Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009069.1 Hibiscus syriacus cultivar Beakdansim tig00112496_pilon, 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: 530156
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 2 of 3
Found at i:244201 original size:36 final size:36
Alignment explanation
Indices: 244151--244235 Score: 118
Period size: 36 Copynumber: 2.4 Consensus size: 36
244141 TTTTGCTTGA
244151 AAAAAAAAAGAAAAAATGAAT-AAAAAATGAAAAAAG
1 AAAAAAAAAGAAAAAATGAATGAAAAAA-GAAAAAAG
* * * *
244187 AAAAAATAATAAAAAATGAATGAAAAAAGGAAAAGG
1 AAAAAAAAAGAAAAAATGAATGAAAAAAGAAAAAAG
244223 AAAAAAAAAGAAA
1 AAAAAAAAAGAAA
244236 CAAAAAAGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
36 36 0.86
37 6 0.14
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (36 bp):
AAAAAAAAAGAAAAAATGAATGAAAAAAGAAAAAAG
Found at i:244213 original size:29 final size:26
Alignment explanation
Indices: 244154--244206 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
244144 TGCTTGAAAA
244154 AAAAAAGAAAAAATGAATAAAAAATG
1 AAAAAAGAAAAAATGAATAAAAAATG
244180 AAAAAAGAAAAAAT-AATAAAAAATG
1 AAAAAAGAAAAAATGAATAAAAAATG
244205 AA
1 AA
244207 TGAAAAAAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 13 0.48
26 14 0.52
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.11
Consensus pattern (26 bp):
AAAAAAGAAAAAATGAATAAAAAATG
Found at i:244229 original size:29 final size:29
Alignment explanation
Indices: 244176--244245 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
244166 ATGAATAAAA
* *
244176 AATGAAAAAAGAAAAAATAATAAAAAATG
1 AATGAAAAAAGAAAAAAGAAAAAAAAATG
* *
244205 AATGAAAAAAGGAAAAGGAAAAAAAAA-G
1 AATGAAAAAAGAAAAAAGAAAAAAAAATG
**
244233 AAACAAAAAAGAA
1 AATGAAAAAAGAA
244246 GGGTTCAAGA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
28 11 0.32
29 23 0.68
ACGTcount: A:0.77, C:0.01, G:0.14, T:0.07
Consensus pattern (29 bp):
AATGAAAAAAGAAAAAAGAAAAAAAAATG
Found at i:245402 original size:55 final size:55
Alignment explanation
Indices: 245245--245562 Score: 390
Period size: 55 Copynumber: 5.8 Consensus size: 55
245235 AGGTCCCCCA
* * *
245245 ACGATTATTGAAGATTGTTCGAGTCTTATACTCTCTAAAGAAATAGGGAGCAGCC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTAAAGAAATAGAGAGCAGAC
* *
245300 ACGATCGTTGAAGAATTGTTCGAGTCTTATACTCTCTGAAGAAATAGAGAGCAGAC
1 ACGATTGTTGAAG-ATTGTTCGAGTCTTATACTCTCTAAAGAAATAGAGAGCAGAC
* * *
245356 ACGATTGTTGAAGATTGCTCGAGTCTTATACTCTGTAAAGAAATAGAGAGCATAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTAAAGAAATAGAGAGCAGAC
* * * *
245411 ACGATTATTGAAGATTATTCGAGTCTTATACTCTCTGAACG-AATAGAGAGCATAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCT-AAAGAAATAGAGAGCAGAC
** * * * * *
245466 GTGATTGTTGAAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGGATCAAAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTAAAGAAATAGAGAGCAGAC
* * *
245521 ACGATTGTTAAAGA-CGTTCGAGT-TCTATACTCCCTAAAGAAA
1 ACGATTGTTGAAGATTGTTCGAGTCT-TATACTCTCTAAAGAAA
245563 GAGGGAACAA
Statistics
Matches: 229, Mismatches: 30, Indels: 9
0.85 0.11 0.03
Matches are distributed among these distances:
53 1 0.00
54 24 0.10
55 150 0.66
56 54 0.24
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.30
Consensus pattern (55 bp):
ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTAAAGAAATAGAGAGCAGAC
Found at i:245899 original size:2 final size:2
Alignment explanation
Indices: 245892--245935 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
245882 GTAGGTATTA
245892 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
245934 AT
1 AT
245936 GCAAACAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:248792 original size:23 final size:23
Alignment explanation
Indices: 248757--248801 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
248747 ATTTTGTTTT
* * *
248757 TATGACACGTTTTTATCTGTCTG
1 TATGACACATTTTCATATGTCTG
*
248780 TATGATACATTTTCATATGTCT
1 TATGACACATTTTCATATGTCT
248802 TTTAGTACGT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.16, G:0.13, T:0.49
Consensus pattern (23 bp):
TATGACACATTTTCATATGTCTG
Found at i:249092 original size:16 final size:16
Alignment explanation
Indices: 249071--249101 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
249061 TACATCAGAT
249071 CAATTTGTATCTTTAG
1 CAATTTGTATCTTTAG
249087 CAATTTGTATCTTTA
1 CAATTTGTATCTTTA
249102 TTTTGTTCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.13, G:0.10, T:0.52
Consensus pattern (16 bp):
CAATTTGTATCTTTAG
Found at i:263487 original size:2 final size:2
Alignment explanation
Indices: 263480--263508 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
263470 GTAATCACAA
263480 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
263509 AACGACTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:267312 original size:2 final size:2
Alignment explanation
Indices: 267305--267336 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
267295 TATCTATAAT
*
267305 TC TC TC TC TC TC TC CC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
267337 CCTCCTCCCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
TC
Found at i:267930 original size:3 final size:3
Alignment explanation
Indices: 267922--267947 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
267912 GGAGCTGCTT
267922 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
267948 ATTATTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:271338 original size:19 final size:19
Alignment explanation
Indices: 271314--271353 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
271304 AGTGTCTTAC
271314 AATTCTCACGTTTGGAGTT
1 AATTCTCACGTTTGGAGTT
271333 AATTCTCACGTTTGGAGTT
1 AATTCTCACGTTTGGAGTT
271352 AA
1 AA
271354 ATCATCGCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (19 bp):
AATTCTCACGTTTGGAGTT
Found at i:271702 original size:12 final size:13
Alignment explanation
Indices: 271682--271713 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
271672 AGATAAAATA
271682 TAAAATAATAT-T
1 TAAAATAATATCT
271694 TAAAATAATATCT
1 TAAAATAATATCT
271707 TAAAATA
1 TAAAATA
271714 TGATTGTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAAATAATATCT
Found at i:275098 original size:32 final size:32
Alignment explanation
Indices: 275027--275117 Score: 112
Period size: 32 Copynumber: 2.9 Consensus size: 32
275017 GTTTAAAATG
* * *
275027 AAAAAATTATAAAATAATCATTATA-TGTATC
1 AAAATATTATAAAATAATCATTAAATTTTATC
* *
275058 AAATTATTATAAAATGATCATTAAATTTTATC
1 AAAATATTATAAAATAATCATTAAATTTTATC
* *
275090 AAAATATTACAAAATAATTATTAAATTT
1 AAAATATTATAAAATAATCATTAAATTT
275118 ATGAACTCCA
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 21 0.42
32 29 0.58
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (32 bp):
AAAATATTATAAAATAATCATTAAATTTTATC
Found at i:277167 original size:61 final size:61
Alignment explanation
Indices: 277072--277193 Score: 226
Period size: 61 Copynumber: 2.0 Consensus size: 61
277062 AATTTGATTT
* *
277072 ATTCAGTTTCGTAATTGTTGATATTCGATGTTAGTATCTCAGGTGCAGGCGATGGAATCGC
1 ATTCAGTTTCGTAATTGATGATATTCGATGTTAGTATCTCAGGTGCACGCGATGGAATCGC
277133 ATTCAGTTTCGTAATTGATGATATTCGATGTTAGTATCTCAGGTGCACGCGATGGAATCGC
1 ATTCAGTTTCGTAATTGATGATATTCGATGTTAGTATCTCAGGTGCACGCGATGGAATCGC
277194 CGAACTATGT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (61 bp):
ATTCAGTTTCGTAATTGATGATATTCGATGTTAGTATCTCAGGTGCACGCGATGGAATCGC
Found at i:280176 original size:159 final size:159
Alignment explanation
Indices: 279880--280199 Score: 604
Period size: 159 Copynumber: 2.0 Consensus size: 159
279870 ATTCATATAT
*
279880 ATTTTTAATAAAAGAGTGGGCTTGCATTGGGCCTATCTAAATTAATGTTAATGGACTAGCACTAT
1 ATTTGTAATAAAAGAGTGGGCTTGCATTGGGCCTATCTAAATTAATGTTAATGGACTAGCACTAT
*
279945 TACAAATGGACTTATTTTTGGATTTTATTATTACTTATTTATAATAACAAAATAAATGGGCTATT
66 TACAAATGGACTTATTTTTGGATTTTATTATTACTTATTCATAATAACAAAATAAATGGGCTATT
280010 AACGTGAATTAACCTAACATGCAACTAAA
131 AACGTGAATTAACCTAACATGCAACTAAA
280039 ATTTGTAATAAAAGAGTGGGCTTGCATTGGGCCTATCTAAATTAATGTTAATGGACTAGCACTAT
1 ATTTGTAATAAAAGAGTGGGCTTGCATTGGGCCTATCTAAATTAATGTTAATGGACTAGCACTAT
*
280104 TACAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCATAATAACAAAATAAATGGGCTATT
66 TACAAATGGACTTATTTTTGGATTTTATTATTACTTATTCATAATAACAAAATAAATGGGCTATT
*
280169 AATGTGAATTAACCTAACATGCAACTAAA
131 AACGTGAATTAACCTAACATGCAACTAAA
280198 AT
1 AT
280200 ACTAATTATG
Statistics
Matches: 157, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
159 157 1.00
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (159 bp):
ATTTGTAATAAAAGAGTGGGCTTGCATTGGGCCTATCTAAATTAATGTTAATGGACTAGCACTAT
TACAAATGGACTTATTTTTGGATTTTATTATTACTTATTCATAATAACAAAATAAATGGGCTATT
AACGTGAATTAACCTAACATGCAACTAAA
Found at i:280388 original size:18 final size:17
Alignment explanation
Indices: 280365--280418 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 17
280355 AATATGTATG
*
280365 TATAAACCATGTATAGTA
1 TATAAACCATATATA-TA
*
280383 TATAAACTATATATATA
1 TATAAACCATATATATA
* *
280400 TATATA-TATATATATA
1 TATAAACCATATATATA
280416 TAT
1 TAT
280419 TATAAATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
16 13 0.39
17 7 0.21
18 13 0.39
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.43
Consensus pattern (17 bp):
TATAAACCATATATATA
Found at i:280437 original size:2 final size:2
Alignment explanation
Indices: 280376--280428 Score: 63
Period size: 2 Copynumber: 26.0 Consensus size: 2
280366 ATAAACCATG
*
280376 TA TA GTA TA TA AA CTA TA TA TA TA TA TA TA TA TA TA TA TA TA T-
1 TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
280419 TA TA AA TA TA
1 TA TA TA TA TA
280429 AACTATATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
1 1 0.02
2 40 0.91
3 3 0.07
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (2 bp):
TA
Found at i:280527 original size:49 final size:50
Alignment explanation
Indices: 280421--280529 Score: 136
Period size: 49 Copynumber: 2.2 Consensus size: 50
280411 ATATATATTA
* **
280421 TAAAT-ATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACAC
1 TAAATCATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACAC
* *
280470 TATA-CATAAACTATATAAAGT-AGTAAAATATATAGTTTATAGAAAC-C
1 TAAATCATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACAC
280517 TTAAATCATAAAC
1 -TAAATCATAAAC
280530 CACAAACACT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
47 1 0.02
48 24 0.47
49 26 0.51
ACGTcount: A:0.51, C:0.09, G:0.06, T:0.33
Consensus pattern (50 bp):
TAAATCATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACAC
Found at i:280536 original size:21 final size:21
Alignment explanation
Indices: 280524--280563 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
280514 ACCTTAAATC
280524 ATAAACCACAAACACTAAACT
1 ATAAACCACAAACACTAAACT
*
280545 TTAAACCACAAACACTAAA
1 ATAAACCACAAACACTAAA
280564 TACTAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.57, C:0.28, G:0.00, T:0.15
Consensus pattern (21 bp):
ATAAACCACAAACACTAAACT
Found at i:280974 original size:15 final size:15
Alignment explanation
Indices: 280949--280985 Score: 65
Period size: 15 Copynumber: 2.4 Consensus size: 15
280939 ATAAACCATG
280949 TATAGTATATATAAAC
1 TATA-TATATATAAAC
280965 TATATATATATAAAC
1 TATATATATATAAAC
280980 TATATA
1 TATATA
280986 AAGTAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (15 bp):
TATATATATATAAAC
Found at i:281070 original size:7 final size:7
Alignment explanation
Indices: 281060--281089 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
281050 TAATTTATAA
281060 AAACCCT
1 AAACCCT
281067 AAACCCT
1 AAACCCT
*
281074 AAACCAT
1 AAACCCT
281081 AAACCCT
1 AAACCCT
281088 AA
1 AA
281090 TTCTAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.50, C:0.37, G:0.00, T:0.13
Consensus pattern (7 bp):
AAACCCT
Found at i:281083 original size:14 final size:14
Alignment explanation
Indices: 281060--281112 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 14
281050 TAATTTATAA
*
281060 AAACCCTAAACCCT
1 AAACCATAAACCCT
281074 AAACCATAAACCCT
1 AAACCATAAACCCT
** **
281088 AATTC-TAAACTTT
1 AAACCATAAACCCT
281101 AAACCATAAACC
1 AAACCATAAACC
281113 ATAATTTAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
13 9 0.30
14 21 0.70
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (14 bp):
AAACCATAAACCCT
Found at i:281448 original size:533 final size:536
Alignment explanation
Indices: 280402--282192 Score: 2840
Period size: 560 Copynumber: 3.3 Consensus size: 536
280392 TATATATATA
* *
280402 TATA-TATATATATA-TATTATAAATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGA
1 TATAGTATATATAAACTA-TATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGA
* * * * * * *
280465 AACACTATACATAAACTATATAAAGTAGTAAAATATATAGTTTATAGAAACCTTAAATCATAAAC
65 AACACTATGCATAAACTATATAAAGTAATAAAATATATAATTTATAAAAACCCTAAACCCTAAAC
* * * * * * *
280530 CACAAACACTAAACTTTAAACCACAAACACTAAATACTAAATCATAAACCCTAATATAAATATAC
130 CATAAACCCT-AA--TT------CTAA-ACT--ATA-TAAACCATAAACCATAATTTAAATAGAC
* * * *
280595 TAGCACTAATGCATATATATTTGTAATAAATGAGTGGACTTGCACTAGGTCTATGTAAACTAATG
182 TAGCACTAATGCATATATATTTGTAATAAAAGAGTGGACTTGCATTGGGCCTATGTAAACTAATG
*
280660 TTAATGGACTAGCACTATTACAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCATAACAA
247 TTAATGGACTAGCACTATTGCAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCATAACAA
280725 CAAAATAAATGAGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATTATGCAATTT
312 CAAAATAAATGAGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATTATGCAATTT
280790 AAATTAATATGACATGTACTACTATTTATGAACCATA-AATATGCAATGTGACATACTAATTATT
377 AAATTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATT
*
280854 TAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATGTTATTAAATA
442 TAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAAATA
280919 ATTTTATATAATATGTATGTATAAACCATG
507 ATTTTATATAATATGTATGTATAAACCATG
280949 TATAGTATATATAAACTATATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAA
1 TATAGTATATATAAACTATATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAA
*
281014 ATACTATGCATAAACTATATAAAGTAATAAAATATATAATTTATAAAAACCCTAAACCCTAAACC
66 ACACTATGCATAAACTATATAAAGTAATAAAATATATAATTTATAAAAACCCTAAACCCTAAACC
*
281079 ATAAACCCTAATTCTAAACT-T-TAAACCATAAACCATAATTTAAATGGACTAGCACTAATGCAT
131 ATAAACCCTAATTCTAAACTATATAAACCATAAACCATAATTTAAATAGACTAGCACTAATGCAT
*
281142 ATATATTTGTAATAAAAGAGTGGGCTTGCATTGGGCCTATGTAAACTAATGTTAATGGACTAGCA
196 ATATATTTGTAATAAAAGAGTGGACTTGCATTGGGCCTATGTAAACTAATGTTAATGGACTAGCA
* *
281207 CTATTGCAAATGGACTTATTTTTTGGTTTTATTATTAATTATTCATAACAACAAAATAAATGAGC
261 CTATTGCAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCATAACAACAAAATAAATGAGC
*
281272 TATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATTATGCAATTTAAATTAATATGACA
326 CATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATTATGCAATTTAAATTAATATGACA
281337 TGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACACCTAATTAA
391 TGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACACCTAATTAA
*
281402 TCATGCTTTATATAATTTACATTTAAATAATTTT-TTAATTTTATTAAATAA-TTTATATAATAT
456 TCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAAATAATTTTATATAATAT
281465 GTATGTATAAACCATG
521 GTATGTATAAACCATG
*
281481 TATAGTATATATAAACTCTATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAA
1 TATAGTATATATAAACTATATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAA
* * * * *
281546 ACACTATGCATAAACTCTATAAAGTAATAAAATATATAGTTTATAGAAACCCTAAATCCTAAATC
66 ACACTATGCATAAACTATATAAAGTAATAAAATATATAATTTATAAAAACCCTAAACCCTAAACC
*
281611 GTAAACCCTAATTCTAAACTTTAAACCATAAACACTAAACCATAAACACTAAACCATAAACCCTA
131 ATAAACCCTAATTCTAAAC--T-----AT----A-TAAA-C-----CA-TAAACC----A---TA
281676 ATTTAAATAGACTAGCACTAATGCATATATATTTGTAATAAAAGAGTGGACTTGCATTGGGCCTA
170 ATTTAAATAGACTAGCACTAATGCATATATATTTGTAATAAAAGAGTGGACTTGCATTGGGCCTA
*
281741 TGTAAACTAGTGTTAATGGACTAGCACTATTGCAAATGGACTTATTTTTGGGTTTTATTATTACT
235 TGTAAACTAATGTTAATGGACTAGCACTATTGCAAATGGACTTATTTTTGGGTTTTATTATTACT
281806 TATTCATAACAACAAAATAAATGAGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACAA
300 TATTCATAACAACAAAATAAATGAGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACAA
281871 ATTATGCAATTTAAATTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGAC
365 ATTATGCAATTTAAATTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGAC
281936 ATACTAATTATTTAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAA
430 ATACTAATTATTTAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAA
282001 TTTTATTAAATAATTTTATATAATATGTATGTATAAACCATG
495 TTTTATTAAATAATTTTATATAATATGTATGTATAAACCATG
282043 TATAGTATATATAAACTATATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAA
1 TATAGTATATATAAACTATATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAA
282108 ACACTATGCATAAACTATATAAAGTAATAAAATATATAATTTATAAAAACCCTAAACCCTAAACC
66 ACACTATGCATAAACTATATAAAGTAATAAAATATATAATTTATAAAAACCCTAAACCCTAAACC
282173 ATAAACCCTAATTCTAAACT
131 ATAAACCCTAATTCTAAACT
282193 TTAAACAGGT
Statistics
Matches: 1160, Mismatches: 51, Indels: 53
0.92 0.04 0.04
Matches are distributed among these distances:
532 169 0.15
533 262 0.23
534 75 0.06
535 1 0.00
538 3 0.00
539 3 0.00
540 1 0.00
545 2 0.00
546 4 0.00
547 7 0.01
548 119 0.10
549 2 0.00
552 2 0.00
553 6 0.01
557 1 0.00
560 316 0.27
561 17 0.01
562 170 0.15
ACGTcount: A:0.44, C:0.13, G:0.08, T:0.36
Consensus pattern (536 bp):
TATAGTATATATAAACTATATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAA
ACACTATGCATAAACTATATAAAGTAATAAAATATATAATTTATAAAAACCCTAAACCCTAAACC
ATAAACCCTAATTCTAAACTATATAAACCATAAACCATAATTTAAATAGACTAGCACTAATGCAT
ATATATTTGTAATAAAAGAGTGGACTTGCATTGGGCCTATGTAAACTAATGTTAATGGACTAGCA
CTATTGCAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCATAACAACAAAATAAATGAGC
CATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATTATGCAATTTAAATTAATATGACA
TGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACACCTAATTAA
TCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAAATAATTTTATATAATAT
GTATGTATAAACCATG
Found at i:281506 original size:15 final size:15
Alignment explanation
Indices: 281481--281517 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
281471 ATAAACCATG
281481 TATAGTATATATAAAC
1 TATA-TATATATAAAC
*
281497 TCTATATATATAAAC
1 TATATATATATAAAC
281512 TATATA
1 TATATA
281518 AAGTAAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
15 16 0.84
16 3 0.16
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (15 bp):
TATATATATATAAAC
Found at i:281620 original size:14 final size:14
Alignment explanation
Indices: 281592--281676 Score: 73
Period size: 14 Copynumber: 6.1 Consensus size: 14
281582 TAGTTTATAG
* *
281592 AAACCCTAAATCCT
1 AAACCATAAACCCT
* *
281606 AAATCGTAAACCCT
1 AAACCATAAACCCT
** **
281620 AATTC-TAAACTTT
1 AAACCATAAACCCT
*
281633 AAACCATAAACACT
1 AAACCATAAACCCT
*
281647 AAACCATAAACACT
1 AAACCATAAACCCT
281661 AAACCATAAACCCT
1 AAACCATAAACCCT
281675 AA
1 AA
281677 TTTAAATAGA
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
13 9 0.15
14 50 0.85
ACGTcount: A:0.49, C:0.28, G:0.01, T:0.21
Consensus pattern (14 bp):
AAACCATAAACCCT
Found at i:281642 original size:7 final size:7
Alignment explanation
Indices: 281632--281672 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
281622 TTCTAAACTT
281632 TAAACCA
1 TAAACCA
281639 TAAA-CA
1 TAAACCA
281645 CTAAACCA
1 -TAAACCA
281653 TAAA-CA
1 TAAACCA
281659 CTAAACCA
1 -TAAACCA
281667 TAAACC
1 TAAACC
281673 CTAATTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
6 4 0.13
7 22 0.73
8 4 0.13
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAACCA
Found at i:282068 original size:15 final size:15
Alignment explanation
Indices: 282043--282079 Score: 65
Period size: 15 Copynumber: 2.4 Consensus size: 15
282033 ATAAACCATG
282043 TATAGTATATATAAAC
1 TATA-TATATATAAAC
282059 TATATATATATAAAC
1 TATATATATATAAAC
282074 TATATA
1 TATATA
282080 AAGTAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (15 bp):
TATATATATATAAAC
Found at i:282164 original size:7 final size:7
Alignment explanation
Indices: 282154--282183 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
282144 TAATTTATAA
282154 AAACCCT
1 AAACCCT
282161 AAACCCT
1 AAACCCT
*
282168 AAACCAT
1 AAACCCT
282175 AAACCCT
1 AAACCCT
282182 AA
1 AA
282184 TTCTAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.50, C:0.37, G:0.00, T:0.13
Consensus pattern (7 bp):
AAACCCT
Found at i:282171 original size:49 final size:49
Alignment explanation
Indices: 282068--282171 Score: 111
Period size: 49 Copynumber: 2.1 Consensus size: 49
282058 CTATATATAT
* ** * * **
282068 ATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTATGC
1 ATAAACTATATAAAGTAAATAAAATATATAATTTATAAAAACACTAACC
*
282117 ATAAACTATATAAAGT-AATAAAATATATAATTTATAAAAACCCTAAACC
1 ATAAACTATATAAAGTAAATAAAATATATAATTTATAAAAACACT-AACC
*
282166 CTAAAC
1 ATAAAC
282172 CATAAACCCT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
48 22 0.49
49 23 0.51
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.31
Consensus pattern (49 bp):
ATAAACTATATAAAGTAAATAAAATATATAATTTATAAAAACACTAACC
Found at i:282216 original size:16 final size:16
Alignment explanation
Indices: 282195--282235 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
282185 TCTAAACTTT
282195 AAACAGGTCAGGTTGA
1 AAACAGGTCAGGTTGA
282211 AAACAGGTCAGGTTGA
1 AAACAGGTCAGGTTGA
282227 AAACAGGTC
1 AAACAGGTC
282236 GGGTAATACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.39, C:0.15, G:0.29, T:0.17
Consensus pattern (16 bp):
AAACAGGTCAGGTTGA
Found at i:282359 original size:64 final size:64
Alignment explanation
Indices: 282286--282406 Score: 149
Period size: 64 Copynumber: 1.9 Consensus size: 64
282276 TTTCATATCA
* * * *
282286 GTCGGATGCAGTTCGGGTTCGGAT-ATCATATTTTC-GGTTC-AATTCGGGTTCAGGTCGTTCTC
1 GTCGCATGCAGGTCGAGTTCGGATCA-CA-ATTTTCAGG-TCAAACTCGGGTTCAGGTCGTTCTC
282348 AG
63 AG
282350 GTCGCATGCAGGTCGAGTTCGGATCCACAATTTTCAGGTCAAACTCGGGTTCAGGTC
1 GTCGCATGCAGGTCGAGTTCGGAT-CACAATTTTCAGGTCAAACTCGGGTTCAGGTC
282407 AACACCAGTT
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
64 29 0.59
65 19 0.39
66 1 0.02
ACGTcount: A:0.18, C:0.21, G:0.29, T:0.31
Consensus pattern (64 bp):
GTCGCATGCAGGTCGAGTTCGGATCACAATTTTCAGGTCAAACTCGGGTTCAGGTCGTTCTCAG
Found at i:286864 original size:17 final size:18
Alignment explanation
Indices: 286824--286864 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
286814 ATTATACTAG
*
286824 AAAT-TATTTATATGAAT
1 AAATATATTTATATAAAT
*
286841 TAATATATTTATA-AAAT
1 AAATATATTTATATAAAT
286858 AAATATA
1 AAATATA
286865 ATTAATTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
AAATATATTTATATAAAT
Found at i:303165 original size:11 final size:11
Alignment explanation
Indices: 303149--303173 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
303139 TGAATTTTTG
303149 ATATTATTAAA
1 ATATTATTAAA
303160 ATATTATTAAA
1 ATATTATTAAA
303171 ATA
1 ATA
303174 AAAAAATAAA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
ATATTATTAAA
Found at i:304182 original size:17 final size:17
Alignment explanation
Indices: 304146--304180 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
304136 TATTTTGTAC
304146 TTAATATATTTAAGTAT
1 TTAATATATTTAAGTAT
*
304163 TTAATTTATTTAA-TAT
1 TTAATATATTTAAGTAT
304179 TT
1 TT
304181 TACTTATATA
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:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (17 bp):
TTAATATATTTAAGTAT
Found at i:304192 original size:25 final size:26
Alignment explanation
Indices: 304146--304194 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
304136 TATTTTGTAC
*
304146 TTAATATATTTAAGTATTTAATTTAT
1 TTAATATATTTAAGTATATAATTTAT
**
304172 TTAATAT-TTTACTTATATAATTT
1 TTAATATATTTAAGTATATAATTT
304195 TTTTGCAGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 13 0.65
26 7 0.35
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (26 bp):
TTAATATATTTAAGTATATAATTTAT
Found at i:308716 original size:17 final size:18
Alignment explanation
Indices: 308681--308724 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
308671 TGTCCTGAAA
308681 ATTTTAAA-TTCTTATAT
1 ATTTTAAATTTCTTATAT
*
308698 ATTTTAAATTTTTTA-AT
1 ATTTTAAATTTCTTATAT
*
308715 ATTTTCAATT
1 ATTTTAAATT
308725 AAAAAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 19 0.79
18 5 0.21
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTTAAATTTCTTATAT
Found at i:309295 original size:39 final size:37
Alignment explanation
Indices: 309263--309345 Score: 102
Period size: 35 Copynumber: 2.3 Consensus size: 37
309253 TTTAAAATGT
309263 TTTTGAAAACTTATAT-ACAATATATAAGTTTTAAAACA
1 TTTTGAAAA-TTATATAAC-ATATATAAGTTTTAAAACA
*
309301 TTTTGAAAATTATATAACATATAT---TTTTGAAATCA
1 TTTTGAAAATTATATAACATATATAAGTTTT-AAAACA
309336 TTTTGAAAAT
1 TTTTGAAAAT
309346 ATAATGTATA
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
34 4 0.10
35 15 0.36
37 12 0.29
38 11 0.26
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (37 bp):
TTTTGAAAATTATATAACATATATAAGTTTTAAAACA
Found at i:309400 original size:35 final size:34
Alignment explanation
Indices: 309282--309482 Score: 143
Period size: 34 Copynumber: 6.1 Consensus size: 34
309272 CTTATATACA
*
309282 ATATATA-AGTTTT-AAAACATTTTGAAAATTAT
1 ATATATATAGTTTTAAAAACATTTTGAAAAATAT
* * * *
309314 ATAACATATATTTTTGAAATCATTTTG-AAAATAT
1 AT-ATATATAGTTTTAAAAACATTTTGAAAAATAT
* *
309348 A-ATGTATAGTTTAAAAAAACATTTTGAAAAATAT
1 ATATATATAGTTT-TAAAAACATTTTGAAAAATAT
* * *
309382 ATATATATAGTTTTAAAAATATTTTGGAAAA-CT
1 ATATATATAGTTTTAAAAACATTTTGAAAAATAT
* *
309415 -TATATAT--TTTTAAAATCATTTTTGAAAATTAT
1 ATATATATAGTTTTAAAAACA-TTTTGAAAAATAT
* * * * *
309447 ATGGTAT-TAG-TTTGAAAACGTTTTTAAATATAT
1 AT-ATATATAGTTTTAAAAACATTTTGAAAAATAT
309480 ATA
1 ATA
309483 GTTTAAAAAA
Statistics
Matches: 129, Mismatches: 28, Indels: 24
0.71 0.15 0.13
Matches are distributed among these distances:
30 9 0.07
31 8 0.06
32 18 0.14
33 29 0.22
34 45 0.35
35 20 0.16
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.44
Consensus pattern (34 bp):
ATATATATAGTTTTAAAAACATTTTGAAAAATAT
Found at i:309446 original size:29 final size:30
Alignment explanation
Indices: 309385--309448 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
309375 AAAATATATA
309385 TATATAGTTTTAAAAATATTTTGGAAAACT
1 TATATAGTTTTAAAAATATTTTGGAAAACT
* *
309415 TATATA-TTTTTAAAATCATTTTTGAAAA-T
1 TATATAGTTTTAAAAAT-ATTTTGGAAAACT
309444 TATAT
1 TATAT
309449 GGTATTAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
29 15 0.48
30 16 0.52
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.48
Consensus pattern (30 bp):
TATATAGTTTTAAAAATATTTTGGAAAACT
Found at i:309544 original size:15 final size:15
Alignment explanation
Indices: 309524--309553 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
309514 ATAGTCTATA
309524 TTATTATTAGTATTT
1 TTATTATTAGTATTT
*
309539 TTATTATTATTATTT
1 TTATTATTAGTATTT
309554 CTTTTCATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (15 bp):
TTATTATTAGTATTT
Found at i:309558 original size:18 final size:17
Alignment explanation
Indices: 309522--309572 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 17
309512 ATATAGTCTA
*
309522 TATTATTATTAGTATTTT
1 TATTATTATTA-TTTTTT
309540 TATTATTATTATTTCTTT
1 TATTATTATTATTT-TTT
309558 TCATT-TTATTCATTT
1 T-ATTATTATT-ATTT
309573 AATTTCATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 2 0.07
18 20 0.69
19 7 0.24
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.69
Consensus pattern (17 bp):
TATTATTATTATTTTTT
Found at i:312553 original size:18 final size:18
Alignment explanation
Indices: 312520--312562 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
312510 TATTAGACAT
312520 TTTGCA-TTTCTTATTTC
1 TTTGCATTTTCTTATTTC
*
312537 TTTGCATTTTGTTATTTC
1 TTTGCATTTTCTTATTTC
312555 TTTGCATT
1 TTTGCATT
312563 CACATTAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.12, C:0.14, G:0.09, T:0.65
Consensus pattern (18 bp):
TTTGCATTTTCTTATTTC
Found at i:316314 original size:85 final size:85
Alignment explanation
Indices: 316171--316745 Score: 681
Period size: 84 Copynumber: 6.9 Consensus size: 85
316161 GGGCTATGCC
*
316171 AAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTA
1 AAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTA
*
316236 GGAGGGTTATCTGTGACCAA
66 GAAGGGTTATCTGTGACCAA
*
316256 AAGACCGTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTA
1 AAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTA
*
316321 GAAGGGTTATCTGTAACCAA
66 GAAGGGTTATCTGTGACCAA
* * * * * * * * * *
316341 AAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGA
1 AAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTA
*
316405 GAAGGGCTATC--TG-CC-A
66 GAAGGGTTATCTGTGACCAA
*
316421 AAGACCCCCGAGTTCGATTACA-TCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTA
1 AAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTA
*
316485 GGAGGGTTATCTGTGACCAA
66 GAAGGGTTATCTGTGACCAA
* * * * * * * * * *
316505 AAGACCGTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGA
1 AAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTA
*
316569 GAAGGGCTATC--TG-CC-A
66 GAAGGGTTATCTGTGACCAA
*
316585 AAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTA
1 AAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTA
*
316650 GGAGGG-TATCTGTGACCAA
66 GAAGGGTTATCTGTGACCAA
* * * * * * * * * * *
316669 AAGACCTTCGAGTTCGACTCCGCTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGA
1 AAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTA
*
316733 GAAGGGCTATCTG
66 GAAGGGTTATCTG
316746 CTAAAGACCT
Statistics
Matches: 411, Mismatches: 67, Indels: 25
0.82 0.13 0.05
Matches are distributed among these distances:
79 5 0.01
80 86 0.21
81 38 0.09
82 7 0.02
83 38 0.09
84 126 0.31
85 111 0.27
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (85 bp):
AAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTA
GAAGGGTTATCTGTGACCAA
Found at i:316324 original size:247 final size:249
Alignment explanation
Indices: 315888--316638 Score: 1033
Period size: 247 Copynumber: 3.0 Consensus size: 249
315878 TAAACAAACT
* * * * ** * * *
315888 ATTTGCAGCTTAGCTCAAGGCCAGAAGGGCTACCTGCCACTAAGACCTTCGGGTTCGACTACGCT
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTA-CTGCCA--AAGACCCCCGAGTTCGATTACACT
* * * * * * * * *
315953 CAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC--TG-CC-AAAGA
63 CAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGGAGGGTTATCTGTGACCAAAAGA
**
316013 CCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAG
128 CCGTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAG
316078 GGTTATCTGTAACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
193 GGTTATCTGTAACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
316135 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTA-TGCC-AAGACCCCCGAGTTCGATTACACTCAG
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTACTGCCAAAGACCCCCGAGTTCGATTACACTCAG
316198 CTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGGAGGGTTATCTGTGACCAAAAGACCG
66 CTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGGAGGGTTATCTGTGACCAAAAGACCG
316263 TCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGT
131 TCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGT
316328 TATCTGTAACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
196 TATCTGTAACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
316382 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACA-TCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTA-CTGCCAAAGACCCCCGAGTTCGATTACACTCA
316446 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGGAGGGTTATCTGTGACCAAAAGACC
65 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGGAGGGTTATCTGTGACCAAAAGACC
* * * * * * * * *
316511 GTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGG
130 GTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGG
* ** * * * *
316575 CTATCTG---CC-AAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
195 TTATCTGTAACCAAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATC
*
316627 ATTTACAGCATA
1 ATTTGCAGCATA
316639 ACTCAAGGCT
Statistics
Matches: 458, Mismatches: 37, Indels: 20
0.89 0.07 0.04
Matches are distributed among these distances:
242 23 0.05
243 38 0.08
244 25 0.05
245 30 0.07
246 2 0.00
247 185 0.40
248 41 0.09
249 92 0.20
250 22 0.05
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (249 bp):
ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTACTGCCAAAGACCCCCGAGTTCGATTACACTCAG
CTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGGAGGGTTATCTGTGACCAAAAGACCG
TCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGT
TATCTGTAACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
Found at i:316464 original size:164 final size:163
Alignment explanation
Indices: 315888--316768 Score: 951
Period size: 164 Copynumber: 5.4 Consensus size: 163
315878 TAAACAAACT
* * * * * * *
315888 ATTTGCAGCTTAGCTCAAGGCCAGAAGGGCTACCTGCCACTAAGACCTTCGGGTTCGACTACGCT
1 ATTTGCAGCATAGCTCAAGGCGAGAAGGGCTATCTGCCA--AAGACCTCCGAGTTCGATTAC-AT
* * * * * * *
315953 CAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG--CC-AAAGAC
63 CAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGCTATCTGTACCAAAAGAC
* * * * *
316014 CCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
128 CCTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATC
* * * * * *
316051 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAGCTCAAGGCGAGAAGGGCTATCTG---CC-AAAGACCTCCGAGTTCGATTAC-
* * * * * * * *
316116 CTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTA--TG--CC--AAG
61 ATCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGCTATCTGTACCAAAAG
* * * * *
316174 ACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
126 ACCCTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATC
* * * * *
316213 ATTTACAGCATAACTCAAGGCTAGGAGGGTTATCTGTGACCAAAAGACCGT-CGAGTTCGATTAC
1 ATTTGCAGCATAGCTCAAGGCGAGAAGGGCTATC--TG-CC-AAAGACC-TCCGAGTTCGATTAC
*
316277 ACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAA
61 A-TCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGCTATCTGT-ACCAAA
*
316342 AGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
124 AGACCCTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * *
316382 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACATCAG
1 ATTTGCAGCATAGCTCAAGGCGAGAAGGGCTATCTGCCAAAGACCTCCGAGTTCGATTACATCAG
* * *
316447 CTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGGAGGGTTATCTGTGACCAAAAGACCG
66 CTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGCTATCTGT-ACCAAAAGACCC
316512 TCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
130 TCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * *
316546 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTCAAGGCGAGAAGGGCTATCTGCCAAAGACCTCCGAGTTCGATTACA-TCA
*
316611 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGGAGGG-TATCTGTGACCAAAAGACC
65 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGCTATCTGT-ACCAAAAGACC
* *
316675 TTCGAGTTCGACTCCGCTCAGCTCCAAGGCACATC
129 CTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * *
316710 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCTAAAGACCTCCGAGTTCGATTA
1 ATTTGCAGCATAGCTCAAGGCGAGAAGGGCTATCTGCCAAAGACCTCCGAGTTCGATTA
316769 TATTCAACTT
Statistics
Matches: 661, Mismatches: 39, Indels: 35
0.90 0.05 0.05
Matches are distributed among these distances:
162 103 0.16
163 72 0.11
164 272 0.41
165 143 0.22
166 4 0.01
167 3 0.00
168 2 0.00
169 38 0.06
170 24 0.04
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.22
Consensus pattern (163 bp):
ATTTGCAGCATAGCTCAAGGCGAGAAGGGCTATCTGCCAAAGACCTCCGAGTTCGATTACATCAG
CTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGCTATCTGTACCAAAAGACCCT
CGAGTTCGACTACGCTCAGCTCCAAGGCACATC
Found at i:316862 original size:164 final size:160
Alignment explanation
Indices: 316205--316852 Score: 800
Period size: 164 Copynumber: 3.9 Consensus size: 160
316195 CAGCTTCGAG
* * * * * * * **
316205 GGCACATCATTTACAGCATAACTCAAGGCTAGGAGGGTTATCTGTGACCAAAAGACCGTCGAGTT
1 GGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC--TG-CC-AAAGACCCCCGAGTT
*
316270 CGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGT
62 CGATTACA-TCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGGAGGG-TATCTGT
*
316335 AACCAAAAGACCT-TCGAGTTCGACTACGCTCAGCTCCAA
125 -A-CAAAA-AACTGTCGAGTTCGACT-CGCTCAGCTCCAA
316374 GGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGAT
1 GGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGAT
316439 TACATCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGGAGGGTTATCTGTGACCA
66 TACATCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGGAGGG-TATCTGT-A-CA
* *
316504 AAAGACCGTCGAGTTCGACTACGCTCAGCTCCAA
128 AAAAACTGTCGAGTTCGACT-CGCTCAGCTCCAA
316538 GGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGAT
1 GGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGAT
316603 TACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGGAGGGTATCTGTGACCA
66 TACA-TCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGGAGGGTATCTGT-A-CA
*
316668 AAAGACCT-TCGAGTTCGACTCCGCTCAGCTCCAA
128 AAA-AACTGTCGAGTTCGACT-CGCTCAGCTCCAA
* *
316702 GGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCTAAAGACCTCCGAGTTCGAT
1 GGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGAT
* * * * * ** * * * *
316767 TATATTCAACTTAGA-GGCAAATCAAGCTTACATAATAGCTCAATGCAAGAAGGGCTATCTGT-C
66 TACA-TCAGCTTCGAGGGCACATC-A-TTTACAGCATAACTCAAGGCTAGGAGGG-TATCTGTAC
*
316830 AATAAAACTGTCGAGTTTGACTC
127 AA-AAAACTGTCGAGTTCGACTC
316853 TATTCAGCTC
Statistics
Matches: 437, Mismatches: 34, Indels: 22
0.89 0.07 0.04
Matches are distributed among these distances:
163 15 0.03
164 285 0.65
165 91 0.21
166 9 0.02
167 2 0.00
169 35 0.08
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (160 bp):
GGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGAT
TACATCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGGAGGGTATCTGTACAAAA
AACTGTCGAGTTCGACTCGCTCAGCTCCAA
Found at i:316862 original size:328 final size:330
Alignment explanation
Indices: 316179--316851 Score: 935
Period size: 328 Copynumber: 2.0 Consensus size: 330
316169 CCAAGACCCC
* * * * * *
316179 CGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGGAGGGTT
1 CGAGTTCGACTACACTCAGC-TCCAAGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGCT
**
316244 ATCTGTGACCAAAAGACCGTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCAT
65 ATC-GTGACCAAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCAT
316309 AACTCAAGGCTAGAAGGGTTATCTGTAACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA
129 AACTCAAGGCTAGAAGGGTTATCTGTAACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA
316374 GGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGAT
194 GGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGAT
* * * * * * * *
316439 TACATCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGGAGGGTTATCTGTGACCA
259 TACATCAACTTAGAGGGCAAATCACTTACAGAATAACTCAAGGCAAGAAGGGCTATCTGT-A-CA
*
316504 AAAGACCGT
322 AAAAACCGT
* * * * *
316513 CGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTA
1 CGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGCTA
316578 TC-TG-CC-AAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAA
66 TCGTGACCAAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAA
* * *
316640 CTCAAGGCTAGGAGGG-TATCTGTGACCAAAAGACCTTCGAGTTCGACTCCGCTCAGCTCCAAGG
131 CTCAAGGCTAGAAGGGTTATCTGTAACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
* *
316704 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCTAAAGACCTCCGAGTTCGATTA
196 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTA
* * * *
316769 TATTCAACTTAGA-GGCAAATCAAGCTTACATAATAGCTCAATGCAAGAAGGGCTATCTGT-CAA
261 CA-TCAACTTAGAGGGCAAATC-A-CTTACAGAATAACTCAAGGCAAGAAGGGCTATCTGTACAA
*
316832 TAAAACTGT
323 -AAAACCGT
*
316841 CGAGTTTGACT
1 CGAGTTCGACT
316852 CTATTCAGCT
Statistics
Matches: 302, Mismatches: 33, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
327 3 0.01
328 133 0.44
329 78 0.26
330 30 0.10
331 2 0.01
333 38 0.13
334 18 0.06
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (330 bp):
CGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGCTA
TCGTGACCAAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAA
CTCAAGGCTAGAAGGGTTATCTGTAACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTA
CATCAACTTAGAGGGCAAATCACTTACAGAATAACTCAAGGCAAGAAGGGCTATCTGTACAAAAA
ACCGT
Found at i:317659 original size:28 final size:28
Alignment explanation
Indices: 317621--317680 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
317611 ATTTATATAA
*
317621 TATATAGTTTTAAAA-ATTTTGGAAAACT
1 TATATAATTTTAAAACATTTTGGAAAA-T
*
317649 TATATAATTTTAAAATCATTTTTGAAAAT
1 TATATAATTTTAAAA-CATTTTGGAAAAT
317678 TAT
1 TAT
317681 GGTATATAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 14 0.50
29 4 0.14
30 10 0.36
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (28 bp):
TATATAATTTTAAAACATTTTGGAAAAT
Found at i:317749 original size:131 final size:132
Alignment explanation
Indices: 317517--317755 Score: 283
Period size: 131 Copynumber: 1.8 Consensus size: 132
317507 TTATATACAA
* *
317517 TATATAAGTTTTAAAACATTTTGAAAATATATAACATATTTTTGAAATCATTTTGAAAATATAAT
1 TATATAAGTTTTAAAACATTTTGAAAATATATAACATAGTTTTGAAAACATTTTGAAAATATAAT
*
317582 GTATAGTTAAAAAAAAACATTTTTGAAAAATTTATATAATATATAGTTTTAAAAATTTTGGAAAA
66 GTATAGTTAAAAAAAAACATTTTTGAAAAATATATATAATATATAGTTTTAAAAATTTTGGAAAA
317647 CT
131 CT
* * * *
317649 TATATAA-TTTTAAAATCATTTTTGAAAAT-TATGGTATATAGTTTTGAAAACGTTTT-TAAATA
1 TATATAAGTTTTAAAA-CA-TTTTGAAAATATAT--AACATAGTTTTGAAAACATTTTGAAAATA
* * * * *
317711 -AAT-TATAGTT-TAAAAAAATATCTTTTGAGATATATATATTATATA
62 TAATGTATAGTTAAAAAAAAACAT-TTTTGAAAAATATATATAATATA
317756 GTCTATATTA
Statistics
Matches: 90, Mismatches: 12, Indels: 11
0.80 0.11 0.10
Matches are distributed among these distances:
130 9 0.10
131 34 0.38
132 15 0.17
133 15 0.17
134 17 0.19
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (132 bp):
TATATAAGTTTTAAAACATTTTGAAAATATATAACATAGTTTTGAAAACATTTTGAAAATATAAT
GTATAGTTAAAAAAAAACATTTTTGAAAAATATATATAATATATAGTTTTAAAAATTTTGGAAAA
CT
Found at i:317783 original size:15 final size:15
Alignment explanation
Indices: 317763--317792 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
317753 ATAGTCTATA
317763 TTATTATTAGTATTT
1 TTATTATTAGTATTT
*
317778 TTATTATTATTATTT
1 TTATTATTAGTATTT
317793 CTTTTCATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (15 bp):
TTATTATTAGTATTT
Found at i:317797 original size:18 final size:17
Alignment explanation
Indices: 317761--317811 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 17
317751 ATATAGTCTA
*
317761 TATTATTATTAGTATTTT
1 TATTATTATTA-TTTTTT
317779 TATTATTATTATTTCTTT
1 TATTATTATTATTT-TTT
317797 TCATT-TTATTCATTT
1 T-ATTATTATT-ATTT
317812 AATTTCATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 2 0.07
18 20 0.69
19 7 0.24
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.69
Consensus pattern (17 bp):
TATTATTATTATTTTTT
Found at i:319476 original size:15 final size:17
Alignment explanation
Indices: 319445--319476 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
319435 ATGTATTTTT
319445 ATCTATCTTGTAATTTA
1 ATCTATCTTGTAATTTA
319462 ATCTA-CTTG-AATTTA
1 ATCTATCTTGTAATTTA
319477 TTATATTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.50
Consensus pattern (17 bp):
ATCTATCTTGTAATTTA
Found at i:326520 original size:29 final size:29
Alignment explanation
Indices: 326486--326543 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
326476 AACATGGTAA
326486 ACATTTGGTATTCTTTGTTTTAGGTTTTC
1 ACATTTGGTATTCTTTGTTTTAGGTTTTC
326515 ACATTTGGTATTCTTTGTTTTAGGTTTTC
1 ACATTTGGTATTCTTTGTTTTAGGTTTTC
326544 CTTGGTCATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.14, C:0.10, G:0.17, T:0.59
Consensus pattern (29 bp):
ACATTTGGTATTCTTTGTTTTAGGTTTTC
Found at i:328583 original size:2 final size:2
Alignment explanation
Indices: 328578--328607 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
328568 ATTTCTCTTT
328578 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
328608 AGTAATGGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:333836 original size:120 final size:120
Alignment explanation
Indices: 333669--334499 Score: 935
Period size: 120 Copynumber: 7.0 Consensus size: 120
333659 ATTCAAGTGA
* * *
333669 TCCCAGAAAACTACCTCCTGAACTGGTTCAACAGCAGTT-TGGTTGGTATCTTCTAAGTGCATTA
1 TCCCAGAAAACTACCTCCTGAACTGGTTCAGCAGCAGTTAT-GTTGGTATCTTCTAAGTGCACTG
* * *
333733 AACTCTTACCCTCTTGAGTAAGACTTGTGTCCTCTTTAACTTCCATTTTGTCACTT
65 AACTCTGATCCTCTTGAGCAAGACTTGTGTCCTCTTTAACTTCCATTTTGTCACTT
* * * * * * * * * *
333789 TTCCAGAAAACAATCTCCTGAACTGCTCCAGCAGCATTTATGTTGGTATCTTCTGACTGTATTGA
1 TCCCAGAAAACTACCTCCTGAACTGGTTCAGCAGCAGTTATGTTGGTATCTTCTAAGTGCACTGA
* * *
333854 ACTCTGATCCTCTTGAGCAAGACTTATGTCCTCATCT-ACTTCAATTTTGTCACTT
66 ACTCTGATCCTCTTGAGCAAGACTTGTGTCCTC-TTTAACTTCCATTTTGTCACTT
* * *
333909 TCCCAGGAAACTACCTCTTGAACTGGTTCAGCAGCAGTTATGTTGGTATCTTCTAAGTGCAATGA
1 TCCCAGAAAACTACCTCCTGAACTGGTTCAGCAGCAGTTATGTTGGTATCTTCTAAGTGCACTGA
* * * *
333974 ACACGGATCCTCTT--G--ATA--TGTGTCCTCTTTAACTTCCATTTTGACACTT
66 ACTCTGATCCTCTTGAGCAAGACTTGTGTCCTCTTTAACTTCCATTTTGTCACTT
* * ** * * * *
334023 TCCCTGGAAACTGTCTCCTGAACTGGTTCAGCGGCAGTTATGTTGGTATGTTCTAATTGCAGTGA
1 TCCCAGAAAACTACCTCCTGAACTGGTTCAGCAGCAGTTATGTTGGTATCTTCTAAGTGCACTGA
* * * * *
334088 ACTCTGATCCTCTTGAACAGGACTTGTGTCTTCTTTATCTTCAATTTTGTCACTT
66 ACTCTGATCCTCTTGAGCAAGACTTGTGTCCTCTTTAACTTCCATTTTGTCACTT
* * * * *
334143 TCCCAGATAACTACCTCCTGAACTGGTTCAGCAGCAGTTATGTTAGTATCTTCCAATTGCA-TAT
1 TCCCAGAAAACTACCTCCTGAACTGGTTCAGCAGCAGTTATGTTGGTATCTTCTAAGTGCACT-G
* * * * *
334207 AACTCTGGTCCTCTTTAGCAAGACTCGTGTCCTCATCT-ACTTCAATTTTGTCACTT
65 AACTCTGATCCTCTTGAGCAAGACTTGTGTCCTC-TTTAACTTCCATTTTGTCACTT
* * * *
334263 TCCCAAAAAACTACCTCCTGAATTGGTTCAGCAGCAGTTATGTTGGTATCTTCTGAGTACACTGA
1 TCCCAGAAAACTACCTCCTGAACTGGTTCAGCAGCAGTTATGTTGGTATCTTCTAAGTGCACTGA
* * * *
334328 ACTCTGATCCCCTTGAGGAAGACCTGTGTCCTCTTTAACTTCCGTTTTGTCACTT
66 ACTCTGATCCTCTTGAGCAAGACTTGTGTCCTCTTTAACTTCCATTTTGTCACTT
** * * * **
334383 TCCCAGGTAACTACCTCCTGAACTGGTACAGCAGCAGTTACGTTGGTATCTTCTGAGTAAACTGA
1 TCCCAGAAAACTACCTCCTGAACTGGTTCAGCAGCAGTTATGTTGGTATCTTCTAAGTGCACTGA
* * * * *
334448 ACTCTGATCCTCTCGGGCAAGACCTGTGTTCTCTTTAACTTCCGTTTTGTCA
66 ACTCTGATCCTCTTGAGCAAGACTTGTGTCCTCTTTAACTTCCATTTTGTCA
334500 ACTCTGTAGT
Statistics
Matches: 597, Mismatches: 101, Indels: 26
0.82 0.14 0.04
Matches are distributed among these distances:
113 2 0.00
114 93 0.16
116 2 0.00
118 2 0.00
119 3 0.01
120 489 0.82
121 6 0.01
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (120 bp):
TCCCAGAAAACTACCTCCTGAACTGGTTCAGCAGCAGTTATGTTGGTATCTTCTAAGTGCACTGA
ACTCTGATCCTCTTGAGCAAGACTTGTGTCCTCTTTAACTTCCATTTTGTCACTT
Found at i:336070 original size:14 final size:15
Alignment explanation
Indices: 336051--336084 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
336041 TATTCTCCTC
*
336051 ATTCATTAATACA-G
1 ATTCATGAATACAGG
336065 ATTCATGAATACAGG
1 ATTCATGAATACAGG
336080 ATTCA
1 ATTCA
336085 GTTCCTGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (15 bp):
ATTCATGAATACAGG
Found at i:340316 original size:47 final size:48
Alignment explanation
Indices: 340265--340359 Score: 129
Period size: 49 Copynumber: 2.0 Consensus size: 48
340255 AAAGGGAAAT
* *
340265 CTAACTAGAAATTAGA-TTTTTAATTACAAAGAAAATCAAAGGATAAC
1 CTAACTAGAAATCAGATTTTTTAATTAAAAAGAAAATCAAAGGATAAC
* * *
340312 CTAACTGGGAATCAGATTTTTTTTATTAAAAAGAAAATCAAAGGATAA
1 CTAACTAGAAATCAGA-TTTTTTAATTAAAAAGAAAATCAAAGGATAA
340360 GCTGGCTGGG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
47 13 0.32
49 28 0.68
ACGTcount: A:0.48, C:0.09, G:0.13, T:0.29
Consensus pattern (48 bp):
CTAACTAGAAATCAGATTTTTTAATTAAAAAGAAAATCAAAGGATAAC
Found at i:340353 original size:49 final size:49
Alignment explanation
Indices: 340281--340374 Score: 143
Period size: 49 Copynumber: 1.9 Consensus size: 49
340271 AGAAATTAGA
*
340281 TTTTTAATTACAAAGAAAATCAAAGGATAACCTAACTGGGAATCAGATT
1 TTTTTAATTAAAAAGAAAATCAAAGGATAACCTAACTGGGAATCAGATT
* * **
340330 TTTTTTATTAAAAAGAAAATCAAAGGATAAGCTGGCTGGGAATCA
1 TTTTTAATTAAAAAGAAAATCAAAGGATAACCTAACTGGGAATCA
340375 TAATTTTTGT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.29
Consensus pattern (49 bp):
TTTTTAATTAAAAAGAAAATCAAAGGATAACCTAACTGGGAATCAGATT
Found at i:341191 original size:29 final size:29
Alignment explanation
Indices: 341149--341214 Score: 114
Period size: 29 Copynumber: 2.3 Consensus size: 29
341139 TTATGATAAA
341149 AAATCAATGTGACCATCAAACTTTCAATT
1 AAATCAATGTGACCATCAAACTTTCAATT
*
341178 AAATCAATGTGACCATCGAACTTTCAATT
1 AAATCAATGTGACCATCAAACTTTCAATT
*
341207 GAATCAAT
1 AAATCAAT
341215 CAAACCATCC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (29 bp):
AAATCAATGTGACCATCAAACTTTCAATT
Found at i:341221 original size:29 final size:29
Alignment explanation
Indices: 341160--341254 Score: 109
Period size: 29 Copynumber: 3.2 Consensus size: 29
341150 AATCAATGTG
* * ***
341160 ACCATCAAACTTTCAATTAAATCAATGTG
1 ACCATCGAACTTTCAATTGAATCAATCAA
341189 ACCATCGAACTTTCAATTGAATCAATCAA
1 ACCATCGAACTTTCAATTGAATCAATCAA
* * *
341218 ACCATCCAACTATTTAATTGATTCAATCAA
1 ACCATCGAACT-TTCAATTGAATCAATCAA
341248 ACCATCG
1 ACCATCG
341255 GCCGCTAATT
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
29 34 0.61
30 22 0.39
ACGTcount: A:0.40, C:0.24, G:0.06, T:0.29
Consensus pattern (29 bp):
ACCATCGAACTTTCAATTGAATCAATCAA
Found at i:341920 original size:67 final size:70
Alignment explanation
Indices: 341804--341955 Score: 177
Period size: 67 Copynumber: 2.2 Consensus size: 70
341794 CCGGAATTTG
** **
341804 TTCGGTTCGATTAATAATTTTAAAATAAATTTCGGTTTGATTAGTGGTT-AA-AGAAAAAATT-G
1 TTCGGTTCGATTAATAATTTTAAAATAAATTTCGGTTCAATTAACGGTTAAATAGAAAAAATTCG
341866 GTTAA
66 GTTAA
* ** *
341871 TTCGGTTC-ATTTAATAATTTTTAAATAAATTTTTGTTCAATTAACGGTTAAATATAAAAAATTC
1 TTCGGTTCGA-TTAATAATTTTAAAATAAATTTCGGTTCAATTAACGGTTAAATAGAAAAAATTC
341935 GGTTAA
65 GGTTAA
* *
341941 TTTGGTTCGGTTAAT
1 TTCGGTTCGATTAAT
341956 TGAACTAAAA
Statistics
Matches: 70, Mismatches: 10, Indels: 7
0.80 0.11 0.08
Matches are distributed among these distances:
66 1 0.01
67 40 0.57
68 2 0.03
69 9 0.13
70 18 0.26
ACGTcount: A:0.36, C:0.06, G:0.15, T:0.43
Consensus pattern (70 bp):
TTCGGTTCGATTAATAATTTTAAAATAAATTTCGGTTCAATTAACGGTTAAATAGAAAAAATTCG
GTTAA
Found at i:341996 original size:29 final size:29
Alignment explanation
Indices: 341964--342027 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
341954 ATTGAACTAA
* *
341964 AATTTATTTGGAAATTATTAACCGAACCG
1 AATTAATTTGAAAATTATTAACCGAACCG
**
341993 AATTAATTTGAAAATTATTAATTGAACCG
1 AATTAATTTGAAAATTATTAACCGAACCG
342022 AATTAA
1 AATTAA
342028 CCGATTTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.44, C:0.09, G:0.11, T:0.36
Consensus pattern (29 bp):
AATTAATTTGAAAATTATTAACCGAACCG
Found at i:352473 original size:21 final size:22
Alignment explanation
Indices: 352418--352475 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
352408 TTTCAACTCT
* * *
352418 AAAATAAAATTTTAATGACTTA
1 AAAATATAATTTTAATCACTAA
* *
352440 AACATATATTTTTAATCACTAA
1 AAAATATAATTTTAATCACTAA
352462 AAAAT-TAATTTTAA
1 AAAATATAATTTTAA
352476 GTTTTCATTA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
21 8 0.28
22 21 0.72
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.40
Consensus pattern (22 bp):
AAAATATAATTTTAATCACTAA
Found at i:353480 original size:2 final size:2
Alignment explanation
Indices: 353473--353532 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
353463 CACCAAATGA
353473 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
353515 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
353533 TTAATCAAAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:354059 original size:3 final size:3
Alignment explanation
Indices: 354051--354075 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
354041 TTCACTCTAC
354051 TAG TAG TAG TAG TAG TAG TAG TAG T
1 TAG TAG TAG TAG TAG TAG TAG TAG T
354076 TGTGTAGGAC
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:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (3 bp):
TAG
Found at i:356267 original size:17 final size:16
Alignment explanation
Indices: 356226--356269 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
356216 ATATATTTAT
*
356226 ATATTATATTATATAT
1 ATATTATATTATATAA
*
356242 ATA-TATATTGTATAA
1 ATATTATATTATATAA
356257 ATATTATTATTAT
1 ATATTA-TATTAT
356270 TTTATTAGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 13 0.57
16 5 0.22
17 5 0.22
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
ATATTATATTATATAA
Found at i:357573 original size:13 final size:13
Alignment explanation
Indices: 357539--357585 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
357529 TTTCCTAATA
*
357539 TTTACTTATTTAGT
1 TTTATTTATTTA-T
*
357553 ATTA-TTATTTAT
1 TTTATTTATTTAT
*
357565 TTTATTTATTTGT
1 TTTATTTATTTAT
357578 TTTATTTA
1 TTTATTTA
357586 ATATATGCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
12 4 0.14
13 22 0.76
14 3 0.10
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.70
Consensus pattern (13 bp):
TTTATTTATTTAT
Found at i:357631 original size:2 final size:2
Alignment explanation
Indices: 357626--357656 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
357616 TTTCAACATT
*
357626 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
357657 TTTACATTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:361853 original size:43 final size:43
Alignment explanation
Indices: 361805--361887 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
361795 CGAATGGGCC
* *
361805 ATCCACGATTTCAACTCCACGACGGAGGATATCGTACCCACAG
1 ATCCACGATTTCAACTCCACAACGAAGGATATCGTACCCACAG
* * *
361848 ATCCACGATTTCAACTTCATAACGAAGGATATCGTGCCCA
1 ATCCACGATTTCAACTCCACAACGAAGGATATCGTACCCA
361888 TCTACACAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (43 bp):
ATCCACGATTTCAACTCCACAACGAAGGATATCGTACCCACAG
Found at i:363356 original size:18 final size:18
Alignment explanation
Indices: 363333--363380 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
363323 AACACATATG
363333 TCCCAAAGGACCACTATA
1 TCCCAAAGGACCACTATA
** *
363351 TCCCAAAATACCACTATG
1 TCCCAAAGGACCACTATA
*
363369 TCCCGAAGGACC
1 TCCCAAAGGACC
363381 GCGTAGACTC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.35, C:0.35, G:0.12, T:0.17
Consensus pattern (18 bp):
TCCCAAAGGACCACTATA
Found at i:364267 original size:65 final size:63
Alignment explanation
Indices: 364179--364321 Score: 182
Period size: 65 Copynumber: 2.2 Consensus size: 63
364169 TCTTTAACAT
* *
364179 GTGCATCGATGCACTACCCATGCATCGATACACAAATTACCTTCGATGTTTTCATT-TTTAAAGG
1 GTGCATCGATGCACTACCCATGCATCGATACACAAATTACATTCGATG-TTTC-TTCTTTAAAGA
* * * *
364243 GATGCATCGATGCACT-CCTTATGCATCGATGCACCAATTGCATTCGATGTTTCTTCTTTAAAGA
1 G-TGCATCGATGCACTACC-CATGCATCGATACACAAATTACATTCGATGTTTCTTCTTTAAAGA
364307 GTGCATCGATGCACT
1 GTGCATCGATGCACT
364322 TTCAATGTGC
Statistics
Matches: 70, Mismatches: 6, Indels: 7
0.84 0.07 0.08
Matches are distributed among these distances:
63 16 0.23
64 15 0.21
65 39 0.56
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCACTACCCATGCATCGATACACAAATTACATTCGATGTTTCTTCTTTAAAGA
Found at i:364333 original size:65 final size:65
Alignment explanation
Indices: 364180--364340 Score: 168
Period size: 65 Copynumber: 2.5 Consensus size: 65
364170 CTTTAACATG
** * *
364180 TGCATCGATGCACT-ACCCATGCATCGATACACAAATTACCTTCGATGTTTTCATTTTTAAAGGG
1 TGCATCGATGCACTCA-ATATGCATCGATACACAAATTACATTCGATGTTTTCATTTTTAAAGAG
364244 A
65 A
** * * *
364245 TGCATCGATGCACTCCTTATGCATCGATGCACCAATTGCATTCGATG-TTTC-TTCTTTAAAGAG
1 TGCATCGATGCACTCAATATGCATCGATACACAAATTACATTCGATGTTTTCATT-TTTAAAGAG
364308 -
65 A
*
364308 TGCATCGATGCACTTTCAATGTGCATCGATACA
1 TGCATCGATGCAC--TCAATATGCATCGATACA
364341 AATTGCCCAT
Statistics
Matches: 80, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
63 15 0.19
64 12 0.15
65 53 0.66
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.33
Consensus pattern (65 bp):
TGCATCGATGCACTCAATATGCATCGATACACAAATTACATTCGATGTTTTCATTTTTAAAGAGA
Found at i:365205 original size:32 final size:32
Alignment explanation
Indices: 365164--365246 Score: 121
Period size: 32 Copynumber: 2.6 Consensus size: 32
365154 AATTCAAGGC
* *
365164 TCAACTTCACAACGAAGGGGCCATTCATGGTT
1 TCAACTTCACAACGAAGGGGCCATTCACGATT
* *
365196 TCAACTTCACAACGAAGAGGTCATTCACGATT
1 TCAACTTCACAACGAAGGGGCCATTCACGATT
*
365228 TCAACTTCACGACGAAGGG
1 TCAACTTCACAACGAAGGG
365247 AATCGTGCTC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.23
Consensus pattern (32 bp):
TCAACTTCACAACGAAGGGGCCATTCACGATT
Found at i:365304 original size:114 final size:115
Alignment explanation
Indices: 365164--365407 Score: 329
Period size: 114 Copynumber: 2.1 Consensus size: 115
365154 AATTCAAGGC
* * * *
365164 TCAACTTCAC-AACGAAGGGGCCATTCATGGTTTC-AACTTCACAACGAAGAG-GTCATTCACGA
1 TCAACTTCACGAACGAAGGGGCCATTCAAGG-CTCAAACTTCACAACGAAG-GTGCCATCCACGA
365226 TTTCAACTTCACGACGAAGGGAATCGTGCTCACCAGCAACATTCATTAGATT
64 TTTCAACTTCACGACGAAGGGAATCGTGCTCACCAGCAACATTCATTAGATT
* * * *
365278 TCAACTTCACGAA-GAA-GGTCCTATTCAAGGCTCAAACTTTACAGCGAAGGTGCCATCCACGGT
1 TCAACTTCACGAACGAAGGGGCC-ATTCAAGGCTCAAACTTCACAACGAAGGTGCCATCCACGAT
* *
365341 TTCAACTTCACGACGAAGGGAATCGTGCTCACCAGTAACATTCATTGGATT
65 TTCAACTTCACGACGAAGGGAATCGTGCTCACCAGCAACATTCATTAGATT
365392 TCAACTTCACG-ACGAA
1 TCAACTTCACGAACGAA
365408 TGATATCCAA
Statistics
Matches: 115, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
113 8 0.07
114 105 0.91
115 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (115 bp):
TCAACTTCACGAACGAAGGGGCCATTCAAGGCTCAAACTTCACAACGAAGGTGCCATCCACGATT
TCAACTTCACGACGAAGGGAATCGTGCTCACCAGCAACATTCATTAGATT
Found at i:365756 original size:38 final size:36
Alignment explanation
Indices: 365664--365914 Score: 220
Period size: 36 Copynumber: 7.2 Consensus size: 36
365654 TAAGTTACTC
*
365664 AAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTTTT
1 AAAACAAA-TTTTGTCTCTCTTGAGACAGTTTCTCTT
*
365701 AAAACAAATTTTGTCTCTCTTGAGACATTTTCTCTT
1 AAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTT
*
365737 AAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTT
1 AAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTT
* * *
365773 GAAACAAA------ATCT-TTGA-ATCTATTTTC-CTT
1 AAAACAAATTTTGTCTCTCTTGAGA-C-AGTTTCTCTT
* * * *
365802 TAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTT
1 AAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTT
* * * * *
365838 AAAGCAATTTTTTTCTATCTTGAGACAATTTCTCTT
1 AAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTT
* **
365874 --AA-AAATTTTGTCTCTCCTGAGACAACTTCTCTT
1 AAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTT
*
365907 GAAACAAA
1 AAAACAAA
365915 ATCTTTGAAT
Statistics
Matches: 173, Mismatches: 27, Indels: 29
0.76 0.12 0.13
Matches are distributed among these distances:
28 1 0.01
29 15 0.09
30 8 0.05
33 26 0.15
34 1 0.01
35 9 0.05
36 104 0.60
37 9 0.05
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (36 bp):
AAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTT
Found at i:365896 original size:33 final size:33
Alignment explanation
Indices: 365807--365906 Score: 94
Period size: 33 Copynumber: 2.9 Consensus size: 33
365797 TCCTTTAAAC
* * *
365807 AAATTTCGTCTC-CCTTGAGACAGTTTCTTTTAA
1 AAATTTTGTCTCTCC-TGAGACAATTTCTCTTAA
* * *
365840 AGCAATTTTTTTCTATCTTGAGACAATTTCTCTTAA
1 A--AA-TTTTGTCTCTCCTGAGACAATTTCTCTTAA
*
365876 AAATTTTGTCTCTCCTGAGACAACTTCTCTT
1 AAATTTTGTCTCTCCTGAGACAATTTCTCTT
365907 GAAACAAAAT
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
33 25 0.47
34 2 0.04
35 2 0.04
36 23 0.43
37 1 0.02
ACGTcount: A:0.25, C:0.21, G:0.10, T:0.44
Consensus pattern (33 bp):
AAATTTTGTCTCTCCTGAGACAATTTCTCTTAA
Found at i:365932 original size:134 final size:133
Alignment explanation
Indices: 365665--366077 Score: 583
Period size: 134 Copynumber: 3.1 Consensus size: 133
365655 AAGTTACTCA
* *
365665 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTTTTAAAACAAATTTTGTCTCTCTTGAGACATT
1 AAACAAA-TTTCGTCTCCCTTGAGACAGTTTCTTTTAAAACAAATTTTGTCTCTCTTGAGACATT
365730 TTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATCTAT
65 TTCTCTT--AA-AAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATCT-T
365795 TTTCCTTT
126 TTTCCTTT
* * * * *
365803 AAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTAAAGCAATTTTTTTCTATCTTGAGACAATT
1 AAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTAAAACAAATTTTGTCTCTCTTGAGACATTT
* ** *
365868 TCTCTTAAAAATTTTGTCTCTCCTGAGACAACTTCTCTTGAAACAAAATCTTTGAATCTGTTTTC
66 TCTCTTAAAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATCT-TTTTC
*
365933 CTTG
130 CTTT
* * * *
365937 AAACAAATTTCGTCTCCCTTGAGACAGATTATTTTAAAACAAATTTTGTCTCTTTTAAGACATTT
1 AAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTAAAACAAATTTTGTCTCTCTTGAGACATTT
* * * *
366002 TCTCTTAAAAATTTTATCTCTATTGAAACAGTTTCCCTTGAAACAAAATCTTTGAATCTATTTCC
66 TCTCTTAAAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATCTTTTTCC
366067 TTT
131 TTT
366070 GAAACAAA
1 -AAACAAA
366078 ATTTTTGAAT
Statistics
Matches: 243, Mismatches: 31, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
133 7 0.03
134 170 0.70
135 2 0.01
137 57 0.23
138 7 0.03
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.41
Consensus pattern (133 bp):
AAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTAAAACAAATTTTGTCTCTCTTGAGACATTT
TCTCTTAAAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATCTTTTTCC
TTT
Found at i:366066 original size:29 final size:29
Alignment explanation
Indices: 366033--366105 Score: 128
Period size: 29 Copynumber: 2.5 Consensus size: 29
366023 ATTGAAACAG
366033 TTTCCCTTGAAACAAAATCTTTGAATCTA
1 TTTCCCTTGAAACAAAATCTTTGAATCTA
* *
366062 TTTCCTTTGAAACAAAATTTTTGAATCTA
1 TTTCCCTTGAAACAAAATCTTTGAATCTA
366091 TTTCCCTTGAAACAA
1 TTTCCCTTGAAACAA
366106 GTTCTGTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.34, C:0.19, G:0.07, T:0.40
Consensus pattern (29 bp):
TTTCCCTTGAAACAAAATCTTTGAATCTA
Found at i:366144 original size:67 final size:67
Alignment explanation
Indices: 366073--366274 Score: 203
Period size: 68 Copynumber: 3.0 Consensus size: 67
366063 TTCCTTTGAA
*
366073 ACAAAATTTTTGAATCTATTTCCCTTGAAACAAGTTCTGTCTTCCTTGAGATAGTTTCTCTTGAA
1 ACAAAATTTTTGAATCTATTTCCCTTGAAACAAATTCTGTCTTCCTTGAGATAGTTTCTCTTGAA
366138 AC
66 AC
* * * * ** *
366140 ACAAAATCTTTGAATTTATTTCCCTTGAAACAAAATTTTGT-TTATCTTGAGACCGTTTCTCATG
1 ACAAAATTTTTGAATCTATTTCCCTTGAAAC-AAATTCTGTCTT-CCTTGAGATAGTTTCTCTTG
366204 AAAC
64 AAAC
* * * * **
366208 AAAAAATATCTTTGAGATC-GTTTCCCTTGAAACGAATTCTGTC-TCTTTTGAGATAACTTCTCT
1 ACAAAAT-T-TTTGA-ATCTATTTCCCTTGAAACAAATTCTGTCTTC-CTTGAGATAGTTTCTCT
366271 TGAA
62 TGAA
366275 GCATCATCTG
Statistics
Matches: 107, Mismatches: 21, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
67 31 0.29
68 33 0.31
69 23 0.21
70 18 0.17
71 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (67 bp):
ACAAAATTTTTGAATCTATTTCCCTTGAAACAAATTCTGTCTTCCTTGAGATAGTTTCTCTTGAA
AC
Found at i:366214 original size:68 final size:68
Alignment explanation
Indices: 366075--366251 Score: 189
Period size: 67 Copynumber: 2.6 Consensus size: 68
366065 CCTTTGAAAC
* * * * *
366075 AAAATTTTTGAATCTATTTCCCTTGAAACAAGTTCTGTCTTCCTTGAGATAGTTTCTCTTGAAAC
1 AAAATCTTTGAATTTATTTCCCTTGAAACAAATTCTGTCTTCCTTGAGACAGTTTCTCATGAAAC
*
366140 -AC
66 AAA
* * *
366142 AAAATCTTTGAATTTATTTCCCTTGAAACAAAATTTTGT-TTATCTTGAGACCGTTTCTCATGAA
1 AAAATCTTTGAATTTATTTCCCTTGAAAC-AAATTCTGTCTT-CCTTGAGACAGTTTCTCATGAA
366206 ACAAA
64 ACAAA
** *
366211 AAATATCTTTGAGA-TCGTTTCCCTTGAAACGAATTCTGTCT
1 AAA-ATCTTTGA-ATTTATTTCCCTTGAAACAAATTCTGTCT
366252 CTTTTGAGAT
Statistics
Matches: 91, Mismatches: 13, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
67 29 0.32
68 27 0.30
69 11 0.12
70 23 0.25
71 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.40
Consensus pattern (68 bp):
AAAATCTTTGAATTTATTTCCCTTGAAACAAATTCTGTCTTCCTTGAGACAGTTTCTCATGAAAC
AAA
Found at i:367043 original size:2 final size:2
Alignment explanation
Indices: 367032--367074 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
367022 CAAAATAAAC
367032 AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
367073 AT
1 AT
367075 TGTATAAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:376729 original size:9 final size:10
Alignment explanation
Indices: 376708--376747 Score: 57
Period size: 9 Copynumber: 4.1 Consensus size: 10
376698 TTTTTTTTCC
376708 ATTTGATTATT
1 ATTT-ATTATT
376719 ATTTA-TATT
1 ATTTATTATT
376728 ATTTATTATT
1 ATTTATTATT
376738 A-TTATTATT
1 ATTTATTATT
376747 A
1 A
376748 CTAATAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 18 0.64
10 6 0.21
11 4 0.14
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (10 bp):
ATTTATTATT
Found at i:376735 original size:16 final size:16
Alignment explanation
Indices: 376714--376746 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
376704 TTCCATTTGA
376714 TTATTATT-TATATTAT
1 TTATTATTAT-TATTAT
376730 TTATTATTATTATTAT
1 TTATTATTATTATTAT
376746 T
1 T
376747 ACTAATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.94
17 1 0.06
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTATTATTATTAT
Found at i:378072 original size:3 final size:3
Alignment explanation
Indices: 378064--378137 Score: 52
Period size: 3 Copynumber: 25.7 Consensus size: 3
378054 TTTTATTTTG
* *
378064 ATT ATT ATT ATA ATT -TT ATT -TT ATT -TT ATT ATT ATT TTT GATAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -AT-T
*
378108 ATGT -TT A-A ATT ATT ATT -TT ATT ATT ATT AT
1 AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
378138 CTCAAGTCAT
Statistics
Matches: 56, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
2 10 0.18
3 41 0.73
4 4 0.07
5 1 0.02
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:378086 original size:5 final size:5
Alignment explanation
Indices: 378044--378101 Score: 53
Period size: 5 Copynumber: 10.8 Consensus size: 5
378034 ATATTATTAC
* * *
378044 TTTTA ATTTC TTTTA TTTTGA TTATTA TTATAA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTT-A TT-TTA TT-TTA TTTTA TTTTA TTTTA
378092 TTATTA TTTT
1 TT-TTA TTTT
378102 TGATATATGT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
5 26 0.59
6 16 0.36
7 2 0.05
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (5 bp):
TTTTA
Found at i:378094 original size:27 final size:26
Alignment explanation
Indices: 378035--378099 Score: 85
Period size: 28 Copynumber: 2.4 Consensus size: 26
378025 TTCAATTTAA
* *
378035 TATTATTACTTTTAATTTCTTTTATTT
1 TATTATTA-TTATAATTTATTTTATTT
378062 TGATTATTATTATAATTTTATTTTATTT
1 T-ATTATTATTATAA-TTTATTTTATTT
378090 TATTATTATT
1 TATTATTATT
378100 TTTGATATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 15 0.44
28 19 0.56
ACGTcount: A:0.26, C:0.03, G:0.02, T:0.69
Consensus pattern (26 bp):
TATTATTATTATAATTTATTTTATTT
Found at i:378098 original size:11 final size:11
Alignment explanation
Indices: 378035--378135 Score: 75
Period size: 11 Copynumber: 8.9 Consensus size: 11
378025 TTCAATTTAA
378035 TATTATTACTTT
1 TATTATTA-TTT
* *
378047 TAAT-TTCTTT
1 TATTATTATTT
378057 TATT-TTGATTAT
1 TATTATT-ATT-T
*
378069 TATTATAATTT
1 TATTATTATTT
378080 TATT-TTATTT
1 TATTATTATTT
378090 TATTATTATTT
1 TATTATTATTT
*
378101 T-TGATATATGTT
1 TATTAT-TAT-TT
378113 TAAATTATTATTT
1 T--ATTATTATTT
378126 TATTATTATT
1 TATTATTATT
378136 ATCTCAAGTC
Statistics
Matches: 72, Mismatches: 8, Indels: 19
0.73 0.08 0.19
Matches are distributed among these distances:
10 20 0.28
11 28 0.39
12 14 0.19
13 4 0.06
14 3 0.04
15 3 0.04
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (11 bp):
TATTATTATTT
Found at i:384126 original size:15 final size:14
Alignment explanation
Indices: 384088--384126 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
384078 TTAGATTTTT
384088 TAAAATTAAATTAC
1 TAAAATTAAATTAC
*
384102 TAAAAATAAATTAC
1 TAAAATTAAATTAC
*
384116 TGATAATTAAA
1 T-AAAATTAAA
384127 AAAATTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (14 bp):
TAAAATTAAATTAC
Found at i:386678 original size:30 final size:31
Alignment explanation
Indices: 386627--386684 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
386617 TATACGGTTA
386627 AAAAAAGATGGTACCGATTTTGTTATTGGGT
1 AAAAAAGATGGTACCGATTTTGTTATTGGGT
*
386658 AAAAAAGTTGGTACCG-TTTTGTTATTG
1 AAAAAAGATGGTACCGATTTTGTTATTG
386685 TTGTGCATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.38
Consensus pattern (31 bp):
AAAAAAGATGGTACCGATTTTGTTATTGGGT
Found at i:387338 original size:14 final size:14
Alignment explanation
Indices: 387319--387391 Score: 60
Period size: 14 Copynumber: 5.3 Consensus size: 14
387309 TATTTAAGTC
387319 AATATTATTATTAA
1 AATATTATTATTAA
*
387333 AATATTA-TATCTAC
1 AATATTATTAT-TAA
* *
387347 AATATTATAAATAA
1 AATATTATTATTAA
* * *
387361 AAAATTATGATTAT
1 AATATTATTATTAA
*
387375 TATATT-TTATTAA
1 AATATTATTATTAA
387388 AATA
1 AATA
387392 AAATTATTAT
Statistics
Matches: 44, Mismatches: 13, Indels: 5
0.71 0.21 0.08
Matches are distributed among these distances:
13 11 0.25
14 32 0.73
15 1 0.02
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (14 bp):
AATATTATTATTAA
Found at i:387349 original size:28 final size:28
Alignment explanation
Indices: 387318--387391 Score: 80
Period size: 28 Copynumber: 2.7 Consensus size: 28
387308 TTATTTAAGT
387318 CAATATTATTATTAAAATATTAT-ATCTA
1 CAATATTATTATTAAAATATTATGAT-TA
* * *
387346 CAATATTATAAATAAAAAATTATGATTA
1 CAATATTATTATTAAAATATTATGATTA
**
387374 TTATATT-TTATTAAAATA
1 CAATATTATTATTAAAATA
387392 AAATTATTAT
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
27 8 0.22
28 27 0.73
29 2 0.05
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (28 bp):
CAATATTATTATTAAAATATTATGATTA
Found at i:387401 original size:33 final size:30
Alignment explanation
Indices: 387349--387417 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 30
387339 ATATCTACAA
*
387349 TATTATAAATAAAAAATTATGATTATTATATTT
1 TATTATAAATAAAAAATTAT-AAT-TTATA-TT
*
387382 TATTA-AAATAAAATTATTATAATTTATATT
1 TATTATAAATAAAA-AATTATAATTTATATT
387412 TATTAT
1 TATTAT
387418 TTATTATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
30 7 0.22
31 5 0.16
32 10 0.31
33 10 0.31
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (30 bp):
TATTATAAATAAAAAATTATAATTTATATT
Found at i:394124 original size:67 final size:68
Alignment explanation
Indices: 394053--394204 Score: 234
Period size: 67 Copynumber: 2.2 Consensus size: 68
394043 ACCCATTCAA
*
394053 GGGGAACCGATACCCCCTCAACGGATATGAATTTCCAGAATACTAGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGGATATGAAATTCCAGAATACTAGAGGGGAATCGATACCCCCA
394118 -GG
66 GGG
* * * * *
394120 GGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGAATGCTTGTGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGGATATGAAATTCCAGAATACTAGAGGGGAATCGATACCCCCA
394185 GGG
66 GGG
*
394188 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
394205 ATGAGAAAAA
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
67 59 0.77
68 18 0.23
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.18
Consensus pattern (68 bp):
GGGGAACCGATACCCCCTCAACGGATATGAAATTCCAGAATACTAGAGGGGAATCGATACCCCCA
GGG
Found at i:394548 original size:29 final size:29
Alignment explanation
Indices: 394506--394577 Score: 126
Period size: 29 Copynumber: 2.5 Consensus size: 29
394496 CATATTATGA
*
394506 TACATGACATGAATTTATATTAAATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
*
394535 TACATGACATGAATTCATATTATATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
394564 TACATGACATGAAT
1 TACATGACATGAAT
394578 ATGCAGAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.39
Consensus pattern (29 bp):
TACATGACATGAATTCATATTAAATGTAT
Found at i:395022 original size:149 final size:149
Alignment explanation
Indices: 394752--395047 Score: 583
Period size: 149 Copynumber: 2.0 Consensus size: 149
394742 AGGGTCTACG
394752 CGGTTCTTTAGGACATATGTATATCCTTTGGAACCTGTGTGAAGTCTTGAAAGACACATACTTGA
1 CGGTTCTTTAGGACATATGTATATCCTTTGGAACCTGTGTGAAGTCTTGAAAGACACATACTTGA
394817 TCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTATATGGC
66 TCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTATATGGC
394882 ACTACGGTGCAATTCTATT
131 ACTACGGTGCAATTCTATT
*
394901 CGGTTCTTTAGGACATATGTATATTCTTTGGAACCTGTGTGAAGTCTTGAAAGACACATACTTGA
1 CGGTTCTTTAGGACATATGTATATCCTTTGGAACCTGTGTGAAGTCTTGAAAGACACATACTTGA
394966 TCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTATATGGC
66 TCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTATATGGC
395031 ACTACGGTGCAATTCTA
131 ACTACGGTGCAATTCTA
395048 CGGGGCACTT
Statistics
Matches: 146, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 146 1.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.37
Consensus pattern (149 bp):
CGGTTCTTTAGGACATATGTATATCCTTTGGAACCTGTGTGAAGTCTTGAAAGACACATACTTGA
TCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTATATGGC
ACTACGGTGCAATTCTATT
Found at i:395072 original size:23 final size:23
Alignment explanation
Indices: 395028--395072 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
395018 ATCATTATAT
*
395028 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
395051 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
395073 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:401148 original size:21 final size:21
Alignment explanation
Indices: 401106--401148 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
401096 TTTCTGGGTT
* * *
401106 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
401127 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
401148 A
1 A
401149 CGGATATGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:401209 original size:67 final size:67
Alignment explanation
Indices: 401128--401278 Score: 230
Period size: 67 Copynumber: 2.3 Consensus size: 67
401118 ACCCATTCAA
*
401128 GGGGAACCGATACCCCCTCAACGGATATGAATTTCCAGAATACTAGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGGATATGAAATTCCAGAATACTAGAGGGGAATCGATACCCCCA
401193 GG
66 GG
* * * * * *
401195 GGGGAACCGATACCCCCTCATCGTATATGAAATTCCATAATGCTTGTGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGGATATGAAATTCCAGAATACTAGAGGGGAATCGATACCCCCA
401260 GG
66 GG
*
401262 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
401279 ATGAGAAAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
67 76 1.00
ACGTcount: A:0.28, C:0.28, G:0.25, T:0.19
Consensus pattern (67 bp):
GGGGAACCGATACCCCCTCAACGGATATGAAATTCCAGAATACTAGAGGGGAATCGATACCCCCA
GG
Found at i:401267 original size:20 final size:20
Alignment explanation
Indices: 401242--401279 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
401232 TAATGCTTGT
*
401242 GGGGAATCGATACCCCCAGG
1 GGGGAACCGATACCCCCAGG
*
401262 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
401280 TGAGAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.34, G:0.32, T:0.11
Consensus pattern (20 bp):
GGGGAACCGATACCCCCAGG
Found at i:401620 original size:29 final size:29
Alignment explanation
Indices: 401578--401649 Score: 126
Period size: 29 Copynumber: 2.5 Consensus size: 29
401568 CATATTATGA
*
401578 TACATGACATGAATTTATATTAAATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
*
401607 TACATGACATGAATTCATATTATATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
401636 TACATGACATGAAT
1 TACATGACATGAAT
401650 ATGCAGAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.39
Consensus pattern (29 bp):
TACATGACATGAATTCATATTAAATGTAT
Found at i:402142 original size:23 final size:23
Alignment explanation
Indices: 402098--402142 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
402088 ATCATTATAT
*
402098 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
402121 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
402143 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:403500 original size:20 final size:21
Alignment explanation
Indices: 403475--403534 Score: 86
Period size: 20 Copynumber: 2.8 Consensus size: 21
403465 TTTGGTGCAG
*
403475 AGGGAATCGATTCCCCCTTT-
1 AGGGAACCGATTCCCCCTTTA
403495 AGGGAACCGATTCCCCCTTTGA
1 AGGGAACCGATTCCCCCTTT-A
403517 AGGGGAACCGATTCCCCC
1 A-GGGAACCGATTCCCCC
403535 CACAGGGGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
20 19 0.53
22 1 0.03
23 16 0.44
ACGTcount: A:0.22, C:0.33, G:0.23, T:0.22
Consensus pattern (21 bp):
AGGGAACCGATTCCCCCTTTA
Found at i:403543 original size:21 final size:21
Alignment explanation
Indices: 403517--403556 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
403507 CCCCCTTTGA
*
403517 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
403538 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
403557 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:406997 original size:24 final size:24
Alignment explanation
Indices: 406970--407021 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
406960 AACATCAAAT
406970 ACAATAA-AATAATATTATTTATTA
1 ACAATAATAATAATATTATTT-TTA
406994 ACAA-AATAATAATATTATTTTTA
1 ACAATAATAATAATATTATTTTTA
407017 A-AATA
1 ACAATA
407022 TTAGAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 2 0.08
23 7 0.27
24 17 0.65
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (24 bp):
ACAATAATAATAATATTATTTTTA
Found at i:407088 original size:28 final size:28
Alignment explanation
Indices: 407054--407125 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
407044 ATTTATGTCG
407054 ATATTATTATTAAAATATTAT-ATCTATA
1 ATATTATTATTAAAATATTATGAT-TATA
* * * * *
407082 ATTTTATAAATAAAAAATTATGATTATT
1 ATATTATTATTAAAATATTATGATTATA
407110 ATATT-TTATTAAAATA
1 ATATTATTATTAAAATA
407126 AAATTGTTAT
Statistics
Matches: 34, Mismatches: 9, Indels: 3
0.74 0.20 0.07
Matches are distributed among these distances:
27 8 0.24
28 24 0.71
29 2 0.06
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (28 bp):
ATATTATTATTAAAATATTATGATTATA
Found at i:407466 original size:21 final size:21
Alignment explanation
Indices: 407436--407476 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
407426 AAATGTTAAA
*
407436 AAATATTAATGTTTTAGGTAG
1 AAATAATAATGTTTTAGGTAG
407457 AAATAATAATGTTTTAGGTA
1 AAATAATAATGTTTTAGGTA
407477 ATTTTTACCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.41
Consensus pattern (21 bp):
AAATAATAATGTTTTAGGTAG
Found at i:407882 original size:28 final size:28
Alignment explanation
Indices: 407847--407936 Score: 78
Period size: 28 Copynumber: 3.3 Consensus size: 28
407837 TATTTATGTC
407847 AATATTATTATTAAAATATTAT-ATCTAT
1 AATATTATTATTAAAATATTATGAT-TAT
* * * *
407875 AATTTTATAAATAAAAAATTATGATTAT
1 AATATTATTATTAAAATATTATGATTAT
* ** *
407903 TATATT-TTATTAAAATAAAATTATTAT
1 AATATTATTATTAAAATATTATGATTAT
407930 AA-ATTAT
1 AATATTAT
407937 ATTTATTATT
Statistics
Matches: 47, Mismatches: 13, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
26 3 0.06
27 17 0.36
28 25 0.53
29 2 0.04
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (28 bp):
AATATTATTATTAAAATATTATGATTAT
Found at i:407939 original size:31 final size:31
Alignment explanation
Indices: 407876--407944 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
407866 TATATCTATA
*
407876 ATTTTA-TAAATAAAAAATTATGATTATTAT
1 ATTTTATTAAATAAAAAATTATGATAATTAT
* *
407906 ATTTTATTAAA-ATAAAATTATTATAAATTAT
1 ATTTTATTAAATAAAAAATTATGAT-AATTAT
407937 A-TTTATTA
1 ATTTTATTA
407945 TTTATTATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 24 0.71
31 10 0.29
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (31 bp):
ATTTTATTAAATAAAAAATTATGATAATTAT
Found at i:408482 original size:199 final size:199
Alignment explanation
Indices: 408045--408488 Score: 608
Period size: 200 Copynumber: 2.2 Consensus size: 199
408035 CACATATGTT
* * *
408045 ACATCGAAACCAATAATTATAACGTAATAGGTAAATTTACAATGTAATCAATATAAATATATCGG
1 ACATCGAAACCGATAATTATAACGTAATAGGTAAATTTACAATGTAACCAATAGAAATATATCGG
* *
408110 TTTTATGAGAGAATATGTCAACATAATGTATCGACACAAATTTAAAAAGTGTCGATATATTTTGT
66 TTTTATGAGAAAATAGGTCAACATAATGTATCGACACAAATTTAAAAAGTGTCGATATATTTTGT
*
408175 CCATAATGAATGTCAAACGAGGTGCACGCATAAAGTGTCGATACATTTATTAAAAGTATCGATCC
131 CCAGAATGAATGTCAAACGAGGTGCACGCATAAAGTGTCGATACATTTA-TAAAAGTATCGATCC
408240 CAAAA
195 CAAAA
* ** * ** *
408245 ACATCGAAACCGATAATTACAATATAATAGGTAAATTTACAATGTACCCGGTAGAAATATATTGG
1 ACATCGAAACCGATAATTATAACGTAATAGGTAAATTTACAATGTAACCAATAGAAATATATCGG
* ** ***
408310 TTTTATGAGAAAATAGGTCTACATAATGTATCGACAC-GTTTTAAGTTTGTGTCGATACT-TTTT
66 TTTTATGAGAAAATAGGTCAACATAATGTATCGACACAAATTTAA-AAAGTGTCGATA-TATTTT
* *
408373 -TCCAGAATGAATGTCCAACGAGGTGCACGCATAAAGTGTCGATACATTTA-AAATTGTATCGAT
129 GTCCAGAATGAATGTCAAACGAGGTGCACGCATAAAGTGTCGATACATTTATAAA-AGTATCGAT
408436 CCCAAAAA
193 CCC-AAAA
* *
408444 ACATCGAAACCGTTAATTATAACGTAATAGTTAAATTTACAATGT
1 ACATCGAAACCGATAATTATAACGTAATAGGTAAATTTACAATGT
408489 TACGATATAG
Statistics
Matches: 214, Mismatches: 26, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
197 3 0.01
198 11 0.05
199 97 0.45
200 102 0.48
201 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (199 bp):
ACATCGAAACCGATAATTATAACGTAATAGGTAAATTTACAATGTAACCAATAGAAATATATCGG
TTTTATGAGAAAATAGGTCAACATAATGTATCGACACAAATTTAAAAAGTGTCGATATATTTTGT
CCAGAATGAATGTCAAACGAGGTGCACGCATAAAGTGTCGATACATTTATAAAAGTATCGATCCC
AAAA
Found at i:408647 original size:23 final size:23
Alignment explanation
Indices: 408592--408648 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
408582 GTTAAATACA
*
408592 TATTTTATTATATAAACGCTACC
1 TATTATATTATATAAACGCTACC
*
408615 TATTACATTATATAAACGCTACC
1 TATTATATTATATAAACGCTACC
408638 T-TATATATTAT
1 TAT-TATATTAT
408649 TGTACTTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
22 1 0.03
23 29 0.97
ACGTcount: A:0.37, C:0.16, G:0.04, T:0.44
Consensus pattern (23 bp):
TATTATATTATATAAACGCTACC
Found at i:413802 original size:78 final size:79
Alignment explanation
Indices: 413703--413867 Score: 305
Period size: 78 Copynumber: 2.1 Consensus size: 79
413693 CCATCCATAT
* *
413703 CTCACAGTCAGTGAAGTTATCAAAACTTCCCAAACAACTAAATTTAACAATAAATGAAAGGCAAA
1 CTCATAGTCAGTGAAGTTATCAAAACTTCCCAAACAACAAAATTTAACAATAAATGAAAGGCAAA
413768 GCTGTTAAATTCCG
66 GCTGTTAAATTCCG
413782 CTCATAGT-AGTGAAGTTATCAAAACTTCCCAAACAACAAAATTTAACAATAAATGAAAGGCAAA
1 CTCATAGTCAGTGAAGTTATCAAAACTTCCCAAACAACAAAATTTAACAATAAATGAAAGGCAAA
413846 GCTGTTAAATTCCG
66 GCTGTTAAATTCCG
413860 CTCATAGT
1 CTCATAGT
413868 TTCTAATAAA
Statistics
Matches: 84, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
78 77 0.92
79 7 0.08
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.25
Consensus pattern (79 bp):
CTCATAGTCAGTGAAGTTATCAAAACTTCCCAAACAACAAAATTTAACAATAAATGAAAGGCAAA
GCTGTTAAATTCCG
Found at i:415175 original size:20 final size:21
Alignment explanation
Indices: 415150--415198 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
415140 TCCCAATTCA
*
415150 CAATGCGAA-TAAGTAAATCG
1 CAATGCGAATTAAGAAAATCG
**
415170 CAATGCGAATTTGGAAAATCG
1 CAATGCGAATTAAGAAAATCG
415191 CAATGCGA
1 CAATGCGA
415199 TACTGACTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.20
Consensus pattern (21 bp):
CAATGCGAATTAAGAAAATCG
Found at i:415242 original size:21 final size:21
Alignment explanation
Indices: 415208--415280 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
415198 ATACTGACTA
* *
415208 TCGCAATGCAATTTTCCTAAT
1 TCGCAATGCGATTTTCATAAT
* *
415229 TCGCATTGCGA-TTT-ATGTAT
1 TCGCAATGCGATTTTCAT-AAT
**
415249 TCGCGTTGCGATTTTCATAAT
1 TCGCAATGCGATTTTCATAAT
415270 TCGCAATGCGA
1 TCGCAATGCGA
415281 ATACGTAAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
19 1 0.02
20 15 0.37
21 23 0.56
22 2 0.05
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (21 bp):
TCGCAATGCGATTTTCATAAT
Found at i:415295 original size:20 final size:20
Alignment explanation
Indices: 415270--415381 Score: 127
Period size: 20 Copynumber: 5.5 Consensus size: 20
415260 TTTTCATAAT
415270 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * *
415290 TCGCAACGCGATTAAGTAAA
1 TCGCAATGCGAATACGTAAA
* * *
415310 TCGCAATACGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
415331 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
415351 TCGCAATGCGAAT-CTTACTA
1 TCGCAATGCGAATACGTA-AA
415371 TCGCAATGCGA
1 TCGCAATGCGA
415382 TTTACATAGC
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
19 3 0.04
20 57 0.74
21 17 0.22
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:415301 original size:41 final size:41
Alignment explanation
Indices: 415126--415389 Score: 139
Period size: 41 Copynumber: 6.5 Consensus size: 41
415116 TCGCGTTGCT
* ** * *
415126 TCGCATTGCGATTTTCCCAATTCACAATGCGAATAAGTAAA
1 TCGCAATGCGATTTTCATAATTCGCAATGCGAATACGTAAA
** * *
415167 TCGCAATGCGAATTTGGA-AAATCGCAATGCG-ATAC-TGACTA
1 TCGCAATGCG-ATTTTCATAATTCGCAATGCGAATACGT-A-AA
* * * * * *
415208 TCGCAATGCAATTTTCCTAATTCGCATTGCGATTTATGT-AT
1 TCGCAATGCGATTTTCATAATTCGCAATGCGA-ATACGTAAA
**
415249 TCGCGTTGCGATTTTCATAATTCGCAATGCGAATACGTAAA
1 TCGCAATGCGATTTTCATAATTCGCAATGCGAATACGTAAA
* * * * * *
415290 TCGCAACGCGA--TTAAGTAAATCGCAATACGAATTAGGAAAA
1 TCGCAATGCGATTTTCA-TAATTCGCAATGCGAA-TACGTAAA
* * * * * *
415331 TCGCAATGCGA-ATACGTAAATCGCAATGCGAAT-CTTACTA
1 TCGCAATGCGATTTTCATAATTCGCAATGCGAATACGTA-AA
*
415371 TCGCAATGCGATTTACATA
1 TCGCAATGCGATTTTCATA
415390 GCGCCATTCG
Statistics
Matches: 165, Mismatches: 45, Indels: 26
0.70 0.19 0.11
Matches are distributed among these distances:
39 5 0.03
40 39 0.24
41 113 0.68
42 5 0.03
43 2 0.01
44 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (41 bp):
TCGCAATGCGATTTTCATAATTCGCAATGCGAATACGTAAA
Found at i:415580 original size:21 final size:21
Alignment explanation
Indices: 415555--415625 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
415545 ATACTGACTA
*
415555 TCGCAATGCAATTTTCCTAAT
1 TCGCAATGCAATTTTCATAAT
* * *
415576 TCGCATTGCGA-TTT-ATGTAT
1 TCGCAATGCAATTTTCAT-AAT
**
415596 TCGCGTTGCAATTTTCATAAT
1 TCGCAATGCAATTTTCATAAT
415617 TCGCAATGC
1 TCGCAATGC
415626 GAATACGTAA
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
19 1 0.03
20 14 0.37
21 21 0.55
22 2 0.05
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.39
Consensus pattern (21 bp):
TCGCAATGCAATTTTCATAAT
Found at i:415642 original size:20 final size:20
Alignment explanation
Indices: 415617--415728 Score: 136
Period size: 20 Copynumber: 5.5 Consensus size: 20
415607 TTTTCATAAT
415617 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * *
415637 TCGCAACGCGATTAAGTAAA
1 TCGCAATGCGAATACGTAAA
* *
415657 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
415678 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
415698 TCGCAATGCGAAT-CTTACTA
1 TCGCAATGCGAATACGTA-AA
415718 TCGCAATGCGA
1 TCGCAATGCGA
415729 TTTACATAGC
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
19 3 0.04
20 58 0.73
21 18 0.23
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:415697 original size:41 final size:41
Alignment explanation
Indices: 415617--415710 Score: 136
Period size: 41 Copynumber: 2.3 Consensus size: 41
415607 TTTTCATAAT
* *
415617 TCGCAATGCGAA-TACGTAAATCGCAACGCGATTAAGTAAA
1 TCGCAATGCGAATTACGAAAATCGCAACGCGAATAAGTAAA
* * *
415657 TCGCAATGCGAATTAGGAAAATCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATTACGAAAATCGCAACGCGAATAAGTAAA
415698 TCGCAATGCGAAT
1 TCGCAATGCGAAT
415711 CTTACTATCG
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 12 0.25
41 36 0.75
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.20
Consensus pattern (41 bp):
TCGCAATGCGAATTACGAAAATCGCAACGCGAATAAGTAAA
Found at i:416294 original size:19 final size:19
Alignment explanation
Indices: 416272--416383 Score: 117
Period size: 20 Copynumber: 6.1 Consensus size: 19
416262 GAAACCAAAA
*
416272 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
416291 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
416305 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
416324 TCGCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
416343 TCCACGTTGCGATTTTCATT
1 T-CGCGTTGCGATTTTCATT
*
416363 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
416383 T
1 T
416384 TAACCAAAAG
Statistics
Matches: 77, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
14 10 0.13
16 3 0.04
17 3 0.04
19 28 0.36
20 32 0.42
21 1 0.01
ACGTcount: A:0.13, C:0.22, G:0.19, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:416383 original size:40 final size:39
Alignment explanation
Indices: 416277--416375 Score: 129
Period size: 33 Copynumber: 2.7 Consensus size: 39
416267 CAAAATCGCA
*
416277 TTGCGATTTTCATTTCGCGTTGCGAT--TC---T-CTCG
1 TTGCGATTTTCATTTCGCGTTGCGATAGTCATTTCCACG
416310 TTGCGATTTTCATTTCGCGTTGCGATAGTCATTTCCACG
1 TTGCGATTTTCATTTCGCGTTGCGATAGTCATTTCCACG
*
416349 TTGCGATTTTCATTATCTCGTTGCGAT
1 TTGCGATTTTCATT-TCGCGTTGCGAT
416376 TTTCATTTTA
Statistics
Matches: 57, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
33 26 0.46
35 2 0.04
38 1 0.02
39 17 0.30
40 11 0.19
ACGTcount: A:0.13, C:0.22, G:0.20, T:0.44
Consensus pattern (39 bp):
TTGCGATTTTCATTTCGCGTTGCGATAGTCATTTCCACG
Done.