Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007108.1 Hibiscus syriacus cultivar Beakdansim tig00018574_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: 126628
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.34
Found at i:3519 original size:22 final size:21
Alignment explanation
Indices: 3477--3516 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
3467 GAGTTTATTT
*
3477 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
3498 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
3517 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:6979 original size:26 final size:25
Alignment explanation
Indices: 6930--6980 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
6920 GAAAGAAAAT
*
6930 AAAAAGAAGAGAAAAAATTTCAAAG
1 AAAAAGAAGAGAAAAAATTGCAAAG
* *
6955 AAAAAGAAGTGAAGAAAGTTGCAAAG
1 AAAAAGAAGAGAA-AAAATTGCAAAG
6981 TACACTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.63, C:0.04, G:0.22, T:0.12
Consensus pattern (25 bp):
AAAAAGAAGAGAAAAAATTGCAAAG
Found at i:10607 original size:15 final size:15
Alignment explanation
Indices: 10587--10625 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
10577 CATCTCCATT
10587 TCAACATCAACACCA
1 TCAACATCAACACCA
10602 TCAACATCAACACCA
1 TCAACATCAACACCA
10617 TCAACATCA
1 TCAACATCA
10626 TCCATCAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.15
Consensus pattern (15 bp):
TCAACATCAACACCA
Found at i:27885 original size:421 final size:412
Alignment explanation
Indices: 27110--27910 Score: 1347
Period size: 421 Copynumber: 1.9 Consensus size: 412
27100 ATATCAATTG
* *
27110 GATACTGATAAGTATTAATACATGATTGTCTAGACATTGATCGAAAGCAATGTTCGGATAGGTCG
1 GATACTGATAAGTATTAATACATGATTGTCTAGACATAGATCGAAAGCAAAGTTCGGATAGGTCG
* *
27175 TCAGAGTAAGTTACGCAAGAAAGAGAAAGAGCTTGGTAGTGTTATTGGTACATGGTATGAAGTGT
66 TCAGAGTAAGATACGCAAGAAAGAGAAAGAGCTTGGTAGTGTTATTGGTACATGGTATGAAGTGA
*
27240 AGTTATGTTAAGGAATTATGACTTGCGAGAAGTCTAATTCTGATATTAGGTAATATGAGTACTAG
131 AGTTATGTTAAGGAATTATGACTTGCGAGAAGTCTAATTCTGATATTAGGTAATATGAGTACCAG
* *
27305 ATGTAAGCAGGTAGTGATATGATGTTTAGAGAAATTCGAGTCTATGGATATGTTGAGATGTAATT
196 ATGTAAGCAGGTAGTGATATGATGTTCAGAGAAATTCGAGTCTATGCATATGTTGAGATGTAATT
* * *
27370 GCTTCTCTATGTTTGTGATCTAGGTGAATATGCCTTGTTACATTACATTTTATGAGATGTGTGTT
261 GCCTCTCTATGTTTGTGATCTAGGTGAATATGCCTTGTTACATTACATGTTATGAGATATGTGTT
27435 GTATGATAGTGATCTATGAGATATTGATAATAAGTCATAAGATTACATGCATATGAGAAAAAGGT
326 GTATGATAGTGATCTATGAGATATTGATAATAAGTCATAAGATTACATGCATATGAGAAAAAGGT
27500 ATATGTGAACTATATGAAATGT
391 ATATGTGAACTATATGAAATGT
27522 GATACTGATAAGTATTAATACATGATTGTGC-AGACATAGATCGAAAGCAAAGTTCGGATAGGTC
1 GATACTGATAAGTATTAATACATGATTGT-CTAGACATAGATCGAAAGCAAAGTTCGGATAGGTC
27586 GTCAGAGTAAGATACGCAAGAAAGAGAAAGAGCTTGGTAGTGTTATTGGTGATCAGGTGAGTACA
65 GTCAGAGTAAGATACGCAAGAAAGAGAAAGAGCTTGGTAGTGTTATTGGT-A-CA--TG-GT--A
* * *
27651 TGATA-TGAAGTGTA-GTTATGTTAATTATGAGTTGCGAGAAGTCTAATTCTGATATTAGGTAAT
123 TGA-AGTGAAGT-TATGTTAAG-GAATTATGACTTGCGAGAAGTCTAATTCTGATATTAGGTAAT
27714 ATGAGTACCCAGATGTAAGCAGGTAGTGATATGATGTTCAGAGAAATTCGAGTCTATGCATATGT
185 ATGAGTA-CCAGATGTAAGCAGGTAGTGATATGATGTTCAGAGAAATTCGAGTCTATGCATATGT
*
27779 TGAGATGTAATTGCCTCTCTATGTTTGTGATCTAGGTGAATATGCCTTGTTGCATTACATGTTAT
249 TGAGATGTAATTGCCTCTCTATGTTTGTGATCTAGGTGAATATGCCTTGTTACATTACATGTTAT
27844 GAGATATGTGTTGTATGATAGTGATCTATGAGATATTGATAATAAGTCATAAGATTACATGCATA
314 GAGATATGTGTTGTATGATAGTGATCTATGAGATATTGATAATAAGTCATAAGATTACATGCATA
27909 TG
379 TG
27911 TAATATAAGT
Statistics
Matches: 363, Mismatches: 14, Indels: 15
0.93 0.04 0.04
Matches are distributed among these distances:
412 109 0.30
413 2 0.01
414 2 0.01
416 2 0.01
417 2 0.01
419 14 0.04
420 50 0.14
421 182 0.50
ACGTcount: A:0.33, C:0.09, G:0.25, T:0.34
Consensus pattern (412 bp):
GATACTGATAAGTATTAATACATGATTGTCTAGACATAGATCGAAAGCAAAGTTCGGATAGGTCG
TCAGAGTAAGATACGCAAGAAAGAGAAAGAGCTTGGTAGTGTTATTGGTACATGGTATGAAGTGA
AGTTATGTTAAGGAATTATGACTTGCGAGAAGTCTAATTCTGATATTAGGTAATATGAGTACCAG
ATGTAAGCAGGTAGTGATATGATGTTCAGAGAAATTCGAGTCTATGCATATGTTGAGATGTAATT
GCCTCTCTATGTTTGTGATCTAGGTGAATATGCCTTGTTACATTACATGTTATGAGATATGTGTT
GTATGATAGTGATCTATGAGATATTGATAATAAGTCATAAGATTACATGCATATGAGAAAAAGGT
ATATGTGAACTATATGAAATGT
Found at i:31762 original size:21 final size:21
Alignment explanation
Indices: 31736--31814 Score: 113
Period size: 21 Copynumber: 3.8 Consensus size: 21
31726 TGTGTTATAT
* *
31736 GTGGTCCTTTGGGACATCTAA
1 GTGGTCATTCGGGACATCTAA
31757 GTGGTCATTCGGGACATCTAA
1 GTGGTCATTCGGGACATCTAA
* * *
31778 GTGGTCCTTCAGGACATTTAA
1 GTGGTCATTCGGGACATCTAA
31799 GTGGTCATTCGGGACA
1 GTGGTCATTCGGGACA
31815 AATTCTACGT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (21 bp):
GTGGTCATTCGGGACATCTAA
Found at i:37370 original size:24 final size:24
Alignment explanation
Indices: 37338--37395 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
37328 ACCACGTGCA
37338 AGACACCAATCAAGAAGCATGGCC
1 AGACACCAATCAAGAAGCATGGCC
37362 AGACACCAATCAAGAAGCATGGCC
1 AGACACCAATCAAGAAGCATGGCC
*
37386 AGAAACCAAT
1 AGACACCAAT
37396 TAGATCATCG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.45, C:0.28, G:0.19, T:0.09
Consensus pattern (24 bp):
AGACACCAATCAAGAAGCATGGCC
Found at i:39986 original size:20 final size:20
Alignment explanation
Indices: 39955--40001 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
39945 CGGTCATCCA
*
39955 ATTTTATAAACCTCAGACCGG
1 ATTTT-TAAACCCCAGACCGG
*
39976 ATTTTTAAACCCCATACCGG
1 ATTTTTAAACCCCAGACCGG
39996 ATTTTT
1 ATTTTT
40002 TTCCGGATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (20 bp):
ATTTTTAAACCCCAGACCGG
Found at i:46467 original size:2 final size:2
Alignment explanation
Indices: 46460--46515 Score: 59
Period size: 2 Copynumber: 30.0 Consensus size: 2
46450 ATAAATTACA
*
46460 AT AT AT AT A- AT ACT AT -T AT CT A- AT AT -T AT A- AT AT AT AT
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
46498 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
46516 TTATTTACAT
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
1 5 0.11
2 39 0.85
3 2 0.04
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:47769 original size:17 final size:17
Alignment explanation
Indices: 47731--47772 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
47721 TATACTTTTA
*
47731 ATATTTTATTTATACGT
1 ATATTTTATTTATACAT
*
47748 CTATTATTATTT-TACAT
1 ATATT-TTATTTATACAT
47765 ATATTTTA
1 ATATTTTA
47773 ATCACTTGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
16 3 0.14
17 12 0.57
18 6 0.29
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (17 bp):
ATATTTTATTTATACAT
Found at i:47864 original size:18 final size:18
Alignment explanation
Indices: 47843--47889 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
47833 TTTATTTATT
47843 TATTTTAATTTTCTTCTC
1 TATTTTAATTTTCTTCTC
* *
47861 TATTTTAATTTTTTTCTT
1 TATTTTAATTTTCTTCTC
*
47879 TATTTTTATTT
1 TATTTTAATTT
47890 CCTTGAGGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74
Consensus pattern (18 bp):
TATTTTAATTTTCTTCTC
Found at i:48003 original size:5 final size:6
Alignment explanation
Indices: 47970--48019 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
47960 TGTGTTTTAC
*
47970 TTATTT ATTATTTCT TTATTT TTATTT TTATTT TTA--T TCATTT TTATTT
1 TTATTT -TTA-TT-T TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT
48019 T
1 T
48020 CTTTATCTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
4 3 0.08
6 23 0.62
7 5 0.14
8 5 0.14
9 1 0.03
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (6 bp):
TTATTT
Found at i:48015 original size:22 final size:20
Alignment explanation
Indices: 47970--48019 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 20
47960 TGTGTTTTAC
47970 TTATTTATTATTTCTTTATTT
1 TTATTT-TTATTTCTTTATTT
*
47991 TTATTTTTATTTTTATTCATTT
1 TTATTTTTATTTCT-TT-ATTT
48013 TTATTTT
1 TTATTTT
48020 CTTTATCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 7 0.27
21 8 0.31
22 11 0.42
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (20 bp):
TTATTTTTATTTCTTTATTT
Found at i:54072 original size:13 final size:13
Alignment explanation
Indices: 54054--54094 Score: 82
Period size: 13 Copynumber: 3.2 Consensus size: 13
54044 AATCAAATAG
54054 GATTGTTATATGA
1 GATTGTTATATGA
54067 GATTGTTATATGA
1 GATTGTTATATGA
54080 GATTGTTATATGA
1 GATTGTTATATGA
54093 GA
1 GA
54095 AATGGTTTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (13 bp):
GATTGTTATATGA
Found at i:70589 original size:17 final size:17
Alignment explanation
Indices: 70569--70621 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
70559 TTTTATGATC
70569 AAAATAAGATAATATCT
1 AAAATAAGATAATATCT
* *
70586 AAAAT---TTTATGATC-
1 AAAATAAGATAAT-ATCT
70600 AAAATAAGATAATATCT
1 AAAATAAGATAATATCT
70617 AAAAT
1 AAAAT
70622 TTGATGACTA
Statistics
Matches: 27, Mismatches: 4, Indels: 10
0.66 0.10 0.24
Matches are distributed among these distances:
14 8 0.30
15 3 0.11
16 3 0.11
17 13 0.48
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.32
Consensus pattern (17 bp):
AAAATAAGATAATATCT
Found at i:70595 original size:31 final size:31
Alignment explanation
Indices: 70557--70628 Score: 135
Period size: 31 Copynumber: 2.3 Consensus size: 31
70547 TCTTTTTCAT
70557 AATTTTATGATCAAAATAAGATAATATCTAA
1 AATTTTATGATCAAAATAAGATAATATCTAA
70588 AATTTTATGATCAAAATAAGATAATATCTAA
1 AATTTTATGATCAAAATAAGATAATATCTAA
*
70619 AATTTGATGA
1 AATTTTATGA
70629 CTAATAATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.36
Consensus pattern (31 bp):
AATTTTATGATCAAAATAAGATAATATCTAA
Found at i:71146 original size:29 final size:29
Alignment explanation
Indices: 71100--71186 Score: 138
Period size: 29 Copynumber: 3.0 Consensus size: 29
71090 TGCTTTGTTG
*
71100 ATTCTTCCAACTTTTAAAAGTTATAAAATA
1 ATTCTT-CAACTTTTAAAAGTTACAAAATA
*
71130 ATTCTTCAAATTTTAAAAGTTACAAAATA
1 ATTCTTCAACTTTTAAAAGTTACAAAATA
*
71159 ATACTTCAACTTTTAAAAGTTACAAAAT
1 ATTCTTCAACTTTTAAAAGTTACAAAAT
71187 GATCCTTTGA
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 47 0.89
30 6 0.11
ACGTcount: A:0.46, C:0.13, G:0.03, T:0.38
Consensus pattern (29 bp):
ATTCTTCAACTTTTAAAAGTTACAAAATA
Found at i:73088 original size:18 final size:19
Alignment explanation
Indices: 73062--73124 Score: 74
Period size: 18 Copynumber: 3.3 Consensus size: 19
73052 GTTATAATAA
73062 AATATTAATTATGATAATT
1 AATATTAATTATGATAATT
* **
73081 AA-ATTAATAAACATAATT
1 AATATTAATTATGATAATT
73099 AATATATTAATTATGATAATT
1 -A-ATATTAATTATGATAATT
73120 AATAT
1 AATAT
73125 ACTTTATATT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 13 0.37
19 7 0.20
20 2 0.06
21 13 0.37
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (19 bp):
AATATTAATTATGATAATT
Found at i:73109 original size:21 final size:21
Alignment explanation
Indices: 73083--73125 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
73073 TGATAATTAA
73083 ATTAATAAACATAATTAATAT
1 ATTAATAAACATAATTAATAT
* **
73104 ATTAATTATGATAATTAATAT
1 ATTAATAAACATAATTAATAT
73125 A
1 A
73126 CTTTATATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
ATTAATAAACATAATTAATAT
Found at i:73158 original size:22 final size:22
Alignment explanation
Indices: 73129--73322 Score: 84
Period size: 22 Copynumber: 9.2 Consensus size: 22
73119 TAATATACTT
73129 TATA-TTTAATACTTATATTTA
1 TATACTTTAATACTTATATTTA
73150 TATACTTTAATACTTTATATTTA
1 TATACTTTAATAC-TTATATTTA
* *
73173 -ATGC-TT-ATATTATATAGTTTA
1 TATACTTTAATACT-TATA-TTTA
73194 -ATACTTT-ATA-TTATATACTT-
1 TATACTTTAATACTTATAT--TTA
73214 TAGTAC-TTATATACTTTATATTTA
1 TA-TACTTTA-ATAC-TTATATTTA
73238 -ATAC-TT-ATA-TT-TA--TA
1 TATACTTTAATACTTATATTTA
* **
73253 T--ACTTTAATACTTAAATCCA
1 TATACTTTAATACTTATATTTA
* *
73273 AAAACTTTAATACTTTATATTATA
1 TATACTTTAATAC-TTATATT-TA
*
73297 TATATTTTAATACTT-TATATTA
1 TATACTTTAATACTTATAT-TTA
73319 TATA
1 TATA
73323 GTGTATATAT
Statistics
Matches: 135, Mismatches: 12, Indels: 51
0.68 0.06 0.26
Matches are distributed among these distances:
14 2 0.01
15 4 0.03
16 3 0.02
17 4 0.03
18 3 0.02
19 2 0.01
20 15 0.11
21 19 0.14
22 43 0.32
23 23 0.17
24 11 0.08
25 6 0.04
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.53
Consensus pattern (22 bp):
TATACTTTAATACTTATATTTA
Found at i:73164 original size:36 final size:36
Alignment explanation
Indices: 73123--73265 Score: 185
Period size: 36 Copynumber: 4.2 Consensus size: 36
73113 GATAATTAAT
73123 ATACTTTATATTTAATACTTATATTTATATACTTTA
1 ATACTTTATATTTAATACTTATATTTATATACTTTA
* *
73159 ATACTTTATATTTAATGCTTATA-TTATATAGTTTA
1 ATACTTTATATTTAATACTTATATTTATATACTTTA
* *
73194 ATACTTTATA-TT-ATA--TA-CTTTA-GTAC-TTA
1 ATACTTTATATTTAATACTTATATTTATATACTTTA
73223 TATACTTTATATTTAATACTTATATTTATATACTTTA
1 -ATACTTTATATTTAATACTTATATTTATATACTTTA
73260 ATACTT
1 ATACTT
73266 AAATCCAAAA
Statistics
Matches: 90, Mismatches: 8, Indels: 18
0.78 0.07 0.16
Matches are distributed among these distances:
29 3 0.03
30 12 0.13
31 7 0.08
32 3 0.03
33 2 0.02
34 4 0.04
35 25 0.28
36 31 0.34
37 3 0.03
ACGTcount: A:0.35, C:0.08, G:0.02, T:0.55
Consensus pattern (36 bp):
ATACTTTATATTTAATACTTATATTTATATACTTTA
Found at i:73282 original size:44 final size:44
Alignment explanation
Indices: 73190--73311 Score: 131
Period size: 44 Copynumber: 2.7 Consensus size: 44
73180 TATTATATAG
* * *** *
73190 TTTAATACTT-TATATTATATACTTTAGTACTTATATACTTTATA
1 TTTAATACTTATAT-TTATATACTTTAATACTTAAATACCAAAAA
73234 TTTAATACTTATATTTATATACTTTAATACTTAAAT-CCAAAAA
1 TTTAATACTTATATTTATATACTTTAATACTTAAATACCAAAAA
*
73277 CTTTAATACTTTATATTATATATATTTTAATACTT
1 -TTTAATAC-TTATATT-TATATACTTTAATACTT
73312 TATATTATAT
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
43 3 0.04
44 38 0.57
45 10 0.15
46 16 0.24
ACGTcount: A:0.38, C:0.10, G:0.01, T:0.52
Consensus pattern (44 bp):
TTTAATACTTATATTTATATACTTTAATACTTAAATACCAAAAA
Found at i:73299 original size:65 final size:65
Alignment explanation
Indices: 73146--73322 Score: 189
Period size: 65 Copynumber: 2.6 Consensus size: 65
73136 AATACTTATA
* * * * * *
73146 TTTATATACTTTAATACTTTATATTTAATGCTTATA-TTATATAGTTTAATACTTTATATTATAT
1 TTTA-ATACTTT-ATACTTTATATTTAATACTTATATTTATATACTTTAATACTTTAAATCAAAA
73210 AC
64 AC
*
73212 TTTAGTACTTATATACTTTATATTTAATACTTATATTTATATACTTTAATAC-TTAAATCCAAAA
1 TTTAATACTT-TATACTTTATATTTAATACTTATATTTATATACTTTAATACTTTAAAT-CAAAA
73276 AC
64 AC
*
73278 TTTAATACTTTATATTATATATATTTTAATACTT-TATATTATATA
1 TTTAATACTTTATACT-T-TATA-TTTAATACTTATAT-TTATATA
73323 GTGTATATAT
Statistics
Matches: 95, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
65 37 0.39
66 34 0.36
67 7 0.07
68 17 0.18
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.53
Consensus pattern (65 bp):
TTTAATACTTTATACTTTATATTTAATACTTATATTTATATACTTTAATACTTTAAATCAAAAAC
Found at i:73985 original size:25 final size:24
Alignment explanation
Indices: 73938--73984 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
73928 TTGATGAGGG
*
73938 ATGAAATTGAATTAATTATAAAAT
1 ATGAAACTGAATTAATTATAAAAT
73962 ATGAAACTGATATTAA-TATAAAA
1 ATGAAACTGA-ATTAATTATAAAA
73985 AATGGACTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.55, C:0.02, G:0.09, T:0.34
Consensus pattern (24 bp):
ATGAAACTGAATTAATTATAAAAT
Found at i:74294 original size:525 final size:514
Alignment explanation
Indices: 73293--74339 Score: 1615
Period size: 525 Copynumber: 2.0 Consensus size: 514
73283 TACTTTATAT
* *
73293 TATATATATTTTAATACTTTATATTATATAGTGTATATATATATATAAAGTACCAAATTGAACAA
1 TATATATATTATAATACTTTATATTATATAGTGTATATATATATATAAAGAACCAAATTGAACAA
**
73358 ACTTGAAATTGGAAATAAAAAATTGAATAAATTAAACAACATGCATTGATGAGGGATGAAATTGA
66 ACTTGAAATTGGAAATAAAAAATTGAATAAATTAAACAACACACATTGATGAGGGATGAAATTGA
* * *
73423 ATTAATTATAAAATGTGAAGCTGATATTAATATAAAAATGGACTAAATTGTATACATTTAAAAAG
131 ATTAATTATAAAATATGAAACTGATATTAATATAAAAATGGACTAAATTGCATACATTTAAAAAG
* * *
73488 TTGTTGAACATAATTTGAAAAGAAATTTATTATGTAATTTACATTTTATAGGGTTTTAAGTAAAT
196 TTGGTGAACATAATTTGAAAAGAAAATTATTATGTAATTTACATTTGATAGGGTTTTAAGTAAAT
* * *
73553 TACAAAAATATAAATAAGTATGGGTTAATTTCATATACAAATATAATTTGAAGGATTAAATTAAA
261 TACAAAAATATAAATAAGTATGGGTCAATTTCATATAAAAATATAATTTGAAGGACTAAATTAAA
* * *
73618 ACATATGTAATTAAAAATTAAAATCTAAATAAAATAAAAAACATAAAAGGATCAAATCAAAGAAA
326 ACATATGAAATTAAAAATTAAAATCAAAATAAAATAAAAAACATAAAAGGATCAAATCAAAAAAA
73683 TTGTAAAATGTGAGGAAAAATTGTAAAATGGACTGAATTGCATTAATTTCAAAAGTTGGGAAAAT
391 TTGTAAAATGTGAGGAAAAATTGTAAAATGGACTGAATTGCATTAATTTCAAAAGTTGGGAAAAT
*
73748 TAAAACAATTTATATATATATATATATATAATAATATGTATAATGAATGTTGTGATAATATGATG
456 TAAAAC------TATAT-TATA-ATATAT-ATAATATGTATAATGAATGTT-AGATAATATGATG
73813 CATG
511 CATG
* *
73817 TATATATATATATATATAC-TTATACTT-TATAGTTTATATATGTATATAAAGAACCAAATTGAA
1 TATATATAT-TATA-ATACTTTATA-TTATATAGTGTATATATATATATAAAGAACCAAATTGAA
* *
73880 CAAA-TATGAAATTGGAAATAAAATATTGAATAAATTAAACAACCCACATTGATGAGGGATGAAA
63 CAAACT-TGAAATTGGAAATAAAAAATTGAATAAATTAAACAACACACATTGATGAGGGATGAAA
73944 TTGAATTAATTATAAAATATGAAACTGATATTAATATAAAAAATGGACTAAATTGCATACATTTA
127 TTGAATTAATTATAAAATATGAAACTGATATTAATAT-AAAAATGGACTAAATTGCATACATTTA
*
74009 AAAAGTTGGTGAACATAATTT-AAAA-AAAATTATTATGTGATTTACATTTGATAGGGTTTTAAG
191 AAAAGTTGGTGAACATAATTTGAAAAGAAAATTATTATGTAATTTACATTTGATAGGGTTTTAAG
74072 TAAATTACAAAAATATAAATAAGTATGGGTCAATTTCATATAAAAATATAATTTGAAGGACTAAA
256 TAAATTACAAAAATATAAATAAGTATGGGTCAATTTCATATAAAAATATAATTTGAAGGACTAAA
* * *
74137 TTCAACAA-ATATGAAATTACAAATTAAAATCAAAATACAATAAACAACATAAAAGGATCAAATC
321 TT-AA-AACATATGAAATTAAAAATTAAAATCAAAATAAAATAAAAAACATAAAAGGATCAAATC
* * *
74201 AAAAAAATTGTAAAATGTGAGGAAAATTTGTAAAATGGATTGAATTGCATTAATTTCAAACGTTG
384 AAAAAAATTGTAAAATGTGAGGAAAAATTGTAAAATGGACTGAATTGCATTAATTTCAAAAGTT-
74266 GGGGAAAATTAAAAC-A-ATTATAATATATATAATATGTATAATGAATGTTAGATAATATGATGC
448 -GGGAAAATTAAAACTATATTATAATATATATAATATGTATAATGAATGTTAGATAATATGATGC
74329 ATG
512 ATG
74332 TATATATA
1 TATATATA
74340 ATGTACATTA
Statistics
Matches: 486, Mismatches: 28, Indels: 27
0.90 0.05 0.05
Matches are distributed among these distances:
515 24 0.05
516 21 0.04
517 6 0.01
518 4 0.01
519 2 0.00
520 1 0.00
524 109 0.22
525 251 0.52
526 54 0.11
527 14 0.03
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.33
Consensus pattern (514 bp):
TATATATATTATAATACTTTATATTATATAGTGTATATATATATATAAAGAACCAAATTGAACAA
ACTTGAAATTGGAAATAAAAAATTGAATAAATTAAACAACACACATTGATGAGGGATGAAATTGA
ATTAATTATAAAATATGAAACTGATATTAATATAAAAATGGACTAAATTGCATACATTTAAAAAG
TTGGTGAACATAATTTGAAAAGAAAATTATTATGTAATTTACATTTGATAGGGTTTTAAGTAAAT
TACAAAAATATAAATAAGTATGGGTCAATTTCATATAAAAATATAATTTGAAGGACTAAATTAAA
ACATATGAAATTAAAAATTAAAATCAAAATAAAATAAAAAACATAAAAGGATCAAATCAAAAAAA
TTGTAAAATGTGAGGAAAAATTGTAAAATGGACTGAATTGCATTAATTTCAAAAGTTGGGAAAAT
TAAAACTATATTATAATATATATAATATGTATAATGAATGTTAGATAATATGATGCATG
Found at i:74446 original size:27 final size:25
Alignment explanation
Indices: 74408--74596 Score: 112
Period size: 27 Copynumber: 7.6 Consensus size: 25
74398 TTAAATATAC
*
74408 ATATATAAAAAGAGTATAAGTATAAGT
1 ATATATATAAAGA-TA-AAGTATAAGT
* *
74435 ATATATATAAAGTGTAAACTATAAAGT
1 ATATATATAAAG-ATAAAGTAT-AAGT
* * *
74462 ATATATAATATATATAAAAACTATAAG-
1 ATATAT-ATA-A-AGATAAAGTATAAGT
**
74489 ATATATAT-AATTTAAAGTATAAAGT
1 ATATATATAAAGATAAAGTAT-AAGT
* *
74514 ATATATATATATATAAAGTATAAGT
1 ATATATATAAAGATAAAGTATAAGT
74539 ATAT-TAT-AAG-T-AAGTAT-A-T
1 ATATATATAAAGATAAAGTATAAGT
*
74558 ATATATA-AAATATAAAGTAT-A-T
1 ATATATATAAAGATAAAGTATAAGT
*
74580 ATACATATAAAGTATAA
1 ATATATATAAAG-ATAA
74597 GCATATATAT
Statistics
Matches: 132, Mismatches: 16, Indels: 31
0.74 0.09 0.17
Matches are distributed among these distances:
19 5 0.04
20 5 0.04
21 7 0.05
22 15 0.11
23 12 0.09
24 11 0.08
25 16 0.12
26 17 0.13
27 29 0.22
28 6 0.05
29 8 0.06
30 1 0.01
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.35
Consensus pattern (25 bp):
ATATATATAAAGATAAAGTATAAGT
Found at i:74466 original size:29 final size:29
Alignment explanation
Indices: 74422--74762 Score: 124
Period size: 26 Copynumber: 11.9 Consensus size: 29
74412 ATAAAAAGAG
*
74422 TATAAGTATAAGTATATATATAAAGTGTAAAC
1 TATAAGTAT-A-TATA-ATATAAAGTATAAAC
* *
74454 TATAAAGTATATATAATATATA-TAAAAAC
1 TAT-AAGTATATATAATATAAAGTATAAAC
* *
74483 TATAAGATATATATAATTTAAAGTATAAAG
1 TATAAG-TATATATAATATAAAGTATAAAC
*
74513 TAT-A-TATATAT-ATATAAAGTAT-AAG
1 TATAAGTATATATAATATAAAGTATAAAC
* *
74538 TAT-ATTATA-AGTAAGTATATATA-TATAAAA
1 TATAAGTATATA-TAA-TATA-A-AGTATAAAC
*
74568 TATAAAGTATATATACATATAAAGTATAAGC
1 TAT-AAGTATATATA-ATATAAAGTATAAAC
**
74599 -AT-A-TATATA-AAGT-TTTAGTATAAAGTGTC
1 TATAAGTATATATAA-TATAAAGTATAAA----C
* *
74628 TATAGGTATATAATAATATAAAGTATATA-
1 TATAAGTATAT-ATAATATAAAGTATAAAC
* *
74657 TGT-A-TATATATAAACTATAAAGTATATA-
1 TATAAGTATATAT-AA-TATAAAGTATAAAC
*
74685 TATAAAGT-T-T-TAGTATAAAGTAT--A-
1 TAT-AAGTATATATAATATAAAGTATAAAC
*
74709 TATACA-TATATAATAATATAAAGTAT-AAG
1 TATA-AGTATAT-ATAATATAAAGTATAAAC
* *
74738 TAT-ATTATATAT-ATAAAAAGTATAA
1 TATAAGTATATATAATATAAAGTATAA
74763 TTATAAAGCC
Statistics
Matches: 244, Mismatches: 25, Indels: 85
0.69 0.07 0.24
Matches are distributed among these distances:
23 2 0.01
24 6 0.02
25 18 0.07
26 39 0.16
27 38 0.16
28 30 0.12
29 33 0.14
30 27 0.11
31 11 0.05
32 20 0.08
33 10 0.04
34 10 0.04
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.38
Consensus pattern (29 bp):
TATAAGTATATATAATATAAAGTATAAAC
Found at i:74579 original size:60 final size:64
Alignment explanation
Indices: 74485--74608 Score: 175
Period size: 60 Copynumber: 2.0 Consensus size: 64
74475 ATAAAAACTA
* * * *
74485 TAAGATATATATAATTTAAAGTATAAAGTATATATATATATATAAAGTATAAGTATAT-TATAAG
1 TAAGATATATATAATATAAAATATAAAG-ATATATATACATATAAAGTATAAGCATATATATAAG
74549 TAAG-TATATAT-ATATAAAATATAAAG-TATATATACATATAAAGTATAAGCATATATATAA
1 TAAGATATATATAATATAAAATATAAAGATATATATACATATAAAGTATAAGCATATATATAA
74609 AGTTTTAGTA
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
60 26 0.47
61 5 0.09
62 13 0.24
63 7 0.13
64 4 0.07
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.37
Consensus pattern (64 bp):
TAAGATATATATAATATAAAATATAAAGATATATATACATATAAAGTATAAGCATATATATAAG
Found at i:74694 original size:81 final size:79
Alignment explanation
Indices: 74422--74770 Score: 272
Period size: 81 Copynumber: 4.3 Consensus size: 79
74412 ATAAAAAGAG
* ** * * *
74422 TATAAGTAT-AAGTATATATATAAAGTGTAAACTATAAAGTATATATAATATATATAAAAACTAT
1 TATAAATATAAAGTATATATATAAAGT-TTTAGTATAAAGTATATAT-ACATATATAATAA-TAT
74486 -AAG-ATATA-TATA-A
63 AAAGTATATAGTATATA
* * **
74499 TTTAAAGTATAAAGTATATATATATA-TATAAAGTAT-AAGTATATTATA-AGTA-AGTATATAT
1 TATAAA-TATAAAGTATATATATAAAGT-TTTAGTATAAAGTATA-TATACA-TATA-TA-ATA-
* *
74560 ATATAAAATATAAAGTATATA
59 ATATAAAGTATATAGTATATA
* * * **
74581 TACATATAA-AGTATAAGCATATATATAAAGTTTTAGTATAAAGTGTCTATAGGTATATAATAAT
1 T--ATA-AATA-TA-AAGTATATATATAAAGTTTTAGTATAAAGTATATATACATATATAATAAT
74645 ATAAAGTATATATGTATATA
61 ATAAAGTATATA-GTATATA
74665 TATAAACTATAAAGTATATATATAAAGTTTTAGTATAAAGTATATATACATATATAATAATATAA
1 TATAAA-TATAAAGTATATATATAAAGTTTTAGTATAAAGTATATATACATATATAATAATATAA
74730 AGTATA-AGTATATTA
65 AGTATATAGTATA-TA
* *
74745 TATATATAAAAAGTATA-ATTATAAAG
1 TATAAATATAAAGTATATA-TATAAAG
74771 CCTAAAGTAT
Statistics
Matches: 222, Mismatches: 25, Indels: 48
0.75 0.08 0.16
Matches are distributed among these distances:
76 2 0.01
77 16 0.07
78 20 0.09
79 39 0.18
80 12 0.05
81 61 0.27
82 7 0.03
83 14 0.06
84 15 0.07
85 29 0.13
86 7 0.03
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.38
Consensus pattern (79 bp):
TATAAATATAAAGTATATATATAAAGTTTTAGTATAAAGTATATATACATATATAATAATATAAA
GTATATAGTATATA
Found at i:74740 original size:40 final size:39
Alignment explanation
Indices: 74503--74741 Score: 132
Period size: 40 Copynumber: 6.2 Consensus size: 39
74493 ATATAATTTA
74503 AAGTATAAAGTATATATA-TATAT-ATAA-AGTATAAGTAT
1 AAGTATAAAGTATATATACTATATAATAATA-TA-AAGTAT
*
74541 -ATTAT-AAGTAAGTATATA-TATATAA-AATATAAAGTAT
1 AAGTATAAAGT-A-TATATACTATATAATAATATAAAGTAT
* * *
74578 -A-TATACA-TATA-A-AGTATA-AGCATATATATAAAGTTT
1 AAGTATAAAGTATATATACTATATA--ATA-ATATAAAGTAT
* * * *
74614 TAGTATAAAGTGTCTATAGGTATATAATAATATAAAGTAT
1 AAGTATAAAGTATATATA-CTATATAATAATATAAAGTAT
* * *
74654 ATATGTAT--A-TATATAAACTATAAAGTATATATATAAAGTTT
1 A-A-GTATAAAGTATATATACTATATA--ATA-ATATAAAGTAT
*
74695 TAGTATAAAGTATATATACATATATAATAATATAAAGTAT
1 AAGTATAAAGTATATATAC-TATATAATAATATAAAGTAT
74735 AAGTATA
1 AAGTATA
74742 TTATATATAT
Statistics
Matches: 156, Mismatches: 19, Indels: 50
0.69 0.08 0.22
Matches are distributed among these distances:
32 2 0.01
33 5 0.03
34 3 0.02
35 2 0.01
36 18 0.12
37 14 0.09
38 25 0.16
39 13 0.08
40 32 0.21
41 19 0.12
42 17 0.11
43 6 0.04
ACGTcount: A:0.51, C:0.02, G:0.10, T:0.38
Consensus pattern (39 bp):
AAGTATAAAGTATATATACTATATAATAATATAAAGTAT
Found at i:74768 original size:32 final size:33
Alignment explanation
Indices: 74679--74768 Score: 94
Period size: 32 Copynumber: 2.7 Consensus size: 33
74669 AACTATAAAG
* * *
74679 TATATATATAAAGTTTTAGTATAAAGTATATATA
1 TATATATAAAAAGTATAAGTAT-AAGTATATATA
* *
74713 CATATATAATAA-TATAAAGTATAAGTATAT-TA
1 TATATATAAAAAGTAT-AAGTATAAGTATATATA
*
74745 TATATATAAAAAGTATAATTATAA
1 TATATATAAAAAGTATAAGTATAA
74769 AGCCTAAAGT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
32 19 0.41
33 13 0.28
34 14 0.30
ACGTcount: A:0.52, C:0.01, G:0.07, T:0.40
Consensus pattern (33 bp):
TATATATAAAAAGTATAAGTATAAGTATATATA
Found at i:75208 original size:65 final size:64
Alignment explanation
Indices: 75082--75234 Score: 200
Period size: 65 Copynumber: 2.4 Consensus size: 64
75072 CCCTAACTCA
* * * *
75082 AATGCATTTTGTGTACCGATGCACAACCATGCATCGATGCACTCATGATTTTATTGAAACATCG
1 AATGCATTTTATGTACCGATGCACAACCATGCATCGATACACTCATGATCTTATTAAAACATCG
* *
75146 AATGCATTTTATGTACCGATGCACATACCATGCATCGATACACTCCTGGCTCTT-TTAAAACATC
1 AATGCATTTTATGTACCGATGCACA-ACCATGCATCGATACACTCAT-GATCTTATTAAAACATC
75210 G
64 G
* * *
75211 AATGTAATTAATGTACCGATGCAC
1 AATGCATTTTATGTACCGATGCAC
75235 CCCAAGTGTA
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
64 24 0.31
65 50 0.64
66 4 0.05
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.31
Consensus pattern (64 bp):
AATGCATTTTATGTACCGATGCACAACCATGCATCGATACACTCATGATCTTATTAAAACATCG
Found at i:77948 original size:45 final size:46
Alignment explanation
Indices: 77862--77950 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 46
77852 GAAAAAGCCA
* *
77862 GAGTGCATCGATGCATGGTCTTGTGCATCGATGCATCAAATGCACT
1 GAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCACT
77908 GAGTGCATCGATGCATGGT-ATGTGCATCGATGCATAAAATGCA
1 GAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
77951 TTCGATGTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
45 22 0.54
46 19 0.46
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (46 bp):
GAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCACT
Found at i:77995 original size:20 final size:20
Alignment explanation
Indices: 77970--78007 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
77960 TGAAAAATTA
77970 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
77990 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
78008 CACTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:93197 original size:12 final size:13
Alignment explanation
Indices: 93171--93204 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
93161 AGGGGGAGTA
93171 ATTTCAAAAATTG
1 ATTTCAAAAATTG
93184 ATTTCAAAAA-TG
1 ATTTCAAAAATTG
93196 ATTTTCAAA
1 A-TTTCAAA
93205 GAAAATCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 3 0.15
13 17 0.85
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (13 bp):
ATTTCAAAAATTG
Found at i:93673 original size:65 final size:64
Alignment explanation
Indices: 93548--93703 Score: 215
Period size: 65 Copynumber: 2.4 Consensus size: 64
93538 ACACCCTAAT
* * *
93548 TCGAATGCATTTTGTGTACCGATGCACAACCATGCATCGATGCACTCCTGATTTTATTGAAACA
1 TCGAATGCATTTTATGTACCGATGCACAACCATGCATCGATACACTCCTGATCTTATTGAAACA
* *
93612 TCGAATGCATTTTATGTACTGATGCACAGACCATGCATCGATACACTCCTGGCTCTT-TTGAAAC
1 TCGAATGCATTTTATGTACCGATGCACA-ACCATGCATCGATACACTCCT-GATCTTATTGAAAC
93676 A
64 A
* * *
93677 TCGAATGTAATTAATGTACCGATGCAC
1 TCGAATGCATTTTATGTACCGATGCAC
93704 CCCAAGTGTA
Statistics
Matches: 81, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
64 26 0.32
65 51 0.63
66 4 0.05
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (64 bp):
TCGAATGCATTTTATGTACCGATGCACAACCATGCATCGATACACTCCTGATCTTATTGAAACA
Found at i:94992 original size:22 final size:21
Alignment explanation
Indices: 94947--95040 Score: 68
Period size: 21 Copynumber: 4.4 Consensus size: 21
94937 TAAACATGTT
94947 TATATATACACTTATACTTTA
1 TATATATACACTTATACTTTA
* * *
94968 TATATATATACTTTGTAGTTTA
1 TATATATACAC-TTATACTTTA
*
94990 TATATATAC-TTATATACTTTA
1 TATATATACACT-TATACTTTA
* *
95011 GTCTTTATA-A-TTATACTTTTGA
1 -TATATATACACTTATAC-TTT-A
95033 TATATATA
1 TATATATA
95041 ATATACTTAT
Statistics
Matches: 56, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
20 6 0.11
21 27 0.48
22 23 0.41
ACGTcount: A:0.35, C:0.09, G:0.04, T:0.52
Consensus pattern (21 bp):
TATATATACACTTATACTTTA
Found at i:95005 original size:8 final size:8
Alignment explanation
Indices: 94992--95198 Score: 101
Period size: 8 Copynumber: 27.1 Consensus size: 8
94982 GTAGTTTATA
94992 TATATACT
1 TATATACT
95000 TATATACT
1 TATATACT
95008 T-TAGT-CT
1 TATA-TACT
*
95015 T-TATAAT
1 TATATACT
*
95022 TATACT-TT
1 TATA-TACT
95030 TGATATA-T
1 T-ATATACT
95038 ATAATATACT
1 -TA-TATACT
95048 TATAT--T
1 TATATACT
95054 TA-ATACT
1 TATATACT
95061 TATATACT
1 TATATACT
*
95069 T-TAT-TT
1 TATATACT
95075 TATATACT
1 TATATACT
95083 TATATACT
1 TATATACT
*
95091 TTTATACT
1 TATATACT
*
95099 T-TATAGTT
1 TATATA-CT
95107 TATATA-T
1 TATATACT
95114 ATATATA-T
1 -TATATACT
95122 ATATATACT
1 -TATATACT
*
95131 TATAT-TT
1 TATATACT
* *
95138 TACAT-GT
1 TATATACT
95145 ATATATACT
1 -TATATACT
*
95154 T-TAT-TT
1 TATATACT
95160 TATATACT
1 TATATACT
*
95168 TATATACA
1 TATATACT
95176 T-TATA-T
1 TATATACT
*
95182 TATATGCT
1 TATATACT
95190 TATATACT
1 TATATACT
95198 T
1 T
95199 CAGTCTTTAT
Statistics
Matches: 158, Mismatches: 17, Indels: 48
0.71 0.08 0.22
Matches are distributed among these distances:
5 2 0.01
6 9 0.06
7 42 0.27
8 87 0.55
9 17 0.11
10 1 0.01
ACGTcount: A:0.35, C:0.08, G:0.02, T:0.54
Consensus pattern (8 bp):
TATATACT
Found at i:95081 original size:22 final size:22
Alignment explanation
Indices: 94959--95198 Score: 143
Period size: 22 Copynumber: 11.3 Consensus size: 22
94949 TATATACACT
*
94959 TATACTTTATATATATATACTT-
1 TATACTTTAT-TTTATATACTTA
* * *
94981 TGTAGTTTA-TATATATACTTA
1 TATACTTTATTTTATATACTTA
95002 TATACTTTAGTCTTTATA-A--T-
1 TATACTTTA-T-TTTATATACTTA
** *
95022 TATACTTT-TGATATATA-TAA
1 TATACTTTATTTTATATACTTA
95042 TATAC-TTATATTTA-ATACTTA
1 TATACTTTAT-TTTATATACTTA
95063 TATACTTTATTTTATATACTTA
1 TATACTTTATTTTATATACTTA
* *
95085 TATACTTTTATACTT-TATAGTT-
1 TATAC-TTTAT-TTTATATACTTA
* *
95107 TATA-TATA-TATATATA--TA
1 TATACTTTATTTTATATACTTA
* ***
95125 TATACTTATATTTTACATGTATA
1 TATACTT-TATTTTATATACTTA
95148 TATACTTTATTTTATATACTTA
1 TATACTTTATTTTATATACTTA
* * *
95170 TATACATTATATTATATGCTTA
1 TATACTTTATTTTATATACTTA
95192 TATACTT
1 TATACTT
95199 CAGTCTTTAT
Statistics
Matches: 169, Mismatches: 28, Indels: 42
0.71 0.12 0.18
Matches are distributed among these distances:
17 5 0.03
18 7 0.04
19 7 0.04
20 33 0.20
21 26 0.15
22 63 0.37
23 21 0.12
24 7 0.04
ACGTcount: A:0.35, C:0.08, G:0.03, T:0.54
Consensus pattern (22 bp):
TATACTTTATTTTATATACTTA
Found at i:95112 original size:107 final size:107
Alignment explanation
Indices: 95016--95223 Score: 264
Period size: 107 Copynumber: 1.9 Consensus size: 107
95006 CTTTAGTCTT
* * *
95016 TATAATTATACTTTTGATATATATAATATAC-TTATATTTA-ATACTTATATACTTTATTTTATA
1 TATAATTATA-TTTT-ACATATAT-ATATACTTTAT-TTTATATACTTATATACATTATATTATA
95079 TACTTATATACTTTTATACTTTATAGTTTATATATATATATATATA
62 TACTTATATACTTTTATACTTTATAGTTTATATATATATATATATA
* * *
95125 TATACTTATATTTTACATGTATATATACTTTATTTTATATACTTATATACATTATATTATATGCT
1 TATAATTATATTTTACATATATATATACTTTATTTTATATACTTATATACATTATATTATATACT
* *
95190 TATATAC-TTCAGT-CTTTATA-ATTATATATATATA
66 TATATACTTTTA-TACTTTATAGTTTATATATATATA
95224 AAGTATAATT
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
105 13 0.15
106 20 0.23
107 42 0.48
108 4 0.05
109 9 0.10
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.53
Consensus pattern (107 bp):
TATAATTATATTTTACATATATATATACTTTATTTTATATACTTATATACATTATATTATATACT
TATATACTTTTATACTTTATAGTTTATATATATATATATATA
Found at i:95171 original size:85 final size:83
Alignment explanation
Indices: 94992--95308 Score: 249
Period size: 95 Copynumber: 3.6 Consensus size: 83
94982 GTAGTTTATA
*
94992 TATATACTTATATACTTTAGTCTTTATAATTATACTTTTGATATATATAATATACTTATATTTAA
1 TATATACTTATATACTTTAGTCTTTATAATTATACTTATGATATATATAATATACTTATATTTAA
95057 TACTTATATACTTTATTT
66 TACTTATATACTTTATTT
*
95075 TATATACTTATATACTTTTA-TACTTTATAGTT-TA-TATAT-ATATATATATATATACTTATAT
1 TATATACTTATATAC-TTTAGT-CTTTATAATTATACT-TATGATATATATA-ATATACTTATA-
*
95136 TTTACAT-GTATATATACTTTATTT
61 TTTA-ATACT-TATATACTTTATTT
* * *
95160 TATATACTTATATACATTATATTATATGCTTATATACTTCAGT-CTTTATAAT-TATATATATAT
1 TATATACTTATATAC----T-TTA-GT-CTT-TATAATT-A-TAC-TTATGATATATATA-ATAT
** *
95223 AAAGTATAATTATAA-A-TATATATGCTTTATTT
54 -ACTTAT-ATT-TAATACT-TATATACTTTATTT
*
95255 TATATACTTATATACTTTAGTCTTTATAATAATACTTTAT-ATATATATATATAT
1 TATATACTTATATACTTTAGTCTTTATAATTATAC-TTATGATATATATA-ATAT
95309 TCGGGTGGTG
Statistics
Matches: 196, Mismatches: 12, Indels: 49
0.76 0.05 0.19
Matches are distributed among these distances:
82 10 0.05
83 31 0.16
84 18 0.09
85 34 0.17
86 18 0.09
87 5 0.03
88 4 0.02
89 4 0.02
90 3 0.02
91 5 0.03
92 6 0.03
95 45 0.23
96 10 0.05
97 3 0.02
ACGTcount: A:0.37, C:0.08, G:0.03, T:0.53
Consensus pattern (83 bp):
TATATACTTATATACTTTAGTCTTTATAATTATACTTATGATATATATAATATACTTATATTTAA
TACTTATATACTTTATTT
Found at i:96876 original size:2 final size:2
Alignment explanation
Indices: 96869--97559 Score: 226
Period size: 2 Copynumber: 342.5 Consensus size: 2
96859 CGTCATGACA
* * * * *
96869 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AC ACT TT AT AGT TT TT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT
* * * * * *
96913 AT AT AT AT ACT -T TT ACT TT AT AGT TT AT AT AC GT AC AT AT AT
1 AT AT AT AT A-T AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT AT
* *
96955 AT AT AT AT AT ACT -T TT AT AT -T TT AT AT -T AT AT ACT -T AT AT
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
* *
96995 ACT AT AT -T AT AT -T TT AT AT -T AT AT AT AT AT A- AT TT AT AGT
1 A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
* * * * *
97035 TT AT AT AT AT ACT -T AT AT ACT TT AT AT TT AA ACT AT AT AA ACT
1 AT AT AT AT AT A-T AT AT AT A-T AT AT AT AT AT A-T AT AT AT A-T
* * * * *
97078 AT AT A- AT TT AT AC AT AGT -T TT AT A- AT TT AT A- AT -T AT AC
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
*
97116 AT AT -T AT AT AT AT AT AT AT AT AT AT AT -T AA AT AT A- AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
97154 CAT AT AT AGT TT AT AT AT AA ACT AT AT AGT TT AT AT AT AGT -T CA-
1 -AT AT AT A-T AT AT AT AT AT A-T AT AT A-T AT AT AT AT A-T AT -AT
* * * * * *
97198 AT AG AT CAT AT AT AA ACT CT AT AGT TT AT AC AT GGT AT AT AT AGT
1 AT AT AT -AT AT AT AT A-T AT AT A-T AT AT AT AT -AT AT AT AT A-T
* * * *
97243 TT AT AC AT A- AT AT AT AT AT AT AGT TT AT AT AT AT TT AT -T A-
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
* * * *
97283 AT A- AT AT AA AT AT AA ACT AT AT AGT TT AT AT AT AA AT -T AT AT
1 AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT AT
* * *
97325 AT A- ACT AT AT AGT TT AT AT AT AT AT AT AT AT TT AT AT AT GAC
1 AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT -AT
* * * * *
97367 AT AT A- AT AT AA AT AT AC A- AT AT AGT TT AT TT AT AGT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT A-T AT AT AT
* * * * *
97409 -T A- AT AA ACT AT AT AGT TT AT AC AT A- AT AT AT AGT TT TT AT
1 AT AT AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT
* * * *
97449 AT AT AT AT AT ACT TT AA AT AT A- ACT AT AT AGT TT AT AC AT A-
1 AT AT AT AT AT A-T AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT
* *
97490 AT AG AT AT AGT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
97533 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 A
97560 ATTGTTTCAA
Statistics
Matches: 503, Mismatches: 112, Indels: 148
0.66 0.15 0.19
Matches are distributed among these distances:
1 34 0.07
2 430 0.85
3 39 0.08
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:96979 original size:7 final size:7
Alignment explanation
Indices: 96962--97063 Score: 55
Period size: 7 Copynumber: 14.0 Consensus size: 7
96952 TATATATATA
96962 TATACTTT
1 TATA-TTT
96970 TATATTT
1 TATATTT
*
96977 TATATTA
1 TATATTT
96984 TATACTTAT
1 TATA-TT-T
*
96993 ATACTATAT
1 -TA-TATTT
97002 TATATTT
1 TATATTT
*
97009 TATATTA
1 TATATTT
*
97016 TATA-TA
1 TATATTT
*
97022 TATAATT
1 TATATTT
*
97029 TATAGTT
1 TATATTT
*
97036 TATA-TA
1 TATATTT
*
97042 TATACTTA
1 TATA-TTT
*
97050 TATACTT
1 TATATTT
97057 TATATTT
1 TATATTT
97064 AAACTATATA
Statistics
Matches: 76, Mismatches: 11, Indels: 15
0.75 0.11 0.15
Matches are distributed among these distances:
6 11 0.14
7 45 0.59
8 14 0.18
9 1 0.01
10 3 0.04
11 2 0.03
ACGTcount: A:0.36, C:0.05, G:0.01, T:0.58
Consensus pattern (7 bp):
TATATTT
Found at i:96985 original size:44 final size:41
Alignment explanation
Indices: 96950--97082 Score: 134
Period size: 41 Copynumber: 3.3 Consensus size: 41
96940 TATACGTACA
96950 TATATA-TATATATATACTTTTATATTTTATATTATATACT
1 TATATACTATATATATACTTTTATATTTTATATTATATACT
* *
96990 TATATACTATAT-TATA-TTTTATATTATATA-TATATAAT
1 TATATACTATATATATACTTTTATATTTTATATTATATACT
* * * *
97028 T-TATAGTTTATATATATACTTATATACTTTATATT-TAAACT
1 TATATA--CTATATATATACTTTTATATTTTATATTATATACT
*
97069 ATATAAACTATATA
1 -TATATACTATATA
97083 ATTTATACAT
Statistics
Matches: 75, Mismatches: 10, Indels: 15
0.75 0.10 0.15
Matches are distributed among these distances:
37 4 0.05
38 8 0.11
39 18 0.24
40 14 0.19
41 26 0.35
42 2 0.03
43 3 0.04
ACGTcount: A:0.41, C:0.05, G:0.01, T:0.53
Consensus pattern (41 bp):
TATATACTATATATATACTTTTATATTTTATATTATATACT
Found at i:97019 original size:66 final size:66
Alignment explanation
Indices: 96872--97150 Score: 204
Period size: 63 Copynumber: 4.4 Consensus size: 66
96862 CATGACAATA
*
96872 TATATATATATATATATATATATACACACTTTATAGTTTT-TATATATATACTT-T-TACTTTAT
1 TATATATATATATATATATATATATAC-CTTTATA-TTTTATAT-TATATACTTATATACTTTAT
96934 AGTT
63 AGTT
* *
96938 TATATACGTACATATATATATATATATACTTTTATATTTTATATTATATACTTATATAC--TATA
1 TATATA--TATATATATATATATATATACCTTTATATTTTATATTATATACTTATATACTTTATA
97001 --T
64 GTT
* * *
97002 TATAT-TTTATAT-TATATATATATA-ATTTATAGTTTATA-TATATACTTATATACTTTATA-T
1 TATATATATATATATATATATATATACCTTTATATTTTATATTATATACTTATATACTTTATAGT
97062 T
66 T
* * * * *
97063 TAAACTATATAAACTATATA-ATTTATA-C---ATAGTTTTATAATT-TATAATTATACA-TATT
1 TATA-TATATATA-TATATATATATATACCTTTATA-TTTTAT-ATTATATACTTATATACT-TT
*
97121 ATA-TA
61 ATAGTT
*
97126 TATATATATATATATAT-TAAATATA
1 TATATATATATATATATATATATATA
97151 ATTCATATAT
Statistics
Matches: 176, Mismatches: 20, Indels: 39
0.75 0.09 0.17
Matches are distributed among these distances:
58 15 0.09
59 12 0.07
60 16 0.09
61 22 0.12
62 14 0.08
63 24 0.14
64 14 0.08
65 4 0.02
66 23 0.13
67 10 0.06
68 22 0.12
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.52
Consensus pattern (66 bp):
TATATATATATATATATATATATATACCTTTATATTTTATATTATATACTTATATACTTTATAGT
T
Found at i:98532 original size:3 final size:3
Alignment explanation
Indices: 98524--98550 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
98514 TTCAAAAAAG
98524 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
98551 GCCAAGACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:106465 original size:39 final size:39
Alignment explanation
Indices: 106411--106485 Score: 150
Period size: 39 Copynumber: 1.9 Consensus size: 39
106401 CAAGTGGGAG
106411 ATTGTTGAAAAGTCAGCCAACAAGTTGGCCACTTTCGGT
1 ATTGTTGAAAAGTCAGCCAACAAGTTGGCCACTTTCGGT
106450 ATTGTTGAAAAGTCAGCCAACAAGTTGGCCACTTTC
1 ATTGTTGAAAAGTCAGCCAACAAGTTGGCCACTTTC
106486 AGTGACATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.28
Consensus pattern (39 bp):
ATTGTTGAAAAGTCAGCCAACAAGTTGGCCACTTTCGGT
Found at i:108186 original size:14 final size:14
Alignment explanation
Indices: 108167--108196 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
108157 TATAATTATC
*
108167 AATAATGTATTTTT
1 AATAATGTAATTTT
108181 AATAATGTAATTTT
1 AATAATGTAATTTT
108195 AA
1 AA
108197 AAAATCTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
AATAATGTAATTTT
Found at i:109548 original size:24 final size:23
Alignment explanation
Indices: 109521--109578 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
109511 ATATATAAGT
*
109521 ACATCATCCATGAGTTCATAAAGA
1 ACAT-ATCCATGAGTTCATAAAAA
* *
109545 ACATGTGCATGAGTTCATAAAAA
1 ACATATCCATGAGTTCATAAAAA
*
109568 ACATATGCATG
1 ACATATCCATG
109579 TATATCGTGC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 26 0.87
24 4 0.13
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.26
Consensus pattern (23 bp):
ACATATCCATGAGTTCATAAAAA
Found at i:109555 original size:23 final size:23
Alignment explanation
Indices: 109529--109578 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
109519 GTACATCATC
* *
109529 CATGAGTTCATAAAGAACATGTG
1 CATGAGTTCATAAAAAACATATG
109552 CATGAGTTCATAAAAAACATATG
1 CATGAGTTCATAAAAAACATATG
109575 CATG
1 CATG
109579 TATATCGTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.26
Consensus pattern (23 bp):
CATGAGTTCATAAAAAACATATG
Found at i:110720 original size:14 final size:14
Alignment explanation
Indices: 110701--110728 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
110691 ATTAATTTAA
110701 AAAAACATAAATTC
1 AAAAACATAAATTC
110715 AAAAACATAAATTC
1 AAAAACATAAATTC
110729 TGATTTTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.14, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAAACATAAATTC
Found at i:112557 original size:20 final size:21
Alignment explanation
Indices: 112519--112558 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
112509 AATTGGAACG
*
112519 CGAATGAATCTCGAATTAGAA
1 CGAATGAATCTCAAATTAGAA
112540 CGAATGAAT-TCAAATTAGA
1 CGAATGAATCTCAAATTAGA
112559 TTCGTGGGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.45, C:0.12, G:0.17, T:0.25
Consensus pattern (21 bp):
CGAATGAATCTCAAATTAGAA
Found at i:116917 original size:24 final size:24
Alignment explanation
Indices: 116873--116918 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
116863 TAAGAATAAT
*
116873 TTTATCTTTGTGACACGTTTTTTC
1 TTTATCTTTGTGACACATTTTTTC
* *
116897 TTTATCTTTGTGGCATATTTTT
1 TTTATCTTTGTGACACATTTTT
116919 CATCTTTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.13, C:0.13, G:0.13, T:0.61
Consensus pattern (24 bp):
TTTATCTTTGTGACACATTTTTTC
Found at i:117137 original size:3 final size:3
Alignment explanation
Indices: 117129--117173 Score: 72
Period size: 3 Copynumber: 14.7 Consensus size: 3
117119 TTTTTCAGCA
*
117129 TAT TAT TAT TAT TATT TAT TAT TAT TAC TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
117174 AATAAAAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:118416 original size:23 final size:23
Alignment explanation
Indices: 118390--118460 Score: 87
Period size: 23 Copynumber: 3.3 Consensus size: 23
118380 ACATGTTTAA
118390 ATTATTGCTTTAATTATTATTTT
1 ATTATTGCTTTAATTATTATTTT
* *
118413 ATTATTACTTT-A-TATT-TTAT
1 ATTATTGCTTTAATTATTATTTT
*
118433 -TTATTGCTTTAATTATTATTTA
1 ATTATTGCTTTAATTATTATTTT
118455 ATTATT
1 ATTATT
118461 ATTTTTATCT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
19 9 0.23
20 4 0.10
21 8 0.21
22 3 0.08
23 15 0.38
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.65
Consensus pattern (23 bp):
ATTATTGCTTTAATTATTATTTT
Found at i:118418 original size:11 final size:11
Alignment explanation
Indices: 118402--118465 Score: 53
Period size: 11 Copynumber: 6.0 Consensus size: 11
118392 TATTGCTTTA
118402 ATTATTATTTT
1 ATTATTATTTT
*
118413 ATTATTACTTT
1 ATTATTATTTT
*
118424 A-TATT-TTAT
1 ATTATTATTTT
* *
118433 -TTATTGCTTTA
1 ATTATT-ATTTT
*
118444 ATTATTATTTA
1 ATTATTATTTT
118455 ATTATTATTTT
1 ATTATTATTTT
118466 TATCTTAGTC
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
9 6 0.14
10 4 0.10
11 27 0.64
12 5 0.12
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (11 bp):
ATTATTATTTT
Found at i:118436 original size:19 final size:19
Alignment explanation
Indices: 118407--118454 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
118397 CTTTAATTAT
118407 TATTTTA-TTATTACTTTA
1 TATTTTATTTATTACTTTA
*
118425 TATTTTATTTATTGCTTTA
1 TATTTTATTTATTACTTTA
118444 -ATTATTATTTA
1 TATT-TTATTTA
118455 ATTATTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 10 0.37
19 17 0.63
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (19 bp):
TATTTTATTTATTACTTTA
Found at i:118546 original size:2 final size:2
Alignment explanation
Indices: 118477--118529 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
118467 ATCTTAGTCT
118477 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
118519 TA TA TA TA TA T
1 TA TA TA TA TA T
118530 TTGTTTAAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:118546 original size:21 final size:21
Alignment explanation
Indices: 118520--118561 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
118510 ATATATATAT
118520 ATATATATATTTGTTTAAATA
1 ATATATATATTTGTTTAAATA
* * *
118541 ATATATTTATTTTTTTTAATA
1 ATATATATATTTGTTTAAATA
118562 TCAAAGAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
ATATATATATTTGTTTAAATA
Found at i:119503 original size:24 final size:24
Alignment explanation
Indices: 119450--119504 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
119440 TATAATTCTT
*
119450 TTCTTT-TAAATTTTTTATACTTA
1 TTCTTTATAAATTTTATATACTTA
* *
119473 TTATTTATAATATTTTATATA-TTC
1 TTCTTTATAA-ATTTTATATACTTA
119497 TTCTTTAT
1 TTCTTTAT
119505 GATTGTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 5 0.19
24 12 0.46
25 9 0.35
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.65
Consensus pattern (24 bp):
TTCTTTATAAATTTTATATACTTA
Done.