Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 237 of 292
Found at i:68868362 original size:18 final size:19
Alignment explanation
Indices: 68868339--68868376 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
68868329 GTCTTTTCTC
68868339 TTTATTTATTTATT-TTAT
1 TTTATTTATTTATTATTAT
68868357 TTTATTTATTTATTATTAT
1 TTTATTTATTTATTATTAT
68868376 T
1 T
68868377 AACTTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTATTTATTTATTATTAT
Found at i:68868462 original size:20 final size:20
Alignment explanation
Indices: 68868425--68868477 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
68868415 ATTAATATAT
68868425 ATTTTAAA-ATTACTTTTTTTA
1 ATTTTAAATATTAC--TTTTTA
68868446 ATTTTAAATATTA-TTTTTA
1 ATTTTAAATATTACTTTTTA
68868465 ATATTTAAATATT
1 AT-TTTAAATATT
68868478 TTAAACTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.27
20 10 0.33
21 8 0.27
22 4 0.13
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTTTAAATATTACTTTTTA
Found at i:68868464 original size:19 final size:20
Alignment explanation
Indices: 68868440--68868525 Score: 72
Period size: 19 Copynumber: 4.2 Consensus size: 20
68868430 AAAATTACTT
68868440 TTTTTAAT-TTTAAATATTA
1 TTTTTAATATTTAAATATTA
68868459 TTTTTAATATTTAAATATT-
1 TTTTTAATATTTAAATATTA
*
68868478 TTAAACTTTCAA-ATTT-ATTATTA
1 TT----TTT-AATATTTAAATATTA
68868501 TTTTATAATAATTTAAATATTA
1 TTTT-TAAT-ATTTAAATATTA
68868523 TTT
1 TTT
68868526 AATTTGTTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 19
0.72 0.03 0.25
Matches are distributed among these distances:
19 14 0.26
20 11 0.20
21 4 0.07
22 14 0.26
23 9 0.17
24 2 0.04
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTTAATATTTAAATATTA
Found at i:68868470 original size:21 final size:21
Alignment explanation
Indices: 68868422--68868477 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
68868412 TTTATTAATA
68868422 TATATTTTAAA-ATTACTTTT
1 TATATTTTAAATATTACTTTT
*
68868442 TTTAATTTTAAATATTA-TTTT
1 TAT-ATTTTAAATATTACTTTT
68868463 TA-ATATTTAAATATT
1 TATAT-TTTAAATATT
68868478 TTAAACTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
19 2 0.06
20 12 0.39
21 13 0.42
22 4 0.13
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TATATTTTAAATATTACTTTT
Found at i:68868554 original size:15 final size:15
Alignment explanation
Indices: 68868534--68868567 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
68868524 TTAATTTGTT
68868534 TTATAATATTTTAAA
1 TTATAATATTTTAAA
68868549 TTATAATATTTTAAA
1 TTATAATATTTTAAA
68868564 TTAT
1 TTAT
68868568 TTTTAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TTATAATATTTTAAA
Found at i:68868786 original size:4 final size:4
Alignment explanation
Indices: 68868777--68868802 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
68868767 TTTTATTTTG
68868777 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
68868803 GTTATTAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:68868889 original size:30 final size:31
Alignment explanation
Indices: 68868855--68868912 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
68868845 TTATAATATA
68868855 TATTTTT-AAATTTTAAATATTATTTTTAAT
1 TATTTTTAAAATTTTAAATATTATTTTTAAT
*
68868885 TATTTTTAAAATTTTGAATATTATTTTT
1 TATTTTTAAAATTTTAAATATTATTTTT
68868913 TTAAACATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 7 0.27
31 19 0.73
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (31 bp):
TATTTTTAAAATTTTAAATATTATTTTTAAT
Found at i:68868890 original size:22 final size:22
Alignment explanation
Indices: 68868843--68868883 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
68868833 ATTTGAAATG
68868843 TTTTATAATATATATTTTTAAA
1 TTTTATAATATATATTTTTAAA
68868865 TTTTA-AATAT-TATTTTTAA
1 TTTTATAATATATATTTTTAA
68868884 TTATTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.47
21 5 0.26
22 5 0.26
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTTATAATATATATTTTTAAA
Found at i:68868948 original size:53 final size:54
Alignment explanation
Indices: 68868844--68868960 Score: 125
Period size: 53 Copynumber: 2.2 Consensus size: 54
68868834 TTTGAAATGT
** * *
68868844 TTTATAATA-TATATTTTTAAATTTTAAATATTATTTTTAATTATTTTTAAAAT-
1 TTTA-AATATTATATTTTTAAACATTAAATATTATTTTTAATTATATATAAAATA
* *
68868897 TTTGAATATTATTTTTTTAAACATTAAATATAATATTTTTAA-TA-ATATAAAATA
1 TTTAAATATTATATTTTTAAACATTAAATAT--TATTTTTAATTATATATAAAATA
68868951 TTTAAATATT
1 TTTAAATATT
68868961 TTAAAGATAT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
52 4 0.08
53 29 0.55
54 11 0.21
55 9 0.17
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.56
Consensus pattern (54 bp):
TTTAAATATTATATTTTTAAACATTAAATATTATTTTTAATTATATATAAAATA
Found at i:68869321 original size:14 final size:15
Alignment explanation
Indices: 68869302--68869334 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
68869292 ATCTTTAAAA
68869302 ATAATTTAAAA-ATT
1 ATAATTTAAAATATT
68869316 ATAATTTAAAATATT
1 ATAATTTAAAATATT
68869331 ATAA
1 ATAA
68869335 AACAAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAATTTAAAATATT
Found at i:68869418 original size:21 final size:21
Alignment explanation
Indices: 68869392--68869444 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
68869382 GAAAGTTTAA
68869392 AATATTTAAATATTAAAAAA-T
1 AATATTTAAA-ATTAAAAAAGT
68869413 AATATTTAAAATTAAAAAAGT
1 AATATTTAAAATTAAAAAAGT
*
68869434 AAT-TTCAAAAT
1 AATATTTAAAAT
68869445 ATATATTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (21 bp):
AATATTTAAAATTAAAAAAGT
Found at i:68869508 original size:4 final size:4
Alignment explanation
Indices: 68869499--68869538 Score: 53
Period size: 4 Copynumber: 9.5 Consensus size: 4
68869489 AGTTAATAAT
*
68869499 AATA AATA AATA AGTAA AATA AATA AATAA AATA AATA AA
1 AATA AATA AATA AAT-A AATA AATA AAT-A AATA AATA AA
68869539 AAGACAAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 25 0.78
5 7 0.22
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:68869520 original size:13 final size:13
Alignment explanation
Indices: 68869502--68869538 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
68869492 TAATAATAAT
*
68869502 AAATAAATAAGTA
1 AAATAAATAAATA
68869515 AAATAAATAAATA
1 AAATAAATAAATA
68869528 AAATAAATAAA
1 AAATAAATAAA
68869539 AAGACAAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (13 bp):
AAATAAATAAATA
Found at i:68869535 original size:17 final size:17
Alignment explanation
Indices: 68869493--68869538 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
68869483 TTTTAAAGTT
68869493 AATAATAATAAATAAATA
1 AATAA-AATAAATAAATA
*
68869511 AGTAAAATAAATAAATA
1 AATAAAATAAATAAATA
68869528 AA-ATAAATAAA
1 AATA-AAATAAA
68869539 AAGACAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 1 0.04
17 20 0.80
18 4 0.16
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (17 bp):
AATAAAATAAATAAATA
Found at i:68901302 original size:44 final size:45
Alignment explanation
Indices: 68901249--68901351 Score: 127
Period size: 44 Copynumber: 2.3 Consensus size: 45
68901239 TGTCTTTGAC
* * *
68901249 ATGGACTTACATGAATTATTCATGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCATGTCTCCAAAGCCATATTATAAT
** * *
68901293 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCATGTCTCCAAAGCCATA-TTATAAT
68901339 ATGGACTTACATG
1 ATGGACTTACATG
68901352 GCTCATTTCG
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 32 0.64
46 18 0.36
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCATGTCTCCAAAGCCATATTATAAT
Found at i:68901350 original size:46 final size:44
Alignment explanation
Indices: 68901271--68901356 Score: 136
Period size: 46 Copynumber: 1.9 Consensus size: 44
68901261 GAATTATTCA
*
68901271 TGTCTCCAATGCCATATATAATATGGACTTACATGGCTCAATCC
1 TGTCTCCAAAGCCATATATAATATGGACTTACATGGCTCAATCC
*
68901315 TGTCTCCAAAGCCATATTTCTAATATGGACTTACATGGCTCA
1 TGTCTCCAAAGCCATA--TATAATATGGACTTACATGGCTCA
68901357 TTTCGTTCTG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 15 0.39
46 23 0.61
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (44 bp):
TGTCTCCAAAGCCATATATAATATGGACTTACATGGCTCAATCC
Found at i:68902512 original size:12 final size:12
Alignment explanation
Indices: 68902495--68902519 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
68902485 AATAATAAAA
68902495 TATTTTTTATTT
1 TATTTTTTATTT
68902507 TATTTTTTATTT
1 TATTTTTTATTT
68902519 T
1 T
68902520 TTTACCCTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TATTTTTTATTT
Found at i:68904353 original size:14 final size:15
Alignment explanation
Indices: 68904334--68904366 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
68904324 GTTAATTAGG
68904334 TTTAATTAT-AATAA
1 TTTAATTATGAATAA
*
68904348 TTTAATTATGAATCA
1 TTTAATTATGAATAA
68904363 TTTA
1 TTTA
68904367 TCATTGGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (15 bp):
TTTAATTATGAATAA
Found at i:68905045 original size:24 final size:24
Alignment explanation
Indices: 68905018--68905069 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
68905008 GAGTAAAGAT
68905018 TATTAAAAATT-GTAAATATTAAAA
1 TATTAAAAATTAG-AAATATTAAAA
* *
68905042 TATTAATAATTAGAAATTTTAAAA
1 TATTAAAAATTAGAAATATTAAAA
68905066 -ATTA
1 TATTA
68905070 TATTAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 4 0.16
24 20 0.80
25 1 0.04
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (24 bp):
TATTAAAAATTAGAAATATTAAAA
Found at i:68907270 original size:27 final size:26
Alignment explanation
Indices: 68907244--68907310 Score: 84
Period size: 26 Copynumber: 2.6 Consensus size: 26
68907234 AAGTAAAAAT
68907244 AATA-AAATTTTAAAATTTAA-ATTA
1 AATATAAATTTTAAAATTTAAGATTA
* *
68907268 AATATATATATTTGAAATTTAAGATTA
1 AATATAAAT-TTTAAAATTTAAGATTA
*
68907295 AATTTAAATTTTAAAA
1 AATATAAATTTTAAAA
68907311 ATATTAACTT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 4 0.11
25 3 0.09
26 17 0.49
27 11 0.31
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (26 bp):
AATATAAATTTTAAAATTTAAGATTA
Found at i:68907517 original size:14 final size:15
Alignment explanation
Indices: 68907498--68907528 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
68907488 TATCTCTATT
68907498 TTTTTAAATA-TTTA
1 TTTTTAAATAGTTTA
68907512 TTTTTAAATAGTTTA
1 TTTTTAAATAGTTTA
68907527 TT
1 TT
68907529 ATACTCCTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (15 bp):
TTTTTAAATAGTTTA
Found at i:68909089 original size:32 final size:32
Alignment explanation
Indices: 68909053--68909116 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
68909043 AAGGAAAAAA
68909053 AATCTAGTAACATGTTGAAGTTTTATATGTAG
1 AATCTAGTAACATGTTGAAGTTTTATATGTAG
68909085 AATCTAGTAACATGTTGAAGTTTTATATGTAG
1 AATCTAGTAACATGTTGAAGTTTTATATGTAG
68909117 GCAATAACTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.41
Consensus pattern (32 bp):
AATCTAGTAACATGTTGAAGTTTTATATGTAG
Found at i:68913854 original size:15 final size:15
Alignment explanation
Indices: 68913830--68913868 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
68913820 CTCCGCTCAA
68913830 TTATTCTTCTCTCACT
1 TTATTCTTCTCT-ACT
68913846 TTATT-TTCTCTACT
1 TTATTCTTCTCTACT
68913860 TT-TTCTTCT
1 TTATTCTTCT
68913869 TTTCTCTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 2 0.09
14 9 0.41
15 6 0.27
16 5 0.23
ACGTcount: A:0.10, C:0.26, G:0.00, T:0.64
Consensus pattern (15 bp):
TTATTCTTCTCTACT
Found at i:68913884 original size:19 final size:19
Alignment explanation
Indices: 68913849--68913885 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
68913839 TCTCACTTTA
* *
68913849 TTTTCTCTACTTTTTCTTC
1 TTTTCTCTAATTCTTCTTC
68913868 TTTTCTCTAATTCTTCTT
1 TTTTCTCTAATTCTTCTT
68913886 TCTTGAATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTCTCTAATTCTTCTTC
Found at i:68919316 original size:14 final size:14
Alignment explanation
Indices: 68919276--68919305 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
68919266 CCGTTAGTGA
*
68919276 ATAAATACATAAAT
1 ATAAATAAATAAAT
68919290 ATAAATAAATAAAT
1 ATAAATAAATAAAT
68919304 AT
1 AT
68919306 TTATATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (14 bp):
ATAAATAAATAAAT
Found at i:68920814 original size:6 final size:6
Alignment explanation
Indices: 68920803--68920833 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
68920793 TTAAGCTAGC
68920803 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG A
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG A
68920834 CCCATGGCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:68927132 original size:46 final size:46
Alignment explanation
Indices: 68926988--68927204 Score: 183
Period size: 46 Copynumber: 4.6 Consensus size: 46
68926978 TTTGTAAGCT
** * *
68926988 AGTGTAAGACATGTCTGGGACATGCATCAACCAT--ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GGCATCGA-GACGAGAGCC
* * *
68927034 AGTGTAAGACCATGCCTGGGACATGGCATCGGCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGACGAGAGCC
* *
68927082 AGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACG-AGAGCC
* * * *
68927128 AGTGTAAGACATGTCT-GGAGTATGCATCGGC-TACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGA-CATGCATCGGCAT-CGAGACGAGAGCC
* *
68927174 AGTATAAGACCATGTCTGGGATATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
68927205 ACTTTAGATA
Statistics
Matches: 144, Mismatches: 16, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
45 5 0.03
46 69 0.48
47 39 0.27
48 30 0.21
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGAGAGCC
Found at i:68931351 original size:18 final size:17
Alignment explanation
Indices: 68931324--68931367 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
68931314 ATTTTTTTTT
68931324 ATAAAATATTTGAAAAAG
1 ATAAAATATTT-AAAAAG
*
68931342 ATAAATTATTTAAAAAG
1 ATAAAATATTTAAAAAG
68931359 -TGAAAATAT
1 AT-AAAATAT
68931368 AATAGATTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 1 0.04
17 12 0.52
18 10 0.43
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (17 bp):
ATAAAATATTTAAAAAG
Found at i:68935139 original size:19 final size:19
Alignment explanation
Indices: 68935097--68935139 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
68935087 TGTAATTCCT
* *
68935097 AAAATACATACATCACATG
1 AAAATACATACAGCACAAG
*
68935116 AAAATACATCCAGCACAAG
1 AAAATACATACAGCACAAG
*
68935135 TAAAT
1 AAAAT
68935140 TATTATATCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.53, C:0.21, G:0.07, T:0.19
Consensus pattern (19 bp):
AAAATACATACAGCACAAG
Found at i:68937780 original size:13 final size:11
Alignment explanation
Indices: 68937731--68937773 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
68937721 TCTAAAATTC
68937731 AAAATATTTAT
1 AAAATATTTAT
*
68937742 AAAATATTTTTT
1 AAAATA-TTTAT
68937754 AAAA-ATTCTAT
1 AAAATATT-TAT
68937765 AAAATATTT
1 AAAATATTT
68937774 GTATAAATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
10 2 0.07
11 14 0.52
12 11 0.41
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (11 bp):
AAAATATTTAT
Found at i:68937790 original size:22 final size:23
Alignment explanation
Indices: 68937742--68937792 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
68937732 AAATATTTAT
* * *
68937742 AAAATATTTTTTAAAAATTCTAT
1 AAAATATTTTGTAAAAATTCAAA
*
68937765 AAAATA-TTTGTATAAATTCAAA
1 AAAATATTTTGTAAAAATTCAAA
68937787 AAAATA
1 AAAATA
68937793 AACTTATTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (23 bp):
AAAATATTTTGTAAAAATTCAAA
Found at i:68937824 original size:11 final size:9
Alignment explanation
Indices: 68937797--68937831 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
68937787 AAAATAAACT
68937797 TATTAAAAA
1 TATTAAAAA
68937806 TATTAAAAA
1 TATTAAAAA
68937815 TATATAAAAA
1 TAT-TAAAAA
*
68937825 TACTAAA
1 TATTAAA
68937832 TTATAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 16 0.67
10 8 0.33
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (9 bp):
TATTAAAAA
Found at i:68946332 original size:46 final size:46
Alignment explanation
Indices: 68946263--68946352 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 46
68946253 AGTCGTGAGA
* * *
68946263 TACTATATTATATGCATAGTATTTGTTTGTATAAAAGACAATGTCT
1 TACTATATTATACGCATAATATTTGTTTCTATAAAAGACAATGTCT
* *
68946309 TACTATATTGTACGCATAATATTTGTTTCTGTAAAAGACAATGT
1 TACTATATTATACGCATAATATTTGTTTCTATAAAAGACAATGT
68946353 ATTGATTTTC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.42
Consensus pattern (46 bp):
TACTATATTATACGCATAATATTTGTTTCTATAAAAGACAATGTCT
Found at i:68953980 original size:26 final size:24
Alignment explanation
Indices: 68953950--68953999 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
68953940 AAATAAAAAA
*
68953950 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
68953976 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
68954000 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:68954019 original size:21 final size:21
Alignment explanation
Indices: 68953970--68954028 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
68953960 ATAATAAATC
*
68953970 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
68953990 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
68954012 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
68954029 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:68960449 original size:13 final size:14
Alignment explanation
Indices: 68960433--68960468 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
68960423 CAATCTCATA
68960433 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
68960446 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
68960459 TCTC-ATTTCA
1 TCTCAATTTCA
68960469 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:68960458 original size:18 final size:19
Alignment explanation
Indices: 68960420--68960460 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
68960410 TGGTTCATGT
68960420 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
68960439 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
68960457 TTTC
1 TTTC
68960461 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:68960650 original size:39 final size:38
Alignment explanation
Indices: 68960583--68960717 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
68960573 ACCAATATGG
* * *
68960583 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
68960622 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
68960660 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
68960701 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
68960718 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:68960983 original size:18 final size:19
Alignment explanation
Indices: 68960957--68960995 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
68960947 TTTCAATTCA
68960957 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
68960976 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
68960994 AT
1 AT
68960996 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:68962308 original size:5 final size:5
Alignment explanation
Indices: 68962298--68962329 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
68962288 TTATGTTTAT
68962298 ATATA ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA ATATA AT
68962330 TAAAACATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:68965879 original size:13 final size:14
Alignment explanation
Indices: 68965863--68965898 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
68965853 CAATCTCATA
68965863 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
68965876 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
68965889 TCTC-ATTTCA
1 TCTCAATTTCA
68965899 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:68965888 original size:18 final size:19
Alignment explanation
Indices: 68965850--68965890 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
68965840 TGGTTCATGT
68965850 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
68965869 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
68965887 TTTC
1 TTTC
68965891 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:68966035 original size:17 final size:17
Alignment explanation
Indices: 68966013--68966045 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
68966003 ACCAATATGG
68966013 CACCCAGTGCCTCATCA
1 CACCCAGTGCCTCATCA
*
68966030 CACCCAGTGTCTCATC
1 CACCCAGTGCCTCATC
68966046 GGCCTAGCCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.45, G:0.12, T:0.21
Consensus pattern (17 bp):
CACCCAGTGCCTCATCA
Found at i:68966391 original size:18 final size:19
Alignment explanation
Indices: 68966365--68966403 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
68966355 TTTCAATTCA
68966365 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
68966384 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
68966402 AT
1 AT
68966404 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:68967710 original size:5 final size:5
Alignment explanation
Indices: 68967700--68967731 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
68967690 TTATGTTTAT
68967700 ATATA ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA ATATA AT
68967732 TAAAACATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:68979958 original size:26 final size:26
Alignment explanation
Indices: 68979929--68980038 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
68979919 TGATACAAAT
68979929 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
68979955 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
68979981 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
68980007 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
68980033 TGATAA
1 TGATAA
68980039 GAATTTCATG
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:68982065 original size:136 final size:136
Alignment explanation
Indices: 68981820--68982104 Score: 507
Period size: 136 Copynumber: 2.1 Consensus size: 136
68981810 GAGTAGTCTC
68981820 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
*
68981885 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
68981950 CTGTTA
131 CTGTTA
*
68981956 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCTATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
* * *
68982021 GTTATCTGAATAAGGGGCTAAGGCTCAGTTTATTGTAATTTGAAAAGGGCTCTGGCCTAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
68982086 CTGTTA
131 CTGTTA
**
68982092 CCTGAATGGGCTT
1 CCCAAATGGGCTT
68982105 AGGCCCAATA
Statistics
Matches: 142, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
136 142 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:68982915 original size:12 final size:12
Alignment explanation
Indices: 68982898--68982928 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
68982888 CGTGCCCAGT
68982898 AAAATAAAATTA
1 AAAATAAAATTA
68982910 AAAATAAAATTA
1 AAAATAAAATTA
*
68982922 ATAATAA
1 AAAATAA
68982929 TTAATAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (12 bp):
AAAATAAAATTA
Found at i:68983672 original size:6 final size:6
Alignment explanation
Indices: 68983661--68983896 Score: 454
Period size: 6 Copynumber: 39.3 Consensus size: 6
68983651 TTACCCAAAC
68983661 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
* *
68983709 ATACAT ATACAT ATACAT ATAAAT ATACAT ATACAT ATACAT ATAAAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
68983757 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
68983805 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
68983853 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT AT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT AT
68983897 GGGAATTAAC
Statistics
Matches: 226, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 226 1.00
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (6 bp):
ATACAT
Found at i:68991457 original size:4 final size:4
Alignment explanation
Indices: 68991448--68991476 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
68991438 TTTATTTTAC
68991448 TAAT TAAT TAAT TAAT TAAT TAAT TAAT T
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT T
68991477 CTTATACTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TAAT
Found at i:68991524 original size:5 final size:6
Alignment explanation
Indices: 68991487--68991551 Score: 69
Period size: 6 Copynumber: 10.2 Consensus size: 6
68991477 CTTATACTTA
*
68991487 TATTTT TAATTTTT TATATAT T-TTTT TATTTT TATTTT GCTATTTT TATTTT
1 TATTTT T-A-TTTT TAT-TTT TATTTT TATTTT TATTTT --TATTTT TATTTT
68991539 TATTTT TATTTT T
1 TATTTT TATTTT T
68991552 TTCGTATTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
5 3 0.06
6 32 0.63
7 5 0.10
8 11 0.22
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.78
Consensus pattern (6 bp):
TATTTT
Found at i:68991552 original size:20 final size:20
Alignment explanation
Indices: 68991505--68991553 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
68991495 ATTTTTTATA
68991505 TATTTTTTTATTTTTATTTT
1 TATTTTTTTATTTTTATTTT
** *
68991525 GCTATTTTTATTTTTATTTT
1 TATTTTTTTATTTTTATTTT
68991545 TATTTTTTT
1 TATTTTTTT
68991554 CGTATTTTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.02, T:0.82
Consensus pattern (20 bp):
TATTTTTTTATTTTTATTTT
Found at i:68991564 original size:26 final size:25
Alignment explanation
Indices: 68991487--68991565 Score: 86
Period size: 26 Copynumber: 3.0 Consensus size: 25
68991477 CTTATACTTA
*
68991487 TATTTTTAATTTTTTATATATTTTTT
1 TATTTTTATTTTTTTATAT-TTTTTT
** *
68991513 TATTTTTATTTTGCTATTTTTATTTT
1 TATTTTTATTTTTTTATATTT-TTTT
*
68991539 TATTTTTATTTTTTTCGTATTTTTTT
1 TATTTTTATTTTTTT-ATATTTTTTT
68991565 T
1 T
68991566 GCTATAATCA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
25 2 0.05
26 37 0.86
27 4 0.09
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.78
Consensus pattern (25 bp):
TATTTTTATTTTTTTATATTTTTTT
Found at i:69002234 original size:92 final size:92
Alignment explanation
Indices: 69002123--69002292 Score: 313
Period size: 92 Copynumber: 1.8 Consensus size: 92
69002113 GCCCCTAAGT
* *
69002123 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
69002188 CGAGTTCGGATGCCTAGTTACATTCAC
66 CGAGTTCGGATGCCTAGTTACATTCAC
*
69002215 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
69002280 CGAGTTCGGATGC
66 CGAGTTCGGATGC
69002293 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTCAC
Found at i:69002289 original size:46 final size:46
Alignment explanation
Indices: 69002118--69002289 Score: 217
Period size: 46 Copynumber: 3.7 Consensus size: 46
69002108 AACCCGCCCC
* * *
69002118 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
69002164 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--TCCA
* *
69002210 TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
69002256 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
69002290 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 95 0.88
47 2 0.02
48 4 0.04
49 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:69002308 original size:46 final size:46
Alignment explanation
Indices: 69002120--69002308 Score: 151
Period size: 46 Copynumber: 4.1 Consensus size: 46
69002110 CCCGCCCCTA
* ** * *
69002120 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-T
*
69002165 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATTC-
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCCT
* * * * *
69002213 A-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCCT
69002258 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
69002304 AGTGA
1 AGTGA
69002309 CATGTCACTT
Statistics
Matches: 116, Mismatches: 13, Indels: 28
0.74 0.08 0.18
Matches are distributed among these distances:
44 9 0.08
45 2 0.02
46 95 0.82
47 1 0.01
48 4 0.03
49 1 0.01
50 4 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
Found at i:69002745 original size:30 final size:30
Alignment explanation
Indices: 69002711--69002770 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
69002701 ATTTAATACG
69002711 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
69002741 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
69002771 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:69009782 original size:91 final size:92
Alignment explanation
Indices: 69009673--69009841 Score: 304
Period size: 91 Copynumber: 1.8 Consensus size: 92
69009663 GCCCCTAAGT
* *
69009673 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTC-GACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
69009737 CGAGTTCGGATGCCTAGTTACATTCAC
66 CGAGTTCGGATGCCTAGTTACATTCAC
*
69009764 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
69009829 CGAGTTCGGATGC
66 CGAGTTCGGATGC
69009842 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
91 49 0.66
92 25 0.34
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTCAC
Found at i:69009814 original size:46 final size:46
Alignment explanation
Indices: 69009668--69009838 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
69009658 AACCCGCCCC
* * *
69009668 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
69009714 TAAGTGAACTC-GACTCAACTCAACGAGTTCGG--ATGC-CTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--TCCA
* *
69009759 TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
69009805 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
69009839 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 1 0.01
43 3 0.03
45 31 0.29
46 66 0.62
48 4 0.04
49 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:69009857 original size:46 final size:46
Alignment explanation
Indices: 69009670--69009857 Score: 142
Period size: 46 Copynumber: 4.1 Consensus size: 46
69009660 CCCGCCCCTA
* ** * *
69009670 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-T
*
69009715 AAGTGAACTC-GACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATTC-
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCCT
* * * * *
69009762 A-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCCT
69009807 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
69009853 AGTGA
1 AGTGA
69009858 CATGTCACTT
Statistics
Matches: 114, Mismatches: 13, Indels: 30
0.73 0.08 0.19
Matches are distributed among these distances:
44 10 0.09
45 28 0.25
46 67 0.59
48 4 0.04
49 5 0.04
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
Found at i:69010295 original size:30 final size:30
Alignment explanation
Indices: 69010261--69010320 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
69010251 ATTTAATACG
69010261 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
69010291 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
69010321 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:69014862 original size:34 final size:34
Alignment explanation
Indices: 69014819--69014889 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
69014809 CAATTGAGAA
69014819 GTCATTACTCCCTCACTCATTTGTTTTCATAATT
1 GTCATTACTCCCTCACTCATTTGTTTTCATAATT
69014853 GTCATTACTCCCTCACTCATTTGTTTTCATAATT
1 GTCATTACTCCCTCACTCATTTGTTTTCATAATT
69014887 GTC
1 GTC
69014890 TTTATATTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.20, C:0.27, G:0.07, T:0.46
Consensus pattern (34 bp):
GTCATTACTCCCTCACTCATTTGTTTTCATAATT
Found at i:69017142 original size:23 final size:25
Alignment explanation
Indices: 69017116--69017162 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
69017106 TATCATTCAT
*
69017116 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
69017139 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
69017163 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:69017482 original size:46 final size:46
Alignment explanation
Indices: 69017422--69017543 Score: 183
Period size: 46 Copynumber: 2.7 Consensus size: 46
69017412 TTTGACGTGA
* * * *
69017422 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTC-TTTTCATGTCACGT
*
69017468 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCTTTTCATGTCACGT
69017514 TGCCATGGTATCTTTCAACCATGGTCTTAC
1 TGCCATGGTATCTTTCAACCATGGTCTTAC
69017544 AACCATGGTC
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
45 5 0.07
46 64 0.93
ACGTcount: A:0.18, C:0.24, G:0.16, T:0.43
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCTTTTCATGTCACGT
Found at i:69017546 original size:14 final size:14
Alignment explanation
Indices: 69017524--69017555 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
69017514 TGCCATGGTA
*
69017524 TCTTTCAACCATGG
1 TCTTACAACCATGG
69017538 TCTTACAACCATGG
1 TCTTACAACCATGG
69017552 TCTT
1 TCTT
69017556 GCACATTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.22, C:0.28, G:0.12, T:0.38
Consensus pattern (14 bp):
TCTTACAACCATGG
Found at i:69017549 original size:60 final size:60
Alignment explanation
Indices: 69017478--69017604 Score: 191
Period size: 60 Copynumber: 2.1 Consensus size: 60
69017468 TGCCATGGTA
* ** * *
69017478 TCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGG
1 TCTTACAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGG
* *
69017538 TCTTACAACCATGGTCTTGCACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGG
1 TCTTACAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGG
69017598 TCTTACA
1 TCTTACA
69017605 CACATGTTGC
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (60 bp):
TCTTACAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGG
Found at i:69017597 original size:46 final size:45
Alignment explanation
Indices: 69017538--69017739 Score: 243
Period size: 38 Copynumber: 4.7 Consensus size: 45
69017528 TCAACCATGG
*
69017538 TCTTACAACCATGGTCTTGCACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTT-CACATTTCATATCAGGTTGCCATGGTA
*
69017584 TCTTTCAACCATGGTCTT-ACA---C--A-CATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTCACATTTCATATCAGGTTGCCATGGTA
*
69017622 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGTCATGGTA
1 TCTTTCAACCATGGTCTT-CACATTTCATATCAGGTTGCCATGGTA
69017668 TCTTTCAACCATGGTCTT-ACA---C--A-CAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTCACATTTCATATCAGGTTGCCATGGTA
*
69017706 TCTTTCAACCATAGTCTTACACATTTCATATCAG
1 TCTTTCAACCATGGTCTT-CACATTTCATATCAG
69017740 AGAGCACACT
Statistics
Matches: 134, Mismatches: 6, Indels: 32
0.78 0.03 0.19
Matches are distributed among these distances:
38 63 0.47
39 2 0.01
40 6 0.04
41 2 0.01
43 2 0.01
44 6 0.04
45 2 0.01
46 51 0.38
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.36
Consensus pattern (45 bp):
TCTTTCAACCATGGTCTTCACATTTCATATCAGGTTGCCATGGTA
Found at i:69017635 original size:84 final size:84
Alignment explanation
Indices: 69017538--69017739 Score: 359
Period size: 84 Copynumber: 2.4 Consensus size: 84
69017528 TCAACCATGG
* *
69017538 TCTTACAACCATGGTCTTGCACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
*
69017603 CACACATGTTGCCATGGTA
66 CACACAGGTTGCCATGGTA
*
69017622 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGTCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
69017687 CACACAGGTTGCCATGGTA
66 CACACAGGTTGCCATGGTA
*
69017706 TCTTTCAACCATAGTCTTACACATTTCATATCAG
1 TCTTTCAACCATGGTCTTACACATTTCATATCAG
69017740 AGAGCACACT
Statistics
Matches: 113, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 113 1.00
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.36
Consensus pattern (84 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
CACACAGGTTGCCATGGTA
Found at i:69020974 original size:5 final size:5
Alignment explanation
Indices: 69020964--69020995 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
69020954 CATTCTGTGA
69020964 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
69020996 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:69020989 original size:9 final size:9
Alignment explanation
Indices: 69020965--69020995 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
69020955 ATTCTGTGAA
69020965 AAATAAAAT
1 AAATAAAAT
69020974 AAAATAAAAT
1 -AAATAAAAT
69020984 AAATAAAAT
1 AAATAAAAT
69020993 AAA
1 AAA
69020996 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:69028475 original size:18 final size:18
Alignment explanation
Indices: 69028452--69028503 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
69028442 AAAATGTGAG
*
69028452 AAATGATATTCACATTTT
1 AAATGATATTCACATTTC
* *
69028470 AAATGATGTTCAGATTTC
1 AAATGATATTCACATTTC
*
69028488 AAATGATTTTCACATT
1 AAATGATATTCACATT
69028504 GATGGGAACG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.42
Consensus pattern (18 bp):
AAATGATATTCACATTTC
Found at i:69029045 original size:72 final size:72
Alignment explanation
Indices: 69028928--69029239 Score: 362
Period size: 72 Copynumber: 4.3 Consensus size: 72
69028918 CAATGCTAAA
*
69028928 CTAGTTTTATCAATAGTTA-TTTATGTTTGGTTTTTGGATATTGAATTTTTGTTCTACTTATTTA
1 CTAGTTTTATCAATAG-TAGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTA
69028992 TGTGTAAT
65 TGTGTAAT
* * * *
69029000 CTAGTTTTATCAATGGCAGTTTATGTTTGGTTTTTAGATATTGAATTTATATTCTACTTATTTAT
1 CTAGTTTTATCAATAGTAGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
69029065 GTGTAAT
66 GTGTAAT
* * * * * *
69029072 CTAGTTTTATTAATAGTTGTTTATGTTTGGTCTTTGGATGTTGAATTTATGGTCTAATTATTTAT
1 CTAGTTTTATCAATAGTAGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
**
69029137 GCT-TAGGG
66 G-TGTA-AT
* * * * *
69029145 CTAGTTTTATTAATAATTGTTTATGTTTGATTTTTGGATATTAAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTAGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
* *
69029210 ACT-AAAT
66 -GTGTAAT
* *
69029217 -TAGGTTTATCAATAGTTGTTTAT
1 CTAGTTTTATCAATAGTAGTTTAT
69029240 ATATGATTTT
Statistics
Matches: 205, Mismatches: 31, Indels: 9
0.84 0.13 0.04
Matches are distributed among these distances:
71 21 0.10
72 123 0.60
73 61 0.30
ACGTcount: A:0.24, C:0.06, G:0.16, T:0.54
Consensus pattern (72 bp):
CTAGTTTTATCAATAGTAGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
GTGTAAT
Found at i:69031001 original size:31 final size:31
Alignment explanation
Indices: 69030933--69031001 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
69030923 TATTTTAAAA
* **
69030933 TAAAATAATACAAATGTGTTAAAATCATTTT
1 TAAAATAATACAAATGTGTCAAAATCATAAT
* *
69030964 TAAAATAATACAATTGTGTCAATATC-TAAT
1 TAAAATAATACAAATGTGTCAAAATCATAAT
69030994 TACAAATA
1 TA-AAATA
69031002 TTTAATGATT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 4 0.12
31 28 0.88
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.36
Consensus pattern (31 bp):
TAAAATAATACAAATGTGTCAAAATCATAAT
Found at i:69034610 original size:17 final size:17
Alignment explanation
Indices: 69034599--69034634 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
69034589 TATTTTTAAT
69034599 ATTTTAAAATTTTAAAA
1 ATTTTAAAATTTTAAAA
*
69034616 ATTTTAAAGAGTTTAAAA
1 ATTTTAAA-ATTTTAAAA
69034634 A
1 A
69034635 AAATTCCAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.42
Consensus pattern (17 bp):
ATTTTAAAATTTTAAAA
Found at i:69042483 original size:43 final size:43
Alignment explanation
Indices: 69042422--69042509 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
69042412 ATATCTTCGA
69042422 TGTTAGCTCAGAAGTATGTGAGAATGGGTTGTGAAGCTTACTT
1 TGTTAGCTCAGAAGTATGTGAGAATGGGTTGTGAAGCTTACTT
69042465 TGTTAGCTCAGAAGTATGTGAGAATGGGTTGTGAAGCTTACTT
1 TGTTAGCTCAGAAGTATGTGAGAATGGGTTGTGAAGCTTACTT
69042508 TG
1 TG
69042510 CATATGTGCT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.25, C:0.09, G:0.31, T:0.35
Consensus pattern (43 bp):
TGTTAGCTCAGAAGTATGTGAGAATGGGTTGTGAAGCTTACTT
Found at i:69045751 original size:45 final size:46
Alignment explanation
Indices: 69045687--69045778 Score: 159
Period size: 45 Copynumber: 2.0 Consensus size: 46
69045677 AATTAAATTA
* *
69045687 ACCATTATTAGCAGGTTTAGTTTCA-TTTAAGTCATGCATATATAT
1 ACCATTATTAGCAGGTTTAGCTTCATTTTAAGTCAAGCATATATAT
69045732 ACCATTATTAGCAGGTTTAGCTTCATTTTAAGTCAAGCATATATAT
1 ACCATTATTAGCAGGTTTAGCTTCATTTTAAGTCAAGCATATATAT
69045778 A
1 A
69045779 TATTAATGCA
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
45 24 0.55
46 20 0.45
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (46 bp):
ACCATTATTAGCAGGTTTAGCTTCATTTTAAGTCAAGCATATATAT
Found at i:69054465 original size:126 final size:126
Alignment explanation
Indices: 69054240--69054491 Score: 504
Period size: 126 Copynumber: 2.0 Consensus size: 126
69054230 CATTAGTAAA
69054240 ATCTAAATCATCCATTATGCGCTTTGTGGCCTCCATCCAATCGTCGGCCACACTTGGAGCAACTC
1 ATCTAAATCATCCATTATGCGCTTTGTGGCCTCCATCCAATCGTCGGCCACACTTGGAGCAACTC
69054305 CAATGATGCCTCTTAATATCTCAGCTCCATTAGACCGGAATCGTTCCGTAACCGACCCACG
66 CAATGATGCCTCTTAATATCTCAGCTCCATTAGACCGGAATCGTTCCGTAACCGACCCACG
69054366 ATCTAAATCATCCATTATGCGCTTTGTGGCCTCCATCCAATCGTCGGCCACACTTGGAGCAACTC
1 ATCTAAATCATCCATTATGCGCTTTGTGGCCTCCATCCAATCGTCGGCCACACTTGGAGCAACTC
69054431 CAATGATGCCTCTTAATATCTCAGCTCCATTAGACCGGAATCGTTCCGTAACCGACCCACG
66 CAATGATGCCTCTTAATATCTCAGCTCCATTAGACCGGAATCGTTCCGTAACCGACCCACG
69054492 GCCTCCAGAT
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
126 126 1.00
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.26
Consensus pattern (126 bp):
ATCTAAATCATCCATTATGCGCTTTGTGGCCTCCATCCAATCGTCGGCCACACTTGGAGCAACTC
CAATGATGCCTCTTAATATCTCAGCTCCATTAGACCGGAATCGTTCCGTAACCGACCCACG
Found at i:69057726 original size:15 final size:15
Alignment explanation
Indices: 69057706--69057739 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
69057696 GCTTGGAAAG
69057706 TAAATCTGAGTTGGA
1 TAAATCTGAGTTGGA
69057721 TAAATCTGAGTTGGA
1 TAAATCTGAGTTGGA
69057736 TAAA
1 TAAA
69057740 GATGGTGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.38, C:0.06, G:0.24, T:0.32
Consensus pattern (15 bp):
TAAATCTGAGTTGGA
Found at i:69061343 original size:45 final size:44
Alignment explanation
Indices: 69061282--69061414 Score: 112
Period size: 45 Copynumber: 3.0 Consensus size: 44
69061272 ACATAGTTTG
* * * *
69061282 ATATGTGTTTTCGTGTAA-ATCCACGTTTGGGACGTTGGCATCGAT
1 ATATGTGGTTACGTGTAAGA-CCACGTCTGGGACATTGGCATC-AT
*
69061327 ATATGTGGTTACGTGTAAGACCATGTCTGGGACATTGGCATCAT
1 ATATGTGGTTACGTGTAAGACCACGTCTGGGACATTGGCATCAT
* * ** * *
69061371 AT-T-T-GTTTCATGTAAGACCTTGTCTGGGATAGTGGCATCGAT
1 ATATGTGGTTACGTGTAAGACCACGTCTGGGACATTGGCATC-AT
69061413 AT
1 AT
69061415 GAGATAGCAT
Statistics
Matches: 76, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
41 30 0.39
42 5 0.07
43 1 0.01
44 4 0.05
45 35 0.46
46 1 0.01
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (44 bp):
ATATGTGGTTACGTGTAAGACCACGTCTGGGACATTGGCATCAT
Found at i:69062856 original size:2 final size:2
Alignment explanation
Indices: 69062849--69062885 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
69062839 CAAATTATGT
69062849 TA TA TA TA TA 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 TA TA TA TA TA T
69062886 TGGTTTAGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:69062975 original size:13 final size:14
Alignment explanation
Indices: 69062948--69062978 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
69062938 AAGTGGACAA
69062948 TTGTTAAAGCATAT
1 TTGTTAAAGCATAT
69062962 TTGTTAAA-CATAT
1 TTGTTAAAGCATAT
69062975 TTGT
1 TTGT
69062979 AATCGGCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.48
Consensus pattern (14 bp):
TTGTTAAAGCATAT
Found at i:69069481 original size:15 final size:15
Alignment explanation
Indices: 69069457--69069500 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
69069447 GAAGCCCAGA
*
69069457 ATAAAAAAATCCAAG
1 ATAAAGAAATCCAAG
*
69069472 ATAAAGAAATCCATG
1 ATAAAGAAATCCAAG
*
69069487 ATAAGGAAATCCAA
1 ATAAAGAAATCCAA
69069501 TTTACAACAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.59, C:0.14, G:0.11, T:0.16
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:69072939 original size:39 final size:39
Alignment explanation
Indices: 69072885--69072959 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
69072875 ATAGAGTGAT
69072885 GTCGGGATTACCAGTCCAGGCTAAATCCCTTGTGACAAC
1 GTCGGGATTACCAGTCCAGGCTAAATCCCTTGTGACAAC
*
69072924 GTCGGGATTACCAGTCTAGGCTAAATCCCTTGTGAC
1 GTCGGGATTACCAGTCCAGGCTAAATCCCTTGTGAC
69072960 GACAAACACT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (39 bp):
GTCGGGATTACCAGTCCAGGCTAAATCCCTTGTGACAAC
Found at i:69076598 original size:43 final size:43
Alignment explanation
Indices: 69076537--69076710 Score: 233
Period size: 43 Copynumber: 4.1 Consensus size: 43
69076527 TTATGTGGAA
* * *
69076537 AAATGCCACTATAGAACATGACCTTTAGCGGCGCTTCTCTCAC
1 AAATGCCACTAAAGAACATGACCTTTAGCGGCACTTCTCCCAC
* *
69076580 AAATGCCACTAAAGAACATGACCTTTAG-TGCACTTCTCCCAA
1 AAATGCCACTAAAGAACATGACCTTTAGCGGCACTTCTCCCAC
* * *
69076622 AAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTCTCCCTC
1 AAATGCCACTAAAGAACATGACCTTTAGCGGCACTTCTCCCAC
** * *
69076665 AAATGCTGCTAAAGAACATGACCTTTAGTGGCGCTTCTCCCAC
1 AAATGCCACTAAAGAACATGACCTTTAGCGGCACTTCTCCCAC
69076708 AAA
1 AAA
69076711 CGCTGCTAAA
Statistics
Matches: 115, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
42 36 0.31
43 79 0.69
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.24
Consensus pattern (43 bp):
AAATGCCACTAAAGAACATGACCTTTAGCGGCACTTCTCCCAC
Found at i:69076643 original size:85 final size:86
Alignment explanation
Indices: 69076535--69076721 Score: 268
Period size: 85 Copynumber: 2.2 Consensus size: 86
69076525 GTTTATGTGG
* * * * *
69076535 AAAAATGCCACTATAGAACATGACCTTTAGCGGCGCTTCTCTCACAAATGCCACTAAAGAACATG
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTCTCCCACAAATGCCACTAAAGAACATG
69076600 ACCTTTAGT-GCACTTCTCCC
66 ACCTTTAGTGGCACTTCTCCC
* **
69076620 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTCTCCCTCAAATGCTGCTAAAGAACATG
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTCTCCCACAAATGCCACTAAAGAACATG
*
69076685 ACCTTTAGTGGCGCTTCTCCC
66 ACCTTTAGTGGCACTTCTCCC
* *
69076706 ACAAACGCTGCTAAAG
1 AAAAACGCCGCTAAAG
69076722 GTTATTAAAA
Statistics
Matches: 90, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
85 66 0.73
86 24 0.27
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (86 bp):
AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTCTCCCACAAATGCCACTAAAGAACATG
ACCTTTAGTGGCACTTCTCCC
Found at i:69078233 original size:32 final size:32
Alignment explanation
Indices: 69078191--69078324 Score: 155
Period size: 32 Copynumber: 4.1 Consensus size: 32
69078181 AAAAAGAAAG
69078191 AATAACAATCCATTAGATTAAATTCATTAAAA
1 AATAACAATCCATTAGATTAAATTCATTAAAA
* *
69078223 AATAATAATCCGTTAGATTAAATTCATT-AAA
1 AATAACAATCCATTAGATTAAATTCATTAAAA
*
69078254 AA-AACAATTCATTAGATTAAATTCATTAAAAAAA
1 AATAACAATCCATTAGATTAAATTCATT---AAAA
* **
69078288 GAATAACAATCCATAAAGATTAAATTTGTTAAAA
1 -AATAACAATCCAT-TAGATTAAATTCATTAAAA
69078322 AAT
1 AAT
69078325 CGCAAAGAAA
Statistics
Matches: 86, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
30 22 0.26
31 5 0.06
32 26 0.30
33 3 0.03
34 7 0.08
35 2 0.02
36 9 0.10
37 12 0.14
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.31
Consensus pattern (32 bp):
AATAACAATCCATTAGATTAAATTCATTAAAA
Found at i:69078271 original size:30 final size:30
Alignment explanation
Indices: 69078194--69078287 Score: 143
Period size: 30 Copynumber: 3.1 Consensus size: 30
69078184 AAGAAAGAAT
69078194 AACAATCCATTAGATTAAATTCATTAAAAAA
1 AACAATCCATTAGATTAAATTCATT-AAAAA
* *
69078225 TAATAATCCGTTAGATTAAATTCATTAAAAA
1 -AACAATCCATTAGATTAAATTCATTAAAAA
*
69078256 AACAATTCATTAGATTAAATTCATTAAAAA
1 AACAATCCATTAGATTAAATTCATTAAAAA
69078286 AA
1 AA
69078288 GAATAACAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
30 29 0.51
31 5 0.09
32 23 0.40
ACGTcount: A:0.53, C:0.11, G:0.04, T:0.32
Consensus pattern (30 bp):
AACAATCCATTAGATTAAATTCATTAAAAA
Found at i:69081958 original size:7 final size:7
Alignment explanation
Indices: 69081935--69081996 Score: 61
Period size: 8 Copynumber: 8.3 Consensus size: 7
69081925 GACTAAAATA
69081935 TTAAGTTT
1 TTAA-TTT
69081943 TTAAGTTT
1 TTAA-TTT
69081951 TTAATTTT
1 TTAA-TTT
69081959 TTAATTT
1 TTAATTT
*
69081966 TTTATTT
1 TTAATTT
69081973 TTAAATTT
1 TT-AATTT
*
69081981 TAAATTT
1 TTAATTT
*
69081988 TCAATTT
1 TTAATTT
69081995 TT
1 TT
69081997 TGAAGATTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
7 23 0.49
8 24 0.51
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (7 bp):
TTAATTT
Found at i:69081966 original size:15 final size:16
Alignment explanation
Indices: 69081935--69082008 Score: 64
Period size: 16 Copynumber: 4.7 Consensus size: 16
69081925 GACTAAAATA
*
69081935 TTAAGTTTTTAAGTTT
1 TTAAGTTTTTAATTTT
*
69081951 TTAATTTTTTAATTTT
1 TTAAGTTTTTAATTTT
*
69081967 TT-A-TTTTTAA-ATT
1 TTAAGTTTTTAATTTT
* *
69081980 TTAAATTTTCAATTTT
1 TTAAGTTTTTAATTTT
69081996 TTGAAGATTTTTA
1 TT-AAG-TTTTTA
69082009 TCATTTTTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
13 4 0.09
14 8 0.17
15 7 0.15
16 20 0.43
17 2 0.04
18 5 0.11
ACGTcount: A:0.28, C:0.01, G:0.05, T:0.65
Consensus pattern (16 bp):
TTAAGTTTTTAATTTT
Found at i:69082734 original size:15 final size:15
Alignment explanation
Indices: 69082710--69082741 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
69082700 CGAAATAATA
*
69082710 ATTTATATTTATCTT
1 ATTTAGATTTATCTT
69082725 ATTTAGATTTATCTT
1 ATTTAGATTTATCTT
69082740 AT
1 AT
69082742 AAAAAAATCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.62
Consensus pattern (15 bp):
ATTTAGATTTATCTT
Found at i:69083326 original size:40 final size:39
Alignment explanation
Indices: 69083277--69083421 Score: 157
Period size: 40 Copynumber: 3.6 Consensus size: 39
69083267 GCGTTTTCTG
69083277 AAAAGCACCGCTAATGCTCGATCTTTCACAGCATTTTTCA
1 AAAAGCACCGCTAATGCTCGATCTTT-ACAGCATTTTTCA
* * * * *
69083317 AAAAGCACCGCTAATTCTCGATCTATTGCGGCATTTTCCT
1 AAAAGCACCGCTAATGCTCGATCT-TTACAGCATTTTTCA
** * * *
69083357 AAAAGTGCCGCTAGTGCTCGATCTTTAGCTGCGTTTTTCA
1 AAAAGCACCGCTAATGCTCGATCTTTA-CAGCATTTTTCA
69083397 AAAAG-AGCCGCTAATGCTCGATCTT
1 AAAAGCA-CCGCTAATGCTCGATCTT
69083422 AAAAATACCG
Statistics
Matches: 86, Mismatches: 16, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
39 2 0.02
40 82 0.95
41 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (39 bp):
AAAAGCACCGCTAATGCTCGATCTTTACAGCATTTTTCA
Found at i:69083395 original size:80 final size:80
Alignment explanation
Indices: 69083262--69083420 Score: 207
Period size: 80 Copynumber: 2.0 Consensus size: 80
69083252 GTCAACTTTT
*
69083262 TTGCGGCGTTTTCTGAAAAGCACCGCTAATGCTCGATCTTTCACAGCATTTTTCAAAAAGCA-CC
1 TTGCGGCATTTTCTGAAAAGCACCGCTAATGCTCGATCTTTCACAGCATTTTTCAAAAAG-AGCC
*
69083326 GCTAATTCTCGATCTA
65 GCTAATGCTCGATCTA
** * * *
69083342 TTGCGGCATTTTCCT-AAAAGTGCCGCTAGTGCTCGATCTTT-AGCTGCGTTTTTCAAAAAGAGC
1 TTGCGGCATTTT-CTGAAAAGCACCGCTAATGCTCGATCTTTCA-CAGCATTTTTCAAAAAGAGC
69083405 CGCTAATGCTCGATCT
64 CGCTAATGCTCGATCT
69083421 TAAAAATACC
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
79 2 0.03
80 65 0.94
81 2 0.03
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (80 bp):
TTGCGGCATTTTCTGAAAAGCACCGCTAATGCTCGATCTTTCACAGCATTTTTCAAAAAGAGCCG
CTAATGCTCGATCTA
Found at i:69083972 original size:27 final size:27
Alignment explanation
Indices: 69083928--69083982 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
69083918 GATTTTTAAT
*
69083928 TATTAAAATAATAAAAAATTAATTATA
1 TATTAAAATAATAAAAAATTAAATATA
* *
69083955 TATTAAAATACTATAAAATTAAATATA
1 TATTAAAATAATAAAAAATTAAATATA
69083982 T
1 T
69083983 TTGTCTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (27 bp):
TATTAAAATAATAAAAAATTAAATATA
Found at i:69087472 original size:34 final size:33
Alignment explanation
Indices: 69087404--69087479 Score: 82
Period size: 34 Copynumber: 2.3 Consensus size: 33
69087394 TCATTTTTTA
* *
69087404 AAAAATTTAAAATATATTTTATTATTTTTAATT
1 AAAAATTTAAAATATAATATATTATTTTTAATT
* *
69087437 AAAAATTTAAAATTTTAATATATT-TTTATTTATT
1 AAAAATTTAAAA-TATAATATATTATTT-TTAATT
*
69087471 AAAATTTTA
1 AAAAATTTA
69087480 TATGTAGTCA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
33 15 0.42
34 21 0.58
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (33 bp):
AAAAATTTAAAATATAATATATTATTTTTAATT
Found at i:69088970 original size:58 final size:58
Alignment explanation
Indices: 69088908--69089017 Score: 148
Period size: 58 Copynumber: 1.9 Consensus size: 58
69088898 CCGATGGTAG
* * * *
69088908 TGATTTGACACGGTTTTCATCACGTAAGTTCAAGTCGAGTAGGCTTGGTTGAAAGTTA
1 TGATTCGACACGATTTTCATCACGTAAATTCAAGTCGAGTAGACTTGGTTGAAAGTTA
* * * *
69088966 TGATTCGACACGATTTTCATTATGTAAATTCAAGTTGATTAGACTTGGTTGA
1 TGATTCGACACGATTTTCATCACGTAAATTCAAGTCGAGTAGACTTGGTTGA
69089018 CGTGATTTGA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
58 44 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (58 bp):
TGATTCGACACGATTTTCATCACGTAAATTCAAGTCGAGTAGACTTGGTTGAAAGTTA
Found at i:69089233 original size:48 final size:48
Alignment explanation
Indices: 69089136--69089254 Score: 152
Period size: 48 Copynumber: 2.5 Consensus size: 48
69089126 GAAGCAAGAT
** * * *
69089136 CTTT-TTACTTTCTGTAAGCCTC-CATCCATGCGTTTGGGAGTAGGGTCA
1 CTTTATTACTTTCCATAAGCCTCTC--CCATGCGTTTGAGAATAGGATCA
*
69089184 CTTTATTACTTTTCATAAGCCTCTCCCATGCGTTTGAGAATAGGATCA
1 CTTTATTACTTTCCATAAGCCTCTCCCATGCGTTTGAGAATAGGATCA
69089232 CTTTATTACTTTCCATAAGCCTC
1 CTTTATTACTTTCCATAAGCCTC
69089255 CCTCCATGTA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
48 46 0.74
49 15 0.24
50 1 0.02
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (48 bp):
CTTTATTACTTTCCATAAGCCTCTCCCATGCGTTTGAGAATAGGATCA
Found at i:69089390 original size:49 final size:48
Alignment explanation
Indices: 69089136--69089551 Score: 224
Period size: 49 Copynumber: 8.5 Consensus size: 48
69089126 GAAGCAAGAT
* * *
69089136 CTTT-TTAC-TTTCTGTAAGCCTCCATCCATGCGTTTGGGAGTAGGGTCA
1 CTTTATTACTTTTC-GTAAGCCTCC-CCCATGCGTTTAGGAGTAAGGTCA
* * *
69089184 CTTTATTACTTTTCATAAGCCTCTCCCATGCGTTT--GAGAATAGGATCA
1 CTTTATTACTTTTCGTAAGCCTCCCCCATGCGTTTAGGAGTA-AGG-TCA
* * ** * * * *
69089232 CTTTATTACTTTCCATAAGCCTCCCTCCATGTATCTAGGAATAGGGTTA
1 CTTTATTACTTTTCGTAAGCCTCCC-CCATGCGTTTAGGAGTAAGGTCA
* * * * * * *
69089281 -TCTTATTAC-CTTCTGTAAGCCTCCCCTTATACATCTGGGAGTAACGTCA
1 CT-TTATTACTTTTC-GTAAGCCTCCCC-CATGCGTTTAGGAGTAAGGTCA
* * *
69089330 -TGTTATCACTTTTCGTAAGCCTCCCCCTATACGTTTAGGAGCAAGGTCA
1 CT-TTATTACTTTTCGTAAGCCTCCCCC-ATGCGTTTAGGAGTAAGGTCA
* * * * * * *
69089379 CTTTATTACTTTTTGTAAGTCTTACCCCTTGCGTCTAGGAATAAGGTTA
1 CTTTATTACTTTTCGTAAG-CCTCCCCCATGCGTTTAGGAGTAAGGTCA
* * * *
69089428 -TATTATTACTTTTCGTAAGCCTCCTCCCATGTGTTTGGGAG-CAGAGTTA
1 CT-TTATTACTTTTCGTAAGCCTCC-CCCATGCGTTTAGGAGTAAG-GTCA
* * * * * *
69089477 CTTTATTACCTTTCGTAAGCCTCCCTCTATGC-TATTAGAAGCAGGGTTA
1 CTTTATTACTTTTCGTAAGCCTCCC-CCATGCGT-TTAGGAGTAAGGTCA
*
69089526 CTTTATTAC-TTACTGTAAGCCTCCCC
1 CTTTATTACTTTTC-GTAAGCCTCCCC
69089552 TGTGCATTTG
Statistics
Matches: 285, Mismatches: 61, Indels: 44
0.73 0.16 0.11
Matches are distributed among these distances:
46 4 0.01
47 2 0.01
48 56 0.20
49 202 0.71
50 18 0.06
51 3 0.01
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (48 bp):
CTTTATTACTTTTCGTAAGCCTCCCCCATGCGTTTAGGAGTAAGGTCA
Found at i:69089467 original size:147 final size:146
Alignment explanation
Indices: 69089140--69089536 Score: 371
Period size: 147 Copynumber: 2.7 Consensus size: 146
69089130 CAAGATCTTT
* *
69089140 TTACTTTCTGTAAGCCTCCAT-CCATGCGTTTGGGAGTAGGGTCACTTTATTACTTTTCATAAGC
1 TTACTTTCTGTAAGCCTCC-TCCCATGCGTTTGGGAGTA-AGTCACTTTATTACTTTTCGTAAGC
* * * *
69089204 CTCTCCC-ATGCGTTT--GAGAATAGGATCACTTTATTACTTTCCATAAGCCTCCCTCCATGTAT
64 CTCCCCCTATGCGTTTAGGAGCA-AGG-TCACTTTATTACTTTCCATAAGCCTACCTCCATGCAT
* *
69089266 CTAGGAATAGGGTTATCTTA
127 CTAGGAATAAGGTTATATTA
* * * * * *
69089286 TTACCTTCTGTAAGCCTCC-CCTTATACATCTGGGAGTAACGTCA-TGTTATCACTTTTCGTAAG
1 TTACTTTCTGTAAGCCTCCTCC-CATGCGTTTGGGAGTAA-GTCACT-TTATTACTTTTCGTAAG
* *** * * *
69089349 CCTCCCCCTATACGTTTAGGAGCAAGGTCACTTTATTACTTTTTGTAAGTCTTACC-CCTTGCGT
63 CCTCCCCCTATGCGTTTAGGAGCAAGGTCACTTTATTACTTTCCATAAG-CCTACCTCCATGCAT
69089413 CTAGGAATAAGGTTATATTA
127 CTAGGAATAAGGTTATATTA
* * * *
69089433 TTACTTT-TCGTAAGCCTCCTCCCATGTGTTTGGGAGCAGAGTTACTTTATTACCTTTCGTAAGC
1 TTACTTTCT-GTAAGCCTCCTCCCATGCGTTTGGGAGTA-AGTCACTTTATTACTTTTCGTAAGC
* * * *
69089497 CTCCCTCTATGC-TATTAGAAGCAGGGTTACTTTATTACTT
64 CTCCCCCTATGCGT-TTAGGAGCAAGGTCACTTTATTACTT
69089537 ACTGTAAGCC
Statistics
Matches: 202, Mismatches: 36, Indels: 25
0.77 0.14 0.10
Matches are distributed among these distances:
145 2 0.01
146 58 0.29
147 127 0.63
148 11 0.05
149 4 0.02
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (146 bp):
TTACTTTCTGTAAGCCTCCTCCCATGCGTTTGGGAGTAAGTCACTTTATTACTTTTCGTAAGCCT
CCCCCTATGCGTTTAGGAGCAAGGTCACTTTATTACTTTCCATAAGCCTACCTCCATGCATCTAG
GAATAAGGTTATATTA
Found at i:69089633 original size:19 final size:19
Alignment explanation
Indices: 69089609--69089650 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
69089599 TTGCAATAGA
69089609 TACAGTAATACAATAGACC
1 TACAGTAATACAATAGACC
*
69089628 TACAGTAATACAATAGACT
1 TACAGTAATACAATAGACC
69089647 TACA
1 TACA
69089651 TTTGAGCCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.48, C:0.19, G:0.10, T:0.24
Consensus pattern (19 bp):
TACAGTAATACAATAGACC
Found at i:69091210 original size:3 final size:3
Alignment explanation
Indices: 69091202--69091262 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
69091192 AAAAGTATAG
69091202 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
69091250 ATT ATT ATT ATT A
1 ATT ATT ATT ATT A
69091263 AAAATGCCAG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:69094972 original size:17 final size:16
Alignment explanation
Indices: 69094949--69094989 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
69094939 AAAATATAAT
69094949 AAAAATATATT-TATA
1 AAAAATATATTATATA
69094964 AGAATAATA-ATTATATA
1 A-AA-AATATATTATATA
69094981 AAAAATATA
1 AAAAATATA
69094990 AAATATATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
15 5 0.23
16 8 0.36
17 9 0.41
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (16 bp):
AAAAATATATTATATA
Found at i:69095526 original size:17 final size:18
Alignment explanation
Indices: 69095473--69095598 Score: 166
Period size: 17 Copynumber: 6.9 Consensus size: 18
69095463 AATCATATCT
*
69095473 TCTAAGATTGTATATCATA
1 TCTAAGATTG-CTATCATA
* *
69095492 TCTAATATTGCAATCATA
1 TCTAAGATTGCTATCATA
69095510 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
69095527 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
69095545 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
69095562 TCTAAGATTGCATATCACA
1 TCTAAGATTGC-TATCATA
69095581 TCTAAGATTGCATATCAT
1 TCTAAGATTGC-TATCAT
69095599 TGAAGATTAT
Statistics
Matches: 95, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
17 32 0.34
18 31 0.33
19 32 0.34
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (18 bp):
TCTAAGATTGCTATCATA
Found at i:69095531 original size:35 final size:35
Alignment explanation
Indices: 69095473--69095590 Score: 191
Period size: 35 Copynumber: 3.3 Consensus size: 35
69095463 AATCATATCT
*
69095473 TCTAAGATTGTATATCATATCTAATATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
69095510 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
*
69095545 TCTAAGATTGTATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCATA
69095581 TCTAAGATTG
1 TCTAAGATTG
69095591 CATATCATTG
Statistics
Matches: 78, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
35 53 0.68
36 15 0.19
37 10 0.13
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.38
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:69096645 original size:119 final size:119
Alignment explanation
Indices: 69096213--69096726 Score: 823
Period size: 119 Copynumber: 4.3 Consensus size: 119
69096203 CTGGAGTCTG
* * * **
69096213 TTTGAGAACATCTGAGATTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATGT
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* * * *
69096278 CAAATCATCTTGGATCTGGCTTCAGTATAAACATCTGAAGGTTAGATCTGCCATG
66 CAAATCATCTTGGATCT-GCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
*
69096333 TGTCTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGGTCCTTGTAAACACAAGAAT
1 T-T-TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAAT
*
69096398 ACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTG-AAGTTTAGATCTGCTATA
64 ACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAG-CTAGATCTGCTATA
*
69096454 TGTCTGAGAACATCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGAAT
1 T-T-TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAAT
* * *
69096519 ACCAAATCATCGTGGATCTGTTTCAGTATAAACATCTAAAAGCTAGATCTGCTATA
64 ACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
69096575 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
*
69096640 CAAATCATCTTGGATCTGTTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
69096694 TTTGAGAACATCTGAGAGTCAAATCTGCTATGT
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGT
69096727 TCAACTTGTT
Statistics
Matches: 372, Mismatches: 18, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
119 147 0.40
120 4 0.01
121 144 0.39
122 77 0.21
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (119 bp):
TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
Found at i:69096653 original size:240 final size:241
Alignment explanation
Indices: 69096213--69096726 Score: 838
Period size: 240 Copynumber: 2.1 Consensus size: 241
69096203 CTGGAGTCTG
* * **
69096213 TTTGAGAACATCTGAGATTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATGT
1 TTTGAGAACATCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* * * * *
69096278 CAAATCATCTTGGATCTGGCTTCAGTATAAACATCTGAAGGTTAGATCTGCCATGTGTCTGAGAA
66 CAAATCATCGTGGATCTGGCTTCAGTATAAACATCTAAAAGCTAGATCTGCCATATGTCTGAGAA
69096343 CATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGGTCCTTGTAAACACAAGAATACCAAATCAT
131 CATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGGTCCTTGTAAACACAAGAATACCAAATCAT
*
69096408 CTTGGATCTGCTTCAGTATAAACATCTG-AAGTTTAGATCTGCTATA
196 CTTGGATCTGCTTCAGTATAAACATCTGAAAG-CTAGATCTGCTATA
69096454 TGTCTGAGAACATCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGAAT
1 T-T-TGAGAACATCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGAAT
* *
69096519 ACCAAATCATCGTGGATCT-GTTTCAGTATAAACATCTAAAAGCTAGATCTGCTATAT-T-TGAG
64 ACCAAATCATCGTGGATCTGGCTTCAGTATAAACATCTAAAAGCTAGATCTGCCATATGTCTGAG
*
69096581 AACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATC
129 AACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGGTCCTTGTAAACACAAGAATACCAAATC
*
69096646 ATCTTGGATCTGTTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
194 ATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
*
69096694 TTTGAGAACATCTGAGAGTCAAATCTGCTATGT
1 TTTGAGAACATCTGAGAGTCAAATCTACTATGT
69096727 TCAACTTGTT
Statistics
Matches: 255, Mismatches: 15, Indels: 9
0.91 0.05 0.03
Matches are distributed among these distances:
238 30 0.12
239 1 0.00
240 111 0.44
241 5 0.02
242 33 0.13
243 75 0.29
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (241 bp):
TTTGAGAACATCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
CAAATCATCGTGGATCTGGCTTCAGTATAAACATCTAAAAGCTAGATCTGCCATATGTCTGAGAA
CATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGGTCCTTGTAAACACAAGAATACCAAATCAT
CTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
Found at i:69097756 original size:8 final size:8
Alignment explanation
Indices: 69097743--69097799 Score: 59
Period size: 8 Copynumber: 7.6 Consensus size: 8
69097733 GGCCTCTCCA
69097743 TTTTTCTT
1 TTTTTCTT
*
69097751 TTTTTCTC
1 TTTTTCTT
*
69097759 TTTTT-TA
1 TTTTTCTT
69097766 TTTTTC--
1 TTTTTCTT
69097772 TTTTTCTT
1 TTTTTCTT
*
69097780 TTTTT-AT
1 TTTTTCTT
69097787 TTTTTCTT
1 TTTTTCTT
69097795 TTTTT
1 TTTTT
69097800 TTTGAAATAG
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
6 6 0.15
7 12 0.29
8 23 0.56
ACGTcount: A:0.04, C:0.11, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTTTCTT
Found at i:69097769 original size:15 final size:13
Alignment explanation
Indices: 69097743--69097802 Score: 59
Period size: 14 Copynumber: 4.3 Consensus size: 13
69097733 GGCCTCTCCA
69097743 TTTTTCTTTTTTTC
1 TTTTT-TTTTTTTC
69097757 TCTTTTTTATTTTTC
1 T-TTTTTT-TTTTTC
*
69097772 TTTTTCTTTTTTTA
1 TTTTT-TTTTTTTC
69097786 TTTTTTCTTTTTT-
1 TTTTTT-TTTTTTC
69097799 TTTT
1 TTTT
69097803 GAAATAGAAG
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
13 5 0.12
14 23 0.56
15 13 0.32
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (13 bp):
TTTTTTTTTTTTC
Found at i:69097775 original size:20 final size:21
Alignment explanation
Indices: 69097742--69097802 Score: 81
Period size: 21 Copynumber: 2.9 Consensus size: 21
69097732 TGGCCTCTCC
*
69097742 ATTTTTCTTTTTTTCTCTTTTTT
1 ATTTTT-TCTTTTTCT-TTTTTT
69097765 A-TTTTTCTTTTTCTTTTTTT
1 ATTTTTTCTTTTTCTTTTTTT
69097785 ATTTTTTCTTTTT-TTTTT
1 ATTTTTTCTTTTTCTTTTT
69097803 GAAATAGAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
20 12 0.33
21 19 0.53
22 4 0.11
23 1 0.03
ACGTcount: A:0.05, C:0.10, G:0.00, T:0.85
Consensus pattern (21 bp):
ATTTTTTCTTTTTCTTTTTTT
Found at i:69099185 original size:12 final size:11
Alignment explanation
Indices: 69099168--69099193 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
69099158 CTGTAATTTG
69099168 TTTTTTTTTTC
1 TTTTTTTTTTC
69099179 TTTTTTTTTTC
1 TTTTTTTTTTC
69099190 TTTT
1 TTTT
69099194 GGCAACTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:69101658 original size:17 final size:18
Alignment explanation
Indices: 69101617--69101730 Score: 160
Period size: 17 Copynumber: 6.3 Consensus size: 18
69101607 TAAAATTGTA
69101617 TATCATATCTAAGATTGC
1 TATCATATCTAAGATTGC
*
69101635 AATCATATCTAAGATTG-
1 TATCATATCTAAGATTGC
69101652 TATCATATCTAAGATTGC
1 TATCATATCTAAGATTGC
*
69101670 AATCATATCTAAGATTG-
1 TATCATATCTAAGATTGC
69101687 TATCATATCTAAGATTGC
1 TATCATATCTAAGATTGC
* *
69101705 ATATCACATCTTAGATTGC
1 -TATCATATCTAAGATTGC
69101724 ATATCAT
1 -TATCAT
69101731 TGAAGATTAT
Statistics
Matches: 86, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
17 32 0.37
18 32 0.37
19 22 0.26
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (18 bp):
TATCATATCTAAGATTGC
Found at i:69101663 original size:35 final size:35
Alignment explanation
Indices: 69101617--69101722 Score: 185
Period size: 35 Copynumber: 3.0 Consensus size: 35
69101607 TAAAATTGTA
69101617 TATCATATCTAAGATTGCAATCATATCTAAGATTG
1 TATCATATCTAAGATTGCAATCATATCTAAGATTG
69101652 TATCATATCTAAGATTGCAATCATATCTAAGATTG
1 TATCATATCTAAGATTGCAATCATATCTAAGATTG
* *
69101687 TATCATATCTAAGATTGCATATCACATCTTAGATTG
1 TATCATATCTAAGATTGCA-ATCATATCTAAGATTG
69101723 CATATCATTG
Statistics
Matches: 68, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
35 54 0.79
36 14 0.21
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (35 bp):
TATCATATCTAAGATTGCAATCATATCTAAGATTG
Found at i:69106815 original size:21 final size:21
Alignment explanation
Indices: 69106753--69106855 Score: 76
Period size: 20 Copynumber: 5.2 Consensus size: 21
69106743 CTTTTGGGGT
* ** *
69106753 TTCAGTTTAGCTCTAATGAGC
1 TTCAGTTTAGCACTTGTGTGC
*
69106774 TTCAG-TTAGC-CTT-TGGGC
1 TTCAGTTTAGCACTTGTGTGC
*
69106792 TTCTGTTTAGCACTTGTGTGC
1 TTCAGTTTAGCACTTGTGTGC
69106813 TTCAG-TTAGC-CTTCG-G-GC
1 TTCAGTTTAGCACTT-GTGTGC
* *
69106831 TTCCGTTTAGCACTTATGTGC
1 TTCAGTTTAGCACTTGTGTGC
69106852 TTCA
1 TTCA
69106856 ACTAGACTTC
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
18 14 0.21
19 16 0.24
20 18 0.27
21 18 0.27
ACGTcount: A:0.15, C:0.22, G:0.22, T:0.41
Consensus pattern (21 bp):
TTCAGTTTAGCACTTGTGTGC
Found at i:69106815 original size:39 final size:39
Alignment explanation
Indices: 69106757--69106872 Score: 151
Period size: 39 Copynumber: 3.0 Consensus size: 39
69106747 TGGGGTTTCA
* * * * *
69106757 GTTTAGCTCTAATGAGCTTCAGTTAGCCTTTGGGCTTCT
1 GTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCC
*
69106796 GTTTAGCACTTGTGTGCTTCAGTTAGCCTTCGGGCTTCC
1 GTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCC
** *
69106835 GTTTAGCACTTATGTGCTTCAACTAGACTTCGGGCTTC
1 GTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTC
69106873 AAATCACGAT
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 67 1.00
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.39
Consensus pattern (39 bp):
GTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCC
Found at i:69115317 original size:41 final size:44
Alignment explanation
Indices: 69115200--69115332 Score: 146
Period size: 45 Copynumber: 3.0 Consensus size: 44
69115190 AGTATTTCTA
* * *
69115200 ATATGTGTTCTTGTGTAAAACCATGTCTGGGACGCTGGCATCGAT
1 ATATGTGAT-TTGTGTAAGACCATGTCTGGGACACTGGCATCGAT
* * *
69115245 ATATGTGATTACGTGTAAGACCACGTCTGGGACATTGGCATCG-T
1 ATATGTGATT-TGTGTAAGACCATGTCTGGGACACTGGCATCGAT
* * *
69115289 AT-T-TGATTTGTGTAAGACCTTGTTTGGGACAGTGGCATCGAT
1 ATATGTGATTTGTGTAAGACCATGTCTGGGACACTGGCATCGAT
69115331 AT
1 AT
69115333 GAGATAGCAT
Statistics
Matches: 75, Mismatches: 11, Indels: 7
0.81 0.12 0.08
Matches are distributed among these distances:
41 27 0.36
42 8 0.11
43 1 0.01
44 4 0.05
45 35 0.47
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (44 bp):
ATATGTGATTTGTGTAAGACCATGTCTGGGACACTGGCATCGAT
Found at i:69115367 original size:84 final size:85
Alignment explanation
Indices: 69115210--69115369 Score: 218
Period size: 84 Copynumber: 1.9 Consensus size: 85
69115200 ATATGTGTTC
* *
69115210 TTGTGTAAAACCATGTCTGGGACGCTGGCATCGATATATGTGATTACGTGTAAGACCACGTCTGG
1 TTGTGTAAAACCATGTCTGGGACGCTGGCATCGA-ATATGAGATTACATGTAAGACCACGTCTGG
69115275 GACATTGGCATCGTATTTGAT
65 GACATTGGCATCGTATTTGAT
* * *
69115296 TTGTGTAAGACCTTGTTTGGGACAG-TGGCATCG-ATATGAGA-TAGCATGTAAGACCACGTCTG
1 TTGTGTAAAACCATGTCTGGGAC-GCTGGCATCGAATATGAGATTA-CATGTAAGACCACGTCTG
*
69115358 GGACGTTGGCAT
64 GGACATTGGCAT
69115370 TTTTCAATAT
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
83 2 0.03
84 35 0.53
86 28 0.42
87 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (85 bp):
TTGTGTAAAACCATGTCTGGGACGCTGGCATCGAATATGAGATTACATGTAAGACCACGTCTGGG
ACATTGGCATCGTATTTGAT
Found at i:69116504 original size:2 final size:2
Alignment explanation
Indices: 69116497--69116534 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
69116487 TCGGCACTTG
69116497 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
69116535 TATATATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:69116539 original size:2 final size:2
Alignment explanation
Indices: 69116534--69116561 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
69116524 ACACACACAC
69116534 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
69116562 TTGCACATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:69119210 original size:14 final size:15
Alignment explanation
Indices: 69119161--69119210 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
69119151 GTATCTTGGG
*
69119161 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
69119176 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
69119191 TTTCTTTATT-TGGT
1 TTTCTTTATTCTGGA
69119205 TTTCTT
1 TTTCTT
69119211 GTTATCTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 9 0.29
15 22 0.71
ACGTcount: A:0.10, C:0.16, G:0.12, T:0.62
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:69121643 original size:46 final size:46
Alignment explanation
Indices: 69121593--69121768 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
69121583 TGGTTGAGCA
* *
69121593 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
69121639 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
69121686 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
69121732 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
69121769 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 62 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:69121749 original size:93 final size:93
Alignment explanation
Indices: 69121590--69121761 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
69121580 GGATGGTTGA
* * * *
69121590 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
69121655 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
69121683 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
69121748 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
69121762 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Done.