Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_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: 10265705
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 19 of 49
Found at i:3704538 original size:64 final size:65
Alignment explanation
Indices: 3704397--3704558 Score: 177
Period size: 64 Copynumber: 2.5 Consensus size: 65
3704387 AATTGTTCAG
** *
3704397 TGTGTATCGATGCATAGGAAGTGCATCGATGCA-CCCATTAAAAATGGAAACATCGAATGCAATT
1 TGTGTATCGATGCATAGGAAGTGCATCGATGCACCCCATTAAAAATAAAAACATCGAAGGCAATT
* * * * **
3704461 AGTGCATCGATGCATAAGG-AGTGCATCGATGCACCCCCTT-AAAATAAAAATATCGAAGGTGAT
1 TGTGTATCGATGCAT-AGGAAGTGCATCGATGCACCCCATTAAAAATAAAAACATCGAAGGCAAT
3704524 T
65 T
* * * *
3704525 TGTGTATCTATGCATGGGTAGTGTATCGATGCAC
1 TGTGTATCGATGCATAGGAAGTGCATCGATGCAC
3704559 ATGTTAAAGA
Statistics
Matches: 81, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
63 2 0.02
64 71 0.88
65 8 0.10
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (65 bp):
TGTGTATCGATGCATAGGAAGTGCATCGATGCACCCCATTAAAAATAAAAACATCGAAGGCAATT
Found at i:3704600 original size:20 final size:20
Alignment explanation
Indices: 3704566--3704603 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3704556 CACATGTTAA
**
3704566 AGAATGCATTGATGCACTGT
1 AGAATGCATCAATGCACTGT
3704586 AGAATGCATCAATGCACT
1 AGAATGCATCAATGCACT
3704604 TCAAAGGAAA
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:0.34, C:0.18, G:0.21, T:0.26
Consensus pattern (20 bp):
AGAATGCATCAATGCACTGT
Found at i:3705716 original size:2 final size:2
Alignment explanation
Indices: 3705709--3705748 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
3705699 CGTGTATTTG
3705709 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
3705749 GAATGGATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3708280 original size:34 final size:34
Alignment explanation
Indices: 3708220--3708287 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
3708210 TTTCTTGACA
*
3708220 ATTGTTTTCTCCTTTTAATCAAGAGAGAA-TTGTC
1 ATTGTTTTCTCCTTGTAATC-AGAGAGAAGTTGTC
3708254 ATTGTTTTCTCCTTGGTAGATC-GAGAGAAGTTGT
1 ATTGTTTTCTCCTT-GTA-ATCAGAGAGAAGTTGT
3708288 AATTCCTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 21 0.70
35 6 0.20
36 3 0.10
ACGTcount: A:0.24, C:0.13, G:0.21, T:0.43
Consensus pattern (34 bp):
ATTGTTTTCTCCTTGTAATCAGAGAGAAGTTGTC
Found at i:3711464 original size:11 final size:11
Alignment explanation
Indices: 3711448--3711474 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
3711438 TATAACTTCC
3711448 TAATAGATTTT
1 TAATAGATTTT
3711459 TAATAGATTTT
1 TAATAGATTTT
3711470 TAATA
1 TAATA
3711475 TAACTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (11 bp):
TAATAGATTTT
Found at i:3712651 original size:17 final size:17
Alignment explanation
Indices: 3712629--3712662 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
3712619 TATCCCATAA
3712629 ATTTTAATAAAAATTAT
1 ATTTTAATAAAAATTAT
* *
3712646 ATTTTATTAAAACTTAT
1 ATTTTAATAAAAATTAT
3712663 CGTGTATCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTTAATAAAAATTAT
Found at i:3722422 original size:6 final size:6
Alignment explanation
Indices: 3722411--3722435 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
3722401 TTCCATCGTG
3722411 GATTCC GATTCC GATTCC GATTCC G
1 GATTCC GATTCC GATTCC GATTCC G
3722436 TTATTTCGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.32, G:0.20, T:0.32
Consensus pattern (6 bp):
GATTCC
Found at i:3727896 original size:16 final size:16
Alignment explanation
Indices: 3727872--3727903 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
3727862 TATCGCCGAC
*
3727872 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
3727888 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
3727904 TATGAATAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.34
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:3729629 original size:31 final size:26
Alignment explanation
Indices: 3729564--3729613 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
3729554 TTTAATGAAT
*
3729564 ATATTATATAATAGTTCAAAAAATAA
1 ATATTTTATAATAGTTCAAAAAATAA
3729590 ATATTTTATAATAGTTCAAAAAAT
1 ATATTTTATAATAGTTCAAAAAAT
3729614 TTAATCAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (26 bp):
ATATTTTATAATAGTTCAAAAAATAA
Found at i:3731588 original size:17 final size:17
Alignment explanation
Indices: 3731566--3731606 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
3731556 GGATCTTGAA
3731566 AATGGGTTAACCCAATC
1 AATGGGTTAACCCAATC
3731583 AATGGGTTAACCCAATC
1 AATGGGTTAACCCAATC
3731600 AATGGGT
1 AATGGGT
3731607 GTACTCGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (17 bp):
AATGGGTTAACCCAATC
Found at i:3732426 original size:15 final size:15
Alignment explanation
Indices: 3732387--3732434 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
3732377 ACAAACGCAC
*
3732387 AATATACTAATTATAT
1 AATATATTAA-TATAT
* *
3732403 AATAGATTAATATTT
1 AATATATTAATATAT
3732418 AATATATTAATTATAT
1 AATATATTAA-TATAT
3732434 A
1 A
3732435 TAATCAGACT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (15 bp):
AATATATTAATATAT
Found at i:3741406 original size:21 final size:21
Alignment explanation
Indices: 3741362--3741406 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
3741352 TTTAATGCAC
* *
3741362 AAGGGATCGATCCTTTTGTGA
1 AAGGGATCGATCATTTTGTCA
*
3741383 AAGGGATCGATCATTTTTTCA
1 AAGGGATCGATCATTTTGTCA
3741404 AAG
1 AAG
3741407 AATCCGACCG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.33
Consensus pattern (21 bp):
AAGGGATCGATCATTTTGTCA
Found at i:3741495 original size:21 final size:21
Alignment explanation
Indices: 3741471--3741521 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
3741461 TTCATTAAGA
**
3741471 GATCGATCCTTTTGGT-GAAGG
1 GATCGATCCTTTTACTCG-AGG
*
3741492 GATCGATTCTTTTACTCGAGG
1 GATCGATCCTTTTACTCGAGG
3741513 GATCGATCC
1 GATCGATCC
3741522 CAAACCTACT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 24 0.96
22 1 0.04
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (21 bp):
GATCGATCCTTTTACTCGAGG
Found at i:3742172 original size:21 final size:19
Alignment explanation
Indices: 3742143--3742181 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
3742133 CCAAAGTCAT
3742143 AAAAATTCAAATATCCAAAC
1 AAAAATTCAAATA-CCAAAC
*
3742163 AAAACATTCAAGTACCAAA
1 AAAA-ATTCAAATACCAAA
3742182 TAACATCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.59, C:0.21, G:0.03, T:0.18
Consensus pattern (19 bp):
AAAAATTCAAATACCAAAC
Found at i:3745542 original size:19 final size:19
Alignment explanation
Indices: 3745498--3745536 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
3745488 TTCCCTTTTC
3745498 TGTGGCATCTTTTAATTGA
1 TGTGGCATCTTTTAATTGA
3745517 TGTGGCATCTTTTAATTGA
1 TGTGGCATCTTTTAATTGA
3745536 T
1 T
3745537 TGGGCAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.10, G:0.21, T:0.49
Consensus pattern (19 bp):
TGTGGCATCTTTTAATTGA
Found at i:3750101 original size:20 final size:19
Alignment explanation
Indices: 3750034--3750106 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 19
3750024 ACGTTATAAG
*
3750034 AAAGGGATCGATCATTTAATC
1 AAAGGGATCGATCATTT--TT
*
3750055 CAAGGGATCGAT-ACTTTTAT
1 AAAGGGATCGATCA-TTTT-T
*
3750075 AAGGGGATCGATCATTTGTT
1 AAAGGGATCGATCATTT-TT
3750095 AAAGGGATCGAT
1 AAAGGGATCGAT
3750107 TTTTTTCTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
19 1 0.02
20 26 0.60
21 16 0.37
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (19 bp):
AAAGGGATCGATCATTTTT
Found at i:3751595 original size:164 final size:165
Alignment explanation
Indices: 3751404--3751732 Score: 651
Period size: 164 Copynumber: 2.0 Consensus size: 165
3751394 AATAGTATAT
3751404 TTTAGCATTTTTATAATTGATTAGTAATACACATATTTTATAAAACGTAATTGTTCAAACTTAAA
1 TTTAGCATTTTTATAATTGATTAGTAATACACATATTTTATAAAACGTAATTGTTCAAACTTAAA
3751469 ACCTCTAAAAAGAATAACATTCTCTTTTATTGATAAATTAATTAATGAATGTCA-TATATCTGAC
66 ACCTCTAAAAAGAATAACATTCTCTTTTATTGATAAATTAATTAATGAATGTCATTATATCTGAC
3751533 TAATATGAGTTATCGAGATTATTTTATATTATTTA
131 TAATATGAGTTATCGAGATTATTTTATATTATTTA
3751568 TTTAGCATTTTTATAATTGATTAGTAATACACATATTTTATAAAACGTAATTGTTCAAACTTAAA
1 TTTAGCATTTTTATAATTGATTAGTAATACACATATTTTATAAAACGTAATTGTTCAAACTTAAA
3751633 ACCTCTAAAAAGAATAACATTCTCTTTTATTGATAAATTAATTAATGAATGTCATTATATCTGAC
66 ACCTCTAAAAAGAATAACATTCTCTTTTATTGATAAATTAATTAATGAATGTCATTATATCTGAC
3751698 TAATATGAGTTATCGAGATTATTTTATATTATTTA
131 TAATATGAGTTATCGAGATTATTTTATATTATTTA
3751733 CTAACAATAT
Statistics
Matches: 164, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
164 119 0.73
165 45 0.27
ACGTcount: A:0.39, C:0.10, G:0.09, T:0.43
Consensus pattern (165 bp):
TTTAGCATTTTTATAATTGATTAGTAATACACATATTTTATAAAACGTAATTGTTCAAACTTAAA
ACCTCTAAAAAGAATAACATTCTCTTTTATTGATAAATTAATTAATGAATGTCATTATATCTGAC
TAATATGAGTTATCGAGATTATTTTATATTATTTA
Found at i:3757545 original size:17 final size:17
Alignment explanation
Indices: 3757523--3757555 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
3757513 TTTTAATCAT
3757523 TAAAATTTTAAAAATTA
1 TAAAATTTTAAAAATTA
*
3757540 TAAAATTTTCAAAATT
1 TAAAATTTTAAAAATT
3757556 GTTATAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAAATTTTAAAAATTA
Found at i:3757607 original size:33 final size:31
Alignment explanation
Indices: 3757535--3757617 Score: 105
Period size: 32 Copynumber: 2.6 Consensus size: 31
3757525 AAATTTTAAA
*
3757535 AATTATAAAATTT-TCAAAATTGTTATAAAAT
1 AATTATTAAATTTATC-AAATTGTTATAAAAT
* *
3757566 GATCATTAAACTTTATCAAATTGTTATAAAGAT
1 AATTATTAAA-TTTATCAAATTGTTATAAA-AT
3757599 AATTATTAAATTTATCAAA
1 AATTATTAAATTTATCAAA
3757618 CTTTTATTCT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
31 7 0.16
32 25 0.57
33 12 0.27
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.41
Consensus pattern (31 bp):
AATTATTAAATTTATCAAATTGTTATAAAAT
Found at i:3762635 original size:21 final size:22
Alignment explanation
Indices: 3762579--3762635 Score: 82
Period size: 21 Copynumber: 2.7 Consensus size: 22
3762569 GCGTTGCATT
*
3762579 TCGCGTTGCGATA-ATGAAAAA
1 TCGCGTTGCGATAGTTGAAAAA
*
3762600 TCGCATTGCGATAGTTG-AAAA
1 TCGCGTTGCGATAGTTGAAAAA
3762621 TCGCGTTGCGATAGT
1 TCGCGTTGCGATAGT
3762636 CTACAGTTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (22 bp):
TCGCGTTGCGATAGTTGAAAAA
Found at i:3762760 original size:6 final size:6
Alignment explanation
Indices: 3762749--3762780 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
3762739 AGACACGTAT
3762749 GACCAC GACCAC GACCAC GACCAC GACCAC GA
1 GACCAC GACCAC GACCAC GACCAC GACCAC GA
3762781 GACGAGACGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.34, C:0.47, G:0.19, T:0.00
Consensus pattern (6 bp):
GACCAC
Found at i:3763421 original size:41 final size:41
Alignment explanation
Indices: 3763373--3763494 Score: 128
Period size: 41 Copynumber: 3.0 Consensus size: 41
3763363 GCAACGAATT
* * *
3763373 TGGAAAATCGCAACGAC-ATTGT-AGACTGTCGCAACGCGAAA
1 TGGAAAATCGCAACG-CGATTGTCA-ACTATAGCAAAGCGAAA
* *
3763414 TGGAAAATCGCAATGCGATTTTCAACTATAGCAAAGCGAAA
1 TGGAAAATCGCAACGCGATTGTCAACTATAGCAAAGCGAAA
* *
3763455 TGGAAAATCGCAACGCGATT-TC-ACTATCG-AACGCGAAA
1 TGGAAAATCGCAACGCGATTGTCAACTATAGCAAAGCGAAA
3763493 TG
1 TG
3763495 CAACGCGAAT
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
38 10 0.14
39 6 0.08
40 3 0.04
41 51 0.72
42 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (41 bp):
TGGAAAATCGCAACGCGATTGTCAACTATAGCAAAGCGAAA
Found at i:3763426 original size:20 final size:20
Alignment explanation
Indices: 3763401--3763472 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
3763391 TTGTAGACTG
3763401 TCGCAACGCGAAATGGAAAA
1 TCGCAACGCGAAATGGAAAA
* ** ** *
3763421 TCGCAATGCGATTTTCAACTA
1 TCGCAACGCGAAATGGAA-AA
* *
3763442 TAGCAAAGCGAAATGGAAAA
1 TCGCAACGCGAAATGGAAAA
3763462 TCGCAACGCGA
1 TCGCAACGCGA
3763473 TTTCACTATC
Statistics
Matches: 36, Mismatches: 15, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.40, C:0.21, G:0.22, T:0.17
Consensus pattern (20 bp):
TCGCAACGCGAAATGGAAAA
Found at i:3764165 original size:45 final size:45
Alignment explanation
Indices: 3764114--3764203 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
3764104 CTATATTCAC
3764114 ATAATCTAAGCAATCTATATTCTTCTCTCTAACCTTAGTGTTAAT
1 ATAATCTAAGCAATCTATATTCTTCTCTCTAACCTTAGTGTTAAT
3764159 ATAATCTAAGCAATCTATATTCTTCTCTCTAACCTTAGTGTTAAT
1 ATAATCTAAGCAATCTATATTCTTCTCTCTAACCTTAGTGTTAAT
3764204 TATATCCTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.42
Consensus pattern (45 bp):
ATAATCTAAGCAATCTATATTCTTCTCTCTAACCTTAGTGTTAAT
Found at i:3764393 original size:130 final size:131
Alignment explanation
Indices: 3764159--3764416 Score: 493
Period size: 130 Copynumber: 2.0 Consensus size: 131
3764149 TAGTGTTAAT
3764159 ATAATCTAAGCAATCTATATTCTTCTCTCTAACCTTAGTGTTAATTATATCCTTATAAGTATTAA
1 ATAATCTAAGCAATCTATATTCTTCTCTCTAACCTTAGTGTTAATTATATCCTTATAAGTATTAA
3764224 CAATTTCATCAGCAGAATGGGCTTGACCTCTAAAATGACGGAAATTACTCTCCTCTCAGATGCCA
66 CAATTTCATCAGCAGAATGGGCTTGACCTCTAAAATGACGGAAATTACTCTCCTCTCAGATGCCA
3764289 C
131 C
3764290 ATAATCTAAGCAATCTATA-T-TTCTCTCTAACCTTAGTGTTAATTATATCCTTTATAAGTATTA
1 ATAATCTAAGCAATCTATATTCTTCTCTCTAACCTTAGTGTTAATTATATCC-TTATAAGTATTA
3764353 ACAATTTCATCAGCAGAATGGGCTTGACCTCTAAAATGACGGAAATTACTCTCCTCTCAGATGC
65 ACAATTTCATCAGCAGAATGGGCTTGACCTCTAAAATGACGGAAATTACTCTCCTCTCAGATGC
3764417 AAAAGATGTG
Statistics
Matches: 126, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
129 30 0.24
130 77 0.61
131 19 0.15
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (131 bp):
ATAATCTAAGCAATCTATATTCTTCTCTCTAACCTTAGTGTTAATTATATCCTTATAAGTATTAA
CAATTTCATCAGCAGAATGGGCTTGACCTCTAAAATGACGGAAATTACTCTCCTCTCAGATGCCA
C
Found at i:3768924 original size:16 final size:16
Alignment explanation
Indices: 3768903--3768938 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
3768893 GGTTCAGTTT
3768903 CATCTGTAGTCTGTTG
1 CATCTGTAGTCTGTTG
3768919 CATCTGTAGTCTGTTG
1 CATCTGTAGTCTGTTG
3768935 CATC
1 CATC
3768939 AATGTTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.14, C:0.22, G:0.22, T:0.42
Consensus pattern (16 bp):
CATCTGTAGTCTGTTG
Found at i:3770031 original size:13 final size:13
Alignment explanation
Indices: 3770013--3770046 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
3770003 CTACATTTGA
3770013 TGAACAAATATCT
1 TGAACAAATATCT
3770026 TGAACAAATATCT
1 TGAACAAATATCT
3770039 TGAACAAA
1 TGAACAAA
3770047 AACCGTAGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.50, C:0.15, G:0.09, T:0.26
Consensus pattern (13 bp):
TGAACAAATATCT
Found at i:3779438 original size:130 final size:129
Alignment explanation
Indices: 3779184--3779441 Score: 500
Period size: 128 Copynumber: 2.0 Consensus size: 129
3779174 AAGCTTGTGG
3779184 GTTGCCATGTGTCAAGCAGAATCTGATACCAAGGCCTTAGTGGATGCTTGCGCTTATTCGGATTA
1 GTTGCCATGTGTCAAGCAGAATCTGATACCAAGGCCTTAGTGGATGCTT-CGCTTATTCGGATTA
3779249 AATCTCCAATTGGTGGTTCACTTTGCATGTTTGTGTGGCTGATGTATGAGAATCCAAAAAAAGAT
65 AATCTCCAATTGGTGGTTCACTTTGCATGTTTGTGTGGCTGATGTATGAGAATCCAAAAAAAGAT
3779314 GTTGCCATGTGTCAAGCAGAATCTGATACCAAGGCCTTAGTGGATGCTT-GCTTATTCGGATTAA
1 GTTGCCATGTGTCAAGCAGAATCTGATACCAAGGCCTTAGTGGATGCTTCGCTTATTCGGATTAA
3779378 ATCTCCAATTGGTGGTTCACTTTGCATGTTTGTGTGGCTGATGTATGAGAATCCAAAAAAAGAT
66 ATCTCCAATTGGTGGTTCACTTTGCATGTTTGTGTGGCTGATGTATGAGAATCCAAAAAAAGAT
3779442 CAATGGCAGT
Statistics
Matches: 128, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
128 79 0.62
130 49 0.38
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (129 bp):
GTTGCCATGTGTCAAGCAGAATCTGATACCAAGGCCTTAGTGGATGCTTCGCTTATTCGGATTAA
ATCTCCAATTGGTGGTTCACTTTGCATGTTTGTGTGGCTGATGTATGAGAATCCAAAAAAAGAT
Found at i:3793455 original size:40 final size:39
Alignment explanation
Indices: 3793397--3793505 Score: 175
Period size: 40 Copynumber: 2.8 Consensus size: 39
3793387 AACAGACTTC
* *
3793397 TAGGTTGCAACCTGATTTATCATATATAAACCTAAATTTT
1 TAGGTTGCAACCTAATTTATCATATAGAAACCT-AATTTT
*
3793437 TAGGTTGCAACCTAATTTATCATATAGAAACCTGATTTT
1 TAGGTTGCAACCTAATTTATCATATAGAAACCTAATTTT
3793476 T-GGTTGCAACCTAATTTATCATATAGAAAC
1 TAGGTTGCAACCTAATTTATCATATAGAAAC
3793506 TTGATTTCTT
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
38 29 0.44
39 6 0.09
40 31 0.47
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.38
Consensus pattern (39 bp):
TAGGTTGCAACCTAATTTATCATATAGAAACCTAATTTT
Found at i:3793481 original size:38 final size:39
Alignment explanation
Indices: 3793397--3793512 Score: 180
Period size: 38 Copynumber: 3.0 Consensus size: 39
3793387 AACAGACTTC
* * *
3793397 TAGGTTGCAACCTGATTTATCATATATAAACCTAAATTTT
1 TAGGTTGCAACCTAATTTATCATATAGAAACCT-GATTTT
3793437 TAGGTTGCAACCTAATTTATCATATAGAAACCTGATTTT
1 TAGGTTGCAACCTAATTTATCATATAGAAACCTGATTTT
*
3793476 T-GGTTGCAACCTAATTTATCATATAGAAACTTGATTT
1 TAGGTTGCAACCTAATTTATCATATAGAAACCTGATTT
3793513 CTTTTTAGTT
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
38 35 0.49
39 6 0.08
40 31 0.43
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.40
Consensus pattern (39 bp):
TAGGTTGCAACCTAATTTATCATATAGAAACCTGATTTT
Found at i:3793537 original size:17 final size:18
Alignment explanation
Indices: 3793515--3793553 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
3793505 CTTGATTTCT
*
3793515 TTTTA-GTTGCAACATGA
1 TTTTAGGTTACAACATGA
*
3793532 TTTTAGGTTACAACCTGA
1 TTTTAGGTTACAACATGA
3793550 TTTT
1 TTTT
3793554 TCATATGGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.46
Consensus pattern (18 bp):
TTTTAGGTTACAACATGA
Found at i:3804454 original size:36 final size:37
Alignment explanation
Indices: 3804400--3804506 Score: 153
Period size: 36 Copynumber: 2.9 Consensus size: 37
3804390 AAACAAACGT
* * *
3804400 TAGAGTTTTAGTAGGATTCAAACTCCTAAAAATATGA
1 TAGAGTTTTACTAAGATTCAAACTCCTAAAAATAGGA
3804437 TAGA-TTTTACTAAGATTCAAACTCCTAAAAATAGGA
1 TAGAGTTTTACTAAGATTCAAACTCCTAAAAATAGGA
* * *
3804473 TAAAGTTTTACTATGATTCAAACTTCTAAAAATA
1 TAGAGTTTTACTAAGATTCAAACTCCTAAAAATA
3804507 AGTTCCACAA
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
36 32 0.51
37 31 0.49
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (37 bp):
TAGAGTTTTACTAAGATTCAAACTCCTAAAAATAGGA
Found at i:3805043 original size:2 final size:2
Alignment explanation
Indices: 3805038--3805079 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
3805028 TTTTTTAGAT
*
3805038 TA TA TA TA TA TA GA TA TA TA TA TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3805079 T
1 T
3805080 TTTTATTATC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3805111 original size:26 final size:27
Alignment explanation
Indices: 3805082--3805142 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
3805072 TTATATATTT
3805082 TTATTATCCGTTTTA-TTTATTATAT-A
1 TTATTAT-CGTTTTATTTTATTATATAA
**
3805108 TTATTATTTTTTTATTTTATTATATAA
1 TTATTATCGTTTTATTTTATTATATAA
3805135 TATATTAT
1 T-TATTAT
3805143 TTTTTCTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 5 0.17
26 17 0.57
27 2 0.07
28 6 0.20
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.66
Consensus pattern (27 bp):
TTATTATCGTTTTATTTTATTATATAA
Found at i:3805130 original size:29 final size:29
Alignment explanation
Indices: 3805092--3805182 Score: 100
Period size: 28 Copynumber: 3.1 Consensus size: 29
3805082 TTATTATCCG
3805092 TTTTATTTATTATATATTATTATTTTTTTA
1 TTTTA-TTATTATATATTATTATTTTTTTA
*
3805122 TTTTATTA-TATA-ATATATTATTTTTTCTT
1 TTTTATTATTATATAT-TATTATTTTTT-TA
*
3805151 TTTTATTATTAT-T-TTATTTATTTTTATA
1 TTTTATTATTATATATTA-TTATTTTTTTA
3805179 TTTT
1 TTTT
3805183 TCTTCTTTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
27 2 0.04
28 22 0.42
29 21 0.40
30 8 0.15
ACGTcount: A:0.25, C:0.01, G:0.00, T:0.74
Consensus pattern (29 bp):
TTTTATTATTATATATTATTATTTTTTTA
Found at i:3805145 original size:26 final size:25
Alignment explanation
Indices: 3805092--3805179 Score: 80
Period size: 26 Copynumber: 3.6 Consensus size: 25
3805082 TTATTATCCG
*
3805092 TTTTATTTATTATATATTATTATTT
1 TTTTATTTATTATATAATATTATTT
3805117 TTTTATTTTATTATATAATA-TATTAT
1 TTTTA-TTTATTATATAATATTATT-T
*
3805143 TTTT-TCTT-TT-T-TATTATTATTT
1 TTTTAT-TTATTATATAATATTATTT
3805165 TATTTATTT-TTATAT
1 T-TTTATTTATTATAT
3805180 TTTTCTTCTT
Statistics
Matches: 53, Mismatches: 2, Indels: 16
0.75 0.03 0.23
Matches are distributed among these distances:
22 6 0.11
23 12 0.23
24 5 0.09
25 12 0.23
26 18 0.34
ACGTcount: A:0.26, C:0.01, G:0.00, T:0.73
Consensus pattern (25 bp):
TTTTATTTATTATATAATATTATTT
Found at i:3805183 original size:29 final size:28
Alignment explanation
Indices: 3805097--3805183 Score: 81
Period size: 29 Copynumber: 3.1 Consensus size: 28
3805087 ATCCGTTTTA
* *
3805097 TTTATTA-TATATTATTATTTTTTTA-T
1 TTTATTATTATTTTATTATTTTTATATT
* * *
3805123 TTTATTATATAATATATTATTTTT-TCTTT
1 TTTATTAT-TATTTTATTATTTTTAT-ATT
3805152 TTTATTATTATTTTATTTATTTTTATATT
1 TTTATTATTATTTTA-TTATTTTTATATT
3805181 TTT
1 TTT
3805184 CTTCTTTTTC
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
26 7 0.15
27 1 0.02
28 17 0.35
29 22 0.46
30 1 0.02
ACGTcount: A:0.25, C:0.01, G:0.00, T:0.74
Consensus pattern (28 bp):
TTTATTATTATTTTATTATTTTTATATT
Found at i:3805218 original size:9 final size:9
Alignment explanation
Indices: 3805149--3805218 Score: 50
Period size: 10 Copynumber: 7.0 Consensus size: 9
3805139 TTATTTTTTC
3805149 TTTTTTATT
1 TTTTTTATT
3805158 ATTATTTTATT
1 -TT-TTTTATT
3805169 TATTTTTATAT
1 T-TTTTTAT-T
*
3805180 TTTTCTTCTT
1 TTTT-TTATT
*
3805190 TTTCTTTCTT
1 TTT-TTTATT
*
3805200 TTTATATATT
1 TTT-TTTATT
3805210 TTTTTTATT
1 TTTTTTATT
3805219 ACTTACTTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
9 5 0.10
10 31 0.62
11 14 0.28
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTTATT
Found at i:3805227 original size:27 final size:27
Alignment explanation
Indices: 3805162--3805228 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 27
3805152 TTTATTATTA
*
3805162 TTTTATTTA-TTTTTATATTTTTCTTC
1 TTTTACTTACTTTTTATATTTTTCTTC
* *
3805188 TTTTTCTTTCTTTTTATATATTTT-TT-
1 TTTTACTTACTTTTTATAT-TTTTCTTC
3805214 TTATTACTTACTTTT
1 TT-TTACTTACTTTT
3805229 ATCTTTGTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
26 8 0.24
27 21 0.64
28 4 0.12
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (27 bp):
TTTTACTTACTTTTTATATTTTTCTTC
Found at i:3805228 original size:37 final size:38
Alignment explanation
Indices: 3805162--3805234 Score: 89
Period size: 37 Copynumber: 1.9 Consensus size: 38
3805152 TTTATTATTA
* *
3805162 TTTTATTTATTTTTATATTTTTCTTCTTTT-TCTTTCT
1 TTTTATATATTTTTATATTTTACTTCTTTTATCTTTCT
3805199 TTTTATATATTTTT-T-TTATTACTTACTTTTATCTTT
1 TTTTATATATTTTTATATT-TTACTT-CTTTTATCTTT
3805235 GTTTCTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
35 2 0.06
36 6 0.19
37 18 0.58
38 5 0.16
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.75
Consensus pattern (38 bp):
TTTTATATATTTTTATATTTTACTTCTTTTATCTTTCT
Found at i:3805685 original size:32 final size:32
Alignment explanation
Indices: 3805648--3805717 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
3805638 CAATAATAAG
** *
3805648 TGTAACA-ATTCGATAAAATGTAATAATTATTT
1 TGTAACATA-TCGATAAAAAATAATAATCATTT
*
3805680 TGTAACATATCGATAAAAAATATTAATCATTT
1 TGTAACATATCGATAAAAAATAATAATCATTT
3805712 TGTAAC
1 TGTAAC
3805718 GGTTTGTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 32 0.97
33 1 0.03
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.39
Consensus pattern (32 bp):
TGTAACATATCGATAAAAAATAATAATCATTT
Found at i:3805977 original size:28 final size:28
Alignment explanation
Indices: 3805942--3805995 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
3805932 ATATATATTT
*
3805942 TTTAAAAAATC-CAAAATTTTAGAAAAAC
1 TTTAAAAAATCTCAAAACTTT-GAAAAAC
3805970 TTTAAAAAATCTCAAAACTTTGAAAA
1 TTTAAAAAATCTCAAAACTTTGAAAA
3805996 CTTCAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.56, C:0.11, G:0.04, T:0.30
Consensus pattern (28 bp):
TTTAAAAAATCTCAAAACTTTGAAAAAC
Found at i:3806347 original size:17 final size:18
Alignment explanation
Indices: 3806319--3806353 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
3806309 AAATAAGGTT
3806319 TTTTTTATAAATATAATA
1 TTTTTTATAAATATAATA
*
3806337 TTTTTTA-AAATTTAATA
1 TTTTTTATAAATATAATA
3806354 AATACCAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTTTATAAATATAATA
Found at i:3815250 original size:19 final size:20
Alignment explanation
Indices: 3815226--3815264 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
3815216 AGTTCTATGG
3815226 TTCCCTCTTG-TATATGAAC
1 TTCCCTCTTGTTATATGAAC
3815245 TTCCCTCTTGTTATATGAAC
1 TTCCCTCTTGTTATATGAAC
3815265 AAGTTATCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.21, C:0.26, G:0.10, T:0.44
Consensus pattern (20 bp):
TTCCCTCTTGTTATATGAAC
Found at i:3817213 original size:18 final size:18
Alignment explanation
Indices: 3817182--3817218 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
3817172 ACCTCACATT
* *
3817182 TGTGTGTGTGTGTATATG
1 TGTGTATGTATGTATATG
3817200 TGTGTATGTATGTATATG
1 TGTGTATGTATGTATATG
3817218 T
1 T
3817219 CGGAATTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.51
Consensus pattern (18 bp):
TGTGTATGTATGTATATG
Found at i:3819990 original size:58 final size:59
Alignment explanation
Indices: 3819917--3820030 Score: 142
Period size: 58 Copynumber: 1.9 Consensus size: 59
3819907 AGGAGGAATG
* * **
3819917 TGTTGAGTGGGCCTGTTAAAGGCTTTAT-TGTAG-TCTTTTGGTTCTATCCACTTTTATT
1 TGTTGAGCGAGCCTGTTAAAGGCTTT-TCCCTAGTTCTTTTGGTTCTATCCACTTTTATT
** *
3819975 TGTTGAGCGAGCCTGTTAAATTCTTTTCCCTAGTTTTTTTGGTTCTATCCACTTTT
1 TGTTGAGCGAGCCTGTTAAAGGCTTTTCCCTAGTTCTTTTGGTTCTATCCACTTTT
3820031 TTGCTCCTGT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
57 1 0.02
58 25 0.53
59 21 0.45
ACGTcount: A:0.15, C:0.17, G:0.19, T:0.49
Consensus pattern (59 bp):
TGTTGAGCGAGCCTGTTAAAGGCTTTTCCCTAGTTCTTTTGGTTCTATCCACTTTTATT
Found at i:3821324 original size:14 final size:15
Alignment explanation
Indices: 3821300--3821331 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
3821290 ATAGTTCAAA
3821300 ATTGATAGTTTAG-T
1 ATTGATAGTTTAGAT
3821314 ATTGATAGTTTAGAT
1 ATTGATAGTTTAGAT
3821329 ATT
1 ATT
3821332 AAATATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (15 bp):
ATTGATAGTTTAGAT
Found at i:3823334 original size:53 final size:53
Alignment explanation
Indices: 3823272--3823414 Score: 259
Period size: 53 Copynumber: 2.7 Consensus size: 53
3823262 CGGATATGAT
* * *
3823272 ATTATTCTGCCATTAGAAGCTTAGATTAGTCTCTTTACCATTTTCATGCTTGA
1 ATTATTCTGCCATTAGAAGGTTAGTTTAGTTTCTTTACCATTTTCATGCTTGA
3823325 ATTATTCTGCCATTAGAAGGTTAGTTTAGTTTCTTTACCATTTTCATGCTTGA
1 ATTATTCTGCCATTAGAAGGTTAGTTTAGTTTCTTTACCATTTTCATGCTTGA
3823378 ATTATTCTGCCATTAGAAGGTTAGTTTAGTTTCTTTA
1 ATTATTCTGCCATTAGAAGGTTAGTTTAGTTTCTTTA
3823415 AACATCCGAC
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
53 87 1.00
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.46
Consensus pattern (53 bp):
ATTATTCTGCCATTAGAAGGTTAGTTTAGTTTCTTTACCATTTTCATGCTTGA
Found at i:3832823 original size:21 final size:21
Alignment explanation
Indices: 3832799--3832843 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
3832789 TCTTAACATG
*
3832799 TTTAGTCCCTAAACTATCAAT
1 TTTAGTACCTAAACTATCAAT
* *
3832820 TTTAGTACCTAAACTTTCATT
1 TTTAGTACCTAAACTATCAAT
3832841 TTT
1 TTT
3832844 TCCAGTAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.20, G:0.04, T:0.47
Consensus pattern (21 bp):
TTTAGTACCTAAACTATCAAT
Found at i:3840534 original size:60 final size:59
Alignment explanation
Indices: 3840460--3840617 Score: 192
Period size: 60 Copynumber: 2.7 Consensus size: 59
3840450 TTGAAGATGC
* * *
3840460 AAAAGTTTAGGGACTAATTTAGAATGATA-TCCATAGTTTGGGGATAAAATTAGAATGTTT
1 AAAAGTTTAAGGACTAATTTAGAATGATAGT-CATAGTTTGGGGATAAAA-TAAAATGTTA
* * *
3840520 AAAAGTTTAAGGACTAATTTAGAATGATAGTTATAGTTTTGGGATGAAATAAAATGTTA
1 AAAAGTTTAAGGACTAATTTAGAATGATAGTCATAGTTTGGGGATAAAATAAAATGTTA
* * * **
3840579 AAAAATTTAAGGATTAATTTAAAATGAGGGTCATAGTTT
1 AAAAGTTTAAGGACTAATTTAGAATGATAGTCATAGTTT
3840618 TAAGACATAT
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
59 41 0.48
60 43 0.51
61 1 0.01
ACGTcount: A:0.41, C:0.03, G:0.20, T:0.35
Consensus pattern (59 bp):
AAAAGTTTAAGGACTAATTTAGAATGATAGTCATAGTTTGGGGATAAAATAAAATGTTA
Found at i:3840541 original size:29 final size:31
Alignment explanation
Indices: 3840459--3840548 Score: 96
Period size: 31 Copynumber: 3.0 Consensus size: 31
3840449 ATTGAAGATG
3840459 CAAAAGTTTAGGGACTAATTTAGAATGATAT
1 CAAAAGTTTAGGGACTAATTTAGAATGATAT
* * * *
3840490 CCATAGTTTGGGGA-TAAAATTAGAATG-T-T
1 CAAAAGTTTAGGGACT-AATTTAGAATGATAT
* *
3840519 TAAAAGTTTAAGGACTAATTTAGAATGATA
1 CAAAAGTTTAGGGACTAATTTAGAATGATA
3840549 GTTATAGTTT
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
29 20 0.44
30 4 0.09
31 21 0.47
ACGTcount: A:0.41, C:0.06, G:0.20, T:0.33
Consensus pattern (31 bp):
CAAAAGTTTAGGGACTAATTTAGAATGATAT
Found at i:3840615 original size:59 final size:60
Alignment explanation
Indices: 3840439--3840618 Score: 170
Period size: 59 Copynumber: 3.0 Consensus size: 60
3840429 TGGATGAATC
* * * * * *
3840439 TTGGGATAAAATTGAAGATG--CAAAAGTTTAGGGACTAATTTAGAATGATA-TCCATAGTT
1 TTGGGATAAAATT-AAAATGTTAAAAAATTTAAGGACTAATTTAAAATGAGAGT-CATAGTT
* * * * * * *
3840498 TGGGGATAAAATTAGAATGTTTAAAAGTTTAAGGACTAATTTAGAATGATAGTTATAGTT
1 TTGGGATAAAATTAAAATGTTAAAAAATTTAAGGACTAATTTAAAATGAGAGTCATAGTT
* * *
3840558 TTGGGATGAAA-TAAAATGTTAAAAAATTTAAGGATTAATTTAAAATGAGGGTCATAGTT
1 TTGGGATAAAATTAAAATGTTAAAAAATTTAAGGACTAATTTAAAATGAGAGTCATAGTT
3840617 TT
1 TT
3840619 AAGACATATA
Statistics
Matches: 102, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
58 4 0.04
59 54 0.53
60 43 0.42
61 1 0.01
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (60 bp):
TTGGGATAAAATTAAAATGTTAAAAAATTTAAGGACTAATTTAAAATGAGAGTCATAGTT
Found at i:3844734 original size:21 final size:21
Alignment explanation
Indices: 3844704--3844765 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
3844694 GATTTACATA
*
3844704 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
3844725 TTCGCGTTGCGATTTATTCTAAG
1 TTCGCGTTGCGA--TAGTCCAAG
3844748 TT--CGTTGCGATAGTCCAA
1 TTCGCGTTGCGATAGTCCAA
3844766 AATCGCAACG
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
19 6 0.18
21 19 0.56
23 9 0.26
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:3844910 original size:21 final size:21
Alignment explanation
Indices: 3844884--3844950 Score: 98
Period size: 21 Copynumber: 3.2 Consensus size: 21
3844874 GACCACGACC
* *
3844884 GCGATAGTCTAAGTTCGTATT
1 GCGATAGTCGAAGTTCGCATT
*
3844905 GCGATAGTCGAAGTTCGCGTT
1 GCGATAGTCGAAGTTCGCATT
*
3844926 GCGATAGTCGAAGTTCGCGTT
1 GCGATAGTCGAAGTTCGCATT
3844947 GCGA
1 GCGA
3844951 ATTTGAAAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.21, C:0.18, G:0.31, T:0.30
Consensus pattern (21 bp):
GCGATAGTCGAAGTTCGCATT
Found at i:3848896 original size:37 final size:36
Alignment explanation
Indices: 3848821--3848896 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
3848811 TTTTTATATT
*
3848821 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
3848857 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
3848894 TTT
1 TTT
3848897 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 26 0.74
37 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:3849298 original size:19 final size:21
Alignment explanation
Indices: 3849262--3849303 Score: 70
Period size: 19 Copynumber: 2.1 Consensus size: 21
3849252 GTATGAATCG
3849262 ATCATCTAAAACATTGAATAA
1 ATCATCTAAAACATTGAATAA
3849283 ATCA-CTAAAA-ATTGAATAA
1 ATCATCTAAAACATTGAATAA
3849302 AT
1 AT
3849304 ATAAATACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 11 0.52
20 6 0.29
21 4 0.19
ACGTcount: A:0.55, C:0.12, G:0.05, T:0.29
Consensus pattern (21 bp):
ATCATCTAAAACATTGAATAA
Found at i:3852966 original size:123 final size:123
Alignment explanation
Indices: 3852747--3852997 Score: 335
Period size: 123 Copynumber: 2.0 Consensus size: 123
3852737 ACCACCCATG
*
3852747 TCTTCAAGTATGTACCGTTTGAATCTGTCCGGCATGTCGGGTGTTGGGATTGGAGAAGAGGGTTT
1 TCTTCAAGTATGTACCGTTTGAAACTGTCCGGCATGTCGGGTGTTGGGATTGGAGAAGAGGGTTT
* * * ** *
3852812 CTGTTTCTTGATTCTCTTCAACTTGGATTTCAGTTCACTTCCTCGTTCTCGATCACCA
66 CTGTTTCTTGAGTCTCTTCAACTTGGATTTCAGTCCACTTCCCCAATCTCCATCACCA
* * * *
3852870 TCTTCAAGTATGTGCCGTTTGAAAGTGTCCGGCATGTCGGGTGTTGTGATT-GAGGATTG-GGGT
1 TCTTCAAGTATGTACCGTTTGAAACTGTCCGGCATGTCGGGTGTTGGGATTGGA-GA-AGAGGGT
* * * *
3852933 TTCTGTTTTTTGCGTCTTTTCAACTTGGGTTTCAGTCCACTTCCCCAATCTCCATCACCA
64 TTCTGTTTCTTGAGTCTCTTCAACTTGGATTTCAGTCCACTTCCCCAATCTCCATCACCA
3852993 TCTTC
1 TCTTC
3852998 TTCTTTCAAC
Statistics
Matches: 111, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
122 2 0.02
123 108 0.97
124 1 0.01
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.39
Consensus pattern (123 bp):
TCTTCAAGTATGTACCGTTTGAAACTGTCCGGCATGTCGGGTGTTGGGATTGGAGAAGAGGGTTT
CTGTTTCTTGAGTCTCTTCAACTTGGATTTCAGTCCACTTCCCCAATCTCCATCACCA
Found at i:3861067 original size:20 final size:20
Alignment explanation
Indices: 3861016--3861068 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
3861006 CAAAACAATG
* * *
3861016 AAGGGATTGATACTTTTGAA
1 AAGGGATAGATCCTTTTAAA
* *
3861036 GAGGGATCGATCCTTTTAAA
1 AAGGGATAGATCCTTTTAAA
3861056 AAGGGATAGATCC
1 AAGGGATAGATCC
3861069 ATTGCACAAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.28
Consensus pattern (20 bp):
AAGGGATAGATCCTTTTAAA
Found at i:3862381 original size:4 final size:4
Alignment explanation
Indices: 3862372--3862409 Score: 67
Period size: 4 Copynumber: 9.5 Consensus size: 4
3862362 AACTCAAAAG
*
3862372 TACA TACA TACA TACA TACA TACA TACA TGCA TACA TA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TA
3862410 ACTTTGGGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.47, C:0.24, G:0.03, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:3873637 original size:60 final size:60
Alignment explanation
Indices: 3873526--3873656 Score: 165
Period size: 60 Copynumber: 2.2 Consensus size: 60
3873516 ATGAAATTAA
** *
3873526 AGTTCAAGTACCAACTTGGGGAGAAAAATTCTTTAAATACCAACTTAGGAGAAGGTTCCT
1 AGTTCAAGTACCAACTTGGGGAGAAAAATTCTTTAAATACCAACTTAGGAGAACATGCCT
** * * *
3873586 AGTTCAAGTACCAACTT-GGGAGTAAAAATTCTTTAGGTACTAATTTGGGAGAACATGCCT
1 AGTTCAAGTACCAACTTGGGGAG-AAAAATTCTTTAAATACCAACTTAGGAGAACATGCCT
*
3873646 AGTTCAGGTAC
1 AGTTCAAGTAC
3873657 TAAATGTATA
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
59 5 0.08
60 56 0.92
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.28
Consensus pattern (60 bp):
AGTTCAAGTACCAACTTGGGGAGAAAAATTCTTTAAATACCAACTTAGGAGAACATGCCT
Found at i:3875565 original size:25 final size:26
Alignment explanation
Indices: 3875537--3875594 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 26
3875527 TAGCTACTGA
3875537 GTTGTAAATTACA-AGAAAA-AAATTT
1 GTTG-AAATTACACAGAAAAGAAATTT
* *
3875562 GTTGCAATTACACAGAAAAGAAATATG
1 GTTGAAATTACACAGAAAAGAAAT-TT
3875589 GTTGAA
1 GTTGAA
3875595 CTCCTGAGTC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 7 0.26
25 10 0.37
26 4 0.15
27 6 0.22
ACGTcount: A:0.48, C:0.07, G:0.17, T:0.28
Consensus pattern (26 bp):
GTTGAAATTACACAGAAAAGAAATTT
Found at i:3875968 original size:123 final size:123
Alignment explanation
Indices: 3875821--3876071 Score: 439
Period size: 123 Copynumber: 2.0 Consensus size: 123
3875811 GTTGAAAGAA
* * * *
3875821 GAAGATGGTGATGGAGATTGGGGAAGTGGACTGAAACCCAAGTTGAAGAGATGCAAGAAACAGAA
1 GAAGATGGTGATCGAGAATGGGGAAGTGAACTGAAACCCAAGTTGAAGAGAAGCAAGAAACAGAA
3875886 ACCCCAATCCCCAATCCCAACACCCGACATGCCGGACACATTCAAACGGCACATACTT
66 ACCCCAATCCCCAATCCCAACACCCGACATGCCGGACACATTCAAACGGCACATACTT
3875944 GAAGATGGTGATCGAGAATGGGGAAGTGAACTGAAACCCAAGTTGAAGAGAAGCAAGAAACAGAA
1 GAAGATGGTGATCGAGAATGGGGAAGTGAACTGAAACCCAAGTTGAAGAGAAGCAAGAAACAGAA
* * *
3876009 ACCCCAATCCTCAATCCCAACACCCGACATGCCGGACACGTTCAAACGGTACATACTT
66 ACCCCAATCCCCAATCCCAACACCCGACATGCCGGACACATTCAAACGGCACATACTT
3876067 GAAGA
1 GAAGA
3876072 CATGGGCGGT
Statistics
Matches: 121, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
123 121 1.00
ACGTcount: A:0.38, C:0.24, G:0.24, T:0.14
Consensus pattern (123 bp):
GAAGATGGTGATCGAGAATGGGGAAGTGAACTGAAACCCAAGTTGAAGAGAAGCAAGAAACAGAA
ACCCCAATCCCCAATCCCAACACCCGACATGCCGGACACATTCAAACGGCACATACTT
Found at i:3878603 original size:7 final size:7
Alignment explanation
Indices: 3878591--3878626 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
3878581 TAAATCAAAA
3878591 AATATTT
1 AATATTT
3878598 AATATTT
1 AATATTT
3878605 AATATTT
1 AATATTT
*
3878612 AATATAT
1 AATATTT
*
3878619 ATTATTT
1 AATATTT
3878626 A
1 A
3878627 TAAATTTCGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AATATTT
Found at i:3883110 original size:90 final size:90
Alignment explanation
Indices: 3882989--3883166 Score: 284
Period size: 90 Copynumber: 2.0 Consensus size: 90
3882979 TAATCTTGAA
* * * * * *
3882989 TATTTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCACTGATATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACACTAATAGGAC
3883054 TAGGGTAACTTGGATATAAAAGGAT
66 TAGGGTAACTTGGATATAAAAGGAT
*
3883079 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATAGGAC
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACACTAATAGGAC
*
3883144 TAGGGTAACTTGGCTATAAAAGG
66 TAGGGTAACTTGGATATAAAAGG
3883167 GTGTGTTAGG
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 80 1.00
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (90 bp):
TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACACTAATAGGAC
TAGGGTAACTTGGATATAAAAGGAT
Found at i:3887084 original size:18 final size:18
Alignment explanation
Indices: 3887061--3887099 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
3887051 AGGTAGAGGA
3887061 TTCAGTCAAGTGGGAGTC
1 TTCAGTCAAGTGGGAGTC
3887079 TTCAGTCAAGTGGGAGTC
1 TTCAGTCAAGTGGGAGTC
3887097 TTC
1 TTC
3887100 CATGAAAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.21, C:0.18, G:0.31, T:0.31
Consensus pattern (18 bp):
TTCAGTCAAGTGGGAGTC
Found at i:3891553 original size:9 final size:9
Alignment explanation
Indices: 3891541--3891574 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
3891531 GAATTCGGTT
3891541 AATTAACCG
1 AATTAACCG
*
3891550 AATTAACTG
1 AATTAACCG
3891559 AATTAACCG
1 AATTAACCG
3891568 AAATTAA
1 -AATTAA
3891575 ATTTTAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 16 0.73
10 6 0.27
ACGTcount: A:0.50, C:0.15, G:0.09, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:3891965 original size:181 final size:181
Alignment explanation
Indices: 3891591--3891965 Score: 644
Period size: 181 Copynumber: 2.1 Consensus size: 181
3891581 AATATTAAAT
* * *
3891591 ATATTATATATAACATATGGGCTCAGCCCAAACTATTTAAAACCCAATTAATAATTTAAGATCTA
1 ATATTATATATAACATATGGGCTAAGCCCAAACCATTTAAAACCCAATTAATAATTTAAGATCCA
3891656 ATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTTTATTTTATAAT
66 ATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTTTATTTTATAAT
*
3891721 TATATATTATTTAAATTAATTATAAACTGTTTTTTAATTAAAAAATATTAA
131 TATATATTATTTAAATTAATTATAAACTGTTTTTTAATTAAAAAACATTAA
3891772 ATATTATATATAACATATGGGCTAAGCCCAAACCATTTAAAACCCAATTAATAATTTAAGATCCA
1 ATATTATATATAACATATGGGCTAAGCCCAAACCATTTAAAACCCAATTAATAATTTAAGATCCA
* * *
3891837 TTAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATCTGAAATTTTTATTTTATAA
66 ATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAA-TTATATAAAATTTTTATTTTATAA
* *
3891902 TTATATATTATTTAAATTAATTATAAACTTTTTTTTAATTAAAAAACATTTA
130 TTATATATTATTTAAATTAATTATAAACTGTTTTTTAATTAAAAAACATTAA
*
3891954 AT-TTTTATATAA
1 ATATTATATATAA
3891966 ATTAGAAAAT
Statistics
Matches: 183, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
181 110 0.60
182 73 0.40
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.42
Consensus pattern (181 bp):
ATATTATATATAACATATGGGCTAAGCCCAAACCATTTAAAACCCAATTAATAATTTAAGATCCA
ATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTTTATTTTATAAT
TATATATTATTTAAATTAATTATAAACTGTTTTTTAATTAAAAAACATTAA
Found at i:3893270 original size:5 final size:5
Alignment explanation
Indices: 3893260--3893286 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
3893250 TTTATTGAAA
3893260 AACCG AACCG AACCG AACCG AACCG AA
1 AACCG AACCG AACCG AACCG AACCG AA
3893287 AAACCCGAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.44, C:0.37, G:0.19, T:0.00
Consensus pattern (5 bp):
AACCG
Found at i:3893296 original size:19 final size:19
Alignment explanation
Indices: 3893272--3893325 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 19
3893262 CCGAACCGAA
3893272 CCGAACCGAACCGAAAAAC
1 CCGAACCGAACCGAAAAAC
*
3893291 CCGAACCGTTA---AAAAAC
1 CCGAACCG-AACCGAAAAAC
*
3893308 CCAAACCGAACCGAAAAA
1 CCGAACCGAACCGAAAAA
3893326 ACCGTTTCGA
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
16 1 0.04
17 13 0.46
19 13 0.46
20 1 0.04
ACGTcount: A:0.50, C:0.33, G:0.13, T:0.04
Consensus pattern (19 bp):
CCGAACCGAACCGAAAAAC
Found at i:3893543 original size:3 final size:3
Alignment explanation
Indices: 3893537--3893585 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
3893527 TGAGTTTTTT
*
3893537 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3893585 T
1 T
3893586 CGAAAAATGG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:3901195 original size:21 final size:21
Alignment explanation
Indices: 3901157--3901196 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
3901147 ATCATAAAAA
3901157 AAATTAAATCAATAAAATTTT
1 AAATTAAATCAATAAAATTTT
*
3901178 AAATATAAAT-AATTAAATT
1 AAAT-TAAATCAATAAAATT
3901197 CAATTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (21 bp):
AAATTAAATCAATAAAATTTT
Found at i:3901238 original size:27 final size:27
Alignment explanation
Indices: 3901199--3901266 Score: 102
Period size: 27 Copynumber: 2.5 Consensus size: 27
3901189 ATTAAATTCA
3901199 ATTTATTTTAATTAATCAATAGAATAT
1 ATTTATTTTAATTAATCAATAGAATAT
3901226 ATTT-TTTTAAATTAATCAATAGAATAT
1 ATTTATTTT-AATTAATCAATAGAATAT
**
3901253 ATAAATTTTAATTA
1 ATTTATTTTAATTA
3901267 CTGAAATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
26 4 0.11
27 29 0.78
28 4 0.11
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (27 bp):
ATTTATTTTAATTAATCAATAGAATAT
Found at i:3902427 original size:23 final size:24
Alignment explanation
Indices: 3902383--3902432 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
3902373 TCATAATTCA
**
3902383 AAACAAAAGTACTCTTCTCTCAAG
1 AAACAAAAGTACTCTTAACTCAAG
*
3902407 AAACAAAA-TACTTTTAACTCAAG
1 AAACAAAAGTACTCTTAACTCAAG
3902430 AAA
1 AAA
3902433 GTTTTTTTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.50, C:0.20, G:0.06, T:0.24
Consensus pattern (24 bp):
AAACAAAAGTACTCTTAACTCAAG
Found at i:3902950 original size:123 final size:123
Alignment explanation
Indices: 3902807--3903036 Score: 356
Period size: 123 Copynumber: 1.9 Consensus size: 123
3902797 TGGAGATTGG
* *
3902807 GGAAGTGGACTGAAACCCAAGTTGAAGAGACCCAAGAAACAGAAACCC-CAATCCT-CAATCCCA
1 GGAAGTGAACTGAAACCCAAGTTGAAGAGAACCAAGAAACAGAAACCCTC--TCCTCCAATCCCA
3902870 ACACCCGACATGCCGGACACATTCAAACGGCACATACTTGAAGATGGTGGTCGAGAACGA
64 ACACCCGACATGCCGGACACATTCAAACGGCACATACTTGAAGATGGTGGTCGAGAACGA
* * *
3902930 GGAAGTGAACTGAAATCCAAGTTGAAGAGAAGCAAGAAACAGAAACCCTCTTCTCCAATCCCAAC
1 GGAAGTGAACTGAAACCCAAGTTGAAGAGAACCAAGAAACAGAAACCCTCTCCTCCAATCCCAAC
* * *
3902995 ACCCGACGTGCCGGACAGATTCAAACGGTACATACTTGAAGA
66 ACCCGACATGCCGGACACATTCAAACGGCACATACTTGAAGA
3903037 CATGGGTGGT
Statistics
Matches: 97, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
122 3 0.03
123 93 0.96
124 1 0.01
ACGTcount: A:0.38, C:0.27, G:0.21, T:0.14
Consensus pattern (123 bp):
GGAAGTGAACTGAAACCCAAGTTGAAGAGAACCAAGAAACAGAAACCCTCTCCTCCAATCCCAAC
ACCCGACATGCCGGACACATTCAAACGGCACATACTTGAAGATGGTGGTCGAGAACGA
Found at i:3911718 original size:2 final size:2
Alignment explanation
Indices: 3911713--3911738 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3911703 TAAATTCATA
3911713 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
3911739 TTACAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3914685 original size:25 final size:25
Alignment explanation
Indices: 3914638--3914685 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
3914628 GTGAAATCCA
*
3914638 ATCCCAAAATTATTATTTTTCTACC
1 ATCCCAAAATTATTATTTCTCTACC
* * *
3914663 ATCCCAAGATTCTTCTTTCTCTA
1 ATCCCAAAATTATTATTTCTCTA
3914686 ACATTCTTGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.02, T:0.44
Consensus pattern (25 bp):
ATCCCAAAATTATTATTTCTCTACC
Found at i:3925933 original size:39 final size:39
Alignment explanation
Indices: 3925874--3926076 Score: 169
Period size: 39 Copynumber: 5.2 Consensus size: 39
3925864 GGTGCCTCTC
* * *
3925874 AAAGAACCAGTGTGTACCGCAGAGT-ATCCAGATGTCGCA
1 AAAGAACCGGTGTGTGCCGCAGAGTGA-CTAGATGTCGCA
* *
3925913 AAAGAACCGGTGTGTGCCGCAGAGTTG-CTGGATGTTGCA
1 AAAGAACCGGTGTGTGCCGCAGAG-TGACTAGATGTCGCA
* * * * **
3925952 GAAGAACCGCTGTGTG-TGACAGAGTGACTAGATATAACA
1 AAAGAACCGGTGTGTGCCG-CAGAGTGACTAGATGTCGCA
* * * *
3925991 GAAGAACCGATCTGTGCCGCAGAGTGACTAGATCTCGCA
1 AAAGAACCGGTGTGTGCCGCAGAGTGACTAGATGTCGCA
* * * * *
3926030 AAAGAACCGCTTTGTGCTGTAGAGTGACTAGATGTTGCA
1 AAAGAACCGGTGTGTGCCGCAGAGTGACTAGATGTCGCA
*
3926069 GAAGAACC
1 AAAGAACC
3926077 AATGTGTGGG
Statistics
Matches: 133, Mismatches: 26, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
38 3 0.02
39 128 0.96
40 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.29, T:0.21
Consensus pattern (39 bp):
AAAGAACCGGTGTGTGCCGCAGAGTGACTAGATGTCGCA
Found at i:3926007 original size:78 final size:78
Alignment explanation
Indices: 3925914--3926076 Score: 195
Period size: 78 Copynumber: 2.1 Consensus size: 78
3925904 GATGTCGCAA
* * * * * *
3925914 AAGAACCGGTGTGTGCCGCAGAGTTG-CTGGATGTTGCAGAAGAACCGCTGTGTG-TGACAGAGT
1 AAGAACCGATCTGTGCCGCAGAG-TGACTAGATCTCGCAAAAGAACCGCTGTGTGCTG-CAGAGT
3925977 GACTAGATATAACAG
64 GACTAGATATAACAG
* *
3925992 AAGAACCGATCTGTGCCGCAGAGTGACTAGATCTCGCAAAAGAACCGCTTTGTGCTGTAGAGTGA
1 AAGAACCGATCTGTGCCGCAGAGTGACTAGATCTCGCAAAAGAACCGCTGTGTGCTGCAGAGTGA
* **
3926057 CTAGATGTTGCAG
66 CTAGATATAACAG
3926070 AAGAACC
1 AAGAACC
3926077 AATGTGTGGG
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
77 2 0.03
78 68 0.94
79 2 0.03
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.21
Consensus pattern (78 bp):
AAGAACCGATCTGTGCCGCAGAGTGACTAGATCTCGCAAAAGAACCGCTGTGTGCTGCAGAGTGA
CTAGATATAACAG
Found at i:3926281 original size:33 final size:33
Alignment explanation
Indices: 3926239--3926309 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
3926229 TAAAATTGTT
* *
3926239 GGAACTTGAACCTGTGGAAGAGGTTGAATCACC
1 GGAACTTGAACCTGCGGAAGAGCTTGAATCACC
*
3926272 GGAACTTGAACTTGCGGAAGAGCTTGAATCACC
1 GGAACTTGAACCTGCGGAAGAGCTTGAATCACC
3926305 GGAAC
1 GGAAC
3926310 CTGATGTACA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.31, C:0.20, G:0.30, T:0.20
Consensus pattern (33 bp):
GGAACTTGAACCTGCGGAAGAGCTTGAATCACC
Found at i:3927172 original size:36 final size:30
Alignment explanation
Indices: 3927089--3927157 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
3927079 AAATGAACCG
* *
3927089 GAATGTGAGGATGATCCAGCAGCTGCACTT
1 GAATGTGAGGATGAACCAGAAGCTGCACTT
3927119 GAATGTGAGGATGAACCAGAAGCTGCACTT
1 GAATGTGAGGATGAACCAGAAGCTGCACTT
3927149 GAATGTGAG
1 GAATGTGAG
3927158 AAAGATGAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.30, C:0.16, G:0.32, T:0.22
Consensus pattern (30 bp):
GAATGTGAGGATGAACCAGAAGCTGCACTT
Found at i:3927172 original size:258 final size:254
Alignment explanation
Indices: 3926571--3927136 Score: 695
Period size: 258 Copynumber: 2.2 Consensus size: 254
3926561 GAAGAAGCAA
* * * ** * *
3926571 AATGTGAGGATGATCTAGAAGTTGCATTTGAATGTGAGAAAGATGAAGAGTCATGACCCGTAGCA
1 AATGTGAGGATGATCCAGAAGCTGCACTTGAATGTGAG--AGAT--AGAACCATGACCTGCAGCA
* *** * *
3926636 ACACTGTGACTTGTAGAACCGGAATGTGAAGACGGGCCAAAACCCTTAGAATCACTAGAACCTGA
62 ACAATGTGAAAAGTAGAACCAGAATGTGAAGACGAGCCAAAACCCTTAGAATCACTAGAACCTGA
* * * * * * *
3926701 TGAGGAACCAGTACTTGAAGCCCCGGAGCCTGATGAAGAGTGAGAGGTTGTAGCAGAACCGGAAT
127 TGAAGAACCAGAACTTGAAGCCCCAGAACCTGATGAAGAGTGAGAAGTCGTAGCAGAACCAGAAT
* * * **
3926766 AAGACTTGTTTGAATTTACGGAAGAGACAGAACCTTTAGAAGTAGAATGTAAAAATGAAGTGG
192 AAGACTTGTTCGAATCTACGAAAGAGACAGAACCTTTAGAAGTAGAATGTAAAAATGAACCGG
3926829 AATGTGAGGATGATCCAGAAGCTGCACTTGAATGTGAGAAAGATGAAGAACCATGACCTGCAGCA
1 AATGTGAGGATGATCCAGAAGCTGCACTTGAATGTGAG--AGAT--AGAACCATGACCTGCAGCA
* *** * *
3926894 ACACTGTGACTCGTAGAACCAGAATGTGAAGACGAGCCAGAACCCTTAGAATCGCTAGAACCTGA
62 ACAATGTGAAAAGTAGAACCAGAATGTGAAGACGAGCCAAAACCCTTAGAATCACTAGAACCTGA
3926959 TGAAGAACCAGAACTTGAAGCCCCAGAACCTGATGAAGAGTGAGAAGTCGTAGCAGAACCAGAAT
127 TGAAGAACCAGAACTTGAAGCCCCAGAACCTGATGAAGAGTGAGAAGTCGTAGCAGAACCAGAA-
* * * *
3927024 CCTTAGATTTGTTCGAATCTACGAAAGAGCCAGAACCTTTAGAAGTAGAATGTGAAAATGAACCG
191 --TAAGACTTGTTCGAATCTACGAAAGAGACAGAACCTTTAGAAGTAGAATGTAAAAATGAACCG
3927089 G
254 G
*
3927090 AATGTGAGGATGATCCAGCAGCTGCACTTGAATGTGAG-GAT-GAACCA
1 AATGTGAGGATGATCCAGAAGCTGCACTTGAATGTGAGAGATAGAACCA
3927137 GAAGCTGCAC
Statistics
Matches: 276, Mismatches: 29, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
255 6 0.02
258 178 0.64
261 92 0.33
ACGTcount: A:0.36, C:0.17, G:0.27, T:0.20
Consensus pattern (254 bp):
AATGTGAGGATGATCCAGAAGCTGCACTTGAATGTGAGAGATAGAACCATGACCTGCAGCAACAA
TGTGAAAAGTAGAACCAGAATGTGAAGACGAGCCAAAACCCTTAGAATCACTAGAACCTGATGAA
GAACCAGAACTTGAAGCCCCAGAACCTGATGAAGAGTGAGAAGTCGTAGCAGAACCAGAATAAGA
CTTGTTCGAATCTACGAAAGAGACAGAACCTTTAGAAGTAGAATGTAAAAATGAACCGG
Found at i:3927216 original size:291 final size:295
Alignment explanation
Indices: 3926828--3927986 Score: 2064
Period size: 291 Copynumber: 3.9 Consensus size: 295
3926818 AAATGAAGTG
3926828 GAATGTGAGGATGATCCAGAAGCTGCACTTGAATGTGAGAAAGATGAAGAACCATGACCTGCAGC
1 GAATGTGAGGATGATCCAGAAGCTGCACTTGAATGTGAGAAAGATGAAGAACCATGACCTGCAGC
3926893 AACACTGTGACTCGTAGAACCAGAATGTGAAGACGAGCCAGAACCCTTAGAATCGCTAGAACCTG
66 AACACTGTGACTCGTAGAACCAGAATGTGAAGACGAGCCAGAACCCTTAGAATCGCTAGAACCTG
3926958 ATGAAGAA-C-C-A-GAACTTGAAGCCCCAGAACCTGATGAAGAGTGAGAAGTCGTAGCAGAACC
131 ATGAAGAACCACAAGGAACTTGAAGCCCCAGAACCTGATGAAGAGTGAGAAGTCGTAGCAGAACC
3927019 AGAATCCTTAGATTTGTTCGAATCTACGAAAGAGCCAGAACCTTTAGAAGTAGAATGTGAAAATG
196 AGAATCCTTAGATTTGTTCGAATCTACGAAAGAGCCAGAACCTTTAGAAGTAGAATGTGAAAATG
3927084 AACCGGAATGTGAGGATGATCCAGCAGCTGCACTT
261 AACCGGAATGTGAGGATGATCCAGCAGCTGCACTT
*
3927119 GAATGTGAGGATGAACCAGAAGCTGCACTTGAATGTGAGAAAGATGAAGAACCATGACCTGCAGC
1 GAATGTGAGGATGATCCAGAAGCTGCACTTGAATGTGAGAAAGATGAAGAACCATGACCTGCAGC
3927184 AACACTGTGACTCGTAGAACCAGAATGTGAAGACGAGCCAGAACCCTTAGAATCGCTAGAACCTG
66 AACACTGTGACTCGTAGAACCAGAATGTGAAGACGAGCCAGAACCCTTAGAATCGCTAGAACCTG
*
3927249 ATGAAGAACCAGAACTTGAAGAGGAACTTGAAGCCCCAGAACCTGATGAAGAGTGAGCAGTCGTA
131 ATGAAGAACC---AC----A-AGGAACTTGAAGCCCCAGAACCTGATGAAGAGTGAGAAGTCGTA
3927314 GCAGAACCAGAATCCTTAGATTTGTTCGAATCTACGAAAGAGCCAGAACCTTTAGAAGTAGAATG
188 GCAGAACCAGAATCCTTAGATTTGTTCGAATCTACGAAAGAGCCAGAACCTTTAGAAGTAGAATG
3927379 TGAAAATGAACCGGAATGTGAGGATGATCCAGCAGCTGCACTT
253 TGAAAATGAACCGGAATGTGAGGATGATCCAGCAGCTGCACTT
3927422 GAATGTGAGGATGATCCAGAAGCTGCACTTGAATGTGAGAAAGATGAAGAACCATGACCTGCAGC
1 GAATGTGAGGATGATCCAGAAGCTGCACTTGAATGTGAGAAAGATGAAGAACCATGACCTGCAGC
3927487 AACACTGTGACTCGTAGAACCAGAATGTGAAGACGAGCCAGAACCCTTAGAATCGCTAGAACCTG
66 AACACTGTGACTCGTAGAACCAGAATGTGAAGACGAGCCAGAACCCTTAGAATCGCTAGAACCTG
3927552 ATGAAGAA-C-C-A-GAACTTGAAGCCCCAGAACCTGATGAAGAGTGAGAAGTCGTAGCAGAACC
131 ATGAAGAACCACAAGGAACTTGAAGCCCCAGAACCTGATGAAGAGTGAGAAGTCGTAGCAGAACC
*
3927613 AGAATCCTTAGATTTGTTCGAATCTACGAAAGTGCCAGAACCTTTAGAAGTAGAATGTGAAAATG
196 AGAATCCTTAGATTTGTTCGAATCTACGAAAGAGCCAGAACCTTTAGAAGTAGAATGTGAAAATG
3927678 AACCGGAATGTGAGGATGATCCAGCAGCTGCACTT
261 AACCGGAATGTGAGGATGATCCAGCAGCTGCACTT
3927713 GAATGTGAGGATGATCCAGAAGCTGCACTTGAATGTGAGAAAGATGAAGAACCATGACCTGCAGC
1 GAATGTGAGGATGATCCAGAAGCTGCACTTGAATGTGAGAAAGATGAAGAACCATGACCTGCAGC
*
3927778 AACACTGTGACTCGTAGAACCAGAATGTGAAGACGAGCCAGAACCCTTAGAATCTCTAGAACCTG
66 AACACTGTGACTCGTAGAACCAGAATGTGAAGACGAGCCAGAACCCTTAGAATCGCTAGAACCTG
*
3927843 ATGAAGAACCAGAACTTGAAGAGGAACTTGAAGCCCCAGAACCTGATGAAGAGTGATAAGTCGTA
131 ATGAAGAACC---AC----A-AGGAACTTGAAGCCCCAGAACCTGATGAAGAGTGAGAAGTCGTA
*
3927908 GCAGAACCAGAATCCTTAGATTTGTTCGAATCTACGAAGGAGCCAGAACCTTTAGAAGTAGAATG
188 GCAGAACCAGAATCCTTAGATTTGTTCGAATCTACGAAAGAGCCAGAACCTTTAGAAGTAGAATG
3927973 TGAAAATGAACCGG
253 TGAAAATGAACCGG
3927987 CAGCTGCACT
Statistics
Matches: 835, Mismatches: 9, Indels: 36
0.95 0.01 0.04
Matches are distributed among these distances:
291 422 0.51
292 3 0.00
296 2 0.00
298 1 0.00
302 3 0.00
303 404 0.48
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.19
Consensus pattern (295 bp):
GAATGTGAGGATGATCCAGAAGCTGCACTTGAATGTGAGAAAGATGAAGAACCATGACCTGCAGC
AACACTGTGACTCGTAGAACCAGAATGTGAAGACGAGCCAGAACCCTTAGAATCGCTAGAACCTG
ATGAAGAACCACAAGGAACTTGAAGCCCCAGAACCTGATGAAGAGTGAGAAGTCGTAGCAGAACC
AGAATCCTTAGATTTGTTCGAATCTACGAAAGAGCCAGAACCTTTAGAAGTAGAATGTGAAAATG
AACCGGAATGTGAGGATGATCCAGCAGCTGCACTT
Found at i:3927422 original size:303 final size:303
Alignment explanation
Indices: 3926969--3927986 Score: 1898
Period size: 303 Copynumber: 3.4 Consensus size: 303
3926959 TGAAGAACCA
3926969 GAACTTGAAGCCCCAGAACCTGATGAAGAGTGAGAAGTCGTAGCAGAACCAGAATCCTTAGATTT
1 GAACTTGAAGCCCCAGAACCTGATGAAGAGTGAGAAGTCGTAGCAGAACCAGAATCCTTAGATTT
3927034 GTTCGAATCTACGAAAGAGCCAGAACCTTTAGAAGTAGAATGTGAAAATGAACCGGAATGTGAGG
66 GTTCGAATCTACGAAAGAGCCAGAACCTTTAGAAGTAGAATGTGAAAATGAACCGGAATGTGAGG
*
3927099 ATGATCCAGCAGCTGCACTTGAATGTGAGGATGAACCAGAAGCTGCACTTGAATGTGAGAAAGAT
131 ATGATCCAGCAGCTGCACTTGAATGTGAGGATGATCCAGAAGCTGCACTTGAATGTGAGAAAGAT
3927164 GAAGAACCATGACCTGCAGCAACACTGTGACTCGTAGAACCAGAATGTGAAGACGAGCCAGAACC
196 GAAGAACCATGACCTGCAGCAACACTGTGACTCGTAGAACCAGAATGTGAAGACGAGCCAGAACC
3927229 CTTAGAATCGCTAGAACCTGATGAAGAACCAGAACTTGAAGAG
261 CTTAGAATCGCTAGAACCTGATGAAGAACCAGAACTTGAAGAG
*
3927272 GAACTTGAAGCCCCAGAACCTGATGAAGAGTGAGCAGTCGTAGCAGAACCAGAATCCTTAGATTT
1 GAACTTGAAGCCCCAGAACCTGATGAAGAGTGAGAAGTCGTAGCAGAACCAGAATCCTTAGATTT
3927337 GTTCGAATCTACGAAAGAGCCAGAACCTTTAGAAGTAGAATGTGAAAATGAACCGGAATGTGAGG
66 GTTCGAATCTACGAAAGAGCCAGAACCTTTAGAAGTAGAATGTGAAAATGAACCGGAATGTGAGG
3927402 ATGATCCAGCAGCTGCACTTGAATGTGAGGATGATCCAGAAGCTGCACTTGAATGTGAGAAAGAT
131 ATGATCCAGCAGCTGCACTTGAATGTGAGGATGATCCAGAAGCTGCACTTGAATGTGAGAAAGAT
3927467 GAAGAACCATGACCTGCAGCAACACTGTGACTCGTAGAACCAGAATGTGAAGACGAGCCAGAACC
196 GAAGAACCATGACCTGCAGCAACACTGTGACTCGTAGAACCAGAATGTGAAGACGAGCCAGAACC
3927532 CTTAGAATCGCTAGAACCTGATGAAGAA-C----C------A-
261 CTTAGAATCGCTAGAACCTGATGAAGAACCAGAACTTGAAGAG
3927563 GAACTTGAAGCCCCAGAACCTGATGAAGAGTGAGAAGTCGTAGCAGAACCAGAATCCTTAGATTT
1 GAACTTGAAGCCCCAGAACCTGATGAAGAGTGAGAAGTCGTAGCAGAACCAGAATCCTTAGATTT
*
3927628 GTTCGAATCTACGAAAGTGCCAGAACCTTTAGAAGTAGAATGTGAAAATGAACCGGAATGTGAGG
66 GTTCGAATCTACGAAAGAGCCAGAACCTTTAGAAGTAGAATGTGAAAATGAACCGGAATGTGAGG
3927693 ATGATCCAGCAGCTGCACTTGAATGTGAGGATGATCCAGAAGCTGCACTTGAATGTGAGAAAGAT
131 ATGATCCAGCAGCTGCACTTGAATGTGAGGATGATCCAGAAGCTGCACTTGAATGTGAGAAAGAT
3927758 GAAGAACCATGACCTGCAGCAACACTGTGACTCGTAGAACCAGAATGTGAAGACGAGCCAGAACC
196 GAAGAACCATGACCTGCAGCAACACTGTGACTCGTAGAACCAGAATGTGAAGACGAGCCAGAACC
*
3927823 CTTAGAATCTCTAGAACCTGATGAAGAACCAGAACTTGAAGAG
261 CTTAGAATCGCTAGAACCTGATGAAGAACCAGAACTTGAAGAG
*
3927866 GAACTTGAAGCCCCAGAACCTGATGAAGAGTGATAAGTCGTAGCAGAACCAGAATCCTTAGATTT
1 GAACTTGAAGCCCCAGAACCTGATGAAGAGTGAGAAGTCGTAGCAGAACCAGAATCCTTAGATTT
*
3927931 GTTCGAATCTACGAAGGAGCCAGAACCTTTAGAAGTAGAATGTGAAAATGAACCGG
66 GTTCGAATCTACGAAAGAGCCAGAACCTTTAGAAGTAGAATGTGAAAATGAACCGG
3927987 CAGCTGCACT
Statistics
Matches: 695, Mismatches: 8, Indels: 24
0.96 0.01 0.03
Matches are distributed among these distances:
291 285 0.41
292 2 0.00
296 1 0.00
298 1 0.00
302 2 0.00
303 404 0.58
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.19
Consensus pattern (303 bp):
GAACTTGAAGCCCCAGAACCTGATGAAGAGTGAGAAGTCGTAGCAGAACCAGAATCCTTAGATTT
GTTCGAATCTACGAAAGAGCCAGAACCTTTAGAAGTAGAATGTGAAAATGAACCGGAATGTGAGG
ATGATCCAGCAGCTGCACTTGAATGTGAGGATGATCCAGAAGCTGCACTTGAATGTGAGAAAGAT
GAAGAACCATGACCTGCAGCAACACTGTGACTCGTAGAACCAGAATGTGAAGACGAGCCAGAACC
CTTAGAATCGCTAGAACCTGATGAAGAACCAGAACTTGAAGAG
Found at i:3927428 original size:30 final size:30
Alignment explanation
Indices: 3927392--3927460 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
3927382 AAATGAACCG
*
3927392 GAATGTGAGGATGATCCAGCAGCTGCACTT
1 GAATGTGAGGATGATCCAGAAGCTGCACTT
3927422 GAATGTGAGGATGATCCAGAAGCTGCACTT
1 GAATGTGAGGATGATCCAGAAGCTGCACTT
3927452 GAATGTGAG
1 GAATGTGAG
3927461 AAAGATGAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.29, C:0.16, G:0.32, T:0.23
Consensus pattern (30 bp):
GAATGTGAGGATGATCCAGAAGCTGCACTT
Found at i:3927719 original size:30 final size:30
Alignment explanation
Indices: 3927683--3927751 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
3927673 AAATGAACCG
*
3927683 GAATGTGAGGATGATCCAGCAGCTGCACTT
1 GAATGTGAGGATGATCCAGAAGCTGCACTT
3927713 GAATGTGAGGATGATCCAGAAGCTGCACTT
1 GAATGTGAGGATGATCCAGAAGCTGCACTT
3927743 GAATGTGAG
1 GAATGTGAG
3927752 AAAGATGAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.29, C:0.16, G:0.32, T:0.23
Consensus pattern (30 bp):
GAATGTGAGGATGATCCAGAAGCTGCACTT
Found at i:3927820 original size:594 final size:592
Alignment explanation
Indices: 3926828--3928878 Score: 3606
Period size: 594 Copynumber: 3.5 Consensus size: 592
3926818 AAATGAAGTG
3926828 GAATGTGAGGATGATCCAGAAGCTGCACTTGAATGTGAGAAAGATGAAGAACCATGACCTGCAGC
1 GAATGTGAGGATGATCCAGAAGCTGCACTTGAATGTGAGAAAGATGAAGAACCATGACCTGCAGC
3926893 AACACTGTGACTCGTAGAACCAGAATGTGAAGACGAGCCAGAACCCTTAGAATCGCTAGAACCTG
66 AACACTGTGACTCGTAGAACCAGAATGTGAAGACGAGCCAGAACCCTTAGAATCGCTAGAACCTG
3926958 ATGAAGAACCAGAACTTGAAGCCCCAGAACCTGATGAAGAGTGAGAAGTCGTAGCAGAACCAGAA
131 ATGAAGAACCAGAACTTGAAGCCCCAGAACCTGATGAAGAGTGAGAAGTCGTAGCAGAACCAGAA
3927023 TCCTTAGATTTGTTCGAATCTACGAAAGAGCCAGAACCTTTAGAAGTAGAATGTGAAAATGAACC
196 TCCTTAGATTTGTTCGAATCTACGAAAGAGCCAGAACCTTTAGAAGTAGAATGTGAAAATGAACC
*
3927088 GGAATGTGAGGATGATCCAGCAGCTGCACTTGAATGTGAGGATGAACCAGAAGCTGCACTTGAAT
261 GGAATGTGAGGATGATCCAGCAGCTGCACTTGAATGTGAGGATGATCCAGAAGCTGCACTTGAAT
3927153 GTGAGAAAGATGAAGAACCATGACCTGCAGCAACACTGTGACTCGTAGAACCAGAATGTGAAGAC
326 GTGAGAAAGATGAAGAACCATGACCTGCAGCAACACTGTGACTCGTAGAACCAGAATGTGAAGAC
3927218 GAGCCAGAACCCTTAGAATCGCTAGAACCTGATGAAGAACCAGAACTTGAAGAGGAACTTGAAGC
391 GAGCCAGAACCCTTAGAATCGCTAGAACCTGATGAAGAACCAGAACTTGAAGAGGAACTTGAAGC
3927283 CCCAGAACCTGATGAAGAGTGAGCAGTCGTAGCAGAACCAGAATCCTTAGATTTGTTCGAATCTA
456 CCCAGAACCTGATGAAGAGTGA--AGTCGTAGCAGAACCAGAATCCTTAGATTTGTTCGAATCTA
3927348 CGAAAGAGCCAGAACCTTTAGAAGTAGAATGTGAAAATGAACCGGAATGTGAGGATGATCCAGCA
519 CGAAAGAGCCAGAACCTTTAGAAGTAGAATGTGAAAATGAACCGGAATGTGAGGATGATCCAGCA
3927413 GCTGCACTT
584 GCTGCACTT
3927422 GAATGTGAGGATGATCCAGAAGCTGCACTTGAATGTGAGAAAGATGAAGAACCATGACCTGCAGC
1 GAATGTGAGGATGATCCAGAAGCTGCACTTGAATGTGAGAAAGATGAAGAACCATGACCTGCAGC
3927487 AACACTGTGACTCGTAGAACCAGAATGTGAAGACGAGCCAGAACCCTTAGAATCGCTAGAACCTG
66 AACACTGTGACTCGTAGAACCAGAATGTGAAGACGAGCCAGAACCCTTAGAATCGCTAGAACCTG
3927552 ATGAAGAACCAGAACTTGAAGCCCCAGAACCTGATGAAGAGTGAGAAGTCGTAGCAGAACCAGAA
131 ATGAAGAACCAGAACTTGAAGCCCCAGAACCTGATGAAGAGTGAGAAGTCGTAGCAGAACCAGAA
*
3927617 TCCTTAGATTTGTTCGAATCTACGAAAGTGCCAGAACCTTTAGAAGTAGAATGTGAAAATGAACC
196 TCCTTAGATTTGTTCGAATCTACGAAAGAGCCAGAACCTTTAGAAGTAGAATGTGAAAATGAACC
3927682 GGAATGTGAGGATGATCCAGCAGCTGCACTTGAATGTGAGGATGATCCAGAAGCTGCACTTGAAT
261 GGAATGTGAGGATGATCCAGCAGCTGCACTTGAATGTGAGGATGATCCAGAAGCTGCACTTGAAT
3927747 GTGAGAAAGATGAAGAACCATGACCTGCAGCAACACTGTGACTCGTAGAACCAGAATGTGAAGAC
326 GTGAGAAAGATGAAGAACCATGACCTGCAGCAACACTGTGACTCGTAGAACCAGAATGTGAAGAC
*
3927812 GAGCCAGAACCCTTAGAATCTCTAGAACCTGATGAAGAACCAGAACTTGAAGAGGAACTTGAAGC
391 GAGCCAGAACCCTTAGAATCGCTAGAACCTGATGAAGAACCAGAACTTGAAGAGGAACTTGAAGC
3927877 CCCAGAACCTGATGAAGAGTGATAAGTCGTAGCAGAACCAGAATCCTTAGATTTGTTCGAATCTA
456 CCCAGAACCTGATGAAGAGTG--AAGTCGTAGCAGAACCAGAATCCTTAGATTTGTTCGAATCTA
*
3927942 CGAAGGAGCCAGAACCTTTAGAAGTAGAATGTGAAAATGAACC-------------G-----GCA
519 CGAAAGAGCCAGAACCTTTAGAAGTAGAATGTGAAAATGAACCGGAATGTGAGGATGATCCAGCA
3927989 GCTGCACTT
584 GCTGCACTT
3927998 GAATGTGAGGATGATCCAGAAGCTGCACTTGAATGTGAGAAAGATGAAGAACCATGACCTGCAGC
1 GAATGTGAGGATGATCCAGAAGCTGCACTTGAATGTGAGAAAGATGAAGAACCATGACCTGCAGC
3928063 AACACTGTGACTCGTAGAACCAGAATGTGAAGACGAGCCAGAACCCTTAGAATCGCTAGAACCTG
66 AACACTGTGACTCGTAGAACCAGAATGTGAAGACGAGCCAGAACCCTTAGAATCGCTAGAACCTG
*
3928128 ATGAAGAACCAGAACTTGAAGCCCCAGAACCTGATGAAGAGTGATAAGTCGTAGCAGAACCAGAA
131 ATGAAGAACCAGAACTTGAAGCCCCAGAACCTGATGAAGAGTGAGAAGTCGTAGCAGAACCAGAA
3928193 TCCTTAGATTTGTTCGAATCTACGAAAGAGCCAGAACCTTTAGAAGTAGAATGTGAAAATGAACC
196 TCCTTAGATTTGTTCGAATCTACGAAAGAGCCAGAACCTTTAGAAGTAGAATGTGAAAATGAACC
3928258 GGAATGTGAGGATGATCCAGCAGCTGCACTTGAATGTGAGGATGATCCAGAAGCTGCACTTGAAT
261 GGAATGTGAGGATGATCCAGCAGCTGCACTTGAATGTGAGGATGATCCAGAAGCTGCACTTGAAT
3928323 GTGAGAAAGATGAAGAACCATGACCTGCAGCAACACTGTGACTCGTAGAACCAGAATGTGAAGAC
326 GTGAGAAAGATGAAGAACCATGACCTGCAGCAACACTGTGACTCGTAGAACCAGAATGTGAAGAC
3928388 GAGCCAGAACCCTTAGAATCGCTAGAACCTGATGAAGAACCAGAACTTGAAGAGGAACTTGAAG-
391 GAGCCAGAACCCTTAGAATCGCTAGAACCTGATGAAGAACCAGAACTTGAAGAGGAACTTGAAGC
*
3928452 --CAG----TG-T---GA-T-AAGTCGTAGCAGAACCAGAATCCTTAGATTTGCTCGAATCTACG
456 CCCAGAACCTGATGAAGAGTGAAGTCGTAGCAGAACCAGAATCCTTAGATTTGTTCGAATCTACG
*
3928505 AAAGTGCCAGAACCTTTAGAAGTAGAATGTGAAAATGAACCGGAATGTGAGGATGATCCAGCAGC
521 AAAGAGCCAGAACCTTTAGAAGTAGAATGTGAAAATGAACCGGAATGTGAGGATGATCCAGCAGC
3928570 TGCACTT
586 TGCACTT
3928577 GAATGTGAGGATGATCCAGAAGCTGCACTTGAATGTGAGAAAGATGAAGAACCATGACCTGCAGC
1 GAATGTGAGGATGATCCAGAAGCTGCACTTGAATGTGAGAAAGATGAAGAACCATGACCTGCAGC
*
3928642 AACACTGTGACTCGTAGAACCAGAATGTGAAGACAAGCCAGAACCCTTAGAATCGCTAGAACCTG
66 AACACTGTGACTCGTAGAACCAGAATGTGAAGACGAGCCAGAACCCTTAGAATCGCTAGAACCTG
* * *
3928707 ATGAAGAACCAGAACTTGAAGCCCCAGAACCTGATGAAGAGTGATAAGTCGTAGCAGAACTAGAT
131 ATGAAGAACCAGAACTTGAAGCCCCAGAACCTGATGAAGAGTGAGAAGTCGTAGCAGAACCAGAA
* * ** * * *
3928772 TCCTTAGACTTGTTAGAATCTGTGGAAGAGCCAGAACCCTTAGAAGAAGCGGAATGTGAAAATGA
196 TCCTTAGATTTGTTCGAATCTACGAAAGAGCCAGAACCTTTAGAAGTA---GAATGTGAAAATGA
** * * * *
3928837 ATTGGAATGTGAGGATGGTCCTGAAGCTGAACTTGAATGTGA
258 ACCGGAATGTGAGGATGATCCAGCAGCTGCACTTGAATGTGA
3928879 TGAAGATGAA
Statistics
Matches: 1408, Mismatches: 26, Indels: 58
0.94 0.02 0.04
Matches are distributed among these distances:
561 82 0.06
564 1 0.00
565 2 0.00
568 1 0.00
569 2 0.00
573 3 0.00
574 1 0.00
576 463 0.33
579 245 0.17
581 1 0.00
582 50 0.04
594 556 0.39
596 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.19
Consensus pattern (592 bp):
GAATGTGAGGATGATCCAGAAGCTGCACTTGAATGTGAGAAAGATGAAGAACCATGACCTGCAGC
AACACTGTGACTCGTAGAACCAGAATGTGAAGACGAGCCAGAACCCTTAGAATCGCTAGAACCTG
ATGAAGAACCAGAACTTGAAGCCCCAGAACCTGATGAAGAGTGAGAAGTCGTAGCAGAACCAGAA
TCCTTAGATTTGTTCGAATCTACGAAAGAGCCAGAACCTTTAGAAGTAGAATGTGAAAATGAACC
GGAATGTGAGGATGATCCAGCAGCTGCACTTGAATGTGAGGATGATCCAGAAGCTGCACTTGAAT
GTGAGAAAGATGAAGAACCATGACCTGCAGCAACACTGTGACTCGTAGAACCAGAATGTGAAGAC
GAGCCAGAACCCTTAGAATCGCTAGAACCTGATGAAGAACCAGAACTTGAAGAGGAACTTGAAGC
CCCAGAACCTGATGAAGAGTGAAGTCGTAGCAGAACCAGAATCCTTAGATTTGTTCGAATCTACG
AAAGAGCCAGAACCTTTAGAAGTAGAATGTGAAAATGAACCGGAATGTGAGGATGATCCAGCAGC
TGCACTT
Found at i:3928002 original size:30 final size:30
Alignment explanation
Indices: 3927968--3928035 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 30
3927958 TTTAGAAGTA
* *
3927968 GAATGTGAAAATGAACCGGCAGCTGCACTT
1 GAATGTGAAAATGAACCAGAAGCTGCACTT
** *
3927998 GAATGTGAGGATGATCCAGAAGCTGCACTT
1 GAATGTGAAAATGAACCAGAAGCTGCACTT
3928028 GAATGTGA
1 GAATGTGA
3928036 GAAAGATGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.22
Consensus pattern (30 bp):
GAATGTGAAAATGAACCAGAAGCTGCACTT
Found at i:3928295 original size:30 final size:30
Alignment explanation
Indices: 3928259--3928327 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
3928249 AAATGAACCG
*
3928259 GAATGTGAGGATGATCCAGCAGCTGCACTT
1 GAATGTGAGGATGATCCAGAAGCTGCACTT
3928289 GAATGTGAGGATGATCCAGAAGCTGCACTT
1 GAATGTGAGGATGATCCAGAAGCTGCACTT
3928319 GAATGTGAG
1 GAATGTGAG
3928328 AAAGATGAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.29, C:0.16, G:0.32, T:0.23
Consensus pattern (30 bp):
GAATGTGAGGATGATCCAGAAGCTGCACTT
Found at i:3928583 original size:30 final size:30
Alignment explanation
Indices: 3928547--3928615 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
3928537 AAATGAACCG
*
3928547 GAATGTGAGGATGATCCAGCAGCTGCACTT
1 GAATGTGAGGATGATCCAGAAGCTGCACTT
3928577 GAATGTGAGGATGATCCAGAAGCTGCACTT
1 GAATGTGAGGATGATCCAGAAGCTGCACTT
3928607 GAATGTGAG
1 GAATGTGAG
3928616 AAAGATGAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.29, C:0.16, G:0.32, T:0.23
Consensus pattern (30 bp):
GAATGTGAGGATGATCCAGAAGCTGCACTT
Found at i:3928620 original size:288 final size:288
Alignment explanation
Indices: 3927968--3928878 Score: 1491
Period size: 288 Copynumber: 3.1 Consensus size: 288
3927958 TTTAGAAGTA
** * *
3927968 GAATGTGAAAATGAACCGGCAGCTGCACTTGAATGTGAGGATGATCCAGAAGCTGCACTTGAATG
1 GAATGTGAGGATGATCCAGCAGCTGCACTTGAATGTGAGGATGATCCAGAAGCTGCACTTGAATG
3928033 TGAGAAAGATGAAGAACCATGACCTGCAGCAACACTGTGACTCGTAGAACCAGAATGTGAAGACG
66 TGAGAAAGATGAAGAACCATGACCTGCAGCAACACTGTGACTCGTAGAACCAGAATGTGAAGACG
3928098 AGCCAGAACCCTTAGAATCGCTAGAACCTGATGAAGAACCAGAACTTGAAGCCCCAGAACCTGAT
131 AGCCAGAACCCTTAGAATCGCTAGAACCTGATGAAGAACCAGAACTTGAAG---CAGAACCTGAT
3928163 GAAGAGTGATAAGTCGTAGCAGAACCAGAATCCTTAGATTTGTTCGAATCTACGAAAGAGCCAGA
193 GAAGAGTGATAAGTCGTAGCAGAACCAGAATCCTTAGATTTGTTCGAATCTACGAAAGAGCCAGA
3928228 ACCTTTAGAAGTAGAATGTGAAAATGAACCG
258 ACCTTTAGAAGTAGAATGTGAAAATGAACCG
3928259 GAATGTGAGGATGATCCAGCAGCTGCACTTGAATGTGAGGATGATCCAGAAGCTGCACTTGAATG
1 GAATGTGAGGATGATCCAGCAGCTGCACTTGAATGTGAGGATGATCCAGAAGCTGCACTTGAATG
3928324 TGAGAAAGATGAAGAACCATGACCTGCAGCAACACTGTGACTCGTAGAACCAGAATGTGAAGACG
66 TGAGAAAGATGAAGAACCATGACCTGCAGCAACACTGTGACTCGTAGAACCAGAATGTGAAGACG
* * *
3928389 AGCCAGAACCCTTAGAATCGCTAGAACCTGATGAAGAACCAGAACTTGAAG-AGGAACTTGAAGC
131 AGCCAGAACCCTTAGAATCGCTAGAACCTGATGAAGAACCAGAACTTGAAGCA-GAACCTGATGA
* * *
3928453 AGTGTGATAAGTCGTAGCAGAACCAGAATCCTTAGATTTGCTCGAATCTACGAAAGTGCCAGAAC
195 AGAGTGATAAGTCGTAGCAGAACCAGAATCCTTAGATTTGTTCGAATCTACGAAAGAGCCAGAAC
3928518 CTTTAGAAGTAGAATGTGAAAATGAACCG
260 CTTTAGAAGTAGAATGTGAAAATGAACCG
3928547 GAATGTGAGGATGATCCAGCAGCTGCACTTGAATGTGAGGATGATCCAGAAGCTGCACTTGAATG
1 GAATGTGAGGATGATCCAGCAGCTGCACTTGAATGTGAGGATGATCCAGAAGCTGCACTTGAATG
*
3928612 TGAGAAAGATGAAGAACCATGACCTGCAGCAACACTGTGACTCGTAGAACCAGAATGTGAAGACA
66 TGAGAAAGATGAAGAACCATGACCTGCAGCAACACTGTGACTCGTAGAACCAGAATGTGAAGACG
3928677 AGCCAGAACCCTTAGAATCGCTAGAACCTGATGAAGAACCAGAACTTGAAGCCCCAGAACCTGAT
131 AGCCAGAACCCTTAGAATCGCTAGAACCTGATGAAGAACCAGAACTTGAAG---CAGAACCTGAT
* * * * ** *
3928742 GAAGAGTGATAAGTCGTAGCAGAACTAGATTCCTTAGACTTGTTAGAATCTGTGGAAGAGCCAGA
193 GAAGAGTGATAAGTCGTAGCAGAACCAGAATCCTTAGATTTGTTCGAATCTACGAAAGAGCCAGA
* * **
3928807 ACCCTTAGAAGAAGCGGAATGTGAAAATGAATTG
258 ACCTTTAGAAGTA---GAATGTGAAAATGAACCG
* * * *
3928841 GAATGTGAGGATGGTCCTGAAGCTGAACTTGAATGTGA
1 GAATGTGAGGATGATCCAGCAGCTGCACTTGAATGTGA
3928879 TGAAGATGAA
Statistics
Matches: 580, Mismatches: 32, Indels: 13
0.93 0.05 0.02
Matches are distributed among these distances:
287 1 0.00
288 279 0.48
291 249 0.43
292 1 0.00
294 50 0.09
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.20
Consensus pattern (288 bp):
GAATGTGAGGATGATCCAGCAGCTGCACTTGAATGTGAGGATGATCCAGAAGCTGCACTTGAATG
TGAGAAAGATGAAGAACCATGACCTGCAGCAACACTGTGACTCGTAGAACCAGAATGTGAAGACG
AGCCAGAACCCTTAGAATCGCTAGAACCTGATGAAGAACCAGAACTTGAAGCAGAACCTGATGAA
GAGTGATAAGTCGTAGCAGAACCAGAATCCTTAGATTTGTTCGAATCTACGAAAGAGCCAGAACC
TTTAGAAGTAGAATGTGAAAATGAACCG
Found at i:3929872 original size:195 final size:195
Alignment explanation
Indices: 3929522--3929874 Score: 491
Period size: 195 Copynumber: 1.8 Consensus size: 195
3929512 AACGTCCGTT
* * *
3929522 GTAGTTCCAGAACCTTTAATAGAACCAGAGTGATTAAAAGAAGCAGAATGTGAAGCTGAACCGGA
1 GTAGTACCAGAACCTTTAATAGAACCAGAATGATGAAAAGAAGCAGAATGTGAAGCTGAACCGGA
* **
3929587 ATGCAAGGATGAGCTAGAAGCTGAACTCGAATGTGAGAAAGATGAAGAGCCTTGACCCGTAATGC
66 ATGCAAGGATGAGCTAGAAGCTGAACTCGAATGTGAGAAAGATGAAGAGCCTTGACCCATAACAC
**
3929652 CACCTTGATTTGCTGAACTAGATTGTGATGATTCACCAGAACCTTTAGAATCATTAGAATTTGCA
131 CACCTTGATTTGAAGAACTAGATTGTGATGATTCACCAGAACCTTTAGAATCATTAGAATTTGCA
* *
3929717 GTAGTACCAGAA-CTTTCAATAGAACCAGAATGATGAAAAGAAGCGGAATGTGAAGCTGAACTGG
1 GTAGTACCAGAACCTTT-AATAGAACCAGAATGATGAAAAGAAGCAGAATGTGAAGCTGAACCGG
* * *
3929781 AATGCGAGGATGCGCTAGAAGCTGAAC-CTGCATGTGAGAAAGAT-ACAGAG-CTATGACCCATA
65 AATGCAAGGATGAGCTAGAAGCTGAACTC-GAATGTGAGAAAGATGA-AGAGCCT-TGACCCATA
* *
3929843 GCACCTCCTTGATTTGAAGAA-TCAGATTGTGA
127 ACACCACCTTGATTTGAAGAACT-AGATTGTGA
3929875 GGAATTGTCA
Statistics
Matches: 138, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
194 9 0.07
195 129 0.93
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.23
Consensus pattern (195 bp):
GTAGTACCAGAACCTTTAATAGAACCAGAATGATGAAAAGAAGCAGAATGTGAAGCTGAACCGGA
ATGCAAGGATGAGCTAGAAGCTGAACTCGAATGTGAGAAAGATGAAGAGCCTTGACCCATAACAC
CACCTTGATTTGAAGAACTAGATTGTGATGATTCACCAGAACCTTTAGAATCATTAGAATTTGCA
Found at i:3929923 original size:195 final size:194
Alignment explanation
Indices: 3929528--3929926 Score: 441
Period size: 195 Copynumber: 2.0 Consensus size: 194
3929518 CGTTGTAGTT
* *
3929528 CCAGAACCTTTAATAGAACCAGAGTGATTAAAAGAAGCAGAATGTGAAGCTGAACCGGAATGCAA
1 CCAGAA-CTTTAATAGAACCAGAATGATGAAAAGAAGCAGAATGTGAAGCTGAACCGGAATGCAA
* **
3929593 GGATGAGCTAGAAGCTGAACTCGAATGTGAGAAAGATGAAGAGCCTTGACCCGTAATGCCACCTT
65 GGATGAGCTAGAAGCTGAACTCGAATGTGAGAAAGATGAAGAGCCTTGACCCATAACACCACCTT
** * * * ** ** * *
3929658 GATTTGCTGAACTAGATTGTGATGATTCACCAGAACCTTTAGAATCATTAGAATTTGCAGTAGTA
130 GATTTGAAGAACTAGATTGTGAGGATTCACCAGAACCCTTAGAAACACCAGAACCTGCAGAAGAA
* * *
3929723 CCAGAACTTTCAATAGAACCAGAATGATGAAAAGAAGCGGAATGTGAAGCTGAACTGGAATGCGA
1 CCAGAACTTT-AATAGAACCAGAATGATGAAAAGAAGCAGAATGTGAAGCTGAACCGGAATGCAA
* * * *
3929788 GGATGCGCTAGAAGCTGAAC-CTGCATGTGAGAAAGAT-ACAGAG-CTATGACCCATAGCACCTC
65 GGATGAGCTAGAAGCTGAACTC-GAATGTGAGAAAGATGA-AGAGCCT-TGACCCATAACACCAC
** * *
3929850 CTTGATTTGAAGAA-TCAGATTGTGAGGAATT-GTCAGAACCCTTAGAAACCCCATAACCTG-AT
127 CTTGATTTGAAGAACT-AGATTGTGAGG-ATTCACCAGAACCCTTAGAAACACCAGAACCTGCA-
3929912 GAAGAA
189 GAAGAA
3929918 CCAGAACTT
1 CCAGAACTT
3929927 GTAGAGGAAC
Statistics
Matches: 170, Mismatches: 27, Indels: 14
0.81 0.13 0.07
Matches are distributed among these distances:
194 10 0.06
195 157 0.92
196 3 0.02
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (194 bp):
CCAGAACTTTAATAGAACCAGAATGATGAAAAGAAGCAGAATGTGAAGCTGAACCGGAATGCAAG
GATGAGCTAGAAGCTGAACTCGAATGTGAGAAAGATGAAGAGCCTTGACCCATAACACCACCTTG
ATTTGAAGAACTAGATTGTGAGGATTCACCAGAACCCTTAGAAACACCAGAACCTGCAGAAGAA
Found at i:3930118 original size:489 final size:489
Alignment explanation
Indices: 3929200--3931490 Score: 4127
Period size: 489 Copynumber: 4.7 Consensus size: 489
3929190 TTGTTGAACT
* * *
3929200 AGAACCTTTAAAATCATTAGAATTTGCAGTAGTGCCAGAACCTTCAATAGAACCAGAATGATGAA
1 AGAACCTTTAGAATCATTAGAATTTGCAGTAGTACCAGAACTTTCAATAGAACCAGAATGATGAA
* *
3929265 AAGAAGCTGAATGTGAAGCTGAACTGGAATGTGAGGATGCGCTAGAAGCTGAACCTGCATGTGAG
66 AAGAAGCGGAATGTGAAGCTGAACTGGAATGCGAGGATGCGCTAGAAGCTGAACCTGCATGTGAG
*
3929330 AAAGATGCAGAGCTATGACCCATAGCACCTCCTTGATTTGAAGAATCAGATTGTGAGGAATTGTT
131 AAAGATGCAGAGCTATGACCCATAGCACCTCCTTGATTTGAAGAATCAGATTGTGAGGAATTGTC
* *
3929395 AGAACTCTTAGAAACCCCATTACCTGATGAAGAACCAGAACTTGTAGAGGAACCGGAAGCCCCGG
196 AGAACCCTTAGAAACCCCATAACCTGATGAAGAACCAGAACTTGTAGAGGAACCGGAAGCCCCGG
* *
3929460 AACCTGATGAAGAGTTAGAAGTCACAGCAGAACCGGAACCTTTAGAGTCATCAACGTCCGTTGTA
261 AACCTGATGAAGAGTTAGAAGTCACAGTAGAACCGGAACCTTTAGAGTCATCAACATCCGTTGTA
3929525 GTTCCAGAACCTTTAATAGAACCAGAGTGATTAAAAGAAGCAGAATGTGAAGCTGAACCGGAATG
326 GTTCCAGAACCTTTAATAGAACCAGAGTGATTAAAAGAAGCAGAATGTGAAGCTGAACCGGAATG
* * *
3929590 CAAGGATGAGCTAGAAGCTGAACTCGAATGTGAGAAAGATGAAGAGCCTTGACCCGTAATGCCAC
391 CAAGGATGAGCTAGAAGCTGAACTTGAATGTGAGAAAGATGAAGAGCCATGACCCGTAATACCAC
3929655 CTTGATTTGCTGAACTAGATTGTGATGATTCACC
456 CTTGATTTGCTGAACTAGATTGTGATGATTCACC
3929689 AGAACCTTTAGAATCATTAGAATTTGCAGTAGTACCAGAACTTTCAATAGAACCAGAATGATGAA
1 AGAACCTTTAGAATCATTAGAATTTGCAGTAGTACCAGAACTTTCAATAGAACCAGAATGATGAA
3929754 AAGAAGCGGAATGTGAAGCTGAACTGGAATGCGAGGATGCGCTAGAAGCTGAACCTGCATGTGAG
66 AAGAAGCGGAATGTGAAGCTGAACTGGAATGCGAGGATGCGCTAGAAGCTGAACCTGCATGTGAG
*
3929819 AAAGATACAGAGCTATGACCCATAGCACCTCCTTGATTTGAAGAATCAGATTGTGAGGAATTGTC
131 AAAGATGCAGAGCTATGACCCATAGCACCTCCTTGATTTGAAGAATCAGATTGTGAGGAATTGTC
*
3929884 AGAACCCTTAGAAACCCCATAACCTGATGAAGAACCAGAACTTGTAGAGGAACCGGAAGTCCCGG
196 AGAACCCTTAGAAACCCCATAACCTGATGAAGAACCAGAACTTGTAGAGGAACCGGAAGCCCCGG
3929949 AACCTGATGAAGAGTTAGAAGTCACAGTAGAACCGGAACCTTTAGAGTCATCAACATCCGTTGTA
261 AACCTGATGAAGAGTTAGAAGTCACAGTAGAACCGGAACCTTTAGAGTCATCAACATCCGTTGTA
3930014 GTTCCAGAACCTTTAATAGAACCAGAGTGATTAAAAGAAGCAGAATGTGAAGCTGAACCGGAATG
326 GTTCCAGAACCTTTAATAGAACCAGAGTGATTAAAAGAAGCAGAATGTGAAGCTGAACCGGAATG
* *
3930079 CAAGGATGAGCTAGAAGCTGAACTTGAATGTGAGAAAGATGAAGAGCCTTGACCCGTAATGCCAC
391 CAAGGATGAGCTAGAAGCTGAACTTGAATGTGAGAAAGATGAAGAGCCATGACCCGTAATACCAC
3930144 CTTGATTTGCTGAACTAGATTGTGATGATTCACC
456 CTTGATTTGCTGAACTAGATTGTGATGATTCACC
3930178 AGAACCTTTAGAATCATTAGAATTTGCAGTAGTACCAGAACTTTCAATAGAACCAGAATGATGAA
1 AGAACCTTTAGAATCATTAGAATTTGCAGTAGTACCAGAACTTTCAATAGAACCAGAATGATGAA
3930243 AAGAAGCGGAATGTGAAGCTGAACTGGAATGCGAGGATGCGCTAGAAGCTGAACCTGCATGTGAG
66 AAGAAGCGGAATGTGAAGCTGAACTGGAATGCGAGGATGCGCTAGAAGCTGAACCTGCATGTGAG
*
3930308 AAAGATACAGAGCTATGACCCATAGCACCTCCTTGATTTGAAGAATCAGATTGTGAGGAATTGTC
131 AAAGATGCAGAGCTATGACCCATAGCACCTCCTTGATTTGAAGAATCAGATTGTGAGGAATTGTC
* *
3930373 AGAACCCTTAGAAACCCCATAACCTGGTGAAGAACCCGAACTTGTAGAGGAACCGGAAGCCCCGG
196 AGAACCCTTAGAAACCCCATAACCTGATGAAGAACCAGAACTTGTAGAGGAACCGGAAGCCCCGG
*
3930438 AACCTGATGAAGAGTTAGAAGTCACAGTAGAACCGGAACCTTTAGAGTTATCAACATCCGTTGTA
261 AACCTGATGAAGAGTTAGAAGTCACAGTAGAACCGGAACCTTTAGAGTCATCAACATCCGTTGTA
*
3930503 GTTCCAGAACCTTTAATAGAACCAGAGTGATTAAAAGAAGCAGAATGTGAATCTGAACCGGAATG
326 GTTCCAGAACCTTTAATAGAACCAGAGTGATTAAAAGAAGCAGAATGTGAAGCTGAACCGGAATG
*
3930568 CAAGGATGTGCTAGAAGCTGAACTTGAATGTGAGAAAGATGAAGAGCCATGACCCGTAATACCAC
391 CAAGGATGAGCTAGAAGCTGAACTTGAATGTGAGAAAGATGAAGAGCCATGACCCGTAATACCAC
*
3930633 CTTGATTTGCTGAACTAAATTGTGATGATTCACC
456 CTTGATTTGCTGAACTAGATTGTGATGATTCACC
* *
3930667 AGAACCTTTAGAATCATTAGAATTTGCAGTAGTACCATAACTTTCAATAGAACCAGAGTGATGAA
1 AGAACCTTTAGAATCATTAGAATTTGCAGTAGTACCAGAACTTTCAATAGAACCAGAATGATGAA
* *
3930732 AAGAAGCGGAATGTGAAGCTGAACTGGAATGGGAGGATGCGCTAGAAGCTGAACCTGCATGGGAG
66 AAGAAGCGGAATGTGAAGCTGAACTGGAATGCGAGGATGCGCTAGAAGCTGAACCTGCATGTGAG
* *
3930797 AAAGATGCAGAGCTATGACCCATAGCACCACCTTGATTTGAAGAATCGGATTGTGAGGAATTGTC
131 AAAGATGCAGAGCTATGACCCATAGCACCTCCTTGATTTGAAGAATCAGATTGTGAGGAATTGTC
*
3930862 AGAACCCTTAGAAACCCCATAACCTGATGAAGAACCAGAACTTGTAGTGGAACCGGAAGCCCCGG
196 AGAACCCTTAGAAACCCCATAACCTGATGAAGAACCAGAACTTGTAGAGGAACCGGAAGCCCCGG
** * * * *
3930927 AACCTGATGAAGAGTTAGAAGTTGCAGTAGAGCCTGAACCTTTAGAATCATCAACATTCGTTGTA
261 AACCTGATGAAGAGTTAGAAGTCACAGTAGAACCGGAACCTTTAGAGTCATCAACATCCGTTGTA
3930992 GTTCCAGAACCTTTAATAGAACCAGAGTGATT-AAAGAAGCAGAATGTGAAGCTGAACCGGAATG
326 GTTCCAGAACCTTTAATAGAACCAGAGTGATTAAAAGAAGCAGAATGTGAAGCTGAACCGGAATG
*
3931056 TAAGGATGAGCTAGAAGCTGAACTTGAATGTGAGAAAGATGAAGAGCCATGACCCGTAATACCAC
391 CAAGGATGAGCTAGAAGCTGAACTTGAATGTGAGAAAGATGAAGAGCCATGACCCGTAATACCAC
3931121 CTTGATTTGCTGAACTAGATAT-TGATGATTCACC
456 CTTGATTTGCTGAACTAGAT-TGTGATGATTCACC
*
3931155 AGAACCTTTAGAATCATTAGAATTTGCAGTAGTACCAGAACTTTCAGTAGAACCAGAATGATGAA
1 AGAACCTTTAGAATCATTAGAATTTGCAGTAGTACCAGAACTTTCAATAGAACCAGAATGATGAA
* *
3931220 AAGAAGCGGAATGTGAAGCTGAACTGGAATGTGAGGATGAGCTAGAAGCTGAACCTGCATGTGAG
66 AAGAAGCGGAATGTGAAGCTGAACTGGAATGCGAGGATGCGCTAGAAGCTGAACCTGCATGTGAG
* * * *
3931285 AAAGATGCAGAGCTATGACCCATAACACCACCTTGATTTGAAGAATCGGATTGTGAGGAGTTGTC
131 AAAGATGCAGAGCTATGACCCATAGCACCTCCTTGATTTGAAGAATCAGATTGTGAGGAATTGTC
* *
3931350 AGAACCCTTAAAAACCCCATAACCTGATGAAGAACCAGAACTTGTAGTGGAACCGGAAGCCCCGG
196 AGAACCCTTAGAAACCCCATAACCTGATGAAGAACCAGAACTTGTAGAGGAACCGGAAGCCCCGG
*
3931415 AACCTGATGAAGAGTTAGAAGTCACAGTAGAACCGGAACCTTTAGAGTTATCAACATCCGTTGTA
261 AACCTGATGAAGAGTTAGAAGTCACAGTAGAACCGGAACCTTTAGAGTCATCAACATCCGTTGTA
3931480 GTTCCAGAACC
326 GTTCCAGAACC
3931491 CTTAGAAATC
Statistics
Matches: 1742, Mismatches: 59, Indels: 3
0.97 0.03 0.00
Matches are distributed among these distances:
488 445 0.26
489 1297 0.74
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.22
Consensus pattern (489 bp):
AGAACCTTTAGAATCATTAGAATTTGCAGTAGTACCAGAACTTTCAATAGAACCAGAATGATGAA
AAGAAGCGGAATGTGAAGCTGAACTGGAATGCGAGGATGCGCTAGAAGCTGAACCTGCATGTGAG
AAAGATGCAGAGCTATGACCCATAGCACCTCCTTGATTTGAAGAATCAGATTGTGAGGAATTGTC
AGAACCCTTAGAAACCCCATAACCTGATGAAGAACCAGAACTTGTAGAGGAACCGGAAGCCCCGG
AACCTGATGAAGAGTTAGAAGTCACAGTAGAACCGGAACCTTTAGAGTCATCAACATCCGTTGTA
GTTCCAGAACCTTTAATAGAACCAGAGTGATTAAAAGAAGCAGAATGTGAAGCTGAACCGGAATG
CAAGGATGAGCTAGAAGCTGAACTTGAATGTGAGAAAGATGAAGAGCCATGACCCGTAATACCAC
CTTGATTTGCTGAACTAGATTGTGATGATTCACC
Found at i:3930361 original size:195 final size:195
Alignment explanation
Indices: 3930011--3930363 Score: 498
Period size: 195 Copynumber: 1.8 Consensus size: 195
3930001 AACATCCGTT
* * *
3930011 GTAGTTCCAGAACCTTTAATAGAACCAGAGTGATTAAAAGAAGCAGAATGTGAAGCTGAACCGGA
1 GTAGTACCAGAACCTTTAATAGAACCAGAATGATGAAAAGAAGCAGAATGTGAAGCTGAACCGGA
* * **
3930076 ATGCAAGGATGAGCTAGAAGCTGAACTTGAATGTGAGAAAGATGAAGAGCCTTGACCCGTAATGC
66 ATGCAAGGATGAGCTAGAAGCTGAACCTGAATGTGAGAAAGATGAAGAGCCTTGACCCATAACAC
**
3930141 CACCTTGATTTGCTGAACTAGATTGTGATGATTCACCAGAACCTTTAGAATCATTAGAATTTGCA
131 CACCTTGATTTGAAGAACTAGATTGTGATGATTCACCAGAACCTTTAGAATCATTAGAATTTGCA
* *
3930206 GTAGTACCAGAA-CTTTCAATAGAACCAGAATGATGAAAAGAAGCGGAATGTGAAGCTGAACTGG
1 GTAGTACCAGAACCTTT-AATAGAACCAGAATGATGAAAAGAAGCAGAATGTGAAGCTGAACCGG
* * * *
3930270 AATGCGAGGATGCGCTAGAAGCTGAACCTGCATGTGAGAAAGAT-ACAGAG-CTATGACCCATAG
65 AATGCAAGGATGAGCTAGAAGCTGAACCTGAATGTGAGAAAGATGA-AGAGCCT-TGACCCATAA
*
3930333 CACCTCCTTGATTTGAAGAA-TCAGATTGTGA
128 CACCACCTTGATTTGAAGAACT-AGATTGTGA
3930364 GGAATTGTCA
Statistics
Matches: 138, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
194 8 0.06
195 130 0.94
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.23
Consensus pattern (195 bp):
GTAGTACCAGAACCTTTAATAGAACCAGAATGATGAAAAGAAGCAGAATGTGAAGCTGAACCGGA
ATGCAAGGATGAGCTAGAAGCTGAACCTGAATGTGAGAAAGATGAAGAGCCTTGACCCATAACAC
CACCTTGATTTGAAGAACTAGATTGTGATGATTCACCAGAACCTTTAGAATCATTAGAATTTGCA
Found at i:3931194 original size:18 final size:17
Alignment explanation
Indices: 3931173--3931213 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
3931163 TAGAATCATT
*
3931173 AGAATTTGCAGTAGTACC
1 AGAATTT-CAGTAGAACC
3931191 AGAACTTTCAGTAGAACC
1 AGAA-TTTCAGTAGAACC
3931209 AGAAT
1 AGAAT
3931214 GATGAAAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 17 0.81
19 3 0.14
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (17 bp):
AGAATTTCAGTAGAACC
Found at i:3931305 original size:195 final size:194
Alignment explanation
Indices: 3930962--3931324 Score: 532
Period size: 195 Copynumber: 1.9 Consensus size: 194
3930952 AGTAGAGCCT
** * * *
3930962 GAACCTTTAGAATCATCAACATTCGTTGTAGTTCCAGAACCTTTAATAGAACCAGAGTGATTAAA
1 GAACCTTTAGAATCATCAACATTCGCAGTAGTACCAGAACCTTTAATAGAACCAGAATGATAAAA
*
3931027 GAAGCAGAATGTGAAGCTGAACCGGAATGTAAGGATGAGCTAGAAGCTGAACTTGAATGTGAGAA
66 GAAGCAGAATGTGAAGCTGAACCGGAATGTAAGGATGAGCTAGAAGCTGAACCTGAATGTGAGAA
* *
3931092 AGATGAAGAGCCATGACCCGTAATACCACCTTGATTTGCTGAACTAGATATTGATGATTCACCA
131 AGATGAAGAGCCATGACCCATAACACCACCTTGATTTGCTGAACTAGATATTGATGATTCACCA
* * *
3931156 GAACCTTTAGAATCATTAGA-ATTTGCAGTAGTACCAGAA-CTTTCAGTAGAACCAGAATGATGA
1 GAACCTTTAGAATCATCA-ACATTCGCAGTAGTACCAGAACCTTT-AATAGAACCAGAATGAT-A
* * * *
3931219 AAAGAAGCGGAATGTGAAGCTGAACTGGAATGTGAGGATGAGCTAGAAGCTGAACCTGCATGTGA
63 AAAGAAGCAGAATGTGAAGCTGAACCGGAATGTAAGGATGAGCTAGAAGCTGAACCTGAATGTGA
* *
3931284 GAAAGATGCAGAGCTATGACCCATAACACCACCTTGATTTG
128 GAAAGATGAAGAGCCATGACCCATAACACCACCTTGATTTG
3931325 AAGAATCGGA
Statistics
Matches: 149, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
193 4 0.03
194 47 0.32
195 98 0.66
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.24
Consensus pattern (194 bp):
GAACCTTTAGAATCATCAACATTCGCAGTAGTACCAGAACCTTTAATAGAACCAGAATGATAAAA
GAAGCAGAATGTGAAGCTGAACCGGAATGTAAGGATGAGCTAGAAGCTGAACCTGAATGTGAGAA
AGATGAAGAGCCATGACCCATAACACCACCTTGATTTGCTGAACTAGATATTGATGATTCACCA
Found at i:3931389 original size:195 final size:193
Alignment explanation
Indices: 3930995--3931392 Score: 444
Period size: 195 Copynumber: 2.0 Consensus size: 193
3930985 CGTTGTAGTT
* *
3930995 CCAGAACCTTTAATAGAACCAGAGTGATTAAAGAAGCAGAATGTGAAGCTGAACCGGAATGTAAG
1 CCAGAA-CTTTAATAGAACCAGAATGATAAAAGAAGCAGAATGTGAAGCTGAACCGGAATGTAAG
* * *
3931060 GATGAGCTAGAAGCTGAACTTGAATGTGAGAAAGATGAAGAGCCATGACCCGTAATACCACCTTG
65 GATGAGCTAGAAGCTGAACCTGAATGTGAGAAAGATGAAGAGCCATGACCCATAACACCACCTTG
** * * * * ** ** * *
3931125 ATTTGCTGAACTAGATATTGATGATTCACCAGAACCTTTAGAATCATTAGAATTTGCAGTAGTA
130 ATTTGAAGAACTAGATATTGAGGATTCACCAGAACCCTTAAAAACACCAGAACCTGCAGAAGAA
* * * *
3931189 CCAGAACTTTCAGTAGAACCAGAATGATGAAAAGAAGCGGAATGTGAAGCTGAACTGGAATGTGA
1 CCAGAACTTT-AATAGAACCAGAATGAT-AAAAGAAGCAGAATGTGAAGCTGAACCGGAATGTAA
* * *
3931254 GGATGAGCTAGAAGCTGAACCTGCATGTGAGAAAGATGCAGAGCTATGACCCATAACACCACCTT
64 GGATGAGCTAGAAGCTGAACCTGAATGTGAGAAAGATGAAGAGCCATGACCCATAACACCACCTT
* ** * *
3931319 GATTTGAAGAA-TCGGAT-TGTGAGGAGTT-GTCAGAACCCTTAAAAACCCCATAACCTG-ATGA
129 GATTTGAAGAACT-AGATAT-TGAGGA-TTCACCAGAACCCTTAAAAACACCAGAACCTGCA-GA
3931380 AGAA
190 AGAA
3931384 CCAGAACTT
1 CCAGAACTT
3931393 GTAGTGGAAC
Statistics
Matches: 169, Mismatches: 29, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
193 4 0.02
194 24 0.14
195 139 0.82
196 2 0.01
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (193 bp):
CCAGAACTTTAATAGAACCAGAATGATAAAAGAAGCAGAATGTGAAGCTGAACCGGAATGTAAGG
ATGAGCTAGAAGCTGAACCTGAATGTGAGAAAGATGAAGAGCCATGACCCATAACACCACCTTGA
TTTGAAGAACTAGATATTGAGGATTCACCAGAACCCTTAAAAACACCAGAACCTGCAGAAGAA
Found at i:3931515 original size:27 final size:27
Alignment explanation
Indices: 3931485--3931541 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
3931475 TTGTAGTTCC
3931485 AGAACCCTTAGAAATCCCAGAACTTGT
1 AGAACCCTTAGAAATCCCAGAACTTGT
3931512 AGAACCCTTAGAAATCCCAGAACTTGT
1 AGAACCCTTAGAAATCCCAGAACTTGT
3931539 AGA
1 AGA
3931542 GGAACCGGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.21
Consensus pattern (27 bp):
AGAACCCTTAGAAATCCCAGAACTTGT
Found at i:3932216 original size:3 final size:3
Alignment explanation
Indices: 3932208--3932258 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
3932198 CTTCCCTTCC
3932208 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
3932256 AAT
1 AAT
3932259 GTAAGAGAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:3933536 original size:22 final size:21
Alignment explanation
Indices: 3933492--3933530 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
3933482 AAATAGTATC
*
3933492 TAAATATTATAAAATAATAAT
1 TAAATATTATAAAAAAATAAT
3933513 TAAA-ATTATAAAAAAATA
1 TAAATATTATAAAAAAATA
3933531 CAATTATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
TAAATATTATAAAAAAATAAT
Found at i:3938955 original size:105 final size:104
Alignment explanation
Indices: 3938804--3939101 Score: 427
Period size: 105 Copynumber: 2.8 Consensus size: 104
3938794 TATATCGATG
* *
3938804 ATTGTCAGACTTCCAAGATACGGATTGAACAAGAGTTGAGGGAAGTAAAAGAAGAGGCTAGCACC
1 ATTGTCAGACTTCCAAGATACAGATTGAACAAGAGTTGAGGGAAGTAAAGGAAGAGGCTAGCA-C
* *
3938869 CTGGCTGGAAAGTTAGCAGAGGCCCAAGCGACTATTGATT
65 CTGGCTGGCAAGTTAGCAGAGGCCCAAGCAACTATTGATT
* * * *
3938909 ATTGTCAGACTTCTAAGACACAGACTGAACAAGAGTTGCA-GAAAGTAAAGGAAGAGGCTAGCAT
1 ATTGTCAGACTTCCAAGATACAGATTGAACAAGAGTTG-AGGGAAGTAAAGGAAGAGGCTAGCA-
* *
3938973 CCTGGTTGGCAAGTTAGCAGAAGCCCAAGCAACTATTGATT
64 CCTGGCTGGCAAGTTAGCAGAGGCCCAAGCAACTATTGATT
* * *
3939014 GTTGTCAGACTACCAAGATACAGATTGAACAAGAGTTGAGGGAAGTAAAGGAAGAGGCTAGCATC
1 ATTGTCAGACTTCCAAGATACAGATTGAACAAGAGTTGAGGGAAGTAAAGGAAGAGGCTAGCACC
*
3939079 TGGGCTGGCAAGTTAGCAAAGGC
66 T-GGCTGGCAAGTTAGCAGAGGC
3939102 TAGCATCCTG
Statistics
Matches: 169, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
104 3 0.02
105 165 0.98
106 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.20
Consensus pattern (104 bp):
ATTGTCAGACTTCCAAGATACAGATTGAACAAGAGTTGAGGGAAGTAAAGGAAGAGGCTAGCACC
TGGCTGGCAAGTTAGCAGAGGCCCAAGCAACTATTGATT
Found at i:3949851 original size:74 final size:71
Alignment explanation
Indices: 3949705--3949854 Score: 198
Period size: 74 Copynumber: 2.1 Consensus size: 71
3949695 TTAAATATTG
*
3949705 TTAATTCAAGATTAAAAATAAAATGACTCATTTAATATTTATGATTCACATTATAAAAGATTATA
1 TTAATTCAAGATT-AAAATAAAATGACTCATTTAATATTTATAATTCACATTATAAAAGATTATA
3949770 TATAATT
65 TATAATT
*
3949777 TTAATTCAAGATT-AAA-AAAATGACTCACATTTAATATTTATAATTTA-ATTATAACTCAAAGA
1 TTAATTCAAGATTAAAATAAAATGACT--CATTTAATATTTATAATTCACATTAT-A---AAAGA
3949839 TTATATATAATT
60 TTATATATAATT
3949851 TTAA
1 TTAA
3949855 ATTAAATATT
Statistics
Matches: 70, Mismatches: 2, Indels: 10
0.85 0.02 0.12
Matches are distributed among these distances:
69 9 0.13
70 8 0.11
71 19 0.27
72 13 0.19
74 21 0.30
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.41
Consensus pattern (71 bp):
TTAATTCAAGATTAAAATAAAATGACTCATTTAATATTTATAATTCACATTATAAAAGATTATAT
ATAATT
Found at i:3950598 original size:19 final size:20
Alignment explanation
Indices: 3950574--3950624 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
3950564 AATGACCAAT
3950574 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATATAC
* *
3950593 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATATAC
3950613 AAAATCGCAACG
1 AAAATCGCAACG
3950625 TTAAAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.43, C:0.24, G:0.18, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACGCGATATAC
Found at i:3950618 original size:20 final size:20
Alignment explanation
Indices: 3950574--3950871 Score: 179
Period size: 20 Copynumber: 14.6 Consensus size: 20
3950564 AATGACCAAT
* *
3950574 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATTTAG
3950593 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
** ***
3950613 AAAATCGCAACGTTAAAAAG
1 AAAATCGCAACGCGATTTAG
**
3950633 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TTAG
* **
3950653 AAAATCGCAACGCGAGCTTCC
1 AAAATCGCAACGCGA-TTTAG
**
3950674 AAGTTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * *
3950697 AAAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTTAG
* * * *
3950717 AGAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTTAG
* *
3950737 AGAATCGCAACGCGATTTAT
1 AAAATCGCAACGCGATTTAG
* * *
3950757 ATAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTTAG
* *
3950777 AGAGTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * *
3950800 AAAATCGCAATGCGACTAAG
1 AAAATCGCAACGCGATTTAG
* * *
3950820 AGAATCGCAATGCGATTTAT
1 AAAATCGCAACGCGATTTAG
*
3950840 AGAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
3950860 AAAATCGCAACG
1 AAAATCGCAACG
3950872 GTCAAAAGAA
Statistics
Matches: 220, Mismatches: 47, Indels: 23
0.76 0.16 0.08
Matches are distributed among these distances:
19 17 0.08
20 160 0.73
21 14 0.06
23 29 0.13
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.19
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTAG
Found at i:3950810 original size:83 final size:83
Alignment explanation
Indices: 3950576--3950871 Score: 247
Period size: 83 Copynumber: 3.6 Consensus size: 83
3950566 TGACCAATAA
* * * *
3950576 AATCGCAACGCGA--TATCAAAATCGCAACGCGATTTAGAAAATCGCAA--CG-TTAAAAAGAAA
1 AATCGCAACGCGATTTAT-AGAATCGCAACGCGATTGAGAAAATCGCAACGCGATTTAGAAGAAA
* * * *
3950636 ATCGCAACG-GTCAAAAGAA
65 ATCGCAATGCGAC-TAAGAG
* * *
3950655 AATCGCAACGCGAGCTTCCA-AG-TTCGCAACGCGATTTAGAAGAAAATCGCAATGCGA-TT-GA
1 AATCGCAACGCGA--TT-TATAGAATCGCAACGCGA-TT-G-AGAAAATCGCAACGCGATTTAGA
* * *
3950716 TAG--AATCGCAATGCGATTGATAG
60 -AGAAAATCGCAATGCGACTAAGAG
* * * *
3950739 AATCGCAACGCGATTTATATAATCGCAATGCGATTGAGAGAGTCGCAACGCGATTTAGAAGAAAA
1 AATCGCAACGCGATTTATAGAATCGCAACGCGATTGAGAAAATCGCAACGCGATTTAGAAGAAAA
3950804 TCGCAATGCGACTAAGAG
66 TCGCAATGCGACTAAGAG
* *
3950822 AATCGCAATGCGATTTATAGAATCGCAACGCGATTTAGAAAATCGCAACG
1 AATCGCAACGCGATTTATAGAATCGCAACGCGATTGAGAAAATCGCAACG
3950872 GTCAAAAGAA
Statistics
Matches: 169, Mismatches: 29, Indels: 34
0.73 0.12 0.15
Matches are distributed among these distances:
79 13 0.08
80 14 0.08
81 17 0.10
82 10 0.06
83 71 0.42
84 37 0.22
85 2 0.01
86 5 0.03
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.20
Consensus pattern (83 bp):
AATCGCAACGCGATTTATAGAATCGCAACGCGATTGAGAAAATCGCAACGCGATTTAGAAGAAAA
TCGCAATGCGACTAAGAG
Found at i:3950812 original size:103 final size:103
Alignment explanation
Indices: 3950678--3950869 Score: 330
Period size: 103 Copynumber: 1.9 Consensus size: 103
3950668 GCTTCCAAGT
* * *
3950678 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGATAGAATCGCAATGCGATTGATAGAATC
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTAAGAGAATCGCAATGCGATTGATAGAATC
* *
3950743 GCAACGCGATTTATATAATCGCAATGCGATTGAGAGAG
66 GCAACGCGATTTAGAAAATCGCAATGCGATTGAGAGAG
*
3950781 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTAAGAGAATCGCAATGCGATTTATAGAATC
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTAAGAGAATCGCAATGCGATTGATAGAATC
3950846 GCAACGCGATTTAGAAAATCGCAA
66 GCAACGCGATTTAGAAAATCGCAA
3950870 CGGTCAAAAG
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 83 1.00
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.22
Consensus pattern (103 bp):
TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTAAGAGAATCGCAATGCGATTGATAGAATC
GCAACGCGATTTAGAAAATCGCAATGCGATTGAGAGAG
Found at i:3950970 original size:6 final size:6
Alignment explanation
Indices: 3950959--3951032 Score: 141
Period size: 6 Copynumber: 12.5 Consensus size: 6
3950949 GACACGTATT
3950959 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
3951007 ACCACG ACCACG ACCACG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACC
3951033 CGAGACGAGA
Statistics
Matches: 68, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 5 0.07
6 63 0.93
ACGTcount: A:0.32, C:0.51, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:3951858 original size:20 final size:20
Alignment explanation
Indices: 3951833--3951983 Score: 194
Period size: 20 Copynumber: 7.4 Consensus size: 20
3951823 ATTTTCAACG
*
3951833 TTGCGATTCTATAAATCGCA
1 TTGCGATTCTATCAATCGCA
* *
3951853 TTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTATCAATCGCA
* *
3951873 TTGCGATTCTCTTCTAAATCGCG
1 TTGCGATTCT-ATC--AATCGCA
* *
3951896 TTGCGACTCTCTCAATCGCA
1 TTGCGATTCTATCAATCGCA
* *
3951916 TTGCGATTATATAAATCGCA
1 TTGCGATTCTATCAATCGCA
3951936 TTGCGATTCTATCAATCGCA
1 TTGCGATTCTATCAATCGCA
3951956 TTGCGATTCTATCAATCGCA
1 TTGCGATTCTATCAATCGCA
3951976 TTGCGATT
1 TTGCGATT
3951984 TTCTTCTAAA
Statistics
Matches: 113, Mismatches: 15, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
20 95 0.84
21 2 0.02
22 2 0.02
23 14 0.12
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (20 bp):
TTGCGATTCTATCAATCGCA
Found at i:3951996 original size:83 final size:82
Alignment explanation
Indices: 3951833--3952004 Score: 222
Period size: 83 Copynumber: 2.1 Consensus size: 82
3951823 ATTTTCAACG
* * * * *
3951833 TTGCGATTCTATAAATCGCATTGCGATTCTCTCAGTCGCATTGCGATTCTCTTCTAAATCGCGTT
1 TTGCGATTATATAAATCGCATTGCGATTCTATCAATCGCATTGCGATTCTCATC-AAATCGCATT
*
3951898 GCGACTCTCTCAATCGCA
65 GCGACTCTCTAAATCGCA
3951916 TTGCGATTATATAAATCGCATTGCGATTCTATCAATCGCATTGCGATTCT-ATC-AATCGCATTG
1 TTGCGATTATATAAATCGCATTGCGATTCTATCAATCGCATTGCGATTCTCATCAAATCGCATTG
* *
3951979 CGATTTTCTTCTAAATCGCG
66 CGA--CTC-TCTAAATCGCA
3951999 TTGCGA
1 TTGCGA
3952005 ACTTGGAAGC
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
80 12 0.15
82 4 0.05
83 62 0.79
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (82 bp):
TTGCGATTATATAAATCGCATTGCGATTCTATCAATCGCATTGCGATTCTCATCAAATCGCATTG
CGACTCTCTAAATCGCA
Found at i:3952081 original size:20 final size:20
Alignment explanation
Indices: 3951831--3952108 Score: 130
Period size: 20 Copynumber: 13.6 Consensus size: 20
3951821 CGATTTTCAA
* *
3951831 CGTTGCGATTCTATAAATCG
1 CGTTGCGATTTTCTAAATCG
* * * *
3951851 CATTGCGATTCTCTCAGTCG
1 CGTTGCGATTTTCTAAATCG
*
3951871 CATTGCGATTCTCTTCTAAATCG
1 CGTTGCGA-T-T-TTCTAAATCG
* * *
3951894 CGTTGCGACTCTCTCAATCG
1 CGTTGCGATTTTCTAAATCG
* * *
3951914 CATTGCGATTATATAAATCG
1 CGTTGCGATTTTCTAAATCG
* * * *
3951934 CATTGCGATTCTATCAATCG
1 CGTTGCGATTTTCTAAATCG
* * * *
3951954 CATTGCGATTCTATCAATCG
1 CGTTGCGATTTTCTAAATCG
*
3951974 CATTGCGATTTTCTTCTAAATCG
1 CGTTGCGA--TT-TTCTAAATCG
** ** *
3951997 CGTTGCGAACTTGGAAGCTCG
1 CGTTGCGATTTTCTAA-ATCG
* *
3952018 CGTTGCGATTTTCT--TTTG
1 CGTTGCGATTTTCTAAATCG
*** **
3952036 ACTGTTGCGATTTTCTTTTTAA
1 -C-GTTGCGATTTTCTAAATCG
3952058 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCTAAATCG
* *
3952078 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCTAAATCG
3952097 CGTTGCGATTTT
1 CGTTGCGATTTT
3952109 ATTGGTCATT
Statistics
Matches: 205, Mismatches: 42, Indels: 23
0.76 0.16 0.09
Matches are distributed among these distances:
18 2 0.01
19 18 0.09
20 136 0.66
21 16 0.08
22 5 0.02
23 28 0.14
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.39
Consensus pattern (20 bp):
CGTTGCGATTTTCTAAATCG
Found at i:3952098 original size:19 final size:20
Alignment explanation
Indices: 3952058--3952108 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
3952048 TTCTTTTTAA
*
3952058 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCGAAATCG
*
3952078 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCGAAATCG
3952097 CGTTGCGATTTT
1 CGTTGCGATTTT
3952109 ATTGGTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTTTCGAAATCG
Found at i:3964712 original size:106 final size:106
Alignment explanation
Indices: 3964522--3966037 Score: 2426
Period size: 106 Copynumber: 14.4 Consensus size: 106
3964512 TATTGTTCCA
* ** * * *
3964522 AGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGCTCTGGAACTGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
* * *
3964587 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTTTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGG
*
3964628 AGTCTAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
* *
3964693 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGG
* * *
3964734 AGTCTAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
3964799 CAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGG
* * *
3964840 AGTCCAATATCCTTCGCTGTGAAGTGGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
*
3964905 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGG
*
3964946 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
3965011 CAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGG
* * * *
3965052 AGTCAAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGGAATTGGGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
3965117 CAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGG
* * * *
3965158 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGGAACTGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
*
3965223 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGG
* * *
3965264 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGGGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
*
3965329 CAGCGGTCCCTTCGTCGTGAAGTTGAACATGCATTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGG
* * * *
3965370 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGGAACTGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
*
3965435 CAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGG
* * *
3965476 AGTCCAATATCATTCGTTGTGAAGTTGAAA-----T-TG--A----GAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
*
3965529 CAGCGGTCCCTTCATCGTGAAGTTGAACATGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGG
* * * * *
3965570 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTAGCTCTGGAACTGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
*
3965635 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGG
3965676 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
* *
3965741 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGG
3965782 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
* ** *
3965847 CAGCGGTCCCTTTGTCGTGAAGTTGAATTTGCATTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGG
* * *
3965888 AGTCCAATATCCTTCGTTGTTAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
3965953 CAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGG
*
3965994 AGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAAATT
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATT
3966038 AAATTGGAAA
Statistics
Matches: 1327, Mismatches: 71, Indels: 24
0.93 0.05 0.02
Matches are distributed among these distances:
94 85 0.06
98 1 0.00
99 1 0.00
100 4 0.00
101 1 0.00
102 1 0.00
106 1234 0.93
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (106 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGG
Found at i:3972079 original size:37 final size:36
Alignment explanation
Indices: 3972004--3972079 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
3971994 TTTTTATATT
*
3972004 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
3972040 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
3972077 TTT
1 TTT
3972080 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 26 0.74
37 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:3973391 original size:15 final size:15
Alignment explanation
Indices: 3973371--3973402 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
3973361 TACGTTCATA
3973371 TTTAAAAAAAATTAT
1 TTTAAAAAAAATTAT
3973386 TTTAAAAAAAATTAT
1 TTTAAAAAAAATTAT
3973401 TT
1 TT
3973403 AAACATCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TTTAAAAAAAATTAT
Found at i:3973392 original size:14 final size:15
Alignment explanation
Indices: 3973369--3973405 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
3973359 CGTACGTTCA
3973369 TATTT-AAAAAAAAT
1 TATTTAAAAAAAAAT
*
3973383 TATTTTAAAAAAAAT
1 TATTTAAAAAAAAAT
3973398 TATTTAAA
1 TATTTAAA
3973406 CATCAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TATTTAAAAAAAAAT
Found at i:3976235 original size:90 final size:90
Alignment explanation
Indices: 3976110--3976282 Score: 328
Period size: 90 Copynumber: 1.9 Consensus size: 90
3976100 CATAAGGTTG
*
3976110 CACCGCATCTCAGCAGCTAAAAATTTACCTATCATGAATATGGTTACCATGCCTTCAAATGAAAA
1 CACCGCATCTCAGCAGCTAAAAATTTACCTATCATGAATATGGCTACCATGCCTTCAAATGAAAA
3976175 TAAGAAAAACAGAAACAAGATTGCT
66 TAAGAAAAACAGAAACAAGATTGCT
*
3976200 CACCGCATCTCAGCAGCTAAAAATTTACCTATCATGAATTTGGCTACCATGCCTTCAAATGAAAA
1 CACCGCATCTCAGCAGCTAAAAATTTACCTATCATGAATATGGCTACCATGCCTTCAAATGAAAA
3976265 TAAGAAAAACAGAAACAA
66 TAAGAAAAACAGAAACAA
3976283 ACCTGTAGCT
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
90 81 1.00
ACGTcount: A:0.43, C:0.22, G:0.13, T:0.23
Consensus pattern (90 bp):
CACCGCATCTCAGCAGCTAAAAATTTACCTATCATGAATATGGCTACCATGCCTTCAAATGAAAA
TAAGAAAAACAGAAACAAGATTGCT
Found at i:3980673 original size:18 final size:19
Alignment explanation
Indices: 3980639--3980681 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
3980629 TAATAGTGAG
3980639 TTATTATAAAGTATATTTT
1 TTATTATAAAGTATATTTT
*
3980658 TTATTAT-AATTATATTTT
1 TTATTATAAAGTATATTTT
3980676 TATATT
1 T-TATT
3980682 TTATTATAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (19 bp):
TTATTATAAAGTATATTTT
Found at i:3984029 original size:14 final size:14
Alignment explanation
Indices: 3983992--3984032 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
3983982 GTCATTTTGT
* *
3983992 ATTCAGATTGGATC
1 ATTCCGATTTGATC
3984006 ATTCCGATTTGATC
1 ATTCCGATTTGATC
*
3984020 ATTCCTATTTGAT
1 ATTCCGATTTGAT
3984033 TTTGAATGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.44
Consensus pattern (14 bp):
ATTCCGATTTGATC
Found at i:3986087 original size:23 final size:23
Alignment explanation
Indices: 3986051--3986108 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
3986041 AACGGATGCC
*
3986051 CGGATTCCCTCGCATAGCTCGCT
1 CGGATGCCCTCGCATAGCTCGCT
* *
3986074 CGGTTGCCCTCGCATAGCTCGTT
1 CGGATGCCCTCGCATAGCTCGCT
*
3986097 CGGATGGCCTCG
1 CGGATGCCCTCG
3986109 GATGCTCTCA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.10, C:0.36, G:0.28, T:0.26
Consensus pattern (23 bp):
CGGATGCCCTCGCATAGCTCGCT
Found at i:3986142 original size:20 final size:20
Alignment explanation
Indices: 3986095--3986149 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
3986085 GCATAGCTCG
* *
3986095 TTCGGATGGCCTCGGATGCT
1 TTCGGATGGACTCAGATGCT
* * *
3986115 CTCAGATGGACTTAGATGCT
1 TTCGGATGGACTCAGATGCT
*
3986135 TTCGGATGGCCTCAG
1 TTCGGATGGACTCAG
3986150 TCGGATGACC
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.16, C:0.24, G:0.31, T:0.29
Consensus pattern (20 bp):
TTCGGATGGACTCAGATGCT
Done.