Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 23 of 132
Found at i:6635299 original size:13 final size:14
Alignment explanation
Indices: 6635274--6635304 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
6635264 TTATAAAGGG
6635274 TTAAAAATGATTTT
1 TTAAAAATGATTTT
6635288 TTAAAAAT-ATTTT
1 TTAAAAATGATTTT
6635301 TTAA
1 TTAA
6635305 TTTTTAGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (14 bp):
TTAAAAATGATTTT
Found at i:6636006 original size:9 final size:9
Alignment explanation
Indices: 6635992--6636118 Score: 56
Period size: 9 Copynumber: 12.7 Consensus size: 9
6635982 GTTAACAAAT
6635992 TTTTTATAA
1 TTTTTATAA
6636001 TTTTTATAGA
1 TTTTTATA-A
6636011 GTTTTCTATAA
1 -TTTT-TATAA
* *
6636022 CATTTTATAT
1 -TTTTTATAA
6636032 TTTTCTATAA
1 TTTT-TATAA
*
6636042 TTTCTATAA
1 TTTTTATAA
* *
6636051 TTCTGTCATAT
1 TT-T-TTATAA
6636062 TTTTTATAGTA
1 TTTTTATA--A
* *
6636073 TATTAATAA
1 TTTTTATAA
6636082 TATTTTATAA
1 T-TTTTATAA
* *
6636092 TATCTATAA
1 TTTTTATAA
6636101 TATTTCTATATA
1 T-TTT-TATA-A
6636113 TTTTTA
1 TTTTTA
6636119 ATTTTTCTTG
Statistics
Matches: 87, Mismatches: 19, Indels: 23
0.67 0.15 0.18
Matches are distributed among these distances:
9 31 0.36
10 24 0.28
11 26 0.30
12 6 0.07
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.58
Consensus pattern (9 bp):
TTTTTATAA
Found at i:6636113 original size:19 final size:19
Alignment explanation
Indices: 6636078--6636148 Score: 63
Period size: 19 Copynumber: 3.7 Consensus size: 19
6636068 TAGTATATTA
6636078 ATAATATTT-TATAATATCT
1 ATAATATTTCTAT-ATATCT
*
6636097 ATAATATTTCTATATATTT
1 ATAATATTTCTATATATCT
* * * * *
6636116 TTAATTTTTCTTGTTTTTCT
1 ATAATATTTC-TATATATCT
6636136 ATAATATTTCTAT
1 ATAATATTTCTAT
6636149 TTTTCTAAAT
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
19 24 0.60
20 16 0.40
ACGTcount: A:0.31, C:0.07, G:0.01, T:0.61
Consensus pattern (19 bp):
ATAATATTTCTATATATCT
Found at i:6636153 original size:19 final size:19
Alignment explanation
Indices: 6636094--6636155 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 19
6636084 TTTTATAATA
6636094 TCTATAATATTTCTATATATT
1 TCTATAATATTTCTAT-T-TT
* *
6636115 T-T-TAATTTTTCTTGTTTT
1 TCTATAATATTTC-TATTTT
6636133 TCTATAATATTTCTATTTT
1 TCTATAATATTTCTATTTT
6636152 TCTA
1 TCTA
6636156 AATTTGTTAC
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
18 3 0.09
19 19 0.56
20 11 0.32
21 1 0.03
ACGTcount: A:0.24, C:0.10, G:0.02, T:0.65
Consensus pattern (19 bp):
TCTATAATATTTCTATTTT
Found at i:6636673 original size:168 final size:171
Alignment explanation
Indices: 6636384--6636729 Score: 545
Period size: 168 Copynumber: 2.0 Consensus size: 171
6636374 ATTATGGGTG
* *
6636384 ATCGAAATTTTAAGTTCTGATCAAAATTAGAATTCGAGAAGAAGAAGACAAATAACTAAAAGAGA
1 ATCGAAATTTTAAGTTCTGAACAAAATTAGAATTCAAGAAGAAGAAGACAAATAACT-AAAGAGA
*
6636449 GAGATCCTTGTTCTTTGGTCCTTGTGGGTCTTAAAATAGATATGCTTTTGTTCATTCCTTCATAA
65 GAGATCCTTGTTCTTTGGTCCTTGTGGGTCTTAAAATAGATATGCCTTTGTTCATTCCTTCATAA
* *
6636514 TCCTTCACCATCATCAATCTACTCCTTCGCATAGAATCCATT
130 TCATTCACCATCATCAATCTACTACTTCGCATAGAATCCATT
* * * *
6636556 ATCGAATTTTTAAGTTTTGAACAAAATTAGAATTCAAGAAGAAGAAGACAGATAGCT-AA-A-AG
1 ATCGAAATTTTAAGTTCTGAACAAAATTAGAATTCAAGAAGAAGAAGACAAATAACTAAAGAGAG
* * *
6636618 AGATCCTTGTTCTTTGGTCCTTGTGGGTCTTAAAATGGATATGCCTTTGTTCATTCTTTCATAGT
66 AGATCCTTGTTCTTTGGTCCTTGTGGGTCTTAAAATAGATATGCCTTTGTTCATTCCTTCATAAT
*
6636683 CATTCACCATCATCAATTTACTACTTCGCATAGAATCCATT
131 CATTCACCATCATCAATCTACTACTTCGCATAGAATCCATT
6636724 ATCGAA
1 ATCGAA
6636730 CCCCACCCTC
Statistics
Matches: 161, Mismatches: 13, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
168 107 0.66
169 1 0.01
170 2 0.01
172 51 0.32
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (171 bp):
ATCGAAATTTTAAGTTCTGAACAAAATTAGAATTCAAGAAGAAGAAGACAAATAACTAAAGAGAG
AGATCCTTGTTCTTTGGTCCTTGTGGGTCTTAAAATAGATATGCCTTTGTTCATTCCTTCATAAT
CATTCACCATCATCAATCTACTACTTCGCATAGAATCCATT
Found at i:6636937 original size:3 final size:3
Alignment explanation
Indices: 6636929--6636977 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
6636919 AATCAACATT
6636929 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
6636977 A
1 A
6636978 AGACCCATTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:6638062 original size:2 final size:2
Alignment explanation
Indices: 6638053--6638117 Score: 123
Period size: 2 Copynumber: 33.0 Consensus size: 2
6638043 ATATGTTTTT
6638053 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6638094 TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
6638118 AATAAATCGA
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 61 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:6643320 original size:41 final size:41
Alignment explanation
Indices: 6643270--6643443 Score: 126
Period size: 40 Copynumber: 4.3 Consensus size: 41
6643260 AACAGGTTAT
6643270 TAGCGGCGTTTGGACAGAAAACGCCGCAAAAGGTAAAAGAA
1 TAGCGGCGTTTGGACAGAAAACGCCGCAAAAGGTAAAAGAA
* *** *
6643311 TAGTGGCGTTTTTCCA-TAAACGCCGCAAAAGGT-AAAGCAA
1 TAGCGGCGTTTGGACAGAAAACGCCGCAAAAGGTAAAAG-AA
* * * ** ** *
6643351 TAGCGACGTTTATGG---GAAAGCGCCGCTAAAGGTCGGATCAT
1 TAGCGGCG-TT-TGGACAGAAAACGCCGCAAAAGGT-AAAAGAA
*
6643392 TAGCGGCGTTTGGACAGAAAACGCAGCAAAAGGT-AAAGCAA
1 TAGCGGCGTTTGGACAGAAAACGCCGCAAAAGGTAAAAG-AA
*
6643433 TAGCGGTGTTT
1 TAGCGGCGTTT
6643444 ATGGGAAAGC
Statistics
Matches: 98, Mismatches: 25, Indels: 20
0.69 0.17 0.14
Matches are distributed among these distances:
39 7 0.07
40 41 0.42
41 33 0.34
42 17 0.17
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (41 bp):
TAGCGGCGTTTGGACAGAAAACGCCGCAAAAGGTAAAAGAA
Found at i:6643427 original size:82 final size:80
Alignment explanation
Indices: 6643328--6643563 Score: 305
Period size: 82 Copynumber: 2.9 Consensus size: 80
6643318 GTTTTTCCAT
*
6643328 AAACGCCGCAAAAGGTAAAGCAATAGCGACGTTTATGGGAAAGCGCCGCTAAAGGTCGGATCATT
1 AAACG-CGCAAAAGGTAAAGCAATAGCGGCGTTTATGGGAAAGCGCCGCTAAAGGTCGGATCATT
6643393 AGCGGCG-TT-TGGACAGA
65 AGCGGCGTTTATGG---GA
*
6643410 AAACGCAGCAAAAGGTAAAGCAATAGCGGTGTTTATGGGAAAGCGCCGCTAAAGGTCGGATCATT
1 AAACGC-GCAAAAGGTAAAGCAATAGCGGCGTTTATGGGAAAGCGCCGCTAAAGGTCGGATCATT
* *
6643475 AACGGTGTTTATGGGA
65 AGCGGCGTTTATGGGA
* * * * * *
6643491 AAGCGTCGCTAAAGGTCAGAGCATTAGCGGCGTTTCTGGGAAAGCGCCGCTAAAGGTCGGAGCAT
1 AAACG-CGCAAAAGGT-AAAGCAATAGCGGCGTTTATGGGAAAGCGCCGCTAAAGGTCGGATCAT
6643556 TAGCGGCG
64 TAGCGGCG
6643564 CTTTCTCATA
Statistics
Matches: 136, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
81 15 0.11
82 116 0.85
83 2 0.01
84 3 0.02
ACGTcount: A:0.31, C:0.19, G:0.32, T:0.19
Consensus pattern (80 bp):
AAACGCGCAAAAGGTAAAGCAATAGCGGCGTTTATGGGAAAGCGCCGCTAAAGGTCGGATCATTA
GCGGCGTTTATGGGA
Found at i:6643482 original size:41 final size:41
Alignment explanation
Indices: 6643346--6643563 Score: 244
Period size: 41 Copynumber: 5.3 Consensus size: 41
6643336 CAAAAGGTAA
* *
6643346 AGCAATAGCGACGTTTATGGGAAAGCGCCGCTAAAGGTCGG
1 AGCATTAGCGGCGTTTATGGGAAAGCGCCGCTAAAGGTCGG
* * * * **
6643387 ATCATTAGCGGCG-TT-TGGACAGAAAACGCAGCAAAAGGT-AA
1 AGCATTAGCGGCGTTTATGG---GAAAGCGCCGCTAAAGGTCGG
* *
6643428 AGCAATAGCGGTGTTTATGGGAAAGCGCCGCTAAAGGTCGG
1 AGCATTAGCGGCGTTTATGGGAAAGCGCCGCTAAAGGTCGG
* * * * *
6643469 ATCATTAACGGTGTTTATGGGAAAGCGTCGCTAAAGGTCAG
1 AGCATTAGCGGCGTTTATGGGAAAGCGCCGCTAAAGGTCGG
*
6643510 AGCATTAGCGGCGTTTCTGGGAAAGCGCCGCTAAAGGTCGG
1 AGCATTAGCGGCGTTTATGGGAAAGCGCCGCTAAAGGTCGG
6643551 AGCATTAGCGGCG
1 AGCATTAGCGGCG
6643564 CTTTCTCATA
Statistics
Matches: 144, Mismatches: 27, Indels: 12
0.79 0.15 0.07
Matches are distributed among these distances:
39 3 0.02
40 17 0.12
41 104 0.72
42 17 0.12
43 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.33, T:0.20
Consensus pattern (41 bp):
AGCATTAGCGGCGTTTATGGGAAAGCGCCGCTAAAGGTCGG
Found at i:6643585 original size:41 final size:41
Alignment explanation
Indices: 6643449--6643614 Score: 120
Period size: 41 Copynumber: 4.0 Consensus size: 41
6643439 TGTTTATGGG
* * * * * * ***
6643449 AAAGCGCCGCTAAAGGTCGGATCATTAACGGTGTTTATGGG
1 AAAGCGCCACTAAAGGTCAGAGCATTAGCGGCGTTTCTCAT
* * ***
6643490 AAAGCGTCGCTAAAGGTCAGAGCATTAGCGGCGTTTCTGGG
1 AAAGCGCCACTAAAGGTCAGAGCATTAGCGGCGTTTCTCAT
* *
6643531 AAAGCGCCGCTAAAGGTCGGAGCATTAGCGGCGCTTTCTCAT
1 AAAGCGCCACTAAAGGTCAGAGCATTAGCGGCG-TTTCTCAT
* * * *
6643573 AAA-CGGCACTAAAGGTTA-AGTAATAGCGGCGTTTTCTCAT
1 AAAGCGCCACTAAAGGTCAGAGCATTAGCGGCG-TTTCTCAT
6643613 AA
1 AA
6643615 GCGTTGCTAA
Statistics
Matches: 106, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
40 21 0.20
41 77 0.73
42 8 0.08
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (41 bp):
AAAGCGCCACTAAAGGTCAGAGCATTAGCGGCGTTTCTCAT
Found at i:6643609 original size:82 final size:80
Alignment explanation
Indices: 6643315--6643606 Score: 298
Period size: 82 Copynumber: 3.6 Consensus size: 80
6643305 AAAGAATAGT
* * * *
6643315 GGCGTTTTTCCATAAACGCCGCAAAAGGTAAAGCAATAGCGACGTTTATGGGAAAGCGCCGCTAA
1 GGCGTTTCT-CATAAACGGCACAAAAGGTAAAGCAATAGCGGCGTTTATGGGAAAGCGCCGCTAA
6643380 AGGTCGGATCATTAGC
65 AGGTCGGATCATTAGC
** * *
6643396 GGCGTTTGGACAGAAAAC-GCAGCAAAAGGTAAAGCAATAGCGGTGTTTATGGGAAAGCGCCGCT
1 GGCGTTT-CTCA-TAAACGGCA-CAAAAGGTAAAGCAATAGCGGCGTTTATGGGAAAGCGCCGCT
*
6643460 AAAGGTCGGATCATTAAC
63 AAAGGTCGGATCATTAGC
* * *** * * * * * *
6643478 GGTGTTTATGGGAAAGCGTCGCTAAAGGTCAGAGCATTAGCGGCGTTTCTGGGAAAGCGCCGCTA
1 GGCGTTTCTCATAAA-CGGCACAAAAGGT-AAAGCAATAGCGGCGTTTATGGGAAAGCGCCGCTA
*
6643543 AAGGTCGGAGCATTAGC
64 AAGGTCGGATCATTAGC
* * *
6643560 GGCGCTTTCTCATAAACGGCACTAAAGGTTAAGTAATAGCGGCGTTT
1 GGCG-TTTCTCATAAACGGCACAAAAGGTAAAGCAATAGCGGCGTTT
6643607 TCTCATAAGC
Statistics
Matches: 170, Mismatches: 34, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
80 3 0.02
81 32 0.19
82 128 0.75
83 7 0.04
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (80 bp):
GGCGTTTCTCATAAACGGCACAAAAGGTAAAGCAATAGCGGCGTTTATGGGAAAGCGCCGCTAAA
GGTCGGATCATTAGC
Found at i:6645234 original size:15 final size:16
Alignment explanation
Indices: 6645202--6645236 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
6645192 ACCCAATAAC
6645202 CCAAACCCAAAGTGAA
1 CCAAACCCAAAGTGAA
*
6645218 CCAAACCC-AATTGAA
1 CCAAACCCAAAGTGAA
6645233 CCAA
1 CCAA
6645237 GTCCAAACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.49, C:0.34, G:0.09, T:0.09
Consensus pattern (16 bp):
CCAAACCCAAAGTGAA
Found at i:6647073 original size:41 final size:41
Alignment explanation
Indices: 6647012--6647119 Score: 153
Period size: 41 Copynumber: 2.6 Consensus size: 41
6647002 CTCAAATCTC
* *
6647012 CTTATAAGAAAGCACCGCTAAAGGTCAGAGCATTAGCGGCG
1 CTTATAAGAAAGCGCCGCTAAAGGTCAGAGCATTAGCGGCA
*
6647053 CTTATAAGAAAGCGCTGCTAAAGGTCAGAGCATTAGCGGCA
1 CTTATAAGAAAGCGCCGCTAAAGGTCAGAGCATTAGCGGCA
* * *
6647094 TTTATGAGAAAAACGCCGCTAAAGGT
1 CTTATAAG-AAAGCGCCGCTAAAGGT
6647120 TAAGCAATAA
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
41 44 0.75
42 15 0.25
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.19
Consensus pattern (41 bp):
CTTATAAGAAAGCGCCGCTAAAGGTCAGAGCATTAGCGGCA
Found at i:6648289 original size:28 final size:28
Alignment explanation
Indices: 6648258--6648320 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
6648248 AAAATAATAC
*
6648258 TTTGGATGC-CCGAGGGCAAAATGGTAAT
1 TTTGGAT-CTCCGAGGGCAAAATAGTAAT
* *
6648286 TTTGGATCTTCGGGGGGCAAAATAGTAAT
1 TTTGGATC-TCCGAGGGCAAAATAGTAAT
6648315 TTTGGA
1 TTTGGA
6648321 AAGATTTGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 1 0.03
28 7 0.23
29 22 0.73
ACGTcount: A:0.27, C:0.11, G:0.32, T:0.30
Consensus pattern (28 bp):
TTTGGATCTCCGAGGGCAAAATAGTAAT
Found at i:6648416 original size:29 final size:29
Alignment explanation
Indices: 6648392--6648622 Score: 198
Period size: 29 Copynumber: 8.0 Consensus size: 29
6648382 AATTAGGATA
6648392 AAAAATGGAATTTTTGGATA-TTTAGGGGT
1 AAAAATGGAATTTTTGGATAGTTTA-GGGT
*
6648421 -AAAATGGTAA-TTTT--ATAAGTTTCGGGGT
1 AAAAATGG-AATTTTTGGAT-AGTTT-AGGGT
*
6648449 AAAAAATGG-ATTTTT-TATAAGTTTGAGGGT
1 -AAAAATGGAATTTTTGGAT-AGTTT-AGGGT
*
6648479 AAAAATGGAATTTTTGGA-AGTTCAGGGGT
1 AAAAATGGAATTTTTGGATAGTTTA-GGGT
* *
6648508 AAAAATAGAATTTTTGGA-AGTTTGGGGGT
1 AAAAATGGAATTTTTGGATAGTTT-AGGGT
* *
6648537 AAAAATGGAATTTTTGGAAATTTTAGGGT
1 AAAAATGGAATTTTTGGATAGTTTAGGGT
*
6648566 AAAAATGGAATTTTT-GAAAG-TTAGGGGGT
1 AAAAATGGAATTTTTGGATAGTTTA--GGGT
6648595 AAAAATGTG-ATTTTTGGATAGTTTAGGG
1 AAAAATG-GAATTTTTGGATAGTTTAGGG
6648623 ACCTCTAGGG
Statistics
Matches: 171, Mismatches: 13, Indels: 36
0.78 0.06 0.16
Matches are distributed among these distances:
26 2 0.01
27 4 0.02
28 24 0.14
29 103 0.60
30 34 0.20
31 4 0.02
ACGTcount: A:0.35, C:0.01, G:0.28, T:0.36
Consensus pattern (29 bp):
AAAAATGGAATTTTTGGATAGTTTAGGGT
Found at i:6648599 original size:87 final size:87
Alignment explanation
Indices: 6648370--6648618 Score: 267
Period size: 87 Copynumber: 2.8 Consensus size: 87
6648360 GTAAAACGGT
* * * *
6648370 AATTTTTAGAAAAATT-AGGATAAAAAATGGAATTTTTGGATATTTAGGGGT-AAAATGGTAATT
1 AATTTTTAG-AAATTTGAGGGT-AAAAATGGAATTTTT-GAAAGTTAGGGGTAAAAAT-GTAATT
6648433 TTAT--AAGTTTCGGGGTAAAAAATGG
62 TT-TGGAAGTTTCGGGGTAAAAAATGG
* * * *
6648458 ATTTTTTATAAGTTTGAGGGTAAAAATGGAATTTTTGGAAGTTCAGGGGTAAAAATAG-AATTTT
1 AATTTTTAGAAATTTGAGGGTAAAAATGGAATTTTTGAAAGTT-AGGGGTAAAAAT-GTAATTTT
*
6648522 TGGAAGTTTGGGGGT-AAAAATGG
64 TGGAAGTTTCGGGGTAAAAAATGG
* * *
6648545 AATTTTTGGAAATTTTAGGGTAAAAATGGAATTTTTGAAAGTTAGGGGGTAAAAATGTGATTTTT
1 AATTTTTAGAAATTTGAGGGTAAAAATGGAATTTTTGAAAGTTA-GGGGTAAAAATGTAATTTTT
6648610 GGATAGTTT
65 GGA-AGTTT
6648619 AGGGACCTCT
Statistics
Matches: 136, Mismatches: 17, Indels: 16
0.80 0.10 0.09
Matches are distributed among these distances:
86 7 0.05
87 96 0.71
88 33 0.24
ACGTcount: A:0.37, C:0.01, G:0.26, T:0.37
Consensus pattern (87 bp):
AATTTTTAGAAATTTGAGGGTAAAAATGGAATTTTTGAAAGTTAGGGGTAAAAATGTAATTTTTG
GAAGTTTCGGGGTAAAAAATGG
Found at i:6648611 original size:58 final size:58
Alignment explanation
Indices: 6648392--6648622 Score: 235
Period size: 58 Copynumber: 4.0 Consensus size: 58
6648382 AATTAGGATA
* * *
6648392 AAAAATGGAATTTTTGGATA-TTTAGGGGT-AAAATGGTAA-TTTT--ATAAGTTTCGGGGT
1 AAAAATGGAATTTTT-GAAAGTTTGGGGGTAAAAATGG-AATTTTTGGA-AAGTTT-AGGGT
* * *
6648449 AAAAAATGG-ATTTTTTATAAGTTTGAGGGTAAAAATGGAATTTTTGG-AAGTTCAGGGGT
1 -AAAAATGGAATTTTTGA-AAGTTTGGGGGTAAAAATGGAATTTTTGGAAAGTTTA-GGGT
* * *
6648508 AAAAATAGAATTTTTGGAAGTTTGGGGGTAAAAATGGAATTTTTGGAAATTTTAGGGT
1 AAAAATGGAATTTTTGAAAGTTTGGGGGTAAAAATGGAATTTTTGGAAAGTTTAGGGT
* *
6648566 AAAAATGGAATTTTTGAAAGTTAGGGGGTAAAAATGTG-ATTTTTGGATAGTTTAGGG
1 AAAAATGGAATTTTTGAAAGTTTGGGGGTAAAAATG-GAATTTTTGGAAAGTTTAGGG
6648623 ACCTCTAGGG
Statistics
Matches: 146, Mismatches: 17, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
56 1 0.01
57 7 0.05
58 106 0.73
59 32 0.22
ACGTcount: A:0.35, C:0.01, G:0.28, T:0.36
Consensus pattern (58 bp):
AAAAATGGAATTTTTGAAAGTTTGGGGGTAAAAATGGAATTTTTGGAAAGTTTAGGGT
Found at i:6649620 original size:20 final size:20
Alignment explanation
Indices: 6649597--6649642 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 20
6649587 TTATTAAAAA
6649597 TTAATATTATTTATTA-GTTT
1 TTAATATTA-TTATTACGTTT
6649617 TTAATATTATTATTACCGTTT
1 TTAATATTATTATTA-CGTTT
6649638 TTAAT
1 TTAAT
6649643 GCCATTCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.61
Consensus pattern (20 bp):
TTAATATTATTATTACGTTT
Found at i:6650373 original size:6 final size:6
Alignment explanation
Indices: 6650364--6650438 Score: 66
Period size: 6 Copynumber: 12.5 Consensus size: 6
6650354 TTTTAATATT
* **
6650364 AATTTA AATTTT AA-TTA AATTTA AATTTA AA-GCA AATTTA AATTTAAA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTT--A
*
6650412 AATTTA AATTTA ACA-ATA AATTTA AAT
1 AATTTA AATTTA A-ATTTA AATTTA AAT
6650439 CTATTTAAAC
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
5 8 0.15
6 40 0.73
7 1 0.02
8 6 0.11
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (6 bp):
AATTTA
Found at i:6650386 original size:17 final size:17
Alignment explanation
Indices: 6650354--6650438 Score: 77
Period size: 17 Copynumber: 5.1 Consensus size: 17
6650344 CTATTTGGGT
*
6650354 TTTTAATATTAATTTAAA
1 TTTTAAT-TAAATTTAAA
6650372 TTTTAATTAAATTTAAA
1 TTTTAATTAAATTTAAA
* **
6650389 TTTAAAGCAAATTTAAA
1 TTTTAATTAAATTTAAA
6650406 -TTTAA--AAATTTAAA
1 TTTTAATTAAATTTAAA
* *
6650420 TTTAACAATAAATTTAAA
1 TTTTA-ATTAAATTTAAA
6650438 T
1 T
6650439 CTATTTAAAC
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
14 9 0.16
15 3 0.05
16 5 0.09
17 23 0.40
18 17 0.30
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (17 bp):
TTTTAATTAAATTTAAA
Found at i:6650564 original size:17 final size:17
Alignment explanation
Indices: 6650509--6650564 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
6650499 CAATTATTTT
6650509 AAAACTTATATAAACTAA
1 AAAACTTATATAAACT-A
* * * *
6650527 AAAAATTCTA-AAATTTT
1 AAAACTTATATAAA-CTA
6650544 AAAACTTATATAAACTA
1 AAAACTTATATAAACTA
6650561 AAAA
1 AAAA
6650565 AAATTAAATT
Statistics
Matches: 28, Mismatches: 8, Indels: 5
0.68 0.20 0.12
Matches are distributed among these distances:
17 16 0.57
18 12 0.43
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAACTTATATAAACTA
Found at i:6650565 original size:18 final size:18
Alignment explanation
Indices: 6650509--6650565 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
6650499 CAATTATTTT
6650509 AAAACTTATATAAACTAA
1 AAAACTTATATAAACTAA
* * * **
6650527 AAAAATTCTA-AAATTTT
1 AAAACTTATATAAACTAA
6650544 AAAACTTATATAAACTAA
1 AAAACTTATATAAACTAA
6650562 AAAA
1 AAAA
6650566 AATTAAATTA
Statistics
Matches: 28, Mismatches: 10, Indels: 2
0.70 0.25 0.05
Matches are distributed among these distances:
17 12 0.43
18 16 0.57
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (18 bp):
AAAACTTATATAAACTAA
Found at i:6650579 original size:36 final size:37
Alignment explanation
Indices: 6650500--6650579 Score: 130
Period size: 35 Copynumber: 2.2 Consensus size: 37
6650490 GTTTCGACAC
*
6650500 AATTATTTTAAAACTTATATAAACTAAAAAAATTCTA
1 AATTATTTTAAAACTTATATAAACTAAAAAAAATCTA
6650537 AA--ATTTTAAAACTTATATAAACTAAAAAAAAT-TA
1 AATTATTTTAAAACTTATATAAACTAAAAAAAATCTA
6650571 AATTATTTT
1 AATTATTTT
6650580 GGTTTTATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
34 4 0.10
35 29 0.73
36 5 0.12
37 2 0.05
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (37 bp):
AATTATTTTAAAACTTATATAAACTAAAAAAAATCTA
Found at i:6652184 original size:23 final size:22
Alignment explanation
Indices: 6652149--6652193 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
6652139 AAAGGTCAGT
6652149 TTTCTTGCCTTTTTAGTATGTTC
1 TTTCTTG-CTTTTTAGTATGTTC
*
6652172 TTTCTTTCTTTTTAGTATGTTC
1 TTTCTTGCTTTTTAGTATGTTC
6652194 AATTCTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.09, C:0.16, G:0.11, T:0.64
Consensus pattern (22 bp):
TTTCTTGCTTTTTAGTATGTTC
Found at i:6654562 original size:43 final size:43
Alignment explanation
Indices: 6654494--6654748 Score: 334
Period size: 43 Copynumber: 6.0 Consensus size: 43
6654484 TTTGTTAATA
* *
6654494 TTAGCTGCGTTTGTGGGAAAAGCGTCGCTAAAGACCATGTTCT
1 TTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTCT
* * * *
6654537 TTAACGACGTTTGTGGGAAAAGCGTCACTAAAGACCATGTTCT
1 TTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTCT
* * * *
6654580 TTAGCGGCGTTTGTGAGAAAAGCACCGTTAAAGATCATGTT-T
1 TTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTCT
* **
6654622 TTAGCGGCGTTTGTTGGAAAAGCGTTGCTAAAGACCATGTTCT
1 TTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTCT
* *
6654665 TTAGCGGGGTTTGTGGGAAAAGAGCCGCTAAAGACCATGTTCT
1 TTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTCT
* * *
6654708 TTAGCGGCGTTTTTGGG-AAAGTGCCGCTAAAGATCATGTTC
1 TTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTC
6654749 CATAATGACG
Statistics
Matches: 183, Mismatches: 28, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
42 57 0.31
43 126 0.69
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (43 bp):
TTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTCT
Found at i:6654664 original size:85 final size:86
Alignment explanation
Indices: 6654494--6654748 Score: 336
Period size: 85 Copynumber: 3.0 Consensus size: 86
6654484 TTTGTTAATA
* ** * * *
6654494 TTAGCTGCGTTTGTGGGAAAAGCGTCGCTAAAGACCATGTTCTTTAACGACGTTTGTGGGAAAAG
1 TTAGCGGCGTTTGTGGGAAAAGCACCGCTAAAGACCATGTTCTTTAGCGGCGTTTGTTGGAAAAG
*
6654559 CGTCACTAAAGACCATGTTCT
66 CGTCGCTAAAGACCATGTTCT
* * *
6654580 TTAGCGGCGTTTGTGAGAAAAGCACCGTTAAAGATCATGTT-TTTAGCGGCGTTTGTTGGAAAAG
1 TTAGCGGCGTTTGTGGGAAAAGCACCGCTAAAGACCATGTTCTTTAGCGGCGTTTGTTGGAAAAG
*
6654644 CGTTGCTAAAGACCATGTTCT
66 CGTCGCTAAAGACCATGTTCT
* *
6654665 TTAGCGGGGTTTGTGGGAAAAG-AGCCGCTAAAGACCATGTTCTTTAGCGGCGTTT-TTGGGAAA
1 TTAGCGGCGTTTGTGGGAAAAGCA-CCGCTAAAGACCATGTTCTTTAGCGGCGTTTGTTGGAAAA
* * *
6654728 GTGCCGCTAAAGATCATGTTC
65 GCGTCGCTAAAGACCATGTTC
6654749 CATAATGACG
Statistics
Matches: 147, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
84 1 0.01
85 98 0.67
86 48 0.33
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (86 bp):
TTAGCGGCGTTTGTGGGAAAAGCACCGCTAAAGACCATGTTCTTTAGCGGCGTTTGTTGGAAAAG
CGTCGCTAAAGACCATGTTCT
Found at i:6654761 original size:128 final size:128
Alignment explanation
Indices: 6654501--6654761 Score: 344
Period size: 128 Copynumber: 2.0 Consensus size: 128
6654491 ATATTAGCTG
* *
6654501 CGTTTGTGGGAAAAGCGTCGCTAAAGACCATGTTCTTTAACGACGTTTGTGGGAAAAGCGTCACT
1 CGTTTGTGGGAAAAGCGTCGCTAAAGACCATGTTCTTTAACGACGTTTGTGGGAAAAGAGCCACT
* ** * *
6654566 AAAGACCATGTTCTTTAGCGGCGTTTGTGAGAAAAGCACCGTTAAAGATCATGTTTTTAGCGG
66 AAAGACCATGTTCTTTAGCGGCGTTTGTGAGAAAAGCACCGCTAAAGATCATGTTCATAACGA
* * * ** *
6654629 CGTTTGTTGGAAAAGCGTTGCTAAAGACCATGTTCTTTAGCGGGGTTTGTGGGAAAAGAGCCGCT
1 CGTTTGTGGGAAAAGCGTCGCTAAAGACCATGTTCTTTAACGACGTTTGTGGGAAAAGAGCCACT
* * ** *
6654694 AAAGACCATGTTCTTTAGCGGCGTTTTTG-GGAAAGTGCCGCTAAAGATCATGTTCCATAATGA
66 AAAGACCATGTTCTTTAGCGGCGTTTGTGAGAAAAGCACCGCTAAAGATCATGTT-CATAACGA
6654757 CGTTT
1 CGTTT
6654762 TTCCTCATAA
Statistics
Matches: 114, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
127 21 0.18
128 93 0.82
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (128 bp):
CGTTTGTGGGAAAAGCGTCGCTAAAGACCATGTTCTTTAACGACGTTTGTGGGAAAAGAGCCACT
AAAGACCATGTTCTTTAGCGGCGTTTGTGAGAAAAGCACCGCTAAAGATCATGTTCATAACGA
Found at i:6656181 original size:42 final size:41
Alignment explanation
Indices: 6656130--6656239 Score: 148
Period size: 42 Copynumber: 2.6 Consensus size: 41
6656120 GCATTTACAG
* * *
6656130 GGGCACCGTAGTGCCAGATAGGGACATTGTAGTGCAATTCAA
1 GGGCACCGTAGTGCAAGACAGGG-CATAGTAGTGCAATTCAA
* * *
6656172 GGGTACCGTAGTGCAAGACAGAGGCATAGTGGTGCAATTCAG
1 GGGCACCGTAGTGCAAGACAG-GGCATAGTAGTGCAATTCAA
6656214 GGGCACCGTAGTGCAAGACAGGGCAT
1 GGGCACCGTAGTGCAAGACAGGGCAT
6656240 CACATAACCT
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
41 5 0.08
42 53 0.88
43 2 0.03
ACGTcount: A:0.28, C:0.19, G:0.35, T:0.18
Consensus pattern (41 bp):
GGGCACCGTAGTGCAAGACAGGGCATAGTAGTGCAATTCAA
Found at i:6656206 original size:21 final size:20
Alignment explanation
Indices: 6656179--6656239 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 20
6656169 CAAGGGTACC
6656179 GTAGTGCAAGACAGAGGCATA
1 GTAGTGCAAGACAG-GGCATA
* ** **
6656200 GTGGTGCAATTCAGGGGCACC
1 GTAGTGCAAGACA-GGGCATA
6656221 GTAGTGCAAGACAGGGCAT
1 GTAGTGCAAGACAGGGCAT
6656240 CACATAACCT
Statistics
Matches: 30, Mismatches: 9, Indels: 3
0.71 0.21 0.07
Matches are distributed among these distances:
20 5 0.17
21 24 0.80
22 1 0.03
ACGTcount: A:0.30, C:0.18, G:0.36, T:0.16
Consensus pattern (20 bp):
GTAGTGCAAGACAGGGCATA
Found at i:6663263 original size:23 final size:23
Alignment explanation
Indices: 6663232--6663288 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
6663222 TGACGTAGCG
*
6663232 TCCAATCAGCAGCTTCTAGAAGA
1 TCCAGTCAGCAGCTTCTAGAAGA
*
6663255 TCCAGTCAGCAGCTTCTAGAAGG
1 TCCAGTCAGCAGCTTCTAGAAGA
*
6663278 TCTAGTCAGCA
1 TCCAGTCAGCA
6663289 AGGATGGACG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (23 bp):
TCCAGTCAGCAGCTTCTAGAAGA
Found at i:6664133 original size:17 final size:17
Alignment explanation
Indices: 6664111--6664144 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6664101 AGGTTGATAC
6664111 TTAAATTGAGTTTCTTT
1 TTAAATTGAGTTTCTTT
* *
6664128 TTAAATTTATTTTCTTT
1 TTAAATTGAGTTTCTTT
6664145 AAATTCTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.65
Consensus pattern (17 bp):
TTAAATTGAGTTTCTTT
Found at i:6672704 original size:200 final size:199
Alignment explanation
Indices: 6672365--6672964 Score: 965
Period size: 200 Copynumber: 3.0 Consensus size: 199
6672355 GTAGTTCAAC
* * *
6672365 AAACAAGCGAGGTGGTCATCTTCC--T--GATACAGAGAAGAATACCAACTCAGCGCTCAACGTG
1 AAACAAGCGAGGCGGTCATCTTCCTATGAGATACAGAGAAGAATACCAACTCAACGCTCAACGCG
* *
6672426 AGCAAATCTTCGAACCCGGCTTCCTGATGAGGCACTGAGAAGCAGGTCGAAACAATAAAAGGGTT
66 AGCAAATCTTCGAACCCAGCTTCCTGATGAGGCACTGAGAAGCAGGTCGAAACAATAAAAAGGTT
* *
6672491 AGCTTCCTGATGAGACACAGAGAAGTGGACCAAACTCGTCTTCCTAAGGAGATCCAGAGAAGCGA
131 AGCTTCCTGATGAGACACAAAGAAGTGGACCAAATTCGTCTTCCTAAGGAGATCCAGAGAAGCGA
6672556 ATTG
196 ATTG
* *
6672560 AAACAAGCGAGGCGGTCATCTTCCTAATGAGATACAGAGAAGAATACCAACTCAACGCTTAATGC
1 AAACAAGCGAGGCGGTCATCTTCCT-ATGAGATACAGAGAAGAATACCAACTCAACGCTCAACGC
* *
6672625 GAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAACAATAAAATGGT
65 GAGCAAATCTTCGAACCCAGCTTCCTGATGAGGCACTGAGAAGCAGGTCGAAACAATAAAAAGGT
* *
6672690 TAGCTTCTTGATGAGACACAAAGAAGTGGACCAAATTCGTCTTCCTAAGGAGATCCAGATAAGCG
130 TAGCTTCCTGATGAGACACAAAGAAGTGGACCAAATTCGTCTTCCTAAGGAGATCCAGAGAAGCG
6672755 AATTG
195 AATTG
* *
6672760 AATCAAGCGAGACGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACGC
1 AAACAAGCGAGGCGGTCATCTTCCT-ATGAGATACAGAGAAGAATACCAACTCAACGCTCAACGC
* *
6672825 GAGCAAATCTTCGAACCCAGCTTCCTGATGAGGTACTGAGAAGCAGGTCGAAGCAATAAAAAGGT
65 GAGCAAATCTTCGAACCCAGCTTCCTGATGAGGCACTGAGAAGCAGGTCGAAACAATAAAAAGGT
* * *
6672890 TAGCTTCCTGATGAGACACAAAGAAGTGGACCAATTTCGTCTTCCTGAGAAGATCCAGAGAAGCG
130 TAGCTTCCTGATGAGACACAAAGAAGTGGACCAAATTCGTCTTCCTAAGGAGATCCAGAGAAGCG
*
6672955 AATTA
195 AATTG
6672960 AAACA
1 AAACA
6672965 GATAATTGCA
Statistics
Matches: 372, Mismatches: 28, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
195 23 0.06
198 1 0.00
200 348 0.94
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (199 bp):
AAACAAGCGAGGCGGTCATCTTCCTATGAGATACAGAGAAGAATACCAACTCAACGCTCAACGCG
AGCAAATCTTCGAACCCAGCTTCCTGATGAGGCACTGAGAAGCAGGTCGAAACAATAAAAAGGTT
AGCTTCCTGATGAGACACAAAGAAGTGGACCAAATTCGTCTTCCTAAGGAGATCCAGAGAAGCGA
ATTG
Found at i:6673385 original size:16 final size:17
Alignment explanation
Indices: 6673341--6673405 Score: 71
Period size: 17 Copynumber: 3.9 Consensus size: 17
6673331 GCCCAACTTG
*
6673341 GATTATAAA-TTAAGTTT
1 GATT-TAAATTTAAATTT
* *
6673358 GAATTAATTTTAAATTT
1 GATTTAAATTTAAATTT
6673375 -ATTTAAATTTAAATTT
1 GATTTAAATTTAAATTT
*
6673391 GTTTTAAATTTAAAT
1 GATTTAAATTTAAAT
6673406 ACATTTAAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
16 17 0.43
17 23 0.57
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (17 bp):
GATTTAAATTTAAATTT
Found at i:6673389 original size:27 final size:27
Alignment explanation
Indices: 6673350--6673402 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
6673340 GGATTATAAA
* *
6673350 TTAAGTTTGAATTAATTTTAAATTTAT
1 TTAAATTTAAATTAATTTTAAATTTAT
**
6673377 TTAAATTTAAATTTGTTTTAAATTTA
1 TTAAATTTAAATTAATTTTAAATTTA
6673403 AATACATTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (27 bp):
TTAAATTTAAATTAATTTTAAATTTAT
Found at i:6674886 original size:30 final size:30
Alignment explanation
Indices: 6674829--6674886 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
6674819 TGGCAGGTAT
*
6674829 GGAGGAAAGTTGAGAGAGTTTGAGAGAATA
1 GGAGGAAAGTTGAGAGAGTTTCAGAGAATA
* *
6674859 GGAGAGAAAGTT-TGAGAGTTTCTGAGAA
1 GGAG-GAAAGTTGAGAGAGTTTCAGAGAA
6674887 AAAAGAAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 17 0.71
31 7 0.29
ACGTcount: A:0.38, C:0.02, G:0.38, T:0.22
Consensus pattern (30 bp):
GGAGGAAAGTTGAGAGAGTTTCAGAGAATA
Found at i:6675415 original size:30 final size:29
Alignment explanation
Indices: 6675380--6675458 Score: 74
Period size: 30 Copynumber: 2.7 Consensus size: 29
6675370 CCTCGATTTC
6675380 ACCAAAAATTACCATTTTACCCCTAAACTTT
1 ACCAAAAATTACCATTTTACCCC--AACTTT
* * *
6675411 -CC-AAAA-TCCCATTTTTAACCCCGATTTT
1 ACCAAAAATTACCA-TTTT-ACCCCAACTTT
6675439 ACCAAAAATTACCATTTTAC
1 ACCAAAAATTACCATTTTAC
6675459 ACTCGAATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
28 8 0.21
29 12 0.31
30 15 0.38
31 4 0.10
ACGTcount: A:0.37, C:0.29, G:0.01, T:0.33
Consensus pattern (29 bp):
ACCAAAAATTACCATTTTACCCCAACTTT
Found at i:6675436 original size:59 final size:59
Alignment explanation
Indices: 6675300--6675458 Score: 237
Period size: 60 Copynumber: 2.7 Consensus size: 59
6675290 TAATTACATT
* * * * *
6675300 CCATTTTTAACCCTGATTTCACCCAAAATTATCTTTTTACCCCCAAACTTTCGAAAATC
1 CCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATC
* *
6675359 CCATTTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATC
1 CCA-TTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATC
*
6675419 CCATTTTTAACCCCGATTTTACCAAAAATTACCATTTTAC
1 CCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTAC
6675459 ACTCGAATTT
Statistics
Matches: 90, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
59 38 0.42
60 52 0.58
ACGTcount: A:0.32, C:0.30, G:0.03, T:0.36
Consensus pattern (59 bp):
CCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATC
Found at i:6675443 original size:29 final size:29
Alignment explanation
Indices: 6675353--6675445 Score: 75
Period size: 29 Copynumber: 3.1 Consensus size: 29
6675343 CAAACTTTCG
* *
6675353 AAAATCCCATTTTTTAACCTCGATTTCACC
1 AAAATCCCA-TTTTTAACCCCGATTTTACC
* * *
6675383 AAAAATTACCA-TTTT-ACCCCTAAACTTT-CC
1 -AAAA-TCCCATTTTTAACCCC--GATTTTACC
6675413 AAAATCCCATTTTTAACCCCGATTTTACC
1 AAAATCCCATTTTTAACCCCGATTTTACC
6675442 AAAA
1 AAAA
6675446 ATTACCATTT
Statistics
Matches: 48, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
28 8 0.17
29 18 0.38
30 11 0.23
31 7 0.15
32 4 0.08
ACGTcount: A:0.35, C:0.29, G:0.02, T:0.33
Consensus pattern (29 bp):
AAAATCCCATTTTTAACCCCGATTTTACC
Found at i:6684416 original size:200 final size:200
Alignment explanation
Indices: 6684078--6684877 Score: 1252
Period size: 200 Copynumber: 4.0 Consensus size: 200
6684068 GTAGTTCAAC
* *
6684078 AAACAAGCGAGGCGATCATCTT-CT--T--GATACAGAGAAGAATACCAACTCAGCGCTCAACGC
1 AAACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACGC
* * *
6684138 GAGCAAATCTTCGAACTCGGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAACAATAAAAGGGT
66 GAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAACAATAAAATGGT
* *
6684203 TAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAAGAGATCCAAAGAAGTG
131 TAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAAGAGATCCAGAGAAGCG
6684268 AATTA
196 AATTA
* * *
6684273 AAACAAGCGAGGCGGTCATCTTCCTAATGAGATACAGAGAAGAATACCAACTCAATGCTCAATGC
1 AAACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACGC
** *
6684338 GAGCAAATCTTCGAACCCAAATTCCTGATGAGACACTGAGAAGTAGGTCGAAACAATAAAATGGT
66 GAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAACAATAAAATGGT
* * *
6684403 TAGCTTCCTGATGAGACACTGAGAAGTGGACCAAATTCGTCTTCCTTAGGAGATCCAGAGAAGCG
131 TAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAAGAGATCCAGAGAAGCG
6684468 AATTA
196 AATTA
* * **
6684473 AAACAAGCGAGGCGGTCATCTTCCTGATAAGATACAAAGAAGAATACCAACTCAACGCTCAGTGC
1 AAACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACGC
*
6684538 GAGCAAATTTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAACAATAAAATGGT
66 GAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAACAATAAAATGGT
* * * * *
6684603 TAGCTTCCTGATGAGACACTGAGAAGTAGACCAAATTTGTCTTCCTGAGGAGATCCAGTGAAGCG
131 TAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAAGAGATCCAGAGAAGCG
*
6684668 AATTG
196 AATTA
* *
6684673 AAACAAGCGAGACGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTTAACGCTCAACGC
1 AAACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACGC
** * *
6684738 GAGCAAATCTTCGAACCCAGCTTCCTGATGAGGTACTGAGAAGCAGGTCGAAGCAATAAAAAGGT
66 GAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAACAATAAAATGGT
6684803 TAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTG-AGAAGATCCAGAGAAGC
131 TAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAAG-AGATCCAGAGAAGC
6684867 GAATTA
195 GAATTA
6684873 AAACA
1 AAACA
6684878 GATGATTACG
Statistics
Matches: 553, Mismatches: 46, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
195 21 0.04
196 2 0.00
198 1 0.00
199 1 0.00
200 528 0.95
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (200 bp):
AAACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACGC
GAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAACAATAAAATGGT
TAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAAGAGATCCAGAGAAGCG
AATTA
Found at i:6685039 original size:196 final size:196
Alignment explanation
Indices: 6684808--6685175 Score: 700
Period size: 196 Copynumber: 1.9 Consensus size: 196
6684798 AAGGTTAGCT
6684808 TCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGAAGATCCAGAGAAGCGAATTA
1 TCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGAAGATCCAGAGAAGCGAATTA
*
6684873 AAACAGATGATTACGGTCATCCTCTTGATGAGACACAGAGAAAAAGGCCAGGTCAATGGAATCAG
66 AAACAGATGATTACGGTCATCCTCCTGATGAGACACAGAGAAAAAGGCCAGGTCAATGGAATCAG
6684938 ACTCAAAGACTACGATGACGAATTCCAATCTCCTTGAAATTTTAAAGCAGATGATTGCGGTCATC
131 ACTCAAAGACTACGATGACGAATTCCAATCTCCTTGAAATTTTAAAGCAGATGATTGCGGTCATC
6685003 C
196 C
*
6685004 TCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCTTGAGAAGATCCAGAGAAGCGAATTA
1 TCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGAAGATCCAGAGAAGCGAATTA
* *
6685069 AAACAGATGATTGCGGTCATCCTCCTGATGAGACACAGAGAAGAAGGCCAGGTCAATGGAATCAG
66 AAACAGATGATTACGGTCATCCTCCTGATGAGACACAGAGAAAAAGGCCAGGTCAATGGAATCAG
6685134 ACTCAAAGACTACGATGACGAATTCCAATCTCCTTGAAATTT
131 ACTCAAAGACTACGATGACGAATTCCAATCTCCTTGAAATTT
6685176 CGAGAGAATG
Statistics
Matches: 168, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
196 168 1.00
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (196 bp):
TCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGAAGATCCAGAGAAGCGAATTA
AAACAGATGATTACGGTCATCCTCCTGATGAGACACAGAGAAAAAGGCCAGGTCAATGGAATCAG
ACTCAAAGACTACGATGACGAATTCCAATCTCCTTGAAATTTTAAAGCAGATGATTGCGGTCATC
C
Found at i:6685503 original size:16 final size:16
Alignment explanation
Indices: 6685470--6685505 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
6685460 TAAGTTTGAA
**
6685470 TTAAATTTAAATTTAT
1 TTAAATTTAAATACAT
6685486 TTAAATTTAAATACAT
1 TTAAATTTAAATACAT
6685502 TTAA
1 TTAA
6685506 GATAATTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
TTAAATTTAAATACAT
Found at i:6687607 original size:59 final size:59
Alignment explanation
Indices: 6687545--6687920 Score: 508
Period size: 59 Copynumber: 6.4 Consensus size: 59
6687535 CCCGAAACTT
** * *
6687545 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTTCA-TTTTAACCCCTATTTCA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCTCGATTTCA
* * *
6687603 TCC-AAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCAATTTCA
1 -CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCTCGATTTCA
* * *
6687662 TCAAAAATTACCATTTTACCCCTTAATTTTCCAAAATCCCATTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCTCGATTTCA
* *
6687721 CCAAAAATTACCATTTTA-CCCTCGAACTTTCTAAAATCCCATTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCT-AAACTTTCCAAAATCCCATTTTTAACCTCGATTTCA
* ** * *
6687780 CCAAAAATTACCGTTTTACCCCCGAACTTTCCAAAATCCCATTCTTAACCTCGATTTTA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCTCGATTTCA
* * *
6687839 CTAAAAATTACCATTTTACCCTTAAACTTTCCAAAATTCCATTTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCA-TTTTTAACCTCGATTTCA
6687899 CCAAAAATTA-CATTTTTACCCC
1 CCAAAAATTACCA-TTTTACCCC
6687921 CGAAAGTCAA
Statistics
Matches: 282, Mismatches: 29, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
58 40 0.14
59 206 0.73
60 36 0.13
ACGTcount: A:0.33, C:0.30, G:0.02, T:0.36
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCTCGATTTCA
Found at i:6687884 original size:29 final size:29
Alignment explanation
Indices: 6687512--6687884 Score: 143
Period size: 29 Copynumber: 12.7 Consensus size: 29
6687502 AGTCCCCAAG
* *
6687512 CTTTCCAAAATTCTATTTTTGACCCCGAAA
1 CTTTCCAAAATTCCATTTTT-ACCCCTAAA
6687542 C-TTCCAAAAATTACCA-TTTTACCCCTAAA
1 CTTTCC-AAAATT-CCATTTTTACCCCTAAA
* *
6687571 CTTTCCAAAATTTCATTTTAACCCCT--A
1 CTTTCCAAAATTCCATTTTTACCCCTAAA
* *
6687598 TTTCATCCAAAATTACCA-TTTTACCCCCAAA
1 CTT--TCCAAAATT-CCATTTTTACCCCTAAA
*
6687629 CTTTCCAAAATCCCATTTTTAACCCC--AA
1 CTTTCCAAAATTCCATTTTT-ACCCCTAAA
*
6687657 -TTTCATCAAAAATTACCA-TTTTACCCCTTAA
1 CTTTC--C-AAAATT-CCATTTTTACCCCTAAA
* * * **
6687688 TTTTCCAAAATCCCATTTTTA-ACCTCGA
1 CTTTCCAAAATTCCATTTTTACCCCTAAA
*
6687716 -TTTCACCAAAAATTACCA-TTTTA-CCCTCGAA
1 CTTT--CC-AAAATT-CCATTTTTACCCCT-AAA
* * * **
6687747 CTTTCTAAAATCCCATTTTTA-ACCTCGA
1 CTTTCCAAAATTCCATTTTTACCCCTAAA
* **
6687775 -TTTCACCAAAAATTACC-GTTTTACCCCCGAA
1 CTTT--CC-AAAATT-CCATTTTTACCCCTAAA
* * * **
6687806 CTTTCCAAAATCCCATTCTTA-ACCTCGA
1 CTTTCCAAAATTCCATTTTTACCCCTAAA
* * *
6687834 TTTTACTAAAAATTACCA-TTTTACCCTTAAA
1 CTTT-C-CAAAATT-CCATTTTTACCCCTAAA
6687865 CTTTCCAAAATTCCATTTTT
1 CTTTCCAAAATTCCATTTTT
6687885 TAACCTCGAT
Statistics
Matches: 257, Mismatches: 48, Indels: 77
0.67 0.13 0.20
Matches are distributed among these distances:
27 13 0.05
28 29 0.11
29 109 0.42
30 68 0.26
31 28 0.11
32 10 0.04
ACGTcount: A:0.32, C:0.29, G:0.02, T:0.36
Consensus pattern (29 bp):
CTTTCCAAAATTCCATTTTTACCCCTAAA
Found at i:6687903 original size:30 final size:28
Alignment explanation
Indices: 6687633--6687916 Score: 123
Period size: 30 Copynumber: 9.6 Consensus size: 28
6687623 CCCAAACTTT
* * *
6687633 CCAAAATCCCATTTTTAACCCCAATTTCA
1 CCAAAATTCCATTTTTAACCTCGATTT-A
* * ** *
6687662 TCAAAAATTACCA-TTTTACCCCTTAATTTT
1 -CCAAAATT-CCATTTTTA-ACCTCGATTTA
*
6687692 CCAAAATCCCATTTTTAACCTCGATTTCA
1 CCAAAATTCCATTTTTAACCTCGATTT-A
*
6687721 CCAAAAATTACCA-TTTTACCCTCGAACTTT-
1 CC-AAAATT-CCATTTTTAACCTCG-A-TTTA
* *
6687751 CTAAAATCCCATTTTTAACCTCGATTTCA
1 CCAAAATTCCATTTTTAACCTCGATTT-A
* * *
6687780 CCAAAAATTACC-GTTTTACCCCCGAACTTT-
1 CC-AAAATT-CCATTTTTAACCTCG-A-TTTA
* *
6687810 CCAAAATCCCATTCTTAACCTCGATTTTA
1 CCAAAATTCCATTTTTAACCTCGA-TTTA
* * **
6687839 CTAAAAATTACCA-TTTTACCCTTAAACTTT-
1 C-CAAAATT-CCATTTTTAACC-TCGA-TTTA
6687869 CCAAAATTCCATTTTTTAACCTCGATTTCA
1 CCAAAATTCCA-TTTTTAACCTCGATTT-A
*
6687899 CCAAAAATTACATTTTTA
1 CC-AAAATTCCATTTTTA
6687917 CCCCCGAAAG
Statistics
Matches: 189, Mismatches: 40, Indels: 50
0.68 0.14 0.18
Matches are distributed among these distances:
27 3 0.02
28 26 0.14
29 51 0.27
30 70 0.37
31 33 0.17
32 6 0.03
ACGTcount: A:0.33, C:0.28, G:0.02, T:0.36
Consensus pattern (28 bp):
CCAAAATTCCATTTTTAACCTCGATTTA
Found at i:6690547 original size:25 final size:25
Alignment explanation
Indices: 6690519--6690594 Score: 100
Period size: 25 Copynumber: 3.0 Consensus size: 25
6690509 AAAGTCTCTA
6690519 TGGCGTATCATCTAGAAAGCCTTTG
1 TGGCGTATCATCTAGAAAGCCTTTG
*
6690544 TGGCGAATTC-TCTAGAAAGCCTTTG
1 TGGCGTA-TCATCTAGAAAGCCTTTG
* * *
6690569 TGGCATATCATTTGGAAAGCCTTTG
1 TGGCGTATCATCTAGAAAGCCTTTG
6690594 T
1 T
6690595 CCCGAATTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
24 2 0.05
25 40 0.91
26 2 0.05
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (25 bp):
TGGCGTATCATCTAGAAAGCCTTTG
Found at i:6690554 original size:50 final size:50
Alignment explanation
Indices: 6690479--6690614 Score: 137
Period size: 50 Copynumber: 2.7 Consensus size: 50
6690469 TCGAGAAATT
* *** *
6690479 TCTAGAAAGCCTTTATTTTGAATTCTCTGGAAAGTCTCTATGGCGTATCA
1 TCTAGAAAGCCTTTGTCCCGAATTCTCTGGAAAGTCTCTATGGCATATCA
** * * * *
6690529 TCTAGAAAGCCTTTGTGGCGAATTCTCTAGAAAGCCTTTGTGGCATATCA
1 TCTAGAAAGCCTTTGTCCCGAATTCTCTGGAAAGTCTCTATGGCATATCA
* * * *
6690579 TTTGGAAAGCCTTTGTCCCGAATTATTTGGAAAGTC
1 TCTAGAAAGCCTTTGTCCCGAATTCTCTGGAAAGTC
6690615 ATTGTGGTGA
Statistics
Matches: 69, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
50 69 1.00
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (50 bp):
TCTAGAAAGCCTTTGTCCCGAATTCTCTGGAAAGTCTCTATGGCATATCA
Found at i:6690606 original size:25 final size:25
Alignment explanation
Indices: 6690533--6690621 Score: 90
Period size: 25 Copynumber: 3.6 Consensus size: 25
6690523 GTATCATCTA
* * *
6690533 GAAAGCCTTTGTGGCGAATTCTCTA
1 GAAAGCCTTTGTGGCGAATTATTTG
*
6690558 GAAAGCCTTTGTGGC-ATATCATTTG
1 GAAAGCCTTTGTGGCGA-ATTATTTG
**
6690583 GAAAGCCTTTGTCCCGAATTATTTG
1 GAAAGCCTTTGTGGCGAATTATTTG
* *
6690608 GAAAGTCATTGTGG
1 GAAAGCCTTTGTGG
6690622 TGAGTTGTTA
Statistics
Matches: 51, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
24 1 0.02
25 49 0.96
26 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.34
Consensus pattern (25 bp):
GAAAGCCTTTGTGGCGAATTATTTG
Found at i:6696127 original size:20 final size:21
Alignment explanation
Indices: 6696104--6696147 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
6696094 GTCAGTGGAC
*
6696104 TTTTTTAAC-CAAAAGTGAAG
1 TTTTTTAACGCAAAAGTAAAG
6696124 TTTTTTAACGTCAAAAGTAAAG
1 TTTTTTAACG-CAAAAGTAAAG
6696146 TT
1 TT
6696148 AAAAGAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.43
22 12 0.57
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (21 bp):
TTTTTTAACGCAAAAGTAAAG
Found at i:6697708 original size:29 final size:29
Alignment explanation
Indices: 6697666--6697733 Score: 93
Period size: 29 Copynumber: 2.4 Consensus size: 29
6697656 TATAACGGAA
* **
6697666 TTAAACTTT-AGGTACCACATTGGACATT
1 TTAAAATTTCAGGTACCACATTAAACATT
6697694 TTAAAATTTCAGGTACCACATTAAACATT
1 TTAAAATTTCAGGTACCACATTAAACATT
*
6697723 TTAAAACTTCA
1 TTAAAATTTCA
6697734 AGTTTCACAT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
28 8 0.23
29 27 0.77
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.35
Consensus pattern (29 bp):
TTAAAATTTCAGGTACCACATTAAACATT
Found at i:6699862 original size:20 final size:21
Alignment explanation
Indices: 6699754--6699862 Score: 66
Period size: 20 Copynumber: 5.1 Consensus size: 21
6699744 TACAATATTT
* *
6699754 AAATAATATTAAAAAAAGC-A
1 AAATAATAGTAAAACAAGCAA
6699774 AAATAATAGTAAAA-AAGCATAA
1 AAATAATAGTAAAACAAGC--AA
* * *
6699796 AAATAACA-TCCAAACAA-CTA
1 AAATAATAGT-AAAACAAGCAA
* *
6699816 AAATAACAATAAAAACAGCAGCAA
1 AAATAATAGT-AAAACA--AGCAA
6699840 AAATAATAGTAAAACAA-CAA
1 AAATAATAGTAAAACAAGCAA
6699860 AAA
1 AAA
6699863 CAGCAACAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 18
0.72 0.09 0.18
Matches are distributed among these distances:
19 4 0.06
20 28 0.39
21 8 0.11
22 12 0.17
23 9 0.13
24 10 0.14
ACGTcount: A:0.68, C:0.12, G:0.06, T:0.15
Consensus pattern (21 bp):
AAATAATAGTAAAACAAGCAA
Found at i:6702445 original size:74 final size:74
Alignment explanation
Indices: 6702361--6702509 Score: 255
Period size: 74 Copynumber: 2.0 Consensus size: 74
6702351 ATAATTGTTT
*
6702361 ATCACATTGCCGAAAATTTAAAATTTTTTCAATATTGAAAATTTTAA-TTTCAAAACATAAAAAT
1 ATCACATTGCCAAAAATTTAAAATTTTTTCAATATTGAAAATTTTAACTTT-AAAACATAAAAAT
6702425 CAATTAAATA
65 CAATTAAATA
* *
6702435 ATCACATTGCCAAAAATTTTAATTTTTTTCAATATTGAAAATTTTAACTTTAAAACATAAAAATC
1 ATCACATTGCCAAAAATTTAAAATTTTTTCAATATTGAAAATTTTAACTTTAAAACATAAAAATC
6702500 AATTAAATA
66 AATTAAATA
6702509 A
1 A
6702510 ATTATTGAAA
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
74 68 0.96
75 3 0.04
ACGTcount: A:0.48, C:0.11, G:0.03, T:0.38
Consensus pattern (74 bp):
ATCACATTGCCAAAAATTTAAAATTTTTTCAATATTGAAAATTTTAACTTTAAAACATAAAAATC
AATTAAATA
Found at i:6710616 original size:16 final size:16
Alignment explanation
Indices: 6710574--6710628 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
6710564 GTAAAATTTT
6710574 AAAAAA-AATCAAT-A
1 AAAAAAGAATCAATCA
**
6710588 AAAGAAATTATCAATCA
1 AAA-AAAGAATCAATCA
6710605 AAAAAAGAATCAA-CA
1 AAAAAAGAATCAATCA
*
6710620 GAAAAAGAA
1 AAAAAAGAA
6710629 AAAAACAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
14 3 0.09
15 13 0.38
16 14 0.41
17 4 0.12
ACGTcount: A:0.71, C:0.09, G:0.07, T:0.13
Consensus pattern (16 bp):
AAAAAAGAATCAATCA
Found at i:6711297 original size:9 final size:9
Alignment explanation
Indices: 6711283--6711319 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
6711273 ATTATCACCT
6711283 ATTACACTA
1 ATTACACTA
6711292 ATTACA-TA
1 ATTACACTA
6711300 A-T-CACTA
1 ATTACACTA
6711307 ATTACACTA
1 ATTACACTA
6711316 ATTA
1 ATTA
6711320 GTCTTTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
6 2 0.08
7 4 0.16
8 4 0.16
9 15 0.60
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (9 bp):
ATTACACTA
Found at i:6711307 original size:15 final size:16
Alignment explanation
Indices: 6711287--6711317 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
6711277 TCACCTATTA
6711287 CACTAATTACA-TAAT
1 CACTAATTACACTAAT
6711302 CACTAATTACACTAAT
1 CACTAATTACACTAAT
6711318 TAGTCTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.32
Consensus pattern (16 bp):
CACTAATTACACTAAT
Found at i:6714640 original size:14 final size:13
Alignment explanation
Indices: 6714613--6714650 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
6714603 GGGTAAATAG
*
6714613 TTAATTAAATTAT
1 TTAATTATATTAT
6714626 TTAATTTATATTAT
1 TTAA-TTATATTAT
6714640 TTAATTATATT
1 TTAATTATATT
6714651 GTATATTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TTAATTATATTAT
Found at i:6717607 original size:60 final size:61
Alignment explanation
Indices: 6717534--6717700 Score: 185
Period size: 60 Copynumber: 2.7 Consensus size: 61
6717524 TTAATATAAT
* ** * * *
6717534 ATTTGGTACTTGAACTTGACACTTTTTTATTAATTTGGTATTTAAACTTTTTCT-TATCCA
1 ATTTGATACTTGAACTTGACACTTTTTTATTAATTTGGTACCTAAACTTTTTATGGACCCA
* * *
6717594 ATTTGATACTTGAATTTGACAC-TTTTTCTTAATTTAGTACCTAAACTTTTTATGGACCCA
1 ATTTGATACTTGAACTTGACACTTTTTTATTAATTTGGTACCTAAACTTTTTATGGACCCA
* * * *
6717654 ATTTGATACCTAAACTTGACATTTTTTTTACCTAATTTGGTACCTAA
1 ATTTGATACTTGAACTTGACA-CTTTTTTA-TTAATTTGGTACCTAA
6717701 GCCTTTTTTT
Statistics
Matches: 87, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
59 26 0.30
60 42 0.48
62 5 0.06
63 14 0.16
ACGTcount: A:0.28, C:0.16, G:0.10, T:0.47
Consensus pattern (61 bp):
ATTTGATACTTGAACTTGACACTTTTTTATTAATTTGGTACCTAAACTTTTTATGGACCCA
Found at i:6722087 original size:18 final size:19
Alignment explanation
Indices: 6722050--6722087 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
6722040 ATGAGGATTT
* *
6722050 TTTTTTTTCAATACCATAA
1 TTTTTTTTCAAAAACATAA
6722069 TTTTTTTTCAAAAAC-TAA
1 TTTTTTTTCAAAAACATAA
6722087 T
1 T
6722088 CCATAATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.34, C:0.13, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTTTTTCAAAAACATAA
Found at i:6728626 original size:21 final size:21
Alignment explanation
Indices: 6728601--6728645 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
6728591 ACGAAAAGCA
6728601 TTTTTAAAATAAAAATATTGTT
1 TTTTTAAAA-AAAAATATTGTT
* *
6728623 TTTTTAGAAAAAATTATTGTT
1 TTTTTAAAAAAAAATATTGTT
6728644 TT
1 TT
6728646 CAAGTAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (21 bp):
TTTTTAAAAAAAAATATTGTT
Found at i:6738446 original size:13 final size:13
Alignment explanation
Indices: 6738430--6738456 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6738420 ATTATTTTAA
6738430 TTAAATATTTGAT
1 TTAAATATTTGAT
6738443 TTAAATATTTGAT
1 TTAAATATTTGAT
6738456 T
1 T
6738457 GACAAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (13 bp):
TTAAATATTTGAT
Found at i:6738869 original size:15 final size:16
Alignment explanation
Indices: 6738849--6738882 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
6738839 AATTTTTTAA
6738849 AAATTATAAAAAT-AT
1 AAATTATAAAAATAAT
*
6738864 AAATTATTAAAATAAT
1 AAATTATAAAAATAAT
6738880 AAA
1 AAA
6738883 ATTACATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATTATAAAAATAAT
Found at i:6745631 original size:3 final size:3
Alignment explanation
Indices: 6745623--6745662 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
6745613 TTCAAGCAAT
* *
6745623 ATA ATA ATA ATA ATA ATA ATA ATA TATG ATA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
6745663 TATTACGTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 30 0.94
4 2 0.06
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:6752030 original size:27 final size:28
Alignment explanation
Indices: 6752000--6752066 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
6751990 CGTCTGTTTA
*
6752000 AGAGAAAAAAAATT-GTATAGCAATACG
1 AGAGAAAAAAAATTGGTATAGCAAAACG
* *
6752027 AGAGAGAAAAAATTGGTGTAGCAAAACG
1 AGAGAAAAAAAATTGGTATAGCAAAACG
* *
6752055 TGAAAAAAAAAA
1 AGAGAAAAAAAA
6752067 AAAAAAGAGC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 13 0.39
28 20 0.61
ACGTcount: A:0.58, C:0.06, G:0.21, T:0.15
Consensus pattern (28 bp):
AGAGAAAAAAAATTGGTATAGCAAAACG
Found at i:6753927 original size:31 final size:31
Alignment explanation
Indices: 6753883--6753952 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
6753873 TACAGAATTA
* * *
6753883 TCACTAAGTTATTCGAAAGTT-TTCATTTAAG
1 TCACTGAGCTATTCAAAAGTTATT-ATTTAAG
*
6753914 TTACTGAGCTATTCAAAAGTTATTATTTAAG
1 TCACTGAGCTATTCAAAAGTTATTATTTAAG
6753945 TCACTGAG
1 TCACTGAG
6753953 ATGTTAAGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
31 31 0.94
32 2 0.06
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (31 bp):
TCACTGAGCTATTCAAAAGTTATTATTTAAG
Found at i:6754116 original size:23 final size:23
Alignment explanation
Indices: 6754086--6754141 Score: 112
Period size: 23 Copynumber: 2.4 Consensus size: 23
6754076 TGTGTCCTAA
6754086 AATAAAAAATGTTATTTTTTATG
1 AATAAAAAATGTTATTTTTTATG
6754109 AATAAAAAATGTTATTTTTTATG
1 AATAAAAAATGTTATTTTTTATG
6754132 AATAAAAAAT
1 AATAAAAAAT
6754142 CAAACCGAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (23 bp):
AATAAAAAATGTTATTTTTTATG
Found at i:6754931 original size:98 final size:98
Alignment explanation
Indices: 6754734--6754928 Score: 272
Period size: 98 Copynumber: 2.0 Consensus size: 98
6754724 AACCTTGGAA
* * *
6754734 AAGGATATTCGATTATCTCGATTTGAAGAAAAGTCACGTCTAGTAAGTTAATGCACAAATTTTCA
1 AAGGATATTCGATTATCTCGATTTGAAGAAAAATCACGCCTAGTAAGTTAAAGCACAAATTTTCA
*
6754799 AAAACCAGAGATAAAGAAATATTGCCTCGATTT
66 AAAACCAGAAATAAAGAAATATTGCCTCGATTT
* * *
6754832 AAGGGTATTCGATTAT-TCCGGTTTGAAGAAAAATCGCGCCTAGTAAGTTAAAGCACAAATTTTC
1 AAGGATATTCGATTATCT-CGATTTGAAGAAAAATCACGCCTAGTAAGTTAAAGCACAAATTTTC
6754896 -AAAACTC-GAAATAAA-ATAATATTGCCTCGATTT
65 AAAAAC-CAGAAATAAAGA-AATATTGCCTCGATTT
6754929 TAAAGGTTTA
Statistics
Matches: 87, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
96 1 0.01
97 29 0.33
98 57 0.66
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (98 bp):
AAGGATATTCGATTATCTCGATTTGAAGAAAAATCACGCCTAGTAAGTTAAAGCACAAATTTTCA
AAAACCAGAAATAAAGAAATATTGCCTCGATTT
Found at i:6755179 original size:29 final size:29
Alignment explanation
Indices: 6755147--6755387 Score: 106
Period size: 29 Copynumber: 8.2 Consensus size: 29
6755137 AAAAAATGCG
*
6755147 ATTTTTGGATGCTCTAGGGTAAAATGGTA
1 ATTTTTGGAAGCTCTAGGGTAAAATGGTA
* *
6755176 A-TTTTGGACA-CTTTGAGGGCAAAAAT-GTA
1 ATTTTTGGA-AGCTCT-AGGG-TAAAATGGTA
* * *
6755205 ATTTTTGGAAGTTCGAAGGTAAAATGGTA
1 ATTTTTGGAAGCTCTAGGGTAAAATGGTA
* * ***
6755234 ATTTTTGGAAGTTCAAGAACAAAAAT-GTGA
1 ATTTTTGGAAGCTCTAG-GGTAAAATGGT-A
* * **
6755264 TTTTTTGGAAGTTCGGGGGTAAAATGGTA
1 ATTTTTGGAAGCTCTAGGGTAAAATGGTA
* * *
6755293 ATTTTTAGAGAGTTCGA-GGTCAAAATGG-A
1 ATTTTTGGA-AGCTCTAGGGT-AAAATGGTA
* *
6755322 ATTTTTTGGAAG-TTTACAGGTCAAAAT-GTA
1 A-TTTTTGGAAGCTCTA-GGGT-AAAATGGTA
* *
6755352 ATTTTTGGAAG-TCCAGGGGTTAAA-GTGTA
1 ATTTTTGGAAGCTCTA-GGGTAAAATG-GTA
6755381 ATTTTTG
1 ATTTTTG
6755388 AAAAGTTTAG
Statistics
Matches: 165, Mismatches: 30, Indels: 34
0.72 0.13 0.15
Matches are distributed among these distances:
28 20 0.12
29 79 0.48
30 66 0.40
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.36
Consensus pattern (29 bp):
ATTTTTGGAAGCTCTAGGGTAAAATGGTA
Found at i:6755276 original size:59 final size:60
Alignment explanation
Indices: 6755138--6755360 Score: 210
Period size: 59 Copynumber: 3.8 Consensus size: 60
6755128 AAACGGAGTA
* * * * * * * *
6755138 AAAAATGCGA-TTTTTGGATGCTCTAGGGTAAAATGGTAA-TTTTGGACACTTTGAGGGC
1 AAAAATGTGATTTTTTGGAAGTTCGAAGGTAAAATGGTAATTTTTGGACAGTTCGAGGAC
* * *
6755196 AAAAATGT-AATTTTTGGAAGTTCGAAGGTAAAATGGTAATTTTTGGA-AGTTCAAGAAC
1 AAAAATGTGATTTTTTGGAAGTTCGAAGGTAAAATGGTAATTTTTGGACAGTTCGAGGAC
** * * *
6755254 AAAAATGTGATTTTTTGGAAGTTCGGGGGTAAAATGGTAATTTTTAGAGAGTTCGAGGTC
1 AAAAATGTGATTTTTTGGAAGTTCGAAGGTAAAATGGTAATTTTTGGACAGTTCGAGGAC
*
6755314 -AAAATG-GAATTTTTTGGAAGTT-TACAGGTCAAAAT-GTAATTTTTGGA
1 AAAAATGTG-ATTTTTTGGAAGTTCGA-AGGT-AAAATGGTAATTTTTGGA
6755361 AGTCCAGGGG
Statistics
Matches: 137, Mismatches: 21, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
57 1 0.01
58 47 0.34
59 76 0.55
60 13 0.09
ACGTcount: A:0.34, C:0.06, G:0.26, T:0.35
Consensus pattern (60 bp):
AAAAATGTGATTTTTTGGAAGTTCGAAGGTAAAATGGTAATTTTTGGACAGTTCGAGGAC
Found at i:6755297 original size:30 final size:29
Alignment explanation
Indices: 6755197--6755387 Score: 153
Period size: 29 Copynumber: 6.6 Consensus size: 29
6755187 TTTGAGGGCA
6755197 AAAAT-GTAATTTTTGGAAGTTC-GAAGGT
1 AAAATGGTAATTTTTGGAAGTTCAG-AGGT
***
6755225 AAAATGGTAATTTTTGGAAGTTCAAGAACA
1 AAAATGGTAATTTTTGGAAGTTC-AGAGGT
* * *
6755255 AAAAT-GTGATTTTTTGGAAGTTCGGGGGT
1 AAAATGGT-AATTTTTGGAAGTTCAGAGGT
*
6755284 AAAATGGTAATTTTTAGAGAGTTC-GAGGT
1 AAAATGGTAATTTTTGGA-AGTTCAGAGGT
* *
6755313 CAAAATGG-AATTTTTTGGAAGTTTACAGGT
1 -AAAATGGTAA-TTTTTGGAAGTTCAGAGGT
* *
6755343 CAAAAT-GTAATTTTTGGAAGTCCAGGGGT
1 -AAAATGGTAATTTTTGGAAGTTCAGAGGT
*
6755372 TAAA-GTGTAATTTTTG
1 AAAATG-GTAATTTTTG
6755388 AAAAGTTTAG
Statistics
Matches: 131, Mismatches: 20, Indels: 23
0.75 0.11 0.13
Matches are distributed among these distances:
28 8 0.06
29 69 0.53
30 53 0.40
31 1 0.01
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.36
Consensus pattern (29 bp):
AAAATGGTAATTTTTGGAAGTTCAGAGGT
Found at i:6755402 original size:30 final size:30
Alignment explanation
Indices: 6755344--6755446 Score: 109
Period size: 30 Copynumber: 3.4 Consensus size: 30
6755334 TTTACAGGTC
* *
6755344 AAAATGTAATTTTTG-GAAGTCCAGGGGTT
1 AAAATGTAATTTTTGAAAAGTTCAGGGGTT
* *
6755373 AAAGTGTAATTTTTGAAAAGTTTAGGGGTT
1 AAAATGTAATTTTTGAAAAGTTCAGGGGTT
* * *
6755403 AAAATGTAAATTTTGAAGAGTTCGAGGGGGTC
1 AAAATGTAATTTTTGAAAAGTTC-A-GGGGTT
*
6755435 AAAATATAATTT
1 AAAATGTAATTT
6755447 CTAGAAAGTT
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
29 14 0.23
30 30 0.50
31 1 0.02
32 15 0.25
ACGTcount: A:0.36, C:0.04, G:0.25, T:0.35
Consensus pattern (30 bp):
AAAATGTAATTTTTGAAAAGTTCAGGGGTT
Found at i:6757168 original size:6 final size:6
Alignment explanation
Indices: 6757157--6757233 Score: 54
Period size: 6 Copynumber: 13.3 Consensus size: 6
6757147 GACTTTTATT
* ** * *
6757157 AATTTA AATTTA TAA--TA ATTTTA AATTTA AAAATA AACTTA AACTTA
1 AATTTA AATTTA -AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
* *
6757204 CA-TTA AATTTA AATTTA AA-ATA AATTTA AA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AA
6757234 AGGAAGTTGG
Statistics
Matches: 56, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
4 1 0.02
5 10 0.18
6 43 0.77
7 2 0.04
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (6 bp):
AATTTA
Found at i:6757179 original size:17 final size:17
Alignment explanation
Indices: 6757157--6757233 Score: 91
Period size: 17 Copynumber: 4.5 Consensus size: 17
6757147 GACTTTTATT
*
6757157 AATTTAAATTTATAATA
1 AATTTAAATTTAAAATA
*
6757174 ATTTTAAATTTAAAAATA
1 AATTTAAATTT-AAAATA
* * * *
6757192 AACTTAAACTTACATTA
1 AATTTAAATTTAAAATA
6757209 AATTTAAATTTAAAATA
1 AATTTAAATTTAAAATA
6757226 AATTTAAA
1 AATTTAAA
6757234 AGGAAGTTGG
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
17 35 0.73
18 13 0.27
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (17 bp):
AATTTAAATTTAAAATA
Found at i:6759118 original size:24 final size:25
Alignment explanation
Indices: 6759068--6759118 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
6759058 TACTTTTTAT
* **
6759068 ATATTTTGATTTTGATATTCACTAA
1 ATATTTTGATTTTGATATTAAAAAA
6759093 ATATTTT-ATTTTGATATTAAAAAA
1 ATATTTTGATTTTGATATTAAAAAA
6759117 AT
1 AT
6759119 TTTAAATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.51
Consensus pattern (25 bp):
ATATTTTGATTTTGATATTAAAAAA
Found at i:6760500 original size:15 final size:15
Alignment explanation
Indices: 6760480--6760509 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6760470 CAATAACAAC
6760480 TTTAAAATTATTATT
1 TTTAAAATTATTATT
*
6760495 TTTAAATTTATTATT
1 TTTAAAATTATTATT
6760510 CAAATAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTAAAATTATTATT
Found at i:6760600 original size:38 final size:39
Alignment explanation
Indices: 6760524--6760601 Score: 106
Period size: 38 Copynumber: 2.0 Consensus size: 39
6760514 TAAAATTGTA
*
6760524 ATATTGAATAATTTATTAAAATAATAAAATATATTAATT
1 ATATTGAATAATTTATTAAAATAATAAAATATAATAATT
* *
6760563 ATATT-AATAATTTATT-AAATTATTAAATATAAATAATT
1 ATATTGAATAATTTATTAAAATAATAAAATAT-AATAATT
6760601 A
1 A
6760602 AACATGTATG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
37 12 0.34
38 18 0.51
39 5 0.14
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (39 bp):
ATATTGAATAATTTATTAAAATAATAAAATATAATAATT
Found at i:6775462 original size:13 final size:13
Alignment explanation
Indices: 6775444--6775470 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6775434 ACTAGTCATC
6775444 CTACTGGCTACTG
1 CTACTGGCTACTG
6775457 CTACTGGCTACTG
1 CTACTGGCTACTG
6775470 C
1 C
6775471 AACCAAGCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.22, T:0.30
Consensus pattern (13 bp):
CTACTGGCTACTG
Found at i:6779845 original size:13 final size:14
Alignment explanation
Indices: 6779823--6779857 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
6779813 CCCGAAAAAA
6779823 GTCAACAGTCAAAG
1 GTCAACAGTCAAAG
*
6779837 GTCAA-AGTCAACG
1 GTCAACAGTCAAAG
6779850 GTCAACAG
1 GTCAACAG
6779858 AAAATGGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.40, C:0.23, G:0.23, T:0.14
Consensus pattern (14 bp):
GTCAACAGTCAAAG
Found at i:6782778 original size:4 final size:4
Alignment explanation
Indices: 6782769--6782806 Score: 67
Period size: 4 Copynumber: 9.2 Consensus size: 4
6782759 TTTCTAAAAT
6782769 ATTA ATTA ATTA ATTA ATTAA ATTA ATTA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATT-A ATTA ATTA ATTA ATTA A
6782807 ACTAAAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 29 0.88
5 4 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (4 bp):
ATTA
Found at i:6782794 original size:17 final size:17
Alignment explanation
Indices: 6782772--6782807 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
6782762 CTAAAATATT
6782772 AATTAATTAATTAATTA
1 AATTAATTAATTAATTA
6782789 AATTAATTAATTAATTA
1 AATTAATTAATTAATTA
6782806 AA
1 AA
6782808 CTAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATTAATTAATTAATTA
Found at i:6791447 original size:16 final size:16
Alignment explanation
Indices: 6791407--6791449 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
6791397 TAATTAATTT
*
6791407 AAAATT-TTCAATTAA
1 AAAATTATTTAATTAA
6791422 ATAAATTTATTTAATTAA
1 A-AAA-TTATTTAATTAA
6791440 AAAATTATTT
1 AAAATTATTT
6791450 TCATCTCAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
15 1 0.04
16 9 0.38
17 5 0.21
18 9 0.38
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
AAAATTATTTAATTAA
Found at i:6799153 original size:31 final size:31
Alignment explanation
Indices: 6799106--6799175 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 31
6799096 AGTTACAAAA
* * *
6799106 TGGTTACCCAACTATTTGACTTTTTCTTCTT
1 TGGTCACCCAAATATTTGAATTTTTCTTCTT
*
6799137 TGGTCACCCAAATATTTGAATTTTTCTTTTT
1 TGGTCACCCAAATATTTGAATTTTTCTTCTT
6799168 TGGTCACC
1 TGGTCACC
6799176 AGTCGTTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.19, C:0.21, G:0.11, T:0.49
Consensus pattern (31 bp):
TGGTCACCCAAATATTTGAATTTTTCTTCTT
Found at i:6800689 original size:15 final size:16
Alignment explanation
Indices: 6800664--6800716 Score: 60
Period size: 15 Copynumber: 3.6 Consensus size: 16
6800654 TTTGTTAGCT
6800664 TCATATTATATTTTAA
1 TCATATTATATTTTAA
6800680 TCAT-TTATA-TTTAA
1 TCATATTATATTTTAA
* *
6800694 -AATGTTATATTTTAA
1 TCATATTATATTTTAA
6800709 TCAT-TTAT
1 TCATATTAT
6800717 GTTATCATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
13 2 0.06
14 10 0.31
15 14 0.44
16 6 0.19
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.57
Consensus pattern (16 bp):
TCATATTATATTTTAA
Found at i:6803367 original size:28 final size:28
Alignment explanation
Indices: 6803329--6803382 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
6803319 ATTTTGATTT
*
6803329 TTTAAGTTTAAATTAATTTTAAATTTTA
1 TTTAAATTTAAATTAATTTTAAATTTTA
*
6803357 TTTAAATTTAAATTTATTTTAAATTT
1 TTTAAATTTAAATTAATTTTAAATTT
6803383 AAATTTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (28 bp):
TTTAAATTTAAATTAATTTTAAATTTTA
Found at i:6803392 original size:11 final size:11
Alignment explanation
Indices: 6803329--6803400 Score: 69
Period size: 11 Copynumber: 6.5 Consensus size: 11
6803319 ATTTTGATTT
6803329 TTTAAGTTTAAA
1 TTTAA-TTTAAA
6803341 -TTAATTTTAAA
1 TTTAA-TTTAAA
*
6803352 TTTTATTTAAA
1 TTTAATTTAAA
*
6803363 TTTAAATTT-AT
1 TTT-AATTTAAA
6803374 TTTAAATTTAAA
1 TTT-AATTTAAA
6803386 TTTAA-TTAAA
1 TTTAATTTAAA
6803396 TTTAA
1 TTTAA
6803401 AATGATATTA
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
10 10 0.19
11 31 0.60
12 11 0.21
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (11 bp):
TTTAATTTAAA
Found at i:6803400 original size:6 final size:6
Alignment explanation
Indices: 6803329--6803401 Score: 75
Period size: 6 Copynumber: 13.0 Consensus size: 6
6803319 ATTTTGATTT
* * * *
6803329 TTTAAG TTTAAA -TTAAT TTTAAA TTT-TA TTTAAA TTTAAA TTT-AT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
6803374 TTTAAA TTTAAA TTT-AA -TTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
6803402 ATGATATTAA
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
4 2 0.04
5 16 0.29
6 37 0.67
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:6803403 original size:23 final size:23
Alignment explanation
Indices: 6803329--6803403 Score: 62
Period size: 23 Copynumber: 3.0 Consensus size: 23
6803319 ATTTTGATTT
*
6803329 TTTAAGTTTAAATTAATTTTAAATTTTA
1 TTTAAATTTAAATTAA-TTTAAA----A
* *
6803357 TTTAAATTTAAATTTATTTTAAA
1 TTTAAATTTAAATTAATTTAAAA
6803380 TTTAAATTT-AATTAAATTTAAAA
1 TTTAAATTTAAATT-AATTTAAAA
6803403 T
1 T
6803404 GATATTAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
22 4 0.10
23 18 0.44
27 5 0.12
28 14 0.34
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (23 bp):
TTTAAATTTAAATTAATTTAAAA
Found at i:6803410 original size:17 final size:17
Alignment explanation
Indices: 6803329--6803417 Score: 92
Period size: 17 Copynumber: 5.3 Consensus size: 17
6803319 ATTTTGATTT
* * *
6803329 TTTAAGTTTAAATTAAT
1 TTTAAATTTATATTAAA
6803346 TTTAAATTT-TATTTAAA
1 TTTAAATTTATA-TTAAA
*
6803363 TTTAAATTTATTTTAAA
1 TTTAAATTTATATTAAA
6803380 TTTAAATTTA-ATTAAA
1 TTTAAATTTATATTAAA
* *
6803396 TTTAAAATGATATTAAA
1 TTTAAATTTATATTAAA
*
6803413 ATTAA
1 TTTAA
6803418 TAAATTAAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
16 14 0.23
17 46 0.75
18 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
TTTAAATTTATATTAAA
Found at i:6805415 original size:29 final size:29
Alignment explanation
Indices: 6805354--6805423 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
6805344 AACAGTCTAG
* *
6805354 AAATTACATTTTGACCCCAAAATTTCAGG
1 AAATTACATTTCGACCCCAAAATTTCAGA
**
6805383 AAATTACATTTCGACCCCAAAATTTTTGA
1 AAATTACATTTCGACCCCAAAATTTCAGA
6805412 AAATTACCATTT
1 AAATTA-CATTT
6805424 TACCCTCGAG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 31 0.86
30 5 0.14
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.34
Consensus pattern (29 bp):
AAATTACATTTCGACCCCAAAATTTCAGA
Found at i:6805599 original size:59 final size:59
Alignment explanation
Indices: 6805411--6805780 Score: 453
Period size: 59 Copynumber: 6.3 Consensus size: 59
6805401 AAAATTTTTG
* * * *
6805411 AAAATTACCATTTTA-CCCTCGAGCCTTCTAAAATTCCATTTTTAACCCCGGTTTCACC-
1 AAAATTACCATTTTACCCCT-AAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACCA
* * * *
6805469 AAAATTACCATTTTACCCTTAAACTTTCCAAAATTCCA-TTTTAACCCCAATTTCCCCA
1 AAAATTACCATTTTACCCCTAAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACCA
* **
6805527 AAAATTACCATTTTACCCCTAAACTTTCAAAAATTCCATTTTTAACCCTAATTTCACCA
1 AAAATTACCATTTTACCCCTAAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACCA
* *
6805586 AAAATTACCATTTTACCCCTAAATTTTCTAAAATTCCATTTTTAGCCCCGATTTCACCA
1 AAAATTACCATTTTACCCCTAAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACCA
* * * *** * * *
6805645 AAAATTACCAATTTACCCCCGAACCTTT-TAAAATTTTGTTTTTAACCTCGATTTTATCA
1 AAAATTACCATTTTA-CCCCTAAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACCA
* * *
6805704 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTCAATCCCGATTTCACC-
1 AAAATTACCATTTTACCCCTAAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACCA
*
6805762 AAAATTACCATTTTGCCCC
1 AAAATTACCATTTTACCCC
6805781 CGGGTATCCA
Statistics
Matches: 266, Mismatches: 41, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
57 16 0.06
58 93 0.35
59 148 0.56
60 9 0.03
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.36
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCTAAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACCA
Found at i:6805629 original size:29 final size:29
Alignment explanation
Indices: 6805469--6805627 Score: 150
Period size: 29 Copynumber: 5.5 Consensus size: 29
6805459 CGGTTTCACC
* * *
6805469 AAAATTACCATTTTACCCTTAAACTTTCC
1 AAAATTACCATTTTACCCCTAAATTTTCA
*
6805498 AAAATT-CCATTTTAACCCC--AATTTCCCCA
1 AAAATTACCATTTT-ACCCCTAAATTT--TCA
*
6805527 AAAATTACCATTTTACCCCTAAACTTTCA
1 AAAATTACCATTTTACCCCTAAATTTTCA
* *
6805556 AAAATT-CCATTTTTAACCCT-AATTTCACCA
1 AAAATTACCA-TTTTACCCCTAAATTT--TCA
*
6805586 AAAATTACCATTTTACCCCTAAATTTTCT
1 AAAATTACCATTTTACCCCTAAATTTTCA
6805615 AAAATT-CCATTTT
1 AAAATTACCATTTT
6805628 TAGCCCCGAT
Statistics
Matches: 107, Mismatches: 12, Indels: 23
0.75 0.08 0.16
Matches are distributed among these distances:
27 4 0.04
28 21 0.20
29 46 0.43
30 24 0.22
31 12 0.11
ACGTcount: A:0.36, C:0.27, G:0.00, T:0.37
Consensus pattern (29 bp):
AAAATTACCATTTTACCCCTAAATTTTCA
Found at i:6805647 original size:29 final size:27
Alignment explanation
Indices: 6805440--6805663 Score: 134
Period size: 29 Copynumber: 7.7 Consensus size: 27
6805430 CGAGCCTTCT
**
6805440 AAAATTCCATTTTTAACCCCGGTTTCACC
1 AAAATTCCA-TTTT-ACCCCAATTTCACC
*
6805469 AAAATTACCATTTTACCCTTAAACTTT--CC
1 AAAATT-CCATTTTACCC--CAA-TTTCACC
*
6805498 AAAATTCCATTTTAACCCCAATTTCCCC
1 AAAATTCCATTTT-ACCCCAATTTCACC
6805526 AAAAATTACCATTTTACCCCTAAACTTTCA--
1 -AAAATT-CCATTTTACCCC--AA-TTTCACC
*
6805556 AAAATTCCATTTTTAACCCTAATTTCACC
1 AAAATTCCA-TTTT-ACCCCAATTTCACC
* *
6805585 AAAAATTACCATTTTACCCCTAAATTT-TCT
1 -AAAATT-CCATTTTACCCC--AATTTCACC
*
6805615 AAAATTCCATTTTTAGCCCCGATTTCACC
1 AAAATTCCA-TTTTA-CCCCAATTTCACC
*
6805644 AAAAATTACCAATTTACCCC
1 -AAAATT-CCATTTTACCCC
6805664 CGAACCTTTT
Statistics
Matches: 157, Mismatches: 13, Indels: 50
0.71 0.06 0.23
Matches are distributed among these distances:
26 3 0.02
27 7 0.04
28 25 0.16
29 63 0.40
30 39 0.25
31 16 0.10
32 4 0.03
ACGTcount: A:0.34, C:0.29, G:0.02, T:0.35
Consensus pattern (27 bp):
AAAATTCCATTTTACCCCAATTTCACC
Found at i:6806798 original size:29 final size:28
Alignment explanation
Indices: 6806719--6806798 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 28
6806709 CCCCAAACAG
* *
6806719 TCTAAAAATTGCATTTTAACCCTAAAATT
1 TCTAAAAATTACATTTT-ACCCCAAAATT
* *
6806748 T-TAGGAAATTACATTCTGACCCCAAAATT
1 TCTA-AAAATTACATT-TTACCCCAAAATT
6806777 TCTAAAAATTACCATTTTACCC
1 TCTAAAAATTA-CATTTTACCC
6806799 TCGAACTTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
28 2 0.05
29 32 0.78
30 7 0.17
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.35
Consensus pattern (28 bp):
TCTAAAAATTACATTTTACCCCAAAATT
Found at i:6806843 original size:30 final size:30
Alignment explanation
Indices: 6806810--6806964 Score: 117
Period size: 30 Copynumber: 5.2 Consensus size: 30
6806800 CGAACTTTTC
6806810 AAAATTCCATTTTTTAACCCTGATTTCACCA
1 AAAATTCCA-TTTTTAACCCTGATTTCACCA
* *
6806841 AAAATTACCA-TTTTACCCCCGAACTTT--CC-
1 AAAATT-CCATTTTTAACCCTG-A-TTTCACCA
*
6806870 AAAATTCCATTTTTAACCCTGGTTTCACCA
1 AAAATTCCATTTTTAACCCTGATTTCACCA
* * *
6806900 AAAATTACCA-TTTTACCCCTGAATTT--TCT
1 AAAATT-CCATTTTTAACCCTG-ATTTCACCA
* ** *
6806929 AAAATTTCATTTTTAACCCCAATTTCACCG
1 AAAATTCCATTTTTAACCCTGATTTCACCA
6806959 AAAATT
1 AAAATT
6806965 ATCATTTTAC
Statistics
Matches: 97, Mismatches: 15, Indels: 25
0.71 0.11 0.18
Matches are distributed among these distances:
27 3 0.03
28 9 0.09
29 32 0.33
30 34 0.35
31 13 0.13
32 6 0.06
ACGTcount: A:0.33, C:0.26, G:0.04, T:0.37
Consensus pattern (30 bp):
AAAATTCCATTTTTAACCCTGATTTCACCA
Found at i:6806912 original size:59 final size:59
Alignment explanation
Indices: 6806780--6807089 Score: 408
Period size: 59 Copynumber: 5.3 Consensus size: 59
6806770 CAAAATTTCT
* * *
6806780 AAAAATTACCATTTTACCCTCGAACTTTTCAAAATTCCATTTTTTAACCCTGATTTCACC
1 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCA-TTTTTAACCCCGATTTCACC
* *
6806840 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCTGGTTTCACC
1 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
* * * * *
6806899 AAAAATTACCATTTTACCCCTGAATTTTCTAAAATTTCATTTTTAACCCCAATTTCACC
1 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
* * * * * * *
6806958 GAAAATTATCATTTTACCCTCGAACCTTCTAAAATTCCATTTTTAACCCC-AGTTTTATC
1 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGA-TTTCACC
* * *
6807017 AAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAATCCCGATTTTACC
1 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
6807076 -AAAATTACCATTTT
1 AAAAATTACCATTTT
6807090 GCCCTCGAGT
Statistics
Matches: 221, Mismatches: 27, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
58 15 0.07
59 168 0.76
60 38 0.17
ACGTcount: A:0.33, C:0.27, G:0.03, T:0.37
Consensus pattern (59 bp):
AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
Found at i:6806973 original size:30 final size:30
Alignment explanation
Indices: 6806821--6807089 Score: 115
Period size: 29 Copynumber: 9.1 Consensus size: 30
6806811 AAATTCCATT
**
6806821 TTTTAACCCTGATTTCACCAAAAATTACCA
1 TTTTAACCCCAATTTCACCAAAAATTACCA
*
6806851 TTTTACCCCCGAACTTT--CC-AAAATT-CCA
1 TTTTAACCCC-AA-TTTCACCAAAAATTACCA
***
6806879 TTTTTAACCCTGGTTTCACCAAAAATTACCA
1 -TTTTAACCCCAATTTCACCAAAAATTACCA
* * *
6806910 TTTT-ACCCCTGAATTT--TCTAAAATT-TCA
1 TTTTAACCCC--AATTTCACCAAAAATTACCA
* *
6806938 TTTTTAACCCCAATTTCACCGAAAATTATCA
1 -TTTTAACCCCAATTTCACCAAAAATTACCA
* *
6806969 TTTT-ACCCTCGAACCTT---CTAAAATT-CCA
1 TTTTAACCC-C-AA-TTTCACCAAAAATTACCA
* * *
6806997 TTTTTAACCCCAGTTTTATCAAAAATTACCA
1 -TTTTAACCCCAATTTCACCAAAAATTACCA
*
6807028 TTTTACCCCCAAACTTT--CC-AAAATT-CCA
1 TTTTAACCCC-AA-TTTCACCAAAAATTACCA
* * *
6807056 TTTTTAATCCCGATTTTACC-AAAATTACCA
1 -TTTTAACCCCAATTTCACCAAAAATTACCA
6807086 TTTT
1 TTTT
6807090 GCCCTCGAGT
Statistics
Matches: 183, Mismatches: 27, Indels: 59
0.68 0.10 0.22
Matches are distributed among these distances:
27 8 0.04
28 17 0.09
29 73 0.40
30 61 0.33
31 16 0.09
32 8 0.04
ACGTcount: A:0.32, C:0.27, G:0.03, T:0.38
Consensus pattern (30 bp):
TTTTAACCCCAATTTCACCAAAAATTACCA
Found at i:6819429 original size:31 final size:31
Alignment explanation
Indices: 6819394--6819506 Score: 100
Period size: 31 Copynumber: 3.4 Consensus size: 31
6819384 TCTTTATCTC
6819394 TGAAATTGAAGTAAGAGCAACGTCATCCGCT
1 TGAAATTGAAGTAAGAGCAACGTCATCCGCT
** * ***
6819425 TGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCT
1 TGAAATTGAAGTA-A----GAGCA-ACGTCATCCGCT
*
6819462 CTAAAATTGAAGTAAGAGCAACGTCATCCGCT
1 -TGAAATTGAAGTAAGAGCAACGTCATCCGCT
6819494 TGAAATTGAAGTA
1 TGAAATTGAAGTA
6819507 GAGTTGGATA
Statistics
Matches: 61, Mismatches: 14, Indels: 14
0.69 0.16 0.16
Matches are distributed among these distances:
31 25 0.41
32 9 0.15
33 3 0.05
36 3 0.05
37 9 0.15
38 12 0.20
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.27
Consensus pattern (31 bp):
TGAAATTGAAGTAAGAGCAACGTCATCCGCT
Found at i:6819574 original size:38 final size:37
Alignment explanation
Indices: 6819532--6819814 Score: 133
Period size: 38 Copynumber: 7.5 Consensus size: 37
6819522 TCTTTATCTC
*
6819532 TGAAATTGAAGTAAGAGCAAGATCATTTCATATCCTTT
1 TGAAATTGAAGTAAGAGTAAGATCATTTC-TATCCTTT
** *
6819570 TGAAATTGAAGT-AGAGTTGGATAACGAGTCTT-TAT-C-TC
1 TGAAATTGAAGTAAGAGTAAGAT--C-A-T-TTCTATCCTTT
* * *
6819608 TGAAATTGAAGTAAGAGTAAGATCGCTTCCTATCCTCT
1 TGAAATTGAAGTAAGAGTAAGATC-ATTTCTATCCTTT
** *
6819646 TGAAATTGAAGTAA-AGTTGGATAACGAGTCTT-TAT-C-TC
1 TGAAATTGAAGTAAGAGTAAGAT--C-A-T-TTCTATCCTTT
* *
6819684 TGAAATTGAAGTAAGAGCAAGATCATTTCATATCCTCT
1 TGAAATTGAAGTAAGAGTAAGATCATTTC-TATCCTTT
** *
6819722 TGAAATTGAAGT-AGAGTTGGATAACGAGTCTT-TAT-C-TC
1 TGAAATTGAAGTAAGAGTAAGAT--C-A-T-TTCTATCCTTT
* ** *
6819760 TGAAATTGAAGTAAGAGCAAGATCATGCCATATCCTCT
1 TGAAATTGAAGTAAGAGTAAGATCATTTC-TATCCTTT
6819798 TGAAATTGAAGT-AGAGT
1 TGAAATTGAAGTAAGAGT
6819815 TGGATAACGG
Statistics
Matches: 183, Mismatches: 34, Indels: 57
0.67 0.12 0.21
Matches are distributed among these distances:
34 2 0.01
35 3 0.02
36 12 0.07
37 31 0.17
38 89 0.49
39 27 0.15
40 12 0.07
41 3 0.02
42 4 0.02
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.32
Consensus pattern (37 bp):
TGAAATTGAAGTAAGAGTAAGATCATTTCTATCCTTT
Found at i:6819619 original size:76 final size:74
Alignment explanation
Indices: 6819191--6820070 Score: 1053
Period size: 76 Copynumber: 12.0 Consensus size: 74
6819181 ACCAGACCAC
* * * *
6819191 AGCAAGATCTTTTCCTGTCCGCTTGAAATTGAAGTAAAGTT-GATAACACGTCTTTATCTCTGAA
1 AGCAAGATCATTT-CTATCCTCTTGAAATTGAAGTAGAGTTGGATAACA-GTCTTTATCTCTGAA
6819255 ATTGAAGTAAG
64 ATTGAAGTAAG
* *
6819266 AGCAAG-----GTC-ATCCTCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTAAAA
1 AGCAAGATCATTTCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACA-GTCTTTATCTCTGAAA
6819324 TTGAAGTAAG
65 TTGAAGTAAG
*
6819334 AGCAAAATCATTTCCTATCCTCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAA
1 AGCAAGATCATTT-CTATCCTCTTGAAATTGAAGTAGAGTTGGATAACA-GTCTTTATCTCTGAA
6819398 ATTGAAGTAAG
64 ATTGAAGTAAG
* * *
6819409 AGC-A-A-C--GTC-ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTAAAA
1 AGCAAGATCATTTCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACA-GTCTTTATCTCTGAAA
6819468 TTGAAGTAAG
65 TTGAAGTAAG
* *
6819478 AGC-A-A-C--GTC-ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAA
1 AGCAAGATCATTTCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACA-GTCTTTATCTCTGAAA
6819537 TTGAAGTAAG
65 TTGAAGTAAG
*
6819547 AGCAAGATCATTTCATATCCTTTTGAAATTGAAGTAGAGTTGGATAACGAGTCTTTATCTCTGAA
1 AGCAAGATCATTTC-TATCCTCTTGAAATTGAAGTAGAGTTGGATAAC-AGTCTTTATCTCTGAA
6819612 ATTGAAGTAAG
64 ATTGAAGTAAG
* * * *
6819623 AGTAAGATCGCTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACGAGTCTTTATCTCTGAA
1 AGCAAGATC-ATTTCTATCCTCTTGAAATTGAAGTAGAGTTGGATAAC-AGTCTTTATCTCTGAA
6819688 ATTGAAGTAAG
64 ATTGAAGTAAG
6819699 AGCAAGATCATTTCATATCCTCTTGAAATTGAAGTAGAGTTGGATAACGAGTCTTTATCTCTGAA
1 AGCAAGATCATTTC-TATCCTCTTGAAATTGAAGTAGAGTTGGATAAC-AGTCTTTATCTCTGAA
6819764 ATTGAAGTAAG
64 ATTGAAGTAAG
** * *
6819775 AGCAAGATCATGCCATATCCTCTTGAAATTGAAGTAGAGTTGGATAACGGGTCGTTATCTCTGAA
1 AGCAAGATCATTTC-TATCCTCTTGAAATTGAAGTAGAGTTGGATAAC-AGTCTTTATCTCTGAA
*
6819840 ATTGTAGTAAG
64 ATTGAAGTAAG
* *
6819851 AGC-A-A-CA--TC-ATCCTCTTGAAATTGAAGTAAAGATTGGATAACAAGTCTTTATCTTTGAA
1 AGCAAGATCATTTCTATCCTCTTGAAATTGAAGTAGAG-TTGGATAAC-AGTCTTTATCTCTGAA
6819910 ATTGAAGTAAG
64 ATTGAAGTAAG
* * * * * * *
6819921 AGCAAGATCGTTTCCCATCCCCTTGAAATTGAAGTAAAGCTGGGTATTA-AGTCTTTATATCTGA
1 AGCAAGATCATTT-CTATCCTCTTGAAATTGAAGTAGAG-TTGG-ATAACAGTCTTTATCTCTGA
6819985 AATTGAAGTAAG
63 AATTGAAGTAAG
* * *
6819997 AGCAAGATCATTGCCTATCCCCTTGAAATTGAAGTAGAGTTGGATAACAAGCCTTTATCT-TGAA
1 AGCAAGATCATT-TCTATCCTCTTGAAATTGAAGTAGAGTTGGATAAC-AGTCTTTATCTCTGAA
6820061 ATTGAAGTAA
64 ATTGAAGTAA
6820071 AGCTGGGGAT
Statistics
Matches: 723, Mismatches: 51, Indels: 62
0.86 0.06 0.07
Matches are distributed among these distances:
67 1 0.00
68 80 0.11
69 130 0.18
70 38 0.05
71 3 0.00
72 3 0.00
73 5 0.01
74 8 0.01
75 89 0.12
76 334 0.46
77 29 0.04
78 3 0.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (74 bp):
AGCAAGATCATTTCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAGTCTTTATCTCTGAAAT
TGAAGTAAG
Found at i:6819986 original size:38 final size:38
Alignment explanation
Indices: 6819944--6820108 Score: 133
Period size: 38 Copynumber: 4.4 Consensus size: 38
6819934 CCCATCCCCT
* * *
6819944 TGAAATTGAAGTAAAGCTGGGTATTAAGTCTTTATATC
1 TGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTC
* * * * *
6819982 TGAAATTGAAGTAAGAGC--AAGATC-ATTGC-CTATCCCC
1 TGAAATTGAAGTAA-AGCTGGATATCAAGT-CTTTAT-CTC
* * * *
6820019 TTGAAATTGAAGTAGAGTTGGATAACAAGCCTTTATCT-
1 -TGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTC
**
6820057 TGAAATTGAAGTAAAGCTGGGGATCAAGTCTTTATCTC
1 TGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTC
6820095 TGAAATTGAAGTAA
1 TGAAATTGAAGTAA
6820109 GAGCAAGATG
Statistics
Matches: 95, Mismatches: 23, Indels: 18
0.70 0.17 0.13
Matches are distributed among these distances:
36 5 0.05
37 37 0.39
38 41 0.43
39 8 0.08
40 4 0.04
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (38 bp):
TGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTC
Found at i:6820067 original size:37 final size:37
Alignment explanation
Indices: 6820018--6820108 Score: 119
Period size: 37 Copynumber: 2.4 Consensus size: 37
6820008 TGCCTATCCC
* * *
6820018 CTTGAAATTGAAGTAGAGTTGGATAACAAGCCTTTAT
1 CTTGAAATTGAAGTAAAGCTGGAGAACAAGCCTTTAT
* * *
6820055 CTTGAAATTGAAGTAAAGCTGGGGATCAAGTCTTTAT
1 CTTGAAATTGAAGTAAAGCTGGAGAACAAGCCTTTAT
6820092 CTCTGAAATTGAAGTAA
1 CT-TGAAATTGAAGTAA
6820109 GAGCAAGATG
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
37 33 0.70
38 14 0.30
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.32
Consensus pattern (37 bp):
CTTGAAATTGAAGTAAAGCTGGAGAACAAGCCTTTAT
Found at i:6820413 original size:17 final size:16
Alignment explanation
Indices: 6820393--6820467 Score: 84
Period size: 17 Copynumber: 4.7 Consensus size: 16
6820383 TAAGTTTAAA
*
6820393 TTAATTTTAAATTTTAT
1 TTAAATTTAAA-TTTAT
6820410 TTAAATTTAAATTTAT
1 TTAAATTTAAATTTAT
*
6820426 CTTAAATTTGAATTTAT
1 -TTAAATTTAAATTTAT
6820443 TT--ATTTAAATTTAAT
1 TTAAATTTAAATTT-AT
6820458 TT-AATTTAAA
1 TTAAATTTAAA
6820468 AATGATATTA
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
14 9 0.17
15 4 0.08
16 14 0.27
17 25 0.48
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (16 bp):
TTAAATTTAAATTTAT
Found at i:6820418 original size:28 final size:28
Alignment explanation
Indices: 6820381--6820434 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
6820371 ATTTTGATTT
* *
6820381 TTTAAGTTTAAATTAATTTTAAATTTTA
1 TTTAAATTTAAATTAATCTTAAATTTTA
*
6820409 TTTAAATTTAAATTTATCTTAAATTT
1 TTTAAATTTAAATTAATCTTAAATTT
6820435 GAATTTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (28 bp):
TTTAAATTTAAATTAATCTTAAATTTTA
Found at i:6820424 original size:6 final size:6
Alignment explanation
Indices: 6820381--6820467 Score: 60
Period size: 6 Copynumber: 15.0 Consensus size: 6
6820371 ATTTTGATTT
* * *
6820381 TTTAAG TTTAAA -TTAAT TTTAAA TTT-TA TTTAAA TTTAAA TTT--A
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
6820425 TCTTAAA TTTGAA TTTATTTA TTTAAA TTT-AA TTT-AA TTTAAA
1 T-TTAAA TTTAAA TTTA--AA TTTAAA TTTAAA TTTAAA TTTAAA
6820468 AATGATATTA
Statistics
Matches: 64, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
4 2 0.03
5 20 0.31
6 35 0.55
7 2 0.03
8 5 0.08
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:6820461 original size:11 final size:11
Alignment explanation
Indices: 6820381--6820466 Score: 59
Period size: 11 Copynumber: 7.5 Consensus size: 11
6820371 ATTTTGATTT
6820381 TTTAAGTTTAAA
1 TTTAA-TTTAAA
6820393 -TTAATTTTAAA
1 TTTAA-TTTAAA
*
6820404 TTTTATTTAAA
1 TTTAATTTAAA
**
6820415 TTTAAATTTATC
1 TTT-AATTTAAA
* *
6820427 TTAAATTTGAA
1 TTTAATTTAAA
6820438 TTTATTTATTTAAA
1 TTTA---ATTTAAA
6820452 TTTAATTT-AA
1 TTTAATTTAAA
6820462 TTTAA
1 TTTAA
6820467 AAATGATATT
Statistics
Matches: 58, Mismatches: 11, Indels: 12
0.72 0.14 0.15
Matches are distributed among these distances:
10 7 0.12
11 31 0.53
12 10 0.17
14 10 0.17
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (11 bp):
TTTAATTTAAA
Found at i:6822455 original size:29 final size:29
Alignment explanation
Indices: 6822394--6822463 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
6822384 AACAGTCTAG
* *
6822394 AAATTACATTTTGACCCCAAAATTTCAGG
1 AAATTACATTTCGACCCCAAAATTTCAGA
**
6822423 AAATTACATTTCGACCCCAAAATTTTTGA
1 AAATTACATTTCGACCCCAAAATTTCAGA
6822452 AAATTACCATTT
1 AAATTA-CATTT
6822464 TACCCTCGAG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 31 0.86
30 5 0.14
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.34
Consensus pattern (29 bp):
AAATTACATTTCGACCCCAAAATTTCAGA
Found at i:6822639 original size:59 final size:59
Alignment explanation
Indices: 6822451--6822819 Score: 460
Period size: 58 Copynumber: 6.3 Consensus size: 59
6822441 AAAATTTTTG
* * * * *
6822451 AAAATTACCATTTTA-CCCTCGAGCCTTCTAAAATTCCATTTTTAACCCCGGTTTCACC-
1 AAAATTACCATTTTACCCCT-AAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
* * *
6822509 AAAATTACCATTTTACCCTTAAACTTTCCAAAATTCCA-TTTTAACCCCAATTTCCCCA
1 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
**
6822567 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCTAATTTCACCA
1 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
* * *
6822626 AAAATTACCATTTTACCCCTAAATTTTCTAAAATTCCATTTTTAGCCCCGATTTCACCA
1 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
* * * * *** * * *
6822685 AAAATTACCAATTTACCCCGAACCTTT-TAAAATTTTGTTTTTAACCTCGATTTTATCA
1 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
* *
6822743 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTCAATCCCGATTTCACC-
1 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
*
6822801 AAAATTACCATTTTGCCCC
1 AAAATTACCATTTTACCCC
6822820 CGGGTATCCA
Statistics
Matches: 267, Mismatches: 40, Indels: 8
0.85 0.13 0.03
Matches are distributed among these distances:
57 16 0.06
58 132 0.49
59 119 0.45
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.36
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
Found at i:6822668 original size:29 final size:29
Alignment explanation
Indices: 6822509--6822784 Score: 144
Period size: 29 Copynumber: 9.5 Consensus size: 29
6822499 CGGTTTCACC
* * *
6822509 AAAATTACCATTTTACCCTTAAACTTTCC
1 AAAATTACCATTTTACCCCTAAATTTTCA
*
6822538 AAAATT-CCATTTTAACCCC--AATTTCCCCA
1 AAAATTACCATTTT-ACCCCTAAATTT--TCA
* *
6822567 AAAATTACCATTTTACCCCTAAACTTTCC
1 AAAATTACCATTTTACCCCTAAATTTTCA
* *
6822596 AAAATT-CCATTTTTAACCCT-AATTTCACCA
1 AAAATTACCA-TTTTACCCCTAAATTT--TCA
*
6822626 AAAATTACCATTTTACCCCTAAATTTTCT
1 AAAATTACCATTTTACCCCTAAATTTTCA
* *
6822655 AAAATT-CCATTTTTAGCCCC--GATTTCACCA
1 AAAATTACCA-TTTTA-CCCCTAAATTT--TCA
* * *
6822685 AAAATTACCAATTTACCCCGAACCTTTT--
1 AAAATTACCATTTTACCCCTAA-ATTTTCA
**** * * *
6822713 AAAATTTTGTTTTTA-ACCTCGATTTTATCA
1 AAAATTACCATTTTACCCCT-AAATTT-TCA
* *
6822743 AAAATTACCATTTTACCCCTAAACTTTCC
1 AAAATTACCATTTTACCCCTAAATTTTCA
6822772 AAAATT-CCATTTT
1 AAAATTACCATTTT
6822785 CAATCCCGAT
Statistics
Matches: 184, Mismatches: 39, Indels: 49
0.68 0.14 0.18
Matches are distributed among these distances:
27 9 0.05
28 40 0.22
29 62 0.34
30 52 0.28
31 18 0.10
32 3 0.02
ACGTcount: A:0.34, C:0.27, G:0.02, T:0.37
Consensus pattern (29 bp):
AAAATTACCATTTTACCCCTAAATTTTCA
Found at i:6822717 original size:117 final size:117
Alignment explanation
Indices: 6822451--6822819 Score: 476
Period size: 117 Copynumber: 3.2 Consensus size: 117
6822441 AAAATTTTTG
* * * *
6822451 AAAATTACCATTTTACCCTCGAGCCTTCTAAAATTCCATTTTTAACCCCGGTTTCACC-AAAATT
1 AAAATTACCATTTTACCC-CGAACCTTTTAAAATTCCATTTTTAACCCTGATTTCACCAAAAATT
* * *
6822515 ACCATTTTACCCTTAAACTTTCCAAAATTCCA-TTTTAACCCCAATTTCCCCA
65 ACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
* * * *
6822567 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCTAATTTCACCAAAAATT
1 AAAATTACCATTTTACCCCGAACCTTT-TAAAATTCCATTTTTAACCCTGATTTCACCAAAAATT
* * *
6822632 ACCATTTTACCCCTAAATTTTCTAAAATTCCATTTTTAGCCCCGATTTCACCA
65 ACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
* *** * *
6822685 AAAATTACCAATTTACCCCGAACCTTTTAAAATTTTGTTTTTAA-CCTCGATTTTATCAAAAATT
1 AAAATTACCATTTTACCCCGAACCTTTTAAAATTCCATTTTTAACCCT-GATTTCACCAAAAATT
* *
6822749 ACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTCAATCCCGATTTCACC-
65 ACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
*
6822801 AAAATTACCATTTTGCCCC
1 AAAATTACCATTTTACCCC
6822820 CGGGTATCCA
Statistics
Matches: 218, Mismatches: 31, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
115 5 0.02
116 64 0.29
117 108 0.50
118 41 0.19
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.36
Consensus pattern (117 bp):
AAAATTACCATTTTACCCCGAACCTTTTAAAATTCCATTTTTAACCCTGATTTCACCAAAAATTA
CCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
Found at i:6833883 original size:58 final size:58
Alignment explanation
Indices: 6833748--6834016 Score: 217
Period size: 58 Copynumber: 4.6 Consensus size: 58
6833738 GAGTTAAGAT
* * * * ** *
6833748 GTAATTTTTGGATG-TCGGGGGCAAAATGGTAATTTTTAGAAGTTCGAGGCA-AAAAC-
1 GTAATTTTTGGACGCTCGAGGGTAAAATAGTAATTTTGGGAAGTTCAAGG-ATAAAACA
* * * *
6833804 GTAATTTTTAGATGCTCGAGGGTAAAATAGTAATTTTGGGATGATCAAGGATAAAACA
1 GTAATTTTTGGACGCTCGAGGGTAAAATAGTAATTTTGGGAAGTTCAAGGATAAAACA
* * * * * *
6833862 GTAATTTTTGGACGCTCGAGGGTAAAATGGTAATTTTTGGACGTTCAGGGGTAAAACG
1 GTAATTTTTGGACGCTCGAGGGTAAAATAGTAATTTTGGGAAGTTCAAGGATAAAACA
* * **
6833920 GTAATTTTTGAAACACTCG-GGGATAAAATAGTAATTTTTGAAAAGTTC-AGGATCAAAA-A
1 GTAATTTTTG-GACGCTCGAGGG-TAAAATAGTAA-TTTTGGGAAGTTCAAGGAT-AAAACA
* * * *
6833979 TATAATTTTTGGACGTTCGAGGGTAAAATGGCAATTTT
1 -GTAATTTTTGGACGCTCGAGGGTAAAATAGTAATTTT
6834017 TAGATGTTTA
Statistics
Matches: 170, Mismatches: 34, Indels: 16
0.77 0.15 0.07
Matches are distributed among these distances:
56 14 0.08
57 32 0.19
58 66 0.39
59 33 0.19
60 25 0.15
ACGTcount: A:0.34, C:0.09, G:0.25, T:0.32
Consensus pattern (58 bp):
GTAATTTTTGGACGCTCGAGGGTAAAATAGTAATTTTGGGAAGTTCAAGGATAAAACA
Found at i:6833999 original size:118 final size:116
Alignment explanation
Indices: 6833749--6834050 Score: 328
Period size: 118 Copynumber: 2.6 Consensus size: 116
6833739 AGTTAAGATG
* * * **
6833749 TAATTTTTGGATGTCGGGGGCAAAATGGTAATTTTTAGAAGTTC-GAGGCAAAAAC-GTAATTTT
1 TAATTTTTGGACGTCGAGGGTAAAATGGTAATTTTTAGAAGTTCAG-GGGTAAAACGGTAATTTT
* ** ** * *
6833812 T-AGATGCTCGAGGGTAAAATAGTAATTTTGGGATGATCAAGGATAAAACAG
65 TGAAACACTCGAGGGTAAAATAGTAATTTTGAAAAGATCAAGGATAAAACAA
* *
6833863 TAATTTTTGGACGCTCGAGGGTAAAATGGTAATTTTTGGACGTTCAGGGGTAAAACGGTAATTTT
1 TAATTTTTGGACG-TCGAGGGTAAAATGGTAATTTTTAGAAGTTCAGGGGTAAAACGGTAATTTT
*
6833928 TGAAACACTCG-GGGATAAAATAGTAATTTTTGAAAAGTTC-AGGATCAAAA-ATA
65 TGAAACACTCGAGGG-TAAAATAGTAA-TTTTGAAAAGATCAAGGAT-AAAACA-A
* * * *
6833981 TAATTTTTGGACGTTCGAGGGTAAAATGGCAATTTTTAGATGTTTAGGGGTAAAATGGTAATTTT
1 TAATTTTTGGACG-TCGAGGGTAAAATGGTAATTTTTAGAAGTTCAGGGGTAAAACGGTAATTTT
6834046 TGAAA
65 TGAAA
6834051 ATTTTAAGGG
Statistics
Matches: 159, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
114 12 0.08
115 34 0.21
116 13 0.08
117 23 0.14
118 77 0.48
ACGTcount: A:0.34, C:0.08, G:0.25, T:0.33
Consensus pattern (116 bp):
TAATTTTTGGACGTCGAGGGTAAAATGGTAATTTTTAGAAGTTCAGGGGTAAAACGGTAATTTTT
GAAACACTCGAGGGTAAAATAGTAATTTTGAAAAGATCAAGGATAAAACAA
Found at i:6834006 original size:29 final size:29
Alignment explanation
Indices: 6833746--6834090 Score: 140
Period size: 29 Copynumber: 11.8 Consensus size: 29
6833736 TAGAGTTAAG
* **
6833746 ATGTAATTTTTGGATG-TCG-GGGGCAAA
1 ATGTAATTTTTGGACGTTCGAGGGTAAAA
* * *
6833773 ATGGTAATTTTTAGAAGTTCGA-GGCAAAA
1 AT-GTAATTTTTGGACGTTCGAGGGTAAAA
* * * *
6833802 ACGTAATTTTTAGATGCTCGAGGGT-AAA
1 ATGTAATTTTTGGACGTTCGAGGGTAAAA
* * * * *
6833830 ATAGTAATTTTGGGATGATCAAGGATAAAA
1 AT-GTAATTTTTGGACGTTCGAGGGTAAAA
*
6833860 CA-GTAATTTTTGGACGCTCGAGGGT-AAA
1 -ATGTAATTTTTGGACGTTCGAGGGTAAAA
6833888 ATGGTAATTTTTGGACGTTC-AGGGGTAAAA
1 AT-GTAATTTTTGGACGTTCGA-GGGTAAAA
** * **
6833918 CGGTAATTTTTGAAACACTCG-GGG-ATAAA
1 ATGTAATTTTTG-GACGTTCGAGGGTA-AAA
* * *
6833947 ATAGTAATTTTTGAAAAGTTC-AGGATCAAAA
1 AT-GTAATTTTTG-GACGTTCGAGGGT-AAAA
*
6833978 ATATAATTTTTGGACGTTCGAGGGT-AAA
1 ATGTAATTTTTGGACGTTCGAGGGTAAAA
* * * *
6834006 ATGGCAATTTTTAGATGTT-TAGGGGT-AAA
1 AT-GTAATTTTTGGACGTTCGA-GGGTAAAA
* ** **
6834035 ATGGTAATTTTTGAAAATTTTAAGGGTAAAA
1 AT-GTAATTTTTG-GACGTTCGAGGGTAAAA
* *
6834066 ATGTAATTTTTAAGAAGTTCGAGGG
1 ATGTAATTTTT-GGACGTTCGAGGG
6834091 CCAAAATATG
Statistics
Matches: 242, Mismatches: 51, Indels: 47
0.71 0.15 0.14
Matches are distributed among these distances:
27 3 0.01
28 44 0.18
29 118 0.49
30 64 0.26
31 12 0.05
32 1 0.00
ACGTcount: A:0.35, C:0.07, G:0.25, T:0.33
Consensus pattern (29 bp):
ATGTAATTTTTGGACGTTCGAGGGTAAAA
Found at i:6834065 original size:118 final size:118
Alignment explanation
Indices: 6833863--6834107 Score: 302
Period size: 118 Copynumber: 2.1 Consensus size: 118
6833853 GATAAAACAG
* *
6833863 TAATTTTTGGACGCTCGAGGGTAAAATGGTAATTTTTGGACGTTCAGGGGTAAAACGGTAATTTT
1 TAATTTTTGGACGCTCGAGGGTAAAATGGCAATTTTTAGACGTTCAGGGGTAAAACGGTAATTTT
** *
6833928 TGAAACACTCGGGGAT-AAAATAGTAATTTTTGAA-AAGTTC-AGGATCAAAAATA
66 TGAAACACTAAGGGATAAAAAT-GTAATTTTT-AAGAAGTTCGAGG-GCAAAAATA
* * * *
6833981 TAATTTTTGGACGTTCGAGGGTAAAATGGCAATTTTTAGATGTTTAGGGGTAAAATGGTAATTTT
1 TAATTTTTGGACGCTCGAGGGTAAAATGGCAATTTTTAGACGTTCAGGGGTAAAACGGTAATTTT
* *
6834046 TGAAA-ATTTTAAGGG-TAAAAATGTAATTTTTAAGAAGTTCGAGGGCCAAAATA
66 TGAAACA--CTAAGGGATAAAAATGTAATTTTTAAGAAGTTCGAGGGCAAAAATA
*
6834099 TGATTTTTG
1 TAATTTTTG
6834108 AATAGTTCAG
Statistics
Matches: 110, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
117 3 0.03
118 95 0.86
119 12 0.11
ACGTcount: A:0.35, C:0.07, G:0.24, T:0.35
Consensus pattern (118 bp):
TAATTTTTGGACGCTCGAGGGTAAAATGGCAATTTTTAGACGTTCAGGGGTAAAACGGTAATTTT
TGAAACACTAAGGGATAAAAATGTAATTTTTAAGAAGTTCGAGGGCAAAAATA
Found at i:6835969 original size:17 final size:17
Alignment explanation
Indices: 6835960--6836002 Score: 79
Period size: 16 Copynumber: 2.6 Consensus size: 17
6835950 ATTTTAATTT
6835960 AAAATAAATTTAAACTC
1 AAAATAAATTTAAACTC
6835977 AAAAT-AATTTAAACTC
1 AAAATAAATTTAAACTC
6835993 AAAATAAATT
1 AAAATAAATT
6836003 AAAATTTTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 16 0.64
17 9 0.36
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAATAAATTTAAACTC
Found at i:6836716 original size:209 final size:209
Alignment explanation
Indices: 6836347--6837236 Score: 1210
Period size: 209 Copynumber: 4.3 Consensus size: 209
6836337 TCACCGTAGT
* * *
6836347 CTTTGAG-TCTGGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATC
1 CTTTGAGCT-TGGCTTCATTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCACATC
* * * * * *
6836411 GCTTGTTTTGATCCACTTCTTTGTGTTTCATCAGGAAGACGGATCTGGTTCACTTCTCTGTATCT
65 ACTTGTTTTGATCCACTTCTTTGTATCTCATCAGGAAGACGAATCTGGTCCACTTCTCAGTATCT
* ** * * *
6836476 CATCAAGAAGGTAACCGCTTTATTACTTCGACCTACTTCTCAATATCTCATCAGGAAGCTAGGGT
130 CATCAAGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAATATCTCATCAGGAAGCTGGGGT
6836541 TCGAAGATTTGCTCA
195 TCGAAGATTTGCTCA
* ** * *
6836556 CTTTGAGCCTGATTTCATTGATTTGGTCTACTTCTTAGTATCTCATCAGGAAGATGACCACATCA
1 CTTTGAGCTTGGCTTCATTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCACATCA
** * * * **
6836621 CTTGTTTTGATCCACTTCTTTGGGTCTCATCAAGAAGACGGATCTGGTTCACTTCTTTGTATCTC
66 CTTGTTTTGATCCACTTCTTTGTATCTCATCAGGAAGACGAATCTGGTCCACTTCTCAGTATCTC
* * * * * * *
6836686 ATGAGGAAGGTAACCATATTAGTGCTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTGGGGTT
131 ATCAAGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAATATCTCATCAGGAAGCTGGGGTT
6836751 CGAAGATTTGCTCA
196 CGAAGATTTGCTCA
* *
6836765 CTTTGAGCTTGACTTCATTGATTTGGTCTTCTTCTCAGCATCTCATCAGGAAGATGACCACATCA
1 CTTTGAGCTTGGCTTCATTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCACATCA
* ** * *
6836830 TTTGTTTCAATCCGCTTCTTTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTC
66 CTTGTTTTGATCCACTTCTTTGTATCTCATCAGGAAGACGAATCTGGTCCACTTCTCAGTATCTC
* *
6836895 ATCAAGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAATATCTCATCATGAAGTTGGGGTT
131 ATCAAGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAATATCTCATCAGGAAGCTGGGGTT
6836960 CGAAGATTTGCTCA
196 CGAAGATTTGCTCA
* *
6836974 CTTTGAGCTTGGCTTCATTGATTTGGTCTTCTTCTCAGTATCTCATCAAGAAGATGACCGCATCA
1 CTTTGAGCTTGGCTTCATTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCACATCA
* * ** ** *
6837039 CTTG-TTTCAACTTGCTTCTCCGTATCTCATCAGGAAGACGAAT-TCGGTCCACTTCTTAGTATC
66 CTTGTTTTGATC-CACTTCTTTGTATCTCATCAGGAAGACGAATCT-GGTCCACTTCTCAGTATC
* * * *
6837102 TCATCAGGAAGCTAACCATTTTATTGCTTCGACTTGCTTCTCAGTTTCTCATCAGGAAGCTGGGG
129 TCATCAAGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAATATCTCATCAGGAAGCTGGGG
6837167 TTCGAAGATTTGCTCA
194 TTCGAAGATTTGCTCA
* *
6837183 CTTTGAGCTTGGCTTCATTGATTTAGTCTTCTTCTTAGTATCTCATCAGGAAGA
1 CTTTGAGCTTGGCTTCATTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGA
6837237 CGAATTTGGT
Statistics
Matches: 612, Mismatches: 66, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
208 5 0.01
209 607 0.99
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (209 bp):
CTTTGAGCTTGGCTTCATTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCACATCA
CTTGTTTTGATCCACTTCTTTGTATCTCATCAGGAAGACGAATCTGGTCCACTTCTCAGTATCTC
ATCAAGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAATATCTCATCAGGAAGCTGGGGTT
CGAAGATTTGCTCA
Found at i:6837237 original size:160 final size:160
Alignment explanation
Indices: 6837053--6837396 Score: 589
Period size: 160 Copynumber: 2.1 Consensus size: 160
6837043 TTTCAACTTG
*
6837053 CTTCTCCGTATCTCATCAGGAAGACGAATTCGGTCCACTTCTTAGTATCTCATCAGGAAGCTAAC
1 CTTCTCAGTATCTCATCAGGAAGACGAATTCGGTCCACTTCTTAGTATCTCATCAGGAAGCTAAC
* *
6837118 CATTTTATTGCTTCGACTTGCTTCTCAGTTTCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCA
66 CATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCA
6837183 CTTTGAGCTTGGCTTCATTGATTTAGTCTT
131 CTTTGAGCTTGGCTTCATTGATTTAGTCTT
* * * * *
6837213 CTTCTTAGTATCTCATCAGGAAGACGAATTTGGTCTACTTGTTAGTATCTTATCAGGAAGCTAAC
1 CTTCTCAGTATCTCATCAGGAAGACGAATTCGGTCCACTTCTTAGTATCTCATCAGGAAGCTAAC
6837278 CATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCA
66 CATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCA
*
6837343 CTTTGAGCTTGGCTTCATTGATTTGGTCTT
131 CTTTGAGCTTGGCTTCATTGATTTAGTCTT
* *
6837373 CTTCTCAGTATCTCGTAAGGAAGA
1 CTTCTCAGTATCTCATCAGGAAGA
6837397 TGACCGCATC
Statistics
Matches: 172, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
160 172 1.00
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (160 bp):
CTTCTCAGTATCTCATCAGGAAGACGAATTCGGTCCACTTCTTAGTATCTCATCAGGAAGCTAAC
CATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCA
CTTTGAGCTTGGCTTCATTGATTTAGTCTT
Found at i:6837329 original size:369 final size:367
Alignment explanation
Indices: 6836844--6837604 Score: 1193
Period size: 369 Copynumber: 2.1 Consensus size: 367
6836834 TTTCAATCCG
6836844 CTTCTTTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAAGAAGCTAAC
1 CTTC-TTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAAGAAGCTAAC
* *
6836909 CATTTTATTGCTTCGACCTGCTTCTCAATATCTCATCATGAAGTTGGGGTTCGAAGATTTGCTCA
65 CATTTTATTGCTTCGACCTGCTTCTCAATATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCA
6836974 CTTTGAGCTTGGCTTCATTGATTTGGTCTTCTTCTCAGTATCTCATCAA-GAAGATGACCGCATC
130 CTTTGAGCTTGGCTTCATTGATTTGGTCTTCTTCTCAGTATCTCAT-AAGGAAGATGACCGCATC
* *
6837038 ACTTGTTTCAACTT-GCTTCTCCGTATCTCATCAGGAAGACGAATTCGGTCCACTTCTTAGTATC
194 ACTTGTTTCAA-TTCACTTCTCCGTATCTCATCAGGAAGACGAATTCGGTCCACTTCTCAGTATC
* * * * * * *
6837102 TCATCAGGAAGCTAACCATTTTATTGCTTCGACTTGCTTCTCAGTTTCTCATCAGGAAGCTGGGG
258 TCATCAGAAAGCTAACCATTTTATTGCTTCGACCTACTTCTCAATATCTCATCAAGAAGCT-GGA
* * * * * *
6837167 TTCGAAGATTTGCTCACTTTGAGCTTGGCTTCATTGATTTAGTCTT
322 TTCGAAGATTTGCTCACTTCGAGCCTGGCTTCATCGAGTTAGTATA
* * * * *
6837213 CTTCTTAGTATCTCATCAGGAAGACGAATTTGGTCTACTTGTTAGTATCTTATCAGGAAGCTAAC
1 CTTCTT-GTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAAGAAGCTAAC
*
6837278 CATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCA
65 CATTTTATTGCTTCGACCTGCTTCTCAATATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCA
*
6837343 CTTTGAGCTTGGCTTCATTGATTTGGTCTTCTTCTCAGTATCTCGTAAGGAAGATGACCGCATCA
130 CTTTGAGCTTGGCTTCATTGATTTGGTCTTCTTCTCAGTATCTCATAAGGAAGATGACCGCATCA
* * *
6837408 CTTGTTTCAATTCACTTCTCTGTATCTTATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTC
195 CTTGTTTCAATTCACTTCTCCGTATCTCATCAGGAAGACGAATTCGGTCCACTTCTCAGTATCTC
*
6837473 ATCAGAAAGCTAACCATTTTATTGCTTTGACCTACTTCTCAATATCTCATCAAGAAGCTGGATTC
260 ATCAGAAAGCTAACCATTTTATTGCTTCGACCTACTTCTCAATATCTCATCAAGAAGCTGGATTC
*
6837538 GAAGATTTGCTCACTTCGAGCCTGGCTTCATCGAGTTGGTATA
325 GAAGATTTGCTCACTTCGAGCCTGGCTTCATCGAGTTAGTATA
6837581 CTTCTCTGTATCTCATCAGGAAGA
1 CTTCT-TGTATCTCATCAGGAAGA
6837605 TGACCATCTC
Statistics
Matches: 359, Mismatches: 29, Indels: 9
0.90 0.07 0.02
Matches are distributed among these distances:
368 69 0.19
369 290 0.81
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (367 bp):
CTTCTTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAAGAAGCTAACC
ATTTTATTGCTTCGACCTGCTTCTCAATATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCAC
TTTGAGCTTGGCTTCATTGATTTGGTCTTCTTCTCAGTATCTCATAAGGAAGATGACCGCATCAC
TTGTTTCAATTCACTTCTCCGTATCTCATCAGGAAGACGAATTCGGTCCACTTCTCAGTATCTCA
TCAGAAAGCTAACCATTTTATTGCTTCGACCTACTTCTCAATATCTCATCAAGAAGCTGGATTCG
AAGATTTGCTCACTTCGAGCCTGGCTTCATCGAGTTAGTATA
Found at i:6837492 original size:209 final size:208
Alignment explanation
Indices: 6837220--6837609 Score: 591
Period size: 209 Copynumber: 1.9 Consensus size: 208
6837210 CTTCTTCTTA
* * * * *
6837220 GTATCTCATCAGGAAGACGAATTTGGTCTACTTGTTAGTATCTTATCAGGAAGCTAACCATTTTA
1 GTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGAAAGCTAACCATTTTA
* * * * *
6837285 TTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAG
66 TTGCTTCGACCTACTTCTCAATATCTCATCAAGAAGCT-GGATTCGAAGATTTGCTCACTTCGAG
* * * * * *
6837350 CTTGGCTTCATTGATTTGGTCTTCTTCTCAGTATCTCGTAAGGAAGATGACCGCATCACTTGTTT
130 CCTGGCTTCATCGAGTTGGTATACTTCTCAGTATCTCATAAGGAAGATGACCGCATCACTTGTTT
6837415 CAATTCACTTCTCT
195 CAATTCACTTCTCT
*
6837429 GTATCTTATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGAAAGCTAACCATTTTA
1 GTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGAAAGCTAACCATTTTA
*
6837494 TTGCTTTGACCTACTTCTCAATATCTCATCAAGAAGCTGGATTCGAAGATTTGCTCACTTCGAGC
66 TTGCTTCGACCTACTTCTCAATATCTCATCAAGAAGCTGGATTCGAAGATTTGCTCACTTCGAGC
* *
6837559 CTGGCTTCATCGAGTTGGTATACTTCTCTGTATCTCATCAGGAAGATGACC
131 CTGGCTTCATCGAGTTGGTATACTTCTCAGTATCTCATAAGGAAGATGACC
6837610 ATCTCGTTAT
Statistics
Matches: 161, Mismatches: 20, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
208 68 0.42
209 93 0.58
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (208 bp):
GTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGAAAGCTAACCATTTTA
TTGCTTCGACCTACTTCTCAATATCTCATCAAGAAGCTGGATTCGAAGATTTGCTCACTTCGAGC
CTGGCTTCATCGAGTTGGTATACTTCTCAGTATCTCATAAGGAAGATGACCGCATCACTTGTTTC
AATTCACTTCTCT
Found at i:6839514 original size:47 final size:47
Alignment explanation
Indices: 6839443--6839532 Score: 171
Period size: 47 Copynumber: 1.9 Consensus size: 47
6839433 CAGTAATACC
*
6839443 CAAATCTTATTATTTGCCGGGCCATCATGAAACCATTGGCGTGAGAA
1 CAAATCTTATTATTTGCCGAGCCATCATGAAACCATTGGCGTGAGAA
6839490 CAAATCTTATTATTTGCCGAGCCATCATGAAACCATTGGCGTG
1 CAAATCTTATTATTTGCCGAGCCATCATGAAACCATTGGCGTG
6839533 TGTCTCAGAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (47 bp):
CAAATCTTATTATTTGCCGAGCCATCATGAAACCATTGGCGTGAGAA
Found at i:6846567 original size:29 final size:28
Alignment explanation
Indices: 6846457--6846695 Score: 108
Period size: 29 Copynumber: 8.4 Consensus size: 28
6846447 GAGTCAAGAC
*
6846457 GTAA-TTTTGGATG-TCGGGGGCAAAAT
1 GTAATTTTTGGATGATCGGGGGTAAAAT
* * * * **
6846483 GGTAATTTTTGGAAGTTTGGAGCAAAAAT
1 -GTAATTTTTGGATGATCGGGGGTAAAAT
* * ** ** *
6846512 GCAATTTTTAGATGCCCGAAGGCAAAAT
1 GTAATTTTTGGATGATCGGGGGTAAAAT
* *
6846540 AGTAATTTTGGGATGATCGGGGGTAAAAAG
1 -GTAATTTTTGGATGATCGGGGGT-AAAAT
* * * *
6846570 GCAATTTTTGGAT-ACCTTGGGGCAAAAT
1 GTAATTTTTGGATGATC-GGGGGTAAAAT
** * * *
6846598 GGTAATTTTTAAACGTTCGAGGGTAAAAT
1 -GTAATTTTTGGATGATCGGGGGTAAAAT
* *
6846627 GGTAATTTTTGGACG-TCTAGGGGTAAAAT
1 -GTAATTTTTGGATGATC-GGGGGTAAAAT
* *
6846656 GATAATTTTTGGATGTTTGGGGGTAAAAT
1 G-TAATTTTTGGATGATCGGGGGTAAAAT
6846685 GATAATTTTTG
1 G-TAATTTTTG
6846696 AAAAGTTCAG
Statistics
Matches: 157, Mismatches: 45, Indels: 18
0.71 0.20 0.08
Matches are distributed among these distances:
27 4 0.03
28 36 0.23
29 111 0.71
30 6 0.04
ACGTcount: A:0.31, C:0.07, G:0.28, T:0.33
Consensus pattern (28 bp):
GTAATTTTTGGATGATCGGGGGTAAAAT
Found at i:6846650 original size:87 final size:87
Alignment explanation
Indices: 6846559--6846727 Score: 200
Period size: 87 Copynumber: 1.9 Consensus size: 87
6846549 GGGATGATCG
* * * *
6846559 GGGGTAAAAAGGCAATTTTTGGATACCTT-GGGGCAAAATGGTAATTTTT-AAACGTTCGAGGGT
1 GGGGTAAAAAGACAATTTTTGGAT-CCTTGGGGGCAAAATGATAATTTTTGAAAAGTTC-AGGAT
6846622 -AAAATGGTAATTTTTGGACGTCTA
64 AAAAAT-GTAATTTTTGGACGTCTA
* * ** *
6846646 GGGGTAAAATGATAATTTTTGGATGTTTGGGGGTAAAATGATAATTTTTGAAAAGTTCAGGATCA
1 GGGGTAAAAAGACAATTTTTGGATCCTTGGGGGCAAAATGATAATTTTTGAAAAGTTCAGGAT-A
6846711 AAAATGTAATTTTTGGA
65 AAAATGTAATTTTTGGA
6846728 AAATTTGAGG
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
86 2 0.03
87 43 0.62
88 19 0.28
89 5 0.07
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.34
Consensus pattern (87 bp):
GGGGTAAAAAGACAATTTTTGGATCCTTGGGGGCAAAATGATAATTTTTGAAAAGTTCAGGATAA
AAATGTAATTTTTGGACGTCTA
Done.