CATAGCATGTTTCAACTATGGTCTTGTTTATTTTTCGATTTAGTGT
1 CATAGTATCTTTCAACTATGGTCTT-CCT-CGTTTC-ATTTAATGT
* *
46365490 CATAGTATCTTTCAACTAGGGTCTTCCTCGTTTCAGTTTATTGT
1 CATAGTATCTTTCAACTATGGTCTTCCTCGTTTCA-TTTAATGT
* *
46365534 CATAGTATCTTTCAACTATGGTCTTTCTCATTTC
1 CATAGTATCTTTCAACTATGGTCTTCCTCGTTTC
46365568 GGGTAAAATG
Statistics
Matches: 99, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
43 1 0.01
44 42 0.42
45 24 0.24
46 29 0.29
47 3 0.03
ACGTcount: A:0.22, C:0.18, G:0.12, T:0.47
Consensus pattern (43 bp):
CATAGTATCTTTCAACTATGGTCTTCCTCGTTTCATTTAATGT
Found at i:46365545 original size:44 final size:44
Alignment explanation
Indices: 46365482--46365567 Score: 136
Period size: 44 Copynumber: 2.0 Consensus size: 44
46365472 TATTTTTCGA
*
46365482 TTTAGTGTCATAGTATCTTTCAACTAGGGTCTTCCTCGTTTCAG
1 TTTAGTGTCATAGTATCTTTCAACTAGGGTCTTCCTCATTTCAG
* * *
46365526 TTTATTGTCATAGTATCTTTCAACTATGGTCTTTCTCATTTC
1 TTTAGTGTCATAGTATCTTTCAACTAGGGTCTTCCTCATTTC
46365568 GGGTAAAATG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.19, C:0.20, G:0.14, T:0.48
Consensus pattern (44 bp):
TTTAGTGTCATAGTATCTTTCAACTAGGGTCTTCCTCATTTCAG
Found at i:46370156 original size:23 final size:22
Alignment explanation
Indices: 46370115--46370165 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
46370105 AAAAAAATAA
* *
46370115 TTTTTTACTGCTTTCTTGTTGT
1 TTTTTTACTGCTTTATTGTTAT
* *
46370137 TCTTTTTATTGTTTTATTGTTAT
1 T-TTTTTACTGCTTTATTGTTAT
46370160 TTTTTT
1 TTTTTT
46370166 CACTATTTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.08, C:0.08, G:0.10, T:0.75
Consensus pattern (22 bp):
TTTTTTACTGCTTTATTGTTAT
Found at i:46370242 original size:12 final size:11
Alignment explanation
Indices: 46370223--46370253 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
46370213 TATATAACTC
46370223 TTATTTTATTA
1 TTATTTTATTA
46370234 TTAATTTTATTA
1 TT-ATTTTATTA
46370246 TTATTTTA
1 TTATTTTA
46370254 GAAGTATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:46370389 original size:12 final size:12
Alignment explanation
Indices: 46370372--46370405 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
46370362 TTATATTTTT
* *
46370372 TAAAAAATTATA
1 TAAAAAATAAAA
46370384 TAAAAAATAAAA
1 TAAAAAATAAAA
46370396 TAAAAAATAA
1 TAAAAAATAA
46370406 TACAGCTGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
TAAAAAATAAAA
Found at i:46372265 original size:27 final size:27
Alignment explanation
Indices: 46372234--46372287 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
46372224 AATATAACCT
* *
46372234 TTTTATTATTAAAT-TTTTATTTATTTA
1 TTTTATAATTAAATAGTTT-TTTATTTA
46372261 TTTTATAATTAAATAGTTTTTTATTTA
1 TTTTATAATTAAATAGTTTTTTATTTA
46372288 ATATAAACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 21 0.88
28 3 0.12
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (27 bp):
TTTTATAATTAAATAGTTTTTTATTTA
Found at i:46373778 original size:40 final size:40
Alignment explanation
Indices: 46373725--46373916 Score: 253
Period size: 40 Copynumber: 4.8 Consensus size: 40
46373715 TATTACCACA
* * * * * *
46373725 AGCACAATTGCCTTCGGGTCTTAACCCGG-GCATAGCAACT
1 AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATC-ACT
* * * *
46373765 CGCACGAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACT
1 AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATC-ACT
*
46373805 CGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATCACT
1 AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATCACT
46373845 AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATCACT
1 AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATCACT
46373885 AGCACAAATGCCTTCGGGACTTAGCCCGGATC
1 AGCACAAATGCCTTCGGGACTTAGCCCGGATC
46373917 TCATTCAAAT
Statistics
Matches: 140, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
40 136 0.97
41 4 0.03
ACGTcount: A:0.26, C:0.31, G:0.22, T:0.21
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATCACT
Found at i:46382095 original size:40 final size:40
Alignment explanation
Indices: 46382042--46382233 Score: 253
Period size: 40 Copynumber: 4.8 Consensus size: 40
46382032 TATTACCACA
* * * * *
46382042 AGCACAATTGCCTTCGGGTCTTAACCCGG-GCATAGCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATCAAATC-ACT
* * *
46382082 CGCACGAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATCAAATC-ACT
*
46382122 CGCACAAATGCCTTCGGGTCTTAGCCCGGATCAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATCAAATCACT
*
46382162 AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATCAAATCACT
*
46382202 AGCACAAATGCCTTCGGGACTTAGCCCGGATC
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATC
46382234 TCATTCAAAT
Statistics
Matches: 140, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
40 136 0.97
41 4 0.03
ACGTcount: A:0.26, C:0.31, G:0.22, T:0.22
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATCAAATCACT
Found at i:46388740 original size:38 final size:39
Alignment explanation
Indices: 46388642--46388858 Score: 189
Period size: 39 Copynumber: 5.5 Consensus size: 39
46388632 TGATACCCGG
* *
46388642 GCTAAGTCCCGAAGGCATTTGTGC-AG-TGCTA-A-ATCCA
1 GCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATACA-CGA
* *
46388679 GGCTTAAGTCCCGAAGGCATTTGTACGAGTTACTATTC-CGA
1 -GC-TAAGT-CCGAAGGCATTTGTGCGAGTTACTATACACGA
* *
46388720 GCTAAGTCCGAAGGCATTTGTGCGAGTTACTATCACGCGG
1 GCTAAGTCCGAAGGCATTTGTGCGAGTTACTAT-ACACGA
* *
46388760 GCTAAGTCCGAAGGCAATTTTGTGCTAGTTACTAT-CACCA
1 GCTAAGTCCGAAGGC-A-TTTGTGCGAGTTACTATACACGA
* *
46388800 GGTAAGTCCCAAAGGCATTTGTGCGAGTTTACTATA-ACG-
1 GCTAAGT-CCGAAGGCATTTGTGCGAG-TTACTATACACGA
*
46388839 GCTACGTCCGAAGGCATTTG
1 GCTAAGTCCGAAGGCATTTG
46388859 AGCTAGTAGC
Statistics
Matches: 149, Mismatches: 18, Indels: 24
0.78 0.09 0.13
Matches are distributed among these distances:
38 39 0.26
39 41 0.28
40 39 0.26
41 14 0.09
42 16 0.11
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.27
Consensus pattern (39 bp):
GCTAAGTCCGAAGGCATTTGTGCGAGTTACTATACACGA
Found at i:46388775 original size:40 final size:39
Alignment explanation
Indices: 46388638--46388858 Score: 222
Period size: 38 Copynumber: 5.6 Consensus size: 39
46388628 GGATTGATAC
* *
46388638 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AG-TGCTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * *
46388675 TCCAGGCTTAAGTCCCGAAGGCATTTGTACGAGTTACTATT
1 -CCGGGC-TAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
46388716 CCGAGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-A
*
46388755 CGCGGGCTAAGT-CCGAAGGCAATTTTGTGCTAGTTACTATCA
1 C-CGGGCTAAGTCCCGAAGGC-A-TTTGTGCGAGTTACTAT-A
* *
46388797 CCAGG-TAAGTCCCAAAGGCATTTGTGCGAGTTTACTATA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TTACTATA
* *
46388836 AC-GGCTACGT-CCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
46388859 AGCTAGTAGC
Statistics
Matches: 156, Mismatches: 17, Indels: 20
0.81 0.09 0.10
Matches are distributed among these distances:
38 44 0.28
39 42 0.27
40 36 0.23
41 15 0.10
42 19 0.12
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.27
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:46390080 original size:21 final size:22
Alignment explanation
Indices: 46390054--46390102 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
46390044 TTCATTATCA
46390054 TTTTTTAAATTTT-A-TATATT
1 TTTTTTAAATTTTAATTATATT
46390074 TTATTTT-AATTTTAATTATATT
1 TT-TTTTAAATTTTAATTATATT
46390096 TTTTTTA
1 TTTTTTA
46390103 TTTATCATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 8 0.32
21 9 0.36
22 8 0.32
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTTTAAATTTTAATTATATT
Found at i:46390086 original size:20 final size:21
Alignment explanation
Indices: 46390054--46390102 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
46390044 TTCATTATCA
*
46390054 TTTTTTAAATTTT-A-TATAT
1 TTTTTTTAATTTTAATTATAT
46390073 TTTATTTTAATTTTAATTATAT
1 TTT-TTTTAATTTTAATTATAT
46390095 TTTTTTTA
1 TTTTTTTA
46390103 TTTATCATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 3 0.12
20 9 0.35
21 6 0.23
22 8 0.31
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTTTTAATTTTAATTATAT
Found at i:46390105 original size:20 final size:19
Alignment explanation
Indices: 46390042--46390105 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 19
46390032 ATATAACATT
**
46390042 TTTTCATTATCATTTTTTAAA
1 TTTT-ATTAT-ATTTTTTTTA
46390063 TTTTA-TATATTTTATTTTAA
1 TTTTATTATATTTT-TTTT-A
46390083 TTTTAATTATATTTTTTTTA
1 TTTT-ATTATATTTTTTTTA
46390103 TTT
1 TTT
46390106 ATCATATAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
18 5 0.14
19 5 0.14
20 10 0.27
21 9 0.24
22 8 0.22
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTATTATATTTTTTTTA
Found at i:46390312 original size:18 final size:18
Alignment explanation
Indices: 46390284--46390338 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 18
46390274 TTTAATTTTT
46390284 TTTATTTTTATCTATTTCA
1 TTTATTTTTATC-ATTTCA
*
46390303 TTTA-TTTTATCATTTTA
1 TTTATTTTTATCATTTCA
46390320 TTT-TTTAATTATCATTTCA
1 TTTATTT--TTATCATTTCA
46390339 AAATTAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
17 10 0.32
18 7 0.23
19 14 0.45
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTATTTTTATCATTTCA
Found at i:46390505 original size:17 final size:18
Alignment explanation
Indices: 46390473--46390506 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
46390463 TTTTTTAATA
46390473 TTAAAATATTTAACATTT
1 TTAAAATATTTAACATTT
*
46390491 TTAAATTATTT-ACATT
1 TTAAAATATTTAACATT
46390507 ATATACATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (18 bp):
TTAAAATATTTAACATTT
Found at i:46390772 original size:23 final size:23
Alignment explanation
Indices: 46390743--46390787 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
46390733 ACAATTATTG
46390743 TTTATTTT-TATAATTTATAATTA
1 TTTATTTTGTATAA-TTATAATTA
*
46390766 TTTATTTTGTATCATTATAATT
1 TTTATTTTGTATAATTATAATT
46390788 TAATTAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (23 bp):
TTTATTTTGTATAATTATAATTA
Found at i:46390927 original size:18 final size:18
Alignment explanation
Indices: 46390888--46390934 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
46390878 AAATAATATT
46390888 ATTATATTTTAAATTTAC
1 ATTATATTTTAAATTTAC
46390906 ATTAT-TTTTAATATTTTA-
1 ATTATATTTTAA-A-TTTAC
46390924 ATTAATATTTT
1 ATT-ATATTTT
46390935 TTTTTAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 6 0.24
18 9 0.36
19 6 0.24
20 4 0.16
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTATATTTTAAATTTAC
Found at i:46391583 original size:27 final size:26
Alignment explanation
Indices: 46391553--46391609 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
46391543 TTTATATTAA
* *
46391553 TTAATTTTATTCATTTTTAATTTTTAT
1 TTAATTTTATTCA-TTTCAAATTTTAT
*
46391580 TTAATTTTATTTATTTCAAATTTTAT
1 TTAATTTTATTCATTTCAAATTTTAT
46391606 TTAA
1 TTAA
46391610 ATCAAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 15 0.56
27 12 0.44
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.67
Consensus pattern (26 bp):
TTAATTTTATTCATTTCAAATTTTAT
Found at i:46391614 original size:16 final size:16
Alignment explanation
Indices: 46391582--46391615 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
46391572 ATTTTTATTT
**
46391582 AATTTTATTTATTTCA
1 AATTTTATTTAAATCA
46391598 AATTTTATTTAAATCA
1 AATTTTATTTAAATCA
46391614 AA
1 AA
46391616 AAAAAATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (16 bp):
AATTTTATTTAAATCA
Found at i:46392023 original size:18 final size:19
Alignment explanation
Indices: 46392000--46392039 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
46391990 TAAACACAAA
46392000 TTTTTTAATTATTT-CATT
1 TTTTTTAATTATTTACATT
* *
46392018 TTTTTTTATTTTTTACATT
1 TTTTTTAATTATTTACATT
46392037 TTT
1 TTT
46392040 ACATCTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTTTAATTATTTACATT
Found at i:46392138 original size:22 final size:22
Alignment explanation
Indices: 46392113--46392156 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
46392103 TTTTTTATGA
46392113 AATTTATTTATTT-TTAATTATT
1 AATTTATTT-TTTGTTAATTATT
*
46392135 AATTTATTTTTTGTTTATTATT
1 AATTTATTTTTTGTTAATTATT
46392157 TGATTATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.70
Consensus pattern (22 bp):
AATTTATTTTTTGTTAATTATT
Found at i:46392825 original size:19 final size:18
Alignment explanation
Indices: 46392780--46392830 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
46392770 TATCATCATT
46392780 TAATACAATATTTTTTTAA
1 TAATA-AATATTTTTTTAA
* *
46392799 TATTTAAATATTTTTATTTA
1 TA-ATAAATATTTTT-TTAA
46392819 TAATAAATATTT
1 TAATAAATATTT
46392831 AATGTTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 20 0.74
20 7 0.26
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (18 bp):
TAATAAATATTTTTTTAA
Found at i:46393041 original size:24 final size:23
Alignment explanation
Indices: 46392967--46393046 Score: 79
Period size: 24 Copynumber: 3.3 Consensus size: 23
46392957 ATTTAGAATA
*
46392967 TTAATTATAAATTTTTATAATATAT
1 TTAATT-TAAATTTTT-TAATAAAT
* * *
46392992 TTATCATTTTAATTTTTTTATTAAT
1 TTA--ATTTAAATTTTTTAATAAAT
46393017 TTAATTTAACATTTTTTAATAAAT
1 TTAATTTAA-ATTTTTTAATAAAT
46393041 TTAATT
1 TTAATT
46393047 ATTATATTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
23 5 0.11
24 18 0.40
25 11 0.24
26 8 0.18
27 3 0.07
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (23 bp):
TTAATTTAAATTTTTTAATAAAT
Found at i:46393595 original size:20 final size:21
Alignment explanation
Indices: 46393572--46393617 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
46393562 CTATATTACA
*
46393572 CATTAATT-TATTATTTTTAT
1 CATTAATTCAATTATTTTTAT
46393592 CATTAATTCAATTA-TTTT-T
1 CATTAATTCAATTATTTTTAT
46393611 CATTAAT
1 CATTAAT
46393618 AATTAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 8 0.33
20 12 0.50
21 4 0.17
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.59
Consensus pattern (21 bp):
CATTAATTCAATTATTTTTAT
Found at i:46393615 original size:19 final size:20
Alignment explanation
Indices: 46393572--46393626 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
46393562 CTATATTACA
*
46393572 CATTAATTTATTATTTTTAT
1 CATTAATTAATTATTTTTAT
46393592 CATTAATTCAATTATTTTTCAT
1 CATTAATT-AATTATTTTT-AT
* *
46393614 TAATAATTAATTA
1 CATTAATTAATTA
46393627 ACATTCATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 8 0.27
21 14 0.47
22 8 0.27
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.56
Consensus pattern (20 bp):
CATTAATTAATTATTTTTAT
Found at i:46393767 original size:24 final size:22
Alignment explanation
Indices: 46393731--46393782 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 22
46393721 ATTTTGAATT
*
46393731 TAATTACAATTATTTTTTTATA
1 TAATTACAATTATTATTTTATA
*
46393753 TAATTATCAATTTATTATTTTATT
1 TAATTA-CAA-TTATTATTTTATA
46393777 TAATTA
1 TAATTA
46393783 ATTATATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 6 0.23
23 3 0.12
24 17 0.65
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (22 bp):
TAATTACAATTATTATTTTATA
Found at i:46393786 original size:17 final size:18
Alignment explanation
Indices: 46393748--46393799 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
46393738 AATTATTTTT
* *
46393748 TTATATAATTATCAATTTA
1 TTATATTATTAT-AATTAA
*
46393767 TTATTTTATT-TAATTAA
1 TTATATTATTATAATTAA
46393784 TTATATTATTATAATT
1 TTATATTATTATAATT
46393800 TTTATTCATT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
17 14 0.50
18 6 0.21
19 8 0.29
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (18 bp):
TTATATTATTATAATTAA
Found at i:46393804 original size:17 final size:17
Alignment explanation
Indices: 46393745--46393804 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
46393735 TACAATTATT
*
46393745 TTTTTATATAATTATCAA
1 TTTTTATATTATTAT-AA
*
46393763 TTTATTATTTTATT-TAA
1 TTT-TTATATTATTATAA
*
46393780 TTAATTATATTATTATAA
1 TT-TTTATATTATTATAA
46393798 TTTTTAT
1 TTTTTAT
46393805 TCATTAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
17 17 0.50
18 9 0.26
19 8 0.24
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTTATATTATTATAA
Found at i:46394453 original size:21 final size:20
Alignment explanation
Indices: 46394424--46394503 Score: 65
Period size: 20 Copynumber: 3.8 Consensus size: 20
46394414 AAATGTATAA
46394424 TTTATTATTTTTATATTTTT
1 TTTATTATTTTTATATTTTT
*
46394444 TTTAATTATTATTTCACATTTATT
1 TTT-ATTATT-TTT-ATATTT-TT
*
46394468 TTT-TTCATTTTT-TATATTAT
1 TTTATT-ATTTTTATAT-TTTT
*
46394488 TTTATCATTTTTATAT
1 TTTATTATTTTTATAT
46394504 ATCAAATTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
20 15 0.31
21 12 0.25
22 8 0.17
23 8 0.17
24 5 0.10
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTATTATTTTTATATTTTT
Found at i:46394501 original size:35 final size:35
Alignment explanation
Indices: 46394423--46394501 Score: 81
Period size: 35 Copynumber: 2.2 Consensus size: 35
46394413 TAAATGTATA
*
46394423 ATTTATTATTTTTATATTTTTTTTAATTATTATTTC
1 ATTT-TTATTTTTATATTTTTTATAATTATTATTTC
** *
46394459 ACATTTATTTTTTTCATTTTTTAT-ATTATT-TTATC
1 ATTTTTATTTTTAT-ATTTTTTATAATTATTATT-TC
46394494 ATTTTTAT
1 ATTTTTAT
46394502 ATATCAAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
34 2 0.06
35 23 0.66
36 10 0.29
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (35 bp):
ATTTTTATTTTTATATTTTTTATAATTATTATTTC
Found at i:46395020 original size:11 final size:12
Alignment explanation
Indices: 46394993--46395030 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
46394983 AATTAAATGA
46394993 TTATTTTCATAT
1 TTATTTTCATAT
*
46395005 TTATTTT-ATTT
1 TTATTTTCATAT
*
46395016 TTATTATCATAT
1 TTATTTTCATAT
46395028 TTA
1 TTA
46395031 CATTATTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (12 bp):
TTATTTTCATAT
Found at i:46395025 original size:23 final size:22
Alignment explanation
Indices: 46394993--46395043 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
46394983 AATTAAATGA
* **
46394993 TTATTTTCATATTTATTTTATTT
1 TTATTATCATATTTACATTA-TT
46395016 TTATTATCATATTTACATTATT
1 TTATTATCATATTTACATTATT
46395038 TTATTA
1 TTATTA
46395044 AATTTCATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 8 0.32
23 17 0.68
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (22 bp):
TTATTATCATATTTACATTATT
Found at i:46395428 original size:12 final size:13
Alignment explanation
Indices: 46395392--46395432 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
46395382 TATACATATC
46395392 ATTTACATTAATT
1 ATTTACATTAATT
* *
46395405 TTTTATATTAATT
1 ATTTACATTAATT
46395418 ATTTA-ATTAATT
1 ATTTACATTAATT
46395430 ATT
1 ATT
46395433 ATTTATCTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (13 bp):
ATTTACATTAATT
Found at i:46407619 original size:9 final size:9
Alignment explanation
Indices: 46407607--46407644 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
46407597 TTTAATATAT
46407607 AAATATAAA
1 AAATATAAA
46407616 AAATATAAA
1 AAATATAAA
**
46407625 TCATA-AAA
1 AAATATAAA
46407633 AAATATAAA
1 AAATATAAA
46407642 AAA
1 AAA
46407645 ATATCATGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
8 6 0.25
9 18 0.75
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (9 bp):
AAATATAAA
Found at i:46407623 original size:15 final size:17
Alignment explanation
Indices: 46407603--46407641 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
46407593 ATTATTTAAT
46407603 ATATAAAT-AT-AAAAA
1 ATATAAATCATAAAAAA
46407618 ATATAAATCATAAAAAA
1 ATATAAATCATAAAAAA
46407635 ATATAAA
1 ATATAAA
46407642 AAAATATCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 8 0.36
16 2 0.09
17 12 0.55
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
ATATAAATCATAAAAAA
Found at i:46407656 original size:25 final size:26
Alignment explanation
Indices: 46407607--46407672 Score: 66
Period size: 26 Copynumber: 2.5 Consensus size: 26
46407597 TTTAATATAT
46407607 AAATATAAAAAATATAAATCATAAA-A
1 AAATATAAAAAATAT-AATCATAAACA
46407633 AAATATAAAAAA-AT-ATCATGTAAACA
1 AAATATAAAAAATATAATCA--TAAACA
**
46407659 ATTTATAAAAAATA
1 AAATATAAAAAATA
46407673 AAAAAAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
23 4 0.12
25 6 0.18
26 23 0.68
27 1 0.03
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.26
Consensus pattern (26 bp):
AAATATAAAAAATATAATCATAAACA
Found at i:46413073 original size:40 final size:39
Alignment explanation
Indices: 46413027--46413250 Score: 217
Period size: 40 Copynumber: 5.6 Consensus size: 39
46413017 AGCTCCTCGT
*
46413027 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGTTATAGTAATTCGCA
* *
46413067 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGG-TTATAGTAATTCGCA
*
46413107 CAAATGCCTTCGGGACTTAGCCCGG-AATTAGT-ATCTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGTTA-TAGTAAT-TCGCA
*
46413147 CAAATGCCTTCGGATCTTAGTCCGGATT-TAGT-ATCTCGCA
1 CAAATGCCTTCGGA-CTTAGCCCGG-TTATAGTAAT-TCGCA
* * * * *
46413187 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGTTATAGT-AATTCGCA
46413228 CAAA-GCCTTCGGACTTAGCCCGG
1 CAAATGCCTTCGGACTTAGCCCGG
46413251 ACATCATTCA
Statistics
Matches: 161, Mismatches: 13, Indels: 21
0.83 0.07 0.11
Matches are distributed among these distances:
39 14 0.09
40 136 0.84
41 10 0.06
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGTTATAGTAATTCGCA
Found at i:46413120 original size:80 final size:78
Alignment explanation
Indices: 46413027--46413251 Score: 276
Period size: 80 Copynumber: 2.8 Consensus size: 78
46413017 AGCTCCTCGT
* *
46413027 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTC-GGACTTAGCCCGG
46413092 ATTTAGTAACTCGCA
64 ATTTAGTAACTCGCA
* *
46413107 CAAATGCCTTCGGGACTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGA-CTTAGCCCG
*
46413171 GATTTAGTATCTCGCA
63 GATTTAGTAACTCGCA
* * * *
46413187 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGACTTAGCCCG
46413250 GA
63 GA
46413252 CATCATTCAA
Statistics
Matches: 127, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
79 19 0.15
80 98 0.77
81 9 0.07
82 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGACTTAGCCCGGAT
TTAGTAACTCGCA
Found at i:46414808 original size:25 final size:25
Alignment explanation
Indices: 46414780--46414830 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
46414770 CCACTTCCCG
*
46414780 ACTAGGGTCAATTTTGGGCTGTCAC
1 ACTAGGGTCAATTTAGGGCTGTCAC
46414805 ACTAGGGTCAATTTAGGGCTGTCAC
1 ACTAGGGTCAATTTAGGGCTGTCAC
46414830 A
1 A
46414831 TACAAGACCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (25 bp):
ACTAGGGTCAATTTAGGGCTGTCAC
Found at i:46416742 original size:50 final size:49
Alignment explanation
Indices: 46416637--46416735 Score: 126
Period size: 50 Copynumber: 2.0 Consensus size: 49
46416627 TGTTTAATTT
* * ***
46416637 AATTAATTCAGTTGTTTTAATTTTCTTTAGTTCCTTAAATACTTAGTTT
1 AATTAATTAAGTTGTTTTAATTTTCTTTAGTTCCTTAAATAATTAGGGC
* *
46416686 AATTAATTAAGTTGTTTTGAATTTTCTTTAGTTGCTTAAATAATTTGGGC
1 AATTAATTAAGTTGTTTT-AATTTTCTTTAGTTCCTTAAATAATTAGGGC
46416736 GTTTAATATG
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
49 17 0.40
50 25 0.60
ACGTcount: A:0.27, C:0.08, G:0.12, T:0.53
Consensus pattern (49 bp):
AATTAATTAAGTTGTTTTAATTTTCTTTAGTTCCTTAAATAATTAGGGC
Found at i:46421305 original size:78 final size:78
Alignment explanation
Indices: 46421176--46421332 Score: 287
Period size: 78 Copynumber: 2.0 Consensus size: 78
46421166 ATTATCTTTC
* *
46421176 TTAGCCGTTTCAGGGTAGTCTCAGATAAAGTGATCTTGGGAGCCACATTTGAAGCAAGCCTAGTT
1 TTAGCCATTTCAGGGCAGTCTCAGATAAAGTGATCTTGGGAGCCACATTTGAAGCAAGCCTAGTT
46421241 ATTCATCCTACAT
66 ATTCATCCTACAT
*
46421254 TTAGCCATTTTAGGGCAGTCTCAGATAAAGTGATCTTGGGAGCCACATTTGAAGCAAGCCTAGTT
1 TTAGCCATTTCAGGGCAGTCTCAGATAAAGTGATCTTGGGAGCCACATTTGAAGCAAGCCTAGTT
46421319 ATTCATCCTACAT
66 ATTCATCCTACAT
46421332 T
1 T
46421333 CACCGGGATG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 76 1.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.31
Consensus pattern (78 bp):
TTAGCCATTTCAGGGCAGTCTCAGATAAAGTGATCTTGGGAGCCACATTTGAAGCAAGCCTAGTT
ATTCATCCTACAT
Found at i:46428418 original size:25 final size:25
Alignment explanation
Indices: 46428377--46428425 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
46428367 CACATGGTCG
*
46428377 TGTAACATGCCCATGTCCAAGGCCA
1 TGTAACAAGCCCATGTCCAAGGCCA
46428402 TGTAACAAG-CCAGTGTCCAAGGCC
1 TGTAACAAGCCCA-TGTCCAAGGCC
46428426 GTGTCATCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 3 0.14
25 19 0.86
ACGTcount: A:0.29, C:0.31, G:0.22, T:0.18
Consensus pattern (25 bp):
TGTAACAAGCCCATGTCCAAGGCCA
Found at i:46430131 original size:15 final size:15
Alignment explanation
Indices: 46430111--46430142 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
46430101 AAGTTGTTTA
*
46430111 TCTATGAACAGACTT
1 TCTATGAACAAACTT
46430126 TCTATGAACAAACTT
1 TCTATGAACAAACTT
46430141 TC
1 TC
46430143 ATTTTCTACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.34
Consensus pattern (15 bp):
TCTATGAACAAACTT
Found at i:46431960 original size:44 final size:44
Alignment explanation
Indices: 46431895--46431979 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 44
46431885 TTGATATCTC
* *
46431895 AAAGTCCATGGTTGTACCATGGCAATTAAGGAAGAATTGATAGA
1 AAAGTCCATGGTTATAACATGGCAATTAAGGAAGAATTGATAGA
* *
46431939 AAAGTCCAT-GTTCATAACATGGCATTTAAGGAGGAATTGAT
1 AAAGTCCATGGTT-ATAACATGGCAATTAAGGAAGAATTGAT
46431980 GGTTAAGGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
43 3 0.08
44 33 0.92
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.27
Consensus pattern (44 bp):
AAAGTCCATGGTTATAACATGGCAATTAAGGAAGAATTGATAGA
Found at i:46432176 original size:47 final size:47
Alignment explanation
Indices: 46432118--46432286 Score: 293
Period size: 47 Copynumber: 3.6 Consensus size: 47
46432108 GCATTGGCAC
*
46432118 TAAGACAAGGATACCATGTAAGACTATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
*
46432165 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
*
46432212 TAAGACAAGGATACCATGTAATACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
46432259 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
46432287 CCAAGGCATG
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 115 1.00
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.27
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:46432336 original size:53 final size:54
Alignment explanation
Indices: 46432269--46432680 Score: 320
Period size: 53 Copynumber: 7.8 Consensus size: 54
46432259 TAAGATAAGG
*
46432269 ATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGA
1 ATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCAAGA
* *
46432323 AAATCATG-AAGACCATGCCAAGACATGGCATTGATGAGTTACTATAAGGCAA-A
1 ATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGGCAAGA
* * * * * * * *
46432376 GGT-CCTATGTAAGACCATGTCAAGACAAGGCATTGGTGAGTTC-ATAAGACAAGG
1 -ATATC-ATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCAAGA
* *** *
46432430 ATACCATGTAAGACCATG-TTTGTAACATGGCATTTGGTAAG----AT-A---AAG-
1 ATATCATGTAAGACCATGCCAAG--ACATGGCA-TTGATAAGTTCTATAAGGCAAGA
* *
46432477 ATATCATGTAAGACCATGCCAAGGCATGGAATTGATAAGTTCTATAAGGCAAGGA
1 ATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCAA-GA
* *
46432532 A-ATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAA-A
1 ATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGGCAAGA
* * * * * *
46432585 GGT-CCTATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGG
1 -ATATC-ATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCAAGA
* * * * * *
46432639 ATACCACGCAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 ATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
46432681 AAAAAGGAAA
Statistics
Matches: 291, Mismatches: 41, Indels: 53
0.76 0.11 0.14
Matches are distributed among these distances:
45 7 0.02
46 6 0.02
47 17 0.06
48 4 0.01
49 2 0.01
50 1 0.00
51 1 0.00
52 3 0.01
53 98 0.34
54 71 0.24
55 81 0.28
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (54 bp):
ATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCAAGA
Found at i:46432621 original size:154 final size:156
Alignment explanation
Indices: 46432259--46432621 Score: 386
Period size: 154 Copynumber: 2.3 Consensus size: 156
46432249 TGGCATTTGG
* * *
46432259 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGAA
1 TAAGACAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAG---TATAA-G-AAGAA
* * ***
46432324 AATCATGAAGACCATGCCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCTATGTAAG
61 AATCATGAAGACCATGCCAAGACATGGAATTGATAAGTTACTATAAGGCAAAGGAAATATGTAAG
*
46432389 ACCATGTCAAGACAAGGCATTGGTGAGTTCA
126 ACCATGTCAAGACAAGGCATTGATGAGTTCA
** *
46432420 TAAGACAAGGATACCATGTAAGACCATGTTTGTAA--CATGGCATTTGGTAAG-AT-A-AAG-AT
1 TAAGACAAGGATACCATGTAAGACCATG---CCAAGGCATGGCA-TTGGTAAGTATAAGAAGAAA
*
46432479 ATCATGTAAGACCATGCCAAGGCATGGAATTGATAAGTT-CTATAAGGC-AAGGAAATCATGTAA
62 ATCATG-AAGACCATGCCAAGACATGGAATTGATAAGTTACTATAAGGCAAAGGAAAT-ATGTAA
*
46432542 GACCATGTCAAGACATGGCATTGATGAGTTACTA
125 GACCATGTCAAGACAAGGCATTGATGAGTT-C-A
*
46432576 TAAGGCAAAGG-T-CCTATGTAAGACCATGCCAAGGCATGGCATTGGT
1 TAAGAC-AAGGATACC-ATGTAAGACCATGCCAAGGCATGGCATTGGT
46432622 GAGTTCATAA
Statistics
Matches: 173, Mismatches: 17, Indels: 31
0.78 0.08 0.14
Matches are distributed among these distances:
153 7 0.04
154 55 0.32
155 42 0.24
156 20 0.12
157 4 0.02
158 1 0.01
159 2 0.01
161 26 0.15
162 7 0.04
163 7 0.04
164 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (156 bp):
TAAGACAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTATAAGAAGAAAATCA
TGAAGACCATGCCAAGACATGGAATTGATAAGTTACTATAAGGCAAAGGAAATATGTAAGACCAT
GTCAAGACAAGGCATTGATGAGTTCA
Found at i:46432654 original size:209 final size:208
Alignment explanation
Indices: 46432212--46432657 Score: 775
Period size: 208 Copynumber: 2.1 Consensus size: 208
46432202 TGACATTTGG
* *
46432212 TAAGACAAGGATACCATGTAATACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAAGATATCATG
*
46432277 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGAAAATCATGAAGACCATGCC
66 TAAGACCATGCCAAGGCATGGAATTGATAAGTTCTATAAGGCAAGAAAATCATGAAGACCATGCC
*
46432342 AAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCTATGTAAGACCATGTCAAGACAAGGC
131 AAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCTATGTAAGACCATGCCAAGACAAGGC
46432407 ATTGGTGAGTTCA
196 ATTGGTGAGTTCA
*
46432420 TAAGACAAGGATACCATGTAAGACCATGTTTGTAACATGGCATTTGGTAAGATAAAGATATCATG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAAGATATCATG
* *
46432485 TAAGACCATGCCAAGGCATGGAATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGT
66 TAAGACCATGCCAAGGCATGGAATTGATAAGTTCTATAAGGCAAGAAAATCATG-AAGACCATGC
* *
46432550 CAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCTATGTAAGACCATGCCAAGGCATGG
130 CAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCTATGTAAGACCATGCCAAGACAAGG
46432615 CATTGGTGAGTTCA
195 CATTGGTGAGTTCA
* * *
46432629 TAAGGCAAGGATACCACGCAAGACCATGT
1 TAAGACAAGGATACCATGTAAGACCATGT
46432658 CAAGACATGG
Statistics
Matches: 225, Mismatches: 12, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
208 114 0.51
209 111 0.49
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (208 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAAGATATCATG
TAAGACCATGCCAAGGCATGGAATTGATAAGTTCTATAAGGCAAGAAAATCATGAAGACCATGCC
AAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCTATGTAAGACCATGCCAAGACAAGGC
ATTGGTGAGTTCA
Found at i:46432681 original size:53 final size:54
Alignment explanation
Indices: 46432476--46432680 Score: 211
Period size: 55 Copynumber: 3.8 Consensus size: 54
46432466 GTAAGATAAA
* *
46432476 GATATCATGTAAGACCATGCCAAGGCATGG-AATTGATAAGTTCTATAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCAA-TGATAAGTTCTATAAGGCAAG
* * * * *
46432530 GAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGATAAGTT-CTATAAGGC-AAG
* * * *
46432586 G-T-CCTATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAG
1 GATACC-ATGTAAGACCATGCCAAGACATGGCAATGATAAGTTCTATAAGGCAAG
* * * *
46432638 GATACCACGCAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGATAAGTTC
46432681 AAAAAGGAAA
Statistics
Matches: 129, Mismatches: 16, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
52 4 0.03
53 39 0.30
54 39 0.30
55 43 0.33
56 4 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (54 bp):
GATACCATGTAAGACCATGCCAAGACATGGCAATGATAAGTTCTATAAGGCAAG
Found at i:46434925 original size:47 final size:47
Alignment explanation
Indices: 46434856--46434948 Score: 186
Period size: 47 Copynumber: 2.0 Consensus size: 47
46434846 ATGAACCGTG
46434856 GACTCAATTTTCCTTTGCGTCCAAATCGGAGAACTTTCTTCCAAGGT
1 GACTCAATTTTCCTTTGCGTCCAAATCGGAGAACTTTCTTCCAAGGT
46434903 GACTCAATTTTCCTTTGCGTCCAAATCGGAGAACTTTCTTCCAAGG
1 GACTCAATTTTCCTTTGCGTCCAAATCGGAGAACTTTCTTCCAAGG
46434949 CGACACTTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (47 bp):
GACTCAATTTTCCTTTGCGTCCAAATCGGAGAACTTTCTTCCAAGGT
Found at i:46444223 original size:13 final size:13
Alignment explanation
Indices: 46444207--46444239 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
46444197 TTTGATTAAA
*
46444207 TTAGTTAATTAGT
1 TTAGATAATTAGT
46444220 TTAGATAATTAGT
1 TTAGATAATTAGT
46444233 TTA-ATAA
1 TTAGATAA
46444240 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:46446404 original size:79 final size:81
Alignment explanation
Indices: 46446236--46446420 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
46446226 GCTACTCGTT
* *
46446236 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
* *
46446300 GATTTAGTAACTCGCAC
65 GATATAGTAACTAGCAC
* ** *
46446317 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCA
* *
46446379 GATATGGTCACTTAGCA-
65 GATATAGTAAC-TAGCAC
*
46446396 CAAAGCCTTCGGGACTTATCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
46446421 CATCATTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 58 0.66
80 24 0.27
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
ATATAGTAACTAGCAC
Found at i:46446420 original size:40 final size:40
Alignment explanation
Indices: 46446217--46446420 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
46446207 CAGAATTTAA
** *
46446217 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
46446257 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
46446297 CCAGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
46446336 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * * *
46446376 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTATC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
46446416 CCGGA
1 CCGGA
46446421 CATCATTCGA
Statistics
Matches: 138, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 92 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:46451252 original size:24 final size:24
Alignment explanation
Indices: 46451204--46451395 Score: 269
Period size: 24 Copynumber: 8.0 Consensus size: 24
46451194 GCTTTATCAT
*
46451204 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
46451229 ATAACTGGGGCAAAAGCTCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
46451253 ATAACTGGGGCAGAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
* *
46451277 ATAACTGGGGCATAAGCCCTTCTG
1 ATAACTGGGGCATAAGCCCTTTTA
46451301 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
46451325 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
46451349 ACAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
46451373 ATAATTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
46451396 GCACTTCCTC
Statistics
Matches: 151, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
24 140 0.93
25 11 0.07
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:46451470 original size:20 final size:20
Alignment explanation
Indices: 46451445--46451511 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
46451435 TTATGAATAC
46451445 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
46451465 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
46451485 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
46451505 ACCATGT
1 ATCATGT
46451512 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:46451476 original size:11 final size:11
Alignment explanation
Indices: 46451445--46451500 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
46451435 TTATGAATAC
46451445 ATCATGTGCAT
1 ATCATGTGCAT
*
46451456 ATCA--TACAT
1 ATCATGTGCAT
46451465 ATCATGTGCAT
1 ATCATGTGCAT
*
46451476 ATCA--TACAT
1 ATCATGTGCAT
*
46451485 GTCATGTGCAT
1 ATCATGTGCAT
46451496 ATCAT
1 ATCAT
46451501 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Done.