Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006550.1 Hibiscus syriacus cultivar Beakdansim tig00016004_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: 1576944
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 8
Found at i:387718 original size:26 final size:27
Alignment explanation
Indices: 387654--387729 Score: 97
Period size: 28 Copynumber: 2.9 Consensus size: 27
387644 TATATATATA
*
387654 TATATATTAA-A-AAATTTTCAAAAAC
1 TATATATTAATATATATTTTCAAAAAC
*
387679 TATATATTAAATATATGTTTTCAAAAAC
1 TATATATT-AATATATATTTTCAAAAAC
387707 TATATATT-ATATATATTTT-AAAA
1 TATATATTAATATATATTTTCAAAA
387730 TATTTTCAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
25 12 0.27
26 12 0.27
27 1 0.02
28 20 0.44
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.43
Consensus pattern (27 bp):
TATATATTAATATATATTTTCAAAAAC
Found at i:387735 original size:64 final size:64
Alignment explanation
Indices: 387642--387841 Score: 224
Period size: 64 Copynumber: 3.0 Consensus size: 64
387632 TATATATATA
* *
387642 TATATATATATATATATATTAAAAAATTTTCAAAAACTATATATTAAATATATGTTTTCAAAAAC
1 TATATAT-TATATATATTTTAAAATATTTTCAAAAACTATATATTAAATATATGTTTTCAAAAAC
* *
387707 TATATATTATATATATTTTAAAATATTTTCAAAAACTTTATATTATATATGTTTTCAAAATGTTT
1 TATATATTATATATATTTTAAAATATTTTCAAAAACTATATATTA-A-A-----T--ATATGTTT
*
387772 TCAAAAAT
57 TCAAAAAC
*
387780 TATATATTATATATATTTTCAAAAATGTTTTCAAAAACTATATATT--ATATATGTTTTCAAAA
1 TATATATTATATATATTTT--AAAATATTTTCAAAAACTATATATTAAATATATGTTTTCAAAA
387842 TGTTTCAAAA
Statistics
Matches: 116, Mismatches: 8, Indels: 23
0.79 0.05 0.16
Matches are distributed among these distances:
64 48 0.41
65 8 0.07
66 2 0.02
71 2 0.02
73 33 0.28
75 23 0.20
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.46
Consensus pattern (64 bp):
TATATATTATATATATTTTAAAATATTTTCAAAAACTATATATTAAATATATGTTTTCAAAAAC
Found at i:387743 original size:36 final size:37
Alignment explanation
Indices: 387696--388025 Score: 300
Period size: 36 Copynumber: 8.7 Consensus size: 37
387686 TAAATATATG
387696 TTTTCAAAAACTATATATTATATATATTTT-AAAATA
1 TTTTCAAAAACTATATATTATATATATTTTCAAAATA
* * *
387732 TTTTCAAAAACTTTATATTATATATGTTTTCAAAATG
1 TTTTCAAAAACTATATATTATATATATTTTCAAAATA
* *
387769 TTTTCAAAAATTATATATTATATATATTTTCAAAAATG
1 TTTTCAAAAACTATATATTATATATATTTTC-AAAATA
*
387807 TTTTCAAAAACTATATATTATATATGTTTTCAAAAT-
1 TTTTCAAAAACTATATATTATATATATTTTCAAAATA
* * **
387843 GTTTCAAAAACTATATATTATATATATTTTTGAATACCA
1 TTTTCAAAAACTATATATTATATATA-TTTTCAA-AATA
* * *
387882 TTTTC-AAAACTATATAATATTATTATATTTTTGAAAACCAA
1 TTTTCAAAAACTATATATTA-TA-TATA-TTTTCAAAA--TA
* * *
387923 TTTTTTAAAAAGTATATA-T-TATATGTTTTCAAAAACTA
1 -TTTTCAAAAACTATATATTATATATATTTTC-AAAA-TA
387961 TTTTCTAAAAA-TATATA-T-TATAT-TTTTCAAAAAATA
1 TTTTC-AAAAACTATATATTATATATATTTTC--AAAATA
*
387997 TTTTCAAAAATTATACTATATATATATAT
1 TTTTCAAAAACTATA-TAT-TATATATAT
388026 ATATATATAT
Statistics
Matches: 251, Mismatches: 23, Indels: 35
0.81 0.07 0.11
Matches are distributed among these distances:
35 5 0.02
36 68 0.27
37 67 0.27
38 60 0.24
39 15 0.06
40 19 0.08
41 2 0.01
42 5 0.02
43 10 0.04
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (37 bp):
TTTTCAAAAACTATATATTATATATATTTTCAAAATA
Found at i:388020 original size:2 final size:2
Alignment explanation
Indices: 388008--388038 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
387998 TTTCAAAAAT
388008 TA TA CTA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
388039 ACCTCCGGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:404928 original size:149 final size:149
Alignment explanation
Indices: 404735--405041 Score: 560
Period size: 149 Copynumber: 2.1 Consensus size: 149
404725 GGGTAGAGGG
*
404735 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
* *
404800 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGTATATGTATATGATCCTTAAGGAATTATATGTGGTCCTTATGGACATCATTA
*
404865 TATGGCACTACGGTGCAAT
131 TATGGCACTACGATGCAAT
* *
404884 TCTATGCGGTCCTTCGGGATATATATATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
404949 ACTTGATCCCTAGTATATGTATATGATCCTTAAGGAATTATATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGTATATGTATATGATCCTTAAGGAATTATATGTGGTCCTTATGGACATCATTA
405014 TATGGCACTACGATGCAAT
131 TATGGCACTACGATGCAAT
405033 TCTACGCGG
1 TCTACGCGG
405042 CACCTCGGTG
Statistics
Matches: 151, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
149 151 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCCTAGTATATGTATATGATCCTTAAGGAATTATATGTGGTCCTTATGGACATCATTA
TATGGCACTACGATGCAAT
Found at i:407284 original size:3 final size:3
Alignment explanation
Indices: 407267--407302 Score: 54
Period size: 3 Copynumber: 11.3 Consensus size: 3
407257 TATTATTATT
407267 ATA ATA TATA TATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA -ATA -ATA ATA ATA ATA ATA ATA ATA ATA A
407303 ATATTGCATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 25 0.78
4 7 0.22
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:408490 original size:14 final size:14
Alignment explanation
Indices: 408471--408504 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
408461 TTTTTATTTA
* *
408471 TTTAATTTCATTCC
1 TTTAATTACATTAC
408485 TTTAATTACATTAC
1 TTTAATTACATTAC
408499 TTTAAT
1 TTTAAT
408505 CTTATGTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.29, C:0.15, G:0.00, T:0.56
Consensus pattern (14 bp):
TTTAATTACATTAC
Found at i:409250 original size:3 final size:3
Alignment explanation
Indices: 409242--409267 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
409232 AGGTTAATAA
409242 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
409268 AGATTATACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:411146 original size:20 final size:20
Alignment explanation
Indices: 411083--411146 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 20
411073 TCAGTGGAGA
*
411083 GTTCATAATGAGAAGAACTC
1 GTTCATAATGAGAAGAACTT
* **
411103 ATTCGATGAGGGAGAAGAA--T
1 GTTC-AT-AATGAGAAGAACTT
411123 -TTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
411142 GTTCA
1 GTTCA
411147 ACCTTAGCTC
Statistics
Matches: 33, Mismatches: 6, Indels: 10
0.67 0.12 0.20
Matches are distributed among these distances:
17 9 0.27
18 2 0.06
19 4 0.12
20 7 0.21
21 2 0.06
22 9 0.27
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.27
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACTT
Found at i:411324 original size:139 final size:139
Alignment explanation
Indices: 411064--411324 Score: 411
Period size: 139 Copynumber: 1.9 Consensus size: 139
411054 GATAAACCAG
* * *
411064 TCAACATTTTCAGTGGAGAGTTCATAATGAGAAGAACTCATTCGATGAGGGAGAAGAATTTCATA
1 TCAAAATTTTCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATAAGGGAGAAGAATTTCATA
*
411129 ATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCACATATGGAGTTGAATCAACAACACCTTA
66 ATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCACATAAGGAGTTGAATCAACAACACCTTA
411194 CTCGAGGGA
131 CTCGAGGGA
411203 TCAAAATTTTCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGA-AAGGGAGAAGAAGTTT-AT
1 TCAAAATTTTCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATAAGGGAGAAGAA-TTTCAT
* * *
411266 AATGAGAAGAACTTGTTCAACCTTAGCTTGTTTCCATCGCATAAGGAGTTAGAA-CAACA
65 AATGAGAAGAACTTGTTCAACCTTAGCTCGATT-CATCACATAAGGAGTT-GAATCAACA
411325 TTGACTTTTT
Statistics
Matches: 112, Mismatches: 7, Indels: 6
0.90 0.06 0.05
Matches are distributed among these distances:
138 44 0.39
139 65 0.58
140 3 0.03
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.26
Consensus pattern (139 bp):
TCAAAATTTTCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATAAGGGAGAAGAATTTCATA
ATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCACATAAGGAGTTGAATCAACAACACCTTA
CTCGAGGGA
Found at i:413173 original size:131 final size:130
Alignment explanation
Indices: 412966--413352 Score: 481
Period size: 130 Copynumber: 3.0 Consensus size: 130
412956 AAAATTTTAA
* * * *
412966 GAGAGAAAACGATAATATCTAGTGATTTCCAATCGAGAATAAATGACCTCTCGTGCCTTAAAGCA
1 GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGA-CTCTCATGCCTTAAAACA
* * *
413031 ATCATTTATTACTCCAATCAAAATGAAGAGATATCACTATTTTATCTTAAAATTCAATATTGATT
65 ATCATTTATTACTCCAATCAAAATGAAAAGATATCACTATTTTGTCTTAAAATTCAATATTGAAT
413096 C
130 C
* * * *
413097 GAGAGAAAATGATAATATCTAATTATTTTCATTCGATAATAAATGATCTCTCATGCCTTAAAACA
1 GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGA-CTCTCATGCCTTAAAACA
* * ** * * * *
413162 GTAATTTATTACTCCAATTGAAATGAATAGATATCAATA-TTCGTCTTAAAAATCAATATTGAAT
65 ATCATTTATTACTCCAATCAAAATGAAAAGATATCACTATTTTGTCTTAAAATTCAATATTGAAT
413226 C
130 C
* *
413227 GAGAGAAAACAATAATATCTAATTATTTCCAATCGAGAATAAATGACATCTCATGCCTTAAAAAA
1 GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGAC-TCTCATGCCTTAAAACA
* * * * * *
413292 ATCATATATTACTACAA-CATAAATGAAAAGATATTACTATTTTGTCCTAATATTCCATATT
65 ATCATTTATTACTCCAATCA-AAATGAAAAGATATCACTATTTTGTCTTAAAATTCAATATT
413353 AATTTGAGTG
Statistics
Matches: 214, Mismatches: 39, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
129 1 0.00
130 108 0.50
131 105 0.49
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (130 bp):
GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACTCTCATGCCTTAAAACAA
TCATTTATTACTCCAATCAAAATGAAAAGATATCACTATTTTGTCTTAAAATTCAATATTGAATC
Found at i:415459 original size:20 final size:19
Alignment explanation
Indices: 415423--415471 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
415413 AATATAACAT
415423 AAATATATAAAAAAATAAAA
1 AAATA-ATAAAAAAATAAAA
* **
415443 AAATAATAGAAATAATAATT
1 AAATAATA-AAAAAATAAAA
415463 AAATAATAA
1 AAATAATAA
415472 TAATTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (19 bp):
AAATAATAAAAAAATAAAA
Found at i:417341 original size:7 final size:6
Alignment explanation
Indices: 417321--417448 Score: 68
Period size: 6 Copynumber: 20.3 Consensus size: 6
417311 TATTTATTTA
* * *
417321 TTTTCT TTTTCT TTTTC- CTTTCT TTTTCT CTTTT-T TCATT-T TTTCCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT -TTTTCT T-TTTCT TTTTCT
** *
417368 TCATCTT TCTTTCT TTTTCAT TTTT-T TTTCTCT TTTCCATT TTTTCT
1 TTTTC-T T-TTTCT TTTTC-T TTTTCT TTT-TCT TTTTC--T TTTTCT
417415 TCATTT-T TTTTCT TTTTCT TTTTCAT TTTTCT TT
1 T--TTTCT TTTTCT TTTTCT TTTTC-T TTTTCT TT
417449 CTTTAGGCAA
Statistics
Matches: 95, Mismatches: 12, Indels: 30
0.69 0.09 0.22
Matches are distributed among these distances:
5 13 0.14
6 47 0.49
7 25 0.26
8 10 0.11
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTTCT
Found at i:417342 original size:11 final size:12
Alignment explanation
Indices: 417321--417452 Score: 59
Period size: 11 Copynumber: 11.2 Consensus size: 12
417311 TATTTATTTA
*
417321 TTTTCTTTTTCT
1 TTTTCTCTTTCT
417333 TTTTC-CTTTCT
1 TTTTCTCTTTCT
417344 TTTTCTCTTTTTTCAT
1 TTTTCTC---TTTC-T
* *
417360 TTTT-TCCTTCA
1 TTTTCTCTTTCT
*
417371 TCTT-TCTTTCT
1 TTTTCTCTTTCT
417382 TTTTCAT-TTT-T
1 TTTTC-TCTTTCT
417393 TTTTCTCTTTTCCAT
1 TTTTCTC-TTT-C-T
*
417408 TTTT-TC-TTCA
1 TTTTCTCTTTCT
417418 TTTT-T-TTTCT
1 TTTTCTCTTTCT
* *
417428 TTTTCTTTTTCA
1 TTTTCTCTTTCT
417440 TTTT-TCTTTCT
1 TTTTCTCTTTCT
417451 TT
1 TT
417453 AGGCAAAGTA
Statistics
Matches: 93, Mismatches: 12, Indels: 31
0.68 0.09 0.23
Matches are distributed among these distances:
10 13 0.14
11 36 0.39
12 25 0.27
13 1 0.01
14 2 0.02
15 11 0.12
16 5 0.05
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTCTCTTTCT
Found at i:417344 original size:17 final size:17
Alignment explanation
Indices: 417322--417452 Score: 73
Period size: 17 Copynumber: 7.8 Consensus size: 17
417312 ATTTATTTAT
417322 TTTCTTTTTCTTTTTCC
1 TTTCTTTTTCTTTTTCC
*
417339 TTTCTTTTTCTCTTT--
1 TTTCTTTTTCTTTTTCC
**
417354 TTTCATTTTT-TCCTTCATC
1 TTTC-TTTTTCTTTTTC--C
*
417373 TTTC--TTTCTTTTTCA
1 TTTCTTTTTCTTTTTCC
*
417388 TTTTTTTTTCTCTTTTCC
1 TTTCTTTTTCT-TTTTCC
417406 ATTT-TTTCTTCATTTTT--
1 -TTTCTTT-TTC-TTTTTCC
*
417423 TTTCTTTTTCTTTTTCA
1 TTTCTTTTTCTTTTTCC
417440 TTT-TTCTTTCTTT
1 TTTCTT-TTTCTTT
417453 AGGCAAAGTA
Statistics
Matches: 91, Mismatches: 7, Indels: 32
0.70 0.05 0.25
Matches are distributed among these distances:
15 16 0.18
16 16 0.18
17 36 0.40
18 8 0.09
19 14 0.15
20 1 0.01
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTCTTTTTCTTTTTCC
Found at i:417362 original size:8 final size:7
Alignment explanation
Indices: 417339--417448 Score: 61
Period size: 7 Copynumber: 16.0 Consensus size: 7
417329 TTCTTTTTCC
417339 TTTCTTT
1 TTTCTTT
417346 TTCTCTTT
1 TT-TCTTT
417354 TTTCATTT
1 TTTC-TTT
*
417362 TTTCCTT
1 TTTCTTT
**
417369 CATCTTT
1 TTTCTTT
417376 CTTTC-TT
1 -TTTCTTT
*
417383 TTTCATT
1 TTTCTTT
417390 TTT-TTT
1 TTTCTTT
*
417396 TCTC-TT
1 TTTCTTT
*
417402 TTCCATTT
1 TTTC-TTT
*
417410 TTTCTTC
1 TTTCTTT
*
417417 ATT-TTT
1 TTTCTTT
417423 TTTC-TT
1 TTTCTTT
417429 TTTC-TT
1 TTTCTTT
*
417435 TTTCATT
1 TTTCTTT
417442 TTTCTTT
1 TTTCTTT
417449 CTTTAGGCAA
Statistics
Matches: 78, Mismatches: 16, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
6 28 0.36
7 29 0.37
8 21 0.27
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTCTTT
Found at i:417376 original size:28 final size:29
Alignment explanation
Indices: 417324--417402 Score: 89
Period size: 28 Copynumber: 2.9 Consensus size: 29
417314 TTATTTATTT
*
417324 TCTTTTTC--TTTTTCCTTTCTTTTTCTC
1 TCTTTTTCATTTTTTCCTTTCTCTTTCTC
*
417351 T-TTTTTCATTTTTTCC-TTCATCTTTCTT
1 TCTTTTTCATTTTTTCCTTTC-TCTTTCTC
417379 TCTTTTTCATTTTTT--TTTCTCTTT
1 TCTTTTTCATTTTTTCCTTTCTCTTT
417403 TCCATTTTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
26 6 0.13
27 9 0.20
28 17 0.38
29 13 0.29
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.75
Consensus pattern (29 bp):
TCTTTTTCATTTTTTCCTTTCTCTTTCTC
Found at i:417386 original size:49 final size:46
Alignment explanation
Indices: 417328--417446 Score: 148
Period size: 49 Copynumber: 2.5 Consensus size: 46
417318 TTATTTTCTT
* *
417328 TTTCTTTTTCCTTTCTTTTTCTCTTTTTTCATTTTTTCCTTCATCTTTC
1 TTTCTTTTTCATTTCTTTTTCTC-TTTTCCATTTTTT-CTTCAT-TTTC
* *
417377 TTTCTTTTTCATTTTTTTTTCTCTTTTCCATTTTTTCTTCATTTTT
1 TTTCTTTTTCATTTCTTTTTCTCTTTTCCATTTTTTCTTCATTTTC
*
417423 TTTCTTTTTCTTTTTCATTTTTCT
1 TTTCTTTTTC-ATTTC-TTTTTCT
417447 TTCTTTAGGC
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
46 13 0.21
47 9 0.15
48 19 0.31
49 21 0.34
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (46 bp):
TTTCTTTTTCATTTCTTTTTCTCTTTTCCATTTTTTCTTCATTTTC
Found at i:417404 original size:28 final size:26
Alignment explanation
Indices: 417326--417452 Score: 102
Period size: 29 Copynumber: 4.8 Consensus size: 26
417316 ATTTATTTTC
* *
417326 TTTTTC-TTTTTCCTTTCTTTTTCTCT
1 TTTTTCATTTTT-TTTTCTTTTTCTTT
* *
417352 TTTTTCATTTTTTCCTTCATCTTTCTTT
1 TTTTTCATTTTTT-TTTC-TTTTTCTTT
417380 CTTTTTCATTTTTTTTTCTCTTTTCCATTT
1 -TTTTTCATTTTTTTTTCT-TTTT-C-TTT
417410 TTTCTTCA-TTTTTTTTCTTTTTC---
1 TTT-TTCATTTTTTTTTCTTTTTCTTT
*
417433 TTTTTCATTTTTCTTTCTTT
1 TTTTTCATTTTTTTTTCTTT
417453 AGGCAAAGTA
Statistics
Matches: 85, Mismatches: 7, Indels: 21
0.75 0.06 0.19
Matches are distributed among these distances:
22 4 0.05
23 14 0.16
26 6 0.07
27 10 0.12
28 17 0.20
29 27 0.32
30 7 0.08
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.76
Consensus pattern (26 bp):
TTTTTCATTTTTTTTTCTTTTTCTTT
Found at i:417445 original size:19 final size:19
Alignment explanation
Indices: 417321--417448 Score: 71
Period size: 19 Copynumber: 7.1 Consensus size: 19
417311 TATTTATTTA
417321 TTTTCTTTTTC-TTTTTCCT
1 TTTTCTTTTTCATTTTT-CT
* *
417340 TTCTT-TTTCTCTTTTTTCAT
1 TT-TTCTTTTTCATTTTTC-T
** *
417360 TTTT-TCCTTCATCTTTC-
1 TTTTCTTTTTCATTTTTCT
417377 -TTTCTTTTTCATTTTT-T
1 TTTTCTTTTTCATTTTTCT
*
417394 TTTCTCTTTTCCA-TTTT-T
1 TTT-TCTTTTTCATTTTTCT
* *
417412 TCTTC-ATTT--TTTTTCT
1 TTTTCTTTTTCATTTTTCT
417428 TTTTCTTTTTCATTTTTCT
1 TTTTCTTTTTCATTTTTCT
417447 TT
1 TT
417449 CTTTAGGCAA
Statistics
Matches: 82, Mismatches: 15, Indels: 24
0.68 0.12 0.20
Matches are distributed among these distances:
15 4 0.05
16 10 0.12
17 14 0.17
18 9 0.11
19 35 0.43
20 10 0.12
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTCTTTTTCATTTTTCT
Found at i:417963 original size:20 final size:21
Alignment explanation
Indices: 417938--417977 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
417928 AACTTCTCAT
*
417938 GTCA-TTCTTTATAAGTCTTA
1 GTCATTTCTCTATAAGTCTTA
417958 GTCATTTTCTCTATAAGTCT
1 GTCA-TTTCTCTATAAGTCT
417978 CTTAATGTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
22 13 0.76
ACGTcount: A:0.23, C:0.17, G:0.10, T:0.50
Consensus pattern (21 bp):
GTCATTTCTCTATAAGTCTTA
Found at i:420958 original size:2 final size:2
Alignment explanation
Indices: 420951--420983 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
420941 GAATGAAATA
420951 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
420984 AAGAATGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:423844 original size:3 final size:3
Alignment explanation
Indices: 423836--423912 Score: 154
Period size: 3 Copynumber: 25.7 Consensus size: 3
423826 TACTTAATAA
423836 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
423884 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
423913 GTTGCTACGA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:426157 original size:18 final size:17
Alignment explanation
Indices: 426138--426183 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 17
426128 ATGAAGAGAT
426138 AAGTAAAAATAAGGAAATA
1 AAGTAAAAA-AAGG-AATA
*
426157 AAATAAAAGAAAGGAATA
1 AAGTAAAA-AAAGGAATA
426175 AAGTAAAAA
1 AAGTAAAAA
426184 GAATATTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 1 0.04
18 11 0.46
19 11 0.46
20 1 0.04
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (17 bp):
AAGTAAAAAAAGGAATA
Found at i:426183 original size:19 final size:20
Alignment explanation
Indices: 426138--426186 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
426128 ATGAAGAGAT
*
426138 AAGTAAAAA-TAAGGAAATA
1 AAGTAAAAAGAAAGGAAATA
*
426157 AAAT-AAAAGAAAGG-AATA
1 AAGTAAAAAGAAAGGAAATA
426175 AAGTAAAAAGAA
1 AAGTAAAAAGAA
426187 TATTTTCCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.71, C:0.00, G:0.16, T:0.12
Consensus pattern (20 bp):
AAGTAAAAAGAAAGGAAATA
Found at i:426462 original size:24 final size:24
Alignment explanation
Indices: 426430--426482 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
426420 CATCACTACT
*
426430 TTGTCGCACAGAGGTGGAACTCTA
1 TTGTAGCACAGAGGTGGAACTCTA
426454 TTGTAGCACAGAGGTGGAACTCTA
1 TTGTAGCACAGAGGTGGAACTCTA
426478 TTGTA
1 TTGTA
426483 AGCTTTCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (24 bp):
TTGTAGCACAGAGGTGGAACTCTA
Found at i:427936 original size:282 final size:282
Alignment explanation
Indices: 427429--427989 Score: 989
Period size: 282 Copynumber: 2.0 Consensus size: 282
427419 GTCTCTGAAC
* * * *
427429 AGAGTTGGCCAATAAAATCCTTATTGAATGACCTTGGCAGTAGTCTTTGCTCCTCCAAAATGGCC
1 AGAGTTGGCCAATAAAAGCCTGATTGAAGGACCTTGGCAGTAGTCCTTGCTCCTCCAAAATGGCC
* *
427494 TCCACTTGGGGTCGTGTGACAATGGTATAAACTATTGCGTTGCTCCTCTTTAGGTACACATCATC
66 TCCACTTGGGGTCGTGTGACAATGGTATAAAATATTGCGTTGCTCCTCTTCAGGTACACATCATC
* *
427559 TAATGAGTTGGTCAGCACAATGCTTGAATAAATATTGTTCGTTCCAACAATAATACCTTGCATCG
131 TAATGAGTTGGTCAGCACAATGCTTGAAGAAATATTGTCCGTTCCAACAATAATACCTTGCATCG
* *
427624 TTCTTGAATTCCTTTTTTCCCAGACTTTTCAAATCAAAAGGCAGTATCCTACTAACAAGAAAATT
196 TGCTTGAATTCATTTTTTCCCAGACTTTTCAAATCAAAAGGCAGTATCCTACTAACAAGAAAATT
*
427689 AATAAGGTCAGCGTACCACAGG
261 AAAAAGGTCAGCGTACCACAGG
427711 AGAGTTGGCCAATAAAAGCCTGATTGAAGGACCTTGGCAGTAGTCCTTGCTCCTCCAAAATGGCC
1 AGAGTTGGCCAATAAAAGCCTGATTGAAGGACCTTGGCAGTAGTCCTTGCTCCTCCAAAATGGCC
427776 TCCACTTGGGGTCGTGTGACAATGGTATAAAATATTGCGTTGCTCCTCTTCAGGTACACATCATC
66 TCCACTTGGGGTCGTGTGACAATGGTATAAAATATTGCGTTGCTCCTCTTCAGGTACACATCATC
*
427841 TAATGAGTTGGTCAGCACAATGCTTGAAGAAATATTGTCCGTTCTAACAATAATACCTTGCATCG
131 TAATGAGTTGGTCAGCACAATGCTTGAAGAAATATTGTCCGTTCCAACAATAATACCTTGCATCG
*
427906 TGCTTGAATTTATTTTTTCCCATG-CTTTTCAAATCAAAAGGCAGTATCCTACTAACAAGAAAAT
196 TGCTTGAATTCATTTTTTCCCA-GACTTTTCAAATCAAAAGGCAGTATCCTACTAACAAGAAAAT
427970 TAAAAAGGTCAGCGTACCAC
260 TAAAAAGGTCAGCGTACCAC
427990 GGGATTATTG
Statistics
Matches: 265, Mismatches: 13, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
282 264 1.00
283 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (282 bp):
AGAGTTGGCCAATAAAAGCCTGATTGAAGGACCTTGGCAGTAGTCCTTGCTCCTCCAAAATGGCC
TCCACTTGGGGTCGTGTGACAATGGTATAAAATATTGCGTTGCTCCTCTTCAGGTACACATCATC
TAATGAGTTGGTCAGCACAATGCTTGAAGAAATATTGTCCGTTCCAACAATAATACCTTGCATCG
TGCTTGAATTCATTTTTTCCCAGACTTTTCAAATCAAAAGGCAGTATCCTACTAACAAGAAAATT
AAAAAGGTCAGCGTACCACAGG
Found at i:431554 original size:45 final size:45
Alignment explanation
Indices: 431500--431635 Score: 173
Period size: 53 Copynumber: 2.8 Consensus size: 45
431490 TAATCCTTAT
*
431500 ATATTTTAAATTTGTTCAATTTGATCCTTATATATTTTAAGCTTC
1 ATATTTTAAATTTGTTCAATTTGATCCTTATATATTTTAAACTTC
*
431545 ATATTTTAAATTTGTTCAATTTGATCCAAATTTAATTATGCAATTTAAACTTC
1 ATATTTTAAATTTGTTCAATTTGATCC----TT-A-TAT--ATTTTAAACTTC
*
431598 ATATTTTAAATTTGTTCAATTTGATACTTATATATTTT
1 ATATTTTAAATTTGTTCAATTTGATCCTTATATATTTT
431636 CCAATTCGGG
Statistics
Matches: 79, Mismatches: 4, Indels: 16
0.80 0.04 0.16
Matches are distributed among these distances:
45 31 0.39
47 3 0.04
48 1 0.01
49 4 0.05
50 1 0.01
51 3 0.04
53 36 0.46
ACGTcount: A:0.32, C:0.10, G:0.06, T:0.52
Consensus pattern (45 bp):
ATATTTTAAATTTGTTCAATTTGATCCTTATATATTTTAAACTTC
Found at i:431823 original size:28 final size:30
Alignment explanation
Indices: 431783--431841 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 30
431773 GTCCGTTAAG
431783 CTTAATTGTTATA-ATTATAT-ATTTAGTC
1 CTTAATTGTTATATATTATATAATTTAGTC
*
431811 CTTAATAT-TTATATATTCTATCAATTTAGTC
1 CTTAAT-TGTTATATATTATAT-AATTTAGTC
431842 ACTATTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
28 11 0.42
29 7 0.27
31 8 0.31
ACGTcount: A:0.32, C:0.10, G:0.05, T:0.53
Consensus pattern (30 bp):
CTTAATTGTTATATATTATATAATTTAGTC
Found at i:432125 original size:29 final size:29
Alignment explanation
Indices: 432083--432146 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
432073 ATCGAACCAA
* *
432083 AATTTATTTGAAAATTATTAACCAAACCG
1 AATTAATTTGAAAATTATTAACCAAACAG
*
432112 AATTAATTTGAAAATTATTAACCGAACAG
1 AATTAATTTGAAAATTATTAACCAAACAG
432141 AATTAA
1 AATTAA
432147 CCGAATTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.48, C:0.11, G:0.08, T:0.33
Consensus pattern (29 bp):
AATTAATTTGAAAATTATTAACCAAACAG
Found at i:432257 original size:142 final size:141
Alignment explanation
Indices: 432000--432259 Score: 398
Period size: 142 Copynumber: 1.8 Consensus size: 141
431990 TAGATGTGAA
* * *
432000 AATTAACCGAATTTTTTTAAAAATTATTTACCGAATTAATCAAAGCAAAAATTCTGTTAATTCGG
1 AATTAACCGAATTTTTTTAAAAAGTATTAACCGAATTAATCAAAGAAAAAATTCTGTTAATTCGG
432065 TTCAGTTAATCGAACCAAAATTTATTTGAAAATTATTAACCAAACCGAATTAATTTGAAAATTAT
66 TTCAGTTAATCGAACCAAAATTTATTTGAAAATTATTAACCAAACCGAATTAATTTGAAAATTAT
432130 TAACCGAACAG
131 TAACCGAACAG
**
432141 AATTAACCGAATTTTTTTATAAAAGTATTAACC-ATATTAATTGAAGAAAAAATT-TGTTTAATT
1 AATTAACCGAATTTTTTTA-AAAAGTATTAACCGA-ATTAATCAAAGAAAAAATTCTG-TTAATT
** * *
432204 CGGTTTGGTTAATCGAACCAAAATTTATTTGAAAATTATTAACCGAACTGAATTAA
63 CGGTTCAGTTAATCGAACCAAAATTTATTTGAAAATTATTAACCAAACCGAATTAA
432260 CAGAGTTTTT
Statistics
Matches: 107, Mismatches: 9, Indels: 5
0.88 0.07 0.04
Matches are distributed among these distances:
141 22 0.21
142 85 0.79
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.36
Consensus pattern (141 bp):
AATTAACCGAATTTTTTTAAAAAGTATTAACCGAATTAATCAAAGAAAAAATTCTGTTAATTCGG
TTCAGTTAATCGAACCAAAATTTATTTGAAAATTATTAACCAAACCGAATTAATTTGAAAATTAT
TAACCGAACAG
Found at i:432328 original size:110 final size:113
Alignment explanation
Indices: 432112--432369 Score: 362
Period size: 110 Copynumber: 2.3 Consensus size: 113
432102 AACCAAACCG
* * * *
432112 AATTAATTTGAAAATTATTAACCGAACAGAATTAACCGAATTTTTTTATAAAAGTATTAACCATA
1 AATTTATTTGAAAATTATTAACCGAACTGAATTAACAGAAGTTTTTTATAAAAGTATTAACCATA
** * *
432177 TTAATTGAAGAAAAAATTTGTTTAATTCGGTTTGGTTAATCGAACCAA
66 TTAATCAAAGAAAAAATTTGGTTAATTCGGTTCGGTTAATCGAACCAA
**
432225 AATTTATTTGAAAATTATTAACCGAACTGAATTAACAG-AGTTTTTT-T-AATTTATTAACCGA-
1 AATTTATTTGAAAATTATTAACCGAACTGAATTAACAGAAGTTTTTTATAAAAGTATTAACC-AT
* *
432286 ATTAGTCAAATAAAAAATTTGGTTAATTCGGTTCGGTTAATCGAACCAA
65 ATTAATCAAAGAAAAAATTTGGTTAATTCGGTTCGGTTAATCGAACCAA
*
432335 AATTTATTTGAAAGTTATTAACCGAACTGAATTAA
1 AATTTATTTGAAAATTATTAACCGAACTGAATTAA
432370 TTTAAAAATT
Statistics
Matches: 131, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
110 87 0.66
111 2 0.02
112 7 0.05
113 35 0.27
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (113 bp):
AATTTATTTGAAAATTATTAACCGAACTGAATTAACAGAAGTTTTTTATAAAAGTATTAACCATA
TTAATCAAAGAAAAAATTTGGTTAATTCGGTTCGGTTAATCGAACCAA
Found at i:432396 original size:29 final size:29
Alignment explanation
Indices: 432322--432398 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
432312 TTCGGTTCGG
* * * *
432322 TTAATCGAACCAAAATTTATTTGAAAGTTA
1 TTAACCGAACC-AAATTAATTTAAAAATTA
**
432352 TTAACCGAACTGAATTAATTTAAAAATTA
1 TTAACCGAACCAAATTAATTTAAAAATTA
*
432381 TTAACTGAACCAAATTAA
1 TTAACCGAACCAAATTAA
432399 CTGAATTGTT
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
29 29 0.76
30 9 0.24
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.34
Consensus pattern (29 bp):
TTAACCGAACCAAATTAATTTAAAAATTA
Found at i:433084 original size:29 final size:30
Alignment explanation
Indices: 433019--433143 Score: 107
Period size: 30 Copynumber: 4.2 Consensus size: 30
433009 ATTAACGACC
* * * * *
433019 GGTGGTTTGATTGAATCAATTAAATAGTTG
1 GGTGGTCTGATTGATTCGATTGAACAGTTG
*
433049 GGTGGTCTGATTGATTCGATTGAA-AGTTT
1 GGTGGTCTGATTGATTCGATTGAACAGTTG
**
433078 GGTGGTCACATTGAGTT---TTGACCACAGTTG
1 GGTGGTCTGATTGA-TTCGATTGA--ACAGTTG
*
433108 GGTGGTCTGATTGATTCGATTGAA-AGTTC
1 GGTGGTCTGATTGATTCGATTGAACAGTTG
433137 GGTGGTC
1 GGTGGTC
433144 ACATTGAGTT
Statistics
Matches: 77, Mismatches: 11, Indels: 15
0.75 0.11 0.15
Matches are distributed among these distances:
27 4 0.05
29 30 0.39
30 39 0.51
32 4 0.05
ACGTcount: A:0.22, C:0.10, G:0.31, T:0.38
Consensus pattern (30 bp):
GGTGGTCTGATTGATTCGATTGAACAGTTG
Found at i:433111 original size:59 final size:59
Alignment explanation
Indices: 433044--433165 Score: 226
Period size: 59 Copynumber: 2.1 Consensus size: 59
433034 TCAATTAAAT
*
433044 AGTTGGGTGGTCTGATTGATTCGATTGAAAGTTTGGTGGTCACATTGAGTTTTGACCAC
1 AGTTGGGTGGTCTGATTGATTCGATTGAAAGTTCGGTGGTCACATTGAGTTTTGACCAC
*
433103 AGTTGGGTGGTCTGATTGATTCGATTGAAAGTTCGGTGGTCACATTGAGTTTTGACCAT
1 AGTTGGGTGGTCTGATTGATTCGATTGAAAGTTCGGTGGTCACATTGAGTTTTGACCAC
433162 AGTT
1 AGTT
433166 TAGTGATCTC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.20, C:0.11, G:0.30, T:0.38
Consensus pattern (59 bp):
AGTTGGGTGGTCTGATTGATTCGATTGAAAGTTCGGTGGTCACATTGAGTTTTGACCAC
Found at i:433114 original size:30 final size:29
Alignment explanation
Indices: 433072--433165 Score: 86
Period size: 30 Copynumber: 3.2 Consensus size: 29
433062 ATTCGATTGA
*
433072 AAGTTTGGTGGTCACATTGAGTTTTGACC
1 AAGTTCGGTGGTCACATTGAGTTTTGACC
* **
433101 ACAGTTGGGTGGTCTGATTGA-TTCGATTGA--
1 A-AGTTCGGTGGTCACATTGAGTT---TTGACC
433131 AAGTTCGGTGGTCACATTGAGTTTTGACC
1 AAGTTCGGTGGTCACATTGAGTTTTGACC
433160 ATAGTT
1 A-AGTT
433166 TAGTGATCTC
Statistics
Matches: 51, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
27 4 0.08
29 20 0.39
30 23 0.45
32 4 0.08
ACGTcount: A:0.21, C:0.13, G:0.29, T:0.37
Consensus pattern (29 bp):
AAGTTCGGTGGTCACATTGAGTTTTGACC
Found at i:433149 original size:29 final size:29
Alignment explanation
Indices: 433044--433150 Score: 103
Period size: 29 Copynumber: 3.7 Consensus size: 29
433034 TCAATTAAAT
**
433044 AGTTGGGTGGTCTGATTGATTCGATTGAA
1 AGTTGGGTGGTCACATTGATTCGATTGAA
*
433073 AGTTTGGTGGTCACATTGAGTT---TTGACCA
1 AGTTGGGTGGTCACATTGA-TTCGATTGA--A
**
433102 CAGTTGGGTGGTCTGATTGATTCGATTGAA
1 -AGTTGGGTGGTCACATTGATTCGATTGAA
*
433132 AGTTCGGTGGTCACATTGA
1 AGTTGGGTGGTCACATTGA
433151 GTTTTGACCA
Statistics
Matches: 62, Mismatches: 9, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
27 4 0.06
29 35 0.56
30 19 0.31
32 4 0.06
ACGTcount: A:0.21, C:0.11, G:0.32, T:0.36
Consensus pattern (29 bp):
AGTTGGGTGGTCACATTGATTCGATTGAA
Found at i:433261 original size:33 final size:33
Alignment explanation
Indices: 433221--433327 Score: 164
Period size: 33 Copynumber: 3.3 Consensus size: 33
433211 ATTAATAATT
433221 TAATATATAGTTTGTATATACTAATGAACTATA
1 TAATATATAGTTTGTATATACTAATGAACTATA
*
433254 TAATATATAATTTGTATATACTAATGAACTATA
1 TAATATATAGTTTGTATATACTAATGAACTATA
*
433287 TAATATATAGTTTATATATACT-AT-ATACTATA
1 TAATATATAGTTTGTATATACTAATGA-ACTATA
*
433319 TACTATATA
1 TAATATATA
433328 CTATATACTA
Statistics
Matches: 69, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
31 1 0.01
32 16 0.23
33 52 0.75
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.44
Consensus pattern (33 bp):
TAATATATAGTTTGTATATACTAATGAACTATA
Found at i:433357 original size:7 final size:7
Alignment explanation
Indices: 433268--433366 Score: 95
Period size: 7 Copynumber: 14.9 Consensus size: 7
433258 ATATAATTTG
433268 TATATAC
1 TATATAC
433275 TA-ATGAAC
1 TATAT--AC
*
433283 TATATAA
1 TATATAC
*
433290 TATATAG
1 TATATAC
433297 T-T-TA-
1 TATATAC
433301 TATATAC
1 TATATAC
433308 TATATAC
1 TATATAC
433315 TATATAC
1 TATATAC
433322 TATATAC
1 TATATAC
433329 TATATAC
1 TATATAC
*
433336 TATATAG
1 TATATAC
433343 T-T-TA-
1 TATATAC
*
433347 TATAAAC
1 TATATAC
433354 TATATAC
1 TATATAC
433361 TATATA
1 TATATA
433367 GTTTATATAA
Statistics
Matches: 78, Mismatches: 5, Indels: 18
0.77 0.05 0.18
Matches are distributed among these distances:
4 2 0.03
5 6 0.08
6 7 0.09
7 57 0.73
8 4 0.05
9 2 0.03
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.43
Consensus pattern (7 bp):
TATATAC
Found at i:433418 original size:35 final size:33
Alignment explanation
Indices: 433370--433443 Score: 87
Period size: 35 Copynumber: 2.2 Consensus size: 33
433360 CTATATAGTT
*
433370 TATATAAACTATAT-AGTTTATATTTACTAATGAAC
1 TATATAAACTATATGA-ATTATA--TACTAATGAAC
* *
433405 TATATGAATTATATGAATTATATACTAATGAAC
1 TATATAAACTATATGAATTATATACTAATGAAC
433438 TATATA
1 TATATA
433444 GTTTATATCA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
33 16 0.47
35 17 0.50
36 1 0.03
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.42
Consensus pattern (33 bp):
TATATAAACTATATGAATTATATACTAATGAAC
Found at i:433443 original size:26 final size:26
Alignment explanation
Indices: 433414--433493 Score: 89
Period size: 26 Copynumber: 3.2 Consensus size: 26
433404 CTATATGAAT
433414 TATATGAATTATATACTAATGAACTA
1 TATATGAATTATATACTAATGAACTA
*
433440 TATA-G-TTTATATCAACTAATGAAC--
1 TATATGAATTATAT--ACTAATGAACTA
433464 TATATGAACTT-TATACTAATGAACTA
1 TATATGAA-TTATATACTAATGAACTA
433490 TATA
1 TATA
433494 CTATATAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
24 20 0.44
25 2 0.04
26 21 0.47
27 2 0.04
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (26 bp):
TATATGAATTATATACTAATGAACTA
Found at i:433490 original size:83 final size:82
Alignment explanation
Indices: 433388--433615 Score: 257
Period size: 83 Copynumber: 2.7 Consensus size: 82
433378 CTATATAGTT
* * *
433388 TATATTTACTAATGAACTATATGAATTATATGAAT-TATATACTAATGAACTATATAGTTTATAT
1 TATATATACTAATGAACTATAT-AA-TATATGAATATATATACTAATGAACTATATAATATATAT
*
433452 CAACTAATGAACTATATGAA
64 AAACTAATGAACTATAT-AA
* *
433472 CT-T-TATACTAATGAACTATATACTATAT-AATTTATATATACTAATGTACTATATAATATATA
1 -TATATATACTAATGAACTATATAATATATGAA--TATATATACTAATGAACTATATAATATATA
*
433534 TAAACTAATGTACTATATAA
63 TAAACTAATGAACTATATAA
* ** * *
433554 TATATAAACTAATGAACTATATAATATATAGTTTGTATATACTAATGAACTTTATAATATAT
1 TATATATACTAATGAACTATATAATATAT-GAATATATATACTAATGAACTATATAATATAT
433616 TAATATAATT
Statistics
Matches: 122, Mismatches: 14, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
80 2 0.02
81 6 0.05
82 5 0.04
83 107 0.88
84 1 0.01
85 1 0.01
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.41
Consensus pattern (82 bp):
TATATATACTAATGAACTATATAATATATGAATATATATACTAATGAACTATATAATATATATAA
ACTAATGAACTATATAA
Found at i:433513 original size:33 final size:30
Alignment explanation
Indices: 433438--433699 Score: 134
Period size: 33 Copynumber: 9.0 Consensus size: 30
433428 ACTAATGAAC
433438 TATATAGTTTATATCAACTAATGAAC--TATA
1 TATATA-TTTATAT-AACTAATGAACTATATA
* *
433468 T-GA-ACTT-TAT-ACTAATGAACTATATA
1 TATATATTTATATAACTAATGAACTATATA
*
433494 CTATATAATTTATATATACTAATGTACTATATA
1 -TATAT-ATTTATATA-ACTAATGAACTATATA
*
433527 -ATATA--TATA-AACTAATGTAC--TATA
1 TATATATTTATATAACTAATGAACTATATA
433551 TA-ATA--TATA-AACTAATGAACTATATAA
1 TATATATTTATATAACTAATGAACTATAT-A
* *
433578 TATATAGTTTGTATATACTAATGAACTTTATA
1 TATATA-TTTATATA-ACTAATGAACTATATA
* * *
433610 -ATATATTAATATAATTATATAAACTATATA
1 TATATATTTATATAACTA-ATGAACTATATA
* * *
433640 CTTTATAATTTAT-TAA-T-ATAAATTATATA
1 -TATAT-ATTTATATAACTAATGAACTATATA
* *
433669 TATATATATATATATA-TACATAAACTATATA
1 TATATATTTATATA-ACTA-ATGAACTATATA
433700 GTTTATTACT
Statistics
Matches: 186, Mismatches: 19, Indels: 53
0.72 0.07 0.21
Matches are distributed among these distances:
24 31 0.17
25 1 0.01
26 20 0.11
27 12 0.06
28 15 0.08
29 17 0.09
30 21 0.11
31 27 0.15
32 8 0.04
33 34 0.18
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (30 bp):
TATATATTTATATAACTAATGAACTATATA
Found at i:433531 original size:24 final size:24
Alignment explanation
Indices: 433492--433583 Score: 130
Period size: 26 Copynumber: 3.7 Consensus size: 24
433482 ATGAACTATA
433492 TACTATATAATTTATATATACTAATG
1 TACTATATAA--TATATATACTAATG
433518 TACTATATAATATATATAAACTAATG
1 TACTATATAATATATAT--ACTAATG
*
433544 TACTATATAATATATAAACTAATG
1 TACTATATAATATATATACTAATG
*
433568 AACTATATAATATATA
1 TACTATATAATATATA
433584 GTTTGTATAT
Statistics
Matches: 62, Mismatches: 2, Indels: 6
0.89 0.03 0.09
Matches are distributed among these distances:
24 29 0.47
26 33 0.53
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.40
Consensus pattern (24 bp):
TACTATATAATATATATACTAATG
Found at i:433645 original size:37 final size:37
Alignment explanation
Indices: 433602--433676 Score: 116
Period size: 37 Copynumber: 2.0 Consensus size: 37
433592 ATACTAATGA
433602 ACTTTATAATATATTAATAT-AATTATATAAACTATAT
1 ACTTTATAATATATTAATATAAATTATATAAA-TATAT
* *
433639 ACTTTATAATTTATTAATATAAATTATATATATATAT
1 ACTTTATAATATATTAATATAAATTATATAAATATAT
433676 A
1 A
433677 TATATATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
37 25 0.71
38 10 0.29
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (37 bp):
ACTTTATAATATATTAATATAAATTATATAAATATAT
Found at i:433720 original size:50 final size:51
Alignment explanation
Indices: 433608--433755 Score: 142
Period size: 50 Copynumber: 2.8 Consensus size: 51
433598 ATGAACTTTA
* * *
433608 TAATATATTAATATAATTATATAAACTATATACTTTATAATTTATTAATATAAAT
1 TAATATATT-ATAT-A-TATATAAACTATAAACTATATAGTTTATTAATAT-AAT
* *
433663 TATATATATATATATATATATATAC-ATAAACTATATAGTTTATTACTAT-AT
1 TA-ATATAT-TATATATATATAAACTATAAACTATATAGTTTATTAATATAAT
*
433714 TAATATAGTT-TATAT-TAATAAACTATAAAGTATATAGTTTAT
1 TAATATA-TTATATATAT-ATAAACTATAAACTATATAGTTTAT
433756 GTTAATAAAC
Statistics
Matches: 81, Mismatches: 7, Indels: 15
0.79 0.07 0.15
Matches are distributed among these distances:
48 1 0.01
49 10 0.12
50 23 0.28
51 5 0.06
53 20 0.25
54 8 0.10
55 3 0.04
56 10 0.12
57 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.47
Consensus pattern (51 bp):
TAATATATTATATATATATAAACTATAAACTATATAGTTTATTAATATAAT
Found at i:433778 original size:29 final size:29
Alignment explanation
Indices: 433716--433778 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
433706 TACTATATTA
*
433716 ATATAGTTTATATTAATAAACTATAAAGT
1 ATATAGTTTATATTAATAAACCATAAAGT
* *
433745 ATATAGTTTATGTTAATAAACCATATAGT
1 ATATAGTTTATATTAATAAACCATAAAGT
*
433774 TTATA
1 ATATA
433779 TAGTATAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.43
Consensus pattern (29 bp):
ATATAGTTTATATTAATAAACCATAAAGT
Found at i:433819 original size:70 final size:72
Alignment explanation
Indices: 433688--433825 Score: 169
Period size: 70 Copynumber: 1.9 Consensus size: 72
433678 ATATATATAC
* *
433688 ATAAACTATATAGTTTATTACTATATTAATATAGTTTATATTAATAAACTATAAAGTATATAGTT
1 ATAAACCATATAGTTTATTACTATATTAATATAGTTTATATTAATAAACTATAAACTATATAGTT
433753 TATGTTA
66 TATGTTA
* * *
433760 ATAAACCATATAGTTTA-TA-TAGTA-TAATATAGTTT-TATATAGTCATA-TATACACTATATA
1 ATAAACCATATAGTTTATTACTA-TATTAATATAGTTTATAT-TAAT-AAACTATAAACTATATA
433820 GTTTAT
63 GTTTAT
433826 ACAGTATATA
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
69 3 0.05
70 33 0.57
71 6 0.10
72 16 0.28
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.45
Consensus pattern (72 bp):
ATAAACCATATAGTTTATTACTATATTAATATAGTTTATATTAATAAACTATAAACTATATAGTT
TATGTTA
Found at i:433874 original size:25 final size:23
Alignment explanation
Indices: 433846--433900 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 23
433836 AAATTATAAA
*
433846 TATAAACTATATAGTTTATATATAT
1 TATAAA-TATATA-TATATATATAT
433871 TATATTAATATATATATATATATAT
1 TATA--AATATATATATATATATAT
433896 TATAA
1 TATAA
433901 TTTTTTAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
23 1 0.04
25 18 0.67
26 6 0.22
27 2 0.07
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (23 bp):
TATAAATATATATATATATATAT
Found at i:433888 original size:39 final size:39
Alignment explanation
Indices: 433662--433888 Score: 114
Period size: 39 Copynumber: 5.7 Consensus size: 39
433652 TTAATATAAA
*
433662 TTATATATA-TATATATATATATATACATAAACTATATAGT
1 TTATATATATTATAT-TA-ATATATATATAAACTATATAGT
* * *
433702 TTATTACTATATTA-ATATAGTTTATATTAATAAACTATAAAG-
1 TTA-TA-TATATTATAT-TAATATATA-T-ATAAACTATATAGT
* * * ***
433744 -TATATAGT-TTATGTTAATAAACCATATAGTTTATATAGT
1 TTATATA-TATTATATTAATATA-TATATAAACTATATAGT
* * *
433783 ATA-ATATAGT-T-TTATATAGTCATATATACACTATATAGT
1 TTATATATATTATATTA-ATA-T-ATATATAAACTATATAGT
* * *
433822 TTATACAGTA-TATA-AAATTATAAATATAAACTATATAGT
1 TTATATA-TATTATATTAA-TATATATATAAACTATATAGT
433861 TTATATATATTATATTAATATATATATA
1 TTATATATATTATATTAATATATATATA
433889 TATATATTAT
Statistics
Matches: 139, Mismatches: 27, Indels: 43
0.67 0.13 0.21
Matches are distributed among these distances:
37 3 0.02
38 16 0.12
39 64 0.46
40 18 0.13
41 15 0.11
42 9 0.06
43 14 0.10
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (39 bp):
TTATATATATTATATTAATATATATATAAACTATATAGT
Found at i:434031 original size:28 final size:28
Alignment explanation
Indices: 433999--434087 Score: 89
Period size: 28 Copynumber: 3.2 Consensus size: 28
433989 CAACATTTTG
433999 TGTTCTTTACTTTATTTAAATTTTAATT
1 TGTTCTTTACTTTATTTAAATTTTAATT
*
434027 TGTTCATTT--TTATATTTATTACA-TTT--TG
1 TGTTC-TTTACTT-TATTTA--A-ATTTTAATT
434055 TGTTCTTTACTTTATTTAAATTTTAATT
1 TGTTCTTTACTTTATTTAAATTTTAATT
434083 TGTTC
1 TGTTC
434088 ATTTTTATAT
Statistics
Matches: 49, Mismatches: 2, Indels: 20
0.69 0.03 0.28
Matches are distributed among these distances:
25 1 0.02
26 4 0.08
27 5 0.10
28 29 0.59
29 5 0.10
30 4 0.08
31 1 0.02
ACGTcount: A:0.22, C:0.08, G:0.06, T:0.64
Consensus pattern (28 bp):
TGTTCTTTACTTTATTTAAATTTTAATT
Found at i:434052 original size:56 final size:56
Alignment explanation
Indices: 433991--434102 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
433981 TTTGATTTCA
433991 ACATTTTGTGTTCTTTACTTTATTTAAATTTTAATTTGTTCATTTTTATATTTATT
1 ACATTTTGTGTTCTTTACTTTATTTAAATTTTAATTTGTTCATTTTTATATTTATT
434047 ACATTTTGTGTTCTTTACTTTATTTAAATTTTAATTTGTTCATTTTTATATTTATT
1 ACATTTTGTGTTCTTTACTTTATTTAAATTTTAATTTGTTCATTTTTATATTTATT
434103 CAATTTAGTC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.23, C:0.07, G:0.05, T:0.64
Consensus pattern (56 bp):
ACATTTTGTGTTCTTTACTTTATTTAAATTTTAATTTGTTCATTTTTATATTTATT
Found at i:434098 original size:28 final size:28
Alignment explanation
Indices: 434011--434100 Score: 91
Period size: 28 Copynumber: 3.2 Consensus size: 28
434001 TTCTTTACTT
434011 TATTTAAATTTTAATTTGTTCATTTTTA
1 TATTTAAATTTTAATTTGTTCATTTTTA
*
434039 TATTTATTACA-TTT--TGTGTTC-TTTACTT-
1 TATTTA--A-ATTTTAATTTGTTCATTT--TTA
434067 TATTTAAATTTTAATTTGTTCATTTTTA
1 TATTTAAATTTTAATTTGTTCATTTTTA
434095 TATTTA
1 TATTTA
434101 TTCAATTTAG
Statistics
Matches: 50, Mismatches: 2, Indels: 20
0.69 0.03 0.28
Matches are distributed among these distances:
25 1 0.02
26 4 0.08
27 5 0.10
28 30 0.60
29 5 0.10
30 4 0.08
31 1 0.02
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.64
Consensus pattern (28 bp):
TATTTAAATTTTAATTTGTTCATTTTTA
Found at i:435028 original size:30 final size:31
Alignment explanation
Indices: 434994--435052 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
434984 CATTCATTGT
*
434994 ACTTTT-AATTATTTCTAATTTACTCACTGA
1 ACTTTTGAATTATTCCTAATTTACTCACTGA
* * *
435024 ACTTTTGAATTGTTCCTATTTTGCTCACT
1 ACTTTTGAATTATTCCTAATTTACTCACT
435053 ACAAATTACT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 6 0.25
31 18 0.75
ACGTcount: A:0.24, C:0.19, G:0.07, T:0.51
Consensus pattern (31 bp):
ACTTTTGAATTATTCCTAATTTACTCACTGA
Found at i:437437 original size:23 final size:23
Alignment explanation
Indices: 437405--437456 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
437395 TAATGATCTT
* * *
437405 AATGAACAACCAGCTTAATGAAC
1 AATGAGCAACCAACTTAATAAAC
437428 AATGAGCAACCAACTTAATAAAC
1 AATGAGCAACCAACTTAATAAAC
437451 AATGAG
1 AATGAG
437457 TCAAGTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.50, C:0.19, G:0.13, T:0.17
Consensus pattern (23 bp):
AATGAGCAACCAACTTAATAAAC
Found at i:437558 original size:72 final size:72
Alignment explanation
Indices: 437468--437626 Score: 185
Period size: 72 Copynumber: 2.2 Consensus size: 72
437458 CAAGTCTAGT
* * *
437468 AACAAGTTTTTTTAACGAATAAAAGTCGAGCAAAATTTTAACAAGCTTAACGAA-CAACAAGTCT
1 AACAAATTTTTTTAACGAACAAAAGTCGAGCAAAATTTTAACAAGCTTAAC-AAGCAACAAGCCT
437532 AGTCGAAC
65 AGTCGAAC
** * * * * * *
437540 AACAAATTTTTTTAACGAACATGATTTGAGCAAAATTTTAACGAGCTTAACAAGTAATATGCCTA
1 AACAAATTTTTTTAACGAACAAAAGTCGAGCAAAATTTTAACAAGCTTAACAAGCAACAAGCCTA
*
437605 GTCGAGC
66 GTCGAAC
*
437612 AACAAAATTTTTTAA
1 AACAAATTTTTTTAA
437627 TTAATACAAG
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
71 2 0.03
72 71 0.97
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.29
Consensus pattern (72 bp):
AACAAATTTTTTTAACGAACAAAAGTCGAGCAAAATTTTAACAAGCTTAACAAGCAACAAGCCTA
GTCGAAC
Found at i:451891 original size:18 final size:18
Alignment explanation
Indices: 451857--451894 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
451847 AATTGTTTAA
451857 TTTCTTTTTCTTCCTTTT
1 TTTCTTTTTCTTCCTTTT
451875 TTTCTATTTTCTT-CTTTT
1 TTTCT-TTTTCTTCCTTTT
451893 TT
1 TT
451895 AATCAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTCTTTTTCTTCCTTTT
Found at i:451903 original size:20 final size:19
Alignment explanation
Indices: 451862--451904 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 19
451852 TTTAATTTCT
*
451862 TTTTCTTCCTTTTTTTCTA
1 TTTTCTTCCTTTTTTTCAA
451881 TTTTCTT-CTTTTTTAATCAA
1 TTTTCTTCCTTTTTT--TCAA
451901 TTTT
1 TTTT
451905 TTTTATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 7 0.33
19 7 0.33
20 7 0.33
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTCTTCCTTTTTTTCAA
Found at i:452362 original size:174 final size:175
Alignment explanation
Indices: 452081--452442 Score: 496
Period size: 173 Copynumber: 2.1 Consensus size: 175
452071 TTACTGATGC
* *
452081 CCCGAAGGACTTACCAATTTTGGAAATAGTTTAATGGGTAAGAAACTTTGGAAATCGCTTTCTTA
1 CCCGAAGGACTTACCAATTTTGGAAATAGTTTAATGGGTAAGAAACTTTAGAAATCACTTTCTTA
* *
452146 CTTTTCAAAAATTTCATTTTCTAAAAACATTAAATGAGAAACTTAGAAAATCGCTTTCTCATTTT
66 CTTTTCAAAAATCTCATTTTCTAAAAACATTAAATGAGAAACTTAGAAAATCGCTTTCTCACTTT
* * * *
452211 TTG-AAATCACGTTAAAGCATCATGCTCGAAGGTCTTATACATGG
131 TCGAAAATCACGTGAAAACATCATGCCCGAAGGTCTTATACATGG
* * * *
452255 CCTGAAGGACTTACCAATTTT-GAAATAGTTTATTGGGTAAGAAACTTTAGAAATTATTTTCTTA
1 CCCGAAGGACTTACCAATTTTGGAAATAGTTTAATGGGTAAGAAACTTTAGAAATCACTTTCTTA
** * * *
452319 CTTTTTGAAAATCTCATTTTC-AGAAAAGATTTAAATGAGAAACTTTGGAAATCGCTTTCTCACT
66 CTTTTCAAAAATCTCATTTTCTA-AAAACA-TTAAATGAGAAACTTAGAAAATCGCTTTCTCACT
* * **
452383 TTTCGAAAATCATGTGAAAACATTATGCCCGAAGGTCTTATGGATGG
129 TTTCGAAAATCACGTGAAAACATCATGCCCGAAGGTCTTATACATGG
452430 CCCGAAGGACTTA
1 CCCGAAGGACTTA
452443 ATCATCTTGC
Statistics
Matches: 163, Mismatches: 22, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
172 1 0.01
173 61 0.37
174 55 0.34
175 46 0.28
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (175 bp):
CCCGAAGGACTTACCAATTTTGGAAATAGTTTAATGGGTAAGAAACTTTAGAAATCACTTTCTTA
CTTTTCAAAAATCTCATTTTCTAAAAACATTAAATGAGAAACTTAGAAAATCGCTTTCTCACTTT
TCGAAAATCACGTGAAAACATCATGCCCGAAGGTCTTATACATGG
Found at i:452484 original size:20 final size:19
Alignment explanation
Indices: 452409--452485 Score: 57
Period size: 20 Copynumber: 3.8 Consensus size: 19
452399 AAAACATTAT
*
452409 GCCCGAAGGTCTTATGGATG
1 GCCCGAAGGACTTAT-GATG
* *
452429 GCCCGAAGGACTTAATCATCTT
1 GCCCGAAGGACTT-ATGA--TG
*
452451 GCTCGAAAGG-CTTACTGATG
1 GCCCG-AAGGACTTA-TGATG
452471 GCCCGAAGGACTTAT
1 GCCCGAAGGACTTAT
452486 CAATTTTGGA
Statistics
Matches: 44, Mismatches: 7, Indels: 13
0.69 0.11 0.20
Matches are distributed among these distances:
19 5 0.11
20 22 0.50
21 3 0.07
22 10 0.23
23 4 0.09
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (19 bp):
GCCCGAAGGACTTATGATG
Found at i:454392 original size:21 final size:21
Alignment explanation
Indices: 454335--454393 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 21
454325 TTATTTTCTC
* *
454335 TCTCTTTTTCCCTTTTTTCTTT
1 TCTC-TTTTCACTTTTCTCTTT
*
454357 T-TCTTTTATATCTTTTCTCTTT
1 TCTCTTTT-CA-CTTTTCTCTTT
454379 TCTCTTTTCACTTTT
1 TCTCTTTTCACTTTT
454394 TTCCTTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
20 4 0.13
21 7 0.23
22 13 0.43
23 6 0.20
ACGTcount: A:0.05, C:0.24, G:0.00, T:0.71
Consensus pattern (21 bp):
TCTCTTTTCACTTTTCTCTTT
Found at i:464309 original size:128 final size:128
Alignment explanation
Indices: 463928--464354 Score: 766
Period size: 128 Copynumber: 3.3 Consensus size: 128
463918 AAGTTTGTCA
* *
463928 GGGGACACTATTCATATCACTACCTATTATTTCTCAGGGGACTTGAAGGCGCGTTCCTGGGGGCG
1 GGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACTTGAAGGCGCGTTCCCGGGGGCG
* * *
463993 CGCCTTCCATTATTTTGTCAGAGAATATGTTATTATTGCCCTATTATTTCACACATGTCCCTC
66 CGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCTC
* * *
464056 CGGGACAATATTCATATCAGTACCTATTATTTCTCAGGGGACTTGAAGGCGAGTTCCCGGGGG-G
1 GGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACTTGAAGGCGCGTTCCCGGGGGCG
464120 CGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCTC
66 CGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCTC
*
464183 GGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACTTAAAGGCGCGTTCCCGGGGGCG
1 GGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACTTGAAGGCGCGTTCCCGGGGGCG
464248 CGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCTC
66 CGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCTC
464311 GGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACTT
1 GGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACTT
464355 TGAGTTATAT
Statistics
Matches: 286, Mismatches: 12, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
127 120 0.42
128 166 0.58
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (128 bp):
GGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACTTGAAGGCGCGTTCCCGGGGGCG
CGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCTC
Found at i:465088 original size:22 final size:22
Alignment explanation
Indices: 465047--465127 Score: 144
Period size: 22 Copynumber: 3.6 Consensus size: 22
465037 CTCGTATAAA
465047 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
465070 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
465092 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
465114 TGCACCGTAGTGCC
1 TGCACCGAAGTGCC
465128 ATATAATGAT
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
22 45 0.79
23 12 0.21
ACGTcount: A:0.25, C:0.30, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:465123 original size:13 final size:13
Alignment explanation
Indices: 465061--465123 Score: 52
Period size: 10 Copynumber: 5.5 Consensus size: 13
465051 CCGAAGTGCC
465061 CCGTAGAATTGCA
1 CCGTAGAATTGCA
*
465074 CC---GAAGTGC-
1 CCGTAGAATTGCA
465083 CCGTAGAATTGCA
1 CCGTAGAATTGCA
*
465096 CC---GAAGTGC-
1 CCGTAGAATTGCA
465105 CCGTAGAATTGCA
1 CCGTAGAATTGCA
465118 CCGTAG
1 CCGTAG
465124 TGCCATATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 16
0.66 0.07 0.28
Matches are distributed among these distances:
9 4 0.11
10 12 0.32
12 12 0.32
13 10 0.26
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (13 bp):
CCGTAGAATTGCA
Found at i:466889 original size:68 final size:65
Alignment explanation
Indices: 466777--466911 Score: 243
Period size: 68 Copynumber: 2.0 Consensus size: 65
466767 TAAAGACCCA
466777 CTTACCTTATACCAATTCCCGTTGAGAGGAGGAAGAAGACTGAAGAATGCTCTGGACTCTTCTTC
1 CTTACCTTATACCAATTCCCGTTGAGAGGAGGAAGAAGACTGAAGAATGCTCTGGACTCTTCTTC
466842 CTTACCTTATACCAAGCTTCCCGGTTGAGAGGAGGAAGAAGACTGAAGAATGCTCTGGACTCTTC
1 CTTACCTTATACCAA--TTCCC-GTTGAGAGGAGGAAGAAGACTGAAGAATGCTCTGGACTCTTC
466907 TTC
63 TTC
466910 CT
1 CT
466912 CCTGCTTATT
Statistics
Matches: 67, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
65 15 0.22
67 5 0.07
68 47 0.70
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (65 bp):
CTTACCTTATACCAATTCCCGTTGAGAGGAGGAAGAAGACTGAAGAATGCTCTGGACTCTTCTTC
Found at i:469616 original size:22 final size:22
Alignment explanation
Indices: 469575--469655 Score: 144
Period size: 22 Copynumber: 3.6 Consensus size: 22
469565 CTCGTATAAA
469575 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
469598 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
469620 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
469642 TGCACCGTAGTGCC
1 TGCACCGAAGTGCC
469656 ATATAATGAT
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
22 45 0.79
23 12 0.21
ACGTcount: A:0.25, C:0.30, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:469651 original size:13 final size:13
Alignment explanation
Indices: 469589--469651 Score: 52
Period size: 10 Copynumber: 5.5 Consensus size: 13
469579 CCGAAGTGCC
469589 CCGTAGAATTGCA
1 CCGTAGAATTGCA
*
469602 CC---GAAGTGC-
1 CCGTAGAATTGCA
469611 CCGTAGAATTGCA
1 CCGTAGAATTGCA
*
469624 CC---GAAGTGC-
1 CCGTAGAATTGCA
469633 CCGTAGAATTGCA
1 CCGTAGAATTGCA
469646 CCGTAG
1 CCGTAG
469652 TGCCATATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 16
0.66 0.07 0.28
Matches are distributed among these distances:
9 4 0.11
10 12 0.32
12 12 0.32
13 10 0.26
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (13 bp):
CCGTAGAATTGCA
Found at i:470911 original size:21 final size:21
Alignment explanation
Indices: 470887--470931 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
470877 TCTTGTTCGT
* *
470887 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
470908 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
470929 TTG
1 TTG
470932 CCCAGAAATC
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:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:473252 original size:16 final size:17
Alignment explanation
Indices: 473216--473253 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
473206 AAATCGAATC
* *
473216 AAAAAATCCGAACCGTT
1 AAAAAAACCGAACCGTA
473233 AAAAAAACCGAACCG-A
1 AAAAAAACCGAACCGTA
473249 AAAAA
1 AAAAA
473254 CCGATTTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.61, C:0.21, G:0.11, T:0.08
Consensus pattern (17 bp):
AAAAAAACCGAACCGTA
Found at i:478280 original size:20 final size:20
Alignment explanation
Indices: 478255--478323 Score: 111
Period size: 20 Copynumber: 3.5 Consensus size: 20
478245 CTATACGTAA
478255 ATCGCAACGCGAATCTGACT
1 ATCGCAACGCGAATCTGACT
478275 ATCGCAACGCGAATCTGACT
1 ATCGCAACGCGAATCTGACT
* * *
478295 GTCGCAACGAGATTCTGACT
1 ATCGCAACGCGAATCTGACT
478315 ATCGCAACG
1 ATCGCAACG
478324 AGATTTATGT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGAATCTGACT
Found at i:478837 original size:20 final size:20
Alignment explanation
Indices: 478812--478900 Score: 135
Period size: 20 Copynumber: 4.5 Consensus size: 20
478802 CAACGCGGAA
*
478812 ATCGCAATGC-GAATATGACT
1 ATCGCAACGCGGAA-ATGACT
*
478832 ATCGCAACACGGAAATGACT
1 ATCGCAACGCGGAAATGACT
*
478852 ATCGCAACGCGGAATTGACT
1 ATCGCAACGCGGAAATGACT
478872 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGGAAATGACT
478892 ATCGCAACG
1 ATCGCAACG
478901 AGAGAATCGC
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
20 60 0.95
21 3 0.05
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGGAAATGACT
Found at i:478911 original size:14 final size:14
Alignment explanation
Indices: 478892--478945 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
478882 GGAAATGACT
478892 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
478906 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
478925 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
478939 ATCGCAA
1 ATCGCAA
478946 TGCGAAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 17 0.52
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.30
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:478922 original size:33 final size:33
Alignment explanation
Indices: 478872--478967 Score: 138
Period size: 33 Copynumber: 2.8 Consensus size: 33
478862 GGAATTGACT
* **
478872 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
478906 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
478939 ATCGCAATGCGAAAATAAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
478968 CGAATTTAGT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
33 32 0.56
34 25 0.44
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:479025 original size:34 final size:34
Alignment explanation
Indices: 478982--479077 Score: 140
Period size: 33 Copynumber: 2.9 Consensus size: 34
478972 TTTAGTTTCA
478982 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
479016 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
* ** * *
479049 AGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
479078 AGTCTATTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 30 0.54
34 26 0.46
ACGTcount: A:0.14, C:0.23, G:0.21, T:0.43
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
Found at i:480708 original size:42 final size:41
Alignment explanation
Indices: 480603--480712 Score: 105
Period size: 42 Copynumber: 2.6 Consensus size: 41
480593 TAGAATGTTA
* * * *
480603 GGAGGGACCTCTTCAACGATGACAGTGGCCTCTTGAACGGTG
1 GGAGGG-CCTCTTGAACGATGACAGGGGCCTCTTAAACGATG
* ** *
480645 GGATGGGACTCTTGAGGGATGATAGGGGCCTCTTAAACGATAAG
1 GGA-GGGCCTCTTGAACGATGACAGGGGCCTCTTAAACGAT--G
480689 GGA-GGCCTCTTGAACGATGACAGG
1 GGAGGGCCTCTTGAACGATGACAGG
480713 TGAGTCGGGC
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
42 46 0.87
43 3 0.06
44 4 0.08
ACGTcount: A:0.25, C:0.19, G:0.35, T:0.21
Consensus pattern (41 bp):
GGAGGGCCTCTTGAACGATGACAGGGGCCTCTTAAACGATG
Found at i:481217 original size:20 final size:20
Alignment explanation
Indices: 481192--481260 Score: 84
Period size: 20 Copynumber: 3.5 Consensus size: 20
481182 AAAACTTAAA
*
481192 ATCGCAACGTGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
481212 ATCGCAATGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* * **
481232 ATCACAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
481252 ATCGCAACG
1 ATCGCAACG
481261 AGAGAATCGC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:481411 original size:33 final size:33
Alignment explanation
Indices: 481291--481424 Score: 106
Period size: 33 Copynumber: 3.8 Consensus size: 33
481281 TCATTTCGCA
*
481291 TTGCGATAGTCATTTTCGCATTGCGATAGTCATTTTCG
1 TTGCGATAGTCA-TTTCGCATTGCGAT--TC--TCTCG
* * * *
481329 CATTGCGATAGTCATTTTCGCGTTGCGATTTTGTTG
1 --TTGCGATAGTCA-TTTCGCATTGCGATTCTCTCG
** *
481365 TTGCGATTTTCATTTCGCATTGTGATTCTCTCG
1 TTGCGATAGTCATTTCGCATTGCGATTCTCTCG
*
481398 TTGCGATAGTCATTTTCGCGTTGCGAT
1 TTGCGATAGTCA-TTTCGCATTGCGAT
481425 AGTAATTTTC
Statistics
Matches: 78, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
33 26 0.33
34 22 0.28
36 3 0.04
38 1 0.01
40 26 0.33
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (33 bp):
TTGCGATAGTCATTTCGCATTGCGATTCTCTCG
Found at i:481424 original size:87 final size:90
Alignment explanation
Indices: 481273--481444 Score: 251
Period size: 87 Copynumber: 1.9 Consensus size: 90
481263 AGAATCGCAA
*
481273 TGCGATTTTCATTTCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCATTTTCGCATTGCGAT
1 TGCGATTTTCATTTCGCATTGCGATA-TCA-TCTCG-ATTGCGATAGTCATTTTCGCATTGCGAT
* *
481338 AGTCATTTTCGCGTTGCGATTTTGTTGT
63 AGTAATTTTCGCATTGCGATTTTGTTGT
* *
481366 TGCGATTTTCATTTCGCATTGTGAT-TC-TCTCG-TTGCGATAGTCATTTTCGCGTTGCGATAGT
1 TGCGATTTTCATTTCGCATTGCGATATCATCTCGATTGCGATAGTCATTTTCGCATTGCGATAGT
481428 AATTTTCGCATTGCGAT
66 AATTTTCGCATTGCGAT
481445 AGTAAACTAT
Statistics
Matches: 74, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
87 44 0.59
89 4 0.05
91 2 0.03
93 24 0.32
ACGTcount: A:0.16, C:0.19, G:0.22, T:0.44
Consensus pattern (90 bp):
TGCGATTTTCATTTCGCATTGCGATATCATCTCGATTGCGATAGTCATTTTCGCATTGCGATAGT
AATTTTCGCATTGCGATTTTGTTGT
Found at i:481449 original size:20 final size:20
Alignment explanation
Indices: 481284--481447 Score: 158
Period size: 20 Copynumber: 8.8 Consensus size: 20
481274 GCGATTTTCA
481284 TTTCGCATTGCGATAGTCAT
1 TTTCGCATTGCGATAGTCAT
481304 TTTCGCATTGCGATAGTCAT
1 TTTCGCATTGCGATAGTCAT
481324 TTTCGCATTGCGATAGTCAT
1 TTTCGCATTGCGATAGTCAT
*
481344 TTTCGCGTTGCGAT--T--T
1 TTTCGCATTGCGATAGTCAT
**
481360 TGTT-G--TTGCGATTTTCA-
1 T-TTCGCATTGCGATAGTCAT
*
481377 TTTCGCATTGTGAT--TC--
1 TTTCGCATTGCGATAGTCAT
*
481393 TCTCG--TTGCGATAGTCAT
1 TTTCGCATTGCGATAGTCAT
* *
481411 TTTCGCGTTGCGATAGTAAT
1 TTTCGCATTGCGATAGTCAT
481431 TTTCGCATTGCGATAGT
1 TTTCGCATTGCGATAGT
481448 AAACTATTCT
Statistics
Matches: 123, Mismatches: 7, Indels: 28
0.78 0.04 0.18
Matches are distributed among these distances:
14 13 0.11
16 12 0.10
17 6 0.05
18 5 0.04
19 6 0.05
20 81 0.66
ACGTcount: A:0.16, C:0.18, G:0.22, T:0.43
Consensus pattern (20 bp):
TTTCGCATTGCGATAGTCAT
Found at i:483353 original size:20 final size:20
Alignment explanation
Indices: 483330--483385 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
483320 TCTGAAACTT
483330 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
483350 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** *
483370 ACTATCGCAACGCGAA
1 AAAATCGCAACACGAA
483386 TTTGACTATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.50, C:0.23, G:0.16, T:0.11
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:483391 original size:20 final size:20
Alignment explanation
Indices: 483333--483401 Score: 84
Period size: 20 Copynumber: 3.5 Consensus size: 20
483323 GAAACTTAAA
* **
483333 ATCGCAACACGAAAATGAAA
1 ATCGCAACGCGAAAATGACT
*
483353 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
483373 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
483393 ATCGCAACG
1 ATCGCAACG
483402 ACAGAATCGC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.42, C:0.25, G:0.17, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:483772 original size:22 final size:22
Alignment explanation
Indices: 483747--483802 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
483737 TGATTTCGCT
483747 GGAGATGGAGACTGATATCGTC
1 GGAGATGGAGACTGATATCGTC
* *
483769 GGAGATGGGGACTGATTTCGTC
1 GGAGATGGAGACTGATATCGTC
483791 GGAGATGGAGAC
1 GGAGATGGAGAC
483803 GGATGTCGCC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.25, C:0.12, G:0.41, T:0.21
Consensus pattern (22 bp):
GGAGATGGAGACTGATATCGTC
Found at i:484021 original size:20 final size:20
Alignment explanation
Indices: 483998--484070 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
483988 CGATAGTCAG
* *
483998 ATTCGCGTTGCGATTTATGT
1 ATTCGCATTGCGATTTACGT
* *
484018 ATTCGCATTACAATTTACGT
1 ATTCGCATTGCGATTTACGT
* *
484038 ATTCGTATTGAGATTTACGT
1 ATTCGCATTGCGATTTACGT
484058 ATTCGCATTGCGA
1 ATTCGCATTGCGA
484071 ATTAGGAAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.41
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:484084 original size:21 final size:21
Alignment explanation
Indices: 484060--484112 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
484050 ATTTACGTAT
*
484060 TCGCATTGCGAATTAGGAAAA
1 TCGCAATGCGAATTAGGAAAA
* *
484081 TCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAATTAGGAAAA
484102 TCGCAATGCGA
1 TCGCAATGCGA
484113 TAGTCAGAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAGGAAAA
Found at i:485755 original size:20 final size:20
Alignment explanation
Indices: 485728--485778 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
485718 AATCAGTTTC
485728 CAAATTCGCAACACAGAAGT
1 CAAATTCGCAACACAGAAGT
*
485748 CAATTTCGCAACACAGAAGT
1 CAAATTCGCAACACAGAAGT
485768 CAAATTCGCAA
1 CAAATTCGCAA
485779 AGCGCATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.43, C:0.25, G:0.14, T:0.18
Consensus pattern (20 bp):
CAAATTCGCAACACAGAAGT
Found at i:485824 original size:21 final size:21
Alignment explanation
Indices: 485799--485951 Score: 195
Period size: 21 Copynumber: 7.4 Consensus size: 21
485789 TTTTCGCAAT
485799 GCGTTGCGATTTTGGAGAACC
1 GCGTTGCGATTTTGGAGAACC
* *
485820 GCGTTGCGAATTT-GAAAACC
1 GCGTTGCGATTTTGGAGAACC
* *
485840 ACGTTGCGATTTTGGAGAATC
1 GCGTTGCGATTTTGGAGAACC
* *
485861 GCGTTGCGAATTT-GAAAACC
1 GCGTTGCGATTTTGGAGAACC
*
485881 GCGTTGCGATTTTGGAGAATC
1 GCGTTGCGATTTTGGAGAACC
*
485902 GCGTTGCGATTTTGGAGAATC
1 GCGTTGCGATTTTGGAGAACC
*
485923 GCGTTGCGATTTTGGA-AACT
1 GCGTTGCGATTTTGGAGAACC
*
485943 GTGTTGCGA
1 GCGTTGCGA
485952 AACTGAAGTT
Statistics
Matches: 114, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
20 44 0.39
21 70 0.61
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (21 bp):
GCGTTGCGATTTTGGAGAACC
Found at i:485857 original size:41 final size:41
Alignment explanation
Indices: 485799--485995 Score: 240
Period size: 41 Copynumber: 4.9 Consensus size: 41
485789 TTTTCGCAAT
*
485799 GCGTTGCGATTTTGGAGAACCGCGTTGCGAATTTGAAAACC
1 GCGTTGCGATTTTGGAGAATCGCGTTGCGAATTTGAAAACC
*
485840 ACGTTGCGATTTTGGAGAATCGCGTTGCGAATTTGAAAACC
1 GCGTTGCGATTTTGGAGAATCGCGTTGCGAATTTGAAAACC
* * *
485881 GCGTTGCGATTTTGGAGAATCGCGTTGCGATTTTGGAGAATC
1 GCGTTGCGATTTTGGAGAATCGCGTTGCGAATTT-GAAAACC
* ** ***
485923 GCGTTGCGATTTTGGA-AA-CTGTGTTGCGAAACTGAAGTTC
1 GCGTTGCGATTTTGGAGAATC-GCGTTGCGAATTTGAAAACC
*
485963 GCGTTGCGAATTT-GAG-ATCGCGTTGCGAATTTG
1 GCGTTGCGATTTTGGAGAATCGCGTTGCGAATTTG
485996 TAGGTTATTT
Statistics
Matches: 135, Mismatches: 17, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
39 14 0.10
40 18 0.13
41 82 0.61
42 21 0.16
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.31
Consensus pattern (41 bp):
GCGTTGCGATTTTGGAGAATCGCGTTGCGAATTTGAAAACC
Found at i:485907 original size:62 final size:62
Alignment explanation
Indices: 485799--485995 Score: 222
Period size: 62 Copynumber: 3.2 Consensus size: 62
485789 TTTTCGCAAT
* * * * *
485799 GCGTTGCGATTTTGGAGAACCGCGTTGCGAATTT-GAAAACCACGTTGCGATTTTGGAGAATC
1 GCGTTGCGAATTT-GAAAACCGCGTTGCGAATTTGGAGAATCGCGTTGCGATTTTGGAGAATC
*
485861 GCGTTGCGAATTTGAAAACCGCGTTGCGATTTTGGAGAATCGCGTTGCGATTTTGGAGAATC
1 GCGTTGCGAATTTGAAAACCGCGTTGCGAATTTGGAGAATCGCGTTGCGATTTTGGAGAATC
* * * * ** * * *
485923 GCGTTGCGATTTTGGAAACTGTGTTGCGAAACTGAAG-TTCGCGTTGCGAATTT-GAG-ATC
1 GCGTTGCGAATTTGAAAACCGCGTTGCGAATTTGGAGAATCGCGTTGCGATTTTGGAGAATC
485982 GCGTTGCGAATTTG
1 GCGTTGCGAATTTG
485996 TAGGTTATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
59 16 0.14
60 3 0.03
61 32 0.27
62 66 0.56
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.31
Consensus pattern (62 bp):
GCGTTGCGAATTTGAAAACCGCGTTGCGAATTTGGAGAATCGCGTTGCGATTTTGGAGAATC
Found at i:485968 original size:20 final size:19
Alignment explanation
Indices: 485945--485991 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
485935 TGGAAACTGT
*
485945 GTTGCGAAACTGAAGTTCGC
1 GTTGCGAAACTG-AGATCGC
**
485965 GTTGCGAATTTGAGATCGC
1 GTTGCGAAACTGAGATCGC
485984 GTTGCGAA
1 GTTGCGAA
485992 TTTGTAGGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (19 bp):
GTTGCGAAACTGAGATCGC
Found at i:486566 original size:21 final size:22
Alignment explanation
Indices: 486522--486567 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
486512 AATAAATAAA
*
486522 TAACAAGTTAGTGGTTTATGGT
1 TAACAAGTTAGTGGTTGATGGT
486544 TAAC-AGTTAGTGGTTAGAT-GT
1 TAACAAGTTAGTGGTT-GATGGT
486565 TAA
1 TAA
486568 TACAGTCCAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.30, C:0.04, G:0.26, T:0.39
Consensus pattern (22 bp):
TAACAAGTTAGTGGTTGATGGT
Found at i:487492 original size:14 final size:14
Alignment explanation
Indices: 487469--487508 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
487459 GTTTTTGTAA
487469 GAAT-GGTGAAGAT
1 GAATCGGTGAAGAT
487482 GAATCGGTGAAGAT
1 GAATCGGTGAAGAT
*
487496 GAATCGGGGAAGA
1 GAATCGGTGAAGA
487509 GTCCTTGCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
13 4 0.16
14 21 0.84
ACGTcount: A:0.38, C:0.05, G:0.40, T:0.17
Consensus pattern (14 bp):
GAATCGGTGAAGAT
Found at i:488141 original size:115 final size:116
Alignment explanation
Indices: 488002--488223 Score: 313
Period size: 116 Copynumber: 1.9 Consensus size: 116
487992 GAACAAGTTC
* * *
488002 TTCTCATTATAAACTTCTTTTCCCTCTTC-AGACGAGTTCTTCTCATTATGAA-CTATCCATTGG
1 TTCTCATTATAAACTTATTCTCCCTCTTCGA-ACGAGTTATTCTCATTATGAACCTATCCATTGG
* *
488065 AAATGATGATCCACCTCATTCTGTGATGGAATCGAGCAAAATGGTAAACAAG
65 AAATGATGATCCACCTCATTCTGCGATGGAATCGAACAAAATGGTAAACAAG
* * **
488117 TTCTCATTATAAACTTATTCTCCCTCTTCGAATGAGTTATTCTCATTATGAACCTCTTTATTGGA
1 TTCTCATTATAAACTTATTCTCCCTCTTCGAACGAGTTATTCTCATTATGAACCTATCCATTGGA
* * *
488182 AATGTTGATCCACCTCCTTCTGCGATTGAATCGAACAAAATG
66 AATGATGATCCACCTCATTCTGCGATGGAATCGAACAAAATG
488224 TTGATGCTTG
Statistics
Matches: 93, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
115 46 0.49
116 47 0.51
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (116 bp):
TTCTCATTATAAACTTATTCTCCCTCTTCGAACGAGTTATTCTCATTATGAACCTATCCATTGGA
AATGATGATCCACCTCATTCTGCGATGGAATCGAACAAAATGGTAAACAAG
Found at i:488328 original size:162 final size:160
Alignment explanation
Indices: 488083--488444 Score: 401
Period size: 159 Copynumber: 2.3 Consensus size: 160
488073 ATCCACCTCA
* * * * *
488083 TTCTGTGATGGAATCGAGCAAAATGGTAAACAAG---TTCTCATTATAAACTTATTCTCCCTCTT
1 TTCTGTGATAGAATCGAGCAAAAGGGTGAACAAGTTCTTCTCATTATAAACATATTCTCCCTATT
* * * * *
488145 CGAATGAGTTATTCTCATTATGAACCTCTTTATTGGAAATGTTGATCCACCTCCTTCTGCGATTG
66 AGAATGAGTTATTCACATTATGAACCTC-TT-TTGGAAATATTAATCCACCTCCTTCTACGA-TG
*
488210 AATCGAACAAAATGTTGATGCTTGATCTATCT-T
128 AATCGAACAAAATGTTGATGC-TGATCTATCTCC
* * * *
488243 TTTTGTGATAGAATCTAGCAAAAGGGTGAACAAGTTCTTCTCATTATGATCAT-TTCTCCCTATT
1 TTCTGTGATAGAATCGAGCAAAAGGGTGAACAAGTTCTTCTCATTATAAACATATTCTCCCTATT
* * * * * **
488307 AGGATGAGTTTTTCACATTATGAACCTCTTTTGGAAATATTAATCTACCTCCTTTTATGATGGTT
66 AGAATGAGTTATTCACATTATGAACCTCTTTTGGAAATATTAATCCACCTCCTTCTACGATGAAT
* *
488372 TGAGCAAAATGTTGATGCTGATCTATCTCC
131 CGAACAAAATGTTGATGCTGATCTATCTCC
** * *
488402 TTCTGCAATAGAGTCGAGCAAAAGGTTGAACAAGTTCTTCTCA
1 TTCTGTGATAGAATCGAGCAAAAGGGTGAACAAGTTCTTCTCA
488445 CTCTTCGGAC
Statistics
Matches: 168, Mismatches: 30, Indels: 9
0.81 0.14 0.04
Matches are distributed among these distances:
158 10 0.06
159 56 0.33
160 53 0.32
161 2 0.01
162 34 0.20
163 13 0.08
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (160 bp):
TTCTGTGATAGAATCGAGCAAAAGGGTGAACAAGTTCTTCTCATTATAAACATATTCTCCCTATT
AGAATGAGTTATTCACATTATGAACCTCTTTTGGAAATATTAATCCACCTCCTTCTACGATGAAT
CGAACAAAATGTTGATGCTGATCTATCTCC
Found at i:491225 original size:10 final size:9
Alignment explanation
Indices: 491160--491225 Score: 53
Period size: 10 Copynumber: 6.7 Consensus size: 9
491150 CCTCTGTTTA
491160 TTTTCTTTT
1 TTTTCTTTT
491169 TTCTT-TTTT
1 TT-TTCTTTT
491178 CTTTTCCTTTT
1 -TTTT-CTTTT
491189 TTTTCCTTTT
1 TTTT-CTTTT
*
491199 TATTCAATTTT
1 TTTTC--TTTT
491210 TTTTCTTTCT
1 TTTTCTTT-T
491220 TTTTCT
1 TTTTCT
491226 ATTTCAGTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
9 12 0.25
10 24 0.50
11 12 0.25
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:491229 original size:21 final size:20
Alignment explanation
Indices: 491160--491225 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 20
491150 CCTCTGTTTA
491160 TTTTCTTTTTTCTTT-TTTCT
1 TTTTCTTTTTT-TTTCTTTCT
* *
491180 TTTCCTTTTTTTTCCTTT-T
1 TTTTCTTTTTTTTTCTTTCT
* *
491199 TATTCAATTTTTTTTCTTTCT
1 TTTTC-TTTTTTTTTCTTTCT
491220 TTTTCT
1 TTTTCT
491226 ATTTCAGTTT
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
19 6 0.17
20 24 0.69
21 5 0.14
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTCTTTTTTTTTCTTTCT
Found at i:505960 original size:17 final size:18
Alignment explanation
Indices: 505938--505977 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
505928 TATCACAAAT
*
505938 ATAAATACTTAAATAAA-
1 ATAAATACATAAATAAAC
*
505955 ATAAATTCATAAATAAAC
1 ATAAATACATAAATAAAC
505973 ATAAA
1 ATAAA
505978 GACCAAAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (18 bp):
ATAAATACATAAATAAAC
Found at i:508100 original size:22 final size:22
Alignment explanation
Indices: 508065--508124 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
508055 TGGCATGTGA
* *
508065 AATATGTCCTGAAGGACCAATG
1 AATATATCCCGAAGGACCAATG
**
508087 AATATATCCCGAAGGACCTGTG
1 AATATATCCCGAAGGACCAATG
**
508109 TCTATATCCCGAAGGA
1 AATATATCCCGAAGGA
508125 TCTATATGAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (22 bp):
AATATATCCCGAAGGACCAATG
Found at i:509541 original size:3 final size:3
Alignment explanation
Indices: 509533--509564 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
509523 ACGTATGAAG
*
509533 GAA GAA GAA GAA GAA GAA GAA GAA GAA TAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
509565 GAATTTAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.00, G:0.31, T:0.03
Consensus pattern (3 bp):
GAA
Found at i:515161 original size:19 final size:21
Alignment explanation
Indices: 515137--515178 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
515127 AACCCGATAT
*
515137 ATCCCTA-AAACCTCTCT-TA
1 ATCCCTACAAAACTCTCTGTA
515156 ATCCCTACAAAACTCTCTGTA
1 ATCCCTACAAAACTCTCTGTA
515177 AT
1 AT
515179 ATAAACCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 9 0.45
21 4 0.20
ACGTcount: A:0.33, C:0.33, G:0.02, T:0.31
Consensus pattern (21 bp):
ATCCCTACAAAACTCTCTGTA
Found at i:516355 original size:22 final size:23
Alignment explanation
Indices: 516327--516373 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
516317 TGAAGGGATG
516327 AATTTATAAAATTTTAAAG-ATA
1 AATTTATAAAATTTTAAAGAATA
*
516349 AATTTATAAAATTTTAGAGAATA
1 AATTTATAAAATTTTAAAGAATA
516372 AA
1 AA
516374 ATTAAATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.38
Consensus pattern (23 bp):
AATTTATAAAATTTTAAAGAATA
Found at i:522279 original size:6 final size:6
Alignment explanation
Indices: 522268--522295 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
522258 TTAAGGGAAT
522268 GAAAAA GAAAAA GAAAAA GAAAAA GAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAA
522296 TGAAGGGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:523004 original size:2 final size:2
Alignment explanation
Indices: 522997--523029 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
522987 ATAATTGTGA
522997 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
523030 CATTGATATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:526269 original size:17 final size:16
Alignment explanation
Indices: 526242--526283 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
526232 TTTTAAAATG
*
526242 TGATTTTCTGA-AATT
1 TGATTTACTGATAATT
526257 TCAGATTTACTGATAATT
1 T--GATTTACTGATAATT
526275 TGATTTACT
1 TGATTTACT
526284 TTTAACTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 1 0.04
16 8 0.35
17 9 0.39
18 5 0.22
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.50
Consensus pattern (16 bp):
TGATTTACTGATAATT
Found at i:526427 original size:96 final size:96
Alignment explanation
Indices: 526290--526470 Score: 272
Period size: 96 Copynumber: 1.9 Consensus size: 96
526280 TACTTTTAAC
* * * * *
526290 TGAACCATGGTTACCTAAAATGTGTTATATGGTTTCTTGTTTTCACAGGAAAATGTAATCGTTCT
1 TGAACCATGGTTAACTAAAATGGGTTATATGGTTTCCTGTTTTCACAGGAAAATATAATCGTTCC
*
526355 TGATTTATGGATTATGGAATTTAATAGTTTA
66 TGATTTATGGATCATGGAATTTAATAGTTTA
* * * *
526386 TGAACTATGGTTAACTGAAATGGGTTATCTGGTTTCCTGTTTTCACTGGAAAATATAATCGTTCC
1 TGAACCATGGTTAACTAAAATGGGTTATATGGTTTCCTGTTTTCACAGGAAAATATAATCGTTCC
526451 TGATTTATGGATCATGGAAT
66 TGATTTATGGATCATGGAAT
526471 CTACTGCTTA
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 75 1.00
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.41
Consensus pattern (96 bp):
TGAACCATGGTTAACTAAAATGGGTTATATGGTTTCCTGTTTTCACAGGAAAATATAATCGTTCC
TGATTTATGGATCATGGAATTTAATAGTTTA
Found at i:529516 original size:14 final size:14
Alignment explanation
Indices: 529499--529540 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
529489 GTCTAAGTCA
*
529499 ACCCATTGACTTTG
1 ACCCGTTGACTTTG
* *
529513 ACCCGTTGGCTTTT
1 ACCCGTTGACTTTG
529527 A-CCGTTGACTTTG
1 ACCCGTTGACTTTG
529540 A
1 A
529541 TCGAAAAGTC
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.17, C:0.26, G:0.19, T:0.38
Consensus pattern (14 bp):
ACCCGTTGACTTTG
Found at i:534411 original size:31 final size:31
Alignment explanation
Indices: 534256--534395 Score: 271
Period size: 31 Copynumber: 4.5 Consensus size: 31
534246 AGGGTCGAGG
534256 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
534287 GTTTACCTATGTTCTTCGGAACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
534318 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
534349 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
534380 GTTTACCTATGTTCTT
1 GTTTACCTATGTTCTT
534396 TGGAATCTAT
Statistics
Matches: 107, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 107 1.00
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:536577 original size:11 final size:11
Alignment explanation
Indices: 536561--536590 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
536551 ATTGTTTCTA
536561 AAACATTCCTT
1 AAACATTCCTT
536572 AAACATTCCTT
1 AAACATTCCTT
536583 AAACATTC
1 AAACATTC
536591 ATTTAATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (11 bp):
AAACATTCCTT
Found at i:540252 original size:59 final size:60
Alignment explanation
Indices: 540167--540289 Score: 194
Period size: 59 Copynumber: 2.1 Consensus size: 60
540157 TAAAGTATGG
*
540167 AAATAGTCCCCCAACTATAGGGTGTTGCTTTGTTGAGT-CATCAACTATTAAAAGTTACA
1 AAATAGTCCCCCAACTATAGGATGTTGCTTTGTTGAGTCCATCAACTATTAAAAGTTACA
* * * *
540226 AAATAGTCCTCCGACTATAGGATGTTGTTTTGTTGCGTCCATCAACTATTAAAAGTTACA
1 AAATAGTCCCCCAACTATAGGATGTTGCTTTGTTGAGTCCATCAACTATTAAAAGTTACA
540286 AAAT
1 AAAT
540290 GATCACATGA
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
59 33 0.57
60 25 0.43
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (60 bp):
AAATAGTCCCCCAACTATAGGATGTTGCTTTGTTGAGTCCATCAACTATTAAAAGTTACA
Found at i:541043 original size:21 final size:19
Alignment explanation
Indices: 541017--541059 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
541007 ACTAAATGTT
* *
541017 TTTAAAAAATTTAATTTTG
1 TTTATAAAATTTAATATTG
*
541036 TTTATAAATTTTAATATTG
1 TTTATAAAATTTAATATTG
541055 TTTAT
1 TTTAT
541060 GCTTTAGTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (19 bp):
TTTATAAAATTTAATATTG
Found at i:544050 original size:26 final size:28
Alignment explanation
Indices: 544021--544091 Score: 83
Period size: 30 Copynumber: 2.5 Consensus size: 28
544011 TCATTTCATA
*
544021 GCTTGATGGTA-TC-CAATCATTCCTGG
1 GCTTGATGATATTCTCAATCATTCCTGG
*
544047 GCTTGGTGATATTCTTTCAATCATTCCTGG
1 GCTTGATGATATTC--TCAATCATTCCTGG
*
544077 GCTTGGTGATATTCT
1 GCTTGATGATATTCT
544092 TGGGTCATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
26 9 0.23
27 2 0.05
28 1 0.03
30 27 0.69
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.41
Consensus pattern (28 bp):
GCTTGATGATATTCTCAATCATTCCTGG
Found at i:544068 original size:30 final size:30
Alignment explanation
Indices: 544034--544092 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
544024 TGATGGTATC
544034 CAATCATTCCTGGGCTTGGTGATATTCTTT
1 CAATCATTCCTGGGCTTGGTGATATTCTTT
544064 CAATCATTCCTGGGCTTGGTGATATTCTT
1 CAATCATTCCTGGGCTTGGTGATATTCTT
544093 GGGTCATTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.42
Consensus pattern (30 bp):
CAATCATTCCTGGGCTTGGTGATATTCTTT
Found at i:548316 original size:2 final size:2
Alignment explanation
Indices: 548309--548336 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
548299 TACGTTATTA
548309 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
548337 TTACTTTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:548387 original size:27 final size:27
Alignment explanation
Indices: 548352--548433 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 27
548342 TTGATTTTCA
* * * *
548352 TATTCTTTATAATTTCTTTTATTTTTGT
1 TATTATTTATTATTACTATTATTTTT-T
548380 T-TTATTTATTTATTACTATTATTTTTT
1 TATTATTTA-TTATTACTATTATTTTTT
*
548407 TATTACTTATTATTACTATTATTTTTT
1 TATTATTTATTATTACTATTATTTTTT
548434 ATACCTTGTT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
27 26 0.55
28 21 0.45
ACGTcount: A:0.22, C:0.06, G:0.01, T:0.71
Consensus pattern (27 bp):
TATTATTTATTATTACTATTATTTTTT
Found at i:548403 original size:17 final size:18
Alignment explanation
Indices: 548381--548420 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
548371 TATTTTTGTT
548381 TTATTTATTTATTAC-TA
1 TTATTTATTTATTACTTA
*
548398 TTATTTTTTTATTACTTA
1 TTATTTATTTATTACTTA
548416 TTATT
1 TTATT
548421 ACTATTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (18 bp):
TTATTTATTTATTACTTA
Found at i:549485 original size:24 final size:24
Alignment explanation
Indices: 549453--549507 Score: 110
Period size: 24 Copynumber: 2.3 Consensus size: 24
549443 CTAGGAAGTA
549453 GCCTTCGGGATTCATATACCTTAT
1 GCCTTCGGGATTCATATACCTTAT
549477 GCCTTCGGGATTCATATACCTTAT
1 GCCTTCGGGATTCATATACCTTAT
549501 GCCTTCG
1 GCCTTCG
549508 TGTGAATTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.36
Consensus pattern (24 bp):
GCCTTCGGGATTCATATACCTTAT
Found at i:559542 original size:19 final size:19
Alignment explanation
Indices: 559518--559567 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
559508 GGGAGCCGTT
559518 TGAGCCGAGCCGTTTGAGC
1 TGAGCCGAGCCGTTTGAGC
*
559537 TGAGCCGAGCCGTTTTAGC
1 TGAGCCGAGCCGTTTGAGC
559556 TGAGCCGAGCCG
1 TGAGCCGAGCCG
559568 AGCCGCCTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.16, C:0.28, G:0.36, T:0.20
Consensus pattern (19 bp):
TGAGCCGAGCCGTTTGAGC
Found at i:559562 original size:14 final size:14
Alignment explanation
Indices: 559510--559543 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
559500 GAAGCATGGG
559510 GAGCCGTTTGAGCC
1 GAGCCGTTTGAGCC
*
559524 GAGCCGTTTGAGCT
1 GAGCCGTTTGAGCC
559538 GAGCCG
1 GAGCCG
559544 AGCCGTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.15, C:0.26, G:0.38, T:0.21
Consensus pattern (14 bp):
GAGCCGTTTGAGCC
Found at i:560925 original size:18 final size:18
Alignment explanation
Indices: 560899--560933 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
560889 TCGAAAGGAC
*
560899 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
560917 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
560934 CCGGATGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:564641 original size:19 final size:19
Alignment explanation
Indices: 564630--564698 Score: 129
Period size: 19 Copynumber: 3.6 Consensus size: 19
564620 CCGAGCCGTT
564630 TGAGCCGAGCCGTTTGAGC
1 TGAGCCGAGCCGTTTGAGC
564649 TGAGCCGAGCCGTTTGAGC
1 TGAGCCGAGCCGTTTGAGC
*
564668 TGAGCCGAGCCGTTTTAGC
1 TGAGCCGAGCCGTTTGAGC
564687 TGAGCCGAGCCG
1 TGAGCCGAGCCG
564699 AGCCGCCTAG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 49 1.00
ACGTcount: A:0.16, C:0.28, G:0.36, T:0.20
Consensus pattern (19 bp):
TGAGCCGAGCCGTTTGAGC
Found at i:564674 original size:14 final size:14
Alignment explanation
Indices: 564608--564655 Score: 87
Period size: 14 Copynumber: 3.4 Consensus size: 14
564598 GAAGCATGGG
564608 GAGCCGTTTGAGCC
1 GAGCCGTTTGAGCC
564622 GAGCCGTTTGAGCC
1 GAGCCGTTTGAGCC
*
564636 GAGCCGTTTGAGCT
1 GAGCCGTTTGAGCC
564650 GAGCCG
1 GAGCCG
564656 AGCCGTTTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.15, C:0.27, G:0.38, T:0.21
Consensus pattern (14 bp):
GAGCCGTTTGAGCC
Done.