Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 83 of 170
Found at i:25501553 original size:37 final size:36
Alignment explanation
Indices: 25501494--25501607 Score: 165
Period size: 37 Copynumber: 3.1 Consensus size: 36
25501484 GGAAATATAT
*
25501494 TCCGGGTGAGACCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCGATGACTACGTGTGGAGATTATG
*
25501530 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGA-CCGATGACTACGTGTGGAGATTATG
* * *
25501567 TCCGGGTAAGATCCGATAACTTCGTGTGGAGATTACG
1 TCCGGGTAAGA-CCGATGACTACGTGTGGAGATTATG
25501604 TCCG
1 TCCG
25501608 AGCTAAAGGT
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
36 10 0.14
37 60 0.86
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.26
Consensus pattern (36 bp):
TCCGGGTAAGACCGATGACTACGTGTGGAGATTATG
Found at i:25514592 original size:53 final size:53
Alignment explanation
Indices: 25514534--25514636 Score: 197
Period size: 53 Copynumber: 1.9 Consensus size: 53
25514524 CCAAGTTTCA
*
25514534 TATAGTGTTTCATCCTCCAATTGCCAAAATTATGTGGCTCTAAGCTTGTCGTT
1 TATAGTGTTTCATCCTCCAATTGCCAAAATTATATGGCTCTAAGCTTGTCGTT
25514587 TATAGTGTTTCATCCTCCAATTGCCAAAATTATATGGCTCTAAGCTTGTC
1 TATAGTGTTTCATCCTCCAATTGCCAAAATTATATGGCTCTAAGCTTGTC
25514637 ATTCATATTT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (53 bp):
TATAGTGTTTCATCCTCCAATTGCCAAAATTATATGGCTCTAAGCTTGTCGTT
Found at i:25518220 original size:24 final size:26
Alignment explanation
Indices: 25518184--25518231 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
25518174 CAATTGCTGG
25518184 AAATTTGAAAACGAAAA-AAGGAGTC
1 AAATTTGAAAACGAAAACAAGGAGTC
25518209 AAATTT-AAAACGAAAACAAGGAG
1 AAATTTGAAAACGAAAACAAGGAG
25518232 ATGAAATGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.58, C:0.08, G:0.19, T:0.15
Consensus pattern (26 bp):
AAATTTGAAAACGAAAACAAGGAGTC
Found at i:25528790 original size:24 final size:23
Alignment explanation
Indices: 25528763--25528812 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
25528753 GATAATAATG
*
25528763 TGCAGAAAATTCTGCAAATAAAAA
1 TGCAGAAAA-GCTGCAAATAAAAA
* *
25528787 TGCAGACAAGCTGCCAATAAAAA
1 TGCAGAAAAGCTGCAAATAAAAA
25528810 TGC
1 TGC
25528813 GATAAATCAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.48, C:0.18, G:0.16, T:0.18
Consensus pattern (23 bp):
TGCAGAAAAGCTGCAAATAAAAA
Found at i:25544455 original size:15 final size:15
Alignment explanation
Indices: 25544437--25544470 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
25544427 GATTATTCAT
25544437 TTTTTGTGTATTTTA
1 TTTTTGTGTATTTTA
* *
25544452 TTTTTGTTTTTTTTA
1 TTTTTGTGTATTTTA
25544467 TTTT
1 TTTT
25544471 GATTGATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.82
Consensus pattern (15 bp):
TTTTTGTGTATTTTA
Found at i:25548242 original size:19 final size:19
Alignment explanation
Indices: 25548218--25548264 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
25548208 TGACGCCTTT
*
25548218 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTACAT-CA
25548237 TTTGCATTACATTACATCA
1 TTTGCATTACATTACATCA
*
25548256 TATGCATTA
1 TTTGCATTA
25548265 AAGTCCACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTACATCA
Found at i:25551414 original size:12 final size:11
Alignment explanation
Indices: 25551388--25551429 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
25551378 AAAATGATGG
*
25551388 AAAAGAAAAGA
1 AAAAGAAAGGA
25551399 AAAAGAGAAGGA
1 AAAAGA-AAGGA
25551411 AAAAGAAAAGG-
1 AAAAG-AAAGGA
25551422 AAAAGAAA
1 AAAAGAAA
25551430 AAAGAGAGGC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 3 0.11
11 11 0.39
12 13 0.46
13 1 0.04
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (11 bp):
AAAAGAAAGGA
Found at i:25551416 original size:18 final size:18
Alignment explanation
Indices: 25551393--25551434 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
25551383 GATGGAAAAG
* *
25551393 AAAAGAAAAAGAGAAGGA
1 AAAAGAAAAAGAAAAGAA
*
25551411 AAAAGAAAAGGAAAAGAA
1 AAAAGAAAAAGAAAAGAA
25551429 AAAAGA
1 AAAAGA
25551435 GAGGCCAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (18 bp):
AAAAGAAAAAGAAAAGAA
Found at i:25551431 original size:12 final size:11
Alignment explanation
Indices: 25551386--25551430 Score: 63
Period size: 11 Copynumber: 4.0 Consensus size: 11
25551376 TGAAAATGAT
25551386 GGAAAAGAAAA
1 GGAAAAGAAAA
* *
25551397 GAAAAAGAGAA
1 GGAAAAGAAAA
25551408 GGAAAAAGAAAA
1 GG-AAAAGAAAA
25551420 GGAAAAGAAAA
1 GGAAAAGAAAA
25551431 AAGAGAGGCC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
11 19 0.66
12 10 0.34
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (11 bp):
GGAAAAGAAAA
Found at i:25553840 original size:45 final size:45
Alignment explanation
Indices: 25553694--25554667 Score: 463
Period size: 44 Copynumber: 21.8 Consensus size: 45
25553684 TGGCAAATCA
* * * * * *
25553694 TATCTCCCTGAAGTTGCAATGGAGCATATTAAAGCCAA-TAA-TCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-AAAGCAAGTCT
* * * * **
25553738 TATCTCCTTGAAGTTGCAGTGGAACGGATTAAAGTTA-CAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
* * * *
25553782 TATCTCCTTGAAGTTGCAGTGGAACAGACTGAAGAAAGTAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
* * * ** *
25553827 TATCCCCCTGAAGTTGTAGT-GAGGCAGACTGAAGATGGCAAATCT
1 TATCTCCCTGAAGTTGCAGTGGA-GCAGATTGAAGAAAGCAAGTCT
* ** * * ** *
25553872 TATCTCCTTGAAGTTATAGTGGAGTAGATTAAAGCCAGTAA-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
* * * **
25553916 TATC-CCCTTAAAGTTGCAGTGGAGCGGATTAAAGTTA-CAAGTCT
1 TATCTCCC-TGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
* * *
25553960 TATCTCCCTGAAGTTGAAGTGAAGCAGACTGAAGAAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
* * * ** * *
25554005 TATC-CCTCTGAAGTTGTAGTGGGGCAGGTTGAAGATGGAAAATCT
1 TATCTCC-CTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
* * * * * *
25554050 TATCTCCCTGAAGTTGCAGTAGAGCAAATTAAAGCCAA-TAA-TCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-AAAGCAAGTCT
* * **
25554094 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGTTA-CAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
* *
25554138 TATCTCCCTAAAGTTGCAGT-GAGCAGACTGAAGAAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
* * * **
25554182 TATCCCCCTAAAGTTGCAGTGGAACAGATTGAAGTTGTAAATTACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA---G-AAAGCA-AG-TCT
** ** * * **
25554233 TATCTCTTTGAAGTTGCAGT--AG-AGA--GATCATATCAAACCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
* * * * * * *
25554273 TATCTCCCTGAATTTGTAGTGGAACAGGTTGAAGATACCGA-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
* * ** *
25554317 TGTCTCCCTGAAGTTGCAGTGGAGCATATTGAAGCTA-CTAA-TCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGC-AAGTCT
* * *
25554361 TATCTCCCTGAAGTTGCAGTGGAGCATATTAAAACGAAA--AA-TCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATT-GAA-GAAAGCAAGTCT
* * * * * ** * *
25554405 TATAC-CTCTGAAGTTGTAGTAGGTCGGATCAAATTCACCAAATCCAAGTTT
1 TAT-CTCCCTGAAG-T-T-GCA-GT-GGAGCAGATTGAAGAAA-GCAAGTCT
* * * * **
25554456 TATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATATCAAACCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
* * * * * * * *
25554501 TATCTCCCTAAATTTTCAATGGAGCAGGTTGAAGATA-CAAATCG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
* * **
25554545 TATCCCCCTGAAGTTGCAGTGGGGCAGATTGAAGCCA-CAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
* * * * *
25554589 TATATCCCTG-AGATTGCAGTGGAGTAGACTGAAGATAGCAAATCT
1 TATCTCCCTGAAG-TTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
* * * * *
25554634 CATTTCCCTGAAATTGCAGTGGAACAAATTGAAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
25554668 CTATAAATTG
Statistics
Matches: 708, Mismatches: 180, Indels: 83
0.73 0.19 0.09
Matches are distributed among these distances:
40 18 0.03
41 1 0.00
42 5 0.01
43 27 0.04
44 347 0.49
45 225 0.32
46 20 0.03
47 7 0.01
48 8 0.01
49 14 0.02
50 6 0.01
51 30 0.04
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (45 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
Found at i:25553878 original size:178 final size:177
Alignment explanation
Indices: 25553683--25554202 Score: 761
Period size: 178 Copynumber: 2.9 Consensus size: 177
25553673 AGAATAGATC
* * *
25553683 ATGGCAAATCATATCTCCCTGAAGTTGCAATGGAGCATATTAAAGCCAATAATCCTATCTCCTTG
1 ATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCCAATAATCCTATCTCCTTG
* *
25553748 AAGTTGCAGTGGAACGGATTAAAGTTACAAGTCTTATCTCCTTGAAGTTGCAGTGGAACAGACTG
66 AAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGT-GAACAGACTG
*
25553813 AAGAAAGTAAGTCTTATCCCCCTGAAGTTGTAGTGAGGCAGACTGAAG
130 AAGAAAGCAAGTCTTATCCCCCTGAAGTTGTAGTGAGGCAGACTGAAG
* ** * * * * * *
25553861 ATGGCAAATCTTATCTCCTTGAAGTTATAGTGGAGTAGATTAAAGCCAGTAATCTTATCCCCTTA
1 ATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCCAATAATCCTATCTCCTTG
*
25553926 AAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTGAAGTGAAGCAGACTG
66 AAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGAA-CAGACTG
* * **
25553991 AAGAAAGCAAGTCTTATCCCTCTGAAGTTGTAGTGGGGCAGGTTGAAG
130 AAGAAAGCAAGTCTTATCCCCCTGAAGTTGTAGTGAGGCAGACTGAAG
* * *
25554039 ATGGAAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAAATTAAAGCCAATAATCCTATCTCCCTG
1 ATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCCAATAATCCTATCTCCTTG
* * * *
25554104 AAGTTACAGTGGAGCAGATTAAAGTTACAAGTCTTATCTCCCTAAAGTTGCAGTGAGCAGACTGA
66 AAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGAACAGACTGA
* *
25554169 AGAAAGCAAGTCTTATCCCCCTAAAGTTGCAGTG
131 AGAAAGCAAGTCTTATCCCCCTGAAGTTGTAGTG
25554203 GAACAGATTG
Statistics
Matches: 302, Mismatches: 39, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
177 42 0.14
178 260 0.86
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (177 bp):
ATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCCAATAATCCTATCTCCTTG
AAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGAACAGACTGA
AGAAAGCAAGTCTTATCCCCCTGAAGTTGTAGTGAGGCAGACTGAAG
Found at i:25555359 original size:11 final size:11
Alignment explanation
Indices: 25555335--25555374 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
25555325 CCTCCGATTC
*
25555335 TTTATTTTGAT
1 TTTATTTTGTT
*
25555346 TTTGTTTTGTT
1 TTTATTTTGTT
25555357 TTTATTTTGTT
1 TTTATTTTGTT
*
25555368 TTGATTT
1 TTTATTT
25555375 CACTTTTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.10, C:0.00, G:0.12, T:0.78
Consensus pattern (11 bp):
TTTATTTTGTT
Found at i:25555363 original size:16 final size:16
Alignment explanation
Indices: 25555339--25555370 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25555329 CGATTCTTTA
25555339 TTTTGATTTTGTTTTG
1 TTTTGATTTTGTTTTG
*
25555355 TTTTTATTTTGTTTTG
1 TTTTGATTTTGTTTTG
25555371 ATTTCACTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.00, G:0.16, T:0.78
Consensus pattern (16 bp):
TTTTGATTTTGTTTTG
Found at i:25556231 original size:15 final size:15
Alignment explanation
Indices: 25556213--25556247 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
25556203 AATTATTCAT
25556213 TTTTTGTGTATTTTA
1 TTTTTGTGTATTTTA
* *
25556228 TTTTTGTTTTTTTTA
1 TTTTTGTGTATTTTA
25556243 TTTTT
1 TTTTT
25556248 ATTTTGTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.83
Consensus pattern (15 bp):
TTTTTGTGTATTTTA
Found at i:25556252 original size:15 final size:15
Alignment explanation
Indices: 25556223--25556252 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
25556213 TTTTTGTGTA
*
25556223 TTTTATTTTTGTTTT
1 TTTTATTTTTATTTT
25556238 TTTTATTTTTATTTT
1 TTTTATTTTTATTTT
25556253 GTTGTTTTAT
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:0.10, C:0.00, G:0.03, T:0.87
Consensus pattern (15 bp):
TTTTATTTTTATTTT
Found at i:25556253 original size:20 final size:22
Alignment explanation
Indices: 25556223--25556272 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
25556213 TTTTTGTGTA
25556223 TTTTATTTTTGTT-TTTT-TTAT
1 TTTTA-TTTTGTTGTTTTATTAT
25556244 TTTTATTTTGTTGTTTTATTAT
1 TTTTATTTTGTTGTTTTATTAT
*
25556266 TTCTATT
1 TTTTATT
25556273 GATTATTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 7 0.27
21 9 0.35
22 10 0.38
ACGTcount: A:0.12, C:0.02, G:0.06, T:0.80
Consensus pattern (22 bp):
TTTTATTTTGTTGTTTTATTAT
Found at i:25566185 original size:21 final size:21
Alignment explanation
Indices: 25566155--25566195 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
25566145 TTCACTTCCT
*
25566155 TCATTCTCTTCCTCTTTTTTC
1 TCATTCTCTTCATCTTTTTTC
*
25566176 TCATTTTCTTCATCTTTTTT
1 TCATTCTCTTCATCTTTTTT
25566196 GCACTTGCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.66
Consensus pattern (21 bp):
TCATTCTCTTCATCTTTTTTC
Found at i:25580723 original size:27 final size:27
Alignment explanation
Indices: 25580693--25580791 Score: 110
Period size: 27 Copynumber: 3.7 Consensus size: 27
25580683 CCTATAGGCC
*
25580693 TATTTCGGTAATTTTACCCATCAAGGG
1 TATTTCAGTAATTTTACCCATCAAGGG
* * * **
25580720 TATTTCAATCATTTTACCCTTCGGGGG
1 TATTTCAGTAATTTTACCCATCAAGGG
*
25580747 TATTTTCA-TAATTTTACCCATCAAAGG
1 TA-TTTCAGTAATTTTACCCATCAAGGG
*
25580774 TATTTCAGAAATTTTACC
1 TATTTCAGTAATTTTACC
25580792 TAATAAGGGT
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
26 5 0.09
27 48 0.83
28 5 0.09
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.40
Consensus pattern (27 bp):
TATTTCAGTAATTTTACCCATCAAGGG
Found at i:25583130 original size:24 final size:24
Alignment explanation
Indices: 25583102--25583148 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
25583092 GTTAAAACTC
25583102 ATTCTAAAGAAAACTC-AAGAGAAA
1 ATTCT-AAGAAAACTCAAAGAGAAA
* *
25583126 ATTCTTAGAGAACTCAAAGAGAA
1 ATTCTAAGAAAACTCAAAGAGAA
25583149 TTTTCACTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.53, C:0.13, G:0.15, T:0.19
Consensus pattern (24 bp):
ATTCTAAGAAAACTCAAAGAGAAA
Found at i:25592452 original size:26 final size:26
Alignment explanation
Indices: 25592422--25592472 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
25592412 ACCAATGAAC
*
25592422 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
25592448 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
25592473 CTTTTCACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:25592604 original size:105 final size:105
Alignment explanation
Indices: 25592285--25592656 Score: 624
Period size: 104 Copynumber: 3.6 Consensus size: 105
25592275 TAACCGTTAT
* * **
25592285 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
25592350 AATCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
* *
25592389 TGGTGGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTC-GGG
1 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
25592452 GAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
*
25592493 TGGTGGATCACACACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
25592558 AATCAGCACATAGCAACCCCCTTTTTACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
**
25592598 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
25592657 TTATATACAA
Statistics
Matches: 253, Mismatches: 11, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
103 25 0.10
104 128 0.51
105 100 0.40
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.19
Consensus pattern (105 bp):
TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
Found at i:25593017 original size:29 final size:29
Alignment explanation
Indices: 25592984--25593047 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
25592974 TAATCCACCA
25592984 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
25593013 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
25593043 CCCAA
1 CCCAA
25593048 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:25593021 original size:30 final size:30
Alignment explanation
Indices: 25592991--25593047 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
25592981 CCACCCAACT
25592991 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
25593020 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
25593048 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:25597845 original size:39 final size:39
Alignment explanation
Indices: 25597755--25597975 Score: 256
Period size: 40 Copynumber: 5.7 Consensus size: 39
25597745 TTGAATGATG
* * *
25597755 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-A
* *
25597795 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
*
25597834 TCCGGACTAAGAT-CCGAAGGCATTTGT--GAG-TACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
*
25597870 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
*
25597910 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
25597950 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
25597976 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 10, Indels: 16
0.86 0.05 0.08
Matches are distributed among these distances:
35 1 0.01
36 29 0.18
37 3 0.02
38 3 0.02
39 33 0.20
40 86 0.53
41 8 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:25597894 original size:75 final size:79
Alignment explanation
Indices: 25597755--25597975 Score: 240
Period size: 75 Copynumber: 2.8 Consensus size: 79
25597745 TTGAATGATG
* * * * * *
25597755 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGACTAAGTCCCGAAGGCATTTGT-C-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
25597818 TTGTGCGAGATACT-AA
63 TTGTGCGAGATACTAAA
* *
25597834 TCCGGACTAAGAT-CCGAAGGCATTTGT-GAG-TACTA-ATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGACTAAG-TCCCGAAGGCATTTGTCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
*
25597895 GTGCGAGTTACTAAA
65 GTGCGAGATACTAAA
** *
25597910 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGACTAAGTCCCGAAGGCATTTGT-CGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
25597975 G
65 G
25597976 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 12, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
74 1 0.01
75 34 0.28
76 28 0.23
77 2 0.02
78 3 0.02
79 23 0.19
80 30 0.25
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:25604990 original size:40 final size:39
Alignment explanation
Indices: 25604933--25605118 Score: 159
Period size: 39 Copynumber: 4.7 Consensus size: 39
25604923 TTGAATGATG
* *
25604933 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-AAGT-ACCAAA
* *
25604973 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCAAGTACCAAA
* * *
25605012 T-CGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAGATCCGAAGGCATTTGTGCAAG-TACCAAA
* * *
25605051 TCCGG-GTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGCAAG-TACCAAA
**
25605090 TCCGGGTTAAG-TCCCGAAGGCATTTGTGC
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC
25605119 GAGTTACTAT
Statistics
Matches: 131, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
38 31 0.24
39 46 0.35
40 46 0.35
41 8 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCAAGTACCAAA
Found at i:25605119 original size:40 final size:40
Alignment explanation
Indices: 25604933--25605155 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
25604923 TTGAATGATG
* * * *
25604933 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
25604973 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAG-TACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
25605012 T-CGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
25605051 TCCGGG-TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
25605090 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
25605131 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
25605156 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 11, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
38 31 0.19
39 47 0.28
40 77 0.47
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:25605177 original size:79 final size:78
Alignment explanation
Indices: 25604940--25605188 Score: 267
Period size: 79 Copynumber: 3.2 Consensus size: 78
25604930 ATGTCCGGGC
* * * *
25604940 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCG
*
25605003 AGTACTAAAT-CGGAC
64 AGTACTAAATCCGG-T
*
25605018 TAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATTCCGGG-TAAGTCCCGAAGGCATTTGTGCG
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCG
25605080 AGTTACTAAATCCGGGT
64 AG-TACTAAATCC-GGT
* * **
25605097 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
*
25605162 TAGCTATATCCGGT
66 TA-CTAAATCCGGT
* *
25605176 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
25605189 TACGTGATTT
Statistics
Matches: 146, Mismatches: 14, Indels: 21
0.81 0.08 0.12
Matches are distributed among these distances:
76 1 0.01
77 24 0.16
78 31 0.21
79 58 0.40
80 32 0.22
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (78 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
TACTAAATCCGGT
Found at i:25622204 original size:16 final size:16
Alignment explanation
Indices: 25622183--25622214 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
25622173 TCCATAGCTC
25622183 CTCCATCCTGATGATT
1 CTCCATCCTGATGATT
25622199 CTCCATCCTGATGATT
1 CTCCATCCTGATGATT
25622215 ATCTACACGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.31, G:0.12, T:0.38
Consensus pattern (16 bp):
CTCCATCCTGATGATT
Found at i:25625414 original size:15 final size:15
Alignment explanation
Indices: 25625394--25625422 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
25625384 ATGCTTCACA
25625394 CACCATGTTATCAAT
1 CACCATGTTATCAAT
25625409 CACCATGTTATCAA
1 CACCATGTTATCAA
25625423 ACAACAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.28, G:0.07, T:0.31
Consensus pattern (15 bp):
CACCATGTTATCAAT
Found at i:25627583 original size:27 final size:27
Alignment explanation
Indices: 25627553--25627720 Score: 114
Period size: 27 Copynumber: 6.3 Consensus size: 27
25627543 CCCTAAATAA
*
25627553 GTAAAATAACCAAAATACCCCTGAAGG
1 GTAAAATGACCAAAATACCCCTGAAGG
* *** *
25627580 GTAAAATGACTATTTTACCCCT-AATAG
1 GTAAAATGACCAAAATACCCCTGAA-GG
* * *
25627607 ATGAAAATGACTAAAATACCCC-CATAGG
1 GT-AAAATGACCAAAATACCCCTGA-AGG
**
25627635 GTAAAATGACTGAAATACTCCC--ATAGG
1 GTAAAATGACCAAAATAC-CCCTGA-AGG
* * *
25627662 GTAAAATGACCGAAATATCCTTGAAGG
1 GTAAAATGACCAAAATACCCCTGAAGG
*
25627689 GTAGAATGACCAAAATACCCCTG--GG
1 GTAAAATGACCAAAATACCCCTGAAGG
25627714 GTAAAAT
1 GTAAAAT
25627721 TACCGTTTTA
Statistics
Matches: 113, Mismatches: 21, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
25 8 0.07
26 4 0.04
27 77 0.68
28 23 0.20
29 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.21
Consensus pattern (27 bp):
GTAAAATGACCAAAATACCCCTGAAGG
Found at i:25641575 original size:13 final size:13
Alignment explanation
Indices: 25641559--25641591 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
25641549 AAAGAAAGTG
25641559 AAAAGAATATTAA
1 AAAAGAATATTAA
*
25641572 AAAAGAATATTAG
1 AAAAGAATATTAA
25641585 AAAAGAA
1 AAAAGAA
25641592 AAAGAAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.70, C:0.00, G:0.12, T:0.18
Consensus pattern (13 bp):
AAAAGAATATTAA
Found at i:25648379 original size:19 final size:20
Alignment explanation
Indices: 25648340--25648379 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
25648330 TGCACGCCGA
**
25648340 CTTTAGCTCAATTTTAGCTC
1 CTTTAGCTCAATTCCAGCTC
25648360 CTTTAGCTC-ATTCCAGCTC
1 CTTTAGCTCAATTCCAGCTC
25648379 C
1 C
25648380 AACCAGCTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.17, C:0.33, G:0.10, T:0.40
Consensus pattern (20 bp):
CTTTAGCTCAATTCCAGCTC
Found at i:25655263 original size:5 final size:5
Alignment explanation
Indices: 25655253--25655284 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
25655243 AGTTCTATAC
*
25655253 TAATT TAATT TAATT TAATT TGATT TAATT TA
1 TAATT TAATT TAATT TAATT TAATT TAATT TA
25655285 CGTTTGTCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (5 bp):
TAATT
Found at i:25655640 original size:12 final size:12
Alignment explanation
Indices: 25655623--25655648 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
25655613 ATAAGGCTTA
25655623 TGCATGACATAT
1 TGCATGACATAT
25655635 TGCATGACATAT
1 TGCATGACATAT
25655647 TG
1 TG
25655649 GAGAACTAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (12 bp):
TGCATGACATAT
Found at i:25660017 original size:50 final size:51
Alignment explanation
Indices: 25659918--25660156 Score: 218
Period size: 50 Copynumber: 4.7 Consensus size: 51
25659908 AAAGAGATCT
*
25659918 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGACTATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCA-T-AG---ATGAGAGGTCC
25659974 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCA-AGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCATAGATGAGAGGTCC
** * * **
25660024 CCCGTAAGACCATGTCTGGAACATGGC-TTGGGCACCA-ATATGAGAACTCC
1 CATGTAAGACCATGTCTGGGACATGGCATT-GGCACCATAGATGAGAGGTCC
* * * * * * * * **
25660074 CATGTAAGACCATATCTTGGATATGGCATTGGTA--GTACAGGAAACATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCATAGATGAGAGGTCC
* *
25660123 CATGTAAGGCCATGTCTGGGACATGGCTTTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
25660157 TGTTATTATC
Statistics
Matches: 154, Mismatches: 26, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
49 38 0.25
50 76 0.49
51 2 0.01
53 2 0.01
56 36 0.23
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (51 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCATAGATGAGAGGTCC
Found at i:25667605 original size:56 final size:50
Alignment explanation
Indices: 25667509--25667748 Score: 186
Period size: 50 Copynumber: 4.7 Consensus size: 50
25667499 ATTTTTGTAA
* * *
25667509 AGAGATCCCATTTCAGACCATGTCTGGGACATGGCATTGGC-CTCATTGAGACTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAC-C---GAG--T-TG
* *
25667565 AGAGGTCCCATGTAAGACCATGTCTGAGACATGGCGTTGGCACCGAGTTG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGTTG
* * *
25667615 AGAGGTCCCCTGTAAGACCATATCTGGGACATGGCA-TGAGCACC-AATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTG-GCACCGAGT-TG
** * * *
25667665 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTAC-AG--G
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA--CCGAGTTG
* ** *
25667714 AAAAATCCCATGTAAGACCATGTCTGGGATATGGC
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
25667749 TTTGCCATTT
Statistics
Matches: 159, Mismatches: 19, Indels: 19
0.81 0.10 0.10
Matches are distributed among these distances:
49 37 0.23
50 76 0.48
51 3 0.02
52 2 0.01
53 3 0.02
56 37 0.23
57 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGTTG
Found at i:25674934 original size:40 final size:40
Alignment explanation
Indices: 25674879--25675089 Score: 239
Period size: 40 Copynumber: 5.3 Consensus size: 40
25674869 ATTTGAATGA
*
25674879 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
*
25674919 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
* * *
25674959 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * *
25674999 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * * * * *
25675039 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
25675079 TATCC-GGCTAA
1 TATCCGGGCTAA
25675090 ATTCCAAAGA
Statistics
Matches: 156, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 7 0.04
40 146 0.94
41 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
Found at i:25679937 original size:40 final size:40
Alignment explanation
Indices: 25679900--25680085 Score: 202
Period size: 40 Copynumber: 4.7 Consensus size: 40
25679890 GCTACTCGTT
*
25679900 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
25679940 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* **
25679980 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCATA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * **
25680020 CAAATGCCTTC-GGATCTTAGTCCGGA-TAAGGTCACCTAACA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTA-GT-AACTCGCA
25680061 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
25680086 CATCATTCAA
Statistics
Matches: 130, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
39 5 0.04
40 111 0.85
41 14 0.11
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:25686416 original size:40 final size:40
Alignment explanation
Indices: 25686339--25686547 Score: 221
Period size: 40 Copynumber: 5.3 Consensus size: 40
25686329 ATTTGAATGA
*
25686339 TATCCGGGCTAAGTCCCGAAGG-ATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
*
25686378 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
* * *
25686418 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * *
25686458 TAT-CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * * * * *
25686497 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
25686537 TATCC-GGCTAA
1 TATCCGGGCTAA
25686548 ATTCCGAAGA
Statistics
Matches: 153, Mismatches: 12, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
39 66 0.43
40 84 0.55
41 3 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
Found at i:25686475 original size:79 final size:80
Alignment explanation
Indices: 25686338--25686547 Score: 232
Period size: 79 Copynumber: 2.7 Consensus size: 80
25686328 CATTTGAATG
* * * * *
25686338 ATATCCGGGCTAAGTCCCGAAGG-ATTTATGCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCA
* *
25686402 TTTATGCTAG-TGATT
66 TTTATGCGAGTTG-CT
*
25686417 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATAT-CGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATTATATCCGGGCTAAGACCCGAAGGC
*
25686480 ATTTGTGCGAGTTGCT
65 ATTTATGCGAGTTGCT
* * * ** *
25686496 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAA
25686548 ATTCCGAAGA
Statistics
Matches: 110, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.02
79 89 0.81
80 16 0.15
81 3 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.29
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCA
TTTATGCGAGTTGCT
Found at i:25690220 original size:20 final size:21
Alignment explanation
Indices: 25690195--25690248 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
25690185 AACTACTCGT
25690195 AGGTATTGATACTGACTTT-A
1 AGGTATTGATACTGACTTTAA
* * **
25690215 AGGTATCGATATTTTCTTTAA
1 AGGTATTGATACTGACTTTAA
25690236 ATGGTATTGATAC
1 A-GGTATTGATAC
25690249 CACTTGGAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 15 0.58
21 2 0.08
22 9 0.35
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.43
Consensus pattern (21 bp):
AGGTATTGATACTGACTTTAA
Found at i:25696470 original size:22 final size:21
Alignment explanation
Indices: 25696445--25696485 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
25696435 CTCAATTCAC
*
25696445 CCAAAATTATTCTCAAAATTAG
1 CCAAAAATATTCT-AAAATTAG
25696467 CCAAAAATATTCTAAAATT
1 CCAAAAATATTCTAAAATT
25696486 TCTCAAGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.49, C:0.17, G:0.02, T:0.32
Consensus pattern (21 bp):
CCAAAAATATTCTAAAATTAG
Found at i:25701982 original size:38 final size:38
Alignment explanation
Indices: 25701931--25702006 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
25701921 GTACTTCTAC
25701931 AGAGTTCATTTCTTACGGTTTTTCTCTTCAAACCAACA
1 AGAGTTCATTTCTTACGGTTTTTCTCTTCAAACCAACA
*
25701969 AGAGTTCATTTCTTATGGTTTTTCTCTTCAAACCAACA
1 AGAGTTCATTTCTTACGGTTTTTCTCTTCAAACCAACA
25702007 CTTAACTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.26, C:0.22, G:0.11, T:0.41
Consensus pattern (38 bp):
AGAGTTCATTTCTTACGGTTTTTCTCTTCAAACCAACA
Found at i:25704169 original size:37 final size:37
Alignment explanation
Indices: 25704068--25704161 Score: 161
Period size: 37 Copynumber: 2.5 Consensus size: 37
25704058 AGCTCAGACG
* *
25704068 AAATCTCCACACGAAGTTATTGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATTGGGTCTTACCCGGACA
25704105 AAATCTCCACACGTAGTCATTGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATTGGGTCTTACCCGGACA
*
25704142 TAATCTCCACACGTAGTCAT
1 AAATCTCCACACGTAGTCAT
25704162 CAGGTCTTTA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 54 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATTGGGTCTTACCCGGACA
Found at i:25704366 original size:47 final size:47
Alignment explanation
Indices: 25704288--25704924 Score: 1058
Period size: 47 Copynumber: 13.5 Consensus size: 47
25704278 CCCTTCGGGA
* * * * * *
25704288 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
25704335 CCTGTCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25704382 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
25704429 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
25704476 CTTATCAAATATATACACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25704523 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
25704570 CTTATCACATATATATACACTTTCACATTCATTACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25704619 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
25704666 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
25704713 CTTATCACATATATACATTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
25704760 CTTATCAAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
25704807 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
25704856 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25704903 CTTATCACATATATACACTTTC
1 CTTATCACATATATACACTTTC
25704925 CAATGAATAA
Statistics
Matches: 554, Mismatches: 32, Indels: 8
0.93 0.05 0.01
Matches are distributed among these distances:
47 463 0.84
49 91 0.16
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:25704701 original size:237 final size:237
Alignment explanation
Indices: 25704288--25704924 Score: 1116
Period size: 237 Copynumber: 2.7 Consensus size: 237
25704278 CCCTTCGGGA
* * * * * * * *
25704288 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAT--
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
25704351 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
25704416 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
*
25704481 CAAATATATACACTTTCACATTCATCACATCGGCCATTAGGT
196 CAAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25704523 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
25704588 ACTTTCACATTCATTACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
25704653 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
* * *
25704718 CACATATATACATTTTCACATTCATCACATCGGCTATTAGGC
196 CAAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
25704760 CTTATCAAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
25704825 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACATTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
25704890 TCGGCCATTAGGCCTTATCACATATATACACTTTC
131 TCGGCCATTAGGCCTTATCACATATATACACTTTC
25704925 CAATGAATAA
Statistics
Matches: 383, Mismatches: 17, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
235 55 0.14
237 328 0.86
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (237 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
CAAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:25709391 original size:43 final size:42
Alignment explanation
Indices: 25709343--25709559 Score: 328
Period size: 43 Copynumber: 5.0 Consensus size: 42
25709333 TATCGTACCA
* * *
25709343 ATGCCATTAGCCAGAC-ATGGTCTTACATAGAAATCTCATATCG
1 ATGCCAATAGCCAG-CTATGGTCTTACA-CGAAATCTCAAATCG
25709386 ATGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCAAATCG
1 ATGCCAATAG-CCAGCTATGGTCTTACACGAAATCTCAAATCG
*
25709429 ATGCCAATAGCCTAGCTATGGTCTTACACGAAATCTCAAATTG
1 ATGCCAATAGCC-AGCTATGGTCTTACACGAAATCTCAAATCG
25709472 ATGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCAAATCG
1 ATGCCAATAG-CCAGCTATGGTCTTACACGAAATCTCAAATCG
*
25709515 ATGCCAATAGCCTAACTATGGTCTTACACGAAATCTCAAATCG
1 ATGCCAATAGCC-AGCTATGGTCTTACACGAAATCTCAAATCG
25709558 AT
1 AT
25709560 ATTGGAACAT
Statistics
Matches: 163, Mismatches: 6, Indels: 10
0.91 0.03 0.06
Matches are distributed among these distances:
42 4 0.02
43 142 0.87
44 17 0.10
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (42 bp):
ATGCCAATAGCCAGCTATGGTCTTACACGAAATCTCAAATCG
Found at i:25714325 original size:50 final size:50
Alignment explanation
Indices: 25714252--25714357 Score: 117
Period size: 50 Copynumber: 2.1 Consensus size: 50
25714242 TATTGAGGTT
* * * * *
25714252 ATGAGAGGTCCCACGTAAGACCATG-CATGGGACATGGCGTTGGTACCGAG
1 ATGAGAGGTCCCACGTAAAACCATGTC-TAGGACATGGCATGGGCACCGAG
* *
25714302 ATGAGAGGTTCCC-TGTAAAACCATGTCTAGGACATGGCATGGGCACCGAT
1 ATGAGAGG-TCCCACGTAAAACCATGTCTAGGACATGGCATGGGCACCGAG
25714352 ATGAGA
1 ATGAGA
25714358 ACTCTCATGT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
50 42 0.89
51 5 0.11
ACGTcount: A:0.28, C:0.21, G:0.31, T:0.20
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAAACCATGTCTAGGACATGGCATGGGCACCGAG
Found at i:25714672 original size:20 final size:20
Alignment explanation
Indices: 25714647--25714685 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
25714637 TGAGTTATTT
25714647 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
25714667 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
25714686 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:25714916 original size:198 final size:197
Alignment explanation
Indices: 25714579--25714954 Score: 655
Period size: 198 Copynumber: 1.9 Consensus size: 197
25714569 AAGGGTTAAG
*
25714579 AATATCTCAGTTATCAGTTAAAAAAAAGTTTCAGCAAAGGAGGAGTAAGTTATAATCATGAGTTA
1 AATATCTCAGTTATCAGTTAAAAAAAAGTTTCAGCAAAGGAGGAGAAAGTTATAATCATGAGTTA
* *
25714644 TTTAAGTAAGCAAGTAAGTAAACAAGTAAGAGAGTAAGTAAAGAAGAAAGTAAAGATCATGATAC
66 TTTAAGTAAGCAAGTAAGTAAACAAGTAAGAGAATAAGTAAAGAAGAAAGTAAAGATCATGAGAC
25714709 TTGATGATAATTTATGAGCATAATTATTTATGATAAATGTTGCTATTTATTTGCTTGTAAACTTA
131 TTGATGATAATTTATGAGCATAATTATTTATGATAAATGTTGCTATTTATTTGCTTGTAAACTTA
25714774 CT
196 CT
*
25714776 AATATCTCAGTTATCAGTTGAGAAAAAAA-TTTCAGCAAGGGAGGAGAAAGTTATAATCATGAGT
1 AATATCTCAGTTATCAGTT-A-AAAAAAAGTTTCAGCAAAGGAGGAGAAAGTTATAATCATGAGT
25714840 TATTTAAGTAAGCAAGTAAGTAAACAAGTAAGAGAATAAGTAAAGAAGAAAGTAAAGATCATGAG
64 TATTTAAGTAAGCAAGTAAGTAAACAAGTAAGAGAATAAGTAAAGAAGAAAGTAAAGATCATGAG
* * * *
25714905 ACTTGATGATAATTTTTTAGTATAATTATTTATGATAAATGTTGTTATTT
129 ACTTGATGATAATTTATGAGCATAATTATTTATGATAAATGTTGCTATTT
25714955 GTAAACTTAG
Statistics
Matches: 169, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
197 19 0.11
198 143 0.85
199 7 0.04
ACGTcount: A:0.43, C:0.07, G:0.18, T:0.32
Consensus pattern (197 bp):
AATATCTCAGTTATCAGTTAAAAAAAAGTTTCAGCAAAGGAGGAGAAAGTTATAATCATGAGTTA
TTTAAGTAAGCAAGTAAGTAAACAAGTAAGAGAATAAGTAAAGAAGAAAGTAAAGATCATGAGAC
TTGATGATAATTTATGAGCATAATTATTTATGATAAATGTTGCTATTTATTTGCTTGTAAACTTA
CT
Found at i:25729853 original size:27 final size:28
Alignment explanation
Indices: 25729769--25729866 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
25729759 CATGAGATTG
* * * *
25729769 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
25729798 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
25729826 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
25729853 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
25729867 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:25729877 original size:27 final size:27
Alignment explanation
Indices: 25729797--25729879 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
25729787 TAAATTGTAC
* *
25729797 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
25729825 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
25729852 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
25729879 A
1 A
25729880 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:25729880 original size:29 final size:27
Alignment explanation
Indices: 25729769--25729880 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
25729759 CATGAGATTG
** * *
25729769 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
25729798 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
25729826 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
25729853 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
25729881 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:25731932 original size:25 final size:25
Alignment explanation
Indices: 25731899--25732057 Score: 169
Period size: 25 Copynumber: 6.4 Consensus size: 25
25731889 GTATGCTTAT
* *
25731899 ACGAACTGTGAATCAGTATGCTCTC
1 ACGAGCTGTAAATCAGTATGCTCTC
*
25731924 TCGAGCTGTAAATC-GATATGCTCTC
1 ACGAGCTGTAAATCAG-TATGCTCTC
* * * *
25731949 ATGAGCTGTAAAACGGTATACTCTC
1 ACGAGCTGTAAATCAGTATGCTCTC
* *
25731974 ACGAGCTATAAATCATTATGCTCTC
1 ACGAGCTGTAAATCAGTATGCTCTC
*
25731999 ACGAGCTATAAATCAGTATGCTCTC
1 ACGAGCTGTAAATCAGTATGCTCTC
* *
25732024 ACGAGCTGTAAA-CTGGTAAGCTCTC
1 ACGAGCTGTAAATC-AGTATGCTCTC
*
25732049 ATGAGCTGT
1 ACGAGCTGT
25732058 GGTGTGTTTA
Statistics
Matches: 113, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
24 2 0.02
25 110 0.97
26 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (25 bp):
ACGAGCTGTAAATCAGTATGCTCTC
Found at i:25746465 original size:50 final size:49
Alignment explanation
Indices: 25746404--25746542 Score: 147
Period size: 49 Copynumber: 2.8 Consensus size: 49
25746394 GTGGAACCAA
* *
25746404 TGGCAGTAATCTGCATATCAGTGGTGGCTTGTCCATAAAA-TCATATCAG
1 TGGCAGTAATCTGCATAT-AGTGGTGGCTTATCCACAAAAGTCATATCAG
**
25746453 TGGCAGTAAATCTG-ATAATAGTGGTGGCTTATCCACAAAAGTGTTATCAG
1 TGGCAGT-AATCTGCAT-ATAGTGGTGGCTTATCCACAAAAGTCATATCAG
* * * *
25746503 TGGCAGTTTATTTGCAAATAAGTGGTGGCTTTTCCACAAA
1 TGGCAG-TAATCTGCATAT-AGTGGTGGCTTATCCACAAA
25746543 TGGTGTTTTG
Statistics
Matches: 76, Mismatches: 8, Indels: 10
0.81 0.09 0.11
Matches are distributed among these distances:
49 28 0.37
50 27 0.36
51 21 0.28
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (49 bp):
TGGCAGTAATCTGCATATAGTGGTGGCTTATCCACAAAAGTCATATCAG
Found at i:25746539 original size:51 final size:49
Alignment explanation
Indices: 25746404--25746542 Score: 140
Period size: 50 Copynumber: 2.8 Consensus size: 49
25746394 GTGGAACCAA
* *
25746404 TGGCAGT-AATCTGCAT-ATCAGTGGTGGCTTGTCCATAAAATCATATCAG
1 TGGCAGTAAATCTG-ATAAT-AGTGGTGGCTTATCCACAAAATCATATCAG
**
25746453 TGGCAGTAAATCTGATAATAGTGGTGGCTTATCCACAAAAGTGTTATCAG
1 TGGCAGTAAATCTGATAATAGTGGTGGCTTATCCACAAAA-TCATATCAG
** * *
25746503 TGGCAGTTTATTTGCA-AATAAGTGGTGGCTTTTCCACAAA
1 TGGCAGTAAATCTG-ATAAT-AGTGGTGGCTTATCCACAAA
25746543 TGGTGTTTTG
Statistics
Matches: 77, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
49 28 0.36
50 29 0.38
51 20 0.26
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (49 bp):
TGGCAGTAAATCTGATAATAGTGGTGGCTTATCCACAAAATCATATCAG
Found at i:25756027 original size:50 final size:50
Alignment explanation
Indices: 25755973--25756241 Score: 286
Period size: 50 Copynumber: 5.3 Consensus size: 50
25755963 TATCCTAAAT
** * * * * * *
25755973 ATGGTCTTACATGAGAGTTCTCATATAGGTGCCCATGCCATGTTCAAGAC
1 ATGGTCTTACATGAGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
** * * *
25756023 ATGGTCTTACGGGGGACCTCTCATCTTGGTGCCAATGCCATGTCCCAGAC
1 ATGGTCTTACATGAGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
*
25756073 ATGGTCTTACATGAGACCTCTCATCTCGGTGTCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGAGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
* * *
25756123 ATGGTCTTATATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAT
1 ATGGTCTTACATGAGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
* * * * *
25756173 ATGGTCTTACATGGGACCTCTCATAATCTCAATGATGTCAATGCCATGTCCTAGAC
1 ATGGTCTTACATGAGACCTCTC---ATCTC---GGTGCCAACGCCATGTCCCAGAC
25756229 ATGGTCTTACATG
1 ATGGTCTTACATG
25756242 GGATCTCTTT
Statistics
Matches: 187, Mismatches: 26, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
50 151 0.81
53 5 0.03
56 31 0.17
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.29
Consensus pattern (50 bp):
ATGGTCTTACATGAGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
Found at i:25756062 original size:100 final size:100
Alignment explanation
Indices: 25755952--25756197 Score: 321
Period size: 100 Copynumber: 2.5 Consensus size: 100
25755942 TTTCTCGTAC
* * * ** * * *
25755952 TGCCAATGCCATATCCTAAATATGGTCTTACATGAGAGTTCTCATATAGGTGCCCATGCCATGTT
1 TGCCAATGCCATGTCCCAGATATGGTCTTACATGAGACCTCTCATATAGGTGCCAACGCCATGTC
* *
25756017 CAAGACATGGTCTTACGGGGGACCTCTCATCTTGG
66 CAAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * * *
25756052 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGGTGTCAACGCCATGTC
1 TGCCAATGCCATGTCCCAGATATGGTCTTACATGAGACCTCTCATATAGGTGCCAACGCCATGTC
* * *
25756117 CCAGACATGGTCTTATATGGGACCTCTCATCTCGG
66 CAAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
25756152 TGCCAACGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCATA
1 TGCCAATGCCATGTCCCAGATATGGTCTTACATGAGACCTCTCATA
25756198 ATCTCAATGA
Statistics
Matches: 125, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
100 125 1.00
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (100 bp):
TGCCAATGCCATGTCCCAGATATGGTCTTACATGAGACCTCTCATATAGGTGCCAACGCCATGTC
CAAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:25758938 original size:28 final size:28
Alignment explanation
Indices: 25758873--25758971 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
25758863 CATGAGATTG
* * *
25758873 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
25758902 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
25758930 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
25758958 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
25758972 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.71
29 17 0.27
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:25766027 original size:28 final size:28
Alignment explanation
Indices: 25765962--25766060 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
25765952 CATGAGATTG
* * *
25765962 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
25765991 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
25766019 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
25766047 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
25766061 GCCTTATCGA
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.71
29 17 0.27
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:25772511 original size:52 final size:53
Alignment explanation
Indices: 25772455--25772591 Score: 136
Period size: 52 Copynumber: 2.6 Consensus size: 53
25772445 TGCAACATGC
* * * **
25772455 CATGTCCCAAACAATGGTCTTACG-GGTAC-CTCTCAGCTTTGGTGCCAACGTT
1 CATGTCCCAAACAATGGTCTTACGTGGGACTCACTCAGC-TCGGTGCCAACGCA
* *
25772507 CATGTCCCAGAC-ATGGTCTTACGTGGGACTCACTCATCTCGGTGCCAACGCA
1 CATGTCCCAAACAATGGTCTTACGTGGGACTCACTCAGCTCGGTGCCAACGCA
* * * *
25772559 CATGTCCGAAACATTTGGTCTTACATAGGACTC
1 CATGTCCCAAACA-ATGGTCTTACGTGGGACTC
25772592 TCATAACTCA
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
51 11 0.16
52 36 0.52
53 6 0.09
54 16 0.23
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (53 bp):
CATGTCCCAAACAATGGTCTTACGTGGGACTCACTCAGCTCGGTGCCAACGCA
Found at i:25776322 original size:47 final size:49
Alignment explanation
Indices: 25776215--25776764 Score: 580
Period size: 47 Copynumber: 11.4 Consensus size: 49
25776205 ATTCCATTTT
* * * * *
25776215 TATACACTTTTCACATCCATCACGT-GGCCACTCGGCCTTTGTCAC--ATA
1 TATACAC-TTTCACATTCATCACATCGGCCATTAGGCC-TTATCACATATA
25776263 TATACACTTTCACATTCATCACATCGGCCATTAGGGCCTTA-CACA-ATA
1 TATACACTTTCACATTCATCACATCGGCCATTA-GGCCTTATCACATATA
*
25776311 CATACAC-TTCACA-TCATCACATCGGCCATTAGG-CTTATCACATTATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-TATA
* **
25776358 TATACACTTCCACATTTCATCACATCGGTGATTA-GCCTTATCAC--ATA
1 TATACACTTTCACA-TTCATCACATCGGCCATTAGGCCTTATCACATATA
* *
25776405 TATACACTTTCACATTCATTCACAT-AGCCA-TAGGCC-TAGTCACATAGA
1 TATACACTTTCACATTCA-TCACATCGGCCATTAGGCCTTA-TCACATATA
*
25776453 T-GACACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACAT-TA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
* * *
25776499 TACA-ATTTTAACATTCATCACATCGGCCATTTAGGCCCTTATC-C--AT-
1 TATACACTTTCACATTCATCACATCGGCCA-TTAGG-CCTTATCACATATA
*
25776545 TATACACTTTCACATTCATCACA-CGTCCATTAGGCCTCTATTCACAT-TA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCT-TA-TCACATATA
25776594 -ATACACGTTTCACATTTCATCACATCGGCCATTAGGCCTTATCACATATAA
1 TATACAC-TTTCACA-TTCATCACATCGGCCATTAGGCCTTATCACATAT-A
**
25776645 TATTACACTTTCACATTCATTCACAATCGGGTATTAGGCCTTATCACATATA
1 TA-TACACTTTCACATTCA-TCAC-ATCGGCCATTAGGCCTTATCACATATA
25776697 T-TACAC-TTCACATTCATCACATCGGCCATTTAGGCCTTATCACATATA
1 TATACACTTTCACATTCATCACATCGGCCA-TTAGGCCTTATCACATATA
25776745 TATACACTTTCACATT-ATCA
1 TATACACTTTCACATTCATCA
25776765 ATATATCACA
Statistics
Matches: 431, Mismatches: 30, Indels: 81
0.80 0.06 0.15
Matches are distributed among these distances:
44 7 0.02
45 17 0.04
46 72 0.17
47 110 0.26
48 74 0.17
49 41 0.10
50 49 0.11
51 18 0.04
52 14 0.03
53 29 0.07
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.33
Consensus pattern (49 bp):
TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
Found at i:25776483 original size:143 final size:139
Alignment explanation
Indices: 25776256--25776764 Score: 567
Period size: 142 Copynumber: 3.5 Consensus size: 139
25776246 TCGGCCTTTG
25776256 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGGCCT-TACACAATACATACAC-T
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTA-GGCCTAT-CAC-ATA-ATACACTT
*
25776319 TCACA-TCATCACATCGGCCATTAGGCTTATCACATTATATATACACTTCCACATTTCATCACAT
62 TCACATTCATCACATCGGCCATTAGGCTTATCACA-TATATATACACTTTCACA-TTCATCACAT
25776383 CGGTGATTA-GCCTTA
125 CGG-GATTAGGCCTTA
*
25776398 TCACATATATACACTTTCACATTCATTCACAT-AGCCA-TAGGCCTAGTCACATAGATGACACTT
1 TCACATATATACACTTTCACATTCA-TCACATCGGCCATTAGGCCTA-TCACATA-AT-ACACTT
* * * *
25776461 TCACATTCATCACATCGGCCATTAGGCCTATCACAT-TATACA-ATTTTAACATTCATCACATCG
62 TCACATTCATCACATCGGCCATTAGGCTTATCACATATATATACACTTTCACATTCATCACATCG
*
25776524 GCCATTTAGGCCCTTA
127 G-GA-TTAGG-CCTTA
*
25776540 TC-CAT-TATACACTTTCACATTCATCACA-CGTCCATTAGGCCTCTATTCACATTAATACACGT
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-C-CTA-TCACA-TAATACAC-T
25776602 TTCACATTTCATCACATCGGCCATTAGGCCTTATCACATATAATATTACACTTTCACATTCATTC
61 TTCACA-TTCATCACATCGGCCATTAGG-CTTATCACATAT-ATA-TACACTTTCACATTCA-TC
25776667 ACAATCGGGTATTAGGCCTTA
121 AC-ATCGGG-ATTAGGCCTTA
25776688 TCACATATATTACAC-TTCACATTCATCACATCGGCCATTTAGGCCTTATCACATATATATACAC
1 TCACATATA-TACACTTTCACATTCATCACATCGGCCA-TTAGGCC-TATCAC--ATA-ATACAC
25776752 TTTCACATT-ATCA
60 TTTCACATTCATCA
25776765 ATATATCACA
Statistics
Matches: 316, Mismatches: 18, Indels: 59
0.80 0.05 0.15
Matches are distributed among these distances:
139 22 0.07
140 41 0.13
141 23 0.07
142 61 0.19
143 57 0.18
144 9 0.03
145 1 0.00
146 3 0.01
147 1 0.00
148 18 0.06
149 16 0.05
150 30 0.09
151 22 0.07
152 12 0.04
ACGTcount: A:0.31, C:0.28, G:0.09, T:0.33
Consensus pattern (139 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATAATACACTTTCAC
ATTCATCACATCGGCCATTAGGCTTATCACATATATATACACTTTCACATTCATCACATCGGGAT
TAGGCCTTA
Found at i:25776607 original size:189 final size:189
Alignment explanation
Indices: 25776248--25776764 Score: 575
Period size: 189 Copynumber: 2.7 Consensus size: 189
25776238 GTGGCCACTC
* *
25776248 GGCCTTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGGCCT-TACACAATAC
1 GGCCTTAGTCACATATATACACTTTCACATTCATCACATCGGCCATTA-GGCCTAT-CAC-AT-T
*
25776312 ATAC-ACTTCACA-TCATCACATCGGCCA-TTAGG-CTTATCACATTATATATACACTTCCACAT
62 ATACAACTTCACATTCATCACATCGGCCATTTAGGCCTTATCAC--TATATATACACTTTCACA-
*
25776373 TTCATCACATCGGTGATTAGCCTTATCACATATATACACTTTCACA-TTCATTCACAT-AGCCA-
124 TTCATCACATCGGTCATTAGCCTTATCACATATATACACTTTCACATTTCA-TCACATCAGCCAT
25776435 TA
188 TA
*
25776437 GGCC-TAGTCACATAGATGACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATTATA
1 GGCCTTAGTCACATATAT-ACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATTATA
* *
25776501 CAATTTTAACATTCATCACATCGGCCATTTAGGCCCTTATC-C-AT-TATACACTTTCACATTCA
65 CAA-CTTCACATTCATCACATCGGCCATTTAGG-CCTTATCACTATATATACACTTTCACATTCA
*
25776563 TCACA-C-GTCCATTAGGCCTCTATTCACAT-TAATACACGTTTCACATTTCATCACATCGGCCA
128 TCACATCGGT-CATTA-GCCT-TA-TCACATAT-ATACAC-TTTCACATTTCATCACATCAGCCA
25776625 TTA
187 TTA
**
25776628 GGCCTTA-TCACATATAATATTACACTTTCACATTCATTCACAATCGGGTATTAGGCCTTATCAC
1 GGCCTTAGTCAC--AT-ATA-TACACTTTCACATTCA-TCAC-ATCGGCCATTAGGCC-TATCAC
25776692 ATATATTAC-ACTTCACATTCATCACATCGGCCATTTAGGCCTTATCACATATATATACACTTTC
59 AT-TA-TACAACTTCACATTCATCACATCGGCCATTTAGGCCTTATCAC-TATATATACACTTTC
25776756 ACATT-ATCA
121 ACATTCATCA
25776765 ATATATCACA
Statistics
Matches: 284, Mismatches: 13, Indels: 52
0.81 0.04 0.15
Matches are distributed among these distances:
184 2 0.01
185 5 0.02
186 17 0.06
187 19 0.07
188 38 0.13
189 63 0.22
190 13 0.05
191 11 0.04
192 8 0.03
193 2 0.01
194 17 0.06
195 5 0.02
196 20 0.07
197 36 0.13
198 3 0.01
199 9 0.03
200 16 0.06
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (189 bp):
GGCCTTAGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATTATAC
AACTTCACATTCATCACATCGGCCATTTAGGCCTTATCACTATATATACACTTTCACATTCATCA
CATCGGTCATTAGCCTTATCACATATATACACTTTCACATTTCATCACATCAGCCATTA
Found at i:25776791 original size:101 final size:96
Alignment explanation
Indices: 25776312--25776791 Score: 227
Period size: 93 Copynumber: 4.9 Consensus size: 96
25776302 TACACAATAC
*
25776312 ATACAC-TTCACA-TCATCACATCGGCCA-TTAGG-CTTATCACATTATATATACACTTCCACAT
1 ATACACGTTCACATTCATCACATCGGCCATTTAGGCCTTATCACA-TATATATACACTTTCACAT
**
25776373 T-TC-A-TCACAT-CGGTGATTAGCCTTATCACA-TA
65 TATCAATTCACATACCCT-A-TA--C-TATCACATTA
* * * *
25776405 TATACACTTTCACATTCATTCACAT-AGCCA--TAGGCC-TAGTCACATAGAT-GACACTTTCAC
1 -ATACACGTTCACATTCA-TCACATCGGCCATTTAGGCCTTA-TCACATATATATACACTTTCAC
25776465 A-T-TC-A-TCACAT-CGGCC-ATTAGGCCTATCACATT-
63 ATTATCAATTCACATAC--CCTA-TA---CTATCACATTA
** *
25776498 ATACAATTTTAACATTCATCACATCGGCCATTTAGGCCCTTATC-C--AT-TATACACTTTCACA
1 ATAC-ACGTTCACATTCATCACATCGGCCATTTAGG-CCTTATCACATATATATACACTTTCACA
* * *
25776559 TTCATCACACGTC-CATTAGGCCTCTA-T-TCACATTA
64 TT-ATCA-A-TTCACA-TA-CCCTATACTATCACATTA
25776594 ATACACGTTTCACATTTCATCACATCGGCCA-TTAGGCCTTATCACATATAATATTACACTTTCA
1 ATACACG-TTCACA-TTCATCACATCGGCCATTTAGGCCTTATCACATAT-ATA-TACACTTTCA
**
25776658 CA-T-TC-ATTCACA-ATCGGGTATTAGGCCTTATCACATATA
62 CATTATCAATTCACATA-C-CCTA-TA---C-TATCACAT-TA
*
25776697 TTACAC-TTCACATTCATCACATCGGCCATTTAGGCCTTATCACATATATATACACTTTCACATT
1 ATACACGTTCACATTCATCACATCGGCCATTTAGGCCTTATCACATATATATACACTTTCACATT
25776761 ATCAATATATCACATACCACATATACTATCA
66 ATC-A-AT-TCACATACC-C-TATACTATCA
25776792 TGTACAGACT
Statistics
Matches: 305, Mismatches: 25, Indels: 105
0.70 0.06 0.24
Matches are distributed among these distances:
92 11 0.04
93 49 0.16
94 22 0.07
95 39 0.13
96 40 0.13
97 24 0.08
98 5 0.02
99 14 0.05
100 30 0.10
101 44 0.14
102 7 0.02
103 7 0.02
104 2 0.01
105 8 0.03
106 3 0.01
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (96 bp):
ATACACGTTCACATTCATCACATCGGCCATTTAGGCCTTATCACATATATATACACTTTCACATT
ATCAATTCACATACCCTATACTATCACATTA
Found at i:25780485 original size:40 final size:40
Alignment explanation
Indices: 25780441--25780619 Score: 214
Period size: 40 Copynumber: 4.5 Consensus size: 40
25780431 CCAGCATGAT
* * * * *
25780441 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * * *
25780481 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGTACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
25780521 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
25780561 TGCTCTTTGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
25780601 TGCTCTTCGGGATTTAGCC
1 TGCTCTTCGGGACTTAGCC
25780620 TAGACATTTC
Statistics
Matches: 119, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 119 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:25782154 original size:47 final size:47
Alignment explanation
Indices: 25782076--25782713 Score: 1011
Period size: 47 Copynumber: 13.6 Consensus size: 47
25782066 GCCCTTCGGA
* * * * * *
25782076 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
25782123 C-CAGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25782170 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
25782217 CTTATCACATATATATACAC-TTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25782265 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
25782312 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
25782359 CTTATCACATATATACAATTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
25782406 CTTATCACATATATACAGTTTCACATTCATCATATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
25782453 CTTATCACATATATACACTTTCACATTCATCACATC-ACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
25782499 CTTATCACATATATATACACTTTCACATTCATCACATC-GCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25782547 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
25782594 CTTATCACATATATACACTTT--CATTCAT-TCATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25782638 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25782685 CTTATCACATAAATATACACTTTCACATT
1 CTTATCACAT--ATATACACTTTCACATT
25782714 TATTCAAATA
Statistics
Matches: 551, Mismatches: 27, Indels: 24
0.92 0.04 0.04
Matches are distributed among these distances:
44 34 0.06
45 7 0.01
46 63 0.11
47 340 0.62
48 80 0.15
49 27 0.05
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:25784221 original size:13 final size:13
Alignment explanation
Indices: 25784203--25784227 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25784193 TACTAAATTT
25784203 TCATGGATTCAAA
1 TCATGGATTCAAA
25784216 TCATGGATTCAA
1 TCATGGATTCAA
25784228 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:25785933 original size:16 final size:16
Alignment explanation
Indices: 25785886--25785925 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
25785876 ATTTCAATCC
25785886 AAAAATTATATTTTTG
1 AAAAATTATATTTTTG
25785902 AAAAATTATATTTTTG
1 AAAAATTATATTTTTG
25785918 AAAAATTA
1 AAAAATTA
25785926 CAATTTTGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (16 bp):
AAAAATTATATTTTTG
Found at i:25794507 original size:36 final size:33
Alignment explanation
Indices: 25794442--25794508 Score: 80
Period size: 33 Copynumber: 1.9 Consensus size: 33
25794432 GTGAATGAAG
*
25794442 TGAGTGAACAAGAGAGAGAGCTTAAACAAGGAA
1 TGAGTGAACAAGAGAGAGAGCTAAAACAAGGAA
* *
25794475 TGAGTGAAGAAGAAGAGAGTGCTCAAACACAAGG
1 TGAGTGAACAAG-AGAGAGAGCT-AAA-ACAAGG
25794509 GAGGAATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 11 0.39
34 9 0.32
35 2 0.07
36 6 0.21
ACGTcount: A:0.46, C:0.10, G:0.31, T:0.12
Consensus pattern (33 bp):
TGAGTGAACAAGAGAGAGAGCTAAAACAAGGAA
Found at i:25809668 original size:12 final size:12
Alignment explanation
Indices: 25809651--25809687 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
25809641 TGGTATTATT
25809651 ATCGAGAACTTC
1 ATCGAGAACTTC
25809663 ATCGAGAACTTC
1 ATCGAGAACTTC
25809675 ATC-AGAAACTTC
1 ATCGAG-AACTTC
25809687 A
1 A
25809688 AAATCATTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 2 0.08
12 22 0.92
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.24
Consensus pattern (12 bp):
ATCGAGAACTTC
Found at i:25819001 original size:39 final size:39
Alignment explanation
Indices: 25818901--25819120 Score: 229
Period size: 39 Copynumber: 5.6 Consensus size: 39
25818891 TTGAATGATG
* *
25818901 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
25818940 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
*
25818981 TCCAGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
25819020 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
25819059 TCCGGGTTAAGTCCTGAAGGCATTTGTGCGA-CTA-TAA-
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
*
25819096 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAG-CCCGAAGGCATTTG
25819121 AACGAATAGC
Statistics
Matches: 159, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
36 22 0.14
38 3 0.02
39 75 0.47
40 47 0.30
41 11 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:25819138 original size:76 final size:77
Alignment explanation
Indices: 25818940--25819143 Score: 202
Period size: 78 Copynumber: 2.6 Consensus size: 77
25818930 AAGTGACCAT
* * ** * * *
25818940 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAATTCCAGGCTAAG-CCCGAAGGCATT
1 ATCCGGGCTAAG-CCCGAAGGCATTTGAACGAGATACTAAATCC-GGTTAAGTCCTGAAGGCATT
25819004 TGTGCGAGATACTA
64 TGTGCGAGATACTA
** *
25819018 ATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCTGAAGGCATT
1 A-TCCGGGCTAAGCCCGAAGGCATTTGAACGAGATACTAAATCC-GGTTAAGTCCTGAAGGCATT
*
25819083 TGTGCGA-CTA-TA
64 TGTGCGAGATACTA
* *
25819095 A-CCGGGCTATGTCCCGAAGGCATTTGAACGA-ATAGCTATATCCGGTTAA
1 ATCCGGGCTAAG-CCCGAAGGCATTTGAACGAGATA-CTAAATCCGGTTAA
25819144 ATTCCGAAGG
Statistics
Matches: 109, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
75 17 0.16
76 24 0.22
77 3 0.03
78 37 0.34
79 28 0.26
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (77 bp):
ATCCGGGCTAAGCCCGAAGGCATTTGAACGAGATACTAAATCCGGTTAAGTCCTGAAGGCATTTG
TGCGAGATACTA
Found at i:25821764 original size:25 final size:25
Alignment explanation
Indices: 25821720--25821770 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
25821710 TACAATCTAT
25821720 CTATAGCAGTCTCAGTATATACTAC
1 CTATAGCAGTCTCAGTATATACTAC
*
25821745 CTATAGCAGTTTCAAG-ATATACTAC
1 CTATAGCAGTCTC-AGTATATACTAC
25821770 C
1 C
25821771 AAAAACAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 22 0.92
26 2 0.08
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (25 bp):
CTATAGCAGTCTCAGTATATACTAC
Found at i:25821779 original size:25 final size:25
Alignment explanation
Indices: 25821736--25821783 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
25821726 CAGTCTCAGT
* * *
25821736 ATATACTACCTATAGCAGTTTCAAG
1 ATATACTACCAAAAACAGTTTCAAG
25821761 ATATACTACCAAAAACAGTTTCA
1 ATATACTACCAAAAACAGTTTCA
25821784 GTTTAGACAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (25 bp):
ATATACTACCAAAAACAGTTTCAAG
Found at i:25834908 original size:37 final size:37
Alignment explanation
Indices: 25834849--25834994 Score: 238
Period size: 37 Copynumber: 3.9 Consensus size: 37
25834839 AGCTCAGACG
* * * *
25834849 AAATCTCCACATGAAGTTATCGGGTCTTACCTGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
25834886 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
25834923 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
25834960 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
25834995 ATATATTTCC
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 104 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:25835269 original size:47 final size:47
Alignment explanation
Indices: 25835205--25835687 Score: 680
Period size: 47 Copynumber: 10.1 Consensus size: 47
25835195 ACACGTTTCG
* * *
25835205 CATTAGCCATTCGGCCTTACCACATATATTG-ATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATA-TGCATGTTCACATTCATCA
* * * *
25835252 CATTGGTCATTCGGCCTTATCTCATATATGCATGTCCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
25835299 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
* *
25835346 TATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
25835393 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
* * *
25835440 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ACATATGCATGTTCACATTCATCA
*
25835493 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
* *
25835540 CATTGGCCATTCGGCCTTATCACACATACGCATATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
** *
25835587 CATTGGCCATTCGGCCTTATCACACATATATATACGGGATCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCAT----GTTCACATTCATCA
* *
25835638 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
25835685 CAT
1 CAT
25835688 AAAATCCTAA
Statistics
Matches: 394, Mismatches: 31, Indels: 22
0.88 0.07 0.05
Matches are distributed among these distances:
46 2 0.01
47 305 0.77
49 1 0.00
51 43 0.11
53 43 0.11
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
Found at i:25835542 original size:147 final size:144
Alignment explanation
Indices: 25835205--25835687 Score: 740
Period size: 147 Copynumber: 3.3 Consensus size: 144
25835195 ACACGTTTCG
* * * * *
25835205 CATTAGCCATTCGGCCTTACCACATATATTG-ATGTTCACATTCATCACATTGGTCATTCGGCCT
1 CATTGGCCATTCGGCCTTATCACACATA-CGCATGTTCACATTCATCACATTGGCCATTCGGCCT
* * * * *
25835269 TATCTCATATATGCATGTCCACATTCATCACATTGGCCATTCGGCCTTATCAC---ACATATGCA
65 TATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAATATATATACA
*
25835331 TGTTCACATTCATCA
130 GGTTCACATTCATCA
*
25835346 TATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
25835411 ATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACGCATATATATATA
66 ATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCA--CA-ATATATATA
25835476 CAGGTTCACATTCATCA
128 CAGGTTCACATTCATCA
25835493 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* * *
25835558 ATCACACATACGCATATTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATATACG
66 ATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA-ATATATATACA
*
25835623 GGATCACATTCATCA
130 GGTTCACATTCATCA
*
25835638 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACAT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACAT
25835688 AAAATCCTAA
Statistics
Matches: 316, Mismatches: 19, Indels: 10
0.92 0.06 0.03
Matches are distributed among these distances:
140 1 0.00
141 105 0.33
143 1 0.00
145 75 0.24
147 134 0.42
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.31
Consensus pattern (144 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAATATATATACAG
GTTCACATTCATCA
Found at i:25835563 original size:22 final size:22
Alignment explanation
Indices: 25835536--25835610 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
25835526 GTTCACATTC
25835536 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
25835558 ATCACACATACGCATATTC-ACATT
1 AT--CACATTGGC-CATTCGGCCTT
25835582 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
25835605 ATCACA
1 ATCACA
25835611 CATATATATA
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 12 0.32
23 10 0.26
24 10 0.26
25 6 0.16
ACGTcount: A:0.27, C:0.32, G:0.12, T:0.29
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:25835586 original size:25 final size:25
Alignment explanation
Indices: 25835511--25835588 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
25835501 ATTCGGCCTT
*
25835511 ATCACACATACGCATGTTCACATTC
1 ATCACACATACGCATATTCACATTC
** * * *
25835536 AT--CACATTGGC-CATTCGGCCTT-
1 ATCACACATACGCATATTC-ACATTC
25835558 ATCACACATACGCATATTCACATTC
1 ATCACACATACGCATATTCACATTC
25835583 ATCACA
1 ATCACA
25835589 TTGGCCATTC
Statistics
Matches: 37, Mismatches: 11, Indels: 10
0.64 0.19 0.17
Matches are distributed among these distances:
22 5 0.14
23 10 0.27
24 10 0.27
25 12 0.32
ACGTcount: A:0.31, C:0.32, G:0.09, T:0.28
Consensus pattern (25 bp):
ATCACACATACGCATATTCACATTC
Found at i:25838001 original size:85 final size:85
Alignment explanation
Indices: 25837872--25838050 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
25837862 TATTTTATTG
*
25837872 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
25837937 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
25837957 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
25838022 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
25838042 CCCATGCTC
1 CCCATGCTC
25838051 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:25841126 original size:22 final size:22
Alignment explanation
Indices: 25841098--25841219 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
25841088 TTCCACATCC
25841098 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
25841120 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
25841144 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
25841167 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
25841191 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
25841214 ATCACA
1 ATCACA
25841220 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:25841443 original size:49 final size:47
Alignment explanation
Indices: 25841070--25841670 Score: 825
Period size: 47 Copynumber: 12.6 Consensus size: 47
25841060 CCCTTCGGGA
* * * *
25841070 CTTATCACATTTATATACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
25841117 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
25841164 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
25841211 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
25841258 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
25841305 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
25841352 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
25841399 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
25841448 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
25841495 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCAGTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
25841544 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
25841593 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
25841642 CTTATCACATATATATACACTTTCACATT
1 CTTATCAC--ATATATACACTTTCACATT
25841671 TATTCAAATA
Statistics
Matches: 524, Mismatches: 24, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 315 0.60
49 207 0.40
50 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:25843193 original size:56 final size:56
Alignment explanation
Indices: 25843126--25843245 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
25843116 TATTAGTTTA
25843126 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
25843182 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
25843238 TTGCCCAT
1 TTGCCCAT
25843246 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:25843897 original size:57 final size:58
Alignment explanation
Indices: 25843825--25843933 Score: 166
Period size: 57 Copynumber: 1.9 Consensus size: 58
25843815 GCCCACTGAT
* *
25843825 CGATCTCGCACACATAGTGCTTGGTT-GAAGAACTCGCACACACAGTGCCTCAATTAC
1 CGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTCAATTAC
* * *
25843882 CGATTTCGCACACATAGTGCTCGGTTAAAAGAATTTGCACACACAGTGCCTC
1 CGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTC
25843934 TAATCATTCG
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
57 24 0.52
58 22 0.48
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.24
Consensus pattern (58 bp):
CGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTCAATTAC
Found at i:25844177 original size:40 final size:40
Alignment explanation
Indices: 25844145--25844535 Score: 631
Period size: 40 Copynumber: 9.8 Consensus size: 40
25844135 CCAGCATGAT
* * * *
25844145 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* ** *
25844185 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
25844225 TGCTCCTC-GGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
25844264 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
25844304 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
25844344 TGCTCCTCAGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
25844384 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
25844424 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
25844464 TGCTCCTCGGGACTTAGCTCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
25844504 TGCTCTTCGGAACTTAGCCCGGATATATCACT
1 TGCTCCTCGGGACTTAGCCCGGATATATCACT
25844536 CTCAATTATC
Statistics
Matches: 326, Mismatches: 24, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
39 35 0.11
40 291 0.89
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:25845861 original size:37 final size:37
Alignment explanation
Indices: 25845802--25845945 Score: 234
Period size: 37 Copynumber: 3.9 Consensus size: 37
25845792 AGCTCAGACG
* * * *
25845802 AAATATCCACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
25845839 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
25845876 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
25845913 TAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCG
25845946 AATATATTTC
Statistics
Matches: 102, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:25846217 original size:47 final size:47
Alignment explanation
Indices: 25846155--25846638 Score: 664
Period size: 47 Copynumber: 10.1 Consensus size: 47
25846145 ACACGTTTCG
* * * **
25846155 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
25846202 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
25846249 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ** *
25846296 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCA
25846349 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
25846396 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ** **
25846443 CATTGGCCATTCGGCCTTATCACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCAC--ACATACGCATGTTCACATTCATCA
25846492 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
25846539 CATTGGCCATTCGGCCTTAT-ACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
*
25846589 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
25846636 CAT
1 CAT
25846639 AAAATCCTAA
Statistics
Matches: 392, Mismatches: 32, Indels: 26
0.87 0.07 0.06
Matches are distributed among these distances:
46 9 0.02
47 254 0.65
49 43 0.11
50 34 0.09
51 10 0.03
53 42 0.11
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:25846345 original size:147 final size:146
Alignment explanation
Indices: 25846155--25846616 Score: 717
Period size: 147 Copynumber: 3.2 Consensus size: 146
25846145 ACACGTTTCG
* * *
25846155 CATTAGCCATTCGGCC-T-T-ACCACATATAT-T-CATGTTCACATTCATCACATTGGCCATTCG
1 CATTGGCCATTCGGCCTTATCACCATATATATATACAGGTTCACATTCATCACATTGGCCATTCG
* * *
25846215 GCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGC
66 GCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGC
25846280 ATGTTCACATTCATCA
131 ATGTTCACATTCATCA
25846296 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTC
1 CATTGGCCATTCGGCCTTATCAC-CATATATATATACAGGTTCACATTCATCACATTGGCCATTC
25846361 GGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
65 GGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
25846426 CATGTTCACATTCATCA
130 CATGTTCACATTCATCA
*
25846443 CATTGGCCATTCGGCCTTATCA-C--ATATATATACGGGTTCACATTCATCACATTGGCCATTCG
1 CATTGGCCATTCGGCCTTATCACCATATATATATACAGGTTCACATTCATCACATTGGCCATTCG
***
25846505 GCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAT-ACACATATAT
66 GCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGC
25846569 ATACGGGTTCACATTCATCA
131 AT----GTTCACATTCATCA
25846589 CATTGGCCATTCGGCCTTATCACACATA
1 CATTGGCCATTCGGCCTTATCAC-CATA
25846617 CGCATGTTCA
Statistics
Matches: 297, Mismatches: 10, Indels: 19
0.91 0.03 0.06
Matches are distributed among these distances:
141 15 0.05
142 10 0.03
143 93 0.31
144 2 0.01
145 9 0.03
146 37 0.12
147 129 0.43
148 1 0.00
150 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.13, T:0.32
Consensus pattern (146 bp):
CATTGGCCATTCGGCCTTATCACCATATATATATACAGGTTCACATTCATCACATTGGCCATTCG
GCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGC
ATGTTCACATTCATCA
Found at i:25846563 original size:23 final size:23
Alignment explanation
Indices: 25846490--25846564 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
25846480 TCACATTCAT
25846490 CACATTGGCCATTCGGCCTTATCA
1 CACATTGGCCATTCGGCCTTAT-A
** * *
25846514 CACATACG-CATGTTC-ACATTCAT-
1 CACATTGGCCA--TTCGGCCTT-ATA
25846537 CACATTGGCCATTCGGCCTTATA
1 CACATTGGCCATTCGGCCTTATA
25846560 CACAT
1 CACAT
25846565 ATATATACGG
Statistics
Matches: 37, Mismatches: 8, Indels: 13
0.64 0.14 0.22
Matches are distributed among these distances:
22 5 0.14
23 16 0.43
24 11 0.30
25 5 0.14
ACGTcount: A:0.25, C:0.32, G:0.13, T:0.29
Consensus pattern (23 bp):
CACATTGGCCATTCGGCCTTATA
Found at i:25846713 original size:243 final size:239
Alignment explanation
Indices: 25846186--25846667 Score: 647
Period size: 243 Copynumber: 2.0 Consensus size: 239
25846176 ACATATATTC
* * * * * * **
25846186 ATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTC--ATATATGCATGTTCACATTCATCA
1 ATGTTCACATTCATCACATTAGCAATTCGGCCATACCACATATATATACGGGTTCACATTCATCA
25846249 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
66 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
*
25846314 ATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
131 ATCAC-CACATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
* ** * * * **
25846379 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGC
195 CATGTTCACATCCATCACATT-GAAAAT--GCCTAATCACAAATACAA
* * * *
25846427 ATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACGGGTTCACATTCATCA
1 ATGTTCACATTCATCACATTAGCAATTCGGCCATACCACATATATATACGGGTTCACATTCATCA
25846492 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
66 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
*
25846557 AT-A-CACATATATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGC
131 ATCACCACATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGC
*
25846620 ATGTTCACATCCATCACA-T-AAAAT-CCTAAATCA-AAATATAA
196 ATGTTCACATCCATCACATTGAAAATGCCT-AATCACAAATACAA
*
25846661 ATTTTCA
1 ATGTTCA
25846668 TGTATTCACA
Statistics
Matches: 222, Mismatches: 16, Indels: 13
0.88 0.06 0.05
Matches are distributed among these distances:
234 13 0.06
235 4 0.02
237 2 0.01
239 1 0.00
240 75 0.34
241 38 0.17
242 1 0.00
243 88 0.40
ACGTcount: A:0.28, C:0.29, G:0.12, T:0.31
Consensus pattern (239 bp):
ATGTTCACATTCATCACATTAGCAATTCGGCCATACCACATATATATACGGGTTCACATTCATCA
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACCACATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGC
ATGTTCACATCCATCACATTGAAAATGCCTAATCACAAATACAA
Found at i:25848951 original size:85 final size:85
Alignment explanation
Indices: 25848824--25848996 Score: 337
Period size: 85 Copynumber: 2.0 Consensus size: 85
25848814 TTTTATTGCT
25848824 CATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTA
1 CATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTA
25848889 GCCATAACATCTTGTCCACC
66 GCCATAACATCTTGTCCACC
*
25848909 CATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTA
1 CATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTA
25848974 GCCATAACATCTTGTCCACC
66 GCCATAACATCTTGTCCACC
25848994 CAT
1 CAT
25848997 CCTCATGGCC
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 87 1.00
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.38
Consensus pattern (85 bp):
CATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTA
GCCATAACATCTTGTCCACC
Found at i:25863590 original size:22 final size:21
Alignment explanation
Indices: 25863561--25863608 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
25863551 AAGCATGAAC
*
25863561 TGAA-ATTTTAATGATTTAGTG
1 TGAACATTTTAATGAATT-GTG
* *
25863582 TGAACATTTTTATTAATTGTG
1 TGAACATTTTAATGAATTGTG
25863603 TGAACA
1 TGAACA
25863609 CATAGGTGCC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (21 bp):
TGAACATTTTAATGAATTGTG
Found at i:25868412 original size:50 final size:51
Alignment explanation
Indices: 25868349--25868536 Score: 211
Period size: 51 Copynumber: 3.7 Consensus size: 51
25868339 TATCATTCGA
* * *
25868349 TACACGTACTAGCCTTCACATAGTACTACACACGTGATC-AAA-CTTTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAAGC-TTCCGG
*
25868399 TTCACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAAGCTTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAAGCTTCCGG
* * * ** * *
25868450 TACACATAGTAGCCTGCACATAGTGCTACACATGTGACCATTATCTAT-CGA
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAAGCT-TCCGG
* * *
25868501 TACAAGTAGTAGCCTGCACTTAGGACTACACACGTG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTG
25868537 TGTATAGGCA
Statistics
Matches: 117, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
50 35 0.30
51 80 0.68
52 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (51 bp):
TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAAGCTTCCGG
Found at i:25875897 original size:22 final size:22
Alignment explanation
Indices: 25875871--25875916 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
25875861 ATTATGTGTA
25875871 TTAATTCATAATAT-AA-TTAATT
1 TTAATT-ATAAT-TCAATTTAATT
25875893 TTAATTATAATTCAATTTAATT
1 TTAATTATAATTCAATTTAATT
25875915 TT
1 TT
25875917 GTTTAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 1 0.05
21 7 0.32
22 14 0.64
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.54
Consensus pattern (22 bp):
TTAATTATAATTCAATTTAATT
Found at i:25875901 original size:16 final size:16
Alignment explanation
Indices: 25875882--25875914 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25875872 TAATTCATAA
25875882 TATAATT-AATTTTAAT
1 TATAATTCAA-TTTAAT
25875898 TATAATTCAATTTAAT
1 TATAATTCAATTTAAT
25875914 T
1 T
25875915 TTGTTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
TATAATTCAATTTAAT
Found at i:25885299 original size:15 final size:16
Alignment explanation
Indices: 25885265--25885299 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
25885255 TGTCTCACTA
*
25885265 TCTATCGTTTTCACAG
1 TCTATAGTTTTCACAG
25885281 TCTATAGTTTTCA-AG
1 TCTATAGTTTTCACAG
25885296 TCTA
1 TCTA
25885300 AAGAACACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.23, C:0.20, G:0.11, T:0.46
Consensus pattern (16 bp):
TCTATAGTTTTCACAG
Found at i:25892416 original size:30 final size:29
Alignment explanation
Indices: 25892374--25892437 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
25892364 TTCACACTCG
* *
25892374 TTTTTATCCTCAATCTCATTTTCAATTTTC
1 TTTTTATCCTCAAACTCATCTTC-ATTTTC
*
25892404 TTTTCTAT-CTCAAACTCATCTTCTTTTTC
1 TTTT-TATCCTCAAACTCATCTTCATTTTC
25892433 TTTTT
1 TTTTT
25892438 CTCGCTCGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 1 0.03
29 9 0.30
30 17 0.57
31 3 0.10
ACGTcount: A:0.17, C:0.23, G:0.00, T:0.59
Consensus pattern (29 bp):
TTTTTATCCTCAAACTCATCTTCATTTTC
Found at i:25893458 original size:12 final size:12
Alignment explanation
Indices: 25893441--25893495 Score: 92
Period size: 12 Copynumber: 4.6 Consensus size: 12
25893431 GAATACAAAC
25893441 TTTTTTTTTGAA
1 TTTTTTTTTGAA
25893453 TTTTTTTTTGAA
1 TTTTTTTTTGAA
25893465 TTTTTTTTTGAA
1 TTTTTTTTTGAA
**
25893477 TTTTTTTTTTTA
1 TTTTTTTTTGAA
25893489 TTTTTTT
1 TTTTTTT
25893496 ACAATACCGT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 41 1.00
ACGTcount: A:0.13, C:0.00, G:0.05, T:0.82
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:25897429 original size:30 final size:30
Alignment explanation
Indices: 25897393--25897549 Score: 140
Period size: 30 Copynumber: 5.3 Consensus size: 30
25897383 TCGGCCAATA
* *
25897393 AAAAGGGATAGCTTCGGCTGTCAAATTATG
1 AAAAGGGATAGCTTCGACTATCAAATTATG
* * * *
25897423 AAAAGGGAT-GGTGACGACCATC-AACTATG
1 AAAAGGGATAGCT-TCGACTATCAAATTATG
* **
25897452 AAAAGGGATAG-TGACGACTATCAAACCATG
1 AAAAGGGATAGCT-TCGACTATCAAATTATG
* * * *
25897482 AAAAGGAATAGCTTTGCCTATTAAATTATG
1 AAAAGGGATAGCTTCGACTATCAAATTATG
* *
25897512 AAAATGGATAGCTTCAACTATCAAATTATG
1 AAAAGGGATAGCTTCGACTATCAAATTATG
25897542 AAAAGGGA
1 AAAAGGGA
25897550 CGGTGACGAC
Statistics
Matches: 101, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
29 27 0.27
30 73 0.72
31 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.24
Consensus pattern (30 bp):
AAAAGGGATAGCTTCGACTATCAAATTATG
Found at i:25897456 original size:29 final size:30
Alignment explanation
Indices: 25897413--25897607 Score: 148
Period size: 30 Copynumber: 6.6 Consensus size: 30
25897403 GCTTCGGCTG
*
25897413 TCAAATTATGAAAAGGGATGGTGACGACCA
1 TCAAACTATGAAAAGGGATGGTGACGACCA
* *
25897443 TC-AACTATGAAAAGGGATAGTGACGACTA
1 TCAAACTATGAAAAGGGATGGTGACGACCA
* * * **
25897472 TCAAACCATGAAAAGGAATAGCT-TTG-CCTA
1 TCAAACTATGAAAAGGGAT-GGTGACGACC-A
* * * * * * *
25897502 TTAAATTATGAAAATGGATAGCT-TCAACTA
1 TCAAACTATGAAAAGGGAT-GGTGACGACCA
* *
25897532 TCAAATTATGAAAAGGGACGGTGACGACCA
1 TCAAACTATGAAAAGGGATGGTGACGACCA
* *
25897562 TC-AACAATAAAAAGGGATGGTGACGACCA
1 TCAAACTATGAAAAGGGATGGTGACGACCA
*
25897591 TCAAAATATGAAAAGGG
1 TCAAACTATGAAAAGGG
25897608 GTAGCTTCGG
Statistics
Matches: 127, Mismatches: 32, Indels: 12
0.74 0.19 0.07
Matches are distributed among these distances:
29 54 0.43
30 71 0.56
31 2 0.02
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.21
Consensus pattern (30 bp):
TCAAACTATGAAAAGGGATGGTGACGACCA
Found at i:25897565 original size:30 final size:29
Alignment explanation
Indices: 25897531--25897607 Score: 102
Period size: 29 Copynumber: 2.6 Consensus size: 29
25897521 AGCTTCAACT
25897531 ATCAAATTATGAAAAGGGACGGTGACGACC
1 ATCAAA-TATGAAAAGGGACGGTGACGACC
* *
25897561 ATCAACA-ATAAAAAGGGATGGTGACGACC
1 ATCAA-ATATGAAAAGGGACGGTGACGACC
25897590 ATCAAAATATGAAAAGGG
1 ATC-AAATATGAAAAGGG
25897608 GTAGCTTCGG
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
29 24 0.59
30 16 0.39
31 1 0.02
ACGTcount: A:0.45, C:0.14, G:0.25, T:0.16
Consensus pattern (29 bp):
ATCAAATATGAAAAGGGACGGTGACGACC
Found at i:25897613 original size:119 final size:119
Alignment explanation
Indices: 25897393--25897639 Score: 332
Period size: 119 Copynumber: 2.1 Consensus size: 119
25897383 TCGGCCAATA
** * * * *
25897393 AAAAGGGATAGCTTCGGCTGTCAAATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGG
1 AAAAGGGATAGCTTCAACTATCAAATTATGAAAAGGGACGGTGACGACCATCAACAATAAAAAGG
* *
25897458 GATAGTGACGACTATCAAACCATGAAAAGGAATAGCTTTGCCTATTAAATTATG
66 GATAGTGACGACCATCAAAACATGAAAAGGAATAGCTTTGCCTATTAAATTATG
*
25897512 AAAATGGATAGCTTCAACTATCAAATTATGAAAAGGGACGGTGACGACCATCAACAATAAAAAGG
1 AAAAGGGATAGCTTCAACTATCAAATTATGAAAAGGGACGGTGACGACCATCAACAATAAAAAGG
* * ** * * * **
25897577 GATGGTGACGACCATCAAAATATGAAAAGGGGTAGCTTCGGCTATTGAGCTATG
66 GATAGTGACGACCATCAAAACATGAAAAGGAATAGCTTTGCCTATTAAATTATG
25897631 AAAAGGGAT
1 AAAAGGGAT
25897640 GGTGACAATC
Statistics
Matches: 109, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
119 109 1.00
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (119 bp):
AAAAGGGATAGCTTCAACTATCAAATTATGAAAAGGGACGGTGACGACCATCAACAATAAAAAGG
GATAGTGACGACCATCAAAACATGAAAAGGAATAGCTTTGCCTATTAAATTATG
Found at i:25909861 original size:22 final size:22
Alignment explanation
Indices: 25909830--25909888 Score: 91
Period size: 22 Copynumber: 2.7 Consensus size: 22
25909820 ACATAGCCAG
* *
25909830 TGTCACGACACCCTATTGCCTA
1 TGTCATGACACCCTAGTGCCTA
*
25909852 TGTCATGACACCCTAGTGCCTG
1 TGTCATGACACCCTAGTGCCTA
25909874 TGTCATGACACCCTA
1 TGTCATGACACCCTA
25909889 AGAGCAGCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.22, C:0.34, G:0.17, T:0.27
Consensus pattern (22 bp):
TGTCATGACACCCTAGTGCCTA
Found at i:25912320 original size:20 final size:20
Alignment explanation
Indices: 25912295--25912332 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
25912285 GATCTTTTGT
*
25912295 ACATATATTTTCTTTCAAGC
1 ACATATATTTTATTTCAAGC
*
25912315 ACATATGTTTTATTTCAA
1 ACATATATTTTATTTCAA
25912333 CATGAGCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.16, G:0.05, T:0.47
Consensus pattern (20 bp):
ACATATATTTTATTTCAAGC
Found at i:25915612 original size:50 final size:50
Alignment explanation
Indices: 25915471--25915661 Score: 161
Period size: 50 Copynumber: 3.7 Consensus size: 50
25915461 GGATGAGATC
* **
25915471 CCAT-GTAAGACCATGTCTGGGACATGTCATTGGCATTATTGAGTTCATGAGAGGT
1 CCATCGTAAGACCATGTCTGGGACATGGCATTGGCACCA---AG---ATGAGAGGT
* * * * *
25915526 CCAACGTAAGACCATGTCTAGTACATAGCGTTGGCACCAAGATGAGAGGT
1 CCATCGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGGT
* * * * **
25915576 CCCTCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACT
1 CCATCGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGGT
* *
25915626 CTCAT-GTAAGACCATATCTGGGATATGGCATTGGCA
1 C-CATCGTAAGACCATGTCTGGGACATGGCATTGGCA
25915662 GTACAGGAAA
Statistics
Matches: 111, Mismatches: 23, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
50 77 0.69
51 2 0.02
53 2 0.02
55 3 0.03
56 27 0.24
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.25
Consensus pattern (50 bp):
CCATCGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGGT
Found at i:25921716 original size:50 final size:50
Alignment explanation
Indices: 25921641--25921785 Score: 209
Period size: 50 Copynumber: 2.9 Consensus size: 50
25921631 CATTTGGGTA
*
25921641 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGTT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
*
25921691 AAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* * *** * *
25921741 GAGAGGGCCCCCATAAGACCATGTCTGGGACATGGCATGGGCACC
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACC
25921786 AATATGGGAA
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 85 1.00
ACGTcount: A:0.26, C:0.24, G:0.32, T:0.19
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
Found at i:25921808 original size:50 final size:50
Alignment explanation
Indices: 25921648--25921882 Score: 178
Period size: 50 Copynumber: 4.7 Consensus size: 50
25921638 GTAAAGAGGT
* * * ***
25921648 CCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGT-TAAGAGGT
1 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCACC-AATATAGGAACA
* * * * *
25921698 CCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAGG-GCC
1 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCACC-A-AT-ATAGGAACA
* *
25921750 CCCA--TAAGACCATGTCTGGGACATGGCATGGGCACCAATATGGGAACA
1 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAATATAGGAACA
* * * * * *
25921798 CCCATGTAAGACCATATTTGAGATATGGCATTGG---CAGTACAGGAACCA
1 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAATATAGGAA-CA
* *
25921846 TCCCATGTAAGACCATGTTTGGGACATGGCTTTGGCA
1 -CCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
25921883 TGTTATTATT
Statistics
Matches: 150, Mismatches: 25, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
47 11 0.07
48 9 0.06
49 31 0.21
50 91 0.61
51 1 0.01
52 5 0.03
53 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (50 bp):
CCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAATATAGGAACA
Found at i:25921826 original size:100 final size:100
Alignment explanation
Indices: 25921654--25921833 Score: 220
Period size: 100 Copynumber: 1.8 Consensus size: 100
25921644 AGGTCCCATG
* * * *** *
25921654 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGTTAAGAGGTCCCATGTAAGACCATGTCTAG
1 TAAGACCATGTCTGGGACATGGCATGGGCACCGAATTAAGAACACCCATGTAAGACCATATCTAG
*
25921719 GACATGGCGTTGGCACCGAGATGAGAGGGCCCCCA
66 GACATGGCATTGGCACCGAGATGAGAGGGCCCCCA
** *
25921754 TAAGACCATGTCTGGGACATGGCATGGGCACC-AATATGGGAACACCCATGTAAGACCATAT-TT
1 TAAGACCATGTCTGGGACATGGCATGGGCACCGAAT-TAAGAACACCCATGTAAGACCATATCTA
*
25921817 GAGATATGGCATTGGCA
65 G-GACATGGCATTGGCA
25921834 GTACAGGAAC
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
99 4 0.06
100 62 0.94
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (100 bp):
TAAGACCATGTCTGGGACATGGCATGGGCACCGAATTAAGAACACCCATGTAAGACCATATCTAG
GACATGGCATTGGCACCGAGATGAGAGGGCCCCCA
Found at i:25921875 original size:49 final size:47
Alignment explanation
Indices: 25921754--25921882 Score: 132
Period size: 49 Copynumber: 2.6 Consensus size: 47
25921744 AGGGCCCCCA
* * **
25921754 TAAGACCATGTCTGGGACATGGCATGGGCACCAATATGGGAACACCCATG
1 TAAGACCATGTTTGGGACATGGCATTGG---CAATACAGGAACACCCATG
* * * *
25921804 TAAGACCATATTTGAGATATGGCATTGGCAGTACAGGAACCATCCCATG
1 TAAGACCATGTTTGGGACATGGCATTGGCAATACAGGAA-CA-CCCATG
*
25921853 TAAGACCATGTTTGGGACATGGCTTTGGCA
1 TAAGACCATGTTTGGGACATGGCATTGGCA
25921883 TGTTATTATT
Statistics
Matches: 65, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
47 8 0.12
48 2 0.03
49 32 0.49
50 23 0.35
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.23
Consensus pattern (47 bp):
TAAGACCATGTTTGGGACATGGCATTGGCAATACAGGAACACCCATG
Found at i:25932066 original size:18 final size:19
Alignment explanation
Indices: 25932038--25932074 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
25932028 GCATTCACAT
25932038 CTTTCCTCTCTTCTCTCCA
1 CTTTCCTCTCTTCTCTCCA
*
25932057 CTTT-CTCTCTTCTTTCCA
1 CTTTCCTCTCTTCTCTCCA
25932075 TTCCAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.05, C:0.43, G:0.00, T:0.51
Consensus pattern (19 bp):
CTTTCCTCTCTTCTCTCCA
Found at i:25939452 original size:50 final size:49
Alignment explanation
Indices: 25939398--25939520 Score: 133
Period size: 49 Copynumber: 2.5 Consensus size: 49
25939388 GAGGTCCCCC
*
25939398 GTAAGACCATGTCTAGGACATGGCATGGGCACCG-ATAGGAGAAC-TCCCAT
1 GTAAGACCATGTCTAGGACATGGCATGGGCA--GTACAGGA-AACATCCCAT
* * * * *
25939448 GTAAGACCATATCTGGGATATGGCATTGGTAGTACAGGAAACATCCCAT
1 GTAAGACCATGTCTAGGACATGGCATGGGCAGTACAGGAAACATCCCAT
* *
25939497 GTAAGTCCATGTCTTGGACATGGC
1 GTAAGACCATGTCTAGGACATGGC
25939521 TTTGGCTTTG
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
48 4 0.07
49 31 0.51
50 26 0.43
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (49 bp):
GTAAGACCATGTCTAGGACATGGCATGGGCAGTACAGGAAACATCCCAT
Found at i:25939520 original size:49 final size:49
Alignment explanation
Indices: 25939342--25939526 Score: 144
Period size: 50 Copynumber: 3.7 Consensus size: 49
25939332 TTATGAGATG
* * * **
25939342 TCCCATGTAAGACCATGTCT-GTGACATGACTTTGGCACTA-AGATGAGAGG
1 TCCCATGTAAGACCATGTCTAG-GACATGGCATTGGCACGACAG--GAGAAC
** * *
25939392 TCCCCCGTAAGACCATGTCTAGGACATGGCATGGGCACCGATAGGAGAAC
1 TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCA-CGACAGGAGAAC
* * * *
25939442 TCCCATGTAAGACCATATCTGGGATATGGCATTGGTA-GTACAGGA-AAC
1 TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACG-ACAGGAGAAC
* * *
25939490 ATCCCATGTAAGTCCATGTCTTGGACATGGCTTTGGC
1 -TCCCATGTAAGACCATGTCTAGGACATGGCATTGGC
25939527 TTTGGCATGT
Statistics
Matches: 108, Mismatches: 22, Indels: 11
0.77 0.16 0.08
Matches are distributed among these distances:
48 4 0.04
49 35 0.32
50 64 0.59
51 3 0.03
52 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (49 bp):
TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACGACAGGAGAAC
Found at i:25939761 original size:20 final size:20
Alignment explanation
Indices: 25939736--25939774 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
25939726 AGAGTTATTT
* *
25939736 AAGTAAGCAAGTAATTAAAC
1 AAGTAAGAAAGTAAGTAAAC
25939756 AAGTAAGAAAGTAAGTAAA
1 AAGTAAGAAAGTAAGTAAA
25939775 GAAGAAGCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.59, C:0.05, G:0.18, T:0.18
Consensus pattern (20 bp):
AAGTAAGAAAGTAAGTAAAC
Found at i:25956006 original size:18 final size:18
Alignment explanation
Indices: 25955983--25956043 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
25955973 TTAATCATTT
25955983 TTAATTTATCTTAGTATG
1 TTAATTTATCTTAGTATG
* * ** * *
25956001 TTAATTAATTTGTCTTTTT
1 TTAATTTATCT-TAGTATG
25956020 TTAATTTATCTTAGTATG
1 TTAATTTATCTTAGTATG
25956038 TTAATT
1 TTAATT
25956044 AATTTATCTT
Statistics
Matches: 30, Mismatches: 12, Indels: 2
0.68 0.27 0.05
Matches are distributed among these distances:
18 18 0.60
19 12 0.40
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.61
Consensus pattern (18 bp):
TTAATTTATCTTAGTATG
Found at i:25956008 original size:22 final size:22
Alignment explanation
Indices: 25955983--25956053 Score: 84
Period size: 22 Copynumber: 3.5 Consensus size: 22
25955973 TTAATCATTT
25955983 TTAATTTATCTTAGTATGTTAA
1 TTAATTTATCTTAGTATGTTAA
*
25956005 TTAATTTGTC-T--T-T-TT--
1 TTAATTTATCTTAGTATGTTAA
25956020 TTAATTTATCTTAGTATGTTAA
1 TTAATTTATCTTAGTATGTTAA
25956042 TTAATTTATCTT
1 TTAATTTATCTT
25956054 GATATTATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 14
0.71 0.04 0.25
Matches are distributed among these distances:
15 9 0.22
16 1 0.03
17 2 0.05
18 2 0.05
19 2 0.05
20 2 0.05
21 1 0.03
22 21 0.52
ACGTcount: A:0.27, C:0.06, G:0.07, T:0.61
Consensus pattern (22 bp):
TTAATTTATCTTAGTATGTTAA
Found at i:25956023 original size:37 final size:37
Alignment explanation
Indices: 25955980--25956053 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
25955970 TTTTTAATCA
*
25955980 TTTTTAATTTATCTTAGTATGTTAATTAATTTGTCTT
1 TTTTTAATTTATCTTAGTATGTTAATTAATTTATCTT
25956017 TTTTTAATTTATCTTAGTATGTTAATTAATTTATCTT
1 TTTTTAATTTATCTTAGTATGTTAATTAATTTATCTT
25956054 GATATTATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.26, C:0.05, G:0.07, T:0.62
Consensus pattern (37 bp):
TTTTTAATTTATCTTAGTATGTTAATTAATTTATCTT
Found at i:25957298 original size:96 final size:95
Alignment explanation
Indices: 25957120--25957298 Score: 216
Period size: 96 Copynumber: 1.9 Consensus size: 95
25957110 CTACATGAGG
* * * * *
25957120 CTGCTCACACAAGCTATCGAGTACCCGCAACTAATGCTAGACCTCAACCATTGGTAGGACATTCA
1 CTGCTCACACAAGCTATCAAGTAACCGCAACTAATGCCAGAACTCAACCACTGGTAGGACATTCA
*
25957185 AGACCAACACTCGAAACATGGTACCTGGGT
66 AGACCAACACCCGAAACATGGTACCTGGGT
* * * *
25957215 CTGCTCACACAAGCTGTCAAGTAATCGCAAC-ACATGCCAGAAACTCAGCCACTGGTAGGACGTT
1 CTGCTCACACAAGCTATCAAGTAACCGCAACTA-ATGCCAG-AACTCAACCACTGGTAGGACATT
* * *
25957279 TAGGACCAGCACCCGAAACA
64 CAAGACCAACACCCGAAACA
25957299 CTGTAACCCT
Statistics
Matches: 69, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
94 1 0.01
95 33 0.48
96 35 0.51
ACGTcount: A:0.32, C:0.30, G:0.20, T:0.18
Consensus pattern (95 bp):
CTGCTCACACAAGCTATCAAGTAACCGCAACTAATGCCAGAACTCAACCACTGGTAGGACATTCA
AGACCAACACCCGAAACATGGTACCTGGGT
Found at i:25958727 original size:19 final size:19
Alignment explanation
Indices: 25958703--25958740 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
25958693 TAAGTAGGGG
25958703 TGGACT-TCTTGATTGGGCT
1 TGGACTATCTT-ATTGGGCT
25958722 TGGACTCATCTTATTGGGC
1 TGGACT-ATCTTATTGGGC
25958741 CTTGCCTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 7 0.41
21 4 0.24
ACGTcount: A:0.13, C:0.18, G:0.29, T:0.39
Consensus pattern (19 bp):
TGGACTATCTTATTGGGCT
Done.