Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006655.1 Hibiscus syriacus cultivar Beakdansim tig00016430_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: 456786
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 1 of 3
Found at i:477 original size:24 final size:24
Alignment explanation
Indices: 449--494 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
439 TATTTTATCG
449 ATTATAAGATGTTATTCTATAATT
1 ATTATAAGATGTTATTCTATAATT
* *
473 ATTATAAGGTGTTATTTTATAA
1 ATTATAAGATGTTATTCTATAA
495 AGTTTTTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.37, C:0.02, G:0.11, T:0.50
Consensus pattern (24 bp):
ATTATAAGATGTTATTCTATAATT
Found at i:2243 original size:21 final size:20
Alignment explanation
Indices: 2219--2257 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2209 TCACACCTCA
2219 TCTCCCTTCCTTTAATTCGTC
1 TCTCCCTT-CTTTAATTCGTC
* *
2240 TCTCTCTTCTTTACTTCG
1 TCTCCCTTCTTTAATTCG
2258 AATCATTCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.08, C:0.36, G:0.05, T:0.51
Consensus pattern (20 bp):
TCTCCCTTCTTTAATTCGTC
Found at i:18851 original size:5 final size:5
Alignment explanation
Indices: 18841--18866 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
18831 TCGCCTCATG
18841 AAATA AAATA AAATA AAATA AAATA A
1 AAATA AAATA AAATA AAATA AAATA A
18867 TAGAATTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:19628 original size:27 final size:28
Alignment explanation
Indices: 19576--19631 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
19566 AACGACGTCG
* *
19576 GTATTTATATATCTTCCTTTTTCCCTGCT
1 GTATTTATATAACTTCC-TTTCCCCTGCT
19605 GTATTTATATAACTTCC-TTCCCCTGCT
1 GTATTTATATAACTTCCTTTCCCCTGCT
19632 TTCAACTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 9 0.36
29 16 0.64
ACGTcount: A:0.16, C:0.27, G:0.07, T:0.50
Consensus pattern (28 bp):
GTATTTATATAACTTCCTTTCCCCTGCT
Found at i:21974 original size:33 final size:32
Alignment explanation
Indices: 21929--21994 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
21919 TAAAGGTTGG
* *
21929 TTTAAGCTAAAAATCGATCAATTTGATATTGA
1 TTTAAGCTAAAAATCGATCAATTTAATACTGA
* *
21961 TTTAATCTGAAAAATGGATCAATTTAATACTGA
1 TTTAAGCT-AAAAATCGATCAATTTAATACTGA
21994 T
1 T
21995 CTGAATCGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 7 0.24
33 22 0.76
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (32 bp):
TTTAAGCTAAAAATCGATCAATTTAATACTGA
Found at i:23863 original size:16 final size:17
Alignment explanation
Indices: 23842--23877 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
23832 CAAGTTAGAA
*
23842 ATTCACACA-CATATAT
1 ATTCACACATAATATAT
23858 ATTCACACATAATATAT
1 ATTCACACATAATATAT
23875 ATT
1 ATT
23878 TAGACGGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.36
Consensus pattern (17 bp):
ATTCACACATAATATAT
Found at i:25840 original size:60 final size:60
Alignment explanation
Indices: 25704--25840 Score: 145
Period size: 59 Copynumber: 2.3 Consensus size: 60
25694 AACATAATAA
* * *
25704 ATAGTCAGGTGATCATTTTGTAACTTTTAATAGTCAAGCTACTCAACAAAGGAACACACT
1 ATAGTCAGGTGACCATTTTATAACTTTTAATAGTCAAGCTACTCAACAAAGCAACACACT
* * * * * *
25764 -TAGTCAGATGACCATTTTATAACTTTTAATAGTCGGAG-TACTTAATAAAGCAATATC-TT
1 ATAGTCAGGTGACCATTTTATAACTTTTAATAGTC-AAGCTACTCAACAAAGCAACA-CACT
*
25823 ATAGTCAGGGGACCATTT
1 ATAGTCAGGTGACCATTT
25841 GTGTAATTTA
Statistics
Matches: 63, Mismatches: 11, Indels: 6
0.79 0.14 0.08
Matches are distributed among these distances:
59 45 0.71
60 18 0.29
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (60 bp):
ATAGTCAGGTGACCATTTTATAACTTTTAATAGTCAAGCTACTCAACAAAGCAACACACT
Found at i:30163 original size:21 final size:21
Alignment explanation
Indices: 30110--30163 Score: 76
Period size: 19 Copynumber: 2.6 Consensus size: 21
30100 AACTTTTAAA
30110 TTTTTATGTATTTTATATGTGAT
1 TTTTTATGTA--TTATATGTGAT
30133 TTTTTA--TATTATATGTGAT
1 TTTTTATGTATTATATGTGAT
30152 TTTTTATGTATT
1 TTTTTATGTATT
30164 TTTGTGTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
19 17 0.59
21 6 0.21
23 6 0.21
ACGTcount: A:0.22, C:0.00, G:0.11, T:0.67
Consensus pattern (21 bp):
TTTTTATGTATTATATGTGAT
Found at i:30171 original size:10 final size:10
Alignment explanation
Indices: 30152--30224 Score: 69
Period size: 10 Copynumber: 7.1 Consensus size: 10
30142 TATATGTGAT
*
30152 TTTTTATGTA
1 TTTTTGTGTA
30162 TTTTTGTGTATAA
1 TTTTTGTG--T-A
30175 TTTTTGTGTA
1 TTTTTGTGTA
30185 TTTTTGTGTA
1 TTTTTGTGTA
* *
30195 TAATTT-T-AA
1 T-TTTTGTGTA
30204 TTTTTGTGTA
1 TTTTTGTGTA
30214 TTTTTGTGTA
1 TTTTTGTGTA
30224 T
1 T
30225 AATTTTAATT
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
8 3 0.06
9 3 0.06
10 32 0.62
11 4 0.08
12 1 0.02
13 9 0.17
ACGTcount: A:0.18, C:0.00, G:0.15, T:0.67
Consensus pattern (10 bp):
TTTTTGTGTA
Found at i:30178 original size:23 final size:23
Alignment explanation
Indices: 30152--30201 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
30142 TATATGTGAT
30152 TTTTTATGTATTTTTGTGTATAA
1 TTTTTATGTATTTTTGTGTATAA
*
30175 TTTTTGTGTATTTTTGTGTATAA
1 TTTTTATGTATTTTTGTGTATAA
30198 TTTT
1 TTTT
30202 AATTTTTGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.18, C:0.00, G:0.14, T:0.68
Consensus pattern (23 bp):
TTTTTATGTATTTTTGTGTATAA
Found at i:30179 original size:13 final size:13
Alignment explanation
Indices: 30161--30201 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
30151 TTTTTTATGT
30161 ATTTTTGTGTATA
1 ATTTTTGTGTATA
30174 ATTTTTGTG--T-
1 ATTTTTGTGTATA
30184 ATTTTTGTGTATA
1 ATTTTTGTGTATA
30197 ATTTT
1 ATTTT
30202 AATTTTTGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 9 0.36
11 1 0.04
12 1 0.04
13 14 0.56
ACGTcount: A:0.20, C:0.00, G:0.15, T:0.66
Consensus pattern (13 bp):
ATTTTTGTGTATA
Found at i:30214 original size:29 final size:29
Alignment explanation
Indices: 30172--30243 Score: 144
Period size: 29 Copynumber: 2.5 Consensus size: 29
30162 TTTTTGTGTA
30172 TAATTTTTGTGTATTTTTGTGTATAATTT
1 TAATTTTTGTGTATTTTTGTGTATAATTT
30201 TAATTTTTGTGTATTTTTGTGTATAATTT
1 TAATTTTTGTGTATTTTTGTGTATAATTT
30230 TAATTTTTGTGTAT
1 TAATTTTTGTGTAT
30244 CATTAATAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.21, C:0.00, G:0.14, T:0.65
Consensus pattern (29 bp):
TAATTTTTGTGTATTTTTGTGTATAATTT
Found at i:30253 original size:20 final size:19
Alignment explanation
Indices: 30213--30256 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
30203 ATTTTTGTGT
*
30213 ATTTTTGTGTATAATTTTA
1 ATTTTTGTGTATAATTATA
*
30232 ATTTTTGTGTATCATTAATA
1 ATTTTTGTGTATAATT-ATA
30252 ATTTT
1 ATTTT
30257 AATTTTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.02, G:0.09, T:0.61
Consensus pattern (19 bp):
ATTTTTGTGTATAATTATA
Found at i:30337 original size:65 final size:63
Alignment explanation
Indices: 30198--30344 Score: 165
Period size: 65 Copynumber: 2.3 Consensus size: 63
30188 TTGTGTATAA
* * *
30198 TTTT-AATTTTTGTGTATTTTTGTGTATAATTTTAATTTTTGTGTATCATTAATAATTTTAATT
1 TTTTAAATTTTTATGTATTTTTGTGTATAATTTTAATTTTTGTGTATCATTAATAA-TTGAATC
* * *
30261 TTTTATTATTTTTATGTATTTTTGTGTATAATTTTAATTTTTGTGTATGGATTGTGTATAA-TGA
1 TTTTA-AATTTTTATGTATTTTTGTGTATAATTTTAATTTTTGTGTAT-CA-T-T-AATAATTGA
30325 A-C
61 ATC
30327 TTTTAAATTTTTATGTAT
1 TTTTAAATTTTTATGTAT
30345 ATATCCTTTT
Statistics
Matches: 71, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
63 4 0.06
65 52 0.73
66 6 0.08
67 4 0.06
68 1 0.01
69 4 0.06
ACGTcount: A:0.25, C:0.01, G:0.12, T:0.62
Consensus pattern (63 bp):
TTTTAAATTTTTATGTATTTTTGTGTATAATTTTAATTTTTGTGTATCATTAATAATTGAATC
Found at i:31513 original size:16 final size:16
Alignment explanation
Indices: 31492--31530 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
31482 GGTATTACCC
*
31492 GACCTGTTTTCAACCT
1 GACCTGTTATCAACCT
*
31508 GACCTGTTATGAACCT
1 GACCTGTTATCAACCT
31524 GACCTGT
1 GACCTGT
31531 AATTGACTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (16 bp):
GACCTGTTATCAACCT
Found at i:34601 original size:2 final size:2
Alignment explanation
Indices: 34583--34630 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
34573 CAATAAACCA
* *
34583 AT AT AC AT AT GT 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
34625 AT AT AT
1 AT AT AT
34631 CAACAACAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:35238 original size:6 final size:6
Alignment explanation
Indices: 35229--35253 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
35219 GGGATGATAA
35229 ACGGGG ACGGGG ACGGGG ACGGGG A
1 ACGGGG ACGGGG ACGGGG ACGGGG A
35254 AAACCCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.16, G:0.64, T:0.00
Consensus pattern (6 bp):
ACGGGG
Found at i:35353 original size:12 final size:13
Alignment explanation
Indices: 35317--35360 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
35307 GCCCCGATTA
35317 CCCGATTACCCGC
1 CCCGATTACCCGC
35330 CCCGATTACCCGC
1 CCCGATTACCCGC
*
35343 CCCGA-TACCCGA
1 CCCGATTACCCGC
35355 CCCGAT
1 CCCGAT
35361 AAATATTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
12 11 0.38
13 18 0.62
ACGTcount: A:0.18, C:0.52, G:0.16, T:0.14
Consensus pattern (13 bp):
CCCGATTACCCGC
Found at i:35418 original size:36 final size:35
Alignment explanation
Indices: 35362--35433 Score: 83
Period size: 36 Copynumber: 2.0 Consensus size: 35
35352 CGACCCGATA
* * *
35362 AATATTAAAAATAATTATTTATATATATATATATAT
1 AATATTAAAAAT-ATTATTTAAATAAAAATATATAT
35398 AATATTAATAAAT-TTAATTTAAATAAAAATATATAT
1 AATATTAA-AAATATT-ATTTAAATAAAAATATATAT
35434 TTAATTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
35 2 0.06
36 25 0.81
37 4 0.13
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (35 bp):
AATATTAAAAATATTATTTAAATAAAAATATATAT
Found at i:35439 original size:23 final size:23
Alignment explanation
Indices: 35409--35455 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
35399 ATATTAATAA
35409 ATTTAATTTAAATAAAAATATAT
1 ATTTAATTTAAATAAAAATATAT
* *
35432 ATTTAATTTAAATATATATATAT
1 ATTTAATTTAAATAAAAATATAT
35455 A
1 A
35456 CCCGGCCCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
ATTTAATTTAAATAAAAATATAT
Found at i:35497 original size:12 final size:12
Alignment explanation
Indices: 35473--35518 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
35463 CGATTCCCAG
35473 CCCAATA-CCGA
1 CCCAATACCCGA
35484 CCCAATACCCGA
1 CCCAATACCCGA
* *
35496 CCCAATACCTGG
1 CCCAATACCCGA
35508 CCCAATACCCG
1 CCCAATACCCG
35519 TTTAAATAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
11 7 0.23
12 24 0.77
ACGTcount: A:0.30, C:0.48, G:0.11, T:0.11
Consensus pattern (12 bp):
CCCAATACCCGA
Found at i:35500 original size:23 final size:24
Alignment explanation
Indices: 35473--35518 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
35463 CGATTCCCAG
35473 CCCAATACC-GACCCAATACCCGA
1 CCCAATACCTGACCCAATACCCGA
*
35496 CCCAATACCTGGCCCAATACCCG
1 CCCAATACCTGACCCAATACCCG
35519 TTTAAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.30, C:0.48, G:0.11, T:0.11
Consensus pattern (24 bp):
CCCAATACCTGACCCAATACCCGA
Found at i:36301 original size:16 final size:16
Alignment explanation
Indices: 36280--36310 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36270 AACTTTTCAA
*
36280 TATATAGTTTATATAC
1 TATATAGTTCATATAC
36296 TATATAGTTCATATA
1 TATATAGTTCATATA
36311 AATATAATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (16 bp):
TATATAGTTCATATAC
Found at i:36322 original size:28 final size:28
Alignment explanation
Indices: 36291--36345 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
36281 ATATAGTTTA
*
36291 TATACTATATAGTT-CATATAAATATAAT
1 TATACTATATA-TTAAATATAAATATAAT
* *
36319 TATAGTATGTATTAAATATAAATATAA
1 TATACTATATATTAAATATAAATATAA
36346 ATACAAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 2 0.09
28 21 0.91
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.42
Consensus pattern (28 bp):
TATACTATATATTAAATATAAATATAAT
Found at i:36368 original size:7 final size:7
Alignment explanation
Indices: 36356--36380 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
36346 ATACAAATAT
36356 AACCCTA
1 AACCCTA
36363 AACCCTA
1 AACCCTA
36370 AACCCTA
1 AACCCTA
36377 AACC
1 AACC
36381 ATATACTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.44, G:0.00, T:0.12
Consensus pattern (7 bp):
AACCCTA
Found at i:36590 original size:20 final size:20
Alignment explanation
Indices: 36555--36605 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
36545 TATAAACTAT
36555 ATAGTAT-TATAATTTATAC
1 ATAGTATATATAATTTATAC
* *
36574 ATGGTATATATAGTTTATAC
1 ATAGTATATATAATTTATAC
*
36594 ATAATATATATA
1 ATAGTATATATA
36606 TATATAAACT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 6 0.22
20 21 0.78
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (20 bp):
ATAGTATATATAATTTATAC
Found at i:36635 original size:17 final size:19
Alignment explanation
Indices: 36581--36660 Score: 71
Period size: 18 Copynumber: 4.3 Consensus size: 19
36571 TACATGGTAT
36581 ATATAGTTTATACATA-ATA
1 ATATAGTTTATA-ATATATA
*
36600 TATATA-TATATAAACTATATA
1 -ATATAGTTTAT-AA-TATATA
*
36621 GT-TAGTTTAT-ATATATA
1 ATATAGTTTATAATATATA
36638 ATATAGTTTATAATATAT-
1 ATATAGTTTATAATATATA
36656 ATATA
1 ATATA
36661 AACTACATAT
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
17 7 0.14
18 14 0.28
19 13 0.26
20 13 0.26
21 3 0.06
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (19 bp):
ATATAGTTTATAATATATA
Found at i:36637 original size:19 final size:20
Alignment explanation
Indices: 36578--36660 Score: 88
Period size: 19 Copynumber: 4.3 Consensus size: 20
36568 TTATACATGG
36578 TATATATAGTTTATACATA-A
1 TATATATAGTTTATA-ATATA
*
36598 TATATATA-TATATAA-ACTA
1 TATATATAGTTTATAATA-TA
36617 TATAGT-TAGTTTAT-ATATA
1 TATA-TATAGTTTATAATATA
36636 TA-ATATAGTTTATAATATA
1 TATATATAGTTTATAATATA
36655 TATATA
1 TATATA
36661 AACTACATAT
Statistics
Matches: 53, Mismatches: 2, Indels: 16
0.75 0.03 0.23
Matches are distributed among these distances:
17 2 0.04
18 10 0.19
19 24 0.45
20 17 0.32
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (20 bp):
TATATATAGTTTATAATATA
Found at i:36696 original size:14 final size:14
Alignment explanation
Indices: 36674--36719 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
36664 TACATATTTC
*
36674 TAAACCATAAACCT
1 TAAATCATAAACCT
36688 TAAATCATAAACCT
1 TAAATCATAAACCT
* * *
36702 TGAATCCTAAACCC
1 TAAATCATAAACCT
36716 TAAA
1 TAAA
36720 CCCTAACTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.48, C:0.26, G:0.02, T:0.24
Consensus pattern (14 bp):
TAAATCATAAACCT
Found at i:36759 original size:20 final size:20
Alignment explanation
Indices: 36736--37016 Score: 108
Period size: 20 Copynumber: 14.2 Consensus size: 20
36726 CTCATATATA
36736 TTATATATATACTATATAGT
1 TTATATATATACTATATAGT
* *
36756 TTATAT-TAATTAACTGTATAAT
1 TTATATAT-A-T-ACTATATAGT
*
36778 TTATACA-ATA-TATAT--T
1 TTATATATATACTATATAGT
36794 TTATA-ATTATAC-ATA-A-T
1 TTATATA-TATACTATATAGT
* * * * *
36811 ATAAATATAAATTGTATAGT
1 TTATATATATACTATATAGT
* *
36831 TTATATATA-ATTATATAAT
1 TTATATATATACTATATAGT
*
36850 TTATATATAAACTACT-TAGT
1 TTATATATATACTA-TATAGT
* *
36870 TTCTATATAGTTC-A-ATAGT
1 TTATATATA-TACTATATAGT
* *
36889 TCATATATAAACTATATAGT
1 TTATATATATACTATATAGT
* *
36909 ATTATAGTTTATAC-ATGGTA-T
1 -TTATA-TATATACTAT-ATAGT
* *
36930 ATATAGTTTATACATAATATA-T
1 TTATA-TATATAC-T-ATATAGT
* *
36952 ATATATATAAACTATATAGT
1 TTATATATATACTATATAGT
* *
36972 TTATATATATAATACATATACT
1 TTATATATATACT--ATATAGT
*
36994 TTATATATAAACTATATAGT
1 TTATATATATACTATATAGT
37014 TTA
1 TTA
37017 CATTGATCCC
Statistics
Matches: 197, Mismatches: 37, Indels: 54
0.68 0.13 0.19
Matches are distributed among these distances:
15 1 0.01
16 6 0.03
17 13 0.07
18 8 0.04
19 37 0.19
20 69 0.35
21 16 0.08
22 45 0.23
23 2 0.01
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (20 bp):
TTATATATATACTATATAGT
Found at i:36780 original size:22 final size:25
Alignment explanation
Indices: 36732--36855 Score: 70
Period size: 22 Copynumber: 5.2 Consensus size: 25
36722 CTAACTCATA
*
36732 TATATTATATATATACTATATAGTT
1 TATATTATATATATACTATATAATT
*
36757 TATATTA-AT-TA-ACTGTATAATT
1 TATATTATATATATACTATATAATT
* * *
36779 TATA-CA-ATATATATTTTATAA-T
1 TATATTATATATATACTATATAATT
* *
36801 TATA-CATA-ATATA-AATATAAATT
1 TATATTATATATATACTATAT-AATT
*
36824 GTATAGTT-TATATATAATTATATAATT
1 -TATA-TTATATATAT-ACTATATAATT
36851 TATAT
1 TATAT
36856 ATAAACTACT
Statistics
Matches: 79, Mismatches: 9, Indels: 22
0.72 0.08 0.20
Matches are distributed among these distances:
21 6 0.08
22 29 0.37
23 11 0.14
24 6 0.08
25 10 0.13
26 8 0.10
27 5 0.06
28 4 0.05
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (25 bp):
TATATTATATATATACTATATAATT
Found at i:36870 original size:39 final size:39
Alignment explanation
Indices: 36827--36902 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 39
36817 ATAAATTGTA
*
36827 TAGTTTATATATAATT-ATATAATTTATATATAAACTACT
1 TAGTTTATATATAATTCA-ATAATTCATATATAAACTACT
* * *
36866 TAGTTTCTATATAGTTCAATAGTTCATATATAAACTA
1 TAGTTTATATATAATTCAATAATTCATATATAAACTA
36903 TATAGTATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 31 0.97
40 1 0.03
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (39 bp):
TAGTTTATATATAATTCAATAATTCATATATAAACTACT
Found at i:36895 original size:349 final size:347
Alignment explanation
Indices: 36359--37002 Score: 1015
Period size: 349 Copynumber: 1.9 Consensus size: 347
36349 CAAATATAAC
36359 CCTAAACCCTAAACCCTAAACCATATACTATATATATAAATATATAGTTTATTAATAAACTATAT
1 CCTAAACCCTAAACCCTAAACCATATACTATATATATAAATATATAGTTTATTAATAAACTATAT
36424 TTATACAATATATATTATTTATAATTATACATAATATATAAATATAAATTGTATAGTTTATATAA
66 TTATACAATATATATTATTTATAATTATACATAATATATAAATATAAATTGTATAGTTTATATAA
36489 TTCATATATATTTTATATATAAACTATGCAATTTCTATATAGTTCAATAGTTCATATATAAACTA
131 TTCATATATATTTTATATATAAACTATGCAATTTCTATATAGTTCAATAGTTCATATATAAACTA
36554 TATAGTATTATAATTTATACATGGTATATATAGTTTATACATAATATATATATATATAAACTATA
196 TATAGTATTATAATTTATACATGGTATATATAGTTTATACATAATATATATATATATAAACTATA
* *
36619 TAG-TTAGTTTATATATATA-ATATAGTTTATAATATATATATAAACTACATATTTCTAAACCAT
261 TAGTTTA-TATATATA-ATACATATACTTTAT-ATATATATATAAACTACATATTTCTAAACCAT
36682 AAACCTTAAATCATAAACCTTGAAT
323 AAACCTTAAATCATAAACCTTGAAT
* *
36707 CCTAAACCCTAAACCCT-AACTCATATA-TATTATATATATACTATATAGTTTATATTAATTAAC
1 CCTAAACCCTAAACCCTAAAC-CATATACTA-TATATATA-AATATATAG-TT-TATTAATAAAC
36770 TGTATAATTTATACAATATATA-T-TTTATAATTATACAT-A-ATATAAATATAAATTGTATAGT
61 --TAT-ATTTATACAATATATATTATTTATAATTATACATAATATATAAATATAAATTGTATAG-
* *
36831 TTATATATAATT-ATATA-A-TTTATATATAAACTACT-TAGTTTCTATATAGTTCAATAGTTCA
122 TT-TATATAATTCATATATATTTTATATATAAACTA-TGCAATTTCTATATAGTTCAATAGTTCA
*
36892 TATATAAACTATATAGTATTATAGTTTATACATGGTATATATAGTTTATACATAATATATATATA
185 TATATAAACTATATAGTATTATAATTTATACATGGTATATATAGTTTATACATAATATATATATA
36957 TATAAACTATATAGTTTATATATATAATACATATACTTTATATATA
250 TATAAACTATATAGTTTATATATATAATACATATACTTTATATATA
37003 AACTATATAG
Statistics
Matches: 276, Mismatches: 7, Indels: 26
0.89 0.02 0.08
Matches are distributed among these distances:
347 5 0.02
348 39 0.14
349 142 0.51
350 28 0.10
351 18 0.07
352 24 0.09
353 4 0.01
354 16 0.06
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.43
Consensus pattern (347 bp):
CCTAAACCCTAAACCCTAAACCATATACTATATATATAAATATATAGTTTATTAATAAACTATAT
TTATACAATATATATTATTTATAATTATACATAATATATAAATATAAATTGTATAGTTTATATAA
TTCATATATATTTTATATATAAACTATGCAATTTCTATATAGTTCAATAGTTCATATATAAACTA
TATAGTATTATAATTTATACATGGTATATATAGTTTATACATAATATATATATATATAAACTATA
TAGTTTATATATATAATACATATACTTTATATATATATATAAACTACATATTTCTAAACCATAAA
CCTTAAATCATAAACCTTGAAT
Found at i:36976 original size:22 final size:22
Alignment explanation
Indices: 36951--37016 Score: 93
Period size: 22 Copynumber: 3.1 Consensus size: 22
36941 ACATAATATA
36951 TATATATATAAACTATATAGTT
1 TATATATATAAACTATATAGTT
*
36973 TATATATATAATAC-ATATA-CT
1 TATATATATAA-ACTATATAGTT
36994 T-TATATATAAACTATATAGTT
1 TATATATATAAACTATATAGTT
37015 TA
1 TA
37017 CATTGATCCC
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
19 2 0.05
20 14 0.37
21 4 0.11
22 16 0.42
23 2 0.05
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (22 bp):
TATATATATAAACTATATAGTT
Found at i:37396 original size:204 final size:202
Alignment explanation
Indices: 37019--37478 Score: 658
Period size: 204 Copynumber: 2.2 Consensus size: 202
37009 ATAGTTTACA
37019 TTGATCCCTCATCAATGTGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTATT
1 TTGATCCCTCATCAA--TGTGTTGTTTAATTTATTTAAA----T-TTT-T-A--TCATATTTATT
* * * *
37084 CAATTTTGTCCTCCAAATTTTATTTGCATCTGAAATTGACCCGTACTTATTACTTATTTCTATTT
55 CAATTTAGTCCTCCAAATTTTATTTGCATATGAAATTGACCCATACTTATTACTTAATTCTATTT
*
37149 TTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACATC
120 TTAAATTAGCCCATAACTTTTTAAATGGGTATAATTTAGTAC--TTTT-TATTAATTTCAACATC
37214 ACAATTTAAAATTATTTCGAT
182 ACAATTTAAAATTATTTCGAT
*
37235 TTGATCCCTCATCAATGTGTTGTTTAATTTATTTAAATTTTTAT-ATATTTGTTCAATTTAGTCC
1 TTGATCCCTCATCAATGTGTTGTTTAATTTATTTAAATTTTTATCATATTTATTCAATTTAGTCC
* *
37299 TCCAAATTTTATTTGCATATGAAATTGATCCATACTTATTACTTAATTCTATTTTTTAATTAGCC
66 TCCAAATTTTATTTGCATATGAAATTGACCCATACTTATTACTTAATTCTATTTTTAAATTAGCC
* *
37364 CATAACTTTTTAAATGGGTATAATTTAGTACTTTTTATTAATTTCAACCTCTCAATTTAAAATTA
131 CATAACTTTTTAAATGGGTATAATTTAGTACTTTTTATTAATTTCAACATCACAATTTAAAATTA
37429 TTTCGAT
196 TTTCGAT
37436 TTGAT-CC-CATCAATGTG-TGTTGTTAATTTATTTAAATTTTTAT
1 TTGATCCCTCATCAATGTGTTG-T-TTAATTTATTTAAATTTTTAT
37479 TTGTAATTTC
Statistics
Matches: 232, Mismatches: 10, Indels: 20
0.89 0.04 0.08
Matches are distributed among these distances:
198 2 0.01
199 11 0.05
200 23 0.10
201 40 0.17
202 4 0.02
204 108 0.47
205 1 0.00
207 1 0.00
208 1 0.00
209 3 0.01
210 1 0.00
214 22 0.09
216 15 0.06
ACGTcount: A:0.29, C:0.13, G:0.08, T:0.50
Consensus pattern (202 bp):
TTGATCCCTCATCAATGTGTTGTTTAATTTATTTAAATTTTTATCATATTTATTCAATTTAGTCC
TCCAAATTTTATTTGCATATGAAATTGACCCATACTTATTACTTAATTCTATTTTTAAATTAGCC
CATAACTTTTTAAATGGGTATAATTTAGTACTTTTTATTAATTTCAACATCACAATTTAAAATTA
TTTCGAT
Found at i:38672 original size:23 final size:23
Alignment explanation
Indices: 38646--38689 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
38636 AAACATAAAA
* *
38646 TTAATTTTACAAATATTAAAATT
1 TTAATTTTAAAAATATAAAAATT
38669 TTAATTTTAAAAATATAAAAA
1 TTAATTTTAAAAATATAAAAA
38690 ATGAGAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
TTAATTTTAAAAATATAAAAATT
Found at i:39263 original size:30 final size:30
Alignment explanation
Indices: 39222--39278 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
39212 ATAAAATTTT
*
39222 GAAAAAAATTAAAAATTTAGATATTAATAC
1 GAAAAAAATTAAAAATTTAAATATTAATAC
* *
39252 GAAAAACATTAATAATTTAAATATTAA
1 GAAAAAAATTAAAAATTTAAATATTAA
39279 ATACATAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.32
Consensus pattern (30 bp):
GAAAAAAATTAAAAATTTAAATATTAATAC
Found at i:40167 original size:216 final size:216
Alignment explanation
Indices: 39787--40635 Score: 1522
Period size: 216 Copynumber: 3.9 Consensus size: 216
39777 AGTAATCGAG
39787 GATCTA-TTAATTATTTTCTAGAATTGTTTTGCCTTTTCTTTAAGATCGTTGTATTGACTTCCTG
1 GATCTATTTAATTATTTTCTAGAATTGTTTTGCCTTTTCTTTAAGATCGTTGTATTGACTTCCTG
39851 ATTTATATGATATTTGCTTTTAGTATGAATAAGTGATTAATATTTTACGAAGTGGATTTGTTATG
66 ATTTATATGATATTTGCTTTTAGTATGAATAAGTGATTAATATTTTACGAAGTGGATTTGTTATG
39916 AGATTTTGTTGAGATCTAATGATTTCCGATAGTCAATCTGTAAATCGATCATTCGGTCTTTTTTA
131 AGATTTTGTTGAGATCTAATGATTTCCGATAGTCAATCTGTAAATCGATCATTCGGTCTTTTTTA
39981 GATGTTATTATGTTTTGTTGA
196 GATGTTATTATGTTTTGTTGA
40002 GATCTATTTAATTATTTTCTAGAATTGTTTTGCCTTTTCTTTAAGATCGTTGTATTGACTTCCTG
1 GATCTATTTAATTATTTTCTAGAATTGTTTTGCCTTTTCTTTAAGATCGTTGTATTGACTTCCTG
40067 ATTTATATGATATTTGCTTTTAGTATGAATAAGTGATTAATATTTTACGAAGTGGATTTGTTATG
66 ATTTATATGATATTTGCTTTTAGTATGAATAAGTGATTAATATTTTACGAAGTGGATTTGTTATG
40132 AGATTTTGTTGAGATCTAATGATTTCCGATAGTCAATCTGTAAATCGATCATTCGGTCTTTTTTA
131 AGATTTTGTTGAGATCTAATGATTTCCGATAGTCAATCTGTAAATCGATCATTCGGTCTTTTTTA
40197 GATGTTATTATGTTTTGTTGA
196 GATGTTATTATGTTTTGTTGA
40218 GATCTATTTAATTATTTTCTAGAATTGTTTTGCCTTTTCTTTAAGATCGTTGTATTGACTTCCTG
1 GATCTATTTAATTATTTTCTAGAATTGTTTTGCCTTTTCTTTAAGATCGTTGTATTGACTTCCTG
* * *
40283 TTTTATATGATATTTGCTTTTAGTATGAATAAGTGATTAATATTTTATGAGGTGGATTTGTTATG
66 ATTTATATGATATTTGCTTTTAGTATGAATAAGTGATTAATATTTTACGAAGTGGATTTGTTATG
*
40348 AGATTTTGTTGAGATCTAATGATTTCTGATAGTCAATCTGTAAATCGATCATTCGGTCTTTTTTA
131 AGATTTTGTTGAGATCTAATGATTTCCGATAGTCAATCTGTAAATCGATCATTCGGTCTTTTTTA
* *
40413 GATGCTATTCTGTTTTGTTGA
196 GATGTTATTATGTTTTGTTGA
* * *
40434 GATTTATTTAATTATTTTCTAGAGTTGTTTTGCCTTTTCTTTAAGATCGTTGTATTGACTTCCTA
1 GATCTATTTAATTATTTTCTAGAATTGTTTTGCCTTTTCTTTAAGATCGTTGTATTGACTTCCTG
*
40499 ATTTATATGATATTTGCTTTTAGTATGAATAAGTGATTAATATTTTATGAAGTGGATTTGTTAAT
66 ATTTATATGATATTTGCTTTTAGTATGAATAAGTGATTAATATTTTACGAAGTGGATTTGTT-AT
* ** * * * *
40564 -AGATTTTGTTGAGATCTAATGATTTCCTATAGTCAGCCCGTAAATCAATCATTCTGTCCTTTTT
130 GAGATTTTGTTGAGATCTAATGATTTCCGATAGTCAATCTGTAAATCGATCATTCGGTCTTTTTT
40628 AGATGTTA
195 AGATGTTA
40636 AATTGTGATA
Statistics
Matches: 612, Mismatches: 20, Indels: 3
0.96 0.03 0.00
Matches are distributed among these distances:
215 6 0.01
216 604 0.99
217 2 0.00
ACGTcount: A:0.25, C:0.10, G:0.17, T:0.49
Consensus pattern (216 bp):
GATCTATTTAATTATTTTCTAGAATTGTTTTGCCTTTTCTTTAAGATCGTTGTATTGACTTCCTG
ATTTATATGATATTTGCTTTTAGTATGAATAAGTGATTAATATTTTACGAAGTGGATTTGTTATG
AGATTTTGTTGAGATCTAATGATTTCCGATAGTCAATCTGTAAATCGATCATTCGGTCTTTTTTA
GATGTTATTATGTTTTGTTGA
Found at i:42911 original size:22 final size:20
Alignment explanation
Indices: 42877--42924 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
42867 CAACTTAATT
42877 TTTTTTGATTTTTTATTAAA
1 TTTTTTGATTTTTTATTAAA
* *
42897 TGTTTTTGGTATTTTTATTTAA
1 T-TTTTTGAT-TTTTTATTAAA
42919 TTTTTT
1 TTTTTT
42925 AAATAATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.04
21 12 0.50
22 11 0.46
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.73
Consensus pattern (20 bp):
TTTTTTGATTTTTTATTAAA
Found at i:48714 original size:17 final size:17
Alignment explanation
Indices: 48692--48730 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
48682 TGAATCAAAT
48692 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
48709 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
48726 -AATTA
1 TAATTA
48731 ATTGTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TAATTAGATATTATTTA
Found at i:49465 original size:40 final size:38
Alignment explanation
Indices: 49421--49496 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 38
49411 TTTTGAACGG
49421 GTACTAAAATGAAACAAAAAATAAAGCTTTTAACGATGAT
1 GTACTAAAATGAAAC-AAAAATAAAG-TTTTAACGATGAT
* * *
49461 GTACTAAAATGTAACAAAACTAAAGTTTTTACGATG
1 GTACTAAAATGAAACAAAAATAAAGTTTTAACGATG
49497 GATTCTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 10 0.30
39 9 0.27
40 14 0.42
ACGTcount: A:0.49, C:0.11, G:0.13, T:0.28
Consensus pattern (38 bp):
GTACTAAAATGAAACAAAAATAAAGTTTTAACGATGAT
Found at i:50490 original size:23 final size:23
Alignment explanation
Indices: 50438--50484 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
50428 TAGATAGATC
*
50438 ACGTTTTTAAAGTCTTTCTTTTA
1 ACGTTTTTAAAGTATTTCTTTTA
50461 ACGTTTTTAAAGTATTTCTTTTA
1 ACGTTTTTAAAGTATTTCTTTTA
50484 A
1 A
50485 TTTTTTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.11, G:0.09, T:0.55
Consensus pattern (23 bp):
ACGTTTTTAAAGTATTTCTTTTA
Found at i:51987 original size:16 final size:16
Alignment explanation
Indices: 51966--51997 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
51956 AAAAATAGAC
51966 TTAAATGAAGAATGAA
1 TTAAATGAAGAATGAA
*
51982 TTAAATGAATAATGAA
1 TTAAATGAAGAATGAA
51998 ATCACGAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.16, T:0.28
Consensus pattern (16 bp):
TTAAATGAAGAATGAA
Found at i:54615 original size:18 final size:18
Alignment explanation
Indices: 54592--54626 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
54582 TTTTTTCATT
*
54592 ATTAAAATTTAAATAATA
1 ATTAAAAATTAAATAATA
*
54610 ATTAAAAATTATATAAT
1 ATTAAAAATTAAATAAT
54627 TGCAGGGTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATTAAAAATTAAATAATA
Found at i:56369 original size:24 final size:23
Alignment explanation
Indices: 56337--56393 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
56327 ATATAAAATT
* *
56337 AACACTAAATGACCATGTTCATG
1 AACAATAAATGAACATGTTCATG
* **
56360 AACAAATAAACGAACATGTTTGTG
1 AAC-AATAAATGAACATGTTCATG
56384 AACAATAAAT
1 AACAATAAAT
56394 AAATGAACAC
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
23 9 0.33
24 18 0.67
ACGTcount: A:0.47, C:0.16, G:0.12, T:0.25
Consensus pattern (23 bp):
AACAATAAATGAACATGTTCATG
Found at i:56713 original size:2 final size:2
Alignment explanation
Indices: 56706--56744 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
56696 TATTATTAAT
*
56706 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
56745 TTAAAAACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:56749 original size:12 final size:12
Alignment explanation
Indices: 56706--56749 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
56696 TATTATTAAT
*
56706 TATATATATATA
1 TATATAAATATA
*
56718 TATATATATATA
1 TATATAAATATA
56730 TATATAAATATA
1 TATATAAATATA
*
56742 TATTTAAA
1 TATATAAA
56750 AACATTATAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
TATATAAATATA
Found at i:63657 original size:80 final size:81
Alignment explanation
Indices: 63524--63685 Score: 281
Period size: 80 Copynumber: 2.0 Consensus size: 81
63514 GAGCCTTCGA
* *
63524 TAGATCGAGATGATTTAGTCTGCATGTTCCAAGCAGGGATTCCGGTAACTCCTCCTGTGTA-TTA
1 TAGATCGAGATGATTTAGCCTGCACGTTCCAAGCAGGGATTCCGGTAACTCCTCCTGTGTATTTA
63588 CCCTGAAAAAGTAGTT
66 CCCTGAAAAAGTAGTT
* *
63604 TAGATCGAGATGGTTTAGCCTGCACGTTCCAAGTAGGGATTCCGGTAACTCCTCCTGTGTATTTA
1 TAGATCGAGATGATTTAGCCTGCACGTTCCAAGCAGGGATTCCGGTAACTCCTCCTGTGTATTTA
63669 CCCTGAAAAAGTAGTT
66 CCCTGAAAAAGTAGTT
63685 T
1 T
63686 GGATTGTAAT
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
80 57 0.74
81 20 0.26
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.31
Consensus pattern (81 bp):
TAGATCGAGATGATTTAGCCTGCACGTTCCAAGCAGGGATTCCGGTAACTCCTCCTGTGTATTTA
CCCTGAAAAAGTAGTT
Found at i:64488 original size:15 final size:15
Alignment explanation
Indices: 64467--64513 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
64457 TAGCTAGGTA
*
64467 GGCGGATGTGAGGCG
1 GGCGGATGCGAGGCG
* *
64482 TGCGGATGCGGGGCG
1 GGCGGATGCGAGGCG
*
64497 GGCGGATGCGGGGCG
1 GGCGGATGCGAGGCG
64512 GG
1 GG
64514 TAATGTCTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.09, C:0.17, G:0.64, T:0.11
Consensus pattern (15 bp):
GGCGGATGCGAGGCG
Found at i:73331 original size:14 final size:15
Alignment explanation
Indices: 73292--73336 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
73282 CAAGAGTAAC
73292 AAGCAGTAGAATCGA
1 AAGCAGTAGAATCGA
* *
73307 AAACAG-CGAATC-A
1 AAGCAGTAGAATCGA
73320 AAGCAGTAGAATCGA
1 AAGCAGTAGAATCGA
73335 AA
1 AA
73337 ACAAGAAATC
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
13 6 0.25
14 10 0.42
15 8 0.33
ACGTcount: A:0.51, C:0.16, G:0.22, T:0.11
Consensus pattern (15 bp):
AAGCAGTAGAATCGA
Found at i:73346 original size:28 final size:28
Alignment explanation
Indices: 73292--73349 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
73282 CAAGAGTAAC
*
73292 AAGCAGTAGAATCGAAAACAGCGAATCA
1 AAGCAGTAGAATCGAAAACAGCAAATCA
73320 AAGCAGTAGAATCGAAAACAAG-AAATCA
1 AAGCAGTAGAATCGAAAAC-AGCAAATCA
73348 AA
1 AA
73350 TTGTAGCAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
28 26 0.93
29 2 0.07
ACGTcount: A:0.55, C:0.16, G:0.19, T:0.10
Consensus pattern (28 bp):
AAGCAGTAGAATCGAAAACAGCAAATCA
Found at i:74369 original size:2 final size:2
Alignment explanation
Indices: 74362--74419 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
74352 TCTAACCATA
74362 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
74404 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
74420 CTTTCATATT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:75058 original size:160 final size:159
Alignment explanation
Indices: 74764--75083 Score: 473
Period size: 160 Copynumber: 2.0 Consensus size: 159
74754 TTGAAGGAAC
* *
74764 AAGAGATTATGAAAAATTGAAGGACTAAATTGAAAAATAAAAATTTGTTATCAAAAAGAGGAATT
1 AAGAGATTATGAAAAATTGAAGGACTAAATTGAAAAATAAAAAATTATTATCAAAAAGAGGAATT
* * * * * * *
74829 GAAAGTACACATGTATTCTACTATGGTTTAGGATCATGTGACTCAAATTTGGTAAAACAAATGGA
66 GAAAGTACACATGCATTCTACTATGGTTTAGCAACATGTGACTCAAATCTAGTAAAAAAAATAGA
*
74894 CTTAAAATAAATGACGAA-CTGAAGAAATA
131 CTTAAAATAAAGGACGAATC-GAAGAAATA
*
74923 AAGAGATTATGAAAAATTGAATGACTAAATTGAAAAATAAAAAAATTATTATCAAAAAGAGGAAT
1 AAGAGATTATGAAAAATTGAAGGACTAAATTGAAAAAT-AAAAAATTATTATCAAAAAGAGGAAT
*
74988 TGAAAGTACACATGCATTCTACTATGGTTTAGCAACATGTGATTCAAATCTAG-AAAAAAATATA
65 TGAAAGTACACATGCATTCTACTATGGTTTAGCAACATGTGACTCAAATCTAGTAAAAAAA-ATA
* *
75052 GACTTAAAATGAAGGAGGAATCGAAGAAATA
129 GACTTAAAATAAAGGACGAATCGAAGAAATA
75083 A
1 A
75084 TGAAATTAAG
Statistics
Matches: 144, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
159 43 0.30
160 100 0.69
161 1 0.01
ACGTcount: A:0.49, C:0.08, G:0.17, T:0.26
Consensus pattern (159 bp):
AAGAGATTATGAAAAATTGAAGGACTAAATTGAAAAATAAAAAATTATTATCAAAAAGAGGAATT
GAAAGTACACATGCATTCTACTATGGTTTAGCAACATGTGACTCAAATCTAGTAAAAAAAATAGA
CTTAAAATAAAGGACGAATCGAAGAAATA
Found at i:75267 original size:31 final size:33
Alignment explanation
Indices: 75231--75316 Score: 131
Period size: 31 Copynumber: 2.6 Consensus size: 33
75221 ATTGTCAATA
* *
75231 ATTATAAAATAATCGTTAATTTTATT-AA-ATT
1 ATTATAAAATAATCATTAAATTTATTGAACATT
75262 ATTATAAAATAATCATTAAATTTATTGAACTATT
1 ATTATAAAATAATCATTAAATTTATTGAAC-ATT
75296 ATTATAAAATAATCATTAAAT
1 ATTATAAAATAATCATTAAAT
75317 CTTAACTTTA
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
31 24 0.48
32 2 0.04
34 24 0.48
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (33 bp):
ATTATAAAATAATCATTAAATTTATTGAACATT
Found at i:77784 original size:19 final size:18
Alignment explanation
Indices: 77760--77795 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
77750 CAGCAACAAT
77760 TTCTTCTTCTTCCTCCTCA
1 TTCTTCTTC-TCCTCCTCA
77779 TTCTTCTTCTCCTCCTC
1 TTCTTCTTCTCCTCCTC
77796 CTCCTCCTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.03, C:0.44, G:0.00, T:0.53
Consensus pattern (18 bp):
TTCTTCTTCTCCTCCTCA
Found at i:77821 original size:24 final size:25
Alignment explanation
Indices: 77768--77821 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 25
77758 ATTTCTTCTT
* *
77768 CTTCCTCCTCATTCTTCTTCTCCTC
1 CTTCCTCCTCATCCTTCATCTCCTC
* *
77793 C-TCCTCCTCCTCCTTCATC-CTTC
1 CTTCCTCCTCATCCTTCATCTCCTC
77816 CTTCCT
1 CTTCCT
77822 TCCTTCCTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
23 4 0.17
24 19 0.79
25 1 0.04
ACGTcount: A:0.04, C:0.52, G:0.00, T:0.44
Consensus pattern (25 bp):
CTTCCTCCTCATCCTTCATCTCCTC
Found at i:78552 original size:33 final size:33
Alignment explanation
Indices: 78515--78605 Score: 128
Period size: 33 Copynumber: 2.8 Consensus size: 33
78505 CCAACACGCT
*
78515 GGGCATCCGAGGCCATCCGAACGAGCTATGCGA
1 GGGCATCCGAGGCCAACCGAACGAGCTATGCGA
* *
78548 GGGCATCCGAGGGCAACCGAGCGAGCTATGCGA
1 GGGCATCCGAGGCCAACCGAACGAGCTATGCGA
* * *
78581 GGGAATCCGAGGGCAACCGAGCGAG
1 GGGCATCCGAGGCCAACCGAACGAG
78606 GGTAGGTCGC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.25, C:0.27, G:0.38, T:0.09
Consensus pattern (33 bp):
GGGCATCCGAGGCCAACCGAACGAGCTATGCGA
Found at i:78560 original size:10 final size:10
Alignment explanation
Indices: 78515--78601 Score: 57
Period size: 10 Copynumber: 8.1 Consensus size: 10
78505 CCAACACGCT
78515 GGGCATCCGA
1 GGGCATCCGA
*
78525 GGCCATCCGAA
1 GGGCATCCG-A
* *
78536 CGAGCTATGCGA
1 -GGGC-ATCCGA
78548 GGGCATCCGA
1 GGGCATCCGA
*
78558 GGGCAACCGA
1 GGGCATCCGA
*
78568 GCGAGCTATGCGA
1 G-G-GC-ATCCGA
*
78581 GGGAATCCGA
1 GGGCATCCGA
*
78591 GGGCAACCGA
1 GGGCATCCGA
78601 G
1 G
78602 CGAGGGTAGG
Statistics
Matches: 58, Mismatches: 13, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
10 37 0.64
11 6 0.10
12 6 0.10
13 9 0.16
ACGTcount: A:0.25, C:0.28, G:0.38, T:0.09
Consensus pattern (10 bp):
GGGCATCCGA
Found at i:78674 original size:30 final size:30
Alignment explanation
Indices: 78607--78675 Score: 104
Period size: 29 Copynumber: 2.3 Consensus size: 30
78597 CCGAGCGAGG
78607 GTAGGTCGCCCGGAGTACATGGCAACCTAC
1 GTAGGTCGCCCGGAGTACATGGCAACCTAC
* * *
78637 -AAGGTCGCCCGGAGTGCATGGCGACCTAC
1 GTAGGTCGCCCGGAGTACATGGCAACCTAC
78666 GTAGGTCGCC
1 GTAGGTCGCC
78676 ATGCACTCCG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 26 0.76
30 8 0.24
ACGTcount: A:0.20, C:0.30, G:0.33, T:0.16
Consensus pattern (30 bp):
GTAGGTCGCCCGGAGTACATGGCAACCTAC
Found at i:78705 original size:29 final size:30
Alignment explanation
Indices: 78656--78723 Score: 102
Period size: 29 Copynumber: 2.3 Consensus size: 30
78646 CGGAGTGCAT
78656 GGCGACCTACGTAGGTCGCCATGCACTCCG
1 GGCGACCTACGTAGGTCGCCATGCACTCCG
* * *
78686 GGCGACCT-TGTAGGTTGCCATGTACTCCG
1 GGCGACCTACGTAGGTCGCCATGCACTCCG
78715 GGCGACCTA
1 GGCGACCTA
78724 TCCTCGCTCG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 26 0.76
30 8 0.24
ACGTcount: A:0.16, C:0.32, G:0.31, T:0.21
Consensus pattern (30 bp):
GGCGACCTACGTAGGTCGCCATGCACTCCG
Found at i:78765 original size:33 final size:33
Alignment explanation
Indices: 78726--78808 Score: 130
Period size: 33 Copynumber: 2.5 Consensus size: 33
78716 GCGACCTATC
* *
78726 CTCGCTCGGTTGCCCTCGGATTCCCTCGCATAG
1 CTCGCTCGGTTGCCCTCGGATGCCATCGCATAG
78759 CTCGCTCGGTTGCCCTCGGATGCCATCGCATAG
1 CTCGCTCGGTTGCCCTCGGATGCCATCGCATAG
* *
78792 CTCGTTCGGATGCCCTC
1 CTCGCTCGGTTGCCCTC
78809 ACATAGCTCG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.10, C:0.39, G:0.25, T:0.27
Consensus pattern (33 bp):
CTCGCTCGGTTGCCCTCGGATGCCATCGCATAG
Found at i:78782 original size:10 final size:10
Alignment explanation
Indices: 78730--78893 Score: 58
Period size: 10 Copynumber: 15.1 Consensus size: 10
78720 CCTATCCTCG
*
78730 CTCGGTTGCC
1 CTCGGATGCC
*
78740 CTCGGATTCC
1 CTCGGATGCC
*
78750 CTCGCATAGCTC
1 CTCGGAT-GC-C
*
78762 GCTCGGTTGCC
1 -CTCGGATGCC
78773 CTCGGATGCC
1 CTCGGATGCC
* *
78783 ATCGCATAGCTC
1 CTCGGAT-GC-C
*
78795 GTTCGGATGCC
1 -CTCGGATGCC
**
78806 CTCACATAGCTC
1 CTCGGAT-GC-C
* *
78818 GTTCGGATGGC
1 -CTCGGATGCC
*
78829 CTCGGATGCT
1 CTCGGATGCC
*
78839 CTCGGATGGC
1 CTCGGATGCC
* * *
78849 ATCGGAAGCT
1 CTCGGATGCC
*
78859 TTCGGATGGCC
1 CTCGGAT-GCC
78870 TCAGTCGGATGCC
1 -C--TCGGATGCC
78883 CTCGGATGCC
1 CTCGGATGCC
78893 C
1 C
78894 AGCGTGTTGG
Statistics
Matches: 110, Mismatches: 31, Indels: 26
0.66 0.19 0.16
Matches are distributed among these distances:
10 68 0.62
11 10 0.09
12 9 0.08
13 17 0.15
14 6 0.05
ACGTcount: A:0.13, C:0.34, G:0.29, T:0.25
Consensus pattern (10 bp):
CTCGGATGCC
Found at i:78800 original size:23 final size:23
Alignment explanation
Indices: 78774--78826 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
78764 TCGGTTGCCC
*
78774 TCGGATGCCATCGCATAGCTCGT
1 TCGGATGCCATCACATAGCTCGT
*
78797 TCGGATGCCCTCACATAGCTCGT
1 TCGGATGCCATCACATAGCTCGT
78820 TCGGATG
1 TCGGATG
78827 GCCTCGGATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.17, C:0.30, G:0.26, T:0.26
Consensus pattern (23 bp):
TCGGATGCCATCACATAGCTCGT
Found at i:78845 original size:20 final size:20
Alignment explanation
Indices: 78820--78871 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
78810 CATAGCTCGT
*
78820 TCGGATGGCCTCGGATGCTC
1 TCGGATGGCCTCGGAAGCTC
* *
78840 TCGGATGGCATCGGAAGCTT
1 TCGGATGGCCTCGGAAGCTC
78860 TCGGATGGCCTC
1 TCGGATGGCCTC
78872 AGTCGGATGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.13, C:0.27, G:0.35, T:0.25
Consensus pattern (20 bp):
TCGGATGGCCTCGGAAGCTC
Found at i:79236 original size:29 final size:29
Alignment explanation
Indices: 79194--79253 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
79184 AACAGCCCAC
*
79194 AGGTCGCTCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
79223 AGGTCGCCCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
79252 AG
1 AG
79254 CTCACTGTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.18, C:0.35, G:0.32, T:0.15
Consensus pattern (29 bp):
AGGTCGCCCGGATGCCATGGCGACCTCCA
Found at i:80403 original size:147 final size:147
Alignment explanation
Indices: 80158--80573 Score: 401
Period size: 147 Copynumber: 2.8 Consensus size: 147
80148 TTCAGTCCGG
* * * * ** * *
80158 CATTTCATCGAACAGTGAAGATGCTGAAAATGCAACCAAGGAAGAT-AACCTGA-TATCCGATCT
1 CATTTCATCGAACATTGGAGATGCAGAAAATACAATTAAGGAAGATAAACC-GACT-TCTGAACT
* * * * *
80221 TAAAGAGGAGGTTACTGAAATGGATAACTCGGGGGTTGTGGAAG-TCAAAGTTAATGTAGTCAAG
64 TAAGGAGGAGGTTACTGAAATGGATAATTCTGGGGTTGTGGAAGAT-AAAGTTGATGTAGCCAAG
* *
80285 TCGACAACAGTTCAATCTGG
128 TCGACAACAGTTCAACCTGA
* * ** *
80305 CATTTCATCGAACATTGCG-GATGCAGAAAATGCAATTATGGGAA-ATAAACTTACTTCTGAGCT
1 CATTTCATCGAACATTG-GAGATGCAGAAAATACAATTA-AGGAAGATAAACCGACTTCTGAACT
* * * * *
80368 TAAGGAGGAGGTTACTGAAATGGATGATTATGGGGTTGTGGCAGATAAAGTTGTTGCAGCCAAGT
64 TAAGGAGGAGGTTACTGAAATGGATAATTCTGGGGTTGTGGAAGATAAAGTTGATGTAGCCAAGT
* ** *
80433 CGACTATTGTTCAGCCTGA
129 CGACAACAGTTCAACCTGA
* * * * *
80452 CATTTCGTCGAACGTTGGAGATGCTGAAAATACAATTAAGGAAGATAACCCGACTTCTGAACTGA
1 CATTTCATCGAACATTGGAGATGCAGAAAATACAATTAAGGAAGATAAACCGACTTCTGAACTTA
* * * **
80517 AGGAGGAAGTTACCGAAATGGACAATTCTGGATTTGTGGAAGATAAAGTTGATGTAG
66 AGGAGGAGGTTACTGAAATGGATAATTCTGGGGTTGTGGAAGATAAAGTTGATGTAG
80574 AAAAGAAAGA
Statistics
Matches: 216, Mismatches: 46, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
146 5 0.02
147 202 0.94
148 9 0.04
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (147 bp):
CATTTCATCGAACATTGGAGATGCAGAAAATACAATTAAGGAAGATAAACCGACTTCTGAACTTA
AGGAGGAGGTTACTGAAATGGATAATTCTGGGGTTGTGGAAGATAAAGTTGATGTAGCCAAGTCG
ACAACAGTTCAACCTGA
Found at i:83842 original size:39 final size:39
Alignment explanation
Indices: 83799--83878 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
83789 CCATGATGTT
83799 TACCATAGCGTAGACAGTGAGTATCGCAATGATACTCAC
1 TACCATAGCGTAGACAGTGAGTATCGCAATGATACTCAC
*
83838 TACCATAGCGTAGACAGTGAGTATCGTAATGATACTCAC
1 TACCATAGCGTAGACAGTGAGTATCGCAATGATACTCAC
83877 TA
1 TA
83879 ATGTTGTATT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (39 bp):
TACCATAGCGTAGACAGTGAGTATCGCAATGATACTCAC
Found at i:91011 original size:22 final size:25
Alignment explanation
Indices: 90986--91036 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
90976 CTCCATTAGC
*
90986 AAGC-TTGA-AGGAG-TGGCGAGCT
1 AAGCGTTGAGAGGAGCTAGCGAGCT
91008 AAGCGTTTGAGAGGAGCTAGCGAGCT
1 AAGCG-TTGAGAGGAGCTAGCGAGCT
91034 AAG
1 AAG
91037 GCGGTTTATG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 4 0.17
24 4 0.17
25 5 0.21
26 11 0.46
ACGTcount: A:0.29, C:0.14, G:0.39, T:0.18
Consensus pattern (25 bp):
AAGCGTTGAGAGGAGCTAGCGAGCT
Found at i:94654 original size:2 final size:2
Alignment explanation
Indices: 94647--94688 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
94637 CTTGCAGGAA
94647 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
94689 GTAAAAGGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:97292 original size:23 final size:23
Alignment explanation
Indices: 97248--97292 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
97238 CTATTTTTAT
*
97248 TTATATTCGATTATGTTAATTTG
1 TTATATTCGATTATATTAATTTG
* * *
97271 TTATGTTCGTTTATATTCATTT
1 TTATATTCGATTATATTAATTT
97293 ACATCTATTT
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:0.07, G:0.11, T:0.60
Consensus pattern (23 bp):
TTATATTCGATTATATTAATTTG
Found at i:97728 original size:21 final size:22
Alignment explanation
Indices: 97702--97774 Score: 73
Period size: 21 Copynumber: 3.5 Consensus size: 22
97692 GATCATGGTG
97702 TAATTATTTAATAA-AATTTAA
1 TAATTATTTAATAATAATTTAA
* *
97723 TAATTATTTTATAATAATTTGA
1 TAATTATTTAATAATAATTTAA
* * *
97745 TAA--ATTTAATATTCATTTTA
1 TAATTATTTAATAATAATTTAA
97765 TAA-TATTTAA
1 TAATTATTTAA
97775 AAATTTGATG
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
20 16 0.36
21 19 0.43
22 9 0.20
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (22 bp):
TAATTATTTAATAATAATTTAA
Found at i:97736 original size:11 final size:11
Alignment explanation
Indices: 97702--97779 Score: 58
Period size: 11 Copynumber: 7.5 Consensus size: 11
97692 GATCATGGTG
97702 TAATTATTTAA
1 TAATTATTTAA
*
97713 TAA-AATTTAA
1 TAATTATTTAA
*
97723 TAATTATTTTA
1 TAATTATTTAA
* *
97734 TAATAATTTGA
1 TAATTATTTAA
97745 TAA--ATTTAA
1 TAATTATTTAA
*
97754 T-ATTCATTTTA
1 TAATT-ATTTAA
97765 TAA-TATTTAA
1 TAATTATTTAA
*
97775 AAATT
1 TAATT
97780 TGATGGTTAA
Statistics
Matches: 52, Mismatches: 9, Indels: 12
0.71 0.12 0.16
Matches are distributed among these distances:
8 1 0.02
9 6 0.12
10 16 0.31
11 28 0.54
12 1 0.02
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (11 bp):
TAATTATTTAA
Found at i:97753 original size:31 final size:30
Alignment explanation
Indices: 97654--97769 Score: 99
Period size: 31 Copynumber: 3.7 Consensus size: 30
97644 ATAATCATTC
* * *
97654 AATTTATTATAATATTATAA-AATTTGGATA
1 AATTTAATATTATTTTATAATAATTT-GATA
* ** * * *
97684 AATTTAATGATCATGGTGTAATTATTTAATAA
1 AATTTAAT-ATTATTTTATAATAATTTGAT-A
97716 AATTTAATAATTATTTTATAATAATTTGATA
1 AATTTAAT-ATTATTTTATAATAATTTGATA
97747 AATTTAATATTCATTTTATAATA
1 AATTTAATATT-ATTTTATAATA
97770 TTTAAAAATT
Statistics
Matches: 68, Mismatches: 14, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
30 10 0.15
31 30 0.44
32 28 0.41
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (30 bp):
AATTTAATATTATTTTATAATAATTTGATA
Found at i:98580 original size:24 final size:24
Alignment explanation
Indices: 98552--98623 Score: 108
Period size: 24 Copynumber: 2.9 Consensus size: 24
98542 CTATTCTTTC
98552 GCTTCAATTGAACTCAAATTTTAG
1 GCTTCAATTGAACTCAAATTTTAG
*
98576 GCTTCAATTGAGCTCAAATTTTAG
1 GCTTCAATTGAACTCAAATTTTAG
*
98600 GCTTCAATCGAACTTCTAAATTTT
1 GCTTCAATTGAAC-TC-AAATTTT
98624 TTTGTGAGTT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
24 34 0.79
25 2 0.05
26 7 0.16
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (24 bp):
GCTTCAATTGAACTCAAATTTTAG
Found at i:103049 original size:43 final size:43
Alignment explanation
Indices: 102978--103073 Score: 147
Period size: 43 Copynumber: 2.2 Consensus size: 43
102968 ACAAATTCAA
* * *
102978 ACAAATCTTAAACAAACTCCACAGTGACATTGAAACATAATCAC
1 ACAAATC-CAAACAAACCCCACAATGACATTGAAACATAATCAC
*
103022 ACAAATCCAAACCAACCCCACAATGACATTGAAACATAATCAC
1 ACAAATCCAAACAAACCCCACAATGACATTGAAACATAATCAC
103065 ACAAATCCA
1 ACAAATCCA
103074 TTGATCAAGC
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
43 41 0.85
44 7 0.15
ACGTcount: A:0.49, C:0.29, G:0.05, T:0.17
Consensus pattern (43 bp):
ACAAATCCAAACAAACCCCACAATGACATTGAAACATAATCAC
Found at i:107819 original size:16 final size:16
Alignment explanation
Indices: 107798--107831 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
107788 TTACTATTCA
*
107798 CGTGAATAGTGAATTT
1 CGTGAATAGTGAAATT
107814 CGTGAATAGTGAAATT
1 CGTGAATAGTGAAATT
107830 CG
1 CG
107832 GTCGGCGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (16 bp):
CGTGAATAGTGAAATT
Found at i:113525 original size:30 final size:32
Alignment explanation
Indices: 113489--113550 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 32
113479 TTGAAAAAAA
113489 AAAATTAA-AGTTTAGATACTAAA-ACAAACT
1 AAAATTAATAGTTTAGATACTAAATACAAACT
* *
113519 AAAATTAATATTTTAGGTACTAAATACAAACT
1 AAAATTAATAGTTTAGATACTAAATACAAACT
113551 TTACCCTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 8 0.29
31 13 0.46
32 7 0.25
ACGTcount: A:0.53, C:0.10, G:0.06, T:0.31
Consensus pattern (32 bp):
AAAATTAATAGTTTAGATACTAAATACAAACT
Found at i:113703 original size:42 final size:42
Alignment explanation
Indices: 113656--113761 Score: 203
Period size: 42 Copynumber: 2.5 Consensus size: 42
113646 TCTTAAATTG
113656 ACATTGAAACATAATCACACAATAATAACACTGGGAATCATT
1 ACATTGAAACATAATCACACAATAATAACACTGGGAATCATT
113698 ACATTGAAACATAATCACACAATAATAACACTGGGAATCATT
1 ACATTGAAACATAATCACACAATAATAACACTGGGAATCATT
*
113740 ACATTCAAACATAATCACACAA
1 ACATTGAAACATAATCACACAA
113762 ATCCATTAAT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.49, C:0.21, G:0.08, T:0.23
Consensus pattern (42 bp):
ACATTGAAACATAATCACACAATAATAACACTGGGAATCATT
Found at i:113708 original size:23 final size:23
Alignment explanation
Indices: 113682--113750 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 23
113672 ACACAATAAT
*
113682 AACACTGGGAATCATTACATTGA
1 AACACTGGGAATCATTACATTAA
* *
113705 AACA-T---AATCA-CACAATAA
1 AACACTGGGAATCATTACATTAA
*
113723 TAACACTGGGAATCATTACATTCA
1 -AACACTGGGAATCATTACATTAA
113747 AACA
1 AACA
113751 TAATCACACA
Statistics
Matches: 34, Mismatches: 6, Indels: 12
0.65 0.12 0.23
Matches are distributed among these distances:
18 5 0.15
19 9 0.26
20 1 0.03
22 1 0.03
23 13 0.38
24 5 0.15
ACGTcount: A:0.46, C:0.20, G:0.10, T:0.23
Consensus pattern (23 bp):
AACACTGGGAATCATTACATTAA
Found at i:113727 original size:19 final size:19
Alignment explanation
Indices: 113663--113727 Score: 51
Period size: 19 Copynumber: 3.2 Consensus size: 19
113653 TTGACATTGA
113663 AACATAATCACACAATAAT
1 AACATAATCACACAATAAT
* * *
113682 AACACTGGGAATCATTACATTGA-
1 AACA-T---AATCA-CACAATAAT
113705 AACATAATCACACAATAAT
1 AACATAATCACACAATAAT
113724 AACA
1 AACA
113728 CTGGGAATCA
Statistics
Matches: 34, Mismatches: 6, Indels: 12
0.65 0.12 0.23
Matches are distributed among these distances:
18 5 0.15
19 13 0.38
20 1 0.03
22 1 0.03
23 9 0.26
24 5 0.15
ACGTcount: A:0.52, C:0.20, G:0.06, T:0.22
Consensus pattern (19 bp):
AACATAATCACACAATAAT
Found at i:116305 original size:24 final size:23
Alignment explanation
Indices: 116276--116329 Score: 81
Period size: 24 Copynumber: 2.3 Consensus size: 23
116266 TCAATTATAA
*
116276 TTACAAATATCTTAAAGTGTAAAT
1 TTACAAATATCTTAAAGAGT-AAT
116300 TTACAAATATCTTAAAGAGTAAT
1 TTACAAATATCTTAAAGAGTAAT
*
116323 TAACAAA
1 TTACAAA
116330 GAAATTTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
23 9 0.32
24 19 0.68
ACGTcount: A:0.50, C:0.09, G:0.07, T:0.33
Consensus pattern (23 bp):
TTACAAATATCTTAAAGAGTAAT
Found at i:119215 original size:19 final size:18
Alignment explanation
Indices: 119179--119215 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
119169 AAGCTCAACC
*
119179 TTTTGCAACGATTGTCAA
1 TTTTGCAACGAGTGTCAA
119197 TTTTGCAACGACGTGTCAA
1 TTTTGCAACGA-GTGTCAA
119216 CATTTCTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (18 bp):
TTTTGCAACGAGTGTCAA
Found at i:133048 original size:24 final size:24
Alignment explanation
Indices: 133021--133134 Score: 133
Period size: 24 Copynumber: 4.8 Consensus size: 24
133011 TTCGATTTGA
*
133021 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATATGATACTTGACATGG
*
133045 ATTCTGATCTGATA-TCTGACATGG
1 ATTCTGATATGATACT-TGACATGG
* *
133069 ATTCTGATATAATACTTGACTTGG
1 ATTCTGATATGATACTTGACATGG
* *
133093 ATTCTGATATGTTACTTGACCT-G
1 ATTCTGATATGATACTTGACATGG
*
133116 ATTTCTGATATGATTCTTG
1 A-TTCTGATATGATACTTG
133135 GCCTGATTTA
Statistics
Matches: 79, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
23 3 0.04
24 75 0.95
25 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.42
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACATGG
Found at i:133139 original size:24 final size:24
Alignment explanation
Indices: 133070--133143 Score: 80
Period size: 24 Copynumber: 3.1 Consensus size: 24
133060 CTGACATGGA
** *
133070 TTCTGATATAATACTTGACTTGGA-
1 TTCTGATATGTTACTTGACCT-GAT
133094 TTCTGATATGTTACTTGACCTGAT
1 TTCTGATATGTTACTTGACCTGAT
*
133118 TTCTGATATGATT-CTTGGCCTGAT
1 TTCTGATATG-TTACTTGACCTGAT
133142 TT
1 TT
133144 ATGTTTTGAT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
23 2 0.05
24 40 0.91
25 2 0.05
ACGTcount: A:0.22, C:0.15, G:0.18, T:0.46
Consensus pattern (24 bp):
TTCTGATATGTTACTTGACCTGAT
Found at i:136357 original size:20 final size:21
Alignment explanation
Indices: 136314--136357 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
136304 CCATAATAAT
* *
136314 TTCAACTTCCCTAAATCTTCA
1 TTCAACTTCCATAAATATTCA
*
136335 TTCAA-TTCCATAAATATTTA
1 TTCAACTTCCATAAATATTCA
136355 TTC
1 TTC
136358 TCATCACCCC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.32, C:0.25, G:0.00, T:0.43
Consensus pattern (21 bp):
TTCAACTTCCATAAATATTCA
Found at i:139436 original size:60 final size:59
Alignment explanation
Indices: 139324--139445 Score: 165
Period size: 60 Copynumber: 2.1 Consensus size: 59
139314 AACATAATAA
*
139324 ATAGTCGGGTGACCATTTTCTAACTTTTGATAGTCGAGGGACTCAACAAAGCAACACTCT
1 ATAGTCGGGTGACCATTTTCTAACTTTTAATAGTCGAGGGACTCAACAAAGCAACAC-CT
* * ** *
139384 ATAGTCGGAG-GATCATTTTGTAACTTTTAATAGTCGAGGGACTCAATGAAGCATCACCT
1 ATAGTCGG-GTGACCATTTTCTAACTTTTAATAGTCGAGGGACTCAACAAAGCAACACCT
139443 ATA
1 ATA
139446 ATTGGGGGAG
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 5 0.09
60 49 0.89
61 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (59 bp):
ATAGTCGGGTGACCATTTTCTAACTTTTAATAGTCGAGGGACTCAACAAAGCAACACCT
Found at i:139466 original size:60 final size:60
Alignment explanation
Indices: 139337--139466 Score: 163
Period size: 60 Copynumber: 2.2 Consensus size: 60
139327 GTCGGGTGAC
* * * *
139337 CATTTTCTAACTTTTGATAGTCGAGGGACTCAACAAAGCAACACTCTATAGTCGGAGGAT
1 CATTTTGTAACTTTTAATAGTCGAGGGACTCAACAAAGCAACACTCTATAATCGGAGGAG
** * * *
139397 CATTTTGTAACTTTTAATAGTCGAGGGACTCAATGAAGCATCAC-CTATAATTGGGGGAG
1 CATTTTGTAACTTTTAATAGTCGAGGGACTCAACAAAGCAACACTCTATAATCGGAGGAG
139456 CATTTGTGTAA
1 CATTT-TGTAA
139467 TTTACCCTAA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
59 16 0.27
60 44 0.73
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.31
Consensus pattern (60 bp):
CATTTTGTAACTTTTAATAGTCGAGGGACTCAACAAAGCAACACTCTATAATCGGAGGAG
Found at i:140541 original size:39 final size:39
Alignment explanation
Indices: 140497--140572 Score: 143
Period size: 39 Copynumber: 1.9 Consensus size: 39
140487 TCCTTAAACT
*
140497 TTTGAACATTCAAATTTTATCCCTAAACTATGAATCTCA
1 TTTGAACATTCAAATTTCATCCCTAAACTATGAATCTCA
140536 TTTGAACATTCAAATTTCATCCCTAAACTATGAATCT
1 TTTGAACATTCAAATTTCATCCCTAAACTATGAATCT
140573 AATTCTAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.38
Consensus pattern (39 bp):
TTTGAACATTCAAATTTCATCCCTAAACTATGAATCTCA
Found at i:151411 original size:61 final size:60
Alignment explanation
Indices: 151346--151459 Score: 138
Period size: 61 Copynumber: 1.9 Consensus size: 60
151336 TATGGGATTC
* * *
151346 TTCTTTATTAAATCCCTCGATCATTAAAAGTAACAAAAATGGTCTTCCGACTATAAAGTAT
1 TTCTTTATTAAATCCATCGATCATCAAAAGTAA-AAAAATGGTCTCCCGACTATAAAGTAT
* * * * * *
151407 TTCTTTGTTGAGTCCATCGATTATCAAAAGTTAGAAAATGGTCTCCCGACTAT
1 TTCTTTATTAAATCCATCGATCATCAAAAGTAAAAAAATGGTCTCCCGACTAT
151460 TCATTATGTT
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
60 18 0.41
61 26 0.59
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.35
Consensus pattern (60 bp):
TTCTTTATTAAATCCATCGATCATCAAAAGTAAAAAAATGGTCTCCCGACTATAAAGTAT
Found at i:153150 original size:19 final size:20
Alignment explanation
Indices: 153106--153156 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
153096 AATGACCAAC
* *
153106 AAAATCGCAACGCGAATATG
1 AAAATCGCAATGCGAATATA
153126 AAAATCGCAATGCGAA-ATA
1 AAAATCGCAATGCGAATATA
153145 AAAATCGCAATG
1 AAAATCGCAATG
153157 TGATAGTACA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.49, C:0.18, G:0.18, T:0.16
Consensus pattern (20 bp):
AAAATCGCAATGCGAATATA
Found at i:153279 original size:20 final size:20
Alignment explanation
Indices: 153230--153567 Score: 335
Period size: 20 Copynumber: 16.6 Consensus size: 20
153220 GATTCTTACT
*
153230 ATCGCAACGAGTATCCGTAAAA
1 ATCGCAACGCGTATCCGT--AA
*
153252 ATCACAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
153272 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* * *
153292 ATCGCAACGCG-ATTCTTACT
1 ATCGCAACGCGTATCCGTA-A
*
153312 ATCGCAACGAGTATCCGTAAAA
1 ATCGCAACGCGTATCCGT--AA
*
153334 ACCGCAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* *
153354 ATCGCAATGCGTATCCCTAA
1 ATCGCAACGCGTATCCGTAA
*
153374 ATCGTAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* * * *
153394 ATCACAACGAGAATACGTAA
1 ATCGCAACGCGTATCCGTAA
* *
153414 ATCGCAACGCG-ATTC-TGACT
1 ATCGCAACGCGTATCCGT-A-A
* *
153434 ATCGCAACGAGTATCCATAAA
1 ATCGCAACGCGTATCCGT-AA
153455 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* *
153475 ATCGCAACGAC-AATACGTAAA
1 ATCGCAACG-CGTATCCGT-AA
153496 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* *
153516 ATCGCAACGAC-AATACGTAAA
1 ATCGCAACG-CGTATCCGT-AA
153537 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
153557 ATCGCAACGCG
1 ATCGCAACGCG
153568 ATTTTTAAAG
Statistics
Matches: 261, Mismatches: 41, Indels: 30
0.79 0.12 0.09
Matches are distributed among these distances:
18 1 0.00
19 9 0.03
20 159 0.61
21 57 0.22
22 34 0.13
23 1 0.00
ACGTcount: A:0.35, C:0.28, G:0.18, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGTATCCGTAA
Found at i:153301 original size:82 final size:81
Alignment explanation
Indices: 153230--153565 Score: 385
Period size: 82 Copynumber: 4.1 Consensus size: 81
153220 GATTCTTACT
* * *
153230 ATCGCAACGAGTATCCGTAAAAATCACAACGCGTATCCGTAAATCGCAACGCGTATCCGTAAATC
1 ATCGCAACGAGAATACGT-AAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTAAATC
* * *
153295 GCAACGCG-ATTCTTACT
65 GCAACGCGTATCCGTA-A
* * * * *
153312 ATCGCAACGAGTATCCGTAAAAACCGCAACGCGTATCCGTAAATCGCAATGCGTATCCCTAAATC
1 ATCGCAACGAGAATACGT-AAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTAAATC
*
153377 GTAACGCGTATCCGTAA
65 GCAACGCGTATCCGTAA
* * * * *
153394 ATCACAACGAGAATACGT-AAATCGCAACGCG-ATTC-TGACTATCGCAACGAGTATCCATAAAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGT-A-AATCGCAACGCGTATCCGT-AAA
153456 TCGCAACGCGTATCCGTAA
63 TCGCAACGCGTATCCGTAA
* * *
153475 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAAATCGCAACGAC-AATACGTAAAAT
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAATCGCAACG-CGTATCCGT-AAAT
153539 CGCAACGCGTATCCGTAA
64 CGCAACGCGTATCCGTAA
153557 ATCGCAACG
1 ATCGCAACG
153566 CGATTTTTAA
Statistics
Matches: 220, Mismatches: 26, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
78 1 0.00
79 4 0.02
80 27 0.12
81 37 0.17
82 141 0.64
83 9 0.04
84 1 0.00
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (81 bp):
ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTAAATCG
CAACGCGTATCCGTAA
Found at i:153392 original size:122 final size:122
Alignment explanation
Indices: 153249--153547 Score: 424
Period size: 122 Copynumber: 2.4 Consensus size: 122
153239 AGTATCCGTA
* * * *
153249 AAAATCACAACGCGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACGCGATTCTTACTAT
1 AAAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACGTAAATCGCAACGCGATTCTGACTAT
* * * *
153314 CGCAACGAGTATCCGTAAAAACCGCAACGCGTATCCGTAAATCGCAATG-CGTATCCCT
66 CGCAACGAGTATCCAT-AAAACCGCAACGCGTATCCGTAAATCGCAACGAC-AATACCT
* * *
153372 -AAATCGTAACGCGTATCCGTAAATCACAACGAGAATACGTAAATCGCAACGCGATTCTGACTAT
1 AAAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACGTAAATCGCAACGCGATTCTGACTAT
* *
153436 CGCAACGAGTATCCATAAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGT
66 CGCAACGAGTATCCATAAAACCGCAACGCGTATCCGTAAATCGCAACGACAATACCT
153493 AAAATCGCAACGCGTATCCGTAAATCGCAACGAC-AATACGTAAAATCGCAACGCG
1 AAAATCGCAACGCGTATCCGTAAATCGCAACG-CGAATACGT-AAATCGCAACGCG
153548 TATCCGTAAA
Statistics
Matches: 156, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
121 34 0.22
122 109 0.70
123 13 0.08
ACGTcount: A:0.36, C:0.27, G:0.17, T:0.19
Consensus pattern (122 bp):
AAAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACGTAAATCGCAACGCGATTCTGACTAT
CGCAACGAGTATCCATAAAACCGCAACGCGTATCCGTAAATCGCAACGACAATACCT
Found at i:153955 original size:14 final size:14
Alignment explanation
Indices: 153936--154025 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
153926 TTTCATTTCG
153936 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
153950 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
*
153969 CGTTGCTATTCTCT
1 CGTTGCGATTCTCT
*
153983 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
154002 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
154016 CGTTGCGATT
1 CGTTGCGATT
154026 TTCATTTCAA
Statistics
Matches: 60, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
14 29 0.48
16 6 0.10
17 6 0.10
19 19 0.32
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:153963 original size:33 final size:33
Alignment explanation
Indices: 153926--154033 Score: 207
Period size: 33 Copynumber: 3.3 Consensus size: 33
153916 TTCACTTAGA
153926 TTTCATTTCGCGTTGCGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTGCGATTCTCTCGTTGCGAT
*
153959 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTGCGATTCTCTCGTTGCGAT
153992 TTTCATTTCGCGTTGCGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTGCGATTCTCTCGTTGCGAT
154025 TTTCATTTC
1 TTTCATTTC
154034 AACCAAAAGA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 73 1.00
ACGTcount: A:0.09, C:0.24, G:0.19, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTGCGATTCTCTCGTTGCGAT
Found at i:153974 original size:19 final size:19
Alignment explanation
Indices: 153926--154011 Score: 75
Period size: 19 Copynumber: 5.1 Consensus size: 19
153916 TTCACTTAGA
153926 TTTCATTTCGCGTTGCGA-
1 TTTCATTTCGCGTTGCGAT
*
153944 -TTC---TCTCGTTGCGAT
1 TTTCATTTCGCGTTGCGAT
153959 TTTCATTTCGCGTTGC--T
1 TTTCATTTCGCGTTGCGAT
* *
153976 ATTC---TCTCGTTGCGAT
1 TTTCATTTCGCGTTGCGAT
153992 TTTCATTTCGCGTTGCGAT
1 TTTCATTTCGCGTTGCGAT
154011 T
1 T
154012 CTCTCGTTGC
Statistics
Matches: 52, Mismatches: 6, Indels: 19
0.68 0.08 0.25
Matches are distributed among these distances:
14 18 0.35
16 7 0.13
17 7 0.13
19 20 0.38
ACGTcount: A:0.09, C:0.23, G:0.20, T:0.48
Consensus pattern (19 bp):
TTTCATTTCGCGTTGCGAT
Found at i:155880 original size:63 final size:64
Alignment explanation
Indices: 155801--155927 Score: 202
Period size: 64 Copynumber: 2.0 Consensus size: 64
155791 GCCAATTCTG
*
155801 CTAAAATGTGTATTCTTTAACACTGTGAA-ATACTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
1 CTAAAATGTGTATTCTTTAACACTCTGAAGATACTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* * * *
155864 CTAAACTGTGTATTCTTTAATACTCTGAAGTTATTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
1 CTAAAATGTGTATTCTTTAACACTCTGAAGATACTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
155928 GTAATGCAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
63 26 0.45
64 32 0.55
ACGTcount: A:0.22, C:0.11, G:0.16, T:0.51
Consensus pattern (64 bp):
CTAAAATGTGTATTCTTTAACACTCTGAAGATACTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:156056 original size:14 final size:14
Alignment explanation
Indices: 156037--156093 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
156027 GCGAAATGAA
156037 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
156051 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
156070 AATCGCAACGAGAG
1 AATCGCAACGAGAG
156084 AATCGCAACG
1 AATCGCAACG
156094 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.21, G:0.25, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:156064 original size:33 final size:33
Alignment explanation
Indices: 156019--156112 Score: 161
Period size: 33 Copynumber: 2.8 Consensus size: 33
156009 AAAAATGACT
156019 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
*
156052 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
**
156085 ATCGCAACGCGAAACCAAAATCGCAACG
1 ATCGCAACGCGAAATGAAAATCGCAACG
156113 CGAAACTATA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.45, C:0.23, G:0.22, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:156075 original size:19 final size:18
Alignment explanation
Indices: 156019--156117 Score: 70
Period size: 19 Copynumber: 5.7 Consensus size: 18
156009 AAAAATGACT
156019 ATCGCAACGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
156038 ATCGCAA-CG--A-GAGA
1 ATCGCAAGCGAAATGAAA
156052 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
156071 ATCGCAA-CG--A-GAGA
1 ATCGCAAGCGAAATGAAA
**
156085 ATCGCAACGCGAAACCAAA
1 ATCGCAA-GCGAAATGAAA
156104 ATCGCAACGCGAAA
1 ATCGCAA-GCGAAA
156118 CTATAATCGC
Statistics
Matches: 65, Mismatches: 5, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
14 20 0.31
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 33 0.51
ACGTcount: A:0.45, C:0.23, G:0.22, T:0.09
Consensus pattern (18 bp):
ATCGCAAGCGAAATGAAA
Found at i:156146 original size:19 final size:18
Alignment explanation
Indices: 156124--156239 Score: 77
Period size: 19 Copynumber: 6.6 Consensus size: 18
156114 GAAACTATAA
156124 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTT-GTT
156143 TCGCGTTGCGATTTTG--
1 TCGCGTTGCGATTTTGTT
*
156159 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTT-GTT
*
156176 TCGCGTTGCGA---T-TC
1 TCGCGTTGCGATTTTGTT
* *
156190 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTT-GTT
*
156209 TCACGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTT--GTT
*
156229 TCGTGTTGCGA
1 TCGCGTTGCGA
156240 AAGTAAACTA
Statistics
Matches: 77, Mismatches: 9, Indels: 21
0.72 0.08 0.20
Matches are distributed among these distances:
14 23 0.30
16 2 0.03
17 2 0.03
18 1 0.01
19 38 0.49
20 11 0.14
ACGTcount: A:0.10, C:0.19, G:0.25, T:0.46
Consensus pattern (18 bp):
TCGCGTTGCGATTTTGTT
Found at i:156169 original size:33 final size:33
Alignment explanation
Indices: 156127--156223 Score: 149
Period size: 33 Copynumber: 2.9 Consensus size: 33
156117 ACTATAATCG
** *
156127 CGTTGCGATTTTGGTTTCGCGTTGCGATTTTGT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTTTCT
*
156160 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTTTCT
*
156193 CGTTGCGATTTTCATTTCACGTTGCGATTTT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTTT
156224 AAGTTTCGTG
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.09, C:0.20, G:0.24, T:0.47
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTTTCT
Found at i:156696 original size:42 final size:42
Alignment explanation
Indices: 156620--156738 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
156610 GACTCGCCTG
* * * * * * *
156620 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
156662 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
156704 TCA-TCATTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
156739 CCTGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.24, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:158113 original size:14 final size:14
Alignment explanation
Indices: 158094--158123 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
158084 TTAATTGATT
158094 TTTGTAAAAGATGA
1 TTTGTAAAAGATGA
*
158108 TTTGTAAAAGTTGA
1 TTTGTAAAAGATGA
158122 TT
1 TT
158124 CAATAGTAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.43
Consensus pattern (14 bp):
TTTGTAAAAGATGA
Found at i:158172 original size:86 final size:84
Alignment explanation
Indices: 158027--158207 Score: 344
Period size: 86 Copynumber: 2.1 Consensus size: 84
158017 GTATGGCTGC
158027 AAAAGTTGATTCAATAGTAGATGAGGAAATAAGAATTATTGCTTATTTTTTGATTGTTTAATTGA
1 AAAAGTTGATTCAATAGTAGATGAGGAAATAAGAATTATTGCTTATTTTTTGATTGTTTAATTGA
158092 TTTTTGTAAAAGATGATTTGT
66 --TTTGTAAAAGATGATTTGT
158113 AAAAGTTGATTCAATAGTAGATGAGGAAATAAGAATTATTGCTTATTTTTTGATTGTTTAATTGA
1 AAAAGTTGATTCAATAGTAGATGAGGAAATAAGAATTATTGCTTATTTTTTGATTGTTTAATTGA
158178 TTTGTAAAAGATGATTTGT
66 TTTGTAAAAGATGATTTGT
158197 AAAAGTTGATT
1 AAAAGTTGATT
158208 TGTTTAATTG
Statistics
Matches: 95, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
84 30 0.32
86 65 0.68
ACGTcount: A:0.36, C:0.02, G:0.19, T:0.43
Consensus pattern (84 bp):
AAAAGTTGATTCAATAGTAGATGAGGAAATAAGAATTATTGCTTATTTTTTGATTGTTTAATTGA
TTTGTAAAAGATGATTTGT
Found at i:158194 original size:14 final size:14
Alignment explanation
Indices: 158175--158210 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
158165 ATTGTTTAAT
158175 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
158189 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
158203 TGATTTGT
1 TGATTTGT
158211 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:158333 original size:19 final size:19
Alignment explanation
Indices: 158317--158381 Score: 86
Period size: 19 Copynumber: 3.7 Consensus size: 19
158307 AAAAATGACT
158317 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
158336 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
158350 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
158369 ATCGCAATGCGAA
1 ATCGCAATGCGAA
158382 TTAGTTTCGC
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 10 0.26
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 23 0.59
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:158412 original size:14 final size:14
Alignment explanation
Indices: 158393--158480 Score: 68
Period size: 14 Copynumber: 5.6 Consensus size: 14
158383 TAGTTTCGCA
158393 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
158407 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
158424 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
*
158440 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
158457 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
158473 TTGCGATT
1 TTGCGATT
158481 TTCATTTCGC
Statistics
Matches: 60, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
14 20 0.33
16 14 0.23
17 14 0.23
19 12 0.20
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.45
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:158428 original size:33 final size:33
Alignment explanation
Indices: 158386--158499 Score: 228
Period size: 33 Copynumber: 3.5 Consensus size: 33
158376 TGCGAATTAG
158386 TTTCGCATTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTCTCTCGTTGCGATTTTCA
158419 TTTCGCATTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTCTCTCGTTGCGATTTTCA
158452 TTTCGCATTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTCTCTCGTTGCGATTTTCA
158485 TTTCGCATTGCGATT
1 TTTCGCATTGCGATT
158500 TTCATTTCGC
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 81 1.00
ACGTcount: A:0.12, C:0.24, G:0.18, T:0.46
Consensus pattern (33 bp):
TTTCGCATTGCGATTCTCTCGTTGCGATTTTCA
Found at i:158431 original size:19 final size:19
Alignment explanation
Indices: 158407--158518 Score: 136
Period size: 19 Copynumber: 6.4 Consensus size: 19
158397 GATTCTCTCG
158407 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
158426 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
158440 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
158459 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
158473 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
158492 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
158511 TTGCGATT
1 TTGCGATT
158519 CTCTCGTTGC
Statistics
Matches: 79, Mismatches: 4, Indels: 20
0.77 0.04 0.19
Matches are distributed among these distances:
14 12 0.15
16 14 0.18
17 14 0.18
19 39 0.49
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:158538 original size:52 final size:52
Alignment explanation
Indices: 158440--158538 Score: 180
Period size: 52 Copynumber: 1.9 Consensus size: 52
158430 GATTCTCTCG
**
158440 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTCATTTCGCA
158492 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTCATT
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTCATT
158539 AAGATGATTG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.45
Consensus pattern (52 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTCATTTCGCA
Found at i:161936 original size:20 final size:20
Alignment explanation
Indices: 161911--162143 Score: 173
Period size: 20 Copynumber: 11.5 Consensus size: 20
161901 AAATTTCAGT
161911 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACAGATTCTC
* *
161931 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACAGATTCTC
*
161951 GTTGCGATTTATAGATTCTC
1 GTTGCGATTTACAGATTCTC
* * *
161971 GTTGCGATTTTAAATATTGTC
1 GTTGCGA-TTTACAGATTCTC
* * *
161992 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACAGATTCTC
*
162012 GTTGCGATTTTAC-GTATTGTC
1 GTTGCGA-TTTACAG-ATTCTC
* * *
162033 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACAGATTCTC
* * *
162053 GTTGCAATTTTACGGATACTC
1 GTTGCGA-TTTACAGATTCTC
* * *
162074 GTTGCGATAGTA-AGAATCGC
1 GTTGCGAT-TTACAGATTCTC
* * *
162094 GTTGCGATTTATATATTCGC
1 GTTGCGATTTACAGATTCTC
* * *
162114 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACAGATTCTC
*
162134 GTTGTGATTT
1 GTTGCGATTT
162144 TTATTTCGCA
Statistics
Matches: 172, Mismatches: 34, Indels: 14
0.78 0.15 0.06
Matches are distributed among these distances:
19 2 0.01
20 117 0.68
21 53 0.31
ACGTcount: A:0.20, C:0.16, G:0.24, T:0.40
Consensus pattern (20 bp):
GTTGCGATTTACAGATTCTC
Found at i:161993 original size:21 final size:21
Alignment explanation
Indices: 161949--162042 Score: 79
Period size: 21 Copynumber: 4.6 Consensus size: 21
161939 TTACGGATTA
* * *
161949 TCGTTGCGA-TTTATAGATTC
1 TCGTTGCGATTTTAAATATTG
161969 TCGTTGCGATTTTAAATATTG
1 TCGTTGCGATTTTAAATATTG
* *
161990 TCGTTGCGA-TTTACGGATA-CG
1 TCGTTGCGATTTTA--AATATTG
**
162011 -CGTTGCGATTTTACGTATTG
1 TCGTTGCGATTTTAAATATTG
162031 TCGTTGCGATTT
1 TCGTTGCGATTT
162043 ACGGATACGC
Statistics
Matches: 60, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
19 2 0.03
20 22 0.37
21 33 0.55
22 3 0.05
ACGTcount: A:0.18, C:0.15, G:0.23, T:0.44
Consensus pattern (21 bp):
TCGTTGCGATTTTAAATATTG
Found at i:162015 original size:41 final size:41
Alignment explanation
Indices: 161911--162144 Score: 210
Period size: 41 Copynumber: 5.8 Consensus size: 41
161901 AAATTTCAGT
* * * *
161911 GTTGCGATTTACAGATTCTCGTTGCGA-TTTACGGATTATC
1 GTTGCGATTTACAGATACGCGTTGCGATTTTACGTATTGTC
* * * **
161951 GTTGCGATTTATAGATTCTCGTTGCGATTTTAAATATTGTC
1 GTTGCGATTTACAGATACGCGTTGCGATTTTACGTATTGTC
*
161992 GTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTC
1 GTTGCGATTTACAGATACGCGTTGCGATTTTACGTATTGTC
* * * **
162033 GTTGCGATTTACGGATACGCGTTGCAATTTTACGGATACTC
1 GTTGCGATTTACAGATACGCGTTGCGATTTTACGTATTGTC
*
162074 GTTGCGATAGTA-AGA-ATCGCGTTGCGATTTATA--TATTCG-C
1 GTTGCGAT-TTACAGATA-CGCGTTGCGATTT-TACGTATT-GTC
* * * *
162114 GTTGCGATTTTCATATTCGCGTTGTGATTTT
1 GTTGCGATTTACAGATACGCGTTGCGATTTT
162145 TATTTCGCAT
Statistics
Matches: 161, Mismatches: 26, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
39 2 0.01
40 52 0.32
41 103 0.64
42 4 0.02
ACGTcount: A:0.20, C:0.16, G:0.24, T:0.41
Consensus pattern (41 bp):
GTTGCGATTTACAGATACGCGTTGCGATTTTACGTATTGTC
Found at i:162124 original size:61 final size:59
Alignment explanation
Indices: 161911--162123 Score: 205
Period size: 61 Copynumber: 3.5 Consensus size: 59
161901 AAATTTCAGT
* * *
161911 GTTGCGATTTACAGATTCTCGTTGCGATTTACGGATTA-TCGTTGCGATTTATAGATTCTC
1 GTTGCGATTTACAGATTCGCGTTGCGATTTACGGA-TACTCGTTGCGATTTA-AGAATCGC
* * * * * *
161971 GTTGCGATTTTAAATATT-GTCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTC
1 GTTGCGA-TTTACAGATTCG-CGTTGCGATTTACGGATACTCGTTGCGA-TTTAAGAATCG-C
* * * *
162033 GTTGCGATTTACGGATACGCGTTGCAATTTTACGGATACTCGTTGCGATAGTAAGAATCGC
1 GTTGCGATTTACAGATTCGCGTTGCGA-TTTACGGATACTCGTTGCGAT-TTAAGAATCGC
* *
162094 GTTGCGATTTATATATTCGCGTTGCGATTT
1 GTTGCGATTTACAGATTCGCGTTGCGATTT
162124 TCATATTCGC
Statistics
Matches: 121, Mismatches: 24, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
60 12 0.10
61 71 0.59
62 38 0.31
ACGTcount: A:0.21, C:0.16, G:0.24, T:0.39
Consensus pattern (59 bp):
GTTGCGATTTACAGATTCGCGTTGCGATTTACGGATACTCGTTGCGATTTAAGAATCGC
Found at i:162144 original size:20 final size:19
Alignment explanation
Indices: 162090--162163 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 19
162080 ATAGTAAGAA
162090 TCGCGTTGCGATTTATATAT
1 TCGCGTTGCGATTT-TATAT
162110 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTT-ATAT
*
162130 TCGCGTTGTGATTTT-TATT
1 TCGCGTTGCGATTTTATA-T
*
162149 TCGCATTGCGATTTT
1 TCGCGTTGCGATTTT
162164 GTTGGTCATT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
18 2 0.04
19 15 0.31
20 32 0.65
ACGTcount: A:0.15, C:0.16, G:0.20, T:0.49
Consensus pattern (19 bp):
TCGCGTTGCGATTTTATAT
Found at i:164529 original size:20 final size:20
Alignment explanation
Indices: 164493--164531 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
164483 TGTTTTCGTC
*
164493 CCCCTGTAATTTTAGTTCGA
1 CCCCTGTAATTTAAGTTCGA
164513 CCCCT-TAAGTTTAAGTTCG
1 CCCCTGTAA-TTTAAGTTCG
164532 CTACCAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (20 bp):
CCCCTGTAATTTAAGTTCGA
Found at i:167484 original size:22 final size:22
Alignment explanation
Indices: 167459--167502 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
167449 AATTTATTAG
167459 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
167481 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
167503 AATTTATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:167561 original size:31 final size:31
Alignment explanation
Indices: 167526--167584 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
167516 AGTTGTATGG
*
167526 ATTATTTAAATT-TCAGTATTGTAAAACTAAA
1 ATTATTT-AATTCTCAGTATTGCAAAACTAAA
167557 ATTATTTAATTCTCAGTATTGCAAAACT
1 ATTATTTAATTCTCAGTATTGCAAAACT
167585 CTTTTAAGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 4 0.15
31 22 0.85
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.42
Consensus pattern (31 bp):
ATTATTTAATTCTCAGTATTGCAAAACTAAA
Found at i:167686 original size:223 final size:222
Alignment explanation
Indices: 167256--167871 Score: 1108
Period size: 223 Copynumber: 2.8 Consensus size: 222
167246 AACATTAAAC
*
167256 AATATAGATTGATTTATTTTAAAAAATTTATTATTGTAGTTGTATGGATTATTTAAATTTCAGTA
1 AATATGGATTGATTTATTTTAAAAAATTTATTATTGTAGTTGTATGGATTATTTAAATTTCAGTA
*
167321 TTGTAAAACTAAAATTATTTAAATTTCAGTATTGCAAAATTCTTTTAAGTTTAAAATATCAGTTT
66 TTGTAAAACTAAAATTATTTAAATTTCAGTATTGCAAAACTCTTTTAAGTTTAAAA-ATCAGTTT
*
167386 ATTTATATTTCAGTTTATTTTAGCAGTCTACAGACGTTAATTTAATAAGGTTATTTATTAAATAA
130 ATTTATATTTCAGTTTATTTTAGCAGTCTGCAGACGTTAATTTAATAAGGTTATTTATTAAATAA
167451 TTTATTAGTATGGATTGATTTATTTTAA
195 TTTATTAGTATGGATTGATTTATTTTAA
167479 AATATGGATTGATTTATTTTAAAAAATTTATTATTGTAGTTGTATGGATTATTTAAATTTCAGTA
1 AATATGGATTGATTTATTTTAAAAAATTTATTATTGTAGTTGTATGGATTATTTAAATTTCAGTA
*
167544 TTGTAAAACTAAAATTATTT-AATTCTCAGTATTGCAAAACTCTTTTAAGATTAAAAATCAGTTT
66 TTGTAAAACTAAAATTATTTAAATT-TCAGTATTGCAAAACTCTTTTAAGTTTAAAAATCAGTTT
*
167608 ATTTATATTTTAGTTTATTTTAGCAGTCTGCAGACGTTAATTTAATAAGGTTATTTATTAAATAA
130 ATTTATATTTCAGTTTATTTTAGCAGTCTGCAGACGTTAATTTAATAAGGTTATTTATTAAATAA
167673 TTTATTCAGTATGGATTGATTTATTTTAA
195 TTTATT-AGTATGGATTGATTTATTTTAA
**
167702 AATATGGATTGATTTATTTTAAAAAAAATATTATTGTAGTTGTATGGATTATTTAAATTTCAGTA
1 AATATGGATTGATTTATTTTAAAAAATTTATTATTGTAGTTGTATGGATTATTTAAATTTCAGTA
*
167767 TTGTAAAACTAAAATTATTTAAATTTCAGTATTGCAAAACTCTTTTAAGTTTAAAAAATCTGTTT
66 TTGTAAAACTAAAATTATTTAAATTTCAGTATTGCAAAACTCTTTTAAGTTT-AAAAATCAGTTT
*
167832 ATTTATATTTCAGTTTATTTTAACAGTCTGCAGACGTTAA
130 ATTTATATTTCAGTTTATTTTAGCAGTCTGCAGACGTTAA
167872 AAAACAAACA
Statistics
Matches: 378, Mismatches: 11, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
222 81 0.21
223 244 0.65
224 53 0.14
ACGTcount: A:0.36, C:0.06, G:0.11, T:0.47
Consensus pattern (222 bp):
AATATGGATTGATTTATTTTAAAAAATTTATTATTGTAGTTGTATGGATTATTTAAATTTCAGTA
TTGTAAAACTAAAATTATTTAAATTTCAGTATTGCAAAACTCTTTTAAGTTTAAAAATCAGTTTA
TTTATATTTCAGTTTATTTTAGCAGTCTGCAGACGTTAATTTAATAAGGTTATTTATTAAATAAT
TTATTAGTATGGATTGATTTATTTTAA
Done.