Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 91 of 182
Found at i:27476435 original size:249 final size:248
Alignment explanation
Indices: 27475978--27476460 Score: 598
Period size: 249 Copynumber: 1.9 Consensus size: 248
27475968 AGACACCAGA
* * **
27475978 CTTGCCTCCCTAGGTTGCAGCGGAGTAGGTTAAAAATAGCATATCTTGCCTTCCTGCACCGATGG
1 CTTGCCTCCCTAGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGAAAG
* * *
27476043 CAAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGATTGCAGTGGAGCAGGTTGAAGATAGCAG
66 CAAAGCAGATCAAAGACACAAGCCTTGCCTCCCTGGATTGCAGTAGAGCAGGTTGAAGATAGCAG
* ** ** *
27476108 ATCTTGCCTTCCTGTACTGACAGTTAAGCAGATCGAAGACACCGGACTTGCCTCCTTAGGTTGCA
131 ATCTTGCCTTCCTGCACTGACAGCAAAGCAGATCGAAGACACAAGACTTGCCTCCCTAGGTTGCA
27476173 GCGGAGCAGGTTGAAAA-ATAC-AGATCTTGCCTTCCTGCACCGATGGNCACAAGC
196 GCGGAGCAGGTTGAAAATA-ACGA-ATCTTGCCTTCCTGCACCGATGG-CACAAGC
* * * * * *
27476227 CTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGAAAG
1 CTTGCCTCCCTAGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGAAAG
* * * * *
27476292 CAAAGCAGATCAAAGACACAAGCCTTGCTTCTCTCGG-TTGTAGTAGAGTAGGTTGAAGATAGCG
66 CAAAGCAGATCAAAGACACAAGCCTTGCCTCCCT-GGATTGCAGTAGAGCAGGTTGAAGATAGCA
* * *
27476356 GATCTTGCCTTCCTGCA-TCGATAGCAAAGCAGATCGAAGAC-CAAAGCCTTGCCTCCCTCGGTT
130 GATCTTGCCTTCCTGCACT-GACAGCAAAGCAGATCGAAGACAC-AAGACTTGCCTCCCTAGGTT
* * * *
27476419 GTAGTGGAGTAGGTTGAAGATAACGAATCTTGCCTTCCTGCA
193 GCAGCGGAGCAGGTTGAAAATAACGAATCTTGCCTTCCTGCA
27476461 TCGACAGCAG
Statistics
Matches: 198, Mismatches: 31, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
248 2 0.01
249 192 0.97
250 4 0.02
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.24
Consensus pattern (248 bp):
CTTGCCTCCCTAGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGAAAG
CAAAGCAGATCAAAGACACAAGCCTTGCCTCCCTGGATTGCAGTAGAGCAGGTTGAAGATAGCAG
ATCTTGCCTTCCTGCACTGACAGCAAAGCAGATCGAAGACACAAGACTTGCCTCCCTAGGTTGCA
GCGGAGCAGGTTGAAAATAACGAATCTTGCCTTCCTGCACCGATGGCACAAGC
Found at i:27476609 original size:425 final size:424
Alignment explanation
Indices: 27475799--27476626 Score: 1028
Period size: 425 Copynumber: 2.0 Consensus size: 424
27475789 CGAAGACACT
* * *
27475799 AGCCTTGCCTCCCTGGATTACAGTGGAGCAGGTTGAAAATAACAGATCTTGTCTTCCTGTATTGA
1 AGCCTTGCCTCCCTGGATTACAGTGGAGCAGGTTGAAAATAACAGATCTTGCCTTCCTGCATCGA
* ** * * * *
27475864 CAGTTAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGGGTTACAGCGGAGCAGGTTAAAAATAG
66 AAGCAAAGCAGATCAAAGACACAAGCCTTGCCTTCCTCGGTTACAGCAGAGCAGGTTAAAAATAG
* ** *
27475929 CAGATCTTGCCTTCCTGTACTGACAGTTAAGCAGATCGAAGACACCAGACTTGCCTCCCTAGGTT
131 CAGATCTTGCCTTCCTGCACTGACAGCAAAGCAGATCGAAGACACAAGACTTGCCTCCCTAGGTT
* **
27475994 GCAGCGGAGTAGGTTAAAAATAGCATATCTTGCCTTCCTGCACCGATGGCAAAGCAGATCGAAGA
196 GCAGCGGAGTAGGTTAAAAATAACATATCTTGCCTTCCTGCACCGACAGCAAAGCAGATCGAAGA
* * * *
27476059 CACCAGCCTTGCCTCCCTGGATTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTA
261 CACCAGCCTTACCTCCCTGGATTGCAGTGGAGCAGGTTAAAGATAACAGATCTTGCCTTCCTGGA
** * *
27476124 CTGACAGTTAAGCAGATCGAAGACACCGGACTTGCCTCCTTAGGTTGCAGCGGAGCAGGTTGAAA
326 CTGACAGCGAAGCAGATCGAAGACACCAGACTTGCCTCCCTAGGTTGCAGCGGAGCAGGTT-AAA
27476189 AATA-CAGATCTTGCCTTCCTGCACCGATGGNCACA
390 AATAGCAGATCTTGCCTTCCTGCACCGATGG-CACA
** * *
27476224 AGCCTTGCCTCCCTCGG-TTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCG
1 AGCCTTGCCTCCCT-GGATTACAGTGGAGCAGGTTGAAAATAACAGATCTTGCCTTCCTGCATCG
** * * * *
27476288 AAAGCAAAGCAGATCAAAGACACAAGCCTTG-CTTCTCTCGGTTGTAGTAGAGTAGGTTGAAGAT
65 AAAGCAAAGCAGATCAAAGACACAAGCCTTGCCTTC-CTCGGTTACAGCAGAGCAGGTTAAAAAT
* * * *
27476352 AGCGGATCTTGCCTTCCTGCA-TCGATAGCAAAGCAGATCGAAGAC-CAAAGCCTTGCCTCCCTC
129 AGCAGATCTTGCCTTCCTGCACT-GACAGCAAAGCAGATCGAAGACAC-AAGACTTGCCTCCCTA
* * * * * *
27476415 GGTTGTAGTGGAGTAGGTTGAAGATAACGA-ATCTTGCCTTCCTGCATCGACAGCAGAGCAGATC
192 GGTTGCAGCGGAGTAGGTTAAAAATAAC-ATATCTTGCCTTCCTGCACCGACAGCAAAGCAGATC
*
27476479 GAAGACACCAGCCTTACCTCCCTTGG-TTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTT
256 GAAGACACCAGCCTTACCTCCC-TGGATTGCAGTGGAGCAGGTTAAAGATAACAGATCTTGCCTT
* * *
27476543 CCTGCGA-TGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTCGGTTGCGATG-GG-GC
320 CCTG-GACTGACAGCGAAGCAGATCGAAGACACCAGACTTGCCTCCCTAGGTTGC-A-GCGGAGC
* *
27476605 AGGTTAAAGATAGTAGATCTTG
382 AGGTTAAAAATAGCAGATCTTG
27476627 TCCCTAAGCA
Statistics
Matches: 342, Mismatches: 51, Indels: 20
0.83 0.12 0.05
Matches are distributed among these distances:
424 12 0.04
425 319 0.93
426 10 0.03
427 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.24
Consensus pattern (424 bp):
AGCCTTGCCTCCCTGGATTACAGTGGAGCAGGTTGAAAATAACAGATCTTGCCTTCCTGCATCGA
AAGCAAAGCAGATCAAAGACACAAGCCTTGCCTTCCTCGGTTACAGCAGAGCAGGTTAAAAATAG
CAGATCTTGCCTTCCTGCACTGACAGCAAAGCAGATCGAAGACACAAGACTTGCCTCCCTAGGTT
GCAGCGGAGTAGGTTAAAAATAACATATCTTGCCTTCCTGCACCGACAGCAAAGCAGATCGAAGA
CACCAGCCTTACCTCCCTGGATTGCAGTGGAGCAGGTTAAAGATAACAGATCTTGCCTTCCTGGA
CTGACAGCGAAGCAGATCGAAGACACCAGACTTGCCTCCCTAGGTTGCAGCGGAGCAGGTTAAAA
ATAGCAGATCTTGCCTTCCTGCACCGATGGCACA
Found at i:27476786 original size:128 final size:126
Alignment explanation
Indices: 27476618--27476871 Score: 481
Period size: 128 Copynumber: 2.0 Consensus size: 126
27476608 TTAAAGATAG
27476618 TAGATCTTGTCCCTAAGCAGTAGCGGAGTAGATCGAAGACGGCGAATCTTATCTTCAAGAGTAAG
1 TAGATCTTGTCCCTAAGCAGTAGCGGAGTAGATCGAAGACGGCGAATCTTATCTTCAAGAGTAAG
27476683 GAAGCAGATTTAAGCCACAAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAGAAATTA
66 GAAGCAGATTTAAGCCACAAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAGAAATTA
27476744 TAGATCTTGTCTCCCTAAGCAGTAGCGGAGTAGATCGAAGACGGCGAATCTTATCTTCAAGAGTA
1 TAGATCTTG--TCCCTAAGCAGTAGCGGAGTAGATCGAAGACGGCGAATCTTATCTTCAAGAGTA
*
27476809 AGGAAGCAGATTTAAGCCACAAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGGAAATTA
64 AGGAAGCAGATTTAAGCCACAAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAGAAATTA
27476872 CAAATCCTAT
Statistics
Matches: 125, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
126 9 0.07
128 116 0.93
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (126 bp):
TAGATCTTGTCCCTAAGCAGTAGCGGAGTAGATCGAAGACGGCGAATCTTATCTTCAAGAGTAAG
GAAGCAGATTTAAGCCACAAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAGAAATTA
Found at i:27478605 original size:24 final size:24
Alignment explanation
Indices: 27478578--27478627 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
27478568 TTACCTTTAA
*
27478578 ATTTCCCTTTAG-ATTTATTTATAT
1 ATTT-CCTTTAGAATTCATTTATAT
* *
27478602 ATTTTCTTTTGAATTCATTTATAT
1 ATTTCCTTTAGAATTCATTTATAT
27478626 AT
1 AT
27478628 ACACATACTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.26, C:0.10, G:0.04, T:0.60
Consensus pattern (24 bp):
ATTTCCTTTAGAATTCATTTATAT
Found at i:27491046 original size:7 final size:7
Alignment explanation
Indices: 27491034--27491067 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
27491024 TTAAATGAAT
27491034 TCATTTC
1 TCATTTC
27491041 TCATTTC
1 TCATTTC
27491048 TCATTT-
1 TCATTTC
27491054 TCATTT-
1 TCATTTC
27491060 TCATTTC
1 TCATTTC
27491067 T
1 T
27491068 GAGAAAACCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 12 0.46
7 14 0.54
ACGTcount: A:0.15, C:0.24, G:0.00, T:0.62
Consensus pattern (7 bp):
TCATTTC
Found at i:27492562 original size:96 final size:97
Alignment explanation
Indices: 27492397--27492590 Score: 354
Period size: 96 Copynumber: 2.0 Consensus size: 97
27492387 ATGTATGAAA
* *
27492397 CAACACAAATCAACCCCCAACAAATACCTTGATTGTCGTCCAACCCCTTGCATGATTCATGCATG
1 CAACACAAATCAACCCCCAACAAATACCTTGATTATCGTCCAACCCCTTGCATGACTCATGCATG
*
27492462 AAATCAAGCATGAATCAAGCAACCACTTAATC
66 AAATCAAGAATGAATCAAGCAACCACTTAATC
27492494 CAACACAAATCAA-CCCCAACAAATACCTTGATTATCGTCCAACCCCTTGCATGACTCATGCATG
1 CAACACAAATCAACCCCCAACAAATACCTTGATTATCGTCCAACCCCTTGCATGACTCATGCATG
27492558 AAATCAAGAATGAATCAAGCAACCACTTAATC
66 AAATCAAGAATGAATCAAGCAACCACTTAATC
27492590 C
1 C
27492591 TCATCCCACA
Statistics
Matches: 94, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
96 81 0.86
97 13 0.14
ACGTcount: A:0.38, C:0.31, G:0.10, T:0.21
Consensus pattern (97 bp):
CAACACAAATCAACCCCCAACAAATACCTTGATTATCGTCCAACCCCTTGCATGACTCATGCATG
AAATCAAGAATGAATCAAGCAACCACTTAATC
Found at i:27494728 original size:17 final size:17
Alignment explanation
Indices: 27494706--27494738 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
27494696 TCCCAGATTT
27494706 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
27494723 TGATACCCATATCTTT
1 TGATACCCATATCTTT
27494739 GACTTCCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.27, G:0.06, T:0.42
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:27495648 original size:37 final size:37
Alignment explanation
Indices: 27495598--27495779 Score: 184
Period size: 46 Copynumber: 4.4 Consensus size: 37
27495588 TGCCACTGGT
*
27495598 TCAGATAAGTGTAGCCACTTATCACTTTGTTTCTTGA
1 TCAGATAAGTGTAGCCACTTATCACTTTGTCTCTTGA
27495635 TCAGATAAGTGTAGCCACTTATCACTTTGTCTCTTGA
1 TCAGATAAGTGTAGCCACTTATCACTTTGTCTCTTGA
27495672 TCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTTGA
1 TCAGATAA--GT-G-T--AGC---CACTTATCACTTTGTCTCTTGA
27495718 TCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTTGA
1 TCAGATAA--GT-G-T--AGC---CACTTATCACTTTGTCTCTTGA
*
27495764 TCAGATAAGTATAGCC
1 TCAGATAAGTGTAGCC
27495780 GTAGCTATCA
Statistics
Matches: 134, Mismatches: 2, Indels: 18
0.87 0.01 0.12
Matches are distributed among these distances:
37 45 0.34
39 2 0.01
40 4 0.03
41 1 0.01
42 1 0.01
43 3 0.02
44 2 0.01
46 76 0.57
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (37 bp):
TCAGATAAGTGTAGCCACTTATCACTTTGTCTCTTGA
Found at i:27495703 original size:46 final size:46
Alignment explanation
Indices: 27495650--27496062 Score: 520
Period size: 46 Copynumber: 8.6 Consensus size: 46
27495640 TAAGTGTAGC
* *
27495650 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* *
27495696 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* * * *
27495742 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGTAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
27495788 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* *
27495840 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
*
27495886 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* *
27495938 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* * *
27495984 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
27496036 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
27496063 AGTACTCAAA
Statistics
Matches: 327, Mismatches: 22, Indels: 36
0.85 0.06 0.09
Matches are distributed among these distances:
46 198 0.61
48 2 0.01
49 2 0.01
50 2 0.01
52 123 0.38
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.36
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
Found at i:27495850 original size:98 final size:98
Alignment explanation
Indices: 27495650--27496062 Score: 667
Period size: 98 Copynumber: 4.3 Consensus size: 98
27495640 TAAGTGTAGC
* * **
27495650 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCAC--T----TT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTT
*
27495709 GTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
* * *
27495742 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGTAGCTATCACTTATCACTTTTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTT
*
27495807 GTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
*
27495840 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTT
*
27495905 GTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
*
27495938 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTT
*
27496003 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
66 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
27496036 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
27496063 AGTACTCAAA
Statistics
Matches: 303, Mismatches: 12, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
92 52 0.17
94 1 0.00
98 250 0.83
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.36
Consensus pattern (98 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTT
GTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
Found at i:27499852 original size:17 final size:17
Alignment explanation
Indices: 27499826--27499858 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
27499816 TCCCAGATTT
*
27499826 TGATATCCATATCTTTC
1 TGATACCCATATCTTTC
27499843 TGATACCCATATCTTT
1 TGATACCCATATCTTT
27499859 GACTTTCTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.24, G:0.06, T:0.45
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:27506484 original size:6 final size:6
Alignment explanation
Indices: 27506475--27506510 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
27506465 GAATTTGAAC
27506475 TATTTT TATTTT TA-TTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT T
27506511 TAGATTTGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.17
6 24 0.83
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TATTTT
Found at i:27506497 original size:17 final size:17
Alignment explanation
Indices: 27506475--27506509 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
27506465 GAATTTGAAC
27506475 TATTTTTATTTTTATTT
1 TATTTTTATTTTTATTT
27506492 TATTTTTATTTTTATTT
1 TATTTTTATTTTTATTT
27506509 T
1 T
27506510 TTAGATTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (17 bp):
TATTTTTATTTTTATTT
Found at i:27543705 original size:6 final size:6
Alignment explanation
Indices: 27543687--27543736 Score: 57
Period size: 6 Copynumber: 8.2 Consensus size: 6
27543677 TGCAAATAAA
* *
27543687 TCATTT CTCATTT TCATTT TCATTT TCA-TT TCAATTT CCATTT CCATTT
1 TCATTT -TCATTT TCATTT TCATTT TCATTT TC-ATTT TCATTT TCATTT
27543736 T
1 T
27543737 GAGAAAACCA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
5 4 0.10
6 26 0.67
7 9 0.23
ACGTcount: A:0.18, C:0.22, G:0.00, T:0.60
Consensus pattern (6 bp):
TCATTT
Found at i:27543850 original size:21 final size:19
Alignment explanation
Indices: 27543807--27543854 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
27543797 CATTTCTGAA
27543807 TATTTTTCATTTCTCTCTT
1 TATTTTTCATTTCTCTCTT
*
27543826 TATTTTTCATTTCTCTATT
1 TATTTTTCATTTCTCTCTT
*
27543845 T-TTATTCATT
1 TATTTTTCATT
27543855 ATGTTCATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 8 0.30
19 19 0.70
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.69
Consensus pattern (19 bp):
TATTTTTCATTTCTCTCTT
Found at i:27557139 original size:97 final size:96
Alignment explanation
Indices: 27556992--27557202 Score: 273
Period size: 97 Copynumber: 2.2 Consensus size: 96
27556982 AATATTTTTT
* * * ** * *
27556992 AAATTAGATTA-GGTTTCGTGTTTATTGTTTTTAAGAAAAAATCAATTAAATTAGGATTTAGGGT
1 AAATTAGATTAGGGTTTAGAGTTAAAGGTTTTTAAGAAAAAATCAAATAAATTAGGATTCAGGGT
*
27557056 TACTTGAGTAATTTAATTAAAAAAAAATTT-AA
66 TACTTGAGTAAATTAATT--AAAAAAATTTAAA
* *
27557088 AAATTAGATTAGGGTTTAGAGTTAAAGGTTTTTAAGGAAAAATCAAATAAATTAGGGTTCAGGGT
1 AAATTAGATTAGGGTTTAGAGTTAAAGGTTTTTAAGAAAAAATCAAATAAATTAGGATTCAGGGT
* **
27557153 TACTTGAGTAAATTAATTATAAATTTTTAAA
66 TACTTGAGTAAATTAATTAAAAAAATTTAAA
27557184 AAATTAGATTAGGGTTTAG
1 AAATTAGATTAGGGTTTAG
27557203 GGTTTTTAAG
Statistics
Matches: 100, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
95 7 0.07
96 32 0.32
97 61 0.61
ACGTcount: A:0.41, C:0.03, G:0.18, T:0.38
Consensus pattern (96 bp):
AAATTAGATTAGGGTTTAGAGTTAAAGGTTTTTAAGAAAAAATCAAATAAATTAGGATTCAGGGT
TACTTGAGTAAATTAATTAAAAAAATTTAAA
Found at i:27557814 original size:18 final size:18
Alignment explanation
Indices: 27557788--27557830 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
27557778 GACTAGAAAA
* * *
27557788 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
27557806 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
27557824 AGGATAC
1 AGGATAC
27557831 TCAATTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:27558495 original size:7 final size:7
Alignment explanation
Indices: 27558485--27558510 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
27558475 CATAATACAT
27558485 AATACTA
1 AATACTA
27558492 AATACTA
1 AATACTA
27558499 AATACTA
1 AATACTA
27558506 AATAC
1 AATAC
27558511 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:27560495 original size:7 final size:7
Alignment explanation
Indices: 27560485--27560510 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
27560475 CATAATACAT
27560485 AATACTA
1 AATACTA
27560492 AATACTA
1 AATACTA
27560499 AATACTA
1 AATACTA
27560506 AATAC
1 AATAC
27560511 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:27564682 original size:23 final size:23
Alignment explanation
Indices: 27564651--27564697 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
27564641 GGGAAAGATA
*
27564651 AGTTCTTTCTTATCTTTCTCACG
1 AGTTCTTTCTCATCTTTCTCACG
*
27564674 AGTTGTTTCTCATCTTTCTCACG
1 AGTTCTTTCTCATCTTTCTCACG
27564697 A
1 A
27564698 AAGATTGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.15, C:0.26, G:0.11, T:0.49
Consensus pattern (23 bp):
AGTTCTTTCTCATCTTTCTCACG
Found at i:27571291 original size:12 final size:12
Alignment explanation
Indices: 27571274--27571298 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27571264 CTGGTCTGGA
27571274 AGCTGCTTCAAC
1 AGCTGCTTCAAC
27571286 AGCTGCTTCAAC
1 AGCTGCTTCAAC
27571298 A
1 A
27571299 ATGAGGGATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (12 bp):
AGCTGCTTCAAC
Found at i:27571462 original size:22 final size:21
Alignment explanation
Indices: 27571399--27571462 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
27571389 TTGCTTCCTT
*
27571399 AACACGCTCCAGGATTTCTTG
1 AACACGCTCCAGGATTTCTTC
* * *
27571420 TACATGCTTCAGGATTTCTTC
1 AACACGCTCCAGGATTTCTTC
*
27571441 AACGCGCTCCAGGATTTTCTTC
1 AACACGCTCCAGGA-TTTCTTC
27571463 TGCAGTTCAG
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
21 27 0.79
22 7 0.21
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.34
Consensus pattern (21 bp):
AACACGCTCCAGGATTTCTTC
Found at i:27574327 original size:16 final size:16
Alignment explanation
Indices: 27574302--27574370 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
27574292 TTTGGTTTGC
27574302 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
27574318 TGTGTTGGATTAGAGG
1 TGTATTGGATTAGAGG
27574334 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
27574351 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
27574367 TGTA
1 TGTA
27574371 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.23, C:0.00, G:0.39, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:27574348 original size:33 final size:32
Alignment explanation
Indices: 27574302--27574370 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
27574292 TTTGGTTTGC
*
27574302 TGTATTGGATTAGAGGTGTGTTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
27574334 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
27574367 TGTA
1 TGTA
27574371 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.23, C:0.00, G:0.39, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:27574435 original size:44 final size:45
Alignment explanation
Indices: 27574351--27574441 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
27574341 GGATTAGAGG
* * *
27574351 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
27574396 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
27574440 TG
1 TG
27574442 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:27574627 original size:18 final size:17
Alignment explanation
Indices: 27574606--27574640 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
27574596 TTATTATTAA
*
27574606 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
27574624 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
27574641 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:27574668 original size:51 final size:51
Alignment explanation
Indices: 27574613--27574787 Score: 134
Period size: 51 Copynumber: 3.1 Consensus size: 51
27574603 TAAATATATT
27574613 TTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATA
1 TTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATA
* * * *
27574664 TTAATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAACATAATTATTATTAAATA
1 TTAA-TTA---AAAT-AT-ATA-AT-TTA--ATAAAAT-T--CTT-A-ATAATTAATATT--CT-
*
27574729 TATT
48 TATA
*
27574733 TTAATTAAAATATATAATTTAATAAAATTCTTAACAATTAATATTCTTATA
1 TTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATA
27574784 TTAA
1 TTAA
27574788 GAGATCTCCA
Statistics
Matches: 95, Mismatches: 11, Indels: 36
0.67 0.08 0.25
Matches are distributed among these distances:
51 11 0.12
52 4 0.04
54 10 0.11
55 5 0.05
56 4 0.04
57 3 0.03
58 3 0.03
59 9 0.09
61 9 0.09
62 3 0.03
63 3 0.03
64 4 0.04
65 5 0.05
66 11 0.12
68 4 0.04
69 7 0.07
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.45
Consensus pattern (51 bp):
TTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATA
Found at i:27574747 original size:18 final size:17
Alignment explanation
Indices: 27574726--27574760 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
27574716 TTATTATTAA
*
27574726 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
27574744 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
27574761 TCTTAACAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:27580862 original size:20 final size:20
Alignment explanation
Indices: 27580837--27580875 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
27580827 CACGTGGGAT
27580837 GAATGTCT-TCGATGGGACAA
1 GAATGTCTGT-GATGGGACAA
27580857 GAATGTCTGTGATGGGACA
1 GAATGTCTGTGATGGGACA
27580876 GATATTGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.28, C:0.13, G:0.33, T:0.26
Consensus pattern (20 bp):
GAATGTCTGTGATGGGACAA
Found at i:27582852 original size:22 final size:22
Alignment explanation
Indices: 27582820--27582861 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
27582810 TATATAAGCA
* *
27582820 ATATTATTTGAATAGTTATGAG
1 ATATTAGTTGAATAATTATGAG
27582842 ATATTAGTTGAATAATTATG
1 ATATTAGTTGAATAATTATG
27582862 TCACTTTTAA
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:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (22 bp):
ATATTAGTTGAATAATTATGAG
Found at i:27586410 original size:63 final size:63
Alignment explanation
Indices: 27586288--27586518 Score: 272
Period size: 63 Copynumber: 3.7 Consensus size: 63
27586278 TCTTCGTAGC
* * * * ** * *
27586288 AAACATACATTCAGATAATATATATATATATAATTCATACAATTAAATTCTACTTATAGAACTCA
1 AAACATACATTCGGCTAACATAT-T-TATATAATTCATAAAATTAGTTTCAACTCATAGAACTCA
* * *
27586353 AAAAATACATTCGGCTAACATATTTATATAATTTATAAAATTTGTTTCAACTCATAGAACTCA
1 AAACATACATTCGGCTAACATATTTATATAATTCATAAAATTAGTTTCAACTCATAGAACTCA
* * * *
27586416 AAACATACACT-GGCTAACATATTTATAT--TTCATACAATTAGTTTCAACTTATCA-AACTTA
1 AAACATACATTCGGCTAACATATTTATATAATTCATAAAATTAGTTTCAACTCAT-AGAACTCA
27586476 AAACATACATTCGGCTAACATATTTATATAATTCATAAAATTA
1 AAACATACATTCGGCTAACATATTTATATAATTCATAAAATTA
27586519 AATTCAGCTT
Statistics
Matches: 142, Mismatches: 20, Indels: 10
0.83 0.12 0.06
Matches are distributed among these distances:
60 35 0.25
61 18 0.13
62 17 0.12
63 52 0.37
64 1 0.01
65 19 0.13
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.36
Consensus pattern (63 bp):
AAACATACATTCGGCTAACATATTTATATAATTCATAAAATTAGTTTCAACTCATAGAACTCA
Found at i:27588137 original size:27 final size:27
Alignment explanation
Indices: 27588106--27588171 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 27
27588096 TGCCCTCCTT
*
27588106 CATCTTCTCCTTCACTTTATTGCCAAC
1 CATCTTCTCCTTCACTTCATTGCCAAC
** * * *
27588133 CATC-TCTGTTTCCCTTCCTTTCCAAC
1 CATCTTCTCCTTCACTTCATTGCCAAC
27588159 CATCTTCTCCTTC
1 CATCTTCTCCTTC
27588172 TGTAACTTTC
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
26 20 0.67
27 10 0.33
ACGTcount: A:0.14, C:0.41, G:0.03, T:0.42
Consensus pattern (27 bp):
CATCTTCTCCTTCACTTCATTGCCAAC
Found at i:27590878 original size:18 final size:17
Alignment explanation
Indices: 27590852--27590887 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
27590842 TTTGGTTATA
27590852 TTTAATTTTCGATATGTT
1 TTTAATTTT-GATATGTT
*
27590870 TTTATTTTTGATATGTT
1 TTTAATTTTGATATGTT
27590887 T
1 T
27590888 CATTTAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.19, C:0.03, G:0.11, T:0.67
Consensus pattern (17 bp):
TTTAATTTTGATATGTT
Found at i:27594536 original size:33 final size:34
Alignment explanation
Indices: 27594478--27594553 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 34
27594468 GATAGTATTA
*
27594478 TATATTATGATTTTAGTAAATTCATA-TAATAAT
1 TATATTAAGATTTTAGTAAATTCATATTAATAAT
*
27594511 TATATTAAGAATTTTATTAAA-TCATATTTAATAAT
1 TATATTAAG-ATTTTAGTAAATTCATA-TTAATAAT
*
27594546 TATGTTAA
1 TATATTAA
27594554 AATATGAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 13 0.35
34 10 0.27
35 14 0.38
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (34 bp):
TATATTAAGATTTTAGTAAATTCATATTAATAAT
Found at i:27594590 original size:24 final size:24
Alignment explanation
Indices: 27594561--27594612 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
27594551 TAAAATATGA
27594561 ATAAATTATTTATTGTTTTTATTC
1 ATAAATTATTTATTGTTTTTATTC
27594585 ATAAATTATTTATTGTTTTTATTC
1 ATAAATTATTTATTGTTTTTATTC
27594609 ATAA
1 ATAA
27594613 TCTTATTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.60
Consensus pattern (24 bp):
ATAAATTATTTATTGTTTTTATTC
Found at i:27594805 original size:45 final size:43
Alignment explanation
Indices: 27594722--27594807 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
27594712 AACATCATTC
**
27594722 CATTCAACCAAACACAAGAATACTATTACAGTTCTATTCCACT
1 CATTCAACCAAACACAAGAATACTATTACAACTCTATTCCACT
27594765 CATTCAACCAAACA-ATTA-AATTACTTATTACAACTCTATTCCA
1 CATTCAACCAAACACA--AGAA-TAC-TATTACAACTCTATTCCA
27594808 TTACAGTGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
42 1 0.03
43 16 0.43
44 4 0.11
45 16 0.43
ACGTcount: A:0.41, C:0.27, G:0.02, T:0.30
Consensus pattern (43 bp):
CATTCAACCAAACACAAGAATACTATTACAACTCTATTCCACT
Found at i:27614529 original size:40 final size:40
Alignment explanation
Indices: 27614480--27614559 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 40
27614470 CCTTTCAGGG
27614480 CTCGCGACCTCATCCCTACGAGGCTTACGCAAGCTCCCCT
1 CTCGCGACCTCATCCCTACGAGGCTTACGCAAGCTCCCCT
* * * * * * *
27614520 CTCGTGACCTTATTCTTGCGAGGCTTACGCGAGCTTCCCT
1 CTCGCGACCTCATCCCTACGAGGCTTACGCAAGCTCCCCT
27614560 TACGGGCTTC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.15, C:0.39, G:0.20, T:0.26
Consensus pattern (40 bp):
CTCGCGACCTCATCCCTACGAGGCTTACGCAAGCTCCCCT
Found at i:27619055 original size:21 final size:21
Alignment explanation
Indices: 27619031--27619070 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
27619021 AGCATTCTAC
27619031 CATGAACTTCATCTATTCCCT
1 CATGAACTTCATCTATTCCCT
*
27619052 CATGAACTTCATCTGTTCC
1 CATGAACTTCATCTATTCC
27619071 TGGAGGACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.33, G:0.07, T:0.38
Consensus pattern (21 bp):
CATGAACTTCATCTATTCCCT
Found at i:27620747 original size:470 final size:470
Alignment explanation
Indices: 27619867--27620806 Score: 1880
Period size: 470 Copynumber: 2.0 Consensus size: 470
27619857 TCACGCACAC
27619867 AGTTGGGTCGAAAAGTTTTGCTTGTGTAGCTGATGACGAGGTATTTTGAATTTATTAATTGTGTC
1 AGTTGGGTCGAAAAGTTTTGCTTGTGTAGCTGATGACGAGGTATTTTGAATTTATTAATTGTGTC
27619932 AAATATTAATTACTTTCTACTAAATAATATTTTTCCTACTATATTGTAGGAACTATCGTCTGGTC
66 AAATATTAATTACTTTCTACTAAATAATATTTTTCCTACTATATTGTAGGAACTATCGTCTGGTC
27619997 AAAAAGTTGGACGCCTTTAGCTTTTTGACATTACACATAGAAAGAAAGATAGATTTCTTGTGGCT
131 AAAAAGTTGGACGCCTTTAGCTTTTTGACATTACACATAGAAAGAAAGATAGATTTCTTGTGGCT
27620062 ACTGAAGTTGCAGAAATTATGGTATATTTACTTAATAAAATTTGAATTATTTTAAATATTTATCA
196 ACTGAAGTTGCAGAAATTATGGTATATTTACTTAATAAAATTTGAATTATTTTAAATATTTATCA
27620127 TGTTTAATTATAATGGTTTAATTCGTCGTTTGTAATGCAAATAATGCCAAGTTATGTTGCATTTG
261 TGTTTAATTATAATGGTTTAATTCGTCGTTTGTAATGCAAATAATGCCAAGTTATGTTGCATTTG
27620192 CTTGATTATATATTTCGTTTCTAACTCCTTAATTGATTTATTAGAAGAAGTTAAAGGATAAAAGG
326 CTTGATTATATATTTCGTTTCTAACTCCTTAATTGATTTATTAGAAGAAGTTAAAGGATAAAAGG
27620257 GCGGAGTATGAAGCTACGGCTTCAAGTGATAGTTCTATTAATTTGGACGACATTGATAATTGAGT
391 GCGGAGTATGAAGCTACGGCTTCAAGTGATAGTTCTATTAATTTGGACGACATTGATAATTGAGT
27620322 TATTACTGAAGTTTT
456 TATTACTGAAGTTTT
27620337 AGTTGGGTCGAAAAGTTTTGCTTGTGTAGCTGATGACGAGGTATTTTGAATTTATTAATTGTGTC
1 AGTTGGGTCGAAAAGTTTTGCTTGTGTAGCTGATGACGAGGTATTTTGAATTTATTAATTGTGTC
27620402 AAATATTAATTACTTTCTACTAAATAATATTTTTCCTACTATATTGTAGGAACTATCGTCTGGTC
66 AAATATTAATTACTTTCTACTAAATAATATTTTTCCTACTATATTGTAGGAACTATCGTCTGGTC
27620467 AAAAAGTTGGACGCCTTTAGCTTTTTGACATTACACATAGAAAGAAAGATAGATTTCTTGTGGCT
131 AAAAAGTTGGACGCCTTTAGCTTTTTGACATTACACATAGAAAGAAAGATAGATTTCTTGTGGCT
27620532 ACTGAAGTTGCAGAAATTATGGTATATTTACTTAATAAAATTTGAATTATTTTAAATATTTATCA
196 ACTGAAGTTGCAGAAATTATGGTATATTTACTTAATAAAATTTGAATTATTTTAAATATTTATCA
27620597 TGTTTAATTATAATGGTTTAATTCGTCGTTTGTAATGCAAATAATGCCAAGTTATGTTGCATTTG
261 TGTTTAATTATAATGGTTTAATTCGTCGTTTGTAATGCAAATAATGCCAAGTTATGTTGCATTTG
27620662 CTTGATTATATATTTCGTTTCTAACTCCTTAATTGATTTATTAGAAGAAGTTAAAGGATAAAAGG
326 CTTGATTATATATTTCGTTTCTAACTCCTTAATTGATTTATTAGAAGAAGTTAAAGGATAAAAGG
27620727 GCGGAGTATGAAGCTACGGCTTCAAGTGATAGTTCTATTAATTTGGACGACATTGATAATTGAGT
391 GCGGAGTATGAAGCTACGGCTTCAAGTGATAGTTCTATTAATTTGGACGACATTGATAATTGAGT
27620792 TATTACTGAAGTTTT
456 TATTACTGAAGTTTT
27620807 GGGTCCTGAA
Statistics
Matches: 470, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
470 470 1.00
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.40
Consensus pattern (470 bp):
AGTTGGGTCGAAAAGTTTTGCTTGTGTAGCTGATGACGAGGTATTTTGAATTTATTAATTGTGTC
AAATATTAATTACTTTCTACTAAATAATATTTTTCCTACTATATTGTAGGAACTATCGTCTGGTC
AAAAAGTTGGACGCCTTTAGCTTTTTGACATTACACATAGAAAGAAAGATAGATTTCTTGTGGCT
ACTGAAGTTGCAGAAATTATGGTATATTTACTTAATAAAATTTGAATTATTTTAAATATTTATCA
TGTTTAATTATAATGGTTTAATTCGTCGTTTGTAATGCAAATAATGCCAAGTTATGTTGCATTTG
CTTGATTATATATTTCGTTTCTAACTCCTTAATTGATTTATTAGAAGAAGTTAAAGGATAAAAGG
GCGGAGTATGAAGCTACGGCTTCAAGTGATAGTTCTATTAATTTGGACGACATTGATAATTGAGT
TATTACTGAAGTTTT
Found at i:27621093 original size:66 final size:66
Alignment explanation
Indices: 27620982--27621125 Score: 200
Period size: 66 Copynumber: 2.2 Consensus size: 66
27620972 GCAAATCGCT
** * * * *
27620982 CAACTTAAAGCGGATGCAGCATCGAGAGAAGCAGTGGCTAAAAGAAAATATGATGAACTCCAGCT
1 CAACTTAAAATGGAGGCAGCAGCGAGAGAAGCAGAGGCTAAAAGAAAATATGACGAACTCCAGCT
27621047 A
66 A
*
27621048 CAACTTAAAATGGAGGCAGCAGCGAGGGAAGCAGAGGC-AACAAGAAAATATGACGAACTCCAGC
1 CAACTTAAAATGGAGGCAGCAGCGAGAGAAGCAGAGGCTAA-AAGAAAATATGACGAACTCCAGC
27621112 TA
65 TA
27621114 CAACTTCAAAAT
1 CAACTT-AAAAT
27621126 ATGATAGAGA
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
65 2 0.03
66 62 0.90
67 5 0.07
ACGTcount: A:0.42, C:0.19, G:0.24, T:0.15
Consensus pattern (66 bp):
CAACTTAAAATGGAGGCAGCAGCGAGAGAAGCAGAGGCTAAAAGAAAATATGACGAACTCCAGCT
A
Found at i:27621491 original size:44 final size:44
Alignment explanation
Indices: 27621401--27621497 Score: 126
Period size: 44 Copynumber: 2.2 Consensus size: 44
27621391 GCGTTTTCCC
* *
27621401 ACAAACGCCGCTATAGAACATGATCTTTAGCTACACTTTTTACT
1 ACAAACGCCGCTAAAGAACATGATCTTTAGCTACACTTTCTACT
* *
27621445 ACAAACGCCGCTAAAGAACATGATCTTTTGC-AGCGC-TTCTAGCT
1 ACAAACGCCGCTAAAGAACATGATCTTTAGCTA-CACTTTCTA-CT
27621489 ACAAACGCC
1 ACAAACGCC
27621498 ACAACATGTT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
43 5 0.11
44 42 0.89
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (44 bp):
ACAAACGCCGCTAAAGAACATGATCTTTAGCTACACTTTCTACT
Found at i:27623548 original size:23 final size:23
Alignment explanation
Indices: 27623522--27623568 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
27623512 CAAATAATTC
*
27623522 AAAAGTTCAAAAAATTTTAAAAT
1 AAAAGTTCAAAAAATTCTAAAAT
* **
27623545 AAAATTTTTAAAAATTCTAAAAT
1 AAAAGTTCAAAAAATTCTAAAAT
27623568 A
1 A
27623569 TATAAATTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (23 bp):
AAAAGTTCAAAAAATTCTAAAAT
Found at i:27623650 original size:17 final size:16
Alignment explanation
Indices: 27623622--27623677 Score: 64
Period size: 17 Copynumber: 3.5 Consensus size: 16
27623612 GAAAATTTTA
27623622 TTTAAAAATAAAAAAT
1 TTTAAAAATAAAAAAT
27623638 TTTAAAAATTAAAAAA-
1 TTTAAAAA-TAAAAAAT
27623654 -TTAAAAA-AAATACAAT
1 TTTAAAAATAAA-A-AAT
27623670 TTTAAAAA
1 TTTAAAAA
27623678 ACATATTCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
13 3 0.09
14 1 0.03
15 9 0.26
16 8 0.23
17 14 0.40
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (16 bp):
TTTAAAAATAAAAAAT
Found at i:27623757 original size:19 final size:20
Alignment explanation
Indices: 27623727--27623767 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
27623717 CCAAATATTC
27623727 AAAATTCTAAAAATTCAAAA
1 AAAATTCTAAAAATTCAAAA
27623747 AAAATTC-AAAAATTCAAAA
1 AAAATTCTAAAAATTCAAAA
27623766 AA
1 AA
27623768 GAAGAAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.22
Consensus pattern (20 bp):
AAAATTCTAAAAATTCAAAA
Found at i:27625666 original size:30 final size:30
Alignment explanation
Indices: 27625632--27625689 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
27625622 AGGTGAGATG
*
27625632 GGGAGGGAATAAAAGTTTTAGGGGAAAAGT
1 GGGAGGGAATAAAAATTTTAGGGGAAAAGT
* *
27625662 GGGAGGGAGTAAAAATTTTGGGGGAAAA
1 GGGAGGGAATAAAAATTTTAGGGGAAAA
27625690 TAAAAGGTTT
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:0.40, C:0.00, G:0.41, T:0.19
Consensus pattern (30 bp):
GGGAGGGAATAAAAATTTTAGGGGAAAAGT
Found at i:27625999 original size:9 final size:9
Alignment explanation
Indices: 27625982--27626012 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
27625972 TCAAGTTGAT
27625982 TCGAATAAC
1 TCGAATAAC
*
27625991 TCGATTAAC
1 TCGAATAAC
27626000 TCGAATAAC
1 TCGAATAAC
27626009 TCGA
1 TCGA
27626013 TTCGTTTAAC
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:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:27628491 original size:11 final size:11
Alignment explanation
Indices: 27628475--27628499 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
27628465 TAATAATTAT
27628475 ATTAAAATATG
1 ATTAAAATATG
27628486 ATTAAAATATG
1 ATTAAAATATG
27628497 ATT
1 ATT
27628500 TATTATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (11 bp):
ATTAAAATATG
Found at i:27628613 original size:18 final size:17
Alignment explanation
Indices: 27628572--27628606 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
27628562 TAATATGTAT
*
27628572 TAATTCATATTTTAATAA
1 TAATT-ATATTTTAAAAA
27628590 TAATTATATTTTAAAAA
1 TAATTATATTTTAAAAA
27628607 ATGATTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (17 bp):
TAATTATATTTTAAAAA
Found at i:27637021 original size:15 final size:15
Alignment explanation
Indices: 27637003--27637035 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
27636993 TTTTATTTTA
*
27637003 TAAATTATTATAAGG
1 TAAACTATTATAAGG
27637018 TAAACTATTATAAGG
1 TAAACTATTATAAGG
27637033 TAA
1 TAA
27637036 TTTTGCCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.48, C:0.03, G:0.12, T:0.36
Consensus pattern (15 bp):
TAAACTATTATAAGG
Found at i:27666605 original size:26 final size:26
Alignment explanation
Indices: 27666574--27666677 Score: 208
Period size: 26 Copynumber: 4.0 Consensus size: 26
27666564 TTAAACCTTA
27666574 GTTGAAATCGGGCATGAGAACCTTTT
1 GTTGAAATCGGGCATGAGAACCTTTT
27666600 GTTGAAATCGGGCATGAGAACCTTTT
1 GTTGAAATCGGGCATGAGAACCTTTT
27666626 GTTGAAATCGGGCATGAGAACCTTTT
1 GTTGAAATCGGGCATGAGAACCTTTT
27666652 GTTGAAATCGGGCATGAGAACCTTTT
1 GTTGAAATCGGGCATGAGAACCTTTT
27666678 TATTTTTAAT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (26 bp):
GTTGAAATCGGGCATGAGAACCTTTT
Found at i:27667759 original size:26 final size:26
Alignment explanation
Indices: 27667728--27667935 Score: 416
Period size: 26 Copynumber: 8.0 Consensus size: 26
27667718 TTAAACCTTA
27667728 GTTGAAATCGGGCATGAGAACCTTTT
1 GTTGAAATCGGGCATGAGAACCTTTT
27667754 GTTGAAATCGGGCATGAGAACCTTTT
1 GTTGAAATCGGGCATGAGAACCTTTT
27667780 GTTGAAATCGGGCATGAGAACCTTTT
1 GTTGAAATCGGGCATGAGAACCTTTT
27667806 GTTGAAATCGGGCATGAGAACCTTTT
1 GTTGAAATCGGGCATGAGAACCTTTT
27667832 GTTGAAATCGGGCATGAGAACCTTTT
1 GTTGAAATCGGGCATGAGAACCTTTT
27667858 GTTGAAATCGGGCATGAGAACCTTTT
1 GTTGAAATCGGGCATGAGAACCTTTT
27667884 GTTGAAATCGGGCATGAGAACCTTTT
1 GTTGAAATCGGGCATGAGAACCTTTT
27667910 GTTGAAATCGGGCATGAGAACCTTTT
1 GTTGAAATCGGGCATGAGAACCTTTT
27667936 TATTTTTAAT
Statistics
Matches: 182, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 182 1.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (26 bp):
GTTGAAATCGGGCATGAGAACCTTTT
Found at i:27671041 original size:18 final size:18
Alignment explanation
Indices: 27671018--27671055 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
27671008 ACTAAGATAG
27671018 TGGAAAACTCTAGGACAA
1 TGGAAAACTCTAGGACAA
* *
27671036 TGGAAAAGTCTAGGTCAA
1 TGGAAAACTCTAGGACAA
27671054 TG
1 TG
27671056 TAGGGAGCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.13, G:0.26, T:0.21
Consensus pattern (18 bp):
TGGAAAACTCTAGGACAA
Found at i:27676298 original size:26 final size:26
Alignment explanation
Indices: 27676269--27676330 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
27676259 TACCCCCAGC
* *
27676269 AAAATTTTGATAATTTTATCCT-TGGT
1 AAAATTTTGACAATTTT-GCCTCTGGT
*
27676295 AAAATTTTGACGATTTTGCCTCTGGT
1 AAAATTTTGACAATTTTGCCTCTGGT
27676321 AAAATTTTGA
1 AAAATTTTGA
27676331 GAAAATATGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
25 3 0.09
26 29 0.91
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.45
Consensus pattern (26 bp):
AAAATTTTGACAATTTTGCCTCTGGT
Found at i:27717028 original size:26 final size:27
Alignment explanation
Indices: 27716975--27717028 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
27716965 ATTTTGGTTC
* *
27716975 ATATGTGTATATGTGTGTAAACTATGA
1 ATATGTGTATATGAGTGCAAACTATGA
27717002 ATATG-GTATATGAGTAGCAAACT-TGA
1 ATATGTGTATATGAGT-GCAAACTATGA
27717028 A
1 A
27717029 AGTGAAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 13 0.54
27 11 0.46
ACGTcount: A:0.37, C:0.06, G:0.22, T:0.35
Consensus pattern (27 bp):
ATATGTGTATATGAGTGCAAACTATGA
Found at i:27719737 original size:12 final size:12
Alignment explanation
Indices: 27719720--27719746 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
27719710 CACACGCCCG
27719720 TGTGCTAGGCCA
1 TGTGCTAGGCCA
27719732 TGTGCTAGGCCA
1 TGTGCTAGGCCA
27719744 TGT
1 TGT
27719747 AACAGCCTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.22, G:0.33, T:0.30
Consensus pattern (12 bp):
TGTGCTAGGCCA
Found at i:27720994 original size:25 final size:25
Alignment explanation
Indices: 27720966--27721042 Score: 109
Period size: 25 Copynumber: 3.1 Consensus size: 25
27720956 ATTCGAGTTG
* *
27720966 TAAATCGATATGCTCTCACAAGCTA
1 TAAATCGGTATGCTCTCACGAGCTA
* * *
27720991 TAAATTGGTTTGCTCTTACGAGCTA
1 TAAATCGGTATGCTCTCACGAGCTA
27721016 TAAATCGGTATGCTCTCACGAGCTA
1 TAAATCGGTATGCTCTCACGAGCTA
27721041 TA
1 TA
27721043 GAGTATCCGT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (25 bp):
TAAATCGGTATGCTCTCACGAGCTA
Found at i:27732448 original size:25 final size:25
Alignment explanation
Indices: 27732420--27732468 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
27732410 TACATTGATC
27732420 CATTCACATTGTG-ATAACA-TAATAA
1 CATTCA-ATT-TGAATAACATTAATAA
27732445 CATTCAATTTGAATAACATTAATA
1 CATTCAATTTGAATAACATTAATA
27732469 CAATAACTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 2 0.09
24 9 0.41
25 11 0.50
ACGTcount: A:0.45, C:0.14, G:0.06, T:0.35
Consensus pattern (25 bp):
CATTCAATTTGAATAACATTAATAA
Found at i:27745348 original size:40 final size:40
Alignment explanation
Indices: 27745304--27745565 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
27745294 GCTCCTCGTT
* *
27745304 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
27745344 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
27745384 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
27745423 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
27745462 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
27745501 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
27745542 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
27745566 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:27754080 original size:15 final size:14
Alignment explanation
Indices: 27754032--27754069 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
27754022 ATATATTCAA
27754032 ATATATTTT-AAAT
1 ATATATTTTAAAAT
27754045 A-AT-TTTTAAAAT
1 ATATATTTTAAAAT
27754057 ATATATTTTAAAA
1 ATATATTTTAAAA
27754070 CTGATTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 4 0.18
12 7 0.32
13 3 0.14
14 8 0.36
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATATATTTTAAAAT
Found at i:27754205 original size:8 final size:8
Alignment explanation
Indices: 27754192--27754216 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
27754182 TTTTCTATAA
27754192 TACATTTT
1 TACATTTT
27754200 TACATTTT
1 TACATTTT
27754208 TACATTTT
1 TACATTTT
27754216 T
1 T
27754217 GATAGTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (8 bp):
TACATTTT
Found at i:27756037 original size:17 final size:18
Alignment explanation
Indices: 27756004--27756037 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
27755994 ACAAGATAGA
*
27756004 AAATGAAAAAGGAAAAAC
1 AAATGAAAAAGAAAAAAC
27756022 AAAT-AAAAAGAAAAAA
1 AAATGAAAAAGAAAAAA
27756038 ATGAACAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.79, C:0.03, G:0.12, T:0.06
Consensus pattern (18 bp):
AAATGAAAAAGAAAAAAC
Found at i:27756980 original size:50 final size:50
Alignment explanation
Indices: 27756926--27757192 Score: 205
Period size: 50 Copynumber: 5.3 Consensus size: 50
27756916 ACCGCCGTGA
*
27756926 CTTCAATCTATTCCACTACACCTCCAGGGAAGTAAGATCCGCCGTTGTGG
1 CTTCAATCTTTTCCACTACACCTCCAGGGAAGTAAGATCCGCCGTTGTGG
** * * * *** * * *
27756976 CTTCAATCTTTTAAATTACA-ATGCCGGGGAAACCAGAGCTGCCGTCGTGG
1 CTTCAATCTTTTCCACTACACCT-CCAGGGAAGTAAGATCCGCCGTTGTGG
** * * ** * *
27757026 CTTCAATCTGCTCCACTACACCGCTAGGGAAGTAAGATATGCCATTGTTG
1 CTTCAATCTTTTCCACTACACCTCCAGGGAAGTAAGATCCGCCGTTGTGG
** * * * * * *** *
27757076 CTTCAATCTTTTTAATTGCA-ATGTCGGGGAAACCAGATCCGCCGTTATGG
1 CTTCAATCTTTTCCACTACACCT-CCAGGGAAGTAAGATCCGCCGTTGTGG
* *
27757126 CTTCAATCTGTTCCACTACACCCCCAGGGAAGTAAGATCCGCCGTTGTGG
1 CTTCAATCTTTTCCACTACACCTCCAGGGAAGTAAGATCCGCCGTTGTGG
27757176 CTTCAATCTTTTCCACT
1 CTTCAATCTTTTCCACT
27757193 GTAATGCTAA
Statistics
Matches: 151, Mismatches: 62, Indels: 8
0.68 0.28 0.04
Matches are distributed among these distances:
49 1 0.01
50 150 0.99
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.28
Consensus pattern (50 bp):
CTTCAATCTTTTCCACTACACCTCCAGGGAAGTAAGATCCGCCGTTGTGG
Found at i:27757032 original size:100 final size:100
Alignment explanation
Indices: 27756921--27757187 Score: 381
Period size: 100 Copynumber: 2.7 Consensus size: 100
27756911 GATTCACCGC
* * *
27756921 CGTGACTTCAATCTATTCCACTACACCTCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTT
1 CGTGGCTTCAATCTGTTCCACTACACCCCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTT
*
27756986 TTAAATTACAATGCCGGGGAAACCAGAGCTGCCGT
66 TTAAATTACAATGCCGGGGAAACCAGAGCCGCCGT
* * * ** * *
27757021 CGTGGCTTCAATCTGCTCCACTACACCGCTAGGGAAGTAAGATATGCCATTGTTGCTTCAATCTT
1 CGTGGCTTCAATCTGTTCCACTACACCCCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTT
* * * *
27757086 TTTAATTGCAATGTCGGGGAAACCAGATCCGCCGT
66 TTAAATTACAATGCCGGGGAAACCAGAGCCGCCGT
**
27757121 TATGGCTTCAATCTGTTCCACTACACCCCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTT
1 CGTGGCTTCAATCTGTTCCACTACACCCCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTT
27757186 TT
66 TT
27757188 CCACTGTAAT
Statistics
Matches: 144, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
100 144 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (100 bp):
CGTGGCTTCAATCTGTTCCACTACACCCCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTT
TTAAATTACAATGCCGGGGAAACCAGAGCCGCCGT
Found at i:27757529 original size:88 final size:88
Alignment explanation
Indices: 27757380--27757700 Score: 464
Period size: 88 Copynumber: 3.6 Consensus size: 88
27757370 GGCGATAGGA
* * * * *
27757380 CTGATGTCTTCGATCTACTTCGCTGCCAGTACAGGAAGGCAAGATCTG-TCATTTTCGACCTACT
1 CTGATATCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCT-ATTTTCAACCTACT
27757444 CCACTACTGCCCAGGGAGACAAGG
65 CCACTACTGCCCAGGGAGACAAGG
27757468 CTGATATCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTC
1 CTGATATCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTC
*
27757533 CACTACTGCCTAGGGAGACAAGG
66 CACTACTGCCCAGGGAGACAAGG
* * * * **
27757556 TTGGTATCTTCGATCTGCTTCTCTGTCAGTACAGGAATGCAAGATCTACTATTTTCAACCCGCTC
1 CTGATATCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTC
27757621 CACTACTGCCCAGGGAGACAAGG
66 CACTACTGCCCAGGGAGACAAGG
* ** * * *
27757644 CTGGTATCTTTTATCTGCTTCTCTATCAGTACAGGAAGGCAAGATCAGCTATCTTCA
1 CTGATATCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCA
27757701 GTCTGCTCTG
Statistics
Matches: 211, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
88 210 1.00
89 1 0.00
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (88 bp):
CTGATATCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTC
CACTACTGCCCAGGGAGACAAGG
Found at i:27762516 original size:27 final size:27
Alignment explanation
Indices: 27762460--27762516 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
27762450 AATGATGTAG
* *
27762460 AAAAAGAATAAAAGAATAATTACTCGA
1 AAAAAGAATAAAAGAATAACTACTCAA
*
27762487 AAAAATAATAAAAGAAT-ACTAGCTCAA
1 AAAAAGAATAAAAGAATAACTA-CTCAA
27762514 AAA
1 AAA
27762517 TGCATACGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 3 0.12
27 23 0.88
ACGTcount: A:0.65, C:0.09, G:0.09, T:0.18
Consensus pattern (27 bp):
AAAAAGAATAAAAGAATAACTACTCAA
Found at i:27769697 original size:24 final size:24
Alignment explanation
Indices: 27769639--27769697 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 24
27769629 ATTATTACCT
* *
27769639 TAATTTAAATTATACATATATATG
1 TAATTTAAAATATACATATATAAG
27769663 T-ATTTACAAAATATA-ATATATAAG
1 TAATTT--AAAATATACATATATAAG
27769687 TAAATTTAAAA
1 T-AATTTAAAA
27769698 AAAATGTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
23 4 0.14
24 14 0.48
25 7 0.24
26 4 0.14
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (24 bp):
TAATTTAAAATATACATATATAAG
Found at i:27770620 original size:17 final size:16
Alignment explanation
Indices: 27770592--27770629 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
27770582 AACAAGATAG
27770592 AAAATAAAAAAGGAAAA
1 AAAATAAAAAA-GAAAA
27770609 ACAAAT-AAAAAGAAAA
1 A-AAATAAAAAAGAAAA
27770625 AAAAT
1 AAAAT
27770630 GAACAGAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 4 0.20
16 6 0.30
17 6 0.30
18 4 0.20
ACGTcount: A:0.82, C:0.03, G:0.08, T:0.08
Consensus pattern (16 bp):
AAAATAAAAAAGAAAA
Found at i:27771658 original size:24 final size:24
Alignment explanation
Indices: 27771600--27771658 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 24
27771590 ATTATTACCT
* *
27771600 TAATTTAAATTATACATATATATG
1 TAATTTAAAATATACATATATAAG
27771624 T-ATTTACAAAATATA-ATATATAAG
1 TAATTT--AAAATATACATATATAAG
27771648 TAAATTTAAAA
1 T-AATTTAAAA
27771659 AAAATGTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
23 4 0.14
24 14 0.48
25 7 0.24
26 4 0.14
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (24 bp):
TAATTTAAAATATACATATATAAG
Found at i:27772581 original size:17 final size:16
Alignment explanation
Indices: 27772553--27772590 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
27772543 AACAAGATAG
27772553 AAAATAAAAAAGGAAAA
1 AAAATAAAAAA-GAAAA
27772570 ACAAAT-AAAAAGAAAA
1 A-AAATAAAAAAGAAAA
27772586 AAAAT
1 AAAAT
27772591 GAACAGAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 4 0.20
16 6 0.30
17 6 0.30
18 4 0.20
ACGTcount: A:0.82, C:0.03, G:0.08, T:0.08
Consensus pattern (16 bp):
AAAATAAAAAAGAAAA
Found at i:27775035 original size:28 final size:28
Alignment explanation
Indices: 27774997--27775072 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 28
27774987 AGAATTTTTT
* *
27774997 ATTTTTTATTTTTATTACCTTTTTA-TTA
1 ATTTTATATTTTTATTA-ATTTTTATTTA
27775025 ATTTTATA-TTTTATTAATTTTTATTTTA
1 ATTTTATATTTTTATTAATTTTTA-TTTA
27775053 ATTTTA-ATTTTCTA-TAATTT
1 ATTTTATATTTT-TATTAATTT
27775073 ATTTTATATT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
26 6 0.14
27 9 0.21
28 25 0.60
29 2 0.05
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (28 bp):
ATTTTATATTTTTATTAATTTTTATTTA
Found at i:27775051 original size:15 final size:16
Alignment explanation
Indices: 27775017--27775052 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
27775007 TTTATTACCT
27775017 TTTTATTAATTTTATA
1 TTTTATTAATTTTATA
27775033 TTTTATTAATTTT-TA
1 TTTTATTAATTTTATA
27775048 TTTTA
1 TTTTA
27775053 ATTTTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTATTAATTTTATA
Found at i:27775062 original size:27 final size:27
Alignment explanation
Indices: 27775000--27775084 Score: 79
Period size: 26 Copynumber: 3.1 Consensus size: 27
27774990 ATTTTTTATT
* *
27775000 TTTTATTTTTATTACCTTTTTA--TTAA
1 TTTTAATTTTATTA-ATTTTTATTTTAA
27775026 TTTTATATTTTATTAATTTTTATTTTAA
1 TTTTA-ATTTTATTAATTTTTATTTTAA
*
27775054 TTTTAATTTTCTATAA--TTTATTTTATA
1 TTTTAATTTTAT-TAATTTTTATTTTA-A
27775081 TTTT
1 TTTT
27775085 TTACTTTTCT
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
26 20 0.39
27 19 0.37
28 12 0.24
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.71
Consensus pattern (27 bp):
TTTTAATTTTATTAATTTTTATTTTAA
Found at i:27775136 original size:8 final size:8
Alignment explanation
Indices: 27775123--27775175 Score: 54
Period size: 8 Copynumber: 6.5 Consensus size: 8
27775113 GGAAAATAAA
27775123 AATTTTTT
1 AATTTTTT
27775131 AATTTTTTT
1 AA-TTTTTT
*
27775140 AATTTTCT
1 AATTTTTT
*
27775148 -ATATTTCT
1 AAT-TTTTT
27775156 AATTTTTT
1 AATTTTTT
*
27775164 ATTTTTTT
1 AATTTTTT
27775172 AATT
1 AATT
27775176 ATTATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
7 2 0.05
8 26 0.68
9 10 0.26
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.72
Consensus pattern (8 bp):
AATTTTTT
Found at i:27775267 original size:9 final size:10
Alignment explanation
Indices: 27775224--27775269 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
27775214 TTCTATAAAT
27775224 TTTTTTATAA
1 TTTTTTATAA
***
27775234 TTTTAGGTAA
1 TTTTTTATAA
27775244 TTTTTTATAA
1 TTTTTTATAA
*
27775254 TTTTTTATGA
1 TTTTTTATAA
27775264 TTTTTT
1 TTTTTT
27775270 TATTAAATTT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
10 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.70
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:27775280 original size:21 final size:21
Alignment explanation
Indices: 27775222--27775281 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
27775212 GTTTCTATAA
27775222 ATTTTTTTAT-AATTTTAGGT
1 ATTTTTTTATAAATTTTAGGT
* * *
27775242 AATTTTTTATAATTTTTTATG-
1 ATTTTTTTATAA-ATTTTAGGT
27775263 ATTTTTTTATTAAATTTTA
1 ATTTTTTTA-TAAATTTTA
27775282 ATAATCATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 9 0.28
21 14 0.44
22 9 0.28
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (21 bp):
ATTTTTTTATAAATTTTAGGT
Found at i:27798794 original size:18 final size:17
Alignment explanation
Indices: 27798772--27798806 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
27798762 TAATTATTAA
*
27798772 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
27798790 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
27798807 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:27798899 original size:16 final size:14
Alignment explanation
Indices: 27798869--27798920 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
27798859 CTATAAAATA
27798869 TAATTTAAAATAAT
1 TAATTTAAAATAAT
27798883 TAATATTAAATATAAT
1 TAAT-TTAAA-ATAAT
* *
27798899 TTAGTTAAAAT-AT
1 TAATTTAAAATAAT
27798912 ATAATTTAA
1 -TAATTTAA
27798921 TAAAATTCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
13 2 0.06
14 12 0.39
15 10 0.32
16 7 0.23
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (14 bp):
TAATTTAAAATAAT
Found at i:27798972 original size:117 final size:120
Alignment explanation
Indices: 27798766--27798986 Score: 369
Period size: 117 Copynumber: 1.9 Consensus size: 120
27798756 TTAACATAAT
*
27798766 TATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATAT
1 TATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTC-TAATAATCAATATTCTTATAT
27798831 GAATTTACTAAAATCATAATATATAATACTAT-AAAATATAATTTAAAATAATTAA
65 GAATTTACTAAAATCATAATATATAATACTATGAAAATATAATTTAAAATAATTAA
*
27798886 TATTAAATATAATTTAGTTAAAATATATAATTTAATAAAATTC-AAT-AT-AATTATTCTTATAT
1 TATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTCTAATAATCAA-TATTCTTATAT
*
27798948 GAATTTACTAAAATCATATTATATAATACTATGAAAATA
65 GAATTTACTAAAATCATAATATATAATACTATGAAAATA
27798987 ATATATAATC
Statistics
Matches: 96, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
116 2 0.02
117 44 0.46
118 9 0.09
120 41 0.43
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
TATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTCTAATAATCAATATTCTTATATG
AATTTACTAAAATCATAATATATAATACTATGAAAATATAATTTAAAATAATTAA
Found at i:27801674 original size:46 final size:46
Alignment explanation
Indices: 27801608--27801698 Score: 155
Period size: 46 Copynumber: 2.0 Consensus size: 46
27801598 TCAAAGAAAG
* *
27801608 AAGACTTGCAATCAGAAACTATTAGGCTTCACAGAATAAACTTTCA
1 AAGACTTGCAATCAAAAACTATGAGGCTTCACAGAATAAACTTTCA
*
27801654 AAGACTTGCAATCAAAAACTATGATGCTTCACAGAATAAACTTTC
1 AAGACTTGCAATCAAAAACTATGAGGCTTCACAGAATAAACTTTC
27801699 TCAGATACAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (46 bp):
AAGACTTGCAATCAAAAACTATGAGGCTTCACAGAATAAACTTTCA
Found at i:27802712 original size:17 final size:17
Alignment explanation
Indices: 27802671--27802720 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
27802661 AAATTAAAAA
*
27802671 ACAAAATTTATAAACATT
1 ACAAAATTTAT-AATATT
* *
27802689 TCAAAATATATAATATT
1 ACAAAATTTATAATATT
27802706 ACAAAATTTATAATA
1 ACAAAATTTATAATA
27802721 AGATTGTTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 18 0.67
18 9 0.33
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (17 bp):
ACAAAATTTATAATATT
Found at i:27807891 original size:43 final size:43
Alignment explanation
Indices: 27807826--27808095 Score: 400
Period size: 43 Copynumber: 6.3 Consensus size: 43
27807816 TTATGTAAAA
* **
27807826 AAACGTCGCTAAAGAACATGACCTTTAGCGGCATTTTACCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCAC
* * *
27807869 AAACGCCGCTAAAGAACTTGACCTTTAGCAGCGCTTCACCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCAC
27807912 AAACGCCGCTAAAGAACATGACCTTTAGCGGCG-TTTCACCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTT-ACCCAC
*
27807955 AAACGCCGCTAAAGAACATCACCTTTAGCGGCGCTTTACCCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTA-CCCAC
* *
27807999 AAACGCCGCTAAAGAATATGACATTTAGCGGCGCTTTACCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCAC
* * *
27808042 AAATGCCGCTAAAGAACATGATCTTTAGCGGTGCTTTA-CCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCAC
27808084 AAACGCCGCTAA
1 AAACGCCGCTAA
27808096 TTTTGACAAA
Statistics
Matches: 205, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
42 17 0.08
43 145 0.71
44 43 0.21
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.20
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCAC
Found at i:27808040 original size:87 final size:85
Alignment explanation
Indices: 27807826--27808095 Score: 398
Period size: 87 Copynumber: 3.1 Consensus size: 85
27807816 TTATGTAAAA
* * *
27807826 AAACGTCGCTAAAGAACATGACCTTTAGCGGCATTTTACCCACAAACGCCGCTAAAGAACTTGAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGC-GTTTACCCACAAACGCCGCTAAAGAACATGAC
* *
27807891 CTTTAGCAGCGCTTCACCCAC
65 CTTTAGCGGCGCTTTACCCAC
*
27807912 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGTTTCACCCACAAACGCCGCTAAAGAACATCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGTTT-ACCCACAAACGCCGCTAAAGAACATGAC
27807977 CTTTAGCGGCGCTTTACCCCAC
65 CTTTAGCGGCGCTTTA-CCCAC
* * * *
27807999 AAACGCCGCTAAAGAATATGACATTTAGCGGCGCTTTACCCACAAATGCCGCTAAAGAACATGAT
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCG-TTTACCCACAAACGCCGCTAAAGAACATGAC
*
27808064 CTTTAGCGGTGCTTTA-CCAC
65 CTTTAGCGGCGCTTTACCCAC
27808084 AAACGCCGCTAA
1 AAACGCCGCTAA
27808096 TTTTGACAAA
Statistics
Matches: 169, Mismatches: 12, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
85 19 0.11
86 71 0.42
87 76 0.45
88 3 0.02
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.20
Consensus pattern (85 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGTTTACCCACAAACGCCGCTAAAGAACATGACC
TTTAGCGGCGCTTTACCCAC
Found at i:27813434 original size:42 final size:42
Alignment explanation
Indices: 27813375--27813461 Score: 156
Period size: 42 Copynumber: 2.1 Consensus size: 42
27813365 GTTTAGGAGA
* *
27813375 TCTGCAGTACTCTGTCAATGCTCTAAGATGTCGTATACTCTT
1 TCTGCAGTACTCTGTCAATGCTCCAAGATGTCGCATACTCTT
27813417 TCTGCAGTACTCTGTCAATGCTCCAAGATGTCGCATACTCTT
1 TCTGCAGTACTCTGTCAATGCTCCAAGATGTCGCATACTCTT
27813459 TCT
1 TCT
27813462 TGTTGATTCA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.37
Consensus pattern (42 bp):
TCTGCAGTACTCTGTCAATGCTCCAAGATGTCGCATACTCTT
Found at i:27822100 original size:22 final size:22
Alignment explanation
Indices: 27822075--27822124 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
27822065 GGTGCATACC
27822075 CGACGGCTCCTCAAATCCCAAG
1 CGACGGCTCCTCAAATCCCAAG
27822097 CGACGGCTCCTCAAATCCCAAG
1 CGACGGCTCCTCAAATCCCAAG
*
27822119 CAACGG
1 CGACGG
27822125 AACCCAATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.28, C:0.40, G:0.20, T:0.12
Consensus pattern (22 bp):
CGACGGCTCCTCAAATCCCAAG
Found at i:27828286 original size:16 final size:16
Alignment explanation
Indices: 27828257--27828295 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
27828247 TTTCGGGTAT
27828257 GGGAA-AAA-TTTGAG
1 GGGAATAAATTTTGAG
*
27828271 GGGACTAAATTTTGAG
1 GGGAATAAATTTTGAG
27828287 GGGAATAAA
1 GGGAATAAA
27828296 ACGATAGCGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 4 0.19
15 3 0.14
16 14 0.67
ACGTcount: A:0.41, C:0.03, G:0.33, T:0.23
Consensus pattern (16 bp):
GGGAATAAATTTTGAG
Found at i:27828602 original size:47 final size:48
Alignment explanation
Indices: 27828544--27828642 Score: 173
Period size: 47 Copynumber: 2.1 Consensus size: 48
27828534 CATAGTTTTG
*
27828544 TTTAAGTAATATTTATAAAAATTAGACAAAATTATAAATTTTAGT-TT
1 TTTAAGTAATATTTATAAAAATTAGACAAAATTAAAAATTTTAGTGTT
*
27828591 TTTAAGTAATATTTATAAAAATTAGATAAAATTAAAAATTTTAGTGTT
1 TTTAAGTAATATTTATAAAAATTAGACAAAATTAAAAATTTTAGTGTT
27828639 TTTA
1 TTTA
27828643 TTTTTTTTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
47 43 0.88
48 6 0.12
ACGTcount: A:0.46, C:0.01, G:0.07, T:0.45
Consensus pattern (48 bp):
TTTAAGTAATATTTATAAAAATTAGACAAAATTAAAAATTTTAGTGTT
Found at i:27829088 original size:15 final size:15
Alignment explanation
Indices: 27829068--27829096 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
27829058 CCACTAACGT
27829068 CTAACCCCTAAACCC
1 CTAACCCCTAAACCC
27829083 CTAACCCCTAAACC
1 CTAACCCCTAAACC
27829097 TTAAATCCCG
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:0.52, G:0.00, T:0.14
Consensus pattern (15 bp):
CTAACCCCTAAACCC
Found at i:27829404 original size:22 final size:21
Alignment explanation
Indices: 27829365--27829405 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
27829355 CCCTAAATCC
*
27829365 CTAACTCTTAACCACTAACAT
1 CTAACTCTAAACCACTAACAT
*
27829386 CTAACTCCTAAACCCCTAAC
1 CTAACT-CTAAACCACTAAC
27829406 CCCTAAACCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.37, C:0.39, G:0.00, T:0.24
Consensus pattern (21 bp):
CTAACTCTAAACCACTAACAT
Found at i:27829564 original size:318 final size:317
Alignment explanation
Indices: 27828946--27829651 Score: 1100
Period size: 318 Copynumber: 2.2 Consensus size: 317
27828936 TAAATTATAC
* *
27828946 ATCTTTTACAATTACATAAGAACATATTTAAAATATAAATAAAAAAATTAATCTAAACCCAAAAC
1 ATCTTTTACAACTACATAATAACATATTTAAAATATAAATAAAAAAATTAATCTAAACCCAAAAC
* * *
27829011 CTTAACCCGACTCTTGAAACCCTAAACCCTAAATCCCTAACTCTTAACCACTAACGTCTAACCCC
66 CCTAACCCGACCCTTGAAACCCTAAACCCTAAATCCCTAACTCTTAACCACTAACATCTAACCCC
* *
27829076 TAAACCCCTAACCCCTAAACCTTAAATCCCGACCAACCCTTAATTAAACCATAATCCCTAATCTA
131 TAAACCCCTAACCCCTAAACCTTAAATCCAGACCAACCCTTAATTAAACCATAATCCCTAATCCA
* * * *
27829141 TAATCCCTAAATCCATATATATATAGTACTCCCTAAACCTTTAAATATGAACTCCTAAACCAGCC
196 TAATCCCT-AAGCCAAATATATATAGTACTACCTAAACCTTAAAATATGAACTCCTAAACCAGCC
*
27829206 TTAAATCTTAATTATCATATACCCTAATCTAATTAAAACCCTAAACAATTTTATTATT
260 TTAAATCTTAATTATCATATACCCTAAACTAATTAAAACCCTAAACAATTTTATTATT
*
27829264 ATCTTCTACAACTACATAATAACATATTTAAAATATAAATAAAAAAATTAATCTAAACCCAAAAC
1 ATCTTTTACAACTACATAATAACATATTTAAAATATAAATAAAAAAATTAATCTAAACCCAAAAC
* *
27829329 CCTAACCCGACCCTTGAAACCTTAAACCCTAAATCCCTAACTCTTAACCACTAACATCTAACTCC
66 CCTAACCCGACCCTTGAAACCCTAAACCCTAAATCCCTAACTCTTAACCACTAACATCTAACCCC
*
27829394 TAAACCCCTAACCCCTAAACCTTAAATCCAGGCCAACCCTTAATTAAACCATAATCCCTAATCCA
131 TAAACCCCTAACCCCTAAACCTTAAATCCAGACCAACCCTTAATTAAACCATAATCCCTAATCCA
* * *
27829459 TAATCCCT-AGCTAAATCTATAT-GTACTACCTAAACCTTAAAATATGAACTCCTAAACCGGCCT
196 TAATCCCTAAGCCAAATATATATAGTACTACCTAAACCTTAAAATATGAACTCCTAAACCAGCCT
27829522 TAAATCTTAAATTTATCATATACCCTAAACTAATTAAAAACCCTAAACAATTTTATTATT
261 TAAATCTT-AA-TTATCATATACCCTAAACTAATT-AAAACCCTAAACAATTTTATTATT
*
27829582 ATCTCTTTTACGATTACATATATAATAACATATTTAAAATATAAAT--AAAAA--AATCTAAACC
1 A--TCTTTTAC-A--AC-TACATAATAACATATTTAAAATATAAATAAAAAAATTAATCTAAACC
27829643 CAAAACCCT
60 CAAAACCCT
27829652 GACCTTAAAC
Statistics
Matches: 358, Mismatches: 21, Indels: 16
0.91 0.05 0.04
Matches are distributed among these distances:
315 46 0.13
316 12 0.03
317 22 0.06
318 217 0.61
320 26 0.07
321 1 0.00
322 5 0.01
323 2 0.01
324 27 0.08
ACGTcount: A:0.42, C:0.26, G:0.03, T:0.29
Consensus pattern (317 bp):
ATCTTTTACAACTACATAATAACATATTTAAAATATAAATAAAAAAATTAATCTAAACCCAAAAC
CCTAACCCGACCCTTGAAACCCTAAACCCTAAATCCCTAACTCTTAACCACTAACATCTAACCCC
TAAACCCCTAACCCCTAAACCTTAAATCCAGACCAACCCTTAATTAAACCATAATCCCTAATCCA
TAATCCCTAAGCCAAATATATATAGTACTACCTAAACCTTAAAATATGAACTCCTAAACCAGCCT
TAAATCTTAATTATCATATACCCTAAACTAATTAAAACCCTAAACAATTTTATTATT
Found at i:27829667 original size:7 final size:7
Alignment explanation
Indices: 27829636--27829702 Score: 82
Period size: 7 Copynumber: 9.7 Consensus size: 7
27829626 ATAAAAAAAT
27829636 CTAAACC
1 CTAAACC
*
27829643 CAAAACC
1 CTAAACC
*
27829650 CT-GACC
1 CTAAACC
*
27829656 TTAAACC
1 CTAAACC
27829663 CTAAACC
1 CTAAACC
*
27829670 ATAAACC
1 CTAAACC
27829677 CTAAACC
1 CTAAACC
*
27829684 ATAAACC
1 CTAAACC
27829691 CTAAACC
1 CTAAACC
27829698 CTAAA
1 CTAAA
27829703 TTCATAAACC
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
6 4 0.08
7 45 0.92
ACGTcount: A:0.46, C:0.37, G:0.01, T:0.15
Consensus pattern (7 bp):
CTAAACC
Found at i:27829683 original size:21 final size:21
Alignment explanation
Indices: 27829658--27829712 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
27829648 CCCTGACCTT
*
27829658 AAACCCTAAACCATAAACCCT
1 AAACCATAAACCATAAACCCT
*
27829679 AAACCATAAACCCTAAACCCT
1 AAACCATAAACCATAAACCCT
*
27829700 AAATTCATAAACC
1 AAA-CCATAAACC
27829713 TCAAATCCCT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 22 0.73
22 8 0.27
ACGTcount: A:0.49, C:0.35, G:0.00, T:0.16
Consensus pattern (21 bp):
AAACCATAAACCATAAACCCT
Found at i:27829745 original size:37 final size:37
Alignment explanation
Indices: 27829696--27829775 Score: 151
Period size: 37 Copynumber: 2.2 Consensus size: 37
27829686 AAACCCTAAA
27829696 CCCTAAATTCATAAACCTCAAATCCCTAACTCTTAAC
1 CCCTAAATTCATAAACCTCAAATCCCTAACTCTTAAC
*
27829733 CCCTAAATTCATAAACCTTAAATCCCTAACTCTTAAC
1 CCCTAAATTCATAAACCTCAAATCCCTAACTCTTAAC
27829770 CCCTAA
1 CCCTAA
27829776 CATCTAACCC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.28
Consensus pattern (37 bp):
CCCTAAATTCATAAACCTCAAATCCCTAACTCTTAAC
Found at i:27829776 original size:7 final size:7
Alignment explanation
Indices: 27829756--27829804 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
27829746 AACCTTAAAT
27829756 CCCTAAC
1 CCCTAAC
* *
27829763 TCTTAAC
1 CCCTAAC
27829770 CCCTAAC
1 CCCTAAC
**
27829777 ATCTAAC
1 CCCTAAC
27829784 CCCTAAAC
1 CCCT-AAC
27829792 CCCTAAC
1 CCCTAAC
27829799 CCCTAA
1 CCCTAA
27829805 ACTTTAAATC
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
7 26 0.79
8 7 0.21
ACGTcount: A:0.33, C:0.47, G:0.00, T:0.20
Consensus pattern (7 bp):
CCCTAAC
Found at i:27829799 original size:15 final size:15
Alignment explanation
Indices: 27829766--27829806 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
27829756 CCCTAACTCT
*
27829766 TAACCCCT-AACATC
1 TAACCCCTAAACACC
*
27829780 TAACCCCTAAACCCC
1 TAACCCCTAAACACC
27829795 TAACCCCTAAAC
1 TAACCCCTAAAC
27829807 TTTAAATCCC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 8 0.33
15 16 0.67
ACGTcount: A:0.37, C:0.46, G:0.00, T:0.17
Consensus pattern (15 bp):
TAACCCCTAAACACC
Found at i:27829862 original size:15 final size:15
Alignment explanation
Indices: 27829827--27829864 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
27829817 AACCCTTAAT
27829827 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
27829841 T-AATCCATAATCCC
1 TAAATCCATAATCCC
27829855 TAAATCCATA
1 TAAATCCATA
27829865 TATATATACT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.09
14 12 0.55
15 8 0.36
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:27831033 original size:41 final size:40
Alignment explanation
Indices: 27830988--27831456 Score: 501
Period size: 41 Copynumber: 11.4 Consensus size: 40
27830978 GTGTTTTAAC
* *
27830988 AAAAACGACGCTAAAACCTCA-AGCATTAGCGGCTCTTCTTA
1 AAAAACGCCGCTAAAACC-CAGAGCATTAGCGGCGCTT-TTA
* * *
27831029 AAAAACGCCGCTAAAACCCCGAGAATTAGCAGCGCTTTTCA
1 AAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTT-A
* ** *
27831070 GAAAATTCCGCTAAAACCCCGAGCATTAGCGGCGCTTCTTA
1 AAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTT-TTA
* *
27831111 GAAAACGCCGCTAAAACCCAGAGCATTAGTGGCGCTTTTTA
1 AAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGC-TTTTA
* *
27831152 GAAAACGCCGCTAAAACCTAGAGCATTAGCGGCGCTTCTTA
1 AAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTT-TTA
*
27831193 TTAGAAAACACCGCTAAAACCCAGAGCATTAGCGGCGCTTATTA
1 --A-AAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTT-TTA
* * *
27831237 ATAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTTCA
1 AAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTTA
* **
27831277 CAAAAACGCCGCTAAAACCAAGAGCATTAGCGATGCTTCTTA
1 -AAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTT-TTA
* * *
27831319 AAAAACGCCGCTAAAACCCCGAGCATTAGTGGCGCTTTCA
1 AAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTTA
*
27831359 CAAAAACGCCGCTAAAACCCAGAGCATTAGCGGTGCTTTCTA
1 -AAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTT-TA
** * * * *
27831401 AAAAACATCGCTAAAACTCTGAGCATTAGTGGCGATTTCTCA
1 AAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTT-T-A
*
27831443 AAAAA-GCCACTAAA
1 AAAAACGCCGCTAAA
27831457 GCCACCGAAG
Statistics
Matches: 365, Mismatches: 50, Indels: 26
0.83 0.11 0.06
Matches are distributed among these distances:
40 9 0.02
41 305 0.84
42 14 0.04
44 37 0.10
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (40 bp):
AAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTTA
Found at i:27831354 original size:208 final size:205
Alignment explanation
Indices: 27830988--27831434 Score: 580
Period size: 208 Copynumber: 2.2 Consensus size: 205
27830978 GTGTTTTAAC
* *
27830988 AAAAACGA-CGCTAAAACCTCA-AGCATTAGCGGCTCTTCTTAAAAAACGCCGCTAAAACCCCGA
1 AAAAAC-ACCGCTAAAACC-CAGAGCATTAGCGGCGCTTATTAAAAAACGCCGCTAAAACCCCGA
* ** ** * *
27831051 GAATTAGCAGCGCTTTTCAGAAAATTCCGCTAAAACCCCGAGCATTAGCGGCGCTTCTTAGAAAA
64 GAATTAGCAGCGCTTTTCAAAAAACGCCGCTAAAACCAAGAGCATTAGCGACGCTTCTTAAAAAA
* * *
27831116 CGCCGCTAAAACCCAGAGCATTAGTGGCGCTTTTTA-GAAAACGCCGCTAAAACCTAGAGCATTA
129 CGCCGCTAAAACCCAGAGCATTAGTGGCGC-TTTCACAAAAACGCCGCTAAAACCCAGAGCATTA
27831180 GCGGCGC-TTCTTA
193 GCGGCGCTTTC-TA
* *
27831193 TTAGAAAACACCGCTAAAACCCAGAGCATTAGCGGCGCTTATTAATAAACGCCGCTAAAACCCTG
1 --A-AAAACACCGCTAAAACCCAGAGCATTAGCGGCGCTTATTAAAAAACGCCGCTAAAACCCCG
* * *
27831258 AGCATTAGCGGCGC-TTTCACAAAAACGCCGCTAAAACCAAGAGCATTAGCGATGCTTCTTAAAA
63 AGAATTAGCAGCGCTTTTCA-AAAAACGCCGCTAAAACCAAGAGCATTAGCGACGCTTCTTAAAA
*
27831322 AACGCCGCTAAAACCCCGAGCATTAGTGGCGCTTTCACAAAAACGCCGCTAAAACCCAGAGCATT
127 AACGCCGCTAAAACCCAGAGCATTAGTGGCGCTTTCACAAAAACGCCGCTAAAACCCAGAGCATT
*
27831387 AGCGGTGCTTTCTA
192 AGCGGCGCTTTCTA
* * * *
27831401 AAAAACATCGCTAAAACTCTGAGCATTAGTGGCG
1 AAAAACACCGCTAAAACCCAGAGCATTAGCGGCG
27831435 ATTTCTCAAA
Statistics
Matches: 211, Mismatches: 23, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
205 29 0.14
206 1 0.00
207 13 0.06
208 165 0.78
209 3 0.01
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.20
Consensus pattern (205 bp):
AAAAACACCGCTAAAACCCAGAGCATTAGCGGCGCTTATTAAAAAACGCCGCTAAAACCCCGAGA
ATTAGCAGCGCTTTTCAAAAAACGCCGCTAAAACCAAGAGCATTAGCGACGCTTCTTAAAAAACG
CCGCTAAAACCCAGAGCATTAGTGGCGCTTTCACAAAAACGCCGCTAAAACCCAGAGCATTAGCG
GCGCTTTCTA
Found at i:27835096 original size:8 final size:8
Alignment explanation
Indices: 27835083--27835116 Score: 68
Period size: 8 Copynumber: 4.2 Consensus size: 8
27835073 CAAAATTCAG
27835083 AATAATAA
1 AATAATAA
27835091 AATAATAA
1 AATAATAA
27835099 AATAATAA
1 AATAATAA
27835107 AATAATAA
1 AATAATAA
27835115 AA
1 AA
27835117 CTTAATAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAATAA
Found at i:27837415 original size:17 final size:17
Alignment explanation
Indices: 27837393--27837430 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
27837383 CACACTGCCT
*
27837393 TGTGAGCCATACGGGCG
1 TGTGAGCCATACGAGCG
27837410 TGTGAGCCATACGAGCG
1 TGTGAGCCATACGAGCG
27837427 TGTG
1 TGTG
27837431 CTAGACCGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.18, C:0.21, G:0.39, T:0.21
Consensus pattern (17 bp):
TGTGAGCCATACGAGCG
Found at i:27839275 original size:29 final size:29
Alignment explanation
Indices: 27839210--27839278 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 29
27839200 TACAGAGATG
* *
27839210 CATTGAAGTGCAATAAGAAAACAAAGTGA
1 CATTGAAGTGCAATAACAAAACAAAATGA
** * *
27839239 TGTCGAAGTGCAATACCAAAACAAAATGA
1 CATTGAAGTGCAATAACAAAACAAAATGA
27839268 CATTGAAGTGC
1 CATTGAAGTGC
27839279 TTAGCAGAAT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.19
Consensus pattern (29 bp):
CATTGAAGTGCAATAACAAAACAAAATGA
Found at i:27840666 original size:43 final size:42
Alignment explanation
Indices: 27840598--27840867 Score: 305
Period size: 42 Copynumber: 6.4 Consensus size: 42
27840588 ACGTCGCTAA
* * *
27840598 CTTTTGCGGCGCTTACAGAAAAAACGCTGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTA-GGAAAAAACGCCGCTAAAGATCATGTT
* * *
27840641 CTTTAGCGGCACTAAGGAAATAAACGCCACTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAA-AAACGCCGCTAAAGATCATGTT
* * *
27840684 CTTTAGCGGCGCTTATGAAAAAATGCTGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
27840726 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
* * *
27840768 CTTTACCGGCGCTTTGGAAGAAAACGCCGCTAAA-AGTAATGTT
1 CTTTAGCGGCGCTTAGGAA-AAAACGCCGCTAAAGA-TCATGTT
* ** *
27840811 CTATAGCGGCGCTT-GTTCAAAAACACCGCTAACAG-T-AGTGTT
1 CTTTAGCGGCGCTTAG-GAAAAAACGCCGCTAA-AGATCA-TGTT
27840853 CTTTAGCGGCGCTTA
1 CTTTAGCGGCGCTTA
27840868 TTTCACAAAT
Statistics
Matches: 195, Mismatches: 24, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
41 1 0.01
42 111 0.57
43 83 0.43
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
Found at i:27840757 original size:127 final size:128
Alignment explanation
Indices: 27840598--27840867 Score: 325
Period size: 127 Copynumber: 2.1 Consensus size: 128
27840588 ACGTCGCTAA
* * *
27840598 CTTTTGCGGCGCTTACAGAAAAAACGCTGCTAAAGATCATGTTCTTTAGCGGCACTAAGGAA-AT
1 CTTTAGCGGCGCTTACAGAAAAAACGCCGCTAAAGATCATGTTCTTTACCGGCACTAAGGAAGA-
* * ** *
27840662 AAACGCCACT-AAAGATCATGTTCTTTAGCGGCGCTTATGAAAAAATGCTGCTAA-AGATCA-TG
65 AAACGCCACTAAAAG-TAATGTTCTATAGCGGCGCTTATGAAAAAACACCGCTAACAG-T-AGTG
27840724 TT
127 TT
* * **
27840726 CTTTAGCGGCGCTTA-GGAAAAAACGCCGCTAAAGATCATGTTCTTTACCGGCGCTTTGGAAGAA
1 CTTTAGCGGCGCTTACAGAAAAAACGCCGCTAAAGATCATGTTCTTTACCGGCACTAAGGAAGAA
* * **
27840790 AACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTGTTCAAAAACACCGCTAACAGTAGTGTT
66 AACGCCACTAAAAGTAATGTTCTATAGCGGCGCTTATGAAAAAACACCGCTAACAGTAGTGTT
27840853 CTTTAGCGGCGCTTA
1 CTTTAGCGGCGCTTA
27840868 TTTCACAAAT
Statistics
Matches: 122, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
126 1 0.01
127 100 0.82
128 21 0.17
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (128 bp):
CTTTAGCGGCGCTTACAGAAAAAACGCCGCTAAAGATCATGTTCTTTACCGGCACTAAGGAAGAA
AACGCCACTAAAAGTAATGTTCTATAGCGGCGCTTATGAAAAAACACCGCTAACAGTAGTGTT
Found at i:27840800 original size:85 final size:84
Alignment explanation
Indices: 27840598--27840868 Score: 318
Period size: 85 Copynumber: 3.2 Consensus size: 84
27840588 ACGTCGCTAA
* * * *
27840598 CTTTTGCGGCGCTTACAGAAAAAACGCTGCTAAAGATCATGTTCTTTAGCGGCACTAAGGAAATA
1 CTTTAGCGGCGCTTA-TGAAAAAACGCTGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAA-A
*
27840663 AACGCCACTAAAGATCATGTT
64 AACGCCGCTAAAGATCATGTT
*
27840684 CTTTAGCGGCGCTTATGAAAAAATGCTGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAA
1 CTTTAGCGGCGCTTATGAAAAAACGCTGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAA
27840749 CGCCGCTAAAGATCATGTT
66 CGCCGCTAAAGATCATGTT
* * * * **
27840768 CTTTACCGGCGCTT-TGGAAGAAAACGCCGCTAAA-AGTAATGTTCTATAGCGGCGCTT-GTTCA
1 CTTTAGCGGCGCTTAT-GAA-AAAACGCTGCTAAAGA-TCATGTTCTTTAGCGGCGCTTAG-GAA
*
27840830 AAAACACCGCTAACAG-T-AGTGTT
62 AAAACGCCGCTAA-AGATCA-TGTT
27840853 CTTTAGCGGCGCTTAT
1 CTTTAGCGGCGCTTAT
27840869 TTCACAAATG
Statistics
Matches: 163, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
83 1 0.01
84 40 0.25
85 105 0.64
86 17 0.10
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (84 bp):
CTTTAGCGGCGCTTATGAAAAAACGCTGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAA
CGCCGCTAAAGATCATGTT
Found at i:27841319 original size:12 final size:12
Alignment explanation
Indices: 27841302--27841340 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
27841292 TTTTGAACCT
*
27841302 CTGCTTCTATCG
1 CTGCTTCTCTCG
*
27841314 CTGCTTCTCTCA
1 CTGCTTCTCTCG
27841326 CTGCTTCTCTCG
1 CTGCTTCTCTCG
27841338 CTG
1 CTG
27841341 TGGGCTCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.05, C:0.38, G:0.15, T:0.41
Consensus pattern (12 bp):
CTGCTTCTCTCG
Found at i:27841388 original size:21 final size:21
Alignment explanation
Indices: 27841326--27841394 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
27841316 GCTTCTCTCA
* *
27841326 CTGCTTCTCTCGCTGTGGGCT
1 CTGCTTCTCTCGCTGTAGCCT
*
27841347 CTACTTCTCTCGCTGTAGCCT
1 CTGCTTCTCTCGCTGTAGCCT
* **
27841368 CTGCTTCCCTCGCTGCCGCCT
1 CTGCTTCTCTCGCTGTAGCCT
27841389 CTGCTT
1 CTGCTT
27841395 TAAGTTGTTG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.03, C:0.41, G:0.20, T:0.36
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGTAGCCT
Found at i:27850997 original size:7 final size:7
Alignment explanation
Indices: 27850987--27851039 Score: 70
Period size: 7 Copynumber: 7.0 Consensus size: 7
27850977 TGATATATTT
27850987 TTATGTA
1 TTATGTA
27850994 TTATGTAA
1 TTATGT-A
27851002 GTTATGTAA
1 -TTATGT-A
27851011 GTTATGTA
1 -TTATGTA
27851019 TTATGTA
1 TTATGTA
27851026 TTATGTA
1 TTATGTA
27851033 TTATGTA
1 TTATGTA
27851040 AGTACTGTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
7 27 0.61
8 2 0.05
9 15 0.34
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (7 bp):
TTATGTA
Found at i:27851008 original size:9 final size:9
Alignment explanation
Indices: 27850994--27851361 Score: 322
Period size: 9 Copynumber: 40.8 Consensus size: 9
27850984 TTTTTATGTA
27850994 TTATGTAAG
1 TTATGTAAG
27851003 TTATGTAAG
1 TTATGTAAG
27851012 TTATGT-A-
1 TTATGTAAG
27851019 TTATGT-A-
1 TTATGTAAG
27851026 TTATGT-A-
1 TTATGTAAG
27851033 TTATGTAAG
1 TTATGTAAG
27851042 -TACTGTAAG
1 TTA-TGTAAG
* *
27851051 TAATGTACG
1 TTATGTAAG
* *
27851060 TTATTTAAT
1 TTATGTAAG
*
27851069 TTATGTAGG
1 TTATGTAAG
27851078 TTATGTAAG
1 TTATGTAAG
* * * *
27851087 TCCACGGAAT
1 T-TATGTAAG
27851097 TTATGTAAG
1 TTATGTAAG
27851106 TTATGTAAG
1 TTATGTAAG
* *
27851115 TTATTTAAT
1 TTATGTAAG
*
27851124 TTATGTAGG
1 TTATGTAAG
27851133 TTATGTAAG
1 TTATGTAAG
27851142 TTATGTAAG
1 TTATGTAAG
* *
27851151 TTATTTAAT
1 TTATGTAAG
*
27851160 TTATGCAAG
1 TTATGTAAG
27851169 TTTATGTAAG
1 -TTATGTAAG
27851179 TTATGTAAG
1 TTATGTAAG
* *
27851188 TTATTTAAT
1 TTATGTAAG
*
27851197 TTATGTAGG
1 TTATGTAAG
27851206 TTATGTAAG
1 TTATGTAAG
27851215 TTATGTAAG
1 TTATGTAAG
* *
27851224 TTATTTAAT
1 TTATGTAAG
*
27851233 TTATGCAAG
1 TTATGTAAG
27851242 TTTATGTAAG
1 -TTATGTAAG
*
27851252 TCATGTAAG
1 TTATGTAAG
*
27851261 TTAAT-TAAT
1 TT-ATGTAAG
*
27851270 TTATGCAAG
1 TTATGTAAG
27851279 TTTATGTAAG
1 -TTATGTAAG
27851289 TTATGTAAG
1 TTATGTAAG
*
27851298 TTACT-TAAT
1 TTA-TGTAAG
27851307 TTATGTAAG
1 TTATGTAAG
* *
27851316 TTATTTAAT
1 TTATGTAAG
27851325 TTATGTAAG
1 TTATGTAAG
*
27851334 TTATGCAAG
1 TTATGTAAG
*
27851343 CTTATATACAAG
1 -TTATGT--AAG
27851355 TTATGTA
1 TTATGTA
27851362 TTATAACATA
Statistics
Matches: 286, Mismatches: 58, Indels: 30
0.76 0.16 0.08
Matches are distributed among these distances:
7 20 0.07
8 7 0.02
9 214 0.75
10 37 0.13
11 5 0.02
12 3 0.01
ACGTcount: A:0.32, C:0.04, G:0.17, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:27851106 original size:64 final size:63
Alignment explanation
Indices: 27851033--27851338 Score: 240
Period size: 64 Copynumber: 4.8 Consensus size: 63
27851023 GTATTATGTA
* *
27851033 TTATGTAAG-TACTGTAAGTAATGTACGTTATTTAATTTATGTAGGTTATGTAAGTCCACGGAAT
1 TTATGTAAGTTA-TGTAAGTTATGTAAGTTATTTAATTTATGTAGGTTATGTAAGT-CACGGAAT
* * * ** * * ***
27851097 TTATGTAAGTTATGTAAGTTATTTAATTTATGTAGGTTATGTAAGTTATGTAAGTTATTTAAT
1 TTATGTAAGTTATGTAAGTTATGTAAGTTATTTAATTTATGTAGGTTATGTAAGTCACGGAAT
* * * * *
27851160 TTATGCAAGTTTATGTAAGTTATGTAAGTTATTTAATTTATGTAGGTTATGTAAGTTATGTAAG
1 TTATGTAAG-TTATGTAAGTTATGTAAGTTATTTAATTTATGTAGGTTATGTAAGTCACGGAAT
* * * * * * ** * * * *
27851224 TTATTTAATTTATGCAAGTTTATGTAAGTCATGTAAGTTAAT-TAATTTATGCAAGTTTATGTAA
1 TTATGTAAGTTATGTAAG-TTATGTAAGTTATTTAA-TTTATGTAGGTTATGTAAG-TCACGGAA
*
27851288 G
63 T
* *
27851289 TTATGTAAGTTACT-TAATTTATGTAAGTTATTTAATTTATGTAAGTTATG
1 TTATGTAAGTTA-TGTAAGTTATGTAAGTTATTTAATTTATGTAGGTTATG
27851339 CAAGCTTATA
Statistics
Matches: 196, Mismatches: 39, Indels: 14
0.79 0.16 0.06
Matches are distributed among these distances:
63 24 0.12
64 144 0.73
65 27 0.14
66 1 0.01
ACGTcount: A:0.32, C:0.03, G:0.18, T:0.47
Consensus pattern (63 bp):
TTATGTAAGTTATGTAAGTTATGTAAGTTATTTAATTTATGTAGGTTATGTAAGTCACGGAAT
Found at i:27851136 original size:73 final size:73
Alignment explanation
Indices: 27851096--27851337 Score: 396
Period size: 73 Copynumber: 3.3 Consensus size: 73
27851086 GTCCACGGAA
27851096 TTTATGTAAGTTATGTAAGTTATTTAATTTATGTAGGTTATGTAAGTTATGTAAGTTATTTAATT
1 TTTATGTAAGTTATGTAAGTTATTTAATTTATGTAGGTTATGTAAGTTATGTAAGTTATTTAATT
27851161 TATGCAAG
66 TATGCAAG
27851169 TTTATGTAAGTTATGTAAGTTATTTAATTTATGTAGGTTATGTAAGTTATGTAAGTTATTTAATT
1 TTTATGTAAGTTATGTAAGTTATTTAATTTATGTAGGTTATGTAAGTTATGTAAGTTATTTAATT
27851234 TATGCAAG
66 TATGCAAG
* * * * *
27851242 TTTATGTAAGTCATGTAAGTTAATTAATTTATGCAAGTTTATGTAAGTTATGTAAGTTACTTAAT
1 TTTATGTAAGTTATGTAAGTTATTTAATTTATG-TAGGTTATGTAAGTTATGTAAGTTATTTAAT
*
27851307 TTATGTAAG
65 TTATGCAAG
* *
27851316 -TTATTTAATTTATGTAAGTTAT
1 TTTATGTAAGTTATGTAAGTTAT
27851338 GCAAGCTTAT
Statistics
Matches: 158, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
73 122 0.77
74 36 0.23
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.49
Consensus pattern (73 bp):
TTTATGTAAGTTATGTAAGTTATTTAATTTATGTAGGTTATGTAAGTTATGTAAGTTATTTAATT
TATGCAAG
Found at i:27851555 original size:16 final size:16
Alignment explanation
Indices: 27851523--27851560 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
27851513 GAAAACGAAG
*
27851523 TAAA-TTTAAGACTAA
1 TAAATTTTAAGACAAA
*
27851538 TAAATTTTAATACAAA
1 TAAATTTTAAGACAAA
27851554 TAAATTT
1 TAAATTT
27851561 AGAAAACTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (16 bp):
TAAATTTTAAGACAAA
Found at i:27851575 original size:13 final size:13
Alignment explanation
Indices: 27851557--27851584 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
27851547 ATACAAATAA
27851557 ATTTAGAAAACTT
1 ATTTAGAAAACTT
27851570 ATTTAGAAAACTT
1 ATTTAGAAAACTT
27851583 AT
1 AT
27851585 AAATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (13 bp):
ATTTAGAAAACTT
Found at i:27851592 original size:17 final size:17
Alignment explanation
Indices: 27851553--27851602 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 17
27851543 TTTAATACAA
27851553 ATAAATTTAGAAAAC-T
1 ATAAATTTAGAAAACTT
27851569 -T--ATTTAGAAAACTT
1 ATAAATTTAGAAAACTT
27851583 ATAAATTTAGAAAACTT
1 ATAAATTTAGAAAACTT
27851600 ATA
1 ATA
27851603 TAGATATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 11 0.37
14 1 0.03
15 2 0.07
17 16 0.53
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (17 bp):
ATAAATTTAGAAAACTT
Found at i:27853213 original size:191 final size:191
Alignment explanation
Indices: 27852889--27853268 Score: 598
Period size: 191 Copynumber: 2.0 Consensus size: 191
27852879 AAGCAACACA
* *
27852889 GAATTTAAAGTGAAAGGAAAAACAAAGCGAGCATTAGAGAAAGAAAAAATCAAACAGAAAAATGA
1 GAATTTAAAGAGAAAGGAAAAACAAAGCGAGCATTACAGAAAGAAAAAATCAAACAGAAAAATGA
* * * *
27852954 ATAGCCATATACGTATTCAACGAAGAAATTAAGGATTTGGAAAGATTTTTACCAGTCAGCCCAGA
66 ACAGCCATATACGGAGTCAACGAAGAAATTAAGGATTTGGAAAGATTTTTACCAATCAGCCCAGA
* ** *
27853019 CGAGAAGCAATATTCGATCGAAAAGAGGGGAAATCATCGTTGAAGGGGTGAATGGTCTATG
131 CGAGAAGCAATATTCGACCGAAAAGAGGGGAAATCATCGTTGAAAAGGTGAAAGGTCTATG
* *
27853080 GAATTTAAAGAGAAAGGAAAAACAAAGCGGGCATTACAGAAAGAAAAAATCAAACATAAAAATGA
1 GAATTTAAAGAGAAAGGAAAAACAAAGCGAGCATTACAGAAAGAAAAAATCAAACAGAAAAATGA
* * * *
27853145 ACAGCCATATACGGAGTCAACGGAGAAATTAGGGATTTGGAAAGTTTTTTACCAATCAGCCTAGA
66 ACAGCCATATACGGAGTCAACGAAGAAATTAAGGATTTGGAAAGATTTTTACCAATCAGCCCAGA
* *
27853210 CGAGAAGCGATATTCGACCGAGAAGAGGGGAAATCATCGTTGAAAAGGTGAAAGGTCTA
131 CGAGAAGCAATATTCGACCGAAAAGAGGGGAAATCATCGTTGAAAAGGTGAAAGGTCTA
27853269 GGGATTTGCA
Statistics
Matches: 171, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
191 171 1.00
ACGTcount: A:0.44, C:0.13, G:0.24, T:0.19
Consensus pattern (191 bp):
GAATTTAAAGAGAAAGGAAAAACAAAGCGAGCATTACAGAAAGAAAAAATCAAACAGAAAAATGA
ACAGCCATATACGGAGTCAACGAAGAAATTAAGGATTTGGAAAGATTTTTACCAATCAGCCCAGA
CGAGAAGCAATATTCGACCGAAAAGAGGGGAAATCATCGTTGAAAAGGTGAAAGGTCTATG
Found at i:27853877 original size:15 final size:14
Alignment explanation
Indices: 27853839--27853879 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
27853829 TAAACCTTAG
*
27853839 CCCCAACCCCTAAA
1 CCCCAATCCCTAAA
27853853 CCCCAATCCCTAAA
1 CCCCAATCCCTAAA
*
27853867 CCCATAATCCCTA
1 CCC-CAATCCCTA
27853880 GTCCACAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 16 0.67
15 8 0.33
ACGTcount: A:0.34, C:0.51, G:0.00, T:0.15
Consensus pattern (14 bp):
CCCCAATCCCTAAA
Found at i:27853955 original size:21 final size:21
Alignment explanation
Indices: 27853931--27853974 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
27853921 AACATCTATC
* *
27853931 CCTTAATCTCCAACC-TCTAAA
1 CCTTAAACTCAAACCAT-TAAA
27853952 CCTTAAACTCAAACCATTAAA
1 CCTTAAACTCAAACCATTAAA
27853973 CC
1 CC
27853975 AAGTACCCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (21 bp):
CCTTAAACTCAAACCATTAAA
Found at i:27854124 original size:22 final size:22
Alignment explanation
Indices: 27854108--27854227 Score: 76
Period size: 21 Copynumber: 5.6 Consensus size: 22
27854098 CCATAATCTT
27854108 TAAACCTTAAACCCATAAACCC
1 TAAACCTTAAACCCATAAACCC
* * *
27854130 TAAACCTT-AACTCATAAAACA
1 TAAACCTTAAACCCATAAACCC
27854151 TAAA-CTATAAACCC-TAAACCCC
1 TAAACCT-TAAACCCATAAA-CCC
* *
27854173 TAACCCTT-AA-CCATTAACCC
1 TAAACCTTAAACCCATAAACCC
*
27854193 GTAACACC-TATA--CATTAAACCC
1 -TAA-ACCTTAAACCCA-TAAACCC
*
27854215 TAACCCTTAAACC
1 TAAACCTTAAACC
27854228 ATGGCCCATA
Statistics
Matches: 73, Mismatches: 13, Indels: 23
0.67 0.12 0.21
Matches are distributed among these distances:
20 9 0.12
21 36 0.49
22 26 0.36
23 2 0.03
ACGTcount: A:0.43, C:0.34, G:0.01, T:0.22
Consensus pattern (22 bp):
TAAACCTTAAACCCATAAACCC
Found at i:27854801 original size:114 final size:114
Alignment explanation
Indices: 27854640--27855236 Score: 810
Period size: 114 Copynumber: 5.2 Consensus size: 114
27854630 GTTTCGGTTT
* * *
27854640 AAAACGATGCGTTTTGGTTAAGATTTGTTTGCGGTGCTTTGTATAATGCGCCGCTAATGATGTAC
1 AAAACGATGCGTTTTGGTTAAGATTT-TTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGC
* * *
27854705 TTTAGCGGCGTTTTACTAT-AGCACCACTAATTCTAAAAATACCTCAACCA
65 TTTAGCGGCATTTTACTATAAGCGCCACTAATTCT-AAAATACCTCAACCC
* ** *
27854755 AAAATGATGCGTTTTGGTTATTATTTTTTGCGGCACTTTGTATAATGCGCCGCTAATGGTGTGCT
1 AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGCT
* *
27854820 TTAGCGGCATTTATCCT-TAAGCGCCACTAAATCTAAAATACCTCAACCC
66 TTAGCGGCATTT-TACTATAAGCGCCACTAATTCTAAAATACCTCAACCC
* *
27854869 AAAACGATGCATTTTGGTTAAGATTTTTTGCGGCGCTTTGAATAATGCGCCGCTAATGGTGTGCT
1 AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGCT
* *
27854934 TTAGTGGCA-TTTA-TCAGTAAGCGCCACTAATTCTAATATACCTCAACCC
66 TTAGCGGCATTTTACT-A-TAAGCGCCACTAATTCTAAAATACCTCAACCC
* * *
27854983 AAAACGATGCGTTTCGATTAAGATTTTTTGCGGCGCTTTGTATGATGCGCCGCTAATGGTGTGCT
1 AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGCT
* * *
27855048 TTAGCGGCGTTTTTACT-TAAGCACCACTAGTTCTAAAATACCTCAACCC
66 TTAGCGGC-ATTTTACTATAAGCGCCACTAATTCTAAAATACCTCAACCC
* * * *
27855097 AGAACGATGCGTTTTGGTTATGATTTTTTGCGACGCTTTGTATAATGCGCTGCTAATGGTGTGCT
1 AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGCT
* * *
27855162 TTAGCGGCA-TTTATCCATAAGCGCCACTAATTCTAATATACCTTAACCC
66 TTAGCGGCATTTTA-CTATAAGCGCCACTAATTCTAAAATACCTCAACCC
* *
27855211 AAAACGATGCATTTCGGTTAAGATTT
1 AAAACGATGCGTTTTGGTTAAGATTT
27855237 CTGAAATCAT
Statistics
Matches: 423, Mismatches: 49, Indels: 21
0.86 0.10 0.04
Matches are distributed among these distances:
111 1 0.00
112 5 0.01
113 3 0.01
114 370 0.87
115 39 0.09
116 4 0.01
117 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (114 bp):
AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGCT
TTAGCGGCATTTTACTATAAGCGCCACTAATTCTAAAATACCTCAACCC
Found at i:27856792 original size:124 final size:124
Alignment explanation
Indices: 27856629--27856876 Score: 406
Period size: 124 Copynumber: 2.0 Consensus size: 124
27856619 AACTTAAAAC
27856629 GGGTCGGGTCAAGCTTGAGCCTTAAATGTTCAAACCCGAGCCTAACCCATATTTTAAACAAGCTT
1 GGGTCGGGTCAAGCTTGAGCCTTAAATGTTCAAACCCGAGCCTAACCCATATTTTAAACAAGCTT
*
27856694 AATTTTTTTGTCCAAGCTCATTTTTCGAGCCTAACATTTTTGCTCAAACCCTCTCAAAT
66 AATTTTTTTGTCCAAGCTCATTTTTCGAGCCTAACATTTTTACTCAAACCCTCTCAAAT
* * * *
27856753 GGGTCGGGTTAAGCTTGAGTCTTGAATGTTCAAACCCGAGCCTAACCCATATTTTAAACGAGCTT
1 GGGTCGGGTCAAGCTTGAGCCTTAAATGTTCAAACCCGAGCCTAACCCATATTTTAAACAAGCTT
* * * * *
27856818 AATTTTTTTGTCCAAGCTCATTTTTTGAGGCTAATATTTTTACTCAAAGCTTCTCAAAT
66 AATTTTTTTGTCCAAGCTCATTTTTCGAGCCTAACATTTTTACTCAAACCCTCTCAAAT
27856877 TTTGAATAGG
Statistics
Matches: 114, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
124 114 1.00
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (124 bp):
GGGTCGGGTCAAGCTTGAGCCTTAAATGTTCAAACCCGAGCCTAACCCATATTTTAAACAAGCTT
AATTTTTTTGTCCAAGCTCATTTTTCGAGCCTAACATTTTTACTCAAACCCTCTCAAAT
Found at i:27865089 original size:19 final size:19
Alignment explanation
Indices: 27865061--27865097 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
27865051 ATGACTACTT
27865061 TTCATATTTTTCTCCACTC
1 TTCATATTTTTCTCCACTC
*
27865080 TTCATCTTTTTCTCCACT
1 TTCATATTTTTCTCCACT
27865098 TTTCTACACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.14, C:0.32, G:0.00, T:0.54
Consensus pattern (19 bp):
TTCATATTTTTCTCCACTC
Found at i:27866846 original size:12 final size:12
Alignment explanation
Indices: 27866829--27866855 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
27866819 TATCCTTAAA
27866829 ATTTTACATTTT
1 ATTTTACATTTT
27866841 ATTTTACATTTT
1 ATTTTACATTTT
27866853 ATT
1 ATT
27866856 CAATTTAGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (12 bp):
ATTTTACATTTT
Done.