Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 68 of 160
Found at i:14146904 original size:13 final size:13
Alignment explanation
Indices: 14146886--14146910 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14146876 GTTGAAATTG
14146886 ATTTGTAAATAAT
1 ATTTGTAAATAAT
14146899 ATTTGTAAATAA
1 ATTTGTAAATAA
14146911 CAAAGGAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
ATTTGTAAATAAT
Found at i:14152044 original size:15 final size:15
Alignment explanation
Indices: 14152022--14152060 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
14152012 ATTAAGCATG
*
14152022 AAAATTAAACATTAT
1 AAAATTAAACAATAT
* *
14152037 ATAATTAAGCAATAT
1 AAAATTAAACAATAT
14152052 AAAATTAAA
1 AAAATTAAA
14152061 AGCGCATAAA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.31
Consensus pattern (15 bp):
AAAATTAAACAATAT
Found at i:14152254 original size:33 final size:33
Alignment explanation
Indices: 14152200--14152288 Score: 97
Period size: 33 Copynumber: 2.6 Consensus size: 33
14152190 GGAATGCATC
* *
14152200 AAATTTAAAGAGCAACTTGAAATGTAAATAGTATGG
1 AAATTTAAAGAGC-A--TGAAATGTAAATAGCATGA
* *
14152236 AAATTTAAAGAGCATGAAATTTAAATTGCATGA
1 AAATTTAAAGAGCATGAAATGTAAATAGCATGA
*
14152269 AAATTTAAAGAACATAGAAA
1 AAATTTAAAGAGCAT-GAAA
14152289 ATAAAGATCA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
33 29 0.62
34 4 0.09
35 1 0.02
36 13 0.28
ACGTcount: A:0.52, C:0.06, G:0.16, T:0.27
Consensus pattern (33 bp):
AAATTTAAAGAGCATGAAATGTAAATAGCATGA
Found at i:14152256 original size:16 final size:16
Alignment explanation
Indices: 14152195--14152279 Score: 71
Period size: 17 Copynumber: 5.0 Consensus size: 16
14152185 TAAATGGAAT
*
14152195 GCATCAAATTTAAAGA
1 GCATGAAATTTAAAGA
* *
14152211 GCAACTTGAAATGTAAATA
1 GC-A--TGAAATTTAAAGA
*
14152230 GTATGGAAATTTAAAGA
1 GCAT-GAAATTTAAAGA
**
14152247 GCATGAAATTTAAATT
1 GCATGAAATTTAAAGA
14152263 GCATGAAAATTTAAAGA
1 GCATG-AAATTTAAAGA
14152280 ACATAGAAAA
Statistics
Matches: 53, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
16 18 0.34
17 23 0.43
18 1 0.02
19 11 0.21
ACGTcount: A:0.48, C:0.07, G:0.16, T:0.28
Consensus pattern (16 bp):
GCATGAAATTTAAAGA
Found at i:14154410 original size:19 final size:19
Alignment explanation
Indices: 14154386--14154423 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
14154376 ACATCATTCT
*
14154386 AAAGTTATCAAATTACCAA
1 AAAGTTATCAAAATACCAA
14154405 AAAGTTATCAAAATACCAA
1 AAAGTTATCAAAATACCAA
14154424 TGTAATAGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.16, G:0.05, T:0.24
Consensus pattern (19 bp):
AAAGTTATCAAAATACCAA
Found at i:14155308 original size:12 final size:12
Alignment explanation
Indices: 14155275--14155311 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
14155265 AATGTTTCTT
14155275 AATATAAAACCC
1 AATATAAAACCC
*
14155287 AA-ACAAAACCC
1 AATATAAAACCC
14155298 AATATAAAACCC
1 AATATAAAACCC
14155310 AA
1 AA
14155312 ACAAAAACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 10 0.45
12 12 0.55
ACGTcount: A:0.62, C:0.27, G:0.00, T:0.11
Consensus pattern (12 bp):
AATATAAAACCC
Found at i:14155319 original size:12 final size:11
Alignment explanation
Indices: 14155280--14155317 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
14155270 TTCTTAATAT
14155280 AAAACCCAAAC
1 AAAACCCAAAC
*
14155291 AAAACCCAATAT
1 AAAACCCAA-AC
14155303 AAAACCCAAAC
1 AAAACCCAAAC
14155314 AAAA
1 AAAA
14155318 ACTAAGAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.66, C:0.29, G:0.00, T:0.05
Consensus pattern (11 bp):
AAAACCCAAAC
Found at i:14155336 original size:34 final size:33
Alignment explanation
Indices: 14155298--14155361 Score: 101
Period size: 34 Copynumber: 1.9 Consensus size: 33
14155288 AACAAAACCC
14155298 AATATAAAACCCAAACAAAAACTAAGAGCTTCTT
1 AATATAAAACCCAAACAAAAACTAAG-GCTTCTT
* *
14155332 AATATAGAACCCAAATAAAAACTAAGGCTT
1 AATATAAAACCCAAACAAAAACTAAGGCTT
14155362 GATGAATAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 4 0.14
34 24 0.86
ACGTcount: A:0.53, C:0.19, G:0.08, T:0.20
Consensus pattern (33 bp):
AATATAAAACCCAAACAAAAACTAAGGCTTCTT
Found at i:14159437 original size:21 final size:21
Alignment explanation
Indices: 14159412--14159457 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
14159402 AAGGATTACA
14159412 AATAA-AGAAAAGACCAAATTG
1 AATAATAG-AAAGACCAAATTG
*
14159433 AATAATTGAAAGACCAAATTG
1 AATAATAGAAAGACCAAATTG
14159454 AATA
1 AATA
14159458 TGAAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.59, C:0.09, G:0.13, T:0.20
Consensus pattern (21 bp):
AATAATAGAAAGACCAAATTG
Found at i:14168186 original size:5 final size:5
Alignment explanation
Indices: 14168172--14168245 Score: 60
Period size: 5 Copynumber: 14.0 Consensus size: 5
14168162 CCTCTTTCCC
*
14168172 TTTT- TTTTG TTTTG TTTTG TTTTG ATTTTG TTTTG TCTTTTA TTTTG
1 TTTTG TTTTG TTTTG TTTTG TTTTG -TTTTG TTTTG --TTTTG TTTTG
* * *
14168219 TTTATT TTGTTC TTTTA TTTTG TTTTG
1 TTT-TG TT-TTG TTTTG TTTTG TTTTG
14168246 AACAATAACG
Statistics
Matches: 58, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
4 4 0.07
5 38 0.66
6 11 0.19
7 5 0.09
ACGTcount: A:0.05, C:0.03, G:0.14, T:0.78
Consensus pattern (5 bp):
TTTTG
Found at i:14168200 original size:16 final size:16
Alignment explanation
Indices: 14168172--14168221 Score: 68
Period size: 17 Copynumber: 3.2 Consensus size: 16
14168162 CCTCTTTCCC
14168172 TTTT-TTTTG-TTTTG
1 TTTTGTTTTGATTTTG
14168186 TTTTGTTTTGATTTTG
1 TTTTGTTTTGATTTTG
*
14168202 TTTTGTCTTTTATTTTG
1 TTTTGT-TTTGATTTTG
14168219 TTT
1 TTT
14168222 ATTTTGTTCT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
14 4 0.12
15 5 0.16
16 11 0.34
17 12 0.38
ACGTcount: A:0.04, C:0.02, G:0.14, T:0.80
Consensus pattern (16 bp):
TTTTGTTTTGATTTTG
Found at i:14168235 original size:22 final size:21
Alignment explanation
Indices: 14168202--14168243 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 21
14168192 TTTGATTTTG
14168202 TTTTGTCTTTTATTTTGTTTA
1 TTTTGTCTTTTATTTTGTTTA
14168223 TTTTGTTCTTTTATTTTGTTT
1 TTTTG-TCTTTTATTTTGTTT
14168244 TGAACAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.07, C:0.05, G:0.10, T:0.79
Consensus pattern (21 bp):
TTTTGTCTTTTATTTTGTTTA
Found at i:14168394 original size:36 final size:36
Alignment explanation
Indices: 14168354--14168524 Score: 134
Period size: 36 Copynumber: 4.8 Consensus size: 36
14168344 ATCGCAAATC
*
14168354 AAAAAATAAAAATGACTGGGATAACACCACAGGCCA
1 AAAAAATAAAAATGACTGGGATAACACCACAGGTCA
** *
14168390 AAAAAATAAAAATGACTAAGACAACACCA-ATGGT-A
1 AAAAAATAAAAATGACTGGGATAACACCACA-GGTCA
* * * * * *
14168425 AAAAAA-AAAAATTACAGGGATACCATCGCAAGTCA
1 AAAAAATAAAAATGACTGGGATAACACCACAGGTCA
* * ** * *
14168460 AAAAAATAAAAATGA-TCGAGACAGTACTACGGGTCA
1 AAAAAATAAAAATGACT-GGGATAACACCACAGGTCA
* *
14168496 AAAAAATAAAGATGACTGGAATAACACCA
1 AAAAAATAAAAATGACTGGGATAACACCA
14168525 ATGGTCGAGA
Statistics
Matches: 98, Mismatches: 31, Indels: 12
0.70 0.22 0.09
Matches are distributed among these distances:
34 16 0.16
35 16 0.16
36 65 0.66
37 1 0.01
ACGTcount: A:0.55, C:0.16, G:0.15, T:0.14
Consensus pattern (36 bp):
AAAAAATAAAAATGACTGGGATAACACCACAGGTCA
Found at i:14168685 original size:35 final size:35
Alignment explanation
Indices: 14168642--14168721 Score: 106
Period size: 35 Copynumber: 2.3 Consensus size: 35
14168632 GGTTGGAAAT
** *
14168642 ATAAAGATGACTGGGATAACACCACAAGTCAAAAA
1 ATAAAGATGACTAAGACAACACCACAAGTCAAAAA
* **
14168677 ATAGAGATGACTAAGACAACACCGTAAGTCAAAAA
1 ATAAAGATGACTAAGACAACACCACAAGTCAAAAA
14168712 ATAAAGATGA
1 ATAAAGATGA
14168722 TCAGGACAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.53, C:0.15, G:0.17, T:0.15
Consensus pattern (35 bp):
ATAAAGATGACTAAGACAACACCACAAGTCAAAAA
Found at i:14168730 original size:35 final size:35
Alignment explanation
Indices: 14168667--14168770 Score: 111
Period size: 35 Copynumber: 2.9 Consensus size: 35
14168657 ATAACACCAC
* * *
14168667 AAGTCAAAAAATAGAGATGA-CTAAGACAACACCGT
1 AAGTCAAAAAATAAAGATGATC-AGGACAACAACGT
*
14168702 AAGTCAAAAAATAAAGATGATCAGGACAATAACGT
1 AAGTCAAAAAATAAAGATGATCAGGACAACAACGT
* * * *
14168737 AAGTCAGAAAAGTAAAAACGATCGGGACAACAAC
1 AAGTCA-AAAAATAAAGATGATCAGGACAACAAC
14168771 AATGGTCAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
35 35 0.60
36 23 0.40
ACGTcount: A:0.53, C:0.15, G:0.18, T:0.13
Consensus pattern (35 bp):
AAGTCAAAAAATAAAGATGATCAGGACAACAACGT
Found at i:14168800 original size:36 final size:35
Alignment explanation
Indices: 14168760--14168865 Score: 104
Period size: 36 Copynumber: 2.9 Consensus size: 35
14168750 AAAAACGATC
14168760 GGGACAACAACAATGGTCAAAAAAATAAATATGATT
1 GGGACAAC-ACAATGGTCAAAAAAATAAATATGATT
* * *** *
14168796 GGGACGACACGAATGATTGGAAAAACAAATATGATT
1 GGGACAACAC-AATGGTCAAAAAAATAAATATGATT
** *
14168832 GGGACAACACTGTAGGTCAAAAAAATAAAGATGA
1 GGGACAACACAAT-GGTCAAAAAAATAAATATGA
14168866 CCGGACAATA
Statistics
Matches: 53, Mismatches: 15, Indels: 4
0.74 0.21 0.06
Matches are distributed among these distances:
35 3 0.06
36 50 0.94
ACGTcount: A:0.49, C:0.11, G:0.22, T:0.18
Consensus pattern (35 bp):
GGGACAACACAATGGTCAAAAAAATAAATATGATT
Found at i:14168840 original size:18 final size:18
Alignment explanation
Indices: 14168786--14168840 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
14168776 TCAAAAAAAT
*
14168786 AAATATGATTGGGACGAC
1 AAATATGATTGGGACAAC
* * *
14168804 ACGA-ATGATTGGAAAAAC
1 A-AATATGATTGGGACAAC
14168822 AAATATGATTGGGACAAC
1 AAATATGATTGGGACAAC
14168840 A
1 A
14168841 CTGTAGGTCA
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
17 1 0.04
18 26 0.93
19 1 0.04
ACGTcount: A:0.45, C:0.11, G:0.24, T:0.20
Consensus pattern (18 bp):
AAATATGATTGGGACAAC
Found at i:14168872 original size:35 final size:35
Alignment explanation
Indices: 14168833--14169020 Score: 103
Period size: 36 Copynumber: 5.3 Consensus size: 35
14168823 AATATGATTG
*
14168833 GGACAACACTGTAGGTCAAAAAAATAAAGATGACC
1 GGACAACACTGTAGGTCAAAAAAATAAAGATGACA
* * * * *
14168868 GGACAATA-TAATAGGTTAGAAAAAAAAAATATGATCA
1 GGACAACACT-GTAGGTCA-AAAAAATAAAGATGA-CA
** * * * *
14168905 AAACAACACTGTAAGTTAAAAAAGTAAATATGACTA
1 GGACAACACTGTAGGTCAAAAAAATAAAGATGAC-A
* * * * *
14168941 GCATAACACTGCAAGTC-AAAAAATAAAGATAACCA
1 GGACAACACTGTAGGTCAAAAAAATAAAGATGA-CA
* * *
14168976 AGACAACAAC-ATAGGTCAAAAAAATAAAAATGACTA
1 GGACAAC-ACTGTAGGTCAAAAAAATAAAGATGAC-A
*
14169012 TGACAACAC
1 GGACAACAC
14169021 CAACATTGAG
Statistics
Matches: 114, Mismatches: 30, Indels: 18
0.70 0.19 0.11
Matches are distributed among these distances:
34 1 0.01
35 38 0.33
36 62 0.54
37 12 0.11
38 1 0.01
ACGTcount: A:0.55, C:0.14, G:0.14, T:0.17
Consensus pattern (35 bp):
GGACAACACTGTAGGTCAAAAAAATAAAGATGACA
Found at i:14169112 original size:35 final size:34
Alignment explanation
Indices: 14169005--14169197 Score: 126
Period size: 35 Copynumber: 5.5 Consensus size: 34
14168995 AAAAATAAAA
* * * *
14169005 ATGACT-ATGACAACACCAACATTGAGAAGATAAAA
1 ATGACTGA-GACAACACCAACAGTCAAAAGAT-AAG
* *
14169040 ATGA-TCAGGACAACACCAA-TGATCAAGAAG-TAGAG
1 ATGACTGA-GACAACACCAACAG-TCAA-AAGATA-AG
*
14169075 ATGACTGAGACAACACCAACAGTCGAAAAGGTAAG
1 ATGACTGAGACAACACCAACAGTC-AAAAGATAAG
* * *
14169110 ATGATTGAGATAATACCAACAGTCAAAAAGATAAG
1 ATGACTGAGACAACACCAACAGTC-AAAAGATAAG
** * *
14169145 ATGACAAAAACAACACAAACAGTCAATAAGATAAAG
1 ATGACTGAGACAACACCAACAGTCAA-AAGAT-AAG
14169181 ATGACT-AGGACAACACC
1 ATGACTGA-GACAACACC
14169198 CATGATCAGG
Statistics
Matches: 124, Mismatches: 23, Indels: 21
0.74 0.14 0.12
Matches are distributed among these distances:
34 4 0.03
35 95 0.77
36 25 0.20
ACGTcount: A:0.50, C:0.18, G:0.18, T:0.15
Consensus pattern (34 bp):
ATGACTGAGACAACACCAACAGTCAAAAGATAAG
Found at i:14170109 original size:80 final size:79
Alignment explanation
Indices: 14169947--14170165 Score: 251
Period size: 80 Copynumber: 2.7 Consensus size: 79
14169937 TGCAAATGTG
* * * * * * **
14169947 AAGACTTTTTTTGTTTTTGCAATATGTAGATAAAAT-TTTTTTTTATGATGCATATGTAAGTGCA
1 AAGACTTTTTTTGTTTTTGCAATATGCAAATCAAATGTCTTTCTTATGATG-AAATGTAAGCACA
* ** **
14170011 AGTGATGCTAATGTA
65 AATGATGAGAATACA
* *
14170026 AAGACTTTTTTTATTTTTGCAATATACAAATCAAATGTCTTTCTTATGATGAACATGTAAGCACA
1 AAGACTTTTTTTGTTTTTGCAATATGCAAATCAAATGTCTTTCTTATGATGAA-ATGTAAGCACA
14170091 AATGATGAGAATACA
65 AATGATGAGAATACA
* *
14170106 AAGACTTTTTTTGTCTTTGCAACATGCAAATCAAATGTCTTTCTTATGATGTAAATGTAA
1 AAGACTTTTTTTGTTTTTGCAATATGCAAATCAAATGTCTTTCTTATGATG-AAATGTAA
14170166 TTAATACAAA
Statistics
Matches: 118, Mismatches: 19, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
79 32 0.27
80 84 0.71
81 2 0.02
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.41
Consensus pattern (79 bp):
AAGACTTTTTTTGTTTTTGCAATATGCAAATCAAATGTCTTTCTTATGATGAAATGTAAGCACAA
ATGATGAGAATACA
Found at i:14171378 original size:114 final size:112
Alignment explanation
Indices: 14171171--14171378 Score: 238
Period size: 114 Copynumber: 1.8 Consensus size: 112
14171161 GCATTCTTCT
* * * *
14171171 TTCTTAAATTCTATCTCCCTTTTTTACCTGGGATTCTAATTGAAGCCTTAATCACTTTTCATCCT
1 TTCTTAAATTCTATCTCCCTTTTTTACCTGGGATTCTAACTAAAGCCTTAATCACTTTTCACCCC
* **
14171236 AGACTTTCATCTTTGGCATTTTATTCTTTTTTTTTTCAGGAAACATTCA
66 AGACTTTCATCTTAGG-A-TGCATTCTTTTTTTTTTCAGGAAACATTCA
* * * * * * *
14171285 TTCTTGAATTTTATCTGCCTTTTTTACTTTGGATTCTAACTAAAGCTTTATTCACTTTTCACCCC
1 TTCTTAAATTCTATCTCCCTTTTTTACCTGGGATTCTAACTAAAGCCTTAATCACTTTTCACCCC
14171350 AGACTTTCATCTCTAAGG-TGCATGTCTTT
66 AGACTTTCATCT-T-AGGATGCAT-TCTTT
14171379 CTTTCTTTAC
Statistics
Matches: 77, Mismatches: 14, Indels: 6
0.79 0.14 0.06
Matches are distributed among these distances:
113 3 0.04
114 71 0.92
115 1 0.01
116 2 0.03
ACGTcount: A:0.21, C:0.22, G:0.10, T:0.48
Consensus pattern (112 bp):
TTCTTAAATTCTATCTCCCTTTTTTACCTGGGATTCTAACTAAAGCCTTAATCACTTTTCACCCC
AGACTTTCATCTTAGGATGCATTCTTTTTTTTTTCAGGAAACATTCA
Found at i:14171527 original size:143 final size:141
Alignment explanation
Indices: 14171283--14171540 Score: 396
Period size: 143 Copynumber: 1.8 Consensus size: 141
14171273 AGGAAACATT
* *
14171283 CATTCTTGAATTTTATCTGCCTTTTTTACTTTGGATTCTAACTAAAGCTTTATTCACTTTTCACC
1 CATTCTTGAATTCTATCTGCCTTTTTTACTTTGGATTCTAACTAAAGCCTTATTCACTTTTCACC
*
14171348 CCAGACTTTCATCTCTAAGGTGCATGTCTTTCTTTCTTTACTTTTTTTATGTGAAAATATTTGAT
66 CCAGACTTTCATATCTAAGGTGCATGTCTTTCTTTCTTTACTTTTTTTATGTGAAAATATTTGAT
14171413 TTCAACTTTAA
131 TTCAACTTTAA
14171424 CATTCTTGAATTCTATCT-CTCTTTTTTTTAC-TTGAGATTCTAACTAAAGCCTTATTCACTTTT
1 CATTCTTGAATTCTATCTGC-C--TTTTTTACTTTG-GATTCTAACTAAAGCCTTATTCACTTTT
* * *
14171487 CGCCCCAGACTCTT-ATATCTGAGGTGCATGTCTTTCTTTCTTTATTTTTTTTAT
62 CACCCCAGACT-TTCATATCTAAGGTGCATGTCTTTCTTTCTTTACTTTTTTTAT
14171541 TTTTTTAATG
Statistics
Matches: 106, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
140 1 0.01
141 18 0.17
142 3 0.03
143 82 0.77
144 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.09, T:0.50
Consensus pattern (141 bp):
CATTCTTGAATTCTATCTGCCTTTTTTACTTTGGATTCTAACTAAAGCCTTATTCACTTTTCACC
CCAGACTTTCATATCTAAGGTGCATGTCTTTCTTTCTTTACTTTTTTTATGTGAAAATATTTGAT
TTCAACTTTAA
Found at i:14171814 original size:12 final size:13
Alignment explanation
Indices: 14171788--14171821 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
14171778 TCCTCTTTCA
14171788 TTTTTTATTCATC
1 TTTTTTATTCATC
*
14171801 TTTTTTTTTC-TC
1 TTTTTTATTCATC
14171813 TTTTTTATT
1 TTTTTTATT
14171822 GGGAAATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTTTATTCATC
Found at i:14176894 original size:17 final size:17
Alignment explanation
Indices: 14176868--14176911 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
14176858 AGAGCAACTT
* *
14176868 GAAATGTAAATAGTATG
1 GAAATTTAAATAGCATG
14176885 GAAATTTAAATAGCATG
1 GAAATTTAAATAGCATG
14176902 GAAATTTAAA
1 GAAATTTAAA
14176912 GAACATAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.50, C:0.02, G:0.18, T:0.30
Consensus pattern (17 bp):
GAAATTTAAATAGCATG
Found at i:14176942 original size:15 final size:15
Alignment explanation
Indices: 14176908--14176953 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
14176898 CATGGAAATT
*
14176908 TAAAGAACATAGAAAA
1 TAAAAAACAT-GAAAA
*
14176924 TAAAAAACATGAAAG
1 TAAAAAACATGAAAA
14176939 TAAAAAATCATGAAA
1 TAAAAAA-CATGAAA
14176954 CCAAAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 11 0.41
16 16 0.59
ACGTcount: A:0.67, C:0.07, G:0.11, T:0.15
Consensus pattern (15 bp):
TAAAAAACATGAAAA
Found at i:14178136 original size:25 final size:25
Alignment explanation
Indices: 14178102--14178152 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
14178092 ATGATTAACT
14178102 ATTCTTATTTTTGCTATTCCTTGTG
1 ATTCTTATTTTTGCTATTCCTTGTG
14178127 ATTCTTATTTTTGCTATTCCTTGTG
1 ATTCTTATTTTTGCTATTCCTTGTG
14178152 A
1 A
14178153 GTCTACATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.14, C:0.16, G:0.12, T:0.59
Consensus pattern (25 bp):
ATTCTTATTTTTGCTATTCCTTGTG
Found at i:14180585 original size:78 final size:78
Alignment explanation
Indices: 14180456--14180612 Score: 314
Period size: 78 Copynumber: 2.0 Consensus size: 78
14180446 ATTAAGTTGC
14180456 AAGTTACGATTTAGTCTAGGTTGGTTGAGAATTTTCAGTTTTACAATGTTATTTGTATCTTGCAT
1 AAGTTACGATTTAGTCTAGGTTGGTTGAGAATTTTCAGTTTTACAATGTTATTTGTATCTTGCAT
14180521 TTTTATCACTTCA
66 TTTTATCACTTCA
14180534 AAGTTACGATTTAGTCTAGGTTGGTTGAGAATTTTCAGTTTTACAATGTTATTTGTATCTTGCAT
1 AAGTTACGATTTAGTCTAGGTTGGTTGAGAATTTTCAGTTTTACAATGTTATTTGTATCTTGCAT
14180599 TTTTATCACTTCA
66 TTTTATCACTTCA
14180612 A
1 A
14180613 TTTTACTTCA
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.25, C:0.11, G:0.17, T:0.47
Consensus pattern (78 bp):
AAGTTACGATTTAGTCTAGGTTGGTTGAGAATTTTCAGTTTTACAATGTTATTTGTATCTTGCAT
TTTTATCACTTCA
Found at i:14185252 original size:28 final size:29
Alignment explanation
Indices: 14185204--14185270 Score: 68
Period size: 28 Copynumber: 2.3 Consensus size: 29
14185194 AACTAAAAAA
* *
14185204 AATTATTTTATTTACTATAAT-ATATTTTTT
1 AATT-TTTTATTTACTATAATAATA-TCTAT
14185234 AATTTTTTATATTA-T-TAATAATATCTAT
1 AATTTTTTAT-TTACTATAATAATATCTAT
14185262 AATTTTTTA
1 AATTTTTTA
14185271 CTAACCTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 16 0.48
29 10 0.30
30 7 0.21
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (29 bp):
AATTTTTTATTTACTATAATAATATCTAT
Found at i:14186028 original size:13 final size:14
Alignment explanation
Indices: 14186012--14186045 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
14186002 ATTAGCTATA
14186012 TTTAATA-TTTATT
1 TTTAATATTTTATT
14186025 TTTAATATTTTATT
1 TTTAATATTTTATT
14186039 TATTAAT
1 T-TTAAT
14186046 TATTAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.37
14 7 0.37
15 5 0.26
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTAATATTTTATT
Found at i:14189897 original size:27 final size:26
Alignment explanation
Indices: 14189849--14189903 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 26
14189839 ATATAAGATG
14189849 ATATTATTTAATATAATCTTATTCATA
1 ATATTATTTAATATAATCTTATT-ATA
* * * *
14189876 ATATTATTTTATTTTATTTTATTATA
1 ATATTATTTAATATAATCTTATTATA
14189902 AT
1 AT
14189904 TTTGTATACC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
ATATTATTTAATATAATCTTATTATA
Found at i:14190114 original size:16 final size:17
Alignment explanation
Indices: 14190089--14190123 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
14190079 TTTAATCTTT
14190089 AATTTATA-TTCAAATA
1 AATTTATATTTCAAATA
*
14190105 AATTTTTATTTCAAATA
1 AATTTATATTTCAAATA
14190122 AA
1 AA
14190124 AAGTTGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTTATATTTCAAATA
Found at i:14194152 original size:12 final size:12
Alignment explanation
Indices: 14194114--14194163 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
14194104 TTCGCTCTCC
14194114 TTTTCCTTTCAA
1 TTTTCCTTTCAA
***
14194126 -TTTCCTTTTTT
1 TTTTCCTTTCAA
14194137 TTTTCCTTTCAA
1 TTTTCCTTTCAA
*
14194149 TTTTCCTTTAAA
1 TTTTCCTTTCAA
14194161 TTT
1 TTT
14194164 ACGTCAAATC
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
11 8 0.27
12 22 0.73
ACGTcount: A:0.14, C:0.20, G:0.00, T:0.66
Consensus pattern (12 bp):
TTTTCCTTTCAA
Found at i:14194754 original size:55 final size:55
Alignment explanation
Indices: 14194688--14194799 Score: 224
Period size: 55 Copynumber: 2.0 Consensus size: 55
14194678 ACTTTTTCTT
14194688 TTATAATGTAGCAAGTACTAAATGATAACAATTAGATACAAAAAATGAGGTTAAG
1 TTATAATGTAGCAAGTACTAAATGATAACAATTAGATACAAAAAATGAGGTTAAG
14194743 TTATAATGTAGCAAGTACTAAATGATAACAATTAGATACAAAAAATGAGGTTAAG
1 TTATAATGTAGCAAGTACTAAATGATAACAATTAGATACAAAAAATGAGGTTAAG
14194798 TT
1 TT
14194800 GAGAGTATCA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.48, C:0.07, G:0.16, T:0.29
Consensus pattern (55 bp):
TTATAATGTAGCAAGTACTAAATGATAACAATTAGATACAAAAAATGAGGTTAAG
Found at i:14198294 original size:160 final size:160
Alignment explanation
Indices: 14197989--14198510 Score: 487
Period size: 160 Copynumber: 3.3 Consensus size: 160
14197979 TGCTTTGTAA
* * * *
14197989 TTCTTGTTGTGTATTGTACTTGTTGATGAAATACTTTTATAGTAATTC--AAATCATATAAGTTG
1 TTCTTATTGTGTATTGTGCTTGTTGATGAACTACTTTTATAGTAATTCAAAAACCATATAAGTTG
* *
14198052 TTGGAAAATATTTATTGAACTAGATAGTGTATTGTATGTATTGCAATGCAATGACTTTGTAAAAA
66 TTGGAAAATATTTATTGAACTAGATAGTGTATTGTATGTATTGCAATACAATGACTTTATAAAAA
14198117 GTGAAAATTGTTGAGTATTTTACTATCTGT
131 GTGAAAATTGTTGAGTATTTTACTATCTGT
*
14198147 TTCTTATTGTGTATTGTGCTTGTTGATGAACTATTTTTATAGTAATTCAAAAACCATA-AATGTT
1 TTCTTATTGTGTATTGTGCTTGTTGATGAACTACTTTTATAGTAATTCAAAAACCATATAA-GTT
* * * * * * * *
14198211 GTTGGAAATTCTTTATTGTAGTAGATGGTGTTTTGTGTGTGTTGCAATACAATGACTTTATGAAA
65 GTTGGAAAATATTTATTGAACTAGATAGTGTATTGTATGTATTGCAATACAATGACTTTAT-AAA
* * * * *
14198276 TA-TGAAAATTTTTGAGTATTTTGCTGTTTGT
129 AAGTGAAAATTGTTGAGTATTTTACTATCTGT
* ** **
14198307 TTCTTA---TGCATTGTGCTTGTTGATGAACTACTTTTATAGTAATTC--AAA-GGT-TAAAAT-
1 TTCTTATTGTGTATTGTGCTTGTTGATGAACTACTTTTATAGTAATTCAAAAACCATATAAGTTG
* * * * *** * * * * * *
14198364 TTGGAAATTCTTTATTGAACTAGATAATGTATTGTGTGTATTATGATGCTATGATTTTGTGAAAG
66 TTGGAAAATATTTATTGAACTAGATAGTGTATTGTATGTATTGCAATACAATGACTTTATAAAAA
* * * * **
14198429 GTGAAAACTATT-ATGTATTTTGCTTTAGGAT
131 GTGAAAATTGTTGA-GTATTTTACTATCTG-T
* * *
14198460 TCCTTGTTGTATATTGTGCTTGTTGATGAACTAC-TTTATAGTAATTCAAAA
1 TTCTTATTGTGTATTGTGCTTGTTGATGAACTACTTTTATAGTAATTCAAAA
14198511 TGTTAAATTT
Statistics
Matches: 300, Mismatches: 51, Indels: 27
0.79 0.13 0.07
Matches are distributed among these distances:
151 3 0.01
152 68 0.23
153 6 0.02
154 3 0.01
155 16 0.05
156 23 0.08
157 39 0.13
158 44 0.15
159 2 0.01
160 92 0.31
161 4 0.01
ACGTcount: A:0.29, C:0.07, G:0.18, T:0.45
Consensus pattern (160 bp):
TTCTTATTGTGTATTGTGCTTGTTGATGAACTACTTTTATAGTAATTCAAAAACCATATAAGTTG
TTGGAAAATATTTATTGAACTAGATAGTGTATTGTATGTATTGCAATACAATGACTTTATAAAAA
GTGAAAATTGTTGAGTATTTTACTATCTGT
Found at i:14198585 original size:158 final size:156
Alignment explanation
Indices: 14197904--14198595 Score: 629
Period size: 158 Copynumber: 4.4 Consensus size: 156
14197894 ATTTGCCTTA
* * * * *
14197904 CTTTATTGAACTAGATAAG-GTCTTATGTGTTTTGAGATGCAATGACTTTGTGAAAGGTGAAAAC
1 CTTTATTGAACTAGAT-AGTGTATTGTATGTATTGAAATGCAATGACTTTGTGAAAGGTGAAAAC
* * *
14197968 TATT-AATATTTTGCTTT-GTAATTCTTGTTGTGTATTGTACTTGTTGATGAAATACTTTTATAG
65 TATTGAGTATTTTGCTTTGGT--TTCTTGTTGTGTATTGTGCTTGTTGATGAACTACTTTTATAG
* *
14198031 TAATTCAAATCATATAAGTTGTTGGAAAAT
128 TAATTCAAATCATA-AATTTGTTGGAAATT
* * * * *
14198061 ATTTATTGAACTAGATAGTGTATTGTATGTATTGCAATGCAATGACTTTGTAAAAAGTGAAAATT
1 CTTTATTGAACTAGATAGTGTATTGTATGTATTGAAATGCAATGACTTTGTGAAAGGTGAAAACT
* * * *
14198126 GTTGAGTATTTTACTATCT-GTTTCTTATTGTGTATTGTGCTTGTTGATGAACTATTTTTATAGT
66 ATTGAGTATTTTGCT-T-TGGTTTCTTGTTGTGTATTGTGCTTGTTGATGAACTACTTTTATAGT
*
14198190 AATTCAAAAACCATAAATGTTGTTGGAAATT
129 AATTC--AAATCATAAAT-TTGTTGGAAATT
* * * * * * * * * ** *
14198221 CTTTATTGTAGTAGATGGTGTTTTGTGTGTGTTGCAATACAATGACTTTATGAAATATGAAAATT
1 CTTTATTGAACTAGATAGTGTATTGTATGTATTGAAATGCAATGACTTTGTGAAAGGTGAAAACT
* * * *
14198286 TTTGAGTATTTTGCTGTTTGTTTC---TTATGCATTGTGCTTGTTGATGAACTACTTTTATAGTA
66 ATTGAGTATTTTGCT-TTGGTTTCTTGTTGTGTATTGTGCTTGTTGATGAACTACTTTTATAGTA
*** *
14198348 ATTCAAAGGTTAAA-AT-TTGGAAATT
130 ATTCAAATCATAAATTTGTTGGAAATT
* * * * *
14198373 CTTTATTGAACTAGATAATGTATTGTGTGTATT-ATGATGCTATGATTTTGTGAAAGGTGAAAAC
1 CTTTATTGAACTAGATAGTGTATTGTATGTATTGA-AATGCAATGACTTTGTGAAAGGTGAAAAC
* *
14198437 TATT-ATGTATTTTGCTTTAGGATTCCTTGTTGTATATTGTGCTTGTTGATGAACTAC-TTTATA
65 TATTGA-GTATTTTGCTTT-GG-TTTCTTGTTGTGTATTGTGCTTGTTGATGAACTACTTTTATA
** **
14198500 GTAATTCAAAATGTTAAATTTGTAAGAAATT
127 GTAATTC-AAATCATAAATTTGTTGGAAATT
* * * * *
14198531 -TAGTATTAAACTAGATAGTGT-TCTGTACGTATTGAAATGCAATGATTTTATGAAAGGTGAAAA
1 CT-TTATTGAACTAGATAGTGTAT-TGTATGTATTGAAATGCAATGACTTTGTGAAAGGTGAAAA
14198594 CT
64 CT
14198596 TTTGCTTATT
Statistics
Matches: 439, Mismatches: 75, Indels: 41
0.79 0.14 0.07
Matches are distributed among these distances:
151 3 0.01
152 71 0.16
153 4 0.01
155 20 0.05
156 36 0.08
157 96 0.22
158 111 0.25
159 5 0.01
160 93 0.21
ACGTcount: A:0.30, C:0.07, G:0.19, T:0.44
Consensus pattern (156 bp):
CTTTATTGAACTAGATAGTGTATTGTATGTATTGAAATGCAATGACTTTGTGAAAGGTGAAAACT
ATTGAGTATTTTGCTTTGGTTTCTTGTTGTGTATTGTGCTTGTTGATGAACTACTTTTATAGTAA
TTCAAATCATAAATTTGTTGGAAATT
Found at i:14201569 original size:29 final size:29
Alignment explanation
Indices: 14201530--14201587 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
14201520 AAATCAAAAG
*
14201530 AATAATGAATTGAAAGTGAATGTAAACAA
1 AATAATGAATTGAAAGTGAAAGTAAACAA
*
14201559 AATAATTAATTGAAAGTGAAAGTAAACAA
1 AATAATGAATTGAAAGTGAAAGTAAACAA
14201588 TGGAAATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.57, C:0.03, G:0.16, T:0.24
Consensus pattern (29 bp):
AATAATGAATTGAAAGTGAAAGTAAACAA
Found at i:14217614 original size:41 final size:41
Alignment explanation
Indices: 14217569--14217652 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
14217559 AAGAGTCTTC
*
14217569 TTACAACTATAACTCTTCTTTGTCTGAACAATGCATGATAT
1 TTACAACTATAACTCTTCTTTGTCTAAACAATGCATGATAT
14217610 TTACAACTATAACTCTTCTTTGTCTAAACAATGCATGATAT
1 TTACAACTATAACTCTTCTTTGTCTAAACAATGCATGATAT
14217651 TT
1 TT
14217653 CCTTAGCTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.40
Consensus pattern (41 bp):
TTACAACTATAACTCTTCTTTGTCTAAACAATGCATGATAT
Found at i:14225930 original size:3 final size:3
Alignment explanation
Indices: 14225922--14225946 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
14225912 CTCTTGAAGC
14225922 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
14225947 AAGGATCCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:14232247 original size:20 final size:20
Alignment explanation
Indices: 14232207--14232247 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
14232197 AAAGATAAAG
* *
14232207 TATACTTCATATATTTACTT
1 TATACTTCAGATATGTACTT
*
14232227 TATACTTCAGATATGTGCTT
1 TATACTTCAGATATGTACTT
14232247 T
1 T
14232248 CATTAGTCTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.27, C:0.15, G:0.07, T:0.51
Consensus pattern (20 bp):
TATACTTCAGATATGTACTT
Found at i:14232401 original size:20 final size:21
Alignment explanation
Indices: 14232363--14232402 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
14232353 TTTTAGGGTC
14232363 AAAACTTTTTTTGCTAACTTTT
1 AAAACTTTTTTTGC-AACTTTT
14232385 AAAACTTTTTTTG-AACTT
1 AAAACTTTTTTTGCAACTT
14232403 GAGAACTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
22 13 0.72
ACGTcount: A:0.30, C:0.12, G:0.05, T:0.53
Consensus pattern (21 bp):
AAAACTTTTTTTGCAACTTTT
Found at i:14238113 original size:25 final size:24
Alignment explanation
Indices: 14238064--14238114 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
14238054 AGCTTTTTCA
14238064 TAATACAAATTCTATTTCTACTTT
1 TAATACAAATTCTATTTCTACTTT
14238088 TAATAACAAATCTCT-TTCTCTA-TTT
1 TAAT-ACAAAT-TCTATT-TCTACTTT
14238113 TA
1 TA
14238115 CATGCACACA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
24 4 0.17
25 13 0.54
26 7 0.29
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.49
Consensus pattern (24 bp):
TAATACAAATTCTATTTCTACTTT
Found at i:14250421 original size:35 final size:35
Alignment explanation
Indices: 14250375--14250446 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
14250365 TGGGAAAGAA
* *
14250375 TGATTGCTGAATACTTAAAGAGCATAAAAATACTT
1 TGATTGCTGAATACTAAAAGAACATAAAAATACTT
*
14250410 TGATTGTTGAATACTAAAAGAACATAAAAATACTT
1 TGATTGCTGAATACTAAAAGAACATAAAAATACTT
14250445 TG
1 TG
14250447 TAAACCGAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.32
Consensus pattern (35 bp):
TGATTGCTGAATACTAAAAGAACATAAAAATACTT
Found at i:14251564 original size:12 final size:12
Alignment explanation
Indices: 14251547--14251571 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14251537 TATAGCATAA
14251547 TATAAACATAGT
1 TATAAACATAGT
14251559 TATAAACATAGT
1 TATAAACATAGT
14251571 T
1 T
14251572 GACAAGAAAC
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:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (12 bp):
TATAAACATAGT
Found at i:14254106 original size:464 final size:462
Alignment explanation
Indices: 14252676--14254526 Score: 2437
Period size: 464 Copynumber: 4.0 Consensus size: 462
14252666 ATGCTTTCAC
* **
14252676 AAAGATCAATGCA-ATCAAAGATGAAGATTAAAATGCACAATGTATAAAAATCATATTCAAT-AG
1 AAAGATCAATGCATATCAAAGATCAAGATTAAAATGCACAATACATAAAAATCATATTCAATCA-
* * *
14252739 AAGATCTTACTTAAGAAATCATCTCATGCTTCACTACATTCATAATTTTTCTTATATTATACATA
65 AAGATCCTACTTAAGAAATCATCTCATGCTTCACTACATTCATAATTTTCCTCATATTATACATA
* * **
14252804 AGTCATTCTTTAACAACTTATGAAAATTCAACCAAGCTAGTGTCATAATGATTATAGCATGCTAA
130 AGTCATTCTTGAACAACTTATGAAAATTCAACTAAGCTAGCATCATAATGATTATAGCATGCTAA
* *
14252869 TTTGGTTTGAAAACAAAGCAAATAAGAAAATTTTTTGAAAAGTTTTCAAAACACAGTTTTAACTC
195 TTTGGTTTGAAAACAAAGCAAATAAGAAAATTTTTTAAAAAG-TTTCAAAACACA-TTTTATCTC
* *
14252934 AAAACTATTCTTTTCCCCCCACACTTACATTAAATAATATTTCAAACAAAACATTCAAGAACTAG
258 AAAACTATTCTTTTTCCCCCACACTTACATTAAACAATATTTCAAACAAAACATTCAAGAACTAG
* * * * *
14252999 GGAAAAAGAGATAATCCCCTATTTTTTCTTTCCTTTTGAGGTTGAAATTTTCATCCTTCTTTGGG
323 GGAAAAAGAGATACT-CCCTATTTTTGCTTTCCTTTTGAGGCTAAAACTTTCATCCTTCTTTGGG
* * * * *
14253064 CATCTGTATTGCATCTATCCATCTTGCAAAAATAACTCAAAAACAACAAAAATATAAAAGCATAC
387 CATCTCTTTTGCATCTATCCATCCTGCAAAAACAACTCAAAAACAACAAAAAGATAAAAGCATAC
**
14253129 ATGCCCTAATA
452 ATATCCTAATA
* * * * **
14253140 AAAGATCAATGCATATAAAAAATCAAGATTAAAATGCACAGTGCATAAAAAT-ATTATTCAATTG
1 AAAGATCAATGCATATCAAAGATCAAGATTAAAATGCACAATACATAAAAATCA-TATTCAATCA
* * * * *
14253204 AAGATCCTACTTAGGCAATCATCTCGTGC-TCTACTATAATCATAATTTTCCTCATATTATACAT
65 AAGATCCTACTTAAGAAATCATCTCATGCTTC-ACTACATTCATAATTTTCCTCATATTATACAT
* * * * *
14253268 AAGTCATTGTTGAACAACTTATG-AAATTCAACTAAGTTAGCATCATAACGTTTATAACATGCTA
129 AAGTCATTCTTGAACAACTTATGAAAATTCAACTAAGCTAGCATCATAATGATTATAGCATGCTA
** * * * ***
14253332 ATTTGGTTTGAAAGTAAAGCAAACAAGAAAACCTTTCTAAAAAGTTTCAAAATTGTAGTTTT-TG
194 ATTTGGTTTGAAAACAAAGCAAATAAGAAAA-TTTTTTAAAAAGTTTCAAAA-CACA-TTTTAT-
* * * *
14253396 CTTAAAAGTATTCTTTTTTCCCCGCACTTACATTAAACAATATTTCAAAC-AAACATTCAAGAAC
255 CTCAAAACTATTCTTTTTCCCCCACACTTACATTAAACAATATTTCAAACAAAACATTCAAGAAC
* ** *
14253460 TA-GGTAAAA-A-A-A---GGTA--TTTGCTTTCTCTTTT-AGACTAAAACTTTCATCCTTCTTT
320 TAGGGAAAAAGAGATACTCCCTATTTTTGCTTTC-CTTTTGAGGCTAAAACTTTCATCCTTCTTT
* * *
14253515 GGGCATCTCTTTTGTATCTATCCATCATGCAAAAACAACTCAAAAATAACAAAAAGATAAAAGCA
384 GGGCATCTCTTTTGCATCTATCCATCCTGCAAAAACAACTCAAAAACAACAAAAAGATAAAAGCA
* *
14253580 TACCTGTCCTAATA
449 TACATATCCTAATA
*
14253594 AAAGATCAATGCATATCAAAGATCAAGATTAAAAAGCACAATACATAAAAATCATATTCAATCAA
1 AAAGATCAATGCATATCAAAGATCAAGATTAAAATGCACAATACATAAAAATCATATTCAATCAA
* * *
14253659 AGATCTTACTTATGAAATCATCTCATGCTTCACCACATTCATAATTTTCCTCATATTATACATAA
66 AGATCCTACTTAAGAAATCATCTCATGCTTCACTACATTCATAATTTTCCTCATATTATACATAA
14253724 GTCATTCTTGAACAACTTATGAAAATTCAACTAAGCTAGCATCATAATGATTATAGCATGCTAAT
131 GTCATTCTTGAACAACTTATGAAAATTCAACTAAGCTAGCATCATAATGATTATAGCATGCTAAT
* *
14253789 TTGGTTTGAAAATAAATCAAATAAGAAAATTCTTTTAAAAAGTTTCAAAAGCACATTTTATCTCA
196 TTGGTTTGAAAACAAAGCAAATAAGAAAATT-TTTTAAAAAGTTTCAAAA-CACATTTTATCTCA
* *
14253854 AAAGTATTCTTTTTCCCCCAAACTTACATTAAACAATATTTCAAACAAAACATTCAAGAACTAGG
259 AAACTATTCTTTTTCCCCCACACTTACATTAAACAATATTTCAAACAAAACATTCAAGAACTAGG
* * * * *
14253919 GAAAAAGTGATACTCCCTATTTTTGCTTTTCTTTTGAGGCTAAAACTTTCATCCTTTTTTAGGAA
324 GAAAAAGAGATACTCCCTATTTTTGCTTTCCTTTTGAGGCTAAAACTTTCATCCTTCTTTGGGCA
* * * * * *
14253984 TCTTTTTTGCATCTATCCATCCTACAAAAACAACTCAAAAATAACAGAAAGATAGAAGCATACCT
389 TCTCTTTTGCATCTATCCATCCTGCAAAAACAACTCAAAAACAACAAAAAGATAAAAGCATACAT
14254049 ATCCTAATA
454 ATCCTAATA
* * *
14254058 AAAGATCAATGCATATCAAAGATCAAGATTAGAATGCACAACACATAAAAATCATATTCAA-CTG
1 AAAGATCAATGCATATCAAAGATCAAGATTAAAATGCACAATACATAAAAATCATATTCAATC-A
* * * ** *
14254122 AAGATCCTGCTTAAGAAATCATCTCATGCTTTATTATGTTCATAATTTTCC-CTATATTATACGT
65 AAGATCCTACTTAAGAAATCATCTCATGCTTCACTACATTCATAATTTTCCTC-ATATTATACAT
*
14254186 AAGTCATTCTTGAACAACTTATGAAAATTCAACTGAGCTAGCATCATAATGATTATAGCATGCTA
129 AAGTCATTCTTGAACAACTTATGAAAATTCAACTAAGCTAGCATCATAATGATTATAGCATGCTA
* ** * *
14254251 ATTTGGTTTGAAAACACAA-CAAATAAGAAAAAATTTTCGACAAGTTTCGAAAACACAATTTTAG
194 ATTTGGTTTGAAAACA-AAGCAAATAAG-AAAATTTTTTAAAAAGTTTC-AAAACAC-ATTTTAT
14254315 CTCAAAACTATTCTTTTTCCCCCACACTTACATTAAACAATATTTCAAACAAAACATTCAAGAAC
255 CTCAAAACTATTCTTTTTCCCCCACACTTACATTAAACAATATTTCAAACAAAACATTCAAGAAC
* * * *
14254380 TAGGGAAAAAGAGATACTCCATTATTTTTACTTTCCTTTAGAGGCCAAAACTTTCATCCTTCTTT
320 TAGGGAAAAAGAGATACTCC-CTATTTTTGCTTTCCTTTTGAGGCTAAAACTTTCATCCTTCTTT
* * * *
14254445 GGGCATCTCTTTTGCATCTATCCATCCGGCAAAAATAAGTCAAAAACAACAAAAAGACAAAAGCA
384 GGGCATCTCTTTTGCATCTATCCATCCTGCAAAAACAACTCAAAAACAACAAAAAGATAAAAGCA
14254510 TACATATCCTAATA
449 TACATATCCTAATA
14254524 AAA
1 AAA
14254527 TAAAGGAAAC
Statistics
Matches: 1211, Mismatches: 145, Indels: 60
0.86 0.10 0.04
Matches are distributed among these distances:
454 280 0.23
455 108 0.09
456 8 0.01
458 1 0.00
459 1 0.00
460 1 0.00
461 1 0.00
462 3 0.00
463 13 0.01
464 414 0.34
465 273 0.23
466 108 0.09
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (462 bp):
AAAGATCAATGCATATCAAAGATCAAGATTAAAATGCACAATACATAAAAATCATATTCAATCAA
AGATCCTACTTAAGAAATCATCTCATGCTTCACTACATTCATAATTTTCCTCATATTATACATAA
GTCATTCTTGAACAACTTATGAAAATTCAACTAAGCTAGCATCATAATGATTATAGCATGCTAAT
TTGGTTTGAAAACAAAGCAAATAAGAAAATTTTTTAAAAAGTTTCAAAACACATTTTATCTCAAA
ACTATTCTTTTTCCCCCACACTTACATTAAACAATATTTCAAACAAAACATTCAAGAACTAGGGA
AAAAGAGATACTCCCTATTTTTGCTTTCCTTTTGAGGCTAAAACTTTCATCCTTCTTTGGGCATC
TCTTTTGCATCTATCCATCCTGCAAAAACAACTCAAAAACAACAAAAAGATAAAAGCATACATAT
CCTAATA
Found at i:14254482 original size:919 final size:912
Alignment explanation
Indices: 14252676--14254468 Score: 2479
Period size: 919 Copynumber: 1.9 Consensus size: 912
14252666 ATGCTTTCAC
* * **
14252676 AAAGATCAATGCAATCAAAGATGAAGATTAAAATGCACAATGTATAAAAATCATATTCAATAGAA
1 AAAGATCAATGCAATCAAAGATCAAGATTAAAAAGCACAATACATAAAAATCATATTCAATAGAA
* * *
14252741 GATCTTACTTAAGAAATCATCTCATGCTTCACTACATTCATAATTTTTCTTATATTATACATAAG
66 GATCTTACTTAAGAAATCATCTCATGCTTCACCACATTCATAATTTTCCTCATATTATACATAAG
* **
14252806 TCATTCTTTAACAACTTATGAAAATTCAACCAAGCTAGTGTCATAATGATTATAGCATGCTAATT
131 TCATTCTTGAACAACTTATGAAAATTCAACCAAGCTAGCATCATAATGATTATAGCATGCTAATT
*
14252871 TGGTTTGAAAACAAAGCAAATAAGAAAATTTTTTGAAAAGTTTTCAAAACACAGTTTTAACTCAA
196 TGGTTTGAAAACAAAGCAAATAAGAAAATTTTTTAAAAAGTTTTCAAAACACAGTTTTAACTCAA
* *
14252936 AACTATTCTTTTCCCCCCACACTTACATTAAATAATATTTCAAACAAAACATTCAAGAACTAGGG
261 AACTATTCTTTTCCCCCCAAACTTACATTAAACAATATTTCAAACAAAACATTCAAGAACTAGGG
* * * * * *
14253001 AAAAAGAGATAATCCCCTATTTTTTCTTTCCTTTTGAGGTTGAAATTTTCATCCTTCTTTGGGCA
326 AAAAAGAGATAATCCCCTATTTTTGCTTTCCTTTTGAGGCTAAAACTTTCATCCTTCTTTAGGAA
* * * *
14253066 TCTGTATTGCATCTATCCATCTTGCAAAAATAACTCAAAAACAACAAAAATATAAAAGCATACAT
391 TCTGTATTGCATCTATCCATCCTACAAAAACAACTCAAAAACAACAAAAAGATAAAAGCATACAT
* ***
14253131 GCCCTAATAAAAGATCAATGCATATAAAAAATCAAGATTAAAATGCACAGTGCATAAAAATATTA
456 ACCCTAATAAAAGATCAATGCATATAAAAAATCAAGATTAAAATGCACAACACATAAAAATATTA
* * * *
14253196 TTCAATTGAAGATCCTACTTAGGCAATCATCTCGTGCTCTACTATAATCATAATTTTCCTCATAT
521 TTCAACTGAAGATCCTACTTAAGAAATCATCTCATGCTCTACTATAATCATAATTTTCCTCATAT
* * *
14253261 TATACATAAGTCATTGTTGAACAACTTATGAAATTCAACTAAGTTAGCATCATAACGTTTATAAC
586 TATACATAAGTCATTCTTGAACAACTTATGAAATTCAACTAAGCTAGCATCATAACGATTATAAC
** * *** *
14253326 ATGCTAATTTGGTTTGAAAGTAAAGCAAACAAGAAAACCTTTCTAAAAAGTTTCAAAATTGTAGT
651 ATGCTAATTTGGTTTGAAAACAAAGCAAACAAGAAAAACTTTCTAAAAAGTTTCAAAATCACAAT
* * * * *
14253391 TTTTGCTTAAAAGTATTCTTTTTTCCCCGCACTTACATTAAACAATATTTCAAACAAACATTCAA
716 TTTAGCTCAAAACTATTCTTTTTCCCCCACACTTACATTAAACAATATTTCAAACAAACATTCAA
* * * *
14253456 GAACTAGGTAAAAAAAGGTATTTGCTTTCTCTTTTAGACTAAAACTTTCATCCTTCTTTGGGCAT
781 GAACTAGGGAAAAAAAGATATTTGCTTTCTCCTTTAGACCAAAACTTTCATCCTTCTTTGGGCAT
* *
14253521 CTCTTTTGTATCTATCCATCATGCAAAAACAACTCAAAAATAACAAAAAGATAAAAGCATACCTG
846 CTCTTTTGCATCTATCCA-CATGC----AC-ACGCAAAAATAACAAAAAGATAAAAGCATACCTG
14253586 TCCTAATA
905 TCCTAATA
14253594 AAAGATCAATGCATATCAAAGATCAAGATTAAAAAGCACAATACATAAAAATCATATTCAATCA-
1 AAAGATCAATGCA-ATCAAAGATCAAGATTAAAAAGCACAATACATAAAAATCATATTCAAT-AG
*
14253658 AAGATCTTACTTATGAAATCATCTCATGCTTCACCACATTCATAATTTTCCTCATATTATACATA
64 AAGATCTTACTTAAGAAATCATCTCATGCTTCACCACATTCATAATTTTCCTCATATTATACATA
*
14253723 AGTCATTCTTGAACAACTTATGAAAATTCAACTAAGCTAGCATCATAATGATTATAGCATGCTAA
129 AGTCATTCTTGAACAACTTATGAAAATTCAACCAAGCTAGCATCATAATGATTATAGCATGCTAA
* * *
14253788 TTTGGTTTGAAAATAAATCAAATAAGAAAATTCTTTTAAAAAG-TTTCAAAAGCACA-TTTTATC
194 TTTGGTTTGAAAACAAAGCAAATAAGAAAATT-TTTTAAAAAGTTTTCAAAA-CACAGTTTTAAC
* *
14253851 TCAAAAGTATTCTTTTTCCCCCAAACTTACATTAAACAATATTTCAAACAAAACATTCAAGAACT
257 TCAAAACTATTCTTTTCCCCCCAAACTTACATTAAACAATATTTCAAACAAAACATTCAAGAACT
* * * *
14253916 AGGGAAAAAGTGATACT-CCCTATTTTTGCTTTTCTTTTGAGGCTAAAACTTTCATCCTTTTTTA
322 AGGGAAAAAGAGATAATCCCCTATTTTTGCTTTCCTTTTGAGGCTAAAACTTTCATCCTTCTTTA
* * * * *
14253980 GGAATCTTTTTTGCATCTATCCATCCTACAAAAACAACTCAAAAATAACAGAAAGATAGAAGCAT
387 GGAATCTGTATTGCATCTATCCATCCTACAAAAACAACTCAAAAACAACAAAAAGATAAAAGCAT
* * * * *
14254045 ACCTATCCTAATAAAAGATCAATGCATATCAAAGATCAAGATTAGAATGCACAACACATAAAAAT
452 ACATACCCTAATAAAAGATCAATGCATATAAAAAATCAAGATTAAAATGCACAACACATAAAAAT
* * * **
14254110 CA-TATTCAACTGAAGATCCTGCTTAAGAAATCATCTCATGCTTTATTATGTTCATAATTTTCC-
517 -ATTATTCAACTGAAGATCCTACTTAAGAAATCATCTCATGCTCTACTATAATCATAATTTTCCT
* * *
14254173 CTATATTATACGTAAGTCATTCTTGAACAACTTATGAAAATTCAACTGAGCTAGCATCATAATGA
581 C-ATATTATACATAAGTCATTCTTGAACAACTTATG-AAATTCAACTAAGCTAGCATCATAACGA
* * * * *
14254238 TTATAGCATGCTAATTTGGTTTGAAAACACAA-CAAATAAGAAAAAATTT-TCGACAAGTTTCGA
644 TTATAACATGCTAATTTGGTTTGAAAACA-AAGCAAACAAGAAAAACTTTCT-AAAAAGTTTC-A
14254301 AAA-CACAATTTTAGCTCAAAACTATTCTTTTTCCCCCACACTTACATTAAACAATATTTCAAAC
706 AAATCACAATTTTAGCTCAAAACTATTCTTTTTCCCCCACACTTACATTAAACAATATTTCAAAC
* **
14254365 AAAACATTCAAGAACTAGGGAAAAAGAGATACTCCATTATTTTTACTTTCCTTTAGAGGCCAAAA
771 -AAACATTCAAGAACTAGGGAAAAAAAGATA-T---TT-GCTTT-C--TCCTTTAGA--CCAAAA
14254430 CTTTCATCCTTCTTTGGGCATCTCTTTTGCATCTATCCA
825 CTTTCATCCTTCTTTGGGCATCTCTTTTGCATCTATCCA
14254469 TCCGGCAAAA
Statistics
Matches: 766, Mismatches: 88, Indels: 30
0.87 0.10 0.03
Matches are distributed among these distances:
917 1 0.00
918 249 0.33
919 411 0.54
920 47 0.06
921 1 0.00
924 2 0.00
925 3 0.00
926 1 0.00
928 8 0.01
930 43 0.06
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (912 bp):
AAAGATCAATGCAATCAAAGATCAAGATTAAAAAGCACAATACATAAAAATCATATTCAATAGAA
GATCTTACTTAAGAAATCATCTCATGCTTCACCACATTCATAATTTTCCTCATATTATACATAAG
TCATTCTTGAACAACTTATGAAAATTCAACCAAGCTAGCATCATAATGATTATAGCATGCTAATT
TGGTTTGAAAACAAAGCAAATAAGAAAATTTTTTAAAAAGTTTTCAAAACACAGTTTTAACTCAA
AACTATTCTTTTCCCCCCAAACTTACATTAAACAATATTTCAAACAAAACATTCAAGAACTAGGG
AAAAAGAGATAATCCCCTATTTTTGCTTTCCTTTTGAGGCTAAAACTTTCATCCTTCTTTAGGAA
TCTGTATTGCATCTATCCATCCTACAAAAACAACTCAAAAACAACAAAAAGATAAAAGCATACAT
ACCCTAATAAAAGATCAATGCATATAAAAAATCAAGATTAAAATGCACAACACATAAAAATATTA
TTCAACTGAAGATCCTACTTAAGAAATCATCTCATGCTCTACTATAATCATAATTTTCCTCATAT
TATACATAAGTCATTCTTGAACAACTTATGAAATTCAACTAAGCTAGCATCATAACGATTATAAC
ATGCTAATTTGGTTTGAAAACAAAGCAAACAAGAAAAACTTTCTAAAAAGTTTCAAAATCACAAT
TTTAGCTCAAAACTATTCTTTTTCCCCCACACTTACATTAAACAATATTTCAAACAAACATTCAA
GAACTAGGGAAAAAAAGATATTTGCTTTCTCCTTTAGACCAAAACTTTCATCCTTCTTTGGGCAT
CTCTTTTGCATCTATCCACATGCACACGCAAAAATAACAAAAAGATAAAAGCATACCTGTCCTAA
TA
Found at i:14269041 original size:12 final size:12
Alignment explanation
Indices: 14269026--14269051 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14269016 TGTGTAAAAA
14269026 TATGGGTTTTGG
1 TATGGGTTTTGG
14269038 TATGGGTTTTGG
1 TATGGGTTTTGG
14269050 TA
1 TA
14269052 AAGACTATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.12, C:0.00, G:0.38, T:0.50
Consensus pattern (12 bp):
TATGGGTTTTGG
Found at i:14274583 original size:16 final size:17
Alignment explanation
Indices: 14274564--14274598 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
14274554 TCTCTATCTT
14274564 TTTAT-TTTGATTATAG
1 TTTATATTTGATTATAG
*
14274580 TTTATATTTGCTTATAG
1 TTTATATTTGATTATAG
14274597 TT
1 TT
14274599 CATCAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.23, C:0.03, G:0.11, T:0.63
Consensus pattern (17 bp):
TTTATATTTGATTATAG
Found at i:14276533 original size:85 final size:85
Alignment explanation
Indices: 14276390--14276556 Score: 271
Period size: 85 Copynumber: 2.0 Consensus size: 85
14276380 CACATTAGGT
14276390 TAATGTATAAGTTGCATATTTCCAAATATATCACATGTTTGGCCGAATGCTTTCAACAAGAAAAG
1 TAATGTATAAGTTGCATATTTCCAAATATATCACATGTTTGGCCGAATGCTTTCAACAAGAAAAG
* *
14276455 TTTCTTTCTTTTATTTTTCC
66 TTTCTCTCTCTTATTTTTCC
* * ** *
14276475 TAATGTATAAGTTGTATATTTGCAAATATATCACATGTTTGGTTGAATGCTTTCAACAAGGAAAG
1 TAATGTATAAGTTGCATATTTCCAAATATATCACATGTTTGGCCGAATGCTTTCAACAAGAAAAG
14276540 TTTCTCTCTCTTATTTT
66 TTTCTCTCTCTTATTTT
14276557 ATTTCCTCTA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
85 75 1.00
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.43
Consensus pattern (85 bp):
TAATGTATAAGTTGCATATTTCCAAATATATCACATGTTTGGCCGAATGCTTTCAACAAGAAAAG
TTTCTCTCTCTTATTTTTCC
Found at i:14277208 original size:14 final size:15
Alignment explanation
Indices: 14277189--14277217 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
14277179 CTAAAAAAGT
14277189 AAAGAACTAA-GAGA
1 AAAGAACTAATGAGA
14277203 AAAGAACTAATGAGA
1 AAAGAACTAATGAGA
14277218 GAAAAGAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.62, C:0.07, G:0.21, T:0.10
Consensus pattern (15 bp):
AAAGAACTAATGAGA
Found at i:14292657 original size:17 final size:18
Alignment explanation
Indices: 14292629--14292666 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
14292619 AAAGGGCAAG
14292629 TAAAACTAAATAAATCAA
1 TAAAACTAAATAAATCAA
*
14292647 TAAAA-TAAATAATTCAA
1 TAAAACTAAATAAATCAA
14292664 TAA
1 TAA
14292667 GTACTATTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (18 bp):
TAAAACTAAATAAATCAA
Found at i:14298977 original size:23 final size:24
Alignment explanation
Indices: 14298929--14298979 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
14298919 CAAACTGAAA
**
14298929 AATAATCGATCACTTTCTATTCAC
1 AATAATCGATCACTTTCTATAAAC
14298953 AATAA-CGATCACTATTC-ATAAAC
1 AATAATCGATCACT-TTCTATAAAC
14298976 AATA
1 AATA
14298980 GCGTTGATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.43, C:0.22, G:0.04, T:0.31
Consensus pattern (24 bp):
AATAATCGATCACTTTCTATAAAC
Found at i:14302743 original size:16 final size:17
Alignment explanation
Indices: 14302716--14302750 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
14302706 TAAATTATTA
14302716 TCCCTAAAAAAATTACT
1 TCCCTAAAAAAATTACT
14302733 TCCCT-AAAAAATTACT
1 TCCCTAAAAAAATTACT
14302749 TC
1 TC
14302751 ATTGACAGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.43, C:0.26, G:0.00, T:0.31
Consensus pattern (17 bp):
TCCCTAAAAAAATTACT
Found at i:14305461 original size:14 final size:13
Alignment explanation
Indices: 14305425--14305470 Score: 51
Period size: 12 Copynumber: 3.6 Consensus size: 13
14305415 TTCCTTTTTT
*
14305425 CTCCCTTTT-TTC
1 CTCCTTTTTCTTC
*
14305437 CTCCTTCTTCTTC
1 CTCCTTTTTCTTC
14305450 CTTCCTTTTTCTT-
1 C-TCCTTTTTCTTC
14305463 CTCCTTTT
1 CTCCTTTT
14305471 CTTTCTCCCA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 14 0.48
13 5 0.17
14 10 0.34
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (13 bp):
CTCCTTTTTCTTC
Found at i:14305472 original size:11 final size:11
Alignment explanation
Indices: 14305410--14305478 Score: 54
Period size: 11 Copynumber: 5.9 Consensus size: 11
14305400 CTTCTTTTTC
14305410 TTTCTT-TCCT
1 TTTCTTCTCCT
14305420 TTT-TTCTCCCT
1 TTTCTTCT-CCT
14305431 TTT-TTCCTCCT
1 TTTCTT-CTCCT
14305442 TCTTCTTCCTTCCTT
1 T-TTCTT-C-TCC-T
14305457 TTTCTTCTCCT
1 TTTCTTCTCCT
14305468 TTTCTTTCTCC
1 TTTC-TTCTCC
14305479 CACCCCTTAC
Statistics
Matches: 51, Mismatches: 0, Indels: 14
0.78 0.00 0.22
Matches are distributed among these distances:
9 2 0.04
10 4 0.08
11 17 0.33
12 13 0.25
13 5 0.10
14 8 0.16
15 2 0.04
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (11 bp):
TTTCTTCTCCT
Found at i:14309028 original size:21 final size:20
Alignment explanation
Indices: 14308991--14309033 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
14308981 TGCATATATT
* *
14308991 TTTTAGTATTTTGTTTTTTA
1 TTTTAATATTTTATTTTTTA
14309011 TTTTAATATCTTTATTTTTTA
1 TTTTAATAT-TTTATTTTTTA
14309032 TT
1 TT
14309034 ATAGTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.19, C:0.02, G:0.05, T:0.74
Consensus pattern (20 bp):
TTTTAATATTTTATTTTTTA
Found at i:14315771 original size:23 final size:23
Alignment explanation
Indices: 14315742--14315785 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
14315732 TTCTTGATGG
14315742 TATGATGAATGTTGCTACCTTTT
1 TATGATGAATGTTGCTACCTTTT
14315765 TATGATGAATGTTGCTACCTT
1 TATGATGAATGTTGCTACCTT
14315786 GATTGATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.14, G:0.18, T:0.45
Consensus pattern (23 bp):
TATGATGAATGTTGCTACCTTTT
Found at i:14315798 original size:23 final size:23
Alignment explanation
Indices: 14315742--14315799 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
14315732 TTCTTGATGG
* **
14315742 TATGATGAATGTTGCTACCTTTT
1 TATGATAAATGTTGCTACCTTGA
*
14315765 TATGATGAATGTTGCTACCTTGA
1 TATGATAAATGTTGCTACCTTGA
14315788 T-TGATCAAATGT
1 TATGAT-AAATGT
14315800 ATGTTTATCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
22 4 0.13
23 27 0.87
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.43
Consensus pattern (23 bp):
TATGATAAATGTTGCTACCTTGA
Found at i:14318752 original size:95 final size:94
Alignment explanation
Indices: 14318586--14318764 Score: 229
Period size: 95 Copynumber: 1.9 Consensus size: 94
14318576 CTCTATGAAA
* * * ** * *
14318586 GGGATCGATCTTTTTTTATACAGAATGTAATCTGGGTTTGAAAGTGCACAAAAGGGATTGATGCC
1 GGGATCAATCTTTTTTTACACAGAAAGTAAAATGAGTTTGAAAGTGCACAAAAGGGATCGATGCC
*
14318651 CTCACATAGGGGATCGATCACCTAAGCAT
66 CTCACATAAGGGATCGATCACCTAAGCAT
14318680 GGGATCAATCTATTTTTTACACAGAAAGTAAAATGAGTTTGAATA-T-CAACAAAAGGGATCGAT
1 GGGATCAATCT-TTTTTTACACAGAAAGTAAAATGAGTTTGAA-AGTGC-ACAAAAGGGATCGAT
14318743 -CCCTCCACATAAGGGATCGATC
63 GCCCT-CACATAAGGGATCGATC
14318765 CCTCCACATA
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
94 15 0.21
95 57 0.78
96 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (94 bp):
GGGATCAATCTTTTTTTACACAGAAAGTAAAATGAGTTTGAAAGTGCACAAAAGGGATCGATGCC
CTCACATAAGGGATCGATCACCTAAGCAT
Found at i:14318758 original size:21 final size:21
Alignment explanation
Indices: 14318732--14318785 Score: 108
Period size: 21 Copynumber: 2.6 Consensus size: 21
14318722 ATATCAACAA
14318732 AAGGGATCGATCCCTCCACAT
1 AAGGGATCGATCCCTCCACAT
14318753 AAGGGATCGATCCCTCCACAT
1 AAGGGATCGATCCCTCCACAT
14318774 AAGGGATCGATC
1 AAGGGATCGATC
14318786 ACCTAAGGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.19
Consensus pattern (21 bp):
AAGGGATCGATCCCTCCACAT
Found at i:14321604 original size:43 final size:43
Alignment explanation
Indices: 14321557--14321688 Score: 96
Period size: 43 Copynumber: 3.2 Consensus size: 43
14321547 AGAAAGAATT
14321557 TATAATTTTCAGAGATTCAACCAAAAATAGATAAAAATATAGC
1 TATAATTTTCAGAGATTCAACCAAAAATAGATAAAAATATAGC
**** * * * *
14321600 TATAAACACCA-AGTATTTGAA-AAAAAAAAGAGAAAAA-AT---
1 TATAATTTTCAGAG-A-TTCAACCAAAAATAGATAAAAATATAGC
* * *
14321639 TGTAATTTTAAGAGATTCAACCAAAAATAAATAAAAATATAGC
1 TATAATTTTCAGAGATTCAACCAAAAATAGATAAAAATATAGC
*
14321682 TGTAATT
1 TATAATT
14321689 ATATTTTGAC
Statistics
Matches: 62, Mismatches: 19, Indels: 16
0.64 0.20 0.16
Matches are distributed among these distances:
38 4 0.06
39 18 0.29
40 4 0.06
42 4 0.06
43 28 0.45
44 4 0.06
ACGTcount: A:0.55, C:0.09, G:0.10, T:0.27
Consensus pattern (43 bp):
TATAATTTTCAGAGATTCAACCAAAAATAGATAAAAATATAGC
Found at i:14321617 original size:80 final size:82
Alignment explanation
Indices: 14321524--14321682 Score: 241
Period size: 82 Copynumber: 2.0 Consensus size: 82
14321514 AAAAATAAAG
** * * * *
14321524 AACACCATTTATTTG-AAAAAAAAAGA-AAGAATTTATAATTTTCAGAGATTCAACCAAAAATAG
1 AACACCAAGTATTTGAAAAAAAAAAGAGAAAAAATTATAATTTTAAGAGATTCAACCAAAAATAA
14321587 ATAAAAATATAGCTATA
66 ATAAAAATATAGCTATA
*
14321604 AACACCAAGTATTTGAAAAAAAAAAGAGAAAAAATTGTAATTTTAAGAGATTCAACCAAAAATAA
1 AACACCAAGTATTTGAAAAAAAAAAGAGAAAAAATTATAATTTTAAGAGATTCAACCAAAAATAA
14321669 ATAAAAATATAGCT
66 ATAAAAATATAGCT
14321683 GTAATTATAT
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
80 13 0.19
81 11 0.16
82 46 0.66
ACGTcount: A:0.56, C:0.09, G:0.09, T:0.25
Consensus pattern (82 bp):
AACACCAAGTATTTGAAAAAAAAAAGAGAAAAAATTATAATTTTAAGAGATTCAACCAAAAATAA
ATAAAAATATAGCTATA
Found at i:14325570 original size:19 final size:19
Alignment explanation
Indices: 14325548--14325673 Score: 91
Period size: 19 Copynumber: 6.7 Consensus size: 19
14325538 TTGACCTAAA
*
14325548 GTTTAAGGTTTCACCTAGG
1 GTTTAAGATTTCACCTAGG
*
14325567 GTTTCGAA-ATTTCA-TTGAGG
1 GTTT--AAGATTTCACCT-AGG
14325587 GTTTGAA-ATTT-ACCTAGG
1 GTTT-AAGATTTCACCTAGG
* *
14325605 GTTTAGGGTTTCACCTA-G
1 GTTTAAGATTTCACCTAGG
* * *
14325623 GTTTCAGATTTTACCTAAG
1 GTTTAAGATTTCACCTAGG
* *
14325642 GTTTTAGATTTTACCTAGG
1 GTTTAAGATTTCACCTAGG
*
14325661 GTTTAAGGTTTCA
1 GTTTAAGATTTCA
14325674 TTTTTGGGTT
Statistics
Matches: 86, Mismatches: 14, Indels: 14
0.75 0.12 0.12
Matches are distributed among these distances:
17 1 0.01
18 25 0.29
19 46 0.53
20 12 0.14
21 2 0.02
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.41
Consensus pattern (19 bp):
GTTTAAGATTTCACCTAGG
Found at i:14325986 original size:3 final size:3
Alignment explanation
Indices: 14325962--14326046 Score: 77
Period size: 3 Copynumber: 28.7 Consensus size: 3
14325952 AATCTTTTTG
* * * * *
14325962 TAT TAT TTT TAT AAT TA- CAT TAT TAT TAT TAT TGT TAT TAT AAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
14326009 TAT TAT TAT TAT T-T TCAT TAT CT-T TAT TAT CAT TAT TA
1 TAT TAT TAT TAT TAT T-AT TAT -TAT TAT TAT TAT TAT TA
14326047 CAAAGTAAGC
Statistics
Matches: 65, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
2 4 0.06
3 58 0.89
4 3 0.05
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:14327697 original size:15 final size:15
Alignment explanation
Indices: 14327658--14327697 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
14327648 GGTAAAAATG
*
14327658 TTTTGGGTTTATATT
1 TTTTGGTTTTATATT
**
14327673 TTTTTATTTTATATT
1 TTTTGGTTTTATATT
14327688 TTTTGGTTTT
1 TTTTGGTTTT
14327698 TTTTGCTTGT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.75
Consensus pattern (15 bp):
TTTTGGTTTTATATT
Found at i:14327777 original size:36 final size:36
Alignment explanation
Indices: 14327734--14327812 Score: 106
Period size: 36 Copynumber: 2.2 Consensus size: 36
14327724 TACAACACCA
* *
14327734 CAAGTCAAAAAATACAAAA-TGATTGGGACAACATTG
1 CAAGTCAAAAAATACAAAACT-ACTGAGACAACATTG
* *
14327770 CAGGTCAAAAAATAGAAAACTACTGAGACAACATTG
1 CAAGTCAAAAAATACAAAACTACTGAGACAACATTG
14327806 CAAGTCA
1 CAAGTCA
14327813 GAACGAATGA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 36 0.97
37 1 0.03
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.18
Consensus pattern (36 bp):
CAAGTCAAAAAATACAAAACTACTGAGACAACATTG
Found at i:14327867 original size:36 final size:37
Alignment explanation
Indices: 14327841--14327929 Score: 108
Period size: 39 Copynumber: 2.4 Consensus size: 37
14327831 CGTAAGTTAG
*
14327841 AAAATAAAGAATGATTGGGACAACATCATAAGTAAAAAA
1 AAAATAAAGAATGATCGGGACAACATCATAAGT--AAAA
* * * *
14327880 AAAATAAAGAATGATCGGGACAACACCACATGT-CAA
1 AAAATAAAGAATGATCGGGACAACATCATAAGTAAAA
14327916 AAAATAAAGAATGA
1 AAAATAAAGAATGA
14327930 CAGAGATGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
36 16 0.36
39 29 0.64
ACGTcount: A:0.57, C:0.11, G:0.16, T:0.16
Consensus pattern (37 bp):
AAAATAAAGAATGATCGGGACAACATCATAAGTAAAA
Found at i:14327918 original size:39 final size:39
Alignment explanation
Indices: 14327841--14327919 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 39
14327831 CGTAAGTTAG
* * *
14327841 AAAATAAAGAATGATTGGGACAACATCATAAGTAAAAAA
1 AAAATAAAGAATGATCGGGACAACACCACAAGTAAAAAA
* *
14327880 AAAATAAAGAATGATCGGGACAACACCACATGTCAAAAA
1 AAAATAAAGAATGATCGGGACAACACCACAAGTAAAAAA
14327919 A
1 A
14327920 TAAAGAATGA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.57, C:0.13, G:0.15, T:0.15
Consensus pattern (39 bp):
AAAATAAAGAATGATCGGGACAACACCACAAGTAAAAAA
Found at i:14328043 original size:33 final size:32
Alignment explanation
Indices: 14327988--14328168 Score: 125
Period size: 33 Copynumber: 5.5 Consensus size: 32
14327978 TTGAAGGTAG
* * *
14327988 CTAATTGTGCATAAATTTTTCATTAAGTGCCAA
1 CTAATTGGGCTTAAATCTTTCATT-AGTGCCAA
*
14328021 CTAAGTTGGGCTTAAATC-TTCATTAGGGCCAA
1 CTAA-TTGGGCTTAAATCTTTCATTAGTGCCAA
* * * * *
14328053 GTAATCTAGGCTTAAA-CTTTCATTGAGTACTAG
1 CTAAT-TGGGCTTAAATCTTTCATT-AGTGCCAA
* ** *
14328086 CTAAATTGAGCTTAAATCTTTCATTAGATATCAG
1 CT-AATTGGGCTTAAATCTTTCATTAG-TGCCAA
* *
14328120 CTAAACTGGGCTTAAAT-TTTCATTGGTGCCAA
1 CT-AATTGGGCTTAAATCTTTCATTAGTGCCAA
14328152 CTAATACTGGGCTTAAA
1 CTAAT--TGGGCTTAAA
14328169 ACTTGATGCC
Statistics
Matches: 117, Mismatches: 22, Indels: 18
0.75 0.14 0.11
Matches are distributed among these distances:
31 4 0.03
32 30 0.26
33 43 0.37
34 40 0.34
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (32 bp):
CTAATTGGGCTTAAATCTTTCATTAGTGCCAA
Found at i:14328109 original size:34 final size:35
Alignment explanation
Indices: 14328062--14328144 Score: 104
Period size: 34 Copynumber: 2.5 Consensus size: 35
14328052 AGTAATCTAG
*
14328062 GCTTAAA-CTTTCATTGAG-TA-CTAGCTAAATTGA
1 GCTTAAATCTTTCATTGAGATATC-AGCTAAACTGA
*
14328095 GCTTAAATCTTTCATT-AGATATCAGCTAAACTGG
1 GCTTAAATCTTTCATTGAGATATCAGCTAAACTGA
14328129 GCTTAAAT-TTTCATTG
1 GCTTAAATCTTTCATTG
14328145 GTGCCAACTA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
33 16 0.36
34 27 0.61
35 1 0.02
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (35 bp):
GCTTAAATCTTTCATTGAGATATCAGCTAAACTGA
Found at i:14328111 original size:99 final size:99
Alignment explanation
Indices: 14327985--14328168 Score: 221
Period size: 99 Copynumber: 1.9 Consensus size: 99
14327975 TCTTTGAAGG
* * * **
14327985 TAGCTAATTGTGCATAAATTTTTCATTA-AGTGCCAACTAAGTTGGGCTTAAATCTTCATTAGG-
1 TAGCTAATTGAGCATAAATCTTTCATTAGA-TACCAACTAAACTGGGCTTAAATCTTCATT-GGT
*
14328048 GCCAAGTAAT-CTAGGCTTAAACTTTCATTGAGTAC
64 GCCAACTAATACTAGGCTTAAACTTTCATTGAGTAC
* * * *
14328083 TAGCTAAATTGAGCTTAAATCTTTCATTAGATATCAGCTAAACTGGGCTTAAATTTTCATTGGTG
1 TAGCT-AATTGAGCATAAATCTTTCATTAGATACCAACTAAACTGGGCTTAAATCTTCATTGGTG
*
14328148 CCAACTAATACTGGGCTTAAA
65 CCAACTAATACTAGGCTTAAA
14328169 ACTTGATGCC
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
98 7 0.10
99 53 0.75
100 11 0.15
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (99 bp):
TAGCTAATTGAGCATAAATCTTTCATTAGATACCAACTAAACTGGGCTTAAATCTTCATTGGTGC
CAACTAATACTAGGCTTAAACTTTCATTGAGTAC
Found at i:14328179 original size:29 final size:29
Alignment explanation
Indices: 14328146--14328201 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
14328136 TTTTCATTGG
*
14328146 TGCCAACTAATACTGGGCTTAAA-ACTTGA
1 TGCCAACTAA-ACTAGGCTTAAATACTTGA
* *
14328175 TGCCAGCTAAGCTAGGCTTAAATACTT
1 TGCCAACTAAACTAGGCTTAAATACTT
14328202 CATTGATGCC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 10 0.43
29 13 0.57
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (29 bp):
TGCCAACTAAACTAGGCTTAAATACTTGA
Found at i:14328597 original size:67 final size:67
Alignment explanation
Indices: 14328524--14328661 Score: 156
Period size: 67 Copynumber: 2.1 Consensus size: 67
14328514 TAAATTGGGT
* *
14328524 TTAAATCT-TTTCA-TGATGTGCTAACT-AAAAGGGCTCAAATCTTTCATTGATGCCAGTTAAAC
1 TTAAATCTCTTTCATTGA--TGCT-ACTCAAAAGGGCTCAAAACTTTCATTGATGCCAGATAAAC
*
14328586 TAGTC
63 TAGGC
* ** * *
14328591 TTAAATCTCTTTCATTGATGCTAGTCAAATTGGCTTAAAACTTTCATTGATGCTAGATAAACTAG
1 TTAAATCTCTTTCATTGATGCTACTCAAAAGGGCTCAAAACTTTCATTGATGCCAGATAAACTAG
14328656 GC
66 GC
14328658 TTAA
1 TTAA
14328662 TTTTCATTGG
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
66 2 0.03
67 50 0.83
68 5 0.08
69 3 0.05
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (67 bp):
TTAAATCTCTTTCATTGATGCTACTCAAAAGGGCTCAAAACTTTCATTGATGCCAGATAAACTAG
GC
Found at i:14328602 original size:35 final size:33
Alignment explanation
Indices: 14328318--14329044 Score: 249
Period size: 33 Copynumber: 22.5 Consensus size: 33
14328308 ATGTGTCAGC
* *
14328318 TAAACTGGGCTTAAATCTTTCATTGATACTAGT
1 TAAACTAGGCTTAAATCTTTCATTGATGCTAGT
* * * * *
14328351 CATACTAAGCTTAAATCTTTTATTGATGCTAAT
1 TAAACTAGGCTTAAATCTTTCATTGATGCTAGT
* * * * *
14328384 CAAATTAGGTTTAAATCATTCATTGATGCTAGC
1 TAAACTAGGCTTAAATCTTTCATTGATGCTAGT
* * * * * *
14328417 AAAATTGGGCTTAAATCTTT-TTGTGAGATGCTGGA
1 TAAACTAGGCTTAAATCTTTCAT-T--GATGCTAGT
*
14328452 TAAACTAGGTTTAAAT-TTTCATT-AGTGCTAGT
1 TAAACTAGGCTTAAATCTTTCATTGA-TGCTAGT
* * * * * *
14328484 TAATGCTGGGCTTAAAAC--T--TGGGTGCTAGC
1 TAA-ACTAGGCTTAAATCTTTCATTGATGCTAGT
* * * **
14328514 TAAATTGGGTTTAAATCTTTTCA-TGATGTGCTAAC
1 TAAACTAGGCTTAAATC-TTTCATTGA--TGCTAGT
* *
14328549 TAAA--AGGGCTCAAATCTTTCATTGATGCCAGT
1 TAAACTA-GGCTTAAATCTTTCATTGATGCTAGT
*
14328581 TAAACTAGTCTTAAATCTCTTTCATTGATGCTAGT
1 TAAACTAGGCTTAAA--TCTTTCATTGATGCTAGT
* * * *
14328616 CAAA-TTGGCTTAAAACTTTCATTGATGCTAGA
1 TAAACTAGGCTTAAATCTTTCATTGATGCTAGT
* **
14328648 TAAACTAGGCTT-AAT-TTTCATTGGTGCTAAC
1 TAAACTAGGCTTAAATCTTTCATTGATGCTAGT
* * * * * * **
14328679 TAAATTGGGCTTAAAAC---C-TGGGTGTTAAC
1 TAAACTAGGCTTAAATCTTTCATTGATGCTAGT
* * * * *
14328708 TAAACTGGGCTAAAATTTTTTAATGATGCTAGT
1 TAAACTAGGCTTAAATCTTTCATTGATGCTAGT
* * *
14328741 CAAATTAAGCTTAAATCTTTCATTGATG-TCAGT
1 TAAACTAGGCTTAAATCTTTCATTGATGCT-AGT
* * * *
14328774 CAAACAAGGCTTAAACCTTTCATTGATGCTAGC
1 TAAACTAGGCTTAAATCTTTCATTGATGCTAGT
* ** * * *
14328807 CAAACT-GAATT---TTTTTCA-TGAGGGCTAGG
1 TAAACTAGGCTTAAATCTTTCATTGA-TGCTAGT
* * * *
14328836 TAAATTGGGCTT-AAT-TTTCATTGGTACTAGT
1 TAAACTAGGCTTAAATCTTTCATTGATGCTAGT
* * * ** *
14328867 TAAACTGGGC-TAAAAC---C-TGGATGCCGGC
1 TAAACTAGGCTTAAATCTTTCATTGATGCTAGT
* * * **
14328895 TAAAATAGGCTTAAATGTTTTCA-TGATGTGCCAAC
1 TAAACTAGGCTTAAAT-CTTTCATTGA--TGCTAGT
* *
14328930 TAAACTGGGCTTAAGTCTTTCATTGATGCTAGT
1 TAAACTAGGCTTAAATCTTTCATTGATGCTAGT
* * *
14328963 CAAA-TGGAGCTCAAATCTTTCATTGATGCTAGT
1 TAAACTAG-GCTTAAATCTTTCATTGATGCTAGT
* * * * *
14328996 CAAACTGGGTTTAAATCTTTCATTGATGCCAGC
1 TAAACTAGGCTTAAATCTTTCATTGATGCTAGT
*
14329029 CAAACTAGGCTTAAAT
1 TAAACTAGGCTTAAAT
14329045 TTTAGAGAAT
Statistics
Matches: 508, Mismatches: 138, Indels: 96
0.68 0.19 0.13
Matches are distributed among these distances:
28 16 0.03
29 51 0.10
30 15 0.03
31 44 0.09
32 52 0.10
33 226 0.44
34 33 0.06
35 71 0.14
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.36
Consensus pattern (33 bp):
TAAACTAGGCTTAAATCTTTCATTGATGCTAGT
Found at i:14328692 original size:31 final size:31
Alignment explanation
Indices: 14328565--14328676 Score: 93
Period size: 35 Copynumber: 3.5 Consensus size: 31
14328555 GGCTCAAATC
* * *
14328565 TTTCATTGATGCCAGTTAAACTAGTCTTAAATCT
1 TTTCATTGATGCTAGATAAACTAGGCTT-AA--T
* *
14328599 CTTTCATTGATGCTAG-TCAAA-TTGGCTTAAAAC
1 -TTTCATTGATGCTAGAT-AAACTAGGCTT--AAT
14328632 TTTCATTGATGCTAGATAAACTAGGCTTAAT
1 TTTCATTGATGCTAGATAAACTAGGCTTAAT
*
14328663 TTTCATTGGTGCTA
1 TTTCATTGATGCTA
14328677 ACTAAATTGG
Statistics
Matches: 66, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
31 15 0.23
32 18 0.27
33 7 0.11
34 6 0.09
35 20 0.30
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (31 bp):
TTTCATTGATGCTAGATAAACTAGGCTTAAT
Found at i:14330348 original size:12 final size:13
Alignment explanation
Indices: 14330323--14330352 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
14330313 TCTAGTATTT
14330323 CTTGGCATTTTCA
1 CTTGGCATTTTCA
14330336 CTTGGCA-TTTCA
1 CTTGGCATTTTCA
14330348 CTTGG
1 CTTGG
14330353 TTTTTTTCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.43
Consensus pattern (13 bp):
CTTGGCATTTTCA
Found at i:14330476 original size:11 final size:11
Alignment explanation
Indices: 14330462--14330486 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
14330452 TCTTTTTTCA
14330462 TTTTTCTCTTT
1 TTTTTCTCTTT
14330473 TTTTTCTCTTT
1 TTTTTCTCTTT
14330484 TTT
1 TTT
14330487 CAACATACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTCTCTTT
Found at i:14334315 original size:11 final size:12
Alignment explanation
Indices: 14334299--14334325 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
14334289 CTCTTTTTGC
14334299 CTTTTTTTTCAT
1 CTTTTTTTTCAT
14334311 CTTTTTTTTCAT
1 CTTTTTTTTCAT
14334323 CTT
1 CTT
14334326 AACTTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (12 bp):
CTTTTTTTTCAT
Found at i:14336416 original size:19 final size:19
Alignment explanation
Indices: 14336317--14336417 Score: 98
Period size: 19 Copynumber: 5.3 Consensus size: 19
14336307 AGGGTTTGAA
*
14336317 ATTTTACCTTGGGTTTAGG
1 ATTTTACCTAGGGTTTAGG
* * *
14336336 GTTTCACCTAGGGTTTTGG
1 ATTTTACCTAGGGTTTAGG
* * *
14336355 ATTTTACCTAAGGTTTTGA
1 ATTTTACCTAGGGTTTAGG
14336374 ATTTTACCT-GAGGTTTCA-G
1 ATTTTACCTAG-GGTTT-AGG
14336393 ATTTTACCTAGGGTTTAGG
1 ATTTTACCTAGGGTTTAGG
*
14336412 GTTTTA
1 ATTTTA
14336418 ATTAGGTTTC
Statistics
Matches: 66, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
18 1 0.02
19 64 0.97
20 1 0.02
ACGTcount: A:0.19, C:0.12, G:0.24, T:0.46
Consensus pattern (19 bp):
ATTTTACCTAGGGTTTAGG
Found at i:14336417 original size:38 final size:38
Alignment explanation
Indices: 14336306--14336417 Score: 118
Period size: 38 Copynumber: 2.9 Consensus size: 38
14336296 GGTTTTCATT
* * * *
14336306 TAGGGTTTGAAATTTTACCTTGGGTTTAGGGTTTCACC
1 TAGGGTTTCAGATTTTACCTAGGGTTTAGGGTTTTACC
** * * **
14336344 TAGGGTTTTGGATTTTACCTAAGGTTTTGAATTTTACC
1 TAGGGTTTCAGATTTTACCTAGGGTTTAGGGTTTTACC
14336382 T-GAGGTTTCAGATTTTACCTAGGGTTTAGGGTTTTA
1 TAG-GGTTTCAGATTTTACCTAGGGTTTAGGGTTTTA
14336418 ATTAGGTTTC
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
37 1 0.02
38 57 0.98
ACGTcount: A:0.20, C:0.11, G:0.25, T:0.45
Consensus pattern (38 bp):
TAGGGTTTCAGATTTTACCTAGGGTTTAGGGTTTTACC
Found at i:14336591 original size:15 final size:14
Alignment explanation
Indices: 14336573--14336613 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
14336563 GTTATTATTA
14336573 TTATTATTTAATCTT
1 TTATTATTTAAT-TT
*
14336588 TTATTATTTTATTT
1 TTATTATTTAATTT
*
14336602 TTATTGTTTAAT
1 TTATTATTTAAT
14336614 AATTCCCTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (14 bp):
TTATTATTTAATTT
Found at i:14336732 original size:3 final size:3
Alignment explanation
Indices: 14336709--14336837 Score: 167
Period size: 3 Copynumber: 43.7 Consensus size: 3
14336699 CTTTCTGTTG
* * *
14336709 TTA TTT TTA TAA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
14336756 TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
14336804 TTG TT- TTA TTA TT- TTCA TTA TCT- TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TT-A TTA T-TA TTA TTA TTA TT
14336838 GTTAAAAAAC
Statistics
Matches: 111, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
2 7 0.06
3 101 0.91
4 3 0.03
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:14338223 original size:3 final size:3
Alignment explanation
Indices: 14338215--14338263 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
14338205 TTCACTTTTA
14338215 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
14338263 T
1 T
14338264 TCCATTAATG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:14339222 original size:14 final size:15
Alignment explanation
Indices: 14339200--14339236 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
14339190 TTTGTTTAGC
14339200 TTCAATTCCTTGTCT
1 TTCAATTCCTTGTCT
*
14339215 TT-AATTCCTTGTTT
1 TTCAATTCCTTGTCT
14339229 TTCAATTC
1 TTCAATTC
14339237 TGTTTGGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.16, C:0.22, G:0.05, T:0.57
Consensus pattern (15 bp):
TTCAATTCCTTGTCT
Found at i:14345325 original size:18 final size:18
Alignment explanation
Indices: 14345302--14345337 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
14345292 CCCTAATATC
*
14345302 TACAATACCATTCAACAA
1 TACAATACCAGTCAACAA
*
14345320 TACAATATCAGTCAACAA
1 TACAATACCAGTCAACAA
14345338 GGTTTAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.25, G:0.03, T:0.22
Consensus pattern (18 bp):
TACAATACCAGTCAACAA
Found at i:14347617 original size:357 final size:358
Alignment explanation
Indices: 14346778--14347679 Score: 1204
Period size: 357 Copynumber: 2.5 Consensus size: 358
14346768 TATAGAAAAT
* * * *
14346778 TATTGAAGGCATTTTATAATTAAAGACACCTTTAATAATCAG-GAAAATTTTTTTTA-AAAAATT
1 TATTGAAGGCATTTTATAATAAAAGACGCCTTTAATAATCCGAGAAAA-TTTTTTTAGGAAAATT
* * * *
14346841 ATTGAAGGCATTGTTATCTGCAATCGCCTTTAGTAATTATA-TACAAACTGTGATAGGAATTGTT
65 ATTGAAGGCATTGTTTTCTGCAACCGCCTTCAGTAATTATACTACAAACTGTGATAGGAATTATT
* * *
14346905 AAATGCATCTATCTTAAATATACTCCTTCAATAACAGTGGTACAATTTGTGTAGTGATATATAGA
130 AAA-GCATCTATCTTAAATATACACCTTCAATAACAGTGTTACAATTTGTGTGGTGATATATAGA
* * * * *
14346970 ATGTATTTTACAGTAGAAGACGCCTTTAATAATTTTTAAAATATTTAGTGAAAAAATTTTAAAGG
194 AGGCATTTTACAGTAGAAGACACCTTTAATAATTCTTAAAATATTAAGTGAAAAAATTTTAAAGG
* * * **
14347035 TGTTTGTTATTAACAAATGCCTTCAATAATGGATTACTAAGTTTAAAGGTATATATGAAGGTGCA
259 CGTCTATTATTAACAAACACCTTCAATAATGGATTACTAAGTTTAAAGGTATATATGAAGGTGCA
*
14347100 TTTTCTAATAAACGCCTTCCATTACCATCGTGGTA
324 TTTTCTAATAAACGCCTTCCATTACCATCATGGTA
* *
14347135 TATTGAAGGCGTTTTATAATAAAAGACGCCTTTAATAATCCGAAAAAATTTTTTTAGGAAAATTA
1 TATTGAAGGCATTTTATAATAAAAGACGCCTTTAATAATCCGAGAAAATTTTTTTAGGAAAATTA
* * * * * *
14347200 TTAAAGGCGTTGTTTTCTGAAACCACCTTCAGTAATCATAC-ACAAATTGTGATAGGAATTATTA
66 TTGAAGGCATTGTTTTCTGCAACCGCCTTCAGTAATTATACTACAAACTGTGATAGGAATTATTA
* * * * *
14347264 AAGCCATCTACCTTAAATAGACACCTTCAATAACAATGTTATAATTTGTGTGGTGGTATATAGAA
131 AAG-CATCTATCTTAAATATACACCTTCAATAACAGTGTTACAATTTGTGTGGTGATATATAGAA
**
14347329 GGCATTTTACAGTAGAAGACACCTTTAATAATTCTTAAAATATTAAGTGGGAAAATTTTAAAGGC
195 GGCATTTTACAGTAGAAGACACCTTTAATAATTCTTAAAATATTAAGTGAAAAAATTTTAAAGGC
* * * * * *
14347394 GTCTATTATTAACAAACACTTTCAGTAATGGATTTCTAGGTTTAATGGTATAT-TGAAGGTGCCT
260 GTCTATTATTAACAAACACCTTCAATAATGGATTACTAAGTTTAAAGGTATATATGAAGGTGCAT
*
14347458 TTTCTAATAAATGCCTTCCATTACCATCATGGTA
325 TTTCTAATAAACGCCTTCCATTACCATCATGGTA
* * * * * *
14347492 TATTGAAGGCATCTCATAATAAAATACGCTTTTAATAATCCGAGAAAAGTTTTTTAGGGAAATTA
1 TATTGAAGGCATTTTATAATAAAAGACGCCTTTAATAATCCGAGAAAATTTTTTTAGGAAAATTA
* * *
14347557 TTGAAGGCATTATTTTCTGCAACCGCCTTCAGTAATTA-ACTTCAAACTATGATAGGAATTATTA
66 TTGAAGGCATTGTTTTCTGCAACCGCCTTCAGTAATTATACTACAAACTGTGATAGGAATTATTA
* * * * *
14347621 AAGGTATCTTTCTTAGATATACACCTTCAATAACAGTGTTAGAATTTGTGTGGCGATAT
131 AA-GCATCTATCTTAAATATACACCTTCAATAACAGTGTTACAATTTGTGTGGTGATAT
14347680 GTTCAATATG
Statistics
Matches: 469, Mismatches: 70, Indels: 12
0.85 0.13 0.02
Matches are distributed among these distances:
356 2 0.00
357 246 0.52
358 221 0.47
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (358 bp):
TATTGAAGGCATTTTATAATAAAAGACGCCTTTAATAATCCGAGAAAATTTTTTTAGGAAAATTA
TTGAAGGCATTGTTTTCTGCAACCGCCTTCAGTAATTATACTACAAACTGTGATAGGAATTATTA
AAGCATCTATCTTAAATATACACCTTCAATAACAGTGTTACAATTTGTGTGGTGATATATAGAAG
GCATTTTACAGTAGAAGACACCTTTAATAATTCTTAAAATATTAAGTGAAAAAATTTTAAAGGCG
TCTATTATTAACAAACACCTTCAATAATGGATTACTAAGTTTAAAGGTATATATGAAGGTGCATT
TTCTAATAAACGCCTTCCATTACCATCATGGTA
Found at i:14351936 original size:18 final size:18
Alignment explanation
Indices: 14351913--14351949 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
14351903 GATATAGGGT
14351913 TAGATACCAAAGATGATG
1 TAGATACCAAAGATGATG
*
14351931 TAGATACCAAATATGATG
1 TAGATACCAAAGATGATG
14351949 T
1 T
14351950 TGAACATGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.27
Consensus pattern (18 bp):
TAGATACCAAAGATGATG
Found at i:14360580 original size:12 final size:11
Alignment explanation
Indices: 14360547--14360593 Score: 53
Period size: 10 Copynumber: 4.4 Consensus size: 11
14360537 GTGGAGCTTG
*
14360547 GAAAAAG-AAT
1 GAAAAAGAAAA
14360557 GAAAAA-AAAA
1 GAAAAAGAAAA
*
14360567 GAAAGAGAAGAA
1 GAAAAAGAA-AA
14360579 GAAAAAGAAAA
1 GAAAAAGAAAA
14360590 GAAA
1 GAAA
14360594 CAAACTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
10 13 0.42
11 8 0.26
12 10 0.32
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (11 bp):
GAAAAAGAAAA
Found at i:14365440 original size:20 final size:22
Alignment explanation
Indices: 14365415--14365454 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
14365405 TGGCCATCTT
14365415 TCTATC-ACCTTAAT-CCTAGC
1 TCTATCAACCTTAATACCTAGC
14365435 TCTATCAACCTTAATACCTA
1 TCTATCAACCTTAATACCTA
14365455 TGGCAAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 8 0.44
22 4 0.22
ACGTcount: A:0.30, C:0.33, G:0.03, T:0.35
Consensus pattern (22 bp):
TCTATCAACCTTAATACCTAGC
Found at i:14367638 original size:10 final size:10
Alignment explanation
Indices: 14367625--14367674 Score: 50
Period size: 10 Copynumber: 5.2 Consensus size: 10
14367615 GAAAAAAGCT
*
14367625 AGAAACAAAA
1 AGAAAAAAAA
*
14367635 AG-AAACAAA
1 AGAAAAAAAA
*
14367644 AG-GAAAAAA
1 AGAAAAAAAA
*
14367653 GGAAAAAAAA
1 AGAAAAAAAA
14367663 AGAAAAAAAA
1 AGAAAAAAAA
14367673 AG
1 AG
14367675 TTTTATGATT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
9 13 0.41
10 19 0.59
ACGTcount: A:0.80, C:0.04, G:0.16, T:0.00
Consensus pattern (10 bp):
AGAAAAAAAA
Found at i:14367657 original size:18 final size:17
Alignment explanation
Indices: 14367631--14367670 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
14367621 AGCTAGAAAC
* *
14367631 AAAAAGAAACAAAAGGA
1 AAAAAGAAAAAAAAAGA
14367648 AAAAAGGAAAAAAAAAGA
1 AAAAA-GAAAAAAAAAGA
14367666 AAAAA
1 AAAAA
14367671 AAAGTTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAAAAAAGA
Found at i:14368394 original size:14 final size:13
Alignment explanation
Indices: 14368375--14368430 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
14368365 AGGGATTAGT
14368375 AAAAAGAAAAGTAA
1 AAAAAGAAAAG-AA
**
14368389 AAAAAGTCAAGAA
1 AAAAAGAAAAGAA
14368402 AAAATAGAAAA-AA
1 AAAA-AGAAAAGAA
* *
14368415 AAAGATAAAAGAA
1 AAAAAGAAAAGAA
14368428 AAA
1 AAA
14368431 TGGTTATGAT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
12 5 0.15
13 16 0.47
14 13 0.38
ACGTcount: A:0.79, C:0.02, G:0.12, T:0.07
Consensus pattern (13 bp):
AAAAAGAAAAGAA
Found at i:14369376 original size:32 final size:32
Alignment explanation
Indices: 14369340--14369614 Score: 161
Period size: 33 Copynumber: 8.6 Consensus size: 32
14369330 AAATTATTTA
*
14369340 GCACCAATGAAAATTTAAACCTAGTCTAGGTG
1 GCACCAATGAAAATTTAAACCTAGTTTAGGTG
* * * *
14369372 GCACCCAATGAAAATTTAAGCCCAGTTTAGCTA
1 GCA-CCAATGAAAATTTAAACCTAGTTTAGGTG
* * * * *
14369405 GTACCCTATGTAAATTTAAATCTAGTTTTA-ATG
1 GCA-CCAATGAAAATTTAAACCTAG-TTTAGGTG
* * *
14369438 GCA-CATAAGAAAGGATTT-AAGCTAGTTTAGTTG
1 GCACCA-ATGAAA--ATTTAAACCTAGTTTAGGTG
** ** ** *
14369471 GCACTC-A-G--TTTTTAAACCTAAATTATTTA
1 GCAC-CAATGAAAATTTAAACCTAGTTTAGGTG
*
14369500 GCATCAATGAAAATTTAAACCTAGTTTAGGTG
1 GCACCAATGAAAATTTAAACCTAGTTTAGGTG
* * * *
14369532 GCACCTAATAAAAATTTAAGCCCAGTTTAGTTG
1 GCACC-AATGAAAATTTAAACCTAGTTTAGGTG
* *
14369565 GCACCAA-GAAAAATTTAAGCCTAGTCTAGGTG
1 GCACCAATG-AAAATTTAAACCTAGTTTAGGTG
*
14369597 GCACCAATAAAAATTTAA
1 GCACCAATGAAAATTTAA
14369615 TTTCGATTGG
Statistics
Matches: 183, Mismatches: 44, Indels: 32
0.71 0.17 0.12
Matches are distributed among these distances:
28 4 0.02
29 14 0.08
30 1 0.01
31 1 0.01
32 68 0.37
33 86 0.47
34 8 0.04
35 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.30
Consensus pattern (32 bp):
GCACCAATGAAAATTTAAACCTAGTTTAGGTG
Found at i:14369464 original size:160 final size:160
Alignment explanation
Indices: 14369226--14369561 Score: 575
Period size: 160 Copynumber: 2.1 Consensus size: 160
14369216 GCATCCAGGT
* * *
14369226 TTTAAGCCCAGTTTAGTTGGTACCCTATGTAAATTTAAATCTAGTTTTGATGGCACACAAGAAAG
1 TTTAAGCCCAGTTTAGCTAGTACCCTATGTAAATTTAAATCTAGTTTTAATGGCACACAAGAAAG
14369291 GATTTAAGCTAGTTTAGTTGGCACTCAGCTTTTAAGA-CTAAATTATTTAGCACCAATGAAAATT
66 GATTTAAGCTAGTTTAGTTGGCACTCAGCTTTTAA-ACCTAAATTATTTAGCACCAATGAAAATT
*
14369355 TAAACCTAGTCTAGGTGGCACCCAATGAAAA
130 TAAACCTAGTCTAGGTGGCACCCAATAAAAA
*
14369386 TTTAAGCCCAGTTTAGCTAGTACCCTATGTAAATTTAAATCTAGTTTTAATGGCACATAAGAAAG
1 TTTAAGCCCAGTTTAGCTAGTACCCTATGTAAATTTAAATCTAGTTTTAATGGCACACAAGAAAG
* *
14369451 GATTTAAGCTAGTTTAGTTGGCACTCAGTTTTTAAACCTAAATTATTTAGCATCAATGAAAATTT
66 GATTTAAGCTAGTTTAGTTGGCACTCAGCTTTTAAACCTAAATTATTTAGCACCAATGAAAATTT
* *
14369516 AAACCTAGTTTAGGTGGCACCTAATAAAAA
131 AAACCTAGTCTAGGTGGCACCCAATAAAAA
14369546 TTTAAGCCCAGTTTAG
1 TTTAAGCCCAGTTTAG
14369562 TTGGCACCAA
Statistics
Matches: 166, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
159 1 0.01
160 165 0.99
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.33
Consensus pattern (160 bp):
TTTAAGCCCAGTTTAGCTAGTACCCTATGTAAATTTAAATCTAGTTTTAATGGCACACAAGAAAG
GATTTAAGCTAGTTTAGTTGGCACTCAGCTTTTAAACCTAAATTATTTAGCACCAATGAAAATTT
AAACCTAGTCTAGGTGGCACCCAATAAAAA
Found at i:14369735 original size:36 final size:36
Alignment explanation
Indices: 14369625--14369776 Score: 126
Period size: 36 Copynumber: 4.2 Consensus size: 36
14369615 TTTCGATTGG
** * *
14369625 TCTTTATTACTTGACTTGCAATGTCGTCCTGGTCAT
1 TCTTTATTACTTGACTTGCGGTGTCATCCTGGTCGT
* ** * * *
14369661 TCCTTATTTTTTGACTGGCGGTGTCAT-TTCGGTTGT
1 TCTTTATTACTTGACTTGCGGTGTCATCCT-GGTCGT
* *
14369697 TCTTAATTACTTGACTTGCGGTATCATCCTGGTCGT
1 TCTTTATTACTTGACTTGCGGTGTCATCCTGGTCGT
* * * ** *
14369733 TCTTTATTACTTAACTTGTGATGTCATCCCAGTCAT
1 TCTTTATTACTTGACTTGCGGTGTCATCCTGGTCGT
14369769 TCTTTATT
1 TCTTTATT
14369777 TTTTAACTTG
Statistics
Matches: 88, Mismatches: 26, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
35 1 0.01
36 86 0.98
37 1 0.01
ACGTcount: A:0.16, C:0.20, G:0.17, T:0.47
Consensus pattern (36 bp):
TCTTTATTACTTGACTTGCGGTGTCATCCTGGTCGT
Found at i:14369758 original size:72 final size:72
Alignment explanation
Indices: 14369614--14369759 Score: 157
Period size: 72 Copynumber: 2.0 Consensus size: 72
14369604 TAAAAATTTA
* * * ** *
14369614 ATTTCGATTGGTCTTTATTACTTGACTTGCAATGTCGTCCTGGTCATTCCTTATTTTTTGACTGG
1 ATTTCGATTGGTCTTAATTACTTGACTTGCAATATCATCCTGGTCATTCCTTATTACTTAACTGG
*
14369679 CGGTGTC
66 CGATGTC
* * ** * * *
14369686 ATTTCGGTTGTTCTTAATTACTTGACTTGCGGTATCATCCTGGTCGTTCTTTATTACTTAACTTG
1 ATTTCGATTGGTCTTAATTACTTGACTTGCAATATCATCCTGGTCATTCCTTATTACTTAACTGG
*
14369751 TGATGTC
66 CGATGTC
14369758 AT
1 AT
14369760 CCCAGTCATT
Statistics
Matches: 59, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
72 59 1.00
ACGTcount: A:0.16, C:0.18, G:0.19, T:0.47
Consensus pattern (72 bp):
ATTTCGATTGGTCTTAATTACTTGACTTGCAATATCATCCTGGTCATTCCTTATTACTTAACTGG
CGATGTC
Found at i:14369865 original size:36 final size:35
Alignment explanation
Indices: 14369823--14369998 Score: 144
Period size: 36 Copynumber: 4.9 Consensus size: 35
14369813 TTCTGAGTCA
*
14369823 CGGTGTCATCCCGATCATTCTTTATTACTTGACTTG
1 CGGTGTCATCTC-ATCATTCTTTATTACTTGACTTG
* * * *
14369859 CAGTGTCATCTCAGTTATTCTTAATTACTTGACTTA
1 CGGTGTCATCTCA-TCATTCTTTATTACTTGACTTG
**
14369895 C-G-GTCATCTTGC-TCATTCTTTATTTTTTGACTTG
1 CGGTGTCATC-T-CATCATTCTTTATTACTTGACTTG
* * *
14369929 TGGTGTCATCTCAGTCATTCTTTATT-TTCTAACTTG
1 CGGTGTCATCTCA-TCATTCTTTATTACT-TGACTTG
* * *
14369965 CGGTATCATCCCAATTATTCTTTATTACTTGACT
1 CGGTGTCATCTC-ATCATTCTTTATTACTTGACT
14369999 CATGGTTCAA
Statistics
Matches: 112, Mismatches: 18, Indels: 20
0.75 0.12 0.13
Matches are distributed among these distances:
34 24 0.21
35 7 0.06
36 79 0.71
37 2 0.02
ACGTcount: A:0.19, C:0.22, G:0.13, T:0.47
Consensus pattern (35 bp):
CGGTGTCATCTCATCATTCTTTATTACTTGACTTG
Found at i:14372401 original size:53 final size:56
Alignment explanation
Indices: 14372314--14372420 Score: 159
Period size: 53 Copynumber: 2.0 Consensus size: 56
14372304 ATAAGAGGAA
*
14372314 ATATAAAAATTCAATTTTTAGAAAAATTATAAAAAGTGAGCTTGTAT-AGAAAAAT
1 ATATAAAAATTCAATTTTTAGAAAAATTATAAAAAATGAGCTTGTATCAGAAAAAT
*
14372369 ATATAAAAATT-AATTTTT-G-AAAATTATAAAAAAATGAGCTTGTTTCAGAAAA
1 ATATAAAAATTCAATTTTTAGAAAAATTAT-AAAAAATGAGCTTGTATCAGAAAA
14372421 TCTACTTAGA
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
52 8 0.17
53 16 0.33
54 13 0.27
55 11 0.23
ACGTcount: A:0.52, C:0.04, G:0.10, T:0.34
Consensus pattern (56 bp):
ATATAAAAATTCAATTTTTAGAAAAATTATAAAAAATGAGCTTGTATCAGAAAAAT
Found at i:14376829 original size:10 final size:10
Alignment explanation
Indices: 14376814--14376862 Score: 62
Period size: 10 Copynumber: 4.9 Consensus size: 10
14376804 TAACCATATC
14376814 AACTAACTAT
1 AACTAACTAT
14376824 AACTAACTAT
1 AACTAACTAT
* *
14376834 AGCTAACTTT
1 AACTAACTAT
* *
14376844 AACTAATTCT
1 AACTAACTAT
14376854 AACTAACTA
1 AACTAACTA
14376863 CTCAACTTCG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
10 32 1.00
ACGTcount: A:0.45, C:0.20, G:0.02, T:0.33
Consensus pattern (10 bp):
AACTAACTAT
Found at i:14378278 original size:15 final size:16
Alignment explanation
Indices: 14378252--14378281 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
14378242 ATTGAATATT
14378252 CAAGGTTTTAGGGTTA
1 CAAGGTTTTAGGGTTA
14378268 CAAGG-TTTAGGGTT
1 CAAGGTTTTAGGGTT
14378282 TAAATTGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.23, C:0.07, G:0.33, T:0.37
Consensus pattern (16 bp):
CAAGGTTTTAGGGTTA
Found at i:14378440 original size:21 final size:22
Alignment explanation
Indices: 14378397--14378440 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
14378387 AAGCCTAAAC
*
14378397 TTAAAAGATTGCAAAGTAAGAA
1 TTAAAAGATTGCAAAGCAAGAA
*
14378419 TTAAAAGATTGTAAA-CAAGAA
1 TTAAAAGATTGCAAAGCAAGAA
14378440 T
1 T
14378441 GCCAAATTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.55, C:0.05, G:0.16, T:0.25
Consensus pattern (22 bp):
TTAAAAGATTGCAAAGCAAGAA
Found at i:14389079 original size:241 final size:240
Alignment explanation
Indices: 14388657--14389142 Score: 720
Period size: 241 Copynumber: 2.0 Consensus size: 240
14388647 AGTATCCTTC
* * * * * * *
14388657 TCTAGCATTTGTGTTCATTGGGCTATATACATTCGAATGTATTAATCCAAGAACCATACTGGCTC
1 TCTAGCATTTGTGTTCATTGGGCCACATACATCCAAATGTATTAATCCAAAAACCACACTAGCTC
* *
14388722 TTTCTTTTTTATCGGTAAAAAGTGATTGGTCATCTTTCTAAGCAAACATGATTCACAAGTTCCAT
66 TTTCTTCTTTATCGGTAAAAAGTGATTGGTCATCTTTCGAAGCAAACATGATTCACAAGTTCCAT
* * * * *
14388787 ATGATTCATAATCAAAAGGATCAAAGTATCCTTGTTTATATAACTTTGTGATTCTTGTTTCATTG
131 ATGATTCATAATCAAAAGGATCAAAGCATCCTTATTTAGATAACTTTGTGATTCTTATCTCATTG
* *
14388852 ATGTGACCAAGCTTACAATGCCACAAGTAAGGTTAATTAGATTTA
196 ATGTGACCAAGCCTACAATGCCACAAGTAAGATTAATTAGATTTA
* * *
14388897 TCTAGCATTTGTGTTCATTGGGCCACATGCATCCAAATGTATTAGTCCAAAAATCACACTAGCTC
1 TCTAGCATTTGTGTTCATTGGGCCACATACATCCAAATGTATTAATCCAAAAACCACACTAGCTC
* *
14388962 TTTCTTCTTTATTGGTAAAAGGTGATTTGGTCATCTTTCGAAGCAAACATGATTCACAAGTTCCA
66 TTTCTTCTTTATCGGTAAAAAGTGA-TTGGTCATCTTTCGAAGCAAACATGATTCACAAGTTCCA
* *
14389027 TATGATTCATAATCAAAAGGATCAAAGCATCCTTATTTAGGTATCTTTGTGATTCTTATCTCATT
130 TATGATTCATAATCAAAAGGATCAAAGCATCCTTATTTAGATAACTTTGTGATTCTTATCTCATT
* * * *
14389092 GATGTGACTAAGCCTAGAATGCCACAAGTAAGATTGATTAGGTTTA
195 GATGTGACCAAGCCTACAATGCCACAAGTAAGATTAATTAGATTTA
14389138 TCTAG
1 TCTAG
14389143 TTTAGCCTTC
Statistics
Matches: 218, Mismatches: 27, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
240 77 0.35
241 141 0.65
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.36
Consensus pattern (240 bp):
TCTAGCATTTGTGTTCATTGGGCCACATACATCCAAATGTATTAATCCAAAAACCACACTAGCTC
TTTCTTCTTTATCGGTAAAAAGTGATTGGTCATCTTTCGAAGCAAACATGATTCACAAGTTCCAT
ATGATTCATAATCAAAAGGATCAAAGCATCCTTATTTAGATAACTTTGTGATTCTTATCTCATTG
ATGTGACCAAGCCTACAATGCCACAAGTAAGATTAATTAGATTTA
Found at i:14396953 original size:40 final size:40
Alignment explanation
Indices: 14396909--14396990 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
14396899 TAGATTGATC
*
14396909 TCAATCATAAACATATCTAAAGTAAAAGTCTCTTTAGACT
1 TCAATCATAAACATACCTAAAGTAAAAGTCTCTTTAGACT
*
14396949 TCAATCATAAACATACCTAAAGTATAAGTCTCTTTAGACT
1 TCAATCATAAACATACCTAAAGTAAAAGTCTCTTTAGACT
14396989 TC
1 TC
14396991 TTATTCTTCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (40 bp):
TCAATCATAAACATACCTAAAGTAAAAGTCTCTTTAGACT
Found at i:14401419 original size:85 final size:85
Alignment explanation
Indices: 14401276--14401446 Score: 279
Period size: 85 Copynumber: 2.0 Consensus size: 85
14401266 CATAGGGTTT
* * * *
14401276 ATTCAGCTATCTAGTGTTTTAACCTAAGTACCGGACACTCTCGGTTTGACTAGGACATGAATCAC
1 ATTCAGCTACCTAGTGTTTTAACCTAAGCACCGGACACTCTCGGTCTAACTAGGACATGAATCAC
14401341 TTGTATGACCTACCCCACAA
66 TTGTATGACCTACCCCACAA
* * *
14401361 ATTCAGCTACCTAGTGTTTTGACCTAAGCACTGGACACTCTTGGTCTAACTAGGACATGAATCAC
1 ATTCAGCTACCTAGTGTTTTAACCTAAGCACCGGACACTCTCGGTCTAACTAGGACATGAATCAC
14401426 TTGTATGACCTACCCCACAA
66 TTGTATGACCTACCCCACAA
14401446 A
1 A
14401447 CCTCACAACA
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 79 1.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (85 bp):
ATTCAGCTACCTAGTGTTTTAACCTAAGCACCGGACACTCTCGGTCTAACTAGGACATGAATCAC
TTGTATGACCTACCCCACAA
Found at i:14404864 original size:27 final size:27
Alignment explanation
Indices: 14404832--14404895 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
14404822 ATAAATTTTG
14404832 ATTTTTAAAATTTAAATTTTAA-AAAAT
1 ATTTTTAAAATTTAAA-TTTAATAAAAT
* * * *
14404859 ATTTTTTATATTTTAATTTAATATAAT
1 ATTTTTAAAATTTAAATTTAATAAAAT
14404886 ATTTTTAAAA
1 ATTTTTAAAA
14404896 AATAATAATA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
26 5 0.17
27 25 0.83
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (27 bp):
ATTTTTAAAATTTAAATTTAATAAAAT
Found at i:14416790 original size:14 final size:16
Alignment explanation
Indices: 14416754--14416793 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 16
14416744 ATATTTTATA
14416754 CATTAT-ATTTGTCTG
1 CATTATAATTTGTCTG
*
14416769 CATGATAATTT-T-TG
1 CATTATAATTTGTCTG
14416783 CATTATAATTT
1 CATTATAATTT
14416794 AAAAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 12 0.55
15 6 0.27
16 4 0.18
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.53
Consensus pattern (16 bp):
CATTATAATTTGTCTG
Found at i:14427154 original size:46 final size:44
Alignment explanation
Indices: 14427022--14427233 Score: 203
Period size: 44 Copynumber: 4.8 Consensus size: 44
14427012 GTAAAGCCAT
* * * ** *
14427022 AAAATTTTTAAA-GAAGAACCTTTGAAATTTCAGATGTGAATCCC
1 AAAATTTTCAAATG-AGAATCTTTTAAATTTTGGATATGAATCCC
* * * * *
14427066 AAAATTTTCGAATGATAATCTTTGAAATTTTGGATATAAATCCT
1 AAAATTTTCAAATGAGAATCTTTTAAATTTTGGATATGAATCCC
* *
14427110 AAAATTTTCAAATAAGAATCTTTTAAAAATTTTGGATGTGAATCCC
1 AAAATTTTCAAATGAGAATCTTTT--AAATTTTGGATATGAATCCC
*
14427156 AAAATTTTTCAAATGAGAATCTTTTAAATTTTGGATATGAATCCTT
1 AAAA-TTTTCAAATGAGAATCTTTTAAATTTTGGATATGAATCC-C
* * * *
14427202 AAAATTCTCGAATGAAAAT-TTTTAATTTTTGG
1 AAAATTTTCAAATGAGAATCTTTTAAATTTTGG
14427234 GTGTAAATCT
Statistics
Matches: 140, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
44 65 0.46
45 31 0.22
46 25 0.18
47 19 0.14
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (44 bp):
AAAATTTTCAAATGAGAATCTTTTAAATTTTGGATATGAATCCC
Found at i:14427216 original size:45 final size:44
Alignment explanation
Indices: 14427058--14427277 Score: 210
Period size: 44 Copynumber: 5.0 Consensus size: 44
14427048 ATTTCAGATG
* * *
14427058 TGAATCCCAAAATTTTCGAATGATAATCTTTGAAATTTTGGATA
1 TGAATCCTAAAATTTTCGAATGAGAATCTTTTAAATTTTGGATA
* * * *
14427102 TAAATCCTAAAATTTTCAAATAAGAATCTTTTAAAAATTTTGGATG
1 TGAATCCTAAAATTTTCGAATGAGAATCTTTT--AAATTTTGGATA
* *
14427148 TGAATCCCAAAATTTTTCAAATGAGAATCTTTTAAATTTTGGATA
1 TGAATCCTAAAA-TTTTCGAATGAGAATCTTTTAAATTTTGGATA
* * * * *
14427193 TGAATCCTTAAAATTCTCGAATGAAAAT-TTTTAATTTTTGGGTG
1 TGAATCC-TAAAATTTTCGAATGAGAATCTTTTAAATTTTGGATA
* * * * * *
14427237 TAAATCTTTAAATTTTTGAATGAGAAT-ATTTGAATTTTGGA
1 TGAATCCTAAAATTTTCGAATGAGAATCTTTTAAATTTTGGA
14427278 AGTGAGCTTT
Statistics
Matches: 144, Mismatches: 28, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
43 26 0.18
44 44 0.31
45 30 0.21
46 25 0.17
47 19 0.13
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.41
Consensus pattern (44 bp):
TGAATCCTAAAATTTTCGAATGAGAATCTTTTAAATTTTGGATA
Found at i:14427225 original size:91 final size:90
Alignment explanation
Indices: 14427054--14427277 Score: 251
Period size: 91 Copynumber: 2.5 Consensus size: 90
14427044 TGAAATTTCA
* * *
14427054 GATGTGAATCCCAAAATTTTCGAATGATAATCTTTGAAATTTTGGATATAAATCCTAAAATTTTC
1 GATGTGAATCCCAAAATTTTCAAATGAGAATCTTTGAAATTTTGGATATAAATCCTAAAATTCTC
14427119 AAATAAGAATCTTTTAAAAATTTTG
66 AAATAAGAATCTTTTAAAAATTTTG
* *
14427144 GATGTGAATCCCAAAATTTTTCAAATGAGAATCTTTTAAATTTTGGATATGAATCCTTAAAATTC
1 GATGTGAATCCCAAAA-TTTTCAAATGAGAATCTTTGAAATTTTGGATATAAATCC-TAAAATTC
* *
14427209 TCGAATGAA-AAT-TTTT--AATTTTTG
64 TCAAAT-AAGAATCTTTTAAAAATTTTG
* * *** ** *
14427233 GGTGTAAATCTTTAAATTTTTGAATGAGAATATTTG-AATTTTGGA
1 GATGTGAATCCCAAAATTTTCAAATGAGAATCTTTGAAATTTTGGA
14427278 AGTGAGCTTT
Statistics
Matches: 115, Mismatches: 16, Indels: 9
0.82 0.11 0.06
Matches are distributed among these distances:
87 9 0.08
88 16 0.14
89 18 0.16
90 16 0.14
91 39 0.34
92 15 0.13
93 2 0.02
ACGTcount: A:0.37, C:0.08, G:0.13, T:0.41
Consensus pattern (90 bp):
GATGTGAATCCCAAAATTTTCAAATGAGAATCTTTGAAATTTTGGATATAAATCCTAAAATTCTC
AAATAAGAATCTTTTAAAAATTTTG
Found at i:14427275 original size:43 final size:43
Alignment explanation
Indices: 14427066--14427277 Score: 142
Period size: 46 Copynumber: 4.7 Consensus size: 43
14427056 TGTGAATCCC
* *
14427066 AAAATTTTCGAATGATAATCTTTGAAATTTTGGATATAAATCC-T
1 AAAATTTTTGAATGAGAAT-TTT-AAATTTTGGATATAAATCCTT
** * * * *
14427110 AAAATTTTCAAATAAGAATCTTTTAAAAATTTTGGATGTGAATCC-C
1 AAAATTTTTGAATGAGAA--TTTT--AAATTTTGGATATAAATCCTT
* *
14427156 AAAATTTTTCAAATGAGAATCTTTTAAATTTTGGATATGAATCCTT
1 AAAATTTTT-GAATGAGAA--TTTTAAATTTTGGATATAAATCCTT
* * * * * *
14427202 AAAATTCTCGAATGAAAATTTTTAATTTTTGGGTGTAAAT-CTT
1 AAAATTTTTGAATGAGAA-TTTTAAATTTTGGATATAAATCCTT
* *
14427245 TAAATTTTTGAATGAGAATATTTGAATTTTGGA
1 AAAATTTTTGAATGAGAAT-TTTAAATTTTGGA
14427278 AGTGAGCTTT
Statistics
Matches: 135, Mismatches: 27, Indels: 13
0.77 0.15 0.07
Matches are distributed among these distances:
42 1 0.01
43 27 0.20
44 32 0.24
45 28 0.21
46 33 0.24
47 14 0.10
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.42
Consensus pattern (43 bp):
AAAATTTTTGAATGAGAATTTTAAATTTTGGATATAAATCCTT
Found at i:14427436 original size:17 final size:17
Alignment explanation
Indices: 14427396--14427437 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
14427386 AATTCTTGCA
*
14427396 AACCTAAATTTCTTATG
1 AACCTGAATTTCTTATG
*
14427413 AACCTGAATTTCTTGTG
1 AACCTGAATTTCTTATG
*
14427430 AAGCTGAA
1 AACCTGAA
14427438 GCTATTGTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (17 bp):
AACCTGAATTTCTTATG
Found at i:14428744 original size:13 final size:13
Alignment explanation
Indices: 14428721--14428745 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14428711 GGTTTTTCAA
14428721 ATTTTTTTTTTAG
1 ATTTTTTTTTTAG
14428734 ATTTTTTTTTTA
1 ATTTTTTTTTTA
14428746 TTTTGGGAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.04, T:0.80
Consensus pattern (13 bp):
ATTTTTTTTTTAG
Found at i:14429232 original size:18 final size:18
Alignment explanation
Indices: 14429209--14429264 Score: 67
Period size: 19 Copynumber: 3.0 Consensus size: 18
14429199 AAGTTTTTCC
*
14429209 TTTTCTTTTTTCATTTTA
1 TTTTCTTTTTTTATTTTA
*
14429227 TTTTCTATTTTTTATTATA
1 TTTTCT-TTTTTTATTTTA
*
14429246 TTTCTATTTTTTTATTTTA
1 TTT-TCTTTTTTTATTTTA
14429265 ATATTTATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 6 0.19
19 24 0.75
20 2 0.06
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTCTTTTTTTATTTTA
Found at i:14429237 original size:19 final size:19
Alignment explanation
Indices: 14429209--14429256 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
14429199 AAGTTTTTCC
*
14429209 TTTTCT-TTTTTCATTTTA
1 TTTTCTATTTTTCATTATA
*
14429227 TTTTCTATTTTTTATTATA
1 TTTTCTATTTTTCATTATA
14429246 -TTTCTATTTTT
1 TTTTCTATTTTT
14429257 TTATTTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 17 0.63
19 10 0.37
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTCTATTTTTCATTATA
Found at i:14429445 original size:29 final size:28
Alignment explanation
Indices: 14429386--14429452 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 28
14429376 GCATGTTATT
*
14429386 TTATATTAATTGTATGATAATTTATATA
1 TTATATTAATTGTATGATAATTTATACA
* * *
14429414 TTATATTTATTTGTATGATAATTTTTGCA
1 TTATA-TTAATTGTATGATAATTTATACA
14429443 TTATAATTAA
1 TTAT-ATTAA
14429453 GAAAAGAGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
28 5 0.16
29 26 0.81
30 1 0.03
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (28 bp):
TTATATTAATTGTATGATAATTTATACA
Found at i:14430761 original size:25 final size:25
Alignment explanation
Indices: 14430697--14430751 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
14430687 GTGTATTTTA
* * *
14430697 CATTTCTTGCATATTTTATTTATGT
1 CATTTCATGTATATTTTAATTATGT
14430722 CATTTCATGTATATTTTAATTATGT
1 CATTTCATGTATATTTTAATTATGT
14430747 CATTT
1 CATTT
14430752 ATTATTTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.24, C:0.11, G:0.07, T:0.58
Consensus pattern (25 bp):
CATTTCATGTATATTTTAATTATGT
Found at i:14431541 original size:18 final size:19
Alignment explanation
Indices: 14431509--14431550 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
14431499 GTGATTGTTA
14431509 AAAAGAAACCAAAAA-AATC
1 AAAAGAAACCAAAAACAA-C
14431528 AAAAGAAA-CAAAAACAAC
1 AAAAGAAACCAAAAACAAC
14431546 AAAAG
1 AAAAG
14431551 TGGAAAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.76, C:0.14, G:0.07, T:0.02
Consensus pattern (19 bp):
AAAAGAAACCAAAAACAAC
Found at i:14432586 original size:15 final size:16
Alignment explanation
Indices: 14432568--14432598 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
14432558 TCCTTGAAGA
14432568 TTTCATTTTT-TTCAT
1 TTTCATTTTTCTTCAT
14432583 TTTCATTTTTCTTCAT
1 TTTCATTTTTCTTCAT
14432599 CATTTTCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.13, C:0.16, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTCATTTTTCTTCAT
Found at i:14433548 original size:3 final size:3
Alignment explanation
Indices: 14433540--14433585 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
14433530 CTAAAAATAT
* *
14433540 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTG TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
14433586 CTTTTTTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:14433782 original size:3 final size:3
Alignment explanation
Indices: 14433774--14433803 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
14433764 ATCCTTAGAG
14433774 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
14433804 TCTTTTTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:14436709 original size:1 final size:1
Alignment explanation
Indices: 14436705--14436770 Score: 51
Period size: 1 Copynumber: 66.0 Consensus size: 1
14436695 TTGTTTTTCA
* * * * * * * * *
14436705 TTTTTGTTTTTTTTTTGTTTTTTATTTTTATTTTTTTGTCTTGTTGTTTTGTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
14436770 T
1 T
14436771 ATGAATTTGA
Statistics
Matches: 47, Mismatches: 18, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.03, C:0.02, G:0.09, T:0.86
Consensus pattern (1 bp):
T
Done.