Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, whole genome shotgun sequence
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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 101 of 133
Found at i:19708891 original size:24 final size:24
Alignment explanation
Indices: 19708859--19708906 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
19708849 TTAGGTAGAA
19708859 GTGTCAAAAATAAATAAAT-TTTAT
1 GTGTCAAAAA-AAATAAATCTTTAT
* *
19708883 GTGTTAAAAAAAATATATCTTTAT
1 GTGTCAAAAAAAATAAATCTTTAT
19708907 TTGAATATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (24 bp):
GTGTCAAAAAAAATAAATCTTTAT
Found at i:19714691 original size:7 final size:7
Alignment explanation
Indices: 19714681--19714714 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
19714671 TAATTGAAAA
19714681 TTGGATT
1 TTGGATT
19714688 TTGGATT
1 TTGGATT
19714695 TTGGATT
1 TTGGATT
19714702 TT-GAGTT
1 TTGGA-TT
19714709 TTGGAT
1 TTGGAT
19714715 GTTCTATCCC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 2 0.08
7 21 0.84
8 2 0.08
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (7 bp):
TTGGATT
Found at i:19726669 original size:21 final size:22
Alignment explanation
Indices: 19726635--19726675 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
19726625 TATATTTATA
19726635 TTTGTATCCCTAGAATTAAGTG
1 TTTGTATCCCTAGAATTAAGTG
19726657 TTTGTAT-CCTAGAATTAAG
1 TTTGTATCCCTAGAATTAAG
19726676 GACAAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.41
Consensus pattern (22 bp):
TTTGTATCCCTAGAATTAAGTG
Found at i:19746726 original size:23 final size:24
Alignment explanation
Indices: 19746696--19746740 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
19746686 CTTGATGATT
*
19746696 TTATTATT-AAAAACCAGTCAGCC
1 TTATTATTAAAAAAACAGTCAGCC
19746719 TTATTATTAAAAAAACAGTCAG
1 TTATTATTAAAAAAACAGTCAG
19746741 ACTTGTCCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (24 bp):
TTATTATTAAAAAAACAGTCAGCC
Found at i:19747346 original size:27 final size:29
Alignment explanation
Indices: 19747316--19747376 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
19747306 CCTGGAGGCG
19747316 AAAGCAAAAC-A-GATACAACCATGAAAC
1 AAAGCAAAACGAGGATACAACCATGAAAC
** *
19747343 AAAGTGAAACGTAGGATACAACTATGAAAC
1 AAAGCAAAACG-AGGATACAACCATGAAAC
19747373 AAAG
1 AAAG
19747377 TGAGAATTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 8 0.29
29 1 0.04
30 19 0.68
ACGTcount: A:0.56, C:0.16, G:0.16, T:0.11
Consensus pattern (29 bp):
AAAGCAAAACGAGGATACAACCATGAAAC
Found at i:19750186 original size:150 final size:148
Alignment explanation
Indices: 19749906--19750199 Score: 410
Period size: 150 Copynumber: 2.0 Consensus size: 148
19749896 AAACTGAGAG
* *
19749906 AGAAATTAAGGATTTCTTTTACCAACTCAAAGAAATACGTACCTCATTTGTTTTTAGATGTCCAA
1 AGAAATTAAGGATTTCTTTTACCAACTCAAAGAAATACGTACCTCATTTGCTTTCAGATGTCCAA
*
19749971 ACCAAATAAAAATTCATAAATAAACAAAACGAACGAAACTTCTTTCTTAATTTTTCCTTTAGCAA
66 ACCAAATAAAAATTCATAAATAAACAAAACAAACGAAACTTCTTTCTTAATTTTTCCTTTAGCAA
19750036 AAAAGGAAAATGCAATAA
131 AAAAGGAAAATGCAATAA
* * * ** *
19750054 AGAAATCTCAGGATTTCTTTTCCCAACTCAAAGCAATATC-TAGTTTATTTGCTTTCAGATGTCC
1 AGAAAT-TAAGGATTTCTTTTACCAACTCAAAGAAATA-CGTACCTCATTTGCTTTCAGATGTCC
* * * * * *
19750118 AAATCAAATGAAAAGTTCATAAATAAACAAAACAAATGAGATTTCTTTTTTAATTTTTCCTTTAG
64 AAACCAAAT-AAAAATTCATAAATAAACAAAACAAACGAAACTTCTTTCTTAATTTTTCCTTTAG
*
19750183 CAAAGAAGGAAAATGCA
128 CAAAAAAGGAAAATGCA
19750200 TTAGCTAAAT
Statistics
Matches: 127, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
148 6 0.05
149 55 0.43
150 66 0.52
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (148 bp):
AGAAATTAAGGATTTCTTTTACCAACTCAAAGAAATACGTACCTCATTTGCTTTCAGATGTCCAA
ACCAAATAAAAATTCATAAATAAACAAAACAAACGAAACTTCTTTCTTAATTTTTCCTTTAGCAA
AAAAGGAAAATGCAATAA
Found at i:19753165 original size:11 final size:11
Alignment explanation
Indices: 19753149--19753196 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
19753139 TTTTTTATTC
19753149 AATTTAAATTA
1 AATTTAAATTA
19753160 AATTTAAATATTA
1 AATTT-AA-ATTA
* *
19753173 AATATATATTA
1 AATTTAAATTA
*
19753184 AATTAAAATTA
1 AATTTAAATTA
19753195 AA
1 AA
19753197 ATGTAAAAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
11 19 0.63
12 3 0.10
13 8 0.27
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
AATTTAAATTA
Found at i:19753171 original size:24 final size:24
Alignment explanation
Indices: 19753144--19753192 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
19753134 GGATTTTTTT
* * *
19753144 TATTCAATTTAAATTAAATTTAAA
1 TATTAAATATAAATTAAATTAAAA
*
19753168 TATTAAATATATATTAAATTAAAA
1 TATTAAATATAAATTAAATTAAAA
19753192 T
1 T
19753193 TAAAATGTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (24 bp):
TATTAAATATAAATTAAATTAAAA
Found at i:19755474 original size:15 final size:15
Alignment explanation
Indices: 19755431--19755477 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
19755421 ATTTTTTATT
19755431 TTATATATTTAAAATA
1 TTATA-ATTTAAAATA
*
19755447 -TAT-TTTGTAAAATA
1 TTATAATT-TAAAATA
19755461 TTATAATTTAAAATA
1 TTATAATTTAAAATA
19755476 TT
1 TT
19755478 TTTAATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
13 2 0.08
14 7 0.27
15 15 0.58
16 2 0.08
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
TTATAATTTAAAATA
Found at i:19755997 original size:63 final size:63
Alignment explanation
Indices: 19755885--19756006 Score: 158
Period size: 63 Copynumber: 1.9 Consensus size: 63
19755875 TTAATATATC
* * *
19755885 AATTTTTAAAATAATTTAGAAATTTTTACTTAATATTTTAAAATAATATAGAGTTTTTTATTT
1 AATTTTTAAAATAATATAGAAATTTTTACTTAATATTTTAAAATAATATAAAATTTTTTATTT
* * *
19755948 AATTTTTTAAATCAATATA-AACATTTTTACTT-ATTTTTTAAAATGATATAAAATTTTTT
1 AATTTTTAAAAT-AATATAGAA-ATTTTTACTTAATATTTTAAAATAATATAAAATTTTTT
19756007 TAGAAGGATT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
63 36 0.71
64 15 0.29
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.52
Consensus pattern (63 bp):
AATTTTTAAAATAATATAGAAATTTTTACTTAATATTTTAAAATAATATAAAATTTTTTATTT
Found at i:19756006 original size:31 final size:31
Alignment explanation
Indices: 19755887--19756005 Score: 134
Period size: 32 Copynumber: 3.8 Consensus size: 31
19755877 AATATATCAA
*
19755887 TTTTTAAAATAATTTAGAAATTTTTACTTAAT
1 TTTTTAAAATAATATA-AAATTTTTACTTAAT
* ** *
19755919 ATTTTAAAATAATATAGAGTTTTTTATTTAAT
1 TTTTTAAAATAATATA-AAATTTTTACTTAAT
19755951 TTTTT-AAATCAATATAAACATTTTTACTT-AT
1 TTTTTAAAAT-AATATAAA-ATTTTTACTTAAT
*
19755982 TTTTTAAAATGATATAAAATTTTT
1 TTTTTAAAATAATATAAAATTTTT
19756006 TTAGAAGGAT
Statistics
Matches: 74, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
30 6 0.08
31 19 0.26
32 49 0.66
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.53
Consensus pattern (31 bp):
TTTTTAAAATAATATAAAATTTTTACTTAAT
Found at i:19756126 original size:30 final size:31
Alignment explanation
Indices: 19756078--19756136 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
19756068 AAATTTAACC
*
19756078 AATAAATTATATTATAATAAAATATAAAAAT
1 AATAAATTAAATTATAATAAAATATAAAAAT
* **
19756109 AATAATTTAAATT-TAATATTATATAAAA
1 AATAAATTAAATTATAATAAAATATAAAA
19756137 CAGTTCTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 13 0.54
31 11 0.46
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (31 bp):
AATAAATTAAATTATAATAAAATATAAAAAT
Found at i:19756583 original size:19 final size:20
Alignment explanation
Indices: 19756546--19756583 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
19756536 AGTAATATAC
*
19756546 AAAAATAATTATATTTTAAT
1 AAAAATAATTATATATTAAT
*
19756566 AAAAATATTTA-ATATTAA
1 AAAAATAATTATATATTAA
19756584 AATAATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AAAAATAATTATATATTAAT
Found at i:19756587 original size:21 final size:20
Alignment explanation
Indices: 19756546--19756588 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
19756536 AGTAATATAC
**
19756546 AAAAATAATTATATTTTAAT
1 AAAAATAATTATATTAAAAT
*
19756566 AAAAATATTTAATATTAAAAT
1 AAAAATAATT-ATATTAAAAT
19756587 AA
1 AA
19756589 TGTATTAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAAATAATTATATTAAAAT
Found at i:19756954 original size:19 final size:19
Alignment explanation
Indices: 19756930--19756992 Score: 90
Period size: 19 Copynumber: 3.2 Consensus size: 19
19756920 TTTAACATTA
*
19756930 ATTATTAAAATAATAAAAT
1 ATTATTAAAATAATAATAT
*
19756949 ATTATTATAATATTATAATAT
1 ATTATTA-AA-ATAATAATAT
19756970 ATTATTAAAATAATAATAT
1 ATTATTAAAATAATAATAT
19756989 ATTA
1 ATTA
19756993 CTATTTTATT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
19 20 0.51
20 4 0.10
21 15 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATTATTAAAATAATAATAT
Found at i:19758249 original size:367 final size:368
Alignment explanation
Indices: 19757568--19758295 Score: 1054
Period size: 367 Copynumber: 2.0 Consensus size: 368
19757558 GTGTATCACT
* * * *
19757568 AACACATGAGCACAGAAATGACCTAAAATGCCCATATGCACAATCGAATGCTTGCACTAACACAT
1 AACACACGAGCACAGAAATGACCTAAAATGCCCATATGCACAATCGAATGCCTACACGAACACAT
* * ***
19757633 TCGAATCCCTCTCAGGCTAACTCTAGTTCCAGCAGCTCCCAACATTGATCACCTCCTCTAGACCA
66 TCGAATCCCTCTCAGGCTAACTCTAGTTCCAGCAACACCCAACACCAATCACCTCCTCTAGACCA
* * *
19757698 ATTTTGGCCAACTTTGAACCTGTTTTGAATCTGCTCTGATACCACTTGTCATAAGCCAAGATTTA
131 ATTTTGGCCAACTTTGAACATGTTCTGAATCTGCTCTGATACCACTTGTCACAAGCCAAGATTTA
* * * * * *
19757763 AGCTCTAGGTTCATGTGGTTCTAGGATACAGTAATGGATTCTTCCACATCTCATATAAGTCTAAC
196 AGCTCCAAGTTCACGTGGTTCTAGGATACAATAATGGATTCTTCCACATCTCAGATAAGCCTAAC
* *
19757828 ACAAGAAATGGTGTATAGATACTCTAAACTGCGAGGCTTGACTACCTAATACGTTGTAAAACAAA
261 ACAAGAAATGGTGCATAGATACTCTAAACTGCGAGGCTTGACTACCTAATACGTTGCAAAACAAA
*
19757893 ATAGCATAGCAAGTGCCTGAAGAAAGGCTAACAAAATAACTCC
326 ATAGCACAGCAAGTGCCTGAAGAAAGGCTAACAAAATAACTCC
19757936 AACACACGAGCACAGAAATGACCTAAAATGCCCATATGACACAATCGAATGCCTACACGAACACA
1 AACACACGAGCACAGAAATGACCTAAAATGCCCATATG-CACAATCGAATGCCTACACGAACACA
** * *
19758001 TTCGAA--CCTCTGCTAGGC-AACTCTAGTTCCTA-CAACACTTAACACCAATCACCT-TTTTAG
65 TTCGAATCCCTCT-C-AGGCTAACTCTAGTTCC-AGCAACACCCAACACCAATCACCTCCTCTAG
* * *
19758061 ACCAATTTTGGTCAACTTTGAACATGTTCTGAA-CTTGTTTTGATACCACTTGTCACAAGCCAAG
127 ACCAATTTTGGCCAACTTTGAACATGTTCTGAATC-TGCTCTGATACCACTTGTCACAAGCCAAG
* * *
19758125 ATTTAAGCTCCAAGTTCACGTGGTTCTAGGATACAATAATGGATTCTTCCACGTTTCAGATTAGC
191 ATTTAAGCTCCAAGTTCACGTGGTTCTAGGATACAATAATGGATTCTTCCACATCTCAGATAAGC
* *
19758190 CTAACATAAGAAATGGTGCATGGATACTCTAAACTGCGAGGCTTGACTACCTAATACGTTGCAAA
256 CTAACACAAGAAATGGTGCATAGATACTCTAAACTGCGAGGCTTGACTACCTAATACGTTGCAAA
* *
19758255 ACAAAATAGCACAGTAAGTGCCTGAAGAAAGTCTAACAAAA
321 ACAAAATAGCACAGCAAGTGCCTGAAGAAAGGCTAACAAAA
19758296 AAATAATAAA
Statistics
Matches: 320, Mismatches: 35, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
366 1 0.00
367 220 0.69
368 65 0.20
369 34 0.11
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (368 bp):
AACACACGAGCACAGAAATGACCTAAAATGCCCATATGCACAATCGAATGCCTACACGAACACAT
TCGAATCCCTCTCAGGCTAACTCTAGTTCCAGCAACACCCAACACCAATCACCTCCTCTAGACCA
ATTTTGGCCAACTTTGAACATGTTCTGAATCTGCTCTGATACCACTTGTCACAAGCCAAGATTTA
AGCTCCAAGTTCACGTGGTTCTAGGATACAATAATGGATTCTTCCACATCTCAGATAAGCCTAAC
ACAAGAAATGGTGCATAGATACTCTAAACTGCGAGGCTTGACTACCTAATACGTTGCAAAACAAA
ATAGCACAGCAAGTGCCTGAAGAAAGGCTAACAAAATAACTCC
Found at i:19760926 original size:21 final size:21
Alignment explanation
Indices: 19760902--19760941 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
19760892 GTAAAATTAA
*
19760902 TTATTATAATGATGAGATTGG
1 TTATTATAATAATGAGATTGG
* *
19760923 TTATTGTAGTAATGAGATT
1 TTATTATAATAATGAGATT
19760942 AAAATTAATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.45
Consensus pattern (21 bp):
TTATTATAATAATGAGATTGG
Found at i:19762303 original size:29 final size:28
Alignment explanation
Indices: 19762271--19762334 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 28
19762261 ATTATTTATT
* *
19762271 TATATTTATT-ATTAAAATTGTAAAATAAA
1 TATATTTATTCAATAAAA-TATAAAAT-AA
19762300 TATATTT-TTCAATAAAATATAAAATAA
1 TATATTTATTCAATAAAATATAAAATAA
19762327 TATATTTA
1 TATATTTA
19762335 AATTGAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 9 0.29
28 9 0.29
29 13 0.42
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (28 bp):
TATATTTATTCAATAAAATATAAAATAA
Found at i:19766207 original size:22 final size:22
Alignment explanation
Indices: 19766168--19766209 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
19766158 AATTTGATCT
*
19766168 AAAATAAGTAAAATAAAACTAA
1 AAAAAAAGTAAAATAAAACTAA
19766190 AAAAAAAGATAAAA-AAAACT
1 AAAAAAAG-TAAAATAAAACT
19766210 TTGCAATACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.14
Consensus pattern (22 bp):
AAAAAAAGTAAAATAAAACTAA
Found at i:19767119 original size:17 final size:17
Alignment explanation
Indices: 19767093--19767149 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 17
19767083 AAAAATATTC
*
19767093 AAAATAGAAATTAACAAA
1 AAAAT-GAAATAAACAAA
19767111 AAAATGAAA-AAATCAAA
1 AAAATGAAATAAA-CAAA
19767128 ATAAAT-AAATAAACAAA
1 A-AAATGAAATAAACAAA
19767145 TAAAA
1 -AAAA
19767150 GATAAAGAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
16 2 0.06
17 19 0.56
18 13 0.38
ACGTcount: A:0.75, C:0.05, G:0.04, T:0.16
Consensus pattern (17 bp):
AAAATGAAATAAACAAA
Found at i:19767424 original size:23 final size:23
Alignment explanation
Indices: 19767398--19767442 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
19767388 AATTAACAAA
*
19767398 AAATGAAAAAAATCAAA-ATAAAT
1 AAAT-AAAAAAATAAAAGATAAAT
*
19767421 AAATAAACAAATAAAAGATAAA
1 AAATAAAAAAATAAAAGATAAA
19767443 GAAAATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.16
Consensus pattern (23 bp):
AAATAAAAAAATAAAAGATAAAT
Found at i:19767462 original size:287 final size:285
Alignment explanation
Indices: 19767034--19767600 Score: 994
Period size: 287 Copynumber: 2.0 Consensus size: 285
19767024 TGTTTCTGTC
19767034 ATTTCACAAGTTTTTAAAATTTTTATCTATTTTTTATTTTTTATATTTCAAAAATATTCAAAATA
1 ATTTCACAAGTTTTTAAAATTTTTATCTATTTTTTATTTTTTATATTTCAAAAATATTCAAAATA
*
19767099 GAAATTAACAAAAAAATGAAAAAATCAAAATAAATAAATAAACAAATAAAAGATAAAGAACATAT
66 GAAATTAACAAAAAAATGAAAAAATCAAAATAAATAAATAAACAAATAAAAGATAAAGAAAATAT
*
19767164 ATAATTTAGTTTATGTTAGGCTTATAATCTAATTTGAGATTAACCCAATTTGTCAAATTAAGTCC
131 ATAATTTAGTTTATGTTAGGCTTATAATCTAATTTGAGATTAACCAAATTTGTCAAATTAAGTCC
* *
19767229 AATTAAAAATTCAAATATCCAAAAAAAAAATTATCTAAATATGAAAAAGAAATGTCATGGTCGAA
196 AATTAAAAATTCAAATATCC-AAAAAAAAATTATCTAAATATGAAAAA-AAATGTCACGGTCAAA
*
19767294 TTAATAATTTGTGTTTTTATATTTCGA
259 TTAATAATTAGTGTTTTTATATTTCGA
19767321 ATTT-ACAAGTTTTTAAAAATTTTTATCTATTTTTTATTTTTTATATTTCAAAAATATTCAAAAT
1 ATTTCACAAGTTTTT-AAAATTTTTATCTATTTTTTATTTTTTATATTTCAAAAATATTCAAAAT
19767385 AGAAATTAAC-AAAAAATGAAAAAAATCAAAATAAATAAATAAACAAATAAAAGATAAAGAAAAT
65 AGAAATTAACAAAAAAATG-AAAAAATCAAAATAAATAAATAAACAAATAAAAGATAAAGAAAAT
* *
19767449 ATATAATTTAGTTTATGTTAGGCTTATAATCTAATTTGAGATTAACCAAATTTGTCAATTTATGT
129 ATATAATTTAGTTTATGTTAGGCTTATAATCTAATTTGAGATTAACCAAATTTGTCAAATTAAGT
* * *
19767514 CCAATTGAAAATTCAAATATCCAAAAAAAATTTATCTAAATATGAAAAAAAATGTCACGTTCAAA
194 CCAATTAAAAATTCAAATATCCAAAAAAAAATTATCTAAATATGAAAAAAAATGTCACGGTCAAA
19767579 TTAATAATTAGTGTTTTTATAT
259 TTAATAATTAGTGTTTTTATAT
19767601 GTTATTTTAG
Statistics
Matches: 268, Mismatches: 10, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
285 34 0.13
286 44 0.16
287 190 0.71
ACGTcount: A:0.48, C:0.08, G:0.07, T:0.37
Consensus pattern (285 bp):
ATTTCACAAGTTTTTAAAATTTTTATCTATTTTTTATTTTTTATATTTCAAAAATATTCAAAATA
GAAATTAACAAAAAAATGAAAAAATCAAAATAAATAAATAAACAAATAAAAGATAAAGAAAATAT
ATAATTTAGTTTATGTTAGGCTTATAATCTAATTTGAGATTAACCAAATTTGTCAAATTAAGTCC
AATTAAAAATTCAAATATCCAAAAAAAAATTATCTAAATATGAAAAAAAATGTCACGGTCAAATT
AATAATTAGTGTTTTTATATTTCGA
Found at i:19768320 original size:15 final size:15
Alignment explanation
Indices: 19768300--19768330 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
19768290 GTTCGTATCA
19768300 AATCGAATCAAATTG
1 AATCGAATCAAATTG
*
19768315 AATCGAATCGAATTG
1 AATCGAATCAAATTG
19768330 A
1 A
19768331 TTTTTTCTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (15 bp):
AATCGAATCAAATTG
Found at i:19770945 original size:164 final size:164
Alignment explanation
Indices: 19770669--19771005 Score: 620
Period size: 164 Copynumber: 2.1 Consensus size: 164
19770659 GAACTGAGAC
*
19770669 ATTTATTTGTTATATTCGTTATGTTTTGTGAAGTTTCATATGCAGTTGCATTGTGGGATAAAAAT
1 ATTTATTTGTTATATTCGTTATGTTTTGTGAAGTTTCATATGCAGTTGCATTATGGGATAAAAAT
19770734 TGGAGACTCTTTGGAAAAAATATTAAATATAGAATGAATTGTTTGATGGATTCCAATAGATTTTA
66 TGGAGACTCTTTGGAAAAAATATTAAATATAGAATGAATTGTTTGATGGATTCCAATAGATTTTA
*
19770799 GATTCTTGATCAATATTTAAAGAATTATGTGTTG
131 GATTCTTAATCAATATTTAAAGAATTATGTGTTG
* *
19770833 ATTTTTTTGTTATATTGGTTATGTTTTGTGAAGTTTCATATGCAGTTGCATTATGGGATAAAAAT
1 ATTTATTTGTTATATTCGTTATGTTTTGTGAAGTTTCATATGCAGTTGCATTATGGGATAAAAAT
*
19770898 TGGAGACTCTTTGGAAAAAATATTAAATATAGAATGAATTGTTTGATGGGTTCCAATAGATTTTA
66 TGGAGACTCTTTGGAAAAAATATTAAATATAGAATGAATTGTTTGATGGATTCCAATAGATTTTA
19770963 GATTCTTAATCAATATTTAAAGAATTATGTGTTG
131 GATTCTTAATCAATATTTAAAGAATTATGTGTTG
*
19770997 ATTTCTTTG
1 ATTTATTTG
19771006 GAAGAGTTGT
Statistics
Matches: 167, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
164 167 1.00
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.44
Consensus pattern (164 bp):
ATTTATTTGTTATATTCGTTATGTTTTGTGAAGTTTCATATGCAGTTGCATTATGGGATAAAAAT
TGGAGACTCTTTGGAAAAAATATTAAATATAGAATGAATTGTTTGATGGATTCCAATAGATTTTA
GATTCTTAATCAATATTTAAAGAATTATGTGTTG
Found at i:19773752 original size:25 final size:24
Alignment explanation
Indices: 19773714--19773765 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
19773704 GGTTAGTTTT
*
19773714 TTTCATTTCAATTGTTTGATATCTC
1 TTTCATTGCAATTGTTTGATATC-C
*
19773739 TTTCATTGCGATTGTTTGATATCC
1 TTTCATTGCAATTGTTTGATATCC
19773763 TTT
1 TTT
19773766 TTCTTATAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 4 0.16
25 21 0.84
ACGTcount: A:0.17, C:0.15, G:0.12, T:0.56
Consensus pattern (24 bp):
TTTCATTGCAATTGTTTGATATCC
Found at i:19778214 original size:555 final size:554
Alignment explanation
Indices: 19777157--19778281 Score: 1630
Period size: 555 Copynumber: 2.0 Consensus size: 554
19777147 AACTTATCAT
* * * ** *
19777157 AACCTCAATTTTTAAACCCTCAATCTTTGTACTTACAAAACCTTAAACTCCAAATCTTGTAAGAA
1 AACCCCAATTTTTAAACCCTCAATCTCTATACTTACAAAACCCCAAACTCCAAATCTTGCAAGAA
* * * * * *
19777222 TTAAGAGTTTAAAATATTTTAACTTTCATTATAGAAATGTCTGATCAAAATCATTCCCCCATCCT
66 TTAAGAGTTTAAAATATTCTAACTTTCATTACAGAAATATATGATCAAAATCATTCACCCATCAT
*
19777287 AAATCTTAGAAACTTTGATCATGTACCAATAATTTTCAAGATTCTACGTAGTGAAAATGCTACAA
131 AAATCTTAGAAACTTTGATCATGTACCAATAATTTTCAAGATTCTACATAGTGAAAATGCTACAA
19777352 AAAAATATTATAATGATAAAATCATTTGAAAACCTTCCTTTTTTATAATGTTCTTAATGTTTAAG
196 AAAAATATTATAATGATAAAATCATTTGAAAACCTT-CTTTTTTATAATGTTCTTAATGTTTAAG
19777417 GATTATAGCTAAAAAAATTCTAATTGGGATTTTTTGAATAAAACAAGTTAATATAATAAATATAA
260 GATTATAGC-AAAAAAATTCTAATTGGGATTTTTTGAATAAAACAAGTTAATATAATAAATATAA
* *
19777482 TGCAATTTCACTTTAATTTTAATAAAGAATTTAACCTAAAATATTATCATGTTAGCCCAACTCAA
324 TGCAATTTCACTTTAATTTTAATAAAGAATTTAACCTAAAAAATTACCATGTTAGCCCAACTCAA
* * * *
19777547 AAATGAGTTGATATTGCATTATGTTGATGAGCCATAAATCCATGATAGTGGAATTCAAACAAATT
389 AAATGAGTTGATATTGCACTATGTTGATGAGCCACAAATCCATGATAATAGAATTCAAACAAATT
* * *
19777612 TAAACTCAAACCAAATCATCACATGAAATAAAGCCCAAAACAATAAGGAAAACAAAGAGTTAAAA
454 TAAACCCAAACCAAATCATCACATGAAATAAAGCCCAAAACAATAAGGAAAAAAAAAAGTTAAAA
*
19777677 ATTTTCCAAAGTTATTTTCTAAGTTTAAAAATCATTC
519 ATTTTCCAAAGTTATTTT-TAAGTTGAAAAATCATTC
* * * * * * *
19777714 AACCCCAATTTTTAAACCCTTAATCTCTATACTTGCGAAACCCCAAATTTCAAATCTTGCAATAG
1 AACCCCAATTTTTAAACCCTCAATCTCTATACTTACAAAACCCCAAACTCCAAATCTTGCAAGAA
* * * * **
19777779 TTAAGAGTTTCAACTATTCTAACTTTCATTGCAGAAATATATGATCAAAATCATTTACTTATCAT
66 TTAAGAGTTTAAAATATTCTAACTTTCATTACAGAAATATATGATCAAAATCATTCACCCATCAT
* * * * ** * *
19777844 AAATCTTA-AGAACTTTGATCATGTACCGATAATTTTTAAGATTTTATATCTTGAAGATGCT-TA
131 AAATCTTAGA-AACTTTGATCATGTACCAATAATTTTCAAGATTCTACATAGTGAAAATGCTACA
* * * * *
19777907 AGAAGATATTATAGTGATAAAATCATTTGAAAACCTAT-TTTTTTATAATGTTCTTGATGTTTGA
195 AAAAAATATTATAATGATAAAATCATTTGAAAACCT-TCTTTTTTATAATGTTCTTAATGTTTAA
*
19777971 GGATTATAG-AAAAAAATTCTAATTGGGATTTTTTTTGAATAAAACAAGTTAATATTATAAATAT
259 GGATTATAGCAAAAAAATTCTAATTGGGA--TTTTTTGAATAAAACAAGTTAATATAATAAATAT
* *
19778035 AATGCAATTTCACTTTTATTTTAATAAATAATTTAACCTAAAAAATTACCATGTTAGCCCAAC-C
322 AATGCAATTTCACTTTAATTTTAATAAAGAATTTAACCTAAAAAATTACCATGTTAGCCCAACTC
* * *
19778099 AAAAAATGAGTTGATATTGTACTATGTTGATGAGCTACAATTCCATGATAATAGAATTCAAACAA
387 -AAAAATGAGTTGATATTGCACTATGTTGATGAGCCACAAATCCATGATAATAGAATTCAAACAA
19778164 ATTTAAACCCAAACCAAATCATCACATGAAATAAAGCCCAAAACAATAAGGAAAAAAAAAAGTTA
451 ATTTAAACCCAAACCAAATCATCACATGAAATAAAGCCCAAAACAATAAGGAAAAAAAAAAGTTA
* *
19778229 AAAATTTTTCAAAGTTATTTTTGAGTTGAAAAATCATTC
516 AAAATTTTCCAAAGTTATTTTTAAGTTGAAAAATCATTC
19778268 AACCCCAATTTTTA
1 AACCCCAATTTTTA
19778282 GCCTTTTAAA
Statistics
Matches: 506, Mismatches: 57, Indels: 13
0.88 0.10 0.02
Matches are distributed among these distances:
553 19 0.04
554 31 0.06
555 264 0.52
556 35 0.07
557 157 0.31
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.35
Consensus pattern (554 bp):
AACCCCAATTTTTAAACCCTCAATCTCTATACTTACAAAACCCCAAACTCCAAATCTTGCAAGAA
TTAAGAGTTTAAAATATTCTAACTTTCATTACAGAAATATATGATCAAAATCATTCACCCATCAT
AAATCTTAGAAACTTTGATCATGTACCAATAATTTTCAAGATTCTACATAGTGAAAATGCTACAA
AAAAATATTATAATGATAAAATCATTTGAAAACCTTCTTTTTTATAATGTTCTTAATGTTTAAGG
ATTATAGCAAAAAAATTCTAATTGGGATTTTTTGAATAAAACAAGTTAATATAATAAATATAATG
CAATTTCACTTTAATTTTAATAAAGAATTTAACCTAAAAAATTACCATGTTAGCCCAACTCAAAA
ATGAGTTGATATTGCACTATGTTGATGAGCCACAAATCCATGATAATAGAATTCAAACAAATTTA
AACCCAAACCAAATCATCACATGAAATAAAGCCCAAAACAATAAGGAAAAAAAAAAGTTAAAAAT
TTTCCAAAGTTATTTTTAAGTTGAAAAATCATTC
Found at i:19782175 original size:372 final size:368
Alignment explanation
Indices: 19780939--19782308 Score: 1439
Period size: 370 Copynumber: 3.7 Consensus size: 368
19780929 GAGGTTTTAG
**
19780939 TGTCACGGACCTAAGGAAGAGTCCTGAATCCCACATCGAACATAATA-AGAGGGTCACTGGGGTA
1 TGTCACGGACCTAAAAAAGAGTCCTGAATCCCACATCGAACATAATAGA-AGGGTCACT-GGGTA
* ** * **
19781003 TAAAAGGGTTCACACCACCTCTACCTTATGAGGGGCCTTTTATAGGACAAAATCGTGAGACCAGG
64 TAAAAGGGTTCACACCACCT-TTCCTTATGAGGTACCTTTTGTAGGACAAAATCGTGAGGTCAGG
* * * * *
19781068 -GGGCCAAAACGGATAATACCTCACAAGGGTATGAATCGTGGTGGTTA-AGCTGATTTGAGACGT
128 AGGGCCAAAGCGGATAATACCTCACAAGGGTGTGAACCGTGGCGGTTAGA-CTGATCTGAGACGT
* * *
19781131 CGGAAGAGTGAATG-CCCGAGTCCCGAAGCCGTGTGGGTTCAAAGCTTAAGTCTCGACCCGTGAC
192 CGGAAGAGTGAATGTCCAG-GTCTCGAAGCCGCGT-GGTTCAAAGCTTAAGTCTCGACCCGTGAC
* * * * * *
19781195 AAGTGGTATCAGAGCTAGCCCTATATCGTTTGATCCACACCAAGCACCTCGAAGGAGGTAAGCAG
255 AAGTGGTATCAGAGCCAACCCTATATCGTTCGATCCACGCCAAGCACCTCGAGGGAGGTAGGCAG
* * * * * *
19781260 GGTGGCCAGCCTCCGTAACGAGAGCGTCACGATGTTAGGTGCAAGAGAA
320 GGTGGCCAGCCTCCGTGATGAGGGCGTCACGAGGTTGGGTGCGAGAGAA
* * * *
19781309 TGTCACGGACCTAAAAAAGATTCTTGAATCCCACATTGAACATAATAGGAGGGTCACTGTGGTAT
1 TGTCACGGACCTAAAAAAGAGTCCTGAATCCCACATCGAACATAATAGAAGGGTCACTG-GGTAT
* * * * *
19781374 AAAAGGGTTCACACCACATTTGCCTTGTGAGGTACTTTTTGTAGGATAAAACCGTGAGGTCA-GA
65 AAAAGGGTTCACACCACCTTT-CCTTATGAGGTACCTTTTGTAGGACAAAATCGTGAGGTCAGGA
* * * * *
19781438 GGGTCAAAGCGGATAATACCTCACAAAGGTGTGAATCGTGGCGGTTAGGCTGATCTGGGACGTCG
129 GGGCCAAAGCGGATAATACCTCACAAGGGTGTGAACCGTGGCGGTTAGACTGATCTGAGACGTCG
* * * * * * *
19781503 AAAGGGTGAATGTCCGGGTCTCGAAATCATGCG-GGTCCAAAGCTTAAGTCTCGACCCATGACAA
194 GAAGAGTGAATGTCCAGGTCTCG-AAGC-CGCGTGGTTCAAAGCTTAAGTCTCGACCCGTGACAA
* * * * * * *
19781567 GTGATACCAAAGTCAGCTCTATACCGTTCGATCCACGCCAAGCACCTCGAGGGAGGTAGGCAGGG
257 GTGGTATCAGAGCCAACCCTATATCGTTCGATCCACGCCAAGCACCTCGAGGGAGGTAGGCAGGG
* * * * *
19781632 TGGCCAGCCTCCGTGATGAAGACGTCACGAGGTTGGGTGGGGGATAA
322 TGGCCAGCCTCCGTGATGAGGGCGTCACGAGGTTGGGTGCGAGAGAA
* ** * * * *
19781679 TGTCACAGACCTAAGGAAGAGTCCTGAATCTCACATCGAACATAATAGTAGGGTTACAGGAGTAT
1 TGTCACGGACCTAAAAAAGAGTCCTGAATCCCACATCGAACATAATAGAAGGGTCACTGG-GTAT
* * * *
19781744 ATAAGGGTTCACATCACCTTCGCCTTATGAGGTACCTTTTGTAGGACAAAA-CTGTGAGGTTAGG
65 AAAAGGGTTCACACCACCTT-TCCTTATGAGGTACCTTTTGTAGGACAAAATC-GTGAGGTCAGG
* * * **
19781808 AGAGCCAGAGCGGATAATATCTCACAAGGGTGTGAACCGTGGCAGG-TAGACTGATCTGAGATAT
128 AGGGCCAAAGCGGATAATACCTCACAAGGGTGTGAACCGTGGC-GGTTAGACTGATCTGAGACGT
* * * * *
19781872 CGGATGAGTGAATGTTCAGGTCTCGGAGCCGCGTAGGTTCGAAGCTTAAGTCTCGACCCGTAACA
192 CGGAAGAGTGAATGTCCAGGTCTCGAAGCCGCGT-GGTTCAAAGCTTAAGTCTCGACCCGTGACA
* * * *
19781937 AGTGGTATCAGAGCCAATCCTATATTGTTCGATCTACGCCAAGCACCTCGAGGGAGGTAGGGTAG
256 AGTGGTATCAGAGCCAACCCTATATCGTTCGATCCACGCCAAGCACCTCGAGGGAGGTA-GGCAG
* *
19782002 GGTGGCCAGCCTCTGTGATGAGGGCGTCACGCGGTTGGGTGCGAGAGAA
320 GGTGGCCAGCCTCCGTGATGAGGGCGTCACGAGGTTGGGTGCGAGAGAA
* * * * *
19782051 TGTCACGGACTTAAAAAAAAGTCTTGAATCTCGCATCGAACATAATAGAAGGGTCACTGAGGTAT
1 TGTCACGGACCTAAAAAAGAGTCCTGAATCCCACATCGAACATAATAGAAGGGTCACTG-GGTAT
* * * * *
19782116 ATAAGGGTTCACACCACCTCTTTCTTGTGAGGTACCTTTTGTAGGATAAAATCGTGAGGTCAGGG
65 AAAAGGGTTCACACCACCT-TTCCTTATGAGGTACCTTTTGTAGGACAAAATCGTGAGGTCAGGA
* * * * ** * *
19782181 GGGCCAGAGCGGATAATACCTCATAAGGATGTGAACCGTGACAATTAGGA-TGATCCGAGACCTC
129 GGGCCAAAGCGGATAATACCTCACAAGGGTGTGAACCGTGGCGGTTA-GACTGATCTGAGACGTC
* * * * * * * *
19782245 GGATGGGTGAATACTCGA-GTCCCAAAGTCACACG-GGTTCAGAGCTTAAGTCTCGACCCGTGAC
193 GGAAGAGTGAAT-GTCCAGGTCTCGAAG-C-CGCGTGGTTCAAAGCTTAAGTCTCGACCCGTGAC
19782308 A
255 A
19782309 CTAGCACCAA
Statistics
Matches: 824, Mismatches: 152, Indels: 46
0.81 0.15 0.05
Matches are distributed among these distances:
369 8 0.01
370 401 0.49
371 153 0.19
372 251 0.30
373 8 0.01
374 3 0.00
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (368 bp):
TGTCACGGACCTAAAAAAGAGTCCTGAATCCCACATCGAACATAATAGAAGGGTCACTGGGTATA
AAAGGGTTCACACCACCTTTCCTTATGAGGTACCTTTTGTAGGACAAAATCGTGAGGTCAGGAGG
GCCAAAGCGGATAATACCTCACAAGGGTGTGAACCGTGGCGGTTAGACTGATCTGAGACGTCGGA
AGAGTGAATGTCCAGGTCTCGAAGCCGCGTGGTTCAAAGCTTAAGTCTCGACCCGTGACAAGTGG
TATCAGAGCCAACCCTATATCGTTCGATCCACGCCAAGCACCTCGAGGGAGGTAGGCAGGGTGGC
CAGCCTCCGTGATGAGGGCGTCACGAGGTTGGGTGCGAGAGAA
Found at i:19785323 original size:38 final size:42
Alignment explanation
Indices: 19785281--19785382 Score: 115
Period size: 41 Copynumber: 2.5 Consensus size: 42
19785271 AAAAAAAAAA
19785281 AAAAAAGACATTCACATTTGCATTC-ACA-T-C-TACATCAC
1 AAAAAAGACATTCACATTTGCATTCAACAGTACTTACATCAC
* * * * *
19785319 AAAAAAGACATTCGCATTTGTA-TCAATAGTACTTGCATCAT
1 AAAAAAGACATTCACATTTGCATTCAACAGTACTTACATCAC
*
19785360 AAAAAAGACATTCATATTTGCAT
1 AAAAAAGACATTCACATTTGCAT
19785383 CACTTGTGTT
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
37 2 0.04
38 22 0.43
39 1 0.02
40 1 0.02
41 25 0.49
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (42 bp):
AAAAAAGACATTCACATTTGCATTCAACAGTACTTACATCAC
Found at i:19785763 original size:18 final size:18
Alignment explanation
Indices: 19785740--19785774 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
19785730 TGCATCAAGA
*
19785740 ATTCGTATTGACATTTGC
1 ATTCGTATTAACATTTGC
19785758 ATTCGTATTAACATTTG
1 ATTCGTATTAACATTTG
19785775 TATTAACATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.46
Consensus pattern (18 bp):
ATTCGTATTAACATTTGC
Found at i:19786443 original size:34 final size:35
Alignment explanation
Indices: 19786378--19786449 Score: 110
Period size: 35 Copynumber: 2.1 Consensus size: 35
19786368 GGGAGAGCTA
19786378 ATTTTCAAACAAGATCTTAAAGTTTCAAAGCCTCT
1 ATTTTCAAACAAGATCTTAAAGTTTCAAAGCCTCT
* * *
19786413 ATTTTTAAATAAGATTTTAAA-TTTCAAAGCCTCT
1 ATTTTCAAACAAGATCTTAAAGTTTCAAAGCCTCT
19786447 ATT
1 ATT
19786450 AGGATGAGCT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
34 16 0.47
35 18 0.53
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.40
Consensus pattern (35 bp):
ATTTTCAAACAAGATCTTAAAGTTTCAAAGCCTCT
Found at i:19788356 original size:22 final size:22
Alignment explanation
Indices: 19788330--19788372 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
19788320 TGTATATTTA
*
19788330 TATTTGTATCCTTAAAATTAAG
1 TATTTGTATCCCTAAAATTAAG
19788352 TATTTGTATCCCTAAAATTAA
1 TATTTGTATCCCTAAAATTAA
19788373 AGATAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (22 bp):
TATTTGTATCCCTAAAATTAAG
Found at i:19790853 original size:178 final size:176
Alignment explanation
Indices: 19790518--19790855 Score: 496
Period size: 178 Copynumber: 1.9 Consensus size: 176
19790508 AAAAGTTTCA
* *
19790518 AATCCTAAACAAGCTAGTCCAAGAACTTGATCCTAACTCTGGAATGAGGTAACTACAATATTTGA
1 AATCCTAAACAAGCTAGTCCAAAAACTTGATCCTAACTCTGGAATGAGATAACTACAATATTTGA
* * *
19790583 CTCTCTTTTTCAAAATGAGCATGAATCTCCTAAAACTATAACTAGTGATTATGATCTGCTTATTG
66 CTCTCTTTTTCAAAATGAGCATGAATATCCTAAAACTATAACTAGTGATTATGATATGCCTATTG
* * *
19790648 CCATTTGGAAAGGAACTAAAAAATGTACTAGGCATCCATTATACCT
131 CCATTAGGAAAGAAACCAAAAAATGTACTAGGCATCCATTATACCT
* * * *
19790694 AATCCTTAACCAATGCTAGTCCAAAAACTTGATCCTAACTTTGGAATGAGATAACTACAGTTTTT
1 AATCC-TAAACAA-GCTAGTCCAAAAACTTGATCCTAACTCTGGAATGAGATAACTACAATATTT
* * *
19790759 TACTCTCTTTTTCAAAATGAGCATGAATATCTTAAAACTATAATTAGTGATTATGATATGCCTAT
64 GACTCTCTTTTTCAAAATGAGCATGAATATCCTAAAACTATAACTAGTGATTATGATATGCCTAT
* * *
19790824 TGTCATTAGGAAAGAAACCAGATAATGTACTA
129 TGCCATTAGGAAAGAAACCAAAAAATGTACTA
19790856 AACATCCTAT
Statistics
Matches: 142, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
176 5 0.04
177 6 0.04
178 131 0.92
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (176 bp):
AATCCTAAACAAGCTAGTCCAAAAACTTGATCCTAACTCTGGAATGAGATAACTACAATATTTGA
CTCTCTTTTTCAAAATGAGCATGAATATCCTAAAACTATAACTAGTGATTATGATATGCCTATTG
CCATTAGGAAAGAAACCAAAAAATGTACTAGGCATCCATTATACCT
Found at i:19792528 original size:22 final size:22
Alignment explanation
Indices: 19792497--19792538 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
19792487 ATATATTTAT
19792497 ATTTGCATCC-CTAGAATTAAGC
1 ATTTGCATCCTC-AGAATTAAGC
*
19792519 ATTTGTATCCTCAGAATTAA
1 ATTTGCATCCTCAGAATTAA
19792539 AGACAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (22 bp):
ATTTGCATCCTCAGAATTAAGC
Found at i:19796705 original size:22 final size:23
Alignment explanation
Indices: 19796679--19796730 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
19796669 TTTAGAAGTT
19796679 TATTTT-CAATATGAAAATTTTC
1 TATTTTACAATATGAAAATTTTC
*
19796701 TATTTTATAATATGAAAATTTTC
1 TATTTTACAATATGAAAATTTTC
19796724 TATTTTA
1 TATTTTA
19796731 TAATTATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 6 0.21
23 22 0.79
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.54
Consensus pattern (23 bp):
TATTTTACAATATGAAAATTTTC
Found at i:19796714 original size:23 final size:23
Alignment explanation
Indices: 19796686--19796734 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
19796676 GTTTATTTTC
19796686 AATATGAAAATTTTCTATTTTAT
1 AATATGAAAATTTTCTATTTTAT
19796709 AATATGAAAATTTTCTATTTTAT
1 AATATGAAAATTTTCTATTTTAT
19796732 AAT
1 AAT
19796735 TATTTTCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (23 bp):
AATATGAAAATTTTCTATTTTAT
Found at i:19796741 original size:18 final size:20
Alignment explanation
Indices: 19796694--19796742 Score: 57
Period size: 23 Copynumber: 2.4 Consensus size: 20
19796684 TCAATATGAA
19796694 AATTTTCTATTTTATAATAT
1 AATTTTCTATTTTATAATAT
19796714 GAAAATTTTCTATTTTATAAT-T
1 ---AATTTTCTATTTTATAATAT
19796736 -ATTTTCT
1 AATTTTCT
19796743 TTAATTTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 7 0.27
22 1 0.04
23 18 0.69
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (20 bp):
AATTTTCTATTTTATAATAT
Found at i:19805310 original size:737 final size:737
Alignment explanation
Indices: 19803892--19805373 Score: 2955
Period size: 737 Copynumber: 2.0 Consensus size: 737
19803882 GGGGAATTAA
19803892 AACCATGGGTTTGTATACAACCTTGATCTGTCCATAGATTGGGGATCTTGAACATAGGAAAGTCA
1 AACC-TGGGTTTGTATACAACCTTGATCTGTCCATAGATTGGGGATCTTGAACATAGGAAAGTCA
19803957 AAGAACTTTTAAAAGCTAAAATGAAAGTGTTTGAAGTGGGGCTGGCAAAAGTGAAAAAGTTCAAC
65 AAGAACTTTTAAAAGCTAAAATGAAAGTGTTTGAAGTGGGGCTGGCAAAAGTGAAAAAGTTCAAC
19804022 GTTGAGACTTTCTTAACCTTTTGGAAGTGGAGCTGGCTAAACATTAAAGCTATGTCTGCATTTTG
130 GTTGAGACTTTCTTAACCTTTTGGAAGTGGAGCTGGCTAAACATTAAAGCTATGTCTGCATTTTG
19804087 TCTTCTTGTGTAATCAAACCTGGTTTTTTTTAGCAGTCTTTTCTGGTTTGGGGTTAATAATATCC
195 TCTTCTTGTGTAATCAAACCTGGTTTTTTTTAGCAGTCTTTTCTGGTTTGGGGTTAATAATATCC
19804152 TTTGAACCAAAAACCTAACCAGTTTCCTGTCAAACTGGCCGCTCTAGTTTGGTTTCTAAAACACT
260 TTTGAACCAAAAACCTAACCAGTTTCCTGTCAAACTGGCCGCTCTAGTTTGGTTTCTAAAACACT
19804217 TTTTCAAGTTCACACTAAATTTCTAGTCTTAAGTAGTCAAGCTTCAATTAATGCTTTACACATGT
325 TTTTCAAGTTCACACTAAATTTCTAGTCTTAAGTAGTCAAGCTTCAATTAATGCTTTACACATGT
19804282 CATTTTTCTATTCAAATTTCAAATTCCAAAGTAATTAAAGTATGGAAGGTGAGATTTCATCCTTT
390 CATTTTTCTATTCAAATTTCAAATTCCAAAGTAATTAAAGTATGGAAGGTGAGATTTCATCCTTT
19804347 ATTACTTGGGAAATGTTAGTGAGCCCGTACTGGGATTTGTTAAGGTGATGTATTGTCTCTCCTTG
455 ATTACTTGGGAAATGTTAGTGAGCCCGTACTGGGATTTGTTAAGGTGATGTATTGTCTCTCCTTG
19804412 AATTTGGTGAGAATAGCGCATTAAATTAAAAAAAAAAAGCCCTAAAATGGAAATTTAACTAACTT
520 AATTTGGTGAGAATAGCGCATTAAATTAAAAAAAAAAAGCCCTAAAATGGAAATTTAACTAACTT
19804477 TAACCTGTGTCTATCTGGCTATTCCATTAACTGGACCGTTGTTTCTTTCCACCTGTGAGACCCGC
585 TAACCTGTGTCTATCTGGCTATTCCATTAACTGGACCGTTGTTTCTTTCCACCTGTGAGACCCGC
19804542 TATTCTACATTTGAAAAACAAAATCACCATTAAAGTGTAAAGATGAGAAAAGATTACCATAGAAA
650 TATTCTACATTTGAAAAACAAAATCACCATTAAAGTGTAAAGATGAGAAAAGATTACCATAGAAA
19804607 AGAAAGTGTTGAACTGCCTTTCC
715 AGAAAGTGTTGAACTGCCTTTCC
19804630 AACCTGGGTTTGTATACAACCTTGATCTGTCCATAGATTGGGGATCTTGAACATAGGAAAGTCAA
1 AACCTGGGTTTGTATACAACCTTGATCTGTCCATAGATTGGGGATCTTGAACATAGGAAAGTCAA
19804695 AGAACTTTTAAAAGCTAAAATGAAAGTGTTTGAAGTGGGGCTGGCAAAAGTGAAAAAGTTCAACG
66 AGAACTTTTAAAAGCTAAAATGAAAGTGTTTGAAGTGGGGCTGGCAAAAGTGAAAAAGTTCAACG
19804760 TTGAGACTTTCTTAACCTTTTGGAAGTGGAGCTGGCTAAACATTAAAGCTATGTCTGCATTTTGT
131 TTGAGACTTTCTTAACCTTTTGGAAGTGGAGCTGGCTAAACATTAAAGCTATGTCTGCATTTTGT
19804825 CTTCTTGTGTAATCAAACCTGGTTTTTTTTAGCAGTCTTTTCTGGTTTGGGGTTAATAATATCCT
196 CTTCTTGTGTAATCAAACCTGGTTTTTTTTAGCAGTCTTTTCTGGTTTGGGGTTAATAATATCCT
19804890 TTGAACCAAAAACCTAACCAGTTTCCTGTCAAACTGGCCGCTCTAGTTTGGTTTCTAAAACACTT
261 TTGAACCAAAAACCTAACCAGTTTCCTGTCAAACTGGCCGCTCTAGTTTGGTTTCTAAAACACTT
19804955 TTTCAAGTTCACACTAAATTTCTAGTCTTAAGTAGTCAAGCTTCAATTAATGCTTTACACATGTC
326 TTTCAAGTTCACACTAAATTTCTAGTCTTAAGTAGTCAAGCTTCAATTAATGCTTTACACATGTC
19805020 ATTTTTCTATTCAAATTTCAAATTCCAAAGTAATTAAAGTATGGAAGGTGAGATTTCATCCTTTA
391 ATTTTTCTATTCAAATTTCAAATTCCAAAGTAATTAAAGTATGGAAGGTGAGATTTCATCCTTTA
19805085 TTACTTGGGAAATGTTAGTGAGCCCGTACTGGGATTTGTTAAGGTGATGTATTGTCTCTCCTTGA
456 TTACTTGGGAAATGTTAGTGAGCCCGTACTGGGATTTGTTAAGGTGATGTATTGTCTCTCCTTGA
19805150 ATTTGGTGAGAATAGCGCATTAAATTAAAAAAAAAAAGCCCTAAAATGGAAATTTAACTAACTTT
521 ATTTGGTGAGAATAGCGCATTAAATTAAAAAAAAAAAGCCCTAAAATGGAAATTTAACTAACTTT
19805215 AACCTGTGTCTATCTGGCTATTCCATTAACTGGACCGTTGTTTCTTTCCACCTGTGAGACCCGCT
586 AACCTGTGTCTATCTGGCTATTCCATTAACTGGACCGTTGTTTCTTTCCACCTGTGAGACCCGCT
19805280 ATTCTACATTTGAAAAACAAAATCACCATTAAAGTGTAAAGATGAGAAAAGATTACCATAGAAAA
651 ATTCTACATTTGAAAAACAAAATCACCATTAAAGTGTAAAGATGAGAAAAGATTACCATAGAAAA
19805345 GAAAGTGTTGAACTGCCTTTCC
716 GAAAGTGTTGAACTGCCTTTCC
19805367 AACCTGG
1 AACCTGG
19805374 ACCTGCCTCG
Statistics
Matches: 744, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
737 740 0.99
738 4 0.01
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (737 bp):
AACCTGGGTTTGTATACAACCTTGATCTGTCCATAGATTGGGGATCTTGAACATAGGAAAGTCAA
AGAACTTTTAAAAGCTAAAATGAAAGTGTTTGAAGTGGGGCTGGCAAAAGTGAAAAAGTTCAACG
TTGAGACTTTCTTAACCTTTTGGAAGTGGAGCTGGCTAAACATTAAAGCTATGTCTGCATTTTGT
CTTCTTGTGTAATCAAACCTGGTTTTTTTTAGCAGTCTTTTCTGGTTTGGGGTTAATAATATCCT
TTGAACCAAAAACCTAACCAGTTTCCTGTCAAACTGGCCGCTCTAGTTTGGTTTCTAAAACACTT
TTTCAAGTTCACACTAAATTTCTAGTCTTAAGTAGTCAAGCTTCAATTAATGCTTTACACATGTC
ATTTTTCTATTCAAATTTCAAATTCCAAAGTAATTAAAGTATGGAAGGTGAGATTTCATCCTTTA
TTACTTGGGAAATGTTAGTGAGCCCGTACTGGGATTTGTTAAGGTGATGTATTGTCTCTCCTTGA
ATTTGGTGAGAATAGCGCATTAAATTAAAAAAAAAAAGCCCTAAAATGGAAATTTAACTAACTTT
AACCTGTGTCTATCTGGCTATTCCATTAACTGGACCGTTGTTTCTTTCCACCTGTGAGACCCGCT
ATTCTACATTTGAAAAACAAAATCACCATTAAAGTGTAAAGATGAGAAAAGATTACCATAGAAAA
GAAAGTGTTGAACTGCCTTTCC
Found at i:19808250 original size:25 final size:26
Alignment explanation
Indices: 19808204--19808256 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
19808194 CATTATTTTG
*
19808204 TTTTAATATAATTAAATATTTAA-AA
1 TTTTAAAATAATTAAATATTTAATAA
*
19808229 TTTTAAAAT-ATTAAAATTTTTAATAA
1 TTTTAAAATAATT-AAATATTTAATAA
19808255 TT
1 TT
19808257 ACATAATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 3 0.12
25 17 0.71
26 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (26 bp):
TTTTAAAATAATTAAATATTTAATAA
Found at i:19808251 original size:17 final size:17
Alignment explanation
Indices: 19808217--19808248 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
19808207 TAATATAATT
19808217 AAATATTTAAAATTTTA
1 AAATATTTAAAATTTTA
19808234 AAATA-TTAAAATTTT
1 AAATATTTAAAATTTT
19808249 TAATAATTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AAATATTTAAAATTTTA
Found at i:19809090 original size:20 final size:19
Alignment explanation
Indices: 19809050--19809090 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
19809040 AAAAGAAAGT
* *
19809050 TAAAAAAATTTTATTTTTA
1 TAAAAAAATTTTATATCTA
19809069 TAAAAAAATTATTATATCTA
1 TAAAAAAATT-TTATATCTA
19809089 TA
1 TA
19809091 TTTTTATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
TAAAAAAATTTTATATCTA
Found at i:19809268 original size:17 final size:17
Alignment explanation
Indices: 19809246--19809296 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
19809236 AATAAATTAA
19809246 AAAATTAAATTAAATAC
1 AAAATTAAATTAAATAC
19809263 AAAATTAAATGTAAAT-C
1 AAAATTAAAT-TAAATAC
19809280 AATAATT-AATT-AATAC
1 AA-AATTAAATTAAATAC
19809296 A
1 A
19809297 TCTTATCGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
15 3 0.10
16 3 0.10
17 16 0.52
18 9 0.29
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.31
Consensus pattern (17 bp):
AAAATTAAATTAAATAC
Found at i:19809423 original size:18 final size:17
Alignment explanation
Indices: 19809393--19809426 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
19809383 TGTTACTTTA
19809393 TAAAAAAAAATTATAAC
1 TAAAAAAAAATTATAAC
*
19809410 TAAACAAAATATTATAA
1 TAAA-AAAAAATTATAA
19809427 TGAATTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAAAAAAAATTATAAC
Found at i:19824710 original size:20 final size:21
Alignment explanation
Indices: 19824673--19824725 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
19824663 ACCCGAAATT
19824673 AATA-AAAATATTATTTTTTA
1 AATATAAAATATTATTTTTTA
19824693 AATATAAAATATTATTTTTTA
1 AATATAAAATATTATTTTTTA
19824714 AATAT-AAATATT
1 AATATAAAATATT
19824726 TAAAAATATC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 11 0.34
21 21 0.66
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATATAAAATATTATTTTTTA
Found at i:19824734 original size:30 final size:30
Alignment explanation
Indices: 19824698--19824754 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
19824688 TTTTAAATAT
* * *
19824698 AAAATATTATTTTTTAAATATAAATATTTA
1 AAAATATCATTATATAAATATAAATATTTA
*
19824728 AAAATATCATTATATAAATATACATAT
1 AAAATATCATTATATAAATATAAATAT
19824755 AAATAATTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (30 bp):
AAAATATCATTATATAAATATAAATATTTA
Found at i:19825612 original size:23 final size:21
Alignment explanation
Indices: 19825580--19825622 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
19825570 GCAATAACAT
19825580 TTTTTAATTTAGTTATTTTTATG
1 TTTTTAATTT-GTT-TTTTTATG
*
19825603 TTTTTGATTTGTTTTTTTAT
1 TTTTTAATTTGTTTTTTTAT
19825623 TGTGTGATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 3 0.16
23 9 0.47
ACGTcount: A:0.16, C:0.00, G:0.09, T:0.74
Consensus pattern (21 bp):
TTTTTAATTTGTTTTTTTATG
Found at i:19834126 original size:13 final size:13
Alignment explanation
Indices: 19834092--19834193 Score: 63
Period size: 13 Copynumber: 7.9 Consensus size: 13
19834082 TGCAAAATCC
19834092 TAAACCCTAAAC-
1 TAAACCCTAAACT
*
19834104 T-AACCATAAACT
1 TAAACCCTAAACT
19834116 TAAACCCTAAAC-
1 TAAACCCTAAACT
*
19834128 AAAATCCC-AAA-T
1 TAAA-CCCTAAACT
*
19834140 CTAAAGCCTCAAACT
1 -TAAACCCT-AAACT
* * *
19834155 AAAACCTTAAATCC
1 TAAACCCTAAA-CT
19834169 TAAA-CCTAAACT
1 TAAACCCTAAACT
19834181 CTAAACCCTAAAC
1 -TAAACCCTAAAC
19834194 CAAACCTTAA
Statistics
Matches: 67, Mismatches: 12, Indels: 20
0.68 0.12 0.20
Matches are distributed among these distances:
11 9 0.13
12 11 0.16
13 27 0.40
14 19 0.28
15 1 0.01
ACGTcount: A:0.49, C:0.30, G:0.01, T:0.20
Consensus pattern (13 bp):
TAAACCCTAAACT
Found at i:19834184 original size:7 final size:6
Alignment explanation
Indices: 19834090--19834224 Score: 66
Period size: 7 Copynumber: 21.2 Consensus size: 6
19834080 CATGCAAAAT
* * *
19834090 CCTAAA CCCTAAA -CT-AA CCATAAA CTTAAA CCCTAAA -CAAAA TCCCAAA
1 CCTAAA -CCTAAA CCTAAA CC-TAAA CCTAAA -CCTAAA CCTAAA -CCTAAA
*
19834139 TCTAAA GCCTCAAA -CTAAAA CCTTAAA TCCTAAA CCTAAA CTCTAAA
1 CCTAAA -CCT-AAA CCT-AAA CC-TAAA -CCTAAA CCTAAA C-CTAAA
19834186 CCCTAAA CC-AAA CCTTAAA CCCTAAA -CTAAA CCTCAAA C
1 -CCTAAA CCTAAA CC-TAAA -CCTAAA CCTAAA CCT-AAA C
19834225 TATCATGCAA
Statistics
Matches: 102, Mismatches: 8, Indels: 36
0.70 0.05 0.25
Matches are distributed among these distances:
4 2 0.02
5 17 0.17
6 25 0.25
7 49 0.48
8 9 0.09
ACGTcount: A:0.48, C:0.33, G:0.01, T:0.19
Consensus pattern (6 bp):
CCTAAA
Found at i:19834204 original size:19 final size:19
Alignment explanation
Indices: 19834156--19834224 Score: 86
Period size: 19 Copynumber: 3.6 Consensus size: 19
19834146 CCTCAAACTA
*
19834156 AAACCTTAAATCCTAAACC
1 AAACCTTAAACCCTAAACC
19834175 TAAA-CTCTAAACCCTAAACC
1 -AAACCT-TAAACCCTAAACC
*
19834195 AAACCTTAAACCCTAAACT
1 AAACCTTAAACCCTAAACC
*
19834214 AAACCTCAAAC
1 AAACCTTAAAC
19834225 TATCATGCAA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
19 27 0.61
20 17 0.39
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.19
Consensus pattern (19 bp):
AAACCTTAAACCCTAAACC
Found at i:19834297 original size:26 final size:26
Alignment explanation
Indices: 19834214--19834287 Score: 103
Period size: 26 Copynumber: 2.8 Consensus size: 26
19834204 ACCCTAAACT
* * *
19834214 AAACCTCAAACTATCATGCAATTCCA
1 AAACCCCAAACCATCATGCAAATCCA
* *
19834240 AATCTCCAAACCATCATGCAAATCCA
1 AAACCCCAAACCATCATGCAAATCCA
19834266 AAACCCCAAACCATCATGCAAA
1 AAACCCCAAACCATCATGCAAA
19834288 CCTTAAACCC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.45, C:0.34, G:0.04, T:0.18
Consensus pattern (26 bp):
AAACCCCAAACCATCATGCAAATCCA
Found at i:19834340 original size:12 final size:13
Alignment explanation
Indices: 19834307--19834351 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
19834297 CTAAGCCACC
*
19834307 ATCTAAACTTTAA
1 ATCTAAACTCTAA
*
19834320 ACCTAAACTCTAA
1 ATCTAAACTCTAA
*
19834333 AT-TAAACTTTAA
1 ATCTAAACTCTAA
19834345 ATCTAAA
1 ATCTAAA
19834352 ACAAACCCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
12 11 0.41
13 16 0.59
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (13 bp):
ATCTAAACTCTAA
Found at i:19838075 original size:17 final size:18
Alignment explanation
Indices: 19838053--19838086 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
19838043 AAAGATGGAA
*
19838053 ATAAAGAGA-AAATTGAG
1 ATAAAGAAATAAATTGAG
19838070 ATAAAGAAATAAATTGA
1 ATAAAGAAATAAATTGA
19838087 TATTTTCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.62, C:0.00, G:0.18, T:0.21
Consensus pattern (18 bp):
ATAAAGAAATAAATTGAG
Found at i:19844881 original size:29 final size:29
Alignment explanation
Indices: 19844837--19844892 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
19844827 ATAATTAATC
* *
19844837 AATATGTTGTAACAATCTTTTTCCCAATT
1 AATAAGTTGTAACAATATTTTTCCCAATT
*
19844866 AATAAGTTGTACCAATATTTTTCCCAA
1 AATAAGTTGTAACAATATTTTTCCCAA
19844893 GAAAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.07, T:0.41
Consensus pattern (29 bp):
AATAAGTTGTAACAATATTTTTCCCAATT
Found at i:19854968 original size:18 final size:17
Alignment explanation
Indices: 19854933--19854981 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
19854923 GATTTGAAAA
*
19854933 TTTTTAATTATTAATTTT
1 TTTTTAATT-TGAATTTT
*
19854951 CTTTTAATTTGAATTTT
1 TTTTTAATTTGAATTTT
* *
19854968 TATTTGATTTGAAT
1 TTTTTAATTTGAAT
19854982 GTATTAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.27, C:0.02, G:0.06, T:0.65
Consensus pattern (17 bp):
TTTTTAATTTGAATTTT
Found at i:19855519 original size:34 final size:33
Alignment explanation
Indices: 19855454--19855525 Score: 83
Period size: 34 Copynumber: 2.2 Consensus size: 33
19855444 TTCATATTCG
** *
19855454 AAAAATTTTATAATTTTTTGAAAATCTA-TTTT
1 AAAAATTTTATAATTTACTGAAAATCGATTTTT
*
19855486 AAAAATGTTATATAATTTACTGAAAATGGATTTTT
1 AAAAAT-TT-TATAATTTACTGAAAATCGATTTTT
19855521 AAAAA
1 AAAAA
19855526 GGTATAAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
32 6 0.18
33 2 0.06
34 16 0.48
35 9 0.27
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (33 bp):
AAAAATTTTATAATTTACTGAAAATCGATTTTT
Found at i:19862171 original size:32 final size:33
Alignment explanation
Indices: 19862124--19862196 Score: 98
Period size: 32 Copynumber: 2.2 Consensus size: 33
19862114 GAAGGGTTTT
19862124 TTTTTTTAACAAATAAAATCTTAGG-T-GCTTCA
1 TTTTTTTAACAAATAAAATCTT-GGATCGCTTCA
19862156 TTTTTTT-ACAGAATAAAATCTTGGATCGCTTCA
1 TTTTTTTAACA-AATAAAATCTTGGATCGCTTCA
19862189 TTTCTTTT
1 TTT-TTTT
19862197 TTTTTTTGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
31 5 0.14
32 19 0.51
33 9 0.24
34 4 0.11
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.48
Consensus pattern (33 bp):
TTTTTTTAACAAATAAAATCTTGGATCGCTTCA
Found at i:19864696 original size:22 final size:23
Alignment explanation
Indices: 19864649--19864690 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
19864639 TTATATATAT
*
19864649 TTTTAATTTTTTAGAACATTAGA
1 TTTTAATTTTTTAGAAAATTAGA
19864672 TTTTAA-TTTTTA-AAAATTA
1 TTTTAATTTTTTAGAAAATTA
19864691 ATATTTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 6 0.33
23 6 0.33
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (23 bp):
TTTTAATTTTTTAGAAAATTAGA
Found at i:19864760 original size:18 final size:17
Alignment explanation
Indices: 19864739--19864772 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
19864729 AAAATGTTAG
19864739 ATTTGATATTTTAAAAAT
1 ATTTGA-ATTTTAAAAAT
*
19864757 ATTTTAATTTTAAAAA
1 ATTTGAATTTTAAAAA
19864773 ATCATATTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
ATTTGAATTTTAAAAAT
Found at i:19864958 original size:21 final size:20
Alignment explanation
Indices: 19864937--19865003 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
19864927 TTATATTTTC
19864937 TATAAAAATATAGAAAATTT
1 TATAAAAATATAGAAAATTT
* *
19864957 CTA-AAAACATA-AAAAAAATT
1 -TATAAAA-ATATAGAAAATTT
19864977 T-T-AAAATATAGAAAATTT
1 TATAAAAATATAGAAAATTT
*
19864995 TGTAAAAAT
1 TATAAAAAT
19865004 TCTAAAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 11
0.71 0.08 0.21
Matches are distributed among these distances:
17 3 0.08
18 11 0.30
19 2 0.05
20 16 0.43
21 5 0.14
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.31
Consensus pattern (20 bp):
TATAAAAATATAGAAAATTT
Found at i:19864963 original size:19 final size:18
Alignment explanation
Indices: 19864939--19864995 Score: 62
Period size: 17 Copynumber: 3.1 Consensus size: 18
19864929 ATATTTTCTA
19864939 TAAAAATATAGAAAATTT
1 TAAAAATATAGAAAATTT
* *
19864957 CTAAAAACATAAAAAAAATTT
1 -T-AAAA-ATATAGAAAATTT
19864978 T-AAAATATAGAAAATTT
1 TAAAAATATAGAAAATTT
19864995 T
1 T
19864996 GTAAAAATTC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
17 12 0.38
18 3 0.09
19 1 0.03
20 5 0.16
21 11 0.34
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.32
Consensus pattern (18 bp):
TAAAAATATAGAAAATTT
Found at i:19865000 original size:19 final size:18
Alignment explanation
Indices: 19864941--19865001 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 18
19864931 ATTTTCTATA
*
19864941 AAAATATAGAAAATTTCTA
1 AAAATATAGAAAATTT-TT
* * *
19864960 AAAACATAAAAAAAATTTT
1 AAAATAT-AGAAAATTTTT
19864979 AAAATATAGAAAATTTTGT
1 AAAATATAGAAAATTTT-T
19864998 AAAA
1 AAAA
19865002 ATTCTAAAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
18 8 0.24
19 18 0.55
20 7 0.21
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (18 bp):
AAAATATAGAAAATTTTT
Found at i:19866068 original size:23 final size:22
Alignment explanation
Indices: 19866011--19866077 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 22
19866001 GTTGAGTAAT
* *
19866011 TAATTATTACAT-ATCAAATTA
1 TAATTATTAAATAATCAAATAA
19866032 TAATTATTAAATAATCAAATAA
1 TAATTATTAAATAATCAAATAA
*
19866054 TAACTTA-TAATATAATTAAATAA
1 TAA-TTATTAA-ATAATCAAATAA
19866077 T
1 T
19866078 TAAATTTACA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
21 11 0.28
22 14 0.35
23 15 0.38
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (22 bp):
TAATTATTAAATAATCAAATAA
Found at i:19874609 original size:20 final size:21
Alignment explanation
Indices: 19874571--19874609 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
19874561 CATCCACATT
19874571 TGATAAAAAAAATTTAATTAG
1 TGATAAAAAAAATTTAATTAG
*
19874592 TGATAAACAAAA-TTAATT
1 TGATAAAAAAAATTTAATT
19874610 TTTATATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.33
Consensus pattern (21 bp):
TGATAAAAAAAATTTAATTAG
Found at i:19874668 original size:38 final size:42
Alignment explanation
Indices: 19874644--19874724 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
19874634 TAAATATTTA
*
19874644 TATTTGAATATAAAT-AATTATTATATATCAAATGATCATAAT
1 TATTTAAATATAAATAAATTATTATATATCAAATGAT-ATAAT
* *
19874686 TATTTAAATATAAATAAATTATTATTTATAAAAATGATA
1 TATTTAAATATAAATAAATTATTATATAT-CAAATGATA
19874725 ATTATACAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
42 14 0.41
43 13 0.38
44 7 0.21
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (42 bp):
TATTTAAATATAAATAAATTATTATATATCAAATGATATAAT
Found at i:19876541 original size:20 final size:22
Alignment explanation
Indices: 19876504--19876543 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
19876494 TACTTTTTTA
*
19876504 TAAAAAATTTTAGAATTTTATT
1 TAAAAAATTATAGAATTTTATT
19876526 TAAAAAATTAT-G-ATTTTA
1 TAAAAAATTATAGAATTTTA
19876544 AATAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 1 0.06
22 10 0.59
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (22 bp):
TAAAAAATTATAGAATTTTATT
Found at i:19877324 original size:19 final size:19
Alignment explanation
Indices: 19877287--19877330 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
19877277 ATTATACATA
*
19877287 TTTTATTTTTTAATTAATT
1 TTTTATTTTTTAATAAATT
19877306 TTTTCATTTTTTAA-AAATT
1 TTTT-ATTTTTTAATAAATT
*
19877325 ATTTAT
1 TTTTAT
19877331 AATTAACTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 11 0.50
20 9 0.41
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTATTTTTTAATAAATT
Found at i:19877355 original size:21 final size:23
Alignment explanation
Indices: 19877315--19877356 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
19877305 TTTTTCATTT
*
19877315 TTTAAAAATTATTTATAATTAAC
1 TTTAAAAAATATTTATAATTAAC
19877338 TTTAAAAAAT-TTTA-AATTA
1 TTTAAAAAATATTTATAATTA
19877357 GGGTTTCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 4 0.22
23 9 0.50
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
TTTAAAAAATATTTATAATTAAC
Found at i:19878475 original size:21 final size:20
Alignment explanation
Indices: 19878437--19878485 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
19878427 GAACCATTTT
*
19878437 AAAAAGTTAAAAATTTAAATG
1 AAAAAGTTAAAAAGTTAAA-G
* *
19878458 AAAAAGTTGATAAGTTAAAG
1 AAAAAGTTAAAAAGTTAAAG
19878478 AACAAAGT
1 AA-AAAGT
19878486 ACCATAATCC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 3 0.12
21 21 0.88
ACGTcount: A:0.59, C:0.02, G:0.14, T:0.24
Consensus pattern (20 bp):
AAAAAGTTAAAAAGTTAAAG
Found at i:19879943 original size:44 final size:44
Alignment explanation
Indices: 19879892--19879982 Score: 182
Period size: 44 Copynumber: 2.1 Consensus size: 44
19879882 GACTAAAGAG
19879892 TTAGATTGATAATATAACTTGTATGAAGAGCAAAAGAAATCTAT
1 TTAGATTGATAATATAACTTGTATGAAGAGCAAAAGAAATCTAT
19879936 TTAGATTGATAATATAACTTGTATGAAGAGCAAAAGAAATCTAT
1 TTAGATTGATAATATAACTTGTATGAAGAGCAAAAGAAATCTAT
19879980 TTA
1 TTA
19879983 TATAGGTGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.45, C:0.07, G:0.15, T:0.33
Consensus pattern (44 bp):
TTAGATTGATAATATAACTTGTATGAAGAGCAAAAGAAATCTAT
Found at i:19886952 original size:34 final size:35
Alignment explanation
Indices: 19886908--19886981 Score: 107
Period size: 34 Copynumber: 2.1 Consensus size: 35
19886898 TTATTTACGA
*
19886908 AAAATCTCATTTTCGAAAATATAACATGAA-TTTTG
1 AAAATCTCATTTTCAAAAATATAACAT-AATTTTTG
*
19886943 AAAAT-TCATTTTCAAAAATATATCATAATTTTTG
1 AAAATCTCATTTTCAAAAATATAACATAATTTTTG
19886977 AAAAT
1 AAAAT
19886982 AAATTTTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
33 2 0.06
34 29 0.81
35 5 0.14
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.39
Consensus pattern (35 bp):
AAAATCTCATTTTCAAAAATATAACATAATTTTTG
Found at i:19886988 original size:34 final size:34
Alignment explanation
Indices: 19886916--19886995 Score: 99
Period size: 34 Copynumber: 2.4 Consensus size: 34
19886906 GAAAAATCTC
* **
19886916 ATTTTCGAAAATATAACATGAATTTTGAAAATTC
1 ATTTTCAAAAATATAACATGAATTTTGAAAATAA
*
19886950 ATTTTCAAAAATATATCAT-AATTTTTGAAAATAA
1 ATTTTCAAAAATATAACATGAA-TTTTGAAAATAA
*
19886984 ATTTTTAAAAAT
1 ATTTTCAAAAAT
19886996 TATGCTATAA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
33 2 0.05
34 38 0.95
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.41
Consensus pattern (34 bp):
ATTTTCAAAAATATAACATGAATTTTGAAAATAA
Found at i:19887106 original size:20 final size:20
Alignment explanation
Indices: 19887068--19887107 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
19887058 GGTATATGAG
*
19887068 AAAGAAGGACGAAAAAGAAA
1 AAAGAAGGACAAAAAAGAAA
19887088 AAAGAAGGA-AAAAAGAGAAA
1 AAAGAAGGACAAAAA-AGAAA
19887108 TAACAAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.72, C:0.03, G:0.25, T:0.00
Consensus pattern (20 bp):
AAAGAAGGACAAAAAAGAAA
Found at i:19893446 original size:10 final size:10
Alignment explanation
Indices: 19893417--19893446 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
19893407 AAATTTTTAT
*
19893417 TATATATATA
1 TATATATATG
19893427 TATATATATG
1 TATATATATG
19893437 TATATATATG
1 TATATATATG
19893447 AATTGGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (10 bp):
TATATATATG
Found at i:19894372 original size:15 final size:15
Alignment explanation
Indices: 19894343--19894391 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
19894333 TATTTTCAAG
* *
19894343 ATAATAACAATAATA
1 ATAACAACAACAATA
*
19894358 ATAGCAACAACAATA
1 ATAACAACAACAATA
*
19894373 ACAACAACAACAATA
1 ATAACAACAACAATA
19894388 ATAA
1 ATAA
19894392 TAAAAACTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.65, C:0.16, G:0.02, T:0.16
Consensus pattern (15 bp):
ATAACAACAACAATA
Found at i:19898579 original size:50 final size:50
Alignment explanation
Indices: 19898482--19898582 Score: 148
Period size: 50 Copynumber: 2.0 Consensus size: 50
19898472 GCTTCCGGCG
* *
19898482 GCCTCATATTGGAGACCCCACCAAGAGAAACACATAACTAGCTTGAAGCA
1 GCCTCATATTGGAGACCCCACCAAGAGAAACACATAACTAACCTGAAGCA
* * * *
19898532 GCCTTATATTGGAGACCCCACCAAGAGAGACACATGAGTAACCTGAAGCA
1 GCCTCATATTGGAGACCCCACCAAGAGAAACACATAACTAACCTGAAGCA
19898582 G
1 G
19898583 TAACGCGTTC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.37, C:0.27, G:0.21, T:0.16
Consensus pattern (50 bp):
GCCTCATATTGGAGACCCCACCAAGAGAAACACATAACTAACCTGAAGCA
Found at i:19905011 original size:61 final size:61
Alignment explanation
Indices: 19904914--19905109 Score: 200
Period size: 62 Copynumber: 3.2 Consensus size: 61
19904904 GCAGGAAAGT
* * * * *
19904914 GATTATTGAAGGCGTTTTTGGCTAAAAACTCCTTCAATAATCCTCTATAATTTTTTTTTTA-G
1 GATTATTGAAGGCATTTTT-GCAAAAAACGCCTTCAATAATCCTCT-TAATTTTTTTATGAGG
* * * * *
19904976 GATTATTTAAGGTATTTTTGCAAAAAACGCCTTCAATAATTCTTTTCA-TTTTTTATGAGGG
1 GATTATTGAAGGCATTTTTGCAAAAAACGCCTTCAATAATCCTCTTAATTTTTTTATGA-GG
* * * *
19905037 GATTATTGAAGGCATTTTAGACAAAAAATGCCTTCAATAATCCCCTTCAA-TTTTTTATAAGG
1 GATTATTGAAGGCATTTTTG-CAAAAAACGCCTTCAATAATCCTCTT-AATTTTTTTATGAGG
19905099 GATTATTGAAG
1 GATTATTGAAG
19905110 TTTTTTTGTC
Statistics
Matches: 111, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
59 8 0.07
60 2 0.02
61 40 0.36
62 51 0.46
63 10 0.09
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.41
Consensus pattern (61 bp):
GATTATTGAAGGCATTTTTGCAAAAAACGCCTTCAATAATCCTCTTAATTTTTTTATGAGG
Found at i:19906881 original size:3 final size:3
Alignment explanation
Indices: 19906873--19906919 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
19906863 TTTTCGATTC
19906873 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
19906920 TTGTTCAAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:19907422 original size:19 final size:19
Alignment explanation
Indices: 19907398--19907443 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
19907388 GGCGAAAATA
*
19907398 AAACCCTAGGTAGAACCCT-
1 AAACCCTAGGTA-AAACCTG
19907417 AAACCCTAGGTAAAACCTG
1 AAACCCTAGGTAAAACCTG
19907436 AAACCCTA
1 AAACCCTA
19907444 AAATACAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 5 0.20
19 20 0.80
ACGTcount: A:0.41, C:0.30, G:0.13, T:0.15
Consensus pattern (19 bp):
AAACCCTAGGTAAAACCTG
Found at i:19907822 original size:34 final size:34
Alignment explanation
Indices: 19907769--19907837 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
19907759 AACAGCGCTT
*
19907769 TTTGTAAAATGCCGCTATATTAGCAGCATTTGTA
1 TTTGAAAAATGCCGCTATATTAGCAGCATTTGTA
* * * *
19907803 TTTGAAAAATGTCGTTATATTAGTAGCGTTTGTA
1 TTTGAAAAATGCCGCTATATTAGCAGCATTTGTA
19907837 T
1 T
19907838 CTAAAAACGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (34 bp):
TTTGAAAAATGCCGCTATATTAGCAGCATTTGTA
Found at i:19917019 original size:40 final size:40
Alignment explanation
Indices: 19916975--19917065 Score: 182
Period size: 40 Copynumber: 2.3 Consensus size: 40
19916965 GATGTTATTT
19916975 TGCTGAATGGTATTGTATGATATTGGTATACTGAATCATA
1 TGCTGAATGGTATTGTATGATATTGGTATACTGAATCATA
19917015 TGCTGAATGGTATTGTATGATATTGGTATACTGAATCATA
1 TGCTGAATGGTATTGTATGATATTGGTATACTGAATCATA
19917055 TGCTGAATGGT
1 TGCTGAATGGT
19917066 TTGCTAAAGA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.29, C:0.08, G:0.24, T:0.40
Consensus pattern (40 bp):
TGCTGAATGGTATTGTATGATATTGGTATACTGAATCATA
Found at i:19917025 original size:24 final size:24
Alignment explanation
Indices: 19916998--19917065 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 24
19916988 TGTATGATAT
19916998 TGGTATACTGAATCATATGCTGAA
1 TGGTATACTGAATCATATGCTGAA
* *
19917022 TGGTAT--TG-----TATGAT-AT
1 TGGTATACTGAATCATATGCTGAA
19917038 TGGTATACTGAATCATATGCTGAA
1 TGGTATACTGAATCATATGCTGAA
19917062 TGGT
1 TGGT
19917066 TTGCTAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 16
0.62 0.08 0.31
Matches are distributed among these distances:
16 7 0.22
17 5 0.16
18 2 0.06
22 2 0.06
23 5 0.16
24 11 0.34
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (24 bp):
TGGTATACTGAATCATATGCTGAA
Found at i:19920984 original size:307 final size:305
Alignment explanation
Indices: 19920333--19921139 Score: 798
Period size: 306 Copynumber: 2.6 Consensus size: 305
19920323 TTTTTTGATG
* * * * *
19920333 GGATTAATGAAGGCACT-TTTAGCAAGAAAATGCCTTGAATCATCCCTAACAAAATGTTATTGAA
1 GGATTATTAAAGGCA-TATTTAGCATGAAAATGCCTTGAATAATCTCTAACAAAATGTTATTG-A
** * * * *
19920397 AGCGT--TTTTAATCAAAA-TCACATTCAATAATCCCACCTAAAAATATATTGTATGGAATATTA
64 AG-GTAATTTTTTTCAAAACT-ACCTTCAATAATTCCACCTAAAAATTTATTGTATGAAATATTA
* * * * * *
19920459 AAGGTGTTTTG-GGACAAAAATGCTTTCAAGAATCCATTTCAAATATTGTGCATGGATTATTGAA
127 AAGGCGTTTTGAGCA-AAAAATGCCTTCAAGAATCCATTTC-AATTTTTTGAATGGATTATTGAA
* * *** * * ** * * * *
19920523 GGCATTTTTTTACAAAAATTACCTTCAATAATTTCTATTAAAAATTTATTGATTGGATTATTAAA
190 GACAGTTTAAAAAAAAAATCACCTTCAATAATACCAACTAAAAATTAATTGAATGGATTATTAAA
* *
19920588 GGTGCTTTCACCTAAAAACGCATTCAAGAATCCGTTCCATATTTTTTCTAT
255 GGTGCTTTCACCTAAAAACGCATTCAAGAATCCATTCCATATATTTTCTAT
*
19920639 GGATTATTAAAGGCATATTTAGCATGAAAACGCCTTGAATAATCTCTAACAAAATGTTATTGAAG
1 GGATTATTAAAGGCATATTTAGCATGAAAATGCCTTGAATAATCTCTAACAAAATGTTATTGAAG
*
19920704 GTAATTTTTTTCCAAAACTACCTTCAATAATTCCACCTAAAAATTTATTGTGT-AAATATTAAAG
66 GTAATTTTTTT-CAAAACTACCTTCAATAATTCCACCTAAAAATTTATTGTATGAAATATTAAAG
**
19920768 GCGTTTTGAGCAAAAAAATGCCTTCAAGAATCTGTTTCAACTTTTTTGAATGGATTATTGAAGAC
130 GCGTTTTGAGC-AAAAAATGCCTTCAAGAATCCATTTCAA-TTTTTTGAATGGATTATTGAAGAC
* *
19920833 -GTTTAAAAAAAAAATCGCCTTCAATAATACCAACTAAAAATTAATTGAATGGATTATTAAATGT
193 AGTTTAAAAAAAAAATCACCTTCAATAATACCAACTAAAAATTAATTGAATGGATTATTAAAGGT
* * * *
19920897 GCTTTCGACC-AACAACGCCTTCAATAATCCATTTCATATATTTTCGTAT
258 GCTTTC-ACCTAAAAACGCATTCAAGAATCCATTCCATATATTTTC-TAT
* * * * *
19920946 GGATTATTAAGGGCAT-TTT-TCTACTGGAAATACCTTGAATAATCTCTAACAAAATTTTATTGA
1 GGATTATTAAAGGCATATTTAGC-A-TGAAAATGCCTTGAATAATCTCTAACAAAATGTTATTGA
* * ** *
19921009 A--AACATTTTTTTAAAAAAAACTACCTTCAATAA-TCCGACCATTCAAATTTATCGTATGAAAT
64 AGGTA-ATTTTTTT---CAAAACTACCTTCAATAATTCC-ACC-TAAAAATTTATTGTATGAAAT
** * * *
19921071 ATTAAAAACGTTTTGAGC-CAAAA-GCACTTTCAAGAATCCATTCCAATTTTTGTGTATGGATTA
123 ATTAAAGGCGTTTTGAGCAAAAAATGC-C-TTCAAGAATCCATTTCAATTTTT-TGAATGGATTA
19921134 TTGAAG
185 TTGAAG
19921140 GCATTTTTGA
Statistics
Matches: 418, Mismatches: 62, Indels: 39
0.81 0.12 0.08
Matches are distributed among these distances:
304 2 0.00
305 6 0.01
306 175 0.42
307 140 0.33
308 32 0.08
309 43 0.10
310 20 0.05
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.35
Consensus pattern (305 bp):
GGATTATTAAAGGCATATTTAGCATGAAAATGCCTTGAATAATCTCTAACAAAATGTTATTGAAG
GTAATTTTTTTCAAAACTACCTTCAATAATTCCACCTAAAAATTTATTGTATGAAATATTAAAGG
CGTTTTGAGCAAAAAATGCCTTCAAGAATCCATTTCAATTTTTTGAATGGATTATTGAAGACAGT
TTAAAAAAAAAATCACCTTCAATAATACCAACTAAAAATTAATTGAATGGATTATTAAAGGTGCT
TTCACCTAAAAACGCATTCAAGAATCCATTCCATATATTTTCTAT
Found at i:19926699 original size:153 final size:153
Alignment explanation
Indices: 19926416--19926726 Score: 559
Period size: 153 Copynumber: 2.0 Consensus size: 153
19926406 GGTTTTAGGG
* *
19926416 TTTAGGGTATTTTTGTAATATCACACCTTCCACTGTGTGATCTGGATTCTTAAGCATAAAAAATC
1 TTTAAGGTATTTTTGTAATATCACACCTTCCACTGTGTGATATGGATTCTTAAGCATAAAAAATC
*
19926481 ATTAAAAAATTCGATTTCAAAAATGTCAAATTATAAAAATACCCCTAAAGACATTTTATAATTTA
66 ATTAAAAAATTCGATTTAAAAAATGTCAAATTATAAAAATACCCCTAAAGACATTTTATAATTTA
19926546 CATTTTTCGAAGTGCAAAAAATT
131 CATTTTTCGAAGTGCAAAAAATT
*
19926569 TTTAAGGTATTTTTGTAATATCACACCTTCCATTGTGTGATATGGATTCTTAAGCATAAAAAATC
1 TTTAAGGTATTTTTGTAATATCACACCTTCCACTGTGTGATATGGATTCTTAAGCATAAAAAATC
* *
19926634 ATTAAAAAATTCGATTTAAAAAATGTCAAATTATAAAAGTACCCTTAAAGACATTTTATAATTTA
66 ATTAAAAAATTCGATTTAAAAAATGTCAAATTATAAAAATACCCCTAAAGACATTTTATAATTTA
*
19926699 CATTTTTTGAAGTGCAAAAAATT
131 CATTTTTCGAAGTGCAAAAAATT
19926722 TTTAA
1 TTTAA
19926727 TGCATAAAAA
Statistics
Matches: 151, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
153 151 1.00
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (153 bp):
TTTAAGGTATTTTTGTAATATCACACCTTCCACTGTGTGATATGGATTCTTAAGCATAAAAAATC
ATTAAAAAATTCGATTTAAAAAATGTCAAATTATAAAAATACCCCTAAAGACATTTTATAATTTA
CATTTTTCGAAGTGCAAAAAATT
Found at i:19927472 original size:49 final size:48
Alignment explanation
Indices: 19927177--19927490 Score: 301
Period size: 49 Copynumber: 6.4 Consensus size: 48
19927167 GGCTTGTATG
* * * *
19927177 AAGATAGGCAACAAACTTTAAAAATCTTATTTTGAAAATGGATTCTATA
1 AAGATAAGCAACAAACTTTAAAAATCTCATTTTGAAAA-AGACTCTATA
* * *
19927226 AATATAGGCAACAAACTTTAAAAATCTCTTTTTGAAAAAGACTCCTATA
1 AAGATAAGCAACAAACTTTAAAAATCTCATTTTGAAAAAGACT-CTATA
* * * **
19927275 AAGATAAACAAAAAACTTTAAAAATCTCATTTGGAGGAAGACTCCTATA
1 AAGATAAGCAACAAACTTTAAAAATCTCATTTTGAAAAAGACT-CTATA
* * * *
19927324 AATAT-AGACAACAAATTTTAAGAAATCTTATTTTGAAAATA-ACTTCTTTA
1 AAGATAAG-CAACAAACTTTAA-AAATCTCATTTTGAAAA-AGAC-TCTATA
* *
19927374 AAGATAGGCAACAAACTTTAATAATCTCATTTTGAATAAAG-CTTCTATA
1 AAGATAAGCAACAAACTTTAAAAATCTCATTTTGAA-AAAGAC-TCTATA
* * * *
19927423 AAGATAAGTAATAAACTTTAAAAATCTCACTTTGAAAAAGGCTCATATA
1 AAGATAAGCAACAAACTTTAAAAATCTCATTTTGAAAAAGACTC-TATA
* *
19927472 AAGACAAGCAAAAAACTTT
1 AAGATAAGCAACAAACTTT
19927491 TTTTAAAAAA
Statistics
Matches: 219, Mismatches: 36, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
48 10 0.05
49 169 0.77
50 37 0.17
51 3 0.01
ACGTcount: A:0.47, C:0.13, G:0.10, T:0.30
Consensus pattern (48 bp):
AAGATAAGCAACAAACTTTAAAAATCTCATTTTGAAAAAGACTCTATA
Found at i:19927472 original size:148 final size:147
Alignment explanation
Indices: 19927180--19927473 Score: 396
Period size: 148 Copynumber: 2.0 Consensus size: 147
19927170 TTGTATGAAG
* * *
19927180 ATAGGCAACAAACTTTAAAAATCTTATTTTGAAAATGGATTCTATAAATATAGGCAACAAACTTT
1 ATAGACAACAAACTTTAAAAATCTTATTTTGAAAATGAATTCTATAAAGATAGGCAACAAACTTT
*
19927245 AAAAATCTCTTTTTGAAAAAGACTCCTATAAAGATAAACAAAAAACTTTAAAAATCTCATTTGGA
66 AAAAATCTCATTTTGAAAAAGACTCCTATAAAGATAAACAAAAAACTTTAAAAATCTCATTTGGA
** *
19927310 GGAAGACTCCTATAAAT
131 AAAAGACTCATATAAAT
* *
19927327 ATAGACAACAAATTTTAAGAAATCTTATTTTGAAAAT-AACTTCTTTAAAGATAGGCAACAAACT
1 ATAGACAACAAACTTTAA-AAATCTTATTTTGAAAATGAA-TTCTATAAAGATAGGCAACAAACT
* * ** *
19927391 TTAATAATCTCATTTTGAATAAAG-CTTCTATAAAGATAAGTAATAAACTTTAAAAATCTCACTT
64 TTAAAAATCTCATTTTGAA-AAAGACTCCTATAAAGATAAACAAAAAACTTTAAAAATCTCA-TT
*
19927455 T-GAAAAAGGCTCATATAAA
127 TGGAAAAAGACTCATATAAA
19927474 GACAAGCAAA
Statistics
Matches: 128, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
147 17 0.13
148 104 0.81
149 7 0.05
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.31
Consensus pattern (147 bp):
ATAGACAACAAACTTTAAAAATCTTATTTTGAAAATGAATTCTATAAAGATAGGCAACAAACTTT
AAAAATCTCATTTTGAAAAAGACTCCTATAAAGATAAACAAAAAACTTTAAAAATCTCATTTGGA
AAAAGACTCATATAAAT
Found at i:19927595 original size:31 final size:31
Alignment explanation
Indices: 19927535--19927595 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
19927525 TAGGTGTAAT
* * * *
19927535 TCTCCTTTGTGCTAACTAAACTGGGCTTAAC
1 TCTCATTTATGCTAACTAAACTAGACTTAAC
*
19927566 TCTCATTTATGCTAGCTAAACTAGACTTAA
1 TCTCATTTATGCTAACTAAACTAGACTTAA
19927596 TTCTTCTTGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (31 bp):
TCTCATTTATGCTAACTAAACTAGACTTAAC
Found at i:19927941 original size:7 final size:7
Alignment explanation
Indices: 19927931--19927973 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
19927921 CTCTTTTTGC
19927931 TTTCTTT
1 TTTCTTT
*
19927938 TTTCCTT
1 TTTCTTT
19927945 TTTCTTT
1 TTTCTTT
19927952 TTTCTTT
1 TTTCTTT
* *
19927959 GTTATTCT
1 TTTCTT-T
19927967 TTTCTTT
1 TTTCTTT
19927974 GTTTTAGACT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
7 24 0.83
8 5 0.17
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.79
Consensus pattern (7 bp):
TTTCTTT
Found at i:19932134 original size:21 final size:20
Alignment explanation
Indices: 19932108--19932146 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
19932098 GCAATGAACA
*
19932108 GAGGAAGCGAGAAAGAAAAGG
1 GAGGAAGC-AAAAAGAAAAGG
19932129 GAGGAAGCAAAAAGAAAA
1 GAGGAAGCAAAAAGAAAA
19932147 CGGCAAGCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.59, C:0.05, G:0.36, T:0.00
Consensus pattern (20 bp):
GAGGAAGCAAAAAGAAAAGG
Found at i:19933439 original size:15 final size:14
Alignment explanation
Indices: 19933402--19933447 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
19933392 GAAGAATTAT
19933402 TAAAA-AATAAAAA
1 TAAAATAATAAAAA
19933415 TAAAATAATAAAAGA
1 TAAAATAATAAAA-A
*
19933430 T-AAATGAATAATAA
1 TAAAAT-AATAAAAA
19933444 TAAA
1 TAAA
19933448 TTTTTAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
13 5 0.18
14 13 0.46
15 10 0.36
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (14 bp):
TAAAATAATAAAAA
Found at i:19933616 original size:19 final size:19
Alignment explanation
Indices: 19933594--19933665 Score: 108
Period size: 19 Copynumber: 3.8 Consensus size: 19
19933584 GTGAAACTCT
*
19933594 AAACCCTAAACCCTAGGTG
1 AAACCCTAAACTCTAGGTG
* * *
19933613 AAACTCTAAACTTTAGATG
1 AAACCCTAAACTCTAGGTG
19933632 AAACCCTAAACTCTAGGTG
1 AAACCCTAAACTCTAGGTG
19933651 AAACCCTAAACTCTA
1 AAACCCTAAACTCTA
19933666 AACAAAATGC
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 46 1.00
ACGTcount: A:0.40, C:0.26, G:0.11, T:0.22
Consensus pattern (19 bp):
AAACCCTAAACTCTAGGTG
Found at i:19935664 original size:123 final size:123
Alignment explanation
Indices: 19935445--19935688 Score: 416
Period size: 123 Copynumber: 2.0 Consensus size: 123
19935435 ACAACATTCC
*
19935445 TTTAAAAATAAAATAACATTCTTTACAACTGATAATTATTGGTGACTCTCCAACATCTAAGAAGA
1 TTTAAAAATAAAATAACATTCTTTACAACTGATAATTATTGGTGACTATCCAACATCTAAGAAGA
* *
19935510 GTACCAAGAATTATTTTCTTTAAAATATTTTAATTTTATTTTTAAATCCATTTTTATT
66 GTACAAAGAATTATTTCCTTTAAAATATTTTAATTTTATTTTTAAATCCATTTTTATT
* * * *
19935568 TTTAAAAATAAAATAATATTCTTTGCAACTGATAATTATTGGTGACTATCTAACATCTAAGCAGA
1 TTTAAAAATAAAATAACATTCTTTACAACTGATAATTATTGGTGACTATCCAACATCTAAGAAGA
*
19935633 GTACAAAGAATTATTTCCTTTAAAATATTTTATTTTTATTTTTAAATCCATTTTTA
66 GTACAAAGAATTATTTCCTTTAAAATATTTTAATTTTATTTTTAAATCCATTTTTA
19935689 AATAACATTG
Statistics
Matches: 113, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
123 113 1.00
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.43
Consensus pattern (123 bp):
TTTAAAAATAAAATAACATTCTTTACAACTGATAATTATTGGTGACTATCCAACATCTAAGAAGA
GTACAAAGAATTATTTCCTTTAAAATATTTTAATTTTATTTTTAAATCCATTTTTATT
Found at i:19936175 original size:19 final size:19
Alignment explanation
Indices: 19936151--19936199 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
19936141 TCATTCAGGA
*
19936151 TTTAAGTTTACATATTGGG
1 TTTAAGTTTACATATAGGG
*
19936170 TTTAAGGCTTACATATAGGG
1 TTTAA-GTTTACATATAGGG
19936190 TTTCAAGTTT
1 TTT-AAGTTT
19936200 CGCTTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 5 0.20
20 18 0.72
21 2 0.08
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.45
Consensus pattern (19 bp):
TTTAAGTTTACATATAGGG
Found at i:19936273 original size:25 final size:24
Alignment explanation
Indices: 19936234--19936287 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
19936224 TATATTAATG
19936234 TTTTAGGTTTCATTT-GAGGTTTTA
1 TTTTAGGTTTCATTTAG-GGTTTTA
* *
19936258 TTTTAGGGTTTTATTTAGGGTTTTG
1 TTTTA-GGTTTCATTTAGGGTTTTA
19936283 TTTTA
1 TTTTA
19936288 AAAATTTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 5 0.19
25 20 0.77
26 1 0.04
ACGTcount: A:0.15, C:0.02, G:0.22, T:0.61
Consensus pattern (24 bp):
TTTTAGGTTTCATTTAGGGTTTTA
Found at i:19936274 original size:12 final size:13
Alignment explanation
Indices: 19936234--19936287 Score: 60
Period size: 12 Copynumber: 4.4 Consensus size: 13
19936224 TATATTAATG
*
19936234 TTTTA-GGTTTCA
1 TTTTAGGGTTTTA
*
19936246 TTTGA-GGTTTTA
1 TTTTAGGGTTTTA
19936258 TTTTAGGGTTTTA
1 TTTTAGGGTTTTA
*
19936271 -TTTAGGGTTTTG
1 TTTTAGGGTTTTA
19936283 TTTTA
1 TTTTA
19936288 AAAATTTATG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
12 25 0.69
13 11 0.31
ACGTcount: A:0.15, C:0.02, G:0.22, T:0.61
Consensus pattern (13 bp):
TTTTAGGGTTTTA
Found at i:19936479 original size:50 final size:46
Alignment explanation
Indices: 19936390--19936496 Score: 128
Period size: 50 Copynumber: 2.3 Consensus size: 46
19936380 AATTTTTATA
* * *
19936390 ATTTTATATATTTTCCTTTTCATTAAAATTTTATTATTATTTATTT
1 ATTTTATATATTTTCCCTTTCATAAAAATATTATTATTATTTATTT
19936436 ATTTATATATATTTTCTCCCTTTCATAAAAAATATTATTATTATTTA-TT
1 ATTT-TATATA-TTT-TCCCTTTCAT-AAAAATATTATTATTATTTATTT
19936485 ACTTTTAT-TATT
1 A-TTTTATATATT
19936497 ATTTATTTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
46 4 0.08
47 8 0.15
48 5 0.09
49 15 0.28
50 21 0.40
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.61
Consensus pattern (46 bp):
ATTTTATATATTTTCCCTTTCATAAAAATATTATTATTATTTATTT
Found at i:19936485 original size:10 final size:10
Alignment explanation
Indices: 19936470--19936503 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
19936460 ATAAAAAATA
19936470 TTATTATTAT
1 TTATTATTAT
*
19936480 TTATTACT-T
1 TTATTATTAT
19936489 TTATTATTAT
1 TTATTATTAT
19936499 TTATT
1 TTATT
19936504 TTTTATGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (10 bp):
TTATTATTAT
Found at i:19936506 original size:16 final size:18
Alignment explanation
Indices: 19936470--19936509 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
19936460 ATAAAAAATA
19936470 TTATTATTATTTATTACTT
1 TTATTATTATTTATTA-TT
19936489 TTATTATTATTTATT-TT
1 TTATTATTATTTATTATT
19936506 TTAT
1 TTAT
19936510 GATTTAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 6 0.29
19 15 0.71
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (18 bp):
TTATTATTATTTATTATT
Found at i:19945649 original size:101 final size:100
Alignment explanation
Indices: 19945467--19945792 Score: 379
Period size: 102 Copynumber: 3.2 Consensus size: 100
19945457 TTGAGAATTT
* * *
19945467 CTTAATAAATTTTTT-AAAAAATAA-AATAAAATTTTCAATCCTACCAAACTATTAGAGAATTTA
1 CTTAATGAATTTTTTAAAAAAATAATAATAAAATTTTCAATCCTACTAAACTATTAGAGGATTTA
* * *
19945530 AATATTGAACTAAATCTTAACAAATTATTAGAAA-A
66 AATATCGAATTAAATCTTAACAAAATATT-GAAAGA
* * * *
19945565 CTTAATGAATTTTTTAAAAATAATAATAATAAAATTTTTAATCTTATTAAACTATTGGAGGATTT
1 CTTAATGAATTTTTTAAAAA-AATAATAATAAAATTTTCAATCCTACTAAACTATTAGAGGATTT
* * *
19945630 AAATCTCGAATTAAGTCTTATCAAAATATTGAAAGA
65 AAATATCGAATTAAATCTTAACAAAATATTGAAAGA
*
19945666 CTTAATGAATTTTTTGTAAAAAAATAATAATAAAATTTTCAATCCTACTAAACTAGTAGAGGATT
1 CTTAATGAA-TTTTT-TAAAAAAATAATAATAAAATTTTCAATCCTACTAAACTATTAGAGGATT
* * * * * *
19945731 TAAATATCGAATTAGATTTTACCAAACTATTGGAAGG
64 TAAATATCGAATTAAATCTTAACAAAATATTGAAAGA
* *
19945768 TTTAATAAATTTTCTTAAAATAAAT
1 CTTAATGAATTTT-TTAAAA-AAAT
19945793 TTCATACATA
Statistics
Matches: 192, Mismatches: 28, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
98 14 0.07
99 4 0.02
100 9 0.05
101 75 0.39
102 84 0.44
103 6 0.03
ACGTcount: A:0.46, C:0.09, G:0.08, T:0.37
Consensus pattern (100 bp):
CTTAATGAATTTTTTAAAAAAATAATAATAAAATTTTCAATCCTACTAAACTATTAGAGGATTTA
AATATCGAATTAAATCTTAACAAAATATTGAAAGA
Found at i:19945728 original size:102 final size:100
Alignment explanation
Indices: 19945467--19945744 Score: 373
Period size: 101 Copynumber: 2.8 Consensus size: 100
19945457 TTGAGAATTT
* * *
19945467 CTTAATAAATTTTTT-AAAAAATAA-AATAAAATTTTCAATCCTACCAAACTATTAGAGAATTTA
1 CTTAATGAATTTTTTAAAAAAATAATAATAAAATTTTCAATCCTACTAAACTATTAGAGGATTTA
* * *
19945530 AATATTGAACTAAATCTTAACAAATTATTAGAAAA
66 AATATCGAATTAAATCTTAACAAAATATTAGAAAA
* * * *
19945565 CTTAATGAATTTTTTAAAAATAATAATAATAAAATTTTTAATCTTATTAAACTATTGGAGGATTT
1 CTTAATGAATTTTTTAAAAA-AATAATAATAAAATTTTCAATCCTACTAAACTATTAGAGGATTT
* * *
19945630 AAATCTCGAATTAAGTCTTATCAAAATATT-GAAAGA
65 AAATATCGAATTAAATCTTAACAAAATATTAGAAA-A
*
19945666 CTTAATGAATTTTTTGTAAAAAAATAATAATAAAATTTTCAATCCTACTAAACTAGTAGAGGATT
1 CTTAATGAA-TTTTT-TAAAAAAATAATAATAAAATTTTCAATCCTACTAAACTATTAGAGGATT
19945731 TAAATATCGAATTA
64 TAAATATCGAATTA
19945745 GATTTTACCA
Statistics
Matches: 155, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
98 14 0.09
99 4 0.03
100 9 0.06
101 66 0.43
102 56 0.36
103 6 0.04
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.37
Consensus pattern (100 bp):
CTTAATGAATTTTTTAAAAAAATAATAATAAAATTTTCAATCCTACTAAACTATTAGAGGATTTA
AATATCGAATTAAATCTTAACAAAATATTAGAAAA
Found at i:19946952 original size:8 final size:8
Alignment explanation
Indices: 19946939--19946977 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
19946929 AACCTTCCTT
19946939 TGCATTCA
1 TGCATTCA
*
19946947 TGCATTTA
1 TGCATTCA
19946955 TGCATTCA
1 TGCATTCA
*
19946963 TGCATTTA
1 TGCATTCA
19946971 TGCATTC
1 TGCATTC
19946978 GATCTCATGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.44
Consensus pattern (8 bp):
TGCATTCA
Found at i:19946960 original size:16 final size:16
Alignment explanation
Indices: 19946939--19946977 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
19946929 AACCTTCCTT
19946939 TGCATTCATGCATTTA
1 TGCATTCATGCATTTA
19946955 TGCATTCATGCATTTA
1 TGCATTCATGCATTTA
19946971 TGCATTC
1 TGCATTC
19946978 GATCTCATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.44
Consensus pattern (16 bp):
TGCATTCATGCATTTA
Found at i:19949679 original size:10 final size:10
Alignment explanation
Indices: 19949647--19949706 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
19949637 AGGAATGTGC
19949647 AAAAA-AAATG
1 AAAAAGAAA-G
*
19949657 AAAAACAAA-
1 AAAAAGAAAG
*
19949666 AAAAAGTAAG
1 AAAAAGAAAG
*
19949676 AAAAAAAAAG
1 AAAAAGAAAG
19949686 AAAAA-AGAAG
1 AAAAAGA-AAG
19949696 AAAAAGAAAG
1 AAAAAGAAAG
19949706 A
1 A
19949707 CTTTAAATTG
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
9 8 0.19
10 30 0.71
11 4 0.10
ACGTcount: A:0.82, C:0.02, G:0.13, T:0.03
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:19949680 original size:20 final size:20
Alignment explanation
Indices: 19949665--19949706 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
19949655 TGAAAAACAA
19949665 AAAAAAGTAAGAAAAAAAAAG
1 AAAAAAG-AAGAAAAAAAAAG
*
19949686 AAAAAAGAAGAAAAAGAAAG
1 AAAAAAGAAGAAAAAAAAAG
19949706 A
1 A
19949707 CTTTAAATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (20 bp):
AAAAAAGAAGAAAAAAAAAG
Found at i:19949691 original size:30 final size:29
Alignment explanation
Indices: 19949647--19949706 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 29
19949637 AGGAATGTGC
* *
19949647 AAAAAAAATGAAAAACAAAAAAAAGTAAG
1 AAAAAAAAAGAAAAACAAAAAAAAGAAAG
19949676 AAAAAAAAAGAAAAA-AGAAGAAAAAGAAAG
1 AAAAAAAAAGAAAAACA-AA-AAAAAGAAAG
19949706 A
1 A
19949707 CTTTAAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 1 0.04
29 16 0.59
30 10 0.37
ACGTcount: A:0.82, C:0.02, G:0.13, T:0.03
Consensus pattern (29 bp):
AAAAAAAAAGAAAAACAAAAAAAAGAAAG
Found at i:19950790 original size:46 final size:46
Alignment explanation
Indices: 19950690--19950815 Score: 141
Period size: 46 Copynumber: 2.8 Consensus size: 46
19950680 AATAAGATTT
** *
19950690 TTTAAAATTTTGGATACGAAACCCTAAAATTTTTCGAGTAAGAATA
1 TTTAAAATTTTGGATGTGAAACTCTAAAATTTTTCGAGTAAGAATA
* *
19950736 TTTAAAATTTTGGATGTGAAACTCTAAAATTTTTCGAG-ATTGAATC
1 TTTAAAATTTTGGATGTGAAACTCTAAAATTTTTCGAGTA-AGAATA
* * *
19950782 TTTGAAATTTTAGATGT-AAA-TCCCAAAATTTTTC
1 TTTAAAATTTTGGATGTGAAACT-CTAAAATTTTTC
19950816 AATGAAAATC
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
44 1 0.01
45 15 0.21
46 54 0.77
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (46 bp):
TTTAAAATTTTGGATGTGAAACTCTAAAATTTTTCGAGTAAGAATA
Found at i:19951057 original size:19 final size:19
Alignment explanation
Indices: 19951042--19951078 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
19951032 AGCTCTTGTG
19951042 AATCTTTGAATTTCTTACA
1 AATCTTTGAATTTCTTACA
*
19951061 AATCTTTGAATTTTTTAC
1 AATCTTTGAATTTCTTAC
19951079 GAGCCTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.14, G:0.05, T:0.51
Consensus pattern (19 bp):
AATCTTTGAATTTCTTACA
Found at i:19951103 original size:17 final size:17
Alignment explanation
Indices: 19951083--19951146 Score: 56
Period size: 17 Copynumber: 3.6 Consensus size: 17
19951073 TTTTACGAGC
19951083 CTAAATTTCTTGCAAAA
1 CTAAATTTCTTGCAAAA
** *
19951100 CTAAAGCTCTTACAAATCA
1 CTAAATTTCTTGCAAA--A
* * *
19951119 TTGAATTTCTTGCAAAT
1 CTAAATTTCTTGCAAAA
19951136 CTAAATTTCTT
1 CTAAATTTCTT
19951147 ACGAAATTGA
Statistics
Matches: 34, Mismatches: 11, Indels: 4
0.69 0.22 0.08
Matches are distributed among these distances:
17 22 0.65
19 12 0.35
ACGTcount: A:0.36, C:0.19, G:0.06, T:0.39
Consensus pattern (17 bp):
CTAAATTTCTTGCAAAA
Found at i:19951184 original size:19 final size:19
Alignment explanation
Indices: 19951162--19951254 Score: 81
Period size: 19 Copynumber: 5.1 Consensus size: 19
19951152 ATTGAGGCTT
19951162 TTGTGAATTTTTGAATTTC
1 TTGTGAATTTTTGAATTTC
**
19951181 TTGTG-A-TCCTGAATTTC
1 TTGTGAATTTTTGAATTTC
*
19951198 -TGATGCAA-TTAT--ATTTC
1 TTG-TG-AATTTTTGAATTTC
*
19951215 TTGTGAATCTTTGAATTTC
1 TTGTGAATTTTTGAATTTC
*
19951234 TTCTGAATTTTTGAATTTC
1 TTGTGAATTTTTGAATTTC
19951253 TT
1 TT
19951255 ACAAACATTA
Statistics
Matches: 59, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
16 4 0.07
17 20 0.34
18 3 0.05
19 32 0.54
ACGTcount: A:0.22, C:0.11, G:0.14, T:0.54
Consensus pattern (19 bp):
TTGTGAATTTTTGAATTTC
Found at i:19952703 original size:102 final size:100
Alignment explanation
Indices: 19952468--19952705 Score: 246
Period size: 102 Copynumber: 2.3 Consensus size: 100
19952458 ATGGGTTTAG
* * * *
19952468 AAATTTTAAATTATGAATTCTACCAAACTATTTGAGAATTCATAATGAATTGTTTGAAAAAAAAA
1 AAATATTAAATTA-G-ATTTTACCAAACTATTGGAGAA-TCATAACGAATTGTTTGAAAAAAAAA
* * ** **
19952533 AGTGAAATTTTTTATCCTACCAAACTATTGGAGGATTT
63 AATAAAATTTTCAATCCTACCAAACTATTAAAGGATTT
* * ** * * *
19952571 AAATCTTGAATTA-AGTTTTATTAAAATATTGGAGAA-CTTAACGAATTTTTTGTAAAAAAATAA
1 AAATATTAAATTAGA-TTTTACCAAACTATTGGAGAATCATAACGAATTGTTTG-AAAAAAA-AA
19952634 TAATAAAATTTTCAATCCTACCAAACTATTAAAGGATTT
63 -AATAAAATTTTCAATCCTACCAAACTATTAAAGGATTT
19952673 AAATATTAAATTAGATTTTACCAAACTATTGGA
1 AAATATTAAATTAGATTTTACCAAACTATTGGA
19952706 AGGTTTAATA
Statistics
Matches: 109, Mismatches: 21, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
99 13 0.12
100 8 0.07
101 18 0.17
102 58 0.53
103 12 0.11
ACGTcount: A:0.44, C:0.09, G:0.10, T:0.37
Consensus pattern (100 bp):
AAATATTAAATTAGATTTTACCAAACTATTGGAGAATCATAACGAATTGTTTGAAAAAAAAAAAT
AAAATTTTCAATCCTACCAAACTATTAAAGGATTT
Found at i:19953376 original size:19 final size:20
Alignment explanation
Indices: 19953338--19953376 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
19953328 ACATGACACG
* *
19953338 ATAAGCATGATTATATATGA
1 ATAAGCATGATTAGAAATGA
19953358 ATAA-CATGATTAGAAATGA
1 ATAAGCATGATTAGAAATGA
19953377 TTAATCTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.49, C:0.05, G:0.15, T:0.31
Consensus pattern (20 bp):
ATAAGCATGATTAGAAATGA
Found at i:19958527 original size:2 final size:2
Alignment explanation
Indices: 19958520--19958546 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19958510 CATCAATGCT
19958520 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
19958547 GGTACGTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19960765 original size:2 final size:2
Alignment explanation
Indices: 19960758--19960783 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
19960748 CATCAATGCT
19960758 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
19960784 AGTTATAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19970246 original size:18 final size:18
Alignment explanation
Indices: 19970214--19970248 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
19970204 TTTCTTTCTC
* *
19970214 TTTTTTTATGGTTTTTGT
1 TTTTTTTACGATTTTTGT
19970232 TTTTTTTACGATTTTTG
1 TTTTTTTACGATTTTTG
19970249 GTATTGTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.03, G:0.14, T:0.74
Consensus pattern (18 bp):
TTTTTTTACGATTTTTGT
Found at i:19970527 original size:23 final size:22
Alignment explanation
Indices: 19970484--19970527 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
19970474 GAAGTGTGGC
*
19970484 GGTTTAGTGATGGATGTTGTGT
1 GGTTTAGTGATGGATGCTGTGT
19970506 GGTTTAGGTGATGG-TGGCTGTG
1 GGTTTA-GTGATGGAT-GCTGTG
19970528 ATTCAATGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.11, C:0.02, G:0.45, T:0.41
Consensus pattern (22 bp):
GGTTTAGTGATGGATGCTGTGT
Found at i:19973572 original size:23 final size:23
Alignment explanation
Indices: 19973542--19973588 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
19973532 AGTAGTGCCT
19973542 AATATATATATATAGGCGCTCTG
1 AATATATATATATAGGCGCTCTG
19973565 AATATATATATATAGGCGCTCTG
1 AATATATATATATAGGCGCTCTG
19973588 A
1 A
19973589 TGTACTCATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (23 bp):
AATATATATATATAGGCGCTCTG
Found at i:19978989 original size:20 final size:21
Alignment explanation
Indices: 19978964--19979012 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 21
19978954 GATATTTTTA
19978964 AATATTTAT-GTTTAAAAAAT
1 AATATTTATAGTTTAAAAAAT
*
19978984 AATATTTTATATTTTAAAAAAT
1 AATA-TTTATAGTTTAAAAAAT
19979006 AATATTT
1 AATATTT
19979013 TATTAATTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 4 0.15
21 8 0.31
22 14 0.54
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
AATATTTATAGTTTAAAAAAT
Found at i:19979002 original size:22 final size:22
Alignment explanation
Indices: 19978974--19979015 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
19978964 AATATTTATG
19978974 TTTAAAAAATAATATTTTATAT
1 TTTAAAAAATAATATTTTATAT
19978996 TTTAAAAAATAATATTTTAT
1 TTTAAAAAATAATATTTTAT
19979016 TAATTTCGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTAAAAAATAATATTTTATAT
Found at i:19980786 original size:12 final size:12
Alignment explanation
Indices: 19980771--19980796 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19980761 TTATTTTTAA
19980771 ATAATAAAAAAT
1 ATAATAAAAAAT
19980783 ATAATAAAAAAT
1 ATAATAAAAAAT
19980795 AT
1 AT
19980797 TTCTAAAACG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
ATAATAAAAAAT
Found at i:19981702 original size:21 final size:22
Alignment explanation
Indices: 19981667--19981709 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
19981657 ATATGTTATT
* *
19981667 TATTTATTTATTCATTTTCATA
1 TATTTATTCATTCATTTGCATA
19981689 TATTTA-TCATTCATTTGCATA
1 TATTTATTCATTCATTTGCATA
19981710 CACATAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.28, C:0.12, G:0.02, T:0.58
Consensus pattern (22 bp):
TATTTATTCATTCATTTGCATA
Found at i:19984043 original size:31 final size:31
Alignment explanation
Indices: 19984008--19984133 Score: 104
Period size: 32 Copynumber: 4.3 Consensus size: 31
19983998 AGAGTTTTTT
* *
19984008 AAATTCCAAATCATTTTAAAAAATTAACTAA
1 AAATTCTAAATCATTTTAAAAAATTAAATAA
* * *
19984039 AAATTTTACATCATTTAAAAAAAATTAAATAA
1 AAATTCTAAATCATTT-TAAAAAATTAAATAA
* * *
19984071 AAACTCTAAATCGTTTTAAAAAA--AATTAA
1 AAATTCTAAATCATTTTAAAAAATTAAATAA
*
19984100 AAAAT-T---TC-TTTTAAAAAATTAAATAA
1 AAATTCTAAATCATTTTAAAAAATTAAATAA
*
19984126 AAACTCTA
1 AAATTCTA
19984134 CATGCTAATC
Statistics
Matches: 76, Mismatches: 14, Indels: 13
0.74 0.14 0.13
Matches are distributed among these distances:
24 10 0.13
25 2 0.03
26 9 0.12
27 1 0.01
28 1 0.01
29 9 0.12
31 19 0.25
32 25 0.33
ACGTcount: A:0.56, C:0.10, G:0.01, T:0.33
Consensus pattern (31 bp):
AAATTCTAAATCATTTTAAAAAATTAAATAA
Found at i:19991819 original size:23 final size:23
Alignment explanation
Indices: 19991766--19991811 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
19991756 TGATAACTAT
19991766 AAGTTTGAGAGGCTATAAAATAA
1 AAGTTTGAGAGGCTATAAAATAA
19991789 AAGTTTGAGAGGCTATAAAATAA
1 AAGTTTGAGAGGCTATAAAATAA
19991812 CCAGTTGACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.04, G:0.22, T:0.26
Consensus pattern (23 bp):
AAGTTTGAGAGGCTATAAAATAA
Done.