Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 68 of 240
Found at i:21991948 original size:19 final size:19
Alignment explanation
Indices: 21991902--21991950 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
21991892 AACAGCTTCA
*
21991902 AAATATTAAACAGAAGAAG
1 AAATATAAAACAGAAGAAG
* *
21991921 AACTAATAAAACAGAAGAAT
1 AAAT-ATAAAACAGAAGAAG
21991941 AAATATAAAA
1 AAATATAAAA
21991951 GAAACTCTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.67, C:0.06, G:0.10, T:0.16
Consensus pattern (19 bp):
AAATATAAAACAGAAGAAG
Found at i:21996903 original size:56 final size:56
Alignment explanation
Indices: 21996837--21996961 Score: 171
Period size: 56 Copynumber: 2.2 Consensus size: 56
21996827 TATGTAAAAC
* * ** * *
21996837 TATGTAAAATTATTAAGCCCGATAACTTTTGTTAATGGTTAGTAA-ATTTTTCAAAT
1 TATGTAAAATTATTAAGCCCAAAAAAGTGTGTTAATGGTTAGTAAGA-TTATCAAAT
21996893 TATGTAAAATTATTAAGCCCAAAAAAGTGTGTTAATGGTTAGTAAGATTATCAAAT
1 TATGTAAAATTATTAAGCCCAAAAAAGTGTGTTAATGGTTAGTAAGATTATCAAAT
*
21996949 TAGGTAAAATTAT
1 TATGTAAAATTAT
21996962 GTTATGGTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
56 60 0.98
57 1 0.02
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.38
Consensus pattern (56 bp):
TATGTAAAATTATTAAGCCCAAAAAAGTGTGTTAATGGTTAGTAAGATTATCAAAT
Found at i:21996981 original size:23 final size:23
Alignment explanation
Indices: 21996955--21997016 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
21996945 AAATTAGGTA
* *
21996955 AAATTATGTTATGGTTTTTAAAT
1 AAATTAGGTTAGGGTTTTTAAAT
*
21996978 AAATTAGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTTTTAAAT
*
21997001 AAATTAGGGTAGGGTT
1 AAATTAGGTTAGGGTT
21997017 AAGGTTTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.23, T:0.45
Consensus pattern (23 bp):
AAATTAGGTTAGGGTTTTTAAAT
Found at i:21997022 original size:29 final size:29
Alignment explanation
Indices: 21996984--21998430 Score: 1983
Period size: 29 Copynumber: 51.4 Consensus size: 29
21996974 AAATAAATTA
*
21996984 GGTTAGGGTTTTTAATTAAATTAGGGTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
21997013 GGTTAAGGTTTTTAATTAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
21997042 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* * *
21997071 GGTTAGAGTTTTTAAATAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
21997100 GGTTAAGGTTTTTAATTAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
21997129 GGTTAGGG-TTTCAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
21997157 GGTTAGGG-------TTAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
21997179 GGTTAGGGTTTTTAATTAAATTAGGGTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
21997208 GGTTAGGGTTTTTAATTAAATTAGGGTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
21997237 GGTTAGGGTTTTTAATTAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
21997266 GGTTAGGG-TTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
**** * *
21997294 GGTTAGGG-TTAGGGTTAAATTAGGCTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
21997322 GGTTAGGGTTTTTAATTAAATTAGGGTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
21997351 GGTTAGGGTTTTTAATTAAATTAGGATAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* * * *
21997380 AGTTAGGGTTTTAAATTAAAGTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
21997409 GGTTAGGG-TTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
21997437 GGTTAGGG-------TTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
21997459 GGTTAGGGTTTTTAAATAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
21997488 GGTTAGGGTTTTTAATTAAATTAGGGTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
21997517 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
21997546 GGTTAGGGTTTTTAAATAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
21997575 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
21997604 GGTTAGGG-TTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
21997632 GGTTAGGG-------TTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* * *
21997654 GGTTAGAGTTTTTAATTAAATTAGGGTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
21997683 GGTTAGGGTTTTTAATTAAATTAGGATAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
21997712 GGTTAGGGCTTTTAATTAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
21997741 GGTTAGGG-TTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
21997769 GGTTAGGG-------TTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
21997791 GGTTAGGGTTTTTAAATAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
21997820 GGTTAGGGTTTTTAATTAAATTAGGGTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
21997849 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
21997878 GGTTAGGATTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
21997907 GGTTAGGGTTTTTAAATAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
21997936 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
21997965 GGTTAGGGTTTTTAATT-AA--A--TTA-
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
21997988 GGTTAGGGTTTTTAATTAAATTAGGGTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
21998017 GATTAGGGTTTTTAATTAAATTAGGGTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
21998046 GGTTAGGGTTTTTAATTAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
21998075 GGTTAGGG-TTTTAATTAAATTAAGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* ****
21998103 GGTTAAGG-TTAGGGTTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
21998131 GGTTAGGGTTTTTAAATAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
21998160 GGTTAGGGTTTTTAATTAAATTAGGGTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
21998189 GGTTAGGG-TTTTAATTAAATTAGGGTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
21998217 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
21998246 GGTTAGGGTTTTTAATTAAATTAGATTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
21998275 GGTTAGGGGTTTTAAATAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
21998304 GGTTAGGGTTTTTAATTAAATTAGAG-TAG
1 GGTTAGGGTTTTTAATTAAATTAG-GTTAG
*
21998333 GGTTAGGGTTTTTAATTAAATTAGGGTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
21998362 GGTTAGGGTTTTTAAATAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
21998391 GGTTAGGGTTTTTAAATAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
21998420 GGTTAGGGTTT
1 GGTTAGGGTTT
21998431 GGGTTTGAAA
Statistics
Matches: 1270, Mismatches: 109, Indels: 78
0.87 0.07 0.05
Matches are distributed among these distances:
22 86 0.07
23 17 0.01
24 5 0.00
26 2 0.00
28 235 0.19
29 924 0.73
30 1 0.00
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (29 bp):
GGTTAGGGTTTTTAATTAAATTAGGTTAG
Found at i:21997168 original size:22 final size:22
Alignment explanation
Indices: 21997115--21997188 Score: 85
Period size: 22 Copynumber: 3.1 Consensus size: 22
21997105 AGGTTTTTAA
21997115 TTAAATTAGGTTAAGGTTAGGG
1 TTAAATTAGGTTAAGGTTAGGG
*
21997137 TTTCAATTAAATTAGGTTAGGGTTAGGG
1 ------TTAAATTAGGTTAAGGTTAGGG
21997165 TTAAATTAGGTTAAGGTTAGGG
1 TTAAATTAGGTTAAGGTTAGGG
21997187 TT
1 TT
21997189 TTTAATTAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
22 23 0.52
28 21 0.48
ACGTcount: A:0.30, C:0.01, G:0.30, T:0.39
Consensus pattern (22 bp):
TTAAATTAGGTTAAGGTTAGGG
Found at i:21997190 original size:137 final size:139
Alignment explanation
Indices: 21996983--21998430 Score: 1812
Period size: 137 Copynumber: 10.3 Consensus size: 139
21996973 TAAATAAATT
* *
21996983 AGGTTAGGGTTTTTAATTAAATTAGGGTAGGGTTAAGGTTTTTAATTAAATTAGGTTAAGGTTAG
1 AGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTT-AGG---GT--TTAAATTAGGTTAAGGTTAG
* * * *
21997048 GGTTTTTAATTAAATTAGGTTAGGGTTAGAGTTTTTAAATAAATTAGGTTAAGGTTAAGGTTTTT
60 GGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTT
21997113 AATTAAATTAGGTTA
125 AATTAAATTAGGTTA
*
21997128 AGGTTAGGG-TTTCAATTAAATTAGGTTAGGGTTAGGG-TTAAATTAGGTTAAGGTTAGGGTTTT
1 AGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTAAATTAGGTTAAGGTTAGGGTTTT
* * *
21997191 TAATTAAATTAGGGTAAGGTTAGGGTTTTTAATTAAATTAGGGTAGGGTTAGGGTTTTTAATTAA
66 TAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
21997256 ATTAGGTTA
131 ATTAGGTTA
*
21997265 AGGTTAGGG-TTTTAATTAAATTAGGTTAGGGTTAGGGTTAGGGTTAAATTAGGCTAAGGTTAGG
1 AGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGG-T----TTAAATTAGGTTAAGGTTAGG
* * * * *
21997329 GTTTTTAATTAAATTAGGGTAAGGTTAGGGTTTTTAATTAAATTAGGATAGAGTTAGGGTTTTAA
61 GTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTA
*
21997394 ATTAAAGTAGGTTA
126 ATTAAATTAGGTTA
*
21997408 AGGTTAGGG-TTTTAATTAAATTAGGTTAGGGTTAGGG-TTAAATTAGGTTAGGGTTAGGGTTTT
1 AGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTAAATTAGGTTAAGGTTAGGGTTTT
* * *
21997471 TAAATAAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGGTAGGGTTAGGGTTTTTAATTAA
66 TAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
21997536 ATTAGGTTA
131 ATTAGGTTA
* * * *
21997545 GGGTTAGGGTTTTTAAATAAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG
1 AGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGG----T--TTAAATTAGGTTAAGGTTAG
*
21997610 GG-TTTTAATTAAATTAGGTTAGGGTTAGGG-------TTAAATTAGGTTAGGGTTAGAGTTTTT
60 GGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTT
*
21997667 AATTAAATTAGGGTA
125 AATTAAATTAGGTTA
*
21997682 AGGTTAGGGTTTTTAATTAAATTAGGATAGGGTTAGGGCTTTTAATTAAATTAGGTTAAGGTTAG
1 AGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGG----T--TTAAATTAGGTTAAGGTTAG
21997747 GG-TTTTAATTAAATTAGGTTAGGGTTAGGG-------TTAAATTAGGTTAGGGTTAGGGTTTTT
60 GGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTT
*
21997804 AAATAAATTAGGTTA
125 AATTAAATTAGGTTA
* *
21997819 AGGTTAGGGTTTTTAATTAAATTAGGGTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG
1 AGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGG----T--TTAAATTAGGTTAAGGTTAG
* * *
21997884 GATTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAAATAAATTAGGTTAAGGTTAGGGTTTTT
60 GGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTT
21997949 AATTAAATTAGGTTA
125 AATTAAATTAGGTTA
* ***** * *
21997964 GGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGGTAAGATTAGGGTTTT
1 AGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTAAATTAGGTTAAGGTTAGGGTTTT
* *
21998029 TAATTAAATTAGGGTAGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGG-TTTTAATTAA
66 TAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
*
21998093 ATTAAGTTA
131 ATTAGGTTA
* * ****
21998102 GGGTTAAGG-TTAGGGTTAAATTAGGTTAGGGTTAGGGTTTTTAAATAAATTAGGTTAAGGTTAG
1 AGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGG---TT---TAAATTAGGTTAAGGTTAG
* *
21998166 GGTTTTTAATTAAATTAGGGTAGGGTTAGGG-TTTTAATTAAATTAGGGTAGGGTTAGGGTTTTT
60 GGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTT
21998230 AATTAAATTAGGTTA
125 AATTAAATTAGGTTA
* * *
21998245 GGGTTAGGGTTTTTAATTAAATTAGATTAGGGTTAGGGGTTTTAAATAAATTAGGTTAGGGTTAG
1 AGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTA-GGG--TT---TAAATTAGGTTAAGGTTAG
*
21998310 GGTTTTTAATTAAATTAGAG-TAGGGTTAGGGTTTTTAATTAAATTAGGGTAGGGTTAGGGTTTT
60 GGTTTTTAATTAAATTAG-GTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTT
*
21998374 TAAATAAATTAGGTTA
124 TAATTAAATTAGGTTA
*
21998390 AGGTTAGGGTTTTTAAATAAATTAGGTTAGGGTTAGGGTTT
1 AGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTT
21998431 GGGTTTGAAA
Statistics
Matches: 1182, Mismatches: 88, Indels: 72
0.88 0.07 0.05
Matches are distributed among these distances:
137 479 0.41
138 80 0.07
139 75 0.06
140 1 0.00
142 28 0.02
143 209 0.18
144 125 0.11
145 185 0.16
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (139 bp):
AGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTAAATTAGGTTAAGGTTAGGGTTTT
TAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
ATTAGGTTA
Found at i:21997436 original size:22 final size:22
Alignment explanation
Indices: 21997408--21997464 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
21997398 AAGTAGGTTA
**
21997408 AGGTTAGGGTTTTAATTAAATT
1 AGGTTAGGGTTAGAATTAAATT
**
21997430 AGGTTAGGGTTAGGGTTAAATT
1 AGGTTAGGGTTAGAATTAAATT
21997452 AGGTTAGGGTTAG
1 AGGTTAGGGTTAG
21997465 GGTTTTTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.28, C:0.00, G:0.33, T:0.39
Consensus pattern (22 bp):
AGGTTAGGGTTAGAATTAAATT
Found at i:21997465 original size:22 final size:22
Alignment explanation
Indices: 21997423--21997468 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
21997413 AGGGTTTTAA
21997423 TTAAATTAGGTTAGGGTTAGGG
1 TTAAATTAGGTTAGGGTTAGGG
21997445 TTAAATTAGGTTAGGGTTAGGG
1 TTAAATTAGGTTAGGGTTAGGG
21997467 TT
1 TT
21997469 TTTAAATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.39
Consensus pattern (22 bp):
TTAAATTAGGTTAGGGTTAGGG
Found at i:21997560 original size:195 final size:197
Alignment explanation
Indices: 21996981--21998430 Score: 1757
Period size: 195 Copynumber: 7.4 Consensus size: 197
21996971 TTTAAATAAA
* * * *
21996981 TTAG-GTTAGGGTTTTTAATTAAATTAGGGTAGGGTTAAGGTTTTTAATTAAATTAGGTTAAGGT
1 TTAGAGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGT
* * *
21997045 TAGGGTTTTTAATTAAATTAGGTTAGGGTTAGAGTTTTTAAATAAATTAGGTTAAGGTTAAGGTT
66 TAGGG----T--TTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTT
* *
21997110 TTTAATTAAATTAGGTTAAGGTTAGGG-TTTCAATTAAATTAGGTTAGGGTTAGGG-------TT
125 TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT
21997167 AAATTAGG
190 AAATTAGG
* *
21997175 TTA-AGGTTAGGGTTTTTAATTAAATTAGGGTAAGGTTAGGGTTTTTAATTAAATTAGGGTAGGG
1 TTAGA-GTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGTTAGGG
* *
21997239 TTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGG-TTTTAATTAAATTAGGTTAGGGTTAGGG-
65 TTAGGG----T--TTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGT
**** * * * *
21997302 TTAGGGTTAAATTAGGCTAAGGTTAGGGTTTTTAATTAAATTAGGGTAAGGTTAGGGTTTTTAAT
124 TTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAAT
21997367 TAAATTAGG
189 TAAATTAGG
* * *
21997376 ATAGAGTTAGGGTTTTAAATTAAAGTAGGTTAAGGTTAGGG-TTTTAATTAAATTAGGTTAGGGT
1 TTAGAGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGT
*
21997440 TAGGG-TTAAATTAGGTTAGGGTTAGGGTTTTTAAATAAATTAGGTTAAGGTTAGGGTTTTTAAT
66 TAGGGTTTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAT
* *
21997504 TAAATTAGGGTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAAATAAATTA
131 TAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTA
21997569 GG
196 GG
*
21997571 TTA-AGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGG-TTTTAATTAAATTAGGTTAGGG
1 TTAGA-GTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGTTAGGG
* *
21997634 TTAGGG-TTAAATTAGGTTAGGGTTAGAGTTTTTAATTAAATTAGGGTAAGGTTAGGGTTTTTAA
65 TTAGGGTTTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAA
* * *
21997698 TTAAATTAGGATAGGGTTAGGGCTTTTAATTAAATTAGGTTAAGGTTAGGG-TTTTAATTAAATT
130 TTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATT
21997762 AGG
195 AGG
* * * *
21997765 TTAGGGTTAGGG-------TTAAATTAGGTTAGGGTTAGGGTTTTTAAATAAATTAGGTTAAGGT
1 TTAGAGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGT
* * *
21997823 TAGGGTTTTTAATTAAATTAGGGTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGATT
66 TAGGG----T--TTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTT
* *
21997888 TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAAATAAATTAGGTTAAGGTTAGGGTTTTTAATT
125 TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT
21997953 AAATTAGG
190 AAATTAGG
* * * *
21997961 TTAGGGTTAGGGTTTTTAATT-AA--A--TT-AGGTTAGGGTTTTTAATTAAATTAGGGTAAGAT
1 TTAGAGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGT
*
21998020 TAGGGTTTTTAATTAAATTAGGGTAGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGG-T
66 TAGGG----T--TTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTT
* * **** *
21998084 TTTAATTAAATTAAGTTAGGGTTAAGG-TTAGGGTTAAATTAGGTTAGGGTTAGGGTTTTTAAAT
125 TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT
21998148 AAATTAGG
190 AAATTAGG
* * *
21998156 TTA-AGGTTAGGGTTTTTAATTAAATTAGGGTAGGGTTAGGG-TTTTAATTAAATTAGGGTAGGG
1 TTAGA-GTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGTTAGGG
* * *
21998219 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGATTAGGGTTAGGGG
65 TTAGGG----T--TTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGT
*
21998284 TTTTAAATAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGAG-TAGGGTTAGGGTTTTTAA
124 TTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAG-GTTAGGGTTAGGGTTTTTAA
21998348 TTAAATTAGG
188 TTAAATTAGG
* * * *
21998358 GTAGGGTTAGGGTTTTTAAATAAATTAGGTTAAGGTTAGGGTTTTTAAATAAATTAGGTTAGGGT
1 TTAGAGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGT
21998423 TAGGGTTT
66 TAGGGTTT
21998431 GGGTTTGAAA
Statistics
Matches: 1119, Mismatches: 94, Indels: 83
0.86 0.07 0.06
Matches are distributed among these distances:
187 22 0.02
188 26 0.02
193 44 0.04
194 105 0.09
195 477 0.43
196 56 0.05
197 92 0.08
198 3 0.00
199 1 0.00
200 110 0.10
201 78 0.07
202 76 0.07
203 29 0.03
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (197 bp):
TTAGAGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGT
TAGGGTTTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAT
TAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTA
GG
Found at i:21997795 original size:22 final size:22
Alignment explanation
Indices: 21997755--21997800 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
21997745 AGGGTTTTAA
21997755 TTAAATTAGGTTAGGGTTAGGG
1 TTAAATTAGGTTAGGGTTAGGG
21997777 TTAAATTAGGTTAGGGTTAGGG
1 TTAAATTAGGTTAGGGTTAGGG
21997799 TT
1 TT
21997801 TTTAAATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.39
Consensus pattern (22 bp):
TTAAATTAGGTTAGGGTTAGGG
Found at i:21998014 original size:18 final size:21
Alignment explanation
Indices: 21997966--21998008 Score: 68
Period size: 23 Copynumber: 2.0 Consensus size: 21
21997956 TTAGGTTAGG
21997966 GTTAGGGTTTTTAATTAAATTA
1 GTTAGGGTTTTTAATTAAA-TA
21997988 GGTTAGGGTTTTTAATTAAAT
1 -GTTAGGGTTTTTAATTAAAT
21998009 TAGGGTAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.30, C:0.00, G:0.21, T:0.49
Consensus pattern (21 bp):
GTTAGGGTTTTTAATTAAATA
Found at i:21998125 original size:11 final size:11
Alignment explanation
Indices: 21998094--21998140 Score: 51
Period size: 12 Copynumber: 4.2 Consensus size: 11
21998084 TTTAATTAAA
21998094 TTAAGTTAGGG
1 TTAAGTTAGGG
21998105 TTAAGGTTAGGG
1 TTAA-GTTAGGG
*
21998117 TTAAATTA-GG
1 TTAAGTTAGGG
*
21998127 TTAGGGTTAGGG
1 TTA-AGTTAGGG
21998139 TT
1 TT
21998141 TTTAAATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
10 5 0.17
11 10 0.33
12 15 0.50
ACGTcount: A:0.26, C:0.00, G:0.36, T:0.38
Consensus pattern (11 bp):
TTAAGTTAGGG
Found at i:21998127 original size:16 final size:16
Alignment explanation
Indices: 21998089--21998135 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
21998079 AGGGTTTTAA
*
21998089 TTAAATTAAGTTAGGG
1 TTAAATTAGGTTAGGG
21998105 TT--A--AGGTTAGGG
1 TTAAATTAGGTTAGGG
21998117 TTAAATTAGGTTAGGG
1 TTAAATTAGGTTAGGG
21998133 TTA
1 TTA
21998136 GGGTTTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
12 10 0.38
14 2 0.08
16 14 0.54
ACGTcount: A:0.32, C:0.00, G:0.30, T:0.38
Consensus pattern (16 bp):
TTAAATTAGGTTAGGG
Found at i:21998140 original size:22 final size:23
Alignment explanation
Indices: 21998094--21998140 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
21998084 TTTAATTAAA
*
21998094 TTAAGTTAGGGTTAAGGTTAGGG
1 TTAAATTAGGGTTAAGGTTAGGG
*
21998117 TTAAATTA-GGTTAGGGTTAGGG
1 TTAAATTAGGGTTAAGGTTAGGG
21998139 TT
1 TT
21998141 TTTAAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.26, C:0.00, G:0.36, T:0.38
Consensus pattern (23 bp):
TTAAATTAGGGTTAAGGTTAGGG
Found at i:22000799 original size:32 final size:30
Alignment explanation
Indices: 22000758--22000824 Score: 107
Period size: 32 Copynumber: 2.2 Consensus size: 30
22000748 GCCATTGATG
22000758 AAAATATAAAAAAATTTTAAAATTATTTTTAA
1 AAAATATAAAAAAATTTTAAAATTA--TTTAA
*
22000790 AAAATATAAAAAAATTTTGAAATTATTTAA
1 AAAATATAAAAAAATTTTAAAATTATTTAA
22000820 AAAAT
1 AAAAT
22000825 GAAATTGATG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
30 10 0.29
32 24 0.71
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.37
Consensus pattern (30 bp):
AAAATATAAAAAAATTTTAAAATTATTTAA
Found at i:22000883 original size:22 final size:21
Alignment explanation
Indices: 22000858--22000908 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 21
22000848 TAATATGGAT
*
22000858 TTGAGAGATTTTTGGAATGAAA
1 TTGAGAGA-TTTTGGAAGGAAA
22000880 TTGAGAGGATTTTGGAAGGAAA
1 TTGAGA-GATTTTGGAAGGAAA
22000902 TTGAGAG
1 TTGAGAG
22000909 TTTAAGAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 1 0.04
22 24 0.89
23 2 0.07
ACGTcount: A:0.35, C:0.00, G:0.33, T:0.31
Consensus pattern (21 bp):
TTGAGAGATTTTGGAAGGAAA
Found at i:22000924 original size:52 final size:51
Alignment explanation
Indices: 22000861--22000958 Score: 160
Period size: 52 Copynumber: 1.9 Consensus size: 51
22000851 TATGGATTTG
* *
22000861 AGAGATTTTTGGAATGAAATTGAGAGGATTTTGGAAGGAAATTGAGAGTTTA
1 AGAGAATTTTGGAAGGAAATTGAGAGGA-TTTGGAAGGAAATTGAGAGTTTA
*
22000913 AGAGAATTTTGGAAGGAAATTGAGAGGATTTGGAATGAAATTGAGA
1 AGAGAATTTTGGAAGGAAATTGAGAGGATTTGGAAGGAAATTGAGA
22000959 TAAGATTTGT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
51 17 0.40
52 26 0.60
ACGTcount: A:0.39, C:0.00, G:0.32, T:0.30
Consensus pattern (51 bp):
AGAGAATTTTGGAAGGAAATTGAGAGGATTTGGAAGGAAATTGAGAGTTTA
Found at i:22000943 original size:22 final size:21
Alignment explanation
Indices: 22000913--22000958 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
22000903 TGAGAGTTTA
22000913 AGAGAATTTTGGAAGGAAATTG
1 AGAGAA-TTTGGAAGGAAATTG
* *
22000935 AGAGGATTTGGAATGAAATTG
1 AGAGAATTTGGAAGGAAATTG
22000956 AGA
1 AGA
22000959 TAAGATTTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.41, C:0.00, G:0.33, T:0.26
Consensus pattern (21 bp):
AGAGAATTTGGAAGGAAATTG
Found at i:22003080 original size:13 final size:14
Alignment explanation
Indices: 22003062--22003118 Score: 55
Period size: 13 Copynumber: 4.0 Consensus size: 14
22003052 TATGCATAAG
22003062 TTATAAA-TTTAAT
1 TTATAAATTTTAAT
22003075 TTATAAATTTTAATTT
1 TTATAAATTTTAA--T
**
22003091 TTATACTTTTTAAAT
1 TTATAAATTTT-AAT
22003106 TTA-AAATTTTAAT
1 TTATAAATTTTAAT
22003119 CTCGAAGTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
13 10 0.28
14 10 0.28
15 4 0.11
16 10 0.28
17 2 0.06
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (14 bp):
TTATAAATTTTAAT
Found at i:22003231 original size:17 final size:16
Alignment explanation
Indices: 22003192--22003238 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
22003182 TAATTTGGTC
22003192 CATTTTTTTAA-TTTA
1 CATTTTTTTAATTTTA
22003207 -ATTATTTTTAATTCTTA
1 CATT-TTTTTAATT-TTA
*
22003224 CATTTTTTGAATTTT
1 CATTTTTTTAATTTT
22003239 GAAGTTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
14 3 0.11
15 7 0.26
16 3 0.11
17 11 0.41
18 3 0.11
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (16 bp):
CATTTTTTTAATTTTA
Found at i:22009178 original size:3 final size:3
Alignment explanation
Indices: 22009170--22009206 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
22009160 CACGCACACA
22009170 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
22009207 CGAATGAGCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:22023420 original size:22 final size:20
Alignment explanation
Indices: 22023394--22023437 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
22023384 ATTTTTAAAA
*
22023394 TTTTAAAAATTCAAAAAATTAT
1 TTTTAAAAA-T-AAAAAATCAT
*
22023416 TTTTACAAATAAAAAATCAT
1 TTTTAAAAATAAAAAATCAT
22023436 TT
1 TT
22023438 CAATTATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 11 0.55
21 1 0.05
22 8 0.40
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (20 bp):
TTTTAAAAATAAAAAATCAT
Found at i:22023612 original size:17 final size:18
Alignment explanation
Indices: 22023585--22023618 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
22023575 ATACAAATTC
22023585 AAAAATATAAATAAAAAG
1 AAAAATATAAATAAAAAG
22023603 AAAAAT-TAAATAAAAA
1 AAAAATATAAATAAAAA
22023619 ACTAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (18 bp):
AAAAATATAAATAAAAAG
Found at i:22029185 original size:19 final size:20
Alignment explanation
Indices: 22029157--22029202 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
22029147 TGAATACCCG
22029157 TTAAAATA-TTTTTCACCTA
1 TTAAAATATTTTTTCACCTA
*
22029176 TTAAATTATTTTTTTCACCTA
1 TTAAAATA-TTTTTTCACCTA
22029197 TTAAAA
1 TTAAAA
22029203 CAATTTCAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 7 0.30
21 16 0.70
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (20 bp):
TTAAAATATTTTTTCACCTA
Found at i:22029208 original size:22 final size:21
Alignment explanation
Indices: 22029165--22029208 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
22029155 CGTTAAAATA
**
22029165 TTTTTCACCTATTAAATTATT
1 TTTTTCACCTATTAAACAATT
22029186 TTTTTCACCTATTAAAACAATT
1 TTTTTCACCTATT-AAACAATT
22029208 T
1 T
22029209 CAACTTGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTTTCACCTATTAAACAATT
Found at i:22035140 original size:42 final size:42
Alignment explanation
Indices: 22035067--22035196 Score: 140
Period size: 42 Copynumber: 3.1 Consensus size: 42
22035057 GCCCGAAGAC
* * *
22035067 TAAA-AGAAGCACATAAGTA-CTAAACAAAAACCCGTAAGGGT
1 TAAACAGAAGCACATAAG-AGCTGAACGAAAACCCATAAGGGT
* * *
22035108 TGAACAGAAGCACATAAGAGCTGAACGGAAACCCATAGGGGT
1 TAAACAGAAGCACATAAGAGCTGAACGAAAACCCATAAGGGT
* * *
22035150 TAAACAAAAGCTCA-AAGGAGCTGAACGAAAACCCATTAGGGT
1 TAAACAGAAGCACATAA-GAGCTGAACGAAAACCCATAAGGGT
22035192 TAAAC
1 TAAAC
22035197 GGAAACTCAT
Statistics
Matches: 74, Mismatches: 12, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
41 6 0.08
42 68 0.92
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (42 bp):
TAAACAGAAGCACATAAGAGCTGAACGAAAACCCATAAGGGT
Found at i:22035214 original size:21 final size:21
Alignment explanation
Indices: 22035190--22035243 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
22035180 ACCCATTAGG
22035190 GTTAAACGGAAACTCAT-ATGA
1 GTTAAACGGAAACTCATGA-GA
* * *
22035211 GTTAAACAGAAGCTCGTGAGA
1 GTTAAACGGAAACTCATGAGA
*
22035232 GCTAAACGGAAA
1 GTTAAACGGAAA
22035244 GTAAACACAA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 25 0.96
22 1 0.04
ACGTcount: A:0.43, C:0.15, G:0.24, T:0.19
Consensus pattern (21 bp):
GTTAAACGGAAACTCATGAGA
Found at i:22037674 original size:25 final size:25
Alignment explanation
Indices: 22037646--22037722 Score: 79
Period size: 25 Copynumber: 3.1 Consensus size: 25
22037636 TGCTCATACA
*
22037646 AGCTATGAATCGATATGCTCTCACG
1 AGCTATGAATCGATAAGCTCTCACG
* *
22037671 AGCTGTGAATCGGTAAGCTCAT-ACG
1 AGCTATGAATCGATAAGCTC-TCACG
22037696 AGCTGA-GAATC-AGTAAGCTCTCACG
1 AGCT-ATGAATCGA-TAAGCTCTCACG
22037721 AG
1 AG
22037723 TTGCAAATCA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
24 1 0.02
25 41 0.95
26 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (25 bp):
AGCTATGAATCGATAAGCTCTCACG
Found at i:22037716 original size:50 final size:51
Alignment explanation
Indices: 22037637--22037750 Score: 135
Period size: 50 Copynumber: 2.3 Consensus size: 51
22037627 ATACATGTAT
* * ** *
22037637 GCTCATACAAGCT-ATGAATCGATATGCTCTCACGAGCTGTGAATCGGTAA
1 GCTCATACGAGCTGATGAATCGATAAGCTCTCACGAGCTGCAAATCAGTAA
*
22037687 GCTCATACGAGCTGA-GAATC-AGTAAGCTCTCACGAGTTGCAAATCAGTAA
1 GCTCATACGAGCTGATGAATCGA-TAAGCTCTCACGAGCTGCAAATCAGTAA
*
22037737 GATCATACGAGCTG
1 GCTCATACGAGCTG
22037751 TAGTGTGTCC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
49 1 0.02
50 53 0.96
51 1 0.02
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.24
Consensus pattern (51 bp):
GCTCATACGAGCTGATGAATCGATAAGCTCTCACGAGCTGCAAATCAGTAA
Found at i:22037731 original size:25 final size:24
Alignment explanation
Indices: 22037662--22037750 Score: 83
Period size: 25 Copynumber: 3.6 Consensus size: 24
22037652 GAATCGATAT
* *
22037662 GCTCTCACGAGCTGTGAATCGGTAA
1 GCTCTCACGAGCTG-AAATCAGTAA
22037687 GCTCAT-ACGAGCTGAGAATCAGTAA
1 GCTC-TCACGAGCTGA-AATCAGTAA
*
22037712 GCTCTCACGAGTTGCAAATCAGTAA
1 GCTCTCACGAGCTG-AAATCAGTAA
*
22037737 GATCAT-ACGAGCTG
1 GCTC-TCACGAGCTG
22037751 TAGTGTGTCC
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
24 1 0.02
25 50 0.93
26 3 0.06
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.22
Consensus pattern (24 bp):
GCTCTCACGAGCTGAAATCAGTAA
Found at i:22040840 original size:81 final size:81
Alignment explanation
Indices: 22040745--22040905 Score: 286
Period size: 81 Copynumber: 2.0 Consensus size: 81
22040735 AGGTTAGATC
* *
22040745 TTAGTGTGATAGCTTTCTTTCTTCCTTATTGTTAAAGATTTTGTAAACAAGGATGAACAAACTCT
1 TTAGTGTGACAGCTTTCTTTCTTCCTTATTGTTAAAGATTTTGTAAACAAGGATGAACAAACTCA
*
22040810 TATGCTTTAATGGATA
66 TATGCTTCAATGGATA
*
22040826 TTAGTGTGGCAGCTTTCTTTCTTCCTTATTGTTAAAGATTTTGTAAACAAGGATGAACAAACTCA
1 TTAGTGTGACAGCTTTCTTTCTTCCTTATTGTTAAAGATTTTGTAAACAAGGATGAACAAACTCA
22040891 TATGCTTCAATGGAT
66 TATGCTTCAATGGAT
22040906 CTTCATGAAT
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 76 1.00
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (81 bp):
TTAGTGTGACAGCTTTCTTTCTTCCTTATTGTTAAAGATTTTGTAAACAAGGATGAACAAACTCA
TATGCTTCAATGGATA
Found at i:22050021 original size:16 final size:16
Alignment explanation
Indices: 22049981--22050035 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
22049971 TTAATCATAT
*
22049981 TTAAACATA-ATTTTTA
1 TTAAA-ATATATTTTAA
22049997 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
22050012 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
22050030 -TAAAAT
1 TTAAAAT
22050036 TCTTAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:22050028 original size:18 final size:17
Alignment explanation
Indices: 22050001--22050035 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
22049991 TTTTTATTAA
*
22050001 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
22050019 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
22050036 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:22050145 original size:120 final size:116
Alignment explanation
Indices: 22049950--22050632 Score: 671
Period size: 120 Copynumber: 5.8 Consensus size: 116
22049940 AATAAGATTA
* * * *
22049950 TTATTATCAATAATAAATAATTT--AATCAT-ATTTAAACATAATTTTTATTAAATATATTTTAA
1 TTATTATAAACAATAAATAATTTAAAAT-ATAATTTAAA-ATAATTATTATTAAATATAATTTAA
* * ** *
22050012 TTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAGAAATT-TGT-TTTGGTAAA
64 TAAAAATATATAATTTAATAAAATTCTTAATAATTA--A-ATATTCT-TAAAT-G-AAT
* * *
22050069 TTATTATTAACAATAAATAATTTAAAAGATAATTTAACATAATTATTATTAAATATAATTTAATA
1 TTATTATAAACAATAAATAATTTAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATA
*
22050134 AAAATATATAATTTAATAAAATTCTTAAT-ATTAAATATTCTTATATGAAT
66 AAAATATATAATTTAATAAAATTCTTAATAATTAAATATTCTTAAATGAAT
* * * *
22050184 TTAATAAAATTATAATATATAATACTATAAAATATAATTTAAAAT-A--ATTATTAAATATAATT
1 TTATTATAA--ACAATAAATAAT--T-TAAAATATAATTTAAAATAATTATTATTAAATATAATT
* *
22050246 TAATAGAAATATATAATTTAATAAAATTCTTAATATTTAAATATTCTTAAATGAAT
61 TAATAAAAATATATAATTTAATAAAATTCTTAATAATTAAATATTCTTAAATGAAT
* *
22050302 TTACTA-AAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAATATAAT
1 TTATTATAAA-C--AATAAATAAT--T-TAAAATATAATTTAAAATAATTATTATTAAATATAAT
*
22050366 TTAACAAAAATATATAATTTAATAAAATTCTTAAT-ATTAAATATTCTTAAATGAAT
60 TTAATAAAAATATATAATTTAATAAAATTCTTAATAATTAAATATTCTTAAATGAAT
* *
22050422 TTACTA-AAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAAATATAA
1 TTATTATAAA-C--AATAAATAAT--T-TAAAATATAATTTAAAATAATTATTATT-AAATATAA
*
22050486 TTTAGTAAAAATATATAATTTAATAAAATTCTTTAAT-ATTAAATATTCTT--A-GAAT
59 TTTAATAAAAATATATAATTTAATAAAATTC-TTAATAATTAAATATTCTTAAATGAAT
* * * *
22050541 TTACTA-AAATCATAATATATAATACTATAAAATATAATTTAAATTAATTATTTTTAAATATAAT
1 TTATTATAAA-C--AATAAATAAT--T-TAAAATATAATTTAAAATAATTATTATTAAATATAAT
* *
22050605 TTAATAAAAATGTATAATTTAATCAAAT
60 TTAATAAAAATATATAATTTAATAAAAT
22050633 CATTATATTC
Statistics
Matches: 513, Mismatches: 32, Indels: 39
0.88 0.05 0.07
Matches are distributed among these distances:
115 9 0.02
116 6 0.01
117 65 0.13
118 90 0.18
119 85 0.17
120 147 0.29
121 93 0.18
122 18 0.04
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (116 bp):
TTATTATAAACAATAAATAATTTAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATA
AAAATATATAATTTAATAAAATTCTTAATAATTAAATATTCTTAAATGAAT
Found at i:22050196 original size:19 final size:18
Alignment explanation
Indices: 22050121--22050273 Score: 89
Period size: 18 Copynumber: 8.0 Consensus size: 18
22050111 TTATTATTAA
*
22050121 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAATT
22050139 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAATT
* ***
22050157 CT-TAATATTAAATATTCTT
1 ATATAAT-TT-AATAAAATT
22050176 ATATGAATTTAATAAAATT
1 ATAT-AATTTAATAAAATT
* *
22050195 ATA-ATATATAATACTATAA-A
1 ATATA-ATTTAATA--A-AATT
*
22050215 ATATAATTTAAAATAATTATT
1 ATATAATTT--AATAA-AATT
22050236 AAATATAATTTAATAGAAA-T
1 --ATATAATTTAATA-AAATT
22050256 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAATT
22050274 CTTAATATTT
Statistics
Matches: 104, Mismatches: 15, Indels: 32
0.69 0.10 0.21
Matches are distributed among these distances:
17 8 0.08
18 41 0.39
19 16 0.15
20 14 0.13
21 11 0.11
22 5 0.05
23 9 0.09
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.42
Consensus pattern (18 bp):
ATATAATTTAATAAAATT
Found at i:22050336 original size:118 final size:119
Alignment explanation
Indices: 22050091--22050632 Score: 878
Period size: 118 Copynumber: 4.5 Consensus size: 119
22050081 ATAAATAATT
* *
22050091 TAAAAGATAATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAAT
1 TAAAATATAATTTAAAATAA-TATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAAT
* * *
22050156 TCTTAATATTAAATATTCTTATATGAATTTAATAAAATTATAATATATAATACTA
65 TCTTAATATTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTA
*
22050211 TAAAATATAATTTAAAAT-A-ATTATTAAATATAATTTAATAGAAATATATAATTTAATAAAATT
1 TAAAATATAATTTAAAATAATATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATT
22050274 CTTAATATTTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTA
66 CTTAATA-TTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTA
*
22050329 TAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAAAATATATAATTTAATAAAAT
1 TAAAATATAATTTAAAATAA-TATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAAT
22050394 TCTTAATATTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTA
65 TCTTAATATTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTA
*
22050449 TAAAATATAATTTAAAATAATTATTATTAAAATATAATTTAGTAAAAATATATAATTTAATAAAA
1 TAAAATATAATTTAAAATAA-TATTATT-AAATATAATTTAATAAAAATATATAATTTAATAAAA
22050514 TTCTTTAATATTAAATATTCTT--A-GAATTTACTAAAATCATAATATATAATACTA
64 TTC-TTAATATTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTA
* * * *
22050568 TAAAATATAATTTAAATTAATTATTTTTAAATATAATTTAATAAAAATGTATAATTTAATCAAAT
1 TAAAATATAATTTAAAATAA-TATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAAT
22050633 CATTATATTC
Statistics
Matches: 401, Mismatches: 15, Indels: 14
0.93 0.03 0.03
Matches are distributed among these distances:
117 50 0.12
118 96 0.24
119 59 0.15
120 92 0.23
121 86 0.21
122 18 0.04
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (119 bp):
TAAAATATAATTTAAAATAATATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATT
CTTAATATTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTA
Found at i:22050411 original size:238 final size:238
Alignment explanation
Indices: 22050091--22050632 Score: 903
Period size: 238 Copynumber: 2.3 Consensus size: 238
22050081 ATAAATAATT
* *
22050091 TAAAAGATAATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAAT
1 TAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAAT
* *
22050156 TCTTAATATTAAATATTCTTATATGAATTTAATAAAATTATAATATATAATACTATAAAATATAA
66 TCTTAATATTAAATATTCTTAAATGAATTTAATAAAATCATAATATATAATACTATAAAATATAA
*
22050221 TTTAAAAT-A-ATTATT-AAATATAATTTAATAGAAATATATAATTTAATAAAATTC-TTAATAT
131 TTTAAAATAATATTATTAAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTTAATA-
22050282 TTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTA
195 TTAAATATTCTT--A-GAATTTACTAAAATCATAATATATAATACTA
*
22050329 TAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAAAATATATAATTTAATAAAAT
1 TAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAAT
*
22050394 TCTTAATATTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 TCTTAATATTAAATATTCTTAAATGAATTTAATAAAATCATAATATATAATACTATAAAATATAA
*
22050459 TTTAAAATAATTATTATTAAAATATAATTTAGTAAAAATATATAATTTAATAAAATTCTTTAATA
131 TTTAAAATAA-TATTATTAAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTTAATA
22050524 TTAAATATTCTTAGAATTTACTAAAATCATAATATATAATACTA
195 TTAAATATTCTTAGAATTTACTAAAATCATAATATATAATACTA
* * * *
22050568 TAAAATATAATTTAAATTAATTATTTTTAAATATAATTTAATAAAAATGTATAATTTAATCAAAT
1 TAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAAT
22050633 CATTATATTC
Statistics
Matches: 286, Mismatches: 13, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
238 132 0.46
239 92 0.32
240 1 0.00
241 6 0.02
242 49 0.17
243 6 0.02
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (238 bp):
TAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAAT
TCTTAATATTAAATATTCTTAAATGAATTTAATAAAATCATAATATATAATACTATAAAATATAA
TTTAAAATAATATTATTAAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTTAATAT
TAAATATTCTTAGAATTTACTAAAATCATAATATATAATACTA
Found at i:22050494 original size:15 final size:15
Alignment explanation
Indices: 22050448--22050514 Score: 52
Period size: 18 Copynumber: 4.5 Consensus size: 15
22050438 ATATAATACT
22050448 ATAAAATATAATTTA
1 ATAAAATATAATTTA
22050463 A-AATAAT-T-A-TTA
1 ATAA-AATATAATTTA
*
22050475 TTAAAATATAATTTA
1 ATAAAATATAATTTA
*
22050490 GTAAAAATATATAATTTA
1 --ATAAA-ATATAATTTA
22050508 ATAAAAT
1 ATAAAAT
22050515 TCTTTAATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 16
0.67 0.07 0.27
Matches are distributed among these distances:
12 6 0.15
13 4 0.10
14 4 0.10
15 9 0.22
16 4 0.10
17 3 0.08
18 10 0.25
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:22058413 original size:24 final size:24
Alignment explanation
Indices: 22058384--22058433 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
22058374 CATTAATCTG
22058384 AATAAGTCTATGCAGTTCATTTAA
1 AATAAGTCTATGCAGTTCATTTAA
*
22058408 AATAAGTCTCTGCAGTTCATTTAA
1 AATAAGTCTATGCAGTTCATTTAA
22058432 AA
1 AA
22058434 GAGTACCAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (24 bp):
AATAAGTCTATGCAGTTCATTTAA
Found at i:22061079 original size:15 final size:16
Alignment explanation
Indices: 22061053--22061082 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22061043 ATATTATTTT
22061053 AATAATTAATTTTAAC
1 AATAATTAATTTTAAC
22061069 AATAA-TAATTTTAA
1 AATAATTAATTTTAA
22061083 ATTTTAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (16 bp):
AATAATTAATTTTAAC
Found at i:22064791 original size:21 final size:22
Alignment explanation
Indices: 22064762--22064808 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
22064752 CAGAATGAGT
*
22064762 GAGTAGTACTTCGCAGCAGATG
1 GAGTAGTACTCCGCAGCAGATG
*
22064784 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGATG
22064805 GAGT
1 GAGT
22064809 TTGAGCAGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.23, C:0.19, G:0.36, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGATG
Found at i:22067781 original size:41 final size:42
Alignment explanation
Indices: 22067717--22067796 Score: 126
Period size: 41 Copynumber: 1.9 Consensus size: 42
22067707 GGTGACAGGA
*
22067717 ATAATTTTTAAAGAAAAAATGAAAGGAGAAATAATTAAAAGG
1 ATAATTTTTAAAGAAAAAATGAAAGGAAAAATAATTAAAAGG
* *
22067759 ATAATTTTTCAAG-GAAAATGAAAGGAAAAATAATTAAA
1 ATAATTTTTAAAGAAAAAATGAAAGGAAAAATAATTAAA
22067797 GGGGTCTAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
41 23 0.66
42 12 0.34
ACGTcount: A:0.59, C:0.01, G:0.15, T:0.25
Consensus pattern (42 bp):
ATAATTTTTAAAGAAAAAATGAAAGGAAAAATAATTAAAAGG
Found at i:22068106 original size:28 final size:28
Alignment explanation
Indices: 22068075--22068136 Score: 124
Period size: 28 Copynumber: 2.2 Consensus size: 28
22068065 TCAATCATTA
22068075 TTAATTATTTATTCTCTCTTGTGCTTAT
1 TTAATTATTTATTCTCTCTTGTGCTTAT
22068103 TTAATTATTTATTCTCTCTTGTGCTTAT
1 TTAATTATTTATTCTCTCTTGTGCTTAT
22068131 TTAATT
1 TTAATT
22068137 TGATTGCCTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.19, C:0.13, G:0.06, T:0.61
Consensus pattern (28 bp):
TTAATTATTTATTCTCTCTTGTGCTTAT
Found at i:22072678 original size:18 final size:18
Alignment explanation
Indices: 22072655--22072701 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
22072645 AAAATATGAG
*
22072655 AAATGATGTTCACATTTT
1 AAATGATGTTCACATTTC
*
22072673 AAATGATATTCACATTTC
1 AAATGATGTTCACATTTC
*
22072691 AAATTATGTTC
1 AAATGATGTTC
22072702 GAATTGATGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.43
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:22073226 original size:72 final size:71
Alignment explanation
Indices: 22073126--22073297 Score: 254
Period size: 72 Copynumber: 2.4 Consensus size: 71
22073116 AACAACAATG
* * * *
22073126 CTAAACTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGACATTGAATTTATGTTCTACTTA
1 CTAAATTAGTTTTATCAATAGTTGTTTATGTTTAGTCTTTGGACATTGAATTTATGTTCTACTTA
*
22073191 TTTATGT
66 TTTAT-A
* * * *
22073198 GTAATTTAGTTTTATTAATAGTTGTTTATGTTTAGTCTTTGGATATTGAATTTATGTTCTACTTA
1 CTAAATTAGTTTTATCAATAGTTGTTTATGTTTAGTCTTTGGACATTGAATTTATGTTCTACTTA
22073263 TTTATA
66 TTTATA
22073269 CTAAATTAGTTTTATCAATAGTTGTTTAT
1 CTAAATTAGTTTTATCAATAGTTGTTTAT
22073298 TTATGATTTT
Statistics
Matches: 88, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
71 26 0.30
72 62 0.70
ACGTcount: A:0.26, C:0.06, G:0.13, T:0.54
Consensus pattern (71 bp):
CTAAATTAGTTTTATCAATAGTTGTTTATGTTTAGTCTTTGGACATTGAATTTATGTTCTACTTA
TTTATA
Found at i:22074706 original size:21 final size:21
Alignment explanation
Indices: 22074680--22074724 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
22074670 GTCGAGAAAG
22074680 TGATGATGACGACGACGACGA
1 TGATGATGACGACGACGACGA
** *
22074701 TGATGATGGTGACGATGACGA
1 TGATGATGACGACGACGACGA
22074722 TGA
1 TGA
22074725 ATCAAACAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.13, G:0.36, T:0.20
Consensus pattern (21 bp):
TGATGATGACGACGACGACGA
Found at i:22075362 original size:13 final size:13
Alignment explanation
Indices: 22075341--22075378 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
22075331 ACACTCAAAT
22075341 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
*
22075354 TTCTGAAAAGCAC
1 TTCTCAAAAGCAC
*
22075367 TTTTCAAAAGCA
1 TTCTCAAAAGCA
22075379 ATAAAGAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.39, C:0.24, G:0.11, T:0.26
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:22075431 original size:20 final size:20
Alignment explanation
Indices: 22075395--22075441 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
22075385 AACTGGCCCT
*
22075395 AAGAAAG-GAAAAGAAATTG
1 AAGAAAGTGAAAAGAAATAG
22075414 AA-AAAGTGAAATAGAAATAG
1 AAGAAAGTGAAA-AGAAATAG
22075434 AAGAAAGT
1 AAGAAAGT
22075442 TAAGAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 4 0.17
19 6 0.25
20 9 0.38
21 5 0.21
ACGTcount: A:0.64, C:0.00, G:0.23, T:0.13
Consensus pattern (20 bp):
AAGAAAGTGAAAAGAAATAG
Found at i:22075560 original size:15 final size:14
Alignment explanation
Indices: 22075536--22075566 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
22075526 AAGGAAAATG
22075536 AATTGATTTTTTAT
1 AATTGATTTTTTAT
22075550 AATTAGATTTTTTAT
1 AATT-GATTTTTTAT
22075565 AA
1 AA
22075567 AATAATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (14 bp):
AATTGATTTTTTAT
Found at i:22076722 original size:19 final size:19
Alignment explanation
Indices: 22076698--22076772 Score: 105
Period size: 19 Copynumber: 3.8 Consensus size: 19
22076688 AATCTTCGAG
*
22076698 GATATGCAATCTTAAATAT
1 GATATGCAATCTTAGATAT
*
22076717 GATATGCATTCTTAGATAT
1 GATATGCAATCTTAGATAT
22076736 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
22076757 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
22076773 AGACATGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 32 0.64
21 18 0.36
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:22076744 original size:21 final size:21
Alignment explanation
Indices: 22076699--22076761 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
22076689 ATCTTCGAGG
*
22076699 ATATGCAATCTTAAATATG--
1 ATATGCAATCTTAGATATGAT
*
22076718 ATATGCATTCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
22076739 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
22076760 AT
1 AT
22076762 GTAATCTTAG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
19 17 0.44
21 22 0.56
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.40
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:22076995 original size:19 final size:22
Alignment explanation
Indices: 22076970--22077010 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
22076960 TGGCATACTG
*
22076970 TTTTTTTTCTT-TTT-CGATTA
1 TTTTTTTACTTATTTACGATTA
22076990 TTTTTTTACTTATTTACGATT
1 TTTTTTTACTTATTTACGATT
22077011 TTAAAAAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 3 0.17
22 5 0.28
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.71
Consensus pattern (22 bp):
TTTTTTTACTTATTTACGATTA
Found at i:22077453 original size:4 final size:4
Alignment explanation
Indices: 22077446--22077472 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
22077436 ATTTGTTGTT
22077446 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
22077473 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:22077459 original size:8 final size:8
Alignment explanation
Indices: 22077405--22077472 Score: 59
Period size: 8 Copynumber: 8.4 Consensus size: 8
22077395 AATTATTTCT
22077405 TTTATTT-
1 TTTATTTA
*
22077412 TTTAATTA
1 TTTATTTA
*
22077420 GTT-TTTA
1 TTTATTTA
22077427 TTTATATATA
1 TTTAT-T-TA
* *
22077437 TTTGTTGTT
1 TTTATT-TA
22077446 TTTATTTA
1 TTTATTTA
22077454 TTTATTTA
1 TTTATTTA
22077462 TTTATTTA
1 TTTATTTA
22077470 TTT
1 TTT
22077473 TAAAACAAAT
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
7 11 0.23
8 23 0.48
9 8 0.17
10 6 0.12
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (8 bp):
TTTATTTA
Found at i:22077474 original size:17 final size:17
Alignment explanation
Indices: 22077397--22077472 Score: 59
Period size: 16 Copynumber: 4.4 Consensus size: 17
22077387 CATAATGTAA
*
22077397 TTATTTCTTTTATTT-T
1 TTATTTATTTTATTTAT
*
22077413 TTAATTAGTTTTTATTTAT
1 TTATTTA--TTTTATTTAT
*
22077432 ATATATTTGTTGTT-TTTAT
1 -T-TATTTATT-TTATTTAT
22077451 TTATTTA-TTTATTTAT
1 TTATTTATTTTATTTAT
22077467 TTATTT
1 TTATTT
22077473 TAAAACAAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
15 2 0.04
16 17 0.35
17 5 0.10
18 9 0.19
19 8 0.17
20 3 0.06
21 4 0.08
ACGTcount: A:0.21, C:0.01, G:0.04, T:0.74
Consensus pattern (17 bp):
TTATTTATTTTATTTAT
Found at i:22090534 original size:22 final size:21
Alignment explanation
Indices: 22090500--22090558 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
22090490 CAAATTATAA
22090500 AAAAAGAGAAAAAAGAAAAAG
1 AAAAAGAGAAAAAAGAAAAAG
*
22090521 AAAAAGTGATAAAAAGAAAAAG
1 AAAAAGAGA-AAAAAGAAAAAG
*
22090543 -AAAAG-GAAAATAGAAA
1 AAAAAGAGAAAAAAGAAA
22090559 GGCCAAAGTG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.23
20 2 0.06
21 13 0.37
22 12 0.34
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.05
Consensus pattern (21 bp):
AAAAAGAGAAAAAAGAAAAAG
Found at i:22092018 original size:44 final size:43
Alignment explanation
Indices: 22091948--22092276 Score: 142
Period size: 44 Copynumber: 7.5 Consensus size: 43
22091938 CTAAGCCTTG
* * * * * *
22091948 TCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGAAGGTTGAAGA-CGCAGATCTTA
*
22091992 TCTCCCTAAGCAGTAGTGGAGAAGGTTGAAGACGACAAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGAAGGTTGAAGACG-CAGATCTTA
* * * *
22092036 TCTTTCC-AAG-A-TAGT-GAGAAGCAGATTTAAGCCAC-CA-AGCCTTG
1 TC-TCCCTAAGCAGTAGTGGAGAAG--G-TTGAAG--ACGCAGA-TCTTA
* * * * * *
22092080 TCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGAAGGTTGAAGA-CGCAGATCTTA
* *
22092124 TCTCCCTAAGCAGTAGTGGAGAAGATTGAAGACGACAAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGAAGGTTGAAGACG-CAGATCTTA
* * * *
22092168 TCTTTCC-AAG-A-TAGTGG-GAAGCAGATTTAAGCCAC-CA-AGCATTG
1 TC-TCCCTAAGCAGTAGTGGAGAAG--G-TTGAAG--ACGCAGATC-TTA
* * * * * *
22092212 TCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGAAGGTTGAAGA-CGCAGATCTTA
22092256 TCTCCCTAAGCAGTAGTGGAG
1 TCTCCCTAAGCAGTAGTGGAG
22092277 CAGATCGAAA
Statistics
Matches: 208, Mismatches: 47, Indels: 60
0.66 0.15 0.19
Matches are distributed among these distances:
41 10 0.05
42 12 0.06
43 14 0.07
44 141 0.68
45 13 0.06
46 10 0.05
47 8 0.04
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.25
Consensus pattern (43 bp):
TCTCCCTAAGCAGTAGTGGAGAAGGTTGAAGACGCAGATCTTA
Found at i:22092394 original size:44 final size:44
Alignment explanation
Indices: 22092339--22092753 Score: 192
Period size: 44 Copynumber: 9.7 Consensus size: 44
22092329 AGCCACCAAG
* * *
22092339 TCTTGTCTCTCTGAAGTTGCAGTGGAGCATATTAAAACTTTGGA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAACTTTGAA
* *** * *
22092383 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCGTA-TCT-AG
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAACTTTGAA
* * ** **
22092423 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAGCCGAT-AA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAACTTTGAA
* ** *
22092466 TCCTATCT-TCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGAA
1 TCTTATCTCT-CTGAAGTTGCAGTGGAGCAGATTAAAACTTTGAA
* ** * *
22092510 TCTTATCTCTCTGAAGTTGCAG-AGAGCA-A--ATCAC-ATCAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAACTTTGAA
* * *
22092549 GTCTTATCT-TCTTGAAGTTGCAGT-GAGGCAGACTGAAGA--TGGCAAA
1 -TCTTATCTCTC-TGAAGTTGCAGTGGA-GCAGA-TTAAAACTTTG--AA
* * **
22092595 TCTTATCTC-CTTGAAGTTGCAGTGGAGCAGGTTAAAGCCGAT-AA
1 TCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTAAA-ACTTTGAA
* ** *
22092639 TCCTATCT-TCCTGAAGTTGCAGTGGAGTGGATTAAAACCTT-AGA
1 TCTTATCTCT-CTGAAGTTGCAGTGGAGCAGATTAAAACTTTGA-A
* *** * *
22092683 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCGCA-TCT-AG
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAACTTTGAA
*
22092723 TATTATCTCTCTGAAGTTGCAGTGGAGCAGA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGA
22092754 CTAAGTAATC
Statistics
Matches: 279, Mismatches: 66, Indels: 55
0.70 0.17 0.14
Matches are distributed among these distances:
39 5 0.02
40 66 0.24
41 20 0.07
42 7 0.03
43 50 0.18
44 96 0.34
45 31 0.11
46 4 0.01
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (44 bp):
TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAACTTTGAA
Found at i:22092415 original size:132 final size:132
Alignment explanation
Indices: 22091808--22092352 Score: 910
Period size: 132 Copynumber: 4.1 Consensus size: 132
22091798 GTAAAACACT
* * * *
22091808 AAGCCTTGTCTCCCTGAGCAACAGCGGAGTAGGTTGAGGATCGTAGATCTTATCTCCCTAAGCAA
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * * * *
22091873 TAGTGGAGTAGATCGAGGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAACAGATTTAAGCTA
66 TAGTGGAGAAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
*
22091938 CT
131 CC
22091940 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * *
22092005 TAGTGGAGAAGGTTGAAGACGACAAATCTTATCTTTCCAAGATAGTGAGAAGCAGATTTAAGCCA
66 TAGTGGAGAAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
22092070 CC
131 CC
22092072 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
*
22092137 TAGTGGAGAAGATTGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGAAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
22092202 CC
131 CC
*
22092204 AAGCATTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * *
22092269 TAGTGGAGCAGATCGAAAACGACAAATCATATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGAAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
22092334 CC
131 CC
* *
22092336 AAGTCTTGTCTCTCTGA
1 AAGCCTTGTCTCCCTGA
22092353 AGTTGCAGTG
Statistics
Matches: 390, Mismatches: 23, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 390 1.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (132 bp):
AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
TAGTGGAGAAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
CC
Found at i:22092662 original size:173 final size:172
Alignment explanation
Indices: 22092423--22092755 Score: 564
Period size: 173 Copynumber: 1.9 Consensus size: 172
22092413 TCGTATCTAG
22092423 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAGCCGATAATCCTATCTTCCTGAAGTTGCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAGCCGATAATCCTATCTTCCTGAAGTTGCAG
*
22092488 TGGAGTGGATTAAAACCTT-GAATCTTATCTCTCTGAAGTTGCAGAGAGCAAATCACATCAAGTC
66 TGGAGTGGATTAAAACCTTAG-ATCTTATCTCTCTGAAGTTGCAGAGAGCAAATCACATCAAGTA
22092552 TTATCT-TCTTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCAAA
130 TTATCTCTC-TGAAGTTGCAGTGGA-GCAGACTGAAGATGGCAAA
*
22092595 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTT-AAGCCGATAATCCTATCTTCCTGAAGTTGCA
* * *
22092660 GTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTA
65 GTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAAATCACATCAAGTA
22092725 TTATCTCTCTGAAGTTGCAGTGGAGCAGACT
130 TTATCTCTCTGAAGTTGCAGTGGAGCAGACT
22092756 AAGTAATCAA
Statistics
Matches: 152, Mismatches: 5, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
172 32 0.21
173 115 0.76
174 5 0.03
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.30
Consensus pattern (172 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAGCCGATAATCCTATCTTCCTGAAGTTGCAG
TGGAGTGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAAATCACATCAAGTAT
TATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATGGCAAA
Found at i:22092781 original size:217 final size:216
Alignment explanation
Indices: 22092512--22092973 Score: 610
Period size: 217 Copynumber: 2.1 Consensus size: 216
22092502 ACCTTGAATC
* * * * *
22092512 TTATCTCTCTGAAGTTGCAG-AGAGCA-AATCACATCAAGTCTTATCTTCTTGAAGTTGCAGTGA
1 TTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAAATCAAGTCTTATCCTCTTGAAGTTGCAGTGA
* ** * **
22092575 GGCAGACTGAAGATGGCAAATCTTATCTCCTTGAAGTTGCAGTGGAGCA-GGTTAA-AGCCGATA
66 GGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCATACTAAATAAAC-A-A
* ** *
22092638 ATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGC
129 ATCCTATCTCCCTGAAGTTGCAGTGGAACGGATTAAAACCATAGATCTTATCTCTCTGAAGTTGC
* *
22092703 AG-AGAGCAGATCGCATCTAGTA
194 AGTAGAGCAGATCACATCGAGTA
* *
22092725 TTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGTAATCAAGTTTTATCCTCTTGAAGTTGTAGT
1 TTATCTCTCTGAAGTTGCAGTGGAGCAGACTAA--AATCAAGTCTTATCCTCTTGAAGTTGCAGT
* * *
22092790 GAGGCAGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGTAGTGGGGCATACTAAATAAACAA
64 GAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCATACTAAATAAACAA
* *
22092855 ATCCTGTCTCCCTGAAGTTGCAGTGGAACGGATTAAAACCATAGTTCTTATCTCTCTGAAGTTGC
129 ATCCTATCTCCCTGAAGTTGCAGTGGAACGGATTAAAACCATAGATCTTATCTCTCTGAAGTTGC
* *
22092920 AGTAGAGTAGATCACATCGAGTC
194 AGTAGAGCAGATCACATCGAGTA
*
22092943 TTATCTCCCTGAAGTTGCAGTGGAGCAGACT
1 TTATCTCTCTGAAGTTGCAGTGGAGCAGACT
22092974 CAAGAAAGCA
Statistics
Matches: 215, Mismatches: 27, Indels: 9
0.86 0.11 0.04
Matches are distributed among these distances:
213 20 0.09
214 5 0.02
215 3 0.01
217 135 0.63
218 50 0.23
219 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (216 bp):
TTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAAATCAAGTCTTATCCTCTTGAAGTTGCAGTGA
GGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCATACTAAATAAACAAAT
CCTATCTCCCTGAAGTTGCAGTGGAACGGATTAAAACCATAGATCTTATCTCTCTGAAGTTGCAG
TAGAGCAGATCACATCGAGTA
Found at i:22092827 original size:173 final size:171
Alignment explanation
Indices: 22092423--22092836 Score: 504
Period size: 173 Copynumber: 2.4 Consensus size: 171
22092413 TCGTATCTAG
* * *
22092423 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGT-TAAGCCGATAATCCTATCTTCCTGAAGTTGCA
1 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGCTGAAAGCCGA-AATCCTATCTTCCTGAAGTTGCA
*
22092487 GTGGAGTGGATTAAAACCTTGAATCTTATCTCTCTGAAGTTGCAGAGAGCAAATCACATCAAGTC
65 GTGGAGTGGATTAAAACCTTGAATCTTATCTCTCTGAAGTTGCAGAGAGCAAATCACATCAAGTA
22092552 TTATCTTCTTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAA
130 TTATCTTCTTGAAGTTGCAGTGAGGCAGACTGAAGAT-GCAAA
* *
22092595 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCA
1 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGCTGAAAGCCGA-AATCCTATCTTCCTGAAGTTGCA
* * *
22092660 GTGGAGTGGATTAAAACCTT-AGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGT
65 GTGGAGTGGATTAAAACCTTGA-ATCTTATCTCTCTGAAGTTGCAGAGAGCAAATCACATCAAGT
*
22092724 ATTATC-TCTCTGAAGTTGCAGTG-GAGCAGACT-AAGTAAT-CAAG
129 ATTATCTTCT-TGAAGTTGCAGTGAG-GCAGACTGAAG--ATGCAAA
* * * * *
22092767 TTTTATC-CTCTTGAAGTTGTAGT-GAGGCAGACTGAAGATGGCG-AATCTTATCTCCCTGAAGT
1 TCTTATCTC-CTTGAAGTTGCAGTGGA-GCAG-CTGAA-A-GCCGAAATCCTATCTTCCTGAAGT
*
22092829 TGTAGTGG
61 TGCAGTGG
22092837 GGCATACTAA
Statistics
Matches: 216, Mismatches: 15, Indels: 21
0.86 0.06 0.08
Matches are distributed among these distances:
171 3 0.01
172 65 0.30
173 142 0.66
174 3 0.01
175 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.30
Consensus pattern (171 bp):
TCTTATCTCCTTGAAGTTGCAGTGGAGCAGCTGAAAGCCGAAATCCTATCTTCCTGAAGTTGCAG
TGGAGTGGATTAAAACCTTGAATCTTATCTCTCTGAAGTTGCAGAGAGCAAATCACATCAAGTAT
TATCTTCTTGAAGTTGCAGTGAGGCAGACTGAAGATGCAAA
Found at i:22093048 original size:217 final size:217
Alignment explanation
Indices: 22092561--22093053 Score: 564
Period size: 217 Copynumber: 2.3 Consensus size: 217
22092551 CTTATCTTCT
* * ** * * * *
22092561 TGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCTTGAAGTTGCAGTGGAGCA-G
1 TGAAATTGCAATGAGGCAGACTGAAGATAACAAATCTTATCTCCCTGAAGTTGTAGTGGGGCATA
* * ** * ** *
22092625 GTTAA-AGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTAGATCTTAT
66 CTAAATAAAC-A-AATCCTATCTCCCTGAAGTTGCAGTGGAACGGATTAAAACCATAGATCTTAT
* * *
22092689 CTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTATTATCTCTCTGAAGTTGCAGTGGAGCAGA
129 CTCTCTGAAGTTGCAGAGAGCAGATCACATCGAGTATTATCTCCCTGAAGTTGCAGTGGAGCAGA
* * ** * *
22092754 CTAAGTAATCAAGTTTTATCCTCT
194 CTAAGAAAGCAAGCCTTATCCCCC
* * * ** *
22092778 TGAAGTTGTAGTGAGGCAGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGTAGTGGGGCATA
1 TGAAATTGCAATGAGGCAGACTGAAGATAACAAATCTTATCTCCCTGAAGTTGTAGTGGGGCATA
* *
22092843 CTAAATAAACAAATCCTGTCTCCCTGAAGTTGCAGTGGAACGGATTAAAACCATAGTTCTTATCT
66 CTAAATAAACAAATCCTATCTCCCTGAAGTTGCAGTGGAACGGATTAAAACCATAGATCTTATCT
* *
22092908 CTCTGAAGTTGCAGTAGAGTAGATCACATCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
131 CTCTGAAGTTGCAG-AGAGCAGATCACATCGAGTATTATCTCCCTGAAGTTGCAGTGGAGCAGAC
22092973 TCAAGAAAGCAAGCCTTATCCCCC
195 T-AAGAAAGCAAGCCTTATCCCCC
* * *
22092997 TGAAATTGCAATGGGGCATACT-AA-ATAAACAAATCTTGTCTCCCT-AAGTTGTAGTGG
1 TGAAATTGCAATGAGGCAGACTGAAGAT-AACAAATCTTATCTCCCTGAAGTTGTAGTGG
22093054 AGTGGATTAG
Statistics
Matches: 235, Mismatches: 36, Indels: 10
0.84 0.13 0.04
Matches are distributed among these distances:
217 134 0.57
218 66 0.28
219 35 0.15
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (217 bp):
TGAAATTGCAATGAGGCAGACTGAAGATAACAAATCTTATCTCCCTGAAGTTGTAGTGGGGCATA
CTAAATAAACAAATCCTATCTCCCTGAAGTTGCAGTGGAACGGATTAAAACCATAGATCTTATCT
CTCTGAAGTTGCAGAGAGCAGATCACATCGAGTATTATCTCCCTGAAGTTGCAGTGGAGCAGACT
AAGAAAGCAAGCCTTATCCCCC
Found at i:22093389 original size:19 final size:19
Alignment explanation
Indices: 22093365--22093439 Score: 105
Period size: 19 Copynumber: 3.8 Consensus size: 19
22093355 AATCTTCGAG
22093365 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
22093384 GATATGCATTCTTAGATAT
1 GATATGCAATCTTAGATAT
22093403 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
* *
22093424 GATATGTAATATTAGA
1 GATATGCAATCTTAGA
22093440 AGATATGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 32 0.64
21 18 0.36
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:22093411 original size:21 final size:21
Alignment explanation
Indices: 22093366--22093428 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
22093356 ATCTTCGAGG
22093366 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
*
22093385 ATATGCATTCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
22093406 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
22093427 AT
1 AT
22093429 GTAATATTAG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
19 18 0.45
21 22 0.55
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.40
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:22093472 original size:22 final size:23
Alignment explanation
Indices: 22093418--22093462 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
22093408 ATGCAATCTT
*
22093418 AGATATGA-TATGTAATATTAGA
1 AGATATGATTTTGTAATATTAGA
*
22093440 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTTTGTAATATTAGA
22093463 GATTTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.40, C:0.02, G:0.18, T:0.40
Consensus pattern (23 bp):
AGATATGATTTTGTAATATTAGA
Found at i:22093659 original size:19 final size:22
Alignment explanation
Indices: 22093637--22093676 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
22093627 TGGCTTACTG
22093637 TTTTTTT-CTT-TTT-CGATTA
1 TTTTTTTACTTATTTACGATTA
22093656 TTTTTTTACTTATTTACGATT
1 TTTTTTTACTTATTTACGATT
22093677 TTAAAAAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 3 0.17
21 3 0.17
22 5 0.28
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.70
Consensus pattern (22 bp):
TTTTTTTACTTATTTACGATTA
Found at i:22101504 original size:51 final size:51
Alignment explanation
Indices: 22101405--22101504 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 51
22101395 AATAAATAAT
* * ** *
22101405 TAAATAGATAAAATAATATTATATTTAAATGTTTTAAAAGTAAGAGAATGA
1 TAAATAAATAAAATAATATTACATTTAAATCATTTAAAAGTAACAGAATGA
*
22101456 TAAATAAATAAAATAATATTACATTTAAA-CATTTAAAGGATAACAGAAT
1 TAAATAAATAAAATAATATTACATTTAAATCATTTAAAAG-TAACAGAAT
22101505 AATGAGCAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 7 0.17
51 35 0.83
ACGTcount: A:0.55, C:0.03, G:0.09, T:0.33
Consensus pattern (51 bp):
TAAATAAATAAAATAATATTACATTTAAATCATTTAAAAGTAACAGAATGA
Found at i:22101579 original size:13 final size:14
Alignment explanation
Indices: 22101547--22101579 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
22101537 TATTAAAGAG
22101547 AATAATAAATATAT
1 AATAATAAATATAT
22101561 AA-AATAAATATA-
1 AATAATAAATATAT
22101573 AATAATA
1 AATAATA
22101580 TTAACTTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.11
13 14 0.78
14 2 0.11
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AATAATAAATATAT
Found at i:22110783 original size:10 final size:10
Alignment explanation
Indices: 22110768--22110799 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
22110758 TATTAACATA
22110768 TTTTATTTAT
1 TTTTATTTAT
22110778 TTTTATTTAT
1 TTTTATTTAT
22110788 TTTTATTTAT
1 TTTTATTTAT
22110798 TT
1 TT
22110800 CTATATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTATTTAT
Found at i:22113583 original size:12 final size:14
Alignment explanation
Indices: 22113554--22113589 Score: 58
Period size: 12 Copynumber: 2.7 Consensus size: 14
22113544 CTCAAATTGT
22113554 AATTTATCATATTC
1 AATTTATCATATTC
22113568 AATTTATCA-A-TC
1 AATTTATCATATTC
22113580 AATTTATCAT
1 AATTTATCAT
22113590 TTTTTTATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 11 0.52
13 1 0.05
14 9 0.43
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.47
Consensus pattern (14 bp):
AATTTATCATATTC
Found at i:22114286 original size:13 final size:14
Alignment explanation
Indices: 22114261--22114289 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22114251 AAAGACTAAA
22114261 TTAAACTTACCAAT
1 TTAAACTTACCAAT
22114275 TTAAACTT-CCAAT
1 TTAAACTTACCAAT
22114288 TT
1 TT
22114290 CAAAACCCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (14 bp):
TTAAACTTACCAAT
Found at i:22115792 original size:21 final size:21
Alignment explanation
Indices: 22115756--22115805 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
22115746 AATAAATAAA
*
22115756 ATCATTCA-TGTCAA-TTCTCT
1 ATCATTCACTATCAATTTC-CT
22115776 ATCATTCACTATCAATTTCCT
1 ATCATTCACTATCAATTTCCT
*
22115797 GTCATTCAC
1 ATCATTCAC
22115806 AACTTCTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 8 0.31
21 15 0.58
22 3 0.12
ACGTcount: A:0.26, C:0.28, G:0.04, T:0.42
Consensus pattern (21 bp):
ATCATTCACTATCAATTTCCT
Found at i:22116015 original size:18 final size:19
Alignment explanation
Indices: 22115980--22116017 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
22115970 TGAATATGCC
*
22115980 AACAGAAGCTCGAAAGCTG
1 AACAGAAGCTCAAAAGCTG
22115999 AACAGAAGCT-AAAAGCTG
1 AACAGAAGCTCAAAAGCTG
22116017 A
1 A
22116018 TACACCTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.47, C:0.18, G:0.24, T:0.11
Consensus pattern (19 bp):
AACAGAAGCTCAAAAGCTG
Found at i:22125536 original size:16 final size:16
Alignment explanation
Indices: 22125515--22125545 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
22125505 CAATTTTTTA
22125515 CATAGTTATTTGAGTC
1 CATAGTTATTTGAGTC
22125531 CATAGTTATTTGAGT
1 CATAGTTATTTGAGT
22125546 TTCAAGTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.10, G:0.19, T:0.45
Consensus pattern (16 bp):
CATAGTTATTTGAGTC
Found at i:22125559 original size:18 final size:18
Alignment explanation
Indices: 22125536--22125581 Score: 57
Period size: 13 Copynumber: 2.8 Consensus size: 18
22125526 GAGTCCATAG
22125536 TTATTTGAGTTTCAAGTA
1 TTATTTGAGTTTCAAGTA
22125554 TTA--T---TTTCAAGTA
1 TTATTTGAGTTTCAAGTA
22125567 TTATTTGAGTTTCAA
1 TTATTTGAGTTTCAA
22125582 ATAACTATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 10
0.70 0.00 0.30
Matches are distributed among these distances:
13 12 0.52
15 1 0.04
16 1 0.04
18 9 0.39
ACGTcount: A:0.28, C:0.07, G:0.13, T:0.52
Consensus pattern (18 bp):
TTATTTGAGTTTCAAGTA
Found at i:22127636 original size:36 final size:36
Alignment explanation
Indices: 22127589--22127660 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
22127579 TATTATTGAT
22127589 ACACGAATGGAAAGGTGATAGAGATGGATAATTCAC
1 ACACGAATGGAAAGGTGATAGAGATGGATAATTCAC
22127625 ACACGAATGGAAAGGTGATAGAGATGGATAATTCAC
1 ACACGAATGGAAAGGTGATAGAGATGGATAATTCAC
22127661 TTTGTTTAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.42, C:0.11, G:0.28, T:0.19
Consensus pattern (36 bp):
ACACGAATGGAAAGGTGATAGAGATGGATAATTCAC
Found at i:22131918 original size:12 final size:12
Alignment explanation
Indices: 22131901--22131930 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
22131891 ATCTCACATC
22131901 TATTATCAAAGG
1 TATTATCAAAGG
22131913 TATTATCAAAGG
1 TATTATCAAAGG
*
22131925 AATTAT
1 TATTAT
22131931 GTACAAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (12 bp):
TATTATCAAAGG
Found at i:22135632 original size:13 final size:13
Alignment explanation
Indices: 22135614--22135654 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
22135604 AGAGTTTGGA
*
22135614 TAATAATAGTAAT
1 TAATAATAATAAT
22135627 TAATAATAATAATT
1 TAATAATAATAA-T
*
22135641 TAAAAATAATAAT
1 TAATAATAATAAT
22135654 T
1 T
22135655 TTACTTGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (13 bp):
TAATAATAATAAT
Found at i:22135648 original size:14 final size:14
Alignment explanation
Indices: 22135626--22135655 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22135616 ATAATAGTAA
*
22135626 TTAATAATAATAAT
1 TTAAAAATAATAAT
22135640 TTAAAAATAATAAT
1 TTAAAAATAATAAT
22135654 TT
1 TT
22135656 TACTTGATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TTAAAAATAATAAT
Found at i:22137316 original size:42 final size:43
Alignment explanation
Indices: 22137263--22137344 Score: 123
Period size: 42 Copynumber: 1.9 Consensus size: 43
22137253 CAAAAAATAA
*
22137263 TATTTTAAAAATAAAAAAAATAAAAAT-AAAAATATTTTTAAAG
1 TATTTTAAAAAT-AAAAAAATAAAAATAAAAAATATATTTAAAG
*
22137306 TATTTT-AAAATTAAAAAATAAAAATAAAAAATATATTTA
1 TATTTTAAAAATAAAAAAATAAAAATAAAAAATATATTTA
22137345 TTATATTCGG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
41 13 0.36
42 17 0.47
43 6 0.17
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (43 bp):
TATTTTAAAAATAAAAAAATAAAAATAAAAAATATATTTAAAG
Found at i:22138863 original size:20 final size:20
Alignment explanation
Indices: 22138838--22138877 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
22138828 CGTAAAATGA
* *
22138838 TTTCTGGAAAGTGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
22138858 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
22138878 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:22140117 original size:13 final size:11
Alignment explanation
Indices: 22140085--22140118 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
22140075 GCAGGAATTA
22140085 GTACAATATAT
1 GTACAATATAT
22140096 GTACAATATAT
1 GTACAATATAT
22140107 GTACAATATAT
1 GTACAATATAT
22140118 G
1 G
22140119 AGAAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (11 bp):
GTACAATATAT
Found at i:22141007 original size:16 final size:16
Alignment explanation
Indices: 22140986--22141019 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
22140976 GGACGGAGAG
*
22140986 GAAATGAGGAGGAAAT
1 GAAATGAGAAGGAAAT
22141002 GAAATGAGAAGGAAAT
1 GAAATGAGAAGGAAAT
22141018 GA
1 GA
22141020 GAGGTTGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.35, T:0.12
Consensus pattern (16 bp):
GAAATGAGAAGGAAAT
Found at i:22150318 original size:23 final size:21
Alignment explanation
Indices: 22150292--22150347 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
22150282 TAAAAAGTAA
22150292 AATTTAAAATTTTAATTTTATAT
1 AATTTAAAATTTT-A-TTTATAT
**
22150315 AATTTTTAATTTTATTTATAT
1 AATTTAAAATTTTATTTATAT
22150336 -ATTATAAAATTT
1 AATT-TAAAATTT
22150348 CAGAATTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 3 0.11
21 13 0.46
22 1 0.04
23 11 0.39
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
AATTTAAAATTTTATTTATAT
Found at i:22150749 original size:19 final size:20
Alignment explanation
Indices: 22150701--22150751 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
22150691 TTATATTATT
*
22150701 AAATTACATTATTACCCTTA
1 AAATTACATTATTAACCTTA
* *
22150721 ATA-TATATTATTAACCTTA
1 AAATTACATTATTAACCTTA
22150740 AAATTA-ATTATT
1 AAATTACATTATT
22150752 GAGCCAAGCT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 22 0.85
20 4 0.15
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (20 bp):
AAATTACATTATTAACCTTA
Found at i:22159300 original size:13 final size:13
Alignment explanation
Indices: 22159276--22159342 Score: 53
Period size: 13 Copynumber: 5.2 Consensus size: 13
22159266 AGATCTTCAT
*
22159276 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
*
22159289 TGTTTTTGAAAAG
1 TGCTTTTGAAAAG
* * *
22159302 TGCTGTGGAAAAA
1 TGCTTTTGAAAAG
** *
22159315 TATTTTTGAGAAG
1 TGCTTTTGAAAAG
*
22159328 TACTTTTGAAAAG
1 TGCTTTTGAAAAG
22159341 TG
1 TG
22159343 ATTTAAAATT
Statistics
Matches: 39, Mismatches: 15, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
13 39 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:22159313 original size:26 final size:26
Alignment explanation
Indices: 22159284--22159342 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 26
22159274 ATTGCTTTTA
*
22159284 AAAAGTGTTTTTGAAAAGTGCTGTGG
1 AAAAGTGTTTTTGAAAAGTACTGTGG
* * * * *
22159310 AAAAATATTTTTGAGAAGTACTTTTG
1 AAAAGTGTTTTTGAAAAGTACTGTGG
22159336 AAAAGTG
1 AAAAGTG
22159343 ATTTAAAATT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.37, C:0.03, G:0.24, T:0.36
Consensus pattern (26 bp):
AAAAGTGTTTTTGAAAAGTACTGTGG
Found at i:22160041 original size:14 final size:15
Alignment explanation
Indices: 22160022--22160053 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
22160012 GTGGTTATAG
22160022 TTAAAATA-ATAAAA
1 TTAAAATAGATAAAA
22160036 TTAAAATAGATAAAA
1 TTAAAATAGATAAAA
22160051 TTA
1 TTA
22160054 TGATTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
TTAAAATAGATAAAA
Found at i:22165096 original size:21 final size:22
Alignment explanation
Indices: 22165065--22165119 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
22165055 TTTCCCCCTA
*
22165065 TTGCATGTGGCTATACAA-TTGT
1 TTGCA-GTGGCTATACAATTTAT
* *
22165087 TTGCAGTGGCTGTATAATTTAT
1 TTGCAGTGGCTATACAATTTAT
22165109 TTGCAGTGGCT
1 TTGCAGTGGCT
22165120 CCATCTGCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 10 0.34
22 19 0.66
ACGTcount: A:0.20, C:0.13, G:0.25, T:0.42
Consensus pattern (22 bp):
TTGCAGTGGCTATACAATTTAT
Found at i:22165527 original size:52 final size:52
Alignment explanation
Indices: 22165449--22165571 Score: 246
Period size: 52 Copynumber: 2.4 Consensus size: 52
22165439 GCTCACTGAT
22165449 AAATGTTTGAAATGGTGCTGTTAATTTGGTACTGTTAACTTTGAATGCTTTG
1 AAATGTTTGAAATGGTGCTGTTAATTTGGTACTGTTAACTTTGAATGCTTTG
22165501 AAATGTTTGAAATGGTGCTGTTAATTTGGTACTGTTAACTTTGAATGCTTTG
1 AAATGTTTGAAATGGTGCTGTTAATTTGGTACTGTTAACTTTGAATGCTTTG
22165553 AAATGTTTGAAATGGTGCT
1 AAATGTTTGAAATGGTGCT
22165572 ATTACTCTTC
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.26, C:0.07, G:0.24, T:0.43
Consensus pattern (52 bp):
AAATGTTTGAAATGGTGCTGTTAATTTGGTACTGTTAACTTTGAATGCTTTG
Found at i:22165763 original size:116 final size:116
Alignment explanation
Indices: 22165501--22165844 Score: 582
Period size: 116 Copynumber: 2.9 Consensus size: 116
22165491 GAATGCTTTG
22165501 AAATGTTTGAAATGGTGCTGTTAATTTGGTACTGTTAACTTTGAATGCTTTGAAATGTTTGAAAT
1 AAATGTTTGAAATGGTGCTGTTAATTTGGTACTGTTAACTTTGAATGCTTTGAAATGTTTGAAAT
*
22165566 GGTGCTATTACT-CTTCAACTTTGAATGCTTTGAAATGTTTGCTCACTGAT
66 GGTGCTGTTACTACTTCAACTTTGAATGCTTTGAAATGTTTGCTCACTGAT
22165616 AAATGTTTGAAATGGTGCTGTTAATTTGGTACTGTTAACTTTGAATGCTTTGAAATGTTTGAAAT
1 AAATGTTTGAAATGGTGCTGTTAATTTGGTACTGTTAACTTTGAATGCTTTGAAATGTTTGAAAT
* *
22165681 AGTGTTGTTACTACTTCAACTTTGAATGCTTTGAAATGTTTGCTCACTGAT
66 GGTGCTGTTACTACTTCAACTTTGAATGCTTTGAAATGTTTGCTCACTGAT
22165732 AAATGTTTGAAATGGTGCTGTTAATTTGGTACTGTTAACTTTGAATGCTTTGAAATGTTTGAAAT
1 AAATGTTTGAAATGGTGCTGTTAATTTGGTACTGTTAACTTTGAATGCTTTGAAATGTTTGAAAT
* *
22165797 GGTGCTGTTAATTTGGTACTGTTAACTTTGAATGCTTTGAAATGTTTG
66 GGTGCTGTT-A----CTACT-TCAACTTTGAATGCTTTGAAATGTTTG
22165845 AAATGAATTA
Statistics
Matches: 215, Mismatches: 7, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
115 74 0.34
116 110 0.51
117 1 0.00
121 4 0.02
122 26 0.12
ACGTcount: A:0.26, C:0.10, G:0.21, T:0.43
Consensus pattern (116 bp):
AAATGTTTGAAATGGTGCTGTTAATTTGGTACTGTTAACTTTGAATGCTTTGAAATGTTTGAAAT
GGTGCTGTTACTACTTCAACTTTGAATGCTTTGAAATGTTTGCTCACTGAT
Found at i:22165810 original size:52 final size:52
Alignment explanation
Indices: 22165732--22165849 Score: 236
Period size: 52 Copynumber: 2.3 Consensus size: 52
22165722 GCTCACTGAT
22165732 AAATGTTTGAAATGGTGCTGTTAATTTGGTACTGTTAACTTTGAATGCTTTG
1 AAATGTTTGAAATGGTGCTGTTAATTTGGTACTGTTAACTTTGAATGCTTTG
22165784 AAATGTTTGAAATGGTGCTGTTAATTTGGTACTGTTAACTTTGAATGCTTTG
1 AAATGTTTGAAATGGTGCTGTTAATTTGGTACTGTTAACTTTGAATGCTTTG
22165836 AAATGTTTGAAATG
1 AAATGTTTGAAATG
22165850 AATTAACACC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.27, C:0.07, G:0.23, T:0.43
Consensus pattern (52 bp):
AAATGTTTGAAATGGTGCTGTTAATTTGGTACTGTTAACTTTGAATGCTTTG
Found at i:22166935 original size:23 final size:23
Alignment explanation
Indices: 22166866--22166938 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 23
22166856 GTATATTAAA
22166866 ATATAATTAAAATCATTTTGATT
1 ATATAATTAAAATCATTTTGATT
*** * * *
22166889 ATATAA-TATTTTTA-ATTGA-A
1 ATATAATTAAAATCATTTTGATT
22166909 ATATAATTAAAATCATTTTGATT
1 ATATAATTAAAATCATTTTGATT
22166932 ATATAAT
1 ATATAAT
22166939 ATTAATATAA
Statistics
Matches: 35, Mismatches: 12, Indels: 6
0.66 0.23 0.11
Matches are distributed among these distances:
20 6 0.17
21 8 0.23
22 8 0.23
23 13 0.37
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (23 bp):
ATATAATTAAAATCATTTTGATT
Found at i:22166965 original size:43 final size:41
Alignment explanation
Indices: 22166860--22166965 Score: 142
Period size: 43 Copynumber: 2.5 Consensus size: 41
22166850 TTTAAGGTAT
22166860 ATTAAAATATAATTAAAATCATTTTGATTATATAATATTTTTA
1 ATTAAAATATAATTAAAATCATTTTGATTATATAATA--TTTA
*
22166903 ATTGAAATATAATTAAAATCATTTTGATTATATAATA-TTA
1 ATTAAAATATAATTAAAATCATTTTGATTATATAATATTTA
*
22166943 ATATAAAACTATACATTTAAATC
1 AT-TAAAA-TATA-ATTAAAATC
22166966 CAAAATATAA
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
40 5 0.09
41 4 0.07
42 4 0.07
43 44 0.77
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (41 bp):
ATTAAAATATAATTAAAATCATTTTGATTATATAATATTTA
Found at i:22170243 original size:91 final size:90
Alignment explanation
Indices: 22170117--22170323 Score: 290
Period size: 91 Copynumber: 2.3 Consensus size: 90
22170107 TTGATTTTAG
* *
22170117 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
* *
22170182 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTA-TTTAAATTATA
* *
22170209 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTATA
22170274 TGTAATAATTATTATTTAAATTATA
66 TGTAATAATTATTATTTAAATTATA
* * * *
22170299 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
22170324 GTTATAATTA
Statistics
Matches: 104, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
90 31 0.30
91 54 0.52
92 19 0.18
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (90 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTATA
TGTAATAATTATTATTTAAATTATA
Found at i:22170494 original size:16 final size:16
Alignment explanation
Indices: 22170473--22170514 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
22170463 TTATTAAATT
*
22170473 ATATATTTTAATTATA
1 ATATATTTTAATAATA
22170489 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
22170504 AT-TATGTTTAA
1 ATATAT-TTTAA
22170515 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:22170499 original size:15 final size:15
Alignment explanation
Indices: 22170464--22170505 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
22170454 TTAAGAATTT
*
22170464 TATTAAATTAT-ATA
1 TATTTAATTATAATA
22170478 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
22170492 TATTTAATAATAAT
1 TATTTAATTATAAT
22170506 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:22170633 original size:157 final size:157
Alignment explanation
Indices: 22170448--22170764 Score: 598
Period size: 157 Copynumber: 2.0 Consensus size: 157
22170438 ATAAGAATAT
22170448 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
*
22170513 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
22170578 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
22170605 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
*
22170670 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAAGAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
22170735 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
22170762 TAA
1 TAA
22170765 GAGTATTCTA
Statistics
Matches: 156, Mismatches: 4, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
157 156 1.00
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:22170651 original size:16 final size:16
Alignment explanation
Indices: 22170630--22170671 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
22170620 TTATTAAATT
*
22170630 ATATATTTTAATTATA
1 ATATATTTTAATAATA
22170646 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
22170661 AT-TATGTTTAA
1 ATATAT-TTTAA
22170672 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:22170656 original size:15 final size:15
Alignment explanation
Indices: 22170621--22170662 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
22170611 TTAAGAATTT
*
22170621 TATTAAATTAT-ATA
1 TATTTAATTATAATA
22170635 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
22170649 TATTTAATAATAAT
1 TATTTAATTATAAT
22170663 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:22170843 original size:39 final size:40
Alignment explanation
Indices: 22170800--22170903 Score: 120
Period size: 45 Copynumber: 2.5 Consensus size: 40
22170790 TCCATTATGT
22170800 TATTACACCTCTATTCCATTCAACCAAACACAAGA-TTAC
1 TATTACACCTCTATTCCATTCAACCAAACACAAGATTTAC
*** *
22170839 TATTACACCTCTATTCCATTACATTCAACCAAACAGTTGATTTGC
1 TATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTAC
22170884 TATTACACCTCTATTCCATT
1 TATTACACCTCTATTCCATT
22170904 ACACCTCTAA
Statistics
Matches: 55, Mismatches: 4, Indels: 11
0.79 0.06 0.16
Matches are distributed among these distances:
39 15 0.27
40 5 0.09
44 17 0.31
45 18 0.33
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.35
Consensus pattern (40 bp):
TATTACACCTCTATTCCATTCAACCAAACACAAGATTTAC
Found at i:22170896 original size:45 final size:44
Alignment explanation
Indices: 22170816--22170906 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 44
22170806 ACCTCTATTC
22170816 CATTCAACCAAACACAAGATTACTATTACACCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACACCTCTATTCCATTA
*** *
22170860 CATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCCATTA
1 CATTCAACCAAACACAAGA-TTACTATTACACCTCTATTCCATTA
22170905 CA
1 CA
22170907 CCTCTAATCC
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 16 0.38
45 26 0.62
ACGTcount: A:0.35, C:0.29, G:0.04, T:0.32
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACACCTCTATTCCATTA
Found at i:22170906 original size:16 final size:16
Alignment explanation
Indices: 22170885--22170922 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
22170875 TTGATTTGCT
*
22170885 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
22170901 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
22170917 AATACA
1 ATTACA
22170923 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:22174919 original size:29 final size:29
Alignment explanation
Indices: 22174794--22174919 Score: 80
Period size: 29 Copynumber: 4.2 Consensus size: 29
22174784 AACTAAGAAT
22174794 TTAAATAATTTTTTAAAATTTTAAAAATTAA
1 TTAAAT-A-TTTTTAAAATTTTAAAAATTAA
** *
22174825 AAAATATATTTTTAAAA-ATTAAAAA-T-A
1 TTAA-ATATTTTTAAAATTTTAAAAATTAA
* * *
22174852 TTAAA-ATTATTGTAATAAATGTATAAATTATAA
1 TTAAATATT-TT-TAA-AATTTTA-AAAAT-TAA
**
22174885 AAAAATATTTTTAAAATTTTAAAAATTAA
1 TTAAATATTTTTAAAATTTTAAAAATTAA
22174914 TTAAAT
1 TTAAAT
22174920 GCTGACATGT
Statistics
Matches: 70, Mismatches: 15, Indels: 22
0.65 0.14 0.21
Matches are distributed among these distances:
25 3 0.04
26 3 0.04
27 6 0.09
28 3 0.04
29 16 0.23
30 16 0.23
31 8 0.11
32 6 0.09
33 6 0.09
34 3 0.04
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (29 bp):
TTAAATATTTTTAAAATTTTAAAAATTAA
Found at i:22176562 original size:26 final size:27
Alignment explanation
Indices: 22176531--22176610 Score: 92
Period size: 31 Copynumber: 2.9 Consensus size: 27
22176521 CCTATTTTTT
*
22176531 AATAAACACTAAAAAATA-ATTTTAAA
1 AATAAACAATAAAAAATATATTTTAAA
*
22176557 AATAAACAAATAAAAATAAAAGTATTTTAAA
1 AATAAAC-AAT-AAAA-AATA-TATTTTAAA
22176588 AATAAA-AATAAAAAATATATTTT
1 AATAAACAATAAAAAATATATTTT
22176611 TTTTAAATTC
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
26 13 0.28
27 5 0.11
28 8 0.17
29 6 0.13
31 14 0.30
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.29
Consensus pattern (27 bp):
AATAAACAATAAAAAATATATTTTAAA
Found at i:22179669 original size:18 final size:17
Alignment explanation
Indices: 22179631--22179688 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
22179621 CAACCCAATT
22179631 TTTATTTTTATTATTTA
1 TTTATTTTTATTATTTA
*
22179648 TTTATTTTTCTT-TCTTA
1 TTTATTTTTATTAT-TTA
*
22179665 CTTTA-TTTTATTTTATTA
1 -TTTATTTTTATTAT-TTA
22179683 TTTATT
1 TTTATT
22179689 ACTTATTTGG
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
16 1 0.03
17 24 0.71
18 9 0.26
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTATTTTTATTATTTA
Found at i:22183966 original size:7 final size:7
Alignment explanation
Indices: 22183956--22183983 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
22183946 AACATTTTTT
22183956 TGCAAAA
1 TGCAAAA
22183963 TGCAAAA
1 TGCAAAA
22183970 TGCAAAA
1 TGCAAAA
22183977 TGCAAAA
1 TGCAAAA
22183984 AGAGGTTGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.14
Consensus pattern (7 bp):
TGCAAAA
Found at i:22196897 original size:22 final size:21
Alignment explanation
Indices: 22196872--22196929 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 21
22196862 TTCTTTTCTT
22196872 TATTTATTTCATTTACTTATTA
1 TATTTA-TTCATTTACTTATTA
22196894 TATTTA--C-TTTA-TTATTA
1 TATTTATTCATTTACTTATTA
22196911 TATTATATAT-ATTTACTTA
1 TATT-TAT-TCATTTACTTA
22196930 AATATTAGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
17 10 0.33
18 6 0.20
19 1 0.03
21 4 0.13
22 9 0.30
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTTATTCATTTACTTATTA
Found at i:22196908 original size:17 final size:18
Alignment explanation
Indices: 22196853--22196914 Score: 60
Period size: 17 Copynumber: 3.6 Consensus size: 18
22196843 TTTGTTCTTT
* *
22196853 TTATTATTTTTC-TTTTC
1 TTATTATATTTCATTTAC
22196870 TTTATT-TATTTCATTTAC
1 -TTATTATATTTCATTTAC
22196888 TTATTATATTT-ACTTTA-
1 TTATTATATTTCA-TTTAC
22196905 TTATTATATT
1 TTATTATATT
22196915 ATATATATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
17 21 0.54
18 18 0.46
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (18 bp):
TTATTATATTTCATTTAC
Found at i:22196934 original size:14 final size:13
Alignment explanation
Indices: 22196882--22196961 Score: 53
Period size: 13 Copynumber: 6.2 Consensus size: 13
22196872 TATTTATTTC
*
22196882 ATTTACTTATTAT
1 ATTTACTTAATAT
*
22196895 ATTTACTTTAT-T
1 ATTTACTTAATAT
22196907 ATTATA-TTATATAT
1 ATT-TACTTA-ATAT
22196921 ATTTACTTAA-AT
1 ATTTACTTAATAT
*
22196933 A-TTAGTTAATACAT
1 ATTTACTTAAT--AT
22196947 ATTTTA-TTAATAT
1 A-TTTACTTAATAT
22196960 AT
1 AT
22196962 ACATATGTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 19
0.70 0.05 0.25
Matches are distributed among these distances:
11 7 0.13
12 10 0.19
13 19 0.35
14 10 0.19
15 5 0.09
16 3 0.06
ACGTcount: A:0.38, C:0.05, G:0.01, T:0.56
Consensus pattern (13 bp):
ATTTACTTAATAT
Found at i:22196935 original size:26 final size:25
Alignment explanation
Indices: 22196888--22196936 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
22196878 TTTCATTTAC
* *
22196888 TTATTATATTTACTTTATTATTATA
1 TTATTATATTTACTTAAATATTATA
22196913 TTATATATATTTACTTAAATATTA
1 TTAT-TATATTTACTTAAATATTA
22196937 GTTAATACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (25 bp):
TTATTATATTTACTTAAATATTATA
Found at i:22196948 original size:26 final size:26
Alignment explanation
Indices: 22196893--22196950 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
22196883 TTTACTTATT
* * * *
22196893 ATATTTACTTTATTATTATATTATAT
1 ATATTTACTTAAATATTATATAATAC
22196919 ATATTTACTTAAATATTAGT-TAATAC
1 ATATTTACTTAAATATTA-TATAATAC
22196945 ATATTT
1 ATATTT
22196951 TATTAATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 26 0.96
27 1 0.04
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (26 bp):
ATATTTACTTAAATATTATATAATAC
Found at i:22199330 original size:87 final size:86
Alignment explanation
Indices: 22199177--22199339 Score: 220
Period size: 87 Copynumber: 1.9 Consensus size: 86
22199167 TTTAATTCGG
* * * *** * *
22199177 TGAATTCATCATGTCTGTCTCAATAAGACCACCCAAATTTTGGGATATGAACTCATTAAGAATAA
1 TGAATTCATCAAGCCTGTCTCAATAAGAACACCCAAACCCTGAGATATGAACTCATTAAAAATAA
22199242 GAAATTCAACCTCACATGTCAA
66 G-AATTCAACCTCACATGTCAA
*
22199264 TGAATTCATCAAGCCTGTCTCAATAAGAACACCCAAACCCTGAGATATGAATTCA-TAAAAAGTA
1 TGAATTCATCAAGCCTGTCTCAATAAGAACACCCAAACCCTGAGATATGAACTCATTAAAAA-TA
22199328 AGAATTCAACCT
65 AGAATTCAACCT
22199340 TATGCATGTA
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
86 15 0.23
87 51 0.77
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.26
Consensus pattern (86 bp):
TGAATTCATCAAGCCTGTCTCAATAAGAACACCCAAACCCTGAGATATGAACTCATTAAAAATAA
GAATTCAACCTCACATGTCAA
Found at i:22207151 original size:16 final size:16
Alignment explanation
Indices: 22207130--22207161 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22207120 ATTTTGTTGC
*
22207130 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
22207146 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
22207162 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:22207465 original size:51 final size:51
Alignment explanation
Indices: 22207379--22207578 Score: 228
Period size: 51 Copynumber: 4.0 Consensus size: 51
22207369 ATTAATGATA
* * * * *
22207379 CCGGTTCACATAGTAGCCTGTACATAATACTACACATGTGACCATCACTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT
* ** *
22207430 CCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATTA-AAGCTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCA-CTAT
* * * *
22207481 CCGGTACGCATAGTAGCCTGCACATAGTAC-ACACATGCGACCTATCA-T-T
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTAT
*
22207530 CTGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
22207579 TTCACTTTCA
Statistics
Matches: 122, Mismatches: 22, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
49 32 0.26
50 21 0.17
51 68 0.56
52 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.24
Consensus pattern (51 bp):
CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT
Found at i:22207555 original size:100 final size:102
Alignment explanation
Indices: 22207387--22207570 Score: 293
Period size: 100 Copynumber: 1.8 Consensus size: 102
22207377 TACCGGTTCA
* *
22207387 CATAGTAGCCTGTACATAATACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAATACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTGCA
22207452 CATAGTACTACACACGTGATTAAAGCTATCCGGTACG
66 CATAGTACTACACACGTGATTAAAGCTATCCGGTACG
* * *
22207489 CATAGTAGCCTGCACATAGTAC-ACACATGCGACCTATCA-T-TCTGGTACACGTAGTAGCCTGC
1 CATAGTAGCCTGCACATAATACTACACATGCGACC-ATCACTATCCGATACACGTAGTAGCCTGC
22207551 ACATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
22207571 CCATCACTTT
Statistics
Matches: 76, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
100 40 0.53
101 12 0.16
102 24 0.32
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAATACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATTAAAGCTATCCGGTACG
Found at i:22210240 original size:21 final size:21
Alignment explanation
Indices: 22210215--22210255 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
22210205 TTTCTACAAC
22210215 TAAAAAAATATCT-TGAAAAA
1 TAAAAAAATATCTCTGAAAAA
*
22210235 TAAAAAAATATTTCTGAAAAA
1 TAAAAAAATATCTCTGAAAAA
22210256 AGGAGCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (21 bp):
TAAAAAAATATCTCTGAAAAA
Found at i:22211162 original size:15 final size:15
Alignment explanation
Indices: 22211142--22211175 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
22211132 CCTAAAGTCA
22211142 GAAATTTACACCTAT
1 GAAATTTACACCTAT
22211157 GAAATTTACACCTAT
1 GAAATTTACACCTAT
22211172 GAAA
1 GAAA
22211176 GTTGGTAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (15 bp):
GAAATTTACACCTAT
Found at i:22224690 original size:18 final size:18
Alignment explanation
Indices: 22224664--22224698 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
22224654 TATTAAAAGT
*
22224664 TAAATATTTCCCAAATTC
1 TAAACATTTCCCAAATTC
22224682 TAAACATTTCCCAAATT
1 TAAACATTTCCCAAATT
22224699 TAGACTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.37
Consensus pattern (18 bp):
TAAACATTTCCCAAATTC
Done.