Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 30 of 153
Found at i:10610297 original size:32 final size:32
Alignment explanation
Indices: 10610212--10610298 Score: 95
Period size: 33 Copynumber: 2.7 Consensus size: 32
10610202 TTTCTGAAAA
* *
10610212 ATGATTTATTGAAAATATTTTTTGATGTTTGG
1 ATGATTTTTTGAAAATATTTTCTGATGTTTGG
* * * *
10610244 ATGAATCTGTGTAAAATATTTTCTGTTGTTTGG
1 ATGATTTTTTG-AAAATATTTTCTGATGTTTGG
10610277 CA-GATTTTTTGAAAATATTTTC
1 -ATGATTTTTTGAAAATATTTTC
10610299 CGAAAAAGTT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
32 18 0.41
33 25 0.57
34 1 0.02
ACGTcount: A:0.28, C:0.05, G:0.17, T:0.51
Consensus pattern (32 bp):
ATGATTTTTTGAAAATATTTTCTGATGTTTGG
Found at i:10610342 original size:20 final size:20
Alignment explanation
Indices: 10610319--10610357 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
10610309 ATTTTTACAT
10610319 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
10610339 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
10610358 TTTTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:10629413 original size:9 final size:9
Alignment explanation
Indices: 10629399--10629427 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
10629389 AGGTAAGTTA
10629399 TTTTATTTT
1 TTTTATTTT
10629408 TTTTA-TTT
1 TTTTATTTT
10629416 TTTTATTTT
1 TTTTATTTT
10629425 TTT
1 TTT
10629428 AATATCTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTATTTT
Found at i:10629416 original size:8 final size:8
Alignment explanation
Indices: 10629399--10629428 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
10629389 AGGTAAGTTA
10629399 TTTTATTTT
1 TTTTA-TTT
10629408 TTTTATTT
1 TTTTATTT
10629416 TTTTATTT
1 TTTTATTT
10629424 TTTTA
1 TTTTA
10629429 ATATCTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 16 0.76
9 5 0.24
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTATTT
Found at i:10629719 original size:16 final size:16
Alignment explanation
Indices: 10629698--10629734 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
10629688 TTGGTTCGCT
10629698 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
10629714 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
10629730 GTAAT
1 GTAAT
10629735 AGGTAATTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.35, T:0.22
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:10629800 original size:44 final size:46
Alignment explanation
Indices: 10629714--10629801 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 46
10629704 GAATAGAGGC
* *
10629714 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGACT
1 GTAATGGAATAGAGGCATAATAGGTAATTCTTGTGTTTGGTTGACT
10629760 GTAATGGAATAGAGGCATAAT-GGT-ATTCTTGTGTTTGGTTGA
1 GTAATGGAATAGAGGCATAATAGGTAATTCTTGTGTTTGGTTGA
10629802 ATGGAATAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 17 0.43
45 3 0.08
46 20 0.50
ACGTcount: A:0.26, C:0.06, G:0.30, T:0.39
Consensus pattern (46 bp):
GTAATGGAATAGAGGCATAATAGGTAATTCTTGTGTTTGGTTGACT
Found at i:10629805 original size:39 final size:44
Alignment explanation
Indices: 10629714--10629813 Score: 129
Period size: 46 Copynumber: 2.3 Consensus size: 44
10629704 GAATAGAGGC
* *
10629714 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGACT
1 GTAATGGAATAGAGGCATAATAGGTAATTCTTGTGTTTGGTT-A-T
10629760 GTAATGGAATAGAGGCATAAT-GGT-ATTCTTGTGTTTGG-T-T
1 GTAATGGAATAGAGGCATAATAGGTAATTCTTGTGTTTGGTTAT
10629800 G-AATGGAATAGAGG
1 GTAATGGAATAGAGG
10629814 TGTAATAGCA
Statistics
Matches: 52, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
39 13 0.25
40 2 0.04
43 1 0.02
44 13 0.25
45 3 0.06
46 20 0.38
ACGTcount: A:0.28, C:0.05, G:0.31, T:0.36
Consensus pattern (44 bp):
GTAATGGAATAGAGGCATAATAGGTAATTCTTGTGTTTGGTTAT
Found at i:10629972 original size:26 final size:27
Alignment explanation
Indices: 10629943--10629994 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
10629933 ATAATTTAAT
* *
10629943 TATATTTTAATATAACTGTT-ATAAAA
1 TATAATTTAATAAAACTGTTAATAAAA
*
10629969 TATAATTTAATAAAATTGTTAATAAA
1 TATAATTTAATAAAACTGTTAATAAA
10629995 TATTCTTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (27 bp):
TATAATTTAATAAAACTGTTAATAAAA
Found at i:10630072 original size:26 final size:28
Alignment explanation
Indices: 10630042--10630105 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
10630032 TAATACTATA
*
10630042 AAATATAATTTAA-AATAAT-TATTATT
1 AAATATAATTTAATAATAATATATAATT
10630068 AAATATAATTTAATAATAATATATAATT
1 AAATATAATTTAATAATAATATATAATT
* *
10630096 TAATAAAATT
1 AAATATAATT
10630106 CTTATTATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 13 0.39
27 6 0.18
28 14 0.42
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (28 bp):
AAATATAATTTAATAATAATATATAATT
Found at i:10630138 original size:44 final size:41
Alignment explanation
Indices: 10630039--10630138 Score: 103
Period size: 44 Copynumber: 2.3 Consensus size: 41
10630029 ATATAATACT
10630039 ATAAAATATAATTTAAAATAATTATTATTAAATATAATTTA
1 ATAAAATATAATTTAAAATAATTATTATTAAATATAATTTA
* *
10630080 ATAATAATATATAATTTAATAA-AATTCTTATTATTATATGAATTTA
1 AT-A-AA-ATATAATTTAA-AATAATTATTATTA-AATAT-AATTTA
*
10630126 TTAAAATCATAAT
1 ATAAAAT-ATAAT
10630139 ATATAATACT
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
41 2 0.04
42 1 0.02
43 4 0.08
44 28 0.57
45 7 0.14
46 7 0.14
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (41 bp):
ATAAAATATAATTTAAAATAATTATTATTAAATATAATTTA
Found at i:10631384 original size:49 final size:49
Alignment explanation
Indices: 10631312--10631415 Score: 145
Period size: 49 Copynumber: 2.1 Consensus size: 49
10631302 GAAAAAAAAC
* * ** * *
10631312 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATAAAAAACTCAACACTGTATA
*
10631361 AAATTAAAATTGAGTTCAATATCATGAATAAAAAACTCAACACTGTATA
1 AAATTAAAATTAAGTTCAATATCATGAATAAAAAACTCAACACTGTATA
10631410 AAATTA
1 AAATTA
10631416 TAACACATGA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.51, C:0.10, G:0.09, T:0.31
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATATCATGAATAAAAAACTCAACACTGTATA
Found at i:10634014 original size:18 final size:19
Alignment explanation
Indices: 10633981--10634021 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
10633971 ATATATAAAA
10633981 ATACCAATAAAAATTATCCT
1 ATACCAAT-AAAATTATCCT
10634001 ATACCAAT-AAATTATCCT
1 ATACCAATAAAATTATCCT
10634019 ATA
1 ATA
10634022 AAGTCCATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 13 0.62
20 8 0.38
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.32
Consensus pattern (19 bp):
ATACCAATAAAATTATCCT
Found at i:10634200 original size:25 final size:25
Alignment explanation
Indices: 10634166--10634227 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 25
10634156 CAATTTACTA
*
10634166 GAATTGCAACTATAAAATACCTCTT
1 GAATTGCAACTATAAAACACCTCTT
10634191 GAATTGCAACTATAAAACACCTCTT
1 GAATTGCAACTATAAAACACCTCTT
*
10634216 GAAATGCAACTA
1 GAATTGCAACTA
10634228 GAGCTTCATC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.42, C:0.21, G:0.10, T:0.27
Consensus pattern (25 bp):
GAATTGCAACTATAAAACACCTCTT
Found at i:10634487 original size:26 final size:26
Alignment explanation
Indices: 10634457--10634514 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
10634447 CCGTAAAATA
10634457 CTGCAGCTAATACCAATGACAAAAAC
1 CTGCAGCTAATACCAATGACAAAAAC
*
10634483 CTGCAGCTAATATCAATGACAAAAAC
1 CTGCAGCTAATACCAATGACAAAAAC
10634509 CTGCAG
1 CTGCAG
10634515 GTAGAAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.43, C:0.26, G:0.14, T:0.17
Consensus pattern (26 bp):
CTGCAGCTAATACCAATGACAAAAAC
Found at i:10642897 original size:16 final size:16
Alignment explanation
Indices: 10642876--10642915 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
10642866 CATATATATT
10642876 TATTTTTAATCAAATA
1 TATTTTTAATCAAATA
* *
10642892 TATTTTTTATTAAATA
1 TATTTTTAATCAAATA
10642908 TATATTTT
1 TAT-TTTT
10642916 TTGGACTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (16 bp):
TATTTTTAATCAAATA
Found at i:10642904 original size:20 final size:19
Alignment explanation
Indices: 10642859--10642917 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 19
10642849 CTGAATTGTA
10642859 TATTAAACATATATATTTATT
1 TATT-AACATATATATTT-TT
*
10642880 T-TTAATCAAATATATTTTT
1 TATTAA-CATATATATTTTT
10642899 TATTAA-ATATATATTTTT
1 TATTAACATATATATTTTT
10642917 T
1 T
10642918 GGACTTTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
18 12 0.35
19 5 0.15
20 16 0.47
21 1 0.03
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (19 bp):
TATTAACATATATATTTTT
Found at i:10649211 original size:18 final size:18
Alignment explanation
Indices: 10649188--10649230 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
10649178 ACCCAATCTA
**
10649188 AACCCAAGTATTCAACCC
1 AACCCAAGTACCCAACCC
*
10649206 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
10649224 AACCCAA
1 AACCCAA
10649231 CCATAAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.44, G:0.02, T:0.12
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:10649352 original size:9 final size:9
Alignment explanation
Indices: 10649338--10649431 Score: 125
Period size: 9 Copynumber: 10.4 Consensus size: 9
10649328 GTAGTGATTC
*
10649338 AATTTGGTT
1 AATTCGGTT
*
10649347 AATTTGGTT
1 AATTCGGTT
*
10649356 AATTCGGGT
1 AATTCGGTT
10649365 AATTCGGTT
1 AATTCGGTT
*
10649374 AATTCGGGT
1 AATTCGGTT
*
10649383 AATTCGGGT
1 AATTCGGTT
*
10649392 AATTCAGTT
1 AATTCGGTT
10649401 AATTCGGTT
1 AATTCGGTT
*
10649410 AATTCGGGT
1 AATTCGGTT
10649419 AATTCGGTT
1 AATTCGGTT
10649428 AATT
1 AATT
10649432 TTTAACCAAA
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 76 1.00
ACGTcount: A:0.24, C:0.09, G:0.24, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:10649373 original size:27 final size:27
Alignment explanation
Indices: 10649338--10649431 Score: 152
Period size: 27 Copynumber: 3.5 Consensus size: 27
10649328 GTAGTGATTC
* *
10649338 AATTTGGTTAATTTGGTTAATTCGGGT
1 AATTCGGTTAATTCGGTTAATTCGGGT
*
10649365 AATTCGGTTAATTCGGGTAATTCGGGT
1 AATTCGGTTAATTCGGTTAATTCGGGT
*
10649392 AATTCAGTTAATTCGGTTAATTCGGGT
1 AATTCGGTTAATTCGGTTAATTCGGGT
10649419 AATTCGGTTAATT
1 AATTCGGTTAATT
10649432 TTTAACCAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.24, C:0.09, G:0.24, T:0.43
Consensus pattern (27 bp):
AATTCGGTTAATTCGGTTAATTCGGGT
Found at i:10649889 original size:21 final size:21
Alignment explanation
Indices: 10649842--10649892 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
10649832 ATTTCAATGC
* * *
10649842 AACTACAAAAGGAGGTTACCC
1 AACTTCAAAAGGAGGTGACCA
* *
10649863 ATCTTCAACAGGAGGTGACCA
1 AACTTCAAAAGGAGGTGACCA
10649884 AACTTCAAA
1 AACTTCAAA
10649893 TTGAGTTATC
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.24, G:0.18, T:0.18
Consensus pattern (21 bp):
AACTTCAAAAGGAGGTGACCA
Found at i:10660271 original size:53 final size:53
Alignment explanation
Indices: 10660210--10660315 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
10660200 TATGTTCCCT
10660210 AGTGAAAGCAAAATGAAAGTTTGATTGGCTTTGTTCAATTTGTATGTAAATTA
1 AGTGAAAGCAAAATGAAAGTTTGATTGGCTTTGTTCAATTTGTATGTAAATTA
10660263 AGTGAAAGCAAAATGAAAGTTTGATTGGCTTTGTTCAATTTGTATGTAAATTA
1 AGTGAAAGCAAAATGAAAGTTTGATTGGCTTTGTTCAATTTGTATGTAAATTA
10660316 TTTCATGTTA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.38
Consensus pattern (53 bp):
AGTGAAAGCAAAATGAAAGTTTGATTGGCTTTGTTCAATTTGTATGTAAATTA
Found at i:10660473 original size:117 final size:117
Alignment explanation
Indices: 10660267--10660503 Score: 458
Period size: 117 Copynumber: 2.0 Consensus size: 117
10660257 AAATTAAGTG
10660267 AAAGCAAAATGAAAGTTTGATTGGCTTTGTTCAATTTGTATGTAAATTATTTCATGTTAAATCAA
1 AAAGCAAAATGAAAGTTTGATTGGCTTTGTTCAATTTGTATGTAAATTATTTCATGTTAAATCAA
10660332 CTTCTAGGCGTGCAAGATCGAAGTCCATAAAAAAGGTTTAACATTTACGTTA
66 CTTCTAGGCGTGCAAGATCGAAGTCCATAAAAAAGGTTTAACATTTACGTTA
10660384 AAAGCAAAATGAAAGTTTGATTGGCTTTGTTCAATTTGTATGTAAA-TATTTTCATGTTAAATCA
1 AAAGCAAAATGAAAGTTTGATTGGCTTTGTTCAATTTGTATGTAAATTA-TTTCATGTTAAATCA
10660448 ACTTCTAGGCGTGCAAGATCGAAGTCCATAAAAAAGGTTTAACATTTACGTTA
65 ACTTCTAGGCGTGCAAGATCGAAGTCCATAAAAAAGGTTTAACATTTACGTTA
10660501 AAA
1 AAA
10660504 ATTTTGAATT
Statistics
Matches: 119, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
116 2 0.02
117 117 0.98
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.35
Consensus pattern (117 bp):
AAAGCAAAATGAAAGTTTGATTGGCTTTGTTCAATTTGTATGTAAATTATTTCATGTTAAATCAA
CTTCTAGGCGTGCAAGATCGAAGTCCATAAAAAAGGTTTAACATTTACGTTA
Found at i:10660540 original size:18 final size:18
Alignment explanation
Indices: 10660502--10660540 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
10660492 TTTACGTTAA
*
10660502 AAATTTTGAATTCTCCGT
1 AAATTTTGAATTCTCAGT
*
10660520 AAATTTTGAATTCTCATT
1 AAATTTTGAATTCTCAGT
10660538 AAA
1 AAA
10660541 CTATTAGCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.44
Consensus pattern (18 bp):
AAATTTTGAATTCTCAGT
Found at i:10677055 original size:31 final size:31
Alignment explanation
Indices: 10677017--10677080 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
10677007 TGTTACCCCG
10677017 TCCATTTTTTTTGGAAAGAGTTTGTACATAC
1 TCCATTTTTTTTGGAAAGAGTTTGTACATAC
10677048 TCCATTTTTTTTGGAAAGAGTTTGTACATAC
1 TCCATTTTTTTTGGAAAGAGTTTGTACATAC
10677079 TC
1 TC
10677081 TGTTGGAGGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.25, C:0.14, G:0.16, T:0.45
Consensus pattern (31 bp):
TCCATTTTTTTTGGAAAGAGTTTGTACATAC
Found at i:10682615 original size:12 final size:11
Alignment explanation
Indices: 10682585--10682639 Score: 56
Period size: 13 Copynumber: 4.6 Consensus size: 11
10682575 TTCTTTAAAT
10682585 TAAAAAAATTA
1 TAAAAAAATTA
**
10682596 TTTAAAAATTA
1 TAAAAAAATTA
10682607 TAAACAAAATTCA
1 TAAA-AAAATT-A
10682620 TAAAAAGAAGTTA
1 TAAAAA-AA-TTA
10682633 TAAAAAA
1 TAAAAAA
10682640 TATATTTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
11 11 0.31
12 9 0.25
13 14 0.39
14 2 0.06
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (11 bp):
TAAAAAAATTA
Found at i:10682775 original size:11 final size:10
Alignment explanation
Indices: 10682753--10682796 Score: 63
Period size: 11 Copynumber: 4.3 Consensus size: 10
10682743 TTATTAATAA
10682753 TTTTATAA-T
1 TTTTATAATT
10682762 TTTTATAAGTT
1 TTTTATAA-TT
10682773 TTTTATAATTT
1 TTTTATAA-TT
10682784 TTTTATAATT
1 TTTTATAATT
10682794 TTT
1 TTT
10682797 ATGGTTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
9 8 0.25
10 5 0.16
11 19 0.59
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.70
Consensus pattern (10 bp):
TTTTATAATT
Found at i:10682795 original size:20 final size:20
Alignment explanation
Indices: 10682739--10682798 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
10682729 TGTTATTTTT
10682739 ATTTTTATTAATAA-TTTTATA
1 ATTTTT-TT-ATAATTTTTATA
10682760 A--TTTTTATAAGTTTTTTATA
1 ATTTTTTTATAA--TTTTTATA
10682780 ATTTTTTTATAATTTTTAT
1 ATTTTTTTATAATTTTTAT
10682799 GGTTTTTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
17 4 0.12
18 2 0.06
19 3 0.09
20 15 0.44
21 1 0.03
22 9 0.26
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (20 bp):
ATTTTTTTATAATTTTTATA
Found at i:10683832 original size:24 final size:24
Alignment explanation
Indices: 10683805--10683850 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
10683795 TATTTTTAAC
10683805 AATTATATTTATATTTCGAATCAT
1 AATTATATTTATATTTCGAATCAT
10683829 AATTATATTTATATTTCGAATC
1 AATTATATTTATATTTCGAATC
10683851 TTAAACTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.37, C:0.09, G:0.04, T:0.50
Consensus pattern (24 bp):
AATTATATTTATATTTCGAATCAT
Found at i:10685080 original size:21 final size:21
Alignment explanation
Indices: 10685054--10685094 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
10685044 TAGAAAGTAC
10685054 TTAAGAGAGGAGACATATTTT
1 TTAAGAGAGGAGACATATTTT
10685075 TTAAGAGAGGAGACATATTT
1 TTAAGAGAGGAGACATATTT
10685095 ATCTTTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (21 bp):
TTAAGAGAGGAGACATATTTT
Found at i:10688272 original size:10 final size:9
Alignment explanation
Indices: 10688191--10688287 Score: 51
Period size: 10 Copynumber: 10.6 Consensus size: 9
10688181 TATTAAAAAT
10688191 TAAAATTGATA
1 TAAAATT-A-A
* *
10688202 TAAACTTAT
1 TAAAATTAA
10688211 TAAAATT-A
1 TAAAATTAA
*
10688219 TAAGTATT-A
1 TAA-AATTAA
10688228 TAAAATATAA
1 TAAAAT-TAA
*
10688238 AAAAATCTAA
1 TAAAAT-TAA
10688248 T-AAATT-A
1 TAAAATTAA
10688255 TAAAATTAA
1 TAAAATTAA
*
10688264 TAGAAATTATT
1 TA-AAATTA-A
10688275 TAAAATTAA
1 TAAAATTAA
10688284 -AAAA
1 TAAAA
10688288 AAACGTATTA
Statistics
Matches: 68, Mismatches: 11, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
7 2 0.03
8 15 0.22
9 21 0.31
10 22 0.32
11 8 0.12
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (9 bp):
TAAAATTAA
Found at i:10688340 original size:9 final size:9
Alignment explanation
Indices: 10688328--10688379 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
10688318 AAAATTGTAA
10688328 AAAAATTAT
1 AAAAATTAT
**
10688337 AAAAAAAAT
1 AAAAATTAT
*
10688346 TAAAATTGAT
1 AAAAATT-AT
*
10688356 ATAAACTTAT
1 A-AAAATTAT
10688366 AAAAATTAT
1 AAAAATTAT
10688375 AAAAA
1 AAAAA
10688380 AATCATAAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
9 23 0.70
10 5 0.15
11 5 0.15
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:10688347 original size:12 final size:11
Alignment explanation
Indices: 10688306--10688343 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
10688296 TAGAATACTT
*
10688306 AAAAAA-TAGA
1 AAAAAATTATA
*
10688316 AAAAAATTGTA
1 AAAAAATTATA
10688327 AAAAAATTATA
1 AAAAAATTATA
10688338 AAAAAA
1 AAAAAA
10688344 ATTAAAATTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
10 6 0.25
11 18 0.75
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.18
Consensus pattern (11 bp):
AAAAAATTATA
Found at i:10688785 original size:10 final size:9
Alignment explanation
Indices: 10688773--10689004 Score: 118
Period size: 9 Copynumber: 24.6 Consensus size: 9
10688763 TATGAATTTT
10688773 TTTTTATAA
1 TTTTTATAA
10688782 TTTTTATAA
1 TTTTTATAA
*
10688791 GTTTATATTAA
1 -TTTTTA-TAA
* *
10688802 TTTTAATACTT
1 TTTTTATA--A
*
10688813 TTTTTATGA
1 TTTTTATAA
*
10688822 TTTTTATGA
1 TTTTTATAA
10688831 TTTTTATAGA
1 TTTTTATA-A
* * *
10688841 ATTTAATACG
1 TTTTTATA-A
10688851 TTTTTATAA
1 TTTTTATAA
*
10688860 TATTTTAAATA
1 T-TTTTATA-A
10688871 TGTTTTATTAA
1 T-TTTTA-TAA
10688882 -TTTTATAA
1 TTTTTATAA
10688890 TTTTTTATAA
1 -TTTTTATAA
*
10688900 TTTATTAGAA
1 TTT-TTATAA
10688910 TTTTTTATAA
1 -TTTTTATAA
*
10688920 TATTTAT-A
1 TTTTTATAA
10688928 TTTTTATAA
1 TTTTTATAA
10688937 TTTTTTAAATAA
1 -TTTTT--ATAA
*
10688949 TATTTATAA
1 TTTTTATAA
*
10688958 GTTTATATCAA
1 -TTTTTAT-AA
*
10688969 -TTTT-CAA
1 TTTTTATAA
10688976 TTTTT-TAA
1 TTTTTATAA
*
10688984 --TTAATAA
1 TTTTTATAA
10688991 TTTTTATAA
1 TTTTTATAA
10689000 TTTTT
1 TTTTT
10689005 TTCTGATTTT
Statistics
Matches: 171, Mismatches: 30, Indels: 44
0.70 0.12 0.18
Matches are distributed among these distances:
6 2 0.01
7 5 0.03
8 16 0.09
9 61 0.36
10 56 0.33
11 26 0.15
12 5 0.03
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:10688825 original size:40 final size:38
Alignment explanation
Indices: 10688771--10688895 Score: 110
Period size: 40 Copynumber: 3.2 Consensus size: 38
10688761 TTTATGAATT
10688771 TTTTTTTATAATTTTTATAAGTTTATATTAATTTTAATAC
1 TTTTTTTAT-ATTTTTATAAGTTT-TATTAATTTTAATAC
* * *
10688811 TTTTTTTATGATTTTTATGATTTTTA-TAGAATTTAATAC
1 TTTTTTTAT-ATTTTTATAAGTTTTATTA-ATTTTAATAC
* * * *
10688850 GTTTTTATAATATTTTAAATATGTTTTATTAATTTT-ATAA
1 -TTTTT-TTATATTTT-TATAAGTTTTATTAATTTTAATAC
10688890 TTTTTT
1 TTTTTT
10688896 ATAATTTATT
Statistics
Matches: 69, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
38 3 0.04
39 16 0.23
40 34 0.49
41 14 0.20
42 2 0.03
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (38 bp):
TTTTTTTATATTTTTATAAGTTTTATTAATTTTAATAC
Found at i:10688913 original size:20 final size:18
Alignment explanation
Indices: 10688772--10688946 Score: 90
Period size: 20 Copynumber: 9.1 Consensus size: 18
10688762 TTATGAATTT
10688772 TTTTTTATAATTTTTATAA
1 TTTTTTATAATTTTTA-AA
* *
10688791 GTTTATATTAA-TTTTAATA
1 TTTTTTA-TAATTTTTAA-A
* *
10688810 CTTTTTTTATGATTTTTATGA
1 --TTTTTTATAATTTTTA-AA
*
10688831 -TTTTTATAGA-ATTTAATA
1 TTTTTTATA-ATTTTTAA-A
*
10688849 CGTTTTTATAATATTTTAAA
1 -TTTTTTATAAT-TTTTAAA
10688869 TATGTTTTATTAA-TTTTATAA
1 T-T-TTTTA-TAATTTTTA-AA
10688890 TTTTTTATAATTTATTAGAA
1 TTTTTTATAATTT-TTA-AA
* *
10688910 TTTTTTATAATATTTATA
1 TTTTTTATAATTTTTAAA
10688928 -TTTTTATAATTTTTTAAA
1 TTTTTTATAA-TTTTTAAA
10688946 T
1 T
10688947 AATATTTATA
Statistics
Matches: 120, Mismatches: 16, Indels: 40
0.68 0.09 0.23
Matches are distributed among these distances:
17 9 0.08
18 23 0.19
19 23 0.19
20 38 0.32
21 24 0.20
22 3 0.03
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.62
Consensus pattern (18 bp):
TTTTTTATAATTTTTAAA
Found at i:10688926 original size:29 final size:29
Alignment explanation
Indices: 10688882--10688963 Score: 96
Period size: 29 Copynumber: 2.8 Consensus size: 29
10688872 GTTTTATTAA
*
10688882 TTTTATAATTTTTTATAATTTATTAGAATT
1 TTTTATAA-TATTTATAATTTATTAGAATT
*
10688912 TTTTATAATATTTAT-ATTT-TTATAATT
1 TTTTATAATATTTATAATTTATTAGAATT
10688939 TTTTAAATAATATTTATAAGTTTAT
1 TTTT--ATAATATTTATAA-TTTAT
10688964 ATCAATTTTC
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
27 11 0.24
28 4 0.09
29 17 0.38
30 9 0.20
31 3 0.07
32 1 0.02
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (29 bp):
TTTTATAATATTTATAATTTATTAGAATT
Found at i:10689047 original size:20 final size:20
Alignment explanation
Indices: 10688990--10689046 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
10688980 TTAATTAATA
**
10688990 ATTTTTATAAT-TTTTTTCTG
1 ATTTTT-TAATATTTTTTAGG
10689010 ATTTTTTAATATTTTTTAGG
1 ATTTTTTAATATTTTTTAGG
10689030 ATTTTTTAATCATTTTT
1 ATTTTTTAAT-ATTTTT
10689047 ATGAGAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 4 0.12
20 23 0.70
21 6 0.18
ACGTcount: A:0.23, C:0.04, G:0.05, T:0.68
Consensus pattern (20 bp):
ATTTTTTAATATTTTTTAGG
Found at i:10693753 original size:42 final size:42
Alignment explanation
Indices: 10693706--10693790 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
10693696 GTGGATTGTT
10693706 GGTTTCTCACCTTTTCTCTTTGATGTAGGTTTTGAGACTTTG
1 GGTTTCTCACCTTTTCTCTTTGATGTAGGTTTTGAGACTTTG
10693748 GGTTTCTCACCTTTTCTCTTTGATGTAGGTTTTGAGACTTTG
1 GGTTTCTCACCTTTTCTCTTTGATGTAGGTTTTGAGACTTTG
10693790 G
1 G
10693791 TTGGAAAGAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.12, C:0.16, G:0.22, T:0.49
Consensus pattern (42 bp):
GGTTTCTCACCTTTTCTCTTTGATGTAGGTTTTGAGACTTTG
Found at i:10703437 original size:25 final size:24
Alignment explanation
Indices: 10703400--10703466 Score: 57
Period size: 25 Copynumber: 2.8 Consensus size: 24
10703390 GTCCTGATAT
**
10703400 TAGCTTTCATGAGCATCCCATTATA
1 TAGCTTTTGTGAGCATCCCATTA-A
** *
10703425 TAG-TTCTTGTGAGTTTCCCGTTAA
1 TAGCTT-TTGTGAGCATCCCATTAA
10703449 TAGCTTTTG-GAGCATCCC
1 TAGCTTTTGTGAGCATCCC
10703467 GATTGGTTCT
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
23 7 0.21
24 9 0.27
25 17 0.52
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.39
Consensus pattern (24 bp):
TAGCTTTTGTGAGCATCCCATTAA
Found at i:10703658 original size:25 final size:23
Alignment explanation
Indices: 10703630--10703692 Score: 63
Period size: 25 Copynumber: 2.6 Consensus size: 23
10703620 TTCTCGATAT
10703630 TGGCTCGTATGAGCTTCCCGTTTTA
1 TGGCTCGTATGAGCTTCCCG--TTA
* * *
10703655 TGGCTTGAAAGAGCTTCCCGTTA
1 TGGCTCGTATGAGCTTCCCGTTA
*
10703678 AGTGCTCGTATGAGC
1 TG-GCTCGTATGAGC
10703693 ATTCGCGAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
23 4 0.13
24 9 0.30
25 17 0.57
ACGTcount: A:0.17, C:0.22, G:0.27, T:0.33
Consensus pattern (23 bp):
TGGCTCGTATGAGCTTCCCGTTA
Found at i:10709141 original size:5 final size:5
Alignment explanation
Indices: 10709133--10709183 Score: 57
Period size: 5 Copynumber: 9.6 Consensus size: 5
10709123 ACCTAATCTA
* *
10709133 ATAAT ATAAT ATAAT ATAAT ATAATTT ACAAT ATAAT AAAAT AATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAA--T ATAAT ATAAT ATAAT -ATAAT
10709181 ATA
1 ATA
10709184 CTTCAAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 31 0.79
6 4 0.10
7 4 0.10
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (5 bp):
ATAAT
Found at i:10709153 original size:15 final size:15
Alignment explanation
Indices: 10709133--10709183 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 15
10709123 ACCTAATCTA
10709133 ATAATATAATATAAT
1 ATAATATAATATAAT
*
10709148 ATAATATAATTTACAAT
1 ATAATATAA--TATAAT
*
10709165 ATAATAAAATAATAAT
1 ATAATATAAT-ATAAT
10709181 ATA
1 ATA
10709184 CTTCAAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 10 0.33
16 7 0.23
17 13 0.43
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (15 bp):
ATAATATAATATAAT
Found at i:10710080 original size:16 final size:16
Alignment explanation
Indices: 10710059--10710107 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
10710049 ATCATGTAAC
10710059 TATTTTCATATACATA
1 TATTTTCATATACATA
*
10710075 TATTTTCCACAT-CATA
1 TATTTT-CATATACATA
10710091 TA--TTCATATAACATA
1 TATTTTCATAT-ACATA
10710106 TA
1 TA
10710108 CATTGCCATA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
13 4 0.14
14 2 0.07
15 6 0.21
16 12 0.43
17 4 0.14
ACGTcount: A:0.39, C:0.16, G:0.00, T:0.45
Consensus pattern (16 bp):
TATTTTCATATACATA
Found at i:10710441 original size:73 final size:74
Alignment explanation
Indices: 10710364--10710506 Score: 175
Period size: 73 Copynumber: 1.9 Consensus size: 74
10710354 TCTTAAGAGC
* * *
10710364 CATAT-TCAGGAAGCTCATGCGAGCCAATAACGGGTAGCTCTAAAGAGCCATTAATCA-GAAAGC
1 CATATATCAGGAAGCTCAAGCGAGCC-ATAACGGGAAGCTCCAAAGAGCCATTAATCATG-AAGC
10710427 TC-CAAATAGT
64 TCACAAATAGT
* * * **
10710437 CATATATCGGGAAGTTCAAGCGAGCCATATCGGGAAGCTCCGGAGAGCCATTAATCATGAAGCTC
1 CATATATCAGGAAGCTCAAGCGAGCCATAACGGGAAGCTCCAAAGAGCCATTAATCATGAAGCTC
10710502 ACAAA
66 ACAAA
10710507 GAGCCTTTAA
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
73 37 0.63
74 22 0.37
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (74 bp):
CATATATCAGGAAGCTCAAGCGAGCCATAACGGGAAGCTCCAAAGAGCCATTAATCATGAAGCTC
ACAAATAGT
Found at i:10710484 original size:23 final size:23
Alignment explanation
Indices: 10710440--10710487 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
10710430 AAATAGTCAT
* *
10710440 ATATCGGGAAGTTCAAGCGAGCC
1 ATATCGGGAAGCTCAAGAGAGCC
**
10710463 ATATCGGGAAGCTCCGGAGAGCC
1 ATATCGGGAAGCTCAAGAGAGCC
10710486 AT
1 AT
10710488 TAATCATGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.29, C:0.23, G:0.31, T:0.17
Consensus pattern (23 bp):
ATATCGGGAAGCTCAAGAGAGCC
Found at i:10710501 original size:25 final size:25
Alignment explanation
Indices: 10710470--10710538 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 25
10710460 GCCATATCGG
* *
10710470 GAAGCTCCGGAGAGCCATTAATCAT
1 GAAGCTCCGAAGAGCCATTAATCAA
* *
10710495 GAAGCTCACAAAGAGCCTTTAATCAA
1 GAAGCTC-CGAAGAGCCATTAATCAA
*
10710521 GAAGCTCCGAAAAGCCAT
1 GAAGCTCCGAAGAGCCAT
10710539 ATAACGGGAT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
25 15 0.42
26 21 0.58
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.17
Consensus pattern (25 bp):
GAAGCTCCGAAGAGCCATTAATCAA
Found at i:10715823 original size:50 final size:50
Alignment explanation
Indices: 10715713--10715963 Score: 281
Period size: 50 Copynumber: 4.9 Consensus size: 50
10715703 GACATTAAGA
*
10715713 AGATGAGA--TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGTG
1 AGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C----CG
* *
10715766 ATTATGAGAGGTCCTATGTAAGACCATGTCTGGGACATGGCATTGGCACCG
1 A-GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG
* **
10715817 AGATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGTGTTGGCACCG
1 AGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG
** * *
10715867 AGATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCT
1 AGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG
* ** * * * *
10715917 ATATGAGAACTCCCATGTAAGACCATATCTGAGATATGACATTGGCA
1 AGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
10715964 GTACAAGAAA
Statistics
Matches: 170, Mismatches: 25, Indels: 9
0.83 0.12 0.04
Matches are distributed among these distances:
50 124 0.73
51 2 0.01
53 1 0.01
54 6 0.04
55 1 0.01
56 36 0.21
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (50 bp):
AGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG
Found at i:10721991 original size:34 final size:35
Alignment explanation
Indices: 10721948--10722025 Score: 99
Period size: 35 Copynumber: 2.3 Consensus size: 35
10721938 ATAAATAGGA
*
10721948 AAAAATATAT-AATTTATTAAATATTA-AAAA-AGTT
1 AAAAATATATAAACTTA-TAAATATTATAAAATA-TT
*
10721982 AAAATTATATAAACTTATAAATATTATAAAATATT
1 AAAAATATATAAACTTATAAATATTATAAAATATT
10722017 AAAAATATA
1 AAAAATATA
10722026 AAAAACCTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
34 18 0.47
35 19 0.50
36 1 0.03
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (35 bp):
AAAAATATATAAACTTATAAATATTATAAAATATT
Found at i:10722110 original size:21 final size:20
Alignment explanation
Indices: 10722086--10722189 Score: 53
Period size: 20 Copynumber: 5.3 Consensus size: 20
10722076 AAAACACATT
*
10722086 TAAAATATTGAAAATTTTATA
1 TAAAATATT-AAAATTCTATA
*
10722107 TAAACCTATTAAAATTCTATA
1 TAAA-ATATTAAAATTCTATA
10722128 -AAAATCA-TATAAATTACT-TA
1 TAAAAT-ATTA-AAATT-CTATA
**
10722148 -AAAATA-TAAAA-AGTAT-
1 TAAAATATTAAAATTCTATA
*
10722164 TAAAAGTATTAAAATT-GATA
1 TAAAA-TATTAAAATTCTATA
10722184 TAAAAT
1 TAAAAT
10722190 TATAAAAAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 22
0.69 0.07 0.23
Matches are distributed among these distances:
16 1 0.02
17 5 0.08
18 5 0.08
19 14 0.21
20 21 0.32
21 16 0.24
22 4 0.06
ACGTcount: A:0.56, C:0.05, G:0.04, T:0.36
Consensus pattern (20 bp):
TAAAATATTAAAATTCTATA
Found at i:10726081 original size:30 final size:31
Alignment explanation
Indices: 10726006--10726100 Score: 111
Period size: 32 Copynumber: 3.1 Consensus size: 31
10725996 TGAATTCAAA
* * *
10726006 TGTATATGTTTTATATATTGCCAAATTGATT
1 TGTATATGATATATATATTGCCGAATTGATT
* * *
10726037 TATATGTAGATATATACATTGCCGAATTGATT
1 TGTATAT-GATATATATATTGCCGAATTGATT
*
10726069 TGTATATG-TATATATATTACCGAATTGATT
1 TGTATATGATATATATATTGCCGAATTGATT
10726099 TG
1 TG
10726101 AGATCCTGTA
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
30 22 0.42
31 6 0.11
32 25 0.47
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.46
Consensus pattern (31 bp):
TGTATATGATATATATATTGCCGAATTGATT
Found at i:10726209 original size:42 final size:43
Alignment explanation
Indices: 10726137--10726237 Score: 125
Period size: 42 Copynumber: 2.4 Consensus size: 43
10726127 ATATGACATC
* * *
10726137 GGCATCGATTTGAGATCCCGTATAAGACCATATCTGGGATA-T
1 GGCATCGATATGAGATCCCGTATAAAACCATAGCTGGGATATT
* * *
10726179 GGCATCGATATGAGA-CTTCGTGTAAAACCATAGCTGGGCTATT
1 GGCATCGATATGAGATC-CCGTATAAAACCATAGCTGGGATATT
10726222 GGCATCGATATGAGAT
1 GGCATCGATATGAGAT
10726238 TTCCATATAA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
41 1 0.02
42 33 0.66
43 16 0.32
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.28
Consensus pattern (43 bp):
GGCATCGATATGAGATCCCGTATAAAACCATAGCTGGGATATT
Found at i:10729422 original size:403 final size:403
Alignment explanation
Indices: 10728675--10729483 Score: 1555
Period size: 403 Copynumber: 2.0 Consensus size: 403
10728665 TGATACACAA
* * * *
10728675 ATTCTCGAAAGGGGATGAGGTAGAAAAAGTTTGAGCCGACTCTTCCGCATAGCATCCCATTAAAA
1 ATTCTCGAAAGGGGATAAGGTAGAAAAAGTTCGAGCCGACTCTTCCGCACAGCATCCCATCAAAA
*
10728740 TAAGCCTTCGCGAATATCACCTCTCATGAGATTTCAAGGCTATCAACAACCAATGACCAGTTCGA
66 TAACCCTTCGCGAATATCACCTCTCATGAGATTTCAAGGCTATCAACAACCAATGACCAGTTCGA
10728805 AGGTAGACAGGCGTGGGTATGGATATTGCAACCAACCTAGCCAAAGAAATAATCAGCGGGTGAAC
131 AGGTAGACAGGCGTGGGTATGGATATTGCAACCAACCTAGCCAAAGAAATAATCAGCGGGTGAAC
10728870 AATGTCCATACCATGGATCACTAAAGACCCATCCGCAATCATAGGGGAGGCCAAGATCATCAACC
196 AATGTCCATACCATGGATCACTAAAGACCCATCCGCAATCATAGGGGAGGCCAAGATCATCAACC
10728935 TCAAGCTCCATACAATAAGTTCAGAACTTATCATAAGCTTAATTGCTCCCCGACCCAGATTTTTT
261 TCAAGCTCCATACAATAAGTTCAGAACTTATCATAAGCTTAATTGCTCCCCGACCCAGATTTTTT
10729000 AATAAGTGCAATATTGAAAACTTCTAGAGACAACTCCATACCTCCCACCCAATCAACATCGTAGC
326 AATAAGTGCAATATTGAAAACTTCTAGAGACAACTCCATACCTCCCACCCAATCAACATCGTAGC
*
10729065 AACTCCAACCATT
391 AACACCAACCATT
10729078 ATTCTCGAAAGGGGATAAGGTAGAAAAAGTTCGAGCCGACTCTTCCGCACAGCATCCCATCAAAA
1 ATTCTCGAAAGGGGATAAGGTAGAAAAAGTTCGAGCCGACTCTTCCGCACAGCATCCCATCAAAA
*
10729143 TAACCCTTCGCGAGTATCACCTCTCATGAGATTTCAAGGCTATCAACAACCAATGACCAGTTCGA
66 TAACCCTTCGCGAATATCACCTCTCATGAGATTTCAAGGCTATCAACAACCAATGACCAGTTCGA
10729208 AGGTAGACAGGCGTGGGTATGGATATTGCAACCAACCTAGCCAAAGAAATAATCAGCGGGTGAAC
131 AGGTAGACAGGCGTGGGTATGGATATTGCAACCAACCTAGCCAAAGAAATAATCAGCGGGTGAAC
10729273 AATGTCCATACCATGGATCACTAAAGACCCATCCGCAATCATAGGGGAGGCCAAGATCATCAACC
196 AATGTCCATACCATGGATCACTAAAGACCCATCCGCAATCATAGGGGAGGCCAAGATCATCAACC
10729338 TCAAGCTCCATACAATAAGTTCAGAACTTATCATAAGCTTAATTGCTCCCCGACCCAGATTTTTT
261 TCAAGCTCCATACAATAAGTTCAGAACTTATCATAAGCTTAATTGCTCCCCGACCCAGATTTTTT
10729403 AATAAGTGCAATATTGAAAACTTCTAGAGACAACTCCATACCTCCCACCCAATCAACATCGTAGC
326 AATAAGTGCAATATTGAAAACTTCTAGAGACAACTCCATACCTCCCACCCAATCAACATCGTAGC
10729468 AACACCAACCATT
391 AACACCAACCATT
10729481 ATT
1 ATT
10729484 GTAGATACCA
Statistics
Matches: 399, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
403 399 1.00
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (403 bp):
ATTCTCGAAAGGGGATAAGGTAGAAAAAGTTCGAGCCGACTCTTCCGCACAGCATCCCATCAAAA
TAACCCTTCGCGAATATCACCTCTCATGAGATTTCAAGGCTATCAACAACCAATGACCAGTTCGA
AGGTAGACAGGCGTGGGTATGGATATTGCAACCAACCTAGCCAAAGAAATAATCAGCGGGTGAAC
AATGTCCATACCATGGATCACTAAAGACCCATCCGCAATCATAGGGGAGGCCAAGATCATCAACC
TCAAGCTCCATACAATAAGTTCAGAACTTATCATAAGCTTAATTGCTCCCCGACCCAGATTTTTT
AATAAGTGCAATATTGAAAACTTCTAGAGACAACTCCATACCTCCCACCCAATCAACATCGTAGC
AACACCAACCATT
Found at i:10733062 original size:6 final size:6
Alignment explanation
Indices: 10733051--10733081 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
10733041 AAAAACATAT
10733051 ATATAC ATATAC ATATAC ATATAC ATATAC A
1 ATATAC ATATAC ATATAC ATATAC ATATAC A
10733082 ATCATTTCAT
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:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (6 bp):
ATATAC
Found at i:10735325 original size:5 final size:5
Alignment explanation
Indices: 10735315--10735342 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
10735305 TTCATGCATT
10735315 TAATA TAATA TAATA TAATA TAATA TAA
1 TAATA TAATA TAATA TAATA TAATA TAA
10735343 ATATTTACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
TAATA
Found at i:10737627 original size:3 final size:3
Alignment explanation
Indices: 10737619--10737648 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
10737609 TTGTGTTCTT
*
10737619 TTA TTA TTA TTA TTA TTA TTA TTA TGA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10737649 ATAAGTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:10748118 original size:6 final size:6
Alignment explanation
Indices: 10748107--10748141 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
10748097 GCCATCATCA
* *
10748107 CCACCT CCACCT CCACCT CCACCC CCCCCT CCACC
1 CCACCT CCACCT CCACCT CCACCT CCACCT CCACC
10748142 GCCTCCTCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.14, C:0.74, G:0.00, T:0.11
Consensus pattern (6 bp):
CCACCT
Found at i:10756214 original size:6 final size:6
Alignment explanation
Indices: 10756205--10756236 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
10756195 TCGCAACCAT
10756205 AGCCGC AGCCGC AGCCGC AGCCGC AGCCGC AG
1 AGCCGC AGCCGC AGCCGC AGCCGC AGCCGC AG
10756237 TAACAGCCGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.19, C:0.47, G:0.34, T:0.00
Consensus pattern (6 bp):
AGCCGC
Found at i:10756217 original size:18 final size:18
Alignment explanation
Indices: 10756196--10756235 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
10756186 TCCTCGCAAT
*
10756196 CGCAACCATAGCCGCAGC
1 CGCAACCACAGCCGCAGC
* *
10756214 CGCAGCCGCAGCCGCAGC
1 CGCAACCACAGCCGCAGC
10756232 CGCA
1 CGCA
10756236 GTAACAGCCG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.23, C:0.47, G:0.28, T:0.03
Consensus pattern (18 bp):
CGCAACCACAGCCGCAGC
Found at i:10756243 original size:18 final size:18
Alignment explanation
Indices: 10756205--10756246 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
10756195 TCGCAACCAT
**
10756205 AGCCGCAGCCGCAGCCGC
1 AGCCGCAGCCGCAGCAAC
*
10756223 AGCCGCAGCCGCAGTAAC
1 AGCCGCAGCCGCAGCAAC
10756241 AGCCGC
1 AGCCGC
10756247 CGTCGCAGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.21, C:0.45, G:0.31, T:0.02
Consensus pattern (18 bp):
AGCCGCAGCCGCAGCAAC
Found at i:10757273 original size:16 final size:16
Alignment explanation
Indices: 10757252--10757303 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
10757242 TTTGGTTCGC
10757252 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
10757268 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
10757284 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
10757300 TGTA
1 TGTA
10757304 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:10757389 original size:39 final size:43
Alignment explanation
Indices: 10757284--10757393 Score: 129
Period size: 45 Copynumber: 2.6 Consensus size: 43
10757274 GGATTAGAGG
10757284 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
* * ***
10757329 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
10757369 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
10757394 TAATGGAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 20 0.35
40 2 0.04
43 1 0.02
44 11 0.19
45 23 0.40
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:10757547 original size:25 final size:25
Alignment explanation
Indices: 10757515--10757569 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
10757505 TAAGTTAATC
*
10757515 ATAT-TTAAACATAATTATTATT-AA
1 ATATATTAAACAT-ATTATAATTAAA
*
10757539 ATATATTAAATATATTATAATTAAA
1 ATATATTAAACATATTATAATTAAA
10757564 ATATAT
1 ATATAT
10757570 AATTTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATATTAAACATATTATAATTAAA
Found at i:10761738 original size:40 final size:40
Alignment explanation
Indices: 10761693--10761773 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
10761683 ATTTAATGAT
10761693 TGAGAATAAATTCTCTCAATTTTTCAGCAGAGTAACAATC
1 TGAGAATAAATTCTCTCAATTTTTCAGCAGAGTAACAATC
10761733 TGAGAATAAATTCTCTCAATTTTTCAGCAGAGTAACAATC
1 TGAGAATAAATTCTCTCAATTTTTCAGCAGAGTAACAATC
10761773 T
1 T
10761774 CTTAAAGTTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.33
Consensus pattern (40 bp):
TGAGAATAAATTCTCTCAATTTTTCAGCAGAGTAACAATC
Found at i:10763505 original size:28 final size:28
Alignment explanation
Indices: 10763456--10763515 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
10763446 ATGTAAAGAG
* * *
10763456 ATATATATGTATATTTTAAAATTGTGAA
1 ATATATATGTATATTATAAAATTATAAA
10763484 ATATATATGTATA-TATATAAATTATAAA
1 ATATATATGTATATTATA-AAATTATAAA
10763512 ATAT
1 ATAT
10763516 GTGTGCATCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 3 0.11
28 25 0.89
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (28 bp):
ATATATATGTATATTATAAAATTATAAA
Found at i:10764815 original size:9 final size:9
Alignment explanation
Indices: 10764798--10764834 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
10764788 TGAGTTTTCA
10764798 AATTCGAAT
1 AATTCGAAT
*
10764807 AACTCGAAT
1 AATTCGAAT
10764816 AATTCGAAT
1 AATTCGAAT
10764825 AATTCGAAT
1 AATTCGAAT
10764834 A
1 A
10764835 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:10765083 original size:30 final size:31
Alignment explanation
Indices: 10765047--10765106 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
10765037 AAACCTTTTA
*
10765047 TTTTCCCCCAAAATTTTTACTCC-CTCCCAC
1 TTTTCCCCCAAAACTTTTACTCCTCTCCCAC
* *
10765077 TTTTCCCCTAAAACTTTTATTCCTCTCCCA
1 TTTTCCCCCAAAACTTTTACTCCTCTCCCA
10765107 TCCCACCTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 20 0.77
31 6 0.23
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCTCTCCCAC
Found at i:10766292 original size:12 final size:12
Alignment explanation
Indices: 10766268--10766317 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
10766258 CCTTATAGAA
10766268 TCATTTCTCATTT
1 TCATTTC-CATTT
*
10766281 TCATTTTCATTT
1 TCATTTCCATTT
* *
10766293 CCATTTCCGTTT
1 TCATTTCCATTT
*
10766305 TAATTTCCATTT
1 TCATTTCCATTT
10766317 T
1 T
10766318 GAGAAAACTA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
12 24 0.80
13 6 0.20
ACGTcount: A:0.16, C:0.22, G:0.02, T:0.60
Consensus pattern (12 bp):
TCATTTCCATTT
Found at i:10766305 original size:18 final size:18
Alignment explanation
Indices: 10766268--10766316 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
10766258 CCTTATAGAA
*
10766268 TCATTTCTCATTTTCATTT
1 TCATTTC-CATTTCCATTT
*
10766287 TCATTTCCATTTCCGTTT
1 TCATTTCCATTTCCATTT
*
10766305 TAATTTCCATTT
1 TCATTTCCATTT
10766317 TGAGAAAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 20 0.74
19 7 0.26
ACGTcount: A:0.16, C:0.22, G:0.02, T:0.59
Consensus pattern (18 bp):
TCATTTCCATTTCCATTT
Found at i:10773490 original size:58 final size:60
Alignment explanation
Indices: 10773421--10773536 Score: 166
Period size: 61 Copynumber: 1.9 Consensus size: 60
10773411 ATTACTTTAA
* *
10773421 TATTAAATTAATATAATACTTA-T-CAAGATAAATATTAGATTAAATT-TAATATTAAATC
1 TATTAAATTAATAGAATACTTACTACAAGATAAATATTAAATT-AATTCTAATATTAAATC
*
10773479 TATTAAATTAATAGAATATTTATCTACAAGATAAATATTAAATTAATTCTAATATTAA
1 TATTAAATTAATAGAATACTTA-CTACAAGATAAATATTAAATTAATTCTAATATTAA
10773537 GATAATCACT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
58 20 0.39
60 5 0.10
61 26 0.51
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.41
Consensus pattern (60 bp):
TATTAAATTAATAGAATACTTACTACAAGATAAATATTAAATTAATTCTAATATTAAATC
Found at i:10773532 original size:61 final size:58
Alignment explanation
Indices: 10773421--10773603 Score: 163
Period size: 61 Copynumber: 2.9 Consensus size: 58
10773411 ATTACTTTAA
* *
10773421 TATTAAATTAATATAATACTTATCAAGATAAATATTAGATTAAATTTAATATTAAATC
1 TATTAAATTAATAGAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAAATC
*
10773479 TATTAAATTAATAGAATATTTATCTACAAGATAAATATTAAATT-AATTCTAATATTAAGATAAT
1 TATTAAATTAATAGAATACTTA--T-CAAGATAAATATTAAATTAAATT-TAATATT---A-AAT
10773543 CAC
58 --C
* *
10773546 TTTAATATTAAATTAATAAAATAC-TATCAAGATAAGTATTAAATTAAATTTAAGTATT
1 -----TATTAAATTAATAGAATACTTATCAAGATAAATATTAAATTAAATTTAA-TATT
10773604 TTATTAATTT
Statistics
Matches: 102, Mismatches: 6, Indels: 23
0.78 0.05 0.18
Matches are distributed among these distances:
58 20 0.20
60 5 0.05
61 24 0.24
64 1 0.01
65 3 0.03
67 1 0.01
68 20 0.20
69 9 0.09
71 2 0.02
72 17 0.17
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.40
Consensus pattern (58 bp):
TATTAAATTAATAGAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAAATC
Found at i:10773601 original size:18 final size:17
Alignment explanation
Indices: 10773578--10773621 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
10773568 ACTATCAAGA
10773578 TAAGTATTAAATTAAATT
1 TAAGTATTAAATT-AATT
**
10773596 TAAGTATTTTATTAATT
1 TAAGTATTAAATTAATT
10773613 TAA-TATTAA
1 TAAGTATTAA
10773622 GTCTTATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 4 0.18
17 7 0.32
18 11 0.50
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (17 bp):
TAAGTATTAAATTAATT
Found at i:10775315 original size:4 final size:4
Alignment explanation
Indices: 10775306--10775339 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
10775296 TGAAATTAAC
*
10775306 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TCTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
10775340 CATCATTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:10779832 original size:11 final size:11
Alignment explanation
Indices: 10779800--10779854 Score: 53
Period size: 11 Copynumber: 5.2 Consensus size: 11
10779790 TAACTATAAG
10779800 TTAAT-TAATA
1 TTAATATAATA
* *
10779810 GT-ATATTATA
1 TTAATATAATA
10779820 TTAAT-TAATTA
1 TTAATATAA-TA
10779831 TTAATATAATA
1 TTAATATAATA
*
10779842 TTAATATATTA
1 TTAATATAATA
10779853 TT
1 TT
10779855 TTTAAGCAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
9 2 0.06
10 8 0.22
11 23 0.64
12 3 0.08
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (11 bp):
TTAATATAATA
Found at i:10779837 original size:22 final size:21
Alignment explanation
Indices: 10779800--10779854 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
10779790 TAACTATAAG
* *
10779800 TTAATTAA-TAGTATATTATA
1 TTAATTAATTATTATATAATA
10779820 TTAATTAATTATTAATATAATA
1 TTAATTAATTATT-ATATAATA
10779842 TTAA-TATATTATT
1 TTAATTA-ATTATT
10779855 TTTAAGCAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 8 0.27
21 5 0.17
22 17 0.57
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
TTAATTAATTATTATATAATA
Found at i:10786853 original size:18 final size:18
Alignment explanation
Indices: 10786827--10786873 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
10786817 GTAGTGATTC
* *
10786827 AATTGGGTTAATTTGGGT
1 AATTCGGTTAATTCGGGT
10786845 AATTCGGTTAATTCGGGT
1 AATTCGGTTAATTCGGGT
*
10786863 AATCCGGTTAA
1 AATTCGGTTAA
10786874 CCGACCGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.26, C:0.09, G:0.28, T:0.38
Consensus pattern (18 bp):
AATTCGGTTAATTCGGGT
Found at i:10793799 original size:22 final size:22
Alignment explanation
Indices: 10793774--10793820 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
10793764 AACAGCGCAA
10793774 AAGTTGTAATGCCTTCAAATCT
1 AAGTTGTAATGCCTTCAAATCT
10793796 AAGTTGTAATGCCTTCAAATCT
1 AAGTTGTAATGCCTTCAAATCT
10793818 AAG
1 AAG
10793821 CATGTTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (22 bp):
AAGTTGTAATGCCTTCAAATCT
Found at i:10802356 original size:33 final size:33
Alignment explanation
Indices: 10802309--10802374 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
10802299 TACAATCGTT
10802309 CTTCTCTTCAGATTCGATGAGAGGGTGAAGGTA
1 CTTCTCTTCAGATTCGATGAGAGGGTGAAGGTA
*
10802342 CTTCTCTTCCGATTCGATGAGAGGGTGAAGGTA
1 CTTCTCTTCAGATTCGATGAGAGGGTGAAGGTA
10802375 TAAAAGATGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (33 bp):
CTTCTCTTCAGATTCGATGAGAGGGTGAAGGTA
Found at i:10815374 original size:11 final size:11
Alignment explanation
Indices: 10815360--10815386 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
10815350 ATTTTAAGGA
10815360 ATTTTTTATAT
1 ATTTTTTATAT
10815371 ATTTTTTATAT
1 ATTTTTTATAT
10815382 ATTTT
1 ATTTT
10815387 ATAAAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
ATTTTTTATAT
Found at i:10820238 original size:3 final size:3
Alignment explanation
Indices: 10820219--10820272 Score: 51
Period size: 3 Copynumber: 19.0 Consensus size: 3
10820209 AATTTATTTC
* * * *
10820219 ATA AT- ATA ATA ACA ATA ATA TTA ATA ATG ACA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10820265 ATA A-A ATA
1 ATA ATA ATA
10820273 TCATTTAAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
2 6 0.15
3 34 0.85
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:10823165 original size:19 final size:21
Alignment explanation
Indices: 10823127--10823167 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
10823117 ATTGGGTGGA
*
10823127 TCAGCTTTTACGAGCTTCTGT
1 TCAGCTTTTACGACCTTCTGT
10823148 TCAGC-TTT-CGACCTTCTGT
1 TCAGCTTTTACGACCTTCTGT
10823167 T
1 T
10823168 GGCGTATCGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
20 3 0.16
21 5 0.26
ACGTcount: A:0.12, C:0.27, G:0.17, T:0.44
Consensus pattern (21 bp):
TCAGCTTTTACGACCTTCTGT
Found at i:10823797 original size:18 final size:17
Alignment explanation
Indices: 10823766--10823799 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
10823756 AGTTGATGAA
*
10823766 TTGAATTAATTTGTATT
1 TTGAATTAAATTGTATT
10823783 TTGAGATTAAATTGTAT
1 TTGA-ATTAAATTGTAT
10823800 ATAATTGTGG
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:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (17 bp):
TTGAATTAAATTGTATT
Found at i:10824183 original size:121 final size:123
Alignment explanation
Indices: 10824049--10824274 Score: 323
Period size: 123 Copynumber: 1.9 Consensus size: 123
10824039 GTGGGCTCTT
* * * *
10824049 CTCTTGAATAAAAAATGGAGACATT-AA-AGAGAAAT-GAACATGTTAAAAGTATTTGTGAATCC
1 CTCTTGAATAAAAAATGAAGACATTAAAGAGAGAAATGGAA-ATGTTAAAAATATTTGCGAAGCC
* ** * *
10824111 ATGAGAGGCTTCATTGGTGCAATATGAACATGATCCACTAACTATACAGGATGCCTCCC
65 AGGAGACACTTCATTGGTCCAATATGAAAATGATCCACTAACTATACAGGATGCCTCCC
*
10824170 CTCTTGAATAAAAAATGAAGACATTAAAGAGAGAAATGGAAATGTTAAAAATATTTGCGAAGCTA
1 CTCTTGAATAAAAAATGAAGACATTAAAGAGAGAAATGGAAATGTTAAAAATATTTGCGAAGCCA
*
10824235 GGAGACACTTTATTGGTCCAATATGAAAATGATCCACTAA
66 GGAGACACTTCATTGGTCCAATATGAAAATGATCCACTAA
10824275 TTGTATTGGT
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
121 24 0.26
122 2 0.02
123 62 0.68
124 3 0.03
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.26
Consensus pattern (123 bp):
CTCTTGAATAAAAAATGAAGACATTAAAGAGAGAAATGGAAATGTTAAAAATATTTGCGAAGCCA
GGAGACACTTCATTGGTCCAATATGAAAATGATCCACTAACTATACAGGATGCCTCCC
Found at i:10826028 original size:15 final size:15
Alignment explanation
Indices: 10826005--10826037 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
10825995 GTGATATGTC
10826005 ATTGATGTATTTATT
1 ATTGATGTATTTATT
*
10826020 ATTGTTGTATTTATT
1 ATTGATGTATTTATT
10826035 ATT
1 ATT
10826038 ATAGCATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (15 bp):
ATTGATGTATTTATT
Found at i:10826441 original size:98 final size:98
Alignment explanation
Indices: 10826311--10826507 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
10826301 TTAAAAATAA
* *
10826311 TAAAGGAAATATTCCGAGTTTGAGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
10826376 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
*
10826409 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
*
10826474 TTAAATTTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
10826507 T
1 T
10826508 TCTATTATAC
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.38
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:10827385 original size:22 final size:22
Alignment explanation
Indices: 10827360--10827405 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
10827350 TAGAACAGGT
*
10827360 CCGAGCCCGAGATAGATCTGAC
1 CCGAGCCCGAGATAAATCTGAC
** *
10827382 CCGAGCTTGAGATAAATTTGAC
1 CCGAGCCCGAGATAAATCTGAC
10827404 CC
1 CC
10827406 AAAGCCTGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (22 bp):
CCGAGCCCGAGATAAATCTGAC
Found at i:10828540 original size:127 final size:126
Alignment explanation
Indices: 10828338--10828697 Score: 492
Period size: 126 Copynumber: 2.9 Consensus size: 126
10828328 AAAAACTTTT
* * * *
10828338 TTTTTCTACAGTAGTTTTTG-AAAAATAATTTTGAAAAAACGGTTCTA-AA-AGATAATGTAAAA
1 TTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAAACGGTTC-AGAACAAATAGTGTAAAA
* * * *
10828400 AGCGCTTAAAGCAGGATGCACTGTTAGCAAAATTACTAAAAAATAGCTCCCATGTGGATGCTC
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAA-AGCTCCCACGTGGATGCTC
* *
10828463 TTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGATTCAGAACAAATAGTGTAAAAA
1 TTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAAACGGTTCAGAACAAATAGTGTAAAAA
* *
10828528 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTCACGTGGATGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGATGCTC
* * * *
10828589 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAATACGGTTCTGAACAAATAGTGTTAAAA
1 TTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAAACGGTTCAGAACAAATAGTGTAAAAA
* * * * *
10828654 ACTCTTCAAGCAAGATGTACTGTCAGCAAAATTATTGAAAAAAG
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAG
10828698 TTACATAAGT
Statistics
Matches: 211, Mismatches: 21, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
125 20 0.09
126 141 0.67
127 50 0.24
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.29
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAAACGGTTCAGAACAAATAGTGTAAAAA
ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGATGCTC
Found at i:10831669 original size:24 final size:24
Alignment explanation
Indices: 10831613--10831669 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
10831603 AAGAACTTCT
*
10831613 ATTTTATTAAAAATATAAAAATAA
1 ATTTTATTAAAAATATAAAAACAA
*
10831637 ATTACTATT-AAAATATTAAAAACAA
1 ATT-TTATTAAAAATA-TAAAAACAA
*
10831662 CTTTTATT
1 ATTTTATT
10831670 TTATAAATTG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
24 13 0.48
25 14 0.52
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.40
Consensus pattern (24 bp):
ATTTTATTAAAAATATAAAAACAA
Found at i:10831811 original size:93 final size:92
Alignment explanation
Indices: 10831617--10831808 Score: 318
Period size: 93 Copynumber: 2.1 Consensus size: 92
10831607 ACTTCTATTT
*
10831617 TATTAAAAATATAAAAATAAATTACTATTAAAATATTAAAAACAACTTTTATTTTATAAATTGAA
1 TATTAAAAATATAAAAATAAATTACTAATAAAATATTAAAAACAACTTTTATTTTATAAATTGAA
*
10831682 ACAATATAAAAATAGTTTGTACAAATA
66 ACAATATAAAAATAGATTGTACAAATA
*
10831709 TATTAAAAATATAAAAAATAAATTACTAATAAAATATTAAAAGCAACTTTTATTTTATTAAA-TG
1 TATTAAAAATAT-AAAAATAAATTACTAATAAAATATTAAAAACAACTTTTATTTTA-TAAATTG
10831773 AAACAATATAAAAA-A-ATTGTACAAATA
64 AAACAATATAAAAATAGATTGTACAAATA
10831800 TATTAAAAA
1 TATTAAAAA
10831809 AATCAATGTT
Statistics
Matches: 95, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
91 20 0.21
92 13 0.14
93 58 0.61
94 4 0.04
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.34
Consensus pattern (92 bp):
TATTAAAAATATAAAAATAAATTACTAATAAAATATTAAAAACAACTTTTATTTTATAAATTGAA
ACAATATAAAAATAGATTGTACAAATA
Found at i:10833783 original size:18 final size:20
Alignment explanation
Indices: 10833760--10833799 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
10833750 AAAATTAATT
*
10833760 AAAATTACATAA-A-TGAAA
1 AAAATTAAATAATATTGAAA
10833778 AAAATTAAATAATATTGAAA
1 AAAATTAAATAATATTGAAA
10833798 AA
1 AA
10833800 TTAAAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
19 1 0.05
20 7 0.37
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.25
Consensus pattern (20 bp):
AAAATTAAATAATATTGAAA
Found at i:10835752 original size:10 final size:10
Alignment explanation
Indices: 10835739--10835772 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
10835729 CACACCCCCT
*
10835739 CTCTCTCTCT
1 CTCTCTCTCA
10835749 CTCTCTCTCA
1 CTCTCTCTCA
*
10835759 CTCTTTCTCA
1 CTCTCTCTCA
10835769 CTCT
1 CTCT
10835773 GGTTTAGTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.06, C:0.47, G:0.00, T:0.47
Consensus pattern (10 bp):
CTCTCTCTCA
Found at i:10847246 original size:190 final size:180
Alignment explanation
Indices: 10846893--10847254 Score: 458
Period size: 190 Copynumber: 2.0 Consensus size: 180
10846883 AAAATAAAAA
10846893 GTTTTTGGGGAATAAAATTTTGAGGGAAAGTAAATAGGTAAAATTTTGGAAGGAAAATATTAAAA
1 GTTTTTGGGGAATAAAATTTTGAGGGAAAGTAAATAGGTAAAATTTTGGAAGGAAAATATTAAAA
* ** *
10846958 AAAAATTGGGGGGATGGGTTTGGGGTAGATGAGGGTGGGAAAGGAGGGGAGTAAAAGTTTTAGGG
66 AAAAATTGGGGGAATGAATTTGGGGTAGATGAGGGTGGGAAAGGAGGGAAGTAAAAGTTTTAGGG
*
10847023 GGAAAGTGGGAGGGAGTAAAAATTTTGGGGAAAAATAAAAAGTTTTAAGG
131 GGAAAGTGGGAAGGAGTAAAAATTTTGGGGAAAAATAAAAAGTTTTAAGG
* ** *
10847073 GTTTTT-GGGAGTAAAATTTTGAGGGAAAGTAAATGGGAGAGTAAAATTTTTTAGGGAAAATATT
1 GTTTTTGGGGAATAAAATTTTGAGGGAAAGTAAAT---AG-GTAAAATTTTGGAAGGAAAATATT
* **
10847137 AAAAAAATATATTTGGTGGGAAATGAATTTTGGGTAGATGAGGGATTGGGATGGGAGGGAAGTAA
62 AAAAAAA-A-A-TTGG-GGG-AATGAATTTGGGGTAGATGAGGG--TGGGAAAGGAGGGAAGTAA
* * * *
10847202 AAGTTTT-GGGGGGAAGTGGGAAGGAGTTAAAGTTTTGGGGGAAAAGTAAAAAG
120 AAGTTTTAGGGGGAAAGTGGGAAGGAGTAAAAATTTT-GGGGAAAAATAAAAAG
10847255 GTCTGGGGTT
Statistics
Matches: 154, Mismatches: 16, Indels: 14
0.84 0.09 0.08
Matches are distributed among these distances:
179 27 0.18
180 6 0.04
182 2 0.01
183 28 0.18
184 1 0.01
185 1 0.01
186 4 0.03
187 3 0.02
188 19 0.12
189 25 0.16
190 38 0.25
ACGTcount: A:0.38, C:0.00, G:0.36, T:0.27
Consensus pattern (180 bp):
GTTTTTGGGGAATAAAATTTTGAGGGAAAGTAAATAGGTAAAATTTTGGAAGGAAAATATTAAAA
AAAAATTGGGGGAATGAATTTGGGGTAGATGAGGGTGGGAAAGGAGGGAAGTAAAAGTTTTAGGG
GGAAAGTGGGAAGGAGTAAAAATTTTGGGGAAAAATAAAAAGTTTTAAGG
Found at i:10849171 original size:40 final size:40
Alignment explanation
Indices: 10848987--10849211 Score: 249
Period size: 40 Copynumber: 5.7 Consensus size: 40
10848977 GCTCCTCGTT
* * * * *
10848987 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* *
10849027 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
*
10849066 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* * *
10849106 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
** * * * *
10849146 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCA
*
10849187 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
10849212 CAGCATTCAA
Statistics
Matches: 163, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.71
41 11 0.07
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
Found at i:10849220 original size:41 final size:41
Alignment explanation
Indices: 10849143--10849220 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
10849133 TTAGTATCTC
* * *
10849143 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
10849184 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
10849221 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:10857088 original size:40 final size:40
Alignment explanation
Indices: 10856906--10857128 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
10856896 TCCTCGTTCA
* * * * *
10856906 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
10856945 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
10856985 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
10857025 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
10857065 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
10857105 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
10857129 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:10857137 original size:41 final size:41
Alignment explanation
Indices: 10857060--10857137 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
10857050 TTAGTATCTC
* * *
10857060 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
10857101 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
10857138 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:10861815 original size:16 final size:16
Alignment explanation
Indices: 10861781--10861832 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
10861771 TAGTTCGCTA
* **
10861781 TAATGGAATAAAGATG
1 TAATGGAATAGAGGCG
*
10861797 TAATGGAATAGATGCG
1 TAATGGAATAGAGGCG
10861813 TAATGGAATAGAGGCG
1 TAATGGAATAGAGGCG
10861829 TAAT
1 TAAT
10861833 AGGTAATTCT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.42, C:0.04, G:0.29, T:0.25
Consensus pattern (16 bp):
TAATGGAATAGAGGCG
Found at i:10861901 original size:44 final size:46
Alignment explanation
Indices: 10861818--10861909 Score: 143
Period size: 44 Copynumber: 2.0 Consensus size: 46
10861808 ATGCGTAATG
* *
10861818 GAATAGAGGCGTAATAGGTAATTCTTTTATTTGGTTGAATGGAATA
1 GAATAGAGGCGTAATAGGTAATTCTTGTATTTGGATGAATGGAATA
*
10861864 GAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGATGAATGGAATA
1 GAATAGAGGCGTAATAGGTAATTCTTGTATTTGGATGAATGGAATA
10861908 GA
1 GA
10861910 GGTGTAATAG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 25 0.58
45 3 0.07
46 15 0.35
ACGTcount: A:0.32, C:0.04, G:0.29, T:0.35
Consensus pattern (46 bp):
GAATAGAGGCGTAATAGGTAATTCTTGTATTTGGATGAATGGAATA
Found at i:10862242 original size:49 final size:49
Alignment explanation
Indices: 10862166--10862263 Score: 144
Period size: 49 Copynumber: 2.0 Consensus size: 49
10862156 AATTATTATT
* * * *
10862166 AAATATAATTTAATATCATGAATCAAAAGGTGAACACTTTATAAAATTA
1 AAATATAATTTAATATCATGAACCAAAAGCTCAACACTGTATAAAATTA
10862215 AAAT-TAATTTCAATATCATGAACCAAAAGCTCAACACTGTATAAAATTA
1 AAATATAATTT-AATATCATGAACCAAAAGCTCAACACTGTATAAAATTA
10862264 TAACACATGA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
48 6 0.14
49 38 0.86
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.31
Consensus pattern (49 bp):
AAATATAATTTAATATCATGAACCAAAAGCTCAACACTGTATAAAATTA
Found at i:10876713 original size:3 final size:3
Alignment explanation
Indices: 10876705--10876747 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
10876695 AGACGACAAT
10876705 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
10876748 GACCTGAATC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:10890591 original size:20 final size:20
Alignment explanation
Indices: 10890566--10890605 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
10890556 TTTCAAATTA
*
10890566 ATTTTACCAAATATAATATT
1 ATTTTAACAAATATAATATT
**
10890586 ATTTTAATGAATATAATATT
1 ATTTTAACAAATATAATATT
10890606 TATCTAGATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (20 bp):
ATTTTAACAAATATAATATT
Found at i:10893620 original size:46 final size:47
Alignment explanation
Indices: 10893566--10893660 Score: 165
Period size: 46 Copynumber: 2.0 Consensus size: 47
10893556 ATAAATAAAA
*
10893566 TAAAAATAGAGATTTTATTGAAA-AAAATATGAGAAGAACAAAAGCC
1 TAAAAATAGAGATTTTATTGAAAGAAAATATAAGAAGAACAAAAGCC
*
10893612 TAAAAATAGAGATTTTATTGAAAGGAAATATAAGAAGAACAAAAGCC
1 TAAAAATAGAGATTTTATTGAAAGAAAATATAAGAAGAACAAAAGCC
10893659 TA
1 TA
10893661 GATTTTTGGG
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
46 23 0.50
47 23 0.50
ACGTcount: A:0.56, C:0.06, G:0.16, T:0.22
Consensus pattern (47 bp):
TAAAAATAGAGATTTTATTGAAAGAAAATATAAGAAGAACAAAAGCC
Found at i:10895171 original size:54 final size:54
Alignment explanation
Indices: 10895064--10895209 Score: 168
Period size: 54 Copynumber: 2.7 Consensus size: 54
10895054 CTAACAGAAC
* * * * * * * *
10895064 ACGCCATACAGGCAAT-CATATAGAGTATGCCACCAAGTCGATCCATTCTGAGT
1 ACGCCACAAAGGCAATCCATTTAGAGTATGCCACAAAGGCGAGCCAGTCAGAGT
* * *
10895117 ATGCCACAAAGGCAATCCATTTAAAGTGTGCCACAAAGGCGAGCCAGTCAGAGT
1 ACGCCACAAAGGCAATCCATTTAGAGTATGCCACAAAGGCGAGCCAGTCAGAGT
* *
10895171 ACGCCACAAAGGCAATCCAATTAGAGTACGCCACAAAGG
1 ACGCCACAAAGGCAATCCATTTAGAGTATGCCACAAAGG
10895210 AAATCCAGTT
Statistics
Matches: 76, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
53 13 0.17
54 63 0.83
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.17
Consensus pattern (54 bp):
ACGCCACAAAGGCAATCCATTTAGAGTATGCCACAAAGGCGAGCCAGTCAGAGT
Found at i:10895230 original size:27 final size:27
Alignment explanation
Indices: 10895084--10895230 Score: 143
Period size: 27 Copynumber: 5.4 Consensus size: 27
10895074 GGCAATCATA
* * *
10895084 TAGAGTATGCCACCAAGTCGATCCA-T
1 TAGAGTATGCCACAAAGGCAATCCAGT
* *
10895110 TCTGAGTATGCCACAAAGGCAATCCATT
1 T-AGAGTATGCCACAAAGGCAATCCAGT
* * * *
10895138 TAAAGTGTGCCACAAAGGCGAGCCAGT
1 TAGAGTATGCCACAAAGGCAATCCAGT
* * *
10895165 CAGAGTACGCCACAAAGGCAATCCAAT
1 TAGAGTATGCCACAAAGGCAATCCAGT
* *
10895192 TAGAGTACGCCACAAAGGAAATCCAGT
1 TAGAGTATGCCACAAAGGCAATCCAGT
*
10895219 TAGAGTTTGCCA
1 TAGAGTATGCCA
10895231 TGGTCATGGA
Statistics
Matches: 97, Mismatches: 22, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
26 1 0.01
27 94 0.97
28 2 0.02
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (27 bp):
TAGAGTATGCCACAAAGGCAATCCAGT
Found at i:10899574 original size:26 final size:26
Alignment explanation
Indices: 10899526--10899575 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
10899516 ATGAAAAAGG
**
10899526 GGTTGCTAAGTACAGATTTCCCGAGA
1 GGTTGCTAAGTACAGATGCCCCGAGA
* *
10899552 GGTTGCTAAGTGCTGATGCCCCGA
1 GGTTGCTAAGTACAGATGCCCCGA
10899576 ATTATTGATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (26 bp):
GGTTGCTAAGTACAGATGCCCCGAGA
Found at i:10917253 original size:31 final size:31
Alignment explanation
Indices: 10917215--10917278 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
10917205 TTCAAATAAA
* *
10917215 CCCTACAAACACCTTATCTAAACTCTCTTTC
1 CCCTACAAACACCTCATCTAAACTCCCTTTC
10917246 CCCTACAAACACCTCATCTAAACTCCCTTTC
1 CCCTACAAACACCTCATCTAAACTCCCTTTC
10917277 CC
1 CC
10917279 TGTCTCTCGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.28, C:0.44, G:0.00, T:0.28
Consensus pattern (31 bp):
CCCTACAAACACCTCATCTAAACTCCCTTTC
Found at i:10928312 original size:28 final size:28
Alignment explanation
Indices: 10928280--10928335 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
10928270 CCGGTATCAT
10928280 CAACTACGGCTGATCACGACTACACGAC
1 CAACTACGGCTGATCACGACTACACGAC
*
10928308 CAACTACGGCTGATCACTACTACACGAC
1 CAACTACGGCTGATCACGACTACACGAC
10928336 GCAATTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.32, C:0.36, G:0.16, T:0.16
Consensus pattern (28 bp):
CAACTACGGCTGATCACGACTACACGAC
Found at i:10936208 original size:17 final size:17
Alignment explanation
Indices: 10936171--10936208 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
10936161 TTTTATACCG
**
10936171 TAAAGTTCCTCTATTTT
1 TAAAGTTCCTCTATTGA
10936188 TAAAGTTCCTCTATTGA
1 TAAAGTTCCTCTATTGA
10936205 TAAA
1 TAAA
10936209 TTCAAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.45
Consensus pattern (17 bp):
TAAAGTTCCTCTATTGA
Found at i:10936596 original size:27 final size:28
Alignment explanation
Indices: 10936566--10936630 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 28
10936556 CTTATCAGGT
10936566 AGGCGCCAATGAAA-GTGCCTCATAGAG
1 AGGCGCCAATGAAATGTGCCTCATAGAG
* * *
10936593 AGGCACCAA-GAAATGTGCCTCTTAGGG
1 AGGCGCCAATGAAATGTGCCTCATAGAG
10936620 AGGCGCCAATG
1 AGGCGCCAATG
10936631 GTGGCCTTCT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 4 0.12
27 27 0.84
28 1 0.03
ACGTcount: A:0.31, C:0.23, G:0.31, T:0.15
Consensus pattern (28 bp):
AGGCGCCAATGAAATGTGCCTCATAGAG
Found at i:10936776 original size:17 final size:17
Alignment explanation
Indices: 10936751--10936807 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
10936741 GTAGGAAAAA
*
10936751 AAAAAGAGAGAAAGGAG
1 AAAAAGAGAGAAAGAAG
*
10936768 AAGAAGAGA-AGAAGAAG
1 AAAAAGAGAGA-AAGAAG
* *
10936785 AAAAAGAAAGAAAGAAA
1 AAAAAGAGAGAAAGAAG
10936802 AAAAAG
1 AAAAAG
10936808 GTAATGTATT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
16 1 0.03
17 31 0.94
18 1 0.03
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (17 bp):
AAAAAGAGAGAAAGAAG
Found at i:10936963 original size:19 final size:19
Alignment explanation
Indices: 10936935--10937123 Score: 114
Period size: 19 Copynumber: 9.2 Consensus size: 19
10936925 TTGGATTAGT
*
10936935 ATTTTATATGAATATTGTA
1 ATTTTGTATGAATATTGTA
10936954 ATTTTGTATGAATATTGTA
1 ATTTTGTATGAATATTGTA
* *
10936973 ATTATTTTAT-AATTAAATTAATA
1 ATT-TTGTATGAA-T--ATT-GTA
* * * *
10936996 TTTTTAGTTTTGGAT-TAGT-
1 ATTTT-G-TATGAATATTGTA
10937015 ATTTTGTATGAATATTGTA
1 ATTTTGTATGAATATTGTA
10937034 ATTTTGTATGAATATTGTA
1 ATTTTGTATGAATATTGTA
*
10937053 ATTTTTTGTATGAATGTTGTA
1 A--TTTTGTATGAATATTGTA
*
10937074 ATTTCGGGATATATTGTAATATTGTAA
1 ATTT-----TGTA-TG-AATATTGT-A
10937101 ATTTTTGTATGAATATTGTA
1 A-TTTTGTATGAATATTGTA
10937121 ATT
1 ATT
10937124 ATTTTATAAT
Statistics
Matches: 132, Mismatches: 17, Indels: 42
0.69 0.09 0.22
Matches are distributed among these distances:
17 5 0.04
18 4 0.03
19 52 0.39
20 9 0.07
21 27 0.20
22 7 0.05
23 7 0.05
24 6 0.05
25 3 0.02
26 7 0.05
27 2 0.02
28 3 0.02
ACGTcount: A:0.32, C:0.01, G:0.14, T:0.53
Consensus pattern (19 bp):
ATTTTGTATGAATATTGTA
Found at i:10937001 original size:61 final size:58
Alignment explanation
Indices: 10936936--10937141 Score: 139
Period size: 61 Copynumber: 3.3 Consensus size: 58
10936926 TGGATTAGTA
*
10936936 TTTTATATGAATATTGTAATTTTGTATGAATATTGTAATTATTTTAT-AATTAAAT-TAATAT
1 TTTTATATGAAT-TTGTAATTTTGTATGAATATTGTAATT-TTGTATGAA-T-AATGTAAT-T
* * * *
10936997 TTTTAGTTTTGGATTAGT-ATTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATT
1 TTTTA--TATGAATTTGTAATTTTGTATGAATATTGTAATTTTGTATGAATAATGTAATT
* * *
10937056 TTTTGTATGAATGTTGTAATTTCGGGATATATTGTAATATTGTAAATTTTTGTATGAATATTGTA
1 TTTTATATGAAT-TTGTAATTT-----TGTA-TG-AATATTGT-AA-TTTTGTATGAATAATGTA
10937121 ATT
56 ATT
*
10937124 ATTTTATAATTAATTTGT
1 -TTTTAT-ATGAATTTGT
10937142 TAGTAATTTA
Statistics
Matches: 116, Mismatches: 12, Indels: 26
0.75 0.08 0.17
Matches are distributed among these distances:
57 5 0.04
58 3 0.03
59 11 0.09
60 10 0.09
61 29 0.25
62 3 0.03
63 5 0.04
64 3 0.03
65 2 0.02
66 8 0.07
67 2 0.02
68 21 0.18
69 9 0.08
70 5 0.04
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (58 bp):
TTTTATATGAATTTGTAATTTTGTATGAATATTGTAATTTTGTATGAATAATGTAATT
Found at i:10937061 original size:21 final size:21
Alignment explanation
Indices: 10937016--10937077 Score: 101
Period size: 21 Copynumber: 3.0 Consensus size: 21
10937006 TGGATTAGTA
10937016 TTTTGTATGAATATTGTAA--
1 TTTTGTATGAATATTGTAATT
10937035 TTTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATT
*
10937056 TTTTGTATGAATGTTGTAATT
1 TTTTGTATGAATATTGTAATT
10937077 T
1 T
10937078 CGGGATATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
19 19 0.47
21 21 0.52
ACGTcount: A:0.27, C:0.00, G:0.16, T:0.56
Consensus pattern (21 bp):
TTTTGTATGAATATTGTAATT
Found at i:10937186 original size:60 final size:60
Alignment explanation
Indices: 10937116--10937237 Score: 174
Period size: 60 Copynumber: 2.0 Consensus size: 60
10937106 TGTATGAATA
* * * * *
10937116 TTGTAATTATTTTATAA-TTAATTTGTTAGTAATTTAGGATTATGTTATAAATTTTTGTGT
1 TTGTAATTA-TTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
*
10937176 TTGTAATTATTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAGTTGTTGTGT
1 TTGTAATTATTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
10937236 TT
1 TT
10937238 AGTTTAGTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
59 6 0.11
60 49 0.89
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.54
Consensus pattern (60 bp):
TTGTAATTATTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
Found at i:10937376 original size:16 final size:15
Alignment explanation
Indices: 10937355--10937391 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
10937345 CTCATTTAAT
10937355 TTTTATATAATGTAA
1 TTTTATATAATGTAA
*
10937370 CTTTTATATAATTTAA
1 -TTTTATATAATGTAA
10937386 TTTTAT
1 TTTTAT
10937392 TTGATTTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (15 bp):
TTTTATATAATGTAA
Found at i:10942519 original size:24 final size:24
Alignment explanation
Indices: 10942467--10942519 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
10942457 ATACCTTATC
* *
10942467 CTTCTTCTTCTTTACCTTTCTTTT
1 CTTCTTCTGCCTTACCTTTCTTTT
*
10942491 TTTCTTCTGCCTT-CCTTTCTATTT
1 CTTCTTCTGCCTTACCTTTCT-TTT
10942515 CTTCT
1 CTTCT
10942520 GTTTCTCTGG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.04, C:0.30, G:0.02, T:0.64
Consensus pattern (24 bp):
CTTCTTCTGCCTTACCTTTCTTTT
Found at i:10942648 original size:27 final size:27
Alignment explanation
Indices: 10942575--10942652 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
10942565 GAAAAATCAG
*
10942575 ACCATTGGCGCCTCTTAACAT-GGCACC
1 ACCATTGGCGCCT-TTAAGATAGGCACC
* * *
10942602 ACTATTGGCGCCTCTCAGATAGGCACC
1 ACCATTGGCGCCTTTAAGATAGGCACC
*
10942629 ACCATTGGCGCCTTTGAGATAGGC
1 ACCATTGGCGCCTTTAAGATAGGC
10942653 GCCAATACTA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
26 4 0.09
27 39 0.91
ACGTcount: A:0.22, C:0.32, G:0.23, T:0.23
Consensus pattern (27 bp):
ACCATTGGCGCCTTTAAGATAGGCACC
Found at i:10942884 original size:30 final size:29
Alignment explanation
Indices: 10942831--10942908 Score: 102
Period size: 30 Copynumber: 2.7 Consensus size: 29
10942821 TGAAAAAAGT
* *
10942831 ACCCCATTTTGGTAAATAATTTTTCTGAC
1 ACCCCATTTTAGTAAAAAATTTTTCTGAC
* * *
10942860 ACCCCATTTTAGTACAAAAATTTTTTTTAT
1 ACCCCATTTTAGTA-AAAAATTTTTCTGAC
10942890 ACCCCATTTTAGTAAAAAA
1 ACCCCATTTTAGTAAAAAA
10942909 ACCCCTATAG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
29 18 0.42
30 25 0.58
ACGTcount: A:0.35, C:0.19, G:0.06, T:0.40
Consensus pattern (29 bp):
ACCCCATTTTAGTAAAAAATTTTTCTGAC
Found at i:10945688 original size:3 final size:3
Alignment explanation
Indices: 10945667--10945711 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
10945657 TTAAAATACT
* *
10945667 TAA TAA TCA TAA -AA AAA TAA TAA TAA -AA TAA TAA TAA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
10945712 GATCTGACAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
2 6 0.17
3 30 0.83
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (3 bp):
TAA
Found at i:10945694 original size:11 final size:11
Alignment explanation
Indices: 10945675--10945711 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
10945665 CTTAATAATC
*
10945675 ATAAAAAAATA
1 ATAATAAAATA
10945686 ATAATAAAATA
1 ATAATAAAATA
10945697 ATAATAAAATA
1 ATAATAAAATA
10945708 ATAA
1 ATAA
10945712 GATCTGACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
ATAATAAAATA
Found at i:10945696 original size:8 final size:9
Alignment explanation
Indices: 10945667--10945711 Score: 51
Period size: 8 Copynumber: 5.3 Consensus size: 9
10945657 TTAAAATACT
*
10945667 TAATAATCA
1 TAATAATAA
*
10945676 TAA-AAAAA
1 TAATAATAA
10945684 TAATAATAA
1 TAATAATAA
10945693 -AATAATAA
1 TAATAATAA
10945701 TAA-AATAA
1 TAATAATAA
10945709 TAA
1 TAA
10945712 GATCTGACAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
8 22 0.71
9 9 0.29
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (9 bp):
TAATAATAA
Done.