Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 11 of 144
Found at i:2600021 original size:41 final size:41
Alignment explanation
Indices: 2599941--2600038 Score: 108
Period size: 41 Copynumber: 2.4 Consensus size: 41
2599931 AATCTTTTAA
* * *
2599941 AAAACTTAGTATTT-AAATCTAGAATCTAAAAATCCAATTT
1 AAAACTTAATATTTAAAATCTAAAATCTAAAAAGCCAATTT
* * *
2599981 AAAACTTAATATTTAAAATCTAAAATTTAAAGAGCTAATTT
1 AAAACTTAATATTTAAAATCTAAAATCTAAAAAGCCAATTT
* * *
2600022 AAAGCCTAATATATAAA
1 AAAACTTAATATTTAAA
2600039 GTAAAAAAAC
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
40 13 0.27
41 35 0.73
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.34
Consensus pattern (41 bp):
AAAACTTAATATTTAAAATCTAAAATCTAAAAAGCCAATTT
Found at i:2604363 original size:16 final size:15
Alignment explanation
Indices: 2604333--2604367 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
2604323 TTCTATTGTC
2604333 TATATTTTTTATAGA
1 TATATTTTTTATAGA
*
2604348 TATATTTTTATCTAGA
1 TATATTTTT-TATAGA
2604364 TATA
1 TATA
2604368 CAAAATCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (15 bp):
TATATTTTTTATAGA
Found at i:2606869 original size:69 final size:69
Alignment explanation
Indices: 2606796--2606994 Score: 283
Period size: 69 Copynumber: 2.9 Consensus size: 69
2606786 CAGTTTATGC
*
2606796 CATAAAGGTTTGACGATTTAAGATCGCAACCTCCAAAGTAGCTAGCAGGCCTACGCTCCCAACTG
1 CATAAAGGTTTGACGATTTAAGATCGCAACCTCCAAAGTAGCTAGCAGACCTACGCTCCCAACTG
2606861 ATGT
66 ATGT
* * * * * **
2606865 CATAAAGGTTTGACAATTTAAGATCACAACCTCCAAAGCAGCTAAC-GAACCTACGTTCTGAACT
1 CATAAAGGTTTGACGATTTAAGATCGCAACCTCCAAAGTAGCTAGCAG-ACCTACGCTCCCAACT
2606929 GATGT
65 GATGT
* * *
2606934 CATAAAGGTTTGATGATTTAAGATCGCAACCTCTAAAGTAGCTAGCAGACCTATGCTCCCA
1 CATAAAGGTTTGACGATTTAAGATCGCAACCTCCAAAGTAGCTAGCAGACCTACGCTCCCA
2606995 GTTGACATTA
Statistics
Matches: 110, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
68 1 0.01
69 108 0.98
70 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (69 bp):
CATAAAGGTTTGACGATTTAAGATCGCAACCTCCAAAGTAGCTAGCAGACCTACGCTCCCAACTG
ATGT
Found at i:2607030 original size:138 final size:137
Alignment explanation
Indices: 2606655--2607030 Score: 362
Period size: 138 Copynumber: 2.7 Consensus size: 137
2606645 TGTACTTGGT
* * * * ** **
2606655 ATGTCGTAAAGGTTTAATGATTTAAGATCGTAACCTCCAAAGCAATTAGCAGACCTACGCTCTTA
1 ATGTCATAAAGGTTTGATGATTTAAGATCGCAACCTCCAAAGTAGCTAGCAGACCTACGCTCCCA
* * * ** * *
2606720 GTTGATATTATAAGAGCTCGCAGAATTAAGCTCGC-AGCTCCGACACAGCTAGTGGACCTATGCT
66 GTTGATATTATAAG-GCTCGCAGAATTAAGCTCACAACCTCCGAAACAGCTAACGAACCTACGCT
** *
2606784 CCCAGTTT
130 CCCAACTG
* * *
2606792 ATGCCATAAAGGTTTGACGATTTAAGATCGCAACCTCCAAAGTAGCTAGCAGGCCTACGCTCCCA
1 ATGTCATAAAGGTTTGATGATTTAAGATCGCAACCTCCAAAGTAGCTAGCAGACCTACGCTCCCA
** * * * * * *
2606857 ACTGATGTCATAAAGGTTTGACA-ATTTAAGATCACAACCTCC-AAAGCAGCTAACGAACCTACG
66 GTTGATATTAT-AAGGCTCG-CAGAATTAAGCTCACAACCTCCGAAA-CAGCTAACGAACCTACG
* **
2606920 TTCTGAACTG
128 CTCCCAACTG
* *
2606930 ATGTCATAAAGGTTTGATGATTTAAGATCGCAACCTCTAAAGTAGCTAGCAGACCTATGCTCCCA
1 ATGTCATAAAGGTTTGATGATTTAAGATCGCAACCTCCAAAGTAGCTAGCAGACCTACGCTCCCA
* *
2606995 GTTGACATTATAAGTGCTCGCAGAATTAATCTCACA
66 GTTGATATTATAAG-GCTCGCAGAATTAAGCTCACA
2607031 GATGCAACAC
Statistics
Matches: 186, Mismatches: 47, Indels: 11
0.76 0.19 0.05
Matches are distributed among these distances:
137 80 0.43
138 106 0.57
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (137 bp):
ATGTCATAAAGGTTTGATGATTTAAGATCGCAACCTCCAAAGTAGCTAGCAGACCTACGCTCCCA
GTTGATATTATAAGGCTCGCAGAATTAAGCTCACAACCTCCGAAACAGCTAACGAACCTACGCTC
CCAACTG
Found at i:2608000 original size:19 final size:19
Alignment explanation
Indices: 2607972--2608212 Score: 428
Period size: 19 Copynumber: 12.7 Consensus size: 19
2607962 CTTCAAGGAC
2607972 ATGCAATCTTAGATATGAT
1 ATGCAATCTTAGATATGAT
*
2607991 ATGTAATCTTAGATATGAT
1 ATGCAATCTTAGATATGAT
2608010 ATGCAATCTTAGATATGAT
1 ATGCAATCTTAGATATGAT
*
2608029 ATGTAATCTTAGATATGAT
1 ATGCAATCTTAGATATGAT
2608048 ATGCAATCTTAGATATGAT
1 ATGCAATCTTAGATATGAT
*
2608067 ATGTAATCTTAGATATGAT
1 ATGCAATCTTAGATATGAT
2608086 ATGCAATCTTAGATATGAT
1 ATGCAATCTTAGATATGAT
*
2608105 ATGTAATCTTAGATATGAT
1 ATGCAATCTTAGATATGAT
2608124 ATGCAATCTTAGATATGAT
1 ATGCAATCTTAGATATGAT
*
2608143 ATGTAATCTTAGATATGAT
1 ATGCAATCTTAGATATGAT
2608162 ATGCAATCTTAGATATGAT
1 ATGCAATCTTAGATATGAT
*
2608181 AGGCAATCTTAGATATGAT
1 ATGCAATCTTAGATATGAT
2608200 ATGCAATCTTAGA
1 ATGCAATCTTAGA
2608213 AGATATGATT
Statistics
Matches: 210, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 210 1.00
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (19 bp):
ATGCAATCTTAGATATGAT
Found at i:2608245 original size:22 final size:22
Alignment explanation
Indices: 2608204--2608249 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
2608194 TATGATATGC
*
2608204 AATCTTAGAAGATATGATTTTGT
1 AATCTTAGAAGATAT-AATTTGT
*
2608227 AATCTTAG-AGATTTAATTTGT
1 AATCTTAGAAGATATAATTTGT
2608248 AA
1 AA
2608250 ATACCTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.38
22 5 0.24
23 8 0.38
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.43
Consensus pattern (22 bp):
AATCTTAGAAGATATAATTTGT
Found at i:2608248 original size:21 final size:23
Alignment explanation
Indices: 2608191--2608249 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
2608181 AGGCAATCTT
* *
2608191 AGATATG-ATATGCAATCTTAGA
1 AGATATGAATTTGTAATCTTAGA
*
2608213 AGATATGATTTTGTAATCTTAG-
1 AGATATGAATTTGTAATCTTAGA
*
2608235 AGAT-TTAATTTGTAA
1 AGATATGAATTTGTAA
2608250 ATACCTTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 9 0.29
22 11 0.35
23 11 0.35
ACGTcount: A:0.37, C:0.05, G:0.17, T:0.41
Consensus pattern (23 bp):
AGATATGAATTTGTAATCTTAGA
Found at i:2612505 original size:9 final size:9
Alignment explanation
Indices: 2612491--2612601 Score: 125
Period size: 9 Copynumber: 12.2 Consensus size: 9
2612481 TTTGGTTAAA
2612491 AATTACCCG
1 AATTACCCG
2612500 AATTACCCG
1 AATTACCCG
2612509 AATTACCCG
1 AATTACCCG
*
2612518 -ATTAACCG
1 AATTACCCG
*
2612526 AATTAACCG
1 AATTACCCG
*
2612535 AATTAACCG
1 AATTACCCG
*
2612544 AATTAACCG
1 AATTACCCG
* *
2612553 AATTAACTG
1 AATTACCCG
2612562 AATTACCCG
1 AATTACCCG
*
2612571 AATTACCCAAA
1 AATTACCC--G
*
2612582 AATTACCTG
1 AATTACCCG
2612591 AATTACCCG
1 AATTACCCG
2612600 AA
1 AA
2612602 AATTACCCAA
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
8 7 0.08
9 77 0.85
11 7 0.08
ACGTcount: A:0.41, C:0.26, G:0.10, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:2612587 original size:20 final size:20
Alignment explanation
Indices: 2612562--2612609 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
2612552 GAATTAACTG
2612562 AATTACCCGAATTACCCAAA
1 AATTACCCGAATTACCCAAA
* *
2612582 AATTACCTGAATTACCCGAA
1 AATTACCCGAATTACCCAAA
2612602 AATTACCC
1 AATTACCC
2612610 AAAAAGTTCG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.42, C:0.29, G:0.06, T:0.23
Consensus pattern (20 bp):
AATTACCCGAATTACCCAAA
Found at i:2613575 original size:6 final size:6
Alignment explanation
Indices: 2613559--2613605 Score: 58
Period size: 6 Copynumber: 7.3 Consensus size: 6
2613549 TGATGATGGA
*
2613559 AAAAAG GAAAAG AAAAAG AAAAAAAG AAAAAG AAAAAG AAAGAAG AA
1 AAAAAG AAAAAG AAAAAG --AAAAAG AAAAAG AAAAAG AAA-AAG AA
2613606 GAGGAAAAGG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
6 25 0.69
7 5 0.14
8 6 0.17
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:2613575 original size:14 final size:14
Alignment explanation
Indices: 2613566--2613595 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
2613556 GGAAAAAAGG
2613566 AAAAGAAAAAGAAA
1 AAAAGAAAAAGAAA
2613580 AAAAGAAAAAGAAA
1 AAAAGAAAAAGAAA
2613594 AA
1 AA
2613596 GAAAGAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAGAAA
Found at i:2613613 original size:19 final size:20
Alignment explanation
Indices: 2613558--2613599 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
2613548 ATGATGATGG
*
2613558 AAAAAAGGAAAAGAAAAAGA
1 AAAAAAGAAAAAGAAAAAGA
2613578 AAAAAAGAAAAAGAAAAAGA
1 AAAAAAGAAAAAGAAAAAGA
2613598 AA
1 AA
2613600 GAAGAAGAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (20 bp):
AAAAAAGAAAAAGAAAAAGA
Found at i:2615379 original size:44 final size:44
Alignment explanation
Indices: 2614970--2615364 Score: 682
Period size: 44 Copynumber: 9.0 Consensus size: 44
2614960 CGATGACCCT
*
2614970 AGTCCTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAAATTGTA
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTA
2615014 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTA
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTA
2615058 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTA
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTA
2615102 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTA
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTA
2615146 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTA
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTA
2615190 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTA
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTA
* * *
2615234 AGTCCTATTTCCCTGGTCAACAGTGGAATAGTTTGAAAATTGTA
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTA
* * * *
2615278 AATCCTATCTCCCTGGTCAACAGTGGAATAGGTTGAAGATTGTG
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTA
* * * *
2615322 AGTCGTATCTCCCTGGTTAGTAGTGGAATAGGTTGAAGATTGT
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGT
2615365 GAATCTTACT
Statistics
Matches: 337, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 337 1.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (44 bp):
AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTA
Found at i:2615651 original size:167 final size:168
Alignment explanation
Indices: 2615363--2615675 Score: 430
Period size: 167 Copynumber: 1.9 Consensus size: 168
2615353 GTTGAAGATT
* * *
2615363 GTGAATCTTACTTCCCTAACATTATAGCGGAGCAGATTAAAGCTGAGGGCAGCAAATCTTATCTC
1 GTGAATCTTACTTCCCTAACATTATAGCGGAGCAGATTAAAGCTCACGACAGCAAATCTTATCTC
* * *
2615428 CCTGGTGTTAAGACTTGAAATAGTTGAAGCGGAGCGAATTAAAGCTGTGGGCAGCGAATCTTATC
66 CCTGGCGTTAAGACTTGAAATAGCTAAAGCGGAGCGAATTAAAGCTGTGGGCAGCGAATCTTATC
2615493 TCTTTGGCATTACAGTGAAATAGATTGAAGCCAAAACG
131 TCTTTGGCATTACAGTGAAATAGATTGAAGCCAAAACG
* * ** * * * *
2615531 GTGAATCTTACTTCCCTGACATTGTAGTTGAGTAGATTTAAGC-CACGACGGCGAATCTTATCTC
1 GTGAATCTTACTTCCCTAACATTATAGCGGAGCAGATTAAAGCTCACGACAGCAAATCTTATCTC
* * * * * * *
2615595 CTTGGCGTTAAGGCTTGGATTAGCTAAAGTGGAGCGGATTGAAGCTGTGGGCAGCGAATCTTATC
66 CCTGGCGTTAAGACTTGAAATAGCTAAAGCGGAGCGAATTAAAGCTGTGGGCAGCGAATCTTATC
2615660 TCTTTGGCATTACAGT
131 TCTTTGGCATTACAGT
2615676 CGAGCAGATT
Statistics
Matches: 124, Mismatches: 21, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
167 87 0.70
168 37 0.30
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (168 bp):
GTGAATCTTACTTCCCTAACATTATAGCGGAGCAGATTAAAGCTCACGACAGCAAATCTTATCTC
CCTGGCGTTAAGACTTGAAATAGCTAAAGCGGAGCGAATTAAAGCTGTGGGCAGCGAATCTTATC
TCTTTGGCATTACAGTGAAATAGATTGAAGCCAAAACG
Found at i:2615707 original size:167 final size:167
Alignment explanation
Indices: 2615417--2615755 Score: 412
Period size: 167 Copynumber: 2.0 Consensus size: 167
2615407 GAGGGCAGCA
* * *
2615417 AATCTTATCTCCCTGGTGTTAAGACTTGAAATAGTTGAAGCGGAGCGAATTAAAGCTGTGGGCAG
1 AATCTTATCTCCCTGGCGTTAAGACTTGAAATAGCTAAAGCGGAGCGAATTAAAGCTGTGGGCAG
* * **
2615482 CGAATCTTATCTCTTTGGCATTACAGTGAAATAGATTGAAGCCAAAACGGTGAATCTTACT-TCC
66 CGAATCTTATCTCTTTGGCATTACAGTGAAACAGATTAAAGCCAAAACGGCAAATCTTACTCT-C
* * ** *
2615546 CTGACATTGTAGTTGAGTAGATTTAAGCCACGACGGCG
130 CTGACAGTGTAGTGGAACAGATTGAAGCCACGACGGCG
* * * * * * *
2615584 AATCTTATCTCCTTGGCGTTAAGGCTTGGATTAGCTAAAGTGGAGCGGATTGAAGCTGTGGGCAG
1 AATCTTATCTCCCTGGCGTTAAGACTTGAAATAGCTAAAGCGGAGCGAATTAAAGCTGTGGGCAG
* ** *
2615649 CGAATCTTATCTCTTTGGCATTACAGTCG-AGCAGATTAAAGCCGCAATGGCAAATCTTACTCTC
66 CGAATCTTATCTCTTTGGCATTACAGT-GAAACAGATTAAAGCCAAAACGGCAAATCTTACTCTC
* * *
2615713 CTGATAGTGTAGTGGAACAGATTGAAGCTACGATGGCG
130 CTGACAGTGTAGTGGAACAGATTGAAGCCACGACGGCG
2615751 AATCT
1 AATCT
2615756 AGTTTCCCCA
Statistics
Matches: 144, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
167 142 0.99
168 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (167 bp):
AATCTTATCTCCCTGGCGTTAAGACTTGAAATAGCTAAAGCGGAGCGAATTAAAGCTGTGGGCAG
CGAATCTTATCTCTTTGGCATTACAGTGAAACAGATTAAAGCCAAAACGGCAAATCTTACTCTCC
TGACAGTGTAGTGGAACAGATTGAAGCCACGACGGCG
Found at i:2615796 original size:100 final size:99
Alignment explanation
Indices: 2615681--2616079 Score: 419
Period size: 100 Copynumber: 4.1 Consensus size: 99
2615671 ACAGTCGAGC
* * * **
2615681 AGATTAAAGCCGCAATGGCAAATCTTAC-TCTCCTGATAGTGTAGTGGAACAGATTGAAGCTACG
1 AGATTGAAGCCGCAACGGCAAATTTTACTTC-CCTGACGGTGTAGTGGAACAGATTGAAGCTACG
*
2615745 ATGGCGAATCTAGTTTCCCCAACATTGCAATTAAAA
65 ACGGCGAATCTAGTTTCCCCAACATTGCAA-TAAAA
*
2615781 AGATTGAAGCCGCAATGGCAAATTTTACTTCCCT-AGCGGTGTAGTGGAACAGATTGAAGCTACG
1 AGATTGAAGCCGCAACGGCAAATTTTACTTCCCTGA-CGGTGTAGTGGAACAGATTGAAGCTACG
* *
2615845 ACGGTGAATCTCA-TTTCCCCAACTTTGCAATAAAA
65 ACGGCGAATCT-AGTTTCCCCAACATTGCAATAAAA
* * * * * * * *
2615880 AGTTTAAAGCCACAAACGGCGAATTTTACTTTCTTGGCGGTGTAGTGGAACAGATTGAAGCTATG
1 AGATTGAAGCCGC-AACGGCAAATTTTACTTCCCTGACGGTGTAGTGGAACAGATTGAAGCTACG
* *
2615945 ACGGTGAATCTTGTTTCCCCAACATTGC-------
65 ACGGCGAATCTAGTTTCCCCAACATTGCAATAAAA
*
2615973 A-ATTGAAGCCGCAACGGTAAATTTTACTTCCCTG--GTGTGTAGTGGAACAGATTGAAGCTACG
1 AGATTGAAGCCGCAACGGCAAATTTTACTTCCCTGACG-GTGTAGTGGAACAGATTGAAGCTACG
* * * *
2616035 ACGGCAAATCTTGTTTCCTCAACATTGCAATTTAAA
65 ACGGCGAATCTAGTTTCCCCAACATTGCAA-TAAAA
*
2616071 AGACTGAAG
1 AGATTGAAG
2616080 ATGGCAAGTC
Statistics
Matches: 253, Mismatches: 30, Indels: 33
0.80 0.09 0.10
Matches are distributed among these distances:
89 1 0.00
90 50 0.20
91 18 0.07
92 8 0.03
93 1 0.00
98 1 0.00
99 22 0.09
100 149 0.59
101 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (99 bp):
AGATTGAAGCCGCAACGGCAAATTTTACTTCCCTGACGGTGTAGTGGAACAGATTGAAGCTACGA
CGGCGAATCTAGTTTCCCCAACATTGCAATAAAA
Found at i:2616048 original size:90 final size:91
Alignment explanation
Indices: 2615901--2616066 Score: 262
Period size: 90 Copynumber: 1.8 Consensus size: 91
2615891 ACAAACGGCG
* * * **
2615901 AATTTTACTTTCTTGGCGGTGTAGTGGAACAGATTGAAGCTATGACGGTGAATCTTGTTTCCCCA
1 AATTTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGCAAATCTTGTTTCCCCA
2615966 ACATTGCAATTGAAGCCGCAACGGTA
66 ACATTGCAATTGAAGCCGCAACGGTA
* *
2615992 AATTTTACTTCCCTGG-TGTGTAGTGGAACAGATTGAAGCTACGACGGCAAATCTTGTTTCCTCA
1 AATTTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGCAAATCTTGTTTCCCCA
2616056 ACATTGCAATT
66 ACATTGCAATT
2616067 TAAAAGACTG
Statistics
Matches: 68, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
90 54 0.79
91 14 0.21
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (91 bp):
AATTTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGCAAATCTTGTTTCCCCA
ACATTGCAATTGAAGCCGCAACGGTA
Found at i:2616733 original size:38 final size:38
Alignment explanation
Indices: 2616689--2617525 Score: 1629
Period size: 38 Copynumber: 21.9 Consensus size: 38
2616679 AATCTTCAAG
2616689 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
2616727 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
2616765 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
2616803 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
2616841 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
2616879 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
2616917 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
2616955 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
2616993 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
2617031 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
2617069 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
2617107 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
2617145 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
2617183 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
2617221 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
2617259 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
2617297 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
2617335 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
2617373 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
2617411 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
2617449 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
*
2617487 GATATGCAATCTTAGAAGATATGATTTTGTAATCTTAGA
1 GATATGCAATCTT---AGATATGA-TATGTAATCTTAGA
2617526 GATTTAATTT
Statistics
Matches: 794, Mismatches: 1, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
38 773 0.97
41 8 0.01
42 13 0.02
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
Found at i:2627351 original size:16 final size:17
Alignment explanation
Indices: 2627330--2627367 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
2627320 ATAAAAAATA
2627330 AAAAT-ATATCATTTTT
1 AAAATAATATCATTTTT
2627346 AAAATAAATATCATTTTT
1 AAAAT-AATATCATTTTT
2627364 AAAA
1 AAAA
2627368 CTTAAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 5 0.25
18 15 0.75
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (17 bp):
AAAATAATATCATTTTT
Found at i:2646679 original size:144 final size:141
Alignment explanation
Indices: 2646359--2646830 Score: 747
Period size: 136 Copynumber: 3.4 Consensus size: 141
2646349 GTGGGGGATC
*
2646359 GAACCCCGTGCCTCTCGCATGCAAAGCGAGCGCTCTACCATTTGAGCTAGATCCCCATTGTGTGT
1 GAACCCCGTGCCTCTCGCATGCAAAGCGAGCGCTCTACCATTTGAGCTACATCCCCATTGTGTGT
2646424 TAGAAGCATTTAAAGATAAAATTTCTTATTAGAAAAAAAAAGTGTTGGCAAAAAAATCTGAAAAT
66 TAGAAGCATTTAAAGATAAAATTTCTTATTAGAAAAAAAAAGTGTTGGCAAAAAAATCTGAAAAT
2646489 -G-GA---GAT
131 GGAGATGCGAT
* *
2646495 GAACCCCGTGCCTCTCGCATGCAAAGCGAGCACTCTACCATTTGAGCTACATCCCCATTGTGCGT
1 GAACCCCGTGCCTCTCGCATGCAAAGCGAGCGCTCTACCATTTGAGCTACATCCCCATTGTGTGT
*
2646560 TAGAAGCA-TT-AAGATAAAATTTCTTATTAGAAAAAAAAAAGTGTTGGC-AAAAAGTCT-AAAA
66 TAGAAGCATTTAAAGATAAAATTTCTTATTAG-AAAAAAAAAGTGTTGGCAAAAAAATCTGAAAA
2646621 TTGGAGATGCGGGGGAT
130 -TGGAGATGC----GAT
2646638 CGAACCCCGTGCCTCTCGCATGCAAAGCGAGCGCTCTACCATTTGAGCTACATCCCCATTGTGTG
1 -GAACCCCGTGCCTCTCGCATGCAAAGCGAGCGCTCTACCATTTGAGCTACATCCCCATTGTGTG
2646703 TTAGAAGCATTTAAAGATAAAATTTCTTATTAGAAAAAAAAAGTGTTGGCAAAAAAATCTGAAAA
65 TTAGAAGCATTTAAAGATAAAATTTCTTATTAGAAAAAAAAAGTGTTGGCAAAAAAATCTGAAAA
2646768 TGGAGATGCG--
130 TGGAGATGCGAT
2646778 G---CCCGTGCCTCTCGCATGCAAAGCGAGCGCTCTACCATTTGAGCTACATCCCC
1 GAACCCCGTGCCTCTCGCATGCAAAGCGAGCGCTCTACCATTTGAGCTACATCCCC
2646831 CATTCAGGTA
Statistics
Matches: 313, Mismatches: 7, Indels: 32
0.89 0.02 0.09
Matches are distributed among these distances:
133 4 0.01
134 29 0.09
135 20 0.06
136 124 0.40
139 1 0.00
142 1 0.00
143 3 0.01
144 71 0.23
145 19 0.06
146 37 0.12
147 4 0.01
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.25
Consensus pattern (141 bp):
GAACCCCGTGCCTCTCGCATGCAAAGCGAGCGCTCTACCATTTGAGCTACATCCCCATTGTGTGT
TAGAAGCATTTAAAGATAAAATTTCTTATTAGAAAAAAAAAGTGTTGGCAAAAAAATCTGAAAAT
GGAGATGCGAT
Found at i:2648448 original size:29 final size:29
Alignment explanation
Indices: 2648350--2648455 Score: 81
Period size: 29 Copynumber: 3.6 Consensus size: 29
2648340 ATTTTTCCTT
*
2648350 TAAAAATTTTAAAAAATTCTCATTAATCTCAC
1 TAAAAATTTT--AAAATTCTCATTAAACTC-C
* * *
2648382 -AAAAATTTAAAAATTTTAATTAAACT-C
1 TAAAAATTTTAAAATTCTCATTAAACTCC
***
2648409 TAATTTTTTTTAAAATTCTCATTAAACTCC
1 TAA-AAATTTTAAAATTCTCATTAAACTCC
*
2648439 TAAAACTTTTGAAAATT
1 TAAAAATTTT-AAAATT
2648456 TTATAAAGCC
Statistics
Matches: 57, Mismatches: 13, Indels: 10
0.71 0.16 0.12
Matches are distributed among these distances:
27 1 0.02
28 2 0.04
29 36 0.63
30 10 0.18
31 8 0.14
ACGTcount: A:0.45, C:0.12, G:0.01, T:0.42
Consensus pattern (29 bp):
TAAAAATTTTAAAATTCTCATTAAACTCC
Found at i:2648836 original size:18 final size:20
Alignment explanation
Indices: 2648815--2648853 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2648805 AAGTGGAAGC
2648815 AAACT-CGAAAG-ACAAAAA
1 AAACTACGAAAGAACAAAAA
*
2648833 AAACTACGAACGAACAAAAA
1 AAACTACGAAAGAACAAAAA
2648853 A
1 A
2648854 TAACACACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 5 0.28
20 8 0.44
ACGTcount: A:0.67, C:0.18, G:0.10, T:0.05
Consensus pattern (20 bp):
AAACTACGAAAGAACAAAAA
Found at i:2655433 original size:18 final size:19
Alignment explanation
Indices: 2655386--2655433 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
2655376 AATTTAAACT
2655386 TATTTTTTATTTTAATATCA
1 TATTTTTT-TTTTAATATCA
** *
2655406 TACATATTTTTTAA-ATCA
1 TATTTTTTTTTTAATATCA
2655424 TATTTTTTTT
1 TATTTTTTTT
2655434 ATTATATGTT
Statistics
Matches: 22, Mismatches: 6, Indels: 2
0.73 0.20 0.07
Matches are distributed among these distances:
18 11 0.50
19 6 0.27
20 5 0.23
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (19 bp):
TATTTTTTTTTTAATATCA
Found at i:2656039 original size:21 final size:20
Alignment explanation
Indices: 2656010--2656082 Score: 53
Period size: 21 Copynumber: 3.6 Consensus size: 20
2656000 AAAAGTATAC
*
2656010 AATTTTACAAATTCGTAAGAA
1 AATTATACAAATTCGTAA-AA
*
2656031 AATTATACAAAAT-GTAAAGA
1 AATTATACAAATTCGTAAA-A
* *
2656051 AA-GATA-AATTTCGTAAAAA
1 AATTATACAAATTCGT-AAAA
*
2656070 AATTATAAAAATT
1 AATTATACAAATT
2656083 ATCATACCAA
Statistics
Matches: 40, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
18 3 0.08
19 9 0.22
20 13 0.32
21 15 0.38
ACGTcount: A:0.56, C:0.05, G:0.08, T:0.30
Consensus pattern (20 bp):
AATTATACAAATTCGTAAAA
Found at i:2656322 original size:18 final size:19
Alignment explanation
Indices: 2656301--2656341 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
2656291 TTAATAATTT
2656301 TTTAATA-TTTTAT-TAAAA
1 TTTAATACTTTT-TCTAAAA
2656319 TTTAATACTTTTTCTAAAA
1 TTTAATACTTTTTCTAAAA
2656338 TTTA
1 TTTA
2656342 TTTTTTTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTAATACTTTTTCTAAAA
Found at i:2656360 original size:13 final size:13
Alignment explanation
Indices: 2656327--2656369 Score: 50
Period size: 15 Copynumber: 3.1 Consensus size: 13
2656317 AATTTAATAC
2656327 TTTTTCTAAAATTT
1 TTTTTCT-AAATTT
*
2656341 ATTTTTTTACAATTT
1 -TTTTTCTA-AATTT
2656356 TTTTTCTAAATTT
1 TTTTTCTAAATTT
2656369 T
1 T
2656370 ATTAAGAGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 6 0.24
14 8 0.32
15 11 0.44
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTTTCTAAATTT
Found at i:2662250 original size:34 final size:34
Alignment explanation
Indices: 2662178--2662252 Score: 82
Period size: 34 Copynumber: 2.2 Consensus size: 34
2662168 GATCTGTTTT
* * *
2662178 AAGCATATTATTTGCTACTGTTTTGAATTGTTAT
1 AAGCATATTATTTGCTACTGTATTGAATTATTAA
*
2662212 AAGCATATTGA-TTGCTACTGTATT-ATTCTATTAA
1 AAGCATATT-ATTTGCTACTGTATTGAAT-TATTAA
2662246 AAGCATA
1 AAGCATA
2662253 ATTAGTTATC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
33 2 0.06
34 32 0.91
35 1 0.03
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.44
Consensus pattern (34 bp):
AAGCATATTATTTGCTACTGTATTGAATTATTAA
Found at i:2662745 original size:74 final size:74
Alignment explanation
Indices: 2662625--2662772 Score: 237
Period size: 74 Copynumber: 2.0 Consensus size: 74
2662615 ATTATGGTGT
*
2662625 GTAGCAGTAGGGTAGGAAGCTTTTCTGATAAATTGAAATTGCATTGCATTTATAAGCATTTGTAT
1 GTAGCAGTAGGGTAGGAAGCTTTTCTGATAAATTGAAATTGCATTGCATTTATAAGCATTTGCAT
2662690 TGCTGTGAA
66 TGCTGTGAA
* *
2662699 GTAGCGGTGGGGTAGGAA-CATTTTCTGATAAATTGAAA-TGACATTGCATTTATAAGCATTTGC
1 GTAGCAGTAGGGTAGGAAGC-TTTTCTGATAAATTGAAATTG-CATTGCATTTATAAGCATTTGC
2662762 ATTGCTGTGAA
64 ATTGCTGTGAA
2662773 TACCAATATA
Statistics
Matches: 69, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
73 3 0.04
74 66 0.96
ACGTcount: A:0.30, C:0.10, G:0.25, T:0.35
Consensus pattern (74 bp):
GTAGCAGTAGGGTAGGAAGCTTTTCTGATAAATTGAAATTGCATTGCATTTATAAGCATTTGCAT
TGCTGTGAA
Found at i:2668397 original size:9 final size:9
Alignment explanation
Indices: 2668378--2668418 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
2668368 TAATTAAATC
2668378 CTTAA-TAA
1 CTTAATTAA
2668386 CTTAATTAA
1 CTTAATTAA
2668395 CTTAATTAAA
1 CTTAATT-AA
2668405 CTTTAATTAA
1 C-TTAATTAA
2668415 -TTAA
1 CTTAA
2668419 ACCATAATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
8 9 0.30
9 10 0.33
10 5 0.17
11 6 0.20
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (9 bp):
CTTAATTAA
Found at i:2668416 original size:15 final size:16
Alignment explanation
Indices: 2668391--2668420 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2668381 AATAACTTAA
2668391 TTAACTTAATTAAACT
1 TTAACTTAATTAAACT
2668407 TTAA-TTAATTAAAC
1 TTAACTTAATTAAAC
2668421 CATAATCACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (16 bp):
TTAACTTAATTAAACT
Found at i:2676256 original size:13 final size:13
Alignment explanation
Indices: 2676234--2676263 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2676224 GCGCATGAAT
2676234 ATAA-AAATAATA
1 ATAATAAATAATA
2676246 ATAATAAATAATA
1 ATAATAAATAATA
2676259 ATAAT
1 ATAAT
2676264 GATACAAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
ATAATAAATAATA
Found at i:2676760 original size:19 final size:19
Alignment explanation
Indices: 2676736--2676789 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
2676726 AATCATATCT
2676736 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
2676755 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
2676774 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
2676790 CTTGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:2676785 original size:38 final size:40
Alignment explanation
Indices: 2676713--2676789 Score: 113
Period size: 38 Copynumber: 1.9 Consensus size: 40
2676703 AAATTAAATC
2676713 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTACAAAATCATA--TTCTAAGATTGCATATCATA
*
2676755 TCTAAGATTAC-ATATCATA-TCTAAGATTGCATATC
1 TCTAAGATTACAAAATCATATTCTAAGATTGCATATC
2676790 CTTGAAGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
38 16 0.47
41 7 0.21
42 11 0.32
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (40 bp):
TCTAAGATTACAAAATCATATTCTAAGATTGCATATCATA
Found at i:2678824 original size:24 final size:24
Alignment explanation
Indices: 2678797--2678848 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
2678787 AAATTATAAT
* *
2678797 GTATTTTTATTATAAGTTTATTAC
1 GTATTATTATTATAAATTTATTAC
* *
2678821 GTATTATTATTTTAAATTTATTAT
1 GTATTATTATTATAAATTTATTAC
2678845 GTAT
1 GTAT
2678849 CACTACTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.60
Consensus pattern (24 bp):
GTATTATTATTATAAATTTATTAC
Found at i:2680121 original size:18 final size:18
Alignment explanation
Indices: 2680068--2680121 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
2680058 TTTCACCTAA
* *
2680068 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAATT
*
2680087 ATCCAACCCAACCCAATT
1 ACCCAACCCAACCCAATT
2680105 ACCCAACCCAACCCAAT
1 ACCCAACCCAACCCAAT
2680122 CATAAAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 26 0.84
19 5 0.16
ACGTcount: A:0.41, C:0.46, G:0.02, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAATT
Found at i:2680251 original size:9 final size:9
Alignment explanation
Indices: 2680237--2680267 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
2680227 GTAGTGATTC
2680237 AATTCGGTT
1 AATTCGGTT
*
2680246 AATTCGGGT
1 AATTCGGTT
2680255 AATTCGGTT
1 AATTCGGTT
2680264 AATT
1 AATT
2680268 TTTAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:2682868 original size:19 final size:20
Alignment explanation
Indices: 2682844--2682884 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
2682834 ATTTAATGGT
*
2682844 TATATT-TAAATATAGTTTA
1 TATATTCTAAATAAAGTTTA
*
2682863 TATATTCTAATTAAAGTTTA
1 TATATTCTAAATAAAGTTTA
2682883 TA
1 TA
2682885 AATAATTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.51
Consensus pattern (20 bp):
TATATTCTAAATAAAGTTTA
Found at i:2689023 original size:15 final size:15
Alignment explanation
Indices: 2689005--2689033 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2688995 ATGACTAATG
2689005 TTGTATAACAATCTA
1 TTGTATAACAATCTA
2689020 TTGTATAACAATCT
1 TTGTATAACAATCT
2689034 TTAAGAAGAG
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:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (15 bp):
TTGTATAACAATCTA
Found at i:2692864 original size:20 final size:21
Alignment explanation
Indices: 2692841--2692887 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
2692831 TTTCACATCA
*
2692841 ATTTAATAT-TAAAGAATAAT
1 ATTTAATATCAAAAGAATAAT
** *
2692861 ATTTTCTATCAAAATAATAAT
1 ATTTAATATCAAAAGAATAAT
2692882 ATTTAA
1 ATTTAA
2692888 ATGATATTTT
Statistics
Matches: 20, Mismatches: 6, Indels: 1
0.74 0.22 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (21 bp):
ATTTAATATCAAAAGAATAAT
Found at i:2693059 original size:24 final size:24
Alignment explanation
Indices: 2693009--2693059 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
2692999 TTATATTAAA
*** *
2693009 TTATATTAAAATATATTTTTATTT
1 TTATATTAAAATATATTACAATAT
*
2693033 TTATATTAAATTATATTACAATAT
1 TTATATTAAAATATATTACAATAT
2693057 TTA
1 TTA
2693060 AAATGTTTTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
TTATATTAAAATATATTACAATAT
Found at i:2693200 original size:102 final size:102
Alignment explanation
Indices: 2692886--2693207 Score: 513
Period size: 103 Copynumber: 3.1 Consensus size: 102
2692876 AATAATATTT
* * * *
2692886 AAATGATATTTTATATTAAATTATATCAAAAGATTTTTTATTTTTATATTAAATTATATTAAAAT
1 AAATAATATTTTATATTAAATTATATTAAAATATTTTTTATTTTTATATTAAATTATATTACAAT
*
2692951 ATTTAAAATATTTTATTTTTATATTTTTTGAAATTTGG
66 ATTTAAAATATTTTATTTTTATATTTTCT-AAATTTGG
2692989 AAATAATATTTTATATTAAATTATATTAAAATATATTTTTATTTTTATATTAAATTATATTACAA
1 AAATAATATTTTATATTAAATTATATTAAAATAT-TTTTTATTTTTATATTAAATTATATTACAA
*
2693054 TATTTAAAATGTTTTATTTTTATATTTTCTAAATTTGG
65 TATTTAAAATATTTTATTTTTATATTTTCTAAATTTGG
2693092 AAATAATATTTTATATTAAATTATATTAAAATA-TTTTTATTTTTTATATTAAATTATATTACAA
1 AAATAATATTTTATATTAAATTATATTAAAATATTTTTTA-TTTTTATATTAAATTATATTACAA
* * *
2693156 TA-TTACAATATTTTATTTTTATAATTTCTAAAATTTAG
65 TATTTAAAATATTTTATTTTTATATTTTCT-AAATTTGG
2693194 AAATAATATTTTAT
1 AAATAATATTTTAT
2693208 TTTTATATTT
Statistics
Matches: 206, Mismatches: 10, Indels: 7
0.92 0.04 0.03
Matches are distributed among these distances:
101 30 0.15
102 47 0.23
103 72 0.35
104 57 0.28
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (102 bp):
AAATAATATTTTATATTAAATTATATTAAAATATTTTTTATTTTTATATTAAATTATATTACAAT
ATTTAAAATATTTTATTTTTATATTTTCTAAATTTGG
Found at i:2693823 original size:16 final size:15
Alignment explanation
Indices: 2693796--2693825 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
2693786 TATTAATGAC
2693796 AAACTTATATATAAT
1 AAACTTATATATAAT
2693811 AAACTTGATATATAA
1 AAACTT-ATATATAA
2693826 CTTTACAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (15 bp):
AAACTTATATATAAT
Found at i:2693827 original size:56 final size:56
Alignment explanation
Indices: 2693749--2693860 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
2693739 AATAACTTGT
*
2693749 TATAATAAACTTGATATATAACTTTACAACATAGAATTATTAATGACAAACTTATA
1 TATAATAAACTTGATATATAACTTTACAACATAGAATTAATAATGACAAACTTATA
2693805 TATAATAAACTTGATATATAACTTTACAACATAGAATTAATAATGACAAACTTATA
1 TATAATAAACTTGATATATAACTTTACAACATAGAATTAATAATGACAAACTTATA
2693861 AGGCGTATTC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.49, C:0.11, G:0.05, T:0.35
Consensus pattern (56 bp):
TATAATAAACTTGATATATAACTTTACAACATAGAATTAATAATGACAAACTTATA
Found at i:2694600 original size:13 final size:13
Alignment explanation
Indices: 2694582--2694610 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
2694572 TCCCAGATGA
2694582 ATCACAATGACAG
1 ATCACAATGACAG
2694595 ATCACAATGACAG
1 ATCACAATGACAG
2694608 ATC
1 ATC
2694611 CTTCAATCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.45, C:0.24, G:0.14, T:0.17
Consensus pattern (13 bp):
ATCACAATGACAG
Found at i:2697630 original size:50 final size:50
Alignment explanation
Indices: 2697565--2697754 Score: 209
Period size: 50 Copynumber: 3.7 Consensus size: 50
2697555 CTTGTACTGT
* * **
2697565 CAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATAAGTGC
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAAGTGC
* *** * **
2697615 CCATGCCATGTCCCAGACATGGTCTTATGGGGGACCTCTCATCTCCGTGC
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAAGTGC
*
2697665 CAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGC
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--T-AA-G-TGC
*
2697721 CAATGTCATGTCCCAGACATGGTCTTACATGGGA
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGA
2697755 TCTCATCCTC
Statistics
Matches: 113, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
50 76 0.67
53 1 0.01
55 1 0.01
56 35 0.31
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (50 bp):
CAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAAGTGC
Found at i:2698132 original size:30 final size:30
Alignment explanation
Indices: 2698098--2698155 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
2698088 CCTCGACTCT
2698098 AACTTTGACAAAATTATAGTTTTGCCCCTA
1 AACTTTGACAAAATTATAGTTTTGCCCCTA
* * *
2698128 AACTTTTACATAATTATATTTTTGCCCC
1 AACTTTGACAAAATTATAGTTTTGCCCC
2698156 AAAGCTTAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (30 bp):
AACTTTGACAAAATTATAGTTTTGCCCCTA
Found at i:2709211 original size:23 final size:23
Alignment explanation
Indices: 2709185--2709230 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
2709175 AGTCTTTTTA
2709185 TTAATATATGAATATTATGTTTG
1 TTAATATATGAATATTATGTTTG
2709208 TTAATATATGAATATTATGTTTG
1 TTAATATATGAATATTATGTTTG
2709231 GATATCATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (23 bp):
TTAATATATGAATATTATGTTTG
Found at i:2709475 original size:21 final size:21
Alignment explanation
Indices: 2709430--2709476 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
2709420 AAATAATAAA
*
2709430 ATAG-ATTATATATTATTTTT
1 ATAGTATTATATATTATATTT
2709450 ATAGTATTATATATTATAATTT
1 ATAGTATTATATATTAT-ATTT
2709472 -TAGTA
1 ATAGTA
2709477 AATTCATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 4 0.17
21 17 0.71
22 3 0.12
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.55
Consensus pattern (21 bp):
ATAGTATTATATATTATATTT
Found at i:2709518 original size:17 final size:18
Alignment explanation
Indices: 2709493--2709538 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
2709483 TATAAGAATA
*
2709493 ATTATATTA-AGAATTTT
1 ATTAAATTATAGAATTTT
* *
2709510 ATTAAATTATATATTTTT
1 ATTAAATTATAGAATTTT
2709528 ATTAAATTATA
1 ATTAAATTATA
2709539 TTTAATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
ATTAAATTATAGAATTTT
Found at i:2709535 original size:55 final size:54
Alignment explanation
Indices: 2709464--2709585 Score: 138
Period size: 55 Copynumber: 2.2 Consensus size: 54
2709454 TATTATATAT
* * * *
2709464 TATAATTTTAGTAAATTCATA-TAAGAATAATTATATTAAGAATTTTATTAAATTA
1 TATATTTTTATTAAATT-ATATTAAGAATAATTATATTAA-AATATGATTAAATTA
* *
2709519 TATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAATATGATTAAATTA
1 TATATTTTTATTAAATTATA-TTAAGAATAATTATATTAAAATATGATTAAATTA
*
2709574 TTTATTATTTAT
1 TATATT-TTTAT
2709586 ATTAATAATC
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
54 3 0.05
55 33 0.58
56 21 0.37
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (54 bp):
TATATTTTTATTAAATTATATTAAGAATAATTATATTAAAATATGATTAAATTA
Found at i:2709747 original size:16 final size:16
Alignment explanation
Indices: 2709726--2709765 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
2709716 ACAAGAATAT
*
2709726 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
2709742 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
2709758 ATTACAGC
1 ATTACAGC
2709766 GAACCAAACG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.28, C:0.28, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:2710988 original size:25 final size:26
Alignment explanation
Indices: 2710960--2711011 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
2710950 AAGTTGTAAA
2710960 TAAAAAAATATATTTAGA-AATTTTC
1 TAAAAAAATATATTTAGAGAATTTTC
* * *
2710985 TAAAATAATCTCTTTAGAGAATTTTC
1 TAAAAAAATATATTTAGAGAATTTTC
2711011 T
1 T
2711012 CTCTATAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (26 bp):
TAAAAAAATATATTTAGAGAATTTTC
Found at i:2713708 original size:20 final size:20
Alignment explanation
Indices: 2713679--2713719 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2713669 GTGCTCTTTA
**
2713679 TTTATCCGCTTTGGCGGTGT
1 TTTATCCGCTTCAGCGGTGT
*
2713699 TTTATTCGCTTCAGCGGTGT
1 TTTATCCGCTTCAGCGGTGT
2713719 T
1 T
2713720 CTGTTATTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.07, C:0.20, G:0.27, T:0.46
Consensus pattern (20 bp):
TTTATCCGCTTCAGCGGTGT
Found at i:2713732 original size:23 final size:23
Alignment explanation
Indices: 2713700--2713747 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
2713690 TGGCGGTGTT
2713700 TTATTCGCTTC-AGCGGTGTTCTG
1 TTATTCGCTTCGA-CGGTGTTCTG
* *
2713723 TTATTTGCTTCGATGGTGTTCTG
1 TTATTCGCTTCGACGGTGTTCTG
2713746 TT
1 TT
2713748 CTATTTTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 21 0.95
24 1 0.05
ACGTcount: A:0.08, C:0.17, G:0.25, T:0.50
Consensus pattern (23 bp):
TTATTCGCTTCGACGGTGTTCTG
Found at i:2715442 original size:17 final size:17
Alignment explanation
Indices: 2715420--2715458 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
2715410 GGCATTACTA
2715420 AACAAAGCACACATCCG
1 AACAAAGCACACATCCG
2715437 AACAAAGCACACATCCG
1 AACAAAGCACACATCCG
2715454 AACAA
1 AACAA
2715459 TTTACAAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.51, C:0.33, G:0.10, T:0.05
Consensus pattern (17 bp):
AACAAAGCACACATCCG
Found at i:2717303 original size:41 final size:41
Alignment explanation
Indices: 2717270--2717362 Score: 177
Period size: 41 Copynumber: 2.3 Consensus size: 41
2717260 CACCGGCACA
2717270 AAGCCTGCTAGACATAAAGTCTGAAGTAATTCACCGACATC
1 AAGCCTGCTAGACATAAAGTCTGAAGTAATTCACCGACATC
*
2717311 AAGCCTGCTAGACATAAAGTCTGAAGTAATTCACCAACATC
1 AAGCCTGCTAGACATAAAGTCTGAAGTAATTCACCGACATC
2717352 AAGCCTGCTAG
1 AAGCCTGCTAG
2717363 GCATTAAGCT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.22
Consensus pattern (41 bp):
AAGCCTGCTAGACATAAAGTCTGAAGTAATTCACCGACATC
Found at i:2736004 original size:29 final size:29
Alignment explanation
Indices: 2735962--2736021 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
2735952 AAACATAGAG
2735962 TTAATTTTTTGTTTTTGGTACCCAATTTC
1 TTAATTTTTTGTTTTTGGTACCCAATTTC
2735991 TTAATTTTTTGTTTTTGGTACCCAATTTC
1 TTAATTTTTTGTTTTTGGTACCCAATTTC
2736020 TT
1 TT
2736022 TTGGGCCCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.17, C:0.13, G:0.10, T:0.60
Consensus pattern (29 bp):
TTAATTTTTTGTTTTTGGTACCCAATTTC
Found at i:2739499 original size:44 final size:44
Alignment explanation
Indices: 2739436--2739522 Score: 165
Period size: 44 Copynumber: 2.0 Consensus size: 44
2739426 GTAGGTCAAA
2739436 TAATATTAAAATAACCTACACTAATCAGAGTTTAAGTGGGAAAT
1 TAATATTAAAATAACCTACACTAATCAGAGTTTAAGTGGGAAAT
*
2739480 TAATATTAAAATAACCTACACTAATCATAGTTTAAGTGGGAAA
1 TAATATTAAAATAACCTACACTAATCAGAGTTTAAGTGGGAAA
2739523 CTAAAAACAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (44 bp):
TAATATTAAAATAACCTACACTAATCAGAGTTTAAGTGGGAAAT
Found at i:2742426 original size:19 final size:19
Alignment explanation
Indices: 2742383--2742426 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
2742373 CCAGATTTTT
*
2742383 TATTTTTTAAAATTATTAA
1 TATTTTTTAAAATTATAAA
* *
2742402 TTTTTTTTATAATTATAAA
1 TATTTTTTAAAATTATAAA
2742421 TATTTT
1 TATTTT
2742427 CATCCGTCTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TATTTTTTAAAATTATAAA
Found at i:2742972 original size:18 final size:19
Alignment explanation
Indices: 2742949--2742988 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
2742939 AATAATGTAG
* *
2742949 TATATTATTTTATT-TTTA
1 TATATTATGTAATTCTTTA
2742967 TATATTATGTAATTCTTTA
1 TATATTATGTAATTCTTTA
2742986 TAT
1 TAT
2742989 CACATAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (19 bp):
TATATTATGTAATTCTTTA
Found at i:2749557 original size:42 final size:42
Alignment explanation
Indices: 2749476--2749569 Score: 118
Period size: 42 Copynumber: 2.2 Consensus size: 42
2749466 CAGCGTCGCT
* * * *
2749476 AACTTTAGCGGCGCTTTTCCCATAAACGCCGCTAAAGACCATG
1 AACTTTAGCGGCGC-TTTCCCACAAACGACACTAAAGACCAAG
*
2749519 ATCTTTAGCGGCGC-TTCCCTACAAACGACACTAAAGACCAAG
1 AACTTTAGCGGCGCTTTCCC-ACAAACGACACTAAAGACCAAG
2749561 AACTTTAGC
1 AACTTTAGC
2749570 ANNNNNNNNN
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
41 5 0.11
42 26 0.59
43 13 0.30
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (42 bp):
AACTTTAGCGGCGCTTTCCCACAAACGACACTAAAGACCAAG
Found at i:2749779 original size:43 final size:43
Alignment explanation
Indices: 2749713--2749803 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
2749703 ACATATGCAA
* * * *
2749713 GGTAATAAAATATACAATGCATTTTCTTAATCAAGTAAATCTT
1 GGTAATAAAAGATACAATACATTTACTTAATCAAGGAAATCTT
*
2749756 GGTAATAAAAGATATAATACATTTACTTAATCAAGGAAATCTT
1 GGTAATAAAAGATACAATACATTTACTTAATCAAGGAAATCTT
2749799 -GTAAT
1 GGTAAT
2749804 GAACTCAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 5 0.12
43 38 0.88
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (43 bp):
GGTAATAAAAGATACAATACATTTACTTAATCAAGGAAATCTT
Found at i:2753264 original size:14 final size:14
Alignment explanation
Indices: 2753231--2753257 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2753221 CTAAATTAAC
2753231 CATATACCCTAAAT
1 CATATACCCTAAAT
2753245 CATATACCCTAAA
1 CATATACCCTAAA
2753258 CTGTATATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.30, G:0.00, T:0.26
Consensus pattern (14 bp):
CATATACCCTAAAT
Found at i:2753789 original size:42 final size:41
Alignment explanation
Indices: 2753628--2753790 Score: 245
Period size: 41 Copynumber: 4.0 Consensus size: 41
2753618 TCAAAAGCGG
* *
2753628 GCATTAGCGGCGCTTTTTCAAAAATGCCGCTAAAGGCCCAA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGA
*
2753669 GCATTAGCGGCGCTTTTTAAAAAACGCCGCTAAAGGCCCGA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGA
* *
2753710 GCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCCGT
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGA
* **
2753751 GAATTAGCGGCGCTTTTTTTTAAAACGCCGCTAAAGGCCC
1 GCATTAGCGGCGC-TTTTTCAAAAACGCCGCTAAAGGCCC
2753791 CAAAAACTCA
Statistics
Matches: 111, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
41 88 0.79
42 23 0.21
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (41 bp):
GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGA
Found at i:2753973 original size:41 final size:41
Alignment explanation
Indices: 2753845--2753977 Score: 141
Period size: 40 Copynumber: 3.3 Consensus size: 41
2753835 CACTTTTTGG
* **
2753845 AAAA-CGCCGGTAATGCTT-ATTTTTAGCGGCGTTTTCCA-
1 AAAAGCGCCGCTAATGCTTGATTTTTAGCGGCGTTTTTTAT
* ** *
2753883 AAAAGCGCCGCTAATGCTCGACCTTTAGCAGCG-TTTTTAT
1 AAAAGCGCCGCTAATGCTTGATTTTTAGCGGCGTTTTTTAT
*
2753923 AAAAGCGCCGCTAATGCTTGATTTTTAGTGGCGTTTTTTAT
1 AAAAGCGCCGCTAATGCTTGATTTTTAGCGGCGTTTTTTAT
*
2753964 CCAAA-CGCCGCTAA
1 -AAAAGCGCCGCTAA
2753978 AAACGCCGCT
Statistics
Matches: 77, Mismatches: 13, Indels: 7
0.79 0.13 0.07
Matches are distributed among these distances:
38 4 0.05
39 16 0.21
40 38 0.49
41 16 0.21
42 3 0.04
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (41 bp):
AAAAGCGCCGCTAATGCTTGATTTTTAGCGGCGTTTTTTAT
Found at i:2753983 original size:12 final size:12
Alignment explanation
Indices: 2753966--2753991 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2753956 TTTTTTATCC
2753966 AAACGCCGCTAA
1 AAACGCCGCTAA
2753978 AAACGCCGCTAA
1 AAACGCCGCTAA
2753990 AA
1 AA
2753992 GCCTATTTTG
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:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:2760065 original size:116 final size:113
Alignment explanation
Indices: 2759727--2760236 Score: 397
Period size: 116 Copynumber: 4.4 Consensus size: 113
2759717 GATTATCCAT
* * * **
2759727 TTTCACTAGGGAGATCATATCTTTACCTAAGTGAAGTAAATTAGTCAAACCCTATATATAACTTA
1 TTTCACTAGGGAGATCATATCTCTACCTAAGTGAAATAAATTACTCAAACCCTGCATATAA-TTA
* * * **
2759792 GTAGTGGCCAAAATTTGAACGATCATGCTATGGCTAGGGGAGTTATTCAC
65 TTAGTGGCCAAATTTTGAGCGATCATAAT-TGGCTAGGGGAGTTATTCAC
* * * * ** * * *
2759842 TTTCACTACGAAGATCATATCTCTACCTAAGTGAAATAAATTTCTTAGGCCTTGTATATGGATTA
1 TTTCACTAGGGAGATCATATCTCTACCTAAGTGAAATAAATTACTCAAACCCTGCATAT-AATTA
* * * * * *
2759907 TTAGTGGCCAAGTTTTGAGCGAGCACAACTATAGTTAAGGGAGTTATTCAC
65 TTAGTGGCCAAATTTTGAGCGATCATAA-T-TGGCTAGGGGAGTTATTCAC
* * * * *
2759958 TTTCACTAGGGATATCACATCTCTACCTAAGTGAAGTAAATTTCTTAAACCCTGCATATAATTTA
1 TTTCACTAGGGAGATCATATCTCTACCTAAGTGAAATAAATTACTCAAACCCTGCATATAA-TTA
* *
2760023 TTAGTCGCCAAATTTTGAGCGATCATAATTGCGGCTAGGGGAGCTA-T--C
65 TTAGTGGCCAAATTTTGAGCGATCATAATT--GGCTAGGGGAGTTATTCAC
* *
2760071 --T-AATAGGGAGATCATATCTCTACCTAAGTGAAATAAAGTACTCAAACCCTGCATATGAGATT
1 TTTCACTAGGGAGATCATATCTCTACCTAAGTGAAATAAATTACTCAAACCCTGCATAT-A-ATT
* * * * * * * * * *
2760133 -TTAGAGACCAAATTTTCTTTTAAGAGATCCTAGTTGCGGCCAAGGGAGTTGTCCAC
64 ATTAGTGGCCAAA-----TTTTGAGCGATCATAATT--GGCTAGGGGAGTTATTCAC
* *
2760189 -TTCACTAGGGAGATCATATCTCTACCTGAGTGAAATAAAGTACTCAAA
1 TTTCACTAGGGAGATCATATCTCTACCTAAGTGAAATAAATTACTCAAA
2760237 TCCATATATA
Statistics
Matches: 316, Mismatches: 62, Indels: 29
0.78 0.15 0.07
Matches are distributed among these distances:
110 57 0.18
111 4 0.01
112 1 0.00
113 1 0.00
114 1 0.00
115 100 0.32
116 107 0.34
118 1 0.00
119 1 0.00
120 43 0.14
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (113 bp):
TTTCACTAGGGAGATCATATCTCTACCTAAGTGAAATAAATTACTCAAACCCTGCATATAATTAT
TAGTGGCCAAATTTTGAGCGATCATAATTGGCTAGGGGAGTTATTCAC
Found at i:2764245 original size:44 final size:45
Alignment explanation
Indices: 2764154--2764685 Score: 523
Period size: 44 Copynumber: 12.1 Consensus size: 45
2764144 NNNNNNNNNN
*
2764154 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-A
1 TCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATCTGCTA
* * * * *
2764198 TCTTCGATCCATTTC-CTACCAATATAGGAAGACAGGATCAGCTA
1 TCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATCTGCTA
* * * * *
2764242 TCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTACT-
1 TCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATCTGCTA
* *
2764285 TCCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-A
1 T-CTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATCTGCTA
* * * * * *
2764330 TCTTCGATCCATTTC-CTACCAATATAGGAAGATAGGATCAGCTA
1 TCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATCTGCTA
* * * * *
2764374 TCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTC
1 TCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATCTGCTA
*
2764418 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG-TA
1 TCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATCTGCTA
* * * * *
2764462 TCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGATCTGATA
1 TCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATCTGCTA
* * * * * * *
2764506 TTTTCGATCTACTTC-ACGCCAATACATGAAGACAAGAGCTGCTC
1 TCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATCTGCTA
*
2764550 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG-TA
1 TCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATCTGCTA
* * * * *
2764594 TCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGATCTGATA
1 TCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATCTGCTA
* * * * * *
2764638 TTTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATCTGCTA
2764682 TCTT
1 TCTT
2764686 GACTTCAATC
Statistics
Matches: 389, Mismatches: 90, Indels: 18
0.78 0.18 0.04
Matches are distributed among these distances:
43 90 0.23
44 236 0.61
45 63 0.16
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (45 bp):
TCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATCTGCTA
Found at i:2764395 original size:132 final size:132
Alignment explanation
Indices: 2764154--2764685 Score: 913
Period size: 132 Copynumber: 4.0 Consensus size: 132
2764144 NNNNNNNNNN
*
2764154 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCATTTCCTACCA
1 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCA
* * *
2764219 ATATAGGAAGACAGGATCAGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTAC
66 ATATAGGAAGATAGGATCAGATATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
2764284 T-
131 TC
* *
2764285 TCCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCATTTCCTACC
1 T-CTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACC
*
2764350 AATATAGGAAGATAGGATCAGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTG
65 AATATAGGAAGATAGGATCAGATATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTG
2764415 CTC
130 CTC
*
2764418 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGTATCTTCGATCCACTTCCTACCA
1 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCA
* * *
2764483 ATATAGGAAGATAGGATCTGATATTTTCGATCTACTTCACGCCAATACATGAAGACAAGAGCTGC
66 ATATAGGAAGATAGGATCAGATATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
2764548 TC
131 TC
*
2764550 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGTATCTTCGATCCACTTCCTACCA
1 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCA
* *
2764615 ATATAGGAAGATAGGATCTGATATTTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
66 ATATAGGAAGATAGGATCAGATATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
*
2764680 TT
131 TC
2764682 TCTT
1 TCTT
2764686 GACTTCAATC
Statistics
Matches: 387, Mismatches: 12, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
131 1 0.00
132 385 0.99
133 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (132 bp):
TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCA
ATATAGGAAGATAGGATCAGATATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
TC
Found at i:2765604 original size:1 final size:1
Alignment explanation
Indices: 2765598--2765632 Score: 61
Period size: 1 Copynumber: 35.0 Consensus size: 1
2765588 GGCCTCTCCC
*
2765598 TTTTTTTTTTTTTTTTTTTTTTTTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2765633 AGGCAAAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.03, T:0.97
Consensus pattern (1 bp):
T
Found at i:2765664 original size:36 final size:37
Alignment explanation
Indices: 2765615--2765688 Score: 141
Period size: 36 Copynumber: 2.0 Consensus size: 37
2765605 TTTTTTTTTT
2765615 TTTTTTTTGTTTTTTTTTAGGCAAAGTACCTCTTCAC
1 TTTTTTTTGTTTTTTTTTAGGCAAAGTACCTCTTCAC
2765652 TTTTTTTT-TTTTTTTTTAGGCAAAGTACCTCTTCAC
1 TTTTTTTTGTTTTTTTTTAGGCAAAGTACCTCTTCAC
2765688 T
1 T
2765689 GAATCCGAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 29 0.78
37 8 0.22
ACGTcount: A:0.16, C:0.16, G:0.09, T:0.58
Consensus pattern (37 bp):
TTTTTTTTGTTTTTTTTTAGGCAAAGTACCTCTTCAC
Found at i:2776308 original size:105 final size:105
Alignment explanation
Indices: 2776126--2776331 Score: 342
Period size: 105 Copynumber: 2.0 Consensus size: 105
2776116 ACTTTGAAGC
* * *
2776126 TTTAAGAGGATATTTGGCTGTTTAGTCAGACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTC
1 TTTAAAAGGATATTTGGCTATTTAGTCAGACAAGAAATCGAAACCCAGCACGTTAGGGCACGTTC
2776191 CCTCGATTTTCCAAACGCGAAATATTGCCTTATTTAAGAG
66 CCTCGATTTTCCAAACGCGAAATATTGCCTTATTTAAGAG
*
2776231 TTTAAAAGGATATTTGGCTATTTGGTC-GAACAAGAAATCGAAACCCAGCACGTTAGGGCACGTT
1 TTTAAAAGGATATTTGGCTATTTAGTCAG-ACAAGAAATCGAAACCCAGCACGTTAGGGCACGTT
**
2776295 TTCTCGATTTTCCAAACGCGAAATATTGCCTTATTTA
65 CCCTCGATTTTCCAAACGCGAAATATTGCCTTATTTA
2776332 GAAAAATTTT
Statistics
Matches: 94, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
104 1 0.01
105 93 0.99
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (105 bp):
TTTAAAAGGATATTTGGCTATTTAGTCAGACAAGAAATCGAAACCCAGCACGTTAGGGCACGTTC
CCTCGATTTTCCAAACGCGAAATATTGCCTTATTTAAGAG
Found at i:2777739 original size:13 final size:12
Alignment explanation
Indices: 2777706--2777739 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
2777696 AAAGGTAAAA
2777706 TTTTTTATTTTT
1 TTTTTTATTTTT
2777718 TTTTGTTATTCTTT
1 TTTT-TTATT-TTT
2777732 TTTTTTAT
1 TTTTTTAT
2777740 AAGTTTATGC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 4 0.20
13 9 0.45
14 7 0.35
ACGTcount: A:0.09, C:0.03, G:0.03, T:0.85
Consensus pattern (12 bp):
TTTTTTATTTTT
Found at i:2780609 original size:22 final size:22
Alignment explanation
Indices: 2780584--2780625 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
2780574 AATTATACAA
2780584 TATCAAAACAATAACAAAATAG
1 TATCAAAACAATAACAAAATAG
* *
2780606 TATCAATATAATAACAAAAT
1 TATCAAAACAATAACAAAAT
2780626 GACAACAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.62, C:0.12, G:0.02, T:0.24
Consensus pattern (22 bp):
TATCAAAACAATAACAAAATAG
Found at i:2780612 original size:28 final size:28
Alignment explanation
Indices: 2780559--2780622 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
2780549 GTAATAAAAT
* *
2780559 TAATAATAA-AACAAAAATTATACAATA
1 TAATAACAATAACAAAAAGTATACAATA
2780586 TCAA-AACAATAACAAAATAGTAT-CAATA
1 T-AATAACAATAACAAAA-AGTATACAATA
2780614 TAATAACAA
1 TAATAACAA
2780623 AATGACAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
27 7 0.23
28 20 0.65
29 4 0.13
ACGTcount: A:0.64, C:0.11, G:0.02, T:0.23
Consensus pattern (28 bp):
TAATAACAATAACAAAAAGTATACAATA
Found at i:2782846 original size:32 final size:32
Alignment explanation
Indices: 2782771--2782853 Score: 98
Period size: 32 Copynumber: 2.6 Consensus size: 32
2782761 TGTCCAATAG
* *
2782771 TAAGTAGTAAGCAACAGTTCCCTGGAAGATGA
1 TAAGAAGTAAGCAACAGTTACCTGGAAGATGA
*
2782803 TAAGAAATAAGCAACAGTTACCTGGAAGAT-A
1 TAAGAAGTAAGCAACAGTTACCTGGAAGATGA
*
2782834 CTCAA-CAGTAAGCAACAGTT
1 -T-AAGAAGTAAGCAACAGTT
2782854 CCATCAAGAC
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
31 1 0.02
32 41 0.93
33 2 0.05
ACGTcount: A:0.42, C:0.17, G:0.20, T:0.20
Consensus pattern (32 bp):
TAAGAAGTAAGCAACAGTTACCTGGAAGATGA
Found at i:2786641 original size:19 final size:17
Alignment explanation
Indices: 2786614--2786657 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
2786604 AAGAAGTAAA
2786614 AATAAAATATTTAAAGAAT
1 AATAAAATA-TTAAA-AAT
*
2786633 AATATAATATTAAAAAT
1 AATAAAATATTAAAAAT
*
2786650 AAAAAAAT
1 AATAAAAT
2786658 TTATTATATG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 9 0.41
18 5 0.23
19 8 0.36
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (17 bp):
AATAAAATATTAAAAAT
Found at i:2786810 original size:18 final size:19
Alignment explanation
Indices: 2786787--2786829 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
2786777 TATGTATGAT
2786787 ATTAAAATGAAA-AAATAG
1 ATTAAAATGAAACAAATAG
* * *
2786805 ATTAAATTTAAACACATAG
1 ATTAAAATGAAACAAATAG
2786824 ATTAAA
1 ATTAAA
2786830 TGAGTACAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.60, C:0.05, G:0.07, T:0.28
Consensus pattern (19 bp):
ATTAAAATGAAACAAATAG
Found at i:2789796 original size:9 final size:9
Alignment explanation
Indices: 2789782--2789814 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
2789772 ATTTAATAAT
2789782 TTAATTAAA
1 TTAATTAAA
2789791 TTAATTAAA
1 TTAATTAAA
*
2789800 TTAACTAAA
1 TTAATTAAA
2789809 TTAATT
1 TTAATT
2789815 TCTCAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (9 bp):
TTAATTAAA
Found at i:2791719 original size:21 final size:23
Alignment explanation
Indices: 2791678--2791722 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
2791668 AAAGAACCCT
*
2791678 AGAAAAGTGTAGAGAAAAACTAA
1 AGAAAAGTCTAGAGAAAAACTAA
2791701 AGAAAA-TCTAGAG-AAAACTAA
1 AGAAAAGTCTAGAGAAAAACTAA
2791722 A
1 A
2791723 CCTAAAACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.43
22 6 0.29
23 6 0.29
ACGTcount: A:0.62, C:0.07, G:0.18, T:0.13
Consensus pattern (23 bp):
AGAAAAGTCTAGAGAAAAACTAA
Found at i:2791995 original size:21 final size:22
Alignment explanation
Indices: 2791966--2792006 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
2791956 TCTTCTTTGG
*
2791966 GAGGTGGATATCGCGATACCCA
1 GAGGTGGATATCACGATACCCA
2791988 GAGG-GGATATCACGATACC
1 GAGGTGGATATCACGATACC
2792007 ACTGAATGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.29, C:0.22, G:0.32, T:0.17
Consensus pattern (22 bp):
GAGGTGGATATCACGATACCCA
Found at i:2794120 original size:42 final size:42
Alignment explanation
Indices: 2794061--2794144 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
2794051 CTACGAGTAT
* * *
2794061 GATTAATGATTAAATTGGTTAATTGTTCTATTGTGTTTTAAA
1 GATTAATAATTAAATTGGTTAATTGTTATATTATGTTTTAAA
2794103 GATTAATAATTAAATTGGTTAATTGTTATATTATGTTTTAAA
1 GATTAATAATTAAATTGGTTAATTGTTATATTATGTTTTAAA
2794145 TTTTATGTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.35, C:0.01, G:0.14, T:0.50
Consensus pattern (42 bp):
GATTAATAATTAAATTGGTTAATTGTTATATTATGTTTTAAA
Found at i:2794697 original size:21 final size:20
Alignment explanation
Indices: 2794671--2794709 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
2794661 GGGCTTTCCT
2794671 CTCCTCAAATCAAGCAAACAC
1 CTCCTCAAATCAAG-AAACAC
*
2794692 CTCCTCAAATTAAGAAAC
1 CTCCTCAAATCAAGAAAC
2794710 CGGCCACTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.44, C:0.33, G:0.05, T:0.18
Consensus pattern (20 bp):
CTCCTCAAATCAAGAAACAC
Found at i:2797913 original size:67 final size:58
Alignment explanation
Indices: 2797782--2797973 Score: 163
Period size: 61 Copynumber: 3.1 Consensus size: 58
2797772 CTTTAATATT
* *
2797782 AAATTAATATAATACTTATCAAGATAAATATTAGATTATATTTAATATTAAATCTATA
1 AAATTAATAGAATACTTATCAAGATAAATATTAAATTATATTTAATATTAAATCTATA
2797840 AAATTAATAGAATACTTATCTACAGGATAAATATTAAATT-TAATTTAATATTAAGATAATCACT
1 AAATTAATAGAATACTTATC-A-A-GATAAATATTAAATTAT-ATTTAATATT---A-AAT--C-
2797904 ATAATA
55 -T-ATA
* * * * *
2797910 TTAAATTAATAAAATA-TTATTAAGATAAGTATTAAATTAAATTTAATATTAAAACTATTA
1 --AAATTAATAGAATACTTATCAAGATAAATATTAAATTATATTTAATATTAAATCTA-TA
2797970 AAAT
1 AAAT
2797974 ATTTTTATTT
Statistics
Matches: 110, Mismatches: 7, Indels: 34
0.73 0.05 0.23
Matches are distributed among these distances:
58 23 0.21
59 2 0.02
60 5 0.05
61 24 0.22
62 1 0.01
64 3 0.03
65 4 0.04
67 1 0.01
68 24 0.22
69 2 0.02
70 4 0.04
71 4 0.04
72 13 0.12
ACGTcount: A:0.52, C:0.05, G:0.04, T:0.40
Consensus pattern (58 bp):
AAATTAATAGAATACTTATCAAGATAAATATTAAATTATATTTAATATTAAATCTATA
Found at i:2799160 original size:13 final size:13
Alignment explanation
Indices: 2799144--2799170 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2799134 TAAATCAGTT
2799144 AAATAAATACTAC
1 AAATAAATACTAC
2799157 AAATAAATACTAC
1 AAATAAATACTAC
2799170 A
1 A
2799171 CAAAATAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.15, G:0.00, T:0.22
Consensus pattern (13 bp):
AAATAAATACTAC
Found at i:2800873 original size:18 final size:17
Alignment explanation
Indices: 2800840--2800878 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
2800830 TTGTATAAAT
2800840 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
2800858 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
2800875 TGTG
1 TGTG
2800879 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:2801169 original size:45 final size:45
Alignment explanation
Indices: 2801105--2801194 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
2801095 GTGTTATTGA
* *
2801105 TCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACAT
1 TCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
2801150 TCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 TCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
2801195 ATCAATGTGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.19, C:0.21, G:0.27, T:0.33
Consensus pattern (45 bp):
TCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
Found at i:2801195 original size:23 final size:23
Alignment explanation
Indices: 2801104--2801198 Score: 165
Period size: 23 Copynumber: 4.2 Consensus size: 23
2801094 AGTGTTATTG
2801104 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
2801127 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
2801150 -TCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
2801172 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
2801195 ATCA
1 ATCA
2801199 ATGTGGCACT
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
22 21 0.31
23 47 0.69
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:2802613 original size:18 final size:18
Alignment explanation
Indices: 2802590--2802624 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2802580 CACAATACAT
2802590 AGTTTGGCAAATTAATAA
1 AGTTTGGCAAATTAATAA
* *
2802608 AGTTTGTCATATTAATA
1 AGTTTGGCAAATTAATA
2802625 CAGATCACCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.06, G:0.14, T:0.40
Consensus pattern (18 bp):
AGTTTGGCAAATTAATAA
Found at i:2803112 original size:28 final size:29
Alignment explanation
Indices: 2803049--2803124 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
2803039 ATAAATGCAT
*
2803049 ATATATTATATATAATAAAACCCACACAG
1 ATATATTATATATAACAAAACCCACACAG
* * *
2803078 ATCTATTATATATAGCAAAA-CCACGCAG
1 ATATATTATATATAACAAAACCCACACAG
2803106 ATATATTATACATATAACA
1 ATATATTAT--ATATAACA
2803125 CCCATGCACC
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
28 15 0.38
29 17 0.44
30 7 0.18
ACGTcount: A:0.49, C:0.17, G:0.05, T:0.29
Consensus pattern (29 bp):
ATATATTATATATAACAAAACCCACACAG
Found at i:2803178 original size:34 final size:32
Alignment explanation
Indices: 2803106--2803183 Score: 84
Period size: 34 Copynumber: 2.3 Consensus size: 32
2803096 AACCACGCAG
* *
2803106 ATATATTATACATATAACACCCATGCACCTAAAC
1 ATATATTAT--ATATAACACCCATACACATAAAC
* *
2803140 ATATATTATATATAACACCCATACATGCATATAT
1 ATATATTATATATAACACCCATACA--CATAAAC
2803174 ATATATTATA
1 ATATATTATA
2803184 AACACCAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
32 15 0.39
34 23 0.61
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.33
Consensus pattern (32 bp):
ATATATTATATATAACACCCATACACATAAAC
Found at i:2806782 original size:3 final size:3
Alignment explanation
Indices: 2806776--2806816 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
2806766 TATGGTCTTA
2806776 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2806817 AATAAAGTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:2808819 original size:23 final size:23
Alignment explanation
Indices: 2808793--2808915 Score: 176
Period size: 23 Copynumber: 5.3 Consensus size: 23
2808783 ATAAGTGCAA
*
2808793 CACTGATATGTAGCTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
2808816 CACTGTTATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
2808839 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
2808862 CACT-ATTATGTAGCCGAAGCTAC
1 CACTGA-TATGTAGCCGAAGCTAC
* *
2808885 CACTGAAACGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
2808908 CATCTGAT
1 CA-CTGAT
2808916 CAATAACACT
Statistics
Matches: 89, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
22 1 0.01
23 83 0.93
24 5 0.06
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:2808860 original size:46 final size:46
Alignment explanation
Indices: 2808793--2808909 Score: 198
Period size: 46 Copynumber: 2.5 Consensus size: 46
2808783 ATAAGTGCAA
* * *
2808793 CACTGATATGTAGCTGAAGCTACCACTGTTATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTATTATGTAGCCGAAGCTAC
2808839 CACTGAAATGTAGCCGAAGCTACCACTATTATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTATTATGTAGCCGAAGCTAC
*
2808885 CACTGAAACGTAGCCGAAGCTACCA
1 CACTGAAATGTAGCCGAAGCTACCA
2808910 TCTGATCAAT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 67 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCTACCACTATTATGTAGCCGAAGCTAC
Found at i:2814195 original size:61 final size:63
Alignment explanation
Indices: 2814129--2814266 Score: 160
Period size: 62 Copynumber: 2.2 Consensus size: 63
2814119 AAATACTCAT
* * *
2814129 TTTTTGTGATGTTTTTAT-T-CATCTTTTCATGACATTTTGTAAACATCA-CAAATAAGCAAA-
1 TTTTTGTGATGTTTTTATGTCCAACTTTTCATGACATCTT-TAAACATCACCAAATAAACAAAC
* * *
2814189 TATTTTGT-ATTTTTTTTTGTCCAACTTTTCATGACATCTTTAAGCATCACCAAATAAACAAAC
1 T-TTTTGTGATGTTTTTATGTCCAACTTTTCATGACATCTTTAAACATCACCAAATAAACAAAC
*
2814252 TTTTTGTGACGTTTT
1 TTTTTGTGATGTTTT
2814267 AATTGGTCAA
Statistics
Matches: 64, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
60 9 0.14
61 15 0.23
62 34 0.53
63 6 0.09
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.46
Consensus pattern (63 bp):
TTTTTGTGATGTTTTTATGTCCAACTTTTCATGACATCTTTAAACATCACCAAATAAACAAAC
Found at i:2818890 original size:22 final size:22
Alignment explanation
Indices: 2818842--2818892 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
2818832 ATTTAGGTAC
*
2818842 GATGCAGAACAGATCAGATACA
1 GATGCAGAACAAATCAGATACA
*
2818864 TATGCAGAACAAATCAGA-ATCA
1 GATGCAGAACAAATCAGATA-CA
2818886 GATGCAG
1 GATGCAG
2818893 TTTCCTACCC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 1 0.04
22 24 0.96
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.16
Consensus pattern (22 bp):
GATGCAGAACAAATCAGATACA
Found at i:2821170 original size:32 final size:32
Alignment explanation
Indices: 2821134--2821206 Score: 76
Period size: 34 Copynumber: 2.2 Consensus size: 32
2821124 GCTGAATCAA
* *
2821134 TAAAATTAAACCCATTTATAATT-TCTAAAAAT
1 TAAAATTAAACCAAATT-TAATTATCTAAAAAT
**
2821166 TAAAACAAAAACCAAATTTAATTCATCTAAAAAT
1 TAAAA-TTAAACCAAATTTAATT-ATCTAAAAAT
2821200 TAAAATT
1 TAAAATT
2821207 TTAAACGAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
32 10 0.31
33 8 0.25
34 14 0.44
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (32 bp):
TAAAATTAAACCAAATTTAATTATCTAAAAAT
Found at i:2821791 original size:24 final size:22
Alignment explanation
Indices: 2821764--2821818 Score: 56
Period size: 24 Copynumber: 2.4 Consensus size: 22
2821754 GAAAATAAAG
2821764 AAATAAAATGAAATAAGAAAATGA
1 AAATAAAATGAAA-AAGAAAAT-A
* *
2821788 AAATGAAAGTTAAAAAGAAAATA
1 AAAT-AAAATGAAAAAGAAAATA
*
2821811 AAAGAAAA
1 AAATAAAA
2821819 AGAATTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 3 0.12
23 4 0.15
24 12 0.46
25 7 0.27
ACGTcount: A:0.73, C:0.00, G:0.13, T:0.15
Consensus pattern (22 bp):
AAATAAAATGAAAAAGAAAATA
Found at i:2827172 original size:43 final size:43
Alignment explanation
Indices: 2827125--2827226 Score: 141
Period size: 43 Copynumber: 2.4 Consensus size: 43
2827115 GTCAGGATAT
* * *
2827125 TATTATGGGATATTATCTTTTAGCAAATTGATTCTTAATAGGA
1 TATTATAGGATATTATCTCTTAGCAAATTGATTCCTAATAGGA
* * * *
2827168 TATTATAAGATTTTATCTCTTAGCAATTTGATTCCTGATAGGA
1 TATTATAGGATATTATCTCTTAGCAAATTGATTCCTAATAGGA
2827211 TATTATAGGATATTAT
1 TATTATAGGATATTAT
2827227 TACGGGATAT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.45
Consensus pattern (43 bp):
TATTATAGGATATTATCTCTTAGCAAATTGATTCCTAATAGGA
Found at i:2828006 original size:48 final size:48
Alignment explanation
Indices: 2827952--2828047 Score: 165
Period size: 48 Copynumber: 2.0 Consensus size: 48
2827942 ATTAAATTAT
* *
2827952 TTTTAGGATAACATTTCATTTGGTACTTGTACTTTCATAAAATGTTTA
1 TTTTAGGATAACATCTCATTTAGTACTTGTACTTTCATAAAATGTTTA
*
2828000 TTTTAGGATAATATCTCATTTAGTACTTGTACTTTCATAAAATGTTTA
1 TTTTAGGATAACATCTCATTTAGTACTTGTACTTTCATAAAATGTTTA
2828048 ATGCGGTACT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.30, C:0.10, G:0.11, T:0.48
Consensus pattern (48 bp):
TTTTAGGATAACATCTCATTTAGTACTTGTACTTTCATAAAATGTTTA
Found at i:2828093 original size:29 final size:29
Alignment explanation
Indices: 2828038--2828094 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
2828028 GTACTTTCAT
* * **
2828038 AAAATGTTTAATGCGGTACTTGTATTTTG
1 AAAATGTTCAATGCGATACTTAAATTTTG
*
2828067 AAAATGTTCAGTGCGATACTTAAATTTT
1 AAAATGTTCAATGCGATACTTAAATTTT
2828095 CAATATGTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.42
Consensus pattern (29 bp):
AAAATGTTCAATGCGATACTTAAATTTTG
Found at i:2831244 original size:86 final size:86
Alignment explanation
Indices: 2831138--2831309 Score: 344
Period size: 86 Copynumber: 2.0 Consensus size: 86
2831128 TTTGTGGTTT
2831138 TGATACTTTTACAATTACGTCCAACTAATTGTTTCATTAGTTATTGATCTTATGGATGATTTTGA
1 TGATACTTTTACAATTACGTCCAACTAATTGTTTCATTAGTTATTGATCTTATGGATGATTTTGA
2831203 AAGTTACCATTGATGATTACA
66 AAGTTACCATTGATGATTACA
2831224 TGATACTTTTACAATTACGTCCAACTAATTGTTTCATTAGTTATTGATCTTATGGATGATTTTGA
1 TGATACTTTTACAATTACGTCCAACTAATTGTTTCATTAGTTATTGATCTTATGGATGATTTTGA
2831289 AAGTTACCATTGATGATTACA
66 AAGTTACCATTGATGATTACA
2831310 GAATTTTTAT
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 86 1.00
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.43
Consensus pattern (86 bp):
TGATACTTTTACAATTACGTCCAACTAATTGTTTCATTAGTTATTGATCTTATGGATGATTTTGA
AAGTTACCATTGATGATTACA
Found at i:2833227 original size:4 final size:4
Alignment explanation
Indices: 2833218--2833338 Score: 179
Period size: 4 Copynumber: 30.2 Consensus size: 4
2833208 AACAATTTGG
* *
2833218 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGC ATGT ATGT ATGT ATTT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * *
2833266 ATGT ATGT ATTT ATGT ATGT ATGT ATGT ATGT ATGT ATGT CTAT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
2833314 ATGT CTGT ATGT ATGT CTGT ATGT A
1 ATGT ATGT ATGT ATGT ATGT ATGT A
2833339 ACACCCCTTA
Statistics
Matches: 103, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 103 1.00
ACGTcount: A:0.24, C:0.03, G:0.22, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:2834691 original size:33 final size:33
Alignment explanation
Indices: 2834654--2834805 Score: 100
Period size: 33 Copynumber: 4.5 Consensus size: 33
2834644 AAGATATGAT
2834654 GGAATCAGCACTTAGCAACCACCAATGATTCGA
1 GGAATCAGCACTTAGCAACCACCAATGATTCGA
* * *
2834687 GGAATCAGCACTTAGC-AGC-CC--T--TTGGG
1 GGAATCAGCACTTAGCAACCACCAATGATTCGA
* * * * *
2834714 GGAATCAACACTTAGCAACGCCCTTCACATTTAAAATACGGT
1 GGAATCAGCACTTAGCAAC-CAC--CA-A--T--GATTC-GA
*
2834756 GGGATCAGCACTTAGCAACCACCAATGATTCGA
1 GGAATCAGCACTTAGCAACCACCAATGATTCGA
2834789 GGAATCAGCACTTAGCA
1 GGAATCAGCACTTAGCA
2834806 GCCCTTTGGG
Statistics
Matches: 89, Mismatches: 15, Indels: 30
0.66 0.11 0.22
Matches are distributed among these distances:
27 18 0.20
28 1 0.01
29 2 0.02
30 1 0.01
31 2 0.02
32 3 0.03
33 33 0.37
34 3 0.03
36 1 0.01
37 1 0.01
38 1 0.01
39 2 0.02
41 3 0.03
42 18 0.20
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.20
Consensus pattern (33 bp):
GGAATCAGCACTTAGCAACCACCAATGATTCGA
Found at i:2834786 original size:102 final size:102
Alignment explanation
Indices: 2834609--2834907 Score: 499
Period size: 102 Copynumber: 2.9 Consensus size: 102
2834599 CCAGTGATTC
* * * * * * *
2834609 GGGGAATCAGCACTTAGCAACTCCTTTCACATTAAAAGATATGATGGAATCAGCACTTAGCAACC
1 GGGGAATCAACACTTAGCAACGCCCTTCACATTTAAA-ATACGGTGGGATCAGCACTTAGCAACC
2834674 ACCAATGATTCGAGGAATCAGCACTTAGCAGCCCTTTG
65 ACCAATGATTCGAGGAATCAGCACTTAGCAGCCCTTTG
2834712 GGGGAATCAACACTTAGCAACGCCCTTCACATTTAAAATACGGTGGGATCAGCACTTAGCAACCA
1 GGGGAATCAACACTTAGCAACGCCCTTCACATTTAAAATACGGTGGGATCAGCACTTAGCAACCA
2834777 CCAATGATTCGAGGAATCAGCACTTAGCAGCCCTTTG
66 CCAATGATTCGAGGAATCAGCACTTAGCAGCCCTTTG
2834814 GGGGAATCAACACTTAGCAACGCCCTTCACATTTAAAATACGGTGGGATCAGCACTTAGCAACCA
1 GGGGAATCAACACTTAGCAACGCCCTTCACATTTAAAATACGGTGGGATCAGCACTTAGCAACCA
* * *
2834879 CCAATGAATCGGGGAATCAACACTTAGCA
66 CCAATGATTCGAGGAATCAGCACTTAGCA
2834908 ACCCCCTTTA
Statistics
Matches: 186, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
102 153 0.82
103 33 0.18
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.21
Consensus pattern (102 bp):
GGGGAATCAACACTTAGCAACGCCCTTCACATTTAAAATACGGTGGGATCAGCACTTAGCAACCA
CCAATGATTCGAGGAATCAGCACTTAGCAGCCCTTTG
Found at i:2834908 original size:33 final size:33
Alignment explanation
Indices: 2834861--2834986 Score: 126
Period size: 33 Copynumber: 3.5 Consensus size: 33
2834851 ATACGGTGGG
*
2834861 ATCAGCACTTAGCAACCACCAATGAATCGGGGA
1 ATCAACACTTAGCAACCACCAATGAATCGGGGA
* *
2834894 ATCAACACTTAGCAACCCCCTTTATATTCAAAGATACGGCGGA
1 ATCAACACTTAGCAACCACC---A-A-T--GA-AT-CGG-GGA
*
2834937 ATCAACACTTAGCAACCACCAATGAGTCGGGGA
1 ATCAACACTTAGCAACCACCAATGAATCGGGGA
2834970 ATCAACACTTAGCAACC
1 ATCAACACTTAGCAACC
2834987 CCTTGGGGGA
Statistics
Matches: 77, Mismatches: 6, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
33 38 0.49
34 3 0.04
35 1 0.01
36 2 0.03
37 1 0.01
38 2 0.03
39 1 0.01
40 2 0.03
41 2 0.03
42 3 0.04
43 22 0.29
ACGTcount: A:0.37, C:0.29, G:0.17, T:0.18
Consensus pattern (33 bp):
ATCAACACTTAGCAACCACCAATGAATCGGGGA
Found at i:2834961 original size:76 final size:75
Alignment explanation
Indices: 2834814--2834988 Score: 269
Period size: 76 Copynumber: 2.3 Consensus size: 75
2834804 CAGCCCTTTG
* * * * *
2834814 GGGGAATCAACACTTAGCAACGCCCTTCACATTTAAAATACGGTGGGATCAGCACTTAGCAACCA
1 GGGGAATCAACACTTAGCAACCCCCTTCACATTCAAAATACGGCGGAATCAACACTTAGCAACCA
2834879 CCAATGAATC
66 CCAATGAATC
* *
2834889 GGGGAATCAACACTTAGCAACCCCCTTTATATTCAAAGATACGGCGGAATCAACACTTAGCAACC
1 GGGGAATCAACACTTAGCAACCCCCTTCACATTCAAA-ATACGGCGGAATCAACACTTAGCAACC
*
2834954 ACCAATGAGTC
65 ACCAATGAATC
2834965 GGGGAATCAACACTTAGCAACCCC
1 GGGGAATCAACACTTAGCAACCCC
2834989 TTGGGGGAAT
Statistics
Matches: 91, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
75 33 0.36
76 58 0.64
ACGTcount: A:0.35, C:0.28, G:0.18, T:0.19
Consensus pattern (75 bp):
GGGGAATCAACACTTAGCAACCCCCTTCACATTCAAAATACGGCGGAATCAACACTTAGCAACCA
CCAATGAATC
Found at i:2842441 original size:33 final size:33
Alignment explanation
Indices: 2842394--2842519 Score: 101
Period size: 33 Copynumber: 3.5 Consensus size: 33
2842384 ATACGGTGGG
*
2842394 ATCAGCACTTAGCAACCACCAATGAATCGGGGA
1 ATCAACACTTAGCAACCACCAATGAATCGGGGA
*
2842427 ATCAACACTTAGCAACC-CTCTTTATATTCAAAGATACGGTGGA
1 ATCAACACTTAGCAACCAC-C---A-A-T--GA-AT-CGG-GGA
* * *
2842470 ATCAGCACTTAGCAACCACCAATGAGTCGAGGA
1 ATCAACACTTAGCAACCACCAATGAATCGGGGA
2842503 ATCAACACTTAGCAACC
1 ATCAACACTTAGCAACC
2842520 CCTTGGGGGA
Statistics
Matches: 74, Mismatches: 7, Indels: 24
0.70 0.07 0.23
Matches are distributed among these distances:
32 1 0.01
33 36 0.49
34 2 0.03
35 1 0.01
36 2 0.03
37 1 0.01
38 2 0.03
39 1 0.01
40 2 0.03
41 2 0.03
42 3 0.04
43 20 0.27
44 1 0.01
ACGTcount: A:0.37, C:0.27, G:0.17, T:0.20
Consensus pattern (33 bp):
ATCAACACTTAGCAACCACCAATGAATCGGGGA
Found at i:2842478 original size:76 final size:74
Alignment explanation
Indices: 2842242--2842523 Score: 360
Period size: 76 Copynumber: 3.8 Consensus size: 74
2842232 TAACCGTTAT
* * *
2842242 CGGTGGATTCAGCACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGA-TCGGGGAATCAACACTTAGCAACCCCTTT-AC
2842307 ATTCAAAGATA
64 ATTCAAAGATA
* * * * *
2842318 TGGTGGAATCAGCAATTAGCAGCC-CC--T--TGGGGGAATCAACACTTAGCAACCCCCTTCACA
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATCGGGGAATCAACACTTAGCAA-CCCCTTTACA
*
2842378 TTTAAA-ATA
65 TTCAAAGATA
* *
2842387 CGGTGGGATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAACACTTAGCAACCCTCTTTAT
1 CGGTGGAATCAGCACTTAGCAACCACCAATG-ATCGGGGAATCAACACTTAGCAACCC-CTTTAC
2842452 ATTCAAAGATA
64 ATTCAAAGATA
*
2842463 CGGTGGAATCAGCACTTAGCAACCACCAATGAGTCGAGGAATCAACACTTAGCAACCCCTT
1 CGGTGGAATCAGCACTTAGCAACCACCAATGA-TCGGGGAATCAACACTTAGCAACCCCTT
2842524 GGGGGAATCA
Statistics
Matches: 178, Mismatches: 18, Indels: 21
0.82 0.08 0.10
Matches are distributed among these distances:
69 23 0.13
70 30 0.17
71 6 0.03
72 1 0.01
73 1 0.01
74 3 0.02
75 37 0.21
76 77 0.43
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (74 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGATCGGGGAATCAACACTTAGCAACCCCTTTACAT
TCAAAGATA
Found at i:2842538 original size:27 final size:31
Alignment explanation
Indices: 2842467--2842548 Score: 91
Period size: 27 Copynumber: 2.7 Consensus size: 31
2842457 AAGATACGGT
2842467 GGAATCAGCACTTAGCAACCACCAATGAGTCGA
1 GGAATCAGCACTTAGCAACC-CCAATGAG-CGA
* *
2842500 GGAATCAACACTTAGCAACCCC-TTG-G-G-
1 GGAATCAGCACTTAGCAACCCCAATGAGCGA
*
2842527 GGAATCAGCACTAAGCAACCCC
1 GGAATCAGCACTTAGCAACCCC
2842549 CTTTATATTC
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
27 20 0.44
28 1 0.02
30 1 0.02
31 2 0.04
32 2 0.04
33 19 0.42
ACGTcount: A:0.34, C:0.30, G:0.21, T:0.15
Consensus pattern (31 bp):
GGAATCAGCACTTAGCAACCCCAATGAGCGA
Found at i:2843640 original size:11 final size:13
Alignment explanation
Indices: 2843612--2843643 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
2843602 GCCCAAACGT
2843612 CGAAATTTTCTAA
1 CGAAATTTTCTAA
2843625 CGAAATTTT-T-A
1 CGAAATTTTCTAA
2843636 CGAAATTT
1 CGAAATTT
2843644 CTCCGTGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 9 0.47
12 1 0.05
13 9 0.47
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (13 bp):
CGAAATTTTCTAA
Found at i:2843762 original size:4 final size:4
Alignment explanation
Indices: 2843753--2843792 Score: 80
Period size: 4 Copynumber: 10.0 Consensus size: 4
2843743 GGATATTAAA
2843753 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
2843793 TTGTGTATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:2844282 original size:56 final size:56
Alignment explanation
Indices: 2844191--2844303 Score: 217
Period size: 56 Copynumber: 2.0 Consensus size: 56
2844181 ACCAATATCG
2844191 TTCAATTATCAAATTAATTGTAAAAATACGCATGTAATTCAAAATGGAATAAAACA
1 TTCAATTATCAAATTAATTGTAAAAATACGCATGTAATTCAAAATGGAATAAAACA
*
2844247 TTCAATTATCAAATTAATTGTAAAAATACGTATGTAATTCAAAATGGAATAAAACA
1 TTCAATTATCAAATTAATTGTAAAAATACGCATGTAATTCAAAATGGAATAAAACA
2844303 T
1 T
2844304 ACATTTACGG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.50, C:0.10, G:0.09, T:0.32
Consensus pattern (56 bp):
TTCAATTATCAAATTAATTGTAAAAATACGCATGTAATTCAAAATGGAATAAAACA
Found at i:2854774 original size:43 final size:43
Alignment explanation
Indices: 2854713--2854850 Score: 138
Period size: 42 Copynumber: 3.5 Consensus size: 43
2854703 AGTGATTAGG
*
2854713 GGAATCAGCGCTTAGCAACCCCTTTCACATTCAATGATACGGT
1 GGAATCAGCACTTAGCAACCCCTTTCACATTCAATGATACGGT
*
2854756 GGAATCGGCACTTAGCAA---C---CAC---CAATGA-ATCGG-
1 GGAATCAGCACTTAGCAACCCCTTTCACATTCAATGATA-CGGT
* *
2854789 GGAATCAGCAGTTAGCAACCCCTTTCACATTTAA-GATACGGT
1 GGAATCAGCACTTAGCAACCCCTTTCACATTCAATGATACGGT
*
2854831 GGGATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
2854851 ACCAATGAAT
Statistics
Matches: 76, Mismatches: 7, Indels: 25
0.70 0.06 0.23
Matches are distributed among these distances:
33 17 0.22
34 9 0.12
36 1 0.01
37 3 0.04
39 3 0.04
40 1 0.01
41 5 0.07
42 21 0.28
43 16 0.21
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (43 bp):
GGAATCAGCACTTAGCAACCCCTTTCACATTCAATGATACGGT
Found at i:2854804 original size:76 final size:75
Alignment explanation
Indices: 2854676--2854887 Score: 318
Period size: 76 Copynumber: 2.8 Consensus size: 75
2854666 TATCCGTTAT
* * * *
2854676 CGGTGGATTCAGCACTTAGCAACCACCAGTGATTAGGGGAATCAGC-GCTTAGCAACCCCTTTCA
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCAG-TTAGCAACCCCTTTCA
2854740 CATTCAATGATA
65 CATTCAA-GATA
*
2854752 CGGTGGAATCGGCACTTAGCAACCACCAATGAATCGGGGAATCAGCAGTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCAGTTAGCAACCCCTTTCAC
*
2854817 ATTTAAGATA
66 ATTCAAGATA
* * *
2854827 CGGTGGGATCAGCACTTAGCAACCACCAATGAATCGAGGAATCAGCACTTAGCAACCCCTT
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCAGTTAGCAACCCCTT
2854888 GGGGGAATCA
Statistics
Matches: 125, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
75 61 0.49
76 63 0.50
77 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (75 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCAGTTAGCAACCCCTTTCAC
ATTCAAGATA
Found at i:2854858 original size:75 final size:76
Alignment explanation
Indices: 2854676--2854887 Score: 313
Period size: 75 Copynumber: 2.8 Consensus size: 76
2854666 TATCCGTTAT
* * *
2854676 CGGT-GGATTCAGCACTTAGCAACCACCAGTGATTAGGGGAATCAGC-GCTTAGCAACCCCTTTC
1 CGGTGGGA-TCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCAG-TTAGCAACCCCTTTC
2854739 ACATTCAATGATA
64 ACATTCAATGATA
* *
2854752 CGGTGGAATCGGCACTTAGCAACCACCAATGAATCGGGGAATCAGCAGTTAGCAACCCCTTTCAC
1 CGGTGGGATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCAGTTAGCAACCCCTTTCAC
*
2854817 ATTTAA-GATA
66 ATTCAATGATA
* *
2854827 CGGTGGGATCAGCACTTAGCAACCACCAATGAATCGAGGAATCAGCACTTAGCAACCCCTT
1 CGGTGGGATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCAGTTAGCAACCCCTT
2854888 GGGGGAATCA
Statistics
Matches: 124, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
75 61 0.49
76 60 0.48
77 3 0.02
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (76 bp):
CGGTGGGATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCAGTTAGCAACCCCTTTCAC
ATTCAATGATA
Found at i:2854908 original size:102 final size:102
Alignment explanation
Indices: 2854787--2855119 Score: 587
Period size: 102 Copynumber: 3.3 Consensus size: 102
2854777 CCAATGAATC
* * * * *
2854787 GGGGAATCAGCAGTTAGCAACCCCTTTCACATTTAAGATACGGTGGGATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGATGGAATCAGCACTTAGCAACCA
*
2854852 CCAATGAA-TCGAGGAATCAGCACTTAGCAACCCCTTG
66 CCAATGAATTAG-GGAATCAGCACTTAGCAACCCCTTG
2854889 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGATGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGATGGAATCAGCACTTAGCAACCA
2854954 CCAATGAATTAGGGAATCAGCACTTAGCAACCCCTTG
66 CCAATGAATTAGGGAATCAGCACTTAGCAACCCCTTG
2854991 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGATGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGATGGAATCAGCACTTAGCAACCA
2855056 CCAATGAATTAGGGAATCAGCACTTAGCAACCCCTTG
66 CCAATGAATTAGGGAATCAGCACTTAGCAACCCCTTG
*
2855093 GGGGAATCAGCACTTAGCAAACCCCTT
1 GGGGAATCAGCACTTAGCAACCCCCTT
2855120 TATATTCATT
Statistics
Matches: 223, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
102 221 0.99
103 2 0.01
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.20
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGATGGAATCAGCACTTAGCAACCA
CCAATGAATTAGGGAATCAGCACTTAGCAACCCCTTG
Found at i:2855097 original size:27 final size:28
Alignment explanation
Indices: 2855067--2855119 Score: 99
Period size: 27 Copynumber: 1.9 Consensus size: 28
2855057 CAATGAATTA
2855067 GGGAATCAGCACTTAGC-AACCCCTTGG
1 GGGAATCAGCACTTAGCAAACCCCTTGG
2855094 GGGAATCAGCACTTAGCAAACCCCTT
1 GGGAATCAGCACTTAGCAAACCCCTT
2855120 TATATTCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 17 0.68
28 8 0.32
ACGTcount: A:0.28, C:0.30, G:0.23, T:0.19
Consensus pattern (28 bp):
GGGAATCAGCACTTAGCAAACCCCTTGG
Found at i:2863612 original size:37 final size:37
Alignment explanation
Indices: 2863547--2863655 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
2863537 TACGTATGAT
* *
2863547 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
2863582 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
2863619 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
2863656 TAAAGCTATC
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
35 10 0.14
36 3 0.04
37 56 0.81
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:2863672 original size:46 final size:46
Alignment explanation
Indices: 2863619--2863841 Score: 248
Period size: 52 Copynumber: 4.6 Consensus size: 46
2863609 TAAGTGTAGC
* *
2863619 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTAT
* * *
2863665 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTAT
* * *
2863711 CACTTTTCACTTTTCACTTGTCACTTGATCAGATAAGTGTAACCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTAT
* *
2863763 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTAT
2863815 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
2863842 AGTACTCAAA
Statistics
Matches: 158, Mismatches: 12, Indels: 14
0.86 0.07 0.08
Matches are distributed among these distances:
46 68 0.43
49 1 0.01
50 1 0.01
51 3 0.02
52 85 0.54
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTAT
Done.