Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 111 of 141
Found at i:35702849 original size:9 final size:9
Alignment explanation
Indices: 35702835--35702874 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
35702825 TTCAATTCGA
35702835 TTAAATCGG
1 TTAAATCGG
*
35702844 TTAAATCAG
1 TTAAATCGG
*
35702853 TTAATTCGG
1 TTAAATCGG
35702862 TTAAATCGG
1 TTAAATCGG
35702871 TTAA
1 TTAA
35702875 TTTTTAACCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (9 bp):
TTAAATCGG
Found at i:35706542 original size:16 final size:16
Alignment explanation
Indices: 35706504--35706544 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
35706494 TAATTAAACC
35706504 AAAT-TTAAT-TAATT
1 AAATCTTAATCTAATT
35706518 AAA-CATTAATCTAATT
1 AAATC-TTAATCTAATT
35706534 AAATCTTAATC
1 AAATCTTAATC
35706545 ACATTTAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
14 3 0.13
15 5 0.22
16 14 0.61
17 1 0.04
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (16 bp):
AAATCTTAATCTAATT
Found at i:35715334 original size:12 final size:12
Alignment explanation
Indices: 35715314--35715350 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
35715304 TTATTTAGCC
35715314 ATGGATTCCACT
1 ATGGATTCCACT
*
35715326 ATGGGTTCCACT
1 ATGGATTCCACT
*
35715338 GTGGATTCCACT
1 ATGGATTCCACT
35715350 A
1 A
35715351 CCTTTATCTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (12 bp):
ATGGATTCCACT
Found at i:35720617 original size:20 final size:21
Alignment explanation
Indices: 35720594--35720635 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
35720584 ATTTTCAATA
35720594 TTTTTAAAT-ATAAAAATAAT
1 TTTTTAAATAATAAAAATAAT
35720614 TTTTTAAATAAATAAAAATAAT
1 TTTTTAAAT-AATAAAAATAAT
35720636 CAATAAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.45
22 11 0.55
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TTTTTAAATAATAAAAATAAT
Found at i:35722124 original size:10 final size:10
Alignment explanation
Indices: 35722109--35722152 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
35722099 AATATATTAT
*
35722109 ATATGATATG
1 ATATGATATA
35722119 ATATGATATA
1 ATATGATATA
35722129 ATATGATATA
1 ATATGATATA
** *
35722139 GCATTATATA
1 ATATGATATA
35722149 ATAT
1 ATAT
35722153 AGCGGGAGAG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.41
Consensus pattern (10 bp):
ATATGATATA
Found at i:35722172 original size:263 final size:257
Alignment explanation
Indices: 35721602--35722932 Score: 1046
Period size: 263 Copynumber: 5.3 Consensus size: 257
35721592 ATCACTAAAA
* * * * *
35721602 ATATGATATGATATAGCATTATAAAATATAGTAGGAGGGCTAACTTTCAAATGCA-CAAAGAGTA
1 ATATGATATGATATA-CATTATATAATATAG--GGAGAGTTAACTTTCAAATGTATGAAA-AGTA
* * * ** *
35721666 TAAGGACTTAAAACATATTTCAATTAGTATAATAATAAACAATAAACAATAATATATAATAAAAT
62 TAGGGACTTAGAGCATATTTCAACCAGTATAATAATAAACAAT-AA-TAT-ATA-AT-ATAAAA-
* * *
35721731 GTAATATATAATGTATTACTATTATATATCAATATTATTTTATTATATATTATAATAAAAGATAT
121 -TAATATATAATGTACTACTATTATATA-C--TATTATTATATTATAGATTATAAT-AAAGATAT
* *
35721796 AATATTACATAATATTATAATGTTTAA-CATTGATGCATATATAT--A-TA-T-ATATATA-A-A
181 AATATTACATGATATTATAAAGTTTAATCATTGATGCATATATATAAACTATTAATATATATATA
*
35721853 --CTA-G-TAAT-
246 TGATATGAT-ATG
* *
35721861 ATATGATATGATATAGCATCATATAATATAGTAGGA-AGGCTAACTTTCAAATGTATGAAAAGTA
1 ATATGATATGATATA-CATTATATAATATAG--GGAGA-GTTAACTTTCAAATGTATGAAAAGTA
* * * *
35721925 TAGGGACTTATAGCATATTTCAACTAGTATAATAATAAACAATAATGTAAAATATAAAATAATAT
62 TAGGGACTTAGAGCATATTTCAACCAGTATAATAATAAACAATAATATATAATATAAAATAATAT
*
35721990 GTAATGTACTACTATTATATAACTATTATTATATTATAGATTATAATAAAGGATATAATATTACA
127 ATAATGTACTACTATTATAT-ACTATTATTATATTATAGATTATAATAAA-GATATAATATTACA
* *
35722055 TAATATTATAAAGTTTAATCATTGATGCATATATATAAACTACTAATATATTATATATGATATGA
190 TGATATTATAAAGTTTAATCATTGATGCATATATATAAACTATTAATATA-TATATATGATATGA
35722120 TATG
254 TATG
* * *
35722124 ATATAATATGATATAGCATTATATAATATAGCGGGAGAGTTAACTTTCAAATGTACGAAAAATAT
1 ATATGATATGATATA-CATTATATAATATA--GGGAGAGTTAACTTTCAAATGTATGAAAAGTAT
* * * * * * *
35722189 AGTGACTTAGAGCAGATTTCAACCAATATAATAACAAACAATAATATATAGTATTAATTAATATA
63 AGGGACTTAGAGCATATTTCAACCAGTATAATAATAAACAATAATATATAATATAAAATAATATA
* *
35722254 TAATTTACTACTATTATATATAACTATTATTATATTATATATTATAATAAA-ATATACAGTATTA
128 TAATGTACTACTA-T-TATAT-ACTATTATTATATTATAGATTATAATAAAGATATA-A-TATTA
35722318 CATGATATTATAATA-TTTAATCATTGATGC--ATATATAAACT-TT--TATATAT-TA-GATAT
188 CATGATATTATAA-AGTTTAATCATTGATGCATATATATAAACTATTAATATATATATATGATAT
35722375 --TA--
252 GATATG
* * * *
35722377 CT-TGATATGATATAACATTATATAATATAGTAGGAGGGCTAACTTTCAAATATATGAAAAGTAT
1 ATATGATATGATAT-ACATTATATAATATAG--GGAGAGTTAACTTTCAAATGTATGAAAAGTAT
*
35722441 AGGGACTTAGAACATATTTCAACCAGTATAATAATAAAC-AT--TA-ATAAT-T--AAT-A-AT-
63 AGGGACTTAGAGCATATTTCAACCAGTATAATAATAAACAATAATATATAATATAAAATAATATA
* * * * * *
35722496 TAA--TA-TA--A-AATGTACTACTATTATATTATAGATTATAATAAAAGGTATAGTATTGCATG
128 TAATGTACTACTATTATATACTATTATTATATTATAGATTATAAT-AAAGATATAATATTACATG
* * * **
35722555 ATATTATAATGTTTAATCATAGATGTATATATATAAACTATTAATATAT-TATATG---CCATAT
192 ATATTATAAAGTTTAATCATTGATGCATATATATAAACTATTAATATATATATATGATATGATAT
35722616 G
257 G
* * * * *
35722617 GTATGATATG----ACATTATGGT-AGA-A--G-GA-TTAACTTTCAAATGTATGAAAAATCTAG
1 ATATGATATGATATACATTAT-ATAATATAGGGAGAGTTAACTTTCAAATGTATGAAAAGTATAG
* * * *
35722672 GGACTTAGAGCATATTTCAACCAGCATAATAATAAACAGTAATATATGATA-ATAATTAATATAT
65 GGACTTAGAGCATATTTCAACCAGTATAATAATAAACAATAATATATAATATA-AAATAATATAT
* *
35722736 AATGTACTACTATTATAT--TA-TA-TA-A-TAT--A--AT-A-AAAGATATAGTATAACATGAT
129 AATGTACTACTATTATATACTATTATTATATTATAGATTATAATAAAGATATAATATTACATGAT
* * * *
35722789 ATTATAATGTTTAATCA-TCATGCACATGTATAAACTATTAATATATTATATACT-ATATGATAT
194 ATTATAAAGTTTAATCATTGATGCATATATATAAACTATTAATATA-TATATA-TGATATGATAT
35722852 G
257 G
* * *
35722853 ATAT-A-AT-AT-TACA-TA-A-AATAGTA-GGAGGGTTAACTTTCAAATGTAGGAAAAGTATGG
1 ATATGATATGATATACATTATATAATA-TAGGGAGAGTTAACTTTCAAATGTATGAAAAGTATAG
*
35722910 GGAGTTA-AGGCATATTTCAACCA
65 GGACTTAGA-GCATATTTCAACCA
35722933 ATAATTTATG
Statistics
Matches: 896, Mismatches: 98, Indels: 177
0.77 0.08 0.15
Matches are distributed among these distances:
229 59 0.07
230 2 0.00
231 24 0.03
232 38 0.04
233 64 0.07
234 10 0.01
235 22 0.02
236 25 0.03
237 7 0.01
238 55 0.06
239 9 0.01
240 4 0.00
241 11 0.01
242 7 0.01
243 4 0.00
244 2 0.00
245 5 0.01
247 1 0.00
248 4 0.00
249 5 0.01
250 54 0.06
251 19 0.02
252 110 0.12
253 4 0.00
254 8 0.01
255 5 0.01
256 7 0.01
257 8 0.01
258 5 0.01
259 97 0.11
260 7 0.01
261 2 0.00
262 4 0.00
263 137 0.15
264 3 0.00
265 67 0.07
266 1 0.00
ACGTcount: A:0.45, C:0.08, G:0.11, T:0.37
Consensus pattern (257 bp):
ATATGATATGATATACATTATATAATATAGGGAGAGTTAACTTTCAAATGTATGAAAAGTATAGG
GACTTAGAGCATATTTCAACCAGTATAATAATAAACAATAATATATAATATAAAATAATATATAA
TGTACTACTATTATATACTATTATTATATTATAGATTATAATAAAGATATAATATTACATGATAT
TATAAAGTTTAATCATTGATGCATATATATAAACTATTAATATATATATATGATATGATATG
Found at i:35722704 original size:229 final size:230
Alignment explanation
Indices: 35722276--35722856 Score: 740
Period size: 232 Copynumber: 2.5 Consensus size: 230
35722266 ATTATATATA
* * * *
35722276 ACTATTATTATATTATATATTATAATAAAATATACAGTATTACATGATATTATAATATTTAATCA
1 ACTACTATTATATTATATATTATAATAAAAGATATAGTATTACATGATATTATAATGTTTAATCA
* * * * * *
35722341 TTGATG-CATATATAAACT-TTTATATATTAGATATTACTTGATATGATATAACATTATATAATA
66 -TGATGACATATATAAACTATTAATATATT--ATA-TAC--CATATGATATGATATGACAT-ATA
* * * *
35722404 TAGTAGGAGGGCTAACTTTCAAATATATGAAAAGTATAGGGACTTAGAACATATTTCAACCAGTA
124 TAGTAGAAGGACTAACTTTCAAATATATGAAAAATATAGGGACTTAGAACATATTTCAACCAGCA
*
35722469 TAATAATAAACATTAATA-AT-TAATAATTAATATAAAATGT
189 TAATAATAAACAGTAATATATATAATAATTAATATAAAATGT
* * *
35722509 ACTACTATTATATTATAGATTATAATAAAAGGTATAGTATTGCATGATATTATAATGTTTAATCA
1 ACTACTATTATATTATATATTATAATAAAAGATATAGTATTACATGATATTATAATGTTTAATCA
* * * *
35722574 TAGATGTATATATATAAACTATTAATATATTATATGCCATATGGTATGATATGACAT-TATGGTA
66 T-GATG-ACATATATAAACTATTAATATATTATATACCATATGATATGATATGACATATATAGTA
* * * *
35722638 GAAGGATTAACTTTCAAATGTATGAAAAATCTAGGGACTTAGAGCATATTTCAACCAGCATAATA
129 GAAGGACTAACTTTCAAATATATGAAAAATATAGGGACTTAGAACATATTTCAACCAGCATAATA
*
35722703 ATAAACAGTAATATATGATAATAATTAATATATAATGT
194 ATAAACAGTAATATAT-ATAATAATTAATATAAAATGT
* *
35722741 ACTACTATTATATTATATAATATAATAAAAGATATAGTATAACATGATATTATAATGTTTAATCA
1 ACTACTATTATATTATATATTATAATAAAAGATATAGTATTACATGATATTATAATGTTTAATCA
* * *
35722806 TCATGCACATGTATAAACTATTAATATATTATATACTATATGATATGATAT
66 TGATG-ACATATATAAACTATTAATATATTATATACCATATGATATGATAT
35722857 AATATTACAT
Statistics
Matches: 302, Mismatches: 39, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
229 75 0.25
230 2 0.01
231 57 0.19
232 81 0.27
233 64 0.21
234 3 0.01
235 11 0.04
236 9 0.03
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (230 bp):
ACTACTATTATATTATATATTATAATAAAAGATATAGTATTACATGATATTATAATGTTTAATCA
TGATGACATATATAAACTATTAATATATTATATACCATATGATATGATATGACATATATAGTAGA
AGGACTAACTTTCAAATATATGAAAAATATAGGGACTTAGAACATATTTCAACCAGCATAATAAT
AAACAGTAATATATATAATAATTAATATAAAATGT
Found at i:35732398 original size:18 final size:18
Alignment explanation
Indices: 35732375--35732417 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
35732365 TCCCAATCCA
* *
35732375 AACCCAAGTATCTAACCC
1 AACCCAAGTACCCAACCC
*
35732393 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
35732411 AACCCAA
1 AACCCAA
35732418 TCATAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.44, G:0.02, T:0.12
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:35732579 original size:18 final size:18
Alignment explanation
Indices: 35732556--35732622 Score: 98
Period size: 18 Copynumber: 3.7 Consensus size: 18
35732546 ATAGTGATTC
*
35732556 AATTCGGTTAATTAGGGT
1 AATTCGGTTAATTCGGGT
* *
35732574 AATTCGGGTAATTCGAGT
1 AATTCGGTTAATTCGGGT
*
35732592 AATCCGGTTAATTCGGGT
1 AATTCGGTTAATTCGGGT
35732610 AATTCGGTTAATT
1 AATTCGGTTAATT
35732623 TTTAACCAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.27, C:0.10, G:0.25, T:0.37
Consensus pattern (18 bp):
AATTCGGTTAATTCGGGT
Found at i:35732587 original size:9 final size:9
Alignment explanation
Indices: 35732556--35732622 Score: 80
Period size: 9 Copynumber: 7.4 Consensus size: 9
35732546 ATAGTGATTC
*
35732556 AATTCGGTT
1 AATTCGGGT
*
35732565 AATTAGGGT
1 AATTCGGGT
35732574 AATTCGGGT
1 AATTCGGGT
*
35732583 AATTCGAGT
1 AATTCGGGT
* *
35732592 AATCCGGTT
1 AATTCGGGT
35732601 AATTCGGGT
1 AATTCGGGT
*
35732610 AATTCGGTT
1 AATTCGGGT
35732619 AATT
1 AATT
35732623 TTTAACCAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 48 1.00
ACGTcount: A:0.27, C:0.10, G:0.25, T:0.37
Consensus pattern (9 bp):
AATTCGGGT
Found at i:35732594 original size:27 final size:27
Alignment explanation
Indices: 35732556--35732621 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
35732546 ATAGTGATTC
*
35732556 AATTCGGTTAATTAGGGTAATTCGGGT
1 AATTCGGTTAATCAGGGTAATTCGGGT
* *
35732583 AATTCGAG-TAATCCGGTTAATTCGGGT
1 AATTCG-GTTAATCAGGGTAATTCGGGT
35732610 AATTCGGTTAAT
1 AATTCGGTTAAT
35732622 TTTTAACCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 1 0.03
27 32 0.94
28 1 0.03
ACGTcount: A:0.27, C:0.11, G:0.26, T:0.36
Consensus pattern (27 bp):
AATTCGGTTAATCAGGGTAATTCGGGT
Found at i:35737298 original size:14 final size:14
Alignment explanation
Indices: 35737279--35737316 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
35737269 TGTTTTATTG
35737279 AAAATGATTTCTAA
1 AAAATGATTTCTAA
* *
35737293 AAAATGATTTTTAG
1 AAAATGATTTCTAA
35737307 AAAATGATTT
1 AAAATGATTT
35737317 ATTTTTCTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.11, T:0.39
Consensus pattern (14 bp):
AAAATGATTTCTAA
Found at i:35737401 original size:32 final size:32
Alignment explanation
Indices: 35737335--35737405 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
35737325 GAAAAAAGTT
* * *
35737335 AATATTTTCTATTGTTTGATAGATTTGTGTAA
1 AATATTTTCTATTATTTGATAGATTTCTGAAA
*
35737367 AATATTTTCTGTTATTTGATAGATTTCCT-AAA
1 AATATTTTCTATTATTTGATAGATTT-CTGAAA
35737399 AATATTT
1 AATATTT
35737406 CATAATTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 33 0.97
33 1 0.03
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.52
Consensus pattern (32 bp):
AATATTTTCTATTATTTGATAGATTTCTGAAA
Found at i:35737571 original size:21 final size:20
Alignment explanation
Indices: 35737545--35737591 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 20
35737535 AATTTCCTTT
*
35737545 TAATAATCGAAATTTATTTTA
1 TAATAATCGAAA-ATATTTTA
*
35737566 TAATAA--GAAAATATTTTG
1 TAATAATCGAAAATATTTTA
35737584 TAATAATC
1 TAATAATC
35737592 AGTACCATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
18 12 0.55
19 4 0.18
21 6 0.27
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (20 bp):
TAATAATCGAAAATATTTTA
Found at i:35737780 original size:27 final size:26
Alignment explanation
Indices: 35737733--35737786 Score: 74
Period size: 25 Copynumber: 2.0 Consensus size: 26
35737723 ACAAATGCTC
35737733 ATTTTTATATAATTAAAATAT-TCAT
1 ATTTTTATATAATTAAAATATGTCAT
*
35737758 ATTTTTATACTAGGTTAAAATATGTCAT
1 ATTTTTATA-TA-ATTAAAATATGTCAT
35737786 A
1 A
35737787 AGTCTTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 9 0.36
26 2 0.08
27 9 0.36
28 5 0.20
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.48
Consensus pattern (26 bp):
ATTTTTATATAATTAAAATATGTCAT
Found at i:35738194 original size:15 final size:15
Alignment explanation
Indices: 35738139--35738209 Score: 56
Period size: 15 Copynumber: 4.6 Consensus size: 15
35738129 TATATACAAC
*
35738139 AAAATATTTACTATT
1 AAAATATTTATTATT
* *
35738154 AATATATTTATAATT
1 AAAATATTTATTATT
35738169 GCAATAAATATTTATTATT
1 ---A-AAATATTTATTATT
*
35738188 AAAATA-TTAATATT
1 AAAATATTTATTATT
35738202 -AAATATTT
1 AAAATATTT
35738210 TCAATAATAT
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
13 5 0.11
14 9 0.20
15 17 0.38
16 1 0.02
18 1 0.02
19 12 0.27
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (15 bp):
AAAATATTTATTATT
Found at i:35738326 original size:33 final size:31
Alignment explanation
Indices: 35738266--35738326 Score: 79
Period size: 33 Copynumber: 1.9 Consensus size: 31
35738256 TTAAAATTTA
*
35738266 TTATTAAAATAAAATTCAATTATTAAATAAT
1 TTATTAAAATAAAATTCAATTAATAAATAAT
35738297 TTATTAAAATAATAAATT-ATATTAATAAAT
1 TTATTAAAAT-A-AAATTCA-ATTAATAAAT
35738327 TATTATATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 10 0.38
32 2 0.08
33 14 0.54
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (31 bp):
TTATTAAAATAAAATTCAATTAATAAATAAT
Found at i:35738983 original size:89 final size:90
Alignment explanation
Indices: 35738802--35739004 Score: 257
Period size: 89 Copynumber: 2.3 Consensus size: 90
35738792 AAAGGTAATA
*** * *
35738802 TTTTTTTTTCTGCACTCAATTGGGTACTTAAACTTTCAAAATGCATAAAAAAATCCCTCAAACTT
1 TTTTTTTTT-TGCACTCAATTGCACACTTAAACTGTCAAAATGCATAAAAAAATCCCTCAAAATT
*
35738867 TAAAAAAAAAAGTAATTAAGCCCCTG
65 TAAAAAAAAAAGAAATTAAGCCCCTG
* * *
35738893 TTTTTTTTTTGCACTCAATTGCACACTTGAGCTGTCAAAATGCATCAAAAAGA-CCCTCAAAATT
1 TTTTTTTTTTGCACTCAATTGCACACTTAAACTGTCAAAATGCAT-AAAAAAATCCCTCAAAATT
****
35738957 T-TTTTAAAAAGAAATTAAGCCCCTG
65 TAAAAAAAAAAGAAATTAAGCCCCTG
35738982 TTTTTTTTTTGCACTCAATTGCA
1 TTTTTTTTTTGCACTCAATTGCA
35739005 AAAATGTATC
Statistics
Matches: 98, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
89 42 0.43
90 41 0.42
91 15 0.15
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (90 bp):
TTTTTTTTTTGCACTCAATTGCACACTTAAACTGTCAAAATGCATAAAAAAATCCCTCAAAATTT
AAAAAAAAAAGAAATTAAGCCCCTG
Found at i:35739161 original size:19 final size:19
Alignment explanation
Indices: 35739139--35739198 Score: 52
Period size: 19 Copynumber: 3.3 Consensus size: 19
35739129 TATAAAAATA
35739139 AAAATAAATAAAATTTATT
1 AAAATAAATAAAATTTATT
*** *
35739158 AAAATTGTTAAAATTTAAT
1 AAAATAAATAAAATTTATT
* *
35739177 AAAA-ATATAAAATAT-TT
1 AAAATAAATAAAATTTATT
35739194 AAAAT
1 AAAAT
35739199 TTACTAAAAA
Statistics
Matches: 31, Mismatches: 9, Indels: 3
0.72 0.21 0.07
Matches are distributed among these distances:
17 5 0.16
18 7 0.23
19 19 0.61
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
AAAATAAATAAAATTTATT
Found at i:35739195 original size:27 final size:27
Alignment explanation
Indices: 35739157--35739218 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
35739147 TAAAATTTAT
35739157 TAAAAT-TGTTAAAATTTAATAAAAATA
1 TAAAATATGTTAAAATTTAATAAAAA-A
*
35739184 TAAAATAT-TTAAAATTTACTAAAAAA
1 TAAAATATGTTAAAATTTAATAAAAAA
35739210 TAGAAATAT
1 TA-AAATAT
35739219 ATAATTGTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 3 0.09
27 28 0.88
28 1 0.03
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (27 bp):
TAAAATATGTTAAAATTTAATAAAAAA
Found at i:35739251 original size:21 final size:21
Alignment explanation
Indices: 35739233--35739272 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
35739223 TTGTAAAATT
35739233 TTATAAAAAT-CATAAAAAAAA
1 TTAT-AAAATGCATAAAAAAAA
35739254 TTATAAAATGCATAAAAAA
1 TTATAAAATGCATAAAAAA
35739273 GGCCTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.25
Consensus pattern (21 bp):
TTATAAAATGCATAAAAAAAA
Found at i:35744311 original size:25 final size:26
Alignment explanation
Indices: 35744273--35744341 Score: 90
Period size: 26 Copynumber: 2.8 Consensus size: 26
35744263 AAGTTCAAGC
*
35744273 GAGCCA-T-ATCAGGAAGCTC-CAGA
1 GAGCCATTAATCAGGAAGCTCACAAA
*
35744296 GAGCCATTAATCAGGAAACTCACAAA
1 GAGCCATTAATCAGGAAGCTCACAAA
*
35744322 GAGCCTTTAATCAGGAAGCT
1 GAGCCATTAATCAGGAAGCT
35744342 TATGAAGAGC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
23 6 0.15
24 1 0.03
25 11 0.28
26 21 0.54
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (26 bp):
GAGCCATTAATCAGGAAGCTCACAAA
Found at i:35744496 original size:25 final size:25
Alignment explanation
Indices: 35744442--35744498 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
35744432 CTATTATCGG
*
35744442 GAAGCT-AGCAAGAACCATATAATA
1 GAAGCTCAGCAAGAACCATATAAGA
35744466 GAAAGCTCA-CAAGAACCATATAACGA
1 G-AAGCTCAGCAAGAACCATATAA-GA
35744492 GAAGCTC
1 GAAGCTC
35744499 GAGTGGGCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 1 0.03
25 25 0.86
26 3 0.10
ACGTcount: A:0.47, C:0.21, G:0.18, T:0.14
Consensus pattern (25 bp):
GAAGCTCAGCAAGAACCATATAAGA
Found at i:35744823 original size:5 final size:5
Alignment explanation
Indices: 35744794--35744832 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
35744784 TAAATTTAGC
* *
35744794 TCAAT TTAAT ACAAT TCATAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCA
35744833 CATCTTAGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
TCAAT
Found at i:35748061 original size:18 final size:18
Alignment explanation
Indices: 35748038--35748074 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
35748028 AATTTTTTAT
35748038 TATCAAATTCTCTATTGA
1 TATCAAATTCTCTATTGA
35748056 TATCAAATTCTCTATTGA
1 TATCAAATTCTCTATTGA
35748074 T
1 T
35748075 CCACATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.05, T:0.46
Consensus pattern (18 bp):
TATCAAATTCTCTATTGA
Found at i:35753210 original size:18 final size:17
Alignment explanation
Indices: 35753180--35753214 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
35753170 AAGAAATTTT
35753180 TAAAAATTCTAAAAATA
1 TAAAAATTCTAAAAATA
*
35753197 TAAAAATATTTAAAAATA
1 TAAAAAT-TCTAAAAATA
35753215 CATAATTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (17 bp):
TAAAAATTCTAAAAATA
Found at i:35753290 original size:108 final size:108
Alignment explanation
Indices: 35753177--35753434 Score: 333
Period size: 108 Copynumber: 2.4 Consensus size: 108
35753167 CTAAAGAAAT
* * * **
35753177 TTTTAAAAATTC-TAAAAATATAAAA-ATAT-TTAAAAATACATAATTTATTTACTTAAATTATA
1 TTTTAAAAACTCATAAAAATATAAAAGAAATGCTAAAAA-A-ATAAGATATTTACTT-AATTATA
35753239 AAAATAATTTTTAAAAAGTTATAGTTATTTGAAGTTCTTTTGTAAA
63 AAAATAATTTTTAAAAAGTTATAGTTATTTGAAGTTCTTTTGTAAA
** * * **
35753285 TTTTAAAGGCTCATAAAAATCTAAAAGAAATGCTAATAAAATTGGATATTTACTTAATTATAAAA
1 TTTTAAAAACTCATAAAAATATAAAAGAAATGCTAAAAAAATAAGATATTTACTTAATTATAAAA
35753350 ATAATTTTTAAAAAGTTATAGTTATTTGAAGTTCTTTTGTAAA
66 ATAATTTTTAAAAAGTTATAGTTATTTGAAGTTCTTTTGTAAA
** * *
35753393 TTTTAAAGGCTCATAAAAATCTAAAAGAAATGCTAATAAAAT
1 TTTTAAAAACTCATAAAAATATAAAAGAAATGCTAAAAAAAT
35753435 TGGATGGGAT
Statistics
Matches: 136, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
108 104 0.76
109 23 0.17
110 4 0.03
111 5 0.04
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.40
Consensus pattern (108 bp):
TTTTAAAAACTCATAAAAATATAAAAGAAATGCTAAAAAAATAAGATATTTACTTAATTATAAAA
ATAATTTTTAAAAAGTTATAGTTATTTGAAGTTCTTTTGTAAA
Found at i:35753435 original size:108 final size:109
Alignment explanation
Indices: 35753222--35753439 Score: 429
Period size: 108 Copynumber: 2.0 Consensus size: 109
35753212 ATACATAATT
35753222 TATTTACTTAAATTATAAAAATAATTTTTAAAAAGTTATAGTTATTTGAAGTTCTTTTGTAAATT
1 TATTTACTTAAATTATAAAAATAATTTTTAAAAAGTTATAGTTATTTGAAGTTCTTTTGTAAATT
35753287 TTAAAGGCTCATAAAAATCTAAAAGAAATGCTAATAAAATTGGA
66 TTAAAGGCTCATAAAAATCTAAAAGAAATGCTAATAAAATTGGA
35753331 TATTTACTT-AATTATAAAAATAATTTTTAAAAAGTTATAGTTATTTGAAGTTCTTTTGTAAATT
1 TATTTACTTAAATTATAAAAATAATTTTTAAAAAGTTATAGTTATTTGAAGTTCTTTTGTAAATT
35753395 TTAAAGGCTCATAAAAATCTAAAAGAAATGCTAATAAAATTGGA
66 TTAAAGGCTCATAAAAATCTAAAAGAAATGCTAATAAAATTGGA
35753439 T
1 T
35753440 GGGATTTAAT
Statistics
Matches: 109, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
108 100 0.92
109 9 0.08
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (109 bp):
TATTTACTTAAATTATAAAAATAATTTTTAAAAAGTTATAGTTATTTGAAGTTCTTTTGTAAATT
TTAAAGGCTCATAAAAATCTAAAAGAAATGCTAATAAAATTGGA
Found at i:35760917 original size:42 final size:43
Alignment explanation
Indices: 35760849--35760931 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 43
35760839 TTTTACATGT
*
35760849 AATCAAATAACGATGACACTGTCCCAAACAAGGTCTTACACGA
1 AATCAAATAACGATGACAATGTCCCAAACAAGGTCTTACACGA
* * *
35760892 AATCATAT-ACGATGCCAATGTCCCAAACATGGTCTTACAC
1 AATCAAATAACGATGACAATGTCCCAAACAAGGTCTTACAC
35760932 ATAAATCTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 29 0.81
43 7 0.19
ACGTcount: A:0.39, C:0.27, G:0.13, T:0.22
Consensus pattern (43 bp):
AATCAAATAACGATGACAATGTCCCAAACAAGGTCTTACACGA
Found at i:35775443 original size:13 final size:13
Alignment explanation
Indices: 35775425--35775486 Score: 54
Period size: 13 Copynumber: 4.8 Consensus size: 13
35775415 AACATGGAGT
35775425 TAAGTGGTACCGC
1 TAAGTGGTACCGC
* *
35775438 TAAGTGTTACCTC
1 TAAGTGGTACCGC
* **
35775451 TAAGTGATACCAT
1 TAAGTGGTACCGC
*
35775464 TAAGTGGTATCG-
1 TAAGTGGTACCGC
35775476 TAAGGTGGTAC
1 TAA-GTGGTAC
35775487 TGCGAACTGA
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
12 3 0.08
13 36 0.92
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (13 bp):
TAAGTGGTACCGC
Found at i:35788378 original size:20 final size:20
Alignment explanation
Indices: 35788350--35788388 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
35788340 TTAAATTCAA
*
35788350 TAATGTTAAATTTAATTTTTT
1 TAATGTTAAAATT-ATTTTTT
35788371 TAAT-TTAAAATTATTTTT
1 TAATGTTAAAATTATTTTT
35788389 ATTGTGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 7 0.41
21 4 0.24
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (20 bp):
TAATGTTAAAATTATTTTTT
Found at i:35789143 original size:19 final size:19
Alignment explanation
Indices: 35789119--35789174 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
35789109 CATAATGCAA
35789119 ATTTAATATATATTTTATT
1 ATTTAATATATATTTTATT
* * *
35789138 ATTTAATATAAAATATATT
1 ATTTAATATATATTTTATT
* *
35789157 ATTTATTATTTATTTTAT
1 ATTTAATATATATTTTAT
35789175 GTATATAAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTAATATATATTTTATT
Found at i:35789292 original size:104 final size:105
Alignment explanation
Indices: 35789165--35789374 Score: 413
Period size: 104 Copynumber: 2.0 Consensus size: 105
35789155 TTATTTATTA
35789165 TTTATTTTATGTATATAAAAACTTATGCAGTGTCTTTAATAGTCCTTTTCTATTTTTATTTTACC
1 TTTATTTTATGTATATAAAAACTTATGCAGTGTCTTTAATAGTCCTTTTCTATTTTTATTTTACC
35789230 ATTACAATTACATTTGAATTCCAAACCACATCAAATAGTT
66 ATTACAATTACATTTGAATTCCAAACCACATCAAATAGTT
35789270 TTTATTTTAT-TATATAAAAACTTATGCAGTGTCTTTAATAGTCCTTTTCTATTTTTATTTTACC
1 TTTATTTTATGTATATAAAAACTTATGCAGTGTCTTTAATAGTCCTTTTCTATTTTTATTTTACC
35789334 ATTACAATTACATTTGAATTCCAAACCACATCAAATAGTT
66 ATTACAATTACATTTGAATTCCAAACCACATCAAATAGTT
35789374 T
1 T
35789375 ATTTTAATTT
Statistics
Matches: 105, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
104 95 0.90
105 10 0.10
ACGTcount: A:0.32, C:0.15, G:0.06, T:0.46
Consensus pattern (105 bp):
TTTATTTTATGTATATAAAAACTTATGCAGTGTCTTTAATAGTCCTTTTCTATTTTTATTTTACC
ATTACAATTACATTTGAATTCCAAACCACATCAAATAGTT
Found at i:35810884 original size:60 final size:60
Alignment explanation
Indices: 35810760--35810961 Score: 189
Period size: 60 Copynumber: 3.4 Consensus size: 60
35810750 TAGGCCATCT
* * *
35810760 TAAATCTTATTTGAAACAC-CCAGCAGATA-CCA-AGGTCAGCCAAACC-AATAAGCAGTCC
1 TAAATCTTACTTGAAACTCTCAAGCAGATAGCCACA--TCAGCCAAACCTAATAAGCAGTCC
* * * * *
35810818 TAAATCTTACTTGAAACTCTCAAGCATATATCCACATCAGCCAAGCCTAATAAGCACTCG
1 TAAATCTTACTTGAAACTCTCAAGCAGATAGCCACATCAGCCAAACCTAATAAGCAGTCC
* * * * *
35810878 TAAATCTTCCTTGAGA-TGGTCATGCAGATAGCCACATCAGCCAAACATAATAAGCAGTCC
1 TAAATCTTACTTGAAACT-CTCAAGCAGATAGCCACATCAGCCAAACCTAATAAGCAGTCC
* ** *
35810938 TAAAACAAACTTGTAACTCTCAAG
1 TAAATCTTACTTGAAACTCTCAAG
35810962 TAGACATGAA
Statistics
Matches: 113, Mismatches: 25, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
58 17 0.15
59 19 0.17
60 75 0.66
61 2 0.02
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.23
Consensus pattern (60 bp):
TAAATCTTACTTGAAACTCTCAAGCAGATAGCCACATCAGCCAAACCTAATAAGCAGTCC
Found at i:35825120 original size:31 final size:31
Alignment explanation
Indices: 35825085--35825152 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
35825075 AAAAATACTC
35825085 AATAGCTC-AATAACTTAAATAAAAACTTTTG
1 AATAG-TCAAATAACTTAAATAAAAACTTTTG
* * *
35825116 AATAGTCAAATGAGTTAAATGAAAACTTTTG
1 AATAGTCAAATAACTTAAATAAAAACTTTTG
35825147 AATAGT
1 AATAGT
35825153 TCAGTAATCA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 2 0.06
31 31 0.94
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.32
Consensus pattern (31 bp):
AATAGTCAAATAACTTAAATAAAAACTTTTG
Found at i:35830316 original size:27 final size:27
Alignment explanation
Indices: 35830241--35830319 Score: 149
Period size: 27 Copynumber: 2.9 Consensus size: 27
35830231 GGGGCTGAAG
*
35830241 GTGGTGCCAATGAGAATGGCGACACCA
1 GTGGTGCCAATGAGAATGGCGGCACCA
35830268 GTGGTGCCAATGAGAATGGCGGCACCA
1 GTGGTGCCAATGAGAATGGCGGCACCA
35830295 GTGGTGCCAATGAGAATGGCGGCAC
1 GTGGTGCCAATGAGAATGGCGGCAC
35830320 AGGACTAAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.27, C:0.22, G:0.37, T:0.15
Consensus pattern (27 bp):
GTGGTGCCAATGAGAATGGCGGCACCA
Found at i:35833647 original size:20 final size:21
Alignment explanation
Indices: 35833624--35833663 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
35833614 GGGTTCATCA
35833624 AATATA-TACTTTAAATATAT
1 AATATATTACTTTAAATATAT
*
35833644 AATATATTATTTTAAATATA
1 AATATATTACTTTAAATATA
35833664 ATATAATATA
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:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (21 bp):
AATATATTACTTTAAATATAT
Found at i:35833666 original size:5 final size:5
Alignment explanation
Indices: 35833640--35833707 Score: 102
Period size: 5 Copynumber: 13.8 Consensus size: 5
35833630 TACTTTAAAT
* * *
35833640 ATATA ATATA TTATT TTA-A ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
35833689 ATATA ATATA ATATA ATAT
1 ATATA ATATA ATATA ATAT
35833708 TTTATTTTTA
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
4 2 0.03
5 56 0.97
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
ATATA
Found at i:35835787 original size:3 final size:3
Alignment explanation
Indices: 35835781--35835833 Score: 72
Period size: 3 Copynumber: 18.0 Consensus size: 3
35835771 TTTTTTAATG
* * *
35835781 TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTG CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
35835829 -TA TTA
1 TTA TTA
35835834 ATATAATTAC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:35846213 original size:99 final size:97
Alignment explanation
Indices: 35846042--35846271 Score: 293
Period size: 99 Copynumber: 2.4 Consensus size: 97
35846032 TCAGCTGACC
* * * * * *
35846042 TGGGAACAGATCCATCTTCTT-TAGGGAAAACCTCTATTTTGGGTGCAAACATATCATTCGTACT
1 TGGGAACAGATCCATCTTCTTCAATGAAAAACCTCTATTTCGGGTGCAAACATATCAATCGTACA
* * *
35846106 GCAGTCAGCTGAGCCAGAGGTTGACGACGACT
66 GCAATCAGCTGAGCCAGAAGTTGAAGACGACT
* * *
35846138 TGGGAACAGATCCATCTTCTTCAATGAAAAACTCCTCTATTTCGGTTGGAACCATATCAATCGTA
1 TGGGAACAGATCCATCTTCTTCAATGAAAAA--CCTCTATTTCGGGTGCAAACATATCAATCGTA
* *
35846203 CAGCAATCAGCTGAGCCAGAATTTGAAGACGATT
64 CAGCAATCAGCTGAGCCAGAAGTTGAAGACGACT
*
35846237 TGGGAACAGATCCATCTTCTTCAATG-GAAACCTCT
1 TGGGAACAGATCCATCTTCTTCAATGAAAAACCTCT
35846272 TCCCTTTCGG
Statistics
Matches: 116, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
96 26 0.22
97 6 0.05
98 3 0.03
99 81 0.70
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (97 bp):
TGGGAACAGATCCATCTTCTTCAATGAAAAACCTCTATTTCGGGTGCAAACATATCAATCGTACA
GCAATCAGCTGAGCCAGAAGTTGAAGACGACT
Found at i:35853794 original size:23 final size:26
Alignment explanation
Indices: 35853766--35853826 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
35853756 ATCAGCTCTT
35853766 ATGAGCTTACCG-T-TTCAGCTC-G-
1 ATGAGCTTACCGTTCTTCAGCTCGGA
*
35853788 ATAGAGCTTATCGTTCTTCAGCTCGGA
1 AT-GAGCTTACCGTTCTTCAGCTCGGA
35853815 ATGAGCTTACCG
1 ATGAGCTTACCG
35853827 ATCATGGCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
22 2 0.06
23 9 0.28
24 1 0.03
25 8 0.25
26 10 0.31
27 2 0.06
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.31
Consensus pattern (26 bp):
ATGAGCTTACCGTTCTTCAGCTCGGA
Found at i:35866462 original size:19 final size:20
Alignment explanation
Indices: 35866438--35866486 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
35866428 GTGAACTGTT
*
35866438 GTATCAGTACC-A-AAGTAA
1 GTATCAGTACCTATAAGGAA
*
35866456 GGTATCAATACCTATAAGGAA
1 -GTATCAGTACCTATAAGGAA
35866477 GTATCAGTAC
1 GTATCAGTAC
35866487 ATTGATTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 10 0.40
20 10 0.40
21 5 0.20
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.24
Consensus pattern (20 bp):
GTATCAGTACCTATAAGGAA
Found at i:35868771 original size:9 final size:9
Alignment explanation
Indices: 35868753--35868784 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
35868743 TTTGGTTAAA
35868753 AATTAACCG
1 AATTAACCG
*
35868762 AATTACCCG
1 AATTAACCG
35868771 AATTAACCG
1 AATTAACCG
35868780 AATTA
1 AATTA
35868785 CNNNNNNNNN
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.44, C:0.22, G:0.09, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:35873609 original size:57 final size:57
Alignment explanation
Indices: 35873437--35873722 Score: 253
Period size: 56 Copynumber: 5.1 Consensus size: 57
35873427 ATTTTTCAAT
* * * * * * *
35873437 AGCAT-AATAATGCTTACTTTGAGACACTGAAGCAAC-ACTTTAATTTAATTTAGGAC
1 AGCATGAA-AATGCTCAATTTGAAACACTAAAACAACAACTTTAATTCAATTTAAGAC
* * * * ** * * *
35873493 AGCAT-AATAATACCCAATTTAAAACA-TTAAACAGGAGC-TTAATTTAATTTAAGAT
1 AGCATGAA-AATGCTCAATTTGAAACACTAAAACAACAACTTTAATTCAATTTAAGAC
* * * * *
35873548 AGCATAAAAATGCTCAATTTGATAGACTAAAACACCAACTTTAATTCAATTTATGAC
1 AGCATGAAAATGCTCAATTTGAAACACTAAAACAACAACTTTAATTCAATTTAAGAC
* * *
35873605 AGCATGAAAATGCTCAATTTGAAACACTAAAACAGCAGC-TTGATTCAATTTAAGAC
1 AGCATGAAAATGCTCAATTTGAAACACTAAAACAACAACTTTAATTCAATTTAAGAC
* * * *
35873661 AGTATGAAAATGCTCAATTTGAAACACTCAAACAAC-AGTTTAATTCAATTTATGAC
1 AGCATGAAAATGCTCAATTTGAAACACTAAAACAACAACTTTAATTCAATTTAAGAC
35873717 AGCATG
1 AGCATG
35873723 CAAACAGTAA
Statistics
Matches: 185, Mismatches: 40, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
55 38 0.21
56 99 0.54
57 48 0.26
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.29
Consensus pattern (57 bp):
AGCATGAAAATGCTCAATTTGAAACACTAAAACAACAACTTTAATTCAATTTAAGAC
Found at i:35873623 original size:112 final size:113
Alignment explanation
Indices: 35873437--35873722 Score: 335
Period size: 112 Copynumber: 2.5 Consensus size: 113
35873427 ATTTTTCAAT
* * * * * * * *
35873437 AGCATAATAATGCTTACTTTGAGACACTGAAGCAACACTTTAATTTAATTTAGGACAGCAT-AAT
1 AGCATAAAAATGCTCAATTTGAAACACTAAAACAACACTTTAATTCAATTTATGACAGCATGAAT
* * * *
35873501 AATACCCAATTTAAAACA-TTAAACAGGAGCTTAATTTAATTTAAGAT
66 AATACCCAATTTAAAACACTAAAACAGCAGCTTAATTCAATTTAAGAC
* * *
35873548 AGCATAAAAATGCTCAATTTGATAGACTAAAACACCAACTTTAATTCAATTTATGACAGCATGAA
1 AGCATAAAAATGCTCAATTTGAAACACTAAAACAAC-ACTTTAATTCAATTTATGACAGCATGAA
* * * *
35873613 -AATGCTCAATTTGAAACACTAAAACAGCAGCTTGATTCAATTTAAGAC
65 TAATACCCAATTTAAAACACTAAAACAGCAGCTTAATTCAATTTAAGAC
* * * *
35873661 AGTATGAAAATGCTCAATTTGAAACACTCAAACAACAGTTTAATTCAATTTATGACAGCATG
1 AGCATAAAAATGCTCAATTTGAAACACTAAAACAACACTTTAATTCAATTTATGACAGCATG
35873723 CAAACAGTAA
Statistics
Matches: 147, Mismatches: 25, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
111 28 0.19
112 63 0.43
113 56 0.38
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.29
Consensus pattern (113 bp):
AGCATAAAAATGCTCAATTTGAAACACTAAAACAACACTTTAATTCAATTTATGACAGCATGAAT
AATACCCAATTTAAAACACTAAAACAGCAGCTTAATTCAATTTAAGAC
Found at i:35873673 original size:56 final size:56
Alignment explanation
Indices: 35873476--35873722 Score: 273
Period size: 56 Copynumber: 4.4 Consensus size: 56
35873466 AAGCAACACT
* * * * * * *
35873476 TTAATTTAATTTAGGACAGCAT-AATAATACCCAATTTAAAACA-TTAAACAGGAGC
1 TTAATTCAATTTAAGACAGCATGAA-AATGCTCAATTTGAAACACTAAAACAGCAGC
* * * * * * *
35873531 TTAATTTAATTTAAGATAGCATAAAAATGCTCAATTTGATAGACTAAAACACCAAC
1 TTAATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACACTAAAACAGCAGC
*
35873587 TTTAATTCAATTTATGACAGCATGAAAATGCTCAATTTGAAACACTAAAACAGCAGC
1 -TTAATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACACTAAAACAGCAGC
* * * * *
35873644 TTGATTCAATTTAAGACAGTATGAAAATGCTCAATTTGAAACACTCAAACAACAGT
1 TTAATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACACTAAAACAGCAGC
*
35873700 TTAATTCAATTTATGACAGCATG
1 TTAATTCAATTTAAGACAGCATG
35873723 CAAACAGTAA
Statistics
Matches: 161, Mismatches: 28, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
55 33 0.20
56 80 0.50
57 48 0.30
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.30
Consensus pattern (56 bp):
TTAATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACACTAAAACAGCAGC
Found at i:35874470 original size:6 final size:6
Alignment explanation
Indices: 35874459--35874487 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
35874449 ACTTTTAGAC
35874459 TTTAGT TTTAGT TTTAGT TTTAGT TTTAG
1 TTTAGT TTTAGT TTTAGT TTTAGT TTTAG
35874488 AATTTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.66
Consensus pattern (6 bp):
TTTAGT
Found at i:35874511 original size:20 final size:20
Alignment explanation
Indices: 35874444--35874500 Score: 64
Period size: 18 Copynumber: 2.9 Consensus size: 20
35874434 CACTGTTGAG
* *
35874444 TTTAGACTTTTAGACTTTAGT
1 TTTAGAATTTTAG-TTTTAGT
35874465 TTTAG--TTTTAGTTTTAGT
1 TTTAGAATTTTAGTTTTAGT
*
35874483 TTTAGAATTTTATTTTTA
1 TTTAGAATTTTAGTTTTA
35874501 TTTATTAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 11 0.34
19 6 0.19
20 10 0.31
21 5 0.16
ACGTcount: A:0.23, C:0.04, G:0.12, T:0.61
Consensus pattern (20 bp):
TTTAGAATTTTAGTTTTAGT
Found at i:35876713 original size:21 final size:21
Alignment explanation
Indices: 35876671--35876715 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
35876661 ATTAATCACT
* *
35876671 TTTTTATTTTGTTTTTGGATA
1 TTTTTATTTTGTCTGTGGATA
35876692 TTTTTATTTT-TCTGTGGCATA
1 TTTTTATTTTGTCTGTGG-ATA
35876713 TTT
1 TTT
35876716 GTTTTCATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.13, C:0.04, G:0.13, T:0.69
Consensus pattern (21 bp):
TTTTTATTTTGTCTGTGGATA
Found at i:35876955 original size:18 final size:17
Alignment explanation
Indices: 35876921--35876966 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 17
35876911 AGGTTTTATG
35876921 TGTGTTTA-TTT-TTCT
1 TGTGTTTATTTTATTCT
*
35876936 TGTTTTTATGTTTATTCT
1 TGTGTTTAT-TTTATTCT
35876954 TGTGTTTATTTTA
1 TGTGTTTATTTTA
35876967 GTTTTTATGC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 7 0.27
17 7 0.27
18 12 0.46
ACGTcount: A:0.11, C:0.04, G:0.13, T:0.72
Consensus pattern (17 bp):
TGTGTTTATTTTATTCT
Found at i:35897593 original size:17 final size:18
Alignment explanation
Indices: 35897561--35897594 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
35897551 TAAAAAAGAA
*
35897561 TTCTATCCTCATTTTTTT
1 TTCTATACTCATTTTTTT
35897579 TTCTATACT-ATTTTTT
1 TTCTATACTCATTTTTT
35897595 GGTAGAAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.68
Consensus pattern (18 bp):
TTCTATACTCATTTTTTT
Found at i:35897993 original size:18 final size:17
Alignment explanation
Indices: 35897962--35897996 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
35897952 GGTTTAGGGT
35897962 TTAAATTTTTTAATTAA
1 TTAAATTTTTTAATTAA
35897979 TTAAATTTATTTAATTAA
1 TTAAATTT-TTTAATTAA
35897997 AAATCTATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTAAATTTTTTAATTAA
Found at i:35898146 original size:31 final size:29
Alignment explanation
Indices: 35898111--35898170 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
35898101 TGATCACTTC
35898111 GTAACAAAATGATAACATAAGTGACTAAAAT
1 GTAACAAAATG--AACATAAGTGACTAAAAT
***
35898142 GTAACATTTTGAACATAAGTGACTAAAAT
1 GTAACAAAATGAACATAAGTGACTAAAAT
35898171 ATAATTTGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 18 0.69
31 8 0.31
ACGTcount: A:0.50, C:0.10, G:0.13, T:0.27
Consensus pattern (29 bp):
GTAACAAAATGAACATAAGTGACTAAAAT
Found at i:35899713 original size:17 final size:18
Alignment explanation
Indices: 35899680--35899716 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
35899670 ATATGGCATA
*
35899680 CCTGTGTGGGCCTACACG
1 CCTGTGTGGGCCCACACG
35899698 CCTGTGT-GGCCCACACG
1 CCTGTGTGGGCCCACACG
35899715 CC
1 CC
35899717 CTACTTAGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.11, C:0.41, G:0.30, T:0.19
Consensus pattern (18 bp):
CCTGTGTGGGCCCACACG
Found at i:35900385 original size:6 final size:6
Alignment explanation
Indices: 35900374--35900413 Score: 64
Period size: 6 Copynumber: 6.7 Consensus size: 6
35900364 AAATTTTGGG
35900374 AAAAAT AAAAAT AAAAAT AAAAAT AGAAAAT -AAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT A-AAAAT AAAAAT AAAA
35900414 TCTATTTTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 5 0.16
6 22 0.69
7 5 0.16
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:35904468 original size:43 final size:44
Alignment explanation
Indices: 35904420--35904511 Score: 114
Period size: 43 Copynumber: 2.1 Consensus size: 44
35904410 GTGTTTTCCC
* * *
35904420 ACAAACACCGCTATAGAACATGATATTTAGCGGTGCTTTTA-CT
1 ACAAACACCGCTAAAGAACATGATATTTAGCAGCGCTTTTAGCT
* * * *
35904463 ACAAACGCCGCTAAAGAACATGGTCTTTTGCAGCGCTTTTAGCT
1 ACAAACACCGCTAAAGAACATGATATTTAGCAGCGCTTTTAGCT
35904507 ACAAA
1 ACAAA
35904512 TGCCACAACA
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 34 0.83
44 7 0.17
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (44 bp):
ACAAACACCGCTAAAGAACATGATATTTAGCAGCGCTTTTAGCT
Found at i:35908045 original size:2 final size:2
Alignment explanation
Indices: 35908038--35908065 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
35908028 TGGGGTTAAC
35908038 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
35908066 CAGAATCGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:35909961 original size:18 final size:17
Alignment explanation
Indices: 35909934--35909967 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
35909924 CTTATTCAAC
*
35909934 TAAAATTTTATTTTTGG
1 TAAAATTTTATATTTGG
35909951 TAAATATTTTATATTTG
1 TAAA-ATTTTATATTTG
35909968 AAATTTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (17 bp):
TAAAATTTTATATTTGG
Found at i:35916959 original size:16 final size:17
Alignment explanation
Indices: 35916926--35916959 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
35916916 TGAAAATCTC
* *
35916926 AGTGGTTTTTGGGAAAA
1 AGTGATTTTTGAGAAAA
35916943 AGTGATTTTTGAGAAAA
1 AGTGATTTTTGAGAAAA
35916960 TTAATTTTGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.35
Consensus pattern (17 bp):
AGTGATTTTTGAGAAAA
Found at i:35924395 original size:98 final size:98
Alignment explanation
Indices: 35924242--35924445 Score: 338
Period size: 98 Copynumber: 2.1 Consensus size: 98
35924232 ATTCAACACT
* * * *
35924242 ATATTATATATTTAACGCAAGTAGATATTCAAGTCTAAAAAAAATCATTTTTTAATGTATATCCA
1 ATATTATATATTTAACGCAAATAGATATCCAACTCTAAAAAAAATCAATTTTTAATGTATATCCA
35924307 ATACTACTATAAAAATATAAATGTCATAAACTA
66 ATACTACTATAAAAATATAAATGTCATAAACTA
* **
35924340 ATATTATATATTTAACGCAAATAGATATCCAACTCTAATAAATCTCAATTTTTAATGTATATCCA
1 ATATTATATATTTAACGCAAATAGATATCCAACTCTAAAAAAAATCAATTTTTAATGTATATCCA
35924405 ATACTACTATAAAAATATAAATGTCATAAACTA
66 ATACTACTATAAAAATATAAATGTCATAAACTA
35924438 ATA-TATAT
1 ATATTATAT
35924446 TCAATAATAA
Statistics
Matches: 99, Mismatches: 7, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
97 5 0.05
98 94 0.95
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.36
Consensus pattern (98 bp):
ATATTATATATTTAACGCAAATAGATATCCAACTCTAAAAAAAATCAATTTTTAATGTATATCCA
ATACTACTATAAAAATATAAATGTCATAAACTA
Found at i:35925555 original size:18 final size:18
Alignment explanation
Indices: 35925517--35925552 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
35925507 TTATTATTTT
*
35925517 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
35925535 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
35925553 TAATTTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:35927438 original size:15 final size:16
Alignment explanation
Indices: 35927402--35927438 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
35927392 GAATTTTAAA
*
35927402 TTTTTTGGGTTTGTAT
1 TTTTTTAGGTTTGTAT
35927418 TTTTTTAGGTTTG-AT
1 TTTTTTAGGTTTGTAT
35927433 TTTTTT
1 TTTTTT
35927439 CAGGCTGTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.08, C:0.00, G:0.19, T:0.73
Consensus pattern (16 bp):
TTTTTTAGGTTTGTAT
Found at i:35928779 original size:5 final size:5
Alignment explanation
Indices: 35928769--35928794 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
35928759 TGAGCATTCG
35928769 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
35928795 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:35930138 original size:9 final size:9
Alignment explanation
Indices: 35930124--35930160 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
35930114 TATAGTTTGA
35930124 TATTCGAAT
1 TATTCGAAT
35930133 TATTCGAAT
1 TATTCGAAT
*
35930142 TATTCGAGT
1 TATTCGAAT
35930151 TATTCGAAT
1 TATTCGAAT
35930160 T
1 T
35930161 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:35930204 original size:11 final size:11
Alignment explanation
Indices: 35930190--35930222 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
35930180 GAACTCGAAA
35930190 TTCGATTTTTT
1 TTCGATTTTTT
35930201 TTCGATTTTTT
1 TTCGATTTTTT
35930212 TTCGATTTTTT
1 TTCGATTTTTT
35930223 CGAGTCAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.09, C:0.09, G:0.09, T:0.73
Consensus pattern (11 bp):
TTCGATTTTTT
Found at i:35933466 original size:62 final size:62
Alignment explanation
Indices: 35933369--35933493 Score: 214
Period size: 62 Copynumber: 2.0 Consensus size: 62
35933359 TTGGCATTAA
* * * *
35933369 TAGGTCACCAACCACATCTGTGGCCTCTCGTTGCTAGGTAAAAATAAAATACAATTTTAGCT
1 TAGGTCACCAACCACATCTATGGCCACTCGTTGCTAAGAAAAAATAAAATACAATTTTAGCT
35933431 TAGGTCACCAACCACATCTATGGCCACTCGTTGCTAAGAAAAAATAAAATACAATTTTAGCT
1 TAGGTCACCAACCACATCTATGGCCACTCGTTGCTAAGAAAAAATAAAATACAATTTTAGCT
35933493 T
1 T
35933494 GCCACACTGC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.28
Consensus pattern (62 bp):
TAGGTCACCAACCACATCTATGGCCACTCGTTGCTAAGAAAAAATAAAATACAATTTTAGCT
Found at i:35934567 original size:19 final size:19
Alignment explanation
Indices: 35934543--35934592 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
35934533 CGATTGCTGA
*
35934543 AGTCCCACGTTGTCGGGGG
1 AGTCCCACGTTGTCAGGGG
*
35934562 AGTCCCAAGTTGTCAGGGG
1 AGTCCCACGTTGTCAGGGG
35934581 AGTCCCAACGTT
1 AGTCCC-ACGTT
35934593 ACACCCCCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 23 0.85
20 4 0.15
ACGTcount: A:0.18, C:0.26, G:0.34, T:0.22
Consensus pattern (19 bp):
AGTCCCACGTTGTCAGGGG
Found at i:35939338 original size:371 final size:371
Alignment explanation
Indices: 35938616--35939714 Score: 2048
Period size: 371 Copynumber: 3.0 Consensus size: 371
35938606 CATGTGATGG
* *
35938616 TCATCAACGAGCTAACAAATGTCACAATATATTCTGATTTTTTTTTTGAACTCATGCACTTTGTA
1 TCATCAACGAGCCAACAAATGTCACAATATATTCT-AATTTTTTTTT-AACTCATGCACTTTGTA
35938681 ACTATACACTTGCTTATCTATATTGACCTTTTCTACAATATACTGTTTGAAATGAATTAACTCAT
64 ACTATACACTTGCTTATCTATATTGACCTTTTCTACAATATACTGTTTGAAATGAATTAACTCAT
35938746 CTTGAAATTTTTTGAAGATTTTTCTTGTGTAAACATTTGATGCTTTTTTCTCCATTGGGTATAAT
129 CTTGAAATTTTTTGAAGATTTTTCTTGTGTAAACATTTGATGCTTTTTTCTCCATTGGGTATAAT
35938811 GAGTTAAAAATTATCTTTGAATTCATTGTTTTGAAATTCTTCCCTCTTTCTTTGTTGTATCTTAC
194 GAGTTAAAAATTATCTTTGAATTCATTGTTTTGAAATTCTTCCCTCTTTCTTTGTTGTATCTTAC
* *
35938876 GTCAAAGGACTTGTCATATTGAATTACAAACTTACTCATTGATGTGCTCGAGTTGAGAAAATCCT
259 GTCAAGGGCCTTGTCATATTGAATTACAAACTTACTCATTGATGTGCTCGAGTTGAGAAAATCCT
*
35938941 TGAAATATTTGTTCATCCTTTCACTTCTTTAAGTAGTGAAATATTTGT
324 TGAAATATTTGTTCATCCTTTCACTTCTTTAAGTAGTGAAACATTTGT
*
35938989 TTATCAACGAGCCAACAAATGTCACAATATATTCTAATTTTTTTTTAACTCATGCACTTTGTAAC
1 TCATCAACGAGCCAACAAATGTCACAATATATTCTAATTTTTTTTTAACTCATGCACTTTGTAAC
35939054 TATACACTTGCTTATCTATATTGACCTTTTCTACAATATACTGTTTGAAATGAATTAACTCATCT
66 TATACACTTGCTTATCTATATTGACCTTTTCTACAATATACTGTTTGAAATGAATTAACTCATCT
35939119 TGAAATTTTTTGAAGATTTTTCTTGTGTAAACATTTGATGCTTTTTTCTCCATTGGGTATAATGA
131 TGAAATTTTTTGAAGATTTTTCTTGTGTAAACATTTGATGCTTTTTTCTCCATTGGGTATAATGA
35939184 GTTAAAAATTATCTTTGAATTCATTGTTTTGAAATTCTTCCCTCTTTCTTTGTTGTATCTTACGT
196 GTTAAAAATTATCTTTGAATTCATTGTTTTGAAATTCTTCCCTCTTTCTTTGTTGTATCTTACGT
*
35939249 CAAGGGCCTTGTCATATTGAAATACAAACTTACTCATTGATGTGCTCGAGTTGAGAAAATCCTTG
261 CAAGGGCCTTGTCATATTGAATTACAAACTTACTCATTGATGTGCTCGAGTTGAGAAAATCCTTG
35939314 AAATATTTGTTCATCCTTTCACTTCTTTAAGTAGTGAAACATTTGT
326 AAATATTTGTTCATCCTTTCACTTCTTTAAGTAGTGAAACATTTGT
*
35939360 TCATCAACGAGCCAACAAATGTCACAATATATTCTAA--TTTTTTTAACTCACGCACTTTGTAAC
1 TCATCAACGAGCCAACAAATGTCACAATATATTCTAATTTTTTTTTAACTCATGCACTTTGTAAC
35939423 TATACACTTGCTTATCTATATTGACCTTTTCTACAATATACTGTTTGAAATGAATTAACTCATCT
66 TATACACTTGCTTATCTATATTGACCTTTTCTACAATATACTGTTTGAAATGAATTAACTCATCT
* *
35939488 TGACATTTTTTGAAGATTTTTCTTGTGTAAACATCTGATGCTTTTTTCTCCATTGGGTATAATGA
131 TGAAATTTTTTGAAGATTTTTCTTGTGTAAACATTTGATGCTTTTTTCTCCATTGGGTATAATGA
35939553 GTTAAAAATTATCTTTGAATTCATTGTTTTGAAATTC-T---TCTTTCTTTGTTGTATCTTACGT
196 GTTAAAAATTATCTTTGAATTCATTGTTTTGAAATTCTTCCCTCTTTCTTTGTTGTATCTTACGT
35939614 CAAGGGCCTTGTCATATTGAATTACAAACTTACTCATTGATGTGCTCGAGTTGAGAAAATCCTTG
261 CAAGGGCCTTGTCATATTGAATTACAAACTTACTCATTGATGTGCTCGAGTTGAGAAAATCCTTG
35939679 AAATATTTGTTCATCCTTTCACTTCTTTAAGTAGTG
326 AAATATTTGTTCATCCTTTCACTTCTTTAAGTAGTG
35939715 GACATTCCAG
Statistics
Matches: 714, Mismatches: 12, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
365 123 0.17
368 1 0.00
369 190 0.27
371 357 0.50
372 10 0.01
373 33 0.05
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (371 bp):
TCATCAACGAGCCAACAAATGTCACAATATATTCTAATTTTTTTTTAACTCATGCACTTTGTAAC
TATACACTTGCTTATCTATATTGACCTTTTCTACAATATACTGTTTGAAATGAATTAACTCATCT
TGAAATTTTTTGAAGATTTTTCTTGTGTAAACATTTGATGCTTTTTTCTCCATTGGGTATAATGA
GTTAAAAATTATCTTTGAATTCATTGTTTTGAAATTCTTCCCTCTTTCTTTGTTGTATCTTACGT
CAAGGGCCTTGTCATATTGAATTACAAACTTACTCATTGATGTGCTCGAGTTGAGAAAATCCTTG
AAATATTTGTTCATCCTTTCACTTCTTTAAGTAGTGAAACATTTGT
Found at i:35942438 original size:103 final size:103
Alignment explanation
Indices: 35941889--35942418 Score: 1042
Period size: 103 Copynumber: 5.1 Consensus size: 103
35941879 ACATATAATT
35941889 TTCGGTTAATTCGGTCGGTTAACCGAATTAACCGACCTTTCAAAATTTTTAACATGTAACCGAAC
1 TTCGGTTAATTCGGTCGGTTAACCGAATTAACCGACCTTTCAAAATTTTTAACATGTAACCGAAC
35941954 CGAATGCTTGTCAAAAAAATTAACCTAACTGAAATTGG
66 CGAATGCTTGTCAAAAAAATTAACCTAACTGAAATTGG
35941992 TTCGGTTAATTCGGTCGGTTAACCGAATTAACCGACCTTTCAAAATTTTTAACATGTAACCGAAC
1 TTCGGTTAATTCGGTCGGTTAACCGAATTAACCGACCTTTCAAAATTTTTAACATGTAACCGAAC
35942057 CGAATGCTTGTCAAAAAAATTAACCTAACTGAAATTGG
66 CGAATGCTTGTCAAAAAAATTAACCTAACTGAAATTGG
35942095 TTCGGTTAATTCGGTCGGTTAACCGAATTAACCGACCTTTCAAAATTTTTAACATGTAACCGAAC
1 TTCGGTTAATTCGGTCGGTTAACCGAATTAACCGACCTTTCAAAATTTTTAACATGTAACCGAAC
35942160 CGAATGCTTGTCAAAAAAATTAACCTAACTGAAATTGG
66 CGAATGCTTGTCAAAAAAATTAACCTAACTGAAATTGG
35942198 TTCGGTTAATTCGGTCGGTTAACCGAATTAACCGACCTTTCAAAATTTTTAACATGTAACCGAAC
1 TTCGGTTAATTCGGTCGGTTAACCGAATTAACCGACCTTTCAAAATTTTTAACATGTAACCGAAC
35942263 CGAATGCTTGTCAAAAAAATTAACCTAACTGAAATTGG
66 CGAATGCTTGTCAAAAAAATTAACCTAACTGAAATTGG
35942301 TTCGGTTAATTCGGTCGGTTAACCGAATTAACCGACCTTTCAAAATTTTTAACATGTAACCGAAC
1 TTCGGTTAATTCGGTCGGTTAACCGAATTAACCGACCTTTCAAAATTTTTAACATGTAACCGAAC
**
35942366 CGAATGCTTGTCAAAAAAATTAACCTAACTGAAATTTT
66 CGAATGCTTGTCAAAAAAATTAACCTAACTGAAATTGG
35942404 TTCGGTTAATTCGGT
1 TTCGGTTAATTCGGT
35942419 TAACCGACCG
Statistics
Matches: 425, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 425 1.00
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.31
Consensus pattern (103 bp):
TTCGGTTAATTCGGTCGGTTAACCGAATTAACCGACCTTTCAAAATTTTTAACATGTAACCGAAC
CGAATGCTTGTCAAAAAAATTAACCTAACTGAAATTGG
Found at i:35943343 original size:80 final size:81
Alignment explanation
Indices: 35943245--35943406 Score: 317
Period size: 80 Copynumber: 2.0 Consensus size: 81
35943235 AATTAGTATA
35943245 AAATTAGAAAATATATTATGGTAATATGATCCCAATTAGATAAGTTAATTTTGAACATGACTCAT
1 AAATTAGAAAATATATTATGGTAATATGATCCCAATTAGATAAGTTAATTTTGAACATGACTCAT
35943310 AATTTAATGTAATTAT
66 AATTTAATGTAATTAT
35943326 AAATTAG-AAATATATTATGGTAATATGATCCCAATTAGATAAGTTAATTTTGAACATGACTCAT
1 AAATTAGAAAATATATTATGGTAATATGATCCCAATTAGATAAGTTAATTTTGAACATGACTCAT
35943390 AATTTAATGTAATTAT
66 AATTTAATGTAATTAT
35943406 A
1 A
35943407 TTTTTTACAA
Statistics
Matches: 81, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
80 74 0.91
81 7 0.09
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.38
Consensus pattern (81 bp):
AAATTAGAAAATATATTATGGTAATATGATCCCAATTAGATAAGTTAATTTTGAACATGACTCAT
AATTTAATGTAATTAT
Found at i:35945062 original size:9 final size:9
Alignment explanation
Indices: 35945048--35945132 Score: 61
Period size: 9 Copynumber: 9.4 Consensus size: 9
35945038 TTTTTTCATA
35945048 AAAAATATT
1 AAAAATATT
35945057 AAAAATCA-T
1 AAAAAT-ATT
*
35945066 AAATATATAT
1 AAAAATAT-T
*
35945076 AAAATTATT
1 AAAAATATT
35945085 AAAAATATTT
1 AAAAATA-TT
35945095 AAAAA-ATT
1 AAAAATATT
*
35945103 AAAGAT-TAT
1 AAAAATAT-T
*
35945112 AAAAA-AAT
1 AAAAATATT
*
35945120 AAAACTATT
1 AAAAATATT
35945129 AAAA
1 AAAA
35945133 TTTATACAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 16
0.70 0.11 0.19
Matches are distributed among these distances:
8 13 0.22
9 31 0.53
10 15 0.25
ACGTcount: A:0.66, C:0.02, G:0.01, T:0.31
Consensus pattern (9 bp):
AAAAATATT
Found at i:35945105 original size:18 final size:18
Alignment explanation
Indices: 35945082--35945132 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
35945072 ATATAAAATT
35945082 ATTAAAAATATTTAAAAA
1 ATTAAAAATATTTAAAAA
* *
35945100 ATTAAAGAT-TATAAAAA
1 ATTAAAAATATTTAAAAA
* *
35945117 AATAAAACTA-TTAAAA
1 ATTAAAAATATTTAAAA
35945133 TTTATACAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (18 bp):
ATTAAAAATATTTAAAAA
Found at i:35953544 original size:46 final size:46
Alignment explanation
Indices: 35953494--35953788 Score: 313
Period size: 46 Copynumber: 6.2 Consensus size: 46
35953484 TGTGATTTAT
* * *
35953494 AGCTTTAATCTACTGCGATGCCAGGGAAATAAGATTCGCTGCCTTC
1 AGCTTTAATCTACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTC
*
35953540 AGCTTTAATCTGTCCCACTACAACGCCAAGGAAATAAGATTCGCTGCCTTC
1 AGCTTTAATC--T---ACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTC
* * * *
35953591 AGCTTTAATCTACTGCGACGCCAGGGAAATAAGATTTGTTGCCTTC
1 AGCTTTAATCTACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTC
* *
35953637 AGCTTTAATCTGTTCCATTGCAACGCCAAGGAAATGAGATTCGCTGCCTTC
1 AGCTTTAATC---T--ACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTC
* * * *
35953688 ATCTTTAATCTACTGCGACGGC-AGAGAAATAAGATTCGTTGCCTTC
1 AGCTTTAATCTACTGCAACGCCAAG-GAAATAAGATTCGCTGCCTTC
* * * * *
35953734 AGCTTTAATCTATTGCAATGCCAAGGAAACAAGATCCGTTGCCTTC
1 AGCTTTAATCTACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTC
35953780 AGCTTTAAT
1 AGCTTTAAT
35953789 TTGTTCCACT
Statistics
Matches: 209, Mismatches: 28, Indels: 24
0.80 0.11 0.09
Matches are distributed among these distances:
45 2 0.01
46 122 0.58
47 2 0.01
48 2 0.01
49 2 0.01
51 79 0.38
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (46 bp):
AGCTTTAATCTACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTC
Found at i:35953595 original size:97 final size:97
Alignment explanation
Indices: 35953494--35953744 Score: 412
Period size: 97 Copynumber: 2.6 Consensus size: 97
35953484 TGTGATTTAT
* *
35953494 AGCTTTAATCTACTGCGATGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTCCCACT
1 AGCTTTAATCTACTGCGACGCCAGGGAAATAAGATTCGTTGCCTTCAGCTTTAATCTGTCCCACT
35953559 ACAACGCCAAGGAAATAAGATTCGCTGCCTTC
66 ACAACGCCAAGGAAATAAGATTCGCTGCCTTC
* * *
35953591 AGCTTTAATCTACTGCGACGCCAGGGAAATAAGATTTGTTGCCTTCAGCTTTAATCTGTTCCATT
1 AGCTTTAATCTACTGCGACGCCAGGGAAATAAGATTCGTTGCCTTCAGCTTTAATCTGTCCCACT
* *
35953656 GCAACGCCAAGGAAATGAGATTCGCTGCCTTC
66 ACAACGCCAAGGAAATAAGATTCGCTGCCTTC
* * *
35953688 ATCTTTAATCTACTGCGACGGCAGAGAAATAAGATTCGTTGCCTTCAGCTTTAATCT
1 AGCTTTAATCTACTGCGACGCCAGGGAAATAAGATTCGTTGCCTTCAGCTTTAATCT
35953745 ATTGCAATGC
Statistics
Matches: 143, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
97 143 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.29
Consensus pattern (97 bp):
AGCTTTAATCTACTGCGACGCCAGGGAAATAAGATTCGTTGCCTTCAGCTTTAATCTGTCCCACT
ACAACGCCAAGGAAATAAGATTCGCTGCCTTC
Found at i:35953800 original size:97 final size:94
Alignment explanation
Indices: 35953494--35953788 Score: 405
Period size: 97 Copynumber: 3.1 Consensus size: 94
35953484 TGTGATTTAT
* * *
35953494 AGCTTTAATCTACTGCGATGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTCCCACT
1 AGCTTTAATCTACTGCGACGCCAGGGAAATAAGATTCGTTGCCTTCAGCTTTAATCT-T--CATT
*
35953559 ACAACGCCAAGGAAATAAGATTCGCTGCCTTC
63 GCAACGCCAAGGAAATAAGATTCGCTGCCTTC
*
35953591 AGCTTTAATCTACTGCGACGCCAGGGAAATAAGATTTGTTGCCTTCAGCTTTAATCTGTTCCATT
1 AGCTTTAATCTACTGCGACGCCAGGGAAATAAGATTCGTTGCCTTCAGCTTTAATC--TT-CATT
*
35953656 GCAACGCCAAGGAAATGAGATTCGCTGCCTTC
63 GCAACGCCAAGGAAATAAGATTCGCTGCCTTC
* * *
35953688 ATCTTTAATCTACTGCGACGGCAGAGAAATAAGATTCGTTGCCTTCAGCTTTAATC-T-ATTGCA
1 AGCTTTAATCTACTGCGACGCCAGGGAAATAAGATTCGTTGCCTTCAGCTTTAATCTTCATTGCA
* * * *
35953751 ATGCCAAGGAAACAAGATCCGTTGCCTTC
66 ACGCCAAGGAAATAAGATTCGCTGCCTTC
35953780 AGCTTTAAT
1 AGCTTTAAT
35953789 TTGTTCCACT
Statistics
Matches: 180, Mismatches: 16, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
92 38 0.21
94 1 0.01
97 139 0.77
98 1 0.01
99 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (94 bp):
AGCTTTAATCTACTGCGACGCCAGGGAAATAAGATTCGTTGCCTTCAGCTTTAATCTTCATTGCA
ACGCCAAGGAAATAAGATTCGCTGCCTTC
Found at i:35955047 original size:13 final size:13
Alignment explanation
Indices: 35955031--35955057 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
35955021 AAAGGCCATG
35955031 GAGAAGTCATAAC
1 GAGAAGTCATAAC
35955044 GAGAAGTCATAAC
1 GAGAAGTCATAAC
35955057 G
1 G
35955058 TCCTTATCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.15, G:0.26, T:0.15
Consensus pattern (13 bp):
GAGAAGTCATAAC
Found at i:35960674 original size:22 final size:22
Alignment explanation
Indices: 35960649--35960690 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
35960639 AGGCAAATAA
*
35960649 ATTAATAATGGAATAAAACAAT
1 ATTAATAATGGAAAAAAACAAT
35960671 ATTAATAATGGAAAAAAACA
1 ATTAATAATGGAAAAAAACA
35960691 TAAATAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.62, C:0.05, G:0.10, T:0.24
Consensus pattern (22 bp):
ATTAATAATGGAAAAAAACAAT
Found at i:35960696 original size:19 final size:21
Alignment explanation
Indices: 35960651--35960697 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
35960641 GCAAATAAAT
*
35960651 TAATAATGGAATAAAACAATA
1 TAATAATGGAAAAAAACAATA
35960672 TTAATAATGGAAAAAAAC-ATA
1 -TAATAATGGAAAAAAACAATA
35960693 -AATAA
1 TAATAA
35960698 AAAATAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 5 0.21
21 3 0.12
22 16 0.67
ACGTcount: A:0.64, C:0.04, G:0.09, T:0.23
Consensus pattern (21 bp):
TAATAATGGAAAAAAACAATA
Found at i:35961502 original size:22 final size:22
Alignment explanation
Indices: 35961467--35961524 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 22
35961457 TTGTTATTGT
* *
35961467 TATTTTTTTTATTTTTGGACTG
1 TATTATTTGTATTTTTGGACTG
35961489 ATATTATTTG-A--TTTGGACTG
1 -TATTATTTGTATTTTTGGACTG
35961509 TATTATTTGTATTTTT
1 TATTATTTGTATTTTT
35961525 ATATTGTAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
19 9 0.30
20 10 0.33
22 4 0.13
23 7 0.23
ACGTcount: A:0.19, C:0.03, G:0.14, T:0.64
Consensus pattern (22 bp):
TATTATTTGTATTTTTGGACTG
Found at i:35961514 original size:19 final size:21
Alignment explanation
Indices: 35961480--35961522 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
35961470 TTTTTTTATT
35961480 TTTGGACTGATATTATTTG-A
1 TTTGGACTGATATTATTTGTA
35961500 TTTGGACTG-TATTATTTGTA
1 TTTGGACTGATATTATTTGTA
35961520 TTT
1 TTT
35961523 TTATATTGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.21, C:0.05, G:0.19, T:0.56
Consensus pattern (21 bp):
TTTGGACTGATATTATTTGTA
Found at i:35963691 original size:20 final size:20
Alignment explanation
Indices: 35963636--35963685 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
35963626 AAACAGGGTC
* *
35963636 AATGTCACAACATTGGCTTTG
1 AATGTCACGACATTGAC-TTG
*
35963657 AATGTCATGACATTGACTTG
1 AATGTCACGACATTGACTTG
35963677 AATGTCACG
1 AATGTCACG
35963686 TTATTGGAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 11 0.44
21 14 0.56
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (20 bp):
AATGTCACGACATTGACTTG
Found at i:35967162 original size:58 final size:58
Alignment explanation
Indices: 35967072--35967188 Score: 225
Period size: 58 Copynumber: 2.0 Consensus size: 58
35967062 TTTCGCATGG
35967072 CTACATATATAAAGATTAAAATGAACCATATCGAAACAAGCCTATACATGCCATATGT
1 CTACATATATAAAGATTAAAATGAACCATATCGAAACAAGCCTATACATGCCATATGT
*
35967130 CTACATATATAAAGATTAAAATGAACCATATCGAAACTAGCCTATACATGCCATATGT
1 CTACATATATAAAGATTAAAATGAACCATATCGAAACAAGCCTATACATGCCATATGT
35967188 C
1 C
35967189 AATAGTACAA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.44, C:0.20, G:0.10, T:0.26
Consensus pattern (58 bp):
CTACATATATAAAGATTAAAATGAACCATATCGAAACAAGCCTATACATGCCATATGT
Found at i:35967659 original size:43 final size:43
Alignment explanation
Indices: 35967611--35967764 Score: 190
Period size: 43 Copynumber: 3.6 Consensus size: 43
35967601 CAATGTCATA
* * * **
35967611 TCCCAGATATGGTCTTACATGTTATCATATATCGATGCCTCTG
1 TCCCAGACATGGTCTTACACGTAATCATATATCGATGCCAATG
*
35967654 TCCCAGACAGGGTCTTACACG-AATCATATA-C-AGTGCCAATG
1 TCCCAGACATGGTCTTACACGTAATCATATATCGA-TGCCAATG
*
35967695 TCCCAGACATGGTCTTACACGTAATC-TCATATTGATGCCAATG
1 TCCCAGACATGGTCTTACACGTAATCAT-ATATCGATGCCAATG
*
35967738 TCCCAGACATGGTCTTACACGAAATCA
1 TCCCAGACATGGTCTTACACGTAATCA
35967765 CAACTCGAAA
Statistics
Matches: 96, Mismatches: 9, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
40 1 0.01
41 28 0.29
42 15 0.16
43 51 0.53
44 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGTAATCATATATCGATGCCAATG
Found at i:35968457 original size:68 final size:68
Alignment explanation
Indices: 35968109--35968457 Score: 518
Period size: 68 Copynumber: 5.1 Consensus size: 68
35968099 AAATCAATAG
* * * * * * * * *
35968109 ATTCGAACAGCTACATTTATTAAATAAAACAGCATAAATGGTAGTGCATTGAACAGTGAATTTAA
1 ATTCGGACAACTACATTTACTAAATAAAATAGCATAAATGATGGTGCTTTGATCAGTGAATCTAA
35968174 CAC
66 CAC
* * * * * *
35968177 ATTCAGACAACTATATTTACTAAATAAAATAGCATAAATGATAGTGCATTGAACAGTGAATTTAA
1 ATTCGGACAACTACATTTACTAAATAAAATAGCATAAATGATGGTGCTTTGATCAGTGAATCTAA
35968242 CAC
66 CAC
* * *
35968245 ATTCGGACAGCTACATTTACTAAATAAAACACCATAAATGATGGTGCTTTGATCAGTGAATCTAA
1 ATTCGGACAACTACATTTACTAAATAAAATAGCATAAATGATGGTGCTTTGATCAGTGAATCTAA
35968310 CAC
66 CAC
*
35968313 ATTCGGAAAACTACATTTACTAAATAAAATAGCATAAATGATGGTGCTTTGATCAGTGAATCTAA
1 ATTCGGACAACTACATTTACTAAATAAAATAGCATAAATGATGGTGCTTTGATCAGTGAATCTAA
35968378 CAC
66 CAC
*
35968381 ATTTGGACAACTACATTTACTAAATAAAATAGCATAAATGATGGTGCTTTGATCAGTGAATCTAA
1 ATTCGGACAACTACATTTACTAAATAAAATAGCATAAATGATGGTGCTTTGATCAGTGAATCTAA
35968446 CAC
66 CAC
35968449 ATTCGGACA
1 ATTCGGACA
35968458 GCTTAATTTT
Statistics
Matches: 258, Mismatches: 23, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
68 258 1.00
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.29
Consensus pattern (68 bp):
ATTCGGACAACTACATTTACTAAATAAAATAGCATAAATGATGGTGCTTTGATCAGTGAATCTAA
CAC
Found at i:35973168 original size:25 final size:26
Alignment explanation
Indices: 35973131--35973181 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
35973121 GTTGTAAATC
*
35973131 AGAAAAATATCTTTAGA-AATTTTCT
1 AGAAAAATATCTTAAGAGAATTTTCT
* *
35973156 AGAATAATCTCTTAAGAGAATTTTCT
1 AGAAAAATATCTTAAGAGAATTTTCT
35973182 CTCTACAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (26 bp):
AGAAAAATATCTTAAGAGAATTTTCT
Found at i:35981644 original size:21 final size:19
Alignment explanation
Indices: 35981618--35981659 Score: 66
Period size: 21 Copynumber: 2.1 Consensus size: 19
35981608 TTTCATAATT
35981618 TTTTTAAAAAATTAAAGAAAA
1 TTTTTAAAAAA-TAAA-AAAA
35981639 TTTTTAAAAAATAAAAAAA
1 TTTTTAAAAAATAAAAAAA
35981658 TT
1 TT
35981660 CTAAAATTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 6 0.29
20 4 0.19
21 11 0.52
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (19 bp):
TTTTTAAAAAATAAAAAAA
Found at i:35981647 original size:20 final size:20
Alignment explanation
Indices: 35981618--35981659 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
35981608 TTTCATAATT
*
35981618 TTTTTAAAAAATTAAAGAAAA
1 TTTTTAAAAAAATAAA-AAAA
35981639 TTTTT-AAAAAATAAAAAAA
1 TTTTTAAAAAAATAAAAAAA
35981658 TT
1 TT
35981660 CTAAAATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 9 0.45
21 5 0.25
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
TTTTTAAAAAAATAAAAAAA
Found at i:35981838 original size:25 final size:25
Alignment explanation
Indices: 35981810--35981860 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
35981800 TGACTTGACT
35981810 AGTTCAAAGCAAAT-AAATTATAAAA
1 AGTTCAAAG-AAATAAAATTATAAAA
**
35981835 AGTTCAAAGTTATAAAATTATAAAA
1 AGTTCAAAGAAATAAAATTATAAAA
35981860 A
1 A
35981861 TCAATTTAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 2 0.09
25 21 0.91
ACGTcount: A:0.59, C:0.06, G:0.08, T:0.27
Consensus pattern (25 bp):
AGTTCAAAGAAATAAAATTATAAAA
Found at i:35981944 original size:21 final size:19
Alignment explanation
Indices: 35981918--35981959 Score: 66
Period size: 21 Copynumber: 2.1 Consensus size: 19
35981908 TTTCATAATT
35981918 TTTTTAAAAAATTAAAGAAAA
1 TTTTTAAAAAA-TAAA-AAAA
35981939 TTTTTAAAAAATAAAAAAA
1 TTTTTAAAAAATAAAAAAA
35981958 TT
1 TT
35981960 CTAAAATTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 6 0.29
20 4 0.19
21 11 0.52
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (19 bp):
TTTTTAAAAAATAAAAAAA
Found at i:35981947 original size:20 final size:20
Alignment explanation
Indices: 35981918--35981959 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
35981908 TTTCATAATT
*
35981918 TTTTTAAAAAATTAAAGAAAA
1 TTTTTAAAAAAATAAA-AAAA
35981939 TTTTT-AAAAAATAAAAAAA
1 TTTTTAAAAAAATAAAAAAA
35981958 TT
1 TT
35981960 CTAAAATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 9 0.45
21 5 0.25
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
TTTTTAAAAAAATAAAAAAA
Found at i:35982135 original size:300 final size:301
Alignment explanation
Indices: 35981579--35982184 Score: 1196
Period size: 300 Copynumber: 2.0 Consensus size: 301
35981569 AAAATTTTTA
*
35981579 AAATTATAATTTTAAAAAATAAAAAATTATTTCATAATTTTTTTAAAAAATTAAAGAAAATTTTT
1 AAATGATAATTTTAAAAAATAAAAAATTATTTCATAATTTTTTTAAAAAATTAAAGAAAATTTTT
35981644 AAAAAATAAAAAAATTCTAAAATTCAATGTTATATAAATTAGATTAGACTAATTGGACCAGAAAT
66 AAAAAATAAAAAAATTCTAAAATTCAATGTTATATAAATTAGATTAGACTAATTGGACCAGAAAT
35981709 TGGTCGGGGTATCAAACCCAGTTAAAATATTGATTCAATTAGCAATTGAACCAATTTCGAACAGG
131 TGGTCGGGGTATCAAACCCAGTTAAAATATTGATTCAATTAGCAATTGAACCAATTTCGAACAGG
35981774 TTTGACCAATTGATTCCCAAAACGATTGACTTGACTAGTTCAAAGCAAATAAATTATAAAAAGTT
196 TTTGACCAATTGATTCCCAAAACGATTGACTTGACTAGTTCAAAGCAAATAAATTATAAAAAGTT
35981839 CAAAGTTATAAAATTATAAAAATCAATTTAACTATCAGTTC
261 CAAAGTTATAAAATTATAAAAATCAATTTAACTATCAGTTC
35981880 AAATGATAATTTT-AAAAATAAAAAATTATTTCATAATTTTTTTAAAAAATTAAAGAAAATTTTT
1 AAATGATAATTTTAAAAAATAAAAAATTATTTCATAATTTTTTTAAAAAATTAAAGAAAATTTTT
35981944 AAAAAATAAAAAAATTCTAAAATTCAATGTTATATAAATTAGATTAGACTAATTGGACCAGAAAT
66 AAAAAATAAAAAAATTCTAAAATTCAATGTTATATAAATTAGATTAGACTAATTGGACCAGAAAT
35982009 TGGTCGGGGTATCAAACCCAGTTAAAATATTGATTCAATTAGCAATTGAACCAATTTCGAACAGG
131 TGGTCGGGGTATCAAACCCAGTTAAAATATTGATTCAATTAGCAATTGAACCAATTTCGAACAGG
35982074 TTTGACCAATTGATTCCCAAAACGATTGACTTGACTAGTTCAAAGCAAATAAATTATAAAAAGTT
196 TTTGACCAATTGATTCCCAAAACGATTGACTTGACTAGTTCAAAGCAAATAAATTATAAAAAGTT
35982139 CAAAGTTATAAAATTATAAAAATCAATTTAACTATCAGTTC
261 CAAAGTTATAAAATTATAAAAATCAATTTAACTATCAGTTC
35982180 AAATG
1 AAATG
35982185 GAATTTTTAG
Statistics
Matches: 304, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
300 292 0.96
301 12 0.04
ACGTcount: A:0.47, C:0.11, G:0.10, T:0.33
Consensus pattern (301 bp):
AAATGATAATTTTAAAAAATAAAAAATTATTTCATAATTTTTTTAAAAAATTAAAGAAAATTTTT
AAAAAATAAAAAAATTCTAAAATTCAATGTTATATAAATTAGATTAGACTAATTGGACCAGAAAT
TGGTCGGGGTATCAAACCCAGTTAAAATATTGATTCAATTAGCAATTGAACCAATTTCGAACAGG
TTTGACCAATTGATTCCCAAAACGATTGACTTGACTAGTTCAAAGCAAATAAATTATAAAAAGTT
CAAAGTTATAAAATTATAAAAATCAATTTAACTATCAGTTC
Found at i:35982138 original size:25 final size:25
Alignment explanation
Indices: 35982110--35982160 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
35982100 TGACTTGACT
35982110 AGTTCAAAGCAAAT-AAATTATAAAA
1 AGTTCAAAG-AAATAAAATTATAAAA
**
35982135 AGTTCAAAGTTATAAAATTATAAAA
1 AGTTCAAAGAAATAAAATTATAAAA
35982160 A
1 A
35982161 TCAATTTAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 2 0.09
25 21 0.91
ACGTcount: A:0.59, C:0.06, G:0.08, T:0.27
Consensus pattern (25 bp):
AGTTCAAAGAAATAAAATTATAAAA
Found at i:35988625 original size:14 final size:16
Alignment explanation
Indices: 35988605--35988639 Score: 56
Period size: 14 Copynumber: 2.3 Consensus size: 16
35988595 TCCTAGTTGC
35988605 TGAAAAAT-AAAAGAG
1 TGAAAAATGAAAAGAG
35988620 -GAAAAATGAAAAGAG
1 TGAAAAATGAAAAGAG
35988635 TGAAA
1 TGAAA
35988640 CTTGAACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 7 0.39
15 7 0.39
16 4 0.22
ACGTcount: A:0.66, C:0.00, G:0.23, T:0.11
Consensus pattern (16 bp):
TGAAAAATGAAAAGAG
Found at i:35993277 original size:86 final size:85
Alignment explanation
Indices: 35993131--35993856 Score: 568
Period size: 89 Copynumber: 8.6 Consensus size: 85
35993121 ATTCAAAAAT
* * * *
35993131 AAATATTAAAATTAAATAAAATCTGTTTCAGGATTTCTCCCCGCCGTTCAACAGATTTTATTCTC
1 AAATATTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACAGAATTTATTC-C
* *
35993196 TATTTTGTTTTTATTTCCAAA
65 AATTTTGATTTTATTTCCAAA
* * * * * *
35993217 AAATATTAAAATTAAATAAAATCTATTTCGGGTTTTGTTCTCACCGTTTAACAGAA--T-TT---
1 AAATATTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACAGAATTTATTCCA
*
35993276 A-TTTGATTTTGTTT-C---
66 ATTTTGATTTTATTTCCAAA
*
35993291 -AA-ATTAAAAGTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAAC-GAATTTTATT-C
1 AAATATTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACAGAA-TTTATTCC
*
35993352 AATTTTTATTTTATTTCCAAA
65 AATTTTGATTTTATTTCCAAA
* *
35993373 AGGGAA-ATTAAAGTTAAATAAATTCTGTTTCGGGATTTATTCCCGCCGTTCAACA-AATTTTAT
1 A---AATATTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACAGAA-TTTAT
35993436 TCCAATTTTGATTTTATTTCCAAA
62 TCCAATTTTGATTTTATTTCCAAA
** * * * *
35993460 ACGAGCATTAAAATTAAAATAAAATCTGTTTTGGGATTTATTCCCACCGTTCAACGGATTTTATT
1 A--AATATTAAAATT-AAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACAGAATTTATT
* *
35993525 CCAATTTTAATTTTATATCCAAA
63 CCAATTTTGATTTTATTTCCAAA
* * * * *
35993548 AACGAGTATTAAAATTAAAATAAAACCTGTTTTGAGATTTATTCCCGCTGTTCAACAGATTTTAT
1 AA--A-TATTAAAATT-AAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACAGAATTTAT
*
35993613 TCCAATTTTGATTTTATTTCTAAAA
62 TCCAATTTTGATTTTATTTC-CAAA
* * * * *
35993638 ACAAGTATTAAAATTAAAATAAAATCTATTTTGGAATTTATTCCCGCCGTTTAATA-AGATCTTA
1 A-AA-TATTAAAATT-AAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACAGA-AT-TTA
** * *
35993702 TT-TGA-TTTGATTTTGTTTCCAATTT
61 TTCCAATTTTGATTTTATTTCCAA--A
* * * * * * * *
35993727 AGA-ATT-AAATTAAATTAAATCTGTTCCGGGATCTATTCCCGCCATTTAACAAGATTTTATT-T
1 AAATATTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAAC-AGAATTTATTCC
* *
35993789 GATTTTG-TTTTGTTTCCAAA
65 AATTTTGATTTTATTTCCAAA
* * * *
35993809 TTAGA-ATT-AAATTACATTAAATCTGTTTCGGGATTTATTCCCACCGTT
1 --AAATATTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTT
35993857 TAAAAAATTT
Statistics
Matches: 533, Mismatches: 73, Indels: 70
0.79 0.11 0.10
Matches are distributed among these distances:
71 3 0.01
72 41 0.08
73 2 0.00
74 1 0.00
75 2 0.00
77 2 0.00
78 22 0.04
79 2 0.00
83 2 0.00
84 93 0.17
85 11 0.02
86 110 0.21
87 32 0.06
88 79 0.15
89 121 0.23
90 9 0.02
91 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (85 bp):
AAATATTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACAGAATTTATTCCA
ATTTTGATTTTATTTCCAAA
Found at i:35993357 original size:72 final size:72
Alignment explanation
Indices: 35993221--35993357 Score: 177
Period size: 72 Copynumber: 1.9 Consensus size: 72
35993211 TCCAAAAAAT
* * * * * **
35993221 ATTAAAATTAAATAAAATCTATTTCGGGTTTTGTTCTCACCGTTTAACAGAATTTATTTGATTTT
1 ATTAAAAGTAAATAAAATCTATTTCGGGATTTATTCCCACCGTTCAACAGAATTTATTCAATTTT
35993286 GTTTCAA
66 GTTTCAA
* *
35993293 ATTAAAAGTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAAC-GAATTTTATTCAATTT
1 ATTAAAAGTAAATAAAATCTATTTCGGGATTTATTCCCACCGTTCAACAGAA-TTTATTCAATTT
35993357 T
65 T
35993358 TATTTTATTT
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
71 3 0.05
72 52 0.95
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (72 bp):
ATTAAAAGTAAATAAAATCTATTTCGGGATTTATTCCCACCGTTCAACAGAATTTATTCAATTTT
GTTTCAA
Found at i:35993435 original size:158 final size:160
Alignment explanation
Indices: 35993135--35993794 Score: 469
Period size: 158 Copynumber: 3.9 Consensus size: 160
35993125 AAAAATAAAT
* * * *
35993135 ATTAAAATTAAATAAAATCTGTTTCAGGATTTCTCCCCGCCGTTCAAC-AGATTTTATTCTCTAT
1 ATTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACGA-ATTTTA-T-TCAAT
* * * * *
35993199 TTTGT-TTTTATTTCCAAAA-AATATTAAAATTAAATAAAATCTATTTCGGGTTTTGTTCTCACC
63 TTT-TATTTTATTTCCAAAAGAA-ATTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCC
* *
35993262 GTTTAACAGAA-TTTATTTGATTTTGTTT-C-A-A-
126 GTTCAACA-AATTTTATTTGATTTTATTTCCAACAC
*
35993293 ATTAAAAGTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACGAATTTTATTCAATTTT
1 ATTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACGAATTTTATTCAATTTT
* *
35993358 TATTTTATTTCCAAAAGGGAAATTAAAGTTAAATAAATTCTGTTTCGGGATTTATTCCCGCCGTT
66 TATTTTATTTCCAAAA--GAAATTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTT
35993423 CAACAAATTTTATTCCAATTTTGATTTTATTTCCAAAACGAGC
129 CAACAAA--TT-TT---A-TTTGATTTTATTTCC--AAC-A-C
* * *
35993466 ATTAAAATTAAAATAAAATCTGTTTTGGGATTTATTCCCACCGTTCAACGGATTTTATTCCAATT
1 ATTAAAATT-AAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACGAATTTTATT-CAATT
* * * * * *
35993531 TTAATTTTATATCCAAAAACGAGTATTAAAATTAAAATAAAACCTGTTTTGAGATTTATTCCCGC
64 TTTATTTTATTTCC-AAAA-GA-AATTAAAATT-AAATAAAATCTGTTTCGGGATTTATTCCCGC
* * * *
35993596 TGTTCAACAGATTTTATTCCAATTTTGATTTTATTTCTAAAAACAAGT
125 CGTTCAACA-A-ATT-TT---A-TTTGATTTTATTTC---CAAC-A-C
* * * * ** * **
35993644 ATTAAAATTAAAATAAAATCTATTTTGGAATTTATTCCCGCCGTTTAATAAGATCTTATTTGA-T
1 ATTAAAATT-AAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACGA-ATTTTATTCAATT
* * * * * * *
35993708 TTGATTTTGTTTCCAATTTAG-AATT-AAATTAAATTAAATCTGTTCCGGGATCTATTCCCGCCA
64 TTTATTTTATTTCCAA--AAGAAATTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCG
*
35993771 TTTAACAAGATTTTATTTGATTTT
127 TTCAACAA-ATTTTATTTGATTTT
35993795 GTTTTGTTTC
Statistics
Matches: 410, Mismatches: 58, Indels: 59
0.78 0.11 0.11
Matches are distributed among these distances:
155 1 0.00
156 21 0.05
157 3 0.01
158 91 0.22
159 3 0.01
160 1 0.00
161 2 0.00
164 1 0.00
165 12 0.03
166 1 0.00
167 9 0.02
168 1 0.00
169 1 0.00
171 3 0.01
172 3 0.01
173 39 0.10
174 51 0.12
175 22 0.05
176 14 0.03
177 72 0.18
178 52 0.13
179 7 0.02
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.42
Consensus pattern (160 bp):
ATTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACGAATTTTATTCAATTTT
TATTTTATTTCCAAAAGAAATTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCA
ACAAATTTTATTTGATTTTATTTCCAACAC
Found at i:35993511 original size:88 final size:86
Alignment explanation
Indices: 35993292--35993870 Score: 569
Period size: 89 Copynumber: 6.7 Consensus size: 86
35993282 TTTTGTTTCA
* *
35993292 AATTAAAAGTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACGAATTTTATTCAATTT
1 AATTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACAAATTTTATTCAATTT
* *
35993357 TTATTTTATTTCCAAAA-GGG
66 TGATTTTATTTCCAAAACGAG
* *
35993377 AAATTAAAGTTAAATAAATTCTGTTTCGGGATTTATTCCCGCCGTTCAACAAATTTTATTCCAAT
1 -AATTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACAAATTTTATT-CAAT
35993442 TTTGATTTTATTTCCAAAACGAG
64 TTTGATTTTATTTCCAAAACGAG
* * * **
35993465 CATTAAAATTAAAATAAAATCTGTTTTGGGATTTATTCCCACCGTTCAACGGATTTTATTCCAAT
1 AATTAAAATT-AAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACAAATTTTATT-CAAT
* *
35993530 TTTAATTTTATATCCAAAAACGAG
64 TTTGATTTTATTTCC-AAAACGAG
* * * * * *
35993554 TATTAAAATTAAAATAAAACCTGTTTTGAGATTTATTCCCGCTGTTCAACAGATTTTATTCCAAT
1 AATTAAAATT-AAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACAAATTTTATT-CAAT
* *
35993619 TTTGATTTTATTTCTAAAAACAAG
64 TTTGATTTTATTTC-CAAAACGAG
* * * * * * * **
35993643 TATTAAAATTAAAATAAAATCTATTTTGGAATTTATTCCCGCCGTTTAATAAGATCTTATTTGA-
1 AATTAAAATT-AAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACAA-ATTTTATTCAAT
* ***
35993707 TTTGATTTTGTTTCC-AATTTAG
64 TTTGATTTTATTTCCAAAACGAG
* * * * * **
35993729 AATT-AAATTAAATTAAATCTGTTCCGGGATCTATTCCCGCCATTTAACAAGATTTTATTTGATT
1 AATTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACAA-ATTTTATTCAATT
* **
35993793 TTG-TTTTGTTTCC-AAATTAG
65 TTGATTTTATTTCCAAAACGAG
* * * * *
35993813 AATT-AAATTACATTAAATCTGTTTCGGGATTTATTCCCACCGTTTAAAAAATTTTATT
1 AATTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACAAATTTTATT
35993871 TTGATTTAAT
Statistics
Matches: 428, Mismatches: 58, Indels: 17
0.85 0.12 0.03
Matches are distributed among these distances:
83 8 0.02
84 104 0.24
85 9 0.02
86 62 0.14
87 30 0.07
88 77 0.18
89 131 0.31
90 7 0.02
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.42
Consensus pattern (86 bp):
AATTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACAAATTTTATTCAATTT
TGATTTTATTTCCAAAACGAG
Found at i:35993624 original size:177 final size:175
Alignment explanation
Indices: 35993293--35993688 Score: 562
Period size: 177 Copynumber: 2.3 Consensus size: 175
35993283 TTTGTTTCAA
* *
35993293 ATTAAAAGT-AAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACGAATTTTATTCAATTT
1 ATTAAAATTAAAATAAAATCTGTTTTGGGATTTATTCCCGCCGTTCAACGAATTTTATTCAATTT
* * ** * ** *
35993357 TTATTTTATTTCCAAAAGGGAAATTAAAGTTAAATAAATTCTGTTTCGGGATTTATTCCCGCCGT
66 TAATTTTATATCCAAAAACGAAATTAAAATTAAATAAAACCTGTTTCGAGATTTATTCCCGCCGT
* *
35993422 TCAACAAATTTTATTCCAATTTTGATTTTATTTC-CAAAACGAGC
131 TCAACAAATTTTATTCCAATTTTGATTTTATTTCTAAAAACAAGC
* *
35993466 ATTAAAATTAAAATAAAATCTGTTTTGGGATTTATTCCCACCGTTCAACGGATTTTATTCCAATT
1 ATTAAAATTAAAATAAAATCTGTTTTGGGATTTATTCCCGCCGTTCAACGAATTTTATT-CAATT
* *
35993531 TTAATTTTATATCCAAAAACGAGTATTAAAATTAAAATAAAACCTGTTTTGAGATTTATTCCCGC
65 TTAATTTTATATCCAAAAACGA-AATTAAAATT-AAATAAAACCTGTTTCGAGATTTATTCCCGC
* * *
35993596 TGTTCAACAGATTTTATTCCAATTTTGATTTTATTTCTAAAAACAAGT
128 CGTTCAACAAATTTTATTCCAATTTTGATTTTATTTCTAAAAACAAGC
* *
35993644 ATTAAAATTAAAATAAAATCTATTTTGGAATTTATTCCCGCCGTT
1 ATTAAAATTAAAATAAAATCTGTTTTGGGATTTATTCCCGCCGTT
35993689 TAATAAGATC
Statistics
Matches: 196, Mismatches: 22, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
173 8 0.04
174 46 0.23
175 23 0.12
176 8 0.04
177 62 0.32
178 49 0.25
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.40
Consensus pattern (175 bp):
ATTAAAATTAAAATAAAATCTGTTTTGGGATTTATTCCCGCCGTTCAACGAATTTTATTCAATTT
TAATTTTATATCCAAAAACGAAATTAAAATTAAATAAAACCTGTTTCGAGATTTATTCCCGCCGT
TCAACAAATTTTATTCCAATTTTGATTTTATTTCTAAAAACAAGC
Found at i:35993766 original size:84 final size:82
Alignment explanation
Indices: 35993676--35993877 Score: 287
Period size: 84 Copynumber: 2.4 Consensus size: 82
35993666 TTTTGGAATT
* *
35993676 TATTCCCGCCGTTTAATAAGATCTTATTTGATTTGATTTTGTTTCCAATTTAGAATTAAATTAAA
1 TATTCCCGCCGTTTAA-AAGATTTTATTTGATTTG-TTTTGTTTCCAAATTAGAATTAAATTAAA
35993741 TTAAATCTGTTCCGGGATC
64 TTAAATCTGTTCCGGGATC
* *
35993760 TATTCCCGCCATTTAACAAGATTTTATTTGATTTTGTTTTGTTTCCAAATTAGAATTAAATTACA
1 TATTCCCGCCGTTTAA-AAGATTTTATTTGA-TTTGTTTTGTTTCCAAATTAGAATTAAATTAAA
* *
35993825 TTAAATCTGTTTCGGGATT
64 TTAAATCTGTTCCGGGATC
* *
35993844 TATTCCCACCGTTTAAAAAATTTTATTTTGATTT
1 TATTCCCGCCGTTTAAAAGATTTTA-TTTGATTT
35993878 AATTACATAA
Statistics
Matches: 106, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
83 11 0.10
84 91 0.86
85 4 0.04
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (82 bp):
TATTCCCGCCGTTTAAAAGATTTTATTTGATTTGTTTTGTTTCCAAATTAGAATTAAATTAAATT
AAATCTGTTCCGGGATC
Found at i:36006463 original size:52 final size:52
Alignment explanation
Indices: 36006385--36006488 Score: 165
Period size: 52 Copynumber: 2.0 Consensus size: 52
36006375 TTATCTTTAG
36006385 CTATAGTTTAATTTCTGGAATAAATAGTTAATACTGTTTTAGTTAAATTAAT
1 CTATAGTTTAATTTCTGGAATAAATAGTTAATACTGTTTTAGTTAAATTAAT
* * *
36006437 CTATAGTTTTATTGT-TGGAATAAATAGTTAATTCTGTTTTTGTTAAATTAAT
1 CTATAGTTTAATT-TCTGGAATAAATAGTTAATACTGTTTTAGTTAAATTAAT
36006489 TTAATTATGT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
52 47 0.98
53 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.12, T:0.49
Consensus pattern (52 bp):
CTATAGTTTAATTTCTGGAATAAATAGTTAATACTGTTTTAGTTAAATTAAT
Found at i:36007920 original size:15 final size:16
Alignment explanation
Indices: 36007894--36007937 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
36007884 TATACTTTCA
36007894 GAATTAAAAAAAATTC
1 GAATTAAAAAAAATTC
36007910 GAATT-AAAAAAATTC
1 GAATTAAAAAAAATTC
36007925 G--TGTAAAAAAAAT
1 GAAT-TAAAAAAAAT
36007938 ATGTTCATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 1 0.04
14 1 0.04
15 19 0.73
16 5 0.19
ACGTcount: A:0.61, C:0.05, G:0.09, T:0.25
Consensus pattern (16 bp):
GAATTAAAAAAAATTC
Found at i:36008521 original size:21 final size:21
Alignment explanation
Indices: 36008495--36008549 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
36008485 AACAAAGTCG
**
36008495 TCAAGGATTCCATCATCATTT
1 TCAAGGATTCCATCATCATCA
* *
36008516 TCAAGGAGTCCATCGTCATCA
1 TCAAGGATTCCATCATCATCA
*
36008537 TCAACGATTCCAT
1 TCAAGGATTCCAT
36008550 TGTCCTCGTC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (21 bp):
TCAAGGATTCCATCATCATCA
Found at i:36009130 original size:18 final size:18
Alignment explanation
Indices: 36009077--36009135 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
36009067 AATGATTGTT
36009077 GAAAAAGAAATG-GTG--
1 GAAAAAGAAATGAGTGAA
*
36009092 GAAAAAGAAA-GAGAGATA
1 GAAAAAGAAATGAGTGA-A
36009110 GAAAAAGAAATGAGTGAA
1 GAAAAAGAAATGAGTGAA
*
36009128 GAACAAGA
1 GAAAAAGA
36009136 GAGCGTTCGA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
14 1 0.03
15 12 0.33
18 18 0.50
19 5 0.14
ACGTcount: A:0.61, C:0.02, G:0.29, T:0.08
Consensus pattern (18 bp):
GAAAAAGAAATGAGTGAA
Found at i:36011725 original size:27 final size:27
Alignment explanation
Indices: 36011695--36011972 Score: 221
Period size: 27 Copynumber: 10.3 Consensus size: 27
36011685 GTATTGGGCC
*
36011695 TAAAATGATCGAATTACCCCTGAAGGG
1 TAAAATGATCGAAATACCCCTGAAGGG
* *
36011722 TAAAATGACCGAACTACCTCC-GAAGGG
1 TAAAATGATCGAAATACC-CCTGAAGGG
*
36011749 TAAAATGATCGAAATACCCCCGAAGGG
1 TAAAATGATCGAAATACCCCTGAAGGG
*
36011776 TAAAATGA-CTGAAATA-CCCTCGAAAGG
1 TAAAATGATC-GAAATACCCCT-GAAGGG
* * * *
36011803 TAAAAAGACCGAAATA-CCCTCGAAAGA
1 TAAAATGATCGAAATACCCCT-GAAGGG
** *
36011830 TAAAATGATCGAAATACCCCCAAAAGG
1 TAAAATGATCGAAATACCCCTGAAGGG
* * * *
36011857 TAAAATGA-CTGAATTACCCTTGAATGA
1 TAAAATGATC-GAAATACCCCTGAAGGG
* * *
36011884 TAAAATGATCGAATTACCCCCGAAGGA
1 TAAAATGATCGAAATACCCCTGAAGGG
* * * * *
36011911 TAAAATGACCAAAATA-TCCTCAAATGG
1 TAAAATGATCGAAATACCCCT-GAAGGG
36011938 TAAAATGA-CTGAAATACCCC-GAAGGG
1 TAAAATGATC-GAAATACCCCTGAAGGG
36011964 TAAAATGAT
1 TAAAATGAT
36011973 TGTTATACCC
Statistics
Matches: 205, Mismatches: 34, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
26 22 0.11
27 174 0.85
28 9 0.04
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.19
Consensus pattern (27 bp):
TAAAATGATCGAAATACCCCTGAAGGG
Found at i:36011777 original size:54 final size:53
Alignment explanation
Indices: 36011695--36011972 Score: 263
Period size: 54 Copynumber: 5.2 Consensus size: 53
36011685 GTATTGGGCC
* *
36011695 TAAAATGATCGAATTACCC-CTGAAGGGTAAAATGACCGAACTACCTCCGAAGGG
1 TAAAATGATCGAAATACCCTC-GAAGGGTAAAATGACCGAAATACC-CCGAAGGG
* * *
36011749 TAAAATGATCGAAATACCCCCGAAGGGTAAAATGACTGAAATACCCTCGAAAGG
1 TAAAATGATCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCC-CGAAGGG
* * * * * * *
36011803 TAAAAAGACCGAAATACCCTCGAAAGATAAAATGATCGAAATACCCCCAAAAGG
1 TAAAATGATCGAAATACCCTCGAAGGGTAAAATGACCGAAATA-CCCCGAAGGG
* * * * * * *
36011857 TAAAATGA-CTGAATTACCCTTGAATGATAAAATGATCGAATTACCCCCGAAGGA
1 TAAAATGATC-GAAATACCCTCGAAGGGTAAAATGACCGAAATA-CCCCGAAGGG
* * * * * *
36011911 TAAAATGACCAAAATATCCTCAAATGGTAAAATGACTGAAATACCCCGAAGGG
1 TAAAATGATCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCGAAGGG
36011964 TAAAATGAT
1 TAAAATGAT
36011973 TGTTATACCC
Statistics
Matches: 188, Mismatches: 31, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
53 19 0.10
54 164 0.87
55 5 0.03
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.19
Consensus pattern (53 bp):
TAAAATGATCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCGAAGGG
Found at i:36011834 original size:81 final size:80
Alignment explanation
Indices: 36011695--36011971 Score: 315
Period size: 81 Copynumber: 3.4 Consensus size: 80
36011685 GTATTGGGCC
* * *
36011695 TAAAATGA-TCGAATTACCCCTGAAGGGTAAAATGACCGAACTA-CCTCCGAAGGGTAAAATGAT
1 TAAAATGACT-GAAATACCCC-GAAGGGTAAAATGACCGAAATACCCT-CGAAGGATAAAATGAT
* *
36011758 CGAAATACCCCCGAAGGG
63 CGAAATACCCCCAAAAGG
* * *
36011776 TAAAATGACTGAAATACCCTCGAAAGGTAAAAAGACCGAAATACCCTCGAAAGATAAAATGATCG
1 TAAAATGACTGAAATACCC-CGAAGGGTAAAATGACCGAAATACCCTCGAAGGATAAAATGATCG
36011841 AAATACCCCCAAAAGG
65 AAATACCCCCAAAAGG
* * * * * * * * *
36011857 TAAAATGACTGAATTACCCTTGAATGATAAAATGATCGAATTACCCCCGAAGGATAAAATGACCA
1 TAAAATGACTGAAATACCC-CGAAGGGTAAAATGACCGAAATACCCTCGAAGGATAAAATGATCG
* * *
36011922 AAATATCCTCAAATGG
65 AAATACCCCCAAAAGG
36011938 TAAAATGACTGAAATACCCCGAAGGGTAAAATGA
1 TAAAATGACTGAAATACCCCGAAGGGTAAAATGA
36011972 TTGTTATACC
Statistics
Matches: 167, Mismatches: 26, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
80 12 0.07
81 150 0.90
82 5 0.03
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.18
Consensus pattern (80 bp):
TAAAATGACTGAAATACCCCGAAGGGTAAAATGACCGAAATACCCTCGAAGGATAAAATGATCGA
AATACCCCCAAAAGG
Found at i:36012176 original size:26 final size:26
Alignment explanation
Indices: 36012147--36012223 Score: 109
Period size: 26 Copynumber: 3.0 Consensus size: 26
36012137 TTGCTACATA
*
36012147 TACTGTTACCGGCAGCTTTGTTGCGT
1 TACTGTTACTGGCAGCTTTGTTGCGT
*
36012173 TACTGTTACTGGCAGCTTTGTTGCAT
1 TACTGTTACTGGCAGCTTTGTTGCGT
* * *
36012199 CACTATTACTGGCAGCTTTGCTGCG
1 TACTGTTACTGGCAGCTTTGTTGCG
36012224 ATATTGGTGT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.14, C:0.23, G:0.25, T:0.38
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTGTTGCGT
Found at i:36013400 original size:4 final size:4
Alignment explanation
Indices: 36013379--36013418 Score: 53
Period size: 4 Copynumber: 9.5 Consensus size: 4
36013369 GAAGATAAGG
*
36013379 AAGA AGAGA GAGA GAAGA AAGA AAGA AAGA AAGA AAGA AA
1 AAGA A-AGA AAGA -AAGA AAGA AAGA AAGA AAGA AAGA AA
36013419 AGATATTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 26 0.81
5 6 0.19
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:36017454 original size:48 final size:48
Alignment explanation
Indices: 36017399--36017596 Score: 256
Period size: 48 Copynumber: 4.1 Consensus size: 48
36017389 TCCAAGGTAC
* * *
36017399 CTAATTTATATTACAAAGTATGTTTCTTGTTTTAATGTTGCAATATAT
1 CTAATTTATATTACAAAGTTTGTTTCTCGTTTTAATGTTGCAATGTAT
* *
36017447 CTAATTTATATTACAAAGTTTG-TTCATCGTTTAAATGTTGTAATGTAT
1 CTAATTTATATTACAAAGTTTGTTTC-TCGTTTTAATGTTGCAATGTAT
* *
36017495 CTAATTTATATTACAAAGTTTGTTCCTCGTTTTAATGTTGTAATGTAT
1 CTAATTTATATTACAAAGTTTGTTTCTCGTTTTAATGTTGCAATGTAT
* * ** *
36017543 CTAATTTATGTTACAAAGTTTATTTCAAGTTTTAATGTTACAAT-TAAT
1 CTAATTTATATTACAAAGTTTGTTTCTCGTTTTAATGTTGCAATGT-AT
36017591 CTAATT
1 CTAATT
36017597 AAACAAATAC
Statistics
Matches: 133, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
47 4 0.03
48 127 0.95
49 2 0.02
ACGTcount: A:0.31, C:0.09, G:0.11, T:0.49
Consensus pattern (48 bp):
CTAATTTATATTACAAAGTTTGTTTCTCGTTTTAATGTTGCAATGTAT
Found at i:36019685 original size:12 final size:12
Alignment explanation
Indices: 36019668--36019692 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36019658 CTAAATGTGA
36019668 TACAATAAATTT
1 TACAATAAATTT
36019680 TACAATAAATTT
1 TACAATAAATTT
36019692 T
1 T
36019693 CATTACAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TACAATAAATTT
Found at i:36020315 original size:31 final size:31
Alignment explanation
Indices: 36020255--36020333 Score: 92
Period size: 31 Copynumber: 2.5 Consensus size: 31
36020245 TCCTTCTAAC
*
36020255 CCCAAATACAACCTCTTAATTTTTTTCAAA-
1 CCCAAACACAACCTCTTAATTTTTTTCAAAT
*
36020285 CACTAAACACAACC-C-TAATTCTTTTCTCAAAT
1 C-CCAAACACAACCTCTTAATT-TTTT-TCAAAT
36020317 CCCAAACACAACCTCTT
1 CCCAAACACAACCTCTT
36020334 CTCCTTCCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
29 5 0.12
30 6 0.15
31 26 0.65
32 2 0.05
33 1 0.03
ACGTcount: A:0.37, C:0.33, G:0.00, T:0.30
Consensus pattern (31 bp):
CCCAAACACAACCTCTTAATTTTTTTCAAAT
Found at i:36020349 original size:12 final size:13
Alignment explanation
Indices: 36020332--36020360 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
36020322 ACACAACCTC
36020332 TTCTCC-TTCCTT
1 TTCTCCTTTCCTT
36020344 TTCTCCTTTCCTT
1 TTCTCCTTTCCTT
36020357 TTCT
1 TTCT
36020361 TCTCTTCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (13 bp):
TTCTCCTTTCCTT
Found at i:36023405 original size:6 final size:6
Alignment explanation
Indices: 36023396--36023434 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
36023386 GAGAGAGACT
36023396 AGGCAC AGGCAC AGGCAC AGGCAC AGGCAC AGGCAC AGG
1 AGGCAC AGGCAC AGGCAC AGGCAC AGGCAC AGGCAC AGG
36023435 AACTATAGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.33, C:0.31, G:0.36, T:0.00
Consensus pattern (6 bp):
AGGCAC
Found at i:36027211 original size:29 final size:27
Alignment explanation
Indices: 36027174--36027241 Score: 64
Period size: 29 Copynumber: 2.4 Consensus size: 27
36027164 TAAATCTTAA
* *
36027174 AATTATATATGAACTTTAGTTTAATATGT
1 AATTTTATATGAACTTTAATTT--TATGT
*
36027203 AATTTTATACATGAATTTTAATTTTATGT
1 AATTTTAT--ATGAACTTTAATTTTATGT
*
36027232 AAATTTATAT
1 AATTTTATAT
36027242 ATATGAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
27 2 0.06
29 19 0.58
31 12 0.36
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.51
Consensus pattern (27 bp):
AATTTTATATGAACTTTAATTTTATGT
Found at i:36027251 original size:31 final size:30
Alignment explanation
Indices: 36027176--36027258 Score: 96
Period size: 31 Copynumber: 2.7 Consensus size: 30
36027166 AATCTTAAAA
* *
36027176 TTATATATGAACTTTAGTTTAATATGTAATT
1 TTATATATGAATTTTAATTT-ATATGTAATT
*
36027207 TTATACATGAATTTTAATTT-TATGTAAATT
1 TTATATATGAATTTTAATTTATATGT-AATT
36027237 TATATATATGAATTTTTAATTT
1 T-TATATATGAA-TTTTAATTT
36027259 GATTCAATTC
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
29 5 0.11
30 5 0.11
31 26 0.58
32 9 0.20
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.54
Consensus pattern (30 bp):
TTATATATGAATTTTAATTTATATGTAATT
Found at i:36030841 original size:21 final size:21
Alignment explanation
Indices: 36030817--36030878 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
36030807 ATAAACATTC
*
36030817 TATTACTTTAATAAGATTTAA
1 TATTAATTTAATAAGATTTAA
* *
36030838 TATTAAATTAATATA-ATATTTA
1 TATTAATTTAATA-AGAT-TTAA
36030860 TATTAAATTTAATAAGATT
1 TATT-AATTTAATAAGATT
36030879 AGATTTAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
21 13 0.39
22 10 0.30
23 10 0.30
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (21 bp):
TATTAATTTAATAAGATTTAA
Found at i:36030886 original size:21 final size:21
Alignment explanation
Indices: 36030823--36030879 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
36030813 ATTCTATTAC
36030823 TTTAATAAGATTTAATATTAAA
1 TTTAATAAGA-TTAATATTAAA
* * *
36030845 TTAATATAATATTTATATTAAA
1 TTTA-ATAAGATTAATATTAAA
36030867 TTTAATAAGATTA
1 TTTAATAAGATTA
36030880 GATTTAATAT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
21 7 0.25
22 16 0.57
23 5 0.18
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (21 bp):
TTTAATAAGATTAATATTAAA
Found at i:36030893 original size:27 final size:25
Alignment explanation
Indices: 36030825--36030893 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 25
36030815 TCTATTACTT
36030825 TAATAAGATTTAATATTAAATTAATA
1 TAAT-AGATTTAATATTAAATTAATA
36030851 TAAT--ATTT-ATATTAAATTTAATA
1 TAATAGATTTAATATTAAA-TTAATA
36030874 -AGATTAGATTTAATATTAAA
1 TA-A-TAGATTTAATATTAAA
36030894 GTGATTAAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
22 9 0.24
23 11 0.30
24 1 0.03
26 8 0.22
27 8 0.22
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (25 bp):
TAATAGATTTAATATTAAATTAATA
Found at i:36031035 original size:25 final size:25
Alignment explanation
Indices: 36030998--36031047 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
36030988 AGTTGTAGAG
36030998 AAAAAATTCTCTAAAGAGAT-TTTTTC
1 AAAAAATTCTCT--AGAGATCTTTTTC
36031024 AAAAAATT-TCTAGAGATCTTTTTC
1 AAAAAATTCTCTAGAGATCTTTTTC
36031048 TAATTTACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 6 0.26
24 6 0.26
25 3 0.13
26 8 0.35
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (25 bp):
AAAAAATTCTCTAGAGATCTTTTTC
Found at i:36031477 original size:18 final size:18
Alignment explanation
Indices: 36031454--36031493 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
36031444 TATAAGAGAA
36031454 AAAAGAGAAATCAAAGAG
1 AAAAGAGAAATCAAAGAG
*
36031472 AAAAGAGAAATCAGAGAG
1 AAAAGAGAAATCAAAGAG
36031490 AAAA
1 AAAA
36031494 TGATGTAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.68, C:0.05, G:0.23, T:0.05
Consensus pattern (18 bp):
AAAAGAGAAATCAAAGAG
Done.