Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008855.1 Hibiscus syriacus cultivar Beakdansim tig00112072_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: 1316246
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 5
Found at i:478910 original size:16 final size:16
Alignment explanation
Indices: 478889--478921 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
478879 CACGTGAGGA
478889 TTATTT-TCTTTTCATT
1 TTATTTATCTTTT-ATT
478905 TTATTTATCTTTTATT
1 TTATTTATCTTTTATT
478921 T
1 T
478922 ACTGTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTATCTTTTATT
Found at i:479649 original size:24 final size:25
Alignment explanation
Indices: 479622--479669 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
479612 GCCTATTTTT
* * *
479622 GATGAGGAACCTGAA-ACAATGCAA
1 GATGAAGAAACTGAAGAAAATGCAA
479646 GATGAAGAAACTGAAGAAAATGCA
1 GATGAAGAAACTGAAGAAAATGCA
479670 GATCATGGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.50, C:0.12, G:0.25, T:0.12
Consensus pattern (25 bp):
GATGAAGAAACTGAAGAAAATGCAA
Found at i:482352 original size:15 final size:15
Alignment explanation
Indices: 482341--482370 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
482331 ACTCAAAAAG
482341 AAGAAAAGCAAAGAA
1 AAGAAAAGCAAAGAA
482356 AAGAAAAG-AAAGAA
1 AAGAAAAGCAAAGAA
482370 A
1 A
482371 GTTGAAGCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.77, C:0.03, G:0.20, T:0.00
Consensus pattern (15 bp):
AAGAAAAGCAAAGAA
Found at i:490974 original size:24 final size:21
Alignment explanation
Indices: 490940--490982 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
490930 TCCACAAGAC
*
490940 ATGTCCTTTGACATTTCAAAGG
1 ATGTCCTTTGA-AATTCAAAGG
490962 ATGTACCTCTTGAAATTCAAA
1 ATGT-CCT-TTGAAATTCAAA
490983 AGAATATGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.35
Consensus pattern (21 bp):
ATGTCCTTTGAAATTCAAAGG
Found at i:493692 original size:19 final size:19
Alignment explanation
Indices: 493668--493709 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
493658 ATCTTTGTTG
493668 TGGCTCTATGGATTTTCCA
1 TGGCTCTATGGATTTTCCA
493687 TGGCTCTATGGATTTTCCA
1 TGGCTCTATGGATTTTCCA
493706 TGGC
1 TGGC
493710 ATTCTTTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.14, C:0.21, G:0.24, T:0.40
Consensus pattern (19 bp):
TGGCTCTATGGATTTTCCA
Found at i:496582 original size:24 final size:25
Alignment explanation
Indices: 496546--496592 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
496536 AAACCTGAAA
*
496546 TATATAAAGAAAATAAAAAGTAAAGC
1 TATATAAAGAAAAGAAAAA-TAAAGC
496572 TATAT-AA-AAAAGAAAAATAAA
1 TATATAAAGAAAAGAAAAATAAA
496593 TAAGTAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 9 0.45
25 2 0.10
26 5 0.25
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.19
Consensus pattern (25 bp):
TATATAAAGAAAAGAAAAATAAAGC
Found at i:498323 original size:20 final size:20
Alignment explanation
Indices: 498294--498332 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
498284 ATTCCACCAC
*
498294 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
498314 ATGCATCTATATGATCCTA
1 ATGCAACTATATGATCCTA
498333 TATGAGCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:499439 original size:31 final size:31
Alignment explanation
Indices: 499404--499464 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
499394 CAACATATAT
499404 TCAA-TACACA-TCCCAATAATCACATTCCATA
1 TCAATTACACATTCCCAAT--TCACATTCCATA
* *
499435 TCAATTATACATTTCCAATTCACATTCCAT
1 TCAATTACACATTCCCAATTCACATTCCAT
499465 GAAAATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
31 15 0.58
32 5 0.19
33 6 0.23
ACGTcount: A:0.38, C:0.30, G:0.00, T:0.33
Consensus pattern (31 bp):
TCAATTACACATTCCCAATTCACATTCCATA
Found at i:503028 original size:21 final size:21
Alignment explanation
Indices: 503002--503051 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
502992 CCATATGAAT
* *
503002 TATGCAAAATATCCATCAAAC
1 TATGCAAAATATCCAACAAAA
**
503023 TATGCATCATATCCAACAAAA
1 TATGCAAAATATCCAACAAAA
503044 TATG-AAAA
1 TATGCAAAA
503052 CAATATCAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.50, C:0.20, G:0.06, T:0.24
Consensus pattern (21 bp):
TATGCAAAATATCCAACAAAA
Found at i:504444 original size:21 final size:22
Alignment explanation
Indices: 504398--504443 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
504388 TACTTGAAGA
504398 TTTAAAGGGGGCTTTGAAACCT
1 TTTAAAGGGGGCTTTGAAACCT
*
504420 TTTAAAGGGGGTTTTGAAACCT
1 TTTAAAGGGGGCTTTGAAACCT
504442 TT
1 TT
504444 AGCCCGTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.37
Consensus pattern (22 bp):
TTTAAAGGGGGCTTTGAAACCT
Found at i:512718 original size:2 final size:2
Alignment explanation
Indices: 512711--512744 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
512701 ACTCATCCGA
512711 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
512745 AAAATATCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:513502 original size:24 final size:24
Alignment explanation
Indices: 513470--513515 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
513460 TCTTCCATAT
513470 GATGTATAAAAT-ATCTATGTACAC
1 GATGTAT-AAATCATCTATGTACAC
513494 GATGTATAAATCATCTATGTAC
1 GATGTATAAATCATCTATGTAC
513516 CATATCATGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (24 bp):
GATGTATAAATCATCTATGTACAC
Found at i:530444 original size:27 final size:27
Alignment explanation
Indices: 530405--530458 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
530395 CATTGATATG
*
530405 TTCATGCAGGAACTTTGGGATGAATGC
1 TTCATGCAAGAACTTTGGGATGAATGC
530432 TTCATGCAAGAACTTTGGGATGAATGC
1 TTCATGCAAGAACTTTGGGATGAATGC
530459 CACAACATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
TTCATGCAAGAACTTTGGGATGAATGC
Found at i:560580 original size:21 final size:21
Alignment explanation
Indices: 560554--560593 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
560544 CCGAAGCACC
*
560554 ACATATATGTTCCAAAGGATT
1 ACATATATGTCCCAAAGGATT
*
560575 ACATATATGTCCCGAAGGA
1 ACATATATGTCCCAAAGGA
560594 CCACGTAGAA
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:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (21 bp):
ACATATATGTCCCAAAGGATT
Found at i:566193 original size:40 final size:40
Alignment explanation
Indices: 566138--566259 Score: 226
Period size: 40 Copynumber: 3.0 Consensus size: 40
566128 TGCAGGTTTA
566138 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
566178 TAATACACTTAGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
566218 TAATACACTTCGGTGTATATGGTGGGCATGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
566258 TA
1 TA
566260 GCACTACGGT
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.34
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:566906 original size:22 final size:22
Alignment explanation
Indices: 566864--566934 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
566854 TACTGTAGCA
**
566864 GTTCATCGGTAC-ATTGTTCACT
1 GTTCA-CGGTACTATTCATCACT
* *
566886 GTTCACGGTATTGTTCATCACT
1 GTTCACGGTACTATTCATCACT
* *
566908 GTCCATGGTACTATTCATCACT
1 GTTCACGGTACTATTCATCACT
*
566930 ATTCA
1 GTTCA
566935 TAAAAAATCT
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
21 5 0.13
22 33 0.87
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.39
Consensus pattern (22 bp):
GTTCACGGTACTATTCATCACT
Found at i:567860 original size:17 final size:16
Alignment explanation
Indices: 567838--567876 Score: 69
Period size: 17 Copynumber: 2.4 Consensus size: 16
567828 TTAACTACTA
567838 TTAAGTTGAATTTTAG
1 TTAAGTTGAATTTTAG
567854 TTTAAGTTGAATTTTAG
1 -TTAAGTTGAATTTTAG
567871 TTAAGT
1 TTAAGT
567877 AGCTTTTAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 6 0.27
17 16 0.73
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (16 bp):
TTAAGTTGAATTTTAG
Found at i:575976 original size:12 final size:13
Alignment explanation
Indices: 575959--575991 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
575949 AGAAAAATAT
575959 TAAATATT-TTAA
1 TAAATATTATTAA
575971 TAAATATTATTAA
1 TAAATATTATTAA
*
575984 AAAATATT
1 TAAATATT
575992 CTAAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TAAATATTATTAA
Found at i:576035 original size:23 final size:23
Alignment explanation
Indices: 575960--576054 Score: 63
Period size: 22 Copynumber: 4.2 Consensus size: 23
575950 GAAAAATATT
575960 AAATATTTTAATAAATATTATT-AAA
1 AAATATTTT--TAAA-ATTATTAAAA
* * *
575985 AAATA-TTCTAAAA-TATTATAT
1 AAATATTTTTAAAATTATTAAAA
**
576006 ATTTATTTTTAAAATTATTAAAA
1 AAATATTTTTAAAATTATTAAAA
** *
576029 AAATATTAGTAAAATT-CTAAAA
1 AAATATTTTTAAAATTATTAAAA
576051 AAAT
1 AAAT
576055 GTCTAAGAGA
Statistics
Matches: 54, Mismatches: 13, Indels: 9
0.71 0.17 0.12
Matches are distributed among these distances:
20 4 0.07
21 5 0.09
22 20 0.37
23 18 0.33
24 2 0.04
25 5 0.09
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (23 bp):
AAATATTTTTAAAATTATTAAAA
Found at i:579835 original size:56 final size:56
Alignment explanation
Indices: 579719--579860 Score: 173
Period size: 56 Copynumber: 2.6 Consensus size: 56
579709 GAACTCGCAC
* * * * *
579719 AATCTTCCACAAACGTCTCTGCTCTCTATT-CTTTCAGGGAGTATAAGACTACAAT
1 AATCTTCCGCAAACGTGTTTGCTCCCTATTCCTTTCAGGGAGTATAAGACTACAAA
579774 AATCTTCCGCAAACGTGTTTGCTCCCTATTCCTTTCAGGGAGTATATA-ACT-CAAGA
1 AATCTTCCGCAAACGTGTTTGCTCCCTATTCCTTTCAGGGAGTATA-AGACTACAA-A
* * *
579830 AATCTTCGGAAAACGGGTTTGCTCCCTATTC
1 AATCTTCCGCAAACGTGTTTGCTCCCTATTC
579861 TTCTGAGAAG
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
55 29 0.38
56 46 0.61
57 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.32
Consensus pattern (56 bp):
AATCTTCCGCAAACGTGTTTGCTCCCTATTCCTTTCAGGGAGTATAAGACTACAAA
Found at i:580024 original size:42 final size:41
Alignment explanation
Indices: 579909--580029 Score: 127
Period size: 41 Copynumber: 2.9 Consensus size: 41
579899 CTTGGTGCAA
* * * * *
579909 AACATCCTGCCCGAAGGTCTTATGGATGACCCGAAGGATTT
1 AACATCATGCTCGAAAGACTTATAGATGACCCGAAGGATTT
* * * * *
579950 ATCATCTTGCTCGAGAGACTTATAAATAACCCGAAGGATTT
1 AACATCATGCTCGAAAGACTTATAGATGACCCGAAGGATTT
579991 AAACATCATGCTCGAAAGACTTACT-GATGACCCGAAGGA
1 -AACATCATGCTCGAAAGACTTA-TAGATGACCCGAAGGA
580030 CTTGTAAATC
Statistics
Matches: 64, Mismatches: 14, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
41 32 0.50
42 31 0.48
43 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (41 bp):
AACATCATGCTCGAAAGACTTATAGATGACCCGAAGGATTT
Found at i:580645 original size:213 final size:214
Alignment explanation
Indices: 579907--583982 Score: 6130
Period size: 214 Copynumber: 19.1 Consensus size: 214
579897 ATCTTGGTGC
* * * * * * *
579907 AAAACATCCTGCCCGAAGGTCTTATGGATGACCCGAAGGATTTATCATCTTGCTCGAGAGACTTA
1 AAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
* * * * * *
579972 TAAATAACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGACCCGAAGGACTTGTAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
* * * * *
580037 ATCGTAAAATTTTCAAAATCGTATTCTTCGTTTTAAAAAATTTCATCTTCTTAAAACATCATTTT
131 ATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCA--TT
*
580102 TTTCATTCTCAAATTCAAGTG
194 TTTCATTCTCAAATTCATGTG
* * * * *
580123 AAAATATCCTACCCCAAGATTTTATGGATGTCCCGAAGGACTTATCATCTTGCTCTGAAGGCTTA
1 AAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
* *
580188 GAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTTCTGATGGCCCGAAGGACTTATAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
* * * * *
580253 ATCGAGAAATTTTGAAAATTGTATTCTTCGTTTTCAAAAATTCCATCTACTTAAAATATCATTTT
131 ATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCA-TTT
580318 TTCATTCTCAAATTCATGTG
195 TTCATTCTCAAATTCATGTG
*
580338 AAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTGAAGGCTTA
1 AAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
** * * *
580403 CAGATGAAACGAAGGATTTAAACATCATGCTCGAAACACTAACTGATGGCCCGAAGGACTTATAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
* *
580468 ATCGTGAAATTTTGAAAATCACATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTGT
131 ATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
*
580533 T-ATTCTCAAATTTATGTG
196 TCATTCTCAAATTCATGTG
* *
580551 AAAACATCCTACTCGAAGGTTTTATGAATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
1 AAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
580616 CAGATGACCCGAAGGATTT----A--A-----G--A-A--T-C--AT-GCCCGAAGGACTTATAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
* *
580661 ATTGTGAAATTTTGAAAATCGTATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCA--TT
131 ATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
*
580724 T--TT-TCATATTCATGTG
196 TCATTCTCAAATTCATGTG
* * * *
580740 AAAACGTCCTGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTACTCTAAAGGCTTA
1 AAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
* * *
580805 CAGATAACCCGAAGGATTTAAGCATCATGCTTGAAAGACTTACCGATGGCCCGAAGGACTTATAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
* *
580870 ATTGTGAAATTTTGAAAATCTCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
131 ATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
580935 TCATT-TCCAAATTCATGTG
196 TCATTCT-CAAATTCATGTG
* * * * *
580954 AAAACATCTTGCCCGAAGGTCTTATGGATGGCCCGAATGACTTATCATCTTGCTCTGAAGGCTTA
1 AAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
581019 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
*
581084 ATCGTGAAATTTTGAAAATCGCATTCTTTCATTTTCAAAAATTCCATCTTCTTAAAACATCATTT
131 ATCGTGAAATTTTGAAAATCGCATTC-TTCGTTTTCAAAAATTCCATCTTCTTAAAACATCA--T
581149 TTTTCATTCTCAAATTCATGTG
193 TTTTCATTCTCAAATTCATGTG
* * *
581171 AAAACATCCTACCCGAAGGTTTTATGGATGGTCCGAAGGACTTATCATCTTGCTTTGAAGGCTTA
1 AAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
* *
581236 TAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTAACTGATGGCCCGAAGGACTTATAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
*
581301 ATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTTAAAAATTCCA-CATTCTTAAAACATCATTT
131 ATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATC-TTCTTAAAACATCATTT
581365 TT-ATTCTCAAATTCATGTG
195 TTCATTCTCAAATTCATGTG
* * * * *
581384 AAAACATCCTACCCGAAGGTTTTATGAATGGCCTGAAGGACTTATCATTTTTCTCTGAAGGCTTA
1 AAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
* * * *
581449 CAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTAACAGATGGCTCGAAGGACTTATAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
* *
581514 ATCATGAAATTTTGAAAAACGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
131 ATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
*
581579 T-ATTGTCAAATTCATGTG
196 TCATTCTCAAATTCATGTG
*
581597 AAAACATCCTACCCGAAGGTTTTATGAATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
1 AAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
* * * * *
581662 CAGATGACCCGAAGGGTTTAAGCCTCATGCTCAAAAGCCTTACTGGTGGCCCGAAGGACTTATAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
* * * * *
581727 ATTGTGAAATTTTGAAAATCGCATTCTCCGTTTTTAAAAATTTCATCTTCTTAAATCATCATTTT
131 ATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCA-TTT
581792 TTCATT-TCCAAATTCATGTG
195 TTCATTCT-CAAATTCATGTG
** * * * *
581812 AAAACGCCCTACCCGAATGTCTAATGGATGGCCCGAAGGACTTATCAACTTGCTCTAAAGGCTTA
1 AAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
* *
581877 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGGCCGAAGGGCTTATAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
*
581942 ATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
131 ATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
*
582007 CCATT-TCCAAATTCATGTG
196 TCATTCT-CAAATTCATGTG
* * * * *
582026 AAAACATCTTGCCAGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTGAAGGCTTA
1 AAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
* * * * *
582091 TAGATGACTCGAAGAATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCTGAAGGACATATAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
*
582156 ATCGTGAAATTTTGAAAATTGCATTCTTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTT
131 ATCGTGAAATTTTGAAAATCGCATTC-TTCGTTTTCAAAAATTCCATCTTCTTAAAACATCA-TT
*
582221 TTTCATTCTCAAATTCTTGTG
194 TTTCATTCTCAAATTCATGTG
* * *
582242 AAAACATCCCACCCGAAGGTTTTATGGATGGCCTGAAGGACTTATCATCTTGCTCTGAAGGCTTA
1 AAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
*
582307 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTAACTGATGGCCCGAAGGACTTATAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
582372 ATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
131 ATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
582437 T-ATTCTCAAATTCATGTG
196 TCATTCTCAAATTCATGTG
* *
582455 AAAACATCATACCCGAAGGTTTTA-GGAAAGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTT
1 AAAACATCCTACCCGAAGGTTTTATGG-ATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTT
* *
582519 ACAGATGACCCAAAGGATTTAAGCATCATGCTCGAAACACTTACTGATGGCCCGAAGGACTTATA
65 ACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATA
* **
582584 AATTGTGAAATTTTGAAAATCGCATTCTTCAATTTCAAAAATTCCATCTTCTTAAAACATCATTT
130 AATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTT
582649 TTCATT-TCCAAATTCATGTG
195 TTCATTCT-CAAATTCATGTG
* * *
582669 AAAACGTCCTACCCGAAGGTCTTATGGATGGCCCGAAAGACTTATCATCTTGCTCTAAAGGCTTA
1 AAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
*
582734 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAACACTTACTGATGGCCCGAAGGACTTATAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
** * * *
582799 ATTATGGAATTTTGAAAATTGTATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
131 ATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
582864 TCATT-TCCAAATTCATGTG
196 TCATTCT-CAAATTCATGTG
* * * * *
582883 AAAACATCTTACTCGAAGGTCTTATGGATGGCCCGAATGACTTATCATCTTGCTCTGAAGGCTTA
1 AAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
**
582948 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCATGAAGGACTTATAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
* * *
583013 ATCATGAAATTTTGAAAATTGCATTCTTTCATTTTCAAAAATTCCA---TCTTAAAACATCATTT
131 ATCGTGAAATTTTGAAAATCGCATTC-TTCGTTTTCAAAAATTCCATCTTCTTAAAACATCA--T
583075 TTTTCATTCTCAAATTCATGTG
193 TTTTCATTCTCAAATTCATGTG
* *
583097 AAAACATCCTACCCGAAGGTTTTATGGATGGCCTGAAGGACTTATCATCTTGCTCTGAAGGCTTA
1 AAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
*
583162 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTAACTGATGGCCCGAAGGACTTATAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
*
583227 ATCATGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
131 ATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
583292 T-ATTCTCAAATTCATGTG
196 TCATTCTCAAATTCATGTG
* *
583310 AAAACATCCTACCCGAAGGTTTTATGAATGGCCCGAATGACTTATCATCTTGCTCTAAAGGCTTA
1 AAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
*
583375 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAATACTTACTGATGGCCCGAAGGACTTATAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
** *
583440 ATTTTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAATATCATTTT
131 ATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
583505 TCATT-TCCAAATTCATGTG
196 TCATTCT-CAAATTCATGTG
* * * * * *
583524 AAAACGTCCTACCCCAAGATCTTGTGGATGGCCCGAATGACTTATCATCTTGCTCTAAAGGCTTA
1 AAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
*
583589 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTATTGATGGCCCGAAGGACTTATAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
** * *
583654 ATTATGGAATTTTGAAAATCGTATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
131 ATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
583719 TCATT-TCCAAATTCATGTG
196 TCATTCT-CAAATTCATGTG
* * * *
583738 AAAACATCTTACTCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGTCTTA
1 AAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
583803 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
*
583868 ATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTT
131 ATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
* *
583933 TCATTTTCAAATTCACGTG
196 TCATTCTCAAATTCATGTG
* *
583952 AAAAAATCCTACCCGAAGGTTTTTTGGATGG
1 AAAACATCCTACCCGAAGGTTTTATGGATGG
583983 ATTTGCTTCA
Statistics
Matches: 3547, Mismatches: 262, Indels: 104
0.91 0.07 0.03
Matches are distributed among these distances:
189 88 0.02
190 2 0.00
191 2 0.00
193 76 0.02
194 2 0.00
195 1 0.00
196 1 0.00
199 1 0.00
200 2 0.00
202 2 0.00
203 1 0.00
205 1 0.00
206 1 0.00
207 1 0.00
208 2 0.00
209 77 0.02
211 3 0.00
212 15 0.00
213 905 0.26
214 1310 0.37
215 512 0.14
216 371 0.10
217 170 0.05
218 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (214 bp):
AAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
ATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
TCATTCTCAAATTCATGTG
Found at i:581004 original size:41 final size:39
Alignment explanation
Indices: 580958--581081 Score: 104
Period size: 42 Copynumber: 3.0 Consensus size: 39
580948 CATGTGAAAA
*
580958 CATCTTGCCCGAAGGTCTTATGGATGGCCCGAATGACTTAT
1 CATCTTGCCCGAAGG-CTTAT-GATGGCCCGAAGGACTTAT
* * * * *
580999 CATCTTGCTCTGAAGGCTTACAGATGACCCGAAGGATTTAAG
1 CATCTTGC-CCGAAGGCTTA-TGATGGCCCGAAGGACTT-AT
* * *
581041 CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAT
1 CATCTTGCCCG-AAGGCTTA-TGATGGCCCGAAGGACTTAT
581082 AAATCGTGAA
Statistics
Matches: 65, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
41 28 0.43
42 37 0.57
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (39 bp):
CATCTTGCCCGAAGGCTTATGATGGCCCGAAGGACTTAT
Found at i:581970 original size:641 final size:641
Alignment explanation
Indices: 580644--583982 Score: 5279
Period size: 641 Copynumber: 5.2 Consensus size: 641
580634 TAAGAATCAT
* *
580644 GCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGTATTCTTCGTTTTCAAAAATTCCATCT
1 GCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCT
* * *
580709 TCTTAAAACATCA--TTT-TTTCATATTCATGTGAAAACGTCCTGCCCGAAGGTCTTATGGATGG
66 TCTTAAAACATCATTTTTATTTCAAATTCATGTGAAAACATCCTACCCGAAGGTCTTATGGATGG
* *
580771 CCCGAAGGACTTATCATCTTACTCTAAAGGCTTACAGATAACCCGAAGGATTTAAGCATCATGCT
131 CCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCT
* * * *
580836 TGAAAGACTTACCGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCTCATTCTTCGT
196 CGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTATGAAATTTTGAAAATCGCATTCTTCGT
* *
580901 TTTCAAAAATTCCATCTTCTTAAAACATCATTTTTCATTTCCAAATTCATGTGAAAACATCTTGC
261 TTTCAAAAATTCCATCTTCTTAAAACATCATTTTTCATTTCCAAATTCATGTGAAAACATCCTAC
580966 CCGAAGGTCTTATGGATGGCCCGAATGACTTATCATCTTGCTCTGAAGGCTTACAGATGACCCGA
326 CCGAAGGTCTTATGGATGGCCCGAATGACTTATCATCTTGCTCTGAAGGCTTACAGATGACCCGA
581031 AGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATCGTGAAATTT
391 AGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATCGTGAAATTT
*
581096 TGAAAATCGCATTCTTTCATTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTTTCATTCTCA
456 TGAAAATCGCATTC-TTCGTTTTCAAAAATTCCATCTTCTTAAAACATCA-TTTTTTCATTCTCA
* *
581161 AATTCATGTGAAAACATCCTACCCGAAGGTTTTATGGATGGTCCGAAGGACTTATCATCTTGCTT
519 AATTCATGTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTC
* * *
581226 TGAAGGCTTATAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTAACTGATG
584 TAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATG
*
581284 GCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTTAAAAATTCCA-CA
1 GCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATC-
* *
581348 TTCTTAAAACATCATTTTTATTCTCAAATTCATGTGAAAACATCCTACCCGAAGGTTTTATGAAT
65 TTCTTAAAACATCATTTTTATT-TCAAATTCATGTGAAAACATCCTACCCGAAGGTCTTATGGAT
* * * * *
581413 GGCCTGAAGGACTTATCATTTTTCTCTGAAGGCTTACAGATGACCCGAAGGATTTAAACATCATG
129 GGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATG
* * * * *
581478 CTCGAAAGACTAACAGATGGCTCGAAGGACTTATAAATCATGAAATTTTGAAAAACGCATTCTTC
194 CTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTATGAAATTTTGAAAATCGCATTCTTC
581543 GTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTT-ATTGT-CAAATTCATGTGAAAACATCC
259 GTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTCATT-TCCAAATTCATGTGAAAACATCC
* * * *
581606 TACCCGAAGGTTTTATGAATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACC
323 TACCCGAAGGTCTTATGGATGGCCCGAATGACTTATCATCTTGCTCTGAAGGCTTACAGATGACC
* * * * * *
581671 CGAAGGGTTTAAGCCTCATGCTCAAAAGCCTTACTGGTGGCCCGAAGGACTTATAAATTGTGAAA
388 CGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATCGTGAAA
* * * *
581736 TTTTGAAAATCGCATTCTCCGTTTTTAAAAATTTCATCTTCTTAAATCATCATTTTTTCATT-TC
453 TTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTTCATTCT-
** * * * *
581800 CAAATTCATGTGAAAACGCCCTACCCGAATGTCTAATGGATGGCCCGAAGGACTTATCAACTTGC
517 CAAATTCATGTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGC
581865 TCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATG
582 TCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATG
* * *
581925 GGCCGAAGGGCTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCT
1 GCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCT
* * * *
581990 TCTTAAAACATCATTTTCCATTTCCAAATTCATGTGAAAACATCTTGCCAGAAGGTCTTATGGAT
66 TCTTAAAACATCATTTT-TATTT-CAAATTCATGTGAAAACATCCTACCCGAAGGTCTTATGGAT
* * * *
582055 GGCCCGAAGGACTTATCATCTTGCTCTGAAGGCTTATAGATGACTCGAAGAATTTAAGCATCATG
129 GGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATG
* * ** *
582120 CTCGAAAGACTTACTGATGGCCTGAAGGACATATAAATCGTGAAATTTTGAAAATTGCATTCTTT
194 CTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTATGAAATTTTGAAAATCGCATTC-TT
*
582185 CGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTTCA-TTCTCAAATTCTTGTGAAAACAT
258 CGTTTTCAAAAATTCCATCTTCTTAAAACATCA-TTTTTCATTTC-CAAATTCATGTGAAAACAT
* * * *
582249 CCCACCCGAAGGTTTTATGGATGGCCTGAAGGACTTATCATCTTGCTCTGAAGGCTTACAGATGA
321 CCTACCCGAAGGTCTTATGGATGGCCCGAATGACTTATCATCTTGCTCTGAAGGCTTACAGATGA
*
582314 CCCGAAGGATTTAAGCATCATGCTCGAAAGACTAACTGATGGCCCGAAGGACTTATAAATCGTGA
386 CCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATCGTGA
582379 AATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCA-TTTTT-ATTC
451 AATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTTCATTC
* *
582442 TCAAATTCATGTGAAAACATCATACCCGAAGGTTTTA-GGAAAGGCCCGAAGGACTTATCATCTT
516 TCAAATTCATGTGAAAACATCCTACCCGAAGGTTTTATGG-ATGGCCCGAAGGACTTATCATCTT
* *
582506 GCTCTAAAGGCTTACAGATGACCCAAAGGATTTAAGCATCATGCTCGAAACACTTACTGATG
580 GCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATG
* **
582568 GCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCAATTTCAAAAATTCCATCT
1 GCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCT
*
582633 TCTTAAAACATCATTTTTCATTTCCAAATTCATGTGAAAACGTCCTACCCGAAGGTCTTATGGAT
66 TCTTAAAACATCATTTTT-ATTT-CAAATTCATGTGAAAACATCCTACCCGAAGGTCTTATGGAT
*
582698 GGCCCGAAAGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATG
129 GGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATG
* * * *
582763 CTCGAAACACTTACTGATGGCCCGAAGGACTTATAAATTATGGAATTTTGAAAATTGTATTCTTC
194 CTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTATGAAATTTTGAAAATCGCATTCTTC
*
582828 GTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTCATTTCCAAATTCATGTGAAAACATCTT
259 GTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTCATTTCCAAATTCATGTGAAAACATCCT
*
582893 ACTCGAAGGTCTTATGGATGGCCCGAATGACTTATCATCTTGCTCTGAAGGCTTACAGATGACCC
324 ACCCGAAGGTCTTATGGATGGCCCGAATGACTTATCATCTTGCTCTGAAGGCTTACAGATGACCC
** *
582958 GAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCATGAAGGACTTATAAATCATGAAAT
389 GAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATCGTGAAAT
* *
583023 TTTGAAAATTGCATTCTTTCATTTTCAAAAATTCCA---TCTTAAAACATCATTTTTTTCATTCT
454 TTTGAAAATCGCATTC-TTCGTTTTCAAAAATTCCATCTTCTTAAAACATCA-TTTTTTCATTCT
*
583085 CAAATTCATGTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCTGAAGGACTTATCATCTTGC
517 CAAATTCATGTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGC
* *
583150 TCTGAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTAACTGATG
582 TCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATG
*
583210 GCCCGAAGGACTTATAAATCATGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCT
1 GCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCT
* *
583275 TCTTAAAACATCATTTTTATTCTCAAATTCATGTGAAAACATCCTACCCGAAGGTTTTATGAATG
66 TCTTAAAACATCATTTTTATT-TCAAATTCATGTGAAAACATCCTACCCGAAGGTCTTATGGATG
*
583340 GCCCGAATGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGC
130 GCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGC
* *
583405 TCGAAATACTTACTGATGGCCCGAAGGACTTATAAATTTTGAAATTTTGAAAATCGCATTCTTCG
195 TCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTATGAAATTTTGAAAATCGCATTCTTCG
* *
583470 TTTTCAAAAATTCCATCTTCTTAAAATATCATTTTTCATTTCCAAATTCATGTGAAAACGTCCTA
260 TTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTCATTTCCAAATTCATGTGAAAACATCCTA
* * * *
583535 CCCCAAGATCTTGTGGATGGCCCGAATGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCG
325 CCCGAAGGTCTTATGGATGGCCCGAATGACTTATCATCTTGCTCTGAAGGCTTACAGATGACCCG
* ** *
583600 AAGGATTTAAGCATCATGCTCGAAAGACTTATTGATGGCCCGAAGGACTTATAAATTATGGAATT
390 AAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATCGTGAAATT
*
583665 TTGAAAATCGTATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCA-TTTTTCATT-TCCA
455 TTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTTCATTCT-CA
* * *
583728 AATTCATGTGAAAACATCTTACTCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTC
519 AATTCATGTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTC
*
583793 TAAAGTCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATG
584 TAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATG
*
583851 GCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCT
1 GCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCT
* * * *
583916 TCTTAAAACATCATTTTTCATTTTCAAATTCACGTGAAAAAATCCTACCCGAAGGTTTTTTGGAT
66 TCTTAAAACATCATTTTT-A-TTTCAAATTCATGTGAAAACATCCTACCCGAAGGTCTTATGGAT
583981 GG
129 GG
583983 ATTTGCTTCA
Statistics
Matches: 2484, Mismatches: 184, Indels: 60
0.91 0.07 0.02
Matches are distributed among these distances:
639 14 0.01
640 93 0.04
641 938 0.38
642 484 0.19
643 564 0.23
644 203 0.08
645 188 0.08
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (641 bp):
GCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCT
TCTTAAAACATCATTTTTATTTCAAATTCATGTGAAAACATCCTACCCGAAGGTCTTATGGATGG
CCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCT
CGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTATGAAATTTTGAAAATCGCATTCTTCGT
TTTCAAAAATTCCATCTTCTTAAAACATCATTTTTCATTTCCAAATTCATGTGAAAACATCCTAC
CCGAAGGTCTTATGGATGGCCCGAATGACTTATCATCTTGCTCTGAAGGCTTACAGATGACCCGA
AGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATCGTGAAATTT
TGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTTCATTCTCAAA
TTCATGTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTA
AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATG
Found at i:582321 original size:41 final size:41
Alignment explanation
Indices: 582276--582369 Score: 100
Period size: 42 Copynumber: 2.3 Consensus size: 41
582266 TGGATGGCCT
* * *
582276 GAAGGACTTATCATCTTGCTCTG-AAGGCTTACAGATGACCC
1 GAAGGACTTATCATCATGCTC-GAAAGACTAACAGATGACCC
* * * *
582317 GAAGGATTTAAGCATCATGCTCGAAAGACTAACTGATGGCCC
1 GAAGGACTT-ATCATCATGCTCGAAAGACTAACAGATGACCC
582359 GAAGGACTTAT
1 GAAGGACTTAT
582370 AAATCGTGAA
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
41 10 0.24
42 32 0.76
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.24
Consensus pattern (41 bp):
GAAGGACTTATCATCATGCTCGAAAGACTAACAGATGACCC
Found at i:583231 original size:42 final size:42
Alignment explanation
Indices: 583123--583232 Score: 102
Period size: 42 Copynumber: 2.6 Consensus size: 42
583113 AGGTTTTATG
* * * * *
583123 GATGGCCTGAAGGACTTAT-CATCTTGCTCTGAAGGCTTACA
1 GATGGCCCGAAGGACTTATAAATCATGCTCTGAAGACTAACA
* *
583164 GATGACCCGAAGGA-TT-TAAGCATCATGCTC-GAAAGACTAACT
1 GATGGCCCGAAGGACTTATAA--ATCATGCTCTG-AAGACTAACA
583206 GATGGCCCGAAGGACTTATAAATCATG
1 GATGGCCCGAAGGACTTATAAATCATG
583233 AAATTTTGAA
Statistics
Matches: 55, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
39 1 0.02
40 2 0.04
41 13 0.24
42 34 0.62
43 2 0.04
44 3 0.05
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.25
Consensus pattern (42 bp):
GATGGCCCGAAGGACTTATAAATCATGCTCTGAAGACTAACA
Found at i:583465 original size:855 final size:853
Alignment explanation
Indices: 579907--583982 Score: 6369
Period size: 855 Copynumber: 4.8 Consensus size: 853
579897 ATCTTGGTGC
* * * * * * * *
579907 AAAACATCCTGCCCGAAGGTCTTATGGATGACCCGAAGGATTTATCATCTTGCTCGAGAGACTTA
1 AAAACATCCTACCCGAAGGTTTTATGAATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
* * * * * *
579972 TAAATAACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGACCCGAAGGACTTGTAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
* * * * * *
580037 ATCGTAAAATTTTCAAAATCGTATTCTTCGTTTTAAAAAATTTCATCTTCTTAAAACATCATTTT
131 ATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCA--TT
* ** * * * *
580102 TTTCA-TTCTCAAATTCAAGTGAAAATATCCTACCCCAAGATTTTATGGATGTCCCGAAGGACTT
194 TTTCATTTC-CAAATTCATGTGAAAACGTCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTT
* * *
580166 ATCATCTTGCTCTGAAGGCTTAGAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTTC
258 ATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTAC
* *
580231 TGATGGCCCGAAGGACTTATAAATCGA-GAAATTTTGAAAATTGTATTCTTCGTTTTCAAAAATT
323 TGATGGCCCGAAGGACTTATAAAT-TATGAAATTTTGAAAATCGTATTCTTCGTTTTCAAAAATT
* * * *
580295 CCATCTACTTAAAATATCATTTTTTCA-TTCTCAAATTCATGTGAAAACATCCTACCCGAAGGTT
387 CCATCTTCTTAAAACATCA-TTTTTCATTTC-CAAATTCATGTGAAAACATCTTACCCGAAGGTC
**
580359 TTATGGATGGCCCGAAGGACTTATCATCTTGCTCTGAAGGCTTACAGATGAAACGAAGGATTTAA
450 TTATGGATGGCCCGAAGGACTTATCATCTTGCTCTGAAGGCTTACAGATGACCCGAAGGATTTAA
* * * *
580424 ACATCATGCTCGAAACACTAACTGATGGCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCA
515 GCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCG
* *
580489 CATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTGTT-ATTCTCAAATTTATGTGAA
580 CATTCTTCGTTTTCAAAAATTCCA--TTCTTAAAACATCATTTTTCATTCTCAAATTCATGTGAA
* * * *
580553 AACATCCTACTCGAAGGTTTTATGAATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACA
643 AACATCCTACCCGAAGGTTTTATGGATGGCCTGAAGGACTTATCATCTTGCTCTGAAGGCTTACA
580618 GATGACCCGAAGGATTT----A--A-----G--A-A-T--C--AT-GCCCGAAGGACTTATAAAT
708 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTAACTGATGGCCCGAAGGACTTATAAAT
** *
580663 TGTGAAATTTTGAAAATCGTATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCA--TTT-
773 CATGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTA
*
580725 TT-TCATATTCATGTG
838 TTCTCAAATTCATGTG
* * * * *
580740 AAAACGTCCTGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTACTCTAAAGGCTTA
1 AAAACATCCTACCCGAAGGTTTTATGAATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
* * *
580805 CAGATAACCCGAAGGATTTAAGCATCATGCTTGAAAGACTTACCGATGGCCCGAAGGACTTATAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
*
580870 ATTGTGAAATTTTGAAAATCTCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
131 ATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
* * * *
580935 TCATTTCCAAATTCATGTGAAAACATCTTGCCCGAAGGTCTTATGGATGGCCCGAATGACTTATC
196 TCATTTCCAAATTCATGTGAAAACGTCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATC
*
581000 ATCTTGCTCTGAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGA
261 ATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGA
** * *
581065 TGGCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCGCATTCTTTCATTTTCAAAAATTCCA
326 TGGCCCGAAGGACTTATAAATTATGAAATTTTGAAAATCGTATTC-TTCGTTTTCAAAAATTCCA
* *
581130 TCTTCTTAAAACATCATTTTTTTCA-TTCTCAAATTCATGTGAAAACATCCTACCCGAAGGTTTT
390 TCTTCTTAAAACATCA--TTTTTCATTTC-CAAATTCATGTGAAAACATCTTACCCGAAGGTCTT
* * *
581194 ATGGATGGTCCGAAGGACTTATCATCTTGCTTTGAAGGCTTATAGATGACCCGAAGGATTTAAGC
452 ATGGATGGCCCGAAGGACTTATCATCTTGCTCTGAAGGCTTACAGATGACCCGAAGGATTTAAGC
*
581259 ATCATGCTCGAAAGACTAACTGATGGCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCGCA
517 ATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCGCA
*
581324 TTCTTCGTTTTTAAAAATTCCACATTCTTAAAACATCATTTTT-ATTCTCAAATTCATGTGAAAA
582 TTCTTCGTTTTCAAAAATT-C-CATTCTTAAAACATCATTTTTCATTCTCAAATTCATGTGAAAA
* * *
581388 CATCCTACCCGAAGGTTTTATGAATGGCCTGAAGGACTTATCATTTTTCTCTGAAGGCTTACAGA
645 CATCCTACCCGAAGGTTTTATGGATGGCCTGAAGGACTTATCATCTTGCTCTGAAGGCTTACAGA
* * *
581453 TGACCCGAAGGATTTAAACATCATGCTCGAAAGACTAACAGATGGCTCGAAGGACTTATAAATCA
710 TGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTAACTGATGGCCCGAAGGACTTATAAATCA
*
581518 TGAAATTTTGAAAAACGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTATT
775 TGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTATT
*
581583 GTCAAATTCATGTG
840 CTCAAATTCATGTG
581597 AAAACATCCTACCCGAAGGTTTTATGAATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
1 AAAACATCCTACCCGAAGGTTTTATGAATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
* * * * *
581662 CAGATGACCCGAAGGGTTTAAGCCTCATGCTCAAAAGCCTTACTGGTGGCCCGAAGGACTTATAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
* * * *
581727 ATTGTGAAATTTTGAAAATCGCATTCTCCGTTTTTAAAAATTTCATCTTCTTAAATCATCATTTT
131 ATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCA-TTT
* * *
581792 TTCATTTCCAAATTCATGTGAAAACGCCCTACCCGAATGTCTAATGGATGGCCCGAAGGACTTAT
195 TTCATTTCCAAATTCATGTGAAAACGTCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTAT
*
581857 CAACTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTG
260 CATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTG
* * * *
581922 ATGGGCCGAAGGGCTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCA
325 ATGGCCCGAAGGACTTATAAATTATGAAATTTTGAAAATCGTATTCTTCGTTTTCAAAAATTCCA
* * *
581987 TCTTCTTAAAACATCATTTTCCATTTCCAAATTCATGTGAAAACATCTTGCCAGAAGGTCTTATG
390 TCTTCTTAAAACATCATTTTTCATTTCCAAATTCATGTGAAAACATCTTACCCGAAGGTCTTATG
* * *
582052 GATGGCCCGAAGGACTTATCATCTTGCTCTGAAGGCTTATAGATGACTCGAAGAATTTAAGCATC
455 GATGGCCCGAAGGACTTATCATCTTGCTCTGAAGGCTTACAGATGACCCGAAGGATTTAAGCATC
* * *
582117 ATGCTCGAAAGACTTACTGATGGCCTGAAGGACATATAAATCGTGAAATTTTGAAAATTGCATTC
520 ATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCGCATTC
*
582182 TTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTTCATTCTCAAATTCTTGTGAAAAC
585 -TTCGTTTTCAAAAATTCCA--TTCTTAAAACATCA-TTTTTCATTCTCAAATTCATGTGAAAAC
*
582247 ATCCCACCCGAAGGTTTTATGGATGGCCTGAAGGACTTATCATCTTGCTCTGAAGGCTTACAGAT
646 ATCCTACCCGAAGGTTTTATGGATGGCCTGAAGGACTTATCATCTTGCTCTGAAGGCTTACAGAT
*
582312 GACCCGAAGGATTTAAGCATCATGCTCGAAAGACTAACTGATGGCCCGAAGGACTTATAAATCGT
711 GACCCGAAGGATTTAAGCATCATGCTCGAAAGACTAACTGATGGCCCGAAGGACTTATAAATCAT
582377 GAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTATTC
776 GAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTATTC
582442 TCAAATTCATGTG
841 TCAAATTCATGTG
* * *
582455 AAAACATCATACCCGAAGGTTTTAGGAAAGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
1 AAAACATCCTACCCGAAGGTTTTATGAATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
* *
582520 CAGATGACCCAAAGGATTTAAGCATCATGCTCGAAACACTTACTGATGGCCCGAAGGACTTATAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
**
582585 ATTGTGAAATTTTGAAAATCGCATTCTTCAATTTCAAAAATTCCATCTTCTTAAAACATCATTTT
131 ATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
*
582650 TCATTTCCAAATTCATGTGAAAACGTCCTACCCGAAGGTCTTATGGATGGCCCGAAAGACTTATC
196 TCATTTCCAAATTCATGTGAAAACGTCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATC
*
582715 ATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAACACTTACTGA
261 ATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGA
* *
582780 TGGCCCGAAGGACTTATAAATTATGGAATTTTGAAAATTGTATTCTTCGTTTTCAAAAATTCCAT
326 TGGCCCGAAGGACTTATAAATTATGAAATTTTGAAAATCGTATTCTTCGTTTTCAAAAATTCCAT
*
582845 CTTCTTAAAACATCATTTTTCATTTCCAAATTCATGTGAAAACATCTTACTCGAAGGTCTTATGG
391 CTTCTTAAAACATCATTTTTCATTTCCAAATTCATGTGAAAACATCTTACCCGAAGGTCTTATGG
*
582910 ATGGCCCGAATGACTTATCATCTTGCTCTGAAGGCTTACAGATGACCCGAAGGATTTAAGCATCA
456 ATGGCCCGAAGGACTTATCATCTTGCTCTGAAGGCTTACAGATGACCCGAAGGATTTAAGCATCA
** * *
582975 TGCTCGAAAGACTTACTGATGGCATGAAGGACTTATAAATCATGAAATTTTGAAAATTGCATTCT
521 TGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCGCATTC-
*
583040 TTCATTTTCAAAAATTCCA-TCTTAAAACATCATTTTTTTCATTCTCAAATTCATGTGAAAACAT
585 TTCGTTTTCAAAAATTCCATTCTTAAAACATCA--TTTTTCATTCTCAAATTCATGTGAAAACAT
583104 CCTACCCGAAGGTTTTATGGATGGCCTGAAGGACTTATCATCTTGCTCTGAAGGCTTACAGATGA
648 CCTACCCGAAGGTTTTATGGATGGCCTGAAGGACTTATCATCTTGCTCTGAAGGCTTACAGATGA
583169 CCCGAAGGATTTAAGCATCATGCTCGAAAGACTAACTGATGGCCCGAAGGACTTATAAATCATGA
713 CCCGAAGGATTTAAGCATCATGCTCGAAAGACTAACTGATGGCCCGAAGGACTTATAAATCATGA
583234 AATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTATTCTC
778 AATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTATTCTC
583299 AAATTCATGTG
843 AAATTCATGTG
*
583310 AAAACATCCTACCCGAAGGTTTTATGAATGGCCCGAATGACTTATCATCTTGCTCTAAAGGCTTA
1 AAAACATCCTACCCGAAGGTTTTATGAATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
*
583375 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAATACTTACTGATGGCCCGAAGGACTTATAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
* *
583440 ATTTTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAATATCATTTT
131 ATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
* * * *
583505 TCATTTCCAAATTCATGTGAAAACGTCCTACCCCAAGATCTTGTGGATGGCCCGAATGACTTATC
196 TCATTTCCAAATTCATGTGAAAACGTCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATC
*
583570 ATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTATTGA
261 ATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGA
*
583635 TGGCCCGAAGGACTTATAAATTATGGAATTTTGAAAATCGTATTCTTCGTTTTCAAAAATTCCAT
326 TGGCCCGAAGGACTTATAAATTATGAAATTTTGAAAATCGTATTCTTCGTTTTCAAAAATTCCAT
*
583700 CTTCTTAAAACATCATTTTTCATTTCCAAATTCATGTGAAAACATCTTACTCGAAGGTCTTATGG
391 CTTCTTAAAACATCATTTTTCATTTCCAAATTCATGTGAAAACATCTTACCCGAAGGTCTTATGG
* *
583765 ATGGCCCGAAGGACTTATCATCTTGCTCTAAAGTCTTACAGATGACCCGAAGGATTTAAGCATCA
456 ATGGCCCGAAGGACTTATCATCTTGCTCTGAAGGCTTACAGATGACCCGAAGGATTTAAGCATCA
583830 TGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCGCATTCT
521 TGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCGCATTCT
* * * *
583895 TCGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTTTCATTTTCAAATTCACGTGAAAAAATC
586 TCGTTTTCAAAAATTCCA--TTCTTAAAACATCATTTTTCATTCTCAAATTCATGTGAAAACATC
*
583960 CTACCCGAAGGTTTTTTGGATGG
649 CTACCCGAAGGTTTTATGGATGG
583983 ATTTGCTTCA
Statistics
Matches: 3012, Mismatches: 190, Indels: 60
0.92 0.06 0.02
Matches are distributed among these distances:
831 159 0.05
832 35 0.01
833 470 0.16
834 1 0.00
835 2 0.00
837 1 0.00
839 1 0.00
844 1 0.00
846 1 0.00
847 1 0.00
848 1 0.00
850 1 0.00
852 2 0.00
853 73 0.02
854 32 0.01
855 1010 0.34
856 34 0.01
857 626 0.21
858 561 0.19
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (853 bp):
AAAACATCCTACCCGAAGGTTTTATGAATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
ATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
TCATTTCCAAATTCATGTGAAAACGTCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATC
ATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGA
TGGCCCGAAGGACTTATAAATTATGAAATTTTGAAAATCGTATTCTTCGTTTTCAAAAATTCCAT
CTTCTTAAAACATCATTTTTCATTTCCAAATTCATGTGAAAACATCTTACCCGAAGGTCTTATGG
ATGGCCCGAAGGACTTATCATCTTGCTCTGAAGGCTTACAGATGACCCGAAGGATTTAAGCATCA
TGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCGCATTCT
TCGTTTTCAAAAATTCCATTCTTAAAACATCATTTTTCATTCTCAAATTCATGTGAAAACATCCT
ACCCGAAGGTTTTATGGATGGCCTGAAGGACTTATCATCTTGCTCTGAAGGCTTACAGATGACCC
GAAGGATTTAAGCATCATGCTCGAAAGACTAACTGATGGCCCGAAGGACTTATAAATCATGAAAT
TTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTATTCTCAAA
TTCATGTG
Found at i:583642 original size:42 final size:41
Alignment explanation
Indices: 583550--583650 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 41
583540 AGATCTTGTG
* * * * *
583550 GATGGCCCGAATGACTTATCATCTTGCTCTAAAGGCTTACA
1 GATGGCCCGAAGGACTTAGCATCATGCTCGAAAGACTTACA
* * **
583591 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTATT
1 GATGGCCCGAAGGACTT-AGCATCATGCTCGAAAGACTTACA
583633 GATGGCCCGAAGGACTTA
1 GATGGCCCGAAGGACTTA
583651 TAAATTATGG
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
41 15 0.31
42 33 0.69
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.26
Consensus pattern (41 bp):
GATGGCCCGAAGGACTTAGCATCATGCTCGAAAGACTTACA
Found at i:583788 original size:41 final size:40
Alignment explanation
Indices: 583742--583865 Score: 131
Period size: 42 Copynumber: 3.0 Consensus size: 40
583732 CATGTGAAAA
* *
583742 CATCTTACTCGAAGGTCTTATGGATGGCCCGAAGGACTTAT
1 CATCTTGCTCGAAAGTCTTAT-GATGGCCCGAAGGACTTAT
* * * * *
583783 CATCTTGCTCTAAAGTCTTACAGATGACCCGAAGGATTTAAG
1 CATCTTGCTCGAAAGTCTTA-TGATGGCCCGAAGGACTT-AT
* *
583825 CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAT
1 CATCTTGCTCGAAAGTCTTA-TGATGGCCCGAAGGACTTAT
583866 AAATCGTGAA
Statistics
Matches: 67, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
41 33 0.49
42 34 0.51
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (40 bp):
CATCTTGCTCGAAAGTCTTATGATGGCCCGAAGGACTTAT
Found at i:584104 original size:35 final size:34
Alignment explanation
Indices: 583986--584191 Score: 261
Period size: 34 Copynumber: 5.9 Consensus size: 34
583976 TGGATGGATT
*
583986 TGCTTCACTACTCTTCGGTGAAGGCTTAAGATGG
1 TGCTTCACTACTCTTCTGTGAAGGCTTAAGATGG
* *
584020 TGCTTCACTACTCCTCTATGAAGGCTTAAGATGG
1 TGCTTCACTACTCTTCTGTGAAGGCTTAAGATGG
*
584054 TGCTTCACTACTCTTCTGTGAAGGCTTAAGATGAA
1 TGCTTCACTACTCTTCTGTGAAGGCTTAAGATG-G
* *
584089 TGCTTCACTATTCTTCTGTGAAGGCTTAAGATGAT
1 TGCTTCACTACTCTTCTGTGAAGGCTTAAGATG-G
* * *
584124 TGCTTCACTACTCTCCGGTGAAGGTTTAAGATGG
1 TGCTTCACTACTCTTCTGTGAAGGCTTAAGATGG
* *
584158 TTTCCTTCACTCCTCTT-TGGTGAAGGCTTAAGAT
1 --TGCTTCACTACTCTTCT-GTGAAGGCTTAAGAT
584192 TGACTTTGTT
Statistics
Matches: 150, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
34 62 0.41
35 62 0.41
36 26 0.17
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (34 bp):
TGCTTCACTACTCTTCTGTGAAGGCTTAAGATGG
Found at i:589897 original size:21 final size:21
Alignment explanation
Indices: 589838--589902 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
589828 CAATACAAAG
589838 TGGTCTTCATGTCTTTATGAA
1 TGGTCTTCATGTCTTTATGAA
*
589859 GGGTCTTCATGTCTTTATGAA
1 TGGTCTTCATGTCTTTATGAA
* * *
589880 TGGTCTTCTTATCCTTATGAA
1 TGGTCTTCATGTCTTTATGAA
589901 TG
1 TG
589903 ACTATATATA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.18, C:0.15, G:0.20, T:0.46
Consensus pattern (21 bp):
TGGTCTTCATGTCTTTATGAA
Found at i:600218 original size:21 final size:21
Alignment explanation
Indices: 600194--600234 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
600184 TTCAATTAAG
* *
600194 AATCAATGAGCTTTACTTCAT
1 AATCAATGAACCTTACTTCAT
600215 AATCAATGAACCTTACTTCA
1 AATCAATGAACCTTACTTCA
600235 AAGCCATAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.34
Consensus pattern (21 bp):
AATCAATGAACCTTACTTCAT
Found at i:602009 original size:44 final size:44
Alignment explanation
Indices: 601959--602128 Score: 286
Period size: 44 Copynumber: 3.9 Consensus size: 44
601949 GAGTGGAACT
*
601959 TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCATA
1 TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCACA
* *
602003 TTTCTGCCAATAATGCACCATTATGCATTTTCATTTATGGCACC
1 TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCACA
* *
602047 TTTCTGCCAATAATGCACCGTTATGGATTTTCATTTATGACACA
1 TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCACA
*
602091 TTTATGCCAATAATGCACCGTTATGCATTTTCATTTAT
1 TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTAT
602129 TTCGGTAACA
Statistics
Matches: 117, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 117 1.00
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.41
Consensus pattern (44 bp):
TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCACA
Found at i:605968 original size:44 final size:44
Alignment explanation
Indices: 605889--606065 Score: 230
Period size: 44 Copynumber: 4.0 Consensus size: 44
605879 ATACCATGAG
* * * *
605889 TGGCACATTTCTACCAGTAATGCACCATTAAGCATTTTCATTTA
1 TGGCACATTTCTACCAATAATGCATCGTTATGCATTTTCATTTA
* *
605933 TGGCACTTTTCTACCAATAACGCA-CAGTTATGCATTTTCATTTA
1 TGGCACATTTCTACCAATAATGCATC-GTTATGCATTTTCATTTA
*
605977 TGGCACATTTCTACCAATAATACATCGTTATGCATTTTCATTTA
1 TGGCACATTTCTACCAATAATGCATCGTTATGCATTTTCATTTA
* * * * *
606021 TGACATATTTATGCTAATAATGCATCGTTATGCATTTTCATTTA
1 TGGCACATTTCTACCAATAATGCATCGTTATGCATTTTCATTTA
606065 T
1 T
606066 TTCGGTAACA
Statistics
Matches: 117, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
43 1 0.01
44 115 0.98
45 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.41
Consensus pattern (44 bp):
TGGCACATTTCTACCAATAATGCATCGTTATGCATTTTCATTTA
Found at i:612888 original size:6 final size:6
Alignment explanation
Indices: 612866--612901 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
612856 GCACGGTTCG
*
612866 GCTCG- GCTCGT GGTCGT GCTCGT GCTCGT GCTCGT G
1 GCTCGT GCTCGT GCTCGT GCTCGT GCTCGT GCTCGT G
612902 GTAATATGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.00, C:0.31, G:0.39, T:0.31
Consensus pattern (6 bp):
GCTCGT
Found at i:632368 original size:56 final size:56
Alignment explanation
Indices: 632325--632654 Score: 455
Period size: 56 Copynumber: 5.9 Consensus size: 56
632315 CCCACCACCA
* ** * *
632325 ATACGGAAATTCATATACTTATTATGAATTTAATAGTTATTGCACCCAAAGTTCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTTCCC
* *
632381 ATACGGAAATTCATAAACTCATTATAAATTTCTTAGTTTTTGCACACAAAGTTCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTTCCC
* *
632437 ATACGGAAATTTATAAACTCATTATGAATTTCTTAGTTTTTGCACACAAAGTTCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTTCCC
* *
632493 ATACGGAAATTCATAAAGTTATTATGAATTTCTTAGTTTTTGCACACACACAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACA-A-AGTTCCC
* * * *
632551 ATACAGAAATTCATCAACTTATTATGAATTTCTTAGTTTTTGAACA-AACAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAA-AGTTCCC
* * * *
632607 ATACAGAAATTCATAAATTTATTATTAATTTCTTAGCTTTTGCACACA
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACA
632655 CAGTGTCCTT
Statistics
Matches: 249, Mismatches: 22, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
56 198 0.80
57 3 0.01
58 48 0.19
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (56 bp):
ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTTCCC
Found at i:632444 original size:112 final size:113
Alignment explanation
Indices: 632325--632656 Score: 445
Period size: 114 Copynumber: 2.9 Consensus size: 113
632315 CCCACCACCA
** *
632325 ATACGGAAATTCATATACTTATTATGAATTTAATAGTTATTGCACCCAAAGTTCCCATACGGAAA
1 ATACGGAAATTCATA-ACTTATTATGAATTTCTTAGTTTTTGCACCCAAAGTTCCCATACGGAAA
* *
632390 TTCATAAACTCATTATAAATTTCTTAGTTTTTGCACACA-A-AGTTCCC
65 TTCATAAACTTATTATAAATTTCTTAGTTTTTGCACACACACAGTGCCC
* * *
632437 ATACGGAAATTTATAAACTCATTATGAATTTCTTAGTTTTTGCACACAAAGTTCCCATACGGAAA
1 ATACGGAAATTCAT-AACTTATTATGAATTTCTTAGTTTTTGCACCCAAAGTTCCCATACGGAAA
* *
632502 TTCATAAAGTTATTATGAATTTCTTAGTTTTTGCACACACACAGTGCCC
65 TTCATAAACTTATTATAAATTTCTTAGTTTTTGCACACACACAGTGCCC
* * * * *
632551 ATACAGAAATTCATCAACTTATTATGAATTTCTTAGTTTTTG-AACAAACAGTGCCCATACAGAA
1 ATACGGAAATTCAT-AACTTATTATGAATTTCTTAGTTTTTGCACCCAA-AGTTCCCATACGGAA
* * *
632615 ATTCATAAATTTATTATTAATTTCTTAGCTTTTGCACACACA
64 ATTCATAAACTTATTATAAATTTCTTAGTTTTTGCACACACA
632657 GTGTCCTTTG
Statistics
Matches: 194, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
112 93 0.48
113 5 0.03
114 96 0.49
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.36
Consensus pattern (113 bp):
ATACGGAAATTCATAACTTATTATGAATTTCTTAGTTTTTGCACCCAAAGTTCCCATACGGAAAT
TCATAAACTTATTATAAATTTCTTAGTTTTTGCACACACACAGTGCCC
Found at i:632700 original size:19 final size:18
Alignment explanation
Indices: 632676--632721 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
632666 GGTAATCACC
*
632676 ATACATATATTAAGTAATT
1 ATACATATATTAACT-ATT
*
632695 ATACATATA-TGACTATT
1 ATACATATATTAACTATT
632712 ATACATATAT
1 ATACATATAT
632722 GTACATATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 12 0.50
18 3 0.12
19 9 0.38
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (18 bp):
ATACATATATTAACTATT
Found at i:633393 original size:22 final size:22
Alignment explanation
Indices: 633342--633397 Score: 71
Period size: 20 Copynumber: 2.6 Consensus size: 22
633332 TTCTGGATCC
*
633342 ATGGTACCGATACTTCTCTCCT
1 ATGGTACCGATACTTCTCTACT
* *
633364 -T-GTACCGATACTTTTGTACT
1 ATGGTACCGATACTTCTCTACT
633384 ATGGTACCGATACT
1 ATGGTACCGATACT
633398 CTATTACAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 16 0.55
21 2 0.07
22 11 0.38
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGGTACCGATACTTCTCTACT
Found at i:639640 original size:56 final size:56
Alignment explanation
Indices: 639580--640014 Score: 617
Period size: 56 Copynumber: 7.7 Consensus size: 56
639570 ATATTCATGT
* * * *
639580 ACTTATTATAAATTTCTTAGTTATTGTACACAAAGTTCCCATACAGAAATTCATAA
1 ACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCCATACAGAAATTCATAA
*
639636 ACTTATTATGAATTTTCTTAGTTTTTGCACACAAAGTGCCCATGC-GAAAATTCATAA
1 ACTTATTATGAA-TTTCTTAGTTTTTGCACACAAAGTGCCCATACAG-AAATTCATAA
* * * * *
639693 ACTCAATATGAATTTCTTAGTTTTTTTCCACACAAAGTGCTCATACAGAAATTTATAA
1 ACTTATTATGAATTTCTTAG--TTTTTGCACACAAAGTGCCCATACAGAAATTCATAA
639751 ACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCCATA-AGGAAATTCATAA
1 ACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCCATACA-GAAATTCATAA
* * *
639807 ACTTGTTATGAATTTCTTAGTTTTTGCACACACAGTGCCCATACGGAAATTCATAA
1 ACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCCATACAGAAATTCATAA
* *
639863 ACTTATTATGAATTTCTTAGTTTTTGTACACACAGTGCCCATACAGAAATTCATAA
1 ACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCCATACAGAAATTCATAA
* *
639919 ACTTATTATGAATTTCTTAGTTTTTGTACACATAGTGCCCATAC-GAAAATTCATAA
1 ACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCCATACAG-AAATTCATAA
*
639975 ACTTATTATGAATTTTTTAGTTTTTGCACACACAA-TGCCC
1 ACTTATTATGAATTTCTTAGTTTTTGCACACA-AAGTGCCC
640015 TTTGGTAATC
Statistics
Matches: 344, Mismatches: 26, Indels: 18
0.89 0.07 0.05
Matches are distributed among these distances:
55 2 0.01
56 244 0.71
57 49 0.14
58 48 0.14
59 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (56 bp):
ACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCCATACAGAAATTCATAA
Found at i:642521 original size:135 final size:135
Alignment explanation
Indices: 642216--642921 Score: 785
Period size: 135 Copynumber: 5.3 Consensus size: 135
642206 AACTCAATTT
*
642216 AATCTTCCCTCAAGAACAGTGGAATGAATCAACGTCCCCAGAGT-TGATTTTCCCTGAAGAAACA
1 AATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCAGA-TCTGATTTTCCCTGAAGAAACA
* * * * *
642280 ACAGAACATATCCCCTCTCTTTCCATATTTGATCTTCTCTTAGTGGCA-TGGAACAAGTCTGCCT
65 ACAGAACATATCCCCTCTCTTTCTAGATTTGATCTTCCCTGAGTAGCAGTGGAACAAGTCTGCCT
642344 CGATTC
130 CGATTC
* * * * *
642350 AATCTTCTCTAAAGAATAATGGAATGAATCAACGT-CCCAGGATCTTATTTTCCCTGAAGAAACA
1 AATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCA-GATCTGATTTTCCCTGAAGAAACA
* * ** * *
642414 GCAGAATATATCCTTTCTCTTTCTAGATTTGATCTTCCCTGAGTAGTAATGGAACAAGTCTGCCT
65 ACAGAACATATCCCCTCTCTTTCTAGATTTGATCTTCCCTGAGTAGCAGTGGAACAAGTCTGCCT
642479 CGATTC
130 CGATTC
* * * *
642485 AGTCTTCCCTGAAGAATAGTAGAATGAATCAACGTCCCCATATCTGATTTTCCCTGAAGAAACAA
1 AATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTGAAGAAACAA
** * * * * * ** *
642550 TGGAATAGATCCCCTCTATTTTTTGATTTGATCTTCTTTGAGTAGCAGTGGAACAAGTATGCCTC
66 CAGAACATATCCCCTCTCTTTCTAGATTTGATCTTCCCTGAGTAGCAGTGGAACAAGTCTGCCTC
642615 GATTC
131 GATTC
* * *
642620 AATCTTCCCTGAAGAACAGTGAAATGAATCAACATCCCCAGATCTGGTTTTCCCTGAAGAAACAA
1 AATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTGAAGAAACAA
* * * * * * * *
642685 CAGAAAATATCCCCTCCCTATCTGGATTTGATCTTCCCTGAGTAGTAGTGGAACAAATATACCTC
66 CAGAACATATCCCCTCTCTTTCTAGATTTGATCTTCCCTGAGTAGCAGTGGAACAAGTCTGCCTC
*
642750 TATTC
131 GATTC
* * * * * * * * * *
642755 AATCTTCCCTGAAGAACATTGGAGTAAATCAATGTCTCCATATATGATTTTCCCCGAAGAAGCAG
1 AATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTGAAGAAACAA
* * * * * * ** * *
642820 CGGAACAGAT--CATCTCTTTCCAGATTTGATCTTTCTTGACCAACAGTGTAACAAGTCT-CCTC
66 CAGAACATATCCCCTCTCTTTCTAGATTTGATCTTCCCTGAGTAGCAGTGGAACAAGTCTGCCTC
642882 GATTC
131 GATTC
642887 AATCTTCCCTGAAGAACAGTGGAATGAATCAACGT
1 AATCTTCCCTGAAGAACAGTGGAATGAATCAACGT
642922 TTCTTGATAT
Statistics
Matches: 475, Mismatches: 93, Indels: 10
0.82 0.16 0.02
Matches are distributed among these distances:
132 39 0.08
133 39 0.08
134 90 0.19
135 303 0.64
136 4 0.01
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (135 bp):
AATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTGAAGAAACAA
CAGAACATATCCCCTCTCTTTCTAGATTTGATCTTCCCTGAGTAGCAGTGGAACAAGTCTGCCTC
GATTC
Found at i:643095 original size:3 final size:3
Alignment explanation
Indices: 643087--643119 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
643077 TTCTTATCCC
643087 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
643120 CCAGCCTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:653254 original size:131 final size:130
Alignment explanation
Indices: 652946--653308 Score: 467
Period size: 131 Copynumber: 2.8 Consensus size: 130
652936 CGATATTGAG
* * * *
652946 AATAGTAATATATTTTCATTTCAGTTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCATT
1 AATAGTAATATCTTTTCATTTCAATTGGAGTAATAAATGACTGTTTTAAGGCATGAGAGATCATT
* * *
653011 TATTCTTGATTGGAAATCATTAGATATTAT-TGTTTCTCTCGAATCAATATTGATTTTTAAGACG
66 TATTCTCGATTGGAAATCATTAGATATTATAT-TTTCACTCGAATCAATATTGAATTTTAAGACG
*
653075 G
130 A
* * * ** * **
653076 AATGGTGATATCTTTTCATTTCGATTGGAGCCATAAATGACTGTTTTAAGGTATGAGATCTCATT
1 AATAGTAATATCTTTTCATTTCAATTGGAGTAATAAATGACTGTTTTAAGGCATGAGAGATCATT
* *
653141 TATTCTCGATTGAAAATCATTAGATATTATCATTTTCACTCGAATCGATATTGAATTTTAAGACG
66 TATTCTCGATTGGAAATCATTAGATATTAT-ATTTTCACTCGAATCAATATTGAATTTTAAGACG
653206 A
130 A
* * * * *
653207 AATAGTAACATCTCTTCATTTCAATTGGAGTAATAAATGATTATTTTAAGGCATGAAAGATCATT
1 AATAGTAATATCTTTTCATTTCAATTGGAGTAATAAATGACTGTTTTAAGGCATGAGAGATCATT
* *
653272 TATTCTCGATTGGAAATAATTAAATATTATTATTTTC
66 TATTCTCGATTGGAAATCATTAGATATTA-TATTTTC
653309 TCTCTTAAAA
Statistics
Matches: 197, Mismatches: 33, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
130 82 0.42
131 113 0.57
132 2 0.01
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.40
Consensus pattern (130 bp):
AATAGTAATATCTTTTCATTTCAATTGGAGTAATAAATGACTGTTTTAAGGCATGAGAGATCATT
TATTCTCGATTGGAAATCATTAGATATTATATTTTCACTCGAATCAATATTGAATTTTAAGACGA
Found at i:656585 original size:18 final size:18
Alignment explanation
Indices: 656562--656608 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
656552 ATTATTGTAA
*
656562 AATCATAATACT-TACAAT
1 AATCATAATAATAT-CAAT
* *
656580 AATCATGATAATATCTAT
1 AATCATAATAATATCAAT
656598 AATCATAATAA
1 AATCATAATAA
656609 ATATAATATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 23 0.96
19 1 0.04
ACGTcount: A:0.51, C:0.13, G:0.02, T:0.34
Consensus pattern (18 bp):
AATCATAATAATATCAAT
Found at i:666893 original size:14 final size:14
Alignment explanation
Indices: 666874--666903 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
666864 TGACATTGTC
666874 CCTATACATGCTAG
1 CCTATACATGCTAG
*
666888 CCTATACATGTTAG
1 CCTATACATGCTAG
666902 CC
1 CC
666904 ACATTCTACT
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:0.27, C:0.30, G:0.13, T:0.30
Consensus pattern (14 bp):
CCTATACATGCTAG
Found at i:671068 original size:11 final size:11
Alignment explanation
Indices: 671052--671077 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
671042 TAACAAGTTG
671052 AATTTTACTAT
1 AATTTTACTAT
671063 AATTTTACTAT
1 AATTTTACTAT
671074 AATT
1 AATT
671078 AATTTATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
AATTTTACTAT
Found at i:671147 original size:36 final size:35
Alignment explanation
Indices: 671080--671148 Score: 86
Period size: 35 Copynumber: 1.9 Consensus size: 35
671070 CTATAATTAA
* **
671080 TTTATATTTTTTTAAAAATTTAAATTTATAAATTT
1 TTTATAATTTTTTAAAAATTTAAATAGATAAATTT
671115 TTTATAATTTTTTAACAAATTTGAAA-AGATAAAT
1 TTTATAATTTTTTAA-AAATTT-AAATAGATAAAT
671149 AGGTTTAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
35 14 0.48
36 12 0.41
37 3 0.10
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.52
Consensus pattern (35 bp):
TTTATAATTTTTTAAAAATTTAAATAGATAAATTT
Found at i:676240 original size:25 final size:24
Alignment explanation
Indices: 676191--676244 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
676181 ATACCTTTAT
*
676191 CCTTTCTAAGGCACCAAATTCATA
1 CCTTTCCAAGGCACCAAATTCATA
676215 CTCTTTCCAAGGCACCAAAGTT-ATA
1 C-CTTTCCAAGGCACCAAA-TTCATA
676240 CCTTT
1 CCTTT
676245 ATCTTTCTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 5 0.19
25 20 0.74
26 2 0.07
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (24 bp):
CCTTTCCAAGGCACCAAATTCATA
Found at i:679106 original size:20 final size:20
Alignment explanation
Indices: 679083--679135 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
679073 CTCAGTTGGA
679083 AGTATCGATACCAAAGGTAT
1 AGTATCGATACCAAAGGTAT
* *
679103 AGTATCAATACCAAGGGTAT
1 AGTATCGATACCAAAGGTAT
679123 AGTATCGATACCA
1 AGTATCGATACCA
679136 TTTTTCAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.25
Consensus pattern (20 bp):
AGTATCGATACCAAAGGTAT
Found at i:679796 original size:21 final size:21
Alignment explanation
Indices: 679770--679818 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
679760 TCGAGGGTTC
*
679770 TATGTGGTCTTTCAGGACAAT
1 TATGTGGTCATTCAGGACAAT
* *
679791 TATGTGATCATTCGGGACAAT
1 TATGTGGTCATTCAGGACAAT
679812 TATGTGG
1 TATGTGG
679819 CACTTCGGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.24, C:0.12, G:0.27, T:0.37
Consensus pattern (21 bp):
TATGTGGTCATTCAGGACAAT
Found at i:679825 original size:21 final size:21
Alignment explanation
Indices: 679784--679893 Score: 82
Period size: 21 Copynumber: 5.0 Consensus size: 21
679774 TGGTCTTTCA
*
679784 GGACAATTATGTGATCA-TTCG
1 GGACAATTATGTG-GCACTTCG
679805 GGACAATTATGTGGCACTTCG
1 GGACAATTATGTGGCACTTCG
* *
679826 GTG-CAAGCCTATGTGGCACTTTG
1 G-GACAA--TTATGTGGCACTTCG
* *
679849 GTACAAACCTATGTGGTC-CTTCG
1 GGAC-AA-TTATGTGG-CACTTCG
*
679872 AGACAATTATGTGGCACTTCG
1 GGACAATTATGTGGCACTTCG
679893 G
1 G
679894 TGCAAATTAC
Statistics
Matches: 72, Mismatches: 9, Indels: 16
0.74 0.09 0.16
Matches are distributed among these distances:
20 3 0.04
21 33 0.46
22 3 0.04
23 30 0.42
24 3 0.04
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (21 bp):
GGACAATTATGTGGCACTTCG
Found at i:679839 original size:23 final size:22
Alignment explanation
Indices: 679812--679894 Score: 82
Period size: 23 Copynumber: 3.7 Consensus size: 22
679802 TCGGGACAAT
*
679812 TATGTGGCACTTCGGTGCAAGCC
1 TATGTGGCACTTCGGTACAA-CC
*
679835 TATGTGGCACTTTGGTACAAACC
1 TATGTGGCACTTCGGTAC-AACC
*
679858 TATGTGGTC-CTTCGAG-ACAA-T
1 TATGTGG-CACTTCG-GTACAACC
679879 TATGTGGCACTTCGGT
1 TATGTGGCACTTCGGT
679895 GCAAATTACG
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
20 2 0.04
21 12 0.24
22 2 0.04
23 31 0.61
24 4 0.08
ACGTcount: A:0.20, C:0.22, G:0.27, T:0.31
Consensus pattern (22 bp):
TATGTGGCACTTCGGTACAACC
Found at i:681730 original size:18 final size:18
Alignment explanation
Indices: 681707--681741 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
681697 TACACCTATG
681707 CGAGGTAGAGGTAGAGGT
1 CGAGGTAGAGGTAGAGGT
**
681725 CGAGGTCTAGGTAGAGG
1 CGAGGTAGAGGTAGAGG
681742 AAGAAATCAG
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:0.26, C:0.09, G:0.49, T:0.17
Consensus pattern (18 bp):
CGAGGTAGAGGTAGAGGT
Found at i:685939 original size:22 final size:22
Alignment explanation
Indices: 685914--685956 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
685904 ATTCTTAGGT
685914 GTATCGATACTG-GTTGAGGAGG
1 GTATCGATACTGAGTT-AGGAGG
685936 GTATCGATACTGAGTTAGGAG
1 GTATCGATACTGAGTTAGGAG
685957 TATCGACACC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.26, C:0.09, G:0.37, T:0.28
Consensus pattern (22 bp):
GTATCGATACTGAGTTAGGAGG
Found at i:685961 original size:20 final size:19
Alignment explanation
Indices: 685908--685962 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 19
685898 AGTGGTATTC
*
685908 TTAGGTGTATCGATACTGG
1 TTAGGAGTATCGATACTGG
685927 TTGAGGAGGGTATCGATACTGAG
1 TT-AGGA--GTATCGATACTG-G
685950 TTAGGAGTATCGA
1 TTAGGAGTATCGA
685963 CACCATTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
19 2 0.06
20 10 0.32
22 16 0.52
23 3 0.10
ACGTcount: A:0.25, C:0.09, G:0.35, T:0.31
Consensus pattern (19 bp):
TTAGGAGTATCGATACTGG
Found at i:694505 original size:12 final size:12
Alignment explanation
Indices: 694484--694517 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
694474 CTTTGCTTTG
*
694484 TTTCACTATTAT
1 TTTCATTATTAT
694496 TTTCATTATTAT
1 TTTCATTATTAT
*
694508 TTTCTTTATT
1 TTTCATTATT
694518 TAAGCGTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.21, C:0.12, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTCATTATTAT
Found at i:694866 original size:25 final size:26
Alignment explanation
Indices: 694821--694869 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
694811 TTGCCTAAGA
*
694821 TTTTGATTTAGTCCTTGTTTTTATTG
1 TTTTGATTTAGTCATTGTTTTTATTG
694847 TTTT-ATTTCAGTCATT-TTTTTAT
1 TTTTGATTT-AGTCATTGTTTTTAT
694870 GTATGTATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.14, C:0.08, G:0.10, T:0.67
Consensus pattern (26 bp):
TTTTGATTTAGTCATTGTTTTTATTG
Found at i:698838 original size:65 final size:62
Alignment explanation
Indices: 698757--698901 Score: 184
Period size: 61 Copynumber: 2.3 Consensus size: 62
698747 GTAGGTTTAT
* * * *
698757 ATTAGCACTAGTGTGTAAGGACACTAAGTGCAGGGGGTGGGCAAAATCTTGTGTGTCATATCTGG
1 ATTAGCACTAGAGTGTAA-GA-ACT-AGTGCAGGGGGTGGGCAAAACCTTATGTGTCATATCCGG
* * * *
698822 ATTAGCACTAGAGTGTAA-ATCTAGTGTAGGTGGTGGGCATAACCTTATGTGTCATATCCGG
1 ATTAGCACTAGAGTGTAAGAACTAGTGCAGGGGGTGGGCAAAACCTTATGTGTCATATCCGG
698883 ATTAGCACTAGAGTGTAAG
1 ATTAGCACTAGAGTGTAAG
698902 CTTAGTGCAT
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
61 51 0.72
62 2 0.03
63 1 0.01
65 17 0.24
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.29
Consensus pattern (62 bp):
ATTAGCACTAGAGTGTAAGAACTAGTGCAGGGGGTGGGCAAAACCTTATGTGTCATATCCGG
Found at i:703337 original size:44 final size:44
Alignment explanation
Indices: 703284--703412 Score: 134
Period size: 44 Copynumber: 2.9 Consensus size: 44
703274 CATAAAAAAG
* * **
703284 GAGTTGGATCAAAATTAACATTTCGCTCTATTCCATCATATACG
1 GAGTTGGATCAACATTAACATTTCGCTCTATTCCATCACATAAA
* * * **
703328 GATTTGGATCAGCATTAACATTTTGCTAGATTCCATCACATAAA
1 GAGTTGGATCAACATTAACATTTCGCTCTATTCCATCACATAAA
* * *
703372 GAGTTGGATCAACATCACCATTTCCCTCGT-TTCCATCACAT
1 GAGTTGGATCAACATTAACATTTCGCTC-TATTCCATCACAT
703413 TATAAGTTTG
Statistics
Matches: 67, Mismatches: 17, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
44 67 1.00
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.33
Consensus pattern (44 bp):
GAGTTGGATCAACATTAACATTTCGCTCTATTCCATCACATAAA
Found at i:708855 original size:17 final size:17
Alignment explanation
Indices: 708833--708866 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
708823 GGAATAGGTG
708833 TCACTAACTAATCCTAA
1 TCACTAACTAATCCTAA
708850 TCACTAACTAATCCTAA
1 TCACTAACTAATCCTAA
708867 GTATCTAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.29, G:0.00, T:0.29
Consensus pattern (17 bp):
TCACTAACTAATCCTAA
Found at i:711369 original size:197 final size:191
Alignment explanation
Indices: 711037--711647 Score: 667
Period size: 197 Copynumber: 3.3 Consensus size: 191
711027 TTTGTTTCAT
* * * *
711037 TTCTTTTAAATTCCTAAAGTACCGATACTATGGTACATATACTTGT-AAATGTATCGAGAC---T
1 TTCTTTTAAATTCATAAAGTACCGATACTTTGGTACATATACTTATAAAAT-TATCGACACAAAT
* * **
711098 TTCAACAATTCTGGTAGCGCTTTACCTATTTTGTCAAATTGAAACCGGTTTAGTCAAATTTCAAC
65 TTCAACAATTCTAGTAGCTCTTTACCGGTTTTGTCAAATTGAAA-C-GTTT-GTCAAATTT-AAC
* ** * *
711163 TTGTTATATTGTCATGTATCGATACATGTATCTAAGGTATCAATACTTTATAGGCGCTATTATTA
126 -T-TTATATTGTCATGTATCGATACATGTGTCTAAGGTATTGATACTTTATAGACGCTATTATTG
711228 CAA
189 CAA
*
711231 TTCTTTTAAATTCATAAAGTACCGATACTTTGGTACATATACTTATAAAATTATCGATACAAATT
1 TTCTTTTAAATTCATAAAGTACCGATACTTTGGTACATATACTTATAAAATTATCGACACAAATT
* * **
711296 TCAACCATTCCAAAAGCTCTTTACCGGTTTTGTCAAATTGAAACTGATTTTGTCAAATTTAAACC
66 TCAACAATTCTAGTAGCTCTTTACCGGTTTTGTCAAATTGAAAC-G--TTTGTCAAATTT-AA-C
* *
711361 TATTATATTGTCATGTGTCGATACATGTGTCTAAGGTATTGATACTTTATAGATGCTATTATTGC
126 T-TTATATTGTCATGTATCGATACATGTGTCTAAGGTATTGATACTTTATAGACGCTATTATTGC
711426 AA
190 AA
* * **
711428 TTCTTTTAAATTCCTAAAGTACCGATAATTTGGTAC----A--TATAAACGTATCGACACAAATT
1 TTCTTTTAAATTCATAAAGTACCGATACTTTGGTACATATACTTATAAAATTATCGACACAAATT
711487 TCAACAATTCTAGTAGCTCTTTACCGGTTTTGTCAAATTGAAAC------C-----T---TTTAT
66 TCAACAATTCTAGTAGCTCTTTACCGGTTTTGTCAAATTGAAACGTTTGTCAAATTTAACTTTAT
* * * *
711538 ATTGTTATGTATCGATACATGTGTGTAAGGTATTGAGACTTTATAGCCGCTATTATTGCAA
131 ATTGTCATGTATCGATACATGTGTCTAAGGTATTGATACTTTATAGACGCTATTATTGCAA
* *
711599 TTCTTTTAAATTCATATAGTACCAATACTTTGGTACATATACTTATAAA
1 TTCTTTTAAATTCATAAAGTACCGATACTTTGGTACATATACTTATAAA
711648 TGTGATGTGG
Statistics
Matches: 363, Mismatches: 41, Indels: 43
0.81 0.09 0.10
Matches are distributed among these distances:
171 91 0.25
172 1 0.00
175 1 0.00
177 7 0.02
182 1 0.00
191 59 0.16
193 1 0.00
194 51 0.14
195 4 0.01
196 2 0.01
197 141 0.39
198 4 0.01
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (191 bp):
TTCTTTTAAATTCATAAAGTACCGATACTTTGGTACATATACTTATAAAATTATCGACACAAATT
TCAACAATTCTAGTAGCTCTTTACCGGTTTTGTCAAATTGAAACGTTTGTCAAATTTAACTTTAT
ATTGTCATGTATCGATACATGTGTCTAAGGTATTGATACTTTATAGACGCTATTATTGCAA
Found at i:713365 original size:20 final size:20
Alignment explanation
Indices: 713340--713413 Score: 71
Period size: 20 Copynumber: 3.6 Consensus size: 20
713330 TTGTCAAAAC
713340 GGTTTTGTCAAATTTTAACT
1 GGTTTTGTCAAATTTTAACT
** *
713360 GGTTTTGTC-AATTTCCAGT
1 GGTTTTGTCAAATTTTAACT
*
713379 CGGTTTTGTCAAATTCGTTACCT
1 -GGTTTTGTCAAATT--TTAACT
713402 -GTTTTGTCAAAT
1 GGTTTTGTCAAAT
713414 CAAAACCGGA
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
19 7 0.16
20 18 0.42
21 16 0.37
23 2 0.05
ACGTcount: A:0.20, C:0.15, G:0.18, T:0.47
Consensus pattern (20 bp):
GGTTTTGTCAAATTTTAACT
Found at i:714880 original size:26 final size:27
Alignment explanation
Indices: 714828--714884 Score: 98
Period size: 26 Copynumber: 2.1 Consensus size: 27
714818 ACCTCTAAAT
*
714828 TTTATTTCATTGGCATTTTATTTCAAA
1 TTTAGTTCATTGGCATTTTATTTCAAA
714855 TTTAGTTCATTGGCA-TTTATTTCAAA
1 TTTAGTTCATTGGCATTTTATTTCAAA
714881 TTTA
1 TTTA
714885 TTTTAGCTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 15 0.52
27 14 0.48
ACGTcount: A:0.26, C:0.11, G:0.09, T:0.54
Consensus pattern (27 bp):
TTTAGTTCATTGGCATTTTATTTCAAA
Found at i:714910 original size:29 final size:29
Alignment explanation
Indices: 714873--714932 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
714863 ATTGGCATTT
714873 ATTTCAAATTTATTTTAGCTTAGTCCCTA
1 ATTTCAAATTTATTTTAGCTTAGTCCCTA
714902 ATTTCAAATTTATTTTAGCTTAGTCCCTA
1 ATTTCAAATTTATTTTAGCTTAGTCCCTA
714931 AT
1 AT
714933 CGCTTTAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.28, C:0.17, G:0.07, T:0.48
Consensus pattern (29 bp):
ATTTCAAATTTATTTTAGCTTAGTCCCTA
Found at i:715568 original size:4 final size:4
Alignment explanation
Indices: 715559--715590 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
715549 AAGTCTTTAA
715559 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
715591 GCACTTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:719696 original size:29 final size:25
Alignment explanation
Indices: 719635--719701 Score: 116
Period size: 25 Copynumber: 2.7 Consensus size: 25
719625 ATTCACGGTG
719635 AACAAAAGAAAGCAACGCCTCTACA
1 AACAAAAGAAAGCAACGCCTCTACA
*
719660 AGCAAAAGAAAGCAACGCCTCTACA
1 AACAAAAGAAAGCAACGCCTCTACA
*
719685 AACAATAGAAAGCAACG
1 AACAAAAGAAAGCAACG
719702 TTTATTAATC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.52, C:0.25, G:0.15, T:0.07
Consensus pattern (25 bp):
AACAAAAGAAAGCAACGCCTCTACA
Found at i:739451 original size:90 final size:89
Alignment explanation
Indices: 739292--739457 Score: 287
Period size: 90 Copynumber: 1.9 Consensus size: 89
739282 CCTAACACAC
*
739292 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATA
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTATATTATTTCAAATTAATTAAATCTATA
739357 TTTAATTAATTGGAATTTAATAAT
66 TTTAATTAATTGGAATTTAATAAT
* * *
739381 CCTTTTATATCCAAGTTACTCTAATGATATTAGGGATTATATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGG-TTATATTATTTCAAATTAATTAAATCTAT
739446 ATTTAATTAATT
65 ATTTAATTAATT
739458 AAAATTAAAT
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
89 32 0.44
90 40 0.56
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.46
Consensus pattern (89 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTATATTATTTCAAATTAATTAAATCTATA
TTTAATTAATTGGAATTTAATAAT
Found at i:746221 original size:90 final size:89
Alignment explanation
Indices: 746066--746229 Score: 283
Period size: 90 Copynumber: 1.8 Consensus size: 89
746056 TAACACACCC
*
746066 TTTTATAGCCAAGTTACCCTAATCATATTAAGGTTTTATTATTTCAAATTAATTAAATCTTTATT
1 TTTTATAGCCAAGTTACCCTAATCATATTAAGGTTTTATTATTTCAAATTAATTAAATCTATATT
746131 TAATTAATTGGAATTTAATAATCT
66 TAATTAATTGGAATTTAATAATCT
* * *
746155 TTTTATATCCAAGTTGCCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATAT
1 TTTTATAGCCAAGTTACCCTAATCATATTAAGG-TTTTATTATTTCAAATTAATTAAATCTATAT
746220 TTAATTAATT
65 TTAATTAATT
746230 AAAATCAAAT
Statistics
Matches: 70, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
89 30 0.43
90 40 0.57
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.48
Consensus pattern (89 bp):
TTTTATAGCCAAGTTACCCTAATCATATTAAGGTTTTATTATTTCAAATTAATTAAATCTATATT
TAATTAATTGGAATTTAATAATCT
Found at i:755794 original size:13 final size:13
Alignment explanation
Indices: 755776--755840 Score: 67
Period size: 13 Copynumber: 5.0 Consensus size: 13
755766 GTCATAAATC
* *
755776 TATGACGCGTATT
1 TATGACACGCATT
755789 TATGACACGCATT
1 TATGACACGCATT
*
755802 TATGACACACATT
1 TATGACACGCATT
** *
755815 TATGATGCTCATT
1 TATGACACGCATT
*
755828 TATGACACACATT
1 TATGACACGCATT
755841 GAGCGTCATT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 43 1.00
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (13 bp):
TATGACACGCATT
Found at i:755815 original size:26 final size:26
Alignment explanation
Indices: 755786--755840 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
755776 TATGACGCGT
755786 ATTTATGACACGCATTTATGACACAC
1 ATTTATGACACGCATTTATGACACAC
** *
755812 ATTTATGATGCTCATTTATGACACAC
1 ATTTATGACACGCATTTATGACACAC
755838 ATT
1 ATT
755841 GAGCGTCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (26 bp):
ATTTATGACACGCATTTATGACACAC
Found at i:759600 original size:25 final size:24
Alignment explanation
Indices: 759571--759638 Score: 82
Period size: 25 Copynumber: 2.8 Consensus size: 24
759561 AATGCCCTCA
759571 ATTTTTGGTTGCTCTCTCCCTCTG
1 ATTTTTGGTTGCTCTCTCCCTCTG
* * * * *
759595 ATTTTTTAGTTCCTTTCCCCCTTTG
1 A-TTTTTGGTTGCTCTCTCCCTCTG
759620 ATTTTTGGTTGCTCTCTCC
1 ATTTTTGGTTGCTCTCTCC
759639 TTCCCCCTTT
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
24 15 0.44
25 19 0.56
ACGTcount: A:0.06, C:0.28, G:0.13, T:0.53
Consensus pattern (24 bp):
ATTTTTGGTTGCTCTCTCCCTCTG
Found at i:760934 original size:20 final size:20
Alignment explanation
Indices: 760863--760928 Score: 114
Period size: 20 Copynumber: 3.3 Consensus size: 20
760853 TAATCTTTTG
*
760863 AGAAAGTGAAAAAGTCTTTA
1 AGAAAGTGAAAAGGTCTTTA
760883 AGAAAGTGAAAAGGTCTTTA
1 AGAAAGTGAAAAGGTCTTTA
760903 AGAAAGTGAAAAGGTCTTTA
1 AGAAAGTGAAAAGGTCTTTA
*
760923 TGAAAG
1 AGAAAG
760929 ACAAAATTAG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.47, C:0.05, G:0.24, T:0.24
Consensus pattern (20 bp):
AGAAAGTGAAAAGGTCTTTA
Found at i:761290 original size:45 final size:44
Alignment explanation
Indices: 761240--761556 Score: 276
Period size: 45 Copynumber: 7.3 Consensus size: 44
761230 TCATTTTCGC
* * * *
761240 GAGAAAATCAAGAATGACAATACGGAAAGATTGACTTCTCTTTAT
1 GAGAAAGTCAAGAATAACAAT-CTGAAAGATTGACTTCTCTTCAT
* * * *
761285 GAGAAAGTTAAGAATAAC-AT-TGAAAGATTGGCTCCTCTTCAC
1 GAGAAAGTCAAGAATAACAATCTGAAAGATTGACTTCTCTTCAT
* * * * *
761327 GAGAAAGTTAATGAA-CACAATATTAAAAGATTGACTTCTCTTTAT
1 GAGAAAGTCAA-GAATAACAAT-CTGAAAGATTGACTTCTCTTCAT
* *
761372 GAGAAAGTCAAGAATTACAATACTGAAAGATTGACTTCTCTTCAC
1 GAGAAAGTCAAGAATAACAAT-CTGAAAGATTGACTTCTCTTCAT
*
761417 GAGAAAGTCAATG-ATAAC-AT-TGAAAGATTGACTTCTCTTTAT
1 GAGAAAGTCAA-GAATAACAATCTGAAAGATTGACTTCTCTTCAT
* * * * *
761459 GAGGAAGTCAAGAATAGCAACTCTAAAAGATTAACTTCTCTTCAG
1 GAGAAAGTCAAGAATAACAA-TCTGAAAGATTGACTTCTCTTCAT
* * *
761504 GAGAAAATCAA-AATAAC-AT-TGAATGATTGAC-TCATCTTCAC
1 GAGAAAGTCAAGAATAACAATCTGAAAGATTGACTTC-TCTTCAT
*
761545 GAGGAAGTCAAG
1 GAGAAAGTCAAG
761557 TTGAAGCTTC
Statistics
Matches: 222, Mismatches: 38, Indels: 27
0.77 0.13 0.09
Matches are distributed among these distances:
40 2 0.01
41 25 0.11
42 65 0.29
43 7 0.03
44 13 0.06
45 109 0.49
46 1 0.00
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (44 bp):
GAGAAAGTCAAGAATAACAATCTGAAAGATTGACTTCTCTTCAT
Found at i:761356 original size:87 final size:86
Alignment explanation
Indices: 761265--761535 Score: 307
Period size: 87 Copynumber: 3.1 Consensus size: 86
761255 GACAATACGG
* *
761265 AAAGATTGACTTCTCTTTATGAGAAAGTTAAGAATAAC-AT-TGAAAGATTGGCTCCTCTTCACG
1 AAAGATTGACTTCTCTTTATGAGAAAGTCAAGAATAACAATATGAAAGATTGACTCCTCTTCACG
*
761328 AGAAAGTTAATGA-ACACAATATTA
66 AGAAAGTCAATGATA-AC---ATTA
* *
761352 AAAGATTGACTTCTCTTTATGAGAAAGTCAAGAATTACAATACTGAAAGATTGACTTCTCTTCAC
1 AAAGATTGACTTCTCTTTATGAGAAAGTCAAGAATAACAATA-TGAAAGATTGACTCCTCTTCAC
*
761417 GAGAAAGTCAATGATAACATTG
65 GAGAAAGTCAATGATAACATTA
* * * * * * *
761439 AAAGATTGACTTCTCTTTATGAGGAAGTCAAGAATAGCAACTCTAAAAGATTAACTTCTCTTCAG
1 AAAGATTGACTTCTCTTTATGAGAAAGTCAAGAATAACAA-TATGAAAGATTGACTCCTCTTCAC
* * *
761504 GAGAAAATCAA-AATAACATTG
65 GAGAAAGTCAATGATAACATTA
*
761525 AATGATTGACT
1 AAAGATTGACT
761536 CATCTTCACG
Statistics
Matches: 163, Mismatches: 16, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
86 19 0.12
87 105 0.64
88 3 0.02
90 35 0.21
91 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (86 bp):
AAAGATTGACTTCTCTTTATGAGAAAGTCAAGAATAACAATATGAAAGATTGACTCCTCTTCACG
AGAAAGTCAATGATAACATTA
Found at i:761486 original size:132 final size:132
Alignment explanation
Indices: 761240--761556 Score: 362
Period size: 132 Copynumber: 2.4 Consensus size: 132
761230 TCATTTTCGC
* * * * *
761240 GAGAAAATCAAGAATGACAATACGGAAAGATTGACTTCTCTTTATGAGAAAGTTAAGAATAACAT
1 GAGAAAATCAAGAATAACAATACTGAAAGATTGACTTCTCTTCACGAGAAAGTCAAGAATAACAT
* * * * *
761305 TGAAAGATTGGCTCCTCTTCACGAGAAAGTTAATGAACACAATATTAAAAGATTGACTTCTCTTT
66 TGAAAGATTGACTCCTCTTCACGAGAAAGTCAATGAACACAATACTAAAAGATTAACTTCTCTTC
*
761370 AT
131 AG
* *
761372 GAGAAAGTCAAGAATTACAATACTGAAAGATTGACTTCTCTTCACGAGAAAGTCAATG-ATAACA
1 GAGAAAATCAAGAATAACAATACTGAAAGATTGACTTCTCTTCACGAGAAAGTCAA-GAATAACA
* * * * *
761436 TTGAAAGATTGACTTCTCTTTATGAGGAAGTCAA-GAATAGCAACT-CTAAAAGATTAACTTCTC
65 TTGAAAGATTGACTCCTCTTCACGAGAAAGTCAATGAACA-CAA-TACTAAAAGATTAACTTCTC
761499 TTCAG
128 TTCAG
* *
761504 GAGAAAATCAA-AATAAC-AT--TGAATGATTGAC-TCATCTTCACGAGGAAGTCAAG
1 GAGAAAATCAAGAATAACAATACTGAAAGATTGACTTC-TCTTCACGAGAAAGTCAAG
761557 TTGAAGCTTC
Statistics
Matches: 160, Mismatches: 21, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
127 3 0.02
128 28 0.17
130 2 0.01
131 9 0.06
132 116 0.73
133 2 0.01
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (132 bp):
GAGAAAATCAAGAATAACAATACTGAAAGATTGACTTCTCTTCACGAGAAAGTCAAGAATAACAT
TGAAAGATTGACTCCTCTTCACGAGAAAGTCAATGAACACAATACTAAAAGATTAACTTCTCTTC
AG
Found at i:775668 original size:4 final size:4
Alignment explanation
Indices: 775654--775762 Score: 76
Period size: 4 Copynumber: 29.5 Consensus size: 4
775644 ATTTTCTTTA
* * * * * *
775654 TTCT CTCT TTCT TTCT ATCT ATCT TT-T TT-T TTTT TTTT TTTT TTCT
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT
775700 TT-T TTCT TTCT TT-T TT-T TT-T TTCT TTC- TT-T TTCT TTC- TT-T
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT
*
775740 TTCT TTTT TTCT TTCTT TTCT TT
1 TTCT TTCT TTCT TTC-T TTCT TT
775763 TTCTTTTTCC
Statistics
Matches: 90, Mismatches: 7, Indels: 16
0.80 0.06 0.14
Matches are distributed among these distances:
3 26 0.29
4 60 0.67
5 4 0.04
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.82
Consensus pattern (4 bp):
TTCT
Found at i:775683 original size:1 final size:1
Alignment explanation
Indices: 775677--775770 Score: 80
Period size: 1 Copynumber: 94.0 Consensus size: 1
775667 TCTATCTATC
* * * * * * *
775677 TTTTTTTTTTTTTTTTTTTTTCTTTTTTCTTTCTTTTTTTTTTTTCTTTCTTTTTCTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * *
775742 CTTTTTTTCTTTCTTTTCTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
775771 CCGAGTGCGG
Statistics
Matches: 69, Mismatches: 24, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 69 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (1 bp):
T
Found at i:775717 original size:33 final size:33
Alignment explanation
Indices: 775661--775770 Score: 141
Period size: 33 Copynumber: 3.3 Consensus size: 33
775651 TTATTCTCTC
* * *
775661 TTTCTTTCTATCTATCTTTTTTTTTTTTTTTTTT
1 TTTCTTT-TTTCTTTCTTTTTTTTTTTTTTTCTT
775695 TTTCTTTTTTCTTTCTTTTTTTTTTTTCTTTCTT
1 TTTCTTTTTTCTTTCTTTTTTTTTTTT-TTTCTT
* *
775729 TTTCTTTCTT-TTTCTTTTTTTCTTTCTTTTCTT
1 TTTCTTTTTTCTTTCTTTTTTT-TTTTTTTTCTT
775762 TTTCTTTTT
1 TTTCTTTTT
775771 CCGAGTGCGG
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
33 43 0.63
34 25 0.37
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.84
Consensus pattern (33 bp):
TTTCTTTTTTCTTTCTTTTTTTTTTTTTTTCTT
Found at i:775726 original size:28 final size:28
Alignment explanation
Indices: 775682--775770 Score: 137
Period size: 28 Copynumber: 3.2 Consensus size: 28
775672 CTATCTTTTT
*
775682 TTTTTTTTTTTTTTTTCTTTTTTCTTTC
1 TTTTTTTTTTTTCTTTCTTTTTTCTTTC
775710 TTTTTTTTTTTTCTTTC-TTTTTCTTTC
1 TTTTTTTTTTTTCTTTCTTTTTTCTTTC
775737 TTTTTCTTTTTTTCTTTCTTTTCTT-TTTC
1 TTTTT-TTTTTTTCTTTCTTTT-TTCTTTC
775766 TTTTT
1 TTTTT
775771 CCGAGTGCGG
Statistics
Matches: 57, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
27 15 0.26
28 28 0.49
29 12 0.21
30 2 0.04
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (28 bp):
TTTTTTTTTTTTCTTTCTTTTTTCTTTC
Found at i:779877 original size:16 final size:16
Alignment explanation
Indices: 779856--779886 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
779846 ATGCATTTTG
779856 CAAAATAAATAAATAA
1 CAAAATAAATAAATAA
*
779872 CAAAATAAGTAAATA
1 CAAAATAAATAAATA
779887 TGAGGAAAGG
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:0.71, C:0.06, G:0.03, T:0.19
Consensus pattern (16 bp):
CAAAATAAATAAATAA
Found at i:781949 original size:25 final size:25
Alignment explanation
Indices: 781915--781963 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
781905 TTTATGGTTT
*
781915 CTCTCTCCCTCTAATTTTTTTGTTC
1 CTCTCCCCCTCTAATTTTTTTGTTC
* *
781940 CTCTCCCCCTTTGATTTTTTTGTT
1 CTCTCCCCCTCTAATTTTTTTGTT
781964 ACTTACTCCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.06, C:0.31, G:0.06, T:0.57
Consensus pattern (25 bp):
CTCTCCCCCTCTAATTTTTTTGTTC
Found at i:781974 original size:24 final size:25
Alignment explanation
Indices: 781928--781975 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
781918 TCTCCCTCTA
* *
781928 ATTTTTTTGTTCCTCTCCCCCTTTG
1 ATTTTTTTGTTACTCTACCCCTTTG
*
781953 ATTTTTTTGTTACT-TACTCCTTT
1 ATTTTTTTGTTACTCTACCCCTTT
781976 CCCCACTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.08, C:0.25, G:0.06, T:0.60
Consensus pattern (25 bp):
ATTTTTTTGTTACTCTACCCCTTTG
Found at i:782683 original size:2 final size:2
Alignment explanation
Indices: 782676--782728 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
782666 TAATATGACC
782676 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
782718 AT AT AT AT AT A
1 AT AT AT AT AT A
782729 CAACGAAGAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:788703 original size:15 final size:15
Alignment explanation
Indices: 788685--788717 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
788675 AAAAAAAGTT
788685 AAACAAAAATAAAGA
1 AAACAAAAATAAAGA
*
788700 AAACATAAATAAAGA
1 AAACAAAAATAAAGA
788715 AAA
1 AAA
788718 AGAAGGAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.79, C:0.06, G:0.06, T:0.09
Consensus pattern (15 bp):
AAACAAAAATAAAGA
Found at i:788897 original size:216 final size:217
Alignment explanation
Indices: 788523--788958 Score: 865
Period size: 216 Copynumber: 2.0 Consensus size: 217
788513 ATTTTAAGAA
788523 AGACCATATGCCAATCTAGTTTCACAAAATTGAAAAATTTTACCCGAATGAGGTGGTTTTCAATT
1 AGACCATATGCCAATCTAGTTTCACAAAATTGAAAAATTTTACCCGAATGAGGTGGTTTTCAATT
788588 CTCACATTAGGAATTGAGTCTTCACTTCAGCCTTTGGCTACGAAAAACTTAGCTAAGCATGATAG
66 CTCACATTAGGAATTGAGTCTTCACTTCAGCCTTTGGCTACGAAAAACTTAGCTAAGCATGATAG
788653 AAATCATTCTTAGCATTATTAAAAAAAAAGTTAAACAAAAATAAAGAAAACATAAATAAAGAAAA
131 AAATCATTCTTAGCATTATTAAAAAAAAAGTTAAACAAAAATAAAGAAAACATAAATAAAGAAAA
788718 AGAAGGAAC-TTTTATAAAACT
196 AGAAGGAACTTTTTATAAAACT
788739 AGACCATATGCCAATCTAGTTTCACAAAATTGAAAAATTTTACCCGAATGAGGTGGTTTTCAATT
1 AGACCATATGCCAATCTAGTTTCACAAAATTGAAAAATTTTACCCGAATGAGGTGGTTTTCAATT
788804 CTCACATTAGGAATTGAGTCTTCACTTCAGCCTTTGGCTACGAAAAACTTAGCTAAGCATGATAG
66 CTCACATTAGGAATTGAGTCTTCACTTCAGCCTTTGGCTACGAAAAACTTAGCTAAGCATGATAG
788869 AAATCATTCTTAGCATTATTAAAAAAAAAGTTAAACAAAAATAAAGAAAACATAAATAAAGAAAA
131 AAATCATTCTTAGCATTATTAAAAAAAAAGTTAAACAAAAATAAAGAAAACATAAATAAAGAAAA
788934 AGAAGGAACTTTTTATAAAACT
196 AGAAGGAACTTTTTATAAAACT
788956 AGA
1 AGA
788959 GAAAGAAAGA
Statistics
Matches: 219, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
216 204 0.93
217 15 0.07
ACGTcount: A:0.44, C:0.15, G:0.14, T:0.28
Consensus pattern (217 bp):
AGACCATATGCCAATCTAGTTTCACAAAATTGAAAAATTTTACCCGAATGAGGTGGTTTTCAATT
CTCACATTAGGAATTGAGTCTTCACTTCAGCCTTTGGCTACGAAAAACTTAGCTAAGCATGATAG
AAATCATTCTTAGCATTATTAAAAAAAAAGTTAAACAAAAATAAAGAAAACATAAATAAAGAAAA
AGAAGGAACTTTTTATAAAACT
Found at i:788919 original size:15 final size:15
Alignment explanation
Indices: 788901--788933 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
788891 AAAAAAAGTT
788901 AAACAAAAATAAAGA
1 AAACAAAAATAAAGA
*
788916 AAACATAAATAAAGA
1 AAACAAAAATAAAGA
788931 AAA
1 AAA
788934 AGAAGGAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.79, C:0.06, G:0.06, T:0.09
Consensus pattern (15 bp):
AAACAAAAATAAAGA
Found at i:789087 original size:13 final size:13
Alignment explanation
Indices: 789049--789091 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
789039 AATAAAATAA
789049 AAATCCTAAAAGAT
1 AAATCCTAAAA-AT
* * *
789063 AATTCTTGAAAAT
1 AAATCCTAAAAAT
789076 AAATCCTAAAAAT
1 AAATCCTAAAAAT
789089 AAA
1 AAA
789092 GATAAATCTC
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
13 15 0.65
14 8 0.35
ACGTcount: A:0.58, C:0.12, G:0.05, T:0.26
Consensus pattern (13 bp):
AAATCCTAAAAAT
Found at i:794009 original size:11 final size:11
Alignment explanation
Indices: 793993--794025 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
793983 AAGTTATGAT
793993 GAATTTTAAAA
1 GAATTTTAAAA
794004 GAATTTTAAAA
1 GAATTTTAAAA
794015 GAATTTTAAAA
1 GAATTTTAAAA
794026 TAATAGTACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (11 bp):
GAATTTTAAAA
Found at i:794228 original size:13 final size:13
Alignment explanation
Indices: 794195--794238 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
794185 GACTACTATA
794195 AGGCATAATAGTG
1 AGGCATAATAGTG
794208 AGGC--AATAGTG
1 AGGCATAATAGTG
*
794219 AGGCATAATAATG
1 AGGCATAATAGTG
794232 AGGCATA
1 AGGCATA
794239 CCAGGTGAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 11 0.39
13 17 0.61
ACGTcount: A:0.41, C:0.09, G:0.30, T:0.20
Consensus pattern (13 bp):
AGGCATAATAGTG
Found at i:799019 original size:46 final size:46
Alignment explanation
Indices: 798952--799057 Score: 115
Period size: 46 Copynumber: 2.3 Consensus size: 46
798942 ACCAAGTCAG
* * *
798952 TTTTATGTAT-TATTATTATTTATACGATTAAAATCATATTTTTATA
1 TTTTAT-TATATACTATGATTTATACGATTAAAATCATATTTTGATA
* * * **
798998 TTTTATTATATACTATGATTTATATGTTTAAATTTGTATTTTGATA
1 TTTTATTATATACTATGATTTATACGATTAAAATCATATTTTGATA
*
799044 TTTTATGATATACT
1 TTTTATTATATACT
799058 TATGTTTTGG
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
45 3 0.06
46 47 0.94
ACGTcount: A:0.32, C:0.04, G:0.07, T:0.58
Consensus pattern (46 bp):
TTTTATTATATACTATGATTTATACGATTAAAATCATATTTTGATA
Found at i:800627 original size:42 final size:41
Alignment explanation
Indices: 800580--800675 Score: 104
Period size: 41 Copynumber: 2.3 Consensus size: 41
800570 AGTATGTGTA
*
800580 TTTAGCGGCATTTATATAAAAAACGCCGCT-AAAGACTCATAC
1 TTTAGCGGCATTTATAT-AAAAACGCCGCTAAAAG-CCCATAC
* * * *
800622 TTTAGCAGCGTTTGTATAAAAATGCCGCTAAAAGCCCATAC
1 TTTAGCGGCATTTATATAAAAACGCCGCTAAAAGCCCATAC
* *
800663 ATTAGTGGCATTT
1 TTTAGCGGCATTT
800676 TAAGCATAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
41 26 0.59
42 18 0.41
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (41 bp):
TTTAGCGGCATTTATATAAAAACGCCGCTAAAAGCCCATAC
Found at i:800744 original size:23 final size:23
Alignment explanation
Indices: 800718--800762 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
800708 AGCGGCGTTT
800718 ATATAAAAATACTACTAAAGACG
1 ATATAAAAATACTACTAAAGACG
800741 ATATAAAAATACTACTAAAGAC
1 ATATAAAAATACTACTAAAGAC
800763 TCGTACTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.58, C:0.13, G:0.07, T:0.22
Consensus pattern (23 bp):
ATATAAAAATACTACTAAAGACG
Found at i:800874 original size:42 final size:41
Alignment explanation
Indices: 800765--800903 Score: 170
Period size: 42 Copynumber: 3.3 Consensus size: 41
800755 CTAAAGACTC
*
800765 GTACTTTAGTGGCATTTTTATACAAACGTCGCTAAATGCTT
1 GTACTTTAGTGGCATTTTTATACAAACGCCGCTAAATGCTT
* **
800806 GTATTTTAACGGCATTTTTTATACAAACGCCGCTAAATGCTT
1 GTACTTTAGTGGCA-TTTTTATACAAACGCCGCTAAATGCTT
* * * * **
800848 TTACTTTAGTGGCGTTTTAAGCACAAACGCCGCTAAATGCAC
1 GTACTTTAGTGGCATTTTTA-TACAAACGCCGCTAAATGCTT
800890 GTACTTTAGTGGCA
1 GTACTTTAGTGGCA
800904 ACAAAATATT
Statistics
Matches: 81, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
41 16 0.20
42 65 0.80
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.35
Consensus pattern (41 bp):
GTACTTTAGTGGCATTTTTATACAAACGCCGCTAAATGCTT
Found at i:803781 original size:43 final size:43
Alignment explanation
Indices: 803734--803904 Score: 209
Period size: 43 Copynumber: 4.0 Consensus size: 43
803724 TTTTAATTAT
* *
803734 AAATGTCACTAAATACACAGTTAATAGCGGCGTTTGTAAAGAA
1 AAATGTCACTAAATACACAGTCAATAGCGGCGTTTATAAAGAA
* * * ** *
803777 AAATGCCGCTAAATACACAATCAATAGATGCGTTTGTAAAGAA
1 AAATGTCACTAAATACACAGTCAATAGCGGCGTTTATAAAGAA
** *
803820 AAATGTCGTTAAATACACAGTCAATAGCGGCGTTTATAAAGAC
1 AAATGTCACTAAATACACAGTCAATAGCGGCGTTTATAAAGAA
**
803863 AACCG-CATCTAAATACACAGTCAATAGCGGCGTTTATAAAGA
1 AAATGTCA-CTAAATACACAGTCAATAGCGGCGTTTATAAAGA
803905 CAAACGTCGC
Statistics
Matches: 110, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 1 0.01
43 109 0.99
ACGTcount: A:0.42, C:0.17, G:0.18, T:0.24
Consensus pattern (43 bp):
AAATGTCACTAAATACACAGTCAATAGCGGCGTTTATAAAGAA
Found at i:803840 original size:86 final size:86
Alignment explanation
Indices: 803734--803916 Score: 231
Period size: 86 Copynumber: 2.1 Consensus size: 86
803724 TTTTAATTAT
* * * * *
803734 AAATGTCACTAAATACACAGTTAATAGCGGCGTTTGTAAAGAAAAATGCCGCTAAATACACAATC
1 AAATGTCGCTAAATACACAGTCAATAGCGGCGTTTATAAAGAAAAACGCAGCTAAATACACAATC
* *
803799 AATAGATGCGTTTGTAAAGAA
66 AATAGAGGCGTTTATAAAGAA
* * * * *
803820 AAATGTCGTTAAATACACAGTCAATAGCGGCGTTTATAAAGACAACCGCATCTAAATACACAGTC
1 AAATGTCGCTAAATACACAGTCAATAGCGGCGTTTATAAAGAAAAACGCAGCTAAATACACAATC
* *
803885 AATAGCGGCGTTTATAAAGAC
66 AATAGAGGCGTTTATAAAGAA
*
803906 AAACGTCGCTA
1 AAATGTCGCTA
803917 TATGTCTCGA
Statistics
Matches: 81, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
86 81 1.00
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.23
Consensus pattern (86 bp):
AAATGTCGCTAAATACACAGTCAATAGCGGCGTTTATAAAGAAAAACGCAGCTAAATACACAATC
AATAGAGGCGTTTATAAAGAA
Found at i:806516 original size:22 final size:23
Alignment explanation
Indices: 806481--806525 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
806471 TAAACATAAG
*
806481 TTTTATGGTATAGGGT-TAAAGA
1 TTTTAGGGTATAGGGTATAAAGA
*
806503 TTTTAGGGTTTAGGGTATAAAGA
1 TTTTAGGGTATAGGGTATAAAGA
806526 GAGAATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.31, C:0.00, G:0.29, T:0.40
Consensus pattern (23 bp):
TTTTAGGGTATAGGGTATAAAGA
Found at i:806688 original size:14 final size:14
Alignment explanation
Indices: 806664--806698 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
806654 AGGGCTTAAT
*
806664 ATTTTAGTTTTAGG
1 ATTTAAGTTTTAGG
*
806678 GTTTAAGTTTTAGG
1 ATTTAAGTTTTAGG
806692 ATTTAAG
1 ATTTAAG
806699 GTATTGGTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (14 bp):
ATTTAAGTTTTAGG
Found at i:806696 original size:21 final size:19
Alignment explanation
Indices: 806631--806696 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 19
806621 TTTTCCCCTT
806631 TTTAGGGTTAATGTTTAGGA
1 TTTAGGGTTAAT-TTTAGGA
* *
806651 TCTAGGGCTTAATATTTTA-GT
1 TTTAGGG-TT-A-ATTTTAGGA
806672 TTTAGGGTTTAAGTTTTAGGA
1 TTTAGGG-TTAA-TTTTAGGA
806693 TTTA
1 TTTA
806697 AGGTATTGGT
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
19 1 0.03
20 12 0.33
21 16 0.44
22 5 0.14
23 2 0.06
ACGTcount: A:0.24, C:0.03, G:0.24, T:0.48
Consensus pattern (19 bp):
TTTAGGGTTAATTTTAGGA
Found at i:806816 original size:29 final size:27
Alignment explanation
Indices: 806752--806816 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
806742 TTTGGGACTG
* *
806752 GAGTTAAAAGATATATTGTTTTAGTTT
1 GAGTTAAAAGATATATTGTTTAAATTT
*
806779 GAGTTTAAAAGATATTTATGTTATAAATTT
1 GAG-TTAAAAGATATAT-TGTT-TAAATTT
*
806809 TAGTTAAA
1 GAGTTAAA
806817 TCTAAGCCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
27 3 0.10
28 12 0.39
29 9 0.29
30 7 0.23
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (27 bp):
GAGTTAAAAGATATATTGTTTAAATTT
Found at i:810793 original size:24 final size:23
Alignment explanation
Indices: 810765--810814 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
810755 TATTTATTTA
810765 TAAGTTATAAATTTTAGTTAAATC
1 TAAGTTATAAA-TTTAGTTAAATC
** *
810789 TAAGTTATTTATTTATTTAAATC
1 TAAGTTATAAATTTAGTTAAATC
810812 TAA
1 TAA
810815 TGACTATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (23 bp):
TAAGTTATAAATTTAGTTAAATC
Found at i:811775 original size:15 final size:17
Alignment explanation
Indices: 811755--811787 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
811745 CGATGTCTCG
811755 ATTTT-ATTTTTG-AAA
1 ATTTTAATTTTTGTAAA
811770 ATTTTAATTTTTGTAAA
1 ATTTTAATTTTTGTAAA
811787 A
1 A
811788 GAATGTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 7 0.44
17 4 0.25
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (17 bp):
ATTTTAATTTTTGTAAA
Found at i:812236 original size:77 final size:77
Alignment explanation
Indices: 812155--812310 Score: 280
Period size: 77 Copynumber: 2.0 Consensus size: 77
812145 AATAATCTCT
812155 AAAATATTTTAGGAGGAATATTTCTCTTTCCAACAGAAATAAAAGGAATATAATAA-TT-TCATA
1 AAAATATTTTAGGAGGAATATTTCTCTTTCCAACAGAAAT-AAAGGAATATAA-AATTTCTCATA
812218 TGAATTCGGGATTA
64 TGAATTCGGGATTA
812232 AAAATATTTTAGGAGGAATATTTCTCTTTCCAACAGAAATAAAGGAATATAAAATTTCTCATATG
1 AAAATATTTTAGGAGGAATATTTCTCTTTCCAACAGAAATAAAGGAATATAAAATTTCTCATATG
812297 AATTCGGGATTA
66 AATTCGGGATTA
812309 AA
1 AA
812311 TATTTGATTC
Statistics
Matches: 77, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
75 2 0.03
76 14 0.18
77 61 0.79
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (77 bp):
AAAATATTTTAGGAGGAATATTTCTCTTTCCAACAGAAATAAAGGAATATAAAATTTCTCATATG
AATTCGGGATTA
Found at i:815370 original size:104 final size:106
Alignment explanation
Indices: 815051--815475 Score: 405
Period size: 104 Copynumber: 3.9 Consensus size: 106
815041 CAAAATGATT
* *
815051 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGGCA-AGTTCTTCTCATTGTGAACCATTC
1 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTT-GGGCAGAGTTCTTCTCATTATGAACTATT-
* * * * * *
815115 AATCGAAAATGTTGAGCTACCTCCTTCTATGATGGTTTTGAGCAAAA
64 -ATTGGAAATGTTGATCCACCTCCTTCTGTGATGGATTT--G-AAAA
* * *
815162 GGTCAAACAAGTTCTTCTCATTATGAACTACTTCTCCCTCTTCGG-ATGAGTTCTTATCATTATT
1 -G---AACAAGTTCTTCTCATTATGAACT--TTCT-CCT-TTGGGCA-GAGTTCTTCTCATTATG
* ** *
815226 AAC-ACTTCATTGGAAATGATT-ATTCATTTCCTTTTGTGATGGATTTGAAAA
57 AACTA-TT-ATTGGAAATG-TTGATCCACCTCCTTCTGTGATGGATTTGAAAA
* *
815277 GAATAAGTTCTTCTCATTATGAACTTTCTCCTTTGGGCA-AGTTCTTCTTATTATGAACTATT-T
1 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTGGGCAGAGTTCTTCTCATTATGAACTATTAT
* *
815340 TGGAAATGTTGATCCACATCCTTCTGTGATGGATTTGAAAG
66 TGGAAATGTTGATCCACCTCCTTCTGTGATGGATTTGAAAA
* * * * * *
815381 GAACAAGTTCTTCTCATTATGAACTTTTTCTTTTGGGGAGAGTTCTTCTCATTGTGAACTCTT-C
1 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTGGGCAGAGTTCTTCTCATTATGAACTATTAT
*
815445 TGGAAATGTTGGTCCACCTCCTTCTGTGATG
66 TGGAAATGTTGATCCACCTCCTTCTGTGATG
815476 ATCATAGTTG
Statistics
Matches: 263, Mismatches: 35, Indels: 37
0.79 0.10 0.11
Matches are distributed among these distances:
103 2 0.01
104 69 0.26
105 49 0.19
106 18 0.07
107 5 0.02
108 4 0.02
109 4 0.02
111 23 0.09
112 1 0.00
114 1 0.00
115 28 0.11
116 1 0.00
117 5 0.02
118 31 0.12
119 22 0.08
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.40
Consensus pattern (106 bp):
GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTGGGCAGAGTTCTTCTCATTATGAACTATTAT
TGGAAATGTTGATCCACCTCCTTCTGTGATGGATTTGAAAA
Found at i:829147 original size:24 final size:25
Alignment explanation
Indices: 829086--829137 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
829076 CTATTTTTTT
* *
829086 AAAAAA-AGAAAAAAGGGCAAACAA
1 AAAAAATATAAAAAAGGCCAAACAA
*
829110 AAAAAATATCAAAAA-GCCAAACAA
1 AAAAAATATAAAAAAGGCCAAACAA
829134 AAAA
1 AAAA
829138 GTCATAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.75, C:0.12, G:0.10, T:0.04
Consensus pattern (25 bp):
AAAAAATATAAAAAAGGCCAAACAA
Found at i:829946 original size:36 final size:36
Alignment explanation
Indices: 829872--829946 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
829862 TTTTTATATT
*
829872 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
*
829908 TTTAATTTT-TAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
829944 TTT
1 TTT
829947 GTAATATTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
35 17 0.49
36 18 0.51
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:830128 original size:20 final size:20
Alignment explanation
Indices: 830092--830129 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
830082 ATCCTATTCC
**
830092 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
830112 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
830130 GTGAACCAAA
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:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:833478 original size:25 final size:25
Alignment explanation
Indices: 833398--833472 Score: 105
Period size: 25 Copynumber: 3.0 Consensus size: 25
833388 CAGGACTTTT
* *
833398 GAAAAGTACCTTTTAAAACTGTTGTA
1 GAAAA-TAACTTTTAAAAATGTTGTA
*
833424 GAAAATAACTTTTAAAAATATTGTA
1 GAAAATAACTTTTAAAAATGTTGTA
*
833449 GAAAATAACTTTTAAAAGTGTTGT
1 GAAAATAACTTTTAAAAATGTTGT
833473 TTAAAAGTGC
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
25 39 0.89
26 5 0.11
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (25 bp):
GAAAATAACTTTTAAAAATGTTGTA
Found at i:835219 original size:35 final size:35
Alignment explanation
Indices: 835173--835245 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
835163 GCCCTCATGC
835173 CCATAAGGACTTACCCAATGCACATAGCTGAAGTA
1 CCATAAGGACTTACCCAATGCACATAGCTGAAGTA
835208 CCATAAGGACTTACCCAATGCACATAGCTGAAGTA
1 CCATAAGGACTTACCCAATGCACATAGCTGAAGTA
835243 CCA
1 CCA
835246 CCCTAAGGGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.37, C:0.27, G:0.16, T:0.19
Consensus pattern (35 bp):
CCATAAGGACTTACCCAATGCACATAGCTGAAGTA
Found at i:838281 original size:28 final size:28
Alignment explanation
Indices: 838194--838281 Score: 81
Period size: 28 Copynumber: 3.1 Consensus size: 28
838184 AATTAATTAT
*
838194 TTTATAATTTATTTTAGAATTAATATATAA
1 TTTATAA--TATTTTATAATTAATATATAA
* *
838224 CTTATAATA-TTTATATATT-ATGTTATAA
1 TTTATAATATTTTATA-ATTAAT-ATATAA
* *
838252 TTTGTAATATTTTATAATTAATATAAAA
1 TTTATAATATTTTATAATTAATATATAA
838280 TT
1 TT
838282 AAAAAATATT
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
27 7 0.15
28 26 0.55
29 8 0.17
30 6 0.13
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.53
Consensus pattern (28 bp):
TTTATAATATTTTATAATTAATATATAA
Found at i:839204 original size:21 final size:21
Alignment explanation
Indices: 839179--839219 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
839169 ATAAAGTATG
*
839179 AATAATTTAAATATTTTATAA
1 AATAATTTAAATATTATATAA
*
839200 AATAATTTAATTATTATATA
1 AATAATTTAAATATTATATA
839220 TTTAACTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATAATTTAAATATTATATAA
Found at i:846396 original size:17 final size:18
Alignment explanation
Indices: 846354--846409 Score: 66
Period size: 17 Copynumber: 3.3 Consensus size: 18
846344 TTTCTTTTAC
846354 TGAT-TCTTTTACTAT-T
1 TGATATCTTTTACTATAT
846370 TGATATCTTTTACTATAT
1 TGATATCTTTTACTATAT
* *
846388 TGTTA-CTTTCACTATAT
1 TGATATCTTTTACTATAT
846405 T-ATAT
1 TGATAT
846410 ATATATTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
16 6 0.18
17 23 0.68
18 5 0.15
ACGTcount: A:0.25, C:0.12, G:0.05, T:0.57
Consensus pattern (18 bp):
TGATATCTTTTACTATAT
Found at i:846681 original size:36 final size:36
Alignment explanation
Indices: 846641--846722 Score: 92
Period size: 36 Copynumber: 2.3 Consensus size: 36
846631 TTATTGCCAG
* **
846641 GTGATTGTACCATAGGTACGTTACATTCAGTGCCCT
1 GTGATTGTACCATAGATACGACACATTCAGTGCCCT
* * * *
846677 GTGATTGCACTATAGATGCGACACATTCAGTGCCTT
1 GTGATTGTACCATAGATACGACACATTCAGTGCCCT
*
846713 GTGAATGTAC
1 GTGATTGTAC
846723 AAGTATTGTA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (36 bp):
GTGATTGTACCATAGATACGACACATTCAGTGCCCT
Found at i:854555 original size:51 final size:50
Alignment explanation
Indices: 854434--854555 Score: 124
Period size: 51 Copynumber: 2.4 Consensus size: 50
854424 TGCATTTTAA
*
854434 TTTAGTCATTGTTATTTTATGATTTAGCTACTGTTATTTTAATTTTTGCAC
1 TTTAGTCATTGTTATTTTATGATTTAGCTAC-GTAATTTTAATTTTTGCAC
* * * * *
854485 TTTGGTCACCAT-TTA-TTTATGATTTAGTTAC-TAACTTTTATTTTCTTGCAT
1 TTTAGTCA--TTGTTATTTTATGATTTAGCTACGTAA-TTTTAATTT-TTGCAC
854536 TTTAGTCATTGTTATTTTAT
1 TTTAGTCATTGTTATTTTAT
854556 TTTATTTTGA
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
49 3 0.05
50 11 0.19
51 39 0.68
52 3 0.05
53 1 0.02
ACGTcount: A:0.21, C:0.11, G:0.11, T:0.57
Consensus pattern (50 bp):
TTTAGTCATTGTTATTTTATGATTTAGCTACGTAATTTTAATTTTTGCAC
Found at i:856171 original size:12 final size:12
Alignment explanation
Indices: 856151--856265 Score: 65
Period size: 12 Copynumber: 9.3 Consensus size: 12
856141 TAAAGAGAGG
*
856151 GGGAGAGGGGGA
1 GGGAAAGGGGGA
856163 GGGAAAGGGGGA
1 GGGAAAGGGGGA
* *
856175 GGGAGAGACGGAGA
1 GGGA-A-AGGGGGA
856189 GGGAAAGGGGGA
1 GGGAAAGGGGGA
*
856201 GGAGAAATGGAGG-
1 GG-GAAA-GGGGGA
*
856214 GTGAAAGGGGGA
1 GGGAAAGGGGGA
* **
856226 --GAAATGGATA
1 GGGAAAGGGGGA
856236 GGGAGAGAGGGGGA
1 GGGA-A-AGGGGGA
**
856250 GGGGGAGGGGGA
1 GGGAAAGGGGGA
856262 GGGA
1 GGGA
856266 GGGAGAGAGA
Statistics
Matches: 77, Mismatches: 17, Indels: 18
0.69 0.15 0.16
Matches are distributed among these distances:
10 7 0.09
11 4 0.05
12 38 0.49
13 8 0.10
14 20 0.26
ACGTcount: A:0.32, C:0.01, G:0.63, T:0.03
Consensus pattern (12 bp):
GGGAAAGGGGGA
Found at i:856224 original size:26 final size:26
Alignment explanation
Indices: 856161--856226 Score: 91
Period size: 25 Copynumber: 2.6 Consensus size: 26
856151 GGGAGAGGGG
*
856161 GAGGGAAAGGGGGAGGGAGAGACGGA
1 GAGGGAAAGGGGGAGGGAGAAACGGA
*
856187 GAGGGAAAGGGGGA-GGAGAAATGGA
1 GAGGGAAAGGGGGAGGGAGAAACGGA
856212 G-GGTGAAAGGGGGAG
1 GAGG-GAAAGGGGGAG
856227 AAATGGATAG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
24 2 0.06
25 20 0.56
26 14 0.39
ACGTcount: A:0.35, C:0.02, G:0.61, T:0.03
Consensus pattern (26 bp):
GAGGGAAAGGGGGAGGGAGAAACGGA
Found at i:856248 original size:25 final size:23
Alignment explanation
Indices: 856187--856248 Score: 56
Period size: 22 Copynumber: 2.7 Consensus size: 23
856177 GAGAGACGGA
*
856187 GAGGGAAAG-GGGGAGGAGAAATG
1 GAGGGAGAGAGGGG-GGAGAAATG
* *
856210 GAGGGTGA-AAGGGGGAGAAATG
1 GAGGGAGAGAGGGGGGAGAAATG
856232 GATAGGGAGAGAGGGGG
1 G--AGGGAGAGAGGGGG
856249 AGGGGGAGGG
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
22 10 0.33
23 9 0.30
24 6 0.20
25 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.58, T:0.06
Consensus pattern (23 bp):
GAGGGAGAGAGGGGGGAGAAATG
Found at i:858578 original size:6 final size:6
Alignment explanation
Indices: 858567--858596 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
858557 ATTTTTGAAG
858567 GTGTTC GTGTTC GTGTTC G-GTTC GTGTTC G
1 GTGTTC GTGTTC GTGTTC GTGTTC GTGTTC G
858597 CTTAAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.00, C:0.17, G:0.37, T:0.47
Consensus pattern (6 bp):
GTGTTC
Found at i:858591 original size:11 final size:12
Alignment explanation
Indices: 858567--858596 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
858557 ATTTTTGAAG
858567 GTGTTCGTGTTC
1 GTGTTCGTGTTC
858579 GTGTTCG-GTTC
1 GTGTTCGTGTTC
858590 GTGTTCG
1 GTGTTCG
858597 CTTAAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.00, C:0.17, G:0.37, T:0.47
Consensus pattern (12 bp):
GTGTTCGTGTTC
Found at i:858692 original size:23 final size:23
Alignment explanation
Indices: 858660--858707 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
858650 ATATTCGTTT
* *
858660 ATTTATTGTTCACGAACATGTTC
1 ATTTAATGTTCACAAACATGTTC
*
858683 ATTTAATGTTCACAAACGTGTTC
1 ATTTAATGTTCACAAACATGTTC
858706 AT
1 AT
858708 GAACATATTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (23 bp):
ATTTAATGTTCACAAACATGTTC
Found at i:858769 original size:24 final size:23
Alignment explanation
Indices: 858723--858770 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
858713 TATTCGTTTA
* **
858723 GTGTTCGTTTAATGTTCGTGAAC
1 GTGTCCGTTTAATGTTCACGAAC
858746 GTGTCCGTTTATATGTTCACGAAC
1 GTGTCCGTTTA-ATGTTCACGAAC
858770 G
1 G
858771 CGTTCATGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.40
Consensus pattern (23 bp):
GTGTCCGTTTAATGTTCACGAAC
Done.