Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 85 of 120
Found at i:10962181 original size:30 final size:29
Alignment explanation
Indices: 10962103--10962182 Score: 74
Period size: 30 Copynumber: 2.7 Consensus size: 29
10962093 AGTTTTGAGG
*
10962103 GTTTTAGGGTTTGGTTTTAAGGTATTGAA
1 GTTTTAGGGTTTGGTTTTAAGGTATTAAA
* * *
10962132 GGTTTAGAGTTTTGATTTT-AGAGT-TTAAA
1 GTTTTAG-GGTTTGGTTTTAAG-GTATTAAA
10962161 GATTTTAGGGTTTCGGTTTTAA
1 G-TTTTAGGGTTT-GGTTTTAA
10962183 AATTTAAGGT
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
29 17 0.44
30 21 0.54
31 1 0.03
ACGTcount: A:0.23, C:0.01, G:0.28, T:0.49
Consensus pattern (29 bp):
GTTTTAGGGTTTGGTTTTAAGGTATTAAA
Found at i:10962282 original size:16 final size:16
Alignment explanation
Indices: 10962263--10962323 Score: 79
Period size: 16 Copynumber: 3.9 Consensus size: 16
10962253 GGAATTTCAA
*
10962263 ATTTTTGGGGTTTTGG
1 ATTTTAGGGGTTTTGG
*
10962279 ATTTTAGGGG-TTTAG
1 ATTTTAGGGGTTTTGG
* *
10962294 ATTTAAGGGATTTTGG
1 ATTTTAGGGGTTTTGG
10962310 ATTTTAGGGGTTTT
1 ATTTTAGGGGTTTT
10962324 AAAAACCTAG
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
15 12 0.32
16 25 0.68
ACGTcount: A:0.16, C:0.00, G:0.33, T:0.51
Consensus pattern (16 bp):
ATTTTAGGGGTTTTGG
Found at i:10964084 original size:36 final size:36
Alignment explanation
Indices: 10964044--10964246 Score: 123
Period size: 36 Copynumber: 5.6 Consensus size: 36
10964034 ATTAACGACA
* * *
10964044 ACTGGGACTGAATCGTAAGTTAGAGAAATAAAAATG
1 ACTGGGACTAAATCGCAAGTCAGAGAAATAAAAATG
* *
10964080 ACTGGGATTAAATCGCAAGTCAGAGAAATAAAAGTG
1 ACTGGGACTAAATCGCAAGTCAGAGAAATAAAAATG
* * * * *
10964116 ATTGAGATTAAA-C-CATGAGTTA-AGAAACTATAGGAATG
1 ACTGGGACTAAATCGCA--AGTCAGAGAAA-TA-A-AAATG
* * *
10964154 ACTGGGATTAAATCGCAAGTCAGA-AAGTAAAAGTG
1 ACTGGGACTAAATCGCAAGTCAGAGAAATAAAAATG
* *
10964189 A-TCGGGATTAAATCGCAAGTCA-AGAAGTAAATAATCG
1 ACT-GGGACTAAATCGCAAGTCAGAGAAATAAA-AAT-G
* *
10964226 ATTGGGAC-AACACCGCAAGTC
1 ACTGGGACTAA-ATCGCAAGTC
10964247 GAAATAAAGA
Statistics
Matches: 134, Mismatches: 19, Indels: 27
0.74 0.11 0.15
Matches are distributed among these distances:
34 4 0.03
35 36 0.27
36 52 0.39
37 18 0.13
38 20 0.15
39 2 0.01
40 2 0.01
ACGTcount: A:0.43, C:0.12, G:0.24, T:0.21
Consensus pattern (36 bp):
ACTGGGACTAAATCGCAAGTCAGAGAAATAAAAATG
Found at i:10964198 original size:35 final size:35
Alignment explanation
Indices: 10964067--10964219 Score: 129
Period size: 35 Copynumber: 4.3 Consensus size: 35
10964057 CGTAAGTTAG
*
10964067 AGAAA-TAAAAATGACTGGGATTAAATCGCAAGTC
1 AGAAAGTAAAAGTGACTGGGATTAAATCGCAAGTC
* * * *
10964101 AGAGAAATAAAAGTGATTGAGATTAAA-C-CATGAGTTA
1 AGA-AAGTAAAAGTGACTGGGATTAAATCGCA--AG-TC
*
10964138 AGAAACTATAGGAA-TGACTGGGATTAAATCGCAAGTC
1 AGAAAGTA-A--AAGTGACTGGGATTAAATCGCAAGTC
10964175 AGAAAGTAAAAGTGA-TCGGGATTAAATCGCAAGTC
1 AGAAAGTAAAAGTGACT-GGGATTAAATCGCAAGTC
10964210 A-AGAAGTAAA
1 AGA-AAGTAAA
10964220 TAATCGATTG
Statistics
Matches: 97, Mismatches: 9, Indels: 25
0.74 0.07 0.19
Matches are distributed among these distances:
34 9 0.09
35 32 0.33
36 24 0.25
37 13 0.13
38 14 0.14
39 3 0.03
40 2 0.02
ACGTcount: A:0.46, C:0.10, G:0.23, T:0.21
Consensus pattern (35 bp):
AGAAAGTAAAAGTGACTGGGATTAAATCGCAAGTC
Found at i:10964434 original size:34 final size:34
Alignment explanation
Indices: 10964393--10964459 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
10964383 TAAGGATCAT
*
10964393 GATTAAATCGTAAATCAGAGAATAAAAAGATCGA
1 GATTAAATCATAAATCAGAGAATAAAAAGATCGA
10964427 GATTAAATCATAAATCAGAGAATAAAAAGATCG
1 GATTAAATCATAAATCAGAGAATAAAAAGATCG
10964460 GGAATAAACC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.54, C:0.09, G:0.16, T:0.21
Consensus pattern (34 bp):
GATTAAATCATAAATCAGAGAATAAAAAGATCGA
Found at i:10964452 original size:19 final size:19
Alignment explanation
Indices: 10964396--10964452 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
10964386 GGATCATGAT
*
10964396 TAAATCGTAAATCAGAGAA
1 TAAATCATAAATCAGAGAA
* *
10964415 TAAA--A-AGATC-GAGAT
1 TAAATCATAAATCAGAGAA
10964430 TAAATCATAAATCAGAGAA
1 TAAATCATAAATCAGAGAA
10964449 TAAA
1 TAAA
10964453 AAGATCGGGA
Statistics
Matches: 29, Mismatches: 5, Indels: 8
0.69 0.12 0.19
Matches are distributed among these distances:
15 8 0.28
16 4 0.14
17 1 0.03
18 4 0.14
19 12 0.41
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (19 bp):
TAAATCATAAATCAGAGAA
Found at i:10964805 original size:170 final size:171
Alignment explanation
Indices: 10964447--10965432 Score: 1260
Period size: 170 Copynumber: 5.8 Consensus size: 171
10964437 TAAATCAGAG
* * * *
10964447 AATAAAAAGATCGGGAATAAACCACGAGTTAGAGGTT---AACAATCGAGATTAAACTGTGAATT
1 AATAAAAAGATCGGGAATAAACCACAAGTCAGAGGTTAACAACAATCGAGATTAAACTATGATTT
* ** * * * *
10964509 TAAATTAAA-AAATTAGGATTGAACCGTGAATTAGAGAATAAAGAGACTGGGATTAAACCGCGAA
66 TAAATTAAAGAGATCGGGATTGAACCGCGAATTAGAGAATAAAGAGACCGGGATTAAATCGCGAG
* *
10964573 TCAAAAAATGACGTTAACTTGGATTGAGTCACAAGTCAGAA
131 TCAAAAAATGACGTTAACTTGGATTGAATCACAAGTCAAAA
*
10964614 AATAAAAAGATCGGAAATAAACCACAAGTCAGAGGTTAACAACAATCGAGATTAAACTATGATTT
1 AATAAAAAGATCGGGAATAAACCACAAGTCAGAGGTTAACAACAATCGAGATTAAACTATGATTT
* * * *
10964679 TAAATTAAAGAGTTCGGGATTGAACCGCGAATTAGAGAATAAAGAGACCGAGATTAAATCGTGAA
66 TAAATTAAAGAGATCGGGATTGAACCGCGAATTAGAGAATAAAGAGACCGGGATTAAATCGCGAG
* *
10964744 TCAAAAAATGACATTAACTTGGATT-AATCATAAGTCAAAA
131 TCAAAAAATGACGTTAACTTGGATTGAATCACAAGTCAAAA
* * * *
10964784 AATAAAAAGATCGGGAATAAACCACGAGTCAAAGGTTAATAACAATCGAGATTAAACAATGATTT
1 AATAAAAAGATCGGGAATAAACCACAAGTCAGAGGTTAACAACAATCGAGATTAAACTATGATTT
* * * * *
10964849 TAAATTAAAGAGATC-GGATTGAACCACAAATTAGAGAA-AAAAAGATCGAGATTAAATCGCGAG
66 TAAATTAAAGAGATCGGGATTGAACCGCGAATTAGAGAATAAAGAGACCGGGATTAAATCGCGAG
*
10964912 TCAAAAAATGATGTTAACTTGGATTGAATCACAAGT-AAAA
131 TCAAAAAATGACGTTAACTTGGATTGAATCACAAGTCAAAA
** * *
10964952 AATAAAAAGATCGAAAATAAACCACGAA-TCAAAGGTTAACAACAATCGAGATTAAACTACGATT
1 AATAAAAAGATCGGGAATAAACCAC-AAGTCAGAGGTTAACAACAATCGAGATTAAACTATGATT
** * *
10965016 TTAAATTAAAGAGATCGGGATT-AACCGTAAATTAAAAAATAAAGAGACCGGGATTAAATCGCGA
65 TTAAATTAAAGAGATCGGGATTGAACCGCGAATTAGAGAATAAAGAGACCGGGATTAAATCGCGA
10965080 GTCAAAAAATGACGTTAACTTGGATTGAATCACAAGTCAAAA
130 GTCAAAAAATGACGTTAACTTGGATTGAATCACAAGTCAAAA
* * *
10965122 AATAAAAAGATTGAGAATAAACCACGAA-TCAGAGGTTAACAACAATTGAGATTAAACTATGATT
1 AATAAAAAGATCGGGAATAAACCAC-AAGTCAGAGGTTAACAACAATCGAGATTAAACTATGATT
* * * * **
10965186 TTAAATTAAAGAGATCGGGATTGAACCACGAATTAAAGAATAAAGAGATCGGGATTTAAACCATG
65 TTAAATTAAAGAGATCGGGATTGAACCGCGAATTAGAGAATAAAGAGACCGGGA-TTAAATCGCG
*
10965251 AGTCAAAAAATGACGTTAACTTGGATTGAATCATAAGTCAAAA
129 AGTCAAAAAATGACGTTAACTTGGATTGAATCACAAGTCAAAA
* * * *
10965294 AATAAAAA-AACTAGGAATAAACCACAAATCAGAGGTTAACAACAACCGAGATTAAACTATGATT
1 AATAAAAAGATC-GGGAATAAACCACAAGTCAGAGGTTAACAACAATCGAGATTAAACTATGATT
* * ** * * * * * * * *
10965358 TTGAATTAACGAGATTAGGATTGAATCG-TAAATCGAAAGATAAAGAGATCAGGATTAAATTGCG
65 TTAAATTAAAGAGATCGGGATTGAACCGCGAATTAGAGA-ATAAAGAGACCGGGATTAAATCGCG
10965422 AGTCAAAAAAT
129 AGTCAAAAAAT
10965433 AAAATAATCG
Statistics
Matches: 722, Mismatches: 83, Indels: 24
0.87 0.10 0.03
Matches are distributed among these distances:
167 34 0.05
168 133 0.18
169 93 0.13
170 203 0.28
171 121 0.17
172 138 0.19
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.23
Consensus pattern (171 bp):
AATAAAAAGATCGGGAATAAACCACAAGTCAGAGGTTAACAACAATCGAGATTAAACTATGATTT
TAAATTAAAGAGATCGGGATTGAACCGCGAATTAGAGAATAAAGAGACCGGGATTAAATCGCGAG
TCAAAAAATGACGTTAACTTGGATTGAATCACAAGTCAAAA
Found at i:10965018 original size:338 final size:339
Alignment explanation
Indices: 10964427--10965432 Score: 1312
Period size: 338 Copynumber: 3.0 Consensus size: 339
10964417 AAAAGATCGA
* * * *
10964427 GATTAAATCATAAATCAGAGAATAAAAAGATCGGGAATAAACCACGAGTTAGAGG-T--TAACAA
1 GATTAAATCATAAGTCAAAAAATAAAAAGATCGGGAATAAACCACGAGTCAGAGGTTAATAACAA
* * * * **
10964489 TCGAGATTAAACTGTGAATTTAAATTAAA-AAATTAGGATTGAACCGTGAATTAGAGAATAAAGA
66 TCGAGATTAAACTATGATTTTAAATTAAAGAGA-TCGGATTGAACCACGAATTAGAGAATAAAGA
* * *
10964553 GA-CTGGGATTAAACCGCGAATCAAAAAATGACGTTAACTTGGATTGAGTCACAAGTCAGAAAAT
130 GATC-GGGATTAAACCGCGAGTCAAAAAATGACGTTAACTTGGATTGAATCACAAGTCAAAAAAT
*
10964617 AAAAAGATCGGAAATAAACCACAAGTCAGAGGTTAACAACAATCGAGATTAAACTATGATTTTAA
194 AAAAAGATCGAAAATAAACCACAA-TCAGAGGTTAACAACAATCGAGATTAAACTATGATTTTAA
* * * * *
10964682 ATTAAAGAGTTCGGGATTGAACCGCGAATTAGAGAATAAAGAGACCGAGATTAAATCGTGAATCA
258 ATTAAAGAGATCGGGATT-AACCGCAAATTAAAAAATAAAGAGACCGAGATTAAATCGCGAATCA
10964747 AAAAATGACATTAACTTG
322 AAAAATGACATTAACTTG
*
10964765 GATT-AATCATAAGTCAAAAAATAAAAAGATCGGGAATAAACCACGAGTCAAAGGTTAATAACAA
1 GATTAAATCATAAGTCAAAAAATAAAAAGATCGGGAATAAACCACGAGTCAGAGGTTAATAACAA
* * *
10964829 TCGAGATTAAACAATGATTTTAAATTAAAGAGATCGGATTGAACCACAAATTAGAGAA-AAAAAG
66 TCGAGATTAAACTATGATTTTAAATTAAAGAGATCGGATTGAACCACGAATTAGAGAATAAAGAG
* * *
10964893 ATCGAGATTAAATCGCGAGTCAAAAAATGATGTTAACTTGGATTGAATCACAAGT-AAAAAATAA
131 ATCGGGATTAAACCGCGAGTCAAAAAATGACGTTAACTTGGATTGAATCACAAGTCAAAAAATAA
* *
10964957 AAAGATCGAAAATAAACCACGAATCAAAGGTTAACAACAATCGAGATTAAACTACGATTTTAAAT
196 AAAGATCGAAAATAAACCAC-AATCAGAGGTTAACAACAATCGAGATTAAACTATGATTTTAAAT
* * *
10965022 TAAAGAGATCGGGATTAACCGTAAATTAAAAAATAAAGAGACCGGGATTAAATCGCGAGTCAAAA
260 TAAAGAGATCGGGATTAACCGCAAATTAAAAAATAAAGAGACCGAGATTAAATCGCGAATCAAAA
*
10965087 AATGACGTTAACTTG
325 AATGACATTAACTTG
* * * * * *
10965102 GATTGAATCACAAGTCAAAAAATAAAAAGATTGAGAATAAACCACGAATCAGAGGTTAACAACAA
1 GATTAAATCATAAGTCAAAAAATAAAAAGATCGGGAATAAACCACGAGTCAGAGGTTAATAACAA
* *
10965167 TTGAGATTAAACTATGATTTTAAATTAAAGAGATCGGGATTGAACCACGAATTAAAGAATAAAGA
66 TCGAGATTAAACTATGATTTTAAATTAAAGAGATC-GGATTGAACCACGAATTAGAGAATAAAGA
** *
10965232 GATCGGGATTTAAACCATGAGTCAAAAAATGACGTTAACTTGGATTGAATCATAAGTCAAAAAAT
130 GATCGGGA-TTAAACCGCGAGTCAAAAAATGACGTTAACTTGGATTGAATCACAAGTCAAAAAAT
* * * * *
10965297 AAAAA-AACTAGGAATAAACCACAAATCAGAGGTTAACAACAACCGAGATTAAACTATGATTTTG
194 AAAAAGATCGA-AAATAAACCAC-AATCAGAGGTTAACAACAATCGAGATTAAACTATGATTTTA
* ** * * ** * * * *
10965361 AATTAACGAGATTAGGATTGAATCGTAAATCGAAAGATAAAGAGATC-AGGATTAAATTGCGAGT
257 AATTAAAGAGATCGGGATT-AACCGCAAATTAAAAAATAAAGAGACCGA-GATTAAATCGCGAAT
10965425 CAAAAAAT
320 CAAAAAAT
10965433 AAAATAATCG
Statistics
Matches: 587, Mismatches: 67, Indels: 23
0.87 0.10 0.03
Matches are distributed among these distances:
337 105 0.18
338 174 0.30
339 76 0.13
340 65 0.11
341 48 0.08
342 75 0.13
343 44 0.07
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.23
Consensus pattern (339 bp):
GATTAAATCATAAGTCAAAAAATAAAAAGATCGGGAATAAACCACGAGTCAGAGGTTAATAACAA
TCGAGATTAAACTATGATTTTAAATTAAAGAGATCGGATTGAACCACGAATTAGAGAATAAAGAG
ATCGGGATTAAACCGCGAGTCAAAAAATGACGTTAACTTGGATTGAATCACAAGTCAAAAAATAA
AAAGATCGAAAATAAACCACAATCAGAGGTTAACAACAATCGAGATTAAACTATGATTTTAAATT
AAAGAGATCGGGATTAACCGCAAATTAAAAAATAAAGAGACCGAGATTAAATCGCGAATCAAAAA
ATGACATTAACTTG
Found at i:10965115 original size:508 final size:509
Alignment explanation
Indices: 10964447--10965432 Score: 1396
Period size: 508 Copynumber: 1.9 Consensus size: 509
10964437 TAAATCAGAG
** * * * **
10964447 AATAAAAAGATCGGGAATAAACCACGAGTTAGAGGTTAACAATCGAGATTAAACTGTGAATTTAA
1 AATAAAAAGATCGAAAATAAACCACGAATCAAAGGTTAACAATCGAGATTAAACTACGAATTTAA
* * * * *
10964512 ATTAAAAAATTAGGATTGAACCGTGAATTAGAGAATAAAGAGACTGGGATTAAACCGCGAATCAA
66 ATTAAAAAATCAGGATTGAACCGTAAATTAAAAAATAAAGAGACCGGGATTAAACCGCGAATCAA
* *
10964577 AAAATGACGTTAACTTGGATTGAGTCACAAGTCAGAAAATAAAAAGATCGGA-AATAAACCAC-A
131 AAAATGACGTTAACTTGGATTGAATCACAAGTCAAAAAATAAAAAGAT-GGAGAATAAACCACGA
*
10964640 AGTCAGAGGTTAACAACAATCGAGATTAAACTATGATTTTAAATTAAAGAGTTCGGGATTGAACC
195 A-TCAGAGGTTAACAACAATCGAGATTAAACTATGATTTTAAATTAAAGAGATCGGGATTGAACC
* * * *
10964705 GCGAATTAGAGAATAAAGAGACCGAGA-TTAAATCGTGAATCAAAAAATGACATTAACTTGGATT
259 ACGAATTAAAGAATAAAGAGACCGAGATTTAAACCATGAATCAAAAAATGACATTAACTTGGATT
* * * * * *
10964769 -AATCATAAGTCAAAAAATAAAAAGA-TCGGGAATAAACCACGAGTCAAAGGTTAATAACAATCG
324 GAATCATAAGTCAAAAAATAAAAAAACT-AGGAATAAACCACAAATCAAAGGTTAACAACAACCG
* * *
10964832 AGATTAAACAATGATTTTAAATTAAAGAGA-TCGGATTGAACCACAAAT-TAGAGAAAAAAAGAT
388 AGATTAAACAATGATTTTAAATTAAAGAGATTAGGATTGAACCACAAATCGAAAGAAAAAAAGAT
10964895 C-GAGATTAAATCGCGAGTCAAAAAATGATGTTAACTTGGATTGAATCACAAGTAAAA
453 CAG-GATTAAATCGCGAGTCAAAAAATGATGTTAACTTGGATTGAATCACAAGTAAAA
*
10964952 AATAAAAAGATCGAAAATAAACCACGAATCAAAGGTTAACAACAATCGAGATTAAACTACGATTT
1 AATAAAAAGATCGAAAATAAACCACGAATCAAAGGTT---AACAATCGAGATTAAACTACGAATT
* * * *
10965017 TAAATTAAAGAGATCGGGATT-AACCGTAAATTAAAAAATAAAGAGACCGGGATTAAATCGCGAG
63 TAAATTAAA-AAATCAGGATTGAACCGTAAATTAAAAAATAAAGAGACCGGGATTAAACCGCGAA
*
10965081 TCAAAAAATGACGTTAACTTGGATTGAATCACAAGTCAAAAAATAAAAAGATTGAGAATAAACCA
127 TCAAAAAATGACGTTAACTTGGATTGAATCACAAGTCAAAAAATAAAAAGATGGAGAATAAACCA
*
10965146 CGAATCAGAGGTTAACAACAATTGAGATTAAACTATGATTTTAAATTAAAGAGATCGGGATTGAA
192 CGAATCAGAGGTTAACAACAATCGAGATTAAACTATGATTTTAAATTAAAGAGATCGGGATTGAA
* * * *
10965211 CCACGAATTAAAGAATAAAGAGATCGGGATTTAAACCATGAGTCAAAAAATGACGTTAACTTGGA
257 CCACGAATTAAAGAATAAAGAGACCGAGATTTAAACCATGAATCAAAAAATGACATTAACTTGGA
*
10965276 TTGAATCATAAGTCAAAAAATAAAAAAACTAGGAATAAACCACAAATCAGAGGTTAACAACAACC
322 TTGAATCATAAGTCAAAAAATAAAAAAACTAGGAATAAACCACAAATCAAAGGTTAACAACAACC
* * * * ** * *
10965341 GAGATTAAACTATGATTTTGAATTAACGAGATTAGGATTGAATCGTAAATCGAAAGATAAAGAGA
387 GAGATTAAACAATGATTTTAAATTAAAGAGATTAGGATTGAACCACAAATCGAAAGAAAAAAAGA
*
10965406 TCAGGATTAAATTGCGAGTCAAAAAAT
452 TCAGGATTAAATCGCGAGTCAAAAAAT
10965433 AAAATAATCG
Statistics
Matches: 420, Mismatches: 49, Indels: 17
0.86 0.10 0.03
Matches are distributed among these distances:
505 32 0.08
507 2 0.00
508 212 0.50
509 43 0.10
510 81 0.19
511 15 0.04
512 34 0.08
513 1 0.00
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.23
Consensus pattern (509 bp):
AATAAAAAGATCGAAAATAAACCACGAATCAAAGGTTAACAATCGAGATTAAACTACGAATTTAA
ATTAAAAAATCAGGATTGAACCGTAAATTAAAAAATAAAGAGACCGGGATTAAACCGCGAATCAA
AAAATGACGTTAACTTGGATTGAATCACAAGTCAAAAAATAAAAAGATGGAGAATAAACCACGAA
TCAGAGGTTAACAACAATCGAGATTAAACTATGATTTTAAATTAAAGAGATCGGGATTGAACCAC
GAATTAAAGAATAAAGAGACCGAGATTTAAACCATGAATCAAAAAATGACATTAACTTGGATTGA
ATCATAAGTCAAAAAATAAAAAAACTAGGAATAAACCACAAATCAAAGGTTAACAACAACCGAGA
TTAAACAATGATTTTAAATTAAAGAGATTAGGATTGAACCACAAATCGAAAGAAAAAAAGATCAG
GATTAAATCGCGAGTCAAAAAATGATGTTAACTTGGATTGAATCACAAGTAAAA
Found at i:10966083 original size:22 final size:20
Alignment explanation
Indices: 10966058--10966114 Score: 51
Period size: 22 Copynumber: 2.6 Consensus size: 20
10966048 CAATCAATTT
*
10966058 TATTTCATTCTTTCTGCCTTCA
1 TATTACATTCTTTCT-CCTT-A
*
10966080 TATTACTATTTTTATCTCCTTA
1 TATTAC-ATTCTT-TCTCCTTA
*
10966102 TATTGCATTCTTT
1 TATTACATTCTTT
10966115 TTTTAGCAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
20 1 0.03
21 5 0.17
22 11 0.38
23 9 0.31
24 3 0.10
ACGTcount: A:0.18, C:0.21, G:0.04, T:0.58
Consensus pattern (20 bp):
TATTACATTCTTTCTCCTTA
Found at i:10966662 original size:9 final size:9
Alignment explanation
Indices: 10966648--10966680 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
10966638 CTTTCTCATT
10966648 TTTTTTGTA
1 TTTTTTGTA
*
10966657 TTTTTTTTA
1 TTTTTTGTA
10966666 TTTTTTGTA
1 TTTTTTGTA
10966675 TTTTTT
1 TTTTTT
10966681 TAAGCAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.09, C:0.00, G:0.06, T:0.85
Consensus pattern (9 bp):
TTTTTTGTA
Found at i:10978089 original size:23 final size:23
Alignment explanation
Indices: 10978044--10978089 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
10978034 AGAGGTTTTA
*
10978044 AAGATTAAAATTTCAAGATTTTG
1 AAGATTAAAATTTCAAGAGTTTG
* * *
10978067 AAGATTCAAATTTTAAGGGTTTG
1 AAGATTAAAATTTCAAGAGTTTG
10978090 GATTTAAGTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.39, C:0.04, G:0.17, T:0.39
Consensus pattern (23 bp):
AAGATTAAAATTTCAAGAGTTTG
Found at i:10978101 original size:21 final size:22
Alignment explanation
Indices: 10978077--10978127 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
10978067 AAGATTCAAA
10978077 TTTTAAGGG-TTT-GGATTTAAG
1 TTTTAAGGGTTTTAGGATTT-AG
* *
10978098 TTTTGAGGGTTTTAGGGTTTAG
1 TTTTAAGGGTTTTAGGATTTAG
10978120 TTTTAAGG
1 TTTTAAGG
10978128 CATGAAAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 8 0.32
22 12 0.48
23 5 0.20
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (22 bp):
TTTTAAGGGTTTTAGGATTTAG
Found at i:10978124 original size:29 final size:28
Alignment explanation
Indices: 10978077--10978185 Score: 85
Period size: 30 Copynumber: 3.7 Consensus size: 28
10978067 AAGATTCAAA
* * *
10978077 TTTTAAGGGTTTGGATTTAAGTTTTGAGGG
1 TTTT-AGGGTTTAGTTTTAAG-TTTGAAGG
**
10978107 TTTTAGGGTTTAGTTTTAAGGCATGAAAGG
1 TTTTAGGGTTTAGTTTTAA-GTTTG-AAGG
* *
10978137 -TTTAGGGTTTTGATTTTAGAGTTTGAAGA
1 TTTTAGGGTTTAG-TTTTA-AGTTTGAAGG
10978166 TTTTAGGGTTTCAGTTTTAA
1 TTTTAGGGTTT-AGTTTTAA
10978186 AATTTGAGGT
Statistics
Matches: 63, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
29 30 0.48
30 31 0.49
31 2 0.03
ACGTcount: A:0.23, C:0.02, G:0.28, T:0.47
Consensus pattern (28 bp):
TTTTAGGGTTTAGTTTTAAGTTTGAAGG
Found at i:10978247 original size:29 final size:28
Alignment explanation
Indices: 10978137--10978247 Score: 98
Period size: 28 Copynumber: 3.9 Consensus size: 28
10978127 GCATGAAAGG
*
10978137 TTTAGGGTTTTGATTTTAGAGTTTGAAGAT
1 TTTAGGGTTTTGATTTAAGAGTTTG-A-AT
* * * **
10978167 TTTAGGGTTTCAGTTTTAA-AATTTGAGG
1 TTTAGGGTTT-TGATTTAAGAGTTTGAAT
* * *
10978195 TTTGGGGATTTGATTTAAGGGTTTGAAT
1 TTTAGGGTTTTGATTTAAGAGTTTGAAT
10978223 TTTAGGGTTTTGGATTTAAGAGTTT
1 TTTAGGGTTTT-GATTTAAGAGTTT
10978248 AAAGGTTTGG
Statistics
Matches: 61, Mismatches: 17, Indels: 7
0.72 0.20 0.08
Matches are distributed among these distances:
27 6 0.10
28 22 0.36
29 13 0.21
30 15 0.25
31 5 0.08
ACGTcount: A:0.23, C:0.01, G:0.28, T:0.49
Consensus pattern (28 bp):
TTTAGGGTTTTGATTTAAGAGTTTGAAT
Found at i:10978300 original size:16 final size:16
Alignment explanation
Indices: 10978275--10978345 Score: 88
Period size: 16 Copynumber: 4.4 Consensus size: 16
10978265 AATTTTGAGA
10978275 GGTTTTGGATTTTAGG
1 GGTTTTGGATTTTAGG
* *
10978291 GGTTTCGGATTTTAGA
1 GGTTTTGGATTTTAGG
*
10978307 GATTTTGGATTTTAGG
1 GGTTTTGGATTTTAGG
* *
10978323 AGATTTTGAATTTTAGG
1 -GGTTTTGGATTTTAGG
10978340 GGTTTT
1 GGTTTT
10978346 AAAAACTTAG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
16 32 0.68
17 15 0.32
ACGTcount: A:0.18, C:0.01, G:0.31, T:0.49
Consensus pattern (16 bp):
GGTTTTGGATTTTAGG
Found at i:10978318 original size:32 final size:33
Alignment explanation
Indices: 10978260--10978336 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 33
10978250 AGGTTTGGGA
*
10978260 TTTCGAATTTTGAGAGGTTTTGGATTTTAGGGG
1 TTTCGAATTTTGAGAGATTTTGGATTTTAGGGG
* *
10978293 TTTCGGATTTT-AGAGATTTTGGATTTTAGGAGA
1 TTTCGAATTTTGAGAGATTTTGGATTTTAGG-GG
*
10978326 TTTTGAATTTT
1 TTTCGAATTTT
10978337 AGGGGTTTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
32 18 0.47
33 20 0.53
ACGTcount: A:0.21, C:0.03, G:0.27, T:0.49
Consensus pattern (33 bp):
TTTCGAATTTTGAGAGATTTTGGATTTTAGGGG
Found at i:10979886 original size:3 final size:3
Alignment explanation
Indices: 10979878--10979906 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
10979868 ATTAAACCAA
10979878 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
10979907 AAAAATGTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:10980169 original size:134 final size:135
Alignment explanation
Indices: 10979998--10980266 Score: 384
Period size: 135 Copynumber: 2.0 Consensus size: 135
10979988 GCTATAGAGC
*
10979998 TATAAAGACAAATACATCTAAACAACATGACCTTTCACA-TTGAGAGATTA-GGTATCTACTTAA
1 TATAAAGACAAATACATCTAAACAACATGACCTTTCACACTT-AGAGATTATGGTATCTACTCAA
* * * *
10980061 AATAGTACATCA-CTACCAATCACT-GCAAGTTCAATGAAAGTGACAACATATATGAATAAACTT
65 AATAGTACATCATC-ACCAACCACTACCAA-TTCAATGAAAGTGACAACACATATAAATAAACTT
10980124 CACGTTCA
128 CACGTTCA
* * * *
10980132 TATAAAGATAAATACATCTAAACAACGTGACCTTTCACACTTAGAGATTATGTTATTTACTCAAA
1 TATAAAGACAAATACATCTAAACAACATGACCTTTCACACTTAGAGATTATGGTATCTACTCAAA
* *
10980197 ATAGTACATCATCACCAACCACTACCAATTCAGTGAAAGTGACAACACATATAAATAAACTTCAT
66 ATAGTACATCATCACCAACCACTACCAATTCAATGAAAGTGACAACACATATAAATAAACTTCAC
10980262 GTTCA
131 GTTCA
10980267 ATGTTCCCAT
Statistics
Matches: 120, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
134 45 0.38
135 71 0.59
136 4 0.03
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (135 bp):
TATAAAGACAAATACATCTAAACAACATGACCTTTCACACTTAGAGATTATGGTATCTACTCAAA
ATAGTACATCATCACCAACCACTACCAATTCAATGAAAGTGACAACACATATAAATAAACTTCAC
GTTCA
Found at i:10981218 original size:27 final size:27
Alignment explanation
Indices: 10981188--10981242 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
10981178 TTTTTTTTAA
10981188 ATAATATTGAACAGATGTTTTATATTT
1 ATAATATTGAACAGATGTTTTATATTT
* *
10981215 ATAATATTTAATAGATGTTTTATATTT
1 ATAATATTGAACAGATGTTTTATATTT
10981242 A
1 A
10981243 GTAGATTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.38, C:0.02, G:0.09, T:0.51
Consensus pattern (27 bp):
ATAATATTGAACAGATGTTTTATATTT
Found at i:10981282 original size:30 final size:30
Alignment explanation
Indices: 10981248--10981327 Score: 106
Period size: 30 Copynumber: 2.7 Consensus size: 30
10981238 ATTTAGTAGA
*
10981248 TTCTTAAATGGATGTGTTATTTTTAACAGG
1 TTCTTAAATGGATGTGTTATGTTTAACAGG
* **
10981278 TTCTTAAATGGATGTTTTATGTTTAATGGG
1 TTCTTAAATGGATGTGTTATGTTTAACAGG
* *
10981308 TTTTTTAATGGATGTGTTAT
1 TTCTTAAATGGATGTGTTAT
10981328 ATTAAGCAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.24, C:0.04, G:0.21, T:0.51
Consensus pattern (30 bp):
TTCTTAAATGGATGTGTTATGTTTAACAGG
Found at i:10984689 original size:14 final size:15
Alignment explanation
Indices: 10984670--10984700 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
10984660 ACATATAAAA
10984670 TTTAATA-TAATTTT
1 TTTAATAGTAATTTT
10984684 TTTAATAGTAATTTT
1 TTTAATAGTAATTTT
10984699 TT
1 TT
10984701 ATTTTCACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (15 bp):
TTTAATAGTAATTTT
Found at i:10988058 original size:168 final size:168
Alignment explanation
Indices: 10987633--10988142 Score: 921
Period size: 168 Copynumber: 3.0 Consensus size: 168
10987623 GTGTTATATC
*
10987633 ATTCAATGAATCTACTTATTAAAAGCCTTTCCTTTCAAAGAAATTGATTCTTTGCTAGCGCAATG
1 ATTCAATGAATCTATTTATT-AAAGCCTTTCCTTTCAAAGAAATTGATTCTTTGCTAGCGCAATG
*
10987698 CAACTTATGTGAAAATATGCTTCGTTAATGTTCTTACTTGTATGGTTGTACAAACAAGTTCTTAA
65 CAACTTATGTGAAAATATGCTTCTTTAATGTTCTTACTTGTATGGTTGTACAAACAAGTTCTTAA
10987763 TTTATGGCAAATGGCAATGTCCTTGGTATTTTTCAGTAAA
130 TTTATGGCAAATGGCAATGTCCTTGGTA-TTTTCAGTAAA
10987803 ATTCAATGAATCTATTTATTAAAGCCTTTCCTTTCAAAGAAATTGATTCTTTGCTAGCGCAATGC
1 ATTCAATGAATCTATTTATTAAAGCCTTTCCTTTCAAAGAAATTGATTCTTTGCTAGCGCAATGC
10987868 AACTTATGTGAAAATATGCTTCTTTAATGTTCTTACTTGTATGGTTGTACAAACAAGTTCTTAAT
66 AACTTATGTGAAAATATGCTTCTTTAATGTTCTTACTTGTATGGTTGTACAAACAAGTTCTTAAT
**
10987933 TTATGGCAAATGGCAATGTCCTCCGTATTTTCAGTAAA
131 TTATGGCAAATGGCAATGTCCTTGGTATTTTCAGTAAA
* *
10987971 ATTCACTGAATCTATTTATTAAAGCCTTTCCTTTCAAAGAAATTGATTCTTTGCTAGTGCAATGC
1 ATTCAATGAATCTATTTATTAAAGCCTTTCCTTTCAAAGAAATTGATTCTTTGCTAGCGCAATGC
* * *
10988036 AACTTATGTGCAAATATGCTTCTTTAATGTTCTTACTTGTATGGTTGTACAAACAAGTTCCTAGT
66 AACTTATGTGAAAATATGCTTCTTTAATGTTCTTACTTGTATGGTTGTACAAACAAGTTCTTAAT
10988101 TTATGGCAAATGGCAATGTCCTTGGTATTTTCAGTAAA
131 TTATGGCAAATGGCAATGTCCTTGGTATTTTCAGTAAA
10988139 ATTC
1 ATTC
10988143 CATAAAGTGC
Statistics
Matches: 329, Mismatches: 11, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
168 176 0.53
169 134 0.41
170 19 0.06
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (168 bp):
ATTCAATGAATCTATTTATTAAAGCCTTTCCTTTCAAAGAAATTGATTCTTTGCTAGCGCAATGC
AACTTATGTGAAAATATGCTTCTTTAATGTTCTTACTTGTATGGTTGTACAAACAAGTTCTTAAT
TTATGGCAAATGGCAATGTCCTTGGTATTTTCAGTAAA
Found at i:10988917 original size:2 final size:2
Alignment explanation
Indices: 10988910--10988939 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10988900 CCATATGAAC
10988910 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
10988940 TAAGCACAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:10989242 original size:26 final size:26
Alignment explanation
Indices: 10989206--10989305 Score: 154
Period size: 26 Copynumber: 4.0 Consensus size: 26
10989196 TTATTATATC
10989206 TAAATTCAAACTTTAATGAAAGAATG
1 TAAATTCAAACTTTAATGAAAGAATG
10989232 TAAATTCAAACTTTAATG--AG-A-G
1 TAAATTCAAACTTTAATGAAAGAATG
*
10989254 AAAATTCAAACTTTAATGAAAGAATG
1 TAAATTCAAACTTTAATGAAAGAATG
*
10989280 TAAATTCAAACTTTAATGAGAGAATG
1 TAAATTCAAACTTTAATGAAAGAATG
10989306 CAAGGCTTAT
Statistics
Matches: 67, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
22 18 0.27
23 1 0.01
24 4 0.06
25 1 0.01
26 43 0.64
ACGTcount: A:0.49, C:0.08, G:0.13, T:0.30
Consensus pattern (26 bp):
TAAATTCAAACTTTAATGAAAGAATG
Found at i:10989278 original size:48 final size:48
Alignment explanation
Indices: 10989207--10989303 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
10989197 TATTATATCT
10989207 AAATTCAAACTTTAATGAAAGAATGTAAATTCAAACTTTAATGAGAGA
1 AAATTCAAACTTTAATGAAAGAATGTAAATTCAAACTTTAATGAGAGA
10989255 AAATTCAAACTTTAATGAAAGAATGTAAATTCAAACTTTAATGAGAGA
1 AAATTCAAACTTTAATGAAAGAATGTAAATTCAAACTTTAATGAGAGA
10989303 A
1 A
10989304 TGCAAGGCTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.29
Consensus pattern (48 bp):
AAATTCAAACTTTAATGAAAGAATGTAAATTCAAACTTTAATGAGAGA
Found at i:10998649 original size:3 final size:3
Alignment explanation
Indices: 10998641--10998681 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
10998631 TCCCTAAAAG
*
10998641 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAC GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
10998682 GAGAGAGAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.63, C:0.02, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:10998946 original size:64 final size:64
Alignment explanation
Indices: 10998868--10998996 Score: 231
Period size: 64 Copynumber: 2.0 Consensus size: 64
10998858 CTGCTTCTTG
* * *
10998868 AGCAAGAACTAAACCAGAAACCTATTGAAATCCTCAAACATGAAATTAAATATCCTCAGGCAGT
1 AGCAAGAACTAAACCAGAAACCTATTAAAATCATCAAACATGAAATTAAATATCCTCAGGAAGT
10998932 AGCAAGAACTAAACCAGAAACCTATTAAAATCATCAAACATGAAATTAAATATCCTCAGGAAGT
1 AGCAAGAACTAAACCAGAAACCTATTAAAATCATCAAACATGAAATTAAATATCCTCAGGAAGT
10998996 A
1 A
10998997 CCTTTACGCA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.48, C:0.20, G:0.12, T:0.20
Consensus pattern (64 bp):
AGCAAGAACTAAACCAGAAACCTATTAAAATCATCAAACATGAAATTAAATATCCTCAGGAAGT
Found at i:11000264 original size:28 final size:28
Alignment explanation
Indices: 11000233--11000290 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
11000223 ATATGATTCA
11000233 GCACAATATTTAAATGATATAGAAAAGG
1 GCACAATATTTAAATGATATAGAAAAGG
11000261 GCACAATATTTAAATGATATAGAAAAGG
1 GCACAATATTTAAATGATATAGAAAAGG
11000289 GC
1 GC
11000291 CCTGTTCCGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.48, C:0.09, G:0.19, T:0.24
Consensus pattern (28 bp):
GCACAATATTTAAATGATATAGAAAAGG
Found at i:11005173 original size:2 final size:2
Alignment explanation
Indices: 11005166--11005197 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
11005156 AATTCTAGTC
11005166 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11005198 ACAACTTCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11005436 original size:21 final size:21
Alignment explanation
Indices: 11005411--11005461 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
11005401 TAAAATATGT
*
11005411 ATTTTATTTTTTTAATAAATA
1 ATTTTATTTGTTTAATAAATA
** *
11005432 ATTTTAGCTGTTTACTAAATA
1 ATTTTATTTGTTTAATAAATA
*
11005453 ATCTTATTT
1 ATTTTATTT
11005462 AATTATCAAA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (21 bp):
ATTTTATTTGTTTAATAAATA
Found at i:11010865 original size:21 final size:21
Alignment explanation
Indices: 11010840--11010890 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
11010830 TAAAATATGT
*
11010840 ATTTTATTTTTTTAATAAATA
1 ATTTTATTTGTTTAATAAATA
** *
11010861 ATTTTAGCTGTTTACTAAATA
1 ATTTTATTTGTTTAATAAATA
*
11010882 ATCTTATTT
1 ATTTTATTT
11010891 AATTATCAAA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (21 bp):
ATTTTATTTGTTTAATAAATA
Found at i:11010992 original size:16 final size:17
Alignment explanation
Indices: 11010961--11010997 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
11010951 TCAACAAATT
11010961 TTTATCTTGATTTAAAAA
1 TTTATCTT-ATTTAAAAA
11010979 TTTATCTT-TTTAAAAA
1 TTTATCTTATTTAAAAA
11010995 TTT
1 TTT
11010998 GTGCAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 11 0.58
18 8 0.42
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (17 bp):
TTTATCTTATTTAAAAA
Found at i:11013036 original size:51 final size:50
Alignment explanation
Indices: 11012963--11013060 Score: 121
Period size: 51 Copynumber: 1.9 Consensus size: 50
11012953 TTAGGATGAT
11012963 AAAATATAAAAATATATAAAAAATCTAAAACAATATA-ATTTTAAATTTTAA
1 AAAATATAAAAATATATAAAAAAT-T-AAACAATATACATTTTAAATTTTAA
* *
11013014 AAAATATATAAAAT-TGAT-AAAAATTAAACTATATACATTTTATATTT
1 AAAATATA-AAAATAT-ATAAAAAATTAAACAATATACATTTTAAATTT
11013061 AATGTGTCAA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
49 9 0.21
50 11 0.26
51 15 0.36
52 7 0.17
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.37
Consensus pattern (50 bp):
AAAATATAAAAATATATAAAAAATTAAACAATATACATTTTAAATTTTAA
Found at i:11013103 original size:22 final size:23
Alignment explanation
Indices: 11013070--11013113 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
11013060 TAATGTGTCA
*
11013070 ATATATATTTAA-ATAATATTTG
1 ATATATATTTAATATAAAATTTG
11013092 ATATAT-TATTAATATAAAATTT
1 ATATATAT-TTAATATAAAATTT
11013114 TTAATTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 1 0.05
22 10 0.53
23 8 0.42
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
ATATATATTTAATATAAAATTTG
Found at i:11013321 original size:20 final size:21
Alignment explanation
Indices: 11013294--11013345 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 21
11013284 ATTTTTTTCA
11013294 TAAAAATTCATATTCAT-TATC
1 TAAAAATTCATATT-ATCTATC
*
11013315 T-AAAATTCATATTATCTCTC
1 TAAAAATTCATATTATCTATC
11013335 TAAAAATTCAT
1 TAAAAATTCAT
11013346 TCTCTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 2 0.07
20 16 0.57
21 10 0.36
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (21 bp):
TAAAAATTCATATTATCTATC
Found at i:11014575 original size:18 final size:18
Alignment explanation
Indices: 11014554--11014627 Score: 60
Period size: 19 Copynumber: 4.1 Consensus size: 18
11014544 TTTTACGTAT
*
11014554 TAATTAAATTTAATTGAA
1 TAATTAAATTTAATTAAA
* * **
11014572 TAATTTAATTTTTATTTTA
1 TAA-TTAAATTTAATTAAA
11014591 -AATTAAATTTAAATTAAA
1 TAATTAAATTT-AATTAAA
* *
11014609 AAATAAAATTTAATTAAA
1 TAATTAAATTTAATTAAA
11014627 T
1 T
11014628 TCAAGTTTAA
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
17 7 0.16
18 16 0.37
19 20 0.47
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (18 bp):
TAATTAAATTTAATTAAA
Found at i:11027846 original size:61 final size:60
Alignment explanation
Indices: 11027776--11028080 Score: 217
Period size: 61 Copynumber: 5.0 Consensus size: 60
11027766 GTTAGAAACG
* * *
11027776 CCTTGAATAATCCAATTCAATTTTTTAAAGGGAATATTCAAGGCGTTTTTGGTCAAAAATA
1 CCTTCAATAATCC-ATTCAATTTTTTAAAGGGATTATTCAAGGCATTTTTGGTCAAAAATA
* *** * *
11027837 CCTTAAATAATCCACCTAT-AA-AAATTAACGGGGATTATT-AAGGC-TTCTTTGGTCAGAAATA
1 CCTTCAATAATCCA--T-TCAATTTTTTAA-AGGGATTATTCAAGGCATT-TTTGGTCAAAAATA
* * ** * *
11027898 CCTTCAATAATTTCATTCAATTTTTTTAAA-GAATTATTCAAGGTGTTTTCTGCTAAAAAATA
1 CCTTCAATAA-TCCATTCAA-TTTTTTAAAGGGATTATTCAAGGCATTTT-TGGTCAAAAATA
* **** * ** * *
11027960 CCTTGAATAATCCATTCAAAAAAATTAACGAGGATTATTCAAGGCACCTTTGGTTAGAAATA
1 CCTTCAATAATCCATTC-AATTTTTTAAAG-GGATTATTCAAGGCATTTTTGGTCAAAAATA
*
11028022 CCTTCAATAATCCTATTCAATTTTTT-AAGGGATTATTCAAGGCATTTTTTGTCTAAAAA
1 CCTTCAATAATCC-ATTCAATTTTTTAAAGGGATTATTCAAGGCATTTTTGGTC-AAAAA
11028081 CGTCTTGAAA
Statistics
Matches: 183, Mismatches: 44, Indels: 34
0.70 0.17 0.13
Matches are distributed among these distances:
59 1 0.01
60 33 0.18
61 65 0.36
62 65 0.36
63 19 0.10
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (60 bp):
CCTTCAATAATCCATTCAATTTTTTAAAGGGATTATTCAAGGCATTTTTGGTCAAAAATA
Found at i:11027907 original size:122 final size:120
Alignment explanation
Indices: 11027707--11028080 Score: 407
Period size: 123 Copynumber: 3.0 Consensus size: 120
11027697 ATTTTCTAAC
* * * * *
11027707 CAAAAACACCTTGAATAATCCATAAAAAAATTACAAGGGGATTATTGAAGG-TGTTTTTAGTTAG
1 CAAAAATACCTTGAATAATCCATAAAAAAATTA-ACGGGGATTATTCAAGGCT-TCTTTGGTTAG
** *
11027771 AAACGCCTTGAATAATCCAATTCAATTTTTTAAAGGGAATATTCAAGGCGTTTTTGGT
64 AAATACCTTCAATAATCC-ATTCAATTTTTTAAAGGGAATATTCAAGGCGTTTTTGGT
* * *
11027829 CAAAAATACCTTAAATAATCCACCTATAAAAATTAACGGGGATTATT-AAGGCTTCTTTGGTCAG
1 CAAAAATACCTTGAATAATCCA--TAAAAAAATTAACGGGGATTATTCAAGGCTTCTTTGGTTAG
* * *
11027893 AAATACCTTCAATAATTTCATTCAATTTTTTTAAA--GAATTATTCAAGGTGTTTTCTGCT
64 AAATACCTTCAATAA-TCCATTCAA-TTTTTTAAAGGGAA-TATTCAAGGCGTTTT-TGGT
* * **
11027952 AAAAAATACCTTGAATAATCCATTCAAAAAAATTAACGAGGATTATTCAAGGCACCTTTGGTTAG
1 CAAAAATACCTTGAATAATCCA-T-AAAAAAATTAACGGGGATTATTCAAGGCTTCTTTGGTTAG
* * *
11028017 AAATACCTTCAATAATCCTATTCAATTTTTT-AAGGGATTATTCAAGGCATTTTTTGT
64 AAATACCTTCAATAATCC-ATTCAATTTTTTAAAGGGAATATTCAAGGCGTTTTTGGT
11028074 CTAAAAA
1 C-AAAAA
11028081 CGTCTTGAAA
Statistics
Matches: 211, Mismatches: 28, Indels: 25
0.80 0.11 0.09
Matches are distributed among these distances:
121 3 0.01
122 69 0.33
123 92 0.44
124 47 0.22
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (120 bp):
CAAAAATACCTTGAATAATCCATAAAAAAATTAACGGGGATTATTCAAGGCTTCTTTGGTTAGAA
ATACCTTCAATAATCCATTCAATTTTTTAAAGGGAATATTCAAGGCGTTTTTGGT
Found at i:11029898 original size:31 final size:32
Alignment explanation
Indices: 11029861--11029981 Score: 136
Period size: 32 Copynumber: 3.8 Consensus size: 32
11029851 AATAAATTTA
**
11029861 TTTTTAAAATGATAT-GAAATTTTTACCTAAT
1 TTTTTAAAATGATATAGAAATTTTTATTTAAT
* * * **
11029892 ATTTTAAAAGGATATTGAGTTTTTTATTTAAT
1 TTTTTAAAATGATATAGAAATTTTTATTTAAT
** *
11029924 TTTTTAATTTGATATAGACATTTTTATTTAAT
1 TTTTTAAAATGATATAGAAATTTTTATTTAAT
*
11029956 TTTTTAAAATGATATAGAATTTTTTA
1 TTTTTAAAATGATATAGAAATTTTTA
11029982 AGAAAAAAAT
Statistics
Matches: 72, Mismatches: 17, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
31 13 0.18
32 59 0.82
ACGTcount: A:0.36, C:0.02, G:0.08, T:0.54
Consensus pattern (32 bp):
TTTTTAAAATGATATAGAAATTTTTATTTAAT
Found at i:11030042 original size:16 final size:18
Alignment explanation
Indices: 11030021--11030059 Score: 64
Period size: 16 Copynumber: 2.3 Consensus size: 18
11030011 TTTTATATAT
11030021 ATATTTTATT-A-AAATA
1 ATATTTTATTGATAAATA
11030037 ATATTTTATTGATAAATA
1 ATATTTTATTGATAAATA
11030055 ATATT
1 ATATT
11030060 ATAAGAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 10 0.48
17 1 0.05
18 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
ATATTTTATTGATAAATA
Found at i:11030233 original size:17 final size:19
Alignment explanation
Indices: 11030213--11030253 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
11030203 AGGAAAAGAT
*
11030213 ATTTTT-ATGGAAAATAA-
1 ATTTTTGATAGAAAATAAC
11030230 ATTTTTGATAGAAAATAAC
1 ATTTTTGATAGAAAATAAC
11030249 ATTTT
1 ATTTT
11030254 CTATTATGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.29
18 10 0.48
19 5 0.24
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (19 bp):
ATTTTTGATAGAAAATAAC
Found at i:11030439 original size:27 final size:28
Alignment explanation
Indices: 11030409--11030467 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
11030399 TAACTACTAA
11030409 ATTATATTACAA-TAA-AAATAAAAATAT
1 ATTATATTA-AATTAACAAATAAAAATAT
*
11030436 ATTATTTTAAATTTAACAAATAAAAATAT
1 ATTATATTAAA-TTAACAAATAAAAATAT
11030465 ATT
1 ATT
11030468 TGAAAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 2 0.07
27 8 0.29
28 3 0.11
29 15 0.54
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (28 bp):
ATTATATTAAATTAACAAATAAAAATAT
Found at i:11030680 original size:28 final size:28
Alignment explanation
Indices: 11030647--11030702 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
11030637 AGTAATTAAA
11030647 AATTCAATTAGAATTTTTTAAAAATTAT
1 AATTCAATTAGAATTTTTTAAAAATTAT
*
11030675 AATTCAATTAGAATTTTTTAAAAGTTAT
1 AATTCAATTAGAATTTTTTAAAAATTAT
11030703 GGACCAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (28 bp):
AATTCAATTAGAATTTTTTAAAAATTAT
Found at i:11031164 original size:19 final size:20
Alignment explanation
Indices: 11031128--11031165 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11031118 AAAGGAGTCC
* *
11031128 AAAATAAAATAGATGAAAAA
1 AAAAAAAAACAGATGAAAAA
11031148 AAAAAAAAACAGA-GAAAA
1 AAAAAAAAACAGATGAAAA
11031166 TTGACCCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.79, C:0.03, G:0.11, T:0.08
Consensus pattern (20 bp):
AAAAAAAAACAGATGAAAAA
Found at i:11032118 original size:3 final size:3
Alignment explanation
Indices: 11032112--11032136 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
11032102 GTTGCTGTTT
11032112 CTG CTG CTG CTG CTG CTG CTG CTG C
1 CTG CTG CTG CTG CTG CTG CTG CTG C
11032137 ATATTTGCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.36, G:0.32, T:0.32
Consensus pattern (3 bp):
CTG
Found at i:11037095 original size:28 final size:26
Alignment explanation
Indices: 11037045--11037106 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 26
11037035 ATTTTATAAA
* *
11037045 TTATTAAAATTTTTAATTTAATAATT
1 TTATTTAAATTTTTAATTCAATAATT
11037071 TAATATTTAAATATTTT-ATTCAATAATT
1 T--TATTTAAAT-TTTTAATTCAATAATT
11037099 TTATTTAA
1 TTATTTAA
11037107 TTTATTTCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
26 8 0.26
28 19 0.61
29 4 0.13
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (26 bp):
TTATTTAAATTTTTAATTCAATAATT
Found at i:11037392 original size:23 final size:23
Alignment explanation
Indices: 11037366--11037418 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
11037356 TAATAATTGA
* *
11037366 AAATTAATGT-TTTTAATTAAATT
1 AAATTAAT-TATTTTAATAAAAAT
11037389 AAA-TAATTAATTTTAATAAAAAT
1 AAATTAATT-ATTTTAATAAAAAT
11037412 AAATTAA
1 AAATTAA
11037419 AATAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
21 1 0.04
22 4 0.16
23 17 0.68
24 3 0.12
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
AAATTAATTATTTTAATAAAAAT
Found at i:11039213 original size:21 final size:21
Alignment explanation
Indices: 11039184--11039229 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
11039174 TGAGAGTAAT
11039184 TATTATAA-TAATAAAATTAAA
1 TATTATAATTAA-AAAATTAAA
*
11039205 TATTTTAATTAAAAAATTAAA
1 TATTATAATTAAAAAATTAAA
11039226 -ATTA
1 TATTA
11039230 ATGATGAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 3 0.14
21 16 0.73
22 3 0.14
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TATTATAATTAAAAAATTAAA
Found at i:11039451 original size:27 final size:28
Alignment explanation
Indices: 11039404--11039459 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
11039394 CTTTTTATTA
* *
11039404 AATAATAATTTTATTAATAATTAATAAT
1 AATAATAATTATATTAATAATTAAAAAT
*
11039432 AATAATAA-TATATTTATAATTAAAAAT
1 AATAATAATTATATTAATAATTAAAAAT
11039459 A
1 A
11039460 TCAATATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 17 0.68
28 8 0.32
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (28 bp):
AATAATAATTATATTAATAATTAAAAAT
Found at i:11048684 original size:4 final size:4
Alignment explanation
Indices: 11048675--11048699 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
11048665 GACAGCTTGA
11048675 GCCT GCCT GCCT GCCT GCCT GCCT G
1 GCCT GCCT GCCT GCCT GCCT GCCT G
11048700 TTTGTTGCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.48, G:0.28, T:0.24
Consensus pattern (4 bp):
GCCT
Found at i:11050105 original size:25 final size:25
Alignment explanation
Indices: 11050059--11050106 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
11050049 ATATGAAAAC
* *
11050059 AAAAAAAAGAGATATTTTTTATTGT
1 AAAAAAAAGAGATATATATTATTGT
*
11050084 AAAAACAAGAGATATATATTATT
1 AAAAAAAAGAGATATATATTATT
11050107 TTTTTATTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.52, C:0.02, G:0.10, T:0.35
Consensus pattern (25 bp):
AAAAAAAAGAGATATATATTATTGT
Found at i:11050536 original size:35 final size:31
Alignment explanation
Indices: 11050507--11050569 Score: 85
Period size: 32 Copynumber: 2.1 Consensus size: 31
11050497 ATTTTTAATC
11050507 AAATAAAAATAAAGATAGATATTACATTTTAA
1 AAATAAAAATAAA-ATAGATATTACATTTTAA
* *
11050539 AGATTAAAATAAAATAGATA-TA-ATTTTAA
1 AAATAAAAATAAAATAGATATTACATTTTAA
11050568 AA
1 AA
11050570 TATTTATTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 8 0.29
30 2 0.07
31 7 0.25
32 11 0.39
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (31 bp):
AAATAAAAATAAAATAGATATTACATTTTAA
Found at i:11054077 original size:36 final size:36
Alignment explanation
Indices: 11054037--11054125 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 36
11054027 ATGAGATTAA
* *
11054037 ATATTATATAATAAATTAAAATTAATAATAA-AATAT
1 ATATTATATAATAAA-TAAAAATAATAATAATAAGAT
11054073 ATATT-TA-AATATAA-AAAAATAATAATAATAAGAT
1 ATATTATATAATA-AATAAAAATAATAATAATAAGAT
* *
11054107 AAATTATAATAAAAAATAA
1 ATATTAT-ATAATAAATAA
11054126 TCATTAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
33 13 0.30
34 12 0.28
35 5 0.12
36 8 0.19
37 5 0.12
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (36 bp):
ATATTATATAATAAATAAAAATAATAATAATAAGAT
Found at i:11054110 original size:28 final size:28
Alignment explanation
Indices: 11054078--11054161 Score: 78
Period size: 29 Copynumber: 2.9 Consensus size: 28
11054068 AATATATATT
*
11054078 TAAATATAAAAAAATAATAATAATAAGA
1 TAAATATAAAAAAATAATAATAAAAAGA
* *
11054106 TAAATTATAATAAAAAATAATCATTAAAAATA
1 TAAA-TAT-A-AAAAAATAAT-AATAAAAAGA
* * *
11054138 TTAATTTAAAAATATAATAATAAA
1 TAAATATAAAAAAATAATAATAAA
11054162 TTATTTTAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
28 9 0.20
29 12 0.27
30 2 0.04
31 12 0.27
32 10 0.22
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (28 bp):
TAAATATAAAAAAATAATAATAAAAAGA
Found at i:11054161 original size:14 final size:14
Alignment explanation
Indices: 11054042--11054161 Score: 62
Period size: 14 Copynumber: 8.9 Consensus size: 14
11054032 ATTAAATATT
*
11054042 ATATAATAAATTAAA
1 ATATAAT-AATAAAA
11054057 AT-TAATAAT-AAA
1 ATATAATAATAAAA
**
11054069 ATAT-AT-ATTTAA
1 ATATAATAATAAAA
*
11054081 ATATAA-AA-AAAT
1 ATATAATAATAAAA
11054093 A-ATAATAATAAGATA
1 ATATAATAATAA-A-A
*
11054108 A-ATTATAATAAAA
1 ATATAATAATAAAA
*
11054121 A-ATAATCATTAAAA
1 ATATAAT-AATAAAA
*
11054135 ATATTAAT-TTAAAA
1 ATA-TAATAATAAAA
11054149 ATATAATAATAAA
1 ATATAATAATAAA
11054162 TTATTTTAAT
Statistics
Matches: 84, Mismatches: 9, Indels: 25
0.71 0.08 0.21
Matches are distributed among these distances:
11 6 0.07
12 17 0.20
13 18 0.21
14 26 0.31
15 13 0.15
16 4 0.05
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (14 bp):
ATATAATAATAAAA
Found at i:11054278 original size:27 final size:26
Alignment explanation
Indices: 11054245--11054302 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
11054235 ATATTAAATT
11054245 ATATTAAAATAATAATTAAAAT-TTTA
1 ATATTAAAA-AATAATTAAAATATTTA
* *
11054271 AGTATTAAAAATTATTTAAAATATTTA
1 A-TATTAAAAAATAATTAAAATATTTA
11054298 ATATT
1 ATATT
11054303 TCACAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 15 0.54
27 13 0.46
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (26 bp):
ATATTAAAAAATAATTAAAATATTTA
Found at i:11068829 original size:16 final size:16
Alignment explanation
Indices: 11068802--11068840 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
11068792 ATTTAAACTA
11068802 AGAATT-TTCTTTAAG
1 AGAATTATTCTTTAAG
11068817 AGAATTATTCTTTAAG
1 AGAATTATTCTTTAAG
11068833 AGAATTAT
1 AGAATTAT
11068841 AAAGGCTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (16 bp):
AGAATTATTCTTTAAG
Found at i:11070471 original size:13 final size:13
Alignment explanation
Indices: 11070453--11070478 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11070443 TGGATTTTGA
11070453 TTTTCATTCTAGT
1 TTTTCATTCTAGT
11070466 TTTTCATTCTAGT
1 TTTTCATTCTAGT
11070479 CTATTCTTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.08, T:0.62
Consensus pattern (13 bp):
TTTTCATTCTAGT
Found at i:11071402 original size:23 final size:22
Alignment explanation
Indices: 11071376--11071420 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
11071366 TGTTATTGCA
*
11071376 TGATGATTTTTGTTTATTTTAAT
1 TGAT-ATTTTTCTTTATTTTAAT
* *
11071399 TGATTTTTTTCTTTTTTTTAAT
1 TGATATTTTTCTTTATTTTAAT
11071421 AAAAAAAAGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.18, C:0.02, G:0.09, T:0.71
Consensus pattern (22 bp):
TGATATTTTTCTTTATTTTAAT
Found at i:11076261 original size:28 final size:27
Alignment explanation
Indices: 11076207--11076270 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
11076197 TTTTTTATTT
* **
11076207 TACATATTTATATAATTTTTTTATAAA
1 TACATATTAATATAATTTTTAAATAAA
11076234 TACATATTAATATATATTTTTAAATAAA
1 TACATATTAATATA-ATTTTTAAATAAA
* *
11076262 AATATATTA
1 TACATATTA
11076271 GTTCTATTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
27 13 0.42
28 18 0.58
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (27 bp):
TACATATTAATATAATTTTTAAATAAA
Found at i:11078487 original size:11 final size:11
Alignment explanation
Indices: 11078473--11078508 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
11078463 TAAATCATGT
*
11078473 AAAAATATATA
1 AAAAATAAATA
11078484 AAAAATAAATA
1 AAAAATAAATA
*
11078495 AATAATAAATA
1 AAAAATAAATA
11078506 AAA
1 AAA
11078509 CCAAAACAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (11 bp):
AAAAATAAATA
Found at i:11079572 original size:44 final size:44
Alignment explanation
Indices: 11079209--11079573 Score: 353
Period size: 43 Copynumber: 8.4 Consensus size: 44
11079199 CTTTTTGAAT
* * * ** *
11079209 AAATAAATAAAGCTCATCTAAGTAGAGGTTCAATGACTTTT-GA
1 AAATAAATAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTTAAA
* * *
11079252 AAATAAATAAAGCTTCTTTAAGCAGAGGCTCAACAATTTTTAAA
1 AAATAAATAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTTAAA
* * * * * *
11079296 AAAAAAATAAAACTCTTCTAAGCAGAGGTTCAACGACTTTTAGA
1 AAATAAATAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTTAAA
* * * *
11079340 AAAGAAATAAAGCTCATCTAAGCAGAGGCTCAA-AAATTTTGAA
1 AAATAAATAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTTAAA
* * * * * * * *
11079383 AACTAAATAAGGCTCATTTAAGTAGAGACTCAATGAA--TTTGAA
1 AAATAAATAAAGCTCCTCTAAGCAGAGGCTCAA-CAACTTTTAAA
* * * *
11079426 AAATAAATAAGGCTCCTCTAAGTAGAGGCTCAACGAC-TTTGAA
1 AAATAAATAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTTAAA
* ** * *
11079469 AAATAAATAAGGCTTTTCTAAGCAGAGGCTCAATAACTTTTATA
1 AAATAAATAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTTAAA
*
11079513 AAATAAATAAAGCTCCTCTAAGCAGAAGCTCAACAACTTTTAAA
1 AAATAAATAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTTAAA
11079557 AAATAAATAAAGCTCCT
1 AAATAAATAAAGCTCCT
11079574 TAACAATCAT
Statistics
Matches: 266, Mismatches: 51, Indels: 9
0.82 0.16 0.03
Matches are distributed among these distances:
42 1 0.00
43 139 0.52
44 124 0.47
45 2 0.01
ACGTcount: A:0.45, C:0.15, G:0.14, T:0.26
Consensus pattern (44 bp):
AAATAAATAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTTAAA
Found at i:11080932 original size:16 final size:16
Alignment explanation
Indices: 11080911--11080954 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
11080901 TTTAAGTCAT
11080911 CATTTTCTTTC-TTTTA
1 CATTTT-TTTCATTTTA
11080927 CATTTTTTTCATTTTTA
1 CATTTTTTTCA-TTTTA
11080944 -ATTTTTTTCAT
1 CATTTTTTTCAT
11080955 CATTTTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 5 0.19
16 16 0.62
17 5 0.19
ACGTcount: A:0.16, C:0.14, G:0.00, T:0.70
Consensus pattern (16 bp):
CATTTTTTTCATTTTA
Found at i:11080978 original size:26 final size:30
Alignment explanation
Indices: 11080938--11080995 Score: 88
Period size: 27 Copynumber: 2.1 Consensus size: 30
11080928 ATTTTTTTCA
11080938 TTTTTAATTTTTTTCAT-CATT-TTTA-AT
1 TTTTTAATTTTTTTCATCCATTATTTATAT
11080965 TTTTTAA-TTTTTTCATCCATTATTTATAT
1 TTTTTAATTTTTTTCATCCATTATTTATAT
11080994 TT
1 TT
11080996 CTCACACATC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
26 9 0.32
27 11 0.39
28 4 0.14
29 4 0.14
ACGTcount: A:0.22, C:0.09, G:0.00, T:0.69
Consensus pattern (30 bp):
TTTTTAATTTTTTTCATCCATTATTTATAT
Found at i:11085574 original size:24 final size:22
Alignment explanation
Indices: 11085545--11085604 Score: 66
Period size: 26 Copynumber: 2.5 Consensus size: 22
11085535 AAATTTTTAA
*
11085545 AAAAATTTCATTTAGAAATTTT
1 AAAAATTTCATTTAAAAATTTT
*
11085567 ATAGAAATTTATTATTTAAAAATTTT
1 A-A-AAA-TT-TCATTTAAAAATTTT
11085593 AAAAATTTCATT
1 AAAAATTTCATT
11085605 ATTAGATAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
22 5 0.16
23 3 0.10
24 6 0.19
25 3 0.10
26 14 0.45
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (22 bp):
AAAAATTTCATTTAAAAATTTT
Found at i:11085615 original size:25 final size:24
Alignment explanation
Indices: 11085545--11085615 Score: 76
Period size: 24 Copynumber: 2.9 Consensus size: 24
11085535 AAATTTTTAA
11085545 AAAAATTTCA-T-TTAGAAATTTT
1 AAAAATTTCATTATTAGAAATTTT
*
11085567 ATAGAAATTT-ATTATTTAAAAATTTT
1 A-A-AAATTTCATTA-TTAGAAATTTT
11085593 AAAAATTTCATTATTAGATAATT
1 AAAAATTTCATTATTAGA-AATT
11085616 ATTATTTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
22 1 0.03
23 2 0.05
24 17 0.43
25 9 0.22
26 11 0.28
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (24 bp):
AAAAATTTCATTATTAGAAATTTT
Found at i:11087617 original size:17 final size:18
Alignment explanation
Indices: 11087595--11087635 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
11087585 TAATTTTTTT
11087595 ATAAAA-TTATAAAT-ACA
1 ATAAAAGTTA-AAATAACA
*
11087612 ATAAAAGTTACAATAACA
1 ATAAAAGTTAAAATAACA
11087630 ATAAAA
1 ATAAAA
11087636 AAATATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.66, C:0.07, G:0.02, T:0.24
Consensus pattern (18 bp):
ATAAAAGTTAAAATAACA
Found at i:11095369 original size:14 final size:15
Alignment explanation
Indices: 11095350--11095381 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
11095340 ATAAAATAAA
11095350 ATAATAATAA-TGAT
1 ATAATAATAAGTGAT
11095364 ATAATAATAAGTGAT
1 ATAATAATAAGTGAT
11095379 ATA
1 ATA
11095382 TTCTACAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.34
Consensus pattern (15 bp):
ATAATAATAAGTGAT
Found at i:11095523 original size:24 final size:25
Alignment explanation
Indices: 11095474--11095525 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
11095464 TAAAATTTTT
* *
11095474 ATTTTTTATATTTTAAATTTTTAAA
1 ATTTTTTATATTTTAAATATTAAAA
11095499 ATTTTTT-TACTTTT-AATATTAAAA
1 ATTTTTTATA-TTTTAAATATTAAAA
11095523 ATT
1 ATT
11095526 ATGAAACTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (25 bp):
ATTTTTTATATTTTAAATATTAAAA
Found at i:11095534 original size:24 final size:23
Alignment explanation
Indices: 11095507--11095569 Score: 56
Period size: 24 Copynumber: 2.7 Consensus size: 23
11095497 AAATTTTTTT
11095507 ACTTTTAATATTAAAAATTATGAA
1 ACTTTTAATATTAAAAATT-TGAA
** * *
11095531 ACTTTATTTTATAAAAAAATTTTAA
1 ACTTT-TAATAT-TAAAAATTTGAA
11095556 A-TTTTAATATTAAA
1 ACTTTTAATATTAAA
11095570 TACAATAACA
Statistics
Matches: 30, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
22 3 0.10
23 4 0.13
24 8 0.27
25 8 0.27
26 7 0.23
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (23 bp):
ACTTTTAATATTAAAAATTTGAA
Found at i:11105775 original size:21 final size:22
Alignment explanation
Indices: 11105749--11105791 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
11105739 CCATGCAATT
11105749 ACATTTAT-CTTAATTTTTCAA
1 ACATTTATCCTTAATTTTTCAA
* *
11105770 ACATTTTTCCTTTATTTTTCAA
1 ACATTTATCCTTAATTTTTCAA
11105792 TTCAATTATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.28, C:0.16, G:0.00, T:0.56
Consensus pattern (22 bp):
ACATTTATCCTTAATTTTTCAA
Found at i:11111971 original size:22 final size:22
Alignment explanation
Indices: 11111946--11111988 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
11111936 ATTATAAGTG
11111946 AGAACCTAATAATTTTCTCCTT
1 AGAACCTAATAATTTTCTCCTT
11111968 AGAACCTAATAATTTTCTCCT
1 AGAACCTAATAATTTTCTCCT
11111989 GAGACTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.40
Consensus pattern (22 bp):
AGAACCTAATAATTTTCTCCTT
Found at i:11126430 original size:18 final size:17
Alignment explanation
Indices: 11126407--11126441 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11126397 TTATTTTATG
11126407 TAAAATATATTAAGTTTT
1 TAAAATATATTAA-TTTT
*
11126425 TAAAATTTATTAATTTT
1 TAAAATATATTAATTTT
11126442 ATTGTAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
TAAAATATATTAATTTT
Found at i:11126510 original size:31 final size:31
Alignment explanation
Indices: 11126450--11126511 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
11126440 TTATTGTAAA
*
11126450 TTGCCACATCATCTTATTTATCCATTTGTAT
1 TTGCCACATCATCTTATTTATCCACTTGTAT
* *
11126481 TTGCCATATCATCTT-TTTCGTCCACTTGTAT
1 TTGCCACATCATCTTATTT-ATCCACTTGTAT
11126512 GCTGACTTGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 3 0.11
31 24 0.89
ACGTcount: A:0.19, C:0.24, G:0.08, T:0.48
Consensus pattern (31 bp):
TTGCCACATCATCTTATTTATCCACTTGTAT
Found at i:11127292 original size:14 final size:13
Alignment explanation
Indices: 11127270--11127306 Score: 56
Period size: 14 Copynumber: 2.7 Consensus size: 13
11127260 TTAAAAAGGA
11127270 AAGTAAAAGTAGG
1 AAGTAAAAGTAGG
11127283 AAGTAGAAAGTAGG
1 AAGTA-AAAGTAGG
11127297 AAAGTAAAAG
1 -AAGTAAAAG
11127307 ATGTGCGTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.23
14 12 0.55
15 5 0.23
ACGTcount: A:0.57, C:0.00, G:0.30, T:0.14
Consensus pattern (13 bp):
AAGTAAAAGTAGG
Found at i:11129846 original size:27 final size:27
Alignment explanation
Indices: 11129808--11129863 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
11129798 CACCCTTATC
*
11129808 TTGTTACTATTCATATAGTTAATGCAT
1 TTGTTACTATTCACATAGTTAATGCAT
*
11129835 TTGTTACTATTCACATAGTTACTGCAT
1 TTGTTACTATTCACATAGTTAATGCAT
11129862 TT
1 TT
11129864 TAGATTGGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.27, C:0.14, G:0.11, T:0.48
Consensus pattern (27 bp):
TTGTTACTATTCACATAGTTAATGCAT
Found at i:11138831 original size:38 final size:37
Alignment explanation
Indices: 11138775--11138848 Score: 121
Period size: 38 Copynumber: 2.0 Consensus size: 37
11138765 AAACATAAAC
*
11138775 AAGATATTTTTTTTAATTTTGATATTAATTGTATTAA
1 AAGAGATTTTTTTTAATTTTGATATTAATTGTATTAA
*
11138812 AAGAGATTTTTTTTAAATTTTGATATTGATTGTATTA
1 AAGAGATTTTTTTT-AATTTTGATATTAATTGTATTA
11138849 TTGATATCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
37 13 0.38
38 21 0.62
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (37 bp):
AAGAGATTTTTTTTAATTTTGATATTAATTGTATTAA
Found at i:11139081 original size:12 final size:13
Alignment explanation
Indices: 11139064--11139092 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
11139054 TATTTGATAC
11139064 ATAAAATAATA-G
1 ATAAAATAATATG
11139076 ATAAAATAATATG
1 ATAAAATAATATG
11139089 ATAA
1 ATAA
11139093 TTATTTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.28
Consensus pattern (13 bp):
ATAAAATAATATG
Found at i:11140269 original size:17 final size:19
Alignment explanation
Indices: 11140239--11140275 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
11140229 ATATATCAAT
11140239 AAATTTTATATAAAT-ATA
1 AAATTTTATATAAATGATA
*
11140257 AAATTTT-TTTAAATGATA
1 AAATTTTATATAAATGATA
11140275 A
1 A
11140276 TATAAGCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
AAATTTTATATAAATGATA
Found at i:11141809 original size:32 final size:32
Alignment explanation
Indices: 11141773--11141847 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 32
11141763 AAATAAAATT
* * **
11141773 AAATGAAATCCAA-GTCCATTAATATTTTTTTC
1 AAATGAAATCAAACGTCCATTAAT-GTTTTACC
*
11141805 AAATGAAATCAAACGTGCATTAATGTTTTACC
1 AAATGAAATCAAACGTCCATTAATGTTTTACC
11141837 AAATGAAATCA
1 AAATGAAATCA
11141848 TATTTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 28 0.76
33 9 0.24
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (32 bp):
AAATGAAATCAAACGTCCATTAATGTTTTACC
Found at i:11148723 original size:2 final size:2
Alignment explanation
Indices: 11148718--11148748 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
11148708 ACACACACAC
11148718 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11148749 AGTTGAAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11148871 original size:2 final size:2
Alignment explanation
Indices: 11148864--11148896 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
11148854 GCTCTTTTTC
11148864 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11148897 TTGTTTTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11150609 original size:18 final size:18
Alignment explanation
Indices: 11150586--11150622 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
11150576 TTCAAAATTT
11150586 TTTATAAAAATTTTTGAG
1 TTTATAAAAATTTTTGAG
11150604 TTTATAAAAATTTTTGAG
1 TTTATAAAAATTTTTGAG
11150622 T
1 T
11150623 CCATATAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTATAAAAATTTTTGAG
Found at i:11153975 original size:19 final size:17
Alignment explanation
Indices: 11153937--11153975 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
11153927 AATCTTACGT
*
11153937 AAATTTTTAAAAATATA
1 AAATTTTTAAAAAGATA
11153954 AAATTTTTAAATCAAGATA
1 AAATTTTTAAA--AAGATA
11153973 AAA
1 AAA
11153976 AAGATTGGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
19 8 0.42
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (17 bp):
AAATTTTTAAAAAGATA
Found at i:11154099 original size:21 final size:20
Alignment explanation
Indices: 11154058--11154108 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
11154048 AATAATTTTT
* *
11154058 AAAATAAGATTATTTGGTAA
1 AAAATAAAATTATTTAGTAA
* *
11154078 ACAACTAAAATTATTTATTAA
1 A-AAATAAAATTATTTAGTAA
11154099 AAAATAAAAT
1 AAAATAAAAT
11154109 CCATATTTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (20 bp):
AAAATAAAATTATTTAGTAA
Found at i:11154167 original size:17 final size:19
Alignment explanation
Indices: 11154142--11154176 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
11154132 AAAAAATATA
11154142 TTTCTAAAT-TAATTTGAT
1 TTTCTAAATATAATTTGAT
11154160 TTTC-AAATATAATTTGA
1 TTTCTAAATATAATTTGA
11154177 ATAATTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.51
Consensus pattern (19 bp):
TTTCTAAATATAATTTGAT
Found at i:11154252 original size:21 final size:23
Alignment explanation
Indices: 11154202--11154281 Score: 69
Period size: 25 Copynumber: 3.4 Consensus size: 23
11154192 GAATAAAGTT
*
11154202 AAAATTATCTAATTTATAATTAAA
1 AAAATTATCTTATTTAT-ATTAAA
11154226 AGAAATTATCTTATTT-T-TTAAA
1 A-AAATTATCTTATTTATATTAAA
11154248 AAAA-TATCTTATGTGTCAT-TTAAA
1 AAAATTATCTTAT-T-T-ATATTAAA
*
11154272 AAAGTTATCT
1 AAAATTATCT
11154282 ACATAGATAC
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
20 8 0.17
21 4 0.08
22 7 0.15
24 11 0.23
25 18 0.38
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.44
Consensus pattern (23 bp):
AAAATTATCTTATTTATATTAAA
Found at i:11154523 original size:29 final size:27
Alignment explanation
Indices: 11154461--11154535 Score: 71
Period size: 28 Copynumber: 2.7 Consensus size: 27
11154451 TTTTGTTCAT
*
11154461 TTAAAAATTTTATTAAGTTAAAAAAAAA
1 TTAAAAATTTAATTAA-TTAAAAAAAAA
* * *
11154489 TAAAAAATTTAATTAATTGCAATAAAATA
1 TTAAAAATTTAATTAATT--AAAAAAAAA
*
11154518 TTAAAAA-TTAAATAATTA
1 TTAAAAATTTAATTAATTA
11154536 TTAAATTAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 23 0.59
29 13 0.33
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (27 bp):
TTAAAAATTTAATTAATTAAAAAAAAA
Found at i:11160931 original size:3 final size:3
Alignment explanation
Indices: 11160925--11160963 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
11160915 TATTAAGGGA
11160925 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
11160964 CAGAGAATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:11162967 original size:17 final size:17
Alignment explanation
Indices: 11162942--11162974 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11162932 TAATGCAAAT
*
11162942 AAAACTAAAATAAAAAG
1 AAAAATAAAATAAAAAG
11162959 AAAAATAAAATAAAAA
1 AAAAATAAAATAAAAA
11162975 TATTTTTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.12
Consensus pattern (17 bp):
AAAAATAAAATAAAAAG
Found at i:11165344 original size:21 final size:21
Alignment explanation
Indices: 11165320--11165360 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
11165310 AAAAAAAAAT
11165320 AAAAAAAAAG-AAAATTTTGA
1 AAAAAAAAAGAAAAATTTTGA
11165340 AAAAAAAAAGAAAAATTTTGA
1 AAAAAAAAAGAAAAATTTTGA
11165361 GAAGCCTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.20
Consensus pattern (21 bp):
AAAAAAAAAGAAAAATTTTGA
Found at i:11168162 original size:20 final size:21
Alignment explanation
Indices: 11168125--11168185 Score: 74
Period size: 20 Copynumber: 3.0 Consensus size: 21
11168115 TGATCTCTTG
* *
11168125 TTTGCAAACCTTTG-AACTCA
1 TTTGCGAATCTTTGAAACTCA
11168145 TTTGCGAA-CTTTGAAACTCA
1 TTTGCGAATCTTTGAAACTCA
*
11168165 ATTGCGAATCTTTGAAA-TCA
1 TTTGCGAATCTTTGAAACTCA
11168185 T
1 T
11168186 GTATAATGAC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
19 5 0.14
20 23 0.64
21 8 0.22
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (21 bp):
TTTGCGAATCTTTGAAACTCA
Found at i:11168320 original size:76 final size:75
Alignment explanation
Indices: 11168198--11168438 Score: 224
Period size: 76 Copynumber: 3.2 Consensus size: 75
11168188 ATAATGACCC
* ** * *
11168198 TTTGATGTGAATCTTAAACCTT-TTTG-TAAATCTCGAAGACTTTTGATCAAATTTCGATACAAA
1 TTTGGTGTGAATCTTAAACCTTCAATGCT-AATCTCAAAAACTTTTGATC-AATTTCGATACAAA
*
11168261 T-TTCGAAAACCT
64 TCTT-GAGAACCT
* *
11168273 TTTGGTGTGAAT-TTCAAACCTTCAATG-TGAATCTTAAAAACTTTTGATGCGATCTT-GATACA
1 TTTGGTGTGAATCTT-AAACCTTCAATGCT-AATCTCAAAAACTTTTGAT-CAAT-TTCGATACA
11168335 AATCTTGAGAACCT
62 AATCTTGAGAACCT
* * * * * *
11168349 TTTGGTGTAAATCTTGAACTTTCAATGCTAATCTCAAAAACTTTCGAATGTAATCTCGATACAAA
1 TTTGGTGTGAATCTTAAACCTTCAATGCTAATCTCAAAAACTTTTG-AT-CAATTTCGATACAAA
11168414 TCTTGAGAACCT
64 TCTTGAGAACCT
*
11168426 TTAGGTGTGAATC
1 TTTGGTGTGAATC
11168439 ATGACCTTTG
Statistics
Matches: 138, Mismatches: 19, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
74 2 0.01
75 18 0.13
76 74 0.54
77 44 0.32
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (75 bp):
TTTGGTGTGAATCTTAAACCTTCAATGCTAATCTCAAAAACTTTTGATCAATTTCGATACAAATC
TTGAGAACCT
Found at i:11168433 original size:77 final size:76
Alignment explanation
Indices: 11168251--11168455 Score: 229
Period size: 76 Copynumber: 2.7 Consensus size: 76
11168241 TGATCAAATT
* * * *
11168251 TCGATACAAAT-TTCGAAAACCTTTTGGTGTGAAT-TTCAAACCTTCAATGTGAATCTTAAAAAC
1 TCGATACAAATCTT-GAGAACCTTTTGGTGTGAATCTT-GAACTTTCAATGTGAATCTCAAAAAC
* *
11168314 TTTTGATGCGATC
64 TTTCGATGCAATC
* *
11168327 TTGATACAAATCTTGAGAACCTTTTGGTGTAAATCTTGAACTTTCAATGCT-AATCTCAAAAACT
1 TCGATACAAATCTTGAGAACCTTTTGGTGTGAATCTTGAACTTTCAATG-TGAATCTCAAAAACT
*
11168391 TTCGAATGTAATC
65 TTCG-ATGCAATC
* * * *
11168404 TCGATACAAATCTTGAGAACCTTTAGGTGTGAATCATGACCTTT-GATGTGAA
1 TCGATACAAATCTTGAGAACCTTTTGGTGTGAATCTTGAACTTTCAATGTGAA
11168456 ACTTAAAGGC
Statistics
Matches: 109, Mismatches: 15, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
75 1 0.01
76 58 0.53
77 50 0.46
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.35
Consensus pattern (76 bp):
TCGATACAAATCTTGAGAACCTTTTGGTGTGAATCTTGAACTTTCAATGTGAATCTCAAAAACTT
TCGATGCAATC
Found at i:11168848 original size:50 final size:50
Alignment explanation
Indices: 11168788--11168938 Score: 173
Period size: 50 Copynumber: 3.0 Consensus size: 50
11168778 TAGAAGAACA
* * *
11168788 TTTTGAGATAAGAACTTTAAAGTTGCATAACTTTTGTTTAAA-AGAG-CTT
1 TTTTCAGATAAGAATTTTAAAGTTGCATAGCTTTTGTTTAAATA-AGCCTT
*
11168837 TTTTCAAGATAA-AATTTTTAAAGTTGCATGGCTTTTGTTTAAATAAGCCTT
1 TTTTC-AGATAAGAA-TTTTAAAGTTGCATAGCTTTTGTTTAAATAAGCCTT
* * * * *
11168888 TTTTCATATGAGATTTTTAAAGTTGCATAGCTTTTATTTAAATAAGTCTT
1 TTTTCAGATAAGAATTTTAAAGTTGCATAGCTTTTGTTTAAATAAGCCTT
11168938 T
1 T
11168939 CCAAGATGAA
Statistics
Matches: 87, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
49 6 0.07
50 71 0.82
51 10 0.11
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.46
Consensus pattern (50 bp):
TTTTCAGATAAGAATTTTAAAGTTGCATAGCTTTTGTTTAAATAAGCCTT
Found at i:11170600 original size:10 final size:10
Alignment explanation
Indices: 11170585--11170613 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
11170575 CCAACCCATG
11170585 CCACCATCAA
1 CCACCATCAA
11170595 CCACCATCAA
1 CCACCATCAA
11170605 CCACCATCA
1 CCACCATCA
11170614 TTCAACCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.38, C:0.52, G:0.00, T:0.10
Consensus pattern (10 bp):
CCACCATCAA
Found at i:11171860 original size:3 final size:3
Alignment explanation
Indices: 11171854--11171889 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
11171844 TATTAAGGAA
11171854 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
11171890 TGGGGAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:11173868 original size:16 final size:17
Alignment explanation
Indices: 11173842--11173881 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
11173832 TCTTATAATC
*
11173842 ATATAATTTTG-TGAAA
1 ATATTATTTTGATGAAA
*
11173858 ATTTTATTTTGATGAAA
1 ATATTATTTTGATGAAA
11173875 ATATTAT
1 ATATTAT
11173882 AAGATGAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (17 bp):
ATATTATTTTGATGAAA
Found at i:11177462 original size:30 final size:30
Alignment explanation
Indices: 11177344--11177454 Score: 93
Period size: 30 Copynumber: 3.7 Consensus size: 30
11177334 AATCTTTGAG
* * *
11177344 CTTTTAATTTGTATTTAAAT-AAGTTATTGA
1 CTTTTAATTTGTATCTAAATAAACTT-TTAA
* * * *
11177374 CATTTAATTTG-CTCTCACATAAACATTTAA
1 CTTTTAATTTGTATCT-AAATAAACTTTTAA
* *
11177404 -TTTTAATTTATATCTAAATAAACCTTTAA
1 CTTTTAATTTGTATCTAAATAAACTTTTAA
*
11177433 CTTTTAATTTGTATCAAAATAA
1 CTTTTAATTTGTATCTAAATAA
11177455 GTTTTTAATA
Statistics
Matches: 63, Mismatches: 14, Indels: 8
0.74 0.16 0.09
Matches are distributed among these distances:
29 22 0.35
30 38 0.60
31 3 0.05
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.47
Consensus pattern (30 bp):
CTTTTAATTTGTATCTAAATAAACTTTTAA
Found at i:11177521 original size:25 final size:29
Alignment explanation
Indices: 11177493--11177552 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 29
11177483 AAATAAATAC
11177493 TTATTT-AGATAC-ATAAAAA-A-AA-AGT
1 TTATTTGA-ATACAATAAAAATATAAGAGT
11177518 TTATTTGAATACAATAAAAATATAAGAGT
1 TTATTTGAATACAATAAAAATATAAGAGT
11177547 TTATTT
1 TTATTT
11177553 TAAAAAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
25 10 0.33
26 8 0.27
27 1 0.03
28 2 0.07
29 9 0.30
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.38
Consensus pattern (29 bp):
TTATTTGAATACAATAAAAATATAAGAGT
Found at i:11185416 original size:25 final size:24
Alignment explanation
Indices: 11185362--11185417 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 24
11185352 GTACTTTCGA
*
11185362 TATTTTATTTCCTAATTTTTTTAT
1 TATTTTATTTCATAATTTTTTTAT
*
11185386 TAATTTTATTTTATAATTGTTTATT-T
1 T-ATTTTATTTCATAATT-TTT-TTAT
11185412 TATTTT
1 TATTTT
11185418 TTGTGTTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 1 0.04
25 19 0.70
26 5 0.19
27 2 0.07
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.71
Consensus pattern (24 bp):
TATTTTATTTCATAATTTTTTTAT
Found at i:11186198 original size:22 final size:22
Alignment explanation
Indices: 11186173--11186223 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
11186163 TTTAGATGAA
*
11186173 AAAATATTATTAAATTTTTATT
1 AAAATATTATCAAATTTTTATT
*
11186195 AAAATATTATCAAATTTTTGTT
1 AAAATATTATCAAATTTTTATT
11186217 AAAATAT
1 AAAATAT
11186224 AAGAGTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (22 bp):
AAAATATTATCAAATTTTTATT
Found at i:11186833 original size:25 final size:25
Alignment explanation
Indices: 11186800--11186857 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
11186790 TATATTATAT
* *
11186800 TTAACATATATAATA-ATATTAATTA
1 TTAAAATATA-AATAGATATAAATTA
11186825 TTAAAATATAAATATGATATAAATTA
1 TTAAAATATAAATA-GATATAAATTA
11186851 -TAAAATA
1 TTAAAATA
11186858 AATTTAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 4 0.14
25 16 0.55
26 9 0.31
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (25 bp):
TTAAAATATAAATAGATATAAATTA
Found at i:11186946 original size:22 final size:21
Alignment explanation
Indices: 11186920--11186973 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
11186910 ATACGATATG
*
11186920 ATTAATATATATAT-AATTATT
1 ATTAATATATATATGAA-TAAT
11186941 ATTTAA-ATATAATATGAATAAT
1 A-TTAATATAT-ATATGAATAAT
11186963 ATTAATATATA
1 ATTAATATATA
11186974 CGAATAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
21 10 0.36
22 16 0.57
23 2 0.07
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
ATTAATATATATATGAATAAT
Found at i:11187012 original size:19 final size:17
Alignment explanation
Indices: 11186949--11187014 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 17
11186939 TTATTTAAAT
11186949 ATAATATGAATAATATTA
1 ATAATATGAATAATA-TA
* *
11186967 ATATATACGAATAAATACA
1 ATA-ATATGAAT-AATATA
11186986 ATTAATATGAATATATATA
1 A-TAATATGAATA-ATATA
11187005 ATAGATATGA
1 ATA-ATATGA
11187015 TTAACAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
18 6 0.15
19 27 0.69
20 6 0.15
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.35
Consensus pattern (17 bp):
ATAATATGAATAATATA
Found at i:11187018 original size:28 final size:28
Alignment explanation
Indices: 11186946--11187048 Score: 86
Period size: 29 Copynumber: 3.7 Consensus size: 28
11186936 TTATTATTTA
* * *
11186946 AATATAATATGAATAATATTAATATATACG
1 AATA-AATATGATTAATATAAATATATA-T
** *
11186976 AATAAATACAATTAATATGAATATATAT
1 AATAAATATGATTAATATAAATATATAT
* *
11187004 AATAGATATGATTAACA-AAA-ATATAT
1 AATAAATATGATTAATATAAATATATAT
*
11187030 -ATAAATATGATTAAAATAA
1 AATAAATATGATTAATATAA
11187049 TAAATAATTA
Statistics
Matches: 60, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
25 14 0.23
26 8 0.13
27 2 0.03
28 13 0.22
29 19 0.32
30 4 0.07
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (28 bp):
AATAAATATGATTAATATAAATATATAT
Found at i:11187290 original size:11 final size:11
Alignment explanation
Indices: 11187270--11187299 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
11187260 TATAAGACTA
11187270 ATATTAATATTT
1 ATATT-ATATTT
11187282 ATATTATATTT
1 ATATTATATTT
11187293 ATATTAT
1 ATATTAT
11187300 TAATATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
ATATTATATTT
Found at i:11187416 original size:7 final size:8
Alignment explanation
Indices: 11187399--11187431 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
11187389 TAAATATCAT
11187399 AATTAAAA
1 AATTAAAA
11187407 AATT-AAA
1 AATTAAAA
11187414 AATTAAAA
1 AATTAAAA
11187422 AATTAAAA
1 AATTAAAA
11187430 AA
1 AA
11187432 AAATTTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATTAAAA
Found at i:11187419 original size:15 final size:15
Alignment explanation
Indices: 11187399--11187430 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
11187389 TAAATATCAT
11187399 AATTAAAAAATTAAA
1 AATTAAAAAATTAAA
11187414 AATTAAAAAATTAAA
1 AATTAAAAAATTAAA
11187429 AA
1 AA
11187431 AAAATTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (15 bp):
AATTAAAAAATTAAA
Found at i:11189403 original size:18 final size:18
Alignment explanation
Indices: 11189355--11189405 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 18
11189345 AAAAGCTACA
*
11189355 TATTTTTTATT-ATTTTT
1 TATTTTTTATTAAATTTT
*
11189372 TATTTTTGATTTAAATTTT
1 TATTTTTTA-TTAAATTTT
11189391 TATTTTTTATTAAAT
1 TATTTTTTATTAAAT
11189406 AAATTTTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 8 0.28
18 8 0.28
19 13 0.45
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (18 bp):
TATTTTTTATTAAATTTT
Found at i:11190014 original size:16 final size:16
Alignment explanation
Indices: 11189986--11190051 Score: 57
Period size: 17 Copynumber: 4.1 Consensus size: 16
11189976 TATTTGTATA
11189986 TATTATATTAATAAAAT
1 TATTAT-TTAATAAAAT
*
11190003 TATTATTTAATATAA-
1 TATTATTTAATAAAAT
11190018 TA--ATTTAATAAAAT
1 TATTATTTAATAAAAT
* *
11190032 AATATATTTATATATAAT
1 TAT-TATTTA-ATAAAAT
11190050 TA
1 TA
11190052 AGATGTAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
16 8 0.21
17 11 0.28
18 7 0.18
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TATTATTTAATAAAAT
Found at i:11193177 original size:6 final size:7
Alignment explanation
Indices: 11193143--11193200 Score: 55
Period size: 8 Copynumber: 7.7 Consensus size: 7
11193133 GGTTTCAAAA
11193143 TTTTAAGG
1 TTTT-AGG
11193151 TTTTAGG
1 TTTTAGG
11193158 TTTTAGG
1 TTTTAGG
11193165 ATTTT-GG
1 -TTTTAGG
*
11193172 TTTTGGG
1 TTTTAGG
11193179 ATTTTGAGG
1 -TTTT-AGG
11193188 TTTTAGGG
1 TTTTA-GG
11193196 TTTTA
1 TTTTA
11193201 AAATTTAAGG
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
6 4 0.09
7 15 0.34
8 23 0.52
9 2 0.05
ACGTcount: A:0.16, C:0.00, G:0.29, T:0.55
Consensus pattern (7 bp):
TTTTAGG
Found at i:11193212 original size:15 final size:16
Alignment explanation
Indices: 11193189--11193229 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
11193179 ATTTTGAGGT
*
11193189 TTTAGGGTTTT-AAAA
1 TTTAAGGTTTTGAAAA
*
11193204 TTTAAGGTTTTGAAAT
1 TTTAAGGTTTTGAAAA
11193220 TTTAAGGTTT
1 TTTAAGGTTT
11193230 CGAGAGTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (16 bp):
TTTAAGGTTTTGAAAA
Found at i:11193298 original size:15 final size:14
Alignment explanation
Indices: 11193265--11193312 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 14
11193255 AGTCTTACGG
*
11193265 TTTAGAGTTTTAGAT
1 TTTAGAGTTTTA-AA
11193280 TTTAGAGTTTTCAAA
1 TTTAGAGTTTT-AAA
*
11193295 TTTATAGTTTTGAAA
1 TTTAGAGTTTT-AAA
11193310 TTT
1 TTT
11193313 TAGGGTTTCG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 28 0.97
16 1 0.03
ACGTcount: A:0.29, C:0.02, G:0.15, T:0.54
Consensus pattern (14 bp):
TTTAGAGTTTTAAA
Found at i:11193407 original size:15 final size:15
Alignment explanation
Indices: 11193389--11193438 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 15
11193379 GTTTTAAGTA
11193389 TTTAAAGTTTAGGGT
1 TTTAAAGTTTAGGGT
11193404 TTTAAAGGTTTAAGGGT
1 TTTAAA-GTTT-AGGGT
*
11193421 TTT-TAGTTATAGGGT
1 TTTAAAGTT-TAGGGT
11193436 TTT
1 TTT
11193439 GGGTATTAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
15 17 0.55
16 6 0.19
17 8 0.26
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (15 bp):
TTTAAAGTTTAGGGT
Found at i:11193470 original size:16 final size:16
Alignment explanation
Indices: 11193451--11193485 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
11193441 GTATTAAGGG
*
11193451 TTTTAGGGTTTCATAA
1 TTTTAGGGTTTCAAAA
*
11193467 TTTTTGGGTTTCAAAA
1 TTTTAGGGTTTCAAAA
11193483 TTT
1 TTT
11193486 GAATTTTTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.23, C:0.06, G:0.17, T:0.54
Consensus pattern (16 bp):
TTTTAGGGTTTCAAAA
Found at i:11193524 original size:15 final size:15
Alignment explanation
Indices: 11193490--11193546 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
11193480 AAATTTGAAT
*
11193490 TTTTAGAGTGTTGAGAG
1 TTTTAGGGT-TTG-GAG
11193507 TTTTAGGGTTTGGAG
1 TTTTAGGGTTTGGAG
*
11193522 -TTTAGGATTTAGGA-
1 TTTTAGGGTTT-GGAG
11193536 TTTTAGGGTTT
1 TTTTAGGGTTT
11193547 TGAAATTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
14 9 0.26
15 15 0.43
16 3 0.09
17 8 0.23
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.47
Consensus pattern (15 bp):
TTTTAGGGTTTGGAG
Found at i:11194077 original size:7 final size:7
Alignment explanation
Indices: 11194055--11194122 Score: 52
Period size: 7 Copynumber: 9.6 Consensus size: 7
11194045 AAATTTTAAT
11194055 TTTATT-
1 TTTATTA
11194061 TTTCATTA
1 TTT-ATTA
11194069 TTTATTA
1 TTTATTA
11194076 -TTATTA
1 TTTATTA
*
11194082 TTTATTTG
1 TTTA-TTA
11194090 TTTATTA
1 TTTATTA
* *
11194097 ATTCTTA
1 TTTATTA
11194104 TTT-TTA
1 TTTATTA
11194110 TTGTTATTA
1 -T-TTATTA
11194119 TTTA
1 TTTA
11194123 AAAAACAATA
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
6 12 0.24
7 23 0.46
8 12 0.24
9 3 0.06
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (7 bp):
TTTATTA
Found at i:11194084 original size:28 final size:29
Alignment explanation
Indices: 11194053--11194117 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 29
11194043 AAAAATTTTA
*
11194053 ATTTTATTT-TTCATTATTTATTATTATT
1 ATTTTATTTGTTCATTAATTATTATTATT
* * *
11194081 A-TTTATTTGTTTATTAATTCTTATTTTT
1 ATTTTATTTGTTCATTAATTATTATTATT
11194109 ATTGTTATT
1 ATT-TTATT
11194118 ATTTAAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
27 7 0.23
28 17 0.57
29 1 0.03
30 5 0.17
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.71
Consensus pattern (29 bp):
ATTTTATTTGTTCATTAATTATTATTATT
Done.