Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 52 of 153
Found at i:17222254 original size:13 final size:13
Alignment explanation
Indices: 17222229--17222289 Score: 54
Period size: 14 Copynumber: 4.6 Consensus size: 13
17222219 TTATGTTAAT
*
17222229 ATTTTA-TAGTAA
1 ATTTTAGTAATAA
17222241 ATTTTAGTAATAAA
1 ATTTTAGTAAT-AA
**
17222255 ATTTTAG-AGATGG
1 ATTTTAGTA-ATAA
17222268 ATTTTAGTAATACA
1 ATTTTAGTAATA-A
17222282 ATTTTAGT
1 ATTTTAGT
17222290 TTATTTGCAA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
12 6 0.15
13 13 0.33
14 20 0.51
ACGTcount: A:0.39, C:0.02, G:0.13, T:0.46
Consensus pattern (13 bp):
ATTTTAGTAATAA
Found at i:17222708 original size:21 final size:22
Alignment explanation
Indices: 17222667--17222709 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
17222657 TAAATTGATT
* *
17222667 CATTAAAATTGTAAAATATAAC
1 CATTAAAAATGTAAAACATAAC
17222689 CATTAAAAAT-TAAAACATAAC
1 CATTAAAAATGTAAAACATAAC
17222710 TAAAAAACAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (22 bp):
CATTAAAAATGTAAAACATAAC
Found at i:17224817 original size:14 final size:15
Alignment explanation
Indices: 17224793--17224832 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
17224783 AATAATAATA
*
17224793 ATAATAATAAAAGGG
1 ATAATAATAAAAGGC
*
17224808 ATAA-AATAAAATGC
1 ATAATAATAAAAGGC
17224822 ATAATAATAAA
1 ATAATAATAAA
17224833 GAAAATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.65, C:0.03, G:0.10, T:0.23
Consensus pattern (15 bp):
ATAATAATAAAAGGC
Found at i:17226309 original size:13 final size:12
Alignment explanation
Indices: 17226282--17226325 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
17226272 CTTTGAACTC
*
17226282 TTTA-TTTGATT
1 TTTATTTTGTTT
17226293 TTTATTTTGTTT
1 TTTATTTTGTTT
17226305 ATTTATTTTTGTTT
1 -TTTA-TTTTGTTT
17226319 TTTATTT
1 TTTATTT
17226326 GGGCTGGATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
11 4 0.14
12 9 0.31
13 8 0.28
14 8 0.28
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.80
Consensus pattern (12 bp):
TTTATTTTGTTT
Found at i:17226320 original size:20 final size:20
Alignment explanation
Indices: 17226282--17226319 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
17226272 CTTTGAACTC
17226282 TTTATTTGATTTTTATTTTG
1 TTTATTTGATTTTTATTTTG
*
17226302 TTTATTT-ATTTTTGTTTT
1 TTTATTTGATTTTTATTTT
17226320 TTATTTGGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.13, C:0.00, G:0.08, T:0.79
Consensus pattern (20 bp):
TTTATTTGATTTTTATTTTG
Found at i:17227979 original size:21 final size:20
Alignment explanation
Indices: 17227950--17227989 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
17227940 CCAGTAGCCC
17227950 CCCTCTCTC-CTTTCCTCTCT
1 CCCTCTCTCTC-TTCCTCTCT
17227970 CCCTCCTCTCTCTTCCTCTC
1 CCCT-CTCTCTCTTCCTCTC
17227990 CATTCTTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 13 0.72
22 1 0.06
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.42
Consensus pattern (20 bp):
CCCTCTCTCTCTTCCTCTCT
Found at i:17228471 original size:19 final size:19
Alignment explanation
Indices: 17228447--17228489 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
17228437 TTTTGTTTCT
17228447 TTATTAAATATTGTTATTA
1 TTATTAAATATTGTTATTA
17228466 TTATTAAATATTGTTATTA
1 TTATTAAATATTGTTATTA
17228485 TTATT
1 TTATT
17228490 GTAATATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (19 bp):
TTATTAAATATTGTTATTA
Found at i:17228917 original size:20 final size:20
Alignment explanation
Indices: 17228867--17228931 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
17228857 ATATTCTTGC
* *
17228867 ATTATGTATATTATTCTTTTT
1 ATTATGTATATT-TTCTATAT
*
17228888 AAATAT-TATATTTTCTATAT
1 -ATTATGTATATTTTCTATAT
*
17228908 ATTATGTATACATTT-TATAT
1 ATTATGTATA-TTTTCTATAT
17228928 ATTA
1 ATTA
17228932 CGTAGATATC
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
19 4 0.11
20 19 0.53
21 9 0.25
22 4 0.11
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (20 bp):
ATTATGTATATTTTCTATAT
Found at i:17229573 original size:21 final size:22
Alignment explanation
Indices: 17229549--17229604 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
17229539 TCTCATATAT
*
17229549 TATTATATTATTTATTAT-ACC
1 TATTATTTTATTTATTATCACC
*
17229570 TATTATTTTCA-TTATTATCACT
1 TATTATTTT-ATTTATTATCACC
17229592 TATTATTTTATTT
1 TATTATTTTATTT
17229605 TAATATTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 16 0.53
22 14 0.47
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTATTTTATTTATTATCACC
Found at i:17229598 original size:22 final size:21
Alignment explanation
Indices: 17229560--17229600 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
17229550 ATTATATTAT
17229560 TTATTATACCTATTATTTTCA
1 TTATTATACCTATTATTTTCA
*
17229581 TTATTATCACTTATTATTTT
1 TTATTAT-ACCTATTATTTT
17229601 ATTTTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (21 bp):
TTATTATACCTATTATTTTCA
Found at i:17229612 original size:38 final size:37
Alignment explanation
Indices: 17229519--17229614 Score: 97
Period size: 37 Copynumber: 2.5 Consensus size: 37
17229509 CTTGTATACA
* *
17229519 TATTTTATATATAGTATTATTCTCATATATTATTATAT
1 TATTTTAT-TATAATATTATTCTCATATATTATCATAT
* *
17229557 TA-TTTATTATACCTATTATTTTCAT-TATTATCACTTAT
1 TATTTTATTATA-ATATTATTCTCATATATTATCA--TAT
*
17229595 TATTTTATTTTAATATTATT
1 TATTTTATTATAATATTATT
17229615 ATGTATATAT
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
36 11 0.22
37 16 0.33
38 14 0.29
39 8 0.16
ACGTcount: A:0.31, C:0.07, G:0.01, T:0.60
Consensus pattern (37 bp):
TATTTTATTATAATATTATTCTCATATATTATCATAT
Found at i:17242233 original size:87 final size:87
Alignment explanation
Indices: 17242097--17242509 Score: 530
Period size: 87 Copynumber: 4.7 Consensus size: 87
17242087 GTTCAAATTA
* * * *
17242097 TGTTTTT-AATTTCTACTTTTCCAAAATCAACTCATATTGCGAGGGGTGAGTTGAGCCTCAGGAC
1 TGTTTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
*
17242161 ACGCTGAGGTAATTTCAATTCT
66 ACGCTGAGGTATTTTCAATTCT
*
17242183 TGTCTTT-AATTTCGA-ATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
1 TGTTTTTCAATTT--ATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
* *
17242246 ATACGCTGAGGTATTTTCAATTTT
64 ACACGCTGAGGTATTTTCAATTCT
* *
17242270 TATTTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTC-GGCT
1 TGTTTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--
* * *
17242334 CGCATGCTGAGGTATTTTCAGTT-T
64 -ACACGCTGAGGTATTTTCAATTCT
* * * *
17242358 CTATTTTTCAAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
1 -TGTTTTTC-AATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
*
17242423 ACACGCTGAGGTATTTTCAATTTT
64 ACACGCTGAGGTATTTTCAATTCT
*
17242447 TGTTTTTTTTTAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 TG---TTTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
17242510 GGGTCACATG
Statistics
Matches: 286, Mismatches: 27, Indels: 24
0.85 0.08 0.07
Matches are distributed among these distances:
86 14 0.05
87 115 0.40
88 26 0.09
89 27 0.09
90 97 0.34
91 7 0.02
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (87 bp):
TGTTTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
ACGCTGAGGTATTTTCAATTCT
Found at i:17242278 original size:14 final size:14
Alignment explanation
Indices: 17242259--17242293 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
17242249 CGCTGAGGTA
*
17242259 TTTTCAATTTTTAT
1 TTTTCAATTTATAT
17242273 TTTTCAATTTATAT
1 TTTTCAATTTATAT
17242287 TTTTCAA
1 TTTTCAA
17242294 AAATCAACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTATAT
Found at i:17242567 original size:25 final size:25
Alignment explanation
Indices: 17242539--17242588 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
17242529 TTTCAAAATT
17242539 TGCTCTTAAGTTTCAAAAAAACTAA
1 TGCTCTTAAGTTTCAAAAAAACTAA
17242564 TGCTCTTAAGTTTCAAAAAAACTAA
1 TGCTCTTAAGTTTCAAAAAAACTAA
17242589 CTCATATTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (25 bp):
TGCTCTTAAGTTTCAAAAAAACTAA
Found at i:17244369 original size:19 final size:19
Alignment explanation
Indices: 17244345--17244387 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
17244335 TTTTGTTTCT
17244345 TTATTAAATATTGTTATTA
1 TTATTAAATATTGTTATTA
17244364 TTATTAAATATTGTTATTA
1 TTATTAAATATTGTTATTA
17244383 TTATT
1 TTATT
17244388 GTAATATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (19 bp):
TTATTAAATATTGTTATTA
Found at i:17245474 original size:21 final size:22
Alignment explanation
Indices: 17245450--17245505 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
17245440 TCTCATATAT
*
17245450 TATTATATTATTTATTAT-ACC
1 TATTATTTTATTTATTATCACC
*
17245471 TATTATTTTCA-TTATTATCACT
1 TATTATTTT-ATTTATTATCACC
17245493 TATTATTTTATTT
1 TATTATTTTATTT
17245506 TAATATTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 16 0.53
22 14 0.47
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTATTTTATTTATTATCACC
Found at i:17245499 original size:22 final size:21
Alignment explanation
Indices: 17245461--17245501 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
17245451 ATTATATTAT
17245461 TTATTATACCTATTATTTTCA
1 TTATTATACCTATTATTTTCA
*
17245482 TTATTATCACTTATTATTTT
1 TTATTAT-ACCTATTATTTT
17245502 ATTTTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (21 bp):
TTATTATACCTATTATTTTCA
Found at i:17245513 original size:38 final size:37
Alignment explanation
Indices: 17245420--17245515 Score: 97
Period size: 37 Copynumber: 2.5 Consensus size: 37
17245410 CTTGTATACA
* *
17245420 TATTTTATATATAGTATTATTCTCATATATTATTATAT
1 TATTTTAT-TATAATATTATTCTCATATATTATCATAT
* *
17245458 TA-TTTATTATACCTATTATTTTCAT-TATTATCACTTAT
1 TATTTTATTATA-ATATTATTCTCATATATTATCA--TAT
*
17245496 TATTTTATTTTAATATTATT
1 TATTTTATTATAATATTATT
17245516 ATGTATATAT
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
36 11 0.22
37 16 0.33
38 14 0.29
39 8 0.16
ACGTcount: A:0.31, C:0.07, G:0.01, T:0.60
Consensus pattern (37 bp):
TATTTTATTATAATATTATTCTCATATATTATCATAT
Found at i:17258360 original size:23 final size:24
Alignment explanation
Indices: 17258311--17258366 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
17258301 TTGTCCCATT
* * **
17258311 TTTTAAGGTTAGGATTTTTTATTA
1 TTTTAGGGTTAGGAATTTTTAAGA
17258335 TTTTAGGGTTA-GAATTTTTAAGA
1 TTTTAGGGTTAGGAATTTTTAAGA
17258358 -TTTAGGGTT
1 TTTTAGGGTT
17258367 TTAGTGTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 9 0.32
23 9 0.32
24 10 0.36
ACGTcount: A:0.25, C:0.00, G:0.21, T:0.54
Consensus pattern (24 bp):
TTTTAGGGTTAGGAATTTTTAAGA
Found at i:17258485 original size:16 final size:17
Alignment explanation
Indices: 17258455--17258488 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
17258445 TAATTAAATT
*
17258455 AGGGTTTAGGGTTTTTG
1 AGGGTTTAGGATTTTTG
17258472 AGGG-TTAGGATTTTTG
1 AGGGTTTAGGATTTTTG
17258488 A
1 A
17258489 TTGTTTTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.18, C:0.00, G:0.38, T:0.44
Consensus pattern (17 bp):
AGGGTTTAGGATTTTTG
Found at i:17258749 original size:157 final size:156
Alignment explanation
Indices: 17258310--17259252 Score: 1233
Period size: 157 Copynumber: 6.0 Consensus size: 156
17258300 TTTGTCCCAT
* * * * ** * *
17258310 TTTTTAAGGTTAGGATTTTTTATTATTTTAGGGTTAGAATTTTTA-AGATTTAGGGTTTTAGTGT
1 TTTTTAAGGTTAGGATTTTTGATTGTTTTA-GGATCGAGGTTTTAGTGGTTTAGGGTTTTAGTGT
* * * * * *
17258374 TTTTTAAGAGAAAATTAATTTAATAAGAGTTAATGGTCAATTAATTAAATTAACTATGAAATTAA
65 TTTTTAGGAAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAATTAA
* *
17258439 AAAAATTAATTAAATTAGGGTTTAGGG
130 AAAAATCAATTAAATTAGGGTTTAGGA
* * *
17258466 TTTTTGAGGGTTAGGATTTTTGATTGTTTTATGAT-TAGAGTTTTAGTGGTTTAGGGTTTTAGTG
1 TTTTT-AAGGTTAGGATTTTTGATTGTTTTAGGATCGAG-GTTTTAGTGGTTTAGGGTTTTAGTG
* *
17258530 TTTTTAAGG-GAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAATTA
64 TTTTTTAGGAAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAATTA
* * *
17258594 GAAAAATTAATTTAATTAGGGTTTAGGA
129 AAAAAATCAATTAAATTAGGGTTTAGGA
* * * * *
17258622 TTTTTAAGGTTAGGTTTTTTTATTGTTTTAGGATCGAGGTTTTACTGGTTTAGCGTTTTACTGCT
1 TTTTTAAGGTTAGGATTTTTGATTGTTTTAGGATCGAGGTTTTAGTGGTTTAGGGTTTTAGTG-T
*
17258687 TTTTTAGGAAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAATTAG
65 TTTTTAGGAAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAATTAA
* *
17258752 AAAAATTAATTTAATTAGGGTTTAGGA
130 AAAAATCAATTAAATTAGGGTTTAGGA
* *
17258779 TTTTTAAGGTTAGGTTTTTTTATTGTTTTAGGATCGAGGTTTTAGTGGTTTAGGGTTTTAGTGCT
1 TTTTTAAGGTTAGGATTTTTGATTGTTTTAGGATCGAGGTTTTAGTGGTTTAGGGTTTTAGTG-T
* *
17258844 TTTTTAGGAAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATAAAAATAA
65 TTTTTAGGAAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAATTAA
*
17258909 AAAAATCAATTAAATTAGAGTTTAGGA
130 AAAAATCAATTAAATTAGGGTTTAGGA
* * * *
17258936 TTTTTTTAAGGTTA-CAGTTTTTGATTGTTTTAAGATC-AGG-GTTA--GGTTTAGGATTTTAGT
1 --TTTTTAAGGTTAGGA-TTTTTGATTGTTTTAGGATCGAGGTTTTAGTGGTTTAGGGTTTTAGT
*
17258996 GTTTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGATAA
63 GTTTTTT-AGGAAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGA-AA
*
17259061 -T-AAAAAATCAATTAAATTAGGGTTTAGAA
126 TTAAAAAAATCAATTAAATTAGGGTTTAGGA
* * *
17259090 TTTTTTAAGGTTAGGGTTTTTGATTGTTTTAGGAT-TAGGGTTTTAGTGGTTTAGGGTTTTAGTA
1 -TTTTTAAGGTTAGGATTTTTGATTGTTTTAGGATCGA-GGTTTTAGTGGTTTAGGGTTTTAGTG
* * * *
17259154 TTTTTAAGGGAAAACTTAATTTAATTAGAGTTGAGAGTTAATTAATTAAATTAACTATGAAATTA
64 TTTTTTAGGAAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAATTA
*
17259219 AAAATAATCAATTAAATTAGGGTTTAGGG
129 AAAA-AATCAATTAAATTAGGGTTTAGGA
17259248 TTTTT
1 TTTTT
17259253 TTAAGGTTTA
Statistics
Matches: 708, Mismatches: 59, Indels: 39
0.88 0.07 0.05
Matches are distributed among these distances:
153 32 0.05
154 34 0.05
155 122 0.17
156 158 0.22
157 307 0.43
158 25 0.04
159 30 0.04
ACGTcount: A:0.34, C:0.02, G:0.20, T:0.44
Consensus pattern (156 bp):
TTTTTAAGGTTAGGATTTTTGATTGTTTTAGGATCGAGGTTTTAGTGGTTTAGGGTTTTAGTGTT
TTTTAGGAAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAATTAAA
AAAATCAATTAAATTAGGGTTTAGGA
Found at i:17259023 original size:312 final size:310
Alignment explanation
Indices: 17258358--17259260 Score: 1284
Period size: 312 Copynumber: 2.9 Consensus size: 310
17258348 ATTTTTAAGA
* * * * *
17258358 TTTAGGGTTTTAGTGTTTTTTAAGAG-AAAATTAATTTAATAAGAGTTAATGGTCAATTAATTAA
1 TTTA-GGTTTTAGTGTTTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAA
* *
17258422 ATTAACTATGAAATTAAAAAAATTAATTAAATTAGGGTTTAGGGTTTTTGAGGGTTAGGATTTTT
65 ATTAACTATGAAATT-AAAAAATTAATTAAATTAGGGTTTAGGATTTTT-AAGGTTAGGATTTTT
* *
17258487 GATTGTTTTATGATTAGAGTTTTAGTGGTTTAGGGTTTTAGTGTTTTTAAGGGAAAATTAATTTA
128 GATTGTTTTAGGATTAG-GTTTTAGTGGTTTAGGGTTTTAGTGTTTTTAAGGAAAAATTAATTTA
* * *
17258552 ATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAATTAGAAAAATTAATTTAATTAGGGTT
192 ATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAATTAAAAAAATCAATTAAATTAGGGTT
* * * *
17258617 TAGGA--TTTTTAAGGTTAGGTTTTTTTATTGTTTTAGGATCGAGGTTTTACTGG
257 TAGGATTTTTTTAAGGTTAAGTTTTTTGATTGTTTTAAGATCGAGGTGTTAC-GG
* *
17258670 TTTAGCGTTTTACTGCTTTTTT-AGGAAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTA
1 TTTAG-GTTTTAGTG-TTTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTA
* *
17258734 AATTAACTATGAAATTAGAAAAATTAATTTAATTAGGGTTTAGGATTTTTAAGGTTAGGTTTTTT
64 AATTAACTATGAAATTA-AAAAATTAATTAAATTAGGGTTTAGGATTTTTAAGGTTAGGATTTTT
* * *
17258799 TATTGTTTTAGGATCGAGGTTTTAGTGGTTTAGGGTTTTAGTGCTTTTTTAGGAAAAAATTAATT
128 GATTGTTTTAGGAT-TAGGTTTTAGTGGTTTAGGGTTTTAGTG-TTTTTAAGG-AAAAATTAATT
* * *
17258864 TAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATAAAAATAAAAAAATCAATTAAATTAGAG
190 TAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAATTAAAAAAATCAATTAAATTAGGG
17258929 TTTAGGATTTTTTTAAGGTTACAG-TTTTTGATTGTTTTAAGATC-AGG-GTTA-GG
255 TTTAGGATTTTTTTAAGGTTA-AGTTTTTTGATTGTTTTAAGATCGAGGTGTTACGG
17258982 TTTAGGATTTTAGTGTTTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAA
1 TTTAGG-TTTTAGTGTTTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAA
* * *
17259047 ATTAACTATGATAA-TAAAAAATCAATTAAATTAGGGTTTAGAATTTTTTAAGGTTAGGGTTTTT
65 ATTAACTATGA-AATTAAAAAATTAATTAAATTAGGGTTTAGGA-TTTTTAAGGTTAGGATTTTT
* *
17259111 GATTGTTTTAGGATTAGGGTTTTAGTGGTTTAGGGTTTTAGTATTTTTAAGGGAAAACTTAATTT
128 GATTGTTTTAGGATTA-GGTTTTAGTGGTTTAGGGTTTTAGTGTTTTTAA-GGAAAAATTAATTT
*
17259176 AATTAGAGTTGAGAGTTAATTAATTAAATTAACTATGAAATTAAAAATAATCAATTAAATTAGGG
191 AATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAATTAAAAA-AATCAATTAAATTAGGG
*
17259241 TTTAGGGTTTTTTTAAGGTT
255 TTTAGGATTTTTTTAAGGTT
17259261 TATTAATTAA
Statistics
Matches: 532, Mismatches: 42, Indels: 34
0.88 0.07 0.06
Matches are distributed among these distances:
311 94 0.18
312 228 0.43
313 97 0.18
314 79 0.15
315 3 0.01
316 30 0.06
317 1 0.00
ACGTcount: A:0.34, C:0.02, G:0.20, T:0.44
Consensus pattern (310 bp):
TTTAGGTTTTAGTGTTTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAA
TTAACTATGAAATTAAAAAATTAATTAAATTAGGGTTTAGGATTTTTAAGGTTAGGATTTTTGAT
TGTTTTAGGATTAGGTTTTAGTGGTTTAGGGTTTTAGTGTTTTTAAGGAAAAATTAATTTAATTA
GAGTTGAGGGTTAATTAATTAAATTAACTATGAAATTAAAAAAATCAATTAAATTAGGGTTTAGG
ATTTTTTTAAGGTTAAGTTTTTTGATTGTTTTAAGATCGAGGTGTTACGG
Found at i:17259127 original size:24 final size:25
Alignment explanation
Indices: 17259076--17259135 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 25
17259066 AATCAATTAA
17259076 ATTAGGG-TTTAGAATTTTTTAAGG
1 ATTAGGGTTTTAGAATTTTTTAAGG
*
17259100 -TTAGGGTTTTTG-ATTGTTTT-AGG
1 ATTAGGGTTTTAGAATT-TTTTAAGG
17259123 ATTAGGGTTTTAG
1 ATTAGGGTTTTAG
17259136 TGGTTTAGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
23 12 0.39
24 19 0.61
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.50
Consensus pattern (25 bp):
ATTAGGGTTTTAGAATTTTTTAAGG
Found at i:17259141 original size:23 final size:24
Alignment explanation
Indices: 17259092--17259141 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
17259082 GTTTAGAATT
* *
17259092 TTTTAAGGTTAGGGTTTTTGATTG
1 TTTTAAGGTTAGGGTTTTAGATGG
17259116 TTTT-AGGATTAGGGTTTTAG-TGG
1 TTTTAAGG-TTAGGGTTTTAGATGG
17259139 TTT
1 TTT
17259142 AGGGTTTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.16, C:0.00, G:0.30, T:0.54
Consensus pattern (24 bp):
TTTTAAGGTTAGGGTTTTAGATGG
Found at i:17259506 original size:126 final size:126
Alignment explanation
Indices: 17259281--17259715 Score: 674
Period size: 126 Copynumber: 3.5 Consensus size: 126
17259271 ATTAACTATT
* * * * *
17259281 AATTACGGAAAAAAGCTCTCACGTGGATGCTCTTTTGCTATAGTAGTATCTGAAAAAATAAATTT
1 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAATTTT
* * *
17259346 GAGAAGATGTTTTTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTTAGGAA
66 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGCAA
* * * * *
17259407 AATTACGGAAAAAAGTTCTCACGTGGACGCTCTTTTGCTATAGTAATATCAGATAAAATAATTTT
1 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAATTTT
*
17259472 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAATGATGCACTGTCAGCAA
66 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGCAA
*
17259533 AATTACGGGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAATTTT
1 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAATTTT
* * *
17259598 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACACTTCAAGAAGGATGCATTGTCAGTAA
66 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGCAA
* * *
17259659 AATTATGGAAAAGAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATTTGA-AAAA
1 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAA
17259716 GCCTTAGACT
Statistics
Matches: 285, Mismatches: 24, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
125 4 0.01
126 281 0.99
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (126 bp):
AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAATTTT
GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGCAA
Found at i:17262368 original size:9 final size:9
Alignment explanation
Indices: 17262354--17262385 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
17262344 ATTTATATTT
17262354 TATTAAAAA
1 TATTAAAAA
17262363 TATTAAAAA
1 TATTAAAAA
17262372 TATTAAAAA
1 TATTAAAAA
17262381 TATTA
1 TATTA
17262386 TCGTAGTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (9 bp):
TATTAAAAA
Found at i:17263599 original size:7 final size:7
Alignment explanation
Indices: 17263584--17263616 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
17263574 TTATATAGGT
17263584 AATACTA
1 AATACTA
*
17263591 AATAATA
1 AATACTA
17263598 AATACTA
1 AATACTA
17263605 AATACTA
1 AATACTA
17263612 AATAC
1 AATAC
17263617 GAAACGACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.61, C:0.12, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:17264791 original size:22 final size:21
Alignment explanation
Indices: 17264759--17264805 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
17264749 ACATAGCTTT
17264759 TTTG-CAAAAATT-AGAGACAA
1 TTTGACAAAAATTGAGAGA-AA
17264779 CTTTGACAAAAATTGAGAGAAA
1 -TTTGACAAAAATTGAGAGAAA
17264801 TTTGA
1 TTTGA
17264806 GAGAATTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.38
22 10 0.42
23 5 0.21
ACGTcount: A:0.47, C:0.09, G:0.17, T:0.28
Consensus pattern (21 bp):
TTTGACAAAAATTGAGAGAAA
Found at i:17270569 original size:128 final size:127
Alignment explanation
Indices: 17270331--17270640 Score: 379
Period size: 128 Copynumber: 2.4 Consensus size: 127
17270321 CGAAACTCAG
* * * ** *
17270331 CACGGTAGGGCACGATTC-CTCGAACTTCCTAACATTGAACATTGCATTGTTTTAGAATTTAAAG
1 CACGATAGGGCACGATTCTC-CGAATTTCCAAACATCAAACATTGCATTGTTTTAGAATTTAAAA
* * * *
17270395 AATACGAATGAAATTCTAAAGGAATATTTGATTATTTTGAATAAACGAGAAATCAAAACCCAA
65 AACACGAATGAAATTCTAAAGGAAGATTCGATTATTTTGAACAAACGAGAAATCAAAACCCAA
* * * *
17270458 CACGATAGGGCACGGTTCTCCGAATTTTCAAGCATCAAATATTGCATTGTTTTAGAATTTAGAAA
1 CACGATAGGGCACGATTCTCCGAATTTCCAAACATCAAACATTGCATTGTTTTAGAATTTA-AAA
* * * * * *
17270523 AACACGAGTGAAATTCTAAAGGAAGGTTCGATTATTTTGAACAAACGGGAAATCGAAACTCAG
65 AACACGAATGAAATTCTAAAGGAAGATTCGATTATTTTGAACAAACGAGAAATCAAAACCCAA
* * *
17270586 CACGATAGGGCACGATTTTCTGAATTTCCAAACATCAAACATTGCCTTCGTTTTA
1 CACGATAGGGCACGATTCTCCGAATTTCCAAACATCAAACATTGCATT-GTTTTA
17270641 AGGTTTAAAC
Statistics
Matches: 153, Mismatches: 27, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
127 50 0.33
128 97 0.63
129 6 0.04
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.29
Consensus pattern (127 bp):
CACGATAGGGCACGATTCTCCGAATTTCCAAACATCAAACATTGCATTGTTTTAGAATTTAAAAA
ACACGAATGAAATTCTAAAGGAAGATTCGATTATTTTGAACAAACGAGAAATCAAAACCCAA
Found at i:17271731 original size:29 final size:28
Alignment explanation
Indices: 17271706--17271765 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
17271696 AGGAAACACT
* *
17271706 TATATATATAT-AATAGATTTAAAAACA
1 TATATATACATAAATAAATTTAAAAACA
*
17271733 TATATATACATAAATAAATTTAAAAAAA
1 TATATATACATAAATAAATTTAAAAACA
17271761 TATAT
1 TATAT
17271766 GCGAGAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 10 0.34
28 19 0.66
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (28 bp):
TATATATACATAAATAAATTTAAAAACA
Found at i:17272461 original size:18 final size:19
Alignment explanation
Indices: 17272440--17272475 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
17272430 TTAAATAGTA
17272440 TTAAAA-ATAATTTTATAT
1 TTAAAAGATAATTTTATAT
*
17272458 TTAAAAGATATTTTTATA
1 TTAAAAGATAATTTTATA
17272476 AGAATTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (19 bp):
TTAAAAGATAATTTTATAT
Found at i:17273991 original size:28 final size:29
Alignment explanation
Indices: 17273959--17274021 Score: 103
Period size: 28 Copynumber: 2.2 Consensus size: 29
17273949 AAAAACAAAC
*
17273959 TTAAAAACCTGGG-TTTTGAAATCTATTT
1 TTAAAAACCTGGGTTTTTGAAACCTATTT
17273987 TT-AAAACCTGGGTTTTTGAAACCTATTT
1 TTAAAAACCTGGGTTTTTGAAACCTATTT
17274015 TTAAAAA
1 TTAAAAA
17274022 TCAACTTTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 10 0.31
28 18 0.56
29 4 0.12
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (29 bp):
TTAAAAACCTGGGTTTTTGAAACCTATTT
Found at i:17275889 original size:46 final size:50
Alignment explanation
Indices: 17275829--17275991 Score: 140
Period size: 52 Copynumber: 3.2 Consensus size: 50
17275819 TAGCCTCGCC
* *
17275829 ATGGTCTTACACGGATCACA-TATC-AT-ACA-GATGCCATATCCCAGAT
1 ATGGTCTTATACGGATCACATTATCAATCACACGATGCCATAGCCCAGAT
* *
17275875 ATGGTCTTATACGGAATCATATTATCATATCACACCGATGCCATAGCCCAGCT
1 ATGGTCTTATACGG-ATCACATTATCA-ATCACA-CGATGCCATAGCCCAGAT
* * * * *
17275928 ATGGTCTTATACGGA-AACACGTATCACATTGCAC-CAATGCCATAGCCAAGCT
1 ATGGTCTTATACGGATCACA-TTATCA-A-T-CACACGATGCCATAGCCCAGAT
17275980 ATGGTCTTATAC
1 ATGGTCTTATAC
17275992 AGAAGCACAT
Statistics
Matches: 97, Mismatches: 10, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
46 13 0.13
47 5 0.05
48 4 0.04
50 2 0.02
51 5 0.05
52 35 0.36
53 30 0.31
54 3 0.03
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (50 bp):
ATGGTCTTATACGGATCACATTATCAATCACACGATGCCATAGCCCAGAT
Found at i:17275925 original size:53 final size:52
Alignment explanation
Indices: 17275847--17275991 Score: 173
Period size: 53 Copynumber: 2.8 Consensus size: 52
17275837 ACACGGATCA
* * * * * *
17275847 CATATCATACAGATGCCATATCCCAGATATGGTCTTATACGGAATCATATTAT
1 CATATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAACA-AGTAT
*
17275900 CATATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAACACGTAT
1 CATATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAACAAGTAT
* ** * *
17275952 CACATTGCACCAATGCCATAGCCAAGCTATGGTCTTATAC
1 CATATCACACCGATGCCATAGCCCAGCTATGGTCTTATAC
17275992 AGAAGCACAT
Statistics
Matches: 80, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
52 38 0.47
53 42 0.52
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (52 bp):
CATATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAACAAGTAT
Found at i:17275980 original size:52 final size:53
Alignment explanation
Indices: 17275859--17275991 Score: 169
Period size: 52 Copynumber: 2.5 Consensus size: 53
17275849 TATCATACAG
* * * * * *
17275859 ATGCCATATCCCAGATATGGTCTTATACGGAATCATATTATCATATCACACCG
1 ATGCCATAGCCCAGCTATGGTCTTATACGGAAACATAGTATCACATCACACCA
* **
17275912 ATGCCATAGCCCAGCTATGGTCTTATACGGAAACA-CGTATCACATTGCACCA
1 ATGCCATAGCCCAGCTATGGTCTTATACGGAAACATAGTATCACATCACACCA
*
17275964 ATGCCATAGCCAAGCTATGGTCTTATAC
1 ATGCCATAGCCCAGCTATGGTCTTATAC
17275992 AGAAGCACAT
Statistics
Matches: 70, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
52 38 0.54
53 32 0.46
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (53 bp):
ATGCCATAGCCCAGCTATGGTCTTATACGGAAACATAGTATCACATCACACCA
Found at i:17279073 original size:11 final size:11
Alignment explanation
Indices: 17279059--17279108 Score: 73
Period size: 11 Copynumber: 4.5 Consensus size: 11
17279049 AGATAAATAT
17279059 TATTTTATTAA
1 TATTTTATTAA
* *
17279070 TATTTTAATGA
1 TATTTTATTAA
17279081 TATATTTATTAA
1 TAT-TTTATTAA
17279093 TATTTTATTAA
1 TATTTTATTAA
17279104 TATTT
1 TATTT
17279109 ATTTAGTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
11 25 0.74
12 9 0.26
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:17279088 original size:23 final size:21
Alignment explanation
Indices: 17279062--17279111 Score: 73
Period size: 23 Copynumber: 2.3 Consensus size: 21
17279052 TAAATATTAT
17279062 TTTATTAATATTTTAATGATATA
1 TTTATTAATATTTT-ATGA-ATA
*
17279085 TTTATTAATATTTTATTAATA
1 TTTATTAATATTTTATGAATA
17279106 TTTATT
1 TTTATT
17279112 TAGTATATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 9 0.35
22 3 0.12
23 14 0.54
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (21 bp):
TTTATTAATATTTTATGAATA
Found at i:17280474 original size:22 final size:22
Alignment explanation
Indices: 17280442--17280499 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
17280432 TAAATACGTT
*
17280442 TGGCACGAAGCCATAGTCAAGA
1 TGGCACAAAGCCATAGTCAAGA
* * *
17280464 TGGCACAAAGCCATATTCAGGT
1 TGGCACAAAGCCATAGTCAAGA
*
17280486 TGGCACAGAGCCAT
1 TGGCACAAAGCCAT
17280500 TAATAACGGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.33, C:0.24, G:0.26, T:0.17
Consensus pattern (22 bp):
TGGCACAAAGCCATAGTCAAGA
Found at i:17280666 original size:27 final size:26
Alignment explanation
Indices: 17280587--17280669 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
17280577 TCGATCGGTC
* * *
17280587 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
17280613 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
17280640 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
17280667 AAC
1 AAC
17280670 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:17280899 original size:27 final size:27
Alignment explanation
Indices: 17280869--17281063 Score: 237
Period size: 27 Copynumber: 7.2 Consensus size: 27
17280859 GGTCAAAATT
* * * *
17280869 GTAATTTTACCCCACAAAGGTATCTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
*
17280896 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
*
17280923 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
* * *
17280950 ATAATTCTACCCTACAGGGGTATTTTG
1 GTAATTCTACCCTACAAGGGTATTTCG
* * *
17280977 GTAATTCTATCCTATAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCG
* *
17281004 GTAATTCTACCCTATAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
* * *
17281031 GAAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCG
17281058 GTAATT
1 GTAATT
17281064 TCACAATCAA
Statistics
Matches: 144, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 144 1.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCG
Found at i:17280934 original size:54 final size:54
Alignment explanation
Indices: 17280869--17281063 Score: 264
Period size: 54 Copynumber: 3.6 Consensus size: 54
17280859 GGTCAAAATT
* * * *
17280869 GTAATTTTACCCCACAAAGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCG
* * *
17280923 GTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTG
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCG
* * * *
17280977 GTAATTCTATCCTATAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCG
* * *
17281031 GAAATTCTACCCTACAGGGGTATTTCAGTAATT
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATT
17281064 TCACAATCAA
Statistics
Matches: 123, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 123 1.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.35
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCG
Found at i:17281098 original size:27 final size:27
Alignment explanation
Indices: 17281068--17281771 Score: 808
Period size: 27 Copynumber: 26.2 Consensus size: 27
17281058 GTAATTTCAC
*
17281068 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
17281095 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
17281122 AA-CTGAGGGT-AAACTAGTAATTCTGTA
1 AATC-GAGGGTAAAAC-GGTAATTCTGTA
* * **
17281149 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
17281176 AATCGAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
17281203 AATTGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
17281230 AA-CTTAGGGTAAAATGGTAATTCTCTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
17281257 AATCGAGGGTAAAACGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
17281284 AATCGAGGGTAAAACTGTAATTCTCTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
17281311 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
17281338 AA-CTGAGGGTAAAACAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
17281365 AATCGAGGGTAAAATAGTAATTCTGT-
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
17281391 AACCTGAGGGTAAAACGGTAATTCTGTAA
1 AATC-GAGGGTAAAACGGTAATTCTGT-A
17281420 AATCGAGGGTAAAACGG-AA-----TA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
17281441 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
17281468 AA-CTGAGGGTAAAACGGTAATTTTACA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * *
17281495 AATCGAGGGTAAAACGATAACTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
17281522 AATTGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
17281549 AATCTAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
17281576 AATTGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
17281603 AATCTAGGGTAAAATAGTAATTCTGT-
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
17281629 AACCTGAGGGTAAAACGGTAATTCTGTAA
1 AATC-GAGGGTAAAACGGTAATTCTGT-A
17281658 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
17281685 AA-CTGAGGGTAAAACGGTAATTCAGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
17281712 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
17281739 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
17281766 AATCGA
1 AATCGA
17281772 TAGTACTTTG
Statistics
Matches: 579, Mismatches: 72, Indels: 52
0.82 0.10 0.07
Matches are distributed among these distances:
21 17 0.03
22 3 0.01
26 15 0.03
27 493 0.85
28 45 0.08
29 6 0.01
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:17285493 original size:16 final size:17
Alignment explanation
Indices: 17285474--17285516 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 17
17285464 TTAATAGATT
17285474 TTTATTTAAATG-ATAA
1 TTTATTTAAATGTATAA
17285490 TTTATTATGAAATGTATAA
1 TTTATT-T-AAATGTATAA
17285509 TTT-TTTAA
1 TTTATTTAA
17285517 GTCATAAGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
16 8 0.33
17 2 0.08
18 7 0.29
19 7 0.29
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (17 bp):
TTTATTTAAATGTATAA
Found at i:17289746 original size:18 final size:18
Alignment explanation
Indices: 17289725--17289768 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
17289715 AATTAATACT
17289725 AAAAAAATATAGCAAATG
1 AAAAAAATATAGCAAATG
* ** *
17289743 AAAATAATATTTCAGATG
1 AAAAAAATATAGCAAATG
17289761 AAAAAAAT
1 AAAAAAAT
17289769 CATTTTTTAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.64, C:0.05, G:0.09, T:0.23
Consensus pattern (18 bp):
AAAAAAATATAGCAAATG
Found at i:17292813 original size:15 final size:15
Alignment explanation
Indices: 17292793--17292822 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17292783 AGCAATTTGT
17292793 TGAAGAGAACGTCTA
1 TGAAGAGAACGTCTA
*
17292808 TGAAGAGAATGTCTA
1 TGAAGAGAACGTCTA
17292823 CAACCACATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.27, T:0.23
Consensus pattern (15 bp):
TGAAGAGAACGTCTA
Found at i:17294423 original size:590 final size:590
Alignment explanation
Indices: 17293300--17294480 Score: 2177
Period size: 590 Copynumber: 2.0 Consensus size: 590
17293290 GCGTTCACTT
17293300 CGTCCATATAGAATGTGTATAGCCACTATTTCAACACCAATCGGTTAGCCAAAAACTTTTTTGCG
1 CGTCCATATAGAATGTGTATAGCCACTATTTCAACACCAATCGGTTAGCCAAAAACTTTTTTGCG
17293365 TAAAGGGTTTCTAACATTTTCCATAAGGCGGATGTCATTTTCTCCATTAACACCTCTTACAATAC
66 TAAAGGGTTTCTAACATTTTCCATAAGGCGGATGTCATTTTCTCCATTAACACCTCTTACAATAC
* *
17293430 ACTATTCGTAAGGCACAATTGAATTAGTGACAGGGCCTTCTCATCAAGCTCTCCCTTTCTGATTG
131 ACTATTCGTAAGGCACAATTGAATTAGTGACAGGGCCTTCTCATCAAGCTCTCCCCTTCTGACTG
*
17293495 ATGTAGATTATTGAGTTTTTTTTCCCGTAATGACCTTTTTCAGACCGTTCTAAACTAGAATTATT
196 ATGTAGATTATCGAGTTTTTTTTCCCGTAATGACCTTTTTCAGACCGTTCTAAACTAGAATTATT
17293560 GTCATCCAAACTTGACATTGATTGAAATTTGTGAAGTCATCAAACTTCTCAATGTTGAACCTTAT
261 GTCATCCAAACTTGACATTGATTGAAATTTGTGAAGTCATCAAACTTCTCAATGTTGAACCTTAT
17293625 TATTGGCCTCTCAAAACAGGTTGAATACGAAAATCGAATCAAGCTCTGATGTTAGTTAGTTGGGG
326 TATTGGCCTCTCAAAACAGGTTGAATACGAAAATCGAATCAAGCTCTGATGTTAGTTAGTTGGGG
*
17293690 ATAAACTTGTATAAGCAACAAACAAGAAAAATAAAGAATAAATTGAAAAGATCGAACACACAAAT
391 ATAAACTTGTATAAGCAACAAAAAAGAAAAATAAAGAATAAATTGAAAAGATCGAACACACAAAT
* * *
17293755 TTTACATGGAAAAACCATTTCGAAAAGGATAAAAAACCTCGGGCGAAAATAATTTCACTAAATTG
456 TTTACATGGAAAAACCATTCCGAAAAGGATAAAAAACCACGGGCGAAAATAATTTCACTAAATCG
17293820 GCAAAAACGAAGACTACAAAAATGAAAATAAAAACTAAACCATGAAACCCAAAAATAAGAACCCT
521 GCAAAAACGAAGACTACAAAAATGAAAATAAAAACTAAACCATGAAACCCAAAAATAAGAACCCT
17293885 CAAAA
586 CAAAA
* *
17293890 CGTCTATATAGAATGTGTATAGCCACTATTTCAACACCAATCGGTTAGCCATAAAA-TTTTTTGT
1 CGTCCATATAGAATGTGTATAGCCACTATTTCAACACCAATCGGTTAGCCA-AAAACTTTTTTGC
*
17293954 GTAAAGGGTTTCTAACATTTTTCATAAGGCGGATGTCATTTTCTCCATTAACACCTCTTACAATA
65 GTAAAGGGTTTCTAACATTTTCCATAAGGCGGATGTCATTTTCTCCATTAACACCTCTTACAATA
*
17294019 CACTATTCGTAAGGCACAATTGAATTA-TAGACAGGGGCTTCTCATCAAGCTCTCCCCTTCTGAC
130 CACTATTCGTAAGGCACAATTGAATTAGT-GACAGGGCCTTCTCATCAAGCTCTCCCCTTCTGAC
17294083 TGATGTAGATTATCGAGTTTTTTTTCCCGTAATGACCTTTTTCAGACCGTTCTAAACTAGAATTA
194 TGATGTAGATTATCGAGTTTTTTTTCCCGTAATGACCTTTTTCAGACCGTTCTAAACTAGAATTA
* *
17294148 TTGTCATCCGAACTTGACATTGATTGAAATTTGTGATGTCATCAAACTTCTCAATGTTGAACCTT
259 TTGTCATCCAAACTTGACATTGATTGAAATTTGTGAAGTCATCAAACTTCTCAATGTTGAACCTT
* *
17294213 ATTGTTGGCCTCTCAAAATAGGTTGAATACGAAAATCGAATCAAGCTCTGATGTTAGTTAGTTGG
324 ATTATTGGCCTCTCAAAACAGGTTGAATACGAAAATCGAATCAAGCTCTGATGTTAGTTAGTTGG
*
17294278 GGATAAACTTGTATAAGCAACAAAAAAGAAAAATAAATAATAAATTGAAAAGATCGAACACACAA
389 GGATAAACTTGTATAAGCAACAAAAAAGAAAAATAAAGAATAAATTGAAAAGATCGAACACACAA
*
17294343 ATTTTACATGGAAAAACCCTTCCGAAAAGGATAAAAAACCACGGGCGAAAATAATTTCACTAAAT
454 ATTTTACATGGAAAAACCATTCCGAAAAGGATAAAAAACCACGGGCGAAAATAATTTCACTAAAT
17294408 CGGCAAAAACGAAGACTACAAAAATGAAAATAAAAACTAAACCATGAAACCCAAAAATAAGAACC
519 CGGCAAAAACGAAGACTACAAAAATGAAAATAAAAACTAAACCATGAAACCCAAAAATAAGAACC
17294473 CTCAAAA
584 CTCAAAA
17294480 C
1 C
17294481 TTAAACACAA
Statistics
Matches: 572, Mismatches: 17, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
589 1 0.00
590 567 0.99
591 4 0.01
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.29
Consensus pattern (590 bp):
CGTCCATATAGAATGTGTATAGCCACTATTTCAACACCAATCGGTTAGCCAAAAACTTTTTTGCG
TAAAGGGTTTCTAACATTTTCCATAAGGCGGATGTCATTTTCTCCATTAACACCTCTTACAATAC
ACTATTCGTAAGGCACAATTGAATTAGTGACAGGGCCTTCTCATCAAGCTCTCCCCTTCTGACTG
ATGTAGATTATCGAGTTTTTTTTCCCGTAATGACCTTTTTCAGACCGTTCTAAACTAGAATTATT
GTCATCCAAACTTGACATTGATTGAAATTTGTGAAGTCATCAAACTTCTCAATGTTGAACCTTAT
TATTGGCCTCTCAAAACAGGTTGAATACGAAAATCGAATCAAGCTCTGATGTTAGTTAGTTGGGG
ATAAACTTGTATAAGCAACAAAAAAGAAAAATAAAGAATAAATTGAAAAGATCGAACACACAAAT
TTTACATGGAAAAACCATTCCGAAAAGGATAAAAAACCACGGGCGAAAATAATTTCACTAAATCG
GCAAAAACGAAGACTACAAAAATGAAAATAAAAACTAAACCATGAAACCCAAAAATAAGAACCCT
CAAAA
Found at i:17298111 original size:32 final size:32
Alignment explanation
Indices: 17298075--17298145 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
17298065 GTTTGGTTCA
*
17298075 CTGTAATGGAATAAGACTATAATTGAATAGAG
1 CTGTAATGGAATAAGACTATAATGGAATAGAG
* *
17298107 CTGTAATGGAATAAGGCTATAATGGAATAGCG
1 CTGTAATGGAATAAGACTATAATGGAATAGAG
17298139 CTGTAAT
1 CTGTAAT
17298146 CAGTAATTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.28
Consensus pattern (32 bp):
CTGTAATGGAATAAGACTATAATGGAATAGAG
Found at i:17298145 original size:16 final size:16
Alignment explanation
Indices: 17298075--17298145 Score: 74
Period size: 16 Copynumber: 4.4 Consensus size: 16
17298065 GTTTGGTTCA
*
17298075 CTGTAATGGAATAAGA
1 CTGTAATGGAATAAGG
* *
17298091 CTATAATTGAAT-AGAG
1 CTGTAATGGAATAAG-G
17298107 CTGTAATGGAATAAGG
1 CTGTAATGGAATAAGG
*
17298123 CTATAATGGAAT-AGCG
1 CTGTAATGGAATAAG-G
17298139 CTGTAAT
1 CTGTAAT
17298146 CAGTAATTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
15 4 0.09
16 39 0.87
17 2 0.04
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.28
Consensus pattern (16 bp):
CTGTAATGGAATAAGG
Found at i:17299950 original size:25 final size:27
Alignment explanation
Indices: 17299913--17299965 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
17299903 TCAAACATGC
17299913 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
17299939 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
17299965 A
1 A
17299966 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:17314959 original size:23 final size:25
Alignment explanation
Indices: 17314932--17314978 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
17314922 CTCATTACCA
*
17314932 TTTAAA-AG-TTTTTTTTTTCATTG
1 TTTAAATAGATTTTTTATTTCATTG
17314955 TTTAAATAGATTTTTTATTTCATT
1 TTTAAATAGATTTTTTATTTCATT
17314979 AGTCTTTACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.29
24 2 0.10
25 13 0.62
ACGTcount: A:0.26, C:0.04, G:0.06, T:0.64
Consensus pattern (25 bp):
TTTAAATAGATTTTTTATTTCATTG
Found at i:17315871 original size:22 final size:20
Alignment explanation
Indices: 17315838--17315883 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
17315828 TTTCCCCTTA
17315838 AATTCTGTTTTGATTTCAATTT
1 AATTCTGTTTTGA-TT-AATTT
17315860 AATTCCTG-TTTGATTAATTT
1 AATT-CTGTTTTGATTAATTT
17315880 AATT
1 AATT
17315884 ATTTATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 9 0.39
21 2 0.09
22 9 0.39
23 3 0.13
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.57
Consensus pattern (20 bp):
AATTCTGTTTTGATTAATTT
Found at i:17316068 original size:19 final size:18
Alignment explanation
Indices: 17316041--17316078 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
17316031 ATCTATTTCG
17316041 TTTTTTTATCT-TCTATTA
1 TTTTTTTAT-TATCTATTA
17316059 TTTTTATTATTATCTATTA
1 TTTTT-TTATTATCTATTA
17316078 T
1 T
17316079 GTATTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTTTTATTATCTATTA
Found at i:17316324 original size:6 final size:6
Alignment explanation
Indices: 17316313--17316379 Score: 55
Period size: 6 Copynumber: 11.2 Consensus size: 6
17316303 AAAATTTAGA
* * * * * *
17316313 TATTAT TATTAT TAGTAT TAGTAT TAGTAT TATTAT TATCAC AATTAT
1 TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT
*
17316361 TATT-T TCATTGT TATTAT T
1 TATTAT T-ATTAT TATTAT T
17316380 GTCCTATTAT
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
5 2 0.04
6 46 0.92
7 2 0.04
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.58
Consensus pattern (6 bp):
TATTAT
Found at i:17316337 original size:12 final size:12
Alignment explanation
Indices: 17316316--17316350 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
17316306 ATTTAGATAT
17316316 TATTATTATTAG
1 TATTATTATTAG
*
17316328 TATTAGTATTAG
1 TATTATTATTAG
17316340 TATTATTATTA
1 TATTATTATTA
17316351 TCACAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (12 bp):
TATTATTATTAG
Found at i:17320691 original size:15 final size:16
Alignment explanation
Indices: 17320665--17320701 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
17320655 TTTAATTTTC
17320665 AAAATTTCAAAAAAAA
1 AAAATTTCAAAAAAAA
*
17320681 AAAATTT-AAAAAATA
1 AAAATTTCAAAAAAAA
17320696 AAAATT
1 AAAATT
17320702 GCATTTTGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAATTTCAAAAAAAA
Found at i:17320737 original size:30 final size:30
Alignment explanation
Indices: 17320697--17320812 Score: 137
Period size: 30 Copynumber: 3.9 Consensus size: 30
17320687 TAAAAAATAA
*
17320697 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAAC-TTTCACT
* **
17320727 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTCACT
* *
17320757 AAATTTCACTTAGACCCCTAAACTTTCACT
1 AAATTTCATTTTGACCCCTAAACTTTCACT
* *
17320787 AAATTTCATTTT-AACCCTAAATTTTC
1 AAATTTCATTTTGACCCCTAAACTTTC
17320813 TAAAAATTAC
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
29 16 0.22
30 57 0.78
ACGTcount: A:0.30, C:0.24, G:0.03, T:0.42
Consensus pattern (30 bp):
AAATTTCATTTTGACCCCTAAACTTTCACT
Found at i:17320761 original size:60 final size:59
Alignment explanation
Indices: 17320697--17320813 Score: 164
Period size: 60 Copynumber: 2.0 Consensus size: 59
17320687 TAAAAAATAA
* * *
17320697 AAATTGCATTTTGACCCCTAAACTTTTC-CTAAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTGCACTTAGACCCCTAAAC-TTTCACTAAATTTCATTTTAACCC-TAAACTTTCTTT
* *
17320757 AAATTTCACTTAGACCCCTAAACTTTCACTAAATTTCATTTTAACCCTAAATTTTCT
1 AAATTGCACTTAGACCCCTAAACTTTCACTAAATTTCATTTTAACCCTAAACTTTCT
17320814 AAAAATTACA
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
59 13 0.25
60 38 0.75
ACGTcount: A:0.30, C:0.24, G:0.03, T:0.43
Consensus pattern (59 bp):
AAATTGCACTTAGACCCCTAAACTTTCACTAAATTTCATTTTAACCCTAAACTTTCTTT
Found at i:17320819 original size:29 final size:29
Alignment explanation
Indices: 17320694--17320826 Score: 94
Period size: 30 Copynumber: 4.5 Consensus size: 29
17320684 ATTTAAAAAA
* *
17320694 TAAAAATTGCATTTTGACCCCTAAACTTTTCC
1 TAAAAATTTCATTTT-AACCCTAAAC-TTT-C
*
17320726 T--AAATTTCATTTTGACCCTTAAACTTTC
1 TAAAAATTTCATTTTAACCC-TAAACTTTC
** *
17320754 TTTAAATTTCA-CTTAGACCCCTAAACTTTC
1 TAAAAATTTCATTTTA-A-CCCTAAACTTTC
* *
17320784 -ACTAAATTTCATTTTAACCCTAAATTTTC
1 TA-AAAATTTCATTTTAACCCTAAACTTTC
*
17320813 TAAAAATTACATTT
1 TAAAAATTTCATTT
17320827 AGCCCCAGAA
Statistics
Matches: 83, Mismatches: 10, Indels: 19
0.74 0.09 0.17
Matches are distributed among these distances:
28 2 0.02
29 29 0.35
30 45 0.54
31 6 0.07
32 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.03, T:0.42
Consensus pattern (29 bp):
TAAAAATTTCATTTTAACCCTAAACTTTC
Found at i:17321007 original size:14 final size:15
Alignment explanation
Indices: 17320988--17321020 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
17320978 AAATGGGTTT
17320988 AAAACCCCA-AAATC
1 AAAACCCCATAAATC
*
17321002 AAAACCCCATGAATC
1 AAAACCCCATAAATC
17321017 AAAA
1 AAAA
17321021 AAAAAAGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.58, C:0.30, G:0.03, T:0.09
Consensus pattern (15 bp):
AAAACCCCATAAATC
Found at i:17321341 original size:10 final size:11
Alignment explanation
Indices: 17321323--17321392 Score: 61
Period size: 11 Copynumber: 6.0 Consensus size: 11
17321313 CAGCCCAAAA
17321323 AAAACAAAGCA-
1 AAAA-AAAGCAG
17321334 AAAAAAAGCAG
1 AAAAAAAGCAG
* *
17321345 CAAAAAAGAAG
1 AAAAAAAGCAG
17321356 AAGAAAGAAGCAG
1 AA-AAA-AAGCAG
*
17321369 AAAAAAAGAAG
1 AAAAAAAGCAG
17321380 AAGAAAGAAGCAG
1 AA-AAA-AAGCAG
17321393 CCCACTTTGT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
10 6 0.12
11 21 0.44
12 9 0.19
13 12 0.25
ACGTcount: A:0.70, C:0.09, G:0.21, T:0.00
Consensus pattern (11 bp):
AAAAAAAGCAG
Found at i:17321366 original size:24 final size:24
Alignment explanation
Indices: 17321339--17321393 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
17321329 AAGCAAAAAA
17321339 AAGCAGCAAAAAAGAAGAAGAAAG
1 AAGCAGCAAAAAAGAAGAAGAAAG
*
17321363 AAGCAGAAAAAAAGAAGAAGAAAG
1 AAGCAGCAAAAAAGAAGAAGAAAG
17321387 AAGCAGC
1 AAGCAGC
17321394 CCACTTTGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.65, C:0.09, G:0.25, T:0.00
Consensus pattern (24 bp):
AAGCAGCAAAAAAGAAGAAGAAAG
Found at i:17322022 original size:17 final size:17
Alignment explanation
Indices: 17321979--17322026 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
17321969 AGAAAAAAAT
17321979 CGTGTTTCAAAAATTTTCA
1 CGTGTTTC-AAAA-TTTCA
17321998 --TGTCTTCAAAATTTCA
1 CGTGT-TTCAAAATTTCA
17322014 CGTGTTTCAAAAT
1 CGTGTTTCAAAAT
17322027 AATAATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
16 5 0.19
17 15 0.58
18 6 0.23
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (17 bp):
CGTGTTTCAAAATTTCA
Found at i:17322110 original size:17 final size:18
Alignment explanation
Indices: 17322090--17322154 Score: 55
Period size: 17 Copynumber: 3.8 Consensus size: 18
17322080 AAAAAAAATC
17322090 CGTG-TTTCAAAAATTCT
1 CGTGATTTCAAAAATTCT
* **
17322107 CGTGAATAAAAAAATT-T
1 CGTGATTTCAAAAATTCT
* *
17322124 CGTGTTTTCAAAAATTCC
1 CGTGATTTCAAAAATTCT
*
17322142 CGTG-TTTTAAAAA
1 CGTGATTTCAAAAA
17322155 AAAATTTCGT
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
17 25 0.68
18 12 0.32
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (18 bp):
CGTGATTTCAAAAATTCT
Found at i:17322133 original size:35 final size:36
Alignment explanation
Indices: 17322079--17322170 Score: 109
Period size: 38 Copynumber: 2.6 Consensus size: 36
17322069 TTTCTTTCTT
* * *
17322079 TAAAAAAAATCCGTG-TTTCAAAAATTCTCGTG-AA
1 TAAAAAAATTTCGTGTTTTCAAAAATTCCCGTGTAA
17322113 TAAAAAAATTTCGTGTTTTCAAAAATTCCCGTGTTTTAA
1 TAAAAAAATTTCGTGTTTTCAAAAATTCCCGTG---TAA
17322152 -AAAAAAATTTCGTGTTTTC
1 TAAAAAAATTTCGTGTTTTC
17322171 GTGTTTTAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
34 13 0.26
35 16 0.32
38 19 0.38
39 2 0.04
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (36 bp):
TAAAAAAATTTCGTGTTTTCAAAAATTCCCGTGTAA
Found at i:17322136 original size:18 final size:18
Alignment explanation
Indices: 17322115--17322170 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 18
17322105 CTCGTGAATA
17322115 AAAAAATTTCGTGTTTTC
1 AAAAAATTTCGTGTTTTC
* *
17322133 -AAAAATTCCCGTGTTTTAAA
1 AAAAAATT-TCGTGTTTT--C
17322153 AAAAAATTTCGTGTTTTC
1 AAAAAATTTCGTGTTTTC
17322171 GTGTTTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
17 7 0.23
18 8 0.27
20 8 0.27
21 7 0.23
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (18 bp):
AAAAAATTTCGTGTTTTC
Found at i:17322192 original size:29 final size:29
Alignment explanation
Indices: 17322142--17322225 Score: 145
Period size: 28 Copynumber: 3.0 Consensus size: 29
17322132 CAAAAATTCC
17322142 CGTGTTTTAAAAAAAAA-TTTCGTGTTTT
1 CGTGTTTTAAAAAAAAATTTTCGTGTTTT
17322170 CGTGTTTTAAAAAAAAATTTTCGTGTTTT
1 CGTGTTTTAAAAAAAAATTTTCGTGTTTT
*
17322199 CGTGTTTT-AAAAAAAATTCTCGTGTTT
1 CGTGTTTTAAAAAAAAATTTTCGTGTTT
17322226 CAAAAATTTT
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
28 35 0.65
29 19 0.35
ACGTcount: A:0.31, C:0.08, G:0.14, T:0.46
Consensus pattern (29 bp):
CGTGTTTTAAAAAAAAATTTTCGTGTTTT
Found at i:17322244 original size:18 final size:18
Alignment explanation
Indices: 17322195--17322457 Score: 126
Period size: 17 Copynumber: 14.1 Consensus size: 18
17322185 AATTTTCGTG
*
17322195 TTTTCGTGTTTTAAAAAAAA
1 TTTTCGTGTTTT--CAAAAA
*
17322215 TTCTCGTG-TTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
17322232 TTTTCGTGTTTTCAAAATTTTCA
1 TTTTCGTGTTTTCAAAA-----A
17322255 TGTTTTCGTGTTTTCAAAAAA
1 --TTTTCGTGTTTTC-AAAAA
* *
17322276 TTCTCGTGTTTTTTTAAAAA
1 TTTTCGTG--TTTTCAAAAA
** * *
17322296 AATTCATGTTTTAAAAAA
1 TTTTCGTGTTTTCAAAAA
** * *
17322314 AATTCATGTTTTC-GAAA
1 TTTTCGTGTTTTCAAAAA
17322331 TTTTCGTGTTTTC-AAAA
1 TTTTCGTGTTTTCAAAAA
* *
17322348 TTTT-TTG-TGTCAAAAAA
1 TTTTCGTGTTTTC-AAAAA
* * * *
17322365 TTCTCATG-TATCGAAAA
1 TTTTCGTGTTTTCAAAAA
*
17322382 TTTTCTTGTTTTCAAAAAA
1 TTTTCGTGTTTTC-AAAAA
* *
17322401 ATTCCGTGTTTTCAAAAAAA
1 TTTTCGTGTTTTC--AAAAA
*
17322421 ATTTCGTG-TTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
*
17322438 TCTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
17322456 TT
1 TT
17322458 ATTATTGTGT
Statistics
Matches: 192, Mismatches: 33, Indels: 38
0.73 0.13 0.14
Matches are distributed among these distances:
15 3 0.02
16 2 0.01
17 60 0.31
18 47 0.24
19 28 0.15
20 29 0.15
21 5 0.03
23 1 0.01
25 13 0.07
26 4 0.02
ACGTcount: A:0.32, C:0.11, G:0.10, T:0.46
Consensus pattern (18 bp):
TTTTCGTGTTTTCAAAAA
Found at i:17322403 original size:20 final size:20
Alignment explanation
Indices: 17322378--17322455 Score: 92
Period size: 19 Copynumber: 4.1 Consensus size: 20
17322368 TCATGTATCG
*
17322378 AAAATTTTCTTGTTTTCAAA
1 AAAATTTTCGTGTTTTCAAA
*
17322398 AAAA-TTCCGTGTTTTCAAA
1 AAAATTTTCGTGTTTTCAAA
*
17322417 AAAAATTTCGTG-TTTC--A
1 AAAATTTTCGTGTTTTCAAA
*
17322434 AAAATCTTCGTGTTTTCAAA
1 AAAATTTTCGTGTTTTCAAA
17322454 AA
1 AA
17322456 TTATTATTGT
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
17 11 0.22
18 4 0.08
19 21 0.43
20 13 0.27
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.41
Consensus pattern (20 bp):
AAAATTTTCGTGTTTTCAAA
Found at i:17322468 original size:38 final size:38
Alignment explanation
Indices: 17322335--17322470 Score: 110
Period size: 37 Copynumber: 3.7 Consensus size: 38
17322325 TCGAAATTTT
17322335 CGTGTTTTC-AAAATT-TTTTGTG--TC-AAAAAATTC
1 CGTGTTTTCAAAAATTATTTTGTGTTTCAAAAAAATTC
* * *
17322368 TCATG-TATCGAAAATT-TTCTTGT-TTTCAAAAAAATTC
1 -CGTGTTTTCAAAAATTATT-TTGTGTTTCAAAAAAATTC
** * **
17322405 CGTGTTTTCAAAAAAAATTTCGTGTTTCAAAAATCTT-
1 CGTGTTTTCAAAAATTATTTTGTGTTTCAAAAAAATTC
17322442 CGTGTTTTCAAAAATTATTATTGTGTTTC
1 CGTGTTTTCAAAAATTATT-TTGTGTTTC
17322471 GAAGTTCTCG
Statistics
Matches: 80, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
33 3 0.04
34 11 0.14
35 4 0.05
36 5 0.06
37 36 0.45
38 21 0.26
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.45
Consensus pattern (38 bp):
CGTGTTTTCAAAAATTATTTTGTGTTTCAAAAAAATTC
Found at i:17323117 original size:295 final size:295
Alignment explanation
Indices: 17322587--17323166 Score: 1142
Period size: 295 Copynumber: 2.0 Consensus size: 295
17322577 TTTAACGAGA
*
17322587 TACCAATTTTGGGCGTCGCGAGGGTGCTAATGCCTTCCTCGCGCGTAACCGACTCCCGAACCCTT
1 TACCAATTTTGGGCGTCGCGAGGGTGCTAATGCCTTCCTCGCGCGTAACCGACTCCCGAACCCTA
*
17322652 ATTTTCTCTGGATTTTCACGCAGACCTAAAATTACCTCTTTTTTAGGAAAATTTAAAAATAAATT
66 ATTTTCTCTGAATTTTCACGCAGACCTAAAATTACCTCTTTTTTAGGAAAATTTAAAAATAAATT
17322717 TTTCTTCTAAAAAGAGAATTTATTAGGTGTCCGATCACACCTAAAAAAAAGATCGGTGGCGACTC
131 TTTCTTCTAAAAAGAGAATTTATTAGGTGTCCGATCACACCTAAAAAAAAGATCGGTGGCGACTC
17322782 CTCTTTTGTAAATAAAATTTGAAACTTTGTTTTTAATTTTTCAATAATCATTTCAACTAGCGCCT
196 CTCTTTTGTAAATAAAATTTGAAACTTTGTTTTTAATTTTTCAATAATCATTTCAACTAGCGCCT
17322847 ATTGCCAAATTTTTAGGTCGCTACAGTTGGCGACT
261 ATTGCCAAATTTTTAGGTCGCTACAGTTGGCGACT
17322882 TACCAATTTTGGGCGTCGCGAGGGTGCTAATGCCTTCCTCGCGCGTAACCGACTCCCGAACCCTA
1 TACCAATTTTGGGCGTCGCGAGGGTGCTAATGCCTTCCTCGCGCGTAACCGACTCCCGAACCCTA
17322947 ATTTTCTCTGAATTTTCACGCAGACCTAAAATTACCTCTTTTTTAGGAAAATTTAAAAATAAATT
66 ATTTTCTCTGAATTTTCACGCAGACCTAAAATTACCTCTTTTTTAGGAAAATTTAAAAATAAATT
17323012 TTTCTTCTAAAAAGAGAATTTATTAGGTGTCCGATCACACCTAAAAAAAAGATCGGTGGCGACTC
131 TTTCTTCTAAAAAGAGAATTTATTAGGTGTCCGATCACACCTAAAAAAAAGATCGGTGGCGACTC
17323077 CTCTTTTGTAAATAAAATTTGAAACTTTGTTTTTAATTTTTCAATAATCATTTCAACTAGCGCCT
196 CTCTTTTGTAAATAAAATTTGAAACTTTGTTTTTAATTTTTCAATAATCATTTCAACTAGCGCCT
17323142 ATTGCCAAATTTTTAGGTCGCTACA
261 ATTGCCAAATTTTTAGGTCGCTACA
17323167 ATAGTGAACA
Statistics
Matches: 283, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
295 283 1.00
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.34
Consensus pattern (295 bp):
TACCAATTTTGGGCGTCGCGAGGGTGCTAATGCCTTCCTCGCGCGTAACCGACTCCCGAACCCTA
ATTTTCTCTGAATTTTCACGCAGACCTAAAATTACCTCTTTTTTAGGAAAATTTAAAAATAAATT
TTTCTTCTAAAAAGAGAATTTATTAGGTGTCCGATCACACCTAAAAAAAAGATCGGTGGCGACTC
CTCTTTTGTAAATAAAATTTGAAACTTTGTTTTTAATTTTTCAATAATCATTTCAACTAGCGCCT
ATTGCCAAATTTTTAGGTCGCTACAGTTGGCGACT
Found at i:17335094 original size:53 final size:53
Alignment explanation
Indices: 17335031--17335234 Score: 156
Period size: 53 Copynumber: 3.5 Consensus size: 53
17335021 TTTTAAATTG
*
17335031 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
1 ACTCATATTGCGAGAAGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
* *** **
17335084 ACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTATGTTTTAA
1 ACTCATATTGCGAGAAGTGAGTTAAGCCT---------TTTA---ATTTTT-G-TT-T-TTCAAA
**
17335149 ATTG
50 ATCA
*
17335153 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
1 ACTCATATTGCGAGAAGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
* *
17335206 ACTCATATTGCGAGAAATGAGTTGAGCCT
1 ACTCATATTGCGAGAAGTGAGTTAAGCCT
17335235 CAAGACACGT
Statistics
Matches: 114, Mismatches: 21, Indels: 32
0.68 0.13 0.19
Matches are distributed among these distances:
53 59 0.52
54 1 0.01
55 2 0.02
56 1 0.01
57 6 0.05
60 1 0.01
62 1 0.01
65 6 0.05
66 1 0.01
67 2 0.02
68 1 0.01
69 33 0.29
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (53 bp):
ACTCATATTGCGAGAAGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
Found at i:17335172 original size:122 final size:122
Alignment explanation
Indices: 17334955--17335305 Score: 560
Period size: 122 Copynumber: 2.9 Consensus size: 122
17334945 TTTTTAAAAA
17334955 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTAT
17335020 GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
66 GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
17335077 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTAT
17335142 GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
66 GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
* ** * ** *
17335199 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTT-T
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTAT
* ** * *
17335263 TTTTTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
66 GTTTT---AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
17335306 GGGGGCACGC
Statistics
Matches: 214, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
121 5 0.02
122 178 0.83
124 31 0.14
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (122 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTAT
GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:17335276 original size:193 final size:192
Alignment explanation
Indices: 17335059--17335497 Score: 693
Period size: 193 Copynumber: 2.3 Consensus size: 192
17335049 GAGTTAAGCC
17335059 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCC
1 TTTTAA-TTTT-TTTTT-AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCC
17335124 GAGGTATTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATT
63 GAGGTATTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATT
**
17335189 TTTGTTTTTC-AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAT
128 TTTGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTAT
*
17335253 TTTTAATTTTTTTTTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTGGGGGCACGCCG
1 TTTTAATTTTTTTTT--AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCG
17335318 AGGTATTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTT
64 AGGTATTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTT
*** *
17335383 TTGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTGGGGGCACGCCGAGGTAT
129 TTGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTAT
* * ** * *
17335447 TTTTAGTTTATGTTTT-AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 TTTTAATTT-TTTTTTAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
17335498 TTTAATTTTT
Statistics
Matches: 228, Mismatches: 14, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
192 36 0.16
193 125 0.55
194 62 0.27
195 5 0.02
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (192 bp):
TTTTAATTTTTTTTTAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAG
GTATTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTT
GTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTAT
Found at i:17335298 original size:71 final size:69
Alignment explanation
Indices: 17335181--17335374 Score: 210
Period size: 71 Copynumber: 2.7 Consensus size: 69
17335171 GAGTTAAGCC
* **
17335181 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTT
1 TTTTAA-TTTT-TTTTT-AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCC
17335246 GAGGTAT
63 GAGGTAT
*** *
17335253 TTTTAATTTTTTTTTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTGGGGGCACGCCG
1 TTTTAATTTTTTTTT--AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCG
17335318 AGGTAT
64 AGGTAT
* * ** * *
17335324 TTTTAGTTTATGTTTT-AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 TTTTAATTT-TTTTTTAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
17335375 TTTAATTTTT
Statistics
Matches: 106, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
69 31 0.29
70 5 0.05
71 59 0.56
72 11 0.10
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (69 bp):
TTTTAATTTTTTTTTAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAG
GTAT
Found at i:17335410 original size:54 final size:54
Alignment explanation
Indices: 17335346--17335551 Score: 160
Period size: 54 Copynumber: 3.5 Consensus size: 54
17335336 TTTTAAATTG
17335346 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCA
1 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCA
** * *** ***
17335400 ACTCATATTGCGAGAAATGAGTTGAGCCTGGGGGCACGCCGAGGTATTTTTAGTTTATGTTTTAA
1 ACTCATATTGCGAGAGGTGAGTTAAGCCT---------TTTA---ATTTTT-GTTT-T-TCAAAA
**
17335465 ATTG
51 ATCA
17335469 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCA
1 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCA
* *
17335523 ACTCATATTGCAAGAGGTGAGTTGAGCCT
1 ACTCATATTGCGAGAGGTGAGTTAAGCCT
17335552 CGGCTCACAT
Statistics
Matches: 113, Mismatches: 24, Indels: 30
0.68 0.14 0.18
Matches are distributed among these distances:
54 58 0.51
55 1 0.01
56 4 0.04
57 6 0.05
60 1 0.01
63 1 0.01
66 6 0.05
67 4 0.04
68 1 0.01
69 31 0.27
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.37
Consensus pattern (54 bp):
ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCA
Found at i:17335415 original size:123 final size:123
Alignment explanation
Indices: 17335253--17335587 Score: 548
Period size: 123 Copynumber: 2.7 Consensus size: 123
17335243 GTTGAGGTAT
*
17335253 TTTTAA-TTTT-TTTTTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTGGGGGCACGC
1 TTTTAATTTTTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTGGGGGCACGC
17335316 CGAGGTATTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCC
66 CGAGGTATTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCC
*
17335374 TTTTAATTTTTGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTGGGGGCACGC
1 TTTTAATTTTTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTGGGGGCACGC
17335439 CGAGGTATTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCC
66 CGAGGTATTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCC
* * * **
17335497 TTTTAATTTTTGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCACAT
1 TTTTAATTTTTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTGGGGGCAC--
* * *
17335562 GCTGAGGTATTTTCAATTTATGTTTT
64 GCCGAGGTATTTTTAGTTTATGTTTT
17335588 TTTCAATCTA
Statistics
Matches: 199, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
121 6 0.03
122 4 0.02
123 166 0.83
125 23 0.12
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (123 bp):
TTTTAATTTTTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTGGGGGCACGC
CGAGGTATTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCC
Found at i:17335592 original size:16 final size:17
Alignment explanation
Indices: 17335571--17335604 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
17335561 TGCTGAGGTA
*
17335571 TTTTCAATTTATG-TTT
1 TTTTCAATCTATGCTTT
17335587 TTTTCAATCTATGCTTT
1 TTTTCAATCTATGCTTT
17335604 T
1 T
17335605 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.65
Consensus pattern (17 bp):
TTTTCAATCTATGCTTT
Found at i:17335715 original size:176 final size:182
Alignment explanation
Indices: 17335510--17335920 Score: 491
Period size: 191 Copynumber: 2.2 Consensus size: 182
17335500 TAATTTTTGT
17335510 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGC-CACATGCTGAGGTATTT
* *
17335574 TC-AA-TTT-A-TGTTTTTTTCAATCTATGCT-TTTC--AAAAATCAACTTATATTGCGAGAGGT
64 TCAAATTTTAATTGTTTTTTT-AATCTATG-TGTTTCAAAAAAATCAACTCATATTGCAAGAGGT
* * *
17335632 GAGTTGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTGCTTTACTAA-TTCTAC
127 GAGTTGAGCCTCAAGGCACGCTGAGATATTTTCAATTTCTACTTT-CCAATTTCTAC
* *
17335688 TTTTC-AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACATGCTGAGGTCTTTTC
1 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACATGCTGAGGTATTTTC
* *
17335752 AAATTCTGTTTTTAATTTTTGTTTTTTTAATTTCTGTGTTTCAAAAAAAATCAACTCATATTGCA
66 AAA------TTTTAA---TTGTTTTTTTAATCTATGTGTTTC-AAAAAAATCAACTCATATTGCA
* **
17335817 AGAGGTGAGTTGAGCCTCAGGGCACGCTGAGATATTTTCAATTTCTACTTTCCAATTTCTGT
121 AGAGGTGAGTTGAGCCTCAAGGCACGCTGAGATATTTTCAATTTCTACTTTCCAATTTCTAC
*
17335879 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCT
17335921 TTTAATTTCT
Statistics
Matches: 198, Mismatches: 14, Indels: 27
0.83 0.06 0.11
Matches are distributed among these distances:
176 53 0.27
177 5 0.03
178 5 0.03
184 3 0.02
185 1 0.01
187 1 0.01
188 10 0.05
189 9 0.05
190 3 0.02
191 75 0.38
193 33 0.17
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (182 bp):
TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACATGCTGAGGTATTTTC
AAATTTTAATTGTTTTTTTAATCTATGTGTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGT
TGAGCCTCAAGGCACGCTGAGATATTTTCAATTTCTACTTTCCAATTTCTAC
Found at i:17335768 original size:85 final size:88
Alignment explanation
Indices: 17335510--17335768 Score: 318
Period size: 91 Copynumber: 2.9 Consensus size: 88
17335500 TAATTTTTGT
17335510 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGC-CACATGCTGAGGTATTT
*
17335574 TCAATTTATGTTTTTTTCAA-TCTATGC
64 TCAATTTCTG-TTTTTT-AATTCTA-GC
* *
17335601 TTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGG-CAC--GCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-AGGCCACATGCTGAGGTATTT
**
17335663 TCAATTTCTGCTTTACTAATTCTA-C
64 TCAATTTCTG-TTTTTTAATTCTAGC
* *
17335688 TTTTC-AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACATGCTGAGGTCTTTTC
1 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACATGCTGAGGTATTTTC
*
17335752 AAATTCTG-TTTTTAATT
66 AATTTCTGTTTTTTAATT
17335769 TTTGTTTTTT
Statistics
Matches: 149, Mismatches: 13, Indels: 18
0.83 0.07 0.10
Matches are distributed among these distances:
84 3 0.02
85 43 0.29
87 26 0.17
88 2 0.01
89 29 0.19
91 44 0.30
93 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (88 bp):
TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACATGCTGAGGTATTTTC
AATTTCTGTTTTTTAATTCTAGC
Found at i:17335952 original size:54 final size:54
Alignment explanation
Indices: 17335870--17336030 Score: 243
Period size: 54 Copynumber: 2.9 Consensus size: 54
17335860 TCTACTTTCC
17335870 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTT-T
1 AATTTCT-TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTGT
*
17335924 AATTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTGT
1 AATTTCT-TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TTTGT
* * * *
17335980 AAATTCTGTTTTCAAAAATCAACTTATATTGCGAGAAGTGAGTTGAGCCTT
1 AATTTCTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
17336031 GGCTCACGTG
Statistics
Matches: 98, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
54 50 0.51
55 41 0.42
56 7 0.07
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (54 bp):
AATTTCTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTGT
Found at i:17336344 original size:30 final size:30
Alignment explanation
Indices: 17336304--17336405 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
17336294 TTAAAAATAA
* *
17336304 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAAC-TTTCATT
* *
17336334 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTCATT
* *
17336364 AAATTTCACTTAGACCCCTAAACTTTCATT
1 AAATTTCATTTTGACCCCTAAACTTTCATT
17336394 AAATTTCATTTT
1 AAATTTCATTTT
17336406 AACCTTAAAT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 4 0.06
30 58 0.94
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (30 bp):
AAATTTCATTTTGACCCCTAAACTTTCATT
Found at i:17336368 original size:60 final size:59
Alignment explanation
Indices: 17336304--17336420 Score: 155
Period size: 60 Copynumber: 2.0 Consensus size: 59
17336294 TTAAAAATAA
* * *
17336304 AAATTGCATTTTGACCCCTAAACTTTTC-CTAAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTGCACTTAGACCCCTAAAC-TTTCACTAAATTTCATTTT-AACCTTAAACTTTCTTT
* * *
17336364 AAATTTCACTTAGACCCCTAAACTTTCATTAAATTTCATTTTAACCTTAAATTTTCT
1 AAATTGCACTTAGACCCCTAAACTTTCACTAAATTTCATTTTAACCTTAAACTTTCT
17336421 AAAAATTACA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
59 17 0.34
60 33 0.66
ACGTcount: A:0.30, C:0.22, G:0.03, T:0.44
Consensus pattern (59 bp):
AAATTGCACTTAGACCCCTAAACTTTCACTAAATTTCATTTTAACCTTAAACTTTCTTT
Found at i:17343021 original size:12 final size:12
Alignment explanation
Indices: 17343004--17343137 Score: 268
Period size: 12 Copynumber: 11.2 Consensus size: 12
17342994 GCTGATACAA
17343004 TTGGGTTTTGGG
1 TTGGGTTTTGGG
17343016 TTGGGTTTTGGG
1 TTGGGTTTTGGG
17343028 TTGGGTTTTGGG
1 TTGGGTTTTGGG
17343040 TTGGGTTTTGGG
1 TTGGGTTTTGGG
17343052 TTGGGTTTTGGG
1 TTGGGTTTTGGG
17343064 TTGGGTTTTGGG
1 TTGGGTTTTGGG
17343076 TTGGGTTTTGGG
1 TTGGGTTTTGGG
17343088 TTGGGTTTTGGG
1 TTGGGTTTTGGG
17343100 TTGGGTTTTGGG
1 TTGGGTTTTGGG
17343112 TTGGGTTTTGGG
1 TTGGGTTTTGGG
17343124 TTGGGTTTTGGG
1 TTGGGTTTTGGG
17343136 TT
1 TT
17343138 TAATGTAAAT
Statistics
Matches: 122, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 122 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (12 bp):
TTGGGTTTTGGG
Found at i:17343153 original size:22 final size:22
Alignment explanation
Indices: 17343125--17343197 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 22
17343115 GGTTTTGGGT
*
17343125 TGGGTTTTGGGTTTAATGTAAA
1 TGGGTTTTGGGTTTAGTGTAAA
**
17343147 TGGGTTTTGGGGTTCGGTGTAAA
1 TGGGTTTT-GGGTTTAGTGTAAA
* *
17343170 TGGGTCATGGGGTTTAGTGTAAA
1 TGGGT-TTTGGGTTTAGTGTAAA
17343193 TGGGT
1 TGGGT
17343198 CATGGAGCAA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
22 8 0.19
23 33 0.79
24 1 0.02
ACGTcount: A:0.18, C:0.03, G:0.40, T:0.40
Consensus pattern (22 bp):
TGGGTTTTGGGTTTAGTGTAAA
Found at i:17343167 original size:23 final size:23
Alignment explanation
Indices: 17343141--17343202 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
17343131 TTGGGTTTAA
** *
17343141 TGTAAATGGGTTTTGGGGTTCGG
1 TGTAAATGGGTCATGGGGTTCAG
*
17343164 TGTAAATGGGTCATGGGGTTTAG
1 TGTAAATGGGTCATGGGGTTCAG
17343187 TGTAAATGGGTCATGG
1 TGTAAATGGGTCATGG
17343203 AGCAAAATTG
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:0.19, C:0.05, G:0.40, T:0.35
Consensus pattern (23 bp):
TGTAAATGGGTCATGGGGTTCAG
Found at i:17344165 original size:89 final size:88
Alignment explanation
Indices: 17343746--17344278 Score: 721
Period size: 88 Copynumber: 6.0 Consensus size: 88
17343736 AACAGACATT
* * * *
17343746 AAAACAAAAATTGAAAATAGCTCAGCACGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAACAGAAATTGAAAATACCTCAG--CGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAG
* *
17343810 TTGATTTTTGAAGACTATAAATTGAA
63 TTGATTTTTGAAAAATATAAATTGAA
*
17343836 AAAACAGAAATTGAAAATACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* *
17343901 ATTTTTGAAGACTATAAATTGAA
66 ATTTTTGAAAAATATAAATTGAA
*
17343924 AAAACAGAAATTGAAAATACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
17343989 ATTTTTGAAAAATATAGATTGAA
66 ATTTTTGAAAAATATAAATTGAA
* *
17344012 AAAATAGAAATTGAAAATACCTCAGAGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
17344077 ATTTTTGAAAAATATAGATTGAAA
66 ATTTTTGAAAAATATAAATTG-AA
* * *
17344101 AAAATAGAAATTAAAAATACC-CTAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATCAGTT
1 AAAACAGAAATTGAAAATACCTC-AGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* ** *
17344165 GATTTTTTTGAGAAGCAGAAATTG-A
65 GA--TTTTTGAAAAATATAAATTGAA
* * * * *
17344190 AAAGCAGAAGTTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTTTCGCAATATCAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* * *
17344255 ATTTTTGACAAACAGAAATTGAA
66 ATTTTTGAAAAATATAAATTGAA
17344278 A
1 A
17344279 TTACCTCGGC
Statistics
Matches: 410, Mismatches: 26, Indels: 16
0.91 0.06 0.04
Matches are distributed among these distances:
87 20 0.05
88 229 0.56
89 122 0.30
90 24 0.06
91 15 0.04
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (88 bp):
AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTGAAAAATATAAATTGAA
Found at i:17344194 original size:14 final size:14
Alignment explanation
Indices: 17344172--17344206 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
17344162 GTTGATTTTT
*
17344172 TTGAGAAGCAGAAA
1 TTGAAAAGCAGAAA
*
17344186 TTGAAAAGCAGAAG
1 TTGAAAAGCAGAAA
17344200 TTGAAAA
1 TTGAAAA
17344207 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.51, C:0.06, G:0.26, T:0.17
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:17344327 original size:73 final size:72
Alignment explanation
Indices: 17344186--17344345 Score: 230
Period size: 73 Copynumber: 2.2 Consensus size: 72
17344176 GAAGCAGAAA
* *
17344186 TTGAAAAGCAGAAGTTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTTTCGCAATATCA
1 TTGAAAA-CAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATCA
17344251 GTTGATTT
65 GTTGATTT
* * * * *
17344259 TTGACAAACAGAAATTGAAATTACCTCGGCGTGTCCTGAGGCTCAACTCACCTCTCGCCATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATCA
17344324 GTTGATTT
65 GTTGATTT
*
17344332 TTGAAAATAGAAAT
1 TTGAAAACAGAAAT
17344346 AAAAACTTCA
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
72 9 0.12
73 66 0.85
74 3 0.04
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (72 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATCAG
TTGATTT
Found at i:17355891 original size:9 final size:9
Alignment explanation
Indices: 17355877--17355916 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
17355867 AAAGAGGAAC
17355877 AATAAAAAT
1 AATAAAAAT
17355886 AATAAAAAT
1 AATAAAAAT
*
17355895 AAT-AAAGT
1 AATAAAAAT
17355903 AATTAAAAAT
1 AA-TAAAAAT
17355913 AATA
1 AATA
17355917 CTTTATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 6 0.22
9 15 0.56
10 6 0.22
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (9 bp):
AATAAAAAT
Found at i:17356107 original size:25 final size:25
Alignment explanation
Indices: 17356063--17356129 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
17356053 ATATATATAT
*
17356063 ACATAATA-A-TATTAAGAATACGA
1 ACATAATATAGTATTAAAAATACGA
* *
17356086 ATATAATATAGTATTAAAAATACGT
1 ACATAATATAGTATTAAAAATACGA
*
17356111 GCATAATATAGTTATTAAA
1 ACATAATATAG-TATTAAA
17356130 GATATATACA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
23 7 0.19
24 1 0.03
25 21 0.58
26 7 0.19
ACGTcount: A:0.52, C:0.06, G:0.09, T:0.33
Consensus pattern (25 bp):
ACATAATATAGTATTAAAAATACGA
Found at i:17356141 original size:26 final size:25
Alignment explanation
Indices: 17356061--17356147 Score: 72
Period size: 25 Copynumber: 3.5 Consensus size: 25
17356051 GAATATATAT
*
17356061 ATACATAATA-A-TATTAAGAATAC
1 ATACATAATATAGTATTAAAAATAC
*
17356084 GA-ATATAATATAGTATTAAAAATAC
1 -ATACATAATATAGTATTAAAAATAC
* * * *
17356109 GTGCATAATATAGTTATTAAAGATAT
1 ATACATAATATAG-TATTAAAAATAC
17356135 ATACATATATATA
1 ATACATA-ATATA
17356148 ATAGAACATA
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
23 7 0.14
24 2 0.04
25 20 0.41
26 15 0.31
27 5 0.10
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (25 bp):
ATACATAATATAGTATTAAAAATAC
Found at i:17356186 original size:3 final size:3
Alignment explanation
Indices: 17356166--17356199 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
17356156 TATACTAACG
* *
17356166 ATA ATG ATA ATT ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
17356200 CAANTGAAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:17363603 original size:46 final size:46
Alignment explanation
Indices: 17363531--17363665 Score: 171
Period size: 52 Copynumber: 2.8 Consensus size: 46
17363521 GACAGGACAG
* * * *
17363531 GACAGAAATGAGCCATGTAAGTCCATATCAGATATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATTAGATATATGGCATTGGA
*
17363577 GACAGGAATGAGCCATGTAAACCCATATTAGATATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATTAG------ATATATGGCATTGGA
17363629 GACAGGAATGAGCCATGTAAGCCCATATTAGATATAT
1 GACAGGAATGAGCCATGTAAGCCCATATTAGATATAT
17363666 ATATGGCATT
Statistics
Matches: 77, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
46 33 0.43
52 44 0.57
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (46 bp):
GACAGGAATGAGCCATGTAAGCCCATATTAGATATATGGCATTGGA
Found at i:17363620 original size:52 final size:52
Alignment explanation
Indices: 17363562--17363669 Score: 198
Period size: 52 Copynumber: 2.1 Consensus size: 52
17363552 TCCATATCAG
*
17363562 ATATATGGCTTTGGAGACAGGAATGAGCCATGTAAACCCATATTAGATATAT
1 ATATATGGCATTGGAGACAGGAATGAGCCATGTAAACCCATATTAGATATAT
*
17363614 ATATATGGCATTGGAGACAGGAATGAGCCATGTAAGCCCATATTAGATATAT
1 ATATATGGCATTGGAGACAGGAATGAGCCATGTAAACCCATATTAGATATAT
17363666 ATAT
1 ATAT
17363670 GGCATTCATG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (52 bp):
ATATATGGCATTGGAGACAGGAATGAGCCATGTAAACCCATATTAGATATAT
Found at i:17368641 original size:241 final size:242
Alignment explanation
Indices: 17368206--17368689 Score: 934
Period size: 241 Copynumber: 2.0 Consensus size: 242
17368196 TATGGAAATA
17368206 ATTGACTAAATTATTAAGATTTTAACGACACTAACATACCATCCAAAGTGACACATGTAATTCAT
1 ATTGACTAAATTATTAAGATTTTAACGACACTAACATACCATCCAAAGTGACACATGTAATTCAT
*
17368271 AATTTTTTTTAAGAAGTTCATAAAAAATTTTAAAAAAATATCCACATTAGCAATTGAGTATATGT
66 AATTTTTTTTAAGAAGTTCATAAAAAATTTTAAAAAAATATCCACATTAGCAATGGAGTATATGT
*
17368336 GAACAATCATACGGATTGTTGCATCAATACTGTTAAAATTTTAAGAGTTTAATTATTTTTTTATC
131 GAACAATCATACGGATTGTTGCATCAATACTGTTAAAATTTTAAGAGTTCAATTATTTTTTTATC
17368401 CAAAAAAGGAAAAAAGCAATTTAACTGCATTTTGAAAGTTGAAACTT
196 CAAAAAAGGAAAAAAGCAATTTAACTGCATTTTGAAAGTTGAAACTT
17368448 ATTGACTAAATTATTAAGATTTTAACGACACTAACATACCATCCAAAGTGACACATGTAATTCAT
1 ATTGACTAAATTATTAAGATTTTAACGACACTAACATACCATCCAAAGTGACACATGTAATTCAT
17368513 AATTTTTTTTAAGAAGTTCATAAAAAATTTT-AAAAAATATCCACATTAGCAATGGAGTATATGT
66 AATTTTTTTTAAGAAGTTCATAAAAAATTTTAAAAAAATATCCACATTAGCAATGGAGTATATGT
*
17368577 GAACAATCATACGGATTGTTGCATCAATATTGTTAAAATTTTAAGAGTTCAATTATTTTTTTATC
131 GAACAATCATACGGATTGTTGCATCAATACTGTTAAAATTTTAAGAGTTCAATTATTTTTTTATC
17368642 CAAAAAAGGAAAAAAGCAATTTAACTGCATTTTGAAAGTTGAAACTT
196 CAAAAAAGGAAAAAAGCAATTTAACTGCATTTTGAAAGTTGAAACTT
17368689 A
1 A
17368690 ATAATTCAAA
Statistics
Matches: 239, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
241 143 0.60
242 96 0.40
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.35
Consensus pattern (242 bp):
ATTGACTAAATTATTAAGATTTTAACGACACTAACATACCATCCAAAGTGACACATGTAATTCAT
AATTTTTTTTAAGAAGTTCATAAAAAATTTTAAAAAAATATCCACATTAGCAATGGAGTATATGT
GAACAATCATACGGATTGTTGCATCAATACTGTTAAAATTTTAAGAGTTCAATTATTTTTTTATC
CAAAAAAGGAAAAAAGCAATTTAACTGCATTTTGAAAGTTGAAACTT
Found at i:17373150 original size:6 final size:6
Alignment explanation
Indices: 17373139--17373164 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
17373129 ACCGTAAGGG
17373139 AACAGT AACAGT AACAGT AACAGT AA
1 AACAGT AACAGT AACAGT AACAGT AA
17373165 TAGTCATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.54, C:0.15, G:0.15, T:0.15
Consensus pattern (6 bp):
AACAGT
Found at i:17377314 original size:37 final size:36
Alignment explanation
Indices: 17377245--17377322 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 36
17377235 ATAAGTGTAT
*
17377245 TTATTATAAAACTTAAAGTTAATATATAATATTATA
1 TTATAATAAAACTTAAAGTTAATATATAATATTATA
17377281 TTATAATAAAACTTAAACGTTAAGTATAT-ATATTATA
1 TTATAATAAAACTTAAA-GTTAA-TATATAATATTATA
17377318 TTATA
1 TTATA
17377323 TTATATTATA
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
36 16 0.41
37 18 0.46
38 5 0.13
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.44
Consensus pattern (36 bp):
TTATAATAAAACTTAAAGTTAATATATAATATTATA
Found at i:17377424 original size:25 final size:25
Alignment explanation
Indices: 17377354--17377427 Score: 80
Period size: 25 Copynumber: 3.0 Consensus size: 25
17377344 AAAGAAAAAA
* *
17377354 AAAAG-AAAA-AGAATGAGAGAAAG
1 AAAAGAAAAAGAGAAAGAGAGAAGG
* * *
17377377 AAACGAAACAGAGAAGGAGAGAAGG
1 AAAAGAAAAAGAGAAAGAGAGAAGG
*
17377402 AAAAGAAAAAGAGAAAGAAAGAAGG
1 AAAAGAAAAAGAGAAAGAGAGAAGG
17377427 A
1 A
17377428 GAAAAGTTAG
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
23 4 0.10
24 3 0.07
25 34 0.83
ACGTcount: A:0.66, C:0.03, G:0.30, T:0.01
Consensus pattern (25 bp):
AAAAGAAAAAGAGAAAGAGAGAAGG
Found at i:17385550 original size:59 final size:59
Alignment explanation
Indices: 17385485--17386175 Score: 1382
Period size: 59 Copynumber: 11.7 Consensus size: 59
17385475 CCTATTTTTC
17385485 GAGGCAAGGCACAAATGACCATATTGTTACACTTTCCCAATACCATCCATCAACCTTGA
1 GAGGCAAGGCACAAATGACCATATTGTTACACTTTCCCAATACCATCCATCAACCTTGA
17385544 GAGGCAAGGCACAAATGACCATATTGTTACACTTTCCCAATACCATCCATCAACCTTGA
1 GAGGCAAGGCACAAATGACCATATTGTTACACTTTCCCAATACCATCCATCAACCTTGA
17385603 GAGGCAAGGCACAAATGACCATATTGTTACACTTTCCCAATACCATCCATCAACCTTGA
1 GAGGCAAGGCACAAATGACCATATTGTTACACTTTCCCAATACCATCCATCAACCTTGA
17385662 GAGGCAAGGCACAAATGACCATATTGTTACACTTTCCCAATACCATCCATCAACCTTGA
1 GAGGCAAGGCACAAATGACCATATTGTTACACTTTCCCAATACCATCCATCAACCTTGA
17385721 GAGGCAAGGCACAAATGACCATATTGTTACACTTTCCCAATACCATCCATCAACCTTGA
1 GAGGCAAGGCACAAATGACCATATTGTTACACTTTCCCAATACCATCCATCAACCTTGA
17385780 GAGGCAAGGCACAAATGACCATATTGTTACACTTTCCCAATACCATCCATCAACCTTGA
1 GAGGCAAGGCACAAATGACCATATTGTTACACTTTCCCAATACCATCCATCAACCTTGA
17385839 GAGGCAAGGCACAAATGACCATATTGTTACACTTTCCCAATACCATCCATCAACCTTGA
1 GAGGCAAGGCACAAATGACCATATTGTTACACTTTCCCAATACCATCCATCAACCTTGA
17385898 GAGGCAAGGCACAAATGACCATATTGTTACACTTTCCCAATACCATCCATCAACCTTGA
1 GAGGCAAGGCACAAATGACCATATTGTTACACTTTCCCAATACCATCCATCAACCTTGA
17385957 GAGGCAAGGCACAAATGACCATATTGTTACACTTTCCCAATACCATCCATCAACCTTGA
1 GAGGCAAGGCACAAATGACCATATTGTTACACTTTCCCAATACCATCCATCAACCTTGA
17386016 GAGGCAAGGCACAAATGACCATATTGTTACACTTTCCCAATACCATCCATCAACCTTGA
1 GAGGCAAGGCACAAATGACCATATTGTTACACTTTCCCAATACCATCCATCAACCTTGA
17386075 GAGGCAAGGCACAAATGACCATATTGTTACACTTTCCCAATACCATCCATCAACCTTGA
1 GAGGCAAGGCACAAATGACCATATTGTTACACTTTCCCAATACCATCCATCAACCTTGA
17386134 GAGGCAAGGCACAAATGACCATATTGTTACACTTTCCCAATA
1 GAGGCAAGGCACAAATGACCATATTGTTACACTTTCCCAATA
17386176 GTCTTCTCAA
Statistics
Matches: 632, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 632 1.00
ACGTcount: A:0.34, C:0.29, G:0.14, T:0.24
Consensus pattern (59 bp):
GAGGCAAGGCACAAATGACCATATTGTTACACTTTCCCAATACCATCCATCAACCTTGA
Found at i:17397375 original size:132 final size:132
Alignment explanation
Indices: 17397068--17397418 Score: 334
Period size: 132 Copynumber: 2.7 Consensus size: 132
17397058 ACAATTTTTT
* * * *
17397068 TAAAAACTCTTTAAAACGAAGGCGAGATTCGATATTTGGCAATTCGCAGAATCGTGCCCTAACGT
1 TAAAAACTCTCTAAAACGAAGGCAAGATTCGATATTTGACAATTCGCAGAATCGTGCCCTAATGT
* * * * * * *
17397133 GTTGGGTTGCAATTTCGCATTTGCTCAAAATAATCGAGTATCCCTTCAAAATTTCGCTCATGCCT
66 GTTGGGTTGCAATTTCTCGTTTGCCCAAAAAAATAGAGTAACCCTTCAAAATTTCACTCATGCCT
*
17397198 TT
131 TC
* * * * ** * * *
17397200 TAAGAACTCTTTAAACCAAAGATAAGGTTTGATATTT-AGCAATTCGCGGAATCGTGCCCTAATG
1 TAAAAACTCTCTAAAACGAAGGCAAGATTCGATATTTGA-CAATTCGCAGAATCGTGCCCTAATG
* *
17397264 TGTTGGGTTGCAATTTCTCGTTTGCCCAAAAAAATTAGA-TAACCCTTCAAAATTTCACTCGTGT
65 TGTTGGGTTGCAATTTCTCGTTTGCCCAAAAAAA-TAGAGTAACCCTTCAAAATTTCACTCATGC
17397328 CTTC
129 CTTC
* * * * * *
17397332 TAAAAA-TCCTCTAAAACGAAGGCAATACTCGGTGTTTGACAATT--CATGAATCATGCCCTATT
1 TAAAAACT-CTCTAAAACGAAGGCAAGATTCGATATTTGACAATTCGCA-GAATCGTGCCCTAAT
* * **
17397394 GCGCTGGGTTGTGATTTCTCGTTTG
64 GTGTTGGGTTGCAATTTCTCGTTTG
17397419 GTCAAAACAA
Statistics
Matches: 174, Mismatches: 40, Indels: 11
0.77 0.18 0.05
Matches are distributed among these distances:
130 1 0.01
131 35 0.20
132 134 0.77
133 4 0.02
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (132 bp):
TAAAAACTCTCTAAAACGAAGGCAAGATTCGATATTTGACAATTCGCAGAATCGTGCCCTAATGT
GTTGGGTTGCAATTTCTCGTTTGCCCAAAAAAATAGAGTAACCCTTCAAAATTTCACTCATGCCT
TC
Found at i:17405188 original size:49 final size:49
Alignment explanation
Indices: 17405133--17405278 Score: 229
Period size: 49 Copynumber: 3.0 Consensus size: 49
17405123 TTCGTTTTCT
* *
17405133 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACAAATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
* *
17405182 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
* *
17405231 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACA-AATCACAT
17405279 GTTCACATGT
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
49 82 0.93
50 6 0.07
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (49 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
Found at i:17406592 original size:37 final size:37
Alignment explanation
Indices: 17406531--17406676 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
17406521 TACGTATGAT
* *
17406531 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
17406566 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
17406603 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
17406640 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
17406677 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:17406693 original size:46 final size:46
Alignment explanation
Indices: 17406640--17406908 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
17406630 TAAGTGTAGC
* **
17406640 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
17406686 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
17406732 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
17406784 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
17406830 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
17406882 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
17406909 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:17406759 original size:52 final size:52
Alignment explanation
Indices: 17406683--17406902 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
17406673 TAGCTAAAGC
* *
17406683 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
17406736 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
17406788 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
17406834 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
17406886 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
17406903 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:17406805 original size:98 final size:98
Alignment explanation
Indices: 17406640--17406908 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
17406630 TAAGTGTAGC
* * *
17406640 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
17406705 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
17406739 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
17406804 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
17406837 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
17406902 GATCAGA
66 GATCAGA
17406909 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:17410054 original size:18 final size:18
Alignment explanation
Indices: 17410031--17410077 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
17410021 TCACCAGAAT
*
17410031 AGTTCACCAAGAA-CTACG
1 AGTTCACCAA-AATATACG
17410049 AGTTCACCAAAATATACG
1 AGTTCACCAAAATATACG
*
17410067 AGCTCACCAAA
1 AGTTCACCAAA
17410078 TGTGCAAGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 2 0.08
18 24 0.92
ACGTcount: A:0.43, C:0.28, G:0.13, T:0.17
Consensus pattern (18 bp):
AGTTCACCAAAATATACG
Found at i:17413178 original size:3 final size:3
Alignment explanation
Indices: 17413172--17413201 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
17413162 CTTGTTTTTC
*
17413172 CTT CTT CTT CTT CTT CTT TTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
17413202 TTGTTTGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
CTT
Found at i:17414554 original size:8 final size:7
Alignment explanation
Indices: 17414540--17414612 Score: 74
Period size: 6 Copynumber: 11.6 Consensus size: 7
17414530 ATTAACATTA
17414540 AAAAAAT
1 AAAAAAT
17414547 AGAAAAAT
1 A-AAAAAT
17414555 -AAAAAT
1 AAAAAAT
17414561 -AAAAAT
1 AAAAAAT
17414567 -AAAAAT
1 AAAAAAT
17414573 -AAAAAT
1 AAAAAAT
17414579 -AAAAAT
1 AAAAAAT
17414585 -AAAAAT
1 AAAAAAT
17414591 -AAAAAT
1 AAAAAAT
17414597 -AAAAAT
1 AAAAAAT
17414603 -AAAAAT
1 AAAAAAT
17414609 AAAA
1 AAAA
17414613 TTAGGTTGCT
Statistics
Matches: 64, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
6 54 0.84
7 4 0.06
8 6 0.09
ACGTcount: A:0.84, C:0.00, G:0.01, T:0.15
Consensus pattern (7 bp):
AAAAAAT
Found at i:17414558 original size:6 final size:6
Alignment explanation
Indices: 17414549--17414612 Score: 128
Period size: 6 Copynumber: 10.7 Consensus size: 6
17414539 AAAAAAATAG
17414549 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
17414597 AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAA
17414613 TTAGGTTGCT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 58 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:17423265 original size:25 final size:25
Alignment explanation
Indices: 17423231--17423280 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
17423221 ACACACCATT
17423231 GCTCACATGAGCTT-CTCGTTATTCA
1 GCTCACATGAGCTTCCT-GTTATTCA
17423256 GCTCACATGAGCTTCCTGTTATTCA
1 GCTCACATGAGCTTCCTGTTATTCA
17423281 TCTCGGAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 22 0.92
26 2 0.08
ACGTcount: A:0.20, C:0.28, G:0.16, T:0.36
Consensus pattern (25 bp):
GCTCACATGAGCTTCCTGTTATTCA
Found at i:17425969 original size:12 final size:10
Alignment explanation
Indices: 17425942--17425988 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
17425932 GAAAATAGTC
*
17425942 AAAATTAATC
1 AAAATTAATT
17425952 AAAATTAACTAT
1 AAAATTAA-T-T
17425964 AAAATTAATT
1 AAAATTAATT
*
17425974 AAAATTCA-T
1 AAAATTAATT
17425983 AAAATT
1 AAAATT
17425989 CATATTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
9 7 0.21
10 16 0.48
11 2 0.06
12 8 0.24
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (10 bp):
AAAATTAATT
Found at i:17435635 original size:18 final size:18
Alignment explanation
Indices: 17435595--17435637 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
17435585 GACTGGGAAA
* *
17435595 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
17435613 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
17435631 AGGATAC
1 AGGATAC
17435638 TTACCTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.28, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:17437719 original size:30 final size:30
Alignment explanation
Indices: 17437685--17437743 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
17437675 CAGAAGTAGT
*
17437685 GTGTGGGCCATAGCCCAATATAGTAACAGA
1 GTGTGGGCCATAGCCCAATACAGTAACAGA
* *
17437715 GTGTGGGCCTTAGCCTAATACAGTAACAG
1 GTGTGGGCCATAGCCCAATACAGTAACAG
17437744 TGCAAATGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (30 bp):
GTGTGGGCCATAGCCCAATACAGTAACAGA
Found at i:17437886 original size:26 final size:26
Alignment explanation
Indices: 17437857--17437939 Score: 96
Period size: 26 Copynumber: 3.2 Consensus size: 26
17437847 ATATTGCAAC
* *
17437857 AAAGTTGTTAGTAATAGTAACGCAGT
1 AAAGCTGTCAGTAATAGTAACGCAGT
* * *
17437883 AAAGCTGCCAGTAATAGTAACACAAT
1 AAAGCTGTCAGTAATAGTAACGCAGT
*
17437909 AGAGCTGTCAGT-ATCAGTAACGCAGT
1 AAAGCTGTCAGTAAT-AGTAACGCAGT
17437935 AAAGC
1 AAAGC
17437940 ATCCAGTAAC
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
25 2 0.04
26 44 0.96
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.23
Consensus pattern (26 bp):
AAAGCTGTCAGTAATAGTAACGCAGT
Found at i:17437946 original size:26 final size:26
Alignment explanation
Indices: 17437872--17437953 Score: 87
Period size: 26 Copynumber: 3.2 Consensus size: 26
17437862 TGTTAGTAAT
17437872 AGTAACGCAGTAAAGCTGCCAGTAAT-
1 AGTAACGCAGTAAAGCTGCCAGT-ATC
* * * *
17437898 AGTAACACAATAGAGCTGTCAGTATC
1 AGTAACGCAGTAAAGCTGCCAGTATC
*
17437924 AGTAACGCAGTAAAGCAT-CCAGTAAC
1 AGTAACGCAGTAAAGC-TGCCAGTATC
17437950 AGTA
1 AGTA
17437954 TTTGTGGCAA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
25 2 0.04
26 42 0.93
27 1 0.02
ACGTcount: A:0.40, C:0.20, G:0.21, T:0.20
Consensus pattern (26 bp):
AGTAACGCAGTAAAGCTGCCAGTATC
Found at i:17438179 original size:27 final size:27
Alignment explanation
Indices: 17438148--17438262 Score: 128
Period size: 27 Copynumber: 4.3 Consensus size: 27
17438138 GTATAACGGA
*
17438148 CATTTTACCCTATAAGGGTATTTCGGT
1 CATTTTACCCTATAAGGGTATTTCAGT
* *
17438175 AATTTTA-CCTATAGAGGATATTTCAGT
1 CATTTTACCCTATA-AGGGTATTTCAGT
*
17438202 CATTTTACCC-ATCGAGGGTATTTC-GAT
1 CATTTTACCCTAT-AAGGGTATTTCAG-T
* *
17438229 CATTTTACCCTTTGAGGGTATTTCAGT
1 CATTTTACCCTATAAGGGTATTTCAGT
17438256 CATTTTA
1 CATTTTA
17438263 GAGGCCTATT
Statistics
Matches: 75, Mismatches: 7, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
26 7 0.09
27 64 0.85
28 4 0.05
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.42
Consensus pattern (27 bp):
CATTTTACCCTATAAGGGTATTTCAGT
Found at i:17438206 original size:54 final size:54
Alignment explanation
Indices: 17438148--17438262 Score: 153
Period size: 54 Copynumber: 2.1 Consensus size: 54
17438138 GTATAACGGA
*
17438148 CATTTTACCCTAT-AAGGGTATTTCGGTAATTTTA-CCTATAGAGGATATTTCAGT
1 CATTTTACCC-ATCAAGGGTATTTCGATAATTTTACCCT-TAGAGGATATTTCAGT
* * * *
17438202 CATTTTACCCATCGAGGGTATTTCGATCATTTTACCCTTTGAGGGTATTTCAGT
1 CATTTTACCCATCAAGGGTATTTCGATAATTTTACCCTTAGAGGATATTTCAGT
17438256 CATTTTA
1 CATTTTA
17438263 GAGGCCTATT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
53 2 0.04
54 49 0.91
55 3 0.06
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.42
Consensus pattern (54 bp):
CATTTTACCCATCAAGGGTATTTCGATAATTTTACCCTTAGAGGATATTTCAGT
Found at i:17440796 original size:30 final size:30
Alignment explanation
Indices: 17440754--17440841 Score: 99
Period size: 30 Copynumber: 2.9 Consensus size: 30
17440744 AGAATCAATC
*
17440754 TGGGCC-TGAGCCCTATACAGTAGCAGTGTG
1 TGGGCCAT-AGCCCTATACAGTAACAGTGTG
* * *
17440784 TGGGCCATAGCCCAATATAGTAACAGAGTG
1 TGGGCCATAGCCCTATACAGTAACAGTGTG
*
17440814 TGGG-TATTAGCCCTATACAGTAACAGTG
1 TGGGCCA-TAGCCCTATACAGTAACAGTG
17440842 CAAATGCAGT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
29 1 0.02
30 46 0.96
31 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.24
Consensus pattern (30 bp):
TGGGCCATAGCCCTATACAGTAACAGTGTG
Found at i:17440964 original size:26 final size:26
Alignment explanation
Indices: 17440926--17441003 Score: 84
Period size: 26 Copynumber: 3.0 Consensus size: 26
17440916 AAATCGACCC
17440926 ACGCAGCAAAGCTGCCAGTAACAGTA
1 ACGCAGCAAAGCTGCCAGTAACAGTA
* * * **
17440952 ATGCAGCAGAGCTGTCAGTATTAGTA
1 ACGCAGCAAAGCTGCCAGTAACAGTA
* * *
17440978 ACGCAGGAAAGCTACCAGAAACAGTA
1 ACGCAGCAAAGCTGCCAGTAACAGTA
17441004 TTTGTGGCAA
Statistics
Matches: 39, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.15
Consensus pattern (26 bp):
ACGCAGCAAAGCTGCCAGTAACAGTA
Found at i:17441224 original size:27 final size:27
Alignment explanation
Indices: 17441194--17441254 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
17441184 AGGGGTATAA
17441194 CGGTCATTTTACCCTATAGA-GGTATTT
1 CGGTCATTTTACCC-ATAGAGGGTATTT
* * *
17441221 CGGTAATTTTATCCATCGAGGGTATTT
1 CGGTCATTTTACCCATAGAGGGTATTT
*
17441248 CGCTCAT
1 CGGTCAT
17441255 GGGGGCCTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
26 4 0.14
27 24 0.86
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (27 bp):
CGGTCATTTTACCCATAGAGGGTATTT
Done.